BLASTP 2.2.22 [Sep-27-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Reference for composition-based statistics starting in round 2: Schaffer, Alejandro A., L. Aravind, Thomas L. Madden, Sergei Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements", Nucleic Acids Res. 29:2994-3005. Query= gi|254780406|ref|YP_003064819.1| putative ribosomal large subunit pseudouridine synthase B [Candidatus Liberibacter asiaticus str. psy62] (354 letters) Database: nr 14,124,377 sequences; 4,842,793,630 total letters Searching..................................................done Results from round 1 >gi|254780406|ref|YP_003064819.1| putative ribosomal large subunit pseudouridine synthase B [Candidatus Liberibacter asiaticus str. psy62] gi|254040083|gb|ACT56879.1| putative ribosomal large subunit pseudouridine synthase B [Candidatus Liberibacter asiaticus str. psy62] Length = 354 Score = 724 bits (1869), Expect = 0.0, Method: Compositional matrix adjust. Identities = 354/354 (100%), Positives = 354/354 (100%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI Sbjct: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG Sbjct: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD Sbjct: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI Sbjct: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK Sbjct: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK Sbjct: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 >gi|315122182|ref|YP_004062671.1| putative ribosomal large subunit pseudouridine synthase B [Candidatus Liberibacter solanacearum CLso-ZC1] gi|313495584|gb|ADR52183.1| putative ribosomal large subunit pseudouridine synthase B [Candidatus Liberibacter solanacearum CLso-ZC1] Length = 393 Score = 498 bits (1281), Expect = e-139, Method: Compositional matrix adjust. Identities = 248/361 (68%), Positives = 295/361 (81%), Gaps = 15/361 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +KD IV E+ P+RVSKVIARAGIASRREVERMI Q+RVKVNG+ LERAAVNV+STD I Sbjct: 8 LKDGQIVPEDLMPERVSKVIARAGIASRREVERMITQKRVKVNGVCLERAAVNVISTDCI 67 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 EVD VPLRKAERTRLWLYHKP+GLVTTHSDP GRSTVFDN+PSI SRV+SVGRLDINTEG Sbjct: 68 EVDDVPLRKAERTRLWLYHKPVGLVTTHSDPTGRSTVFDNVPSIVSRVVSVGRLDINTEG 127 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLLLTNDGGLAR+LELPSTQWLRVYRVR +GQ+DQ+KL+LLK+GIVI+GI Y MQVT+D Sbjct: 128 LLLLTNDGGLARILELPSTQWLRVYRVRAYGQIDQEKLDLLKEGIVIKGIHYRGMQVTID 187 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +QKG+N W+TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG LL G TREV+KK+ Sbjct: 188 SQKGANVWLTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGELLEGDTREVAKKV 247 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 LREQLG +LL+EA+VNL+ +YSSET +RD + + DD ++ K S+ +G +K+K Sbjct: 248 LREQLGANLLKEARVNLEGLVYSSETPIRDHSKMKVK-SDDISKTKNKKSKVHGFNKKKH 306 Query: 301 LATPVHRRNLASNVWMAKGIHSSF------------LSDSG--QREENHRRSPSFPSKRS 346 + P+ RRN +SNVWMA+GIHSS + D+G +R+ +H+R+ K Sbjct: 307 VDFPIQRRNRSSNVWMAQGIHSSLPYEKQGEKDYQSMHDTGFKKRKYSHKRNKKLHKKSP 366 Query: 347 L 347 L Sbjct: 367 L 367 >gi|307320038|ref|ZP_07599459.1| RNA-binding S4 domain protein [Sinorhizobium meliloti AK83] gi|306894253|gb|EFN25018.1| RNA-binding S4 domain protein [Sinorhizobium meliloti AK83] Length = 573 Score = 357 bits (915), Expect = 2e-96, Method: Compositional matrix adjust. Identities = 189/370 (51%), Positives = 241/370 (65%), Gaps = 28/370 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 PQR+SK+++RAG+ASRR+VERMI + RV +NG++L+ VN D IEVDG P+R ER Sbjct: 46 PQRISKILSRAGVASRRDVERMIMEGRVSLNGVVLDTPVVNATLADRIEVDGHPIRGIER 105 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TRLWLYHKP GLVTT++DP+GR TVF+NLP RV+SVGRLDINTEGLLLLTNDGGLAR Sbjct: 106 TRLWLYHKPGGLVTTNADPEGRPTVFENLPEELPRVLSVGRLDINTEGLLLLTNDGGLAR 165 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 VLELPST WLR YRVR HG++DQ+ L+ LK+GI + G+ YG ++ TLD +GSN W+T+G Sbjct: 166 VLELPSTGWLRRYRVRAHGEIDQEALDRLKEGIAVDGVLYGAIEATLDRVQGSNVWITMG 225 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 LREGKNREIK V VNRLIRISYGPFQLG L G +E+ + LREQLGP L+ + Sbjct: 226 LREGKNREIKNVLGALGLDVNRLIRISYGPFQLGELPIGQVQEIRGRTLREQLGPRLIAD 285 Query: 253 AQVNLDAPIYSSETLV---------RDRPNIIS--EVPDDF---------TRMKKNSSQK 292 ++ N DAPIY+ + D+ S E +D TR + Sbjct: 286 SKANFDAPIYNDQPAAAEPEAEPADHDKAEWGSKREKAEDKRERALARLDTRRDDGRPSE 345 Query: 293 NGLSKQK---KLATPVHRRNLASNVWMAKGIHSSFLSDSGQREEN-----HRRSPSFPSK 344 G S+ K + A P RRN +SNVWMA G + E++ RR+P+ + Sbjct: 346 RGRSRGKPEERPARPPVRRNRSSNVWMAPGARPTVEKKPKAAEDDLSPKGARRAPAEGKR 405 Query: 345 RSLRRTSAKK 354 R + +A K Sbjct: 406 RDRPKDAAAK 415 >gi|116250666|ref|YP_766504.1| ribosomal large subunit pseudouridine synthase B [Rhizobium leguminosarum bv. viciae 3841] gi|115255314|emb|CAK06389.1| putative ribosomal large subunit pseudouridine synthase B [Rhizobium leguminosarum bv. viciae 3841] Length = 701 Score = 356 bits (914), Expect = 2e-96, Method: Compositional matrix adjust. Identities = 166/250 (66%), Positives = 197/250 (78%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+SKV+ARAG+ASRR++ERMI + RV +NG +LE VNV D IEVDGVP+R ERT Sbjct: 52 ERISKVMARAGVASRRDIERMIMEGRVTLNGRVLETPVVNVTLADRIEVDGVPIRGIERT 111 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLYHKP GLVTT++DP+GRSTVFDNLP RV+S+GRLDINTEGLLLLTNDGGLAR Sbjct: 112 RLWLYHKPAGLVTTNADPEGRSTVFDNLPEELPRVMSIGRLDINTEGLLLLTNDGGLARA 171 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T WLR YRVR HG++DQD L+ LK GI + G+ YG ++ TLD +GSN W+T+GL Sbjct: 172 LELPATGWLRRYRVRAHGEIDQDALDKLKDGIAVDGVLYGSIEATLDRTQGSNVWITMGL 231 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNREIK V VNRLIRISYGPFQLG L G EV + LR+QLGP L+EEA Sbjct: 232 REGKNREIKNVLGALGLDVNRLIRISYGPFQLGDLPEGHVVEVRGRTLRDQLGPRLIEEA 291 Query: 254 QVNLDAPIYS 263 + N DAPIY+ Sbjct: 292 KANFDAPIYN 301 >gi|150395641|ref|YP_001326108.1| pseudouridine synthase [Sinorhizobium medicae WSM419] gi|150027156|gb|ABR59273.1| pseudouridine synthase [Sinorhizobium medicae WSM419] Length = 576 Score = 356 bits (914), Expect = 3e-96, Method: Compositional matrix adjust. Identities = 175/336 (52%), Positives = 226/336 (67%), Gaps = 24/336 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 PQR+SK+++RAG+ASRR+VERMI + RV +NG++L+ VN D IEVDG P+R ER Sbjct: 47 PQRISKILSRAGVASRRDVERMIMEGRVSLNGLVLDTPVVNATLADRIEVDGHPIRGIER 106 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TRLWLYHKP GLVTT++DP+GR TVF+NLP RV+S+GRLDINTEGLLLLTNDGGLAR Sbjct: 107 TRLWLYHKPGGLVTTNADPEGRPTVFENLPEDLPRVLSIGRLDINTEGLLLLTNDGGLAR 166 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 VLELPST WLR YRVR HG++DQ L+ LK+GI ++G+ YG ++ TLD +GSN W+T+G Sbjct: 167 VLELPSTGWLRRYRVRAHGEIDQAALDRLKEGIAVEGVLYGAIEATLDRVQGSNVWITMG 226 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 LREGKNREIK V VNRLIRISYGPFQLG L G +E+ + LREQLGP L+ + Sbjct: 227 LREGKNREIKNVLGALGLDVNRLIRISYGPFQLGELPIGQVQEIRGRTLREQLGPRLIAD 286 Query: 253 AQVNLDAPIYSSETLVRD------------------------RPNIISEVPDDFTRMKKN 288 A+ N DAPIY+ ++ + R ++ + + N Sbjct: 287 AKANFDAPIYNDQSTAAEPEAEPVADHGKAEWGSKREKAGDKRERALARLDTRRDDGRPN 346 Query: 289 SSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSF 324 ++ +++ A P RRN +SNVWMA G + Sbjct: 347 DRGRSRGKAEERPARPPLRRNRSSNVWMAPGARPTV 382 >gi|15964554|ref|NP_384907.1| hypothetical protein SMc00904 [Sinorhizobium meliloti 1021] gi|307314744|ref|ZP_07594340.1| RNA-binding S4 domain protein [Sinorhizobium meliloti BL225C] gi|15073732|emb|CAC45373.1| Hypothetical protein SMc00904 [Sinorhizobium meliloti 1021] gi|306898968|gb|EFN29614.1| RNA-binding S4 domain protein [Sinorhizobium meliloti BL225C] Length = 573 Score = 356 bits (913), Expect = 3e-96, Method: Compositional matrix adjust. Identities = 187/373 (50%), Positives = 239/373 (64%), Gaps = 34/373 (9%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 PQR+SK+++RAG+ASRR+VERMI + RV +NG++L+ VN D IEVDG P+R ER Sbjct: 46 PQRISKILSRAGVASRRDVERMIMEGRVSLNGVVLDTPVVNATLADRIEVDGHPIRGIER 105 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TRLWLYHKP GLVTT++DP+GR TVF+NLP RV+SVGRLDINTEGLLLLTNDGGLAR Sbjct: 106 TRLWLYHKPGGLVTTNADPEGRPTVFENLPEELPRVLSVGRLDINTEGLLLLTNDGGLAR 165 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 VLELPST WLR YRVR HG++DQ+ L+ LK+GI + G+ YG ++ TLD +GSN W+T+G Sbjct: 166 VLELPSTGWLRRYRVRAHGEIDQEALDRLKEGIAVDGVLYGAIEATLDRVQGSNVWITMG 225 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 LREGKNREIK V VNRLIRISYGPFQLG L G +E+ + LREQLGP L+ + Sbjct: 226 LREGKNREIKNVLGALGLDVNRLIRISYGPFQLGELPIGQVQEIRGRTLREQLGPRLIAD 285 Query: 253 AQVNLDAPIYSS-----------------------ETLVRDRPNIISEVPDDFTRMKKNS 289 ++ N DAPIY+ E R ++ + TR Sbjct: 286 SKANFDAPIYNDQPAAAEPEAEPADHGKAEWGSKREKAEDKRERALARL---DTRRDDGR 342 Query: 290 SQKNGLSKQK---KLATPVHRRNLASNVWMAKGIHSSFLSDSGQREEN-----HRRSPSF 341 + G S+ K + A P RRN +SNVWMA G + E++ RR+P+ Sbjct: 343 PSERGRSRGKPEERPARPPVRRNRSSNVWMAPGARPTVEKKPKAAEDDLSPKGARRAPAE 402 Query: 342 PSKRSLRRTSAKK 354 +R + +A K Sbjct: 403 GKRRDRPKDAAAK 415 >gi|227820997|ref|YP_002824967.1| pseudouridylate synthase, subunit B protein [Sinorhizobium fredii NGR234] gi|227339996|gb|ACP24214.1| pseudouridylate synthase, subunit B protein [Sinorhizobium fredii NGR234] Length = 607 Score = 355 bits (912), Expect = 5e-96, Method: Compositional matrix adjust. Identities = 175/335 (52%), Positives = 224/335 (66%), Gaps = 26/335 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 PQR+SK+++RAG+ASRR++ERMI + RVK+NG++LE VN D IEVDG P+R ER Sbjct: 46 PQRISKILSRAGVASRRDIERMIMEGRVKLNGVVLETPVVNATLADQIEVDGHPIRGIER 105 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TRLWLY+KP GLVTT+SDP+GR TVFDNLP RV+SVGRLDINTEGLLLLTNDGGLAR Sbjct: 106 TRLWLYYKPAGLVTTNSDPEGRPTVFDNLPDELPRVLSVGRLDINTEGLLLLTNDGGLAR 165 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 LELPST WLR YRVR HG++DQ+ L+ LK+GI + G+ YG ++ TLD +GSN W+T+G Sbjct: 166 ALELPSTGWLRRYRVRAHGEIDQEALDRLKEGIAVDGVLYGAIEATLDRVQGSNVWITMG 225 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 LREGKNREIK V VNRLIRISYGPFQLG L G +E+ + LR+QLGP L+ E Sbjct: 226 LREGKNREIKNVLGALGLDVNRLIRISYGPFQLGELPEGHVQEIRGRTLRDQLGPRLIAE 285 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPD-----DFTRMKKNSSQKNGLSK---------- 297 ++ N DAP+Y+ + +R P+ R K ++ L++ Sbjct: 286 SKANFDAPLYNDQPAAPEREAHNEVAPEWGKERSARREKPEDKRERALARLDTQRDDSRS 345 Query: 298 -----------QKKLATPVHRRNLASNVWMAKGIH 321 + + A P +R+ +NVWMA G Sbjct: 346 RDRRERPREKFEDRPARPPAKRSRTANVWMAPGAR 380 >gi|222085015|ref|YP_002543544.1| pseudouridylate synthase [Agrobacterium radiobacter K84] gi|221722463|gb|ACM25619.1| pseudouridylate synthase [Agrobacterium radiobacter K84] Length = 680 Score = 355 bits (910), Expect = 7e-96, Method: Compositional matrix adjust. Identities = 163/251 (64%), Positives = 201/251 (80%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+SKV+ARAG+ASRR++ERMI RV++NG+LL+ VNV D IEVDG+P+R ERT Sbjct: 52 ERISKVMARAGVASRRDIERMIMDGRVRLNGVLLDSPVVNVTLADKIEVDGMPIRGIERT 111 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLYHKP GLVTT++DP+GR TVFDNLP RV+S+GRLDINTEGLLLLTNDGGLARV Sbjct: 112 RLWLYHKPAGLVTTNADPEGRPTVFDNLPEELPRVMSIGRLDINTEGLLLLTNDGGLARV 171 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T WLR YRVR HG++DQD L+ LK+GI + G+ YG ++ TLD +GSN W+T+GL Sbjct: 172 LELPTTGWLRRYRVRAHGEIDQDALDKLKEGIAVDGVLYGSIEATLDRTQGSNVWITMGL 231 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNREIK V +VNRLIRISYGPFQLG L G EV + LR+QLGP L+E+A Sbjct: 232 REGKNREIKNVLGALGLEVNRLIRISYGPFQLGDLPEGRVLEVRGRTLRDQLGPRLVEDA 291 Query: 254 QVNLDAPIYSS 264 + N DAP+Y++ Sbjct: 292 KANFDAPLYNA 302 >gi|15888032|ref|NP_353713.1| ribosomal large subunit pseudouridine synthase B [Agrobacterium tumefaciens str. C58] gi|15155650|gb|AAK86498.1| ribosomal large subunit pseudouridine synthase B [Agrobacterium tumefaciens str. C58] Length = 669 Score = 355 bits (910), Expect = 8e-96, Method: Compositional matrix adjust. Identities = 165/252 (65%), Positives = 199/252 (78%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+SK++ARAG+ASRR+VERMI + RV +NG+LL+ VN +D IEVDG+P+R AER Sbjct: 56 PERISKIMARAGVASRRDVERMIMEGRVSLNGVLLDTPVVNATLSDKIEVDGMPIRGAER 115 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TRLWLYHKP GLVTT+SDP+GR TVFDNLP RV+S+GRLDINTEGLLLLTNDGGL+R Sbjct: 116 TRLWLYHKPAGLVTTNSDPEGRPTVFDNLPGELPRVLSIGRLDINTEGLLLLTNDGGLSR 175 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 VLELP+T WLR YRVR HG+VDQ L+ LK GI + G+ YG + TLD +G N W+T+G Sbjct: 176 VLELPTTGWLRRYRVRAHGEVDQAALDKLKDGIAVDGVLYGAIDATLDRTQGHNVWITMG 235 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 LREGKNREIK V +VNRLIRISYGPFQLG L G EV ++LR+QLGP L+EE Sbjct: 236 LREGKNREIKNVLGALGLEVNRLIRISYGPFQLGDLPEGKVLEVRGRMLRDQLGPRLIEE 295 Query: 253 AQVNLDAPIYSS 264 A N DAPIY++ Sbjct: 296 AGANFDAPIYNT 307 >gi|209548084|ref|YP_002280001.1| RNA-binding S4 domain protein [Rhizobium leguminosarum bv. trifolii WSM2304] gi|209533840|gb|ACI53775.1| RNA-binding S4 domain protein [Rhizobium leguminosarum bv. trifolii WSM2304] Length = 689 Score = 353 bits (906), Expect = 2e-95, Method: Compositional matrix adjust. Identities = 164/250 (65%), Positives = 196/250 (78%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+SKV+ARAG+ASRR++ERMI + RV +NG +L+ VNV D IEVDGVP+R ERT Sbjct: 48 ERISKVMARAGVASRRDIERMIMEGRVTLNGAVLDTPVVNVTLADRIEVDGVPIRGIERT 107 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLYHKP GLVTT++DP+GR+TVFDNLP RV+S+GRLDINTEGLLLLTNDGGLAR Sbjct: 108 RLWLYHKPAGLVTTNADPEGRATVFDNLPEELPRVMSIGRLDINTEGLLLLTNDGGLARA 167 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T WLR YRVR HG +DQD L+ LK GI + G+ YG ++ TLD +GSN W+T+GL Sbjct: 168 LELPATGWLRRYRVRAHGDIDQDALDKLKDGIAVDGVLYGSIEATLDRTQGSNVWITMGL 227 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNREIK V VNRLIRISYGPFQLG L G EV + LR+QLGP L+EEA Sbjct: 228 REGKNREIKNVMGALGLDVNRLIRISYGPFQLGDLPEGHVIEVRGRTLRDQLGPRLIEEA 287 Query: 254 QVNLDAPIYS 263 + N DAPIY+ Sbjct: 288 KANFDAPIYN 297 >gi|241203270|ref|YP_002974366.1| RNA-binding S4 domain protein [Rhizobium leguminosarum bv. trifolii WSM1325] gi|240857160|gb|ACS54827.1| RNA-binding S4 domain protein [Rhizobium leguminosarum bv. trifolii WSM1325] Length = 698 Score = 353 bits (906), Expect = 2e-95, Method: Compositional matrix adjust. Identities = 164/251 (65%), Positives = 197/251 (78%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+SKV+ARAG+ASRR++ERMI + RV +NG +L+ VNV D IEVDGVP+R ERT Sbjct: 52 ERISKVMARAGVASRRDIERMIMEGRVTLNGRVLDTPVVNVTLADRIEVDGVPIRGIERT 111 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLYHKP GLVTT++DP+GRSTVFDNLP RV+S+GRLDINTEGLLLLTNDGGLAR Sbjct: 112 RLWLYHKPTGLVTTNADPEGRSTVFDNLPEELPRVMSIGRLDINTEGLLLLTNDGGLARA 171 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T WLR YRVR HG++DQD L+ LK GI + G+ YG ++ TLD +GSN W+T+GL Sbjct: 172 LELPATGWLRRYRVRAHGEIDQDALDKLKDGIAVDGVLYGSIEATLDRTQGSNVWITMGL 231 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNREIK V VNRLIRISYGPFQLG L EV + LR+QLGP L+EEA Sbjct: 232 REGKNREIKNVLGALGLDVNRLIRISYGPFQLGDLPESHVVEVRGRTLRDQLGPRLIEEA 291 Query: 254 QVNLDAPIYSS 264 + N DAPIY++ Sbjct: 292 KANFDAPIYNT 302 >gi|86356481|ref|YP_468373.1| pseudouridylate synthase, subunit B protein [Rhizobium etli CFN 42] gi|86280583|gb|ABC89646.1| pseudouridylate synthase, subunit B protein [Rhizobium etli CFN 42] Length = 628 Score = 350 bits (898), Expect = 2e-94, Method: Compositional matrix adjust. Identities = 163/250 (65%), Positives = 196/250 (78%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+SKV+ARAG+ASRR++ERMI + RV +NG +L+ VNV D IEVDGVP+R ERT Sbjct: 52 ERISKVMARAGVASRRDIERMIMEGRVTLNGKVLDTPVVNVTLADRIEVDGVPIRGIERT 111 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLYHKP GLVTT++DP+GR TVFDNLP RV+S+GRLDINTEGLLLLTNDGGLAR Sbjct: 112 RLWLYHKPAGLVTTNADPEGRPTVFDNLPEELPRVMSIGRLDINTEGLLLLTNDGGLARA 171 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T WLR YRVR HG++DQ+ L+ LK GI + G+ YG ++ TLD +GSN W+T+GL Sbjct: 172 LELPATGWLRRYRVRAHGEIDQEALDKLKDGIAVDGVLYGSIEATLDRTQGSNVWITMGL 231 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNREIK V VNRLIRISYGPFQLG L G EV + LR+QLGP L+EEA Sbjct: 232 REGKNREIKNVLGALGLDVNRLIRISYGPFQLGDLPEGHVVEVRGRTLRDQLGPRLIEEA 291 Query: 254 QVNLDAPIYS 263 + N DAPIY+ Sbjct: 292 KANFDAPIYN 301 >gi|190890544|ref|YP_001977086.1| RNA-pseudouridine synthase, ribosomal large subunit B [Rhizobium etli CIAT 652] gi|190695823|gb|ACE89908.1| probable RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli CIAT 652] Length = 645 Score = 349 bits (896), Expect = 3e-94, Method: Compositional matrix adjust. Identities = 163/250 (65%), Positives = 196/250 (78%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+SKV+ARAG+ASRR++ERMI + RV +NG +LE VNV D IEVDG+P+R ERT Sbjct: 52 ERISKVMARAGVASRRDIERMIMEGRVTLNGKVLETPVVNVTLADRIEVDGMPVRGIERT 111 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLYHKP GLVTT++DP+GR TVFDNLP RV+S+GRLDINTEGLLLLTNDGGLAR Sbjct: 112 RLWLYHKPAGLVTTNADPEGRPTVFDNLPEELPRVMSIGRLDINTEGLLLLTNDGGLARA 171 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T WLR YRVR HG++DQ+ L+ LK GI + G+ YG ++ TLD +GSN W+T+GL Sbjct: 172 LELPATGWLRRYRVRAHGEIDQEALDKLKDGIAVDGVLYGSIEATLDRTQGSNVWITMGL 231 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNREIK V VNRLIRISYGPFQLG L G EV + LR+QLGP L+EEA Sbjct: 232 REGKNREIKNVLGALGLDVNRLIRISYGPFQLGDLPEGHVIEVRGRTLRDQLGPRLIEEA 291 Query: 254 QVNLDAPIYS 263 + N DAPIY+ Sbjct: 292 KANFDAPIYN 301 >gi|325292073|ref|YP_004277937.1| ribosomal large subunit pseudouridine synthase B [Agrobacterium sp. H13-3] gi|325059926|gb|ADY63617.1| ribosomal large subunit pseudouridine synthase B [Agrobacterium sp. H13-3] Length = 658 Score = 349 bits (895), Expect = 4e-94, Method: Compositional matrix adjust. Identities = 162/267 (60%), Positives = 201/267 (75%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+SK++ARAG+ASRR++ERMI + RV +NG+ L+ +N +D IEVDG+P+R AER Sbjct: 52 PERISKIMARAGVASRRDIERMIMEGRVSLNGVKLDTPVMNATLSDKIEVDGMPIRGAER 111 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TRLWLYHKP GLVTT+SDP+GR TVFDNLP RV+S+GRLDINTEGLLLLTNDGGL+R Sbjct: 112 TRLWLYHKPAGLVTTNSDPEGRPTVFDNLPGELPRVLSIGRLDINTEGLLLLTNDGGLSR 171 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 VLELP+T WLR YRVR HG+VDQ L+ LK+GI + G+ YG + TLD +G N W+T+G Sbjct: 172 VLELPTTGWLRRYRVRAHGEVDQAALDKLKEGIAVDGVLYGAIDATLDRTQGHNVWITMG 231 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 LREGKNREIK V +VNRLIRISYGPFQLG L G EV ++LR+QLGP L+E+ Sbjct: 232 LREGKNREIKNVLGALGLEVNRLIRISYGPFQLGDLPEGKVLEVRGRMLRDQLGPRLIEQ 291 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVP 279 + N DAPIY + + N P Sbjct: 292 SGANFDAPIYDAPVADDEEENTPKRAP 318 >gi|222147689|ref|YP_002548646.1| ribosomal large subunit pseudouridine synthase B [Agrobacterium vitis S4] gi|221734677|gb|ACM35640.1| ribosomal large subunit pseudouridine synthase B [Agrobacterium vitis S4] Length = 704 Score = 348 bits (894), Expect = 6e-94, Method: Compositional matrix adjust. Identities = 162/261 (62%), Positives = 199/261 (76%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ P+R+SK++ARAGIASRR+VERMI + RV VNG +L+ +N D IEVD Sbjct: 73 KTGSEDTLKPERISKLLARAGIASRRDVERMIMEGRVAVNGKVLDSPVLNATLADRIEVD 132 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G P+R ERTRLWLYHKP GLVTT+SDP+GR TVFDNLP RV+S+GRLDINTEGLLL Sbjct: 133 GEPIRGIERTRLWLYHKPSGLVTTNSDPEGRPTVFDNLPEELPRVMSIGRLDINTEGLLL 192 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDGGLARVLELP+T WLR YRVR +G++DQ KL+ LK GI + G+ YG + LD + Sbjct: 193 LTNDGGLARVLELPTTGWLRRYRVRAYGEIDQAKLDTLKDGIAVDGVLYGAIDAVLDRSQ 252 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 G N W+T+GLREGKNREIK V +VNRLIRISYGPFQLG L +EV ++LR+ Sbjct: 253 GHNVWITMGLREGKNREIKNVLGALGLEVNRLIRISYGPFQLGDLPESQVQEVRGRMLRD 312 Query: 244 QLGPHLLEEAQVNLDAPIYSS 264 QLGP L+EE++ N DAP+YS+ Sbjct: 313 QLGPRLIEESKANFDAPLYSN 333 >gi|114705781|ref|ZP_01438684.1| High mobility group proteins HMG-I and HMG-Y:Pseudouridine synthase, Rsu:RNA-binding S4:Pseudouridine synthase [Fulvimarina pelagi HTCC2506] gi|114538627|gb|EAU41748.1| High mobility group proteins HMG-I and HMG-Y:Pseudouridine synthase, Rsu:RNA-binding S4:Pseudouridine synthase [Fulvimarina pelagi HTCC2506] Length = 639 Score = 324 bits (831), Expect = 1e-86, Method: Compositional matrix adjust. Identities = 154/247 (62%), Positives = 189/247 (76%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ +ARAGIASRR+ E MI RVKVNG +++ A++V TD IEVDG L +AERTR Sbjct: 185 RIARRLARAGIASRRDAEAMIVDGRVKVNGKIIDSPALDVKPTDRIEVDGALLPQAERTR 244 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LWL+HKP G VTT+ DP+GR TVFD LP RV+S+GRLDINTEGLLLLTNDGGL+RVL Sbjct: 245 LWLFHKPAGTVTTNKDPEGRRTVFDMLPEDMPRVLSIGRLDINTEGLLLLTNDGGLSRVL 304 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR HG + Q KL+ L+ GI + G+ YG ++ TLD ++GSN W+T+GLR Sbjct: 305 ELPSTGWLRRYRVRAHGSITQAKLDELRNGISVDGVFYGAIEATLDREQGSNVWITLGLR 364 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNRE+K V +VNRLIR+SYGPFQLG L GS REV + LR+QLG L+EEA Sbjct: 365 EGKNREVKNVLGALGLEVNRLIRLSYGPFQLGDLAEGSVREVKGRTLRDQLGDRLVEEAG 424 Query: 255 VNLDAPI 261 V+ D PI Sbjct: 425 VDFDGPI 431 >gi|256029912|ref|ZP_05443526.1| RNA pseudouridylate synthase family protein [Brucella pinnipedialis M292/94/1] gi|261319066|ref|ZP_05958263.1| RNA-binding S4 domain-containing protein [Brucella pinnipedialis B2/94] gi|265986930|ref|ZP_06099487.1| RNA-binding S4 domain-containing protein [Brucella pinnipedialis M292/94/1] gi|261298289|gb|EEY01786.1| RNA-binding S4 domain-containing protein [Brucella pinnipedialis B2/94] gi|264659127|gb|EEZ29388.1| RNA-binding S4 domain-containing protein [Brucella pinnipedialis M292/94/1] Length = 581 Score = 323 bits (829), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 169/326 (51%), Positives = 218/326 (66%), Gaps = 16/326 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 295 LSKQKKLATPVHRRNLASNVWMAKGI 320 ++ + P R N +NVWMA G+ Sbjct: 369 REEKTEKVEPRRRGN--ANVWMAPGV 392 >gi|254706249|ref|ZP_05168077.1| RNA pseudouridylate synthase family protein [Brucella pinnipedialis M163/99/10] Length = 581 Score = 323 bits (829), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 169/326 (51%), Positives = 218/326 (66%), Gaps = 16/326 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 295 LSKQKKLATPVHRRNLASNVWMAKGI 320 ++ + P R N +NVWMA G+ Sbjct: 369 REEKTEKVEPRRRGN--ANVWMAPGV 392 >gi|153010359|ref|YP_001371573.1| RNA-binding S4 domain-containing protein [Ochrobactrum anthropi ATCC 49188] gi|151562247|gb|ABS15744.1| RNA-binding S4 domain protein [Ochrobactrum anthropi ATCC 49188] Length = 576 Score = 323 bits (829), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 152/250 (60%), Positives = 193/250 (77%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PL++ E Sbjct: 56 TGERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLKQTE 115 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RTRLWLYHKP GLVTT+ DP+GR TVF+ LP+ RV+SVGRLDINTEGLLLLTNDGGL+ Sbjct: 116 RTRLWLYHKPAGLVTTNRDPEGRPTVFEALPAEMPRVLSVGRLDINTEGLLLLTNDGGLS 175 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ TL+ ++G+N W+++ Sbjct: 176 RVLELPSTGWLRRYRVRAHGKVTQVQLDELKNGIAVDGVFYGSIEATLEREQGANVWISI 235 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ +ILR+QLG L+E Sbjct: 236 GLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRILRDQLGDKLIE 295 Query: 252 EAQVNLDAPI 261 ++ + DAP+ Sbjct: 296 DSGADFDAPV 305 >gi|239833548|ref|ZP_04681876.1| conserved hypothetical protein [Ochrobactrum intermedium LMG 3301] gi|239821611|gb|EEQ93180.1| conserved hypothetical protein [Ochrobactrum intermedium LMG 3301] Length = 562 Score = 323 bits (827), Expect = 3e-86, Method: Compositional matrix adjust. Identities = 165/330 (50%), Positives = 219/330 (66%), Gaps = 12/330 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +N + +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VD Sbjct: 52 RNAEAQEDASERIAKRMARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVD 111 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G PL++ ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP+ RV+SVGRLDINTEGLLL Sbjct: 112 GKPLKQTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPAEMPRVLSVGRLDINTEGLLL 171 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDGGL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ + Sbjct: 172 LTNDGGLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQ 231 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 G+N W+++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+ Sbjct: 232 GANVWISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRD 291 Query: 244 QLGPHLLEEAQVNLDAPI---YSSETLV-RDRPNIISEVPDDFTRMKKNSSQKNGLS--- 296 QLG L+EE+ + DAP+ +S+ + R R + P+ ++ ++ +S Sbjct: 292 QLGDKLIEESGADFDAPVLNEFSNAAVQGRTRREMEEGQPEQDGETRRAPREREWISSRP 351 Query: 297 -----KQKKLATPVHRRNLASNVWMAKGIH 321 ++ K RR +NVWMA G Sbjct: 352 ERRRGREDKTEKVEPRRRGNANVWMAPGAR 381 >gi|261319705|ref|ZP_05958902.1| RNA-binding S4 domain-containing protein [Brucella ceti M644/93/1] gi|261292395|gb|EEX95891.1| RNA-binding S4 domain-containing protein [Brucella ceti M644/93/1] Length = 565 Score = 323 bits (827), Expect = 3e-86, Method: Compositional matrix adjust. Identities = 169/325 (52%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 53 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 112 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 113 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 172 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 173 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 232 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 233 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 292 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 293 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 352 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 353 REEKTEKVEPRRRSN--ANVWMAPG 375 >gi|254712060|ref|ZP_05173871.1| RNA pseudouridylate synthase family protein [Brucella ceti M644/93/1] gi|254715130|ref|ZP_05176941.1| RNA pseudouridylate synthase family protein [Brucella ceti M13/05/1] gi|261216838|ref|ZP_05931119.1| RNA-binding S4 domain-containing protein [Brucella ceti M13/05/1] gi|260921927|gb|EEX88495.1| RNA-binding S4 domain-containing protein [Brucella ceti M13/05/1] Length = 581 Score = 323 bits (827), Expect = 3e-86, Method: Compositional matrix adjust. Identities = 169/325 (52%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 369 REEKTEKVEPRRRSN--ANVWMAPG 391 >gi|254711457|ref|ZP_05173268.1| hypothetical protein BpinB_14632 [Brucella pinnipedialis B2/94] Length = 611 Score = 323 bits (827), Expect = 4e-86, Method: Compositional matrix adjust. Identities = 169/326 (51%), Positives = 218/326 (66%), Gaps = 16/326 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 295 LSKQKKLATPVHRRNLASNVWMAKGI 320 ++ + P R N +NVWMA G+ Sbjct: 399 REEKTEKVEPRRRGN--ANVWMAPGV 422 >gi|256059561|ref|ZP_05449760.1| RNA pseudouridylate synthase family protein [Brucella neotomae 5K33] gi|261323529|ref|ZP_05962726.1| RNA-binding S4 domain-containing protein [Brucella neotomae 5K33] gi|261299509|gb|EEY03006.1| RNA-binding S4 domain-containing protein [Brucella neotomae 5K33] Length = 581 Score = 322 bits (826), Expect = 4e-86, Method: Compositional matrix adjust. Identities = 169/325 (52%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 369 REEKAEKVEPRRRGN--ANVWMAPG 391 >gi|254699496|ref|ZP_05161324.1| RNA pseudouridylate synthase family protein [Brucella suis bv. 5 str. 513] gi|261749951|ref|ZP_05993660.1| RNA-binding S4 domain-containing protein [Brucella suis bv. 5 str. 513] gi|261739704|gb|EEY27630.1| RNA-binding S4 domain-containing protein [Brucella suis bv. 5 str. 513] Length = 581 Score = 322 bits (826), Expect = 4e-86, Method: Compositional matrix adjust. Identities = 169/325 (52%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 369 REEKTEKVEPRRRGN--ANVWMAPG 391 >gi|306845522|ref|ZP_07478091.1| conserved hypothetical protein [Brucella sp. BO1] gi|306273843|gb|EFM55670.1| conserved hypothetical protein [Brucella sp. BO1] Length = 567 Score = 322 bits (826), Expect = 5e-86, Method: Compositional matrix adjust. Identities = 169/325 (52%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 53 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 112 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 113 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 172 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 173 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 232 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 233 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 292 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 293 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 352 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 353 REEKTEKVEPRRRGN--ANVWMAPG 375 >gi|254702620|ref|ZP_05164448.1| hypothetical protein Bsuib36_01462 [Brucella suis bv. 3 str. 686] Length = 581 Score = 322 bits (826), Expect = 5e-86, Method: Compositional matrix adjust. Identities = 169/325 (52%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIATGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 369 REEKTEKVEPRRRGN--ANVWMAPG 391 >gi|261753204|ref|ZP_05996913.1| RNA-binding S4 domain-containing protein [Brucella suis bv. 3 str. 686] gi|261742957|gb|EEY30883.1| RNA-binding S4 domain-containing protein [Brucella suis bv. 3 str. 686] Length = 565 Score = 322 bits (825), Expect = 5e-86, Method: Compositional matrix adjust. Identities = 169/325 (52%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 53 EEETSERIAKRLARAGIASRREAETMIATGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 112 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 113 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 172 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 173 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 232 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 233 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 292 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 293 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 352 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 353 REEKTEKVEPRRRGN--ANVWMAPG 375 >gi|62317153|ref|YP_223006.1| RNA pseudouridylate synthase family protein [Brucella abortus bv. 1 str. 9-941] gi|83269136|ref|YP_418427.1| high mobility group protein HMG-I-like protein [Brucella melitensis biovar Abortus 2308] gi|254695336|ref|ZP_05157164.1| high mobility group proteins HMG-I and HMG-Y:pseudouridine synthase, Rsu:RNA-binding S4:pseudouridine synthase [Brucella abortus bv. 3 str. Tulya] gi|254698432|ref|ZP_05160260.1| high mobility group proteins HMG-I and HMG-Y:pseudouridine synthase, Rsu:RNA-binding S4:pseudouridine synthase [Brucella abortus bv. 2 str. 86/8/59] gi|256256549|ref|ZP_05462085.1| high mobility group proteins HMG-I and HMG-Y:pseudouridine synthase, Rsu:RNA-binding S4:pseudouridine synthase [Brucella abortus bv. 9 str. C68] gi|260544386|ref|ZP_05820207.1| RNA pseudouridylate synthase [Brucella abortus NCTC 8038] gi|260756976|ref|ZP_05869324.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 6 str. 870] gi|260759650|ref|ZP_05871998.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 4 str. 292] gi|260762893|ref|ZP_05875225.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 2 str. 86/8/59] gi|260882787|ref|ZP_05894401.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 9 str. C68] gi|261215707|ref|ZP_05929988.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 3 str. Tulya] gi|62197346|gb|AAX75645.1| RNA pseudouridylate synthase family protein [Brucella abortus bv. 1 str. 9-941] gi|82939410|emb|CAJ12364.1| High mobility group proteins HMG-I and HMG-Y:Pseudouridine synthase, Rsu:RNA-binding S4:Pseudouridine synthase [Brucella melitensis biovar Abortus 2308] gi|260097657|gb|EEW81531.1| RNA pseudouridylate synthase [Brucella abortus NCTC 8038] gi|260669968|gb|EEX56908.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 4 str. 292] gi|260673314|gb|EEX60135.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 2 str. 86/8/59] gi|260677084|gb|EEX63905.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 6 str. 870] gi|260872315|gb|EEX79384.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 9 str. C68] gi|260917314|gb|EEX84175.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 3 str. Tulya] Length = 581 Score = 322 bits (825), Expect = 5e-86, Method: Compositional matrix adjust. Identities = 169/325 (52%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 369 REEKTEKVEPRRRGN--ANVWMAPG 391 >gi|260568472|ref|ZP_05838941.1| RNA pseudouridylate synthase [Brucella suis bv. 4 str. 40] gi|260155137|gb|EEW90218.1| RNA pseudouridylate synthase [Brucella suis bv. 4 str. 40] Length = 581 Score = 322 bits (825), Expect = 5e-86, Method: Compositional matrix adjust. Identities = 169/325 (52%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIATGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 369 REEKTEKVEPRRRGN--ANVWMAPG 391 >gi|221090247|ref|YP_002519390.1| RNA pseudouridylate synthase family protein [Brucella suis 1330] gi|54112368|gb|AAV28863.1| RNA pseudouridylate synthase family protein [Brucella suis 1330] Length = 598 Score = 322 bits (825), Expect = 6e-86, Method: Compositional matrix adjust. Identities = 169/325 (52%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 86 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 145 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 146 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 205 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 206 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 265 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 266 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 325 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 326 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 385 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 386 REEKTEKVEPRRRGN--ANVWMAPG 408 >gi|189022412|ref|YP_001932153.1| RNA pseudouridylate synthase family protein [Brucella abortus S19] gi|189020986|gb|ACD73707.1| RNA pseudouridylate synthase family protein [Brucella abortus S19] Length = 565 Score = 322 bits (825), Expect = 6e-86, Method: Compositional matrix adjust. Identities = 169/325 (52%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 53 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 112 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 113 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 172 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 173 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 232 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 233 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 292 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 293 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 352 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 353 REEKTEKVEPRRRGN--ANVWMAPG 375 >gi|297249906|ref|ZP_06933607.1| ribosomal large subunit pseudouridine synthase B [Brucella abortus bv. 5 str. B3196] gi|297173775|gb|EFH33139.1| ribosomal large subunit pseudouridine synthase B [Brucella abortus bv. 5 str. B3196] Length = 598 Score = 322 bits (824), Expect = 7e-86, Method: Compositional matrix adjust. Identities = 169/325 (52%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 86 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 145 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 146 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 205 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 206 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 265 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 266 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 325 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 326 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 385 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 386 REEKTEKVEPRRRGN--ANVWMAPG 408 >gi|237816712|ref|ZP_04595704.1| conserved hypothetical protein [Brucella abortus str. 2308 A] gi|254691364|ref|ZP_05154618.1| hypothetical protein Babob68_14690 [Brucella abortus bv. 6 str. 870] gi|254731879|ref|ZP_05190457.1| hypothetical protein Babob42_11997 [Brucella abortus bv. 4 str. 292] gi|237787525|gb|EEP61741.1| conserved hypothetical protein [Brucella abortus str. 2308 A] Length = 611 Score = 321 bits (823), Expect = 9e-86, Method: Compositional matrix adjust. Identities = 169/325 (52%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 399 REEKTEKVEPRRRGN--ANVWMAPG 421 >gi|256252964|ref|ZP_05458500.1| RNA pseudouridylate synthase family protein [Brucella ceti B1/94] gi|261220057|ref|ZP_05934338.1| RNA-binding S4 domain-containing protein [Brucella ceti B1/94] gi|265996596|ref|ZP_06109153.1| RNA-binding S4 domain-containing protein [Brucella ceti M490/95/1] gi|260918641|gb|EEX85294.1| RNA-binding S4 domain-containing protein [Brucella ceti B1/94] gi|262550893|gb|EEZ07054.1| RNA-binding S4 domain-containing protein [Brucella ceti M490/95/1] Length = 581 Score = 321 bits (823), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 168/326 (51%), Positives = 217/326 (66%), Gaps = 16/326 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + RTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTARTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRTPREREWISSTGERRRG 368 Query: 295 LSKQKKLATPVHRRNLASNVWMAKGI 320 ++ + P R N +NVWMA G+ Sbjct: 369 REEKTEKVEPRRRGN--ANVWMAPGV 392 >gi|161620283|ref|YP_001594169.1| hypothetical protein BCAN_B0204 [Brucella canis ATCC 23365] gi|161337094|gb|ABX63398.1| conserved hypothetical protein [Brucella canis ATCC 23365] Length = 611 Score = 321 bits (823), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 169/325 (52%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIATGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 399 REEKTEKVEPRRRGN--ANVWMAPG 421 >gi|260166986|ref|ZP_05753797.1| RNA pseudouridylate synthase family protein [Brucella sp. F5/99] gi|261756373|ref|ZP_06000082.1| RNA pseudouridylate synthase [Brucella sp. F5/99] gi|261736357|gb|EEY24353.1| RNA pseudouridylate synthase [Brucella sp. F5/99] Length = 581 Score = 321 bits (823), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 168/326 (51%), Positives = 217/326 (66%), Gaps = 16/326 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + RTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTARTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 295 LSKQKKLATPVHRRNLASNVWMAKGI 320 ++ + P R N +NVWMA G+ Sbjct: 369 REEKTEKVEPRRRGN--ANVWMAPGV 392 >gi|254719940|ref|ZP_05181751.1| RNA pseudouridylate synthase family protein [Brucella sp. 83/13] gi|265984948|ref|ZP_06097683.1| RNA-binding S4 domain-containing protein [Brucella sp. 83/13] gi|264663540|gb|EEZ33801.1| RNA-binding S4 domain-containing protein [Brucella sp. 83/13] Length = 577 Score = 321 bits (822), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 153/253 (60%), Positives = 190/253 (75%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPI 261 L+EE+ + DAP+ Sbjct: 309 LIEESGADFDAPV 321 >gi|306838529|ref|ZP_07471367.1| conserved hypothetical protein [Brucella sp. NF 2653] gi|306406396|gb|EFM62637.1| conserved hypothetical protein [Brucella sp. NF 2653] Length = 561 Score = 321 bits (822), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 153/253 (60%), Positives = 190/253 (75%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 53 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 112 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 113 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 172 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 173 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 232 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 233 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 292 Query: 249 LLEEAQVNLDAPI 261 L+EE+ + DAP+ Sbjct: 293 LIEESGADFDAPV 305 >gi|256158081|ref|ZP_05455999.1| hypothetical protein BcetM4_04490 [Brucella ceti M490/95/1] Length = 611 Score = 320 bits (821), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 168/326 (51%), Positives = 217/326 (66%), Gaps = 16/326 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + RTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTARTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRTPREREWISSTGERRRG 398 Query: 295 LSKQKKLATPVHRRNLASNVWMAKGI 320 ++ + P R N +NVWMA G+ Sbjct: 399 REEKTEKVEPRRRGN--ANVWMAPGV 422 >gi|49475072|ref|YP_033113.1| hypothetical protein BH02610 [Bartonella henselae str. Houston-1] gi|49237877|emb|CAF27073.1| hypothetical protein BH02610 [Bartonella henselae str. Houston-1] Length = 465 Score = 320 bits (821), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 172/341 (50%), Positives = 219/341 (64%), Gaps = 28/341 (8%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + EN +R++K +ARAGIASRR+ E MI R+ VNG ++ A+NV +D I+VDG P Sbjct: 1 MNENSESERIAKRLARAGIASRRDAEMMILAGRIVVNGTVVTTPALNVTRSDVIKVDGKP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L ERTRLWLYHKP GLVTTH DP+GR TVF NLP RV+SVGRLDINTEGLLLLTN Sbjct: 61 LSPIERTRLWLYHKPAGLVTTHRDPEGRPTVFSNLPKEMPRVLSVGRLDINTEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLARVLELP T W+R YRVR HG+V Q L+ LK GI I GI YG ++ +++ ++GSN Sbjct: 121 DGGLARVLELPLTGWVRKYRVRAHGRVKQSALDNLKNGIAIDGIFYGSIEASIEREQGSN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W++V LREGKNREIK + VNRLIRISYGPFQL L G+ RE+ ++LR+QLG Sbjct: 181 IWLSVALREGKNREIKNILGALGLSVNRLIRISYGPFQLSDLEEGAVREIKGRMLRDQLG 240 Query: 247 PHLLEEAQVNLDAPI---YSSETLVRDR----------PNIISEVPDDFTRMKKNSSQKN 293 L+ +A + DAPI +S+ +V ++ IS D R ++ SS + Sbjct: 241 ERLIMQANADFDAPILKPFSNTAVVAEKRSHKDLTVANDGWISSHGGDLRRRQRKSSAER 300 Query: 294 G------------LSKQKKLATPVHR---RNLASNVWMAKG 319 G + K+K + R R+ SNVWMA G Sbjct: 301 GRTRLSTKLDKKFMGKEKSEEGKIERFLPRSRHSNVWMAPG 341 >gi|265993341|ref|ZP_06105898.1| RNA-binding S4 domain-containing protein [Brucella melitensis bv. 3 str. Ether] gi|262764211|gb|EEZ10243.1| RNA-binding S4 domain-containing protein [Brucella melitensis bv. 3 str. Ether] Length = 581 Score = 320 bits (820), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 168/325 (51%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V + +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTRQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 369 REEKTEKVEPRRRGN--ANVWMAPG 391 >gi|225628667|ref|ZP_03786701.1| conserved hypothetical protein [Brucella ceti str. Cudo] gi|225616513|gb|EEH13561.1| conserved hypothetical protein [Brucella ceti str. Cudo] Length = 611 Score = 320 bits (820), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 168/326 (51%), Positives = 217/326 (66%), Gaps = 16/326 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + RTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTARTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 295 LSKQKKLATPVHRRNLASNVWMAKGI 320 ++ + P R N +NVWMA G+ Sbjct: 399 REEKTEKVEPRRRGN--ANVWMAPGV 422 >gi|265999201|ref|ZP_05465351.2| RNA pseudouridylate synthase [Brucella melitensis bv. 2 str. 63/9] gi|263092640|gb|EEZ16861.1| RNA pseudouridylate synthase [Brucella melitensis bv. 2 str. 63/9] gi|326410384|gb|ADZ67448.1| RNA-binding S4 domain-containing protein [Brucella melitensis M28] gi|326553677|gb|ADZ88316.1| RNA-binding S4 domain-containing protein [Brucella melitensis M5-90] Length = 581 Score = 320 bits (820), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 168/325 (51%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V + +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTRQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 369 REEKTEKVEPRRRGN--ANVWMAPG 391 >gi|17989384|ref|NP_542017.1| tRNA pseudouridine synthase A [Brucella melitensis bv. 1 str. 16M] gi|17985257|gb|AAL54281.1| tRNA pseudouridine synthase a [Brucella melitensis bv. 1 str. 16M] Length = 565 Score = 320 bits (820), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 168/325 (51%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 53 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 112 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 113 QKERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 172 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V + +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 173 GLSRVLELPSTGWLRRYRVRAHGKVTRQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 232 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 233 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 292 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 293 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 352 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 353 REEKTEKVEPRRRGN--ANVWMAPG 375 >gi|306840967|ref|ZP_07473708.1| conserved hypothetical protein [Brucella sp. BO2] gi|306289024|gb|EFM60289.1| conserved hypothetical protein [Brucella sp. BO2] Length = 614 Score = 320 bits (820), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 153/253 (60%), Positives = 190/253 (75%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPI 261 L+EE+ + DAP+ Sbjct: 339 LIEESGADFDAPV 351 >gi|148558125|ref|YP_001257253.1| RNA pseudouridylate synthase family protein [Brucella ovis ATCC 25840] gi|148369410|gb|ABQ62282.1| RNA pseudouridylate synthase family protein [Brucella ovis ATCC 25840] Length = 598 Score = 320 bits (820), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 168/325 (51%), Positives = 216/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 86 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 145 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ER RLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 146 QTERNRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 205 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 206 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 265 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 266 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 325 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 326 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 385 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 386 REEKTEKVEPRRRGN--ANVWMAPG 408 >gi|260564347|ref|ZP_05834832.1| RNA pseudouridylate synthase [Brucella melitensis bv. 1 str. 16M] gi|265989557|ref|ZP_06102114.1| RNA-binding S4 domain-containing protein [Brucella melitensis bv. 1 str. Rev.1] gi|260151990|gb|EEW87083.1| RNA pseudouridylate synthase [Brucella melitensis bv. 1 str. 16M] gi|263000226|gb|EEZ12916.1| RNA-binding S4 domain-containing protein [Brucella melitensis bv. 1 str. Rev.1] Length = 581 Score = 320 bits (820), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 168/325 (51%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QKERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V + +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTRQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 369 REEKTEKVEPRRRGN--ANVWMAPG 391 >gi|225686060|ref|YP_002734032.1| hypothetical protein BMEA_B0205 [Brucella melitensis ATCC 23457] gi|225642165|gb|ACO02078.1| conserved hypothetical protein [Brucella melitensis ATCC 23457] Length = 598 Score = 320 bits (819), Expect = 3e-85, Method: Compositional matrix adjust. Identities = 168/325 (51%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 86 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 145 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 146 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 205 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V + +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 206 GLSRVLELPSTGWLRRYRVRAHGKVTRQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 265 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 266 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 325 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 326 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 385 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 386 REEKTEKVEPRRRGN--ANVWMAPG 408 >gi|256111893|ref|ZP_05452849.1| hypothetical protein Bmelb3E_04410 [Brucella melitensis bv. 3 str. Ether] Length = 611 Score = 320 bits (819), Expect = 3e-85, Method: Compositional matrix adjust. Identities = 168/325 (51%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V + +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTRQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 399 REEKTEKVEPRRRGN--ANVWMAPG 421 >gi|256043125|ref|ZP_05446067.1| hypothetical protein Bmelb1R_01497 [Brucella melitensis bv. 1 str. Rev.1] Length = 611 Score = 319 bits (818), Expect = 3e-85, Method: Compositional matrix adjust. Identities = 168/325 (51%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QKERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V + +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTRQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 399 REEKTEKVEPRRRGN--ANVWMAPG 421 >gi|256014991|ref|YP_003105000.1| RNA pseudouridylate synthase family protein [Brucella microti CCM 4915] gi|255997651|gb|ACU49338.1| RNA pseudouridylate synthase family protein [Brucella microti CCM 4915] Length = 611 Score = 319 bits (818), Expect = 4e-85, Method: Compositional matrix adjust. Identities = 168/325 (51%), Positives = 217/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I V+G PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVNGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 399 REEKTEKVEPRRRGN--ANVWMAPG 421 >gi|294853220|ref|ZP_06793892.1| ribosomal large subunit pseudouridine synthase B [Brucella sp. NVSL 07-0026] gi|294818875|gb|EFG35875.1| ribosomal large subunit pseudouridine synthase B [Brucella sp. NVSL 07-0026] Length = 611 Score = 318 bits (816), Expect = 5e-85, Method: Compositional matrix adjust. Identities = 167/325 (51%), Positives = 216/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MI R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIVAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+R+LELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRILELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 399 REEKTEKVEPRRRGN--ANVWMAPG 421 >gi|163758412|ref|ZP_02165500.1| putative ribosomal large subunit pseudouridine synthase B [Hoeflea phototrophica DFL-43] gi|162284701|gb|EDQ34984.1| putative ribosomal large subunit pseudouridine synthase B [Hoeflea phototrophica DFL-43] Length = 520 Score = 318 bits (815), Expect = 9e-85, Method: Compositional matrix adjust. Identities = 150/258 (58%), Positives = 190/258 (73%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 Q + R++K++AR G+ASRR+VERM+A+ R++VNG LL+ AV V +D IEVDG Sbjct: 34 AQASAESGRIAKILARVGVASRRDVERMVAEGRIRVNGKLLDSPAVVVSLSDRIEVDGEE 93 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + ERTRLW+YHKP GLVTT+ DP+GR TVF+ LP RV+S+GRLDINTEGLLLLTN Sbjct: 94 VAGIERTRLWIYHKPAGLVTTNRDPEGRRTVFETLPKHLPRVLSIGRLDINTEGLLLLTN 153 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLAR LELP T WLR YRVR +G +DQ++L+ LK GI + G+ YG ++ TLD ++G N Sbjct: 154 DGGLARTLELPETGWLRRYRVRAYGDIDQNRLDTLKDGIAVDGVLYGAIEATLDRKQGHN 213 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W+T+GLREGKNREIK V VNRLIRIS+GPFQLG + G E+ + LREQLG Sbjct: 214 VWITMGLREGKNREIKNVLSALGLDVNRLIRISFGPFQLGDVREGDVVEIKSRTLREQLG 273 Query: 247 PHLLEEAQVNLDAPIYSS 264 L+EE+ N DAP+ S Sbjct: 274 VRLIEESGANFDAPLNDS 291 >gi|121601745|ref|YP_989462.1| RNA pseudouridine synthase [Bartonella bacilliformis KC583] gi|120613922|gb|ABM44523.1| RNA pseudouridine synthase [Bartonella bacilliformis KC583] Length = 499 Score = 317 bits (812), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 177/374 (47%), Positives = 229/374 (61%), Gaps = 27/374 (7%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 V N +R++K +ARAGIASRR+ E MI R+ VNG ++ +NV+ +DHI VD +P Sbjct: 38 VYTNCDSERIAKRLARAGIASRRDAEMMIIAGRIAVNGTVVTTPVLNVIPSDHITVDEIP 97 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + ERTRLWLYHKP GLVTT+ DP+GR TVFDNLP RV+SVGRLDINTEGLLLLTN Sbjct: 98 IPPIERTRLWLYHKPSGLVTTNRDPEGRPTVFDNLPKEMPRVVSVGRLDINTEGLLLLTN 157 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLARVLELP T W+R YRVR HG++ Q +L+ LK GI I GI YG + ++D ++GSN Sbjct: 158 DGGLARVLELPLTGWVRKYRVRAHGKIKQSELDKLKNGIAIDGIFYGSIDASIDREQGSN 217 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W++V LREGKNREIK VNRLIR+SYGPFQL L G+ RE+ + LR+QLG Sbjct: 218 VWLSVALREGKNREIKNFLGALGLSVNRLIRVSYGPFQLSDLEEGAVRELKGRTLRDQLG 277 Query: 247 PHLLEEAQVNLDAPIY----SSETLVRDRPN-IISEVPDDFTRMKKNSSQKNG------- 294 L+ +A N DAPI +S +V+ + N +S+ D++ + Q+N Sbjct: 278 ERLIMQANANFDAPILKPFSNSAVVVKQQSNKKLSQANDEWISSSGHHKQRNKKDGFIEH 337 Query: 295 ----LSKQKKLATPVHRRNL--------ASNVWMAKGIHSSFLSDSGQ--REENHRRSPS 340 LSK K P+ +R SNVWMA G E+N RS Sbjct: 338 NRAQLSK-KPNEQPIEQRKTERFSSRSRRSNVWMASGARPQITRKRPYYGEEDNQDRSRV 396 Query: 341 FPSKRSLRRTSAKK 354 F ++ L + K+ Sbjct: 397 FAGEKFLYKNKEKQ 410 >gi|90419975|ref|ZP_01227884.1| pseudouridine synthase, rRNA [Aurantimonas manganoxydans SI85-9A1] gi|90336016|gb|EAS49764.1| pseudouridine synthase, rRNA [Aurantimonas manganoxydans SI85-9A1] Length = 497 Score = 317 bits (811), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 147/247 (59%), Positives = 191/247 (77%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +ARAGIASRR+ E MIA RVK+NG +L+ AV V ++D IE+D PL ERTR Sbjct: 70 RIAKRLARAGIASRRDAEGMIADGRVKLNGKVLDTPAVVVTASDRIEIDNAPLPAIERTR 129 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LWL+HK G VTT+ DP+GR T+FD LPS RV++VGRLDINTEGLLLLTNDGGLAR+L Sbjct: 130 LWLFHKAAGTVTTNRDPEGRPTIFDRLPSDMPRVLTVGRLDINTEGLLLLTNDGGLARIL 189 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELP+T WLR YRVR HG + Q +L+ L++GI I G+ YG ++ T+D ++GSN W+T+GLR Sbjct: 190 ELPATGWLRRYRVRAHGAITQARLDELRQGIAIDGVFYGAIEATMDREQGSNVWLTLGLR 249 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNRE+KKV +VNRLIR+S+GPFQLG L GS +E+ ++LR+QLG L+EE+ Sbjct: 250 EGKNREVKKVLAHLGLEVNRLIRLSFGPFQLGDLKEGSVQEIKGRMLRDQLGERLIEESG 309 Query: 255 VNLDAPI 261 + DAP+ Sbjct: 310 ADFDAPV 316 >gi|163844393|ref|YP_001622048.1| hypothetical protein BSUIS_B0209 [Brucella suis ATCC 23445] gi|163675116|gb|ABY39226.1| conserved hypothetical protein [Brucella suis ATCC 23445] Length = 598 Score = 317 bits (811), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 167/325 (51%), Positives = 215/325 (66%), Gaps = 16/325 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 86 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 145 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVG LDINTEGLLLLTNDG Sbjct: 146 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGHLDINTEGLLLLTNDG 205 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ + +N W Sbjct: 206 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQDANVW 265 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 266 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 325 Query: 249 LLEEAQVNLDAPIYS--SETLVRDRPN---IISEVPDDFTR---------MKKNSSQKNG 294 L+EE+ + DAP+ + S V+ R E+P + R + ++ G Sbjct: 326 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 385 Query: 295 LSKQKKLATPVHRRNLASNVWMAKG 319 ++ + P R N +NVWMA G Sbjct: 386 REEKTEKVEPRRRGN--ANVWMAPG 408 >gi|49473909|ref|YP_031951.1| hypothetical protein BQ02470 [Bartonella quintana str. Toulouse] gi|49239412|emb|CAF25750.1| hypothetical protein BQ02470 [Bartonella quintana str. Toulouse] Length = 467 Score = 315 bits (808), Expect = 5e-84, Method: Compositional matrix adjust. Identities = 182/381 (47%), Positives = 233/381 (61%), Gaps = 38/381 (9%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + EN +R++K +ARAGIASRR+ E MI R+ +N ++ A NV +D I+VDG P Sbjct: 1 MNENSKGERIAKRLARAGIASRRDAEMMIIAGRIVINDTVVTTPAFNVTRSDVIKVDGKP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L ERTRLWLYHKP GLVTTH DP+GR TVF+NLP RV+SVGRLDINTEGLLLLTN Sbjct: 61 LSPIERTRLWLYHKPAGLVTTHRDPEGRPTVFNNLPKGMPRVLSVGRLDINTEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLARVLELP T W+R YRVR HG+V Q L+ LK GI I+GI YG ++ +++ ++GSN Sbjct: 121 DGGLARVLELPLTGWVRKYRVRAHGRVKQSALDNLKNGIAIEGIFYGSIEASIEREQGSN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W++V LREGKNREIK V VNRLIR+SYGPFQL L G+ RE+ ++LR+QLG Sbjct: 181 IWLSVALREGKNREIKNVLGALGLSVNRLIRVSYGPFQLSDLEEGAVRELKGRMLRDQLG 240 Query: 247 PHLLEEAQVNLDAPI---YSSETLVRDRPN-----------IISEVPD-------DFT-R 284 L+ +A N DAPI +S+ +V ++ N I S + D F+ R Sbjct: 241 ERLIMQANANFDAPILKSFSNSVVVAEKQNHKDLAITNDGWIFSSIGDVQRRRRGGFSER 300 Query: 285 MKKNSSQKNG---LSKQKKLATPVHR---RNLASNVWMAKGIH------SSFLSDSGQRE 332 + S K G + ++K R R+ SNVWMA G SF S+ + Sbjct: 301 SRARLSTKPGEKFMRQEKSEGGKAERFLPRSRRSNVWMAPGARPQSTRKKSFYSE----D 356 Query: 333 ENHRRSPSFPSKRSLRRTSAK 353 H + KRSL R K Sbjct: 357 TPHDYKSNLAGKRSLHRGKEK 377 >gi|254502639|ref|ZP_05114790.1| conserved hypothetical protein, putative [Labrenzia alexandrii DFL-11] gi|222438710|gb|EEE45389.1| conserved hypothetical protein, putative [Labrenzia alexandrii DFL-11] Length = 498 Score = 315 bits (808), Expect = 5e-84, Method: Compositional matrix adjust. Identities = 150/257 (58%), Positives = 187/257 (72%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + + + +R++KV+ARAG+ SRRE E + RV+VNG +L AV V S D + VDG Sbjct: 51 TIPDTASGERIAKVMARAGLCSRREAETWVMDGRVEVNGKVLTTPAVTVTSNDKVLVDGE 110 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL ERTRLWLYHKP GLVTT+ DP+GR TVFD LP RV++VGRLDINTEGLLLLT Sbjct: 111 PLPMRERTRLWLYHKPRGLVTTNKDPEGRPTVFDRLPDDLPRVLTVGRLDINTEGLLLLT 170 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDGGLARVLELP+T WLR YRVR G++ Q +L+ L G+ I G+ YG ++ TLD ++G Sbjct: 171 NDGGLARVLELPATGWLRRYRVRAFGKITQAELDTLNDGVAIDGVLYGAIEATLDKEQGG 230 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 N W+TVGLREGKNRE+K+V E VNRLIR+SYGPFQL L G RE+ ++LR+QL Sbjct: 231 NVWMTVGLREGKNREVKRVLEHLGMSVNRLIRLSYGPFQLMDLAEGDVREIRGRVLRDQL 290 Query: 246 GPHLLEEAQVNLDAPIY 262 G L EEA + DAPI+ Sbjct: 291 GDALAEEAGADFDAPIF 307 >gi|163867551|ref|YP_001608750.1| ribosomal large subunit pseudouridine synthase B [Bartonella tribocorum CIP 105476] gi|161017197|emb|CAK00755.1| ribosomal large subunit pseudouridine synthase B [Bartonella tribocorum CIP 105476] Length = 466 Score = 313 bits (803), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 175/371 (47%), Positives = 228/371 (61%), Gaps = 45/371 (12%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + EN +R++K +ARAG+ASRR+ E MI RV VNG ++ A NV +D I+VDG P Sbjct: 1 MNENNESERIAKRLARAGVASRRDAEMMIVAGRVSVNGTVVTTPAFNVSRSDVIKVDGKP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L ERTRLWLYHKP GLVTT+ DP+GR TVF +LP RV+SVGRLDINTEGLLLLTN Sbjct: 61 LSPIERTRLWLYHKPAGLVTTNRDPEGRPTVFSHLPKGMPRVVSVGRLDINTEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLARVLELP T W+R YRVR HG+V Q L+ LK GI I GI YG ++ +++ ++G+N Sbjct: 121 DGGLARVLELPVTGWVRKYRVRAHGRVKQSALDNLKNGIAINGIFYGSIEASIEREQGAN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W+++ LREGKNREIK V VNRLIR+SYGPF L L G+ +E+ ++LR+QLG Sbjct: 181 IWLSIALREGKNREIKNVLGALGLSVNRLIRVSYGPFHLSDLKEGAVQELKGRMLRDQLG 240 Query: 247 PHLLEEAQVNLDAPI---------------------------YSSETLVRDRPNIISEVP 279 L+ +A + DAPI +SSE ++R R N S V Sbjct: 241 ERLIMQANADFDAPILKPFSNSPVIAEKQSQKDVSVANDGWVFSSERVIRRRSNDGS-VE 299 Query: 280 DDFTRMKKNSSQ--KNGLSKQKKLAT--PVHRRNLASNVWMAKGIHSSFLSDSGQREENH 335 D R++ S + G S++ K P RR +NVWMA G R ++ Sbjct: 300 HDRARLRAKSHENMNKGKSEEGKAERFLPRSRR---ANVWMA----------PGARPQSA 346 Query: 336 RRSPSFPSKRS 346 RR PS+ ++S Sbjct: 347 RRKPSYNEEKS 357 >gi|218660352|ref|ZP_03516282.1| putative ribosomal large subunit pseudouridine synthase B [Rhizobium etli IE4771] Length = 296 Score = 313 bits (801), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 153/245 (62%), Positives = 182/245 (74%), Gaps = 8/245 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+SKV+ARAG+ASRR++ERMI + RV +NG +LE VNV D IEVDGVP+R ERT Sbjct: 39 ERISKVMARAGVASRRDIERMIMEGRVTLNGRVLETPVVNVTLADRIEVDGVPIRGIERT 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLYHKP GLVTT++DP+GR+TVFDNLP RV+S+GRLDINTEGLLLLTNDGGLAR Sbjct: 99 RLWLYHKPAGLVTTNADPEGRATVFDNLPEELPRVMSIGRLDINTEGLLLLTNDGGLARA 158 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T WLR YRVR HG++DQ+ L+ LK GI + G+ YG ++ TLD +GSN W+T+GL Sbjct: 159 LELPATGWLRRYRVRAHGEIDQEALDKLKDGIAVDGVLYGSIEATLDRTQGSNVWITMGL 218 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNREIK V VNRLIRISYGPFQLG L G EV GPH A Sbjct: 219 REGKNREIKNVMGALGLDVNRLIRISYGPFQLGDLPEGHVIEVR--------GPHAARSA 270 Query: 254 QVNLD 258 + D Sbjct: 271 RPAPD 275 >gi|240849922|ref|YP_002971311.1| ribosomal large subunit pseudouridine synthase B [Bartonella grahamii as4aup] gi|240267045|gb|ACS50633.1| ribosomal large subunit pseudouridine synthase B [Bartonella grahamii as4aup] Length = 466 Score = 313 bits (801), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 171/370 (46%), Positives = 225/370 (60%), Gaps = 43/370 (11%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + EN +R++K +ARAG+ASRR+ E MI R+ VNG ++ A NV +D I+VDG P Sbjct: 1 MNENNESERIAKRLARAGVASRRDAEMMIVAGRISVNGTVVTTPAFNVSRSDVIKVDGKP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L ERTRLWLYHKP GLVTT+ DP+GR TVF NLP RV+SVGRLDINTEGLLLLTN Sbjct: 61 LPPIERTRLWLYHKPAGLVTTNRDPEGRPTVFSNLPKGMPRVLSVGRLDINTEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLARVLELP T W+R YRVR HG+V + L+ LK GI I GI YG ++ +++ ++GSN Sbjct: 121 DGGLARVLELPVTGWVRKYRVRAHGRVKKSALDNLKNGIAINGIFYGSIEASIEREQGSN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W++V LREGKNREIK V VNRLIR+SYGPF L L G+ +E+ ++LR+QLG Sbjct: 181 IWLSVALREGKNREIKNVLGALGLSVNRLIRVSYGPFHLSDLEEGAVQELKGRMLRDQLG 240 Query: 247 PHLLEEAQVNLDAPI---------------------------YSSETLVRDRPNIISEVP 279 L+ +A + DAPI +SSE +R RP S Sbjct: 241 ERLIMQANADFDAPILKPFSNSAVVAEKQSQKDLSVANDGWVFSSERAIRRRPRDGSV-- 298 Query: 280 DDFTRMKKNSSQKNGLSKQKKLATPVHR---RNLASNVWMAKGIHSSFLSDSGQREENHR 336 + +R + ++ + K+K R R+ +NVWMA G R ++ R Sbjct: 299 -EHSRARLSTKSHENVKKEKSEEGKAERFLPRSRRANVWMA----------PGARPQSTR 347 Query: 337 RSPSFPSKRS 346 R PS+ ++S Sbjct: 348 RKPSYSEEKS 357 >gi|319408053|emb|CBI81707.1| Pseudouridine synthase [Bartonella schoenbuchensis R1] Length = 486 Score = 313 bits (801), Expect = 4e-83, Method: Compositional matrix adjust. Identities = 173/376 (46%), Positives = 227/376 (60%), Gaps = 41/376 (10%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 ++K + EN +R++K +ARAG+ASRR+ E MI RV VNG ++ NVM +D I Sbjct: 29 QNKKKIDENSESERIAKRLARAGVASRRDAEMMIIAGRVVVNGAVVTTPVFNVMRSDVIT 88 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 +DG L ERTRLWLYHKP G VTT+ DP+GR TVFDNLP RV+SVGRLDINTEGL Sbjct: 89 IDGKSLPPMERTRLWLYHKPAGFVTTNRDPEGRPTVFDNLPKEMPRVLSVGRLDINTEGL 148 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDGGLAR+LELP T W+R YRVR HG++ Q KL+ LK GI I+G+ YG ++ +++ Sbjct: 149 LLLTNDGGLARILELPITGWVRKYRVRAHGKIKQSKLDSLKNGIAIKGVFYGSIEASIER 208 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++G+N W++V LREGKNREIK V VNRLIRISYGPFQL L G+ RE+ ++L Sbjct: 209 EQGANIWLSVALREGKNREIKNVLGALGLSVNRLIRISYGPFQLADLDKGAVRELKGRVL 268 Query: 242 REQLGPHLLEEAQVNLDAPIY--------------SSETLVRDRPNIISEVPDDFTRMKK 287 R+QLG L+ +A + D+PI S + V ++S V + TR +K Sbjct: 269 RDQLGERLIAQANADFDSPILKPFSNSVVSVKKQNSKKLFVAGDDEVVSRV--NGTRHEK 326 Query: 288 NS-------------SQKNGLSKQKKLATPVHRRNLASNVWMAKGI-----HSSFLSDSG 329 S S + + K K L+ R+ SNVWMA G F + G Sbjct: 327 QSGFCEGRRARLNTKSDEQSMGKTKNLSL----RSRHSNVWMAPGARPQVERKKFCYNEG 382 Query: 330 QREENHRRSPSFPSKR 345 H RS + K+ Sbjct: 383 SY---HNRSSDYVGKK 395 >gi|110632789|ref|YP_672997.1| pseudouridine synthase, Rsu [Mesorhizobium sp. BNC1] gi|110283773|gb|ABG61832.1| Pseudouridine synthase, Rsu [Chelativorans sp. BNC1] Length = 466 Score = 312 bits (800), Expect = 4e-83, Method: Compositional matrix adjust. Identities = 173/374 (46%), Positives = 223/374 (59%), Gaps = 68/374 (18%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +ARAG+ASRR+ E MI RVKVNG +L A NV +D IEVD PL AERT Sbjct: 49 ERIAKRLARAGLASRRDAEAMIEAGRVKVNGRVLSSPAFNVRPSDRIEVDDEPLPAAERT 108 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL+L+HKP G+VTT DP+GR T+FD LP R+I+VGRLDINTEGL+LLTNDGGLAR Sbjct: 109 RLFLFHKPAGVVTTTRDPEGRRTIFDTLPEGLPRLITVGRLDINTEGLILLTNDGGLARA 168 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPST WLR YRVR HG+VD L L+KGI + G+ YG + +LD Q+GSNAW+T+GL Sbjct: 169 LELPSTGWLRRYRVRVHGKVDPKALAELEKGIAVDGVFYGAITASLDRQQGSNAWLTLGL 228 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE+K V +V RLIR+SYGPFQLG L G+ EV + LR+QLG L+E+A Sbjct: 229 REGKNREVKNVLGALGLEVTRLIRVSYGPFQLGDLPEGAVLEVKGRTLRDQLGERLIEQA 288 Query: 254 QVNLDAPI---YSSETL----------------------------------------VRD 270 + +API ++++ + RD Sbjct: 289 GADFEAPIAIPFANKPVRAERRKPEEEKRKTGLEENAGRQERKPANRRKSREEKHEEARD 348 Query: 271 RPNIISEVPDDF---------------------TRMKKNSSQK-NGLSK-QKKLATPVHR 307 R + ++ PDDF R +K+ ++ +G SK + PV R Sbjct: 349 R--LQTKRPDDFKGKGSAAHKGKDQRPPRISKTARPEKSGQERMSGDSKAEGPTRAPVER 406 Query: 308 RNLASNVWMAKGIH 321 R+ ASNVWMA G Sbjct: 407 RSRASNVWMAPGAR 420 >gi|118590702|ref|ZP_01548103.1| pseudouridylate synthase, subunit B protein [Stappia aggregata IAM 12614] gi|118436678|gb|EAV43318.1| pseudouridylate synthase, subunit B protein [Stappia aggregata IAM 12614] Length = 520 Score = 311 bits (798), Expect = 7e-83, Method: Compositional matrix adjust. Identities = 152/258 (58%), Positives = 187/258 (72%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + N +R++KV+AR G+ SRRE E I RV++NG LL AV V D + VDG P Sbjct: 96 AEANDRGERIAKVMARVGLCSRREAEVWIENGRVELNGKLLTTPAVTVTPDDKVVVDGQP 155 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV++VGRLDINTEGLLLLTN Sbjct: 156 LPMRERTRLWLYHKPRGLVTTNKDPEGRPTVFERLPDDLPRVLTVGRLDINTEGLLLLTN 215 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLARVLELP+T WLR YRVR G+V Q L+ LK GI I+G+ YG ++ TLD ++G+N Sbjct: 216 DGGLARVLELPATGWLRRYRVRAFGKVTQPDLDTLKDGIAIEGVLYGAIEATLDKEQGNN 275 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W+TVGLREGKNRE+K+V E VNRLIR+SYGPFQL L G RE+ ++LR+QLG Sbjct: 276 VWMTVGLREGKNREVKRVLEHLGLAVNRLIRLSYGPFQLMDLPEGDVREIRGRVLRDQLG 335 Query: 247 PHLLEEAQVNLDAPIYSS 264 L EEA + DAPI+ + Sbjct: 336 DALAEEAGADFDAPIFHA 353 >gi|328545045|ref|YP_004305154.1| RNA pseudouridylate synthase family protein [polymorphum gilvum SL003B-26A1] gi|326414786|gb|ADZ71849.1| RNA pseudouridylate synthase family protein [Polymorphum gilvum SL003B-26A1] Length = 562 Score = 311 bits (797), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 148/250 (59%), Positives = 184/250 (73%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KV+ARAG+ SRR+ E I RV VNG +LE A+ V D I VDG PL + ERT Sbjct: 87 ERIAKVMARAGLCSRRDAEAWILAGRVAVNGKILESPALTVTYDDEIVVDGQPLPQKERT 146 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLYHKP GLVTT DP+GR TVFD+LP RV++VGRLDINTEGLLLLTNDGGLARV Sbjct: 147 RLWLYHKPRGLVTTARDPEGRPTVFDSLPKDLPRVLAVGRLDINTEGLLLLTNDGGLARV 206 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T WLR YRVR +G+++Q +L+ L GI I GI YG ++ LD Q+G N W+TVGL Sbjct: 207 LELPATGWLRRYRVRAYGKIEQSQLDSLADGIAIDGILYGTIEAVLDKQQGDNVWLTVGL 266 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE+K+V E VNRLIR+S+GPFQL L G RE+ ++LR+QLG L E A Sbjct: 267 REGKNREVKRVLEHLGLSVNRLIRLSFGPFQLADLGEGEVREIRGRVLRDQLGDKLAEAA 326 Query: 254 QVNLDAPIYS 263 + +AP+ + Sbjct: 327 GADFEAPVLT 336 >gi|254473658|ref|ZP_05087054.1| pseudouridylate synthase, subunit B protein [Pseudovibrio sp. JE062] gi|211957370|gb|EEA92574.1| pseudouridylate synthase, subunit B protein [Pseudovibrio sp. JE062] Length = 681 Score = 311 bits (796), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 146/250 (58%), Positives = 186/250 (74%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K +ARAG+ SRRE E I RV VNG +L+ A V D + VDG PL E Sbjct: 35 TGERIAKAMARAGLCSRREAETWIEAGRVSVNGNVLDTPAFTVTQKDKVYVDGKPLPTRE 94 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RTRLWL+HKP G VTT+ DP+GR TVFD LP RV++VGRLDINTEGLLLLTNDGGL+ Sbjct: 95 RTRLWLFHKPRGTVTTNKDPEGRKTVFDILPKDMPRVVTVGRLDINTEGLLLLTNDGGLS 154 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 RV+ELP+T WLR YRVR G+V Q++L+ LK G+ I G+ YG ++ TLDT+KG N W+T+ Sbjct: 155 RVIELPATGWLRRYRVRAFGKVTQEQLDALKDGVAIDGVLYGAIEATLDTEKGDNVWLTI 214 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 GLREGKNRE+K++ E + VNRLIRIS+GPFQLG L G +E+ ++LR+QLG L+ Sbjct: 215 GLREGKNREVKRILEHLDLSVNRLIRISFGPFQLGDLGEGELQEIRGRVLRDQLGERLVS 274 Query: 252 EAQVNLDAPI 261 EA ++ DAPI Sbjct: 275 EADLDFDAPI 284 >gi|307941691|ref|ZP_07657046.1| ribosomal large subunit pseudouridine synthase B [Roseibium sp. TrichSKD4] gi|307775299|gb|EFO34505.1| ribosomal large subunit pseudouridine synthase B [Roseibium sp. TrichSKD4] Length = 380 Score = 311 bits (796), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 156/293 (53%), Positives = 200/293 (68%), Gaps = 12/293 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 F +R++KV+ARAG+ SRRE E IA RV+VNG L+ A+ V + D + VDG PL Sbjct: 13 FEGERIAKVMARAGLCSRREAETWIAAGRVEVNGKKLDTPAITVGAKDKVLVDGNPLPTR 72 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ERTRLWLYHKP GLVTT+ DP+GR TVFD LP RV++VGRLDINTEGLLLLTNDGGL Sbjct: 73 ERTRLWLYHKPRGLVTTNKDPEGRKTVFDRLPKDLPRVLTVGRLDINTEGLLLLTNDGGL 132 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ARVLELP+T WLR YRVR G+V Q L+ L G+ I G+ YG ++ +LD ++G N W+T Sbjct: 133 ARVLELPATGWLRRYRVRAFGKVTQADLDTLADGVAIDGVLYGGIEASLDKEQGDNVWLT 192 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 VGLREGKNRE+K+V E VNRLIR+S+GPFQL + G RE+ ++LR+QLG L Sbjct: 193 VGLREGKNREVKRVLEHLGLSVNRLIRLSFGPFQLQDIAEGEVREIRGRVLRDQLGDKLA 252 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 EEA + DAPI + D+ + KK+ QK G S+ + +++ Sbjct: 253 EEAGADFDAPILNQPKQ------------DEQPKKKKSVGQKGGGSEARWMSS 293 >gi|319403673|emb|CBI77258.1| Pseudouridine synthase [Bartonella rochalimae ATCC BAA-1498] Length = 492 Score = 309 bits (791), Expect = 5e-82, Method: Compositional matrix adjust. Identities = 154/270 (57%), Positives = 191/270 (70%), Gaps = 2/270 (0%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 V E +R++K +ARAG+ASRR+ E MIA R+ VNG ++ A NV +D I VDG P Sbjct: 34 VSEKSESERIAKRLARAGLASRRDAEMMIAAGRIVVNGAVVTTPAFNVTRSDVIMVDGKP 93 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L ERTRLWLY+KPIG VTT+ DP GR TVFDNLP RV+SVGRLDINTEGLLLLTN Sbjct: 94 LPPIERTRLWLYYKPIGFVTTNRDPQGRPTVFDNLPKGMPRVLSVGRLDINTEGLLLLTN 153 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLARVLELP T W+R YRVR HG+V Q L LK GI + GI YG ++ +++ ++GSN Sbjct: 154 DGGLARVLELPLTGWVRKYRVRAHGKVKQSALQDLKNGIAVNGIFYGSIEASIEREQGSN 213 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W++V LREGKNREIK V VNRLIR+SYGPFQL L G+ RE+ ++LR+QLG Sbjct: 214 VWLSVALREGKNREIKNVLGALGLSVNRLIRVSYGPFQLSDLKEGAVRELKGRMLRDQLG 273 Query: 247 PHLLEEAQVNLDAPIYS--SETLVRDRPNI 274 L+ +A + DAPI S + V ++ NI Sbjct: 274 ERLIMQANADFDAPILKPFSNSAVSEKQNI 303 >gi|218674407|ref|ZP_03524076.1| putative ribosomal large subunit pseudouridine synthase B [Rhizobium etli GR56] Length = 277 Score = 309 bits (791), Expect = 5e-82, Method: Compositional matrix adjust. Identities = 147/223 (65%), Positives = 175/223 (78%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+SKV+ARAG+ASRR++ERMI + RV +NG +L+ VNV D IEVDGVP+R ERT Sbjct: 52 ERISKVMARAGVASRRDIERMIMEGRVTLNGRVLDTPVVNVTLADRIEVDGVPIRGIERT 111 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLYHKP GLVTT++DP+GR TVFDNLP RV+S+GRLDINTEGLLLLTNDGGLAR Sbjct: 112 RLWLYHKPAGLVTTNADPEGRPTVFDNLPEELPRVMSIGRLDINTEGLLLLTNDGGLARA 171 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T WLR YRVR HG++DQ+ L+ LK GI + G+ YG ++ TLD +GSN W+T+GL Sbjct: 172 LELPATGWLRRYRVRAHGEIDQEALDKLKDGIAVDGVLYGSIEATLDRTQGSNVWITMGL 231 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 REGKNREIK V VNRLIRISYGPFQLG L G EV Sbjct: 232 REGKNREIKNVLGALGLDVNRLIRISYGPFQLGDLPEGHVIEV 274 >gi|319406590|emb|CBI80232.1| Pseudouridine synthase [Bartonella sp. 1-1C] Length = 493 Score = 306 bits (783), Expect = 4e-81, Method: Compositional matrix adjust. Identities = 177/380 (46%), Positives = 227/380 (59%), Gaps = 35/380 (9%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 V E +R++K +ARAG+ASRR+ E MI R+ VNG ++ A NV +D I VDG P Sbjct: 35 VSEKSESERIAKRLARAGLASRRDAEMMIVAGRIVVNGTVVTTPAFNVSRSDVIMVDGKP 94 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L ERTRLWLY+KPIG VTT+ DP GR TVFDNLP RV+SVGRLDINTEGLLLLTN Sbjct: 95 LPPIERTRLWLYYKPIGFVTTNRDPQGRPTVFDNLPKGMPRVLSVGRLDINTEGLLLLTN 154 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLARVLELP T W+R YRVR HG+V Q L LK GI + GI YG ++ +++ ++GSN Sbjct: 155 DGGLARVLELPLTGWVRKYRVRAHGKVKQSALQDLKNGIAVNGIFYGSIEASIEREQGSN 214 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W++V LREGKNREIK V VNRLIR+SYGPFQL L G+ RE+ ++LR+QLG Sbjct: 215 VWLSVALREGKNREIKNVLGALGLSVNRLIRVSYGPFQLSDLKEGAVRELKGRMLRDQLG 274 Query: 247 PHLLEEAQVNLDAPI---YSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK---- 299 L+ +A + DAPI +S+ +V + S V +D + SS++N L +K Sbjct: 275 ERLIVQANADFDAPILKPFSNSAVVAKQNITKSSVIEDSWIV---SSKENLLYGRKSRFL 331 Query: 300 -------------KLATPVHR----------RNLASNVWMAKGIHSSFL--SDSGQREEN 334 KL H R+ SNVWMA G S + + Sbjct: 332 GHSQVRLSKKIDTKLRAKDHNKGGKEERAFLRSRCSNVWMAPGACPQIARKKSSSDADNH 391 Query: 335 HRRSPSFPSKRSLRRTSAKK 354 + R ++ KRS R K+ Sbjct: 392 YDRKSNWVGKRSTDRGKEKR 411 >gi|83313225|ref|YP_423489.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Magnetospirillum magneticum AMB-1] gi|82948066|dbj|BAE52930.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Magnetospirillum magneticum AMB-1] Length = 348 Score = 303 bits (777), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 143/233 (61%), Positives = 175/233 (75%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +ARAG+ SRRE ER I RV VNG L A V D + VDG+PL + E+T Sbjct: 52 ERIAKRLARAGLCSRREAERWIEDGRVTVNGHRLSSPACVVGPGDIVIVDGIPLSEPEKT 111 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW YHKP GLVTTH DP+GR TVFD+LP RVISVGRLD+N+EGLLLLTNDG LAR Sbjct: 112 RLWRYHKPAGLVTTHKDPEGRPTVFDHLPEGMPRVISVGRLDLNSEGLLLLTNDGELARK 171 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPS WLR YRVR HG+V +D L L+ GI I G+ YG + TLD ++G+NAW++V L Sbjct: 172 LELPSNAWLRRYRVRVHGEVSEDALARLENGITIDGMAYGPISATLDRRQGANAWLSVSL 231 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 REGKNREI++V E+ W V+RLIR+SYGPFQLGTL G+ EV+ K+LREQ+G Sbjct: 232 REGKNREIRRVMEYLGWPVSRLIRVSYGPFQLGTLEEGAADEVAGKVLREQMG 284 >gi|46201216|ref|ZP_00208014.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Magnetospirillum magnetotacticum MS-1] Length = 294 Score = 302 bits (774), Expect = 5e-80, Method: Compositional matrix adjust. Identities = 145/233 (62%), Positives = 175/233 (75%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +ARAG+ SRRE ER I RV VNG L+ A V D I VDG PL + E+T Sbjct: 7 ERIAKRLARAGLCSRREAERWIEMGRVSVNGKTLDSPACVVGPGDIILVDGTPLSEPEKT 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW YHKP GLVTTH DP+GR TVFD+LP RVISVGRLD+N+EGLLLLTNDG LAR Sbjct: 67 RLWRYHKPAGLVTTHKDPEGRPTVFDHLPEGMPRVISVGRLDLNSEGLLLLTNDGELARK 126 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPS WLR YRVR HG+V +D L L+ GI I G+ YG + TLD ++G+NAW++V L Sbjct: 127 LELPSNAWLRRYRVRVHGEVSEDALARLENGITIDGMAYGPISATLDRRQGANAWLSVSL 186 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 REGKNREI++V EF W V+RLIR+SYGPFQLGTL G+ EV+ K+LREQ+G Sbjct: 187 REGKNREIRRVMEFLGWPVSRLIRVSYGPFQLGTLEEGAADEVAGKVLREQMG 239 >gi|319405144|emb|CBI78750.1| Pseudouridine synthase [Bartonella sp. AR 15-3] Length = 459 Score = 301 bits (770), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 173/377 (45%), Positives = 223/377 (59%), Gaps = 29/377 (7%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + E +R++K +ARAG+ASRR+ E MIA R+ VNG ++ NV +D I VD Sbjct: 1 MSEKSESERIAKRLARAGLASRRDAEMMIAAGRIVVNGAVVTTPVFNVTRSDVITVDNKS 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L ERTRLWLY+KP G +TT+ DP GR TVFDNLP RV+SVGRLDINTEGLLLLTN Sbjct: 61 LPPIERTRLWLYYKPTGFITTNRDPQGRPTVFDNLPKDMPRVLSVGRLDINTEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLARVLELP T W+R YRVR HG+V Q L LK GI + GI YG ++ +++ +GSN Sbjct: 121 DGGLARVLELPLTGWVRKYRVRAHGKVKQSALQDLKNGIAVNGIFYGSIEASIERDQGSN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W++V LREGKNREIK V VNRLIR+SYGPFQL L G+ RE+ ++LREQLG Sbjct: 181 VWLSVALREGKNREIKNVLGALGLSVNRLIRVSYGPFQLSDLKEGAVRELKGRVLREQLG 240 Query: 247 PHLLEEAQVNLDAPI---YSSETLVRDRPNIISEVPDD-----------FTRMKKNSSQK 292 L+ +A N DAPI +S+ T+V + + + V D + + +K S Sbjct: 241 ERLILQANANFDAPILKPFSNSTVVEKQNSTKAPVIKDSWIISSKESLLYGKKRKFSGHS 300 Query: 293 NG-LSKQ--KKL----------ATPVHRRNLASNVWMAKGIHSSFL--SDSGQREENHRR 337 LSK+ +KL R+ SNVWMA G S +H R Sbjct: 301 QAQLSKKIDEKLRGKDQNKGGKEERAFLRSRCSNVWMAPGACPQITRKKSSSNANNHHDR 360 Query: 338 SPSFPSKRSLRRTSAKK 354 ++ K+S R K+ Sbjct: 361 KSNWIDKKSTDRGKEKR 377 >gi|319898380|ref|YP_004158473.1| Pseudouridine synthase [Bartonella clarridgeiae 73] gi|319402344|emb|CBI75883.1| Pseudouridine synthase [Bartonella clarridgeiae 73] Length = 496 Score = 300 bits (768), Expect = 2e-79, Method: Compositional matrix adjust. Identities = 167/346 (48%), Positives = 212/346 (61%), Gaps = 39/346 (11%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + E +R++K +ARAG+ASRR+ E MI R+ VNG ++ NV +D I VDG P Sbjct: 34 MSEKSESERIAKRLARAGVASRRDAEMMIFAGRIVVNGAIIATPVFNVTRSDVITVDGKP 93 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L ERTRLWLYHKP+G VTT+ DP GR TVFDNLP RV+SVGRLD+NTEGLLLLTN Sbjct: 94 LPPIERTRLWLYHKPVGFVTTNRDPQGRPTVFDNLPKDMPRVLSVGRLDMNTEGLLLLTN 153 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLARVLELP T W+R YRVR HG+V Q L LK GI + GI YG ++ +++ ++GSN Sbjct: 154 DGGLARVLELPLTGWVRKYRVRAHGKVKQSALQDLKNGIAVNGIFYGSIEASIEREQGSN 213 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W++V LREGKNREIK V VNRLIR+SYGPFQL L G+ RE+ ++LR+QLG Sbjct: 214 VWLSVALREGKNREIKNVLGALGLSVNRLIRVSYGPFQLSDLKEGAVRELKGRMLRDQLG 273 Query: 247 PHLLEEAQVNLDAPIYS--SETLVRDRPNIISEVPDDFTRMKKNS---SQKNGLSKQKKL 301 L+ +A + +API S + V ++ N S P + KNS S+K + + KK Sbjct: 274 ERLILQANADFNAPIIKPFSNSAVIEKQN--STKPP----VMKNSWIVSRKESILRGKKG 327 Query: 302 ATPVHR----------------------------RNLASNVWMAKG 319 P H R+ SNVWMA G Sbjct: 328 RFPGHSQVRLSKKFDEKLRVKDQNKSGKEERVFLRSRCSNVWMAPG 373 >gi|188583517|ref|YP_001926962.1| RNA-binding S4 domain protein [Methylobacterium populi BJ001] gi|179347015|gb|ACB82427.1| RNA-binding S4 domain protein [Methylobacterium populi BJ001] Length = 577 Score = 299 bits (766), Expect = 4e-79, Method: Compositional matrix adjust. Identities = 140/251 (55%), Positives = 180/251 (71%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K IARAGIASRR+ E MI RV +NG +L A+NV +D I +DG PL ERT Sbjct: 26 ERIAKAIARAGIASRRDAEAMIEAGRVSLNGKILTSPAINVTESDRIAIDGEPLPARERT 85 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWL HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGLLLLTNDGGLA+V Sbjct: 86 RLWLLHKPRGVVTTARDPEGRQTVFDGLPDDLPRVVAIGRLDINTEGLLLLTNDGGLAKV 145 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P T WLR YRVR G + Q L+ LKKG+ + G+ YG ++ TLD +G N W+T+GL Sbjct: 146 IAHPDTGWLRRYRVRAFGDITQADLDRLKKGVTVDGMEYGPVEATLDRVQGDNLWLTLGL 205 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE+K++ E VNRLIR+S+GPFQLG L G E+ K+L+EQLG L E+A Sbjct: 206 REGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEIRTKVLKEQLGKSLAEQA 265 Query: 254 QVNLDAPIYSS 264 V+ ++P+ + Sbjct: 266 GVDFESPVREA 276 >gi|218512381|ref|ZP_03509221.1| probable RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli 8C-3] Length = 244 Score = 299 bits (765), Expect = 6e-79, Method: Compositional matrix adjust. Identities = 141/213 (66%), Positives = 166/213 (77%) Query: 52 VNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 VNV D IEVDG+P+R ERTRLWLYHKP GLVTT++DP+GR TVFDNLP RV+S+ Sbjct: 20 VNVTLADRIEVDGMPIRGIERTRLWLYHKPAGLVTTNADPEGRPTVFDNLPEELPRVMSI 79 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDINTEGLLLLTNDGGLAR LELP+T WLR YRVR HG++DQ+ L+ LK GI + G+ Sbjct: 80 GRLDINTEGLLLLTNDGGLARALELPATGWLRRYRVRAHGEIDQEALDKLKDGIAVDGVL 139 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 YG ++ TLD +GSN W+T+GLREGKNREIK V VNRLIRISYGPFQLG L G Sbjct: 140 YGSIEATLDRTQGSNVWITMGLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGDLPEG 199 Query: 232 STREVSKKILREQLGPHLLEEAQVNLDAPIYSS 264 EV + LR+QLGP L+EEA+ N DAPIY++ Sbjct: 200 HVIEVRGRTLRDQLGPRLIEEAKANFDAPIYNA 232 >gi|146342900|ref|YP_001207948.1| putative pseudouridine synthase, Rsu:RNA-binding S4:pseudouridine synthase [Bradyrhizobium sp. ORS278] gi|146195706|emb|CAL79733.1| Putative Pseudouridine synthase, Rsu:RNA-binding S4:Pseudouridine synthase [Bradyrhizobium sp. ORS278] Length = 683 Score = 299 bits (765), Expect = 6e-79, Method: Compositional matrix adjust. Identities = 141/253 (55%), Positives = 185/253 (73%), Gaps = 1/253 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++KV+ARAG+ASRR+ E M+ Q RV VNG ++ A++V D I+VDG PL + E Sbjct: 364 TGERIAKVLARAGLASRRDAEEMVTQGRVSVNGRIINSPALDVTENDEIKVDGAPLPERE 423 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RTRL+LYHKP GL+TTHSDP+GR TVFDNLP R+IS+GRLD NTEGLLLLTNDGGLA Sbjct: 424 RTRLFLYHKPRGLMTTHSDPEGRPTVFDNLPEGLPRLISIGRLDFNTEGLLLLTNDGGLA 483 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 RVLELP T W R YRVR HG++ Q +L+ L G+ + G+ YG ++ TL+ +G+N W+ V Sbjct: 484 RVLELPDTGWTRRYRVRAHGEITQGQLDQLAAGVEVDGVKYGPIEATLERDQGANVWLVV 543 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 +REGKNRE++ V +VNRLIR+SYGPFQL L G +EV ++LREQLG ++ Sbjct: 544 AIREGKNREVRNVLAHLGLEVNRLIRVSYGPFQLLELPEGEVQEVKTRVLREQLGEKVIA 603 Query: 252 EAQVNLDAPIYSS 264 ++ +L P SS Sbjct: 604 QSGADL-GPAGSS 615 >gi|170744111|ref|YP_001772766.1| RNA-binding S4 domain-containing protein [Methylobacterium sp. 4-46] gi|168198385|gb|ACA20332.1| RNA-binding S4 domain protein [Methylobacterium sp. 4-46] Length = 609 Score = 298 bits (762), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 142/253 (56%), Positives = 182/253 (71%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E P+R++KV+ARAG+ASRR+ E MI + RV +NG L AV V D I VDG PL Sbjct: 35 ETAEPERIAKVMARAGVASRRDAEAMILEGRVSLNGETLTTPAVTVGPGDRIVVDGEPLP 94 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ERTRLW++HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGLLLLTNDG Sbjct: 95 VRERTRLWIFHKPRGVVTTARDPEGRQTVFDILPEDLPRVVAIGRLDINTEGLLLLTNDG 154 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GLA+V+ P T WLR YRVR +G VDQ L+ L+ G+ I G+ YG ++ ++D Q+G N W Sbjct: 155 GLAKVIAHPETGWLRRYRVRAYGDVDQAALDRLRGGVTIDGMEYGPVEASIDRQQGDNVW 214 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +T+GLREGKNRE+K++ E VNRLIR+S+GPFQLG L G EV K+L+EQLG Sbjct: 215 LTLGLREGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEVRTKVLKEQLGRS 274 Query: 249 LLEEAQVNLDAPI 261 L E+A V+ +P+ Sbjct: 275 LAEQAGVDFTSPV 287 >gi|170746519|ref|YP_001752779.1| RNA-binding S4 domain-containing protein [Methylobacterium radiotolerans JCM 2831] gi|170653041|gb|ACB22096.1| RNA-binding S4 domain protein [Methylobacterium radiotolerans JCM 2831] Length = 601 Score = 298 bits (762), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 140/248 (56%), Positives = 178/248 (71%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +ARAGIASRR+ E MI RV VNG L A NV D I +DG P+ ER+ Sbjct: 86 ERIAKAMARAGIASRRDAETMIVAGRVSVNGETLTSPARNVTENDRILIDGEPMPSRERS 145 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW++HKP G+VTT DP+GR TVFD LP RV++VGRLDINTEGLLLLTNDGGLA+V Sbjct: 146 RLWIFHKPRGVVTTARDPEGRQTVFDVLPEDLPRVVAVGRLDINTEGLLLLTNDGGLAKV 205 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P T WLR YRVR HG DQ +L+ L KG+ I G+ YG ++ TLD +G N W+T+GL Sbjct: 206 IAHPDTGWLRRYRVRAHGDTDQAQLDRLAKGVTIDGMEYGPVEATLDRVQGDNVWLTLGL 265 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE+K++ E VNRLIR+S+GPFQLG L G EV ++L++QLG L E+A Sbjct: 266 REGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEVRTRVLKDQLGKSLAEQA 325 Query: 254 QVNLDAPI 261 V+ D+P+ Sbjct: 326 GVDFDSPV 333 >gi|27382606|ref|NP_774135.1| hypothetical protein bll7495 [Bradyrhizobium japonicum USDA 110] gi|27355778|dbj|BAC52760.1| bll7495 [Bradyrhizobium japonicum USDA 110] Length = 696 Score = 298 bits (762), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 138/253 (54%), Positives = 180/253 (71%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +ARAG+ASRR+ E M+ Q RV VNG ++ A+++ D + VDG PL ERT Sbjct: 377 ERIAKALARAGLASRRDAEEMVTQGRVAVNGRVINSPALDITPNDVVTVDGKPLPPRERT 436 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL+LYHKP GL+TTH DP+GR TVFDNLP R+ISVGRLD NTEGLLLLTNDGGLAR Sbjct: 437 RLFLYHKPRGLMTTHDDPEGRPTVFDNLPEGLPRLISVGRLDFNTEGLLLLTNDGGLART 496 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP T WLR YRVR HG V Q +L+ LK GI ++G+ YG + TL+ +G+N W+ + Sbjct: 497 LELPDTGWLRRYRVRAHGDVTQAQLDELKAGIEVEGVKYGPIDATLERDQGANVWLVFAI 556 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE++ V +VNRLIR+SYGPFQLG + G E+ ++LREQLG ++E++ Sbjct: 557 REGKNREVRNVCAHLGLEVNRLIRVSYGPFQLGEVPEGQVEEIKSRVLREQLGDKVIEKS 616 Query: 254 QVNLDAPIYSSET 266 D P ++ T Sbjct: 617 GAQFDVPQKAAAT 629 >gi|13476819|ref|NP_108388.1| hypothetical protein mlr8253 [Mesorhizobium loti MAFF303099] gi|14027580|dbj|BAB53849.1| mlr8253 [Mesorhizobium loti MAFF303099] Length = 546 Score = 297 bits (760), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 141/248 (56%), Positives = 185/248 (74%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +ARAG+ASRR+ E +IA RVKVNG L A NVM D I +DG+ + ERT Sbjct: 98 ERIAKRLARAGLASRRDAEELIAAGRVKVNGRALTSPAFNVMPGDIIHLDGMEIPPIERT 157 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL+L+HKP G+VTT+ DP+GR TVFD LP+ R++++GRLDINTEGLLLLTNDGGL+RV Sbjct: 158 RLFLFHKPAGVVTTNRDPEGRKTVFDVLPAELPRLMTIGRLDINTEGLLLLTNDGGLSRV 217 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T WLR YRVR HG+V++ L L++GI + G+ YG ++ +LD ++GSNAW+T+GL Sbjct: 218 LELPATGWLRRYRVRVHGKVEESALAGLREGIAVDGVFYGAIEASLDREQGSNAWLTIGL 277 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE+K + V RLIRISYGPFQL L G E+ ++LR+QLG L+EE+ Sbjct: 278 REGKNREVKNILGALGLDVTRLIRISYGPFQLEDLPEGHVLEIKGRVLRDQLGERLVEES 337 Query: 254 QVNLDAPI 261 N DA I Sbjct: 338 GANFDAEI 345 >gi|158424014|ref|YP_001525306.1| pseudouridine synthase [Azorhizobium caulinodans ORS 571] gi|158330903|dbj|BAF88388.1| pseudouridine synthase [Azorhizobium caulinodans ORS 571] Length = 717 Score = 296 bits (759), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 142/248 (57%), Positives = 181/248 (72%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KVIARAG+ SRRE+E I RV VNG +L A V + D I VDG PL + ERT Sbjct: 30 ERIAKVIARAGLGSRREIEEWITAGRVSVNGEVLASPAFTVTAEDEIRVDGEPLPERERT 89 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL+LYHKPIG+VTT+ DP+GR+T+F+ LP R++SVGRLDIN+EGLLLLTNDGGLARV Sbjct: 90 RLFLYHKPIGVVTTNRDPEGRTTLFELLPGHLPRLVSVGRLDINSEGLLLLTNDGGLARV 149 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP T WLR YRVR G VDQ +L+ L KGIV++G+ YG ++ LD +G+N W+TV L Sbjct: 150 LELPETGWLRRYRVRAKGTVDQAQLDALIKGIVVEGVEYGPIEAVLDRVQGANVWITVAL 209 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE++ V +VNRLIRISYGPFQLG + G EV +ILR+Q+G + A Sbjct: 210 REGKNREVRNVLGALGLQVNRLIRISYGPFQLGEIAEGGVEEVRTRILRDQIGNDIAAAA 269 Query: 254 QVNLDAPI 261 + + P+ Sbjct: 270 GADFNGPL 277 >gi|148253231|ref|YP_001237816.1| putative pseudouridine synthase, Rsu [Bradyrhizobium sp. BTAi1] gi|146405404|gb|ABQ33910.1| Putative Pseudouridine synthase, Rsu [Bradyrhizobium sp. BTAi1] Length = 690 Score = 296 bits (759), Expect = 3e-78, Method: Compositional matrix adjust. Identities = 137/243 (56%), Positives = 181/243 (74%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV+ARAG+ASRR+ E M+ Q RV VNG ++ A++V D I+VDG PL + ERTR Sbjct: 375 RIAKVLARAGLASRRDAEEMVTQGRVTVNGRVINSPALDVTENDVIQVDGAPLPQRERTR 434 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L+LYHKP GL+TTHSDP+GR TVFDNLP R+IS+GRLD NTEGLLLLTNDGGLARVL Sbjct: 435 LFLYHKPRGLMTTHSDPEGRPTVFDNLPEGLPRLISIGRLDFNTEGLLLLTNDGGLARVL 494 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELP T W R YRVR HG++ Q +L+ L G+ + G+ YG ++ TL+ +G+N W+ V +R Sbjct: 495 ELPDTGWTRRYRVRAHGEITQAQLDQLAAGVEVDGVKYGPIEATLERDQGANVWLIVAIR 554 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNRE++ V + +VNRLIR+SYGPFQL L G +EV ++LREQLG ++ ++ Sbjct: 555 EGKNREVRNVLAYLGLEVNRLIRVSYGPFQLLELPEGEVQEVKTRVLREQLGEKVIAQSG 614 Query: 255 VNL 257 +L Sbjct: 615 ADL 617 >gi|260463253|ref|ZP_05811454.1| RNA-binding S4 domain protein [Mesorhizobium opportunistum WSM2075] gi|259030843|gb|EEW32118.1| RNA-binding S4 domain protein [Mesorhizobium opportunistum WSM2075] Length = 607 Score = 296 bits (758), Expect = 3e-78, Method: Compositional matrix adjust. Identities = 146/273 (53%), Positives = 196/273 (71%), Gaps = 11/273 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K +ARAG+ASRR+ E +IA RVKVNG +L A NVM D I +DG+ + ERTRL Sbjct: 163 IAKRLARAGLASRRDAEDLIAAGRVKVNGRVLASPAFNVMPGDIIHLDGMEIPPIERTRL 222 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +L+HKP G+VTT+ DP+GR TVFD LP+ R++++GRLDINTEGLLLLTNDGGL+RVLE Sbjct: 223 FLFHKPAGVVTTNRDPEGRKTVFDVLPAELPRLMTIGRLDINTEGLLLLTNDGGLSRVLE 282 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 LP+T WLR YRVR HG+V++ L L++GI + G+ YG ++ +LD ++GSNAW+T+GLRE Sbjct: 283 LPATGWLRRYRVRVHGKVEESALAGLREGIAVDGVFYGAIEASLDREQGSNAWLTIGLRE 342 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQV 255 GKNRE+K + V RLIRISYGPFQL L G E+ ++LR+QLG L+EE+ Sbjct: 343 GKNREVKNILGALGLDVTRLIRISYGPFQLEDLPEGHVLEIKGRVLRDQLGERLVEESGA 402 Query: 256 NLDAPI---YSSETLVR--------DRPNIISE 277 N DA I +S++ + R +RP I+ E Sbjct: 403 NFDAEISKPFSNKPVRRTEPRQEEAERPKIMRE 435 >gi|218532076|ref|YP_002422892.1| RNA-binding S4 domain protein [Methylobacterium chloromethanicum CM4] gi|218524379|gb|ACK84964.1| RNA-binding S4 domain protein [Methylobacterium chloromethanicum CM4] Length = 674 Score = 296 bits (757), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 139/251 (55%), Positives = 180/251 (71%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K IARAGIASRR+ E +I RV +NG +L A+NV +D I VD PL ERT Sbjct: 22 ERIAKAIARAGIASRRDAEALIEAGRVTLNGKVLTSPAINVTDSDRITVDDEPLPARERT 81 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWL HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGLLLLTNDGGLA+V Sbjct: 82 RLWLLHKPRGVVTTARDPEGRPTVFDGLPEELPRVVAIGRLDINTEGLLLLTNDGGLAKV 141 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P T WLR YRVR G V Q L+ LKKG+ + G+ YG ++ TLD +G N W+T+GL Sbjct: 142 IAHPDTGWLRRYRVRAFGDVTQPDLDKLKKGLTVDGMEYGPIEATLDRAQGDNVWLTLGL 201 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE+K++ E VNRLIR+S+GPFQLG L G E+ K+L++QLG +L E+A Sbjct: 202 REGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEIRTKVLKDQLGKNLAEQA 261 Query: 254 QVNLDAPIYSS 264 V+ ++P+ + Sbjct: 262 GVDFESPVRET 272 >gi|254563182|ref|YP_003070277.1| hypothetical protein METDI4845 [Methylobacterium extorquens DM4] gi|254270460|emb|CAX26460.1| conserved hypothetical protein; putative pseudouridine synthase-like domain [Methylobacterium extorquens DM4] Length = 669 Score = 296 bits (757), Expect = 5e-78, Method: Compositional matrix adjust. Identities = 139/251 (55%), Positives = 180/251 (71%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K IARAGIASRR+ E +I RV +NG +L A+NV +D I VD PL ERT Sbjct: 22 ERIAKAIARAGIASRRDAEALIEAGRVTLNGKVLTSPAINVTDSDRITVDDEPLPARERT 81 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWL HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGLLLLTNDGGLA+V Sbjct: 82 RLWLLHKPRGVVTTARDPEGRPTVFDGLPEELPRVVAIGRLDINTEGLLLLTNDGGLAKV 141 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P T WLR YRVR G V Q L+ LKKG+ + G+ YG ++ TLD +G N W+T+GL Sbjct: 142 IAHPDTGWLRRYRVRAFGDVTQPDLDKLKKGLTVDGMEYGPIEATLDRAQGDNVWLTLGL 201 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE+K++ E VNRLIR+S+GPFQLG L G E+ K+L++QLG +L E+A Sbjct: 202 REGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEIRTKVLKDQLGKNLAEQA 261 Query: 254 QVNLDAPIYSS 264 V+ ++P+ + Sbjct: 262 GVDFESPVRET 272 >gi|220926361|ref|YP_002501663.1| RNA-binding S4 domain-containing protein [Methylobacterium nodulans ORS 2060] gi|219950968|gb|ACL61360.1| RNA-binding S4 domain protein [Methylobacterium nodulans ORS 2060] Length = 576 Score = 295 bits (756), Expect = 5e-78, Method: Compositional matrix adjust. Identities = 142/247 (57%), Positives = 181/247 (73%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KVIARAGIASRR+ E MI + RV +NG L AVNV D I VDG PL ERTR Sbjct: 36 RIAKVIARAGIASRRDAEAMILEGRVTLNGETLTSPAVNVGPNDRITVDGEPLPVRERTR 95 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW++HKP G+VTT DP+GR TVF+ LP RV++VGRLDINTEGLLLLTNDGGLA+V+ Sbjct: 96 LWIFHKPRGVVTTARDPEGRQTVFEILPEDLPRVVAVGRLDINTEGLLLLTNDGGLAKVI 155 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P T WLR YRVR +G +DQ +L+ L+ G+ I G+ YG ++ ++D Q+G N W+T+GLR Sbjct: 156 AHPETGWLRRYRVRAYGDIDQAQLDRLRDGVTIDGMEYGPIEASIDRQQGDNVWLTLGLR 215 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNRE+K++ E VNRLIR+S+GPFQLG L G EV K+L+EQLG L E+A Sbjct: 216 EGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEVRTKVLKEQLGTALAEQAG 275 Query: 255 VNLDAPI 261 V+ +P+ Sbjct: 276 VDFTSPV 282 >gi|319784272|ref|YP_004143748.1| RNA-binding S4 domain protein [Mesorhizobium ciceri biovar biserrulae WSM1271] gi|317170160|gb|ADV13698.1| RNA-binding S4 domain protein [Mesorhizobium ciceri biovar biserrulae WSM1271] Length = 670 Score = 295 bits (756), Expect = 6e-78, Method: Compositional matrix adjust. Identities = 138/244 (56%), Positives = 182/244 (74%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K +ARAG+ASRR+ E +IA RVKVNG L A NVM D I +DG+ + ERTRL Sbjct: 224 IAKRLARAGLASRRDAEELIAAGRVKVNGRALTSPAFNVMPDDIIHLDGMEIPPIERTRL 283 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +L+HKP G+VTT+ DP+GR TVFD LP+ R++++GRLDINTEGLLLLTNDGGL+RVLE Sbjct: 284 FLFHKPAGVVTTNRDPEGRKTVFDVLPAELPRLMTIGRLDINTEGLLLLTNDGGLSRVLE 343 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 LP+T WLR YRVR HG+V++ L L++GI + G+ YG ++ TLD ++G+NAW+T+GLRE Sbjct: 344 LPATGWLRRYRVRVHGKVEESALAGLREGIAVDGVFYGAIEATLDREQGTNAWLTIGLRE 403 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQV 255 GKNRE++ + V RLIRISYGPFQL L G E+ ++LR+QLG L+EE+ Sbjct: 404 GKNREVRNILGSLGLDVTRLIRISYGPFQLDDLAEGHVLEIKGRVLRDQLGERLVEESGA 463 Query: 256 NLDA 259 N DA Sbjct: 464 NFDA 467 >gi|163853261|ref|YP_001641304.1| RNA-binding S4 domain-containing protein [Methylobacterium extorquens PA1] gi|163664866|gb|ABY32233.1| RNA-binding S4 domain protein [Methylobacterium extorquens PA1] Length = 669 Score = 295 bits (755), Expect = 7e-78, Method: Compositional matrix adjust. Identities = 139/251 (55%), Positives = 179/251 (71%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K IARAGIASRR+ E +I RV +NG +L A+NV D I VD PL ERT Sbjct: 22 ERIAKAIARAGIASRRDAEALIEAGRVTLNGKVLTSPAINVTDADRITVDDEPLPARERT 81 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWL HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGLLLLTNDGGLA+V Sbjct: 82 RLWLLHKPRGVVTTARDPEGRPTVFDGLPEELPRVVAIGRLDINTEGLLLLTNDGGLAKV 141 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P T WLR YRVR G V Q L+ LKKG+ + G+ YG ++ TLD +G N W+T+GL Sbjct: 142 IAHPDTGWLRRYRVRAFGDVTQPDLDKLKKGLTVDGMEYGPIEATLDRAQGDNVWLTLGL 201 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE+K++ E VNRLIR+S+GPFQLG L G E+ K+L++QLG +L E+A Sbjct: 202 REGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEIRTKVLKDQLGKNLAEQA 261 Query: 254 QVNLDAPIYSS 264 V+ ++P+ + Sbjct: 262 GVDFESPVRET 272 >gi|84501543|ref|ZP_00999715.1| RNA pseudouridylate synthase family protein [Oceanicola batsensis HTCC2597] gi|84390164|gb|EAQ02723.1| RNA pseudouridylate synthase family protein [Oceanicola batsensis HTCC2597] Length = 331 Score = 295 bits (755), Expect = 7e-78, Method: Compositional matrix adjust. Identities = 147/264 (55%), Positives = 186/264 (70%), Gaps = 10/264 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV+ARAG+ASRRE ERMIA+ R+ V+G +++ A+NV + IEVDG PL E R Sbjct: 13 RIAKVLARAGVASRREAERMIAEGRISVDGTVIDSPALNVTARARIEVDGRPLDAPEPAR 72 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LWLYHKP GLVTTH D GR T+FD+LP RV+SVGRLD+N+EGLLLLTNDGG+ R L Sbjct: 73 LWLYHKPPGLVTTHKDDQGRPTIFDDLPEDMPRVMSVGRLDLNSEGLLLLTNDGGIKRRL 132 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR G L L++G+V+ + MQVTLD Q+G+NAW+TVGLR Sbjct: 133 ELPSTGWLRRYRVRVKGTPTDATLAPLREGVVVDREIFQPMQVTLDRQQGANAWLTVGLR 192 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNREI++ E VNRLIRISYGPFQLG L G+ EV ++++R+QLG L++A+ Sbjct: 193 EGKNREIRRAMESIGLSVNRLIRISYGPFQLGPLAPGAVEEVRRRVMRDQLG---LDDAE 249 Query: 255 VNLDAPIYS-------SETLVRDR 271 + P S ET RD+ Sbjct: 250 ADAPRPKRSRAGQRTGPETKTRDK 273 >gi|240140668|ref|YP_002965148.1| hypothetical protein MexAM1_META1p4234 [Methylobacterium extorquens AM1] gi|240010645|gb|ACS41871.1| conserved hypothetical protein with putative pseudouridine synthase-like domain [Methylobacterium extorquens AM1] Length = 669 Score = 295 bits (755), Expect = 7e-78, Method: Compositional matrix adjust. Identities = 139/251 (55%), Positives = 180/251 (71%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K IARAGIASRR+ E +I RV +NG +L A+NV +D I VD PL ERT Sbjct: 22 ERIAKAIARAGIASRRDAEALIEAGRVTLNGKVLTSPAINVTDSDRITVDDEPLPARERT 81 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWL HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGLLLLTNDGGLA+V Sbjct: 82 RLWLLHKPRGVVTTARDPEGRPTVFDGLPEELPRVVAIGRLDINTEGLLLLTNDGGLAKV 141 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P T WLR YRVR G V Q L+ LKKG+ + G+ YG ++ TLD +G N W+T+GL Sbjct: 142 IAHPDTGWLRRYRVRAFGDVTQPDLDKLKKGLTVDGMEYGPIEATLDRAQGDNVWLTLGL 201 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE+K++ E VNRLIR+S+GPFQLG L G E+ K+L++QLG +L E+A Sbjct: 202 REGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEIRTKVLKDQLGKNLAEQA 261 Query: 254 QVNLDAPIYSS 264 V+ ++P+ + Sbjct: 262 GVDFESPVRET 272 >gi|92118637|ref|YP_578366.1| pseudouridine synthase, Rsu [Nitrobacter hamburgensis X14] gi|91801531|gb|ABE63906.1| Pseudouridine synthase, Rsu [Nitrobacter hamburgensis X14] Length = 687 Score = 295 bits (754), Expect = 9e-78, Method: Compositional matrix adjust. Identities = 139/255 (54%), Positives = 179/255 (70%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++KV+ARAG+ASRR+ E + Q RV VNG ++ A++V S D I +DG PL + E Sbjct: 358 TGERIAKVMARAGVASRRDAEEWVTQGRVAVNGRVINSPALDVTSRDVITIDGQPLPERE 417 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RTRL+LYHKP GL+TTH+DP+GR TVFDNLP R+IS+GRLD NTEGLLLLTNDGGLA Sbjct: 418 RTRLFLYHKPRGLMTTHADPEGRPTVFDNLPEGLPRLISIGRLDFNTEGLLLLTNDGGLA 477 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 R LELP T WLR YRVR HG+V Q +L+ LK G+ + G+ YG + TL+ +G+N W+ Sbjct: 478 RALELPDTGWLRRYRVRAHGEVTQAQLDALKNGVEVDGVKYGSIDATLERDQGANVWLVF 537 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 +REGKNRE++ V +VNRLIR+SYGPFQL + G EV ++LREQLG + Sbjct: 538 AIREGKNREVRNVMAHLGLEVNRLIRVSYGPFQLAEIAEGQVEEVKTRVLREQLGDKIAA 597 Query: 252 EAQVNLDAPIYSSET 266 A N +ET Sbjct: 598 LANANFAGTAAEAET 612 >gi|75676734|ref|YP_319155.1| pseudouridine synthase, Rsu [Nitrobacter winogradskyi Nb-255] gi|74421604|gb|ABA05803.1| pseudouridine synthase, Rsu [Nitrobacter winogradskyi Nb-255] Length = 680 Score = 294 bits (753), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 138/233 (59%), Positives = 174/233 (74%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV+K+I+RAG+ASRR+ E M+ Q RV VNG ++ A++V S D + VDG PL + ERT Sbjct: 354 ERVAKMISRAGLASRRDAEEMVTQGRVAVNGRVINSPALDVTSRDVVTVDGQPLPERERT 413 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL+LYHKP GL+TTH+DP+GR TVFD+LP RVISVGRLD NTEGLLLLTNDGGLAR Sbjct: 414 RLFLYHKPRGLMTTHADPEGRPTVFDHLPEGLPRVISVGRLDFNTEGLLLLTNDGGLARA 473 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP T WLR YRVR HG+V Q +L+ LK G+ + G+ YG + TL+ +G+N W+T + Sbjct: 474 LELPDTGWLRRYRVRAHGEVTQAQLDALKNGVEVDGVKYGSIDATLERDQGANVWLTFAI 533 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 REGKNRE++ V +VNRLIRISYGPFQL + G EV ++LREQLG Sbjct: 534 REGKNREVRNVMAHLGLEVNRLIRISYGPFQLAEIAEGEVEEVKTRVLREQLG 586 >gi|323135793|ref|ZP_08070876.1| RNA-binding S4 domain protein [Methylocystis sp. ATCC 49242] gi|322398884|gb|EFY01403.1| RNA-binding S4 domain protein [Methylocystis sp. ATCC 49242] Length = 640 Score = 294 bits (752), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 142/255 (55%), Positives = 179/255 (70%), Gaps = 3/255 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +F +R++K +ARAG+ SRRE E+ IA+ RV VNG++L AA NV D I +DG P+++ Sbjct: 83 SFEGERIAKAMARAGVCSRREAEQWIAEGRVAVNGVVLPNAAFNVKEGDRITIDGAPMQE 142 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTN 126 ERTRL+L+HKP G VTT DP+GR TVF L RV+SVGRLDINTEGLLLLTN Sbjct: 143 RERTRLFLFHKPAGYVTTAHDPEGRPTVFAFLEERHGELPRVVSVGRLDINTEGLLLLTN 202 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLAR LELP+T W R YRVR HG DQ +L+ L+KG+ I G+ Y ++ L+ +G+N Sbjct: 203 DGGLARTLELPATGWTRRYRVRVHGDTDQAQLDELRKGVTIDGVVYAPIEARLERVQGAN 262 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 AW+ + L EGKNREIK+V V RLIR+SYGPFQLG L G+ EV KILREQLG Sbjct: 263 AWIAMSLTEGKNREIKRVMAHLGLDVTRLIRVSYGPFQLGELAEGAVEEVKLKILREQLG 322 Query: 247 PHLLEEAQVNLDAPI 261 L E A V+ +P+ Sbjct: 323 KSLAELAGVDFSSPV 337 >gi|259416443|ref|ZP_05740363.1| pseudouridine synthase, Rsu [Silicibacter sp. TrichCH4B] gi|259347882|gb|EEW59659.1| pseudouridine synthase, Rsu [Silicibacter sp. TrichCH4B] Length = 410 Score = 293 bits (751), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 136/232 (58%), Positives = 177/232 (76%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV++RAG+ASRRE ERMI + RV VNG +++ A+NV +D I VDG PL +AE R Sbjct: 63 RIAKVLSRAGVASRREAERMITEGRVAVNGAVIDSPALNVTGSDRIVVDGTPLPEAEAPR 122 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LWLY+KP GLVTT+SD GR T+FD LP RV++VGRLD+N+EGLLLLTNDGG+ R L Sbjct: 123 LWLYYKPTGLVTTNSDEKGRRTIFDELPEDLPRVMTVGRLDLNSEGLLLLTNDGGVKRQL 182 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR +G+ + ++L+KG+VI G + M V LD Q+G+NAW+T+GLR Sbjct: 183 ELPSTGWLRRYRVRINGRPQDHEFDVLRKGVVIDGERFQPMTVNLDRQQGANAWLTIGLR 242 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNREI++ E + VNRL+RISYGPFQLGTL G E+ +++R+QLG Sbjct: 243 EGKNREIRRAMEEVGYPVNRLLRISYGPFQLGTLKEGEVEELRPRVVRDQLG 294 >gi|85717175|ref|ZP_01048133.1| pseudouridine synthase, Rsu [Nitrobacter sp. Nb-311A] gi|85696008|gb|EAQ33908.1| pseudouridine synthase, Rsu [Nitrobacter sp. Nb-311A] Length = 635 Score = 293 bits (751), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 139/243 (57%), Positives = 177/243 (72%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV+KVI+RAG+ASRR+ E + Q RV VNG ++ A++V S D I VDG PL + ERT Sbjct: 309 ERVAKVISRAGLASRRDAEEWVTQGRVAVNGRVINSPALDVTSRDVITVDGEPLPERERT 368 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL+LYHKP GL+TTH+DP+GR TVFD+LP R+ISVGRLD NTEGLLLLTNDGGLAR Sbjct: 369 RLFLYHKPRGLMTTHADPEGRPTVFDHLPDGLPRLISVGRLDFNTEGLLLLTNDGGLARA 428 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP T WLR YRVR HG+V Q +L+ LK G+ ++G+ YG + TL+ +G+N W+T + Sbjct: 429 LELPDTGWLRRYRVRAHGEVTQPQLDALKNGVEVEGVKYGSIDATLERDQGANVWLTFAI 488 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE++ V +VNRLIRISYGPFQL + G EV ++LREQ G + A Sbjct: 489 REGKNREVRNVMAHLGLEVNRLIRISYGPFQLAEIAEGEVEEVKTRVLREQFGDRIAALA 548 Query: 254 QVN 256 +N Sbjct: 549 NMN 551 >gi|310816564|ref|YP_003964528.1| ribosomal large subunit pseudouridine synthase B [Ketogulonicigenium vulgare Y25] gi|308755299|gb|ADO43228.1| ribosomal large subunit pseudouridine synthase B [Ketogulonicigenium vulgare Y25] Length = 649 Score = 293 bits (749), Expect = 3e-77, Method: Compositional matrix adjust. Identities = 150/269 (55%), Positives = 191/269 (71%), Gaps = 10/269 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++KV+ARAGIASRR+VERMI RV VNG ++ AVNV D + VDG P+ AE Sbjct: 18 TGERIAKVLARAGIASRRDVERMILDGRVSVNGKVINSPAVNVADRDRVSVDGQPVAAAE 77 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RLWLYHKP GLVTT+ D GR TVFD LP RV++VGRLD+ +EGLLLLTNDG + Sbjct: 78 PPRLWLYHKPSGLVTTNKDELGRETVFDALPEDLPRVMTVGRLDLTSEGLLLLTNDGEVK 137 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 R LELP+T WLR YRVR +G+V + +L+ L+ GI + I Y M V LD Q+G+NAW+T+ Sbjct: 138 RKLELPATGWLRRYRVRVNGEVTEPELDKLRAGITVDDIEYQPMDVELDRQQGANAWLTI 197 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 GLREGKNREI++V E + VNRLIRISYGPFQLG L AG +EV +K+LR+QLG Sbjct: 198 GLREGKNREIRRVMEALGFVVNRLIRISYGPFQLGALEAGEVQEVRRKVLRDQLG----- 252 Query: 252 EAQVNLDAP-IYSSETLVRDRPNIISEVP 279 ++ DAP + S ++R+ I+ E P Sbjct: 253 ---LDQDAPDLQRSRRIIRNE-KIVDETP 277 >gi|254466733|ref|ZP_05080144.1| RNA pseudouridine synthase family protein [Rhodobacterales bacterium Y4I] gi|206687641|gb|EDZ48123.1| RNA pseudouridine synthase family protein [Rhodobacterales bacterium Y4I] Length = 355 Score = 293 bits (749), Expect = 3e-77, Method: Compositional matrix adjust. Identities = 139/259 (53%), Positives = 188/259 (72%), Gaps = 4/259 (1%) Query: 7 VQENFTPQ--RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + E P+ R++KV++RAG+ASRRE ERMIA+ RV VNG ++ A+NV + D I +DG Sbjct: 28 IPEGAAPEGDRIAKVLSRAGVASRREAERMIAEGRVSVNGKKIDSPALNVTARDRISIDG 87 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL +AE R+WLY+KPIGLVT++SD GR T+FD LP RV++VGRLD+N+EGLLLL Sbjct: 88 QPLPEAEGPRMWLYYKPIGLVTSNSDEKGRKTIFDELPEDMPRVMTVGRLDLNSEGLLLL 147 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDGG+ R LELP+T WLR YRVR +G+ + L+KG+VI+G + M V+LD Q+G Sbjct: 148 TNDGGIKRKLELPATGWLRRYRVRINGRPKDEDFAPLRKGLVIEGERFQPMTVSLDRQQG 207 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +NAW+TVGLREGKNREI++ E + VNRL+R+SYGPFQLG L G E+ +++R+Q Sbjct: 208 ANAWLTVGLREGKNREIRRAMEDIGFSVNRLLRVSYGPFQLGNLKPGEVEELRPRVVRDQ 267 Query: 245 LGPHLLEEAQVNLDAPIYS 263 LG L EE ++ P + Sbjct: 268 LG--LAEEEEIPAARPTRA 284 >gi|154247023|ref|YP_001417981.1| RNA-binding S4 domain-containing protein [Xanthobacter autotrophicus Py2] gi|154161108|gb|ABS68324.1| RNA-binding S4 domain protein [Xanthobacter autotrophicus Py2] Length = 620 Score = 292 bits (748), Expect = 5e-77, Method: Compositional matrix adjust. Identities = 145/265 (54%), Positives = 188/265 (70%), Gaps = 9/265 (3%) Query: 2 KDKNIV---QENFTP------QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV 52 KDKN V + TP +R++KV+ARAG+ SRRE+E I RV VNG +L AV Sbjct: 9 KDKNRVPRIKRELTPAAPKEAERIAKVVARAGLGSRREIEEWIEAGRVAVNGEVLTTPAV 68 Query: 53 NVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 V + D I VDG PL + ERTRL++YHKP G+VTT+ DP+GR+T+F+ LP R++SVG Sbjct: 69 TVTAEDAITVDGAPLPERERTRLFIYHKPRGVVTTNRDPEGRTTLFEILPQGLPRLVSVG 128 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLD+N+EGLLLLTNDGGLARVLELP T WLR YRVR +G+V+Q +L+ L KGI + G+ Y Sbjct: 129 RLDLNSEGLLLLTNDGGLARVLELPETGWLRRYRVRANGEVNQAQLDSLLKGITVDGVEY 188 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 G ++ LD +G+NAW+TV LREGKNREI+ VF +VNRLIR+SYGPFQLG + G Sbjct: 189 GPIEAELDRVQGANAWITVSLREGKNREIRNVFGALGLQVNRLIRVSYGPFQLGDVPEGG 248 Query: 233 TREVSKKILREQLGPHLLEEAQVNL 257 EV ++LR+Q+G L A + Sbjct: 249 IEEVRTRVLRDQIGNDLAAAAGADF 273 >gi|304393184|ref|ZP_07375112.1| ribosomal large subunit pseudouridine synthase B [Ahrensia sp. R2A130] gi|303294191|gb|EFL88563.1| ribosomal large subunit pseudouridine synthase B [Ahrensia sp. R2A130] Length = 344 Score = 290 bits (743), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 145/268 (54%), Positives = 186/268 (69%), Gaps = 8/268 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +ARAG+ SRR+ ER I RVKVNG LL A V D IEVD L ERT Sbjct: 19 ERIAKRMARAGLCSRRDAERWIEAGRVKVNGKLLTTPAHTVTPRDRIEVDDKLLGGPERT 78 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWL +K GLVTT+ DP+GR+T+F+ LP RV+SVGRLDINTEGLLLLTNDGGLARV Sbjct: 79 RLWLLNKRSGLVTTNKDPEGRTTIFERLPDDLPRVLSVGRLDINTEGLLLLTNDGGLARV 138 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T WLR YRVR HGQ Q++L+ L GI + G+ YG ++ L+ Q+G+N W+T + Sbjct: 139 LELPTTGWLRRYRVRAHGQTTQEELDKLADGIAVDGVLYGAIEAELERQQGTNVWLTFAM 198 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE+K V +VNRLIRISYGPFQLG L +G +EV ++LR+QLG L+ + Sbjct: 199 REGKNREVKNVLSALGLEVNRLIRISYGPFQLGDLASGEVQEVRGRMLRQQLGAKLISAS 258 Query: 254 QVNLDAPIYSS--------ETLVRDRPN 273 + DAP+ ++ E + + RPN Sbjct: 259 GADFDAPLAATAPKNNPVGEKIEKARPN 286 >gi|126739258|ref|ZP_01754952.1| RNA pseudouridylate synthase family protein [Roseobacter sp. SK209-2-6] gi|126719875|gb|EBA16583.1| RNA pseudouridylate synthase family protein [Roseobacter sp. SK209-2-6] Length = 377 Score = 290 bits (742), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 136/235 (57%), Positives = 176/235 (74%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T R++KV++RAG+ASRRE ERMIA+ R+ VNG +++ A+NV + I VDG PL +AE Sbjct: 67 TGDRIAKVLSRAGVASRREAERMIAEGRISVNGTVIDSPALNVTGQERILVDGAPLPQAE 126 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RLWLYHKP GLVTT+ D GR T+FD+LP RV++VGRLD+N+EGLLLLTNDGG+ Sbjct: 127 APRLWLYHKPSGLVTTNRDEKGRKTIFDDLPETLPRVMTVGRLDLNSEGLLLLTNDGGIK 186 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 R LELPST WLR YRVR +G+ ++ L+KG+VI G + M V LD Q+G+NAW+TV Sbjct: 187 RKLELPSTGWLRRYRVRINGRPKEEDFAPLRKGLVIDGERFQPMIVDLDRQQGANAWLTV 246 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 GLREGKNREI++ E + VNRL+R+SYGPFQLG L G E+ ++LR+QLG Sbjct: 247 GLREGKNREIRRAMEDIGYNVNRLLRVSYGPFQLGDLKPGEVEELRPRVLRDQLG 301 >gi|149914092|ref|ZP_01902624.1| RNA pseudouridylate synthase family protein [Roseobacter sp. AzwK-3b] gi|149812376|gb|EDM72207.1| RNA pseudouridylate synthase family protein [Roseobacter sp. AzwK-3b] Length = 263 Score = 290 bits (742), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 144/232 (62%), Positives = 172/232 (74%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KVIARAG+ASRRE ERMI RV VNG ++RAA+NV D I VDG LR E R Sbjct: 10 RIAKVIARAGLASRREAERMIEAGRVTVNGKKIDRAALNVTDKDRIAVDGRDLRAPEPQR 69 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LWLYHKP GLVTT+ D GR T+FD LP RV+SVGRLDIN+EGLLLLTNDGGL R L Sbjct: 70 LWLYHKPTGLVTTNKDEQGRPTIFDELPEDLPRVMSVGRLDINSEGLLLLTNDGGLKRKL 129 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR +G+ D L++G+VI G + M VTLD Q+G+NAWVTVG+R Sbjct: 130 ELPSTGWLRRYRVRVNGRPTDDTFAPLRQGLVIDGEKFQPMIVTLDRQQGANAWVTVGIR 189 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EG+NRE+++ E VNRLIR+SYGPFQLGTL G+ E+ +ILR+QLG Sbjct: 190 EGRNREVRRAMEAVGLSVNRLIRVSYGPFQLGTLKPGAVEEIRPRILRDQLG 241 >gi|299134222|ref|ZP_07027415.1| RNA-binding S4 domain protein [Afipia sp. 1NLS2] gi|298590969|gb|EFI51171.1| RNA-binding S4 domain protein [Afipia sp. 1NLS2] Length = 695 Score = 289 bits (740), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 136/258 (52%), Positives = 179/258 (69%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 +++ T +R++K +ARAG+ SRR+ E I Q RV VNG ++ A++V D I +DG PL Sbjct: 364 KKDKTGERIAKAVARAGLCSRRDAEEWITQGRVAVNGRVINSPALDVTVRDVITIDGKPL 423 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + ERTRL+LYHKP GL+TTH DP+GR TVFD+LP R+IS+GRLD NTEGLLLLTND Sbjct: 424 PERERTRLFLYHKPRGLMTTHDDPEGRPTVFDHLPEGLPRLISIGRLDFNTEGLLLLTND 483 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGL+R LE P T WLR YRVR HG+V Q +L+ LK G+ + GI YG + TL+ +G+N Sbjct: 484 GGLSRALEHPDTGWLRRYRVRAHGEVTQAQLDELKNGVEVDGIKYGSIDATLERDQGANV 543 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 WVT +REGKNRE++ V +VNRLIR+SYGPFQLG + G E+ ++LREQLG Sbjct: 544 WVTFAIREGKNREVRNVMAHLGLEVNRLIRVSYGPFQLGEIPEGQVEEIKSRVLREQLGE 603 Query: 248 HLLEEAQVNLDAPIYSSE 265 + + D P+ E Sbjct: 604 KIATMSGAQFDKPVREDE 621 >gi|209886355|ref|YP_002290212.1| pseudouridine synthase, Rsu [Oligotropha carboxidovorans OM5] gi|209874551|gb|ACI94347.1| pseudouridine synthase, Rsu [Oligotropha carboxidovorans OM5] Length = 693 Score = 289 bits (740), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 135/252 (53%), Positives = 177/252 (70%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KV+ARAG+ SRR+ E I Q RV VNG ++ A++V + D I VDG PL + ERT Sbjct: 366 ERIAKVVARAGLCSRRDAEDWIMQGRVAVNGRVIGSPALDVTARDVITVDGQPLPERERT 425 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL+LYHKP GL+TTH DP+GR TVFD+LP R+IS+GRLD NTEGLLLLTNDGGL+R Sbjct: 426 RLFLYHKPRGLMTTHDDPEGRPTVFDHLPDGLPRLISIGRLDFNTEGLLLLTNDGGLSRA 485 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LE P T WLR YRVR HG V Q +L+ LK G+ + G+ YG + TL+ +G+N W+T + Sbjct: 486 LEHPDTGWLRRYRVRAHGDVTQARLDELKNGVEVDGVKYGSIDATLERDQGANVWLTFAI 545 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE++ V +VNRLIR+SYGPFQLG + G E+ ++LREQLG ++ A Sbjct: 546 REGKNREVRNVMAHLGLEVNRLIRVSYGPFQLGEIPEGQVEEIKSRVLREQLGDKIIALA 605 Query: 254 QVNLDAPIYSSE 265 D P+ + Sbjct: 606 GAQFDKPVQEGD 617 >gi|56697819|ref|YP_168190.1| RNA pseudouridylate synthase family protein [Ruegeria pomeroyi DSS-3] gi|56679556|gb|AAV96222.1| RNA pseudouridylate synthase family protein [Ruegeria pomeroyi DSS-3] Length = 387 Score = 289 bits (739), Expect = 5e-76, Method: Compositional matrix adjust. Identities = 136/233 (58%), Positives = 172/233 (73%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K+++RAG+ASRRE ERMI RV VNG +++ A+NV D + VDG PL AE Sbjct: 9 ERIAKILSRAGVASRREAERMIEAGRVAVNGKVIDSPALNVTERDRVTVDGAPLADAEPA 68 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLYHKP GLVTT D GR T+FD+LP RV+SVGRLD+N+EGLLLLTNDG + R Sbjct: 69 RLWLYHKPSGLVTTARDEKGRKTIFDDLPEDMPRVMSVGRLDLNSEGLLLLTNDGAVKRQ 128 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPST WLR YRVR G + L++G+VI+G + M V++D Q+G+NAW+TVGL Sbjct: 129 LELPSTGWLRRYRVRIKGTPKDEDFAPLRQGLVIEGERFQPMIVSIDRQQGANAWLTVGL 188 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 REGKNREI++ E + VNRLIRISYGPFQLGTL G EV +++LR+QLG Sbjct: 189 REGKNREIRRAIEDIGFIVNRLIRISYGPFQLGTLAPGKVEEVRRRVLRDQLG 241 >gi|86140014|ref|ZP_01058578.1| RNA pseudouridylate synthase family protein [Roseobacter sp. MED193] gi|85823264|gb|EAQ43475.1| RNA pseudouridylate synthase family protein [Roseobacter sp. MED193] Length = 394 Score = 288 bits (738), Expect = 7e-76, Method: Compositional matrix adjust. Identities = 135/232 (58%), Positives = 176/232 (75%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV++RAG+ASRRE ERMIA+ RVKVNG ++ A+NV D I VDG PL +AE R Sbjct: 42 RIAKVLSRAGVASRREAERMIAEGRVKVNGTKIDSPALNVTERDRIIVDGKPLPQAEAPR 101 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LWLY+KP GLVT++SD GR T+FD LP RV++VGRLD+N+EGLLLLTNDGG+ R L Sbjct: 102 LWLYNKPTGLVTSNSDEKGRRTIFDELPEDLPRVMTVGRLDLNSEGLLLLTNDGGIKRRL 161 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR +G+ + L+KG+VI+G + M V LD Q+G+NAW+T+GLR Sbjct: 162 ELPSTGWLRRYRVRINGRPKDEDFEPLRKGMVIEGERFQPMTVALDRQQGANAWLTIGLR 221 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNREI++ E + VNRL+R+SYGPFQLG+L G E+ +++R+QLG Sbjct: 222 EGKNREIRRALEDIGFNVNRLLRLSYGPFQLGSLKLGEVEELRPRVVRDQLG 273 >gi|91975753|ref|YP_568412.1| pseudouridine synthase Rsu [Rhodopseudomonas palustris BisB5] gi|91682209|gb|ABE38511.1| Pseudouridine synthase, Rsu [Rhodopseudomonas palustris BisB5] Length = 795 Score = 288 bits (737), Expect = 8e-76, Method: Compositional matrix adjust. Identities = 138/259 (53%), Positives = 183/259 (70%), Gaps = 1/259 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV+ARAG+ SRR+ E I + RV VNG +++ A++V +D I VDG PL + ERTR Sbjct: 477 RIAKVVARAGLCSRRDAEAWIVEGRVAVNGRVIDSPALDVTYSDVITVDGKPLPERERTR 536 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L+LYHKP GL+TTH+DP+GR TVFDNLP R+IS+GRLD NTEGLLLLTNDGGLAR L Sbjct: 537 LFLYHKPRGLMTTHADPEGRPTVFDNLPEDLPRLISIGRLDFNTEGLLLLTNDGGLARAL 596 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELP T WLR YRVR HG+V Q +L+ L G+ + G+ YG ++ L+ +G+N W+ +R Sbjct: 597 ELPETGWLRRYRVRAHGEVTQAQLDQLASGVEVDGVKYGPIEAKLERDQGANVWLVFAIR 656 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNRE++ V +VNRLIR+SYGPFQL + G EV ++LREQLG +++ A+ Sbjct: 657 EGKNREVRNVLAHLGLEVNRLIRVSYGPFQLLEIEEGQVEEVKTRVLREQLGEKIIKLAE 716 Query: 255 VNLDAPIYSSETLVRDRPN 273 + P SET + RP Sbjct: 717 ADFGGPS-PSETRPKPRPG 734 >gi|115522955|ref|YP_779866.1| pseudouridine synthase Rsu [Rhodopseudomonas palustris BisA53] gi|115516902|gb|ABJ04886.1| Pseudouridine synthase, Rsu [Rhodopseudomonas palustris BisA53] Length = 787 Score = 288 bits (737), Expect = 8e-76, Method: Compositional matrix adjust. Identities = 135/244 (55%), Positives = 173/244 (70%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KV++RAG+ SRR+ E I + RV VNG ++ A++V D I VDG PL ERT Sbjct: 467 ERIAKVVSRAGLCSRRDAEDWITEGRVAVNGRIINSPALDVTERDVITVDGKPLPPPERT 526 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL+LYHKP GL+TTH+DP+GR TVFD+LP R+IS+GRLD NTEGLLLLTNDGGLAR Sbjct: 527 RLFLYHKPRGLMTTHADPEGRPTVFDHLPEGLPRLISIGRLDFNTEGLLLLTNDGGLART 586 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP T WLR YRVR HG+V Q +LN LK G+ + G+ YG + TL+ +G+N W+ + Sbjct: 587 LELPDTGWLRRYRVRAHGEVTQAQLNELKDGVEVDGVKYGPIDATLERDQGANVWLVFAI 646 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE++ V +VNRLIR+SYGPFQLG + G EV ++LREQLG + A Sbjct: 647 REGKNREVRNVLAHLGLEVNRLIRVSYGPFQLGEIEEGQVEEVKTRVLREQLGEKIALAA 706 Query: 254 QVNL 257 N Sbjct: 707 GANF 710 >gi|99081768|ref|YP_613922.1| pseudouridine synthase, Rsu [Ruegeria sp. TM1040] gi|99038048|gb|ABF64660.1| Pseudouridine synthase Rsu [Ruegeria sp. TM1040] Length = 422 Score = 288 bits (737), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 136/232 (58%), Positives = 178/232 (76%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV++RAG+ASRRE ERMIA+ RV VNG +++ A+NV + D I VDG PL +AE R Sbjct: 63 RIAKVLSRAGVASRREAERMIAEGRVAVNGKVIDSPALNVTNLDRIVVDGNPLPEAEAPR 122 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LWLY+KP GLVTT SD GR T+FD LP RV++VGRLD+N+EGLLLLTNDGG+ R L Sbjct: 123 LWLYYKPNGLVTTTSDEKGRKTIFDALPEDLPRVMTVGRLDLNSEGLLLLTNDGGVKRQL 182 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR +G+ + ++L+KG+VI G + M ++LD Q+G+NAW+T+GLR Sbjct: 183 ELPSTGWLRRYRVRINGRPQDHEFDVLRKGVVIDGERFQPMTISLDRQQGANAWLTIGLR 242 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNREI++ E + VNRL+RISYGPFQLGTL G E+ +++R+QLG Sbjct: 243 EGKNREIRRAMEEVGYPVNRLLRISYGPFQLGTLKEGEVEELRPRVVRDQLG 294 >gi|260425745|ref|ZP_05779725.1| ribosomal large subunit pseudouridine synthase B [Citreicella sp. SE45] gi|260423685|gb|EEX16935.1| ribosomal large subunit pseudouridine synthase B [Citreicella sp. SE45] Length = 316 Score = 288 bits (736), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 139/246 (56%), Positives = 176/246 (71%), Gaps = 3/246 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV+ARAG+ASRRE E+MI RV VNG ++ RAA+NV D + VDG P+ E R Sbjct: 56 RIAKVLARAGVASRREAEKMIEMGRVAVNGEIITRAALNVTDKDKVTVDGKPVDAPEDPR 115 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +WLYHKP GLVTT D GR T++D+LP RV+SVGRLD+N+EGLLLLTNDG + R L Sbjct: 116 IWLYHKPAGLVTTTKDEQGRPTIYDDLPEELPRVMSVGRLDLNSEGLLLLTNDGSIKRRL 175 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR +G+ D L L+ GIV+ G + M+VTLD Q+G+NAW+T+GLR Sbjct: 176 ELPSTGWLRKYRVRVNGKPSDDMLAPLRAGIVVDGQAFQPMEVTLDRQQGANAWLTIGLR 235 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNREI++ VNRLIR+SYGPFQLG L G +EV +++R+QLG LE A+ Sbjct: 236 EGKNREIRRAMTDIGLTVNRLIRVSYGPFQLGQLKQGEVQEVRSRVVRDQLG---LEGAK 292 Query: 255 VNLDAP 260 N P Sbjct: 293 SNRPQP 298 >gi|90422426|ref|YP_530796.1| pseudouridine synthase Rsu [Rhodopseudomonas palustris BisB18] gi|90104440|gb|ABD86477.1| Pseudouridine synthase, Rsu [Rhodopseudomonas palustris BisB18] Length = 743 Score = 288 bits (736), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 133/233 (57%), Positives = 172/233 (73%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KV++RAG+ SRR+ E + Q RV VNG ++ A++V + D I VDG PL ERT Sbjct: 423 ERIAKVVSRAGLCSRRDAEEWVTQGRVAVNGRIINSPALDVTTRDVITVDGKPLPLPERT 482 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL++YHKP GL+TTH+DP+GR TVFD+LP R+IS+GRLD NTEGLLLLTNDGGLAR Sbjct: 483 RLFMYHKPRGLMTTHADPEGRPTVFDHLPDGLPRLISIGRLDFNTEGLLLLTNDGGLART 542 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP T WLR YRVR HG+V Q +L+ LKKG+ + G+ YG + TL+ +G+N W+ + Sbjct: 543 LELPDTGWLRRYRVRAHGEVTQGQLDELKKGVEVDGVKYGSIDATLERDQGANVWLVFAI 602 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 REGKNRE++ V +VNRLIR+SYGPFQLG L G EV ++LREQLG Sbjct: 603 REGKNREVRNVLAHLGLEVNRLIRVSYGPFQLGELEEGQVEEVKTRVLREQLG 655 >gi|144897623|emb|CAM74487.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Magnetospirillum gryphiswaldense MSR-1] Length = 287 Score = 287 bits (735), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 136/242 (56%), Positives = 178/242 (73%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + + E +R++K +ARAGI SRR+ E++I ++V VNG++LE A V D I VDG Sbjct: 10 DTLPETEEKERIAKRLARAGICSRRDAEKLITSRKVAVNGVVLESPAFLVGPGDRIVVDG 69 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + +AE+ R+W YHKP GLVTTH DP GR+TVF+ LP+ RVISVGRLD+N+EGLLLL Sbjct: 70 QLVPEAEKARVWRYHKPAGLVTTHRDPQGRATVFEKLPATMPRVISVGRLDLNSEGLLLL 129 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LAR LELP+ W+R YRVR HG ++ + L L+KG+ I G+ YG ++ LD QKG Sbjct: 130 TNDGELARSLELPAAGWVRRYRVRVHGTIEPESLVPLEKGLTIDGVKYGPIKAILDRQKG 189 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 SNAW+T+ L+EGKNREI++V E W V+RLIR+SYGPFQLG+L G EV KI++EQ Sbjct: 190 SNAWLTISLKEGKNREIRRVMEHLGWPVSRLIRVSYGPFQLGSLEEGGVEEVPGKIVKEQ 249 Query: 245 LG 246 LG Sbjct: 250 LG 251 >gi|260432945|ref|ZP_05786916.1| ribosomal large subunit pseudouridine synthase B [Silicibacter lacuscaerulensis ITI-1157] gi|260416773|gb|EEX10032.1| ribosomal large subunit pseudouridine synthase B [Silicibacter lacuscaerulensis ITI-1157] Length = 291 Score = 287 bits (734), Expect = 2e-75, Method: Compositional matrix adjust. Identities = 136/232 (58%), Positives = 173/232 (74%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV+ARAGIASRRE ERMI RV VNG ++ A+NV +D I VDG P+ + E R Sbjct: 31 RIAKVLARAGIASRREAERMIEAGRVTVNGKTIDSPALNVTPSDRITVDGKPVAEPEPAR 90 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LWLYHKP GLVTT+ D GR T+FDNLP RV+SVGRLD+N+EGLLLLTNDG + R L Sbjct: 91 LWLYHKPTGLVTTNRDEKGRPTIFDNLPEDMPRVMSVGRLDLNSEGLLLLTNDGTIKRKL 150 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR +G+ + L++G+VI+G + M VTLD Q+G+NAW+T+GLR Sbjct: 151 ELPSTGWLRKYRVRINGRPKDEDFAPLRQGLVIEGERFQPMTVTLDRQQGANAWLTIGLR 210 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNREI++ E + VNRL+R+SYGPFQLG L G E+ +++LR+QLG Sbjct: 211 EGKNREIRRAIEDIGFTVNRLLRVSYGPFQLGNLKPGEVEEIRRRVLRDQLG 262 >gi|296448607|ref|ZP_06890477.1| RNA-binding S4 domain protein [Methylosinus trichosporium OB3b] gi|296253879|gb|EFH01036.1| RNA-binding S4 domain protein [Methylosinus trichosporium OB3b] Length = 405 Score = 287 bits (734), Expect = 2e-75, Method: Compositional matrix adjust. Identities = 145/254 (57%), Positives = 180/254 (70%), Gaps = 5/254 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 F R++KV+ARAG SRR+ E IA+ RV VNG +L+ A NV D IEVDG PL + Sbjct: 38 FEGDRIAKVMARAGACSRRDAEIWIAEGRVAVNGAVLDSPAFNVREGDRIEVDGAPLAER 97 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL----PSIFSRVISVGRLDINTEGLLLLTN 126 E TRL+L+HKP GLVT+ DP+GR TVF L P + R++SVGRLDINTEGLLLLTN Sbjct: 98 EPTRLFLFHKPEGLVTSAKDPEGRDTVFGFLEERHPDL-PRLVSVGRLDINTEGLLLLTN 156 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLAR LELP+T W R YRVR HG++DQ +L+ L+KG+ + + Y ++ LD +G+N Sbjct: 157 DGGLARTLELPATGWTRRYRVRAHGEIDQARLDELRKGVTVDDVDYAPIEARLDRVQGAN 216 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W+T+ LREGKNREIK+V E VNRLIRIS+GPFQLG L G+ EV KILREQLG Sbjct: 217 VWITMALREGKNREIKRVLEHLGLGVNRLIRISFGPFQLGELAEGAVEEVKLKILREQLG 276 Query: 247 PHLLEEAQVNLDAP 260 L E A V+ +P Sbjct: 277 KGLAELAGVDFSSP 290 >gi|89070784|ref|ZP_01158037.1| RNA pseudouridylate synthase family protein [Oceanicola granulosus HTCC2516] gi|89043626|gb|EAR49833.1| RNA pseudouridylate synthase family protein [Oceanicola granulosus HTCC2516] Length = 279 Score = 287 bits (734), Expect = 2e-75, Method: Compositional matrix adjust. Identities = 140/233 (60%), Positives = 170/233 (72%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K+++R G+ASRRE ERMI RV VNG L++ A+NV ++D I VDG P+ E Sbjct: 8 ERIAKILSRRGVASRREAERMIEAGRVSVNGRLIDSPALNVTTSDRILVDGKPVAAPEPP 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLYHKP GLVTT D GR TVF LP RV+SVGRLDI +EGLLLLTNDG + R Sbjct: 68 RLWLYHKPAGLVTTERDEKGRPTVFGALPEEMPRVMSVGRLDIASEGLLLLTNDGEIKRR 127 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T WLR YRVR HG V+ KL L++GI ++G+ Y M VT D Q+G+NAW+TV L Sbjct: 128 LELPATGWLRRYRVRSHGYVEDAKLEPLRRGISVEGVRYQPMSVTFDRQQGANAWMTVAL 187 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 REGKNREI++ E KVNRLIRISYGPFQLG L AG EV K+LR+QLG Sbjct: 188 REGKNREIRRAMEAIGIKVNRLIRISYGPFQLGNLAAGEVEEVRPKVLRDQLG 240 >gi|86748296|ref|YP_484792.1| pseudouridine synthase Rsu [Rhodopseudomonas palustris HaA2] gi|86571324|gb|ABD05881.1| Pseudouridine synthase, Rsu [Rhodopseudomonas palustris HaA2] Length = 784 Score = 286 bits (732), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 140/265 (52%), Positives = 188/265 (70%), Gaps = 1/265 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 ++ T R++KV+ARAG+ SRR+ E + + RV VNG++++ A++VM +D I VDG PL Sbjct: 458 DDKTGDRIAKVVARAGLCSRRDAETWVTEGRVAVNGLVIDSPALDVMPSDVITVDGKPLP 517 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRL+LYHKP GL+TTH+DP+GR TVFDNLP R+IS+GRLD NTEGLLLLTNDG Sbjct: 518 ERERTRLFLYHKPRGLMTTHADPEGRPTVFDNLPEDLPRLISIGRLDFNTEGLLLLTNDG 577 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GLAR LELP T WLR YRVR HG+V Q +L+ LK GI + G+ YG+++ L+ +G+N W Sbjct: 578 GLARALELPETGWLRRYRVRAHGEVTQAQLDELKNGIEVDGVKYGEIEAKLERDQGANVW 637 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + +REGKNRE++ V +VNRLIR+SYGPFQL + G EV ++LREQLG Sbjct: 638 LVFAIREGKNREVRNVLAHLGLEVNRLIRVSYGPFQLLEIEEGEVEEVKTRVLREQLGDK 697 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPN 273 +++ A + P SE + RP Sbjct: 698 IIQLAGADFGGPS-PSEARPKPRPG 721 >gi|298293868|ref|YP_003695807.1| RNA-binding S4 domain protein [Starkeya novella DSM 506] gi|296930379|gb|ADH91188.1| RNA-binding S4 domain protein [Starkeya novella DSM 506] Length = 764 Score = 286 bits (731), Expect = 5e-75, Method: Compositional matrix adjust. Identities = 135/250 (54%), Positives = 179/250 (71%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV+KVIARAG+ SRRE+E I RV VNG +LE A V D I VDG PL ERT Sbjct: 30 ERVAKVIARAGLGSRREIEEWILAGRVAVNGEVLESPARTVTPEDAITVDGNPLPAKERT 89 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL++YHKP G+VTT+ DP+GR T+F+ LP+ R++SVGRLD+NTEGL+LLTNDGGL+RV Sbjct: 90 RLFMYHKPKGVVTTNYDPEGRPTLFEILPAGLPRLVSVGRLDLNTEGLILLTNDGGLSRV 149 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP T WLR YRVR G + QDKL+ L +G+ + G+ YG ++ LD +G+N+W+T+ L Sbjct: 150 LELPETGWLRRYRVRAKGDITQDKLDALMEGVTVDGVHYGPIEAKLDRVQGANSWLTLAL 209 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE++ V +VNRLIR+SYGPFQLG + G EV ++L +QLG L A Sbjct: 210 REGKNREVRNVLGSLGLEVNRLIRVSYGPFQLGEIPQGEVEEVRTRVLADQLGEALSAAA 269 Query: 254 QVNLDAPIYS 263 + + P+++ Sbjct: 270 GADFEGPLFN 279 >gi|126732069|ref|ZP_01747871.1| RNA pseudouridylate synthase family protein [Sagittula stellata E-37] gi|126707358|gb|EBA06422.1| RNA pseudouridylate synthase family protein [Sagittula stellata E-37] Length = 341 Score = 285 bits (730), Expect = 5e-75, Method: Compositional matrix adjust. Identities = 143/249 (57%), Positives = 174/249 (69%), Gaps = 2/249 (0%) Query: 9 ENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +N TP R++KVIARAG ASRRE ERMIA+ RV VNG +++ A+NV D I VD P Sbjct: 2 DNKTPPGDRIAKVIARAGRASRREAERMIAEGRVAVNGTVIDSPALNVTDKDRITVDDTP 61 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L E RLWLYHK GLVTT D GR T++D+LP RV+SVGRLD+N+EGLLLLTN Sbjct: 62 LDGPEEARLWLYHKSTGLVTTTKDEQGRPTIYDDLPDDLPRVMSVGRLDLNSEGLLLLTN 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGL R LELPST WLR YRVR +G+ L L+ G+ + G + M V+LD Q+G+N Sbjct: 122 DGGLKRRLELPSTGWLRRYRVRINGRPTDPMLQPLRDGLTVDGQTFQPMIVSLDRQQGAN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 AW+TVGLREGKNREI++ VNRLIRISYGPFQLG + G +EV +KILR+QLG Sbjct: 182 AWLTVGLREGKNREIRRAMADLGLSVNRLIRISYGPFQLGQMKPGEVQEVRRKILRDQLG 241 Query: 247 PHLLEEAQV 255 L E + Sbjct: 242 LGLDAEPEA 250 >gi|126727512|ref|ZP_01743346.1| RNA pseudouridylate synthase family protein [Rhodobacterales bacterium HTCC2150] gi|126703292|gb|EBA02391.1| RNA pseudouridylate synthase family protein [Rhodobacterales bacterium HTCC2150] Length = 259 Score = 285 bits (729), Expect = 7e-75, Method: Compositional matrix adjust. Identities = 144/238 (60%), Positives = 175/238 (73%), Gaps = 3/238 (1%) Query: 12 TPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 TP+ R++KV++RAGIASRRE ERMI RV VNG ++ A+NV D I+VDG + Sbjct: 4 TPEKGDRIAKVLSRAGIASRREAERMIEAGRVSVNGKVIPSPALNVTPKDKIKVDGKEVG 63 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 AE RLWLYHKP+GLVTT D GR TVFDNLP RV+SVGRLDIN+EGLLLLTNDG Sbjct: 64 DAEPARLWLYHKPVGLVTTERDEKGRDTVFDNLPDGLPRVMSVGRLDINSEGLLLLTNDG 123 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL R LELPST WLR YRVR +G V +D L L+KG+VI G + M +++D Q+GSNAW Sbjct: 124 GLKRKLELPSTGWLRKYRVRVNGIVIEDHLTPLRKGLVIDGEKFQPMNISVDRQQGSNAW 183 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +TVG+REGKNREI++ FE VNRLIR+SYGPFQL L A E+ ++LR+QLG Sbjct: 184 LTVGIREGKNREIRRAFETIFLPVNRLIRVSYGPFQLNDLRADEVEEIKGRVLRDQLG 241 >gi|84686243|ref|ZP_01014138.1| RNA pseudouridylate synthase family protein [Maritimibacter alkaliphilus HTCC2654] gi|84665770|gb|EAQ12245.1| RNA pseudouridylate synthase family protein [Rhodobacterales bacterium HTCC2654] Length = 293 Score = 285 bits (728), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 138/232 (59%), Positives = 171/232 (73%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV++RAG+ASRRE ERMI RV VNG +++ A+NV D I VDG + K E R Sbjct: 37 RIAKVLSRAGVASRREAERMIEAGRVSVNGKVIDSPALNVTPRDKITVDGTLVEKPEAPR 96 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LWLYHKP GLVTT D GR TVFD LP RV+SVGRLD+N+EGLLLLTNDGG+ R L Sbjct: 97 LWLYHKPTGLVTTERDEKGRETVFDKLPEDMPRVMSVGRLDLNSEGLLLLTNDGGIKRKL 156 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST W+R YRVR +G+ ++ L L+KGI + G + M VTLD Q+G+NAW+T+GLR Sbjct: 157 ELPSTGWVRKYRVRVNGKPEEAVLEKLRKGITVDGEAFQGMSVTLDRQQGANAWLTIGLR 216 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNREI++ E VNRLIRISYGPF+LG L AG+ EV ++LR+QLG Sbjct: 217 EGKNREIRRAMEAVGLTVNRLIRISYGPFRLGELKAGAVEEVKGRVLRDQLG 268 >gi|254509889|ref|ZP_05121956.1| ribosomal large subunit pseudouridine synthase [Rhodobacteraceae bacterium KLH11] gi|221533600|gb|EEE36588.1| ribosomal large subunit pseudouridine synthase [Rhodobacteraceae bacterium KLH11] Length = 298 Score = 284 bits (727), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 143/260 (55%), Positives = 181/260 (69%), Gaps = 4/260 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV+ARAGIASRRE ERMI RV VNG + A+NV D I VDG P+ + E +R Sbjct: 37 RIAKVLARAGIASRREAERMIEAGRVAVNGKPINSPALNVTGKDKITVDGKPVSEPEPSR 96 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LWLYHKP GLVTT D GR+T+FD LP RV+SVGRLD+N+EGLLLLTNDGG+ R L Sbjct: 97 LWLYHKPPGLVTTARDEKGRTTIFDKLPENMPRVMSVGRLDLNSEGLLLLTNDGGIKRKL 156 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR +G+ + L+KG+VI G + M VTLD Q+G+NAW+T+GLR Sbjct: 157 ELPSTGWLRKYRVRVNGRPRDEDFAPLRKGLVIDGERFQPMTVTLDRQQGANAWLTIGLR 216 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNREI++ E + VNRL+R+SYGPFQLG L G E+ ++++R+QLG +A+ Sbjct: 217 EGKNREIRRAIEDIGYVVNRLLRVSYGPFQLGDLKPGEVEEIRRRVMRDQLG----LDAE 272 Query: 255 VNLDAPIYSSETLVRDRPNI 274 + AP R RP I Sbjct: 273 GDGKAPAKRPARPQRKRPAI 292 >gi|254486476|ref|ZP_05099681.1| ribosomal large subunit pseudouridine synthase B [Roseobacter sp. GAI101] gi|214043345|gb|EEB83983.1| ribosomal large subunit pseudouridine synthase B [Roseobacter sp. GAI101] Length = 336 Score = 283 bits (725), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 133/232 (57%), Positives = 172/232 (74%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV++RAG+ASRRE ERMI RV+VNG+ ++ A+NV + D+I VDG P+ E R Sbjct: 19 RIAKVLSRAGLASRREAERMIEAGRVRVNGVQIDSPALNVTAADNITVDGKPVGDPEPPR 78 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +WLYHKP GLVTT+ D GR T+FD+LP RV+S+GRLD+N+EGLLLLTNDG + R L Sbjct: 79 MWLYHKPTGLVTTNRDEKGRGTIFDDLPEDMPRVMSIGRLDLNSEGLLLLTNDGDVKRKL 138 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPS WLR YRVR +G+ + L L++GI + G + M VTLD Q+G+NAW+TVGLR Sbjct: 139 ELPSNGWLRRYRVRVNGRPSDEVLEPLRRGITVDGEEFQPMTVTLDRQQGANAWLTVGLR 198 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNREI++ E N VNRLIR SYGPFQLG L G E+ +K++R+QLG Sbjct: 199 EGKNREIRRAMEAVNLSVNRLIRTSYGPFQLGELKPGEVEELKRKVVRDQLG 250 >gi|83944513|ref|ZP_00956965.1| RNA pseudouridylate synthase family protein [Sulfitobacter sp. EE-36] gi|83844619|gb|EAP82504.1| RNA pseudouridylate synthase family protein [Sulfitobacter sp. EE-36] Length = 335 Score = 283 bits (725), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 135/232 (58%), Positives = 171/232 (73%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV++RAGIASRRE ERMI RV+VNG ++ A+NV +D I VDG P+ + E R Sbjct: 19 RIAKVLSRAGIASRREAERMIEAGRVRVNGAQIDSPALNVTPSDAITVDGKPVGEPEPPR 78 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +WL+HKP GLVTT+ D GR T+FD+LP RV+S+GRLD+N+EGLLLLTNDG + R L Sbjct: 79 VWLFHKPTGLVTTNRDEKGRGTIFDDLPEDMPRVMSIGRLDLNSEGLLLLTNDGEVKRRL 138 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPS WLR YRVR +G+ D L L+KGI + G + M VTLD Q+G+NAW+TVGLR Sbjct: 139 ELPSNGWLRRYRVRVNGRPTDDMLEPLRKGITVDGEDFQPMTVTLDRQQGANAWLTVGLR 198 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNREI++ E N VNRLIR SYGPFQLG L G E+ +K++R+QLG Sbjct: 199 EGKNREIRRAMEAVNLSVNRLIRTSYGPFQLGELKTGEVEELKRKVVRDQLG 250 >gi|83955333|ref|ZP_00963988.1| RNA pseudouridylate synthase family protein [Sulfitobacter sp. NAS-14.1] gi|83840326|gb|EAP79500.1| RNA pseudouridylate synthase family protein [Sulfitobacter sp. NAS-14.1] Length = 335 Score = 283 bits (725), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 135/232 (58%), Positives = 171/232 (73%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV++RAGIASRRE ERMI RV+VNG ++ A+NV +D I VDG P+ + E R Sbjct: 19 RIAKVLSRAGIASRREAERMIEAGRVRVNGAQIDSPALNVTPSDAITVDGKPVGEPEPPR 78 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +WL+HKP GLVTT+ D GR T+FD+LP RV+S+GRLD+N+EGLLLLTNDG + R L Sbjct: 79 VWLFHKPTGLVTTNRDEKGRGTIFDDLPEDMPRVMSIGRLDLNSEGLLLLTNDGEVKRRL 138 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPS WLR YRVR +G+ D L L+KGI + G + M VTLD Q+G+NAW+TVGLR Sbjct: 139 ELPSNGWLRRYRVRVNGRPTDDMLEPLRKGITVDGEDFQPMTVTLDRQQGANAWLTVGLR 198 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNREI++ E N VNRLIR SYGPFQLG L G E+ +K++R+QLG Sbjct: 199 EGKNREIRRAMEAVNLSVNRLIRTSYGPFQLGELKTGEVEELKRKVVRDQLG 250 >gi|163733415|ref|ZP_02140858.1| RNA pseudouridylate synthase family protein, putative [Roseobacter litoralis Och 149] gi|161393203|gb|EDQ17529.1| RNA pseudouridylate synthase family protein, putative [Roseobacter litoralis Och 149] Length = 285 Score = 283 bits (724), Expect = 3e-74, Method: Compositional matrix adjust. Identities = 148/265 (55%), Positives = 183/265 (69%), Gaps = 7/265 (2%) Query: 12 TPQ--RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 TPQ R++KV++RAG+ASRRE ERMI RVKVNG + A+NV TD I VDG + Sbjct: 6 TPQGDRIAKVLSRAGVASRREAERMIEAGRVKVNGQHISSPALNVQGTDKITVDGKEVSP 65 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E RLWLYHKP GLVTT +D GR T++ LP RV+SVGRLDIN+EGLLLLTNDGG Sbjct: 66 PEPARLWLYHKPTGLVTTDNDEKGRETIYSALPEDMPRVMSVGRLDINSEGLLLLTNDGG 125 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + R LELP+T WLR YRVR +G+ L+ L++GI +G + MQ+TLD Q+G+NAW+ Sbjct: 126 VKRRLELPTTGWLRRYRVRINGRPTDATLDPLRRGISSEGENFQPMQITLDRQQGANAWL 185 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 TVGLREGKNREI++ + VNRLIRISYGPFQLG L G+ EV +KILR+QLG Sbjct: 186 TVGLREGKNREIRRALAELDLSVNRLIRISYGPFQLGELKPGAVEEVRRKILRDQLG--- 242 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNI 274 E +V AP + R PN+ Sbjct: 243 -LEGEVEESAPKHPDAGKKRG-PNV 265 >gi|254441794|ref|ZP_05055287.1| conserved hypothetical protein, putative [Octadecabacter antarcticus 307] gi|198251872|gb|EDY76187.1| conserved hypothetical protein, putative [Octadecabacter antarcticus 307] Length = 308 Score = 283 bits (723), Expect = 4e-74, Method: Compositional matrix adjust. Identities = 137/242 (56%), Positives = 175/242 (72%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 N + ++ R++KV+ARAG+ASRRE E++I RV VNG + A+NV D I VDG Sbjct: 12 NAIAKSVPGDRIAKVLARAGVASRRESEKIIEAGRVTVNGKTILTPALNVTDKDRIVVDG 71 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL + E R+WLY+KPIGLVT+ D GR TVFD LP RV+SVGRLDIN+EGLLLL Sbjct: 72 KPLAEPEPPRIWLYYKPIGLVTSERDEKGRETVFDTLPDDMPRVVSVGRLDINSEGLLLL 131 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG L R +ELPST WLR YRVR +G + + KL+ L+ GI I G+ Y ++V D Q+G Sbjct: 132 TNDGELKRKMELPSTGWLRRYRVRINGSLSEAKLDELRAGIQIDGVHYAPVEVKFDRQQG 191 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +NAW+T+GLREGKNREI+K+ E VNRL+RISYGPFQLGTL G EV ++I+R+Q Sbjct: 192 ANAWLTMGLREGKNREIRKLMEAMGVAVNRLLRISYGPFQLGTLKPGKVEEVKQRIVRDQ 251 Query: 245 LG 246 +G Sbjct: 252 MG 253 >gi|192289766|ref|YP_001990371.1| RNA-binding S4 domain protein [Rhodopseudomonas palustris TIE-1] gi|192283515|gb|ACE99895.1| RNA-binding S4 domain protein [Rhodopseudomonas palustris TIE-1] Length = 736 Score = 283 bits (723), Expect = 4e-74, Method: Compositional matrix adjust. Identities = 133/250 (53%), Positives = 179/250 (71%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KV+ARAG+ SRR+ E I + RV VNG +++ A++V ++D I +DG PL + ERT Sbjct: 410 ERIAKVVARAGLCSRRDAEAWITEGRVTVNGKVIDSPALDVKASDVITIDGKPLPERERT 469 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL+LYHKP GL+TTHSDP+GR TVFD+LP R+IS+GRLD NTEGLLLLTNDGGLAR Sbjct: 470 RLFLYHKPRGLMTTHSDPEGRPTVFDHLPEGLPRLISIGRLDFNTEGLLLLTNDGGLARA 529 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP T WLR YRVR HG++ Q +L+ L+ GI + G+ YG ++ L+ +G+N W+ + Sbjct: 530 LELPETGWLRRYRVRAHGEITQAQLDELQNGIEVDGVQYGPIEAKLERDQGANVWLVFAI 589 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE++ V +VNRLIR+SYGPFQL L G EV ++LR+QLG ++ A Sbjct: 590 REGKNREVRNVLAHLGLEVNRLIRVSYGPFQLLELGEGEVDEVKTRVLRDQLGEKVIALA 649 Query: 254 QVNLDAPIYS 263 + P S Sbjct: 650 GCDFAGPSPS 659 >gi|39934240|ref|NP_946516.1| pseudouridine synthase Rsu [Rhodopseudomonas palustris CGA009] gi|39648088|emb|CAE26608.1| Pseudouridine synthase, Rsu:RNA-binding S4:Pseudouridine synthase [Rhodopseudomonas palustris CGA009] Length = 731 Score = 282 bits (722), Expect = 4e-74, Method: Compositional matrix adjust. Identities = 133/250 (53%), Positives = 179/250 (71%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KV+ARAG+ SRR+ E I + RV VNG +++ A++V ++D I +DG PL + ERT Sbjct: 405 ERIAKVVARAGLCSRRDAEAWITEGRVTVNGKVIDSPALDVKASDIITIDGKPLPERERT 464 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL+LYHKP GL+TTHSDP+GR TVFD+LP R+IS+GRLD NTEGLLLLTNDGGLAR Sbjct: 465 RLFLYHKPRGLMTTHSDPEGRPTVFDHLPEGLPRLISIGRLDFNTEGLLLLTNDGGLARA 524 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP T WLR YRVR HG++ Q +L+ L+ GI + G+ YG ++ L+ +G+N W+ + Sbjct: 525 LELPETGWLRRYRVRAHGEITQAQLDELQNGIEVDGVQYGPIEAKLERDQGANVWLVFAI 584 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE++ V +VNRLIR+SYGPFQL L G EV ++LR+QLG ++ A Sbjct: 585 REGKNREVRNVLAHLGLEVNRLIRVSYGPFQLLELGEGEVDEVKTRVLRDQLGEKVIALA 644 Query: 254 QVNLDAPIYS 263 + P S Sbjct: 645 GCDFAGPSPS 654 >gi|114569169|ref|YP_755849.1| pseudouridine synthase, Rsu [Maricaulis maris MCS10] gi|114339631|gb|ABI64911.1| Pseudouridine synthase, Rsu [Maricaulis maris MCS10] Length = 372 Score = 281 bits (720), Expect = 7e-74, Method: Compositional matrix adjust. Identities = 141/294 (47%), Positives = 190/294 (64%), Gaps = 17/294 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K +ARAG+ASRREVERMI RVKV+G L+ A V ++HIEVDG + Sbjct: 7 TSERIAKFLARAGVASRREVERMIEGGRVKVDGKTLDTPAFKVTGSEHIEVDGKRIEPPA 66 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 T+LW YHKP GLVTTH+DP+GR TVFD +P RVIS+GRLD+ +EGLLLLTNDG LA Sbjct: 67 ATKLWRYHKPDGLVTTHADPEGRETVFDAIPKDIGRVISIGRLDLTSEGLLLLTNDGALA 126 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 R LELPST W R YR R G + + L +L+ G+ ++GI YG M+V ++ + GSN W+ V Sbjct: 127 RALELPSTGWTRRYRARAFGSISESALKILRAGVTVEGIKYGPMEVEVERETGSNIWLEV 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 G+REGKNRE++K + +VNRLIRI+YGPFQLG L G + V ++L +Q G HL++ Sbjct: 187 GIREGKNREVRKALDAVGLRVNRLIRIAYGPFQLGQLEKGEIKSVPSRVLHDQCG-HLID 245 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK-NGLSKQKKLATP 304 D P + + + + RP R + QK +G Q+ + P Sbjct: 246 MG----DTP--TGQAIAKPRP---------ANRAARKPGQKPDGKPGQRAMGGP 284 >gi|254453766|ref|ZP_05067203.1| ribosomal large subunit pseudouridine synthase [Octadecabacter antarcticus 238] gi|198268172|gb|EDY92442.1| ribosomal large subunit pseudouridine synthase [Octadecabacter antarcticus 238] Length = 328 Score = 281 bits (720), Expect = 7e-74, Method: Compositional matrix adjust. Identities = 136/232 (58%), Positives = 171/232 (73%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV+ARAG+ASRRE E++I RV VNG + A+NV D I VDG PL + E R Sbjct: 24 RIAKVLARAGVASRREAEKIIEAGRVTVNGKTILTPALNVTDKDRIVVDGKPLAEPEPPR 83 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +WLY+KPIGLVT+ D GR TVFD LP RV+SVGRLDIN+EGLLLLTNDG L R + Sbjct: 84 IWLYYKPIGLVTSERDEKGRETVFDTLPDDMPRVVSVGRLDINSEGLLLLTNDGELKRKM 143 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR +G + + KL+ L+ GI I G+ Y ++V D Q+G+NAW+T+GLR Sbjct: 144 ELPSTGWLRRYRVRINGSLSEAKLDELRAGIQIDGVHYAPVEVKFDRQQGANAWLTMGLR 203 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNREI+K+ E VNRL+RISYGPFQLGTL G EV ++I+R+Q+G Sbjct: 204 EGKNREIRKLMEAMGVVVNRLLRISYGPFQLGTLKPGKVEEVKQRIVRDQMG 255 >gi|255264455|ref|ZP_05343797.1| ribosomal large subunit pseudouridine synthase B [Thalassiobium sp. R2A62] gi|255106790|gb|EET49464.1| ribosomal large subunit pseudouridine synthase B [Thalassiobium sp. R2A62] Length = 267 Score = 281 bits (720), Expect = 9e-74, Method: Compositional matrix adjust. Identities = 136/240 (56%), Positives = 177/240 (73%), Gaps = 2/240 (0%) Query: 9 ENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 EN P QR++KV+ARAG+ASRRE ERMI RV+VN L+E A+NV+ +D I VDG Sbjct: 6 ENTGPTGQRIAKVLARAGVASRREAERMIEAGRVRVNSKLIESPALNVVPSDRISVDGKL 65 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + E TR+WL+HKP GL+T+ D +GR TVFD LP RV+SVGRLD+N+EGLL+LTN Sbjct: 66 IGDPEPTRMWLFHKPQGLITSERDEEGRETVFDVLPPEMPRVLSVGRLDLNSEGLLVLTN 125 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + R LELPST WLR YRVR G + + KL+ L++GI ++G+ Y M VT D Q+G+N Sbjct: 126 DGEVKRKLELPSTGWLRRYRVRIKGSLSEAKLDELREGITVEGVHYQPMDVTFDRQQGAN 185 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 AW+T+G+REGKNREI++ E VNRLIRISYGPFQLG + AG E+ +++R+QLG Sbjct: 186 AWLTIGIREGKNREIRRTMEALGVTVNRLIRISYGPFQLGNIKAGEVEELKSRVVRDQLG 245 >gi|83952774|ref|ZP_00961504.1| RNA pseudouridylate synthase family protein [Roseovarius nubinhibens ISM] gi|83835909|gb|EAP75208.1| RNA pseudouridylate synthase family protein [Roseovarius nubinhibens ISM] Length = 268 Score = 281 bits (719), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 139/246 (56%), Positives = 172/246 (69%), Gaps = 2/246 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KVIARAG+ASRRE ERM+ RV VNG ++ A+NV +D I VDG L E R Sbjct: 10 RIAKVIARAGLASRREAERMVEAGRVTVNGRKIDSPALNVTPSDKITVDGRALATPEPPR 69 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LWLYHKP GLVTT D GR T+FD LP RV+SVGRLD+N+EGLLLLTNDGG+ R L Sbjct: 70 LWLYHKPTGLVTTTRDEQGRDTIFDKLPEDLPRVMSVGRLDLNSEGLLLLTNDGGIKRRL 129 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR +G+ + L+KG+ ++G + MQVTLD Q+G+NAW+TV +R Sbjct: 130 ELPSTGWLRRYRVRVNGRPNDATFEPLRKGVTLEGERFQPMQVTLDRQQGANAWITVAIR 189 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNREI++ E VNRLIR+SYGPFQLG L +G E+ +++REQLG L EE Sbjct: 190 EGKNREIRRAMESVGLSVNRLIRVSYGPFQLGQLKSGEVEEIRPRVMREQLG--LTEEEA 247 Query: 255 VNLDAP 260 P Sbjct: 248 GRTPGP 253 >gi|182679330|ref|YP_001833476.1| RNA-binding S4 domain-containing protein [Beijerinckia indica subsp. indica ATCC 9039] gi|182635213|gb|ACB95987.1| RNA-binding S4 domain protein [Beijerinckia indica subsp. indica ATCC 9039] Length = 528 Score = 281 bits (718), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 141/248 (56%), Positives = 180/248 (72%), Gaps = 5/248 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 PQR++KV+ARAG+ SRR+ E IA+ RV VNG +L + V+V D I VDG L Sbjct: 89 PQRIAKVMARAGLCSRRDAEAWIAEGRVSVNGTVLTQPGVSVSDEDVILVDGEKLAARGH 148 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL----PSIFSRVISVGRLDINTEGLLLLTNDG 128 TRL+L+HKP GLVTT+ DP+GR TVFD L P + RV+S+GRLDINTEGLLLLTNDG Sbjct: 149 TRLFLFHKPRGLVTTNHDPEGRPTVFDYLHERHPDM-PRVLSIGRLDINTEGLLLLTNDG 207 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+R+LELP+T W+R YRVR G DQ L+ L++GI I GI Y M+VT D ++G+N+W Sbjct: 208 GLSRLLELPTTGWVRRYRVRAKGTTDQAVLDQLRQGITIDGIHYAGMEVTFDREQGANSW 267 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +T+ LREGKNRE+K+V E +VNRLIR+S+GPFQLG L G EV ++LR+QLGP Sbjct: 268 LTLSLREGKNREVKRVLEQIGLEVNRLIRLSFGPFQLGDLPEGDVTEVRTRVLRDQLGPS 327 Query: 249 LLEEAQVN 256 L A V+ Sbjct: 328 LAAAAGVD 335 >gi|83591991|ref|YP_425743.1| pseudouridine synthase, Rsu [Rhodospirillum rubrum ATCC 11170] gi|83574905|gb|ABC21456.1| Pseudouridine synthase, Rsu [Rhodospirillum rubrum ATCC 11170] Length = 293 Score = 281 bits (718), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 134/233 (57%), Positives = 172/233 (73%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KVIARAGI SRR+ E++I + RV +NG +E A V ++D + VDG PL E Sbjct: 6 ERIAKVIARAGICSRRDAEKLIVEGRVTLNGRKVETPATLVAASDTVTVDGKPLPALEPA 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW Y+KPIGLVT+H D GR TVF+ LP+ RVISVGRLD+N+EGLLLLTNDG LAR Sbjct: 66 RLWRYNKPIGLVTSHRDEQGRPTVFERLPATLPRVISVGRLDLNSEGLLLLTNDGELARR 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LE PS WLR YRVR HG D KL L+KG+ ++G+ YG ++V L+ Q+G+NAW++V L Sbjct: 126 LEHPSQGWLRRYRVRVHGAPDPVKLAALEKGVTVEGVAYGSIRVALERQQGANAWLSVSL 185 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 REGKNREI++V E V+RLIR++YGPFQLG L G+ E+ KI+REQLG Sbjct: 186 REGKNREIRRVMEHLGLPVSRLIRVAYGPFQLGQLEEGTVDEIPGKIMREQLG 238 >gi|84515287|ref|ZP_01002649.1| RNA pseudouridylate synthase family protein [Loktanella vestfoldensis SKA53] gi|84510570|gb|EAQ07025.1| RNA pseudouridylate synthase family protein [Loktanella vestfoldensis SKA53] Length = 272 Score = 280 bits (717), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 139/239 (58%), Positives = 172/239 (71%), Gaps = 2/239 (0%) Query: 10 NFTPQ--RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 N TPQ R++KV++RAG+ASRR+ ERMI + RV VNG ++ A+NV D I VDG + Sbjct: 3 NDTPQGDRIAKVLSRAGVASRRDAERMITEGRVSVNGKVITSPALNVTDADRIVVDGKAM 62 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R E R+WLYHKP GLVTT D R TVF +LP RV+SVGRLD+N+EGLLLLTND Sbjct: 63 RAPEAPRIWLYHKPAGLVTTERDEKDRPTVFASLPEDMPRVMSVGRLDLNSEGLLLLTND 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GG+ R LELPST WLR YRVR +G V + +L L+ GI + GI Y M VT D Q+G+NA Sbjct: 123 GGVKRRLELPSTGWLRRYRVRINGSVSEARLEQLRAGITVDGIRYQPMIVTFDRQQGANA 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W+TV LREGKNREI++ E VNRLIR+SYGPFQLG L AG+ EV +++R+QLG Sbjct: 183 WLTVSLREGKNREIRRAMEAIGVTVNRLIRVSYGPFQLGNLEAGAVEEVKGRVVRDQLG 241 >gi|114765382|ref|ZP_01444497.1| RNA pseudouridylate synthase family protein [Pelagibaca bermudensis HTCC2601] gi|114542225|gb|EAU45255.1| RNA pseudouridylate synthase family protein [Roseovarius sp. HTCC2601] Length = 283 Score = 280 bits (717), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 139/246 (56%), Positives = 171/246 (69%), Gaps = 3/246 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV++RAGIASRRE ERMI + RV VNG + A+NV D I VDG PL E R Sbjct: 23 RIAKVLSRAGIASRREAERMIEEGRVTVNGETIASPALNVTDKDRITVDGKPLEAPEAPR 82 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +W+YHKP GLVTT D GR T+FD LP RV++VGRLD+N+EGLLLLTNDGG+ R L Sbjct: 83 MWMYHKPAGLVTTTKDEQGRETIFDKLPEDLPRVMTVGRLDLNSEGLLLLTNDGGIKRKL 142 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR +G+ ++ L L+ GI + G + MQV LD Q+GSNAW+TVGLR Sbjct: 143 ELPSTGWLRRYRVRVNGKPTEEMLKPLRDGITVDGQTFQPMQVELDRQQGSNAWLTVGLR 202 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNREI++ VNRLIRISYGPFQLG + G E+ +I+R+QLG LE A+ Sbjct: 203 EGKNREIRRAMSDIGLTVNRLIRISYGPFQLGQMKVGEVVELRGRIVRDQLG---LEGAK 259 Query: 255 VNLDAP 260 P Sbjct: 260 TTRPEP 265 >gi|89053708|ref|YP_509159.1| pseudouridine synthase, Rsu [Jannaschia sp. CCS1] gi|88863257|gb|ABD54134.1| Pseudouridine synthase Rsu [Jannaschia sp. CCS1] Length = 296 Score = 280 bits (717), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 133/233 (57%), Positives = 171/233 (73%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K ++RAG+ASRRE ERMI RV VNG ++E A+NV D IEVD PL + ER Sbjct: 5 ERIAKRLSRAGVASRREAERMIEAGRVSVNGAVIESPALNVTDADVIEVDNAPLPEIERP 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+W+YHKP GLVT+++D GR TVFD LP RV+SVGRLD+N+EGLLLLTNDGG+ R Sbjct: 65 RVWMYHKPTGLVTSNADEKGRETVFDKLPDSLPRVMSVGRLDMNSEGLLLLTNDGGVKRK 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPST WLR YRVR G + L++GIV +G + M+V+LD +G+NAW+TVGL Sbjct: 125 LELPSTGWLRKYRVRMKGAPKDEDFAPLRRGIVAEGERFQPMEVSLDRVQGANAWITVGL 184 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 REGKNREI++ ++VNRLIR+SYGPF+LG L G EV ++LR+QLG Sbjct: 185 REGKNREIRRAMAELGFEVNRLIRVSYGPFRLGELKPGEVEEVRPRVLRDQLG 237 >gi|46370355|gb|AAS89963.1| hypothetical protein [Agrobacterium vitis] Length = 240 Score = 280 bits (716), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 136/217 (62%), Positives = 162/217 (74%) Query: 34 MIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 MI + RV VNG +L+ +N D IEVDG +R ERTRLWLYHKP GLVTT+SDP+G Sbjct: 1 MIMEGRVAVNGKVLDSPVLNATLADRIEVDGEAIRGIERTRLWLYHKPSGLVTTNSDPEG 60 Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 R TVFDNLP RV+S+GRLDINTEGLLLLTNDGGLARVLELP+T WLR YRVR +G++ Sbjct: 61 RPTVFDNLPEELPRVMSIGRLDINTEGLLLLTNDGGLARVLELPTTGWLRRYRVRAYGEI 120 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 DQ KL+ LK GI + G+ YG + LD +G N W+T+GLREGKNREIK V +VN Sbjct: 121 DQAKLDTLKDGIAVDGVLYGAIDAVLDRAQGHNVWITMGLREGKNREIKNVLGALGLEVN 180 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 RLIRISYGPFQLG L +EV ++LR+QLGP L+ Sbjct: 181 RLIRISYGPFQLGDLPESQVQEVRGRMLRDQLGPRLI 217 >gi|146278267|ref|YP_001168426.1| RNA-binding S4 domain-containing protein [Rhodobacter sphaeroides ATCC 17025] gi|145556508|gb|ABP71121.1| RNA-binding S4 domain protein [Rhodobacter sphaeroides ATCC 17025] Length = 466 Score = 280 bits (715), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 151/304 (49%), Positives = 188/304 (61%), Gaps = 8/304 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KV++RAG+ASRR+ ERMI RV VNG ++ A+NV D I VDG PL + Sbjct: 8 ERIAKVLSRAGVASRRDAERMIELGRVAVNGRTIDSPALNVGPKDRITVDGQPLAPPQPA 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLY+KP GLVT+ +D GR TVFD+LP RV+SVGRLD+N+EGLLLLTNDG L R Sbjct: 68 RLWLYYKPEGLVTSAADEKGRETVFDHLPEDLPRVMSVGRLDLNSEGLLLLTNDGELKRR 127 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPST WLR YRVR G L L+KGI ++G + M VTLD +G+NAW+TVGL Sbjct: 128 LELPSTGWLRKYRVRVKGNPTDPDLEPLRKGITVEGERFQPMTVTLDRVQGANAWLTVGL 187 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE- 252 REGKNREI++ VNRLIRISYGPF+L L G EV K+LR+QLG EE Sbjct: 188 REGKNREIRRAMSAIGLTVNRLIRISYGPFRLNELQPGMVEEVRPKVLRDQLGLDPREED 247 Query: 253 ------AQVNLDAPIYSSETLVRDRPNIISEVPDDFTR-MKKNSSQKNGLSKQKKLATPV 305 A+ A S + RP+ +P D R K + + G K A P Sbjct: 248 GRPPKAARPPRGAGAASGRSHPGARPSGSKPLPPDEARGGSKGAPRGRGAGAAPKSAGPA 307 Query: 306 HRRN 309 RR+ Sbjct: 308 RRRD 311 >gi|163797848|ref|ZP_02191793.1| Pseudouridine synthase, Rsu [alpha proteobacterium BAL199] gi|159176892|gb|EDP61459.1| Pseudouridine synthase, Rsu [alpha proteobacterium BAL199] Length = 387 Score = 280 bits (715), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 135/241 (56%), Positives = 179/241 (74%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + +E+ +R+SK +ARAG+ SRR+ ER IA+ RVKV+G++L AVNV I VD Sbjct: 1 MFEESRGSERISKRLARAGLCSRRDAERWIAEGRVKVDGVMLTSPAVNVDDDSVILVDEK 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL + E RLW YHKP GLVT++ DP+GRSTVFD LP RV++VGRLDI++EGLLLLT Sbjct: 61 PLPEIEPPRLWRYHKPDGLVTSNRDPEGRSTVFDRLPKDLPRVVTVGRLDIDSEGLLLLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDGGLAR LELPST W+R YRVR G +D+ KL+ LKKG+ I+G+ YG ++VT+D + Sbjct: 121 NDGGLARYLELPSTGWVRRYRVRVFGPLDEAKLDNLKKGVRIEGVEYGPIEVTIDKATRT 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 N+W+TV LREGKNREI++V E V+RLIR +YGPFQLG + G E+ +++L++QL Sbjct: 181 NSWLTVALREGKNREIRRVMEHVGLTVSRLIRTTYGPFQLGEVPPGGVEEIKRRVLKDQL 240 Query: 246 G 246 G Sbjct: 241 G 241 >gi|254460191|ref|ZP_05073607.1| ribosomal large subunit pseudouridine synthase [Rhodobacterales bacterium HTCC2083] gi|206676780|gb|EDZ41267.1| ribosomal large subunit pseudouridine synthase [Rhodobacteraceae bacterium HTCC2083] Length = 310 Score = 279 bits (714), Expect = 4e-73, Method: Compositional matrix adjust. Identities = 130/232 (56%), Positives = 171/232 (73%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV+ARAG+ASRRE ERMI R+ V+G +++ A+NV+ T I VDG P+ E R Sbjct: 10 RIAKVLARAGVASRREAERMIDAGRISVDGKIIDSPALNVLPTARISVDGKPMAAPEPPR 69 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +W+YHKP GLVTT SD GR T+FD+LP RV+SVGRLD+N+EGLLLLTNDGGL R L Sbjct: 70 VWMYHKPTGLVTTDSDEKGRKTIFDDLPEDMPRVMSVGRLDLNSEGLLLLTNDGGLKRKL 129 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR +G+ ++ L+KG+ +QG + M V++D Q+G+NAW+TVG+R Sbjct: 130 ELPSTGWLRKYRVRINGRPTEETFEPLRKGLNLQGEHFQPMLVSIDRQQGANAWLTVGIR 189 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNREI++ E VNRLIR+SYGPFQLG L E+ ++ L++QLG Sbjct: 190 EGKNREIRRAMEAIQLNVNRLIRVSYGPFQLGNLKTSGVEEIRRRALKDQLG 241 >gi|110679275|ref|YP_682282.1| RNA pseudouridylate synthase family protein, putative [Roseobacter denitrificans OCh 114] gi|109455391|gb|ABG31596.1| RNA pseudouridylate synthase family protein, putative [Roseobacter denitrificans OCh 114] Length = 285 Score = 279 bits (713), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 141/244 (57%), Positives = 176/244 (72%), Gaps = 5/244 (2%) Query: 11 FTPQ--RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 TPQ R++KV++RAG+ASRRE ERMI RVKVNG + A+NV ++D I VDG + Sbjct: 5 LTPQGDRIAKVLSRAGVASRREAERMIEAGRVKVNGKPISSPALNVQASDKITVDGKDVS 64 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E RLWLYHKP GLVTT +D GR T++ LP+ RV+SVGRLDIN+EGLLLLTNDG Sbjct: 65 PPEPARLWLYHKPTGLVTTDNDEKGRETIYSALPADLPRVMSVGRLDINSEGLLLLTNDG 124 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + R LELP+T WLR YRVR +G+ L L++GI +G + MQVTLD Q+G+NAW Sbjct: 125 SIKRRLELPTTGWLRRYRVRVNGRPTDATLEPLRRGISSEGENFQPMQVTLDRQQGANAW 184 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +T+GLREGKNREI++ VNRLIRISYGPFQLG L +G+ EV +K+LR+QLG Sbjct: 185 LTMGLREGKNREIRRALAELGLTVNRLIRISYGPFQLGELKSGAVEEVRRKVLRDQLG-- 242 Query: 249 LLEE 252 LEE Sbjct: 243 -LEE 245 >gi|254474349|ref|ZP_05087735.1| pseudouridine synthase, Rsu:RNA-binding S4:Pseudouridine synthase [Ruegeria sp. R11] gi|214028592|gb|EEB69427.1| pseudouridine synthase, Rsu:RNA-binding S4:Pseudouridine synthase [Ruegeria sp. R11] Length = 414 Score = 279 bits (713), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 137/241 (56%), Positives = 176/241 (73%), Gaps = 1/241 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R++KV++RAG+ASRRE ERMIA RV+VNG +++ A+NV+ D I VDG + + E Sbjct: 46 RIAKVLSRAGLASRREAERMIADGRVEVNGKVIDSPALNVVVGKDRIVVDGKQVEEPEPP 105 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLYHKP GLVTT SD R T+FD+LP RV++VGRLD+N+EGLLLLTNDGG+ R Sbjct: 106 RLWLYHKPAGLVTTTSDELDRKTIFDDLPEDLPRVMTVGRLDLNSEGLLLLTNDGGIKRQ 165 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPST WLR YRVR +G+ L+KG+VI+G + M VTLD Q+G+NAW+TVGL Sbjct: 166 LELPSTGWLRRYRVRINGRPQDSDFEPLRKGLVIEGEKFQPMIVTLDRQQGANAWLTVGL 225 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNREI++ E + VNRL+R+SYGPFQLG L G E+ +++R+QLG EE Sbjct: 226 REGKNREIRRAMEDIGFSVNRLLRLSYGPFQLGQLKPGEVEELRPRVVRDQLGLAAPEEE 285 Query: 254 Q 254 Q Sbjct: 286 Q 286 >gi|316932709|ref|YP_004107691.1| RNA-binding S4 domain-containing protein [Rhodopseudomonas palustris DX-1] gi|315600423|gb|ADU42958.1| RNA-binding S4 domain protein [Rhodopseudomonas palustris DX-1] Length = 717 Score = 279 bits (713), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 132/250 (52%), Positives = 177/250 (70%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KV+ARAG+ SRR+ E I + RV VNG +++ A++V ++D I +DG PL + ERT Sbjct: 391 ERIAKVVARAGLCSRRDAEAWITEGRVAVNGKVIDSPALDVKASDVITIDGKPLPERERT 450 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL+LYHKP GL+TTHSDP+GR TVFD+LP R+IS+GRLD NTEGLLLLTNDGGLAR Sbjct: 451 RLFLYHKPRGLMTTHSDPEGRPTVFDHLPEGLPRLISIGRLDFNTEGLLLLTNDGGLARA 510 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP T WLR YRVR HG++ Q +L+ L+ GI + G+ YG + L+ + +N W+ + Sbjct: 511 LELPETGWLRRYRVRAHGEITQAQLDELQNGIEVDGVQYGPIDAKLERDQSANVWLVFAI 570 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE++ V +VNRLIR+SYGPFQL L G EV ++LR+QLG ++ A Sbjct: 571 REGKNREVRNVLAHLGLEVNRLIRVSYGPFQLLELGEGEVDEVKTRVLRDQLGEKVIALA 630 Query: 254 QVNLDAPIYS 263 + P S Sbjct: 631 GCDFAGPSPS 640 >gi|221638684|ref|YP_002524946.1| Pseudouridine synthase [Rhodobacter sphaeroides KD131] gi|221159465|gb|ACM00445.1| Pseudouridine synthase [Rhodobacter sphaeroides KD131] Length = 491 Score = 279 bits (713), Expect = 6e-73, Method: Compositional matrix adjust. Identities = 139/243 (57%), Positives = 169/243 (69%), Gaps = 2/243 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KV++RAGIASRR+ ERMI R+ VNG ++ A+NV D I VDG PL E Sbjct: 8 ERIAKVLSRAGIASRRDAERMIELGRIAVNGRTIDSPALNVGPKDRITVDGQPLAPPEPA 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLY+KP GLVT+ SD GR TVFD+LP RV+SVGRLD+N+EGLLLLTNDG L R Sbjct: 68 RLWLYYKPEGLVTSASDEKGRETVFDHLPEGMPRVMSVGRLDLNSEGLLLLTNDGELKRR 127 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPST WLR YRVR G L L+KGI ++G + M V+LD +G+NAW+TVGL Sbjct: 128 LELPSTGWLRKYRVRVKGNPTDADLEPLRKGITVEGESFQPMTVSLDRVQGANAWLTVGL 187 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG--PHLLE 251 REGKNREI++ VNRLIR+SYGPF+L L G EV KILR+QLG PH Sbjct: 188 REGKNREIRRAMSALGLTVNRLIRVSYGPFRLNELEPGMVEEVRPKILRDQLGLDPHADG 247 Query: 252 EAQ 254 EA+ Sbjct: 248 EAR 250 >gi|126461709|ref|YP_001042823.1| RNA-binding S4 domain-containing protein [Rhodobacter sphaeroides ATCC 17029] gi|126103373|gb|ABN76051.1| RNA-binding S4 domain protein [Rhodobacter sphaeroides ATCC 17029] Length = 489 Score = 278 bits (712), Expect = 6e-73, Method: Compositional matrix adjust. Identities = 139/243 (57%), Positives = 169/243 (69%), Gaps = 2/243 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KV++RAGIASRR+ ERMI R+ VNG ++ A+NV D I VDG PL E Sbjct: 8 ERIAKVLSRAGIASRRDAERMIELGRIAVNGRTIDSPALNVGPKDRITVDGQPLAPPEPA 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLY+KP GLVT+ SD GR TVFD+LP RV+SVGRLD+N+EGLLLLTNDG L R Sbjct: 68 RLWLYYKPEGLVTSASDEKGRETVFDHLPEGMPRVMSVGRLDLNSEGLLLLTNDGELKRR 127 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPST WLR YRVR G L L+KGI ++G + M V+LD +G+NAW+TVGL Sbjct: 128 LELPSTGWLRKYRVRVKGNPTDADLEPLRKGITVEGESFQPMTVSLDRVQGANAWLTVGL 187 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG--PHLLE 251 REGKNREI++ VNRLIR+SYGPF+L L G EV KILR+QLG PH Sbjct: 188 REGKNREIRRAMSALGLTVNRLIRVSYGPFRLNELEPGMVEEVRPKILRDQLGLDPHADG 247 Query: 252 EAQ 254 EA+ Sbjct: 248 EAR 250 >gi|77462817|ref|YP_352321.1| pseudouridine synthase [Rhodobacter sphaeroides 2.4.1] gi|77387235|gb|ABA78420.1| Pseudouridine synthase, (predicted) [Rhodobacter sphaeroides 2.4.1] Length = 508 Score = 278 bits (712), Expect = 6e-73, Method: Compositional matrix adjust. Identities = 139/243 (57%), Positives = 169/243 (69%), Gaps = 2/243 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KV++RAGIASRR+ ERMI R+ VNG ++ A+NV D I VDG PL E Sbjct: 8 ERIAKVLSRAGIASRRDAERMIELGRIAVNGRTIDSPALNVGPKDRITVDGQPLAPPEPA 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLY+KP GLVT+ SD GR TVFD+LP RV+SVGRLD+N+EGLLLLTNDG L R Sbjct: 68 RLWLYYKPEGLVTSASDEKGRETVFDHLPEGMPRVMSVGRLDLNSEGLLLLTNDGELKRR 127 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPST WLR YRVR G L L+KGI ++G + M V+LD +G+NAW+TVGL Sbjct: 128 LELPSTGWLRKYRVRVKGNPTDADLEPLRKGITVEGESFQPMTVSLDRVQGANAWLTVGL 187 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG--PHLLE 251 REGKNREI++ VNRLIR+SYGPF+L L G EV KILR+QLG PH Sbjct: 188 REGKNREIRRAMSALGLTVNRLIRVSYGPFRLNELEPGMVEEVRPKILRDQLGLDPHADG 247 Query: 252 EAQ 254 EA+ Sbjct: 248 EAR 250 >gi|85705167|ref|ZP_01036267.1| RNA pseudouridylate synthase family protein [Roseovarius sp. 217] gi|85670489|gb|EAQ25350.1| RNA pseudouridylate synthase family protein [Roseovarius sp. 217] Length = 269 Score = 278 bits (711), Expect = 9e-73, Method: Compositional matrix adjust. Identities = 140/247 (56%), Positives = 173/247 (70%), Gaps = 2/247 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KVIARAGIASRRE ER+I RV VNG + RAA+NV D + VDG L E Sbjct: 15 ERIAKVIARAGIASRREAERLIEAGRVTVNGQKVLRAALNVTPADKVVVDGRALDAPEPA 74 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLYHKP GLVTT D GRST++D+LP RV+SVGRLD+N+EGLLLLTNDG L R Sbjct: 75 RLWLYHKPTGLVTTTRDEQGRSTIYDDLPEDMPRVMSVGRLDLNSEGLLLLTNDGELKRK 134 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPST WLR YRVR +G+ L+KG+V+ G + M VTLD Q+G+NAW+TV + Sbjct: 135 LELPSTGWLRRYRVRVNGRPTDGTFEPLRKGLVVDGEAFQPMMVTLDRQQGANAWITVSI 194 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNREI++ E VNRLIR+SYGPFQLG L G+ E+ ++LR+QLG + EE Sbjct: 195 REGKNREIRRAMEAVGLVVNRLIRLSYGPFQLGQLKPGAVEEIRPRVLRDQLG--MKEEP 252 Query: 254 QVNLDAP 260 + P Sbjct: 253 EAEQPKP 259 >gi|329113791|ref|ZP_08242562.1| Putative RNA pseudouridine synthase [Acetobacter pomorum DM001] gi|326696801|gb|EGE48471.1| Putative RNA pseudouridine synthase [Acetobacter pomorum DM001] Length = 258 Score = 278 bits (711), Expect = 9e-73, Method: Compositional matrix adjust. Identities = 140/252 (55%), Positives = 178/252 (70%), Gaps = 1/252 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +AR+G+ASRR+ ERMI + R+++NG + A V + D ++VDG P+ ERT Sbjct: 8 ERIAKWLARSGVASRRDAERMIEENRIRLNGQPVTHPATFVTNGDIVQVDGEPVSAPERT 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW YHKP GLVTTH DP+GR TVF +LP RVISVGRLD+N+EGLLLLTNDG LAR Sbjct: 68 RLWRYHKPDGLVTTHKDPEGRPTVFASLPEGMPRVISVGRLDLNSEGLLLLTNDGELARR 127 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPS WLR YRVR G VD+++L L +G V G+ YG + LD++KG NAW+TV L Sbjct: 128 LELPSNGWLRRYRVRVFGVVDEERLASLAQGSVFDGVRYGPIHAVLDSRKGDNAWLTVSL 187 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +EGKNREI+KV N V+RLIR SYGPFQLGTLL EVS ++LR+QL P E+ Sbjct: 188 KEGKNREIRKVMAGMNLHVSRLIRTSYGPFQLGTLLRRELEEVSPRVLRDQL-PKATEKT 246 Query: 254 QVNLDAPIYSSE 265 AP ++ Sbjct: 247 PTTQRAPAKQAD 258 >gi|197106628|ref|YP_002132005.1| pseudouridine synthase, Rsu [Phenylobacterium zucineum HLK1] gi|196480048|gb|ACG79576.1| pseudouridine synthase, Rsu [Phenylobacterium zucineum HLK1] Length = 521 Score = 278 bits (711), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 135/255 (52%), Positives = 180/255 (70%), Gaps = 4/255 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K++AR+G+ SRR+VER+IA+ RV +NG +L AV V D + VDG + + E Sbjct: 151 ERIAKLLARSGVGSRRDVERLIAEGRVAINGQVLTTPAVKVEPGDILTVDGAVVGEPEPV 210 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R++ YHKP+GLVTTH DP GR TVF+ LP R+ISVGRLD+N+EGLLLLTNDGGLAR Sbjct: 211 RVFRYHKPVGLVTTHKDPQGRPTVFEALPEGLPRLISVGRLDLNSEGLLLLTNDGGLARA 270 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----GSNAWV 189 LELP+T +R YR R HG++ Q++L+ LK GI ++G+ YG ++ LD K G+N W+ Sbjct: 271 LELPATGVVRRYRARAHGRITQERLDTLKDGITVEGVRYGAIEARLDKAKEGHQGANLWL 330 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 TV L+EGKNRE+++V E KVNRLIR+SYGPF LGTL G EV +++REQL H+ Sbjct: 331 TVTLQEGKNREVRRVLEALGLKVNRLIRLSYGPFALGTLDVGEIEEVGPRVIREQLEGHI 390 Query: 250 LEEAQVNLDAPIYSS 264 E D P Y S Sbjct: 391 PPENMPKGDRPQYRS 405 >gi|163745924|ref|ZP_02153283.1| RNA pseudouridylate synthase family protein, putative [Oceanibulbus indolifex HEL-45] gi|161380669|gb|EDQ05079.1| RNA pseudouridylate synthase family protein, putative [Oceanibulbus indolifex HEL-45] Length = 354 Score = 278 bits (711), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 132/246 (53%), Positives = 172/246 (69%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV++RAG+ASRRE ERMI RV+VNG ++ A+NV D I VD P+ E R Sbjct: 26 RIAKVLSRAGVASRREAERMIEAGRVRVNGEQIDSPALNVTPEDKITVDNTPVGAPEPPR 85 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +WLYHKP GLVTT D GR T+FD+LP RV+++GRLD+N+EGLLLLTNDGG+ R L Sbjct: 86 MWLYHKPAGLVTTARDEKGRETIFDDLPEDMPRVMTIGRLDLNSEGLLLLTNDGGVKRKL 145 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YR R +G+ + L L++GI ++G + M VTLD Q+G+NAW+T+GLR Sbjct: 146 ELPSTGWLRRYRARVNGRPTDEMLEPLRRGITVEGENFLPMDVTLDRQQGANAWLTIGLR 205 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EG+NREI++ E VNRLIR SYGPFQLG L G E+ +KI+R+QLG L + Sbjct: 206 EGRNREIRRAMEAVGLTVNRLIRTSYGPFQLGELKTGEVEELRRKIVRDQLGLELEDPTG 265 Query: 255 VNLDAP 260 + P Sbjct: 266 TAVKKP 271 >gi|315500441|ref|YP_004089244.1| RNA-binding s4 domain protein [Asticcacaulis excentricus CB 48] gi|315418453|gb|ADU15093.1| RNA-binding S4 domain protein [Asticcacaulis excentricus CB 48] Length = 658 Score = 278 bits (711), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 173/238 (72%), Gaps = 5/238 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KV+ARAG+ASRREVER+I ++ VNG LL+ A V D I V+G P+RKAE T Sbjct: 46 ERIAKVLARAGLASRREVERLIGLGKIAVNGRLLDTPATTVSPDDLITVEGKPIRKAEPT 105 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+W YHKP+GL+TTH DP GR TVF++LP RVISVGRLDIN+EGLLLLTNDG LAR Sbjct: 106 RVWRYHKPVGLMTTHQDPQGRPTVFNSLPQELPRVISVGRLDINSEGLLLLTNDGELARA 165 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-----SNAW 188 LELP+T W RVYRVR G+ Q+ L+ LK G+ ++G+ YG ++ LD + +N W Sbjct: 166 LELPTTGWTRVYRVRALGRTTQEALDTLKTGVTVEGVQYGPIEAKLDKAQEKADGRANLW 225 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +TV L EGKNRE++KV + KVNRLIR++YGPFQLG + G E+ +++RE LG Sbjct: 226 ITVSLNEGKNREVRKVLDSLGLKVNRLIRLAYGPFQLGDIEPGEVEEIGPRVVRELLG 283 >gi|217979006|ref|YP_002363153.1| RNA-binding S4 domain protein [Methylocella silvestris BL2] gi|217504382|gb|ACK51791.1| RNA-binding S4 domain protein [Methylocella silvestris BL2] Length = 676 Score = 278 bits (710), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 133/237 (56%), Positives = 173/237 (72%), Gaps = 5/237 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KVIARAG SRR+ E +I++ RV +NG +L A+NV D I +DG PL + RT Sbjct: 25 ERIAKVIARAGACSRRDAETLISEGRVALNGAILISPAINVGPDDVILIDGAPLAERART 84 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL----PSIFSRVISVGRLDINTEGLLLLTNDGG 129 RL+L+HKP GLVTT DP+GR TVFD + P R++S+GRLDINTEGLLLLTNDGG Sbjct: 85 RLFLFHKPRGLVTTEHDPEGRPTVFDYVREHSPEA-PRLVSIGRLDINTEGLLLLTNDGG 143 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LARVLELP+T W R YRVR G +DQ L+ L++G+ ++G+ Y ++ TLD +G+N W+ Sbjct: 144 LARVLELPATGWARRYRVRAKGSIDQPTLDRLRQGVTVEGVDYAQIEATLDRIQGANCWL 203 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 T+ LREGKNREIK+V E +VNRLIR+SYGPFQL L G EV ++LR+QLG Sbjct: 204 TMSLREGKNREIKRVLEHLGLEVNRLIRLSYGPFQLADLEEGKVEEVRTRVLRDQLG 260 >gi|258543615|ref|YP_003189048.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-01] gi|256634693|dbj|BAI00669.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-01] gi|256637749|dbj|BAI03718.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-03] gi|256640803|dbj|BAI06765.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-07] gi|256643858|dbj|BAI09813.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-22] gi|256646913|dbj|BAI12861.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-26] gi|256649966|dbj|BAI15907.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-32] gi|256652956|dbj|BAI18890.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-01-42C] gi|256656010|dbj|BAI21937.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-12] Length = 258 Score = 277 bits (709), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 140/252 (55%), Positives = 178/252 (70%), Gaps = 1/252 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +AR+G+ASRR+ ERMI + R+++NG + A V + D ++VDG P+ ERT Sbjct: 8 ERIAKWLARSGVASRRDAERMIEENRIRLNGQPVTHPATFVTNGDIVQVDGEPVSAPERT 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW YHKP GLVTTH DP+GR TVF +LP RVISVGRLD+N+EGLLLLTNDG LAR Sbjct: 68 RLWRYHKPDGLVTTHKDPEGRPTVFASLPEGMPRVISVGRLDLNSEGLLLLTNDGELARR 127 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPS WLR YRVR G VD+++L L +G V G+ YG + LD++KG NAW+TV L Sbjct: 128 LELPSNGWLRRYRVRVFGVVDEERLASLAQGCVFDGVRYGPIHAVLDSRKGDNAWLTVSL 187 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +EGKNREI+KV N V+RLIR SYGPFQLGTL EVS ++LR+QL P E+A Sbjct: 188 KEGKNREIRKVMAGMNLHVSRLIRTSYGPFQLGTLQRRELEEVSPRVLRDQL-PKATEKA 246 Query: 254 QVNLDAPIYSSE 265 AP ++ Sbjct: 247 PPARRAPAKQAD 258 >gi|83859466|ref|ZP_00952987.1| RNA pseudouridylate synthase family protein [Oceanicaulis alexandrii HTCC2633] gi|83852913|gb|EAP90766.1| RNA pseudouridylate synthase family protein [Oceanicaulis alexandrii HTCC2633] Length = 354 Score = 276 bits (706), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 131/233 (56%), Positives = 168/233 (72%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KV+A AGIASRRE ER+I + RV VNG +L A VM+ D + VDG + + T Sbjct: 17 ERIAKVLAHAGIASRREAERLIEKGRVSVNGEILRTPAFKVMAGDDVRVDGESIGQRPPT 76 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+W YHKP+GL+TTHSDP GR TVF LP RVISVGRLD+N+EGLLLLTNDG LARV Sbjct: 77 RVWRYHKPVGLLTTHSDPQGRDTVFQTLPQDMGRVISVGRLDLNSEGLLLLTNDGELARV 136 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPST W R YRVR +G L L+ G V+ G+ YG ++VT+D + G+N W+TVG+ Sbjct: 137 LELPSTGWTRRYRVRAYGNASDKALAELENGTVVDGVVYGPVEVTVDRRTGANVWLTVGI 196 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +EGKNRE++KV + VNRL+R++YGPFQLG+L G E +LR+QLG Sbjct: 197 KEGKNREVRKVLQSVGLTVNRLMRVAYGPFQLGSLKRGEISESKLSVLRDQLG 249 >gi|159045330|ref|YP_001534124.1| RNA pseudouridine synthase [Dinoroseobacter shibae DFL 12] gi|157913090|gb|ABV94523.1| RNA pseudouridine synthase [Dinoroseobacter shibae DFL 12] Length = 322 Score = 276 bits (705), Expect = 5e-72, Method: Compositional matrix adjust. Identities = 135/242 (55%), Positives = 170/242 (70%), Gaps = 2/242 (0%) Query: 7 VQENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + +N TP R++KV+ARAGIASRRE ER+IA+ RV VNG ++ A+NV D I DG Sbjct: 1 MADNTTPPGDRIAKVLARAGIASRREAERLIAEGRVAVNGKTVDSPALNVTEADKITFDG 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P+ + E RLW YHKP+GLVTT D GR TVFD LP+ RV+SVGRLD+N+EGLLLL Sbjct: 61 TPIAEPEPPRLWRYHKPVGLVTTAKDEKGRETVFDALPADLPRVMSVGRLDLNSEGLLLL 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG + R LELP+T WLR YRVR G +D L L+ GI ++G + M+ LD +G Sbjct: 121 TNDGEIKRRLELPTTGWLRRYRVRVKGAPTEDDLAPLRAGIEVEGERFKPMEARLDRLQG 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +NAW+T+GLREG+NREI++ VNRLIRISYGPF+LG L G E+ +ILREQ Sbjct: 181 ANAWLTLGLREGRNREIRRAMGALGLVVNRLIRISYGPFRLGELKPGEVEEIKGRILREQ 240 Query: 245 LG 246 LG Sbjct: 241 LG 242 >gi|154251100|ref|YP_001411924.1| RNA-binding S4 domain-containing protein [Parvibaculum lavamentivorans DS-1] gi|154155050|gb|ABS62267.1| RNA-binding S4 domain protein [Parvibaculum lavamentivorans DS-1] Length = 327 Score = 276 bits (705), Expect = 5e-72, Method: Compositional matrix adjust. Identities = 132/234 (56%), Positives = 172/234 (73%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KVIARAGI SRRE E++I + RV V+G +L+ A+NV + I VDG L E T+ Sbjct: 16 RIAKVIARAGICSRREAEKLIEEGRVTVDGKVLKSPALNVTGRETIIVDGKALPAQEPTK 75 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW YHKP GLVTT DP+GR+TVF+ LP RV+SVGRLDINTEGLLLLTNDG LAR+L Sbjct: 76 LWRYHKPAGLVTTAKDPEGRTTVFEKLPDDIPRVVSVGRLDINTEGLLLLTNDGELARLL 135 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELP+T W R YRVR G++ Q L+ LK GI ++G+ YG ++ T+D +GSN W+T+GL+ Sbjct: 136 ELPATGWTRRYRVRAWGRITQADLDKLKNGITVEGVRYGPIEATIDKVQGSNVWLTLGLK 195 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 EGKNRE+K+V VNRLIR+S+GPFQ+G L G ++V ++L +QLG H Sbjct: 196 EGKNREVKRVLAELGLSVNRLIRLSFGPFQIGDLEPGDIKQVPNRVLMDQLGAH 249 >gi|329851127|ref|ZP_08265884.1| S4 domain protein [Asticcacaulis biprosthecum C19] gi|328839973|gb|EGF89545.1| S4 domain protein [Asticcacaulis biprosthecum C19] Length = 760 Score = 275 bits (704), Expect = 5e-72, Method: Compositional matrix adjust. Identities = 134/237 (56%), Positives = 172/237 (72%), Gaps = 5/237 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KV+ARAG+ASRREVER+I ++ VNG +LE AV V S D I V+G + KAE T Sbjct: 53 ERIAKVLARAGLASRREVERLIGLGKIAVNGRILETPAVLVSSADIITVEGQVIGKAEPT 112 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+W YHKP+GL+TTHSDP GR T+FD LP+ RVISVGRLD+N+EGLLLLTNDG LAR Sbjct: 113 RVWRYHKPVGLITTHSDPQGRPTLFDQLPTHLPRVISVGRLDLNSEGLLLLTNDGELARS 172 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKG---SNAW 188 LE PS+ W+R YRVR G Q +L+ LK G ++G+ YG M+ T+D +K +N W Sbjct: 173 LEKPSSGWVRRYRVRALGHASQSRLDALKDGTTVEGVIYGPMEATIDKVAEKADGRANVW 232 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +TV + EGKNRE++KV E KVNRLIR++YGPFQLG L G EV +++RE L Sbjct: 233 LTVAITEGKNREVRKVLESIGLKVNRLIRLAYGPFQLGNLETGEVEEVGPRVIRELL 289 >gi|149200863|ref|ZP_01877838.1| RNA pseudouridylate synthase family protein [Roseovarius sp. TM1035] gi|149145196|gb|EDM33222.1| RNA pseudouridylate synthase family protein [Roseovarius sp. TM1035] Length = 268 Score = 275 bits (704), Expect = 6e-72, Method: Compositional matrix adjust. Identities = 134/233 (57%), Positives = 169/233 (72%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KVIARAGIASRRE ER+I + RV VNG + RAA+NV D + V+G L AE Sbjct: 14 ERIAKVIARAGIASRREAERLIEEGRVTVNGQKVLRAALNVTPADKVVVNGRALEAAEPA 73 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLYHKP GLVTT D GR T++D+LP RV+SVGRLD+N+EGLLLLTNDG L R Sbjct: 74 RLWLYHKPTGLVTTTRDEKGRRTIYDDLPEDMPRVMSVGRLDLNSEGLLLLTNDGELKRK 133 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPST WLR YRVR +G+ L+KG+V+ G + M V+LD Q+G+NAW+TV + Sbjct: 134 LELPSTGWLRRYRVRVNGRPTDASFEPLRKGLVVDGEAFQPMIVSLDRQQGANAWITVAI 193 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 REGKNREI++ E VNRLIR+SYGPFQLG L G+ E+ +++R+QLG Sbjct: 194 REGKNREIRRAMEAVGLVVNRLIRLSYGPFQLGQLKPGAVEEIRPRVMRDQLG 246 >gi|332557705|ref|ZP_08412027.1| RNA-binding S4 domain-containing protein [Rhodobacter sphaeroides WS8N] gi|332275417|gb|EGJ20732.1| RNA-binding S4 domain-containing protein [Rhodobacter sphaeroides WS8N] Length = 385 Score = 275 bits (702), Expect = 9e-72, Method: Compositional matrix adjust. Identities = 139/243 (57%), Positives = 169/243 (69%), Gaps = 2/243 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KV++RAGIASRR+ ERMI R+ VNG ++ A+NV D I VDG PL E Sbjct: 8 ERIAKVLSRAGIASRRDAERMIELGRIAVNGRTIDSPALNVGPKDRITVDGQPLAPPEPA 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLY+KP GLVT+ SD GR TVFD+LP RV+SVGRLD+N+EGLLLLTNDG L R Sbjct: 68 RLWLYYKPEGLVTSASDEKGRETVFDHLPEGMPRVMSVGRLDLNSEGLLLLTNDGELKRR 127 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPST WLR YRVR G L L+KGI ++G + M V+LD +G+NAW+TVGL Sbjct: 128 LELPSTGWLRKYRVRVKGNPTDADLEPLRKGITVEGESFQPMTVSLDRVQGANAWLTVGL 187 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG--PHLLE 251 REGKNREI++ VNRLIR+SYGPF+L L G EV KILR+QLG PH Sbjct: 188 REGKNREIRRAMSALGLTVNRLIRVSYGPFRLNELEPGMVEEVRPKILRDQLGLDPHADG 247 Query: 252 EAQ 254 EA+ Sbjct: 248 EAR 250 >gi|148260478|ref|YP_001234605.1| RNA-binding S4 domain-containing protein [Acidiphilium cryptum JF-5] gi|326403671|ref|YP_004283753.1| ribosomal large subunit pseudouridine synthase B [Acidiphilium multivorum AIU301] gi|146402159|gb|ABQ30686.1| RNA-binding S4 domain protein [Acidiphilium cryptum JF-5] gi|325050533|dbj|BAJ80871.1| ribosomal large subunit pseudouridine synthase B [Acidiphilium multivorum AIU301] Length = 247 Score = 274 bits (700), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 132/232 (56%), Positives = 167/232 (71%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +ARAG+ASRR+ ERMI RV +NG + A V + D I +DG P+ + RT Sbjct: 11 ERIAKYLARAGVASRRDAERMIESGRVALNGTKVLHPATFVAAGDIILIDGSPVGEPSRT 70 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW YHK GL+TTH DP+GR T+F+ +P RV+SVGRLD+N+EGLLLLTNDG LAR Sbjct: 71 RLWRYHKRAGLLTTHRDPEGRPTIFERMPPELPRVVSVGRLDLNSEGLLLLTNDGALARQ 130 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T WLR YRVR HG VD +L LK GIV+ G+ YG + +D+ KGSN+W+ VGL Sbjct: 131 LELPTTGWLRRYRVRVHGTVDPARLAALKGGIVVDGVRYGPISAEIDSTKGSNSWLAVGL 190 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 EGKNREI+KV + RLIRI+YGPFQLG L G+ EV+ K+LREQL Sbjct: 191 NEGKNREIRKVMAALGLETTRLIRIAYGPFQLGNLPRGAVAEVNPKVLREQL 242 >gi|163737477|ref|ZP_02144894.1| Pseudouridine synthase, Rsu [Phaeobacter gallaeciensis BS107] gi|161389003|gb|EDQ13355.1| Pseudouridine synthase, Rsu [Phaeobacter gallaeciensis BS107] Length = 447 Score = 274 bits (700), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 130/233 (55%), Positives = 172/233 (73%), Gaps = 1/233 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++KV++RAG+ASRRE ERMIA+ RV VNG +++ A+NV + D I VDG P++ E Sbjct: 53 RIAKVLSRAGVASRREAERMIAEGRVAVNGKVIDSPALNVVLGKDRIVVDGNPMQDPEPP 112 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+YHKP GLVTT +D R T+FD LP RV++VGRLD+N+EGLLLLTNDGG+ R Sbjct: 113 RLWMYHKPSGLVTTTNDELDRRTIFDALPEDMPRVMTVGRLDLNSEGLLLLTNDGGIKRQ 172 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPST WLR YRVR +G+ L++G+VI+G + M V LD Q+G+NAW+T+GL Sbjct: 173 LELPSTGWLRRYRVRINGRPKDTDFEPLRQGLVIEGERFQPMTVALDRQQGANAWLTIGL 232 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 REGKNREI++ E + VNRL+R+SYGPFQLG L G E+ +++R+QLG Sbjct: 233 REGKNREIRRAIEDIGFTVNRLLRLSYGPFQLGNLKPGEVEELRPRVVRDQLG 285 >gi|119386847|ref|YP_917902.1| RNA-binding S4 domain-containing protein [Paracoccus denitrificans PD1222] gi|119377442|gb|ABL72206.1| RNA-binding S4 domain protein [Paracoccus denitrificans PD1222] Length = 457 Score = 274 bits (700), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 134/253 (52%), Positives = 176/253 (69%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +D N R++KV+ARAG+ASRRE ERMI + RV VNG ++ A++V D I Sbjct: 3 EDSPETAPNPQADRIAKVMARAGVASRREAERMILEGRVTVNGKKIDSPALDVTPADRIR 62 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VDG PL + + TRLWLY+KP+GLVT++SD GR TVFD LP RV++VGRLD+N+EGL Sbjct: 63 VDGKPLEEPQETRLWLYYKPLGLVTSNSDEKGRQTVFDALPRDLPRVMTVGRLDLNSEGL 122 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDG L R LELP+T WLR YRVR +GQ + L++G+ I G + M++ LD+ Sbjct: 123 LLLTNDGELKRRLELPTTGWLRRYRVRVNGQPNDLTFAPLRRGVTIDGEEFAPMEINLDS 182 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 Q+G+NAW+TVG+REG+NREI++ VNRLIRI YGPF+L L REV +K+L Sbjct: 183 QQGANAWLTVGIREGRNREIRRAMAHVGLIVNRLIRIGYGPFKLTGLEENEVREVKRKVL 242 Query: 242 REQLGPHLLEEAQ 254 R+QLG L E + Sbjct: 243 RDQLGGLLTGETE 255 >gi|294678028|ref|YP_003578643.1| ribosomal large subunit pseudouridine synthase B [Rhodobacter capsulatus SB 1003] gi|294476848|gb|ADE86236.1| ribosomal large subunit pseudouridine synthase B [Rhodobacter capsulatus SB 1003] Length = 594 Score = 273 bits (699), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 128/239 (53%), Positives = 173/239 (72%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++KVIAR+G+ASRR+ E+MI RV VNG ++ A++V D + +DG P+ + Sbjct: 16 TAERIAKVIARSGVASRRDAEKMILAGRVTVNGKKVDSPALDVKPADKVAIDGKPIDAPQ 75 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 TRLWLY+KP+GLVTT D GR T+FD +P RV++VGRLD+N+EGLLLLTNDGGL Sbjct: 76 ETRLWLYYKPLGLVTTEKDEQGRRTIFDEMPEEMPRVLNVGRLDLNSEGLLLLTNDGGLK 135 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 R LELP T WLR YRVR +G+ + + L++GI I G + M+V+LD Q+G+NAW+TV Sbjct: 136 RRLELPETGWLRKYRVRVNGRPTTETFDPLRRGITIDGEDFQPMEVSLDRQQGANAWLTV 195 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 G+REGKNREI++ VNRLIR+SYGPF+L + G+ EV +K+LR+QLG LL Sbjct: 196 GIREGKNREIRRAMGEVGMTVNRLIRVSYGPFRLNDMEPGAVVEVKRKMLRDQLGDRLL 254 >gi|209966844|ref|YP_002299759.1| RNA pseudouridine synthase, putative [Rhodospirillum centenum SW] gi|209960310|gb|ACJ00947.1| RNA pseudouridine synthase, putative [Rhodospirillum centenum SW] Length = 551 Score = 272 bits (696), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 130/232 (56%), Positives = 167/232 (71%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+SK ++RAG+ SRR+ ER IA+ RV VNG +L+ AV V D I VDG P+ + E T Sbjct: 31 ERISKRLSRAGLCSRRDAERWIAEGRVSVNGRVLDTPAVTVRPGDRIVVDGQPVPEPEPT 90 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+W YHKP GLVTT D GR TVFDNLP RV+SVGRLD+ +EGLLLLTNDG LAR Sbjct: 91 RVWRYHKPDGLVTTARDEKGRPTVFDNLPPELPRVVSVGRLDLTSEGLLLLTNDGALARH 150 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP T WLR YRVR HG D+ ++ L +GI+I+GI YG ++ +D G+N W+TV L Sbjct: 151 LELPVTGWLRRYRVRVHGAPDEAQIAKLAQGIIIEGIEYGPIETVVDRSVGANTWLTVSL 210 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 REG+NRE+++V E V+RLIR++YGPFQLG L G EV +++LR+QL Sbjct: 211 REGRNREVRRVMEHLGLPVSRLIRVAYGPFQLGKLEPGQVEEVPRRVLRDQL 262 >gi|329889977|ref|ZP_08268320.1| hypothetical protein BDIM_16710 [Brevundimonas diminuta ATCC 11568] gi|328845278|gb|EGF94842.1| hypothetical protein BDIM_16710 [Brevundimonas diminuta ATCC 11568] Length = 513 Score = 272 bits (695), Expect = 6e-71, Method: Compositional matrix adjust. Identities = 133/247 (53%), Positives = 172/247 (69%), Gaps = 8/247 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +ARAGIASRREVER+I +V VNG +L AV V D I VDG P+ A+ T Sbjct: 81 ERIAKAMARAGIASRREVERLIGLGKVAVNGRILATPAVLVTRDDKITVDGKPIGAAQAT 140 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+W YHKP GL+T+H+DP GR TVFD LPS RVISVGRLD+ TEGLLLLTNDG L+R Sbjct: 141 RVWRYHKPAGLITSHNDPAGRPTVFDALPSGLPRVISVGRLDLATEGLLLLTNDGELSRA 200 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--------GS 185 LELP T +R YR R G++ Q++L+ LK G+V+ G+ YG ++ T+D K + Sbjct: 201 LELPETALVRQYRARARGRITQEQLDKLKDGVVVDGVRYGPVEATIDKAKEKTEGEKSSA 260 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 N W++V + EGKNRE++KV E VNRLIR++YGPFQLGTL GS EV +++RE L Sbjct: 261 NLWLSVSITEGKNREVRKVLESIGLTVNRLIRLAYGPFQLGTLPVGSVEEVGPRVIREML 320 Query: 246 GPHLLEE 252 H+ E Sbjct: 321 AEHIRPE 327 >gi|58039267|ref|YP_191231.1| tRNA pseudouridine synthase A [Gluconobacter oxydans 621H] gi|58001681|gb|AAW60575.1| tRNA pseudouridine synthase A [Gluconobacter oxydans 621H] Length = 264 Score = 271 bits (694), Expect = 8e-71, Method: Compositional matrix adjust. Identities = 140/254 (55%), Positives = 171/254 (67%), Gaps = 11/254 (4%) Query: 1 MKDKNIVQENFTP---------QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA 51 M D N EN P +R++K +ARAG+ASRR++ERMI R+K+ G ++ A Sbjct: 1 MTDDNT--ENTAPDMETSGPKGERIAKALARAGVASRRDIERMIEDGRIKLGGQIVTHPA 58 Query: 52 VNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V D + VDG P+ ERTRLW YHKP GL+TTH DP GR TVFD LP RVISV Sbjct: 59 TFVQPGDIVLVDGKPVDSPERTRLWRYHKPDGLMTTHKDPQGRQTVFDTLPEGMPRVISV 118 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDIN+EGLLLLTNDG LAR LELP W+R YRVR G VD+ +L L G +G+ Sbjct: 119 GRLDINSEGLLLLTNDGELARRLELPGNSWVRRYRVRVFGVVDEKRLASLIDGFEYEGVR 178 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 YG ++ LD+ KG N+W+TV LREGKNREI++V E N V+RLIR+SYGPFQLG+L A Sbjct: 179 YGSIEAALDSTKGDNSWLTVSLREGKNREIRRVMEGLNLHVSRLIRLSYGPFQLGSLKAR 238 Query: 232 STREVSKKILREQL 245 EV K LREQ+ Sbjct: 239 ELEEVPGKTLREQV 252 >gi|302383495|ref|YP_003819318.1| pseudouridine synthase [Brevundimonas subvibrioides ATCC 15264] gi|302194123|gb|ADL01695.1| pseudouridine synthase [Brevundimonas subvibrioides ATCC 15264] Length = 511 Score = 271 bits (694), Expect = 8e-71, Method: Compositional matrix adjust. Identities = 137/265 (51%), Positives = 177/265 (66%), Gaps = 12/265 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +ARAGIASRREVER+I +V VNG +L+ A V D I VDG P+ A+ T Sbjct: 99 ERIAKAMARAGIASRREVERLIGLGKVAVNGRILDTPATLVTRDDVITVDGKPIAAAQAT 158 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+W Y+KP+GL+T+H+DP GR TVFD LPS RVISVGRLDINTEGLLLLTNDG L+R Sbjct: 159 RVWRYNKPVGLLTSHNDPQGRPTVFDALPSGLPRVISVGRLDINTEGLLLLTNDGELSRA 218 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-------QKGSN 186 LELP T +R YR R G+V Q L+ LK G+ + G+ YG ++ ++D + +N Sbjct: 219 LELPETALVRQYRARARGRVTQADLDKLKDGVTVDGVRYGPVEASIDKATTKEDGSQAAN 278 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W++V + EGKNRE++KV E VNRLIR++YGPFQLGTL GS EV +++RE LG Sbjct: 279 LWISVQIAEGKNREVRKVLESVGLTVNRLIRLAYGPFQLGTLAVGSVEEVGPRVIRELLG 338 Query: 247 PH-----LLEEAQVNLDAPIYSSET 266 H L + V API T Sbjct: 339 EHIRPDNLPQGNTVETPAPIPGRRT 363 >gi|163740839|ref|ZP_02148232.1| RNA pseudouridylate synthase family protein [Phaeobacter gallaeciensis 2.10] gi|161385830|gb|EDQ10206.1| RNA pseudouridylate synthase family protein [Phaeobacter gallaeciensis 2.10] Length = 447 Score = 270 bits (689), Expect = 3e-70, Method: Compositional matrix adjust. Identities = 129/233 (55%), Positives = 171/233 (73%), Gaps = 1/233 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++KV++RAG+ASRRE ERMIA+ RV VNG +++ A+NV + D I VDG ++ E Sbjct: 53 RIAKVLSRAGVASRREAERMIAEGRVAVNGKVIDSPALNVVLGKDRIVVDGNQMQDPEPP 112 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+YHKP GLVTT +D R T+FD LP RV++VGRLD+N+EGLLLLTNDGG+ R Sbjct: 113 RLWMYHKPSGLVTTTNDELDRRTIFDELPEDMPRVMTVGRLDLNSEGLLLLTNDGGIKRQ 172 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPST WLR YRVR +G+ L++G+VI+G + M V LD Q+G+NAW+T+GL Sbjct: 173 LELPSTGWLRRYRVRINGRPKDTDFEPLRQGLVIEGERFQPMTVALDRQQGANAWLTIGL 232 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 REGKNREI++ E + VNRL+R+SYGPFQLG L G E+ +++R+QLG Sbjct: 233 REGKNREIRRAIEDIGFTVNRLLRLSYGPFQLGNLKPGEVEELRSRVVRDQLG 285 >gi|296533931|ref|ZP_06896455.1| ribosomal large subunit pseudouridine synthase B [Roseomonas cervicalis ATCC 49957] gi|296265748|gb|EFH11849.1| ribosomal large subunit pseudouridine synthase B [Roseomonas cervicalis ATCC 49957] Length = 267 Score = 269 bits (688), Expect = 4e-70, Method: Compositional matrix adjust. Identities = 131/253 (51%), Positives = 177/253 (69%), Gaps = 10/253 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 Q+ +R++K +ARAGIASRR+ E++IA+ +V VNG +L+ A V D + V G + Sbjct: 5 QDGPKGERIAKWLARAGIASRRDAEKLIAEGQVAVNGRVLDGPASFVQPGDSVTVSGKKV 64 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + ERTRL+ YHKP GLVTTH DP+GR TVF+ LP+ R++SVGRLD+N+EGLLLLTND Sbjct: 65 GEPERTRLFRYHKPPGLVTTHKDPEGRRTVFEELPAGLPRLVSVGRLDLNSEGLLLLTND 124 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L+R LELP QW+R YR R HG+VD+ L L G+ ++G+ YG +Q LD+++G+NA Sbjct: 125 GALSRKLELPDNQWIRRYRARVHGRVDERALAALAHGVTVEGVAYGPIQAGLDSRQGTNA 184 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+TV L EGKNRE+++V + V RLIRI+YGPF L L G+ E++ K+LREQLG Sbjct: 185 WLTVSLSEGKNREVRRVLQHLGLTVTRLIRIAYGPFALADLPRGAVEEINAKVLREQLG- 243 Query: 248 HLLEEAQVNLDAP 260 LDAP Sbjct: 244 ---------LDAP 247 >gi|126735086|ref|ZP_01750832.1| RNA pseudouridylate synthase family protein [Roseobacter sp. CCS2] gi|126715641|gb|EBA12506.1| RNA pseudouridylate synthase family protein [Roseobacter sp. CCS2] Length = 267 Score = 268 bits (685), Expect = 9e-70, Method: Compositional matrix adjust. Identities = 135/240 (56%), Positives = 169/240 (70%), Gaps = 3/240 (1%) Query: 10 NFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 N TP R++KV++RAGIASRRE ERMI RV VNG + A+NV + D I VDG Sbjct: 3 NETPPPGDRIAKVLSRAGIASRREAERMIEDGRVSVNGKTITSPALNVTADDRIVVDGKQ 62 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + E R+WLYHKP GLVTT D R TVF +LP RV+SVGRLD+N+EGLLLLTN Sbjct: 63 VGEPEPPRIWLYHKPAGLVTTERDEKDRPTVFASLPETMPRVMSVGRLDLNSEGLLLLTN 122 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + R LELPST WLR YRVR +G V + KL+ L++GI ++GI Y M VT D Q+G+N Sbjct: 123 DGEVKRKLELPSTGWLRRYRVRINGSVSEAKLDELREGITVEGIQYQPMVVTFDRQQGAN 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 AW+TV LREGKNREI++ VNRLIR+SYGPFQL L G E+ ++++R+QLG Sbjct: 183 AWLTVSLREGKNREIRRAMGEIGVTVNRLIRVSYGPFQLAALKQGEVEELKQRVVRDQLG 242 >gi|330991270|ref|ZP_08315221.1| Putative RNA pseudouridine synthase [Gluconacetobacter sp. SXCC-1] gi|329761289|gb|EGG77782.1| Putative RNA pseudouridine synthase [Gluconacetobacter sp. SXCC-1] Length = 259 Score = 268 bits (684), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 132/231 (57%), Positives = 170/231 (73%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +AR+G+ASRR+ ERMIA+ RV++NG ++ A V + D ++V+G + +RTR Sbjct: 16 RIAKWLARSGVASRRDAERMIAEGRVQLNGAVVNHPATFVGAGDIVQVNGSVVGAPDRTR 75 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW YHKP GLVTTH DP+GR TVF++LP RVISVGRLD+N+EGLLLLTNDG LAR L Sbjct: 76 LWRYHKPDGLVTTHRDPEGRPTVFESLPPGLPRVISVGRLDLNSEGLLLLTNDGELARRL 135 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPS W+R YRVR G VD+ L L +G G+ YG ++ LD+ KG NAW+TV LR Sbjct: 136 ELPSNGWIRRYRVRVFGVVDERMLASLARGSEFDGVRYGPIEAHLDSAKGDNAWLTVSLR 195 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 EGKNRE++KV + N V+RLIR SYGPFQLGTL G EV+ K++REQ+ Sbjct: 196 EGKNREVRKVMQGLNLHVSRLIRTSYGPFQLGTLTRGELEEVTGKVIREQV 246 >gi|260574583|ref|ZP_05842586.1| RNA-binding S4 domain protein [Rhodobacter sp. SW2] gi|259023000|gb|EEW26293.1| RNA-binding S4 domain protein [Rhodobacter sp. SW2] Length = 358 Score = 266 bits (679), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 130/232 (56%), Positives = 163/232 (70%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV++RAGIASRRE ERMI +V VNG ++ A+NV + D I VDG P+ E R Sbjct: 19 RIAKVLSRAGIASRREAERMIELGQVAVNGKVITSPALNVTAKDRITVDGKPVAAPEPAR 78 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LWLY+KP GLVT+ +D GR T++D +P RV++VGRLD+N+EGLLLLTNDG L R L Sbjct: 79 LWLYYKPEGLVTSDNDEKGRETIYDQMPEDLPRVMAVGRLDLNSEGLLLLTNDGELKRRL 138 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR G L L+ GI ++G + M V +D +G+NAW+TVGLR Sbjct: 139 ELPSTGWLRKYRVRIKGNPTDPDLEPLRAGITVEGERFQPMLVVIDRIQGANAWLTVGLR 198 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNREI++ N VNRLIRISYGPF+LG L G EV K+LR+QLG Sbjct: 199 EGKNREIRRAMFALNLTVNRLIRISYGPFRLGDLQPGEVAEVRGKVLRDQLG 250 >gi|296114351|ref|ZP_06833005.1| RNA-binding S4 domain protein [Gluconacetobacter hansenii ATCC 23769] gi|295979112|gb|EFG85836.1| RNA-binding S4 domain protein [Gluconacetobacter hansenii ATCC 23769] Length = 258 Score = 265 bits (678), Expect = 6e-69, Method: Compositional matrix adjust. Identities = 132/232 (56%), Positives = 167/232 (71%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K + R+G+ASRR+ ERMI + RV++NG ++ A V D ++VD + +RT Sbjct: 15 DRIAKWLGRSGVASRRDAERMIEEGRVRLNGDIVRHPATFVSDGDIVQVDDKVIAAPDRT 74 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW YHKP GLVTTH DPDGR TVF +LP RVISVGRLD+N+EGLLLLTNDG LAR Sbjct: 75 RLWRYHKPDGLVTTHRDPDGRPTVFASLPEGMPRVISVGRLDLNSEGLLLLTNDGELARK 134 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPS W+R YRVR G V++D+L L +G V +G+ YG ++ LD+ +G NAW+TV L Sbjct: 135 LELPSNGWIRRYRVRVFGVVNEDQLADLAQGSVFEGVHYGPIEAALDSSRGDNAWLTVSL 194 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 REGKNREI+KV N V+RLIR SYGPFQLGTL EV+ K+LREQ+ Sbjct: 195 REGKNREIRKVMRGLNLHVSRLIRTSYGPFQLGTLEREELEEVTGKVLREQV 246 >gi|16124485|ref|NP_419049.1| S4 domain-containing protein [Caulobacter crescentus CB15] gi|221233169|ref|YP_002515605.1| ribosomal large subunit pseudouridine synthase B [Caulobacter crescentus NA1000] gi|13421359|gb|AAK22217.1| S4 domain protein [Caulobacter crescentus CB15] gi|220962341|gb|ACL93697.1| ribosomal large subunit pseudouridine synthase B [Caulobacter crescentus NA1000] Length = 421 Score = 265 bits (678), Expect = 7e-69, Method: Compositional matrix adjust. Identities = 130/237 (54%), Positives = 162/237 (68%), Gaps = 5/237 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV+K +ARAG+ASRREVER+I RV +NG +L AV V D + VDG + + E T Sbjct: 35 ERVAKALARAGVASRREVERLIEAGRVAINGKVLTTPAVKVAPGDFLTVDGQLVAEREPT 94 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R++ YHKP GL+TTH+DP GR TVF LP R+ISVGRLD+N+EGLLLLTNDG L+R Sbjct: 95 RIFRYHKPTGLMTTHNDPKGRPTVFGALPKDLPRLISVGRLDLNSEGLLLLTNDGELSRA 154 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-----TQKGSNAW 188 LE PS W+R YR R G Q KL+ LK G+ I+G+ YG ++ LD G N W Sbjct: 155 LETPSNAWVRRYRARAFGDTTQAKLDKLKDGVTIEGVTYGAIEAKLDKAHEKAGGGKNVW 214 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +TV L EGKNRE++KV E KVNRLIR+SYGPF LGTL AG EV +++RE L Sbjct: 215 ITVSLSEGKNREVRKVLESIGLKVNRLIRLSYGPFALGTLAAGQIEEVGPRVIRELL 271 >gi|162147095|ref|YP_001601556.1| ribosomal large subunit pseudouridine synthase B [Gluconacetobacter diazotrophicus PAl 5] gi|209544155|ref|YP_002276384.1| RNA-binding S4 domain-containing protein [Gluconacetobacter diazotrophicus PAl 5] gi|161785672|emb|CAP55243.1| putative ribosomal large subunit pseudouridine synthase B [Gluconacetobacter diazotrophicus PAl 5] gi|209531832|gb|ACI51769.1| RNA-binding S4 domain protein [Gluconacetobacter diazotrophicus PAl 5] Length = 264 Score = 265 bits (678), Expect = 7e-69, Method: Compositional matrix adjust. Identities = 134/237 (56%), Positives = 169/237 (71%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +AR+G+ASRR+ ER++ + RV++NG + A V + D ++V+G + ERT Sbjct: 21 ERIAKWLARSGVASRRDAERLVEEGRVRLNGEPVTHPATFVAAGDIVQVNGAVVEAPERT 80 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW YHKP GLVTTH DP+ R TVF +LP RVISVGRLD+N+EGLLLLTNDG LAR Sbjct: 81 RLWRYHKPDGLVTTHRDPEKRPTVFASLPPGMPRVISVGRLDLNSEGLLLLTNDGELARR 140 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPS WLR YRVR G VD+ +L L G V +G+ YG ++ LD++KG NAW+TV L Sbjct: 141 LELPSNGWLRRYRVRVFGVVDEARLAALAGGSVFEGVRYGPIEAGLDSRKGDNAWLTVAL 200 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ---LGP 247 REGKNRE++KV N V+RLIR SYGPFQLGTL EV K+LREQ LGP Sbjct: 201 REGKNREVRKVMRGLNLHVSRLIRTSYGPFQLGTLQRSELEEVPGKVLREQVPGLGP 257 >gi|300024100|ref|YP_003756711.1| RNA-binding S4 domain protein [Hyphomicrobium denitrificans ATCC 51888] gi|299525921|gb|ADJ24390.1| RNA-binding S4 domain protein [Hyphomicrobium denitrificans ATCC 51888] Length = 302 Score = 265 bits (676), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 127/243 (52%), Positives = 163/243 (67%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 N + P R++K +ARAG+ SRRE ER IA RV VNG LL+ A V D + VDG Sbjct: 29 NTAETRDGPMRIAKAMARAGLCSRREAERWIADGRVSVNGKLLKTPACEVGPKDKVIVDG 88 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL A +LW YHKP G+VTTHSDP GR TVF+ LP RVIS+GRLD NTEGLLLL Sbjct: 89 KPLPAASTPQLWRYHKPKGVVTTHSDPQGRPTVFEKLPPEMPRVISIGRLDFNTEGLLLL 148 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T DG LAR ELP+ W+R YRVR G+V L LK G+ I G+ YG ++ ++DT +G Sbjct: 149 TTDGALARHFELPANGWVRRYRVRAKGRVTPADLAKLKDGVEIDGVSYGPIEASVDTVQG 208 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +N+W+++ +REGKNRE++ V + VNRLIR+S+GPFQL L G+ V +++L Q Sbjct: 209 ANSWLSISIREGKNREVRNVLAYLGLTVNRLIRVSFGPFQLLDLAPGAVEAVRRRVLVAQ 268 Query: 245 LGP 247 LGP Sbjct: 269 LGP 271 >gi|254418155|ref|ZP_05031879.1| conserved hypothetical protein, putative [Brevundimonas sp. BAL3] gi|196184332|gb|EDX79308.1| conserved hypothetical protein, putative [Brevundimonas sp. BAL3] Length = 519 Score = 264 bits (674), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 129/248 (52%), Positives = 170/248 (68%), Gaps = 9/248 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +ARAGIASRREVER+I +V VNG +L+ A V D I VDG P+ + T Sbjct: 86 ERIAKTMARAGIASRREVERLIGLGKVAVNGRILDTPATLVTRDDVITVDGKPIGSTQAT 145 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+W YHKP GL+T+HSDP GR TVFD LP+ RVISVGRLD+ TEGLLLLTNDG L+R Sbjct: 146 RVWRYHKPAGLLTSHSDPTGRPTVFDALPAGLPRVISVGRLDLATEGLLLLTNDGELSRA 205 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS-------- 185 LELP+T +R YR R G++ Q++L+ LK G+V+ G+ YG ++ TLD K S Sbjct: 206 LELPATSLVRQYRARARGKITQEQLDKLKDGVVVDGVSYGPIEATLDKAKESKSEDGRAP 265 Query: 186 -NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 N W++V + EGKNRE++KV E VNRLIR++YGPF+L L GS EV +++RE Sbjct: 266 ANLWISVSITEGKNREVRKVLESVGLTVNRLIRLAYGPFRLDVLPIGSVEEVGPRVIREL 325 Query: 245 LGPHLLEE 252 L ++ E Sbjct: 326 LADYIRPE 333 >gi|114327123|ref|YP_744280.1| ribosomal large subunit pseudouridine synthase B [Granulibacter bethesdensis CGDNIH1] gi|114315297|gb|ABI61357.1| ribosomal large subunit pseudouridine synthase B [Granulibacter bethesdensis CGDNIH1] Length = 251 Score = 263 bits (671), Expect = 3e-68, Method: Compositional matrix adjust. Identities = 129/239 (53%), Positives = 171/239 (71%), Gaps = 2/239 (0%) Query: 9 ENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++ TP +R++K +ARAG+ASRR+ E+++ RV++N ++ A V S D + V+G Sbjct: 10 DSGTPRGERIAKWLARAGVASRRDAEKLVEDGRVRLNNQVVTHPATFVGSGDLVTVNGAL 69 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + +RTRLW YHK G++TTH DP GR TVF+ LPS RV+SVGRLD+N+EGLLLLTN Sbjct: 70 VEAPDRTRLWRYHKTDGVMTTHRDPQGRPTVFEKLPSSMPRVVSVGRLDLNSEGLLLLTN 129 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LAR LELP T W+R YRVR HG V Q L+ L +G+ ++G+ YG ++ LD+ KGSN Sbjct: 130 DGMLARRLELPQTGWIRRYRVRVHGDVTQAMLDSLARGVTVEGVRYGSIEAGLDSSKGSN 189 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +W+TV L+EGKNREI+KV V RLIRI+YGPFQLG L G EV+ K+LREQL Sbjct: 190 SWLTVSLKEGKNREIRKVMRHIGLHVTRLIRIAYGPFQLGQLGKGEVEEVTGKVLREQL 248 >gi|295687634|ref|YP_003591327.1| RNA-binding S4 domain-containing protein [Caulobacter segnis ATCC 21756] gi|295429537|gb|ADG08709.1| RNA-binding S4 domain protein [Caulobacter segnis ATCC 21756] Length = 426 Score = 260 bits (665), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 131/256 (51%), Positives = 167/256 (65%), Gaps = 5/256 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV+K +ARAG+ASRREVER+I RV +NG +L A+ V D + VDG + + E T Sbjct: 26 ERVAKALARAGVASRREVERLIEAGRVAINGKVLTTPAIKVKPGDFLTVDGQLVAEREPT 85 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R++ YHKP GL+TTH+DP GR TVF LP R+ISVGRLD+N+EGLLLLTNDG L+R Sbjct: 86 RIFRYHKPTGLMTTHNDPKGRPTVFQTLPKDLPRLISVGRLDLNSEGLLLLTNDGELSRA 145 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-----TQKGSNAW 188 LE PS W+R YR R G Q KL+ LK G+ I+G+ YG ++ LD G N W Sbjct: 146 LETPSNAWVRRYRARAFGDTTQAKLDTLKDGVTIEGVKYGSIEARLDKAHDKAGGGKNIW 205 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +TV L EGKNRE++KV E KVNRLIR+SYGPF LG L AG EV +++RE L Sbjct: 206 ITVSLSEGKNREVRKVLESVGLKVNRLIRMSYGPFALGALAAGQIEEVGPRVIRELLEGV 265 Query: 249 LLEEAQVNLDAPIYSS 264 + E D P ++ Sbjct: 266 VPPENMPTGDRPKFAG 281 >gi|312113041|ref|YP_004010637.1| pseudouridine synthase [Rhodomicrobium vannielii ATCC 17100] gi|311218170|gb|ADP69538.1| pseudouridine synthase [Rhodomicrobium vannielii ATCC 17100] Length = 800 Score = 260 bits (664), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 120/217 (55%), Positives = 153/217 (70%) Query: 34 MIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 MI ++RV VNG ++E AA++V TD + VDG PL E RLW YHKP G VTTH DP+G Sbjct: 1 MIGEKRVSVNGSIIESAALDVSPTDRVAVDGHPLPAREPPRLWRYHKPKGRVTTHKDPEG 60 Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 R TVF+ LP R+IS+GRLD NTEGLLLLTNDG LAR +ELPST W R YRVR G++ Sbjct: 61 RPTVFEALPDNLPRLISIGRLDFNTEGLLLLTNDGELARHMELPSTGWARRYRVRAFGEI 120 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 DQ L+ LK G+ I G+ YG ++ +L+ + G N W+T+ +REGKNRE++++ E VN Sbjct: 121 DQASLDKLKNGVRIAGVNYGPVEASLERETGDNVWITLLIREGKNREVRRIMEHLGLTVN 180 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 RLIRIS+GPF LG L G EV +L++QLGP L Sbjct: 181 RLIRISFGPFMLGDLEPGQVEEVKTSVLKDQLGPRLA 217 >gi|114773340|ref|ZP_01450544.1| RNA pseudouridylate synthase family protein [alpha proteobacterium HTCC2255] gi|114546274|gb|EAU49185.1| RNA pseudouridylate synthase family protein [alpha proteobacterium HTCC2255] Length = 239 Score = 258 bits (660), Expect = 8e-67, Method: Compositional matrix adjust. Identities = 126/234 (53%), Positives = 166/234 (70%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 PQR++K +ARAG+ASRRE+ERMIA ++ +NG L+ AV V + D I V+G + AE+ Sbjct: 5 PQRIAKYLARAGVASRREIERMIAIGQINLNGKTLDTPAVKVTNKDIILVNGKQIGDAEK 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R W Y+KP GL+TT D GR T++D P RV++VGRLDIN+EGLLLLTNDGGL R Sbjct: 65 VRFWRYYKPTGLITTDRDEKGRDTIYDYFPENMPRVMTVGRLDINSEGLLLLTNDGGLKR 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 LELP+T WLR YRVR +G ++ + L+ GIVI + M++ LD Q+GSNAW+TVG Sbjct: 125 KLELPATGWLRKYRVRVNGNPTEEMVAPLRNGIVIDRERFKGMEIRLDRQQGSNAWLTVG 184 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 LREGKNREI++ E+ +VNRLIR SYGPF+L L G E+ K +++QLG Sbjct: 185 LREGKNREIRRAMEYVGLRVNRLIRTSYGPFKLDDLKPGDVEEIKAKTIKDQLG 238 >gi|167648594|ref|YP_001686257.1| RNA-binding S4 domain-containing protein [Caulobacter sp. K31] gi|167351024|gb|ABZ73759.1| RNA-binding S4 domain protein [Caulobacter sp. K31] Length = 501 Score = 252 bits (644), Expect = 5e-65, Method: Compositional matrix adjust. Identities = 127/253 (50%), Positives = 166/253 (65%), Gaps = 5/253 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 RV+K++ARAG+ASRR VER+I RV +NG +L A+ V D + VDG + + E TR Sbjct: 25 RVAKMLARAGVASRRAVERLIEDGRVALNGEVLTTPAIKVRPGDILTVDGKMIDEPEATR 84 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ YHKP GL+TTH+DP R TVF LP R+ISVGRLD+N+EGLLLLTNDG L+R L Sbjct: 85 VFRYHKPSGLMTTHNDPKQRPTVFQALPRDLPRLISVGRLDLNSEGLLLLTNDGALSRAL 144 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-----GSNAWV 189 E+P W+R YR R G Q KL+ LK G ++G+ YG ++ LD + G N W+ Sbjct: 145 EMPQNAWVRRYRARAFGDTTQAKLDKLKDGCTVEGVRYGPIEARLDKAQEKAGGGKNIWI 204 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 T+ L EGKNRE+++V E KVNRLIR+SYGPF LGTLL G EV +++RE L + Sbjct: 205 TLTLSEGKNREVRRVLESIGLKVNRLIRLSYGPFALGTLLPGQVEEVGPRVIRELLEGIV 264 Query: 250 LEEAQVNLDAPIY 262 EE D P + Sbjct: 265 AEENMPKGDKPQF 277 >gi|294084708|ref|YP_003551466.1| pseudouridine synthase [Candidatus Puniceispirillum marinum IMCC1322] gi|292664281|gb|ADE39382.1| Pseudouridine synthase, Rsu [Candidatus Puniceispirillum marinum IMCC1322] Length = 312 Score = 251 bits (642), Expect = 9e-65, Method: Compositional matrix adjust. Identities = 123/233 (52%), Positives = 161/233 (69%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K IARAG+ SRRE E I + RVKVNG ++ +NV TD I VDG L E Sbjct: 16 ERIAKRIARAGVCSRREAEARINEGRVKVNGKVITSPVLNVSDTDRINVDGQALPHREPA 75 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +LW Y+KP GLV + D R T+FD+LP+ RV++VGRLDI++EGLLLLTNDG LAR Sbjct: 76 KLWRYYKPRGLVVSDRDEKDRETIFDHLPASLPRVMTVGRLDIDSEGLLLLTNDGDLARH 135 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T W R YRVR G V++ L L+KGI I G+ YG + LD Q SNAW+TV + Sbjct: 136 LELPATGWSRKYRVRVQGHVNEAALAPLEKGITIDGVRYGRIVANLDRQMQSNAWLTVAI 195 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 REGKNRE++++ E KV+RLIR+SYGPFQLG + G ++ ++L +QLG Sbjct: 196 REGKNREVRRIMEHLGHKVSRLIRVSYGPFQLGDMSDGDVEQIRARVLSDQLG 248 >gi|260752916|ref|YP_003225809.1| pseudouridine synthase [Zymomonas mobilis subsp. mobilis NCIMB 11163] gi|258552279|gb|ACV75225.1| pseudouridine synthase [Zymomonas mobilis subsp. mobilis NCIMB 11163] Length = 509 Score = 244 bits (624), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 114/236 (48%), Positives = 158/236 (66%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + QR++K+++RAGIASRR +E MI + R+ ++G+ +E+ A + S D + VDG P Sbjct: 264 IPREYGEQRIAKLLSRAGIASRRMIEAMIEEGRIAIDGVTVEKPATLLTSLDGVTVDGKP 323 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + TRL+LYHK GL+TT DP+GR T++D LP+ RV+ VGRLD+NTEGLLLLT Sbjct: 324 VNAPTETRLFLYHKATGLLTTERDPEGRKTIYDRLPADLPRVMPVGRLDMNTEGLLLLTT 383 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGG R+LELP+T R YR R G V QD+L L +G+ I GI YG + L+ + G N Sbjct: 384 DGGFKRMLELPATHIERCYRARVFGDVSQDQLEELIEGVTIDGIHYGSIDANLERRTGRN 443 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 WV + L EG+NRE+++V + +V+RLIRISYGPF LG L G+ EV L+ Sbjct: 444 GWVEMKLHEGRNREVRRVLGYLGLQVSRLIRISYGPFLLGDLPVGAVEEVDPATLK 499 >gi|241761121|ref|ZP_04759210.1| pseudouridine synthase [Zymomonas mobilis subsp. mobilis ATCC 10988] gi|241374740|gb|EER64201.1| pseudouridine synthase [Zymomonas mobilis subsp. mobilis ATCC 10988] Length = 510 Score = 244 bits (624), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 114/229 (49%), Positives = 156/229 (68%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR++K+++RAGIASRR +E MI + R+ ++G+ +E+ A + S D + VDG P+ T Sbjct: 272 QRIAKLLSRAGIASRRMIEAMIEEGRIAIDGVTVEKPATLLTSLDGVTVDGKPVNAPTET 331 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL+LYHK GL+TT DP+GR T++D LP+ RV+ VGRLD+NTEGLLLLT DGG R+ Sbjct: 332 RLFLYHKATGLLTTERDPEGRKTIYDRLPADLPRVMPVGRLDMNTEGLLLLTTDGGFKRM 391 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T R YR R G V QD+L L +G+ I GI YG + L+ + G N WV + L Sbjct: 392 LELPATHIERCYRARVFGDVSQDQLEELIEGVTIDGIHYGSIDANLERRTGRNGWVEMKL 451 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+NRE+++V + +V+RLIRISYGPF LG L G+ EV L+ Sbjct: 452 HEGRNREVRRVLGYLGLQVSRLIRISYGPFLLGDLPVGAVEEVDPATLK 500 >gi|283856285|ref|YP_162311.2| pseudouridine synthase [Zymomonas mobilis subsp. mobilis ZM4] gi|283775281|gb|AAV89200.2| pseudouridine synthase [Zymomonas mobilis subsp. mobilis ZM4] Length = 510 Score = 244 bits (623), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 114/229 (49%), Positives = 156/229 (68%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR++K+++RAGIASRR +E MI + R+ ++G+ +E+ A + S D + VDG P+ T Sbjct: 272 QRIAKLLSRAGIASRRMIEAMIEEGRIAIDGVTVEKPATLLTSLDGVTVDGKPVNAPTET 331 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL+LYHK GL+TT DP+GR T++D LP+ RV+ VGRLD+NTEGLLLLT DGG R+ Sbjct: 332 RLFLYHKATGLLTTERDPEGRKTIYDRLPADLPRVMPVGRLDMNTEGLLLLTTDGGFKRM 391 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T R YR R G V QD+L L +G+ I GI YG + L+ + G N WV + L Sbjct: 392 LELPATHIERCYRARVFGDVSQDQLEELIEGVTIDGIHYGSIDANLERRTGRNGWVEMKL 451 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+NRE+++V + +V+RLIRISYGPF LG L G+ EV L+ Sbjct: 452 HEGRNREVRRVLGYLGLQVSRLIRISYGPFLLGDLPVGAVEEVDPATLK 500 >gi|288958822|ref|YP_003449163.1| ribosomal large subunit pseudouridine synthase B [Azospirillum sp. B510] gi|288911130|dbj|BAI72619.1| ribosomal large subunit pseudouridine synthase B [Azospirillum sp. B510] Length = 401 Score = 243 bits (621), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 130/236 (55%), Positives = 166/236 (70%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +ARAG+ SRR+ ER IA+ RV VN +L A V D ++VDG + + E Sbjct: 22 ERIAKRLARAGLCSRRDAERWIAEGRVAVNSRVLGSPACVVRPGDIVQVDGKVIPEPEPA 81 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW YHKP GLVTT D GR TVFD LP RV+S+GRLD+ TEGLLLLTNDG LAR Sbjct: 82 RLWRYHKPSGLVTTARDEKGRETVFDRLPDDLPRVVSIGRLDLTTEGLLLLTNDGELARF 141 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T W R YRVR G+VD+ +L L+KG I+G+ YG ++ LD +G NAW+TV L Sbjct: 142 LELPATGWTRRYRVRVFGEVDEKQLAALEKGPTIEGVKYGPIEAVLDRIQGRNAWLTVSL 201 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 +EGKNREI+KV E +VNRLIR++YGPFQLG L G+ EV K+++REQ+ P Sbjct: 202 KEGKNREIRKVMESLGLQVNRLIRVAYGPFQLGKLEEGAVEEVPKRVVREQIAPFF 257 >gi|148555617|ref|YP_001263199.1| pseudouridine synthase [Sphingomonas wittichii RW1] gi|148500807|gb|ABQ69061.1| pseudouridine synthase [Sphingomonas wittichii RW1] Length = 286 Score = 243 bits (621), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 116/229 (50%), Positives = 160/229 (69%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 PQR++K++ARAGIASRRE+ERMIA+ RV ++G ++ A + S + VDG P+ E Sbjct: 46 PQRIAKLLARAGIASRREIERMIAEGRVAIDGAAIDTPATLLTSLKGVTVDGKPVAAPEA 105 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TRL+L+HKP GL+TT DP GR T++D LP+ RV+ VGRLD+NTEGLLLLT DG R Sbjct: 106 TRLFLFHKPKGLLTTERDPKGRPTIYDRLPAGLPRVMPVGRLDLNTEGLLLLTTDGEFKR 165 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 LELPST R+YR R +G V Q++L L +GI I G+ YG + ++ + G+N W+ + Sbjct: 166 QLELPSTGVERIYRARCYGTVHQEQLEALIEGIEIDGVRYGSIDANMERRTGANVWIEMK 225 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 LREGKNRE+++V E +V+RLIRI+YG F+LG L G E+++ L Sbjct: 226 LREGKNREVRRVLEHLGLEVSRLIRIAYGAFELGDLQPGEVGEIAQHQL 274 >gi|304321112|ref|YP_003854755.1| hypothetical protein PB2503_07789 [Parvularcula bermudensis HTCC2503] gi|303300014|gb|ADM09613.1| hypothetical protein PB2503_07789 [Parvularcula bermudensis HTCC2503] Length = 253 Score = 241 bits (616), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 131/240 (54%), Positives = 167/240 (69%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + E +R++KV+ARAG+ASRR E +IA+ RV ++G +E A V + I VDG Sbjct: 1 MDEEMKGERLAKVMARAGVASRRGAETLIAEGRVTIDGRPVETPATLVTGDEDIRVDGSR 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 LRK E RLW YHKP GLVTTH DP GR TVFDNLP+ RV+SVGRLD+ TEGLLLLTN Sbjct: 61 LRKPEAPRLWRYHKPSGLVTTHKDPQGRQTVFDNLPTDLPRVLSVGRLDLTTEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGL+R+LELPST W R YRVR +G++ L L +G+ ++G+ YG +Q LD ++G N Sbjct: 121 DGGLSRLLELPSTGWKRRYRVRAYGRLAGGSLGRLSEGLTVEGVRYGPIQAKLDRRQGDN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W+TV + EGKNRE++ + VNRLIR+SYGPFQLG L G EV +K L EQ+G Sbjct: 181 LWLTVAIAEGKNREVRAICRHLGLTVNRLIRVSYGPFQLGHLAEGEVEEVPRKQLIEQVG 240 >gi|332185277|ref|ZP_08387026.1| hypothetical protein SUS17_350 [Sphingomonas sp. S17] gi|332015001|gb|EGI57057.1| hypothetical protein SUS17_350 [Sphingomonas sp. S17] Length = 420 Score = 238 bits (608), Expect = 9e-61, Method: Compositional matrix adjust. Identities = 114/223 (51%), Positives = 152/223 (68%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K++ARAG+ASRREVERMIA+ R+ +NG ++ A + S D + VDG P+ E T Sbjct: 5 HRIAKLLARAGVASRREVERMIAEGRIALNGTTIDTPATLLSSLDGVTVDGNPVDAPEPT 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL+LY+KP GL+ T DP GR T++D LP R++ VGRLD+NTEGLLLLT DGG R Sbjct: 65 RLFLYNKPNGLLVTERDPKGRPTIYDRLPEGLPRLMPVGRLDLNTEGLLLLTTDGGFKRQ 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T R YR R +G + Q +L L GI I GI YG + L+ + G+N W+ + L Sbjct: 125 LELPATGVERTYRARAYGDITQAQLEELIHGIEIDGIRYGQIDANLERRTGANVWIELTL 184 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 REGKNRE+++V E+ +V+RLIR+ YGPF LG L G EV Sbjct: 185 REGKNREVRRVLEYLGLQVSRLIRLRYGPFVLGDLPVGEIGEV 227 >gi|254293362|ref|YP_003059385.1| RNA-binding S4 domain protein [Hirschia baltica ATCC 49814] gi|254041893|gb|ACT58688.1| RNA-binding S4 domain protein [Hirschia baltica ATCC 49814] Length = 508 Score = 238 bits (606), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 114/233 (48%), Positives = 158/233 (67%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +A AG+ SRRE ER+I + V VNG +L+ AA V + I V+G + ++T Sbjct: 34 ERIAKWLAAAGVCSRREAERLIEEGLVAVNGQVLDSAAFKVTGNEKITVEGKRVGGPDKT 93 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW +HKP GLVTT+SDP+GR TVF++LP RV+++GRLD+NTEGLLLLTNDG LAR Sbjct: 94 RLWRFHKPKGLVTTNSDPEGRPTVFEHLPKKLPRVMTIGRLDLNTEGLLLLTNDGELART 153 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T R YR R G++ Q +L+ L++G++ +G+ Y + TLD KG N W+ + L Sbjct: 154 LELPTTGLKRCYRARAFGKITQAELDKLQEGVLFEGVVYRSIIATLDKTKGDNNWIDMTL 213 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGK RE ++ E VNRLIR+SYGPF+LG L+ G E+ L + G Sbjct: 214 TEGKKREARRALESVGLIVNRLIRVSYGPFELGDLVEGGVAEIPAGELLSEFG 266 >gi|94497978|ref|ZP_01304542.1| hypothetical protein SKA58_10410 [Sphingomonas sp. SKA58] gi|94422561|gb|EAT07598.1| hypothetical protein SKA58_10410 [Sphingomonas sp. SKA58] Length = 315 Score = 236 bits (603), Expect = 3e-60, Method: Compositional matrix adjust. Identities = 113/229 (49%), Positives = 152/229 (66%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 PQR++K++ARAG+ASRRE+ERMIA R+ ++G ++ A + S + VDGV + Sbjct: 75 PQRIAKLLARAGVASRREIERMIADGRIALDGAPVDTPATLLTSLHGVTVDGVAIAAPAP 134 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TRL+L+HKP G +TT DP GR T++D LP RV+ +GRLD+NTEGLLLLT DGG R Sbjct: 135 TRLFLFHKPTGCLTTERDPAGRPTIYDRLPDGLPRVMPIGRLDMNTEGLLLLTTDGGFKR 194 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +ELP+T R YR R G+V Q +L L G+ I GI YG ++ L+ + G N W+ + Sbjct: 195 QMELPATGVPRTYRARAFGEVSQQQLEDLFDGLEIDGIRYGQIEANLERRTGRNQWIEMT 254 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EGKNRE+++V E KVNRLIR +YGPF LG L G+ EV + L Sbjct: 255 LTEGKNREVRRVLEHLGLKVNRLIRTAYGPFSLGELAVGTVEEVRQHDL 303 >gi|149184427|ref|ZP_01862745.1| hypothetical protein ED21_26953 [Erythrobacter sp. SD-21] gi|148831747|gb|EDL50180.1| hypothetical protein ED21_26953 [Erythrobacter sp. SD-21] Length = 255 Score = 231 bits (588), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 117/239 (48%), Positives = 159/239 (66%), Gaps = 7/239 (2%) Query: 7 VQENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + +N P+ R++K++ARAG+ASRRE+ERMIA RV ++G +L+ AV + S + VD Sbjct: 1 MSDNRLPEAGDRIAKLLARAGVASRREIERMIADGRVSLDGKVLDTPAVKLESLRGVTVD 60 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVF----DNLPSIFSRVISVGRLDINTE 119 G P+ +AE TRL+ +HKP GL+T DP GR T++ + LP RV+ VGRLD NTE Sbjct: 61 GKPVGEAEETRLFAFHKPSGLLTAERDPKGRPTIYAALRNALPKDAGRVMPVGRLDFNTE 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLTNDG + R +ELPST R YR R G + Q +L+ L +GI I GI YG ++ L Sbjct: 121 GLLLLTNDGEMKRAMELPSTGVPRTYRARAFGDITQQRLDDLIEGIAIDGIRYGQIEANL 180 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + G N W+ + LREGKNRE+++V E F +VNRL+RI YGPF LG L G E+ + Sbjct: 181 ERGSGRNRWIEMTLREGKNREVRRVLEHFGLEVNRLLRIGYGPFHLGDLPRGQAVELKQ 239 >gi|294012129|ref|YP_003545589.1| ribosomal large subunit pseudouridine synthase B [Sphingobium japonicum UT26S] gi|292675459|dbj|BAI96977.1| ribosomal large subunit pseudouridine synthase B [Sphingobium japonicum UT26S] Length = 304 Score = 229 bits (585), Expect = 4e-58, Method: Compositional matrix adjust. Identities = 112/229 (48%), Positives = 150/229 (65%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 PQR++K++ARAG+ASRREVERMI + R+ +NG + A + S + VDG P+ Sbjct: 65 PQRIAKLLARAGVASRREVERMIEEGRITLNGEAVSTPATLLSSLHGVAVDGNPVAAPAP 124 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 RL+L+HKP G +TT DP GR T++D LP RV+ +GRLD+ TEGLLLLT DG R Sbjct: 125 ARLFLFHKPSGFLTTERDPRGRPTIYDKLPPDLPRVMPIGRLDMMTEGLLLLTTDGEFKR 184 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +ELPST R YR R G+V Q++L L G+ I GI YG ++ L+ + G N W+ + Sbjct: 185 QMELPSTGVPRTYRARAFGEVSQNQLEDLFDGLEIDGIRYGRIEANLERRTGRNQWIEMT 244 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EGKNRE+++V E +VNRLIR SYGPF LG L +G+ EV + L Sbjct: 245 LTEGKNREVRRVLEHLGLQVNRLIRTSYGPFHLGELASGAVEEVRQHDL 293 >gi|296282690|ref|ZP_06860688.1| hypothetical protein CbatJ_03660 [Citromicrobium bathyomarinum JL354] Length = 252 Score = 226 bits (575), Expect = 6e-57, Method: Compositional matrix adjust. Identities = 109/228 (47%), Positives = 151/228 (66%), Gaps = 4/228 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K++ARAG+ASRREVERMIA +R+ ++G +E A + + + VDG P+ K E TR Sbjct: 10 RIAKLLARAGVASRREVERMIADKRIAIDGKTVETPATLLETLRGVTVDGKPVAKPEPTR 69 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD----NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L+ +HKP GL+T DP GR T++D +LP RV+ +GRLD NTEGLLLLTNDG Sbjct: 70 LFAFHKPTGLITAEHDPRGRPTIYDALRNSLPKDAPRVMPIGRLDFNTEGLLLLTNDGEF 129 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 R+LELP+ R YR R HG V Q +L L +GI I G+ YG + L+ + G+N W+ Sbjct: 130 KRMLELPANAVERTYRARAHGGVTQAQLEELSEGITIDGVHYGPINANLERRTGANQWIE 189 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V + EGKNRE+++V E +VNRL+R+++GP LG L G E+ K Sbjct: 190 VTITEGKNREVRRVLEHLGLEVNRLVRVAFGPVALGDLPRGQAMEIRK 237 >gi|239947675|ref|ZP_04699428.1| pseudouridine synthase, Rsu [Rickettsia endosymbiont of Ixodes scapularis] gi|239921951|gb|EER21975.1| pseudouridine synthase, Rsu [Rickettsia endosymbiont of Ixodes scapularis] Length = 229 Score = 224 bits (572), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 116/233 (49%), Positives = 160/233 (68%), Gaps = 8/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+I+ AGI SRR+ E++IA+ +VKV+GI + A NV ++ IEV G+ + +++ Sbjct: 2 HRLAKIISNAGICSRRDAEKLIAEGQVKVDGITILSPATNVDISNQIEVSGILINQSQTP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+Y+KP+GL+TTH DP R TVF+ P+ RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 62 RLWIYYKPVGLITTHKDPLSRKTVFEQ-PTGLPRVISIGRLDLNSEGLLLLTNSGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK---KGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ELPS++ RVY VR +G+ D LLK K + I GI Y + L Q SN+W Sbjct: 121 FELPSSRLKRVYHVRAYGKSDI----LLKSNYKNLEIDGIFYNPHSIKLLKQNKSNSWFE 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V L EGKNREI+++FE+F KVN+LIRI YG F +G L G +E++ KIL + Sbjct: 177 VVLFEGKNREIRRIFEYFGLKVNKLIRIQYGSFTIGNLKPGDYKEINNKILEK 229 >gi|157803631|ref|YP_001492180.1| repair protein [Rickettsia canadensis str. McKiel] gi|157784894|gb|ABV73395.1| predicted repair protein [Rickettsia canadensis str. McKiel] Length = 229 Score = 224 bits (571), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 114/233 (48%), Positives = 161/233 (69%), Gaps = 8/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR++KVI+ +G+ SRR+ E++IA+ +VKV+GI + A NV ++ IEV G+ + ++++ Sbjct: 2 QRLAKVISNSGVCSRRDAEKLIAEGQVKVDGITILAPATNVDISNQIEVSGILINQSQKP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+Y+KP+GL+TTH DP R TVF++L S+ RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 62 RLWIYYKPVGLITTHKDPLSRKTVFEDLTSL-PRVISIGRLDLNSEGLLLLTNSGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK---KGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ELPS + RVY VR +G D LLK K + I GI Y + L +NAW Sbjct: 121 FELPSNKLKRVYHVRAYGNPDI----LLKSEYKNLEIDGILYNPYSIKLLRGNNTNAWFE 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L EGKNREI+++FE+F KVN+LIR+ YG F +G L G +E++ KIL + Sbjct: 177 IVLFEGKNREIRRIFEYFGLKVNKLIRVQYGSFTIGNLKPGDYKEINNKILEK 229 >gi|67459255|ref|YP_246879.1| ribosomal large subunit pseudouridine synthase [Rickettsia felis URRWXCal2] gi|75536313|sp|Q4UL59|Y544_RICFE RecName: Full=Uncharacterized RNA pseudouridine synthase RF_0863; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|67004788|gb|AAY61714.1| Ribosomal large subunit pseudouridine synthase [Rickettsia felis URRWXCal2] Length = 229 Score = 222 bits (566), Expect = 6e-56, Method: Compositional matrix adjust. Identities = 115/233 (49%), Positives = 160/233 (68%), Gaps = 8/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR++K+I+ AGI SRR+ E++I + +VKV+GI + A NV ++ IEV G+ + ++++ Sbjct: 2 QRLAKIISNAGICSRRDAEKLILEGQVKVDGITILSPATNVDISNQIEVSGILINQSQKP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+Y+KP+GL+TTH DP R TVF+ L + RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 62 RLWIYYKPVGLITTHKDPLSRKTVFEQLTGL-PRVISIGRLDLNSEGLLLLTNSGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK---KGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ELPS + RVY VR +G+ D LLK K + I GI Y + L Q SN+W Sbjct: 121 FELPSNRLKRVYHVRAYGKSDI----LLKSDYKNLEIDGIFYNPHSIKLFKQNKSNSWFE 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V L EGKNREI+++FE+F KVN+LIRI YG F + L G+ +E++ KIL + Sbjct: 177 VVLFEGKNREIRRIFEYFGLKVNKLIRIQYGSFTIDNLKPGAYKEINNKILEK 229 >gi|157825866|ref|YP_001493586.1| ribosomal large subunit pseudouridine synthase [Rickettsia akari str. Hartford] gi|157799824|gb|ABV75078.1| Ribosomal large subunit pseudouridine synthase [Rickettsia akari str. Hartford] Length = 229 Score = 221 bits (564), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 116/233 (49%), Positives = 159/233 (68%), Gaps = 8/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR++K+I+ AGI SRR+ E++IA+ +VKV+GI + A NV ++ IEV G+ + ++ Sbjct: 2 QRLAKIISNAGICSRRDAEKLIAEGQVKVDGITILSPATNVDISNKIEVSGILINNIQKP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+Y+KP+GL+TTH DP R TVF+ L + RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 62 RLWIYYKPVGLITTHKDPLSRKTVFEQLTGL-PRVISIGRLDLNSEGLLLLTNSGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK---KGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ELPS + RVY VR +G+ D LLK K + I GI Y + L Q SN+W Sbjct: 121 FELPSNRLKRVYHVRAYGKSDI----LLKSDYKNLEIDGIFYNPHSIKLLKQNKSNSWFE 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V L EGKNREI+++FE+F KV++LIRI YG F + L G+ +E++ KIL E Sbjct: 177 VVLFEGKNREIRRIFEYFGLKVHKLIRIQYGSFTIDNLKPGAYKEINNKILAE 229 >gi|85374350|ref|YP_458412.1| hypothetical protein ELI_07615 [Erythrobacter litoralis HTCC2594] gi|84787433|gb|ABC63615.1| hypothetical protein ELI_07615 [Erythrobacter litoralis HTCC2594] Length = 266 Score = 220 bits (561), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 113/235 (48%), Positives = 156/235 (66%), Gaps = 8/235 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K++ARAG+ASRREVERMI RV ++G +E A + S + VDG P+ KAE TR Sbjct: 20 RIAKLLARAGVASRREVERMITDGRVALHGKPVETPATFLESLRGVTVDGKPVGKAEPTR 79 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD----NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L+ ++KP GL+T +DP GR+T++D LP RV+ +GRLD NTEGLLLLTNDGGL Sbjct: 80 LFAFNKPTGLLTAENDPKGRATIYDALKNALPKDAGRVMPIGRLDFNTEGLLLLTNDGGL 139 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----TQKGSN 186 R +ELPS+ R YR R G + Q++L L +GI I G+ YG + L+ + G N Sbjct: 140 KRRMELPSSGIPRTYRARAFGDITQEQLESLIEGIEIDGVRYGRIDANLEQKTKSAGGRN 199 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 W+ + + EGKNRE+++V E F +V+RL+R++YGPFQLG L G E+ K L Sbjct: 200 QWIEMTITEGKNREVRRVLEHFGLEVSRLMRVAYGPFQLGDLPRGQAVEIRKGDL 254 >gi|91205136|ref|YP_537491.1| ribosomal large subunit pseudouridine synthase [Rickettsia bellii RML369-C] gi|157827531|ref|YP_001496595.1| ribosomal large subunit pseudouridine synthase [Rickettsia bellii OSU 85-389] gi|122425930|sp|Q1RJR2|Y321_RICBR RecName: Full=Uncharacterized RNA pseudouridine synthase RBE_0321; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|91068680|gb|ABE04402.1| Ribosomal large subunit pseudouridine synthase [Rickettsia bellii RML369-C] gi|157802835|gb|ABV79558.1| Ribosomal large subunit pseudouridine synthase [Rickettsia bellii OSU 85-389] Length = 229 Score = 218 bits (556), Expect = 8e-55, Method: Compositional matrix adjust. Identities = 113/232 (48%), Positives = 158/232 (68%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR++K+I+ AGI SRR+ E++I +VKVNGI++ A NV + + +EV G + ++++ Sbjct: 2 QRLAKLISNAGICSRRDAEKLILDGQVKVNGIIVTSPATNVDTDNQVEVSGSLITSSQKS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+Y+KP+GL+TTH DP R TVF+ L + RVIS+GRLD+N+EGLLLLTN+G LAR Sbjct: 62 RLWIYYKPVGLITTHKDPLSRKTVFEQLTGL-PRVISIGRLDLNSEGLLLLTNNGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK---KGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ELPS++ RVY VR +G D LLK K + I GI Y + L + +N+W+ Sbjct: 121 FELPSSKLKRVYHVRAYGNPDP----LLKSNYKNLEIDGIFYNPQSIKLLRKNSTNSWLE 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V L EGKNREI+++FE F KVN+LIR YG F+L L REV+KK+ + Sbjct: 177 VILFEGKNREIRRIFEHFGLKVNKLIRTEYGDFKLDNLKPNEYREVTKKLYK 228 >gi|85708946|ref|ZP_01040012.1| S4 domain protein [Erythrobacter sp. NAP1] gi|85690480|gb|EAQ30483.1| S4 domain protein [Erythrobacter sp. NAP1] Length = 260 Score = 218 bits (556), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 108/230 (46%), Positives = 150/230 (65%), Gaps = 6/230 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K++ARAG+ASRRE+ERMIA R+ +N ++E A + S + VDG P+ K E + Sbjct: 16 RIAKLLARAGVASRREIERMIADGRITLNDKVVETPATFLTSLQGVAVDGKPVAKPEPAQ 75 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF----DNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L+ +HKP GL+T DP GR+T++ + LP R++ +GRLD+NTEGLLLLTNDGGL Sbjct: 76 LYAFHKPTGLITAERDPAGRATIYAALRNALPKDTPRLMPIGRLDLNTEGLLLLTNDGGL 135 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAW 188 R +ELPS+ R YR R G V Q++L L +G+ I G+ YG + L+ G N W Sbjct: 136 KRQMELPSSGIPRTYRARAFGDVSQEQLEALIEGVEIDGVRYGSIDANLERGGAGGKNQW 195 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V + + EGKNRE+++V E+ KVNRLIR +YGPF LG L G + K Sbjct: 196 VEMTITEGKNREVRRVLEYLGLKVNRLIRTAYGPFGLGDLPRGQAVRIRK 245 >gi|157964674|ref|YP_001499498.1| ribosomal large subunit pseudouridine synthase [Rickettsia massiliae MTU5] gi|157844450|gb|ABV84951.1| Ribosomal large subunit pseudouridine synthase [Rickettsia massiliae MTU5] Length = 229 Score = 214 bits (546), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 112/233 (48%), Positives = 154/233 (66%), Gaps = 8/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+I+ AG+ SRR+ E++I + +VKV+GI + A NV ++ IEV G + + Sbjct: 2 HRLAKIISNAGVCSRRDAEKLIVEGQVKVDGITILSPATNVDISNQIEVSGTLINNIHKP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+Y+KP+GL+TTH DP R TVF+ L + VIS+GRLD+N+EGLLLLTN G LAR Sbjct: 62 RLWIYYKPVGLITTHKDPLSRKTVFEQLTGL-PHVISIGRLDLNSEGLLLLTNSGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK---KGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ELPS++ RVY VR +G+ D LLK K + I GI Y + L Q SN+W Sbjct: 121 FELPSSRLKRVYHVRAYGKSDI----LLKSHYKNLEIDGIFYNPHSIKLLKQNKSNSWFE 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V L EGKNREI+++FE+F KVN+LIRI YG F + L G +E++ KIL + Sbjct: 177 VVLFEGKNREIRRIFEYFGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKILEK 229 >gi|87199318|ref|YP_496575.1| pseudouridine synthase, Rsu [Novosphingobium aromaticivorans DSM 12444] gi|87134999|gb|ABD25741.1| Pseudouridine synthase, Rsu [Novosphingobium aromaticivorans DSM 12444] Length = 270 Score = 213 bits (541), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 106/228 (46%), Positives = 144/228 (63%), Gaps = 4/228 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K++ARAGIASRREVERMI + RVK+ ++ A + S + VDG P+ R Sbjct: 30 RIAKLLARAGIASRREVERMIEEGRVKIGDEVVTTPATLLTSLKGVSVDGKPVAPMAPPR 89 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF----DNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L+ +HKP GL+T DP GR T++ + LP RV+ VGRLD+NTEGLLL+TNDG L Sbjct: 90 LFRFHKPSGLITAERDPTGRPTIYTALRNALPQGTPRVMPVGRLDVNTEGLLLMTNDGEL 149 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 R LELPST R YR R G + Q +L L +GI I G+ YG + L+ G N W+ Sbjct: 150 KRALELPSTGIPRTYRARTFGDISQARLEELMEGIEIDGVRYGSINANLERSAGRNKWIE 209 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + L EGKNRE+++V E +V+RL+R YGPF+L L G+ E+ + Sbjct: 210 LTLTEGKNREVRRVLEHLGLQVSRLLRTKYGPFELADLPRGAAEEIPQ 257 >gi|15604401|ref|NP_220917.1| hypothetical protein RP544 [Rickettsia prowazekii str. Madrid E] gi|6647946|sp|Q9ZD06|Y544_RICPR RecName: Full=Uncharacterized RNA pseudouridine synthase RP544; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|3861093|emb|CAA14993.1| unknown [Rickettsia prowazekii] gi|292572159|gb|ADE30074.1| Ribosomal large subunit pseudouridine synthase [Rickettsia prowazekii Rp22] Length = 235 Score = 212 bits (539), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 110/234 (47%), Positives = 156/234 (66%), Gaps = 8/234 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+I+ AG+ SRR E++I +VK++GI + A NV ++ IEV G + ++ R Sbjct: 3 RLAKIISNAGVCSRRNAEKLIVGGKVKIDGITILSPATNVDMSNQIEVSGRLINNTQKPR 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW+Y+KP+GL+TTH DP R TVF+ L + RVIS+GRLD+N+EGLLLLTN G LA Sbjct: 63 LWIYYKPVGLITTHKDPLSRKTVFEQLIGL-PRVISIGRLDLNSEGLLLLTNSGDLAHQF 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLK---KGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 E+P+++ RVY VR +G + LLK K + I GI Y + L Q SN+W V Sbjct: 122 EMPASKLKRVYNVRAYGNPNI----LLKNNYKNLKIDGIFYNPHSIKLLRQNKSNSWFEV 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L EGKNREI+++FE+F +VN+LIRI YG ++G L G+ +E+S KIL +QL Sbjct: 178 VLFEGKNREIRRIFEYFGLQVNKLIRIQYGALKIGNLKPGNYQEISNKILEKQL 231 >gi|51473726|ref|YP_067483.1| pseudouridine synthase [Rickettsia typhi str. Wilmington] gi|81390049|sp|Q68WJ1|Y532_RICTY RecName: Full=Uncharacterized RNA pseudouridine synthase RT0532; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|51460038|gb|AAU04001.1| Pseudouridine synthase [Rickettsia typhi str. Wilmington] Length = 242 Score = 211 bits (538), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 109/238 (45%), Positives = 156/238 (65%), Gaps = 8/238 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+I+ AG+ SRR E++I +VK++GI + A NV ++ IEV G + ++ R Sbjct: 3 RLAKIISNAGVCSRRNAEKLIVGGKVKIDGITILSPATNVDISNQIEVSGRLINNIQKPR 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW+Y+KPIGL+TTH DP R TVF+ L + RVIS+GRLD+N+EGLLLLTN G LA Sbjct: 63 LWIYYKPIGLITTHKDPLSRKTVFEQLIGL-PRVISIGRLDLNSEGLLLLTNSGDLAHQF 121 Query: 135 ELPSTQWLRVYRVRFHGQVD---QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 E+PS++ RVY VR +G + ++ N LK I GI Y + L Q +N+W V Sbjct: 122 EMPSSKLKRVYNVRAYGNANFLLKNNYNNLK----IDGIFYNPYSIKLLRQNKNNSWFEV 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 L EGKNREI+++FE+F KVN+LIR+ YG ++G L G +E+S KIL++ + L Sbjct: 178 VLFEGKNREIRRIFEYFGLKVNKLIRVQYGALKIGNLKPGDYKEISNKILKKIISNKL 235 >gi|326387186|ref|ZP_08208796.1| pseudouridine synthase, Rsu [Novosphingobium nitrogenifigens DSM 19370] gi|326208367|gb|EGD59174.1| pseudouridine synthase, Rsu [Novosphingobium nitrogenifigens DSM 19370] Length = 316 Score = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 104/227 (45%), Positives = 149/227 (65%), Gaps = 4/227 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K++ARAGIASRR+VERMI + R+K+N L+ A +++ + VD P+ Sbjct: 76 ERIAKLLARAGIASRRDVERMIGEGRIKLNDELVTTPATLLLNLKGVTVDDKPVAAPAPA 135 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL----PSIFSRVISVGRLDINTEGLLLLTNDGG 129 RL+ +HKP GL+T DP GR T+++ L P+ RV+ VGRLD+NTEGLLLLTNDG Sbjct: 136 RLFRFHKPEGLITAERDPAGRPTIYNALRNALPAGTPRVMPVGRLDLNTEGLLLLTNDGE 195 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L R +ELP++ R YR R G + QD+L L +G+ I+GI YG + ++ + G N W+ Sbjct: 196 LKRAMELPASGIPRTYRARTFGDISQDQLEALIEGVEIEGIRYGSIDANMERRTGRNQWI 255 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + L EGKNRE+++V E +V+RLIR +YGPF L L G+ EV Sbjct: 256 EMTLTEGKNREVRRVLEHLGLQVSRLIRTAYGPFMLLDLPRGAADEV 302 >gi|165933395|ref|YP_001650184.1| ribosomal large subunit pseudouridine synthase B [Rickettsia rickettsii str. Iowa] gi|165908482|gb|ABY72778.1| ribosomal large subunit pseudouridine synthase B [Rickettsia rickettsii str. Iowa] Length = 230 Score = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 110/231 (47%), Positives = 151/231 (65%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+I+ AG+ SRR+ E++I + +VKV+GI + NV ++ IEV G + + Sbjct: 2 HRLAKIISNAGVCSRRDAEKLIVEGQVKVDGITILSPTTNVDISNQIEVSGTLINNIHKP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+Y+KP+GL+TTH DP R TVF+ L + RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 62 RLWIYYKPVGLITTHKDPLSRKTVFEQLTGL-PRVISIGRLDLNSEGLLLLTNSGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK---KGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ELPS++ RVY VR +G+ D LLK K + I GI Y + L Q +N W Sbjct: 121 FELPSSRLKRVYHVRAYGKSDV----LLKSNYKNLEIDGIFYNPHSIKLLKQNKTNCWFE 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 177 VVLFEGKNREIRRIFEYCGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKIL 227 >gi|157828676|ref|YP_001494918.1| ribosomal large subunit pseudouridine synthase B [Rickettsia rickettsii str. 'Sheila Smith'] gi|157801157|gb|ABV76410.1| ribosomal large subunit pseudouridine synthase B [Rickettsia rickettsii str. 'Sheila Smith'] Length = 230 Score = 211 bits (536), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 110/231 (47%), Positives = 151/231 (65%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+I+ AG+ SRR+ E++I + +VKV+GI + NV ++ IEV G + + Sbjct: 2 NRLAKIISNAGVCSRRDAEKLIVEGQVKVDGITILSPTTNVDISNQIEVSGTLINNIHKP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+Y+KP+GL+TTH DP R TVF+ L + RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 62 RLWIYYKPVGLITTHKDPLSRKTVFEQLTGL-PRVISIGRLDLNSEGLLLLTNSGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK---KGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ELPS++ RVY VR +G+ D LLK K + I GI Y + L Q +N W Sbjct: 121 FELPSSRLKRVYHVRAYGKSDV----LLKSNYKNLEIDGIFYNPHSIKLLKQNKTNCWFE 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 177 VVLFEGKNREIRRIFEYCGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKIL 227 >gi|238650309|ref|YP_002916161.1| ribosomal large subunit pseudouridine synthase B [Rickettsia peacockii str. Rustic] gi|238624407|gb|ACR47113.1| ribosomal large subunit pseudouridine synthase B [Rickettsia peacockii str. Rustic] Length = 230 Score = 211 bits (536), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 110/231 (47%), Positives = 151/231 (65%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+I+ AG+ SRR+ E++I + +VKV+GI + NV ++ IEV G + + Sbjct: 2 HRLAKIISNAGVCSRRDAEKLIVEGQVKVDGITILSPTTNVDISNQIEVSGTLINNIHKP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+Y+KP+GL+TTH DP R TVF+ L + RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 62 RLWIYYKPVGLITTHKDPLSRKTVFEQLTGL-PRVISIGRLDLNSEGLLLLTNSGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK---KGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ELPS++ RVY VR +G+ D LLK K + I GI Y + L Q +N W Sbjct: 121 FELPSSRLKRVYHVRAYGKYDI----LLKSNYKNLEIDGIFYNPHSIKLLKQNKTNCWFE 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 177 VVLFEGKNREIRRIFEYCGLKVNKLIRIQYGNFTIDNLKPGDYKEINNKIL 227 >gi|34581547|ref|ZP_00143027.1| ribosomal large subunit pseudouridine synthase B [Rickettsia sibirica 246] gi|28262932|gb|EAA26436.1| ribosomal large subunit pseudouridine synthase B [Rickettsia sibirica 246] Length = 230 Score = 211 bits (536), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 110/231 (47%), Positives = 151/231 (65%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+I+ AG+ SRR+ E++I + +VKV+GI + NV ++ IEV G + + Sbjct: 2 HRLAKIISNAGVCSRRDAEKLIVEGQVKVDGITILSPTTNVDISNQIEVSGTLINNIHKP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+Y+KP+GL+TTH DP R TVF+ L + RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 62 RLWIYYKPVGLITTHKDPLSRKTVFEQLTGL-PRVISIGRLDLNSEGLLLLTNSGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK---KGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ELPS++ RVY VR +G+ D LLK K + I GI Y + L Q +N W Sbjct: 121 FELPSSRLKRVYHVRAYGKSDI----LLKSNYKNLEIDGIFYNPHSIKLLKQNKTNCWFE 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 177 VVLFEGKNREIRRIFEYCGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKIL 227 >gi|103486547|ref|YP_616108.1| pseudouridine synthase, Rsu [Sphingopyxis alaskensis RB2256] gi|98976624|gb|ABF52775.1| Pseudouridine synthase, Rsu [Sphingopyxis alaskensis RB2256] Length = 285 Score = 211 bits (536), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 106/229 (46%), Positives = 145/229 (63%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 PQR++K++ARAG+ SRR+VERMI + R+ +NG ++ + A + S + + VDG P+ K Sbjct: 48 PQRIAKLLARAGVGSRRDVERMIEEGRIALNGEVVTQPAPLLASLEGLTVDGNPVAKPVS 107 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TRL+ +HKP G +T DP GR T++D LP R++ VGRLD NTEGLLLLTNDG R Sbjct: 108 TRLYRFHKPAGCLTAARDPKGRKTIYDVLPKGLPRLMPVGRLDYNTEGLLLLTNDGAFKR 167 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 LELP++ R YR R G + Q +L L GI I GI YG + L+ + G N W+ + Sbjct: 168 QLELPASGVERTYRARAFGDISQAQLEELVMGIEIDGIRYGKIDANLERRTGRNQWIEMT 227 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EGKNRE+++V E +V+RLIR YG F L L G+ V + L Sbjct: 228 LTEGKNREVRRVLEHLGLQVSRLIRTRYGEFTLAGLDMGAVEVVPRDEL 276 >gi|229586865|ref|YP_002845366.1| Ribosomal large subunit pseudouridine synthase [Rickettsia africae ESF-5] gi|228021915|gb|ACP53623.1| Ribosomal large subunit pseudouridine synthase [Rickettsia africae ESF-5] Length = 230 Score = 210 bits (534), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 109/234 (46%), Positives = 151/234 (64%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+I+ AG+ SRR+ E++I + +VKV+G+ + NV ++ IEV G + + Sbjct: 2 HRLAKIISNAGVCSRRDAEKLIVEGQVKVDGVTILSPTTNVDISNQIEVSGTLINNIHKP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+Y+KP+GL+TTH DP R TVF+ L + RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 62 RLWIYYKPVGLITTHKDPLSRKTVFEQLTGL-PRVISIGRLDLNSEGLLLLTNSGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK---KGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ELPS++ RVY VR +G+ D LLK K + I GI Y + L Q +N W Sbjct: 121 FELPSSRLKRVYHVRAYGKSDI----LLKSNYKNLEIDGIFYNPHSIKLLKQNKTNCWFE 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V L EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 177 VVLFEGKNREIRRIFEYCGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKILENH 230 >gi|15892730|ref|NP_360444.1| ribosomal large subunit pseudouridine synthase B [Rickettsia conorii str. Malish 7] gi|26006907|sp|Q92HG4|Y807_RICCN RecName: Full=Uncharacterized RNA pseudouridine synthase RC0807; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|15619906|gb|AAL03345.1| ribosomal large subunit pseudouridine synthase B [Rickettsia conorii str. Malish 7] Length = 230 Score = 209 bits (533), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 110/231 (47%), Positives = 150/231 (64%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+I+ AG+ SRR+ E++I +VKV+GI + NV ++ IEV G + + Sbjct: 2 HRLAKIISNAGVCSRRDAEKLIVAGQVKVDGITILSPTTNVDISNQIEVSGTLINNIHKP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+Y+KP+GL+TTH DP R TVF+ L + RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 62 RLWIYYKPVGLITTHKDPLSRKTVFEQLTGL-PRVISIGRLDLNSEGLLLLTNSGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK---KGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ELPS++ RVY VR +G+ D LLK K + I GI Y + L Q +N W Sbjct: 121 FELPSSRLKRVYHVRAYGKSDI----LLKSNYKNLEIDGIFYNPHSIKLLKQNKTNCWFE 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 177 VVLFEGKNREIRRIFEYCGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKIL 227 >gi|307292742|ref|ZP_07572588.1| RNA-binding S4 domain protein [Sphingobium chlorophenolicum L-1] gi|306880808|gb|EFN12024.1| RNA-binding S4 domain protein [Sphingobium chlorophenolicum L-1] Length = 267 Score = 206 bits (524), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 112/229 (48%), Positives = 151/229 (65%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 PQR++K++ARAG+ASRREVERMI + R+ +NG + A + S + VDG P+ Sbjct: 28 PQRIAKLLARAGVASRREVERMIEEGRITLNGEAITTPATLLASLHGVAVDGAPVAAPAP 87 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 RL+L+HKP G +TT DP GR T++D LP+ RV+ +GRLD+ TEGLLLLT DG R Sbjct: 88 ARLFLFHKPSGFLTTERDPRGRPTIYDKLPADLPRVMPIGRLDMTTEGLLLLTTDGEFKR 147 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +ELPST R YR R G V Q++L L +GI I GI YG ++ L+ + G N W+ + Sbjct: 148 QMELPSTGVPRTYRARAFGDVSQNQLEDLFEGIEIDGIRYGQIEANLERRTGRNQWIEMT 207 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EGKNRE+++V E +V+RLIR SYGPF LG L +G+ EV + L Sbjct: 208 LTEGKNREVRRVLEHLGLQVSRLIRTSYGPFHLGELPSGAVEEVRQHDL 256 >gi|114798538|ref|YP_759667.1| pseudouridine synthase rsuA family protein [Hyphomonas neptunium ATCC 15444] gi|114738712|gb|ABI76837.1| pseudouridine synthase rsuA family protein [Hyphomonas neptunium ATCC 15444] Length = 305 Score = 206 bits (524), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 115/233 (49%), Positives = 149/233 (63%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +ARAG+ASRREVER+I V VNG L A V + I+V ++ + + Sbjct: 38 ERIAKYLARAGVASRREVERLIEAGEVTVNGQKLTSPAFKVTGREAIKVGRKVIQAPDAS 97 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW YHKP GL+TT +DP GR T+FD LP R ++VGRLD+ TEGLLLLTNDG LAR Sbjct: 98 RLWRYHKPSGLITTTNDPAGRRTIFDELPKSLPRTVTVGRLDLTTEGLLLLTNDGELARF 157 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP + R YRVR G V Q K++ L GI ++G+ Y ++ D + G+N+W+TV L Sbjct: 158 LELPKSALERTYRVRAKGTVTQLKIDELASGITVEGVKYQPIKAVFDREMGANSWLTVTL 217 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNRE++K E VNRLIR+SYGPF L L G EV +L L Sbjct: 218 TEGKNREVRKALESVGLTVNRLIRVSYGPFLLADLKPGQVDEVPPDLLETALA 270 >gi|330791888|ref|XP_003284023.1| hypothetical protein DICPUDRAFT_147740 [Dictyostelium purpureum] gi|325086069|gb|EGC39465.1| hypothetical protein DICPUDRAFT_147740 [Dictyostelium purpureum] Length = 377 Score = 192 bits (488), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 97/227 (42%), Positives = 154/227 (67%), Gaps = 5/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R++KV++R+G+ASRR+ + MI + RVKVNG++ + +S D +EVDG ++K Sbjct: 110 ERLNKVLSRSGVASRRKADEMIREGRVKVNGVVTTLENDHFVSIIDEVEVDGKIIKKP-M 168 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 R+W++ K ++ THS+ +GR ++ L + + +I+VGRLD +EGL+LLTNDG L Sbjct: 169 PRMWMHFKKPKVLVTHSEVEGRESLVPILKKVLKKDHLITVGRLDYYSEGLILLTNDGNL 228 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 +R LE P ++ R YRVR G++ Q+ ++ KGIVI I Y ++V +D + +N+WV Sbjct: 229 SRYLEHPDNEFERTYRVRIFGKITQEMQDIFTKGIVIDNIKYKPIEVIVDKESKNNSWVV 288 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 + ++EGKNREI+K+ E+FN KV RLIR+ YGP++L +L G T E+ Sbjct: 289 IKIKEGKNREIRKILEYFNIKVLRLIRVGYGPYELPESLKHGETIEI 335 >gi|23007931|ref|ZP_00049587.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Magnetospirillum magnetotacticum MS-1] Length = 179 Score = 191 bits (485), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 94/157 (59%), Positives = 114/157 (72%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K IARAGIASRR+ E +I RV +NG +L A+NV +D I VDG PL ERT Sbjct: 22 ERIAKAIARAGIASRRDAEALIEAGRVTLNGQVLTSPAINVTDSDRITVDGEPLPARERT 81 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWL HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGLLLLTNDGGLA+V Sbjct: 82 RLWLLHKPRGVVTTARDPEGRQTVFDGLPEELPRVVAIGRLDINTEGLLLLTNDGGLAKV 141 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + P T WLR YRVR G V Q L+ LKKG+ + G+ Sbjct: 142 IAHPDTGWLRRYRVRAFGDVTQADLDKLKKGVTVDGM 178 >gi|118369895|ref|XP_001018150.1| conserved hypothetical protein [Tetrahymena thermophila] gi|89299917|gb|EAR97905.1| conserved hypothetical protein [Tetrahymena thermophila SB210] Length = 484 Score = 191 bits (485), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 95/233 (40%), Positives = 152/233 (65%), Gaps = 13/233 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------DGVPL 67 +R+SK ++R+G+ SRR+ E+MI +KV+G + + + V ++IE+ P+ Sbjct: 176 ERLSKYLSRSGVCSRRQAEKMIKDGLIKVDGKVAT-SNLPVTPKNNIEIFTQRGEKFAPV 234 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD----NLPSIFSRVISVGRLDINTEGLLL 123 + + ++W+++KP G++ +H DP R +VF+ N +I+VGRLD N+EGL+L Sbjct: 235 K--QNAKIWIFYKPRGMICSHDDPLKRPSVFNYIYNNTKIKEPHIIAVGRLDYNSEGLIL 292 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG +A+ LE P + R YRVR G++D+ KL L++G VI G+ YG V +D ++ Sbjct: 293 LTNDGDIAQCLEQPESNIYRQYRVRVQGELDERKLLKLRQGTVINGVQYGPFNVEIDKRQ 352 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 SN W+TVGL GKNREI+KV + F+ +V+RL R+SYGP+++G++L G E Sbjct: 353 SSNTWLTVGLYTGKNREIRKVMQKFDLRVSRLKRLSYGPYKIGSMLPGQIFET 405 >gi|145514343|ref|XP_001443082.1| hypothetical protein [Paramecium tetraurelia strain d4-2] gi|124410443|emb|CAK75685.1| unnamed protein product [Paramecium tetraurelia] Length = 337 Score = 189 bits (479), Expect = 7e-46, Method: Compositional matrix adjust. Identities = 96/244 (39%), Positives = 155/244 (63%), Gaps = 19/244 (7%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 +N++Q P R+SK +A+ + SRRE E+MI + V+G +E + + V S + I+V Sbjct: 28 QNLIQPE--PMRLSKYLAQTSVCSRREAEKMIESGMILVDGKKVE-SNIPVTSENKIQVF 84 Query: 63 --DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--------VISVG 112 +G + + T++W+++KP+G++ +H+DP R + +D F++ +ISVG Sbjct: 85 TKNGEKMPTKQSTKVWIFYKPVGMICSHNDPFKRPSFYD-----FAKLRLKTDQHIISVG 139 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLD N+EGL+++TNDG LAR +ELP T+ R+YRVR +G ++KL ++ GI I G+ Y Sbjct: 140 RLDFNSEGLIVVTNDGELARCMELPETKLQRIYRVRVYGTFTEEKLKKIRNGITIAGVNY 199 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 G V ++ ++ N W+ + L +GKNREI+KV + F+ +VNRLIR SYGP++L L G Sbjct: 200 GPYWVNVENRQSRNTWLIMRLEQGKNREIRKVMQKFDLRVNRLIRQSYGPYKLMGLKPGD 259 Query: 233 TREV 236 E Sbjct: 260 FYEA 263 >gi|145503394|ref|XP_001437673.1| hypothetical protein [Paramecium tetraurelia strain d4-2] gi|124404826|emb|CAK70276.1| unnamed protein product [Paramecium tetraurelia] Length = 336 Score = 185 bits (469), Expect = 9e-45, Method: Compositional matrix adjust. Identities = 95/243 (39%), Positives = 154/243 (63%), Gaps = 19/243 (7%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 +N++Q P R+SK +A+ + SRRE E+MI + V+G ++ + + V S + I+V Sbjct: 28 QNLIQSE--PMRLSKYLAQTSVCSRREAEKMIESGMILVDGKKVD-SNIPVTSENKIQVF 84 Query: 63 --DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--------VISVG 112 +G + + T++W+++KPIG++ +H+DP R + +D F++ +ISVG Sbjct: 85 TKNGERMPVKQSTKVWIFYKPIGMICSHNDPFKRPSFYD-----FAKLRLKTDQHIISVG 139 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLD N+EGL+++TNDG LAR +ELP T+ R+YRVR +G ++KL ++ G+ I G+ Y Sbjct: 140 RLDFNSEGLIVVTNDGELARCMELPETKLQRIYRVRVYGTFTEEKLKKIRNGLTIAGVNY 199 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 G V ++ ++ N W+ + L GKNREI+KV + F+ +VNRLIR SYGP++L L G Sbjct: 200 GPYWVNVENRQSRNTWLIMRLESGKNREIRKVMQKFDLRVNRLIRQSYGPYKLMGLKPGD 259 Query: 233 TRE 235 E Sbjct: 260 FYE 262 >gi|66818983|ref|XP_643151.1| hypothetical protein DDB_G0276449 [Dictyostelium discoideum AX4] gi|60471215|gb|EAL69178.1| hypothetical protein DDB_G0276449 [Dictyostelium discoideum AX4] Length = 401 Score = 185 bits (469), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 102/242 (42%), Positives = 151/242 (62%), Gaps = 13/242 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++ARAGIASRR+ E +I RVKVNG +++ + V D I VD P+ K ++ Sbjct: 138 ERIQKILARAGIASRRKAEELIIDGRVKVNGKIIKMEEILVKPHDIITVDDKPI-KVDKP 196 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-----FSRVISVGRLDINTEGLLLLTNDG 128 ++W++ K ++T+ DPDGR + LP I +ISVGRLD TEGL+L TNDG Sbjct: 197 KIWMHFKNPQVLTSEYDPDGRDCL---LPIIRKVIGIDHLISVGRLDYYTEGLILFTNDG 253 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LAR L LP + RVY+VR G+ + L KG+VI + Y + V ++++ SN W Sbjct: 254 ELARYLTLPQNLFFRVYKVRIFGKFTDEMKFSLAKGMVINEVFYRPVSVQVESETDSNTW 313 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 + + L+EGK REI+ + E+FN KV RLIR++YGP+ L +L G T EV ++++L P Sbjct: 314 LRITLQEGKKREIRTLLEYFNVKVLRLIRVAYGPYVLPNSLKHGETIEVP---IKDELKP 370 Query: 248 HL 249 + Sbjct: 371 FI 372 >gi|291001465|ref|XP_002683299.1| predicted protein [Naegleria gruberi] gi|284096928|gb|EFC50555.1| predicted protein [Naegleria gruberi] Length = 362 Score = 180 bits (457), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 99/230 (43%), Positives = 142/230 (61%), Gaps = 9/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA-- 70 +RVSK +AR G+ S+++ +I +VKVNGIL+ + + D + V GV + K Sbjct: 83 ERVSKFLARVGVCSKQQGVDLIKAGQVKVNGILITESGQKMNPFYDVVTVKGVNITKKDV 142 Query: 71 ----ERTRLWLYHKPIGLVTTHSDPDG-RSTVFDNLPSI-FSRVISVGRLDINTEGLLLL 124 E +L+ YHKP G++ + D G R T++ L + F +ISVGRLD N+EGL+LL Sbjct: 143 ESNLENVKLYAYHKPRGVLCSRVDNGGNRETIYQRLERMGFGHLISVGRLDYNSEGLILL 202 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG L+R LELP T R Y VR HGQV Q L+ L+KG I+G+ Y M+ TL + Sbjct: 203 TNDGNLSRHLELPQTGLERQYLVRVHGQVSQPLLDSLQKGSTIEGVHYAGMKATLHREGE 262 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ V L EGKNREI+K+F+ N V+R++RI YGP++L + G + Sbjct: 263 KTSWIKVILHEGKNREIRKIFQQLNLPVSRIMRIQYGPYKLENIQKGQIK 312 >gi|256822107|ref|YP_003146070.1| RNA-binding S4 domain-containing protein [Kangiella koreensis DSM 16069] gi|256795646|gb|ACV26302.1| RNA-binding S4 domain protein [Kangiella koreensis DSM 16069] Length = 267 Score = 178 bits (451), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 106/225 (47%), Positives = 143/225 (63%), Gaps = 12/225 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNVMSTDHIEVDG--VPLR 68 +++ K++A AG+ SRRE+E+ I RV VNG L ERA D I VDG + + Sbjct: 3 EKLQKILANAGLGSRREIEKWIEGGRVSVNGSIAKLGERAT----DKDTIRVDGRIISII 58 Query: 69 KAERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 AE T R+ Y+KP+G V+T DP+GR+TVFDNLP+ F R IS+GRLDINT GLLL T Sbjct: 59 SAEETYTRVLAYNKPLGEVSTKKDPEGRATVFDNLPNTSFGRWISIGRLDINTTGLLLFT 118 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N+G LA L PS Q R Y VR HG+V + ++ L KG++I+G V +G+ Sbjct: 119 NNGELAHRLMHPSYQVERKYAVRVHGEVTPEMISNLTKGVLIEGDTCQFTYVQDKGGEGA 178 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 N W VGL EGKNRE++K++E +V+RL+R+ YGP L T L+ Sbjct: 179 NHWYEVGLAEGKNREVRKLWESQGVEVSRLMRVQYGPISLPTRLS 223 >gi|330813627|ref|YP_004357866.1| ribosomal large subunit pseudouridine synthase B [Candidatus Pelagibacter sp. IMCC9063] gi|327486722|gb|AEA81127.1| ribosomal large subunit pseudouridine synthase B [Candidatus Pelagibacter sp. IMCC9063] Length = 246 Score = 175 bits (444), Expect = 8e-42, Method: Compositional matrix adjust. Identities = 88/229 (38%), Positives = 137/229 (59%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK +A + SRRE+ERMI R+ +NG +L V TD I++DG L + + Sbjct: 10 RISKFLASYNVGSRREIERMIENGRIYLNGEILTTPVHFVNKTDSIKLDGKLLLFKKFKQ 69 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ ++KP + + + D R V+D LP F I GRLD+N+EGLL++TNDG +AR L Sbjct: 70 IYKFYKPTDCICSKNKQDERKIVYDLLPKRFKNFIFAGRLDVNSEGLLIVTNDGEVARSL 129 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELP +++R YRVR +G ++ K++ L KG I GI Y L + N W+ + L+ Sbjct: 130 ELPKNKFVRKYRVRVYGVCEEQKIDNLSKGRKIDGIQYRPFNYKLFNKDKKNFWIEMELK 189 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 EGKNREI+++ + +VN+L R+ +GPF++ L G + K +R+ Sbjct: 190 EGKNREIRELMRSIDLRVNKLTRLEFGPFKISNLKPGEIKTAEPKEIRQ 238 >gi|299115182|emb|CBN74013.1| RNA pseudouridylate synthase domain-containing protein (C-terminal) RNA pseudouridylate synthase dom [Ectocarpus siliculosus] Length = 490 Score = 174 bits (442), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 105/257 (40%), Positives = 145/257 (56%), Gaps = 29/257 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD----------- 63 R+S+ IAR+GIASRRE ERM+ V VNG ++ A+NV D ++V+ Sbjct: 114 RLSRRIARSGIASRREAERMVEAGVVMVNGATVQTPALNVGPRDIVKVNVGLFQQPGNGT 173 Query: 64 -------GVPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVG 112 G L + E +LW+ HK + T DP+GR TVFD L + ++ VG Sbjct: 174 DCFTFVQGKVLERPESHTPKLWMVHKMRNELVTRHDPEGRPTVFDRLTKLKLPDTLMPVG 233 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLD NTEGLLLLTNDG LAR +ELPS+ +R Y VR +G + ++KL ++ G I G+ Y Sbjct: 234 RLDYNTEGLLLLTNDGDLARKMELPSSNIVRTYSVRVYGNITEEKLRAMRSGCTIDGVRY 293 Query: 173 GDM-----QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 M ++G NAW+T+ EGKNR+I+K+ ++ VNRL R YGPF LG Sbjct: 294 KGMFVRVEGGGGKGREGRNAWLTIECTEGKNRQIRKICKYLCLTVNRLARTRYGPFSLGK 353 Query: 228 LLAGSTR--EVSKKILR 242 + AG E+ K +R Sbjct: 354 VRAGGVAAVEIPKAFMR 370 >gi|90021367|ref|YP_527194.1| ribosomal large subunit pseudouridine synthase B [Saccharophagus degradans 2-40] gi|89950967|gb|ABD80982.1| ribosomal large subunit pseudouridine synthase B [Saccharophagus degradans 2-40] Length = 398 Score = 171 bits (433), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 102/236 (43%), Positives = 144/236 (61%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----K 69 +++ KV+ARAG SRRE+ER I + RVKVNG++ V +D I+VD +R + Sbjct: 11 EKLQKVLARAGQGSRREMERAITEGRVKVNGVVAT-LGDRVTESDKIQVDDQYIRVKKGE 69 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 A+ TR+ LY+KP G + + +DP+GR TV+DNLP + S R ISVGRLD NT GLLL TNDG Sbjct: 70 ADTTRVILYNKPEGQICSRNDPEGRPTVYDNLPRLKSGRWISVGRLDFNTSGLLLFTNDG 129 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS+ R Y VR G+VD D L L+ G++++ + Q+GSN W Sbjct: 130 ELAHKLMHPSSNIDREYLVRVQGEVDGDMLQRLRDGVLLEDGLAKFTDIVPGAQEGSNRW 189 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP-FQLGTLLAGSTREVSKKILRE 243 + EGKNRE+++++E +V+RL R+ YG F + G E+ K L+E Sbjct: 190 FYCVVMEGKNREVRRLWESQECRVSRLKRVRYGNIFIPSNVRVGQWIELEDKELKE 245 >gi|222056371|ref|YP_002538733.1| pseudouridine synthase [Geobacter sp. FRC-32] gi|221565660|gb|ACM21632.1| pseudouridine synthase [Geobacter sp. FRC-32] Length = 240 Score = 169 bits (429), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 134/225 (59%), Gaps = 1/225 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K++++AGIASRRE E++I RV VNG ++ E + +D I +DG P+R+ R Sbjct: 3 ERLQKILSQAGIASRREAEKIITAGRVAVNGQVVTELGSKADAESDRITLDGKPIRQESR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R L +KP+G +TT DP+GR V D L + RV VGRLD NTEGLLLLTNDG LA Sbjct: 63 KRYLLLYKPVGYMTTMKDPEGRPIVTDLLKDVKERVYPVGRLDYNTEGLLLLTNDGALAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y VR GQ +L L+ G+ ++ QV+L + N W+++ Sbjct: 123 RLAHPSHEVDKGYLVRIRGQASPSQLKHLQMGVDLEDGMTAPAQVSLVRESDHNCWISIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+ R+++++ E V RL R YG ++G L G RE+S Sbjct: 183 IHEGRYRQVRRMCEAVGLTVVRLKRSRYGFLEIGELKPGQYRELS 227 >gi|301094302|ref|XP_002896257.1| RNA pseudouridine synthase, putative [Phytophthora infestans T30-4] gi|262109652|gb|EEY67704.1| RNA pseudouridine synthase, putative [Phytophthora infestans T30-4] Length = 238 Score = 167 bits (423), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 134/225 (59%), Gaps = 3/225 (1%) Query: 23 AGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLWLYHKP 81 +G+ SRRE E+ I V VNG ++ A V D + VDG L K ++T++W+ +K Sbjct: 2 SGLCSRREAEKRIQSFDVTVNGHVVADVATKVDAEKDVVAVDGRVLSKTQKTKVWMAYKM 61 Query: 82 IGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPST 139 G + T+SDP R+T+FD L + ++ VGRLD NTEGLLL TNDG AR LE P T Sbjct: 62 KGELVTNSDPQDRATIFDRLRVMGLTQHMMPVGRLDFNTEGLLLFTNDGDYARELEHPKT 121 Query: 140 QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNR 199 RVYR G V + KL LK+G ++ G+ Y ++VT+ + ++W+ V + EGKNR Sbjct: 122 GVSRVYRALVRGNVAESKLEELKRGPLVDGVKYRPIKVTVQSTDKKDSWLQVKVAEGKNR 181 Query: 200 EIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 E++K V +LIR+ YGP++L L +G+ EV K L ++ Sbjct: 182 EVRKALAHVRLVVKQLIRVQYGPYRLADLPSGAVLEVRPKSLEKK 226 >gi|325193088|emb|CCA27453.1| RNA pseudouridine synthase putative [Albugo laibachii Nc14] Length = 285 Score = 166 bits (420), Expect = 6e-39, Method: Compositional matrix adjust. Identities = 99/250 (39%), Positives = 139/250 (55%), Gaps = 10/250 (4%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVD 63 NI R+SK IA AGI SRR+ E+ I +V +NG +L ++ D + VD Sbjct: 28 NIESSTDQKMRISKWIAMAGICSRRQAEKKILSNQVVLNGNVLRDVGQSINPKVDRVTVD 87 Query: 64 GVPL--RKAERT-----RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRL 114 G+ L RK E +LWL HK G + T DP GR T+FD + ++ VGRL Sbjct: 88 GIDLMRRKPEDKASYPRKLWLAHKLKGELVTTEDPQGRRTIFDRFRQMGLKQHLMPVGRL 147 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D NTEGLL+ TNDG AR LE P R YR G V + K++ L +G ++ G+ Y Sbjct: 148 DYNTEGLLVFTNDGEYARQLEHPKFCVERTYRALVRGNVLRSKIDELARGAIVNGVKYRP 207 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +QV++ + ++W+ V LREGKNRE++ V RLIR+ +GP++L L +GS Sbjct: 208 IQVSIHSTDKKDSWLQVKLREGKNREVRNALAHVRLIVKRLIRVRFGPYRLADLPSGSVL 267 Query: 235 EVSKKILREQ 244 EV K+L +Q Sbjct: 268 EVVPKVLEKQ 277 >gi|238919603|ref|YP_002933118.1| 23S rRNA pseudouridylate synthase B [Edwardsiella ictaluri 93-146] gi|269138896|ref|YP_003295597.1| 23S rRNA pseudouridylate synthase/pseudouridine synthase [Edwardsiella tarda EIB202] gi|238869172|gb|ACR68883.1| RNA pseudouridine synthase family protein [Edwardsiella ictaluri 93-146] gi|267984557|gb|ACY84386.1| 23S rRNA pseudouridylate synthase/pseudouridine synthase [Edwardsiella tarda EIB202] gi|304558882|gb|ADM41546.1| Ribosomal large subunit pseudouridine synthase B [Edwardsiella tarda FL6-60] Length = 291 Score = 165 bits (417), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 98/218 (44%), Positives = 135/218 (61%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERA-AVNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I + RV V+G L V VM I VDG V +R++ Sbjct: 3 EKLQKVLARAGHGSRREIEALIKEGRVSVDGKLATLGDRVEVMPNMKIRVDGRVVSIRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E+ R+ Y+KP G + T DP+GR TVFD LP + SR I+VGRLDINT GLLL T D Sbjct: 63 EQEICRVLAYYKPEGELCTRRDPEGRPTVFDRLPRLRGSRWIAVGRLDINTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD+DKL L++G+ ++ ++ +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDEDKLRQLRRGVQLEDGPASFKSISFQGGEGLNQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDLPL 220 >gi|121997382|ref|YP_001002169.1| pseudouridine synthase [Halorhodospira halophila SL1] gi|121588787|gb|ABM61367.1| ribosomal large subunit pseudouridine synthase B [Halorhodospira halophila SL1] Length = 278 Score = 164 bits (416), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 99/240 (41%), Positives = 144/240 (60%), Gaps = 12/240 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ KV+ARAG+ SRRE+E I RV++ G + DH+E+DG +++ R Sbjct: 12 EKLQKVLARAGLGSRREMEAAIQAGRVRIEG-RTAKLGDRARPRDHVELDGRTVQRVHRE 70 Query: 74 ---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R+ LY+KP G VTT SDP+GRSTVF+ LP R I+VGRLDIN++GLLL TNDG L Sbjct: 71 PPRRVLLYNKPEGEVTTRSDPEGRSTVFERLPRTPGRWIAVGRLDINSQGLLLFTNDGEL 130 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG------ICYGDMQVTLDTQKG 184 A L PST R Y R HG+V ++ ++ L G+ ++ + M V + Q+G Sbjct: 131 ANALMHPSTGVEREYACRIHGEVTEEMVHRLVDGVELEDGPAHFEVVESGMPVD-EPQEG 189 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 +NAW V + EG+ RE+++++E V+RLIR+ YGP + L G RE+ + RE Sbjct: 190 TNAWYHVIVTEGRRREVRRLWESQGVTVSRLIRVRYGPMVMPRDLRRGQLRELDEAGKRE 249 >gi|293390209|ref|ZP_06634543.1| ribosomal large subunit pseudouridine synthase B [Aggregatibacter actinomycetemcomitans D7S-1] gi|290950743|gb|EFE00862.1| ribosomal large subunit pseudouridine synthase B [Aggregatibacter actinomycetemcomitans D7S-1] Length = 322 Score = 164 bits (416), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 108/256 (42%), Positives = 154/256 (60%), Gaps = 12/256 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +IA+ RV V+G + +NV + + +DG + L +A Sbjct: 41 EKLQKVLARAGQGSRREIEAIIAENRVSVDGKIATLGDRINVYAGVKVRIDGHLINLTQA 100 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 ++ R+ +Y+KP G + T DP+GR+TVFD LP + +R I+VGRLDINT GLLL T D Sbjct: 101 QKEVCRVLMYYKPEGELCTRHDPEGRATVFDRLPRLTGARWIAVGRLDINTSGLLLFTTD 160 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD LN LKKG+ ++ ++ + G N Sbjct: 161 GELANRLMHPSREVEREYSVRVFGQVDDAMLNRLKKGVQLEDGSANFKEIKVVGGVGMNQ 220 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILRE 243 W V L EG+NRE+++++E +V+RLIRI YG +L TL G +E+ LRE Sbjct: 221 WFDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKTLPRGGWQEMELADVNYLRE 280 Query: 244 QLGPHLLEEAQVNLDA 259 +G L EA+ L A Sbjct: 281 LVG--LPPEAETKLGA 294 >gi|118580486|ref|YP_901736.1| pseudouridine synthase [Pelobacter propionicus DSM 2379] gi|118503196|gb|ABK99678.1| ribosomal large subunit pseudouridine synthase B [Pelobacter propionicus DSM 2379] Length = 271 Score = 164 bits (416), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 95/235 (40%), Positives = 134/235 (57%), Gaps = 1/235 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K+I++AGIASRR E MI RV VNG+++ T D I VDG P++ A + Sbjct: 3 ERLQKLISQAGIASRRAAEEMILAGRVTVNGLVVTELGSKADPTVDSIAVDGRPVKPASQ 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G +TT DP+GR V D LP I RV VGRLD NTEGLLLLTNDG A Sbjct: 63 HLYILLNKPAGFMTTLDDPEGRQVVTDLLPEIKERVYPVGRLDYNTEGLLLLTNDGDWAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y VR G+V Q +++ LK G+ + G QV L N W+++ Sbjct: 123 KLMHPRHEIEKEYHVRVRGKVHQSQIDQLKNGVDLDGRPTAPAQVRLIKDGEQNDWLSIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EG+NR+++++ E + V RL R+ YG ++ L G R +++ R L P Sbjct: 183 IHEGRNRQVRRMCEAVSLSVVRLKRVRYGALEMRGLKPGQHRLLTEAEARALLTP 237 >gi|56478942|ref|YP_160531.1| pseudouridylate synthase [Aromatoleum aromaticum EbN1] gi|56314985|emb|CAI09630.1| pseudouridylate synthase [Aromatoleum aromaticum EbN1] Length = 317 Score = 164 bits (415), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 92/221 (41%), Positives = 134/221 (60%), Gaps = 5/221 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKA 70 P+R+ KV+A+ G+ SRRE+E + R+ VNG+ E + D ++ +G +PLR Sbjct: 54 PERLQKVLAQIGLGSRREIEEWVVAGRISVNGLPAE-LGQKIGPGDRVKYNGKLIPLRFT 112 Query: 71 ERT-RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 RT R+ +YHKP G + + DP+GR TVF+ LP + R I+VGRLD NT GLLL TNDG Sbjct: 113 VRTPRVLIYHKPEGEIVSREDPEGRPTVFERLPILRKGRWIAVGRLDFNTSGLLLFTNDG 172 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + R Y VR GQ+D ++L LK GI ++ ++ + +G+N W Sbjct: 173 TLANRLMHPRYELEREYAVRLLGQLDDEQLESLKTGIQLEDGLARFTSISDEGGEGANHW 232 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V L EG+NRE++++FE V+RL+R+ YGP L + L Sbjct: 233 YRVTLSEGRNREVRRMFEAVGLTVSRLMRVRYGPVTLSSRL 273 >gi|254786469|ref|YP_003073898.1| ribosomal large subunit pseudouridine synthase B [Teredinibacter turnerae T7901] gi|237684905|gb|ACR12169.1| ribosomal large subunit pseudouridine synthase B [Teredinibacter turnerae T7901] Length = 285 Score = 164 bits (414), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 94/213 (44%), Positives = 133/213 (62%), Gaps = 6/213 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--- 70 +++ KV+ARAG+ SRRE+ER+I+ +V VNG R V + D IE DG ++ A Sbjct: 11 EKLQKVLARAGLGSRREMERLISLGKVSVNGATA-RLGDRVGAEDKIEYDGKRIQAAPVV 69 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 +RTR+ LY+KP G + + +DP+GR TV+DNLP I SR ISVGRLD NT GLLL TNDG Sbjct: 70 KQRTRVILYNKPEGQICSRNDPEGRPTVYDNLPKIAQSRWISVGRLDFNTSGLLLFTNDG 129 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PST R Y VR G+VD D L L+ G++++ + ++ N W Sbjct: 130 ELANKLMHPSTGIDREYLVRIQGEVDNDMLQRLRDGVLLEDGIARFTDIVEGQKESKNRW 189 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + EG+NRE+++++E +V+RL R+ YG Sbjct: 190 FYCVVMEGRNREVRRLWESQEVRVSRLKRVRYG 222 >gi|238754970|ref|ZP_04616319.1| Ribosomal large subunit pseudouridine synthase B [Yersinia ruckeri ATCC 29473] gi|238706829|gb|EEP99197.1| Ribosomal large subunit pseudouridine synthase B [Yersinia ruckeri ATCC 29473] Length = 321 Score = 164 bits (414), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 95/220 (43%), Positives = 137/220 (62%), Gaps = 10/220 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDG--VPLR 68 +++ KV+ARAG SRRE+E +I Q RV V+G L +R V+V + I +DG +P+ Sbjct: 3 EKLQKVLARAGHGSRREIEAIIQQGRVSVDGKVATLGDR--VDVTPSTKIRLDGRILPIT 60 Query: 69 KAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 ++E R+ Y+KP G + T SDPDGR TVFD LP + SR ++VGRLD+NT GLLL T Sbjct: 61 ESEEAVCRVLAYYKPEGELCTRSDPDGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQ+D +K+ LL +G+ ++ ++ +G Sbjct: 121 TDGELANRLMHPSREVEREYAVRVFGQIDDEKIKLLSRGVQLEDGPAAFRTISFQGGEGL 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINL 220 >gi|77918905|ref|YP_356720.1| ribosomal large subunit pseudouridine synthase B [Pelobacter carbinolicus DSM 2380] gi|77544988|gb|ABA88550.1| ribosomal large subunit pseudouridine synthase B [Pelobacter carbinolicus DSM 2380] Length = 236 Score = 164 bits (414), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 93/225 (41%), Positives = 128/225 (56%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ K+IA AG+ SRR E IA RV VNG + E A D I VD PL +AE Sbjct: 3 QRLQKLIAAAGLTSRRRAEEWIANGRVTVNGRVAELGAQADPDKDRILVDNRPLPQAEEP 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L HKP+G VT+ DP GR V D L +R+ VGRLD+NTEGLLLLTNDG LA Sbjct: 63 VCVLLHKPVGYVTSRRDPQGRPVVTDLLGKFRARLFPVGRLDLNTEGLLLLTNDGDLAWR 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + + Y VR G + + L++G++++ +V Q GS+ W+ + + Sbjct: 123 LSHPSHEVCKTYLVRVQGSLSCEARRQLQEGVLLEEGVTAPAKVARVRQAGSHTWMELSI 182 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EG+NR+++++ E V+RL RI Y LG L G R++S+ Sbjct: 183 HEGRNRQVRRMCEAVGCPVSRLKRIRYAFLDLGDLRPGQHRQLSR 227 >gi|117924345|ref|YP_864962.1| ribosomal large subunit pseudouridine synthase B [Magnetococcus sp. MC-1] gi|117608101|gb|ABK43556.1| ribosomal large subunit pseudouridine synthase B [Magnetococcus sp. MC-1] Length = 332 Score = 164 bits (414), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 94/229 (41%), Positives = 144/229 (62%), Gaps = 7/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A G+ SRRE E I + RV +NG ++ V V D + VDG L +R+R Sbjct: 71 RLQKWLAEQGLCSRREGEVWIQEGRVSINGEVVTELGVKVAKRDRVAVDG-QLVTPQRSR 129 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLA 131 + HKP ++ T SDP GR T+FD + + SR+I+VGRLDIN+EGL++LT+DG LA Sbjct: 130 DTAIILHKPKSIICTRSDPQGRRTIFDLIENHGSSRLITVGRLDINSEGLIILTSDGQLA 189 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICYGDMQVTLDT--QKGSNAW 188 L PS + RVYRV+ HG + +L ++ G+ ++ G +++ LD ++G+N+W Sbjct: 190 HGLMHPSREVPRVYRVKTHGILLASQLEQIRTVGVRLEDGPTGPLEIVLDRGREQGNNSW 249 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 T+ LREG+NRE++++F+ F +V RL+R+ YG LG L G+ R V+ Sbjct: 250 YTITLREGRNREVRRIFDHFGLQVARLLRVGYGGISLGNLEPGAWRPVT 298 >gi|88810635|ref|ZP_01125892.1| Pseudouridine synthase, Rsu [Nitrococcus mobilis Nb-231] gi|88792265|gb|EAR23375.1| Pseudouridine synthase, Rsu [Nitrococcus mobilis Nb-231] Length = 267 Score = 163 bits (413), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 96/217 (44%), Positives = 136/217 (62%), Gaps = 6/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ KV+ARAG+ SRR++E I R++VNG + R V I VDG PLR+ + Sbjct: 5 EKLQKVLARAGMGSRRQMEHWIRDGRIRVNG-RIARLGERVAPRMQITVDGRPLRRRSLS 63 Query: 74 ---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGG 129 R+ LYHKP+G+VTT SDP GR TVF +LP I R I+VGRLDINT GLLL T DG Sbjct: 64 GLPRMLLYHKPVGVVTTRSDPAGRPTVFQHLPRIKKGRWIAVGRLDINTCGLLLFTTDGE 123 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAW 188 LA L PS + +R Y VR +G+V + + L++G+ ++ G D L + +N W Sbjct: 124 LANRLMHPSFRLVREYAVRVYGEVTAEMITRLQQGVELEDGRGAFDRIEVLCEAQAANGW 183 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EG+ RE+++++E +V+RLIR+ YGP +L Sbjct: 184 YRVSLAEGRRREVRRLWESQGVRVSRLIRLRYGPVRL 220 >gi|260893153|ref|YP_003239250.1| pseudouridine synthase [Ammonifex degensii KC4] gi|260865294|gb|ACX52400.1| pseudouridine synthase [Ammonifex degensii KC4] Length = 251 Score = 163 bits (413), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 95/227 (41%), Positives = 137/227 (60%), Gaps = 1/227 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+ARAGIASRR+ E +I RVKVNG ++++ V V D IEVDG P++ ER Sbjct: 4 ERLQKVLARAGIASRRKAEELIVAGRVKVNGQVVDKLGVKVDPERDSIEVDGKPVKLPER 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP G+VTT DP GR V D L I RV VGRLD ++EGLLLLTNDG LA Sbjct: 64 LVYLAFHKPRGVVTTLHDPQGRPKVADFLKGIKERVFPVGRLDYDSEGLLLLTNDGELAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V G+V ++KLNLL++GI ++ +V + + + + Sbjct: 124 RLLHPRFHVPKTYLVWVKGEVGKEKLNLLRRGIKLEDGPTLPAEVRVLRRARGETVLQLT 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +REG+ R+I+++ + +V RL R++ GP +LG L G R ++ + Sbjct: 184 IREGRKRQIRRMLKALGCEVLRLKRVAVGPVRLGPLRPGEYRHLTPR 230 >gi|88705955|ref|ZP_01103663.1| ribosomal large subunit pseudouridine synthase B (Pseudouridylate synthase) [Congregibacter litoralis KT71] gi|88699669|gb|EAQ96780.1| ribosomal large subunit pseudouridine synthase B (Pseudouridylate synthase) [Congregibacter litoralis KT71] Length = 332 Score = 163 bits (413), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 95/213 (44%), Positives = 132/213 (61%), Gaps = 8/213 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--RKAE 71 +++ KV+AR+G+ SRRE+ER I Q+RV ++G R V++ IEVDG PL E Sbjct: 20 EKLQKVLARSGLGSRREMERWIEQERVTIDGKAA-RLGDRVVAAQRIEVDGRPLVASDGE 78 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGL 130 +TR LYHKP G V + DP+GR TVF+ LP + S R IS+GRLD NT GLLL T DG L Sbjct: 79 KTRCLLYHKPTGEVCSRKDPEGRRTVFERLPKVKSGRWISIGRLDYNTSGLLLFTTDGEL 138 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GIC-YGDMQVTLDTQKGSNAW 188 A L PS R Y VR G V +D L + +G++++ G+ + D+Q G N+W Sbjct: 139 ANALMHPSANIEREYMVRVMGDVTEDHLKAMLEGVMLEDGVARFTDIQSG--GGDGINSW 196 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V L EG+NRE+++++E V+RL R+ YG Sbjct: 197 YYVVLMEGRNREVRRLWESQGLTVSRLKRVRYG 229 >gi|302342638|ref|YP_003807167.1| pseudouridine synthase [Desulfarculus baarsii DSM 2075] gi|301639251|gb|ADK84573.1| pseudouridine synthase [Desulfarculus baarsii DSM 2075] Length = 271 Score = 163 bits (412), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 100/265 (37%), Positives = 148/265 (55%), Gaps = 8/265 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K++ARAG+ASRR E +IA RV V+G ++ + T I +DG P+ +AE Sbjct: 4 ERLQKILARAGVASRRAAEELIAAGRVAVDGQIVRQPGHKADPDTQSIAIDGKPIARAEA 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 WL HKP G V+T DP GR V D LP I +R+ VGRLD+++EGL+LLTNDG LA Sbjct: 64 KEYWLAHKPAGYVSTVHDPQGRPRVLDLLPPEIRARLYPVGRLDLDSEGLMLLTNDGDLA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + YRV G+ ++ L L+ G+ I+G +T+ ++ V++ Sbjct: 124 LRLTHPRYGVPKTYRVWLSGRPNRADLEALRAGVEIEGRQTAPAMITVKAAADGHSKVSM 183 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQLGPH 248 LREG+ REIK +++ V RL+R+ GP +LG L G+ R +S + LR Q H Sbjct: 184 VLREGRKREIKLMWKARGLNVIRLVRVGLGPLRLGDLPPGAVRRLSPAEIQALRRQC--H 241 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPN 273 L + + D + S R+ P+ Sbjct: 242 ALSGCKDSADG-VQKSARGARNAPS 265 >gi|114320248|ref|YP_741931.1| ribosomal large subunit pseudouridine synthase B [Alkalilimnicola ehrlichii MLHE-1] gi|114226642|gb|ABI56441.1| ribosomal large subunit pseudouridine synthase B [Alkalilimnicola ehrlichii MLHE-1] Length = 290 Score = 163 bits (412), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 96/235 (40%), Positives = 140/235 (59%), Gaps = 14/235 (5%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 D + E +++ KV+ARAG+ SRR++E IA+ RVKVNG + + V + D ++V Sbjct: 4 DNTAMSEQANTEKLQKVLARAGVGSRRQMEAWIAEGRVKVNGHVAQ-LGDRVTAEDRLQV 62 Query: 63 DGVPLRK----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 DG P+ + ER R+ LY+KP G V T DP+GR TVF+NLP R + VGRLD+N+ Sbjct: 63 DGRPVARRKLQPER-RVLLYYKPEGQVCTRDDPEGRPTVFENLPEADGRWVVVGRLDLNS 121 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQ 176 +GLLL T DG LA L PS+ R Y VR +G+V + L L++G+ + + + Sbjct: 122 QGLLLFTTDGELANRLMHPSSGIEREYAVRVYGEVTPEILRRLQQGVTLDDGEAAFTRIT 181 Query: 177 VTLDTQK------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +D + N W V LREG+NRE+++++E KV+RLIR+ YGP L Sbjct: 182 PVVDYRALGYEAPPGNEWYQVTLREGRNREVRRLWESQGLKVSRLIRVRYGPVSL 236 >gi|294635983|ref|ZP_06714424.1| ribosomal large subunit pseudouridine synthase B [Edwardsiella tarda ATCC 23685] gi|291090692|gb|EFE23253.1| ribosomal large subunit pseudouridine synthase B [Edwardsiella tarda ATCC 23685] Length = 291 Score = 163 bits (412), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 97/218 (44%), Positives = 134/218 (61%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERA-AVNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I + RV V+G L V V + I VDG V +R++ Sbjct: 3 EKLQKVLARAGHGSRREIEALIKEGRVSVDGKLATLGDRVEVTANMKIRVDGRVVSIRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E+ R+ Y+KP G + T DP+GR TVFD LP + SR I+VGRLDINT GLLL T D Sbjct: 63 EQEICRVLAYYKPEGELCTRRDPEGRPTVFDRLPRLRGSRWIAVGRLDINTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD+DKL L +G+ ++ ++ +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDEDKLRQLSRGVQLEDGPASFKSISFQGGEGLNQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDLTL 220 >gi|145627819|ref|ZP_01783620.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 22.1-21] gi|144979594|gb|EDJ89253.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 22.1-21] Length = 357 Score = 162 bits (410), Expect = 8e-38, Method: Compositional matrix adjust. Identities = 103/236 (43%), Positives = 143/236 (60%), Gaps = 14/236 (5%) Query: 2 KDKNIVQENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNV 54 K K +V+ + P +++ KV+ARAG SRRE+E MIA RV V G IL +R ++V Sbjct: 60 KAKPVVKASNQPKIEGEKLQKVLARAGQGSRREIETMIASGRVSVEGKIAILGDR--IDV 117 Query: 55 MSTDHIEVDG--VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVI 109 S + +DG + L A++ R+ +Y+KP G + T SDP+GR+TVFD LP + SR I Sbjct: 118 HSGVKVRIDGQIINLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWI 177 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 +VGRLDINT GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ Sbjct: 178 AVGRLDINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLED 237 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 238 GPANFKEIKFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|323144920|ref|ZP_08079483.1| pseudouridine synthase B, ribosomal large subunit [Succinatimonas hippei YIT 12066] gi|322415318|gb|EFY06089.1| pseudouridine synthase B, ribosomal large subunit [Succinatimonas hippei YIT 12066] Length = 340 Score = 162 bits (409), Expect = 8e-38, Method: Compositional matrix adjust. Identities = 102/253 (40%), Positives = 152/253 (60%), Gaps = 14/253 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG----VPL 67 +++ KV+AR G+ SRRE++ +IA RV+VNG + AAV V +++DG PL Sbjct: 3 EKLQKVLARQGLGSRRELDALIAAGRVEVNGKV---AAVGDRVEGPLTVKIDGKVVLTPL 59 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 + + R+ +Y+KP G VTT+ DP+ R TVFD+LP R I VGRLD+NT GLLL T Sbjct: 60 SEKPKCRVLMYYKPEGEVTTYKDPEDRPTVFDHLPRPDGGRWIYVGRLDLNTSGLLLFTT 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + RVY R +G+V ++ LK+G++++ +V +G N Sbjct: 120 DGELANALMHPSKEIERVYAARIYGEVTDKQIAALKQGVMLEDGKASFDKVVFVGGEGRN 179 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS-KKI--LR 242 W V L+EG+NRE+++++E +V+RLIRI Y L L AG RE++ +I LR Sbjct: 180 QWYHVSLKEGRNREVRRLWEAVGLQVSRLIRIRYAGVDLDNKLRAGKYRELTLSEINNLR 239 Query: 243 EQLGPHLLEEAQV 255 +G LE +++ Sbjct: 240 AAVGLKALESSEI 252 >gi|307257215|ref|ZP_07538986.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 10 str. D13039] gi|306864257|gb|EFM96169.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 10 str. D13039] Length = 349 Score = 162 bits (409), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 96/225 (42%), Positives = 136/225 (60%), Gaps = 8/225 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG-- 64 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 64 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 123 Query: 65 ---VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEG 120 +P++K E R+ +Y+KP G + T SDP+GR+TVFD LP + +R I+VGRLDINT G Sbjct: 124 ISLIPVQK-EICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGARWIAVGRLDINTSG 182 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL T DG LA L PS + R Y VR G +D+ L L+KG+ ++ Q+ Sbjct: 183 LLLFTTDGELANRLMHPSREVEREYSVRVFGNIDEAMLQRLRKGVQLEDGPANFKQIKTV 242 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 243 GGTGLNQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKL 287 >gi|165976586|ref|YP_001652179.1| pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|303250091|ref|ZP_07336293.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|303253264|ref|ZP_07339413.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|307246075|ref|ZP_07528157.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|307248183|ref|ZP_07530211.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|307259493|ref|ZP_07541218.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 11 str. 56153] gi|165876687|gb|ABY69735.1| probable pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|302647946|gb|EFL78153.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|302651154|gb|EFL81308.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|306853010|gb|EFM85233.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|306855360|gb|EFM87535.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|306866429|gb|EFM98292.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 11 str. 56153] Length = 349 Score = 161 bits (408), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 96/225 (42%), Positives = 136/225 (60%), Gaps = 8/225 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG-- 64 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 64 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 123 Query: 65 ---VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEG 120 +P++K E R+ +Y+KP G + T SDP+GR+TVFD LP + +R I+VGRLDINT G Sbjct: 124 ISLIPVQK-EICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGARWIAVGRLDINTSG 182 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL T DG LA L PS + R Y VR G +D+ L L+KG+ ++ Q+ Sbjct: 183 LLLFTTDGELANRLMHPSREVEREYSVRVFGNIDEAMLQRLRKGVQLEDGPANFKQIKTV 242 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 243 GGTGLNQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKL 287 >gi|53729057|ref|ZP_00348305.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|126208628|ref|YP_001053853.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae L20] gi|126097420|gb|ABN74248.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 5b str. L20] Length = 349 Score = 161 bits (408), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 96/225 (42%), Positives = 136/225 (60%), Gaps = 8/225 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG-- 64 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 64 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 123 Query: 65 ---VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEG 120 +P++K E R+ +Y+KP G + T SDP+GR+TVFD LP + +R I+VGRLDINT G Sbjct: 124 ISLIPVQK-EICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGARWIAVGRLDINTSG 182 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL T DG LA L PS + R Y VR G +D+ L L+KG+ ++ Q+ Sbjct: 183 LLLFTTDGELANRLMHPSREVEREYSVRVFGNIDEAMLQRLRKGVQLEDGPANFKQIKTV 242 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 243 GGTGLNQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKL 287 >gi|307250415|ref|ZP_07532362.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|306857544|gb|EFM89653.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 4 str. M62] Length = 349 Score = 161 bits (408), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 96/225 (42%), Positives = 136/225 (60%), Gaps = 8/225 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG-- 64 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 64 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 123 Query: 65 ---VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEG 120 +P++K E R+ +Y+KP G + T SDP+GR+TVFD LP + +R I+VGRLDINT G Sbjct: 124 ISLIPVQK-EICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGARWIAVGRLDINTSG 182 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL T DG LA L PS + R Y VR G +D+ L L+KG+ ++ Q+ Sbjct: 183 LLLFTTDGELANRLMHPSREVEREYSVRVFGNIDEAMLQRLRKGVQLEDGPANFKQIKTV 242 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 243 GGTGLNQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKL 287 >gi|240948952|ref|ZP_04753308.1| pseudouridine synthase [Actinobacillus minor NM305] gi|240296767|gb|EER47378.1| pseudouridine synthase [Actinobacillus minor NM305] Length = 340 Score = 161 bits (408), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 98/228 (42%), Positives = 136/228 (59%), Gaps = 8/228 (3%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVD 63 N +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +D Sbjct: 52 NEKKEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRID 111 Query: 64 G-----VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDIN 117 G +P +K E R+ +Y+KP G + T SDP+GR+TVFD LP + SR ++VGRLDIN Sbjct: 112 GHLINLIPTQK-EICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWVAVGRLDIN 170 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR G VD+ L L+KG+ ++ Q+ Sbjct: 171 TSGLLLFTTDGELANRLMHPSREVEREYSVRVFGNVDEAMLQRLRKGVQLEDGPANFKQI 230 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 231 KAVGGTGINQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKL 278 >gi|260913991|ref|ZP_05920465.1| ribosomal large subunit pseudouridine synthase B [Pasteurella dagmatis ATCC 43325] gi|260632078|gb|EEX50255.1| ribosomal large subunit pseudouridine synthase B [Pasteurella dagmatis ATCC 43325] Length = 358 Score = 161 bits (408), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 97/218 (44%), Positives = 133/218 (61%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E MIA+ RV V+G + ++V S + +DG V L A Sbjct: 77 EKLQKVLARAGQGSRREIEAMIAENRVSVDGKMATLGDRIDVRSGVKVRIDGHIVNLMHA 136 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 ++ R+ +Y+KP G + T DP+GR+TVFD LP + SR I+VGRLDINT GLLL T D Sbjct: 137 QKEVCRVLMYYKPEGELCTRHDPEGRATVFDRLPRLTGSRWIAVGRLDINTSGLLLFTTD 196 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD LN LKKG+ ++ ++ G N Sbjct: 197 GELANRLMHPSREVEREYSVRVFGQVDDAMLNRLKKGVQLEDGPANFKEIKFAGGVGMNQ 256 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR YG L Sbjct: 257 WFDVTLMEGRNREVRRLWESQGVQVSRLIRTRYGNISL 294 >gi|307252799|ref|ZP_07534689.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|307255057|ref|ZP_07536875.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|307261643|ref|ZP_07543310.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|307263831|ref|ZP_07545436.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 13 str. N273] gi|306859698|gb|EFM91721.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|306861930|gb|EFM93906.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|306868635|gb|EFN00445.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|306870820|gb|EFN02559.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 13 str. N273] Length = 373 Score = 161 bits (408), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 96/225 (42%), Positives = 136/225 (60%), Gaps = 8/225 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG-- 64 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 88 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 147 Query: 65 ---VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEG 120 +P++K E R+ +Y+KP G + T SDP+GR+TVFD LP + +R I+VGRLDINT G Sbjct: 148 ISLIPVQK-EICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGARWIAVGRLDINTSG 206 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL T DG LA L PS + R Y VR G +D+ L L+KG+ ++ Q+ Sbjct: 207 LLLFTTDGELANRLMHPSREVEREYSVRVFGNIDEAMLQRLRKGVQLEDGPANFKQIKTV 266 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 267 GGTGLNQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKL 311 >gi|219872044|ref|YP_002476419.1| ribosomal large subunit pseudouridine synthase B [Haemophilus parasuis SH0165] gi|219692248|gb|ACL33471.1| ribosomal large subunit pseudouridine synthase B [Haemophilus parasuis SH0165] Length = 339 Score = 161 bits (408), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 97/232 (41%), Positives = 140/232 (60%), Gaps = 8/232 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDH 59 ++ +N + +++ K++ARAG SRRE+E +IA RV V+G I + V V S+ Sbjct: 48 IETENKANDKIVGEKLQKILARAGQGSRREIEEVIAAGRVSVDGKIAMLGDRVQVSSSTK 107 Query: 60 IEVDG-----VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGR 113 I +DG +P +K E R+ +Y+KP G + T SDP+GR+TVFD LP + SR I+VGR Sbjct: 108 IRIDGNLVSLIPTQK-EICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAVGR 166 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LDINT GLLL T DG LA L PS + R Y VR G+V+ + L+KG+ ++ Sbjct: 167 LDINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGEVNDAMIQRLRKGVQLEDGPAN 226 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 Q+ G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 227 FKQIKAVGGTGINQWFDVTLTEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 278 >gi|319776559|ref|YP_004139047.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae F3047] gi|317451150|emb|CBY87383.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae F3047] Length = 357 Score = 161 bits (407), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 100/234 (42%), Positives = 141/234 (60%), Gaps = 10/234 (4%) Query: 2 KDKNIVQENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMS 56 K K++V+ + P +++ KV+ARAG SRRE+E MIA RV V G + ++V S Sbjct: 60 KVKSVVKASNQPKVEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHS 119 Query: 57 TDHIEVDG--VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISV 111 + +DG + L A++ R+ +Y+KP G + T SDP+GR+TVFD LP + SR I+V Sbjct: 120 GVKVRIDGQIINLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPHLTGSRWIAV 179 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDINT GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ Sbjct: 180 GRLDINTSGLLLFTTDGELANRLMHPSHEVEREYSVRVFGQVDDAMLARLRKGVQLEDGL 239 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 240 ANFKEIKFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|301156161|emb|CBW15632.1| 23S rRNA pseudouridylate synthase [Haemophilus parainfluenzae T3T1] Length = 336 Score = 161 bits (407), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 96/224 (42%), Positives = 137/224 (61%), Gaps = 6/224 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG-- 64 Q +++ KV+ARAG SRRE+E MIA+ RV V+G + ++V S + +DG Sbjct: 49 QSTVEGEKLQKVLARAGQGSRREIEAMIAENRVSVDGKMATLGDRIDVHSGVKVRIDGRI 108 Query: 65 VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGL 121 + L++A++ R+ +Y+KP G + T SDP+GR TVFD LP + +R I+VGRLDINT GL Sbjct: 109 INLQQAQKEVCRVLMYYKPEGELCTRSDPEGRPTVFDRLPRLNGARWIAVGRLDINTSGL 168 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 169 LLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGPANFKEIKFAG 228 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 229 GVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 272 >gi|229844846|ref|ZP_04464984.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 6P18H1] gi|229812227|gb|EEP47918.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 6P18H1] Length = 357 Score = 161 bits (407), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 101/234 (43%), Positives = 140/234 (59%), Gaps = 10/234 (4%) Query: 2 KDKNIVQENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMS 56 K K +V+ + P +++ KV+ARAG SRRE+E MIA RV V G I ++V S Sbjct: 60 KAKPVVRASNQPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHS 119 Query: 57 TDHIEVDG--VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISV 111 + +DG + L A++ R+ +Y+KP G + T SDP+GR+TVFD LP + SR I+V Sbjct: 120 GVKVRIDGQIINLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAV 179 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDINT GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ Sbjct: 180 GRLDINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGS 239 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 240 ANFKEIKFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|145633070|ref|ZP_01788802.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 3655] gi|144986296|gb|EDJ92875.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 3655] Length = 357 Score = 161 bits (407), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 97/224 (43%), Positives = 134/224 (59%), Gaps = 6/224 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG-- 64 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QSKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 65 VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGL 121 + L A++ R+ +Y+KP G + T SDP+GR+TVFD LP + SR I+VGRLDINT GL Sbjct: 130 INLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPHLTGSRWIAVGRLDINTSGL 189 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 190 LLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGSANFKEIKFTG 249 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 250 GVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|148828349|ref|YP_001293102.1| methyltransferase [Haemophilus influenzae PittGG] gi|148719591|gb|ABR00719.1| predicted methyltransferase [Haemophilus influenzae PittGG] Length = 357 Score = 160 bits (406), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 101/234 (43%), Positives = 139/234 (59%), Gaps = 10/234 (4%) Query: 2 KDKNIVQENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMS 56 K K IV+ + P +++ KV+ARAG SRRE+E MIA RV V G + ++V S Sbjct: 60 KAKPIVKASNQPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHS 119 Query: 57 TDHIEVDG--VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISV 111 + +DG + L A++ R+ +Y+KP G + T SDP GR+TVFD LP + SR I+V Sbjct: 120 GVKVRIDGQIINLSHAQKEICRVLMYYKPEGELCTRSDPKGRATVFDRLPHLTGSRWIAV 179 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDINT GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ Sbjct: 180 GRLDINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGS 239 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 240 ANFKEIKFAGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|325578258|ref|ZP_08148393.1| ribosomal large subunit pseudouridine synthase B [Haemophilus parainfluenzae ATCC 33392] gi|325159994|gb|EGC72123.1| ribosomal large subunit pseudouridine synthase B [Haemophilus parainfluenzae ATCC 33392] Length = 336 Score = 160 bits (406), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 95/225 (42%), Positives = 136/225 (60%), Gaps = 6/225 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG- 64 Q +++ KV+ARAG SRRE+E MIA RV V+G + ++V S + +DG Sbjct: 48 CQSTVEGEKLQKVLARAGQGSRREIEAMIADNRVSVDGKMATLGDRIDVHSGVKVRIDGR 107 Query: 65 -VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEG 120 + L++A++ R+ +Y+KP G + T SDP+GR TVFD LP + +R I+VGRLDINT G Sbjct: 108 IINLQQAQKEVCRVLMYYKPEGELCTRSDPEGRPTVFDRLPRLNGARWIAVGRLDINTSG 167 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL T DG LA L PS + R Y VR GQVD L L++G+ ++ ++ Sbjct: 168 LLLFTTDGELANCLMHPSREVEREYSVRVFGQVDDAMLARLRRGVQLEDGPANFKEIKFA 227 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 228 GGIGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 272 >gi|260582128|ref|ZP_05849922.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae NT127] gi|260094760|gb|EEW78654.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae NT127] Length = 357 Score = 160 bits (406), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 100/234 (42%), Positives = 141/234 (60%), Gaps = 10/234 (4%) Query: 2 KDKNIVQENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMS 56 K K++V+ + P +++ KV+ARAG SRRE+E MIA RV V G + ++V S Sbjct: 60 KVKSVVKASNQPKVEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHS 119 Query: 57 TDHIEVDG--VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISV 111 + +DG + L A++ R+ +Y+KP G + T SDP+GR+TVFD LP + SR I+V Sbjct: 120 GVKVRIDGQIINLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPHLTGSRWIAV 179 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDINT GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ Sbjct: 180 GRLDINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGP 239 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 240 ANFKEIKFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|145631249|ref|ZP_01787022.1| predicted methyltransferase [Haemophilus influenzae R3021] gi|144983176|gb|EDJ90671.1| predicted methyltransferase [Haemophilus influenzae R3021] Length = 357 Score = 160 bits (406), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 100/234 (42%), Positives = 141/234 (60%), Gaps = 10/234 (4%) Query: 2 KDKNIVQENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMS 56 K K++V+ + P +++ KV+ARAG SRRE+E MIA RV V G + ++V S Sbjct: 60 KVKSVVKASNQPKVEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHS 119 Query: 57 TDHIEVDG--VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISV 111 + +DG + L A++ R+ +Y+KP G + T SDP+GR+TVFD LP + SR I+V Sbjct: 120 GVKVRIDGQIINLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAV 179 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDINT GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ Sbjct: 180 GRLDINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGP 239 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 240 ANFKEIKFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|257465549|ref|ZP_05629920.1| pseudouridine synthase [Actinobacillus minor 202] gi|257451209|gb|EEV25252.1| pseudouridine synthase [Actinobacillus minor 202] Length = 340 Score = 160 bits (406), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 97/228 (42%), Positives = 136/228 (59%), Gaps = 8/228 (3%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVD 63 N +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +D Sbjct: 52 NEKKEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRID 111 Query: 64 G-----VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDIN 117 G +P +K E R+ +Y+KP G + T SDP+GR+TVFD LP + +R ++VGRLDIN Sbjct: 112 GHLINLIPTQK-EICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGARWVAVGRLDIN 170 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR G VD+ L L+KG+ ++ Q+ Sbjct: 171 TSGLLLFTTDGELANRLMHPSREVEREYSVRVFGNVDEAMLQRLRKGVQLEDGPANFKQI 230 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 231 KAVGGTGINQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKL 278 >gi|145635048|ref|ZP_01790754.1| predicted methyltransferase [Haemophilus influenzae PittAA] gi|145267656|gb|EDK07654.1| predicted methyltransferase [Haemophilus influenzae PittAA] Length = 357 Score = 160 bits (405), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 101/234 (43%), Positives = 140/234 (59%), Gaps = 10/234 (4%) Query: 2 KDKNIVQENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMS 56 K K +V+ + P +++ KV+ARAG SRRE+E MIA RV V G I ++V S Sbjct: 60 KAKPVVKASNQPKIEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHS 119 Query: 57 TDHIEVDG--VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISV 111 + +DG + L A++ R+ +Y+KP G + T SDP+GR+TVFD LP + SR I+V Sbjct: 120 GVKVRIDGQIINLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAV 179 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDINT GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ Sbjct: 180 GRLDINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGP 239 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 240 ANFKEIKFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|319897335|ref|YP_004135531.1| ribosomal large subunit pseudouridine synthase b [Haemophilus influenzae F3031] gi|301169940|emb|CBW29544.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 10810] gi|317432840|emb|CBY81205.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae F3031] Length = 357 Score = 160 bits (404), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 101/234 (43%), Positives = 140/234 (59%), Gaps = 10/234 (4%) Query: 2 KDKNIVQENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMS 56 K K +V+ + P +++ KV+ARAG SRRE+E MIA RV V G I ++V S Sbjct: 60 KAKPVVRASNQPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHS 119 Query: 57 TDHIEVDG--VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISV 111 + +DG + L A++ R+ +Y+KP G + T SDP+GR+TVFD LP + SR I+V Sbjct: 120 GVKVRIDGQIINLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAV 179 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDINT GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ Sbjct: 180 GRLDINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGP 239 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 240 ANFKEIKFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|68249745|ref|YP_248857.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 86-028NP] gi|68057944|gb|AAX88197.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 86-028NP] Length = 357 Score = 160 bits (404), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 100/234 (42%), Positives = 140/234 (59%), Gaps = 10/234 (4%) Query: 2 KDKNIVQENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMS 56 K K +V+ + P +++ KV+ARAG SRRE+E MIA RV V G + ++V S Sbjct: 60 KAKPVVRASNQPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHS 119 Query: 57 TDHIEVDG--VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISV 111 + +DG + L A++ R+ +Y+KP G + T SDP+GR+TVFD LP + SR I+V Sbjct: 120 GVKVRIDGQIINLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAV 179 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDINT GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ Sbjct: 180 GRLDINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGP 239 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 240 ANFKEIKFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|145639281|ref|ZP_01794887.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae PittII] gi|145271584|gb|EDK11495.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae PittII] gi|309751158|gb|ADO81142.1| 23S rRNA pseudouridylate synthase RluB [Haemophilus influenzae R2866] Length = 357 Score = 160 bits (404), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 101/234 (43%), Positives = 140/234 (59%), Gaps = 10/234 (4%) Query: 2 KDKNIVQENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMS 56 K K +V+ + P +++ KV+ARAG SRRE+E MIA RV V G I ++V S Sbjct: 60 KAKPVVRASNQPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHS 119 Query: 57 TDHIEVDG--VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISV 111 + +DG + L A++ R+ +Y+KP G + T SDP+GR+TVFD LP + SR I+V Sbjct: 120 GVKVRIDGQIINLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAV 179 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDINT GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ Sbjct: 180 GRLDINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGP 239 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 240 ANFKEIKFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|33152184|ref|NP_873537.1| pseudouridine synthase [Haemophilus ducreyi 35000HP] gi|33148406|gb|AAP95926.1| probable pseudouridine synthase [Haemophilus ducreyi 35000HP] Length = 354 Score = 160 bits (404), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 95/218 (43%), Positives = 133/218 (61%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLR---- 68 +++ K++ARAG SRRE+E +IA RV V+G + V+V +T I +DG + Sbjct: 75 EKLQKILARAGQGSRRELEEVIAAGRVSVDGKIASLGDRVHVNATTKIRIDGTLINLVTA 134 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 + E R+ +Y+KP G + T +DP+GR+TVFD LP + SR I+VGRLDINT GLLL T D Sbjct: 135 QKEICRVLMYYKPEGELCTRADPEGRATVFDRLPRLSGSRWIAVGRLDINTSGLLLFTTD 194 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD L L+KG+ ++ Q+ G N Sbjct: 195 GDLANRLMHPSHEVEREYSVRVFGQVDDAMLQRLRKGVQLEDGPANFKQIKAVGGTGLNQ 254 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 255 WFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKL 292 >gi|229846229|ref|ZP_04466341.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 7P49H1] gi|229811233|gb|EEP46950.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 7P49H1] Length = 357 Score = 160 bits (404), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 101/234 (43%), Positives = 139/234 (59%), Gaps = 10/234 (4%) Query: 2 KDKNIVQENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMS 56 K K IV+ + P +++ KV+ARAG SRRE+E MIA RV V G + ++V S Sbjct: 60 KAKPIVKASNQPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHS 119 Query: 57 TDHIEVDG--VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISV 111 + +DG + L A++ R+ +Y+KP G + T SDP GR+TVFD LP + SR I+V Sbjct: 120 GVKVRIDGQIINLSHAQKEICRVLMYYKPEGELCTRSDPKGRATVFDRLPRLTGSRWIAV 179 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDINT GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ Sbjct: 180 GRLDINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGP 239 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 240 ANFKEIKFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|190150487|ref|YP_001969012.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|189915618|gb|ACE61870.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 7 str. AP76] Length = 349 Score = 160 bits (404), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 95/225 (42%), Positives = 136/225 (60%), Gaps = 8/225 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG-- 64 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 64 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 123 Query: 65 ---VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEG 120 +P++K E R+ +Y+KP G + T SDP+GR+TVFD LP + +R I+VGRLDINT G Sbjct: 124 ISLIPVQK-EICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGARWIAVGRLDINTSG 182 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL T DG LA L PS + R Y VR G +D+ L L+KG+ ++ Q+ Sbjct: 183 LLLFTTDGELANRLMHPSREVEREYSVRVFGNIDEAMLQRLRKGVQLEDGPANFKQIKTV 242 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V L +G+NRE+++++E +V+RLIRI YG +L Sbjct: 243 GGTGLNQWFDVTLTKGRNREVRRLWESQGVEVSRLIRIRYGNIKL 287 >gi|145637046|ref|ZP_01792709.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae PittHH] gi|145269700|gb|EDK09640.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae PittHH] Length = 357 Score = 160 bits (404), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 101/234 (43%), Positives = 139/234 (59%), Gaps = 10/234 (4%) Query: 2 KDKNIVQENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMS 56 K K IV+ + P +++ KV+ARAG SRRE+E MIA RV V G + ++V S Sbjct: 60 KAKPIVKASNQPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHS 119 Query: 57 TDHIEVDG--VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISV 111 + +DG + L A++ R+ +Y+KP G + T SDP GR+TVFD LP + SR I+V Sbjct: 120 GVKVRIDGQIINLSHAQKEICRVLMYYKPEGELCTRSDPKGRATVFDRLPRLTGSRWIAV 179 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDINT GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ Sbjct: 180 GRLDINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGP 239 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 240 ANFKEIKFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|167855222|ref|ZP_02477992.1| ribosomal large subunit pseudouridine synthase B [Haemophilus parasuis 29755] gi|167853675|gb|EDS24919.1| ribosomal large subunit pseudouridine synthase B [Haemophilus parasuis 29755] Length = 339 Score = 160 bits (404), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 97/232 (41%), Positives = 139/232 (59%), Gaps = 8/232 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDH 59 ++ +N + +++ K++ARAG SRRE+E +IA RV V+G I V V S+ Sbjct: 48 IETENKANDKIVGEKLQKILARAGQGSRREIEEVIAAGRVSVDGKIATLGDRVQVSSSTK 107 Query: 60 IEVDG-----VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGR 113 I +DG +P +K E R+ +Y+KP G + T SDP+GR+TVFD LP + SR I+VGR Sbjct: 108 IRIDGNLVNLIPTQK-EICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAVGR 166 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LDINT GLLL T DG LA L PS + R Y VR G+V+ + L+KG+ ++ Sbjct: 167 LDINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGEVNDAMIQRLRKGVQLEDGPAN 226 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 Q+ G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 227 FKQIKAVGGTGINQWFDVTLTEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 278 >gi|88798249|ref|ZP_01113835.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Reinekea sp. MED297] gi|88779025|gb|EAR10214.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Reinekea sp. MED297] Length = 282 Score = 160 bits (404), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 98/234 (41%), Positives = 143/234 (61%), Gaps = 5/234 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR- 68 + +R+ KV+A+AG SRRE+ER I RV+VNG + + V D + +DG + Sbjct: 2 TMSEERIQKVLAKAGQGSRREMERAIESGRVQVNGEVA-KLGDKVSEKDELRLDGKKISV 60 Query: 69 KAERTR-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTN 126 +AE+ R + +Y+KP G + T DP+GR TVFD LP I R I+VGRLDINT GLLL TN Sbjct: 61 EAEKVRRVLIYNKPEGEICTRKDPEGRHTVFDRLPRIPGERWIAVGRLDINTSGLLLFTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS Q R Y VR G V Q+ ++ + +G+ ++ V KGSN Sbjct: 121 DGELANRLMHPSHQIEREYAVRVLGDVQQENIDAMCEGVELEDGPAKFTDVQFFDGKGSN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 W V + EG+NRE+++++E ++V+RL R+ YG L + + AG+ +E++KK Sbjct: 181 LWFHVVIMEGRNREVRRLWESQGFQVSRLKRVRYGSVFLDSDVRAGTWQEMAKK 234 >gi|119898401|ref|YP_933614.1| pseudouridylate synthase [Azoarcus sp. BH72] gi|119670814|emb|CAL94727.1| pseudouridylate synthase [Azoarcus sp. BH72] Length = 356 Score = 159 bits (403), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 89/221 (40%), Positives = 135/221 (61%), Gaps = 5/221 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKA 70 P+R+ KV+A+AG+ASRRE+E ++ R+ VNG L + D ++++G +PLR + Sbjct: 90 PERLQKVLAQAGVASRREIEELVVAGRISVNG-LPASLGQKIGPGDRVKLNGKLIPLRFS 148 Query: 71 ERT-RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 +R+ R+ +YHKP G + + DP+GR TVF+ LP + R ++VGRLD NT GLLL TNDG Sbjct: 149 QRSPRVLVYHKPEGEIVSRDDPEGRPTVFERLPLLRKGRWLAVGRLDFNTSGLLLFTNDG 208 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + R Y VR GQ+ +++ L GI ++ + + +G N W Sbjct: 209 DLANRLMHPRYELTREYAVRLLGQLTEEQGQSLVDGIQLEDGPARFLSLVDAGGEGVNHW 268 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V L EG+NRE++++FE V+RL+R+ YGP +L L Sbjct: 269 YRVTLAEGRNREVRRMFEAVGLTVSRLMRVRYGPVELPARL 309 >gi|329124070|ref|ZP_08252617.1| ribosomal large subunit pseudouridine synthase B [Haemophilus aegyptius ATCC 11116] gi|327467495|gb|EGF12993.1| ribosomal large subunit pseudouridine synthase B [Haemophilus aegyptius ATCC 11116] Length = 357 Score = 159 bits (403), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 97/224 (43%), Positives = 133/224 (59%), Gaps = 6/224 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG-- 64 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QSKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 65 VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGL 121 + L A++ R+ +Y+KP G + T SDP GR+TVFD LP + SR I+VGRLDINT GL Sbjct: 130 INLSHAQKEICRVLMYYKPEGELCTRSDPKGRATVFDRLPHLTGSRWIAVGRLDINTSGL 189 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 190 LLFTTDGELANRLMHPSHEVEREYSVRVFGQVDDAMLARLRKGVQLEDGLANFKEIKFTG 249 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 250 GVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|16273119|ref|NP_439355.1| hypothetical protein HI1199 [Haemophilus influenzae Rd KW20] gi|260581101|ref|ZP_05848922.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae RdAW] gi|1175679|sp|P45104|RLUB_HAEIN RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|1574128|gb|AAC22853.1| conserved hypothetical protein [Haemophilus influenzae Rd KW20] gi|260092230|gb|EEW76172.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae RdAW] Length = 357 Score = 159 bits (403), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 99/234 (42%), Positives = 138/234 (58%), Gaps = 10/234 (4%) Query: 2 KDKNIVQENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMS 56 K K +V+ + P +++ KV+ARAG SRRE+E MIA RV V G + ++V S Sbjct: 60 KAKPVVRASNQPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHS 119 Query: 57 TDHIEVDG----VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISV 111 + +DG + + E R+ +Y+KP G + T SDP+GR+TVFD LP + SR I+V Sbjct: 120 GVKVRIDGQIINLSHTQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAV 179 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDINT GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ Sbjct: 180 GRLDINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGL 239 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 240 ANFKEIKFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|254361758|ref|ZP_04977893.1| pseudouridylate synthase [Mannheimia haemolytica PHL213] gi|153093293|gb|EDN74289.1| pseudouridylate synthase [Mannheimia haemolytica PHL213] Length = 355 Score = 159 bits (403), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 96/219 (43%), Positives = 134/219 (61%), Gaps = 8/219 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG-----VPL 67 +++ K++ARAG SRRE+E +IA RV V+G + V V S+ I +DG +P Sbjct: 78 EKLQKILARAGQGSRRELEEIIAAGRVSVDGKMATLGDRVQVSSSTKIRIDGHLVNLMPA 137 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTN 126 +K E R+ +Y+KP G + T SDP+GRSTVFD LP + +R I+VGRLDINT GLLL T Sbjct: 138 QK-EICRVLMYYKPEGELCTRSDPEGRSTVFDRLPRLSGARWIAVGRLDINTSGLLLFTT 196 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G +D L L+KG+ ++ Q+ + G N Sbjct: 197 DGELANRLMHPSREVEREYSVRVFGNIDDAMLQRLRKGVQLEDGPANFKQIKVVGGTGLN 256 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 257 QWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKL 295 >gi|148826192|ref|YP_001290945.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae PittEE] gi|148716352|gb|ABQ98562.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae PittEE] Length = 357 Score = 159 bits (403), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 100/234 (42%), Positives = 139/234 (59%), Gaps = 10/234 (4%) Query: 2 KDKNIVQENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMS 56 K K IV+ + P +++ KV+ARAG SRRE+E MIA RV V G + ++V S Sbjct: 60 KAKPIVKASNQPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHS 119 Query: 57 TDHIEVDG--VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISV 111 + +DG + L A++ R+ +Y+KP G + T SDP GR+TVFD LP + SR I+V Sbjct: 120 GVKVRIDGQIINLSHAQKEICRVLMYYKPEGELCTRSDPKGRATVFDRLPRLTGSRWIAV 179 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDINT GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ Sbjct: 180 GRLDINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGP 239 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ G N W + L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 240 ANFKEIKFTGGVGINQWYDITLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|120554089|ref|YP_958440.1| RNA-binding S4 domain-containing protein [Marinobacter aquaeolei VT8] gi|120323938|gb|ABM18253.1| ribosomal large subunit pseudouridine synthase B [Marinobacter aquaeolei VT8] Length = 328 Score = 159 bits (403), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 94/222 (42%), Positives = 134/222 (60%), Gaps = 6/222 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+RV K++ARAG+ SRREVE I R+ VNG+ ++ ++D E+DG L + Sbjct: 21 PERVQKLLARAGVGSRREVEGWIEAGRLLVNGVPVQ-PGQKASTSDRFELDGKLLDVSSA 79 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 R+ +Y+KP G VT+ DP+GR TVFD LP + R IS+GRLDINT GL+L T D Sbjct: 80 AEVVRRVLIYNKPEGEVTSRKDPEGRPTVFDRLPRLKDQRWISIGRLDINTTGLVLFTTD 139 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS+Q R Y VR G+VD + LK+G++++ ++ KG N Sbjct: 140 GELANRLMHPSSQIDREYAVRVFGEVDDAMIERLKEGVLLEDGMAKFTDISPAGGKGMNQ 199 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 W V L EG+NRE+++++E +V+RL R+ YGP L + L Sbjct: 200 WFHVTLLEGRNREVRRLWESQGVRVSRLKRVRYGPIFLPSRL 241 >gi|309973338|gb|ADO96539.1| 23S rRNA pseudouridylate synthase RluB [Haemophilus influenzae R2846] Length = 357 Score = 159 bits (403), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 101/234 (43%), Positives = 139/234 (59%), Gaps = 10/234 (4%) Query: 2 KDKNIVQENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMS 56 K K IV+ + P +++ KV+ARAG SRRE+E MIA RV V G I ++V S Sbjct: 60 KAKPIVKASNQPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHS 119 Query: 57 TDHIEVDG--VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISV 111 + +DG + L A++ R+ +Y+KP G + T SDP GR+TVFD LP + SR I+V Sbjct: 120 GVKVRIDGQIINLSHAQKEICRVLMYYKPEGELCTRSDPKGRATVFDRLPRLTGSRWIAV 179 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDINT GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ Sbjct: 180 GRLDINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGP 239 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ G N W + L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 240 ANFKEIKFTGGVGINQWYDITLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|315634119|ref|ZP_07889408.1| ribosomal large subunit pseudouridine synthase B [Aggregatibacter segnis ATCC 33393] gi|315477369|gb|EFU68112.1| ribosomal large subunit pseudouridine synthase B [Aggregatibacter segnis ATCC 33393] Length = 328 Score = 159 bits (402), Expect = 6e-37, Method: Compositional matrix adjust. Identities = 95/218 (43%), Positives = 135/218 (61%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +IA+ RV V+G + +NV S + +DG + L +A Sbjct: 47 EKLQKVLARAGQGSRREIESIIAENRVSVDGKIATLGDRINVNSGVKVRIDGNLINLTQA 106 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 ++ R+ +Y+KP G + T DP+GR+TVFD LP + +R I+VGRLDINT GLLL T D Sbjct: 107 QKEVCRVLMYYKPEGELCTRHDPEGRATVFDRLPRLTGARWIAVGRLDINTSGLLLFTTD 166 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G VD LN LKKG+ ++ ++ G N Sbjct: 167 GELANRLMHPSREVEREYSVRVFGAVDDAMLNRLKKGVQLEDGPANFKEIKFVGGVGMNQ 226 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 227 WFDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 264 >gi|91776224|ref|YP_545980.1| ribosomal large subunit pseudouridine synthase B [Methylobacillus flagellatus KT] gi|91710211|gb|ABE50139.1| ribosomal large subunit pseudouridine synthase B [Methylobacillus flagellatus KT] Length = 383 Score = 159 bits (402), Expect = 6e-37, Method: Compositional matrix adjust. Identities = 88/221 (39%), Positives = 132/221 (59%), Gaps = 5/221 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---K 69 PQR+ K++A AG SRRE+E +IA R+ +NG E A +V+ +D + +D PLR + Sbjct: 28 PQRLHKLLALAGFGSRREMETLIASGRITINGKTAEVGA-SVVPSDVVRLDSRPLRLPFE 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 E ++ LYHKP G + +H DP+ R++VFD LP I + + I++GRLD+NT GLL+ T G Sbjct: 87 PELPQVLLYHKPEGEIVSHDDPENRASVFDKLPRIRNGKWIAIGRLDMNTSGLLIFTTSG 146 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA P + R Y VR G++ + ++ L GI + + +G+N W Sbjct: 147 ELANRFMHPRYEVEREYAVRIFGELTEGEMAQLTYGIELDDGPANFDSIRPQGGEGANHW 206 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V LREG+NRE++++FE F V+RLIR+ +GP L L Sbjct: 207 YEVILREGRNREVRRLFEAFQKPVSRLIRVRFGPVNLPPRL 247 >gi|219847277|ref|YP_002461710.1| pseudouridine synthase [Chloroflexus aggregans DSM 9485] gi|219541536|gb|ACL23274.1| pseudouridine synthase [Chloroflexus aggregans DSM 9485] Length = 567 Score = 159 bits (401), Expect = 7e-37, Method: Compositional matrix adjust. Identities = 93/220 (42%), Positives = 132/220 (60%), Gaps = 4/220 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLR- 68 +P+R+ KV+A AGIASRR+ E +IA RV VNG ++ V + D + VDG PLR Sbjct: 1 MSPERLQKVLASAGIASRRDCEELIAAGRVTVNGRVVTVPGTRVDLEHDEVLVDGQPLRM 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 A+RT + + HKP G+V+T DP GR TV D L + +RV VGRLD+++EGL+LLT+DG Sbjct: 61 PAKRTYI-MLHKPAGVVSTAEDPHGRPTVVD-LVDVPARVFPVGRLDLDSEGLILLTDDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + + YRV + D L + G++++G V L W Sbjct: 119 ELAYALTHPSFEVEKEYRVLLDRALTPDALRSWRNGVLLEGEMTAPAWVELLETTPEGVW 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 V + LREG+ R+I+ V + ++V RL+R+ GP QLG L Sbjct: 179 VRIVLREGRKRQIRAVAKLLGYEVRRLVRVREGPLQLGDL 218 >gi|229029250|ref|ZP_04185341.1| Pseudouridine synthase [Bacillus cereus AH1271] gi|229172210|ref|ZP_04299774.1| Pseudouridine synthase [Bacillus cereus MM3] gi|228611198|gb|EEK68456.1| Pseudouridine synthase [Bacillus cereus MM3] gi|228732063|gb|EEL82954.1| Pseudouridine synthase [Bacillus cereus AH1271] Length = 242 Score = 159 bits (401), Expect = 9e-37, Method: Compositional matrix adjust. Identities = 85/226 (37%), Positives = 136/226 (60%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ SD GRS V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLY-KPTGVISSVSDDKGRSVVTDFFPEIRQRLFPIGRLDYDTSGVLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ QV + + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVALEDGKTAPAQVKIISWDKRKETAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE + KV +L R Y ++G+L G RE+S Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELS 226 >gi|270262113|ref|ZP_06190385.1| ribosomal large subunit pseudouridine synthase B [Serratia odorifera 4Rx13] gi|270043989|gb|EFA17081.1| ribosomal large subunit pseudouridine synthase B [Serratia odorifera 4Rx13] Length = 298 Score = 158 bits (400), Expect = 9e-37, Method: Compositional matrix adjust. Identities = 92/218 (42%), Positives = 135/218 (61%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V V ++ I +DG + ++++ Sbjct: 3 EKLQKVLARAGHGSRREIETIIEAGRVSVDGKVAKLGDRVEVTASMKIRLDGHVLSIKES 62 Query: 71 ERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E T R+ Y+KP G + T SDP+GR TVFD LP + SR ++VGRLD+NT GLLL T D Sbjct: 63 EETVCRVLAYYKPEGELCTRSDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQ+D +K+ L KG+ ++ +T +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQIDDEKVKQLSKGVQLEDGPAAFRTITFQGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIDL 220 >gi|261494040|ref|ZP_05990543.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. BOVINE] gi|261496199|ref|ZP_05992605.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. OVINE] gi|261308151|gb|EEY09448.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. OVINE] gi|261310206|gb|EEY11406.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. BOVINE] Length = 355 Score = 158 bits (400), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 95/219 (43%), Positives = 134/219 (61%), Gaps = 8/219 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG-----VPL 67 +++ K++ARAG SRRE+E +IA RV V+G + V V S+ I +DG +P Sbjct: 78 EKLQKILARAGQGSRRELEEIIAAGRVSVDGKMATLGDRVQVSSSTKIRIDGHLVNLMPA 137 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTN 126 +K E R+ +Y+KP G + T SDP+GR+TVFD LP + +R I+VGRLDINT GLLL T Sbjct: 138 QK-EICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLSGARWIAVGRLDINTSGLLLFTT 196 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G +D L L+KG+ ++ Q+ + G N Sbjct: 197 DGELANRLMHPSREVEREYSVRVFGNIDDAMLQRLRKGVQLEDGPANFKQIKVVGGTGLN 256 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 257 QWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKL 295 >gi|253996068|ref|YP_003048132.1| pseudouridine synthase [Methylotenera mobilis JLW8] gi|253982747|gb|ACT47605.1| pseudouridine synthase [Methylotenera mobilis JLW8] Length = 374 Score = 158 bits (400), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 89/232 (38%), Positives = 135/232 (58%), Gaps = 17/232 (7%) Query: 10 NFTP------------QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 NFTP QR+ K++A AG+ SRR++E +IA RV VNG + E A V Sbjct: 21 NFTPLAVDPDAPAAPTQRLHKLLALAGLGSRRDMEELIASGRVTVNGKVAEVGA-GVTEH 79 Query: 58 DHIEVDGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGR 113 D + +D PLR + E ++ +YHKP G + + DP+GR++VFD LP + + I++GR Sbjct: 80 DVVRLDSRPLRLPFEPELPQVLIYHKPEGEIVSQDDPEGRASVFDKLPKVKHGKWIAIGR 139 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LD+NT GLL+ T G LA P + R Y VR G++ + ++ LK+GI ++ Sbjct: 140 LDMNTSGLLIFTTSGELANRFMHPRYEVEREYAVRIFGELTEGQIAQLKEGIELEDGPAN 199 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G+N W V LREG+NRE++++FE F V+RL+R+ +GP L Sbjct: 200 FDSIIPQGGEGANHWYQVILREGRNREVRRLFEAFQLPVSRLMRVRFGPVNL 251 >gi|304413779|ref|ZP_07395223.1| 23S rRNA pseudouridylate synthase [Candidatus Regiella insecticola LSR1] gi|304283870|gb|EFL92264.1| 23S rRNA pseudouridylate synthase [Candidatus Regiella insecticola LSR1] Length = 291 Score = 158 bits (400), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 94/218 (43%), Positives = 130/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRR +E MI Q+R+ ++G I V+V + I +DG L E Sbjct: 3 EKLQKVLARAGHGSRRAIETMIMQRRISLDGKIATLGDRVDVRQSTKIRLDGRVLAITES 62 Query: 73 ----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP GR TVFD LP + SR ++VGRLD+NT GLLL T D Sbjct: 63 NAAICRVLAYYKPEGELCTLHDPQGRPTVFDRLPKLRTSRWVAVGRLDVNTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P + R Y VR GQ+D+DK+ L KGI ++ +++ +G N Sbjct: 123 GELANRLMHPRHEVEREYAVRVFGQIDEDKIKQLNKGIQLEDGPASFHKISFQGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E + KVNRLIRI YG L Sbjct: 183 WYHVTLTEGRNREVRRLWEAVDVKVNRLIRIRYGDINL 220 >gi|15602526|ref|NP_245598.1| hypothetical protein PM0661 [Pasteurella multocida subsp. multocida str. Pm70] gi|34098697|sp|Q9CMY9|RLUB_PASMU RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|12720938|gb|AAK02745.1| unknown [Pasteurella multocida subsp. multocida str. Pm70] Length = 345 Score = 158 bits (400), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 107/255 (41%), Positives = 149/255 (58%), Gaps = 12/255 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E MIA+ RV V+G I ++V + I +DG + L A Sbjct: 64 EKLQKVLARAGQGSRREIEAMIAENRVSVDGKIATLGDRIDVHAGVKIRIDGHLINLLHA 123 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 ++ R+ +Y+KP G + T DP+GR TVFD LP + SR I+VGRLDINT GLLL T D Sbjct: 124 QKEVCRVLMYYKPEGELCTRHDPEGRPTVFDRLPRLTGSRWIAVGRLDINTSGLLLFTTD 183 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD+ L+ LKKG+ ++ ++ G N Sbjct: 184 GELANRLMHPSREVEREYSVRVFGQVDEAMLHRLKKGVQLEDGPANFKEIKFAGGVGMNQ 243 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV---SKKILRE 243 W V L EG+NRE+++++E +V+RLIR YG L +L G E+ + LRE Sbjct: 244 WFDVTLMEGRNREVRRLWESQGVQVSRLIRTRYGNISLMKSLPRGGWEEMDLTNVNYLRE 303 Query: 244 QLGPHLLEEAQVNLD 258 +G L E + LD Sbjct: 304 LVG--LPAEVETKLD 316 >gi|242239360|ref|YP_002987541.1| 23S rRNA pseudouridylate synthase B [Dickeya dadantii Ech703] gi|242131417|gb|ACS85719.1| pseudouridine synthase [Dickeya dadantii Ech703] Length = 289 Score = 158 bits (400), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 96/218 (44%), Positives = 132/218 (60%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG--VPLRKA 70 +++ KV+AR+G SRRE+E +I Q RV V+G I V+V I +DG V +R+ Sbjct: 3 EKLQKVLARSGHGSRREIESIIQQGRVSVDGKIATLGDRVDVTRATKIRIDGHVVTVRET 62 Query: 71 ERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E T R+ +Y+KP G + T SDP+GR TVFD LP I +R I+VGRLD+NT GLLL T D Sbjct: 63 EETVCRVLMYYKPEGELCTRSDPEGRPTVFDRLPRIQGARWIAVGRLDVNTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V DK+ L KG+ + + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGEVGDDKIRQLSKGVQLDDGPAAFRSIRHQGGEGLNQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG QL Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIQL 220 >gi|162419712|ref|YP_001606744.1| 23S rRNA pseudouridylate synthase B [Yersinia pestis Angola] gi|162352527|gb|ABX86475.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis Angola] Length = 344 Score = 158 bits (400), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 89/218 (40%), Positives = 134/218 (61%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ K++ARAG SRRE+E +I Q RV V+G + + V V + I +DG + ++++ Sbjct: 29 EKLQKILARAGHGSRREIEAIIQQGRVSVDGKVSKLGDRVEVTQSTKIRLDGHLLSIKES 88 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T +DP+GR TVFD LP + SR ++VGRLD+NT GLLL T D Sbjct: 89 EENVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTD 148 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQ+D DK+ L +G+ ++ ++ +G N Sbjct: 149 GELANCLMHPSREVEREYAVRVFGQIDDDKIKQLSRGVQLEDGPAAFRTISYQGGEGINQ 208 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 209 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINL 246 >gi|254515164|ref|ZP_05127225.1| ribosomal large subunit pseudouridine synthase B [gamma proteobacterium NOR5-3] gi|219677407|gb|EED33772.1| ribosomal large subunit pseudouridine synthase B [gamma proteobacterium NOR5-3] Length = 327 Score = 158 bits (400), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 93/213 (43%), Positives = 131/213 (61%), Gaps = 8/213 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAE 71 +++ KV+AR+G+ SRRE+ER I Q RV ++G V++ IEVDG PL E Sbjct: 20 EKLQKVLARSGLGSRREMERWIEQDRVTIDGKPAS-LGDRVVAGQRIEVDGRPLAAGDGE 78 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGL 130 +TR LYHKP G V + DP+GR TVF+ LP + S R IS+GRLD NT GLLL T DG L Sbjct: 79 KTRCLLYHKPTGEVCSRKDPEGRRTVFERLPKVKSGRWISIGRLDYNTSGLLLFTTDGEL 138 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GIC-YGDMQVTLDTQKGSNAW 188 A L PS R Y VR G V ++ ++ + +G++++ G+ + D+Q G NAW Sbjct: 139 ANALMHPSANIEREYMVRVMGDVTEENISAMLEGVMLEDGVARFTDIQSG--GGDGINAW 196 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V L EG+NRE+++++E V+RL R+ YG Sbjct: 197 YYVVLMEGRNREVRRLWESQGLTVSRLKRVRYG 229 >gi|189425784|ref|YP_001952961.1| pseudouridine synthase [Geobacter lovleyi SZ] gi|189422043|gb|ACD96441.1| pseudouridine synthase [Geobacter lovleyi SZ] Length = 274 Score = 158 bits (400), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 96/254 (37%), Positives = 140/254 (55%), Gaps = 1/254 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K+I+ AGI SRR E MI RV VNG ++ E + + D I +DG P++ AE Sbjct: 3 ERLQKIISAAGITSRRAAEEMILAGRVTVNGQVVTELGSKADPAKDLIALDGQPVKPAET 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L HKP G VT+ DP GR V + + + R+ VGRLD N+EGLLLLTNDG A Sbjct: 63 FYYVLLHKPAGYVTSLKDPQGRQLVTELVKDVGERLFPVGRLDYNSEGLLLLTNDGAWAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P Q + Y VR G++D ++ L G+ ++ G V L SN W++V Sbjct: 123 RLMHPRHQVDKEYHVRVRGKIDPQQIKKLADGVELEDGPTGATTVRLLKNDQSNDWLSVT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 +REG+NR+++++ V RL RI YG LG L G R +S++ + P +++ Sbjct: 183 IREGRNRQVRRMCAAVGLFVVRLRRIRYGNLTLGGLQPGEYRLLSREEAQALDAPPPVKQ 242 Query: 253 AQVNLDAPIYSSET 266 + + AP+ SS T Sbjct: 243 REQRMAAPVKSSTT 256 >gi|52425093|ref|YP_088230.1| RsuA protein [Mannheimia succiniciproducens MBEL55E] gi|52307145|gb|AAU37645.1| RsuA protein [Mannheimia succiniciproducens MBEL55E] Length = 402 Score = 158 bits (399), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 110/255 (43%), Positives = 146/255 (57%), Gaps = 12/255 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I Q RV V+G I V V I +DG V L A Sbjct: 120 EKLQKVLARAGQGSRREIESIIEQGRVSVDGKIATLGDRVTVHDGLKIRIDGHLVNLTAA 179 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 +R R+ +Y+KP G + T DP+GR+TVFD LP + SR I+VGRLDINT GLLL T D Sbjct: 180 QREVCRVLMYYKPEGELCTRHDPEGRATVFDRLPRLTGSRWIAVGRLDINTSGLLLFTTD 239 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD ++ L+KG+ ++ + G N Sbjct: 240 GELANRLMHPSQEVEREYSVRVFGQVDDAMIHRLRKGVQLEDGPANFKAIKAVGGTGLNQ 299 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILRE 243 W V L EG+NRE+++++E +V+RLIRI YG QL TL G E+ LRE Sbjct: 300 WFDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIQLMKTLPRGGWEEMDLAKVNYLRE 359 Query: 244 QLGPHLLEEAQVNLD 258 +G L E + LD Sbjct: 360 LVG--LPPETETKLD 372 >gi|307130978|ref|YP_003882994.1| 23S rRNA pseudouridylate synthase [Dickeya dadantii 3937] gi|306528507|gb|ADM98437.1| 23S rRNA pseudouridylate synthase [Dickeya dadantii 3937] Length = 296 Score = 158 bits (399), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 94/218 (43%), Positives = 131/218 (60%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E MI R+ V+G I V V I +DG V +R+ Sbjct: 3 EKLQKVLARAGHGSRREIESMIEAGRISVDGKIATLGDRVEVTRATKIRIDGHVVSVRET 62 Query: 71 ERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 E + R+ +Y+KP G + T SDP+GR TVFD LP I R ++VGRLD+NT GLLL T D Sbjct: 63 EESVCRVLMYYKPEGELCTRSDPEGRPTVFDRLPRIQGYRWVAVGRLDVNTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V DK+ L KG+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGEVGDDKIRQLSKGVQLEDGPAAFRSIRYQGGEGLNQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E + +V+RLIR+ YG QL Sbjct: 183 WYNVTLTEGRNREVRRLWEAVDVQVSRLIRVRYGDIQL 220 >gi|322515424|ref|ZP_08068415.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus ureae ATCC 25976] gi|322118547|gb|EFX90780.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus ureae ATCC 25976] Length = 347 Score = 158 bits (399), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 94/219 (42%), Positives = 133/219 (60%), Gaps = 8/219 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG-----VPL 67 +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG +P Sbjct: 68 EKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNLISLIPA 127 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTN 126 +K E R+ +Y+KP G + T SDP+GR+TVFD LP + +R ++VGRLDINT GLLL T Sbjct: 128 QK-EICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGARWVAVGRLDINTSGLLLFTT 186 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G +D+ L L+KG+ ++ Q+ G N Sbjct: 187 DGELANRLMHPSREVEREYSVRVFGNIDEAMLQRLRKGVQLEDGPANFKQIKTVGGTGLN 246 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 247 QWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKL 285 >gi|326796234|ref|YP_004314054.1| pseudouridine synthase Rsu [Marinomonas mediterranea MMB-1] gi|326546998|gb|ADZ92218.1| pseudouridine synthase Rsu [Marinomonas mediterranea MMB-1] Length = 298 Score = 158 bits (399), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 97/219 (44%), Positives = 130/219 (59%), Gaps = 11/219 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLR-- 68 +++ KV+ARAG+ SRRE+E I + RV VNG L +R + D IE+DG P+ Sbjct: 3 EKLQKVLARAGLGSRREMENRIREGRVVVNGEVATLGDRVGLE----DQIELDGYPVSVS 58 Query: 69 -KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTN 126 + R+ +Y+KP G V T DP+GR TVFD LP + R I+VGRLDINT GLLL T Sbjct: 59 GAGQNRRVIIYNKPEGEVCTRKDPEGRPTVFDRLPKLRGERWIAVGRLDINTSGLLLFTT 118 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PST+ R Y VR GQV + + LKKG+++ V +G N Sbjct: 119 DGELANRLMHPSTEIDREYLVRVMGQVTDEHIATLKKGVLLDDGMASFSDVVDGGGEGIN 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E KVNRL R+ +GP L Sbjct: 179 HWFYVCLMEGRNREVRRLWESQGLKVNRLKRVRFGPVFL 217 >gi|145641201|ref|ZP_01796781.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae R3021] gi|145274038|gb|EDK13904.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 22.4-21] Length = 357 Score = 158 bits (399), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 99/234 (42%), Positives = 139/234 (59%), Gaps = 10/234 (4%) Query: 2 KDKNIVQENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMS 56 K K +V+ + P +++ KV+ARAG SRRE+E MIA RV V G + ++V S Sbjct: 60 KAKPVVRASNQPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHS 119 Query: 57 TDHIEVDG--VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISV 111 + +DG + L A++ R+ +Y+KP G + T SDP+GR+TVFD LP + SR I+V Sbjct: 120 GVKVRIDGQIINLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAV 179 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDINT GLLL T DG LA L PS + R Y VR GQVD L L+ G+ ++ Sbjct: 180 GRLDINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRNGVQLEDGP 239 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 240 ANFKEIKFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 293 >gi|89094110|ref|ZP_01167053.1| ribosomal large subunit pseudouridine synthase B [Oceanospirillum sp. MED92] gi|89081585|gb|EAR60814.1| ribosomal large subunit pseudouridine synthase B [Oceanospirillum sp. MED92] Length = 276 Score = 158 bits (399), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 96/233 (41%), Positives = 143/233 (61%), Gaps = 9/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPL---R 68 +++ KV+AR+G+ SRRE+ER I + RV+VNG + + D +EVDG PL Sbjct: 4 EKLHKVLARSGVGSRREMERWIKEGRVQVNGQVAT-LGDRISEGDQVEVDGRKTPLIFDN 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 +AER R+ +Y+KP+G + T DP+GR TVF +LP + R I++GRLDINT GLLL T D Sbjct: 63 QAER-RVLIYNKPVGEICTRHDPEGRPTVFRHLPPLKEGRWIAIGRLDINTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G VD+ L LK G++++ V +G+N Sbjct: 122 GELANALMHPSAQIDREYAVRVLGDVDEAMLQRLKDGVLLEDGMARFTDVQFFDGEGANK 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 W + EG+NRE+++++E +VNRL R+ +GP L + + +G+ +E++ K Sbjct: 182 WYHCVVMEGRNREVRRLWESQEIQVNRLKRVRFGPLFLPSDVRSGTWKELTVK 234 >gi|326692499|ref|ZP_08229504.1| ribosomal large subunit pseudouridine synthase B [Leuconostoc argentinum KCTC 3773] Length = 249 Score = 158 bits (399), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 90/226 (39%), Positives = 134/226 (59%), Gaps = 2/226 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ KVIA+AG+ASRR E +I Q RV+VNG ++ + VM D ++VDG P+ E+ Sbjct: 6 QRLQKVIAQAGLASRRGAEELITQGRVQVNGETVKTLGIKVMPHDTVQVDGAPIEGREKL 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+VTT+SD GR TV D L + RV VGRLD +T G+LLLTNDG +A Sbjct: 66 VYYLMNKPRGVVTTNSDDKGRQTVLDVLEDVPQRVYPVGRLDYDTTGVLLLTNDGVIANQ 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P ++ +VY + G +KL LK+G+VIQG +V+++ + + V V Sbjct: 126 LMHPKSRVDKVYMAKVEGIATDEKLAPLKRGVVIQGRKTAPARVSVERVDKDKKTSMVRV 185 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+N ++K + + V +L R Y F L L +G R+++ Sbjct: 186 IIHEGRNHQVKNMLQKVGLPVAKLTREQYAFFDLTGLQSGEYRKLT 231 >gi|50121219|ref|YP_050386.1| 23S rRNA pseudouridylate synthase B [Pectobacterium atrosepticum SCRI1043] gi|49611745|emb|CAG75194.1| putative RNA pseudouridylate synthase [Pectobacterium atrosepticum SCRI1043] Length = 294 Score = 158 bits (399), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 94/218 (43%), Positives = 131/218 (60%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G I V V I +DG V +++ Sbjct: 3 EKLQKVLARAGHGSRREIESIIQAGRVSVDGKIATLGDRVEVTKATKIRIDGHVVTVKET 62 Query: 71 ERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E T R+ +Y+KP G + T +DPDGR TVFD LP I SR ++VGRLD+NT GLLL T D Sbjct: 63 EETVCRVLVYYKPEGELCTRNDPDGRPTVFDRLPKIQGSRWVAVGRLDVNTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+VD +K+ L KG+ ++ + +G N Sbjct: 123 GELANRLMHPSHEVEREYAVRVFGEVDDEKIKQLSKGVQLEDGPASFRTICYQGGEGLNQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDITL 220 >gi|293395935|ref|ZP_06640216.1| ribosomal large subunit pseudouridine synthase B [Serratia odorifera DSM 4582] gi|291421433|gb|EFE94681.1| ribosomal large subunit pseudouridine synthase B [Serratia odorifera DSM 4582] Length = 297 Score = 158 bits (399), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 92/218 (42%), Positives = 133/218 (61%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E MI RV V+G + + V V+ I +DG V ++++ Sbjct: 3 EKLQKVLARAGHGSRREIETMIEAGRVSVDGKIAKLGDRVEVVQGMKIRLDGHVVSIKES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T SDP+GR TVFD LP + SR ++VGRLD+NT GLLL T D Sbjct: 63 EEAVCRVLAYYKPEGELCTRSDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQ+D DK+ L +G+ ++ ++ +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQIDDDKVKQLSRGVQLEDGPAAFRTISFQGGEGLNQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINL 220 >gi|149374978|ref|ZP_01892751.1| putative pseudouridine synthase [Marinobacter algicola DG893] gi|149360867|gb|EDM49318.1| putative pseudouridine synthase [Marinobacter algicola DG893] Length = 324 Score = 157 bits (398), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 97/235 (41%), Positives = 139/235 (59%), Gaps = 7/235 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+ K++ARAG+ SRREVE I R+ +NG +E V D I++DG L A Sbjct: 22 PERIQKLLARAGVGSRREVESWIEAGRLSINGKPVE-PGQKVTVNDRIDLDGKRLDIAAG 80 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 R+ +Y+KP G VTT DP+GR TVFD+LP + R I++GRLDINT GL+L T D Sbjct: 81 AEVVRRVLIYNKPEGEVTTRRDPEGRPTVFDSLPRLRDHRWIAIGRLDINTTGLVLFTTD 140 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G+VD+ + L +G+++ ++ KG N Sbjct: 141 GELANRLMHPSRQIDREYAVRVFGEVDEAMIKRLSEGVLLDDGMAKFSDISEAGGKGINQ 200 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 W V L EG+NRE+++++E +V+RL R+ YGP L + L+ G E+ +K + Sbjct: 201 WFHVTLLEGRNREVRRLWESQGVRVSRLKRVRYGPIFLPSRLSVGKWEELDQKAV 255 >gi|78222432|ref|YP_384179.1| ribosomal large subunit pseudouridine synthase B [Geobacter metallireducens GS-15] gi|78193687|gb|ABB31454.1| ribosomal large subunit pseudouridine synthase B [Geobacter metallireducens GS-15] Length = 258 Score = 157 bits (398), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 91/225 (40%), Positives = 135/225 (60%), Gaps = 1/225 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K++++AGIASRRE ERMI RV VNG ++E A S D I VDG P+ E+ Sbjct: 3 ERLQKILSQAGIASRREAERMITDGRVAVNGKPVIELGAKADSSRDAITVDGKPVTVDEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G VTT DP+GR V + L + RV VGRLD NTEGLLLLTNDG A Sbjct: 63 RVYILLNKPVGYVTTLKDPEGRPIVTELLKGLGVRVFPVGRLDYNTEGLLLLTNDGEWAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y VR G V ++++ L++GI ++ +V++ Q +N WV++ Sbjct: 123 RLAHPRHEVDKEYLVRVRGTVAREQITRLEQGIELEDGKAAPARVSVTKQSDNNTWVSIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+ R+++++ E + V RL R+ YG +G L G+ R ++ Sbjct: 183 IHEGRYRQVRRMCEAVSLSVVRLRRVRYGALSMGDLKIGAYRHLT 227 >gi|261867923|ref|YP_003255845.1| ribosomal large subunit pseudouridine synthase B [Aggregatibacter actinomycetemcomitans D11S-1] gi|261413255|gb|ACX82626.1| ribosomal large subunit pseudouridine synthase B [Aggregatibacter actinomycetemcomitans D11S-1] Length = 328 Score = 157 bits (398), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 107/256 (41%), Positives = 152/256 (59%), Gaps = 12/256 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +IA+ RV V+G I +NV + + +DG + L +A Sbjct: 41 EKLQKVLARAGQGSRREIEAIIAENRVSVDGKIATLGDRINVYAGVKLRIDGHLINLTQA 100 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 ++ R+ +Y+K G + T DP+GR+TVFD LP + +R I+VGRLDINT GLLL T D Sbjct: 101 QKEVCRVVMYYKAEGELCTRHDPEGRATVFDRLPRLTGARWIAVGRLDINTSGLLLFTTD 160 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD LN LKKG+ ++ ++ + G N Sbjct: 161 GELANRLMHPSREVEREYSVRVFGQVDDAMLNRLKKGVQLEDGPANFKEIKVVGGVGMNQ 220 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILRE 243 W V L EG+NRE+++++E +V+RLIRI YG +L TL G +E+ LRE Sbjct: 221 WFDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKTLPRGGWQEMELADVNYLRE 280 Query: 244 QLGPHLLEEAQVNLDA 259 +G L E + L A Sbjct: 281 LVG--LPPETETKLGA 294 >gi|320540531|ref|ZP_08040181.1| putative 23S rRNA pseudouridylate synthase [Serratia symbiotica str. Tucson] gi|320029462|gb|EFW11491.1| putative 23S rRNA pseudouridylate synthase [Serratia symbiotica str. Tucson] Length = 299 Score = 157 bits (398), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 93/218 (42%), Positives = 131/218 (60%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E MI RV V+G + + V V I +DG V ++++ Sbjct: 3 EKLQKVLARAGHGSRREIEAMIDAGRVSVDGKIAKLGDRVEVNPAMKIRMDGHVVSVKES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + THSDP+GR TVFD LP + SR ++VGRLD+NT GLLL T D Sbjct: 63 EEAVCRVLAYYKPEGELCTHSDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P+ + R Y VR GQ D D + LKKG+ ++ + +G N Sbjct: 123 GELANRLMHPNREVEREYAVRVFGQTDDDSVKQLKKGVQLEDGPAAFRTIDFQGGEGLNQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIAL 220 >gi|229058206|ref|ZP_04196594.1| Pseudouridine synthase [Bacillus cereus AH603] gi|228720070|gb|EEL71654.1| Pseudouridine synthase [Bacillus cereus AH603] Length = 242 Score = 157 bits (397), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 84/226 (37%), Positives = 136/226 (60%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ SD GR+ V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLY-KPTGVISSVSDDKGRNVVTDFFPEIRQRLFPIGRLDYDTSGVLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + DK+ +L++G+ ++ QV + + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGDKIRMLERGVALEDGKTAPAQVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVMKLKRERYAFLEVGSLRPGDARELT 226 >gi|157370902|ref|YP_001478891.1| 23S rRNA pseudouridylate synthase B [Serratia proteamaculans 568] gi|157322666|gb|ABV41763.1| pseudouridine synthase [Serratia proteamaculans 568] Length = 299 Score = 157 bits (397), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 134/218 (61%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V V ++ I +DG V ++++ Sbjct: 3 EKLQKVLARAGHGSRREIETIIEAGRVSVDGKIAKLGDRVEVTASMKIRLDGHVVSIKES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T SDP+GR TVFD LP + SR ++VGRLD+NT GLLL T D Sbjct: 63 EEEVCRVLAYYKPEGELCTRSDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQ+D +K+ L KG+ ++ ++ +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSKGVQLEDGPAAFRTISFQGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIDL 220 >gi|52841677|ref|YP_095476.1| pseudouridine synthase [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] gi|52628788|gb|AAU27529.1| pseudouridine synthase [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] Length = 248 Score = 157 bits (397), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 95/241 (39%), Positives = 141/241 (58%), Gaps = 7/241 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----P 66 + +R+ K++++AG+ SRRE+ER I V+VNG + + +D I V G P Sbjct: 1 MSSERLQKILSQAGLGSRREMERWIDNGWVQVNGKP-AKLGDSAGPSDKISVKGKLIPNP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 L+ + R+ LYHKP+G V++ DP TVFDNLP + R + VGRLD+NT GLL+ T Sbjct: 60 LKSKQNIRVLLYHKPVGEVSSRHDPKFEKTVFDNLPHLRQGRWVQVGRLDLNTSGLLIFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N+G LA L P R Y VR HGQV Q+ LN L KG+++ ++ +G+ Sbjct: 120 NNGELANQLMHPKYGLEREYAVRVHGQVSQESLNNLLKGVMLDDGLAKFTKIQFRGGEGT 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQ 244 N+W V L EG+NRE+++++E +V+RLIRI YG + L+ G E++ K + E Sbjct: 180 NSWYHVTLNEGRNREVRRLWESQGVEVSRLIRIRYGMLTMPRFLSRGQFYELTPKEVTEF 239 Query: 245 L 245 L Sbjct: 240 L 240 >gi|292493543|ref|YP_003528982.1| RNA-binding S4 domain protein [Nitrosococcus halophilus Nc4] gi|291582138|gb|ADE16595.1| RNA-binding S4 domain protein [Nitrosococcus halophilus Nc4] Length = 266 Score = 157 bits (397), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 92/217 (42%), Positives = 131/217 (60%), Gaps = 6/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----K 69 +R+ K++AR G+ SRRE+E I RV+VNG+ + V D + +DG P+ + Sbjct: 3 ERLQKILARGGLGSRREIEAWIKAGRVRVNGVPAQ-LGDKVSVKDRVTIDGRPISPKRLQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDG 128 +++ +YHKP G V + DP+GR VF +LP R ISVGRLDINT GLLLLT DG Sbjct: 62 PPSSQVIIYHKPAGEVCSRKDPEGRPNVFQSLPRPQQGRWISVGRLDINTSGLLLLTTDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PSTQ R Y VR G V +D + L+ G+ ++ Q+ +G+N W Sbjct: 122 ELANRLMHPSTQVEREYAVRVLGTVAEDVIERLQGGVTLEDGLARFEQILDAGGEGANHW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V LREG+NRE+++++E +V+RLIRI +GP +L Sbjct: 182 YHVILREGRNREVRRLWESQGVRVSRLIRIRFGPIRL 218 >gi|22125944|ref|NP_669367.1| 23S rRNA pseudouridylate synthase B [Yersinia pestis KIM 10] gi|45441810|ref|NP_993349.1| 23S rRNA pseudouridylate synthase B [Yersinia pestis biovar Microtus str. 91001] gi|108807566|ref|YP_651482.1| 23S rRNA pseudouridylate synthase B [Yersinia pestis Antiqua] gi|108811842|ref|YP_647609.1| 23S rRNA pseudouridylate synthase B [Yersinia pestis Nepal516] gi|145598219|ref|YP_001162295.1| 23S rRNA pseudouridylate synthase B [Yersinia pestis Pestoides F] gi|165927423|ref|ZP_02223255.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Orientalis str. F1991016] gi|165938234|ref|ZP_02226793.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Orientalis str. IP275] gi|166010649|ref|ZP_02231547.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Antiqua str. E1979001] gi|166210657|ref|ZP_02236692.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Antiqua str. B42003004] gi|167400806|ref|ZP_02306312.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167420205|ref|ZP_02311958.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167424996|ref|ZP_02316749.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Mediaevalis str. K1973002] gi|167470517|ref|ZP_02335221.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis FV-1] gi|218929309|ref|YP_002347184.1| 23S rRNA pseudouridylate synthase B [Yersinia pestis CO92] gi|270490618|ref|ZP_06207692.1| pseudouridylate synthase [Yersinia pestis KIM D27] gi|294503749|ref|YP_003567811.1| hypothetical protein YPZ3_1639 [Yersinia pestis Z176003] gi|21958885|gb|AAM85618.1|AE013808_1 hypothetical protein y2054 [Yersinia pestis KIM 10] gi|45436672|gb|AAS62226.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Yersinia pestis biovar Microtus str. 91001] gi|108775490|gb|ABG18009.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis Nepal516] gi|108779479|gb|ABG13537.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis Antiqua] gi|145209915|gb|ABP39322.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis Pestoides F] gi|165913895|gb|EDR32513.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Orientalis str. IP275] gi|165920689|gb|EDR37937.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Orientalis str. F1991016] gi|165990351|gb|EDR42652.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Antiqua str. E1979001] gi|166207837|gb|EDR52317.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Antiqua str. B42003004] gi|166961900|gb|EDR57921.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167049659|gb|EDR61067.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167056183|gb|EDR65961.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Mediaevalis str. K1973002] gi|262362131|gb|ACY58852.1| hypothetical protein YPD4_1945 [Yersinia pestis D106004] gi|270339122|gb|EFA49899.1| pseudouridylate synthase [Yersinia pestis KIM D27] gi|294354208|gb|ADE64549.1| hypothetical protein YPZ3_1639 [Yersinia pestis Z176003] Length = 344 Score = 157 bits (397), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 89/218 (40%), Positives = 134/218 (61%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ K++ARAG SRRE+E +I Q RV V+G + + V V + I +DG + ++++ Sbjct: 29 EKLQKILARAGHGSRREIEAIIQQGRVSVDGKVSKLGDRVEVTQSTKIRLDGHLLSIKES 88 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T +DP+GR TVFD LP + SR ++VGRLD+NT GLLL T D Sbjct: 89 EENVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTD 148 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQ+D DK+ L +G+ ++ ++ +G N Sbjct: 149 GELANRLMHPSREVEREYAVRVFGQIDDDKIKQLSRGVQLEDGPAAFRTISYQGGEGINQ 208 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 209 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINL 246 >gi|271500649|ref|YP_003333674.1| pseudouridine synthase [Dickeya dadantii Ech586] gi|270344204|gb|ACZ76969.1| pseudouridine synthase [Dickeya dadantii Ech586] Length = 296 Score = 157 bits (397), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 94/218 (43%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E MI R+ V+G I V V I +DG V +R+ Sbjct: 3 EKLQKVLARAGHGSRREIESMIEAGRISVDGKIATLGDRVEVTRATKIRIDGHVVSVRET 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 E R+ +Y+KP G + T SDP+GR TVFD LP I R ++VGRLD+NT GLLL T D Sbjct: 63 EEAVCRVLMYYKPEGELCTRSDPEGRPTVFDRLPRIQGYRWVAVGRLDVNTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V DK+ L KG+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGEVGDDKIRQLSKGVQLEDGPAAFRAIRYQGGEGLNQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG QL Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIQL 220 >gi|148358978|ref|YP_001250185.1| pseudouridine synthase [Legionella pneumophila str. Corby] gi|296107027|ref|YP_003618727.1| ribosomal large subunit pseudouridine synthase B [Legionella pneumophila 2300/99 Alcoy] gi|148280751|gb|ABQ54839.1| pseudouridine synthase [Legionella pneumophila str. Corby] gi|295648928|gb|ADG24775.1| ribosomal large subunit pseudouridine synthase B [Legionella pneumophila 2300/99 Alcoy] Length = 248 Score = 157 bits (397), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 95/241 (39%), Positives = 141/241 (58%), Gaps = 7/241 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----P 66 + +R+ K++++AG+ SRRE+ER I V+VNG + + +D I V G P Sbjct: 1 MSSERLQKILSQAGLGSRREMERWIDNGWVQVNGKP-AKLGDSAGPSDKISVKGKLIPNP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 L+ + R+ LYHKP+G V++ DP TVFDNLP + R + VGRLD+NT GLL+ T Sbjct: 60 LKGKQNIRVLLYHKPVGEVSSRHDPKFEKTVFDNLPHLRQGRWVQVGRLDLNTSGLLIFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N+G LA L P R Y VR HGQV Q+ LN L KG+++ ++ +G+ Sbjct: 120 NNGELANQLMHPKYGLEREYAVRVHGQVSQESLNNLLKGVMLDDGLAKFTKIQFRGGEGT 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQ 244 N+W V L EG+NRE+++++E +V+RLIRI YG + L+ G E++ K + E Sbjct: 180 NSWYHVTLNEGRNREVRRLWESQGVEVSRLIRIRYGMLTMPRFLSRGQFYELTPKEVTEF 239 Query: 245 L 245 L Sbjct: 240 L 240 >gi|325289798|ref|YP_004265979.1| ribosomal large subunit pseudouridine synthase B [Syntrophobotulus glycolicus DSM 8271] gi|324965199|gb|ADY55978.1| ribosomal large subunit pseudouridine synthase B [Syntrophobotulus glycolicus DSM 8271] Length = 270 Score = 157 bits (396), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 90/240 (37%), Positives = 139/240 (57%), Gaps = 5/240 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--- 64 +EN R+ K IA +G+ASRR E M+ + RVKVNG+++ + V TD IEVDG Sbjct: 19 EENQIRMRLQKAIALSGLASRRRAEEMMTEGRVKVNGVVVTELGMKVCGTDTIEVDGKTV 78 Query: 65 --VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + ++ E ++ +KP+G++T+ DP GR TV D L + RV VGRLD +T G+L Sbjct: 79 QSLEVKGKENKVYYMLNKPVGVITSLRDPQGRKTVRDLLGDVKERVYPVGRLDYDTSGIL 138 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTNDG LA L P ++YRV+ ++ + L+KG++++ +V Q Sbjct: 139 LLTNDGDLAYRLTHPKFGVSKIYRVQTGSRIPPKSIEQLEKGLLLEDGWTAPAKVHRLPQ 198 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 ++ V + + EG+NR+I+++FE + V RL R S+GP G L G R +S+K +R Sbjct: 199 GQNDHIVEITIHEGRNRQIRRMFERIGYPVQRLHRKSFGPLFTGELAPGGHRRLSQKEIR 258 >gi|54294518|ref|YP_126933.1| hypothetical protein lpl1594 [Legionella pneumophila str. Lens] gi|53754350|emb|CAH15834.1| hypothetical protein lpl1594 [Legionella pneumophila str. Lens] gi|307610150|emb|CBW99696.1| hypothetical protein LPW_14641 [Legionella pneumophila 130b] Length = 248 Score = 157 bits (396), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 95/241 (39%), Positives = 141/241 (58%), Gaps = 7/241 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----P 66 + +R+ K++++AG+ SRRE+ER I V+VNG + + +D I V G P Sbjct: 1 MSSERLQKILSQAGLGSRREMERWIDNGWVQVNGKP-AKLGDSAGPSDKISVKGKLIPNP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 L+ + R+ LYHKP+G V++ DP TVFDNLP + R + VGRLD+NT GLL+ T Sbjct: 60 LKGKQNIRVLLYHKPVGEVSSRHDPKFEKTVFDNLPHLRQGRWVQVGRLDLNTSGLLIFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N+G LA L P R Y VR HGQV Q+ LN L KG+++ ++ +G+ Sbjct: 120 NNGELANQLMHPKYGLEREYAVRVHGQVSQEALNNLLKGVMLDDGLAKFTKIQFRGGEGT 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQ 244 N+W V L EG+NRE+++++E +V+RLIRI YG + L+ G E++ K + E Sbjct: 180 NSWYHVTLNEGRNREVRRLWESQGVEVSRLIRIRYGMLAMPRFLSRGQFYELTPKEVTEF 239 Query: 245 L 245 L Sbjct: 240 L 240 >gi|332993790|gb|AEF03845.1| pseudouridine synthase [Alteromonas sp. SN2] Length = 298 Score = 157 bits (396), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 96/222 (43%), Positives = 130/222 (58%), Gaps = 11/222 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RKAER 72 +++ KV+A G+ SRRE+ER I Q RV VNG L V T I VDG L R+ E+ Sbjct: 3 EKLQKVLANQGLGSRREMERWIEQGRVSVNGTLAT-LGDRVDETGQIRVDGHLLSRQTEQ 61 Query: 73 --TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 R+ +Y+KP G + + DP+GR TVFD LP+I R I+VGRLD+NT GLLL TNDG Sbjct: 62 PVCRVLMYNKPEGELCSRHDPEGRDTVFDRLPAIRMGRWIAVGRLDMNTSGLLLFTNDGE 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG------ICYGDMQVTLDTQK 183 LA L P + R Y VR G V LN LKKG+ ++ G + ++ Sbjct: 122 LANRLMHPKCEVEREYAVRVFGDVTHQTLNTLKKGVQLEDGEAKFLSISGKVAPPGSEEE 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L+EG+NRE+++++E +V+RLIR+ YGP L Sbjct: 182 SMNRWFNVTLKEGRNREVRRLWESQGVQVSRLIRVKYGPMDL 223 >gi|322833321|ref|YP_004213348.1| pseudouridine synthase [Rahnella sp. Y9602] gi|321168522|gb|ADW74221.1| pseudouridine synthase [Rahnella sp. Y9602] Length = 439 Score = 157 bits (396), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 95/220 (43%), Positives = 128/220 (58%), Gaps = 10/220 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKA 70 +++ KV+ARAG SRREVE MI RV V+G L +R V V I +DG L Sbjct: 151 EKLQKVLARAGHGSRREVEAMIQAGRVSVDGKISTLGDR--VEVTGGTKIRLDGHVLSVM 208 Query: 71 ER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 E R+ Y+KP G + T +DP+GR TVFD LP + SR I+VGRLD+NT GLLL T Sbjct: 209 ESQDTVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKMRGSRWIAVGRLDVNTSGLLLFT 268 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQVD +K+ L +G+ ++ + +G Sbjct: 269 TDGELANRLMHPSREVEREYAVRVFGQVDDEKIKQLSRGVQLEDGPAAFRSIKFQGGEGL 328 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 329 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDLNL 368 >gi|238751905|ref|ZP_04613391.1| Ribosomal large subunit pseudouridine synthase B [Yersinia rohdei ATCC 43380] gi|238709885|gb|EEQ02117.1| Ribosomal large subunit pseudouridine synthase B [Yersinia rohdei ATCC 43380] Length = 346 Score = 157 bits (396), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 89/218 (40%), Positives = 133/218 (61%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ K++ARAG SRRE+E +I Q RV V+G + + V V I +DG + ++++ Sbjct: 32 EKLQKILARAGHGSRREIETIIQQGRVSVDGKISKLGDRVEVTQATKIRLDGHLLSIKES 91 Query: 71 ERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E T R+ Y+KP G + T +DP+GR TVFD LP + SR ++VGRLD+NT GLLL T D Sbjct: 92 EETVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTD 151 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQ+D +K+ L +G+ ++ + +G N Sbjct: 152 GELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTIKFQGGEGINQ 211 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 212 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINL 249 >gi|51596461|ref|YP_070652.1| 23S rRNA pseudouridylate synthase B [Yersinia pseudotuberculosis IP 32953] gi|170024274|ref|YP_001720779.1| 23S rRNA pseudouridylate synthase B [Yersinia pseudotuberculosis YPIII] gi|186895510|ref|YP_001872622.1| 23S rRNA pseudouridylate synthase B [Yersinia pseudotuberculosis PB1/+] gi|51589743|emb|CAH21373.1| putative RNA pseudouridylate synthase-family protein [Yersinia pseudotuberculosis IP 32953] gi|169750808|gb|ACA68326.1| pseudouridine synthase [Yersinia pseudotuberculosis YPIII] gi|186698536|gb|ACC89165.1| pseudouridine synthase [Yersinia pseudotuberculosis PB1/+] Length = 344 Score = 157 bits (396), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 89/218 (40%), Positives = 134/218 (61%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ K++ARAG SRRE+E +I Q RV V+G + + V V + I +DG + ++++ Sbjct: 29 EKLQKILARAGHGSRREIEAIIQQGRVSVDGKVSKLGDRVEVTQSTKIRLDGHLLSIKES 88 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T +DP+GR TVFD LP + SR ++VGRLD+NT GLLL T D Sbjct: 89 EENVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTD 148 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQ+D DK+ L +G+ ++ ++ +G N Sbjct: 149 GELANRLMHPSREVEREYAVRVFGQIDDDKIKQLSRGVQLEDGPAAFRTISYQGGEGINQ 208 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 209 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINL 246 >gi|237807721|ref|YP_002892161.1| RNA-binding S4 domain-containing protein [Tolumonas auensis DSM 9187] gi|237499982|gb|ACQ92575.1| RNA-binding S4 domain protein [Tolumonas auensis DSM 9187] Length = 348 Score = 157 bits (396), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 95/221 (42%), Positives = 131/221 (59%), Gaps = 6/221 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----VPLRK 69 +++ KV+ARAG+ SRRE+E +I++ RV VNG + V + D I VDG VP Sbjct: 3 EKLQKVLARAGVGSRREMETVISEGRVSVNGKVAT-LGDRVEAKDVIRVDGHQISVPTLN 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP G V T DP+GR TVFD LP I SR ++VGRLD+NT GLLL T DG Sbjct: 62 DVICRVLAYHKPEGEVCTRHDPEGRPTVFDRLPRIKDSRWVAVGRLDVNTSGLLLFTTDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y VR G+V + L L+ G+ ++ ++T +G N W Sbjct: 122 ELANRLMHPSHEVEREYAVRVFGEVTEGMLQKLRHGVQLEDGPAKFDKITAGGGEGLNQW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V L EG+NRE+++++E +V+RL+RI YG +L L Sbjct: 182 FNVTLCEGRNREVRRLWESLEVQVSRLMRIRYGDIKLDKTL 222 >gi|255021571|ref|ZP_05293614.1| hypothetical protein ACA_2484 [Acidithiobacillus caldus ATCC 51756] gi|254968959|gb|EET26478.1| hypothetical protein ACA_2484 [Acidithiobacillus caldus ATCC 51756] Length = 288 Score = 157 bits (396), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 92/220 (41%), Positives = 128/220 (58%), Gaps = 12/220 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKA 70 +++ KV+AR G+ SRR++E I RV++N +R A V S D + VDG PLR Sbjct: 3 EKLQKVLARHGLGSRRQMEAWIRAGRVQIN----DRPATIGDRVTSRDRLSVDGKPLRVP 58 Query: 71 E----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 R R+ YHKP G + T DP+GR TVFD LP + SR ++VGRLD+NTEGLLL T Sbjct: 59 SWVRPRLRVLRYHKPAGELATRQDPEGRPTVFDRLPRLRGSRWVAVGRLDLNTEGLLLFT 118 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L P + RVY VR G + ++ L G+ ++ + + +GS Sbjct: 119 NDGDLANALMHPRAELERVYAVRVLGSLSDEQKAALLAGVELEDGPARFLAIEEAGGEGS 178 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE++++ + V+RLIRI YGP + Sbjct: 179 NRWYHVSLAEGRNREVRRLLAAVHLSVSRLIRIRYGPIDM 218 >gi|327480926|gb|AEA84236.1| pseudouridine synthase [Pseudomonas stutzeri DSM 4166] Length = 375 Score = 157 bits (396), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 102/244 (41%), Positives = 146/244 (59%), Gaps = 13/244 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ KV+AR GIASRR+VE+ I + RVKVNG + V S D I VDG L++ E + Sbjct: 15 EKLQKVLARLGIASRRDVEKWIVEGRVKVNGAVAT-LGQRVDSHDAIAVDGRLLKREETS 73 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDG 128 R+ +Y+KP G + T +DP+GR TVFD LP R I++GRLDINT GLLL T DG Sbjct: 74 QVVRRVLIYNKPDGEICTRNDPEGRPTVFDRLPRPKEGRWINIGRLDINTTGLLLFTTDG 133 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSN 186 LA L PS + R Y VR G+VD + + LK G++++ + D+Q + G N Sbjct: 134 ELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKTGVMLEDGPARFTDIQEAPGGE-GFN 192 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP-FQLGTLLAGSTREVSK---KILR 242 W + EG+NRE+++++E V+RL R+ +GP F L G RE+S+ IL Sbjct: 193 HWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFMTSDLPMGRWREMSQAEVDILS 252 Query: 243 EQLG 246 E++G Sbjct: 253 EEVG 256 >gi|145589412|ref|YP_001156009.1| pseudouridine synthase [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] gi|145047818|gb|ABP34445.1| pseudouridine synthase [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] Length = 587 Score = 156 bits (395), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 90/215 (41%), Positives = 125/215 (58%), Gaps = 5/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 ++ KV+A G+ SRR++E +I Q RV VNG L + TD + ++G P+ + +T Sbjct: 198 KLHKVLADVGMGSRRDMEDLIIQGRVSVNG-LPAHIGQRIGPTDQVRINGKPVHRKIQTK 256 Query: 74 --RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 R+ +YHKP G + + SDP+GR TVFD LP R I+VGRLD NTEGLLL T G L Sbjct: 257 PPRVIMYHKPAGEIVSQSDPEGRPTVFDRLPKPRQGRWIAVGRLDFNTEGLLLFTTSGEL 316 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P R Y VR G + Q+ LLK GI + +++ + +G+N W Sbjct: 317 ANRLMHPRYGVEREYAVRILGDLSQENTALLKSGITLDDGQAKFLRLAMGGGEGANRWYH 376 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EG+NRE++++FE V+RLIR YG F L Sbjct: 377 VALSEGRNREVRRMFEAVGHTVSRLIRTRYGIFLL 411 >gi|292488387|ref|YP_003531269.1| ribosomal large subunit pseudouridine synthase B [Erwinia amylovora CFBP1430] gi|292899583|ref|YP_003538952.1| ribosomal large subunit pseudouridine synthase B [Erwinia amylovora ATCC 49946] gi|291199431|emb|CBJ46548.1| ribosomal large subunit pseudouridine synthase B [Erwinia amylovora ATCC 49946] gi|291553816|emb|CBA20861.1| ribosomal large subunit pseudouridine synthase B [Erwinia amylovora CFBP1430] gi|312172530|emb|CBX80786.1| ribosomal large subunit pseudouridine synthase B [Erwinia amylovora ATCC BAA-2158] Length = 295 Score = 156 bits (395), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 94/218 (43%), Positives = 132/218 (60%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E MI+ RV V+G L V ++ I +DG VP+ ++ Sbjct: 3 EKLQKVLARAGHGSRREIETMISAGRVSVDGKLATLGDRVEPAASLKIRIDGHVVPVSES 62 Query: 71 --ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 ISEVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G VD DK+ LL +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGAVDDDKIKLLSRGVQLEDGPAAFKTLKFTGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIRI YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRIRYGDIDL 220 >gi|54297357|ref|YP_123726.1| hypothetical protein lpp1402 [Legionella pneumophila str. Paris] gi|53751142|emb|CAH12553.1| hypothetical protein lpp1402 [Legionella pneumophila str. Paris] Length = 248 Score = 156 bits (395), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 95/241 (39%), Positives = 141/241 (58%), Gaps = 7/241 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----P 66 + +R+ K++++AG+ SRRE+ER I V+VNG + + +D I V G P Sbjct: 1 MSSERLQKILSQAGLGSRREMERWIDNGWVQVNGKP-AKLGDSAGPSDKISVKGKLIPNP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 L+ + R+ LYHKP+G V++ DP TVFDNLP + R + VGRLD+NT GLL+ T Sbjct: 60 LKGKQNIRVLLYHKPVGEVSSRHDPKFEKTVFDNLPHLRQGRWVQVGRLDLNTSGLLIFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N+G LA L P R Y VR HGQV Q+ LN L KG+++ ++ +G+ Sbjct: 120 NNGELANQLMHPKYGLEREYAVRVHGQVSQESLNNLLKGVMLDDGLGKFTKIQFRGGEGT 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQ 244 N+W V L EG+NRE+++++E +V+RLIRI YG + L+ G E++ K + E Sbjct: 180 NSWYHVTLNEGRNREVRRLWESQGVEVSRLIRIRYGMLTMPRFLSRGQFYELTPKEVTEF 239 Query: 245 L 245 L Sbjct: 240 L 240 >gi|254468122|ref|ZP_05081528.1| ribosomal large subunit pseudouridine synthase B [beta proteobacterium KB13] gi|207086932|gb|EDZ64215.1| ribosomal large subunit pseudouridine synthase B [beta proteobacterium KB13] Length = 257 Score = 156 bits (395), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 94/235 (40%), Positives = 144/235 (61%), Gaps = 9/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +R+ K +A G+ SRR +E +I Q+++ VN ++ + V + I ++G + + AE Sbjct: 15 ERIQKFLANMGMGSRRSIEELIKQKKITVNQKPIDLGHM-VYGNEIIHINGRRIYFKNAE 73 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 + +RL +YHKP G + +HSDP + TVF LP + + + IS+GRLDINT GLLL+TNDG Sbjct: 74 KRESRLIIYHKPEGEIVSHSDPKHQKTVFQKLPKVKNGKWISIGRLDINTSGLLLITNDG 133 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNA 187 LA + PS Q R Y VR G+V ++ +N ++KG+ + G+ + D +G+N Sbjct: 134 KLANHMMHPSQQIDREYSVRILGEVTEEIINNIRKGVKLDDGVAHVDT-FEHTGGEGANQ 192 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 W + L+EG+NREI+++ E N KV+RLIR YGP L + L G E+ KK L Sbjct: 193 WFRIILKEGRNREIRRLVESQNLKVSRLIRTRYGPLNLPSHLKRGQFMELEKKNL 247 >gi|300716948|ref|YP_003741751.1| ribosomal large subunit pseudouridine synthase B [Erwinia billingiae Eb661] gi|299062784|emb|CAX59904.1| Ribosomal large subunit pseudouridine synthase B [Erwinia billingiae Eb661] Length = 315 Score = 156 bits (395), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 94/218 (43%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E MI+ RV V+G L V+ + I VDG V Sbjct: 3 EKLQKVLARAGHGSRREIETMISAGRVSVDGKLATLGDRVDSSPSIKIRVDGHLVSVAES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 AE R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 TAEVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G +D DK+ L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGAIDDDKIRQLSRGVQLEDGPASFKTLKFTGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W TV L EG+NRE+++++E +V+RLIR YG QL Sbjct: 183 WYTVTLTEGRNREVRRLWESVGVQVSRLIRTRYGDIQL 220 >gi|261821582|ref|YP_003259688.1| 23S rRNA pseudouridylate synthase B [Pectobacterium wasabiae WPP163] gi|261605595|gb|ACX88081.1| pseudouridine synthase [Pectobacterium wasabiae WPP163] Length = 294 Score = 156 bits (394), Expect = 5e-36, Method: Compositional matrix adjust. Identities = 95/220 (43%), Positives = 133/220 (60%), Gaps = 10/220 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDG--VPLR 68 +++ KV+ARAG SRRE+E +I RV V+G L +R V V I +DG V ++ Sbjct: 3 EKLQKVLARAGHGSRREIEGIIQAGRVSVDGKVATLGDR--VEVTKATKIRIDGHVVTVK 60 Query: 69 KAERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 + E T R+ +Y+KP G + T +DPDGR TVFD LP I SR ++VGRLD+NT GLLL T Sbjct: 61 ETEETVCRVLVYYKPEGELCTRNDPDGRPTVFDRLPKIQGSRWVAVGRLDVNTSGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR G+VD +K+ L KG+ ++ + +G Sbjct: 121 TDGELANRLMHPSREVEREYAVRVFGEVDDEKIKQLSKGVQLEDGPAAFRTIRYQGGEGL 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDITL 220 >gi|332161874|ref|YP_004298451.1| 23S rRNA pseudouridylate synthase B [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|318605612|emb|CBY27110.1| ribosomal large subunit pseudouridine synthase B; LSU Psi2605 [Yersinia enterocolitica subsp. palearctica Y11] gi|325666104|gb|ADZ42748.1| 23S rRNA pseudouridylate synthase B [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|330860992|emb|CBX71265.1| ribosomal large subunit pseudouridine synthase B [Yersinia enterocolitica W22703] Length = 349 Score = 156 bits (394), Expect = 5e-36, Method: Compositional matrix adjust. Identities = 89/218 (40%), Positives = 133/218 (61%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ K++ARAG SRRE+E +I Q RV V+G + + V V I +DG + ++++ Sbjct: 35 EKLQKILARAGHGSRREIETIIQQGRVSVDGKISKLGDRVEVTQATKIRLDGHLLSIKES 94 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T +DP+GR TVFD LP + SR ++VGRLD+NT GLLL T D Sbjct: 95 EEAVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTD 154 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQ+D +K+ L +G+ ++ +T +G N Sbjct: 155 GELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTITFQGGEGINQ 214 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 215 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINL 252 >gi|149365868|ref|ZP_01887903.1| putative RNA pseudouridylate synthase-family protein [Yersinia pestis CA88-4125] gi|153947333|ref|YP_001400903.1| 23S rRNA pseudouridylate synthase B [Yersinia pseudotuberculosis IP 31758] gi|229894897|ref|ZP_04510075.1| 23S rRNA pseudouridylate synthase [Yersinia pestis Pestoides A] gi|229897640|ref|ZP_04512796.1| 23S rRNA pseudouridylate synthase [Yersinia pestis biovar Orientalis str. PEXU2] gi|229898285|ref|ZP_04513432.1| 23S rRNA pseudouridylate synthase [Yersinia pestis biovar Orientalis str. India 195] gi|229902144|ref|ZP_04517265.1| 23S rRNA pseudouridylate synthase [Yersinia pestis Nepal516] gi|34098644|sp|Q8ZEG0|RLUB_YERPE RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|115347920|emb|CAL20842.1| putative RNA pseudouridylate synthase-family protein [Yersinia pestis CO92] gi|149292281|gb|EDM42355.1| putative RNA pseudouridylate synthase-family protein [Yersinia pestis CA88-4125] gi|152958828|gb|ABS46289.1| ribosomal large subunit pseudouridine synthase B [Yersinia pseudotuberculosis IP 31758] gi|229681040|gb|EEO77135.1| 23S rRNA pseudouridylate synthase [Yersinia pestis Nepal516] gi|229688575|gb|EEO80644.1| 23S rRNA pseudouridylate synthase [Yersinia pestis biovar Orientalis str. India 195] gi|229693977|gb|EEO84026.1| 23S rRNA pseudouridylate synthase [Yersinia pestis biovar Orientalis str. PEXU2] gi|229701992|gb|EEO90013.1| 23S rRNA pseudouridylate synthase [Yersinia pestis Pestoides A] gi|320014878|gb|ADV98449.1| 23S rRNA pseudouridylate synthase [Yersinia pestis biovar Medievalis str. Harbin 35] Length = 318 Score = 156 bits (394), Expect = 5e-36, Method: Compositional matrix adjust. Identities = 89/218 (40%), Positives = 134/218 (61%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ K++ARAG SRRE+E +I Q RV V+G + + V V + I +DG + ++++ Sbjct: 3 EKLQKILARAGHGSRREIEAIIQQGRVSVDGKVSKLGDRVEVTQSTKIRLDGHLLSIKES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T +DP+GR TVFD LP + SR ++VGRLD+NT GLLL T D Sbjct: 63 EENVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQ+D DK+ L +G+ ++ ++ +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQIDDDKIKQLSRGVQLEDGPAAFRTISYQGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINL 220 >gi|39996504|ref|NP_952455.1| ribosomal large subunit pseudouridine synthase B [Geobacter sulfurreducens PCA] gi|39983385|gb|AAR34778.1| ribosomal large subunit pseudouridine synthase B [Geobacter sulfurreducens PCA] gi|298505521|gb|ADI84244.1| 23S rRNA pseudouridine 2605 synthase [Geobacter sulfurreducens KN400] Length = 247 Score = 156 bits (394), Expect = 5e-36, Method: Compositional matrix adjust. Identities = 88/225 (39%), Positives = 132/225 (58%), Gaps = 1/225 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K++++AG+ASRRE ER I + RV VNG ++ E + D I VDG P+R AE+ Sbjct: 3 ERLQKLLSQAGVASRREAERFITEGRVAVNGTVVTELGSKADPERDRITVDGQPVRPAEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP+G +TT DP+GR V D L + RV VGRLD NTEGLLLLTNDG A Sbjct: 63 KVYLILNKPVGYMTTLRDPEGRPIVTDLLKGLDVRVFPVGRLDYNTEGLLLLTNDGAWAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y VR G V ++++ L G+ + +V + +Q +N W+++ Sbjct: 123 RLAHPRHEVDKEYLVRVRGAVAKEQIRRLATGVELDDGPTAPAKVEVSSQSDNNTWLSIV 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+ R+++++ E + V RL R+ YG LG L G R +S Sbjct: 183 IHEGRYRQVRRMCEAVSLSVVRLRRVRYGAVSLGDLKPGEYRPLS 227 >gi|251789770|ref|YP_003004491.1| 23S rRNA pseudouridylate synthase B [Dickeya zeae Ech1591] gi|247538391|gb|ACT07012.1| pseudouridine synthase [Dickeya zeae Ech1591] Length = 301 Score = 155 bits (393), Expect = 6e-36, Method: Compositional matrix adjust. Identities = 94/218 (43%), Positives = 128/218 (58%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E MI R+ V+G I V V I +DG V +R+ Sbjct: 3 EKLQKVLARAGHGSRREIESMIEAGRISVDGKIATLGDRVEVTRATKIRIDGHVVSVRET 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 E R+ +Y+KP G + T SDP+GR TVFD LP I R ++VGRLD+NT GLLL T D Sbjct: 63 EEAVCRVLMYYKPEGELCTRSDPEGRPTVFDRLPRIQGYRWVAVGRLDVNTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V DK+ L KG+ + + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGEVGDDKIRQLSKGVQLDDGPAAFRSIRYQGGEGLNQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG QL Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIQL 220 >gi|253688397|ref|YP_003017587.1| pseudouridine synthase [Pectobacterium carotovorum subsp. carotovorum PC1] gi|251754975|gb|ACT13051.1| pseudouridine synthase [Pectobacterium carotovorum subsp. carotovorum PC1] Length = 294 Score = 155 bits (393), Expect = 6e-36, Method: Compositional matrix adjust. Identities = 93/218 (42%), Positives = 131/218 (60%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG V +++ Sbjct: 3 EKLQKVLARAGHGSRREIEGIIQAGRVSVDGKVATLGDRVEVTKATKIRIDGHVVTVKET 62 Query: 71 ERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E T R+ +Y+KP G + T +DPDGR TVFD LP I SR ++VGRLD+NT GLLL T D Sbjct: 63 EETVCRVLVYYKPEGELCTRNDPDGRPTVFDRLPKIQGSRWVAVGRLDVNTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+VD +K+ L KG+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGEVDDEKIKQLSKGVQLEDGPASFRTIRYQGGEGLNQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDITL 220 >gi|83647424|ref|YP_435859.1| 16S rRNA uridine-516 pseudouridylate synthase-like protein [Hahella chejuensis KCTC 2396] gi|83635467|gb|ABC31434.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Hahella chejuensis KCTC 2396] Length = 323 Score = 155 bits (393), Expect = 6e-36, Method: Compositional matrix adjust. Identities = 92/216 (42%), Positives = 131/216 (60%), Gaps = 4/216 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VP 66 E +++ KVIAR G+ASRRE E I+ RV+VNG + V + D I VDG + Sbjct: 7 EKAQGEKLQKVIARQGLASRREAEEWISGGRVRVNGKVAH-LGDRVTAEDKISVDGHKIA 65 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 + AE T + +Y+KP G VT+ DP+GR TVF LP + S R ++VGRLDINT GLL+ T Sbjct: 66 MVDAEETMVLVYNKPEGEVTSRKDPEGRPTVFARLPKLKSGRWVAVGRLDINTTGLLIFT 125 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS+Q R Y VR HG+V ++ + L+ G++++ + GS Sbjct: 126 TDGELANRLMHPSSQIDREYAVRVHGEVTEEMVTRLQDGVLLEDGLAKFSDIKEAGGSGS 185 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 N W V L+EG+NRE+++++E V+RL R+ YG Sbjct: 186 NRWFHVVLQEGRNREVRRLWESQGVTVSRLKRVRYG 221 >gi|332290312|ref|YP_004421164.1| 23S rRNA pseudouridylate synthase B [Gallibacterium anatis UMN179] gi|330433208|gb|AEC18267.1| 23S rRNA pseudouridylate synthase B [Gallibacterium anatis UMN179] Length = 297 Score = 155 bits (393), Expect = 6e-36, Method: Compositional matrix adjust. Identities = 95/218 (43%), Positives = 132/218 (60%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG+ SRREVE +IA RV VNG + V V + I VDG V L A Sbjct: 17 EKLQKVLARAGVGSRREVETIIAAGRVSVNGKIASLGDRVEVKNDTKIRVDGGLVSLIAA 76 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 + R+ +Y+KP G + T DP+GR+TVF+ LP I +R +SVGRLDINT GLLL T D Sbjct: 77 RKDICRVLMYYKPEGELCTRHDPEGRATVFERLPQISNARWVSVGRLDINTSGLLLFTTD 136 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G V + L L+KG+ ++ +++ +G N Sbjct: 137 GELANRLMHPSKEVEREYSVRVFGHVTEQMLAKLRKGVQLEDGPASFKKISAQGGQGMNQ 196 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W +V L EG+NRE+++++E +V+RLIR YG L Sbjct: 197 WFSVTLTEGRNREVRRLWESQGIQVSRLIRTRYGNIDL 234 >gi|227326052|ref|ZP_03830076.1| 23S rRNA pseudouridylate synthase B [Pectobacterium carotovorum subsp. carotovorum WPP14] Length = 294 Score = 155 bits (393), Expect = 7e-36, Method: Compositional matrix adjust. Identities = 116/302 (38%), Positives = 165/302 (54%), Gaps = 17/302 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G I V V I +DG V +++ Sbjct: 3 EKLQKVLARAGHGSRREIEVIIQAGRVSVDGKIATLGDRVEVTKATKIRIDGHVVTVKET 62 Query: 71 ERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E + R+ +Y+KP G + T +DPDGR TVFD LP I SR ++VGRLD+NT GLLL T D Sbjct: 63 EESVCRVLMYYKPEGELCTRNDPDGRPTVFDRLPKIQGSRWVAVGRLDVNTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+VD +K+ L KG+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGEVDDEKIKQLSKGVQLEDGPASFRTIRYQGGEGLNQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W V L EG+NRE+++++E +V+RLIR+ YG TL G R ++ EQL Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDI---TLPKGIPRGGWTEMPLEQL-- 237 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + L E V L A S + R+R + + + R K SQ N S + +P + Sbjct: 238 NYLREL-VQLPAETVSKLPVERERRRVKA---NQIRRAVKRHSQIN--SAPARRTSPKPK 291 Query: 308 RN 309 RN Sbjct: 292 RN 293 >gi|52143877|ref|YP_082953.1| pseudouridylate synthase [Bacillus cereus E33L] gi|51977346|gb|AAU18896.1| pseudouridylate synthase [Bacillus cereus E33L] Length = 242 Score = 155 bits (393), Expect = 7e-36, Method: Compositional matrix adjust. Identities = 83/226 (36%), Positives = 137/226 (60%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVAPQDKVEVNNIPLEKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ SD GRS V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLY-KPTGVISSVSDDKGRSVVTDFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G++++ +V + + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVMLEDGKTAPARVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELT 226 >gi|218896501|ref|YP_002444912.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus G9842] gi|228900151|ref|ZP_04064384.1| Pseudouridine synthase [Bacillus thuringiensis IBL 4222] gi|228907203|ref|ZP_04071064.1| Pseudouridine synthase [Bacillus thuringiensis IBL 200] gi|228938683|ref|ZP_04101288.1| Pseudouridine synthase [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228964544|ref|ZP_04125654.1| Pseudouridine synthase [Bacillus thuringiensis serovar sotto str. T04001] gi|228971565|ref|ZP_04132189.1| Pseudouridine synthase [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228978176|ref|ZP_04138554.1| Pseudouridine synthase [Bacillus thuringiensis Bt407] gi|218545922|gb|ACK98316.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus G9842] gi|228781648|gb|EEM29848.1| Pseudouridine synthase [Bacillus thuringiensis Bt407] gi|228788224|gb|EEM36179.1| Pseudouridine synthase [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228795144|gb|EEM42640.1| Pseudouridine synthase [Bacillus thuringiensis serovar sotto str. T04001] gi|228821059|gb|EEM67079.1| Pseudouridine synthase [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228852424|gb|EEM97217.1| Pseudouridine synthase [Bacillus thuringiensis IBL 200] gi|228859557|gb|EEN03984.1| Pseudouridine synthase [Bacillus thuringiensis IBL 4222] gi|326939191|gb|AEA15087.1| ribosomal large subunit pseudouridine synthase B [Bacillus thuringiensis serovar chinensis CT-43] Length = 242 Score = 155 bits (393), Expect = 8e-36, Method: Compositional matrix adjust. Identities = 82/226 (36%), Positives = 135/226 (59%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ SD GRS V D P I R+ +GRLD +T G+LL+TNDG A + Sbjct: 62 YFLLY-KPTGVISSVSDDKGRSVVTDFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANI 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ V + + ++ A V + Sbjct: 121 LMHPKYKVEKTYVAKIKGPLTGEKIRMLERGVALEDGKTAPAHVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELT 226 >gi|229160522|ref|ZP_04288517.1| Pseudouridine synthase [Bacillus cereus R309803] gi|228622932|gb|EEK79763.1| Pseudouridine synthase [Bacillus cereus R309803] Length = 242 Score = 155 bits (392), Expect = 8e-36, Method: Compositional matrix adjust. Identities = 83/226 (36%), Positives = 136/226 (60%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ SD GRS V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLY-KPTGVISSVSDDKGRSVVTDFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ +V + + ++ A V + Sbjct: 121 LMHPKYKVEKTYVAKVKGPLTGEKIRMLERGVALEDGKTAPARVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELT 226 >gi|42780671|ref|NP_977918.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus ATCC 10987] gi|47569145|ref|ZP_00239833.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus G9241] gi|206978260|ref|ZP_03239138.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus H3081.97] gi|217959048|ref|YP_002337596.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus AH187] gi|222095202|ref|YP_002529262.1| ribosomal large subunit pseudouridine synthase b [Bacillus cereus Q1] gi|228984651|ref|ZP_04144824.1| Pseudouridine synthase [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|229138265|ref|ZP_04266860.1| Pseudouridine synthase [Bacillus cereus BDRD-ST26] gi|229155139|ref|ZP_04283251.1| Pseudouridine synthase [Bacillus cereus ATCC 4342] gi|229195772|ref|ZP_04322532.1| Pseudouridine synthase [Bacillus cereus m1293] gi|300117500|ref|ZP_07055290.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus SJ1] gi|301053111|ref|YP_003791322.1| pseudouridylate synthase [Bacillus anthracis CI] gi|42736591|gb|AAS40526.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus ATCC 10987] gi|47554216|gb|EAL12579.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus G9241] gi|206743509|gb|EDZ54938.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus H3081.97] gi|217066494|gb|ACJ80744.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus AH187] gi|221239260|gb|ACM11970.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus Q1] gi|228587669|gb|EEK45727.1| Pseudouridine synthase [Bacillus cereus m1293] gi|228628266|gb|EEK84981.1| Pseudouridine synthase [Bacillus cereus ATCC 4342] gi|228645157|gb|EEL01394.1| Pseudouridine synthase [Bacillus cereus BDRD-ST26] gi|228775045|gb|EEM23438.1| Pseudouridine synthase [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|298725335|gb|EFI65987.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus SJ1] gi|300375280|gb|ADK04184.1| pseudouridylate synthase [Bacillus cereus biovar anthracis str. CI] gi|324325588|gb|ADY20848.1| ribosomal large subunit pseudouridine synthase B [Bacillus thuringiensis serovar finitimus YBT-020] Length = 242 Score = 155 bits (392), Expect = 8e-36, Method: Compositional matrix adjust. Identities = 83/226 (36%), Positives = 137/226 (60%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ SD GRS V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLY-KPTGVISSVSDDKGRSVVTDFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G++++ +V + + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVMLEDGKTAPARVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELT 226 >gi|317492193|ref|ZP_07950623.1| RNA pseudouridylate synthase [Enterobacteriaceae bacterium 9_2_54FAA] gi|316919898|gb|EFV41227.1| RNA pseudouridylate synthase [Enterobacteriaceae bacterium 9_2_54FAA] Length = 317 Score = 155 bits (392), Expect = 8e-36, Method: Compositional matrix adjust. Identities = 94/218 (43%), Positives = 130/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+A AG SRRE+E MI + RV V+G L V V I VDG V +R++ Sbjct: 3 EKLQKVLANAGHGSRREIEAMIKEGRVSVDGKLATLGDRVEVTPAMKIRVDGRVVSIRES 62 Query: 71 ERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T DP+GR TVFD LP + SR I+VGRLDINT GLLL T D Sbjct: 63 TESVCRVLAYYKPEGELCTRRDPEGRPTVFDRLPKLRGSRWIAVGRLDINTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD +K+ L +G+ ++ ++ +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDEKIRQLSRGVQLEDGPASFKTISFQGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDLPL 220 >gi|90416540|ref|ZP_01224471.1| probable pseudouridine synthase [marine gamma proteobacterium HTCC2207] gi|90331739|gb|EAS46967.1| probable pseudouridine synthase [marine gamma proteobacterium HTCC2207] Length = 278 Score = 155 bits (392), Expect = 9e-36, Method: Compositional matrix adjust. Identities = 97/228 (42%), Positives = 135/228 (59%), Gaps = 16/228 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNVMSTDHIEVDG--VPLR 68 +++ KV+A AG+ SRRE+E+ I+ RV VNG L +RAA + D I VDG + + Sbjct: 3 EKLQKVLATAGLGSRRELEKWISAGRVSVNGSIAKLGDRAAAD----DRILVDGRLIKIV 58 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 + R+ +Y KP G V T SDPDGR TVFD LP + R I++GRLDINT GLLL TN Sbjct: 59 TDDSPRVLMYSKPEGEVCTTSDPDGRPTVFDRLPRLSRGRWIAIGRLDINTSGLLLFTNH 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK---- 183 G LA L PS + R Y R HG+VD+ + L G+V++ V + Sbjct: 119 GELANRLMHPSYEVQREYMARIHGEVDEAMIKRLTDGVVLEDGLASFKSVKAQHARSSED 178 Query: 184 --GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 G N W V L EG+ RE+++++E + +VNRL RISYGP +L +++ Sbjct: 179 LGGRNRWFKVILAEGRTREVRRLWESQDVEVNRLKRISYGPIELPSIV 226 >gi|300121522|emb|CBK22041.2| Pseudouridine synthase [Blastocystis hominis] Length = 271 Score = 155 bits (392), Expect = 9e-36, Method: Compositional matrix adjust. Identities = 93/228 (40%), Positives = 129/228 (56%), Gaps = 6/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IAR+G+ SRRE ER I RV +NG ++ A+NV D I VD PL +RTR Sbjct: 12 RIAKRIARSGVCSRREAERWIEMGRVTLNGKVITSPAINVTQQDIIHVDNKPLSPIQRTR 71 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + +K G + T SD R T+FD L + ++ VG+LD +TEGLLLLTNDG AR Sbjct: 72 VIIANKLDGELVTTSDSQHRLTIFDRLRKTGLECHIMPVGQLDFHTEGLLLLTNDGDYAR 131 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS-NA---W 188 LE PS R YR + +G+ D ++ L +I G Y V D + S NA W Sbjct: 132 YLEHPSNAIPRRYRAKVYGRWDDSRVLALSHSNIIDGKRYKGCLVKRDLDRSSANAMEHW 191 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 T+ + EGK E+K + F V +L+R ++G + LG L+ G REV Sbjct: 192 CTIQVTEGKYHEVKNLLGFVGLNVEKLVRTNFGAYSLGNLVPGEFREV 239 >gi|228990582|ref|ZP_04150547.1| Pseudouridine synthase [Bacillus pseudomycoides DSM 12442] gi|228996683|ref|ZP_04156320.1| Pseudouridine synthase [Bacillus mycoides Rock3-17] gi|229004333|ref|ZP_04162121.1| Pseudouridine synthase [Bacillus mycoides Rock1-4] gi|228756916|gb|EEM06173.1| Pseudouridine synthase [Bacillus mycoides Rock1-4] gi|228763002|gb|EEM11912.1| Pseudouridine synthase [Bacillus mycoides Rock3-17] gi|228769108|gb|EEM17706.1| Pseudouridine synthase [Bacillus pseudomycoides DSM 12442] Length = 244 Score = 155 bits (392), Expect = 9e-36, Method: Compositional matrix adjust. Identities = 84/226 (37%), Positives = 134/226 (59%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG ++ V D +EV+ +PL K E Sbjct: 4 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKVVTELGTKVTPQDKVEVNNIPLEKEEPI 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ SD GR V D P I R+ +GRLD +T G+LL+TNDG A + Sbjct: 64 YFLLY-KPTGVISSVSDDKGRKVVTDFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANI 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L+KG+V++ +V + + ++ A V + Sbjct: 123 LMHPKYKVEKTYVAKVKGPLTGEKIRMLEKGVVLEDGKTAPARVKILSWDKRKEMAIVQL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE KV +L R Y ++G+L G RE+S Sbjct: 183 TIHEGRNRQVRRMFEALGCKVMKLKRERYAFLEVGSLRPGDARELS 228 >gi|259908330|ref|YP_002648686.1| 23S rRNA pseudouridylate synthase B [Erwinia pyrifoliae Ep1/96] gi|224963952|emb|CAX55457.1| Ribosomal large subunit pseudouridine synthase B [Erwinia pyrifoliae Ep1/96] gi|283478269|emb|CAY74185.1| ribosomal large subunit pseudouridine synthase B [Erwinia pyrifoliae DSM 12163] Length = 295 Score = 155 bits (392), Expect = 9e-36, Method: Compositional matrix adjust. Identities = 94/218 (43%), Positives = 132/218 (60%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E MI+ RV V+G L V ++ I +DG VP+ ++ Sbjct: 3 EKLQKVLARAGHGSRREIETMISAGRVSVDGKLATLGDRVEPGASLKIRIDGHVVPVSES 62 Query: 71 --ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T SDP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 ISEVCRVLAYYKPEGELCTRSDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G VD +K+ LL +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGAVDDEKIKLLSRGVQLEDGPAAFKTLKFTGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIRI YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRIRYGDIDL 220 >gi|30019620|ref|NP_831251.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus ATCC 14579] gi|49477247|ref|YP_035689.1| pseudouridylate synthase [Bacillus thuringiensis serovar konkukian str. 97-27] gi|118477028|ref|YP_894179.1| ribosomal large subunit pseudouridine synthase B [Bacillus thuringiensis str. Al Hakam] gi|196036830|ref|ZP_03104219.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus W] gi|196039034|ref|ZP_03106341.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus NVH0597-99] gi|196047636|ref|ZP_03114843.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus 03BB108] gi|206968047|ref|ZP_03229003.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus AH1134] gi|218232708|ref|YP_002366253.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus B4264] gi|218902682|ref|YP_002450516.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus AH820] gi|225863435|ref|YP_002748813.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus 03BB102] gi|228914146|ref|ZP_04077764.1| Pseudouridine synthase [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228920281|ref|ZP_04083629.1| Pseudouridine synthase [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228926603|ref|ZP_04089672.1| Pseudouridine synthase [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228932858|ref|ZP_04095725.1| Pseudouridine synthase [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228945172|ref|ZP_04107528.1| Pseudouridine synthase [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228951948|ref|ZP_04114046.1| Pseudouridine synthase [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228957847|ref|ZP_04119587.1| Pseudouridine synthase [Bacillus thuringiensis serovar pakistani str. T13001] gi|229043313|ref|ZP_04191033.1| Pseudouridine synthase [Bacillus cereus AH676] gi|229069124|ref|ZP_04202416.1| Pseudouridine synthase [Bacillus cereus F65185] gi|229078754|ref|ZP_04211308.1| Pseudouridine synthase [Bacillus cereus Rock4-2] gi|229090533|ref|ZP_04221769.1| Pseudouridine synthase [Bacillus cereus Rock3-42] gi|229109026|ref|ZP_04238627.1| Pseudouridine synthase [Bacillus cereus Rock1-15] gi|229121114|ref|ZP_04250351.1| Pseudouridine synthase [Bacillus cereus 95/8201] gi|229126886|ref|ZP_04255898.1| Pseudouridine synthase [Bacillus cereus BDRD-Cer4] gi|229144171|ref|ZP_04272585.1| Pseudouridine synthase [Bacillus cereus BDRD-ST24] gi|229149770|ref|ZP_04278000.1| Pseudouridine synthase [Bacillus cereus m1550] gi|229177979|ref|ZP_04305351.1| Pseudouridine synthase [Bacillus cereus 172560W] gi|229183767|ref|ZP_04310984.1| Pseudouridine synthase [Bacillus cereus BGSC 6E1] gi|229189653|ref|ZP_04316668.1| Pseudouridine synthase [Bacillus cereus ATCC 10876] gi|254721252|ref|ZP_05183042.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A1055] gi|296502142|ref|YP_003663842.1| ribosomal large subunit pseudouridine synthase B [Bacillus thuringiensis BMB171] gi|29895164|gb|AAP08452.1| Ribosomal large subunit pseudouridine synthase B [Bacillus cereus ATCC 14579] gi|49328803|gb|AAT59449.1| pseudouridylate synthase [Bacillus thuringiensis serovar konkukian str. 97-27] gi|118416253|gb|ABK84672.1| ribosomal large subunit pseudouridine synthase B [Bacillus thuringiensis str. Al Hakam] gi|195990559|gb|EDX54538.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus W] gi|196021550|gb|EDX60250.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus 03BB108] gi|196030179|gb|EDX68779.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus NVH0597-99] gi|206736967|gb|EDZ54114.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus AH1134] gi|218160665|gb|ACK60657.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus B4264] gi|218539452|gb|ACK91850.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus AH820] gi|225790880|gb|ACO31097.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus 03BB102] gi|228593917|gb|EEK51721.1| Pseudouridine synthase [Bacillus cereus ATCC 10876] gi|228599616|gb|EEK57219.1| Pseudouridine synthase [Bacillus cereus BGSC 6E1] gi|228605467|gb|EEK62916.1| Pseudouridine synthase [Bacillus cereus 172560W] gi|228633801|gb|EEK90400.1| Pseudouridine synthase [Bacillus cereus m1550] gi|228639179|gb|EEK95595.1| Pseudouridine synthase [Bacillus cereus BDRD-ST24] gi|228656826|gb|EEL12652.1| Pseudouridine synthase [Bacillus cereus BDRD-Cer4] gi|228662233|gb|EEL17836.1| Pseudouridine synthase [Bacillus cereus 95/8201] gi|228674495|gb|EEL29738.1| Pseudouridine synthase [Bacillus cereus Rock1-15] gi|228692800|gb|EEL46523.1| Pseudouridine synthase [Bacillus cereus Rock3-42] gi|228704627|gb|EEL57059.1| Pseudouridine synthase [Bacillus cereus Rock4-2] gi|228714069|gb|EEL65952.1| Pseudouridine synthase [Bacillus cereus F65185] gi|228726027|gb|EEL77264.1| Pseudouridine synthase [Bacillus cereus AH676] gi|228801763|gb|EEM48640.1| Pseudouridine synthase [Bacillus thuringiensis serovar pakistani str. T13001] gi|228807871|gb|EEM54392.1| Pseudouridine synthase [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228814407|gb|EEM60672.1| Pseudouridine synthase [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228826779|gb|EEM72546.1| Pseudouridine synthase [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228832979|gb|EEM78547.1| Pseudouridine synthase [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228839480|gb|EEM84773.1| Pseudouridine synthase [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228845479|gb|EEM90512.1| Pseudouridine synthase [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|296323194|gb|ADH06122.1| ribosomal large subunit pseudouridine synthase B [Bacillus thuringiensis BMB171] Length = 242 Score = 155 bits (392), Expect = 9e-36, Method: Compositional matrix adjust. Identities = 83/226 (36%), Positives = 136/226 (60%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ SD GRS V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLY-KPTGVISSVSDDKGRSVVTDFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ +V + + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVTLEDGKTAPARVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELT 226 >gi|221134960|ref|ZP_03561263.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Glaciecola sp. HTCC2999] Length = 331 Score = 155 bits (392), Expect = 9e-36, Method: Compositional matrix adjust. Identities = 93/217 (42%), Positives = 133/217 (61%), Gaps = 7/217 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---KAE 71 ++ KV+A G+ SRRE+E I Q R+ VNG + V +D I VDG L+ KA Sbjct: 4 KLQKVLANQGVGSRREMETWIEQGRISVNGTIAT-LGDRVEPSDQIRVDGHLLKRDQKAP 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGL 130 R+ +Y+KP G + + +DP GR TVFD LP+I S R I+VGRLD+NT GLLL TNDG L Sbjct: 63 VCRVLMYNKPEGELCSRTDPLGRQTVFDRLPNIQSGRWIAVGRLDLNTAGLLLFTNDGEL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GIC-YGDMQVTLDTQKGSNAW 188 A L P + R Y VR G+V+ L LL+ G+ ++ G+ + + + ++ NAW Sbjct: 123 ANRLMHPRHEVEREYAVRVFGEVEPKTLKLLESGVELEDGLAKFTKIIARPNEEESINAW 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EG+NRE+++++E +V+RLIR+ YGP L Sbjct: 183 YNVSLSEGRNREVRRLWESQGVQVSRLIRLRYGPLSL 219 >gi|262276796|ref|ZP_06054589.1| ribosomal large subunit pseudouridine synthase B [alpha proteobacterium HIMB114] gi|262223899|gb|EEY74358.1| ribosomal large subunit pseudouridine synthase B [alpha proteobacterium HIMB114] Length = 245 Score = 155 bits (392), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 76/224 (33%), Positives = 128/224 (57%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K++A SRRE+E +I+ Q++K+N ++ A V D I ++G + ++ Sbjct: 7 RIAKLLASYNYGSRREIENLISNQKIKLNNKIILTPATFVNEEDKITINGKKVLFKKKIS 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +KP ++ + + D R +++ L S + I GRLD +EGL++LTND L R L Sbjct: 67 ILKLYKPKNVICSKNKQDKREIIYEILDSKYKNFIFAGRLDFKSEGLIILTNDSSLTRNL 126 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELP ++ R Y VR G + +KL + +G I GI Y + ++ N + + L+ Sbjct: 127 ELPKNKFERKYEVRIFGDFNVEKLKIKSRGTKINGIQYKPFDFKIKSKIKKNTLIEMNLK 186 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EGK EI+ +F+ N +VN+L R+SYGPF+L +L G ++ SK Sbjct: 187 EGKKNEIRNIFKELNLQVNKLKRVSYGPFKLDNMLPGDLKKPSK 230 >gi|104782896|ref|YP_609394.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas entomophila L48] gi|95111883|emb|CAK16607.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas entomophila L48] Length = 353 Score = 155 bits (392), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 100/249 (40%), Positives = 146/249 (58%), Gaps = 13/249 (5%) Query: 1 MKDKNIVQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M DK++ + TP +++ KV+AR G+ SRR+VE I Q R+KVNG+ + V Sbjct: 1 MSDKDLQDQQPTPPSGEKLQKVLARIGVGSRRDVEAWIGQGRIKVNGVEAT-LGLRVDLH 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAITVDGKLIKRVEAAEATRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--I 170 RLDINT GLLL T DG LA L PS + R Y VR G+VD D ++ LK G++++ Sbjct: 120 RLDINTTGLLLFTTDGELANRLMHPSYEMDREYAVRVRGEVDDDMVDRLKAGVMLEDGPA 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LL 229 + D+Q + G N W + EG+NRE+++++E V+RL R+ +GP L + L Sbjct: 180 KFTDIQKAPGGE-GFNHWYHCVVMEGRNREVRRLWESQGVVVSRLKRVRFGPVFLNSDLP 238 Query: 230 AGSTREVSK 238 G RE+S+ Sbjct: 239 MGRWREMSQ 247 >gi|303256973|ref|ZP_07342987.1| ribosomal large subunit pseudouridine synthase B [Burkholderiales bacterium 1_1_47] gi|302860464|gb|EFL83541.1| ribosomal large subunit pseudouridine synthase B [Burkholderiales bacterium 1_1_47] Length = 355 Score = 155 bits (391), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 97/236 (41%), Positives = 136/236 (57%), Gaps = 12/236 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR 68 F +++ KV+A AGI SRR++E IA+ R+ VNG E A V V +D I DG +R Sbjct: 51 FANEKLHKVLADAGIGSRRDMEERIAEGRISVNG---EPAHVGQRVTPSDVIRFDGRIVR 107 Query: 69 KA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLL 122 ++ + ++ +YHKP G + + DP+GR TVFD+LP I +R I+VGRLD NTEGLL Sbjct: 108 RSALENNDVPKVLIYHKPAGEIVSKDDPEGRPTVFDHLPRIGGARWIAVGRLDFNTEGLL 167 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L T+ G LA L P + R Y VR G + + + L KGI + + Sbjct: 168 LFTDSGNLANFLMHPRHEIEREYAVRVQGTMSPEAKDKLLKGIKLDDGIAKFTTLEEGGG 227 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 KG N W V L EG+NRE++++FE V+RLIR+ YG +L + L G TR +S Sbjct: 228 KGFNRWYNVTLSEGRNREVRRMFEAVGLPVSRLIRVKYGNLELPSDLPRGKTRRMS 283 >gi|238798380|ref|ZP_04641862.1| Ribosomal large subunit pseudouridine synthase B [Yersinia mollaretii ATCC 43969] gi|238717765|gb|EEQ09599.1| Ribosomal large subunit pseudouridine synthase B [Yersinia mollaretii ATCC 43969] Length = 342 Score = 155 bits (391), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 92/220 (41%), Positives = 130/220 (59%), Gaps = 10/220 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E +I Q RV V+G L +R V V I +DG L Sbjct: 28 EKLQKVLARAGHGSRREIETIIQQGRVSVDGKISTLGDR--VEVTQATKIRLDGHLLSIT 85 Query: 71 ER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 E R+ Y+KP G + T +DP+GR TVFD LP + SR ++VGRLD+NT GLLL T Sbjct: 86 ESEEAVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFT 145 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQ+D +K+ L +G+ ++ ++ +G Sbjct: 146 TDGELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTISFQGGEGL 205 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 206 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINL 245 >gi|49184399|ref|YP_027651.1| RNA pseudouridine [Bacillus anthracis str. Sterne] gi|165872651|ref|ZP_02217281.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0488] gi|167634452|ref|ZP_02392773.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0442] gi|167641611|ref|ZP_02399857.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0193] gi|170689224|ref|ZP_02880420.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0465] gi|170706366|ref|ZP_02896827.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0389] gi|177651473|ref|ZP_02934262.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0174] gi|190568102|ref|ZP_03021012.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis Tsiankovskii-I] gi|227815681|ref|YP_002815690.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. CDC 684] gi|229602768|ref|YP_002865978.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0248] gi|254682364|ref|ZP_05146225.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. CNEVA-9066] gi|254733779|ref|ZP_05191493.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. Western North America USA6153] gi|254740530|ref|ZP_05198221.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. Kruger B] gi|254753919|ref|ZP_05205954.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. Vollum] gi|254759015|ref|ZP_05211042.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. Australia 94] gi|270000599|ref|YP_003329038.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. Ames] gi|291612213|ref|YP_003541027.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. 'Ames Ancestor'] gi|49178326|gb|AAT53702.1| RNA pseudouridine [Bacillus anthracis str. Sterne] gi|164711595|gb|EDR17142.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0488] gi|167510404|gb|EDR85804.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0193] gi|167530340|gb|EDR93066.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0442] gi|170128900|gb|EDS97766.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0389] gi|170666779|gb|EDT17546.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0465] gi|172082751|gb|EDT67814.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0174] gi|190560836|gb|EDV14811.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis Tsiankovskii-I] gi|224552864|gb|ACN55073.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. 'Ames Ancestor'] gi|227004794|gb|ACP14537.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. CDC 684] gi|229267176|gb|ACQ48813.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0248] gi|269850258|gb|ACZ49988.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. Ames] Length = 242 Score = 155 bits (391), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 83/226 (36%), Positives = 136/226 (60%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 KRLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ SD GRS V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLY-KPTGVISSVSDDKGRSVVTDFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ +V + + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVTLEDGKTAPARVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELT 226 >gi|87119433|ref|ZP_01075330.1| ribosomal large subunit pseudouridine synthase B [Marinomonas sp. MED121] gi|86164909|gb|EAQ66177.1| ribosomal large subunit pseudouridine synthase B [Marinomonas sp. MED121] Length = 296 Score = 155 bits (391), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 95/219 (43%), Positives = 131/219 (59%), Gaps = 11/219 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E I + RV VNG L +R V TD I++DG ++ Sbjct: 3 EKLQKVLARAGQGSRREMENRIREGRVLVNGDVATLGDRVKV----TDTIKLDGYEVKVT 58 Query: 71 ERT---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTN 126 E R+ +Y+KP G V T DP+GR TVFD LP + R I+VGRLDINT GLLL T Sbjct: 59 EAGASRRVIIYNKPEGEVCTRKDPEGRPTVFDKLPKLRGERWIAVGRLDINTSGLLLFTT 118 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PST+ R Y VR G+++ D + LKKG+++ + +G N Sbjct: 119 DGELANKLMHPSTEIDREYLVRVMGEINDDHIETLKKGVLLDDGMANFTDIVDGGGEGIN 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V + EG+NRE+++++E KVNRL R+ +GP L Sbjct: 179 RWFYVCVMEGRNREVRRLWESQGVKVNRLKRVRFGPVFL 217 >gi|171463770|ref|YP_001797883.1| pseudouridine synthase [Polynucleobacter necessarius subsp. necessarius STIR1] gi|171193308|gb|ACB44269.1| pseudouridine synthase [Polynucleobacter necessarius subsp. necessarius STIR1] Length = 417 Score = 155 bits (391), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 90/215 (41%), Positives = 126/215 (58%), Gaps = 5/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 ++ KV+A G+ SRR++E +I Q RV VNG L ++ TD + ++G P+ + +T Sbjct: 30 KLHKVLADVGMGSRRDMEDLIIQGRVSVNG-LPAHIGQSIGPTDQVRINGKPVHRKIQTK 88 Query: 74 --RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 R+ +YHKP G + + SDP+GR TVFD LP R I+VGRLD NTEGLLL T G L Sbjct: 89 PPRVIMYHKPAGEIVSQSDPEGRPTVFDRLPKPRQGRWIAVGRLDFNTEGLLLFTTSGEL 148 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P R Y VR G + Q+ LLK GI + +++ + +G+N W Sbjct: 149 ANRLMHPRYGVEREYAVRILGDLSQENTVLLKSGITLDDGQAKFLRLAIGGGEGANRWYH 208 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EG+NRE++++FE V+RLIR YG F L Sbjct: 209 VALSEGRNREVRRMFEAVGHTVSRLIRTRYGIFLL 243 >gi|217970106|ref|YP_002355340.1| pseudouridine synthase [Thauera sp. MZ1T] gi|217507433|gb|ACK54444.1| pseudouridine synthase [Thauera sp. MZ1T] Length = 379 Score = 155 bits (391), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 90/224 (40%), Positives = 136/224 (60%), Gaps = 11/224 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKA 70 P+R+ KV+A+AG+ASRRE+E + R+ VNG L + D ++V+G VPLR Sbjct: 116 PERLQKVLAQAGVASRREIEEWVVAGRISVNG-LPASLGQKIGPGDRVKVNGKLVPLRFT 174 Query: 71 ERT-RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 +R+ R+ +YHKP G + + DP+GR TVF+ LP + R ++VGRLD NT GLLL TNDG Sbjct: 175 QRSPRVLIYHKPEGEIVSRDDPEGRPTVFERLPILRKGRWLAVGRLDFNTSGLLLFTNDG 234 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQKGS 185 LA L P + R Y VR G++ ++++ L GI ++ G + L + +G+ Sbjct: 235 DLANKLMHPRYELEREYAVRILGELTEEQVKSLTDGIQLED---GPAKFNLLRDEGGEGA 291 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 N W V + EG+NRE++++FE V+RL+R+ YG +L L Sbjct: 292 NHWYRVTISEGRNREVRRMFEAVGLTVSRLMRVRYGSVELPARL 335 >gi|77360285|ref|YP_339860.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Pseudoalteromonas haloplanktis TAC125] gi|76875196|emb|CAI86417.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Pseudoalteromonas haloplanktis TAC125] Length = 290 Score = 155 bits (391), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 93/217 (42%), Positives = 134/217 (61%), Gaps = 6/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---KA 70 +++ KV+ARAG+ SRRE+E+ I RV VNG + + V TD I VDG ++ KA Sbjct: 7 EKLQKVLARAGVGSRREMEKYIDANRVSVNGKVA-KLGDRVEETDSIRVDGHTVKIEEKA 65 Query: 71 ER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 +R R+ +Y+KP G ++T DP+GR TVFD LP I R I+VGRLDINT GL+L TNDG Sbjct: 66 DRICRVIMYNKPEGELSTRKDPEGRRTVFDRLPRIDGERWIAVGRLDINTAGLMLFTNDG 125 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y R G+V ++ + L +G+ ++ + V +G N W Sbjct: 126 ELANRLMHPSYEVEREYSARVFGEVTKETIKNLTRGVELEDGPAKFLTVNPMGGEGINRW 185 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EG+NRE++++++ +V+RLIRI YG +L Sbjct: 186 YNVTLNEGRNREVRRLWQSQEVEVSRLIRIRYGKLEL 222 >gi|238786125|ref|ZP_04630080.1| Ribosomal large subunit pseudouridine synthase B [Yersinia bercovieri ATCC 43970] gi|238712977|gb|EEQ05034.1| Ribosomal large subunit pseudouridine synthase B [Yersinia bercovieri ATCC 43970] Length = 342 Score = 155 bits (391), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 92/220 (41%), Positives = 130/220 (59%), Gaps = 10/220 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E +I Q RV V+G L +R V V I +DG L Sbjct: 28 EKLQKVLARAGHGSRREIEAIIQQGRVSVDGKISTLGDR--VEVTQATKIRLDGHLLSIT 85 Query: 71 ER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 E R+ Y+KP G + T +DP+GR TVFD LP + SR ++VGRLD+NT GLLL T Sbjct: 86 ESEEAVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFT 145 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQ+D +K+ L +G+ ++ ++ +G Sbjct: 146 TDGELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTISFQGGEGL 205 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 206 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINL 245 >gi|198283587|ref|YP_002219908.1| RNA-binding S4 domain-containing protein [Acidithiobacillus ferrooxidans ATCC 53993] gi|218666928|ref|YP_002426211.1| ribosomal large subunit pseudouridine synthase B [Acidithiobacillus ferrooxidans ATCC 23270] gi|198248108|gb|ACH83701.1| RNA-binding S4 domain protein [Acidithiobacillus ferrooxidans ATCC 53993] gi|218519141|gb|ACK79727.1| ribosomal large subunit pseudouridine synthase B [Acidithiobacillus ferrooxidans ATCC 23270] Length = 292 Score = 155 bits (391), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 97/221 (43%), Positives = 131/221 (59%), Gaps = 6/221 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +++ KV+AR G+ SRR +E IA RV VNG + + V + D I VDG LR Sbjct: 3 EKLQKVLARFGLGSRRLMEEWIAAGRVVVNG-QIAKLGDRVTAQDKIAVDGETLRIPSWV 61 Query: 72 --RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R R+ YHKP G +TT +DP GR TVFD LP + SR I+VGRLD NTEGLLLLTNDG Sbjct: 62 RPRLRVLRYHKPAGELTTRNDPAGRPTVFDRLPRLRGSRWIAVGRLDYNTEGLLLLTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P R Y VR G+V ++ L +G+V++ + + +G+N W Sbjct: 122 DLANALMHPRAGIEREYAVRVLGEVSPEQQVRLLQGVVLEDGEAHFVTLQEAGGEGANRW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V L EG+NRE++++FE V+RLIR+ YG ++ LL Sbjct: 182 YHVTLAEGRNREVRRLFEAVGLTVSRLIRVRYGVVEMPRLL 222 >gi|238790412|ref|ZP_04634183.1| Ribosomal large subunit pseudouridine synthase B [Yersinia frederiksenii ATCC 33641] gi|238721519|gb|EEQ13188.1| Ribosomal large subunit pseudouridine synthase B [Yersinia frederiksenii ATCC 33641] Length = 342 Score = 155 bits (391), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 88/218 (40%), Positives = 132/218 (60%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ K++ARAG SRRE+E +I Q RV V+G + + V V I +DG + ++++ Sbjct: 28 EKLQKILARAGHGSRREIETIIQQGRVSVDGKISKLGDRVEVTQATKIRLDGHLLSIKES 87 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T +DP+GR TVFD LP + SR ++VGRLD+NT GLLL T D Sbjct: 88 EEAVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTD 147 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQ+D +K+ L +G+ ++ + +G N Sbjct: 148 GELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTIKFQGGEGINQ 207 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 208 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINL 245 >gi|297538013|ref|YP_003673782.1| pseudouridine synthase [Methylotenera sp. 301] gi|297257360|gb|ADI29205.1| pseudouridine synthase [Methylotenera sp. 301] Length = 374 Score = 154 bits (390), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 86/233 (36%), Positives = 138/233 (59%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---A 70 QR+ K++A AG+ SRR++E +I+ RV VNG + V D + +D P++ A Sbjct: 37 QRLHKLLALAGLGSRRDMETLISSGRVTVNGAPATQGQ-GVTQFDTVRLDSRPVKLPFIA 95 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGG 129 E ++ +YHKP G + + DP+GR++VFD LP + + + I++GRLD+NT GLL+ T G Sbjct: 96 ELPQVLIYHKPEGEIVSQDDPEGRASVFDKLPKVKNGKWIAIGRLDMNTSGLLIFTTSGE 155 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA P + R Y VR G++ + ++ LK+GI ++ ++ +G+N W Sbjct: 156 LANRFMHPRYEVEREYAVRIFGELTEGQMTQLKEGIELEDGPANFDSISAQGGEGANHWY 215 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL------GTLLAGSTREV 236 V LREG+NRE++++FE F V+RL+R+ +GP L GT+L +EV Sbjct: 216 QVILREGRNREVRRLFEAFQLPVSRLMRVRFGPVNLPPRVKRGTMLKLEQKEV 268 >gi|27262400|gb|AAN87481.1| Ribosomal large subunit pseudouridine synthase B [Heliobacillus mobilis] Length = 253 Score = 154 bits (390), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 86/232 (37%), Positives = 132/232 (56%), Gaps = 1/232 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 T +R+ KV+A G+ASRRE E I RV+VNG ++ + V D I+VDG PL Sbjct: 9 TAERLQKVLAAHGLASRREAEDWIRAGRVQVNGTVVTELGLRVEEGKDVIQVDGKPLTVR 68 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ER + +L +KP G VTT DP+GR TV D L + +R+ VGRLD +TEGLLLLTNDG L Sbjct: 69 ERHQYFLLYKPRGFVTTRKDPEGRPTVIDLLKDVPARIYPVGRLDQDTEGLLLLTNDGEL 128 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y R G V + +G++++ +V + ++G W+ Sbjct: 129 AYRLTHPKYGVEKTYHARMRGNVPDPVIKAFAEGVMLEDGLTAPAKVKVLDREGGATWIE 188 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EG+NR+++++ + + V L R+S+GP + L G+ R + + +R Sbjct: 189 LTIHEGRNRQVRRMGDAVGYPVVHLTRVSFGPLTISGLKPGAYRPLKPQEVR 240 >gi|187923621|ref|YP_001895263.1| pseudouridine synthase [Burkholderia phytofirmans PsJN] gi|187714815|gb|ACD16039.1| pseudouridine synthase [Burkholderia phytofirmans PsJN] Length = 626 Score = 154 bits (390), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 135/228 (59%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRR++E +I RV VNG E A + +M TD + Sbjct: 202 KRVLAADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNG---EPAHIGQRIMPTDQVR 258 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ + R+ LYHKP G + +H+DP+GR++VFDNLP + ++ ++VGRLD N Sbjct: 259 INGKPVKRKLANKPPRVLLYHKPTGEIVSHADPEGRASVFDNLPPMKTAKWLAVGRLDFN 318 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ ++ +++ Sbjct: 319 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLNGVELEDGPANFLRI 378 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 379 RDGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPISL 426 >gi|227111426|ref|ZP_03825082.1| 23S rRNA pseudouridylate synthase B [Pectobacterium carotovorum subsp. brasiliensis PBR1692] Length = 294 Score = 154 bits (390), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 93/218 (42%), Positives = 130/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G I V V I +DG V +++ Sbjct: 3 EKLQKVLARAGHGSRREIEGIIQAGRVSVDGKIATLGDRVEVTKATKIRIDGHVVTVKET 62 Query: 71 ERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E + R+ +Y+KP G + T +DPDGR TVFD LP I SR ++VGRLD+NT GLLL T D Sbjct: 63 EESVCRVLMYYKPEGELCTRNDPDGRPTVFDRLPKIQGSRWVAVGRLDVNTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+VD +K+ L KG+ + + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGEVDDEKIKQLSKGVQLDDGPASFRTIRYQGGEGLNQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDITL 220 >gi|219669430|ref|YP_002459865.1| pseudouridine synthase [Desulfitobacterium hafniense DCB-2] gi|219539690|gb|ACL21429.1| pseudouridine synthase [Desulfitobacterium hafniense DCB-2] Length = 255 Score = 154 bits (390), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 91/229 (39%), Positives = 137/229 (59%), Gaps = 4/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A+AGIASRR E +I Q RVKVNG ++ V+STD I VDG L + Sbjct: 14 ERLQKVLAQAGIASRRHAEEIILQGRVKVNGEVIRTLGTKVVSTDRIVVDGRLLSIPQND 73 Query: 74 R-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L HKP G +T+ +DP GR TV + +P I RV VGRLD +T GLLLLTNDG LA Sbjct: 74 YAYYLLHKPTGYITSVTDPQGRKTVMELMPKIPRRVYPVGRLDYDTSGLLLLTNDGDLAH 133 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT-- 190 L PS + YRV ++ + L L+KG++++ ++ + KG + T Sbjct: 134 RLMHPSYGVEKTYRVEVGEKIPEQALKRLEKGVLLEDGKTAPARIREVSPKGRGSLPTYE 193 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK 238 + + EG+NR+++++F+ + ++ L R+ +GP +L LA G+ R +SK Sbjct: 194 ITIHEGRNRQVRRMFKAVGFPLSTLKRLRFGPLELDPSLAPGAFRTLSK 242 >gi|89895026|ref|YP_518513.1| hypothetical protein DSY2280 [Desulfitobacterium hafniense Y51] gi|89334474|dbj|BAE84069.1| hypothetical protein [Desulfitobacterium hafniense Y51] Length = 257 Score = 154 bits (390), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 91/229 (39%), Positives = 137/229 (59%), Gaps = 4/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A+AGIASRR E +I Q RVKVNG ++ V+STD I VDG L + Sbjct: 16 ERLQKVLAQAGIASRRHAEEIILQGRVKVNGEVIRTLGTKVVSTDRIVVDGRLLSIPQND 75 Query: 74 R-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L HKP G +T+ +DP GR TV + +P I RV VGRLD +T GLLLLTNDG LA Sbjct: 76 YAYYLLHKPTGYITSVTDPQGRKTVMELMPKIPRRVYPVGRLDYDTSGLLLLTNDGDLAH 135 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT-- 190 L PS + YRV ++ + L L+KG++++ ++ + KG + T Sbjct: 136 RLMHPSYGVEKTYRVEVGEKIPEQALKRLEKGVLLEDGKTAPARIREVSPKGRGSLPTYE 195 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK 238 + + EG+NR+++++F+ + ++ L R+ +GP +L LA G+ R +SK Sbjct: 196 ITIHEGRNRQVRRMFKAVGFPLSTLKRLRFGPLELDPSLAPGAFRTLSK 244 >gi|95931320|ref|ZP_01314035.1| Pseudouridine synthase, Rsu [Desulfuromonas acetoxidans DSM 684] gi|95132621|gb|EAT14305.1| Pseudouridine synthase, Rsu [Desulfuromonas acetoxidans DSM 684] Length = 242 Score = 154 bits (390), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 89/228 (39%), Positives = 132/228 (57%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R+ K+IA+AG+ASRR+ E+ + RV+VNG + S D IEVDG L +AE Sbjct: 3 TVERLQKLIAQAGLASRRQAEQWLKDGRVRVNGRSVTLGDKADPSVDRIEVDGKALPRAE 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L +KP+G VTT DP GR T+ L I RV VGRLD+N+EGLLLLTNDG L Sbjct: 63 QKLYLLLNKPLGYVTTLKDPQGRPTIRRFLKGIPQRVYPVGRLDVNSEGLLLLTNDGALT 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + L P Q + YRV+ +G++ L++G+ ++ V N+W + Sbjct: 123 QHLLHPRHQVSKTYRVKVNGRISPQACRQLEQGVELEDGVTAPAVVRNVHHSPRNSWFDL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +REG+NR+++++ ++V+ L RI G +LGTL G R ++ K Sbjct: 183 EIREGRNRQVRRMCRGVGFEVSALKRIRIGSLELGTLAKGQCRSLTSK 230 >gi|304396082|ref|ZP_07377964.1| pseudouridine synthase [Pantoea sp. aB] gi|304356451|gb|EFM20816.1| pseudouridine synthase [Pantoea sp. aB] Length = 296 Score = 154 bits (390), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 93/218 (42%), Positives = 127/218 (58%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E MIA RV V+G I V + I +DG + Sbjct: 3 EKLQKVLARAGHGSRREIESMIAAGRVSVDGKIATLGDRVESSKSLKIRIDGHLVSIAES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T SDP+GR TVFD LP + SR I+VGRLD+NT GL+L T D Sbjct: 63 ATEVCRVLAYYKPEGELCTRSDPEGRPTVFDRLPRLRGSRWIAVGRLDVNTCGLMLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD DK+ L KG+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDDKIRQLSKGVQLEDGPAAFKTLKFGGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RL+R+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLMRVRYGDITL 220 >gi|330999160|ref|ZP_08322879.1| pseudouridine synthase B, ribosomal large subunit [Parasutterella excrementihominis YIT 11859] gi|329575360|gb|EGG56904.1| pseudouridine synthase B, ribosomal large subunit [Parasutterella excrementihominis YIT 11859] Length = 313 Score = 154 bits (390), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 97/236 (41%), Positives = 136/236 (57%), Gaps = 12/236 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR 68 F +++ KV+A AGI SRR++E IA+ R+ VNG E A V V +D I DG +R Sbjct: 9 FANEKLHKVLADAGIGSRRDMEERIAEGRISVNG---EPAHVGQRVTPSDVIRFDGRIVR 65 Query: 69 KA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLL 122 ++ + ++ +YHKP G + + DP+GR TVFD+LP I +R I+VGRLD NTEGLL Sbjct: 66 RSALENNDVPKVLIYHKPAGEIVSKDDPEGRPTVFDHLPRIGGARWIAVGRLDFNTEGLL 125 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L T+ G LA L P + R Y VR G + + + L KGI + + Sbjct: 126 LFTDSGNLANFLMHPRHEIEREYAVRVQGTMSPEAKDKLLKGIKLDDGIAKFTTLEEGGG 185 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 KG N W V L EG+NRE++++FE V+RLIR+ YG +L + L G TR +S Sbjct: 186 KGFNRWYNVTLSEGRNREVRRMFEAVGLPVSRLIRVKYGNLELPSDLPRGKTRRMS 241 >gi|308187008|ref|YP_003931139.1| ribosomal large subunit pseudouridine synthase B [Pantoea vagans C9-1] gi|308057518|gb|ADO09690.1| ribosomal large subunit pseudouridine synthase B [Pantoea vagans C9-1] Length = 296 Score = 154 bits (390), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 93/218 (42%), Positives = 127/218 (58%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E MIA RV V+G I V + I +DG + Sbjct: 3 EKLQKVLARAGHGSRREIESMIAAGRVSVDGKIATLGDRVESSKSLKIRIDGHLVSIAES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T SDP+GR TVFD LP + SR I+VGRLD+NT GL+L T D Sbjct: 63 ATEVCRVLAYYKPEGELCTRSDPEGRPTVFDRLPRLRGSRWIAVGRLDVNTCGLMLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD DK+ L KG+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDDKIRQLSKGVQLEDGPAAFKTLKFGGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RL+R+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLMRVRYGDITL 220 >gi|218506664|ref|ZP_03504542.1| pseudouridylate synthase, subunit B protein [Rhizobium etli Brasil 5] Length = 157 Score = 154 bits (390), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 72/106 (67%), Positives = 87/106 (82%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+SKV+ARAG+ASRR++ERMI + RV +NG +LE VNV D IEVDGVP+R ERT Sbjct: 52 ERISKVMARAGVASRRDIERMIMEGRVTLNGKVLETPVVNVTLADRIEVDGVPIRGIERT 111 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 RLWLYHKP GLVTT++DP+GR TVFDNLP RV+S+GRLDINTE Sbjct: 112 RLWLYHKPAGLVTTNADPEGRPTVFDNLPEELPRVMSIGRLDINTE 157 >gi|238757070|ref|ZP_04618258.1| Ribosomal large subunit pseudouridine synthase B [Yersinia aldovae ATCC 35236] gi|238704900|gb|EEP97429.1| Ribosomal large subunit pseudouridine synthase B [Yersinia aldovae ATCC 35236] Length = 349 Score = 154 bits (389), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 91/220 (41%), Positives = 134/220 (60%), Gaps = 10/220 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDG--VPLR 68 +++ KV+ARAG SRRE+E +I Q RV V+G L +R V V I +DG + ++ Sbjct: 35 EKLQKVLARAGHGSRREIETIIQQGRVSVDGKISTLGDR--VEVTQATKIRLDGHLLSIK 92 Query: 69 KAERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 ++E T R+ Y+KP G + T +DP+GR TVFD LP + SR ++VGRLD+NT GLLL T Sbjct: 93 ESEETVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFT 152 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR G +D +K+ L +G+ ++ ++ +G Sbjct: 153 TDGELANRLMHPSREVEREYAVRVFGLIDDEKIKQLSRGVQLEDGPAAFRTISFQGGEGI 212 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 213 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINL 252 >gi|238763121|ref|ZP_04624087.1| Ribosomal large subunit pseudouridine synthase B [Yersinia kristensenii ATCC 33638] gi|238698620|gb|EEP91371.1| Ribosomal large subunit pseudouridine synthase B [Yersinia kristensenii ATCC 33638] Length = 324 Score = 154 bits (389), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 88/218 (40%), Positives = 133/218 (61%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ K++ARAG SRRE+E +I Q RV V+G + + V V I +DG + ++++ Sbjct: 10 EKLQKILARAGHGSRREIETIIQQGRVSVDGKISKLGDRVEVTQATKIRLDGHLLSIKES 69 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T +DP+GR TVFD LP + SR ++VGRLD+NT GLLL T D Sbjct: 70 EEAVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTD 129 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQ+D +K+ L +G+ ++ ++ +G N Sbjct: 130 GELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTISFQGGEGINQ 189 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 190 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINL 227 >gi|229010875|ref|ZP_04168072.1| Pseudouridine synthase [Bacillus mycoides DSM 2048] gi|228750549|gb|EEM00378.1| Pseudouridine synthase [Bacillus mycoides DSM 2048] Length = 242 Score = 154 bits (389), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 82/226 (36%), Positives = 135/226 (59%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ SD GR+ V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLY-KPTGVISSVSDDKGRNVVTDFFPEIRQRLFPIGRLDYDTSGVLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ Q + + ++ A V + Sbjct: 121 LMHPRYKIEKTYVAKIKGPLTGEKIRMLERGVALEDGKTAPAQAKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVMKLKRERYAFLEVGSLRPGDARELT 226 >gi|109899133|ref|YP_662388.1| pseudouridine synthase, Rsu [Pseudoalteromonas atlantica T6c] gi|109701414|gb|ABG41334.1| ribosomal large subunit pseudouridine synthase B [Pseudoalteromonas atlantica T6c] Length = 289 Score = 154 bits (389), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 92/218 (42%), Positives = 133/218 (61%), Gaps = 7/218 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ KV+A AG+ SRRE+E+ IA R+ VNG + V D + VDG + A ++ Sbjct: 3 EKLQKVLANAGVGSRREMEKWIASGRISVNGKVAT-LGDRVEPLDQLRVDGNLITAAAKS 61 Query: 74 ---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGG 129 R+ +Y+KP G + + DP GR TVFD LP I + R I+VGRLDINT GLLL TNDG Sbjct: 62 TICRVLMYNKPEGELCSRKDPQGRPTVFDRLPKIQNGRWIAVGRLDINTSGLLLFTNDGE 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GIC-YGDMQVTLDTQKGSNA 187 LA L P + R Y VR G+VD D + LKKG+ ++ G+ + +++ + N+ Sbjct: 122 LANRLMHPKHEIEREYAVRVFGEVDDDMIKRLKKGVELEDGVSKFTEVRKRPGDDESLNS 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EGKNRE+++++E +V+RLIR+ YG L Sbjct: 182 WYNVSLSEGKNREVRRLWESQGLQVSRLIRVRYGTLNL 219 >gi|332533576|ref|ZP_08409438.1| ribosomal large subunit pseudouridine synthase B [Pseudoalteromonas haloplanktis ANT/505] gi|332036978|gb|EGI73437.1| ribosomal large subunit pseudouridine synthase B [Pseudoalteromonas haloplanktis ANT/505] Length = 289 Score = 154 bits (389), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 93/217 (42%), Positives = 134/217 (61%), Gaps = 6/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---KA 70 +++ KV+ARAG+ SRRE+E+ I RV VNG + + V TD I VDG ++ KA Sbjct: 6 EKLQKVLARAGVGSRREMEKYIDANRVSVNGKVA-KLGDRVEETDLIRVDGHTVKIEEKA 64 Query: 71 ER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 +R R+ +Y+KP G ++T DP+GR TVFD LP I R I+VGRLD+NT GL+L TNDG Sbjct: 65 DRICRVIMYNKPEGELSTRKDPEGRRTVFDRLPRIDGDRWIAVGRLDVNTSGLMLFTNDG 124 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y R G+V + + L +G+ ++ VT +G N W Sbjct: 125 ELANRLMHPSYEVEREYSARVFGEVTNETVKNLLRGVELEDGPAKFTTVTPMGGEGVNRW 184 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EG+NRE++++++ + +V+RLIRI YG +L Sbjct: 185 FNVTLNEGRNREVRRLWQSQDAEVSRLIRIRYGKLEL 221 >gi|222151389|ref|YP_002560545.1| ribosomal large subunit pseudouridine synthase B [Macrococcus caseolyticus JCSC5402] gi|222120514|dbj|BAH17849.1| ribosomal large subunit pseudouridine synthase B [Macrococcus caseolyticus JCSC5402] Length = 245 Score = 154 bits (389), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 83/226 (36%), Positives = 134/226 (59%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA++G+ SRR+ E +I + +V VNG + V +D IEV+G+PL E+ Sbjct: 6 ERLQKVIAKSGVTSRRKAEVLITEGKVTVNGQTVTELGTKVKPSDIIEVEGIPLENPEKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+HKP G++T+ SD GR V D P + R+ VGRLD +T GLLLLTNDG A Sbjct: 66 YI-LFHKPTGVITSVSDEKGRKVVTDYFPGLNLRIFPVGRLDYDTSGLLLLTNDGDFANQ 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + + Y + G + ++++ L+KGI+++ V + +Q + + V + Sbjct: 125 MTHPKYKMKKKYVAKLKGFLLREQVKQLEKGIMLEDGKTAPALVKVKSQDKEKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++F F +V +L RI YGP L L AG RE++ Sbjct: 185 TIYEGRNRQVRRMFAHFGHEVVKLSRIEYGPLTLKGLNAGDARELT 230 >gi|152997397|ref|YP_001342232.1| RNA-binding S4 domain-containing protein [Marinomonas sp. MWYL1] gi|150838321|gb|ABR72297.1| RNA-binding S4 domain protein [Marinomonas sp. MWYL1] Length = 300 Score = 154 bits (389), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 96/219 (43%), Positives = 128/219 (58%), Gaps = 11/219 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDG---VPL 67 +++ KV+ARAG SRRE+E I + RV VNG L +R +V D I +DG + Sbjct: 3 EKLQKVLARAGQGSRREMETRIREGRVLVNGEVATLGDRVSVK----DTITIDGYSIIAT 58 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTN 126 E R+ +Y+KP G V T DP+GR TVFD LP + R I+VGRLDINT GLLL T Sbjct: 59 EAGENRRVIIYNKPEGEVCTRKDPEGRPTVFDKLPKLRGERWIAVGRLDINTSGLLLFTT 118 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PST+ R Y VR G+V + L LKKG+++ + +G N Sbjct: 119 DGELANRLMHPSTEIDREYLVRVMGEVTDENLAALKKGVILDDGIAKFTDIVDGGGEGIN 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E KVNRL R+ +GP L Sbjct: 179 RWFYVCLMEGRNREVRRLWESQGVKVNRLKRVRFGPVFL 217 >gi|238794709|ref|ZP_04638313.1| Ribosomal large subunit pseudouridine synthase B [Yersinia intermedia ATCC 29909] gi|238725940|gb|EEQ17490.1| Ribosomal large subunit pseudouridine synthase B [Yersinia intermedia ATCC 29909] Length = 342 Score = 154 bits (389), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 90/220 (40%), Positives = 133/220 (60%), Gaps = 10/220 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDG--VPLR 68 +++ K++ARAG SRRE+E +I Q RV V+G L +R V V I +DG + ++ Sbjct: 28 EKLQKILARAGHGSRREIETIIQQGRVSVDGKISTLGDR--VEVTQATKIRLDGHLLSIK 85 Query: 69 KAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 ++E R+ Y+KP G + T +DP+GR TVFD LP + SR ++VGRLD+NT GLLL T Sbjct: 86 ESEEAVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFT 145 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQ+D +K+ L +G+ + ++ +G Sbjct: 146 TDGELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLDDGPAAFRTISFQGGEGI 205 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 206 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINL 245 >gi|328868084|gb|EGG16464.1| Putative synthase [Dictyostelium fasciculatum] Length = 444 Score = 154 bits (389), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 91/237 (38%), Positives = 139/237 (58%), Gaps = 19/237 (8%) Query: 7 VQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEV 62 ++E P +R+ K ++R+G+ SRR+ ERMI + RV VNG + + + V TD + V Sbjct: 154 IEEKIDPNQVERLQKRLSRSGVTSRRQSERMIMEGRVCVNGKVASMKNDLFVKPTDIVTV 213 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEG 120 D + + + + DP+ + T+ L + ++ ++SVGRLD +EG Sbjct: 214 DN-----------KIIEESVPKICNLQDPE-KDTLIPILQKMLNKDHLMSVGRLDYYSEG 261 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+L+TNDG L+R LELP + + + YRVR G+V D L +G+ I GI Y M+++++ Sbjct: 262 LILITNDGELSRYLELPQSGFEKTYRVRIFGKVTPDMNMALTRGLTIDGIRYAPMKISVE 321 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 + SN WV L EGKNREI+++FE FN KV R+IR +GP+ L TL G T EV Sbjct: 322 RETDSNTWVICTLTEGKNREIRRIFEHFNVKVLRIIRTQFGPYTLPETLKPGETVEV 378 >gi|163939386|ref|YP_001644270.1| pseudouridine synthase [Bacillus weihenstephanensis KBAB4] gi|229132378|ref|ZP_04261232.1| Pseudouridine synthase [Bacillus cereus BDRD-ST196] gi|163861583|gb|ABY42642.1| pseudouridine synthase [Bacillus weihenstephanensis KBAB4] gi|228651084|gb|EEL07065.1| Pseudouridine synthase [Bacillus cereus BDRD-ST196] Length = 242 Score = 154 bits (389), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 82/226 (36%), Positives = 135/226 (59%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ SD GR+ V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLY-KPTGVISSVSDDKGRNVVTDFFPEIRQRLFPIGRLDYDTSGVLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ Q + + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVALEDGKTAPAQAKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVMKLKRERYAFLEVGSLRPGDARELT 226 >gi|229084572|ref|ZP_04216842.1| Pseudouridine synthase [Bacillus cereus Rock3-44] gi|228698722|gb|EEL51437.1| Pseudouridine synthase [Bacillus cereus Rock3-44] Length = 242 Score = 154 bits (389), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 84/226 (37%), Positives = 133/226 (58%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG ++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKVVTELGTKVTPQDKVEVNNIPLEKEEPI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ SD GR V D P I R+ +GRLD +T G+LL+TNDG A + Sbjct: 62 YFLLY-KPTGVISSVSDDKGRKVVTDFFPEIRQRLFPIGRLDYDTSGVLLMTNDGDFANI 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L+KG+V++ +V + + ++ A V + Sbjct: 121 LMHPKYKVEKTYVAKVKGPLTGEKIRMLEKGVVLEDGKTAPARVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE KV +L R Y + G+L G RE+S Sbjct: 181 TIHEGRNRQVRRMFEALGCKVMKLKRERYAFLEAGSLRPGDARELS 226 >gi|65318840|ref|ZP_00391799.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Bacillus anthracis str. A2012] Length = 242 Score = 154 bits (388), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 83/226 (36%), Positives = 136/226 (60%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 KRLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ SD GRS V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLY-KPTGVISSVSDDKGRSVVTDFSPEITQRLFPIGRLDYDTSGVLLMTNDGDFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ +V + + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVTLEDGKTAPARVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELT 226 >gi|330889215|gb|EGH21876.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. mori str. 301020] Length = 396 Score = 154 bits (388), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 107/270 (39%), Positives = 154/270 (57%), Gaps = 20/270 (7%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAISVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--I 170 RLDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPA 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LL 229 + D+Q + G N W + EG+NRE+++++E V+RL R+ YGP L + L Sbjct: 180 RFTDIQQAPGGE-GFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLP 238 Query: 230 AGSTREVSK---KILREQLGPHLLEEAQVN 256 G RE+S+ IL ++G + + Q+N Sbjct: 239 MGRWREMSQYEVDILAAEVGLQPVAQPQMN 268 >gi|161524931|ref|YP_001579943.1| pseudouridine synthase [Burkholderia multivorans ATCC 17616] gi|189350319|ref|YP_001945947.1| ribosomal large subunit pseudouridine synthase B [Burkholderia multivorans ATCC 17616] gi|160342360|gb|ABX15446.1| pseudouridine synthase [Burkholderia multivorans ATCC 17616] gi|189334341|dbj|BAG43411.1| ribosomal large subunit pseudouridine synthase B [Burkholderia multivorans ATCC 17616] Length = 554 Score = 154 bits (388), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 86/229 (37%), Positives = 133/229 (58%), Gaps = 9/229 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHI 60 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 170 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQV 226 Query: 61 EVDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDI 116 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD Sbjct: 227 RINGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDF 286 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLL+LT G LA P R Y VR G++ + L GI + ++ Sbjct: 287 NTEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSESARQKLLHGIELDDGPANFLR 346 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 347 IRDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 395 >gi|113460886|ref|YP_718953.1| ribosomal large subunit pseudouridine synthase B [Haemophilus somnus 129PT] gi|112822929|gb|ABI25018.1| ribosomal large subunit pseudouridine synthase B [Haemophilus somnus 129PT] Length = 325 Score = 154 bits (388), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 93/224 (41%), Positives = 134/224 (59%), Gaps = 6/224 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG-- 64 Q+ +R+ KV+ARAG SRR +E MI+ R+ ++G + V++ S I +DG Sbjct: 39 QQKVEGERLQKVLARAGQGSRRTIEAMISANRISIDGKMATLGDRVDIHSGVKIRIDGHI 98 Query: 65 VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGL 121 V L +A++ R+ LY+KP G + T DP+GR+TVFD LP + SR I+VGRLDINT GL Sbjct: 99 VNLTQAQKEVCRVLLYYKPEGELCTRHDPEGRATVFDRLPRLNGSRWIAVGRLDINTSGL 158 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L P + R Y VR G+VD + L+KG+ ++ + Sbjct: 159 LLFTTDGELANRLMHPRHEVEREYAVRVFGEVDDAMIARLRKGVQLEDGPANFTSIKATG 218 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 219 GQGMNQWFDVTLIEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 262 >gi|134299005|ref|YP_001112501.1| pseudouridine synthase [Desulfotomaculum reducens MI-1] gi|134051705|gb|ABO49676.1| ribosomal large subunit pseudouridine synthase B [Desulfotomaculum reducens MI-1] Length = 309 Score = 154 bits (388), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 90/231 (38%), Positives = 132/231 (57%), Gaps = 1/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A+AG+ASRR E +I +VKVNG + + V T D IEV G PL E+ Sbjct: 3 ERLQKILAKAGVASRRHSEELIISGQVKVNGKTVTEMGLKVDPTKDKIEVKGKPLPPLEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G VTT SD R TV D L + RV VGRLD ++EGLLLLTNDG L + Sbjct: 63 KVYLLMNKPRGYVTTLSDERDRKTVVDLLKGVEQRVYPVGRLDYDSEGLLLLTNDGELTQ 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y + G + ++L + KG+V++ V L + A + + Sbjct: 123 ALTHPKHKVKKTYLAKVDGIPETEELKAMAKGLVLEDGPTAPADVRLAGTGDNRALLEIS 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EG+NR+++++ E +KV RL R G +LG+L +G R ++KK LRE Sbjct: 183 IHEGRNRQVRRMCEHIGYKVLRLRRTRIGTLELGSLKSGEVRALTKKELRE 233 >gi|332307254|ref|YP_004435105.1| pseudouridine synthase [Glaciecola agarilytica 4H-3-7+YE-5] gi|332174583|gb|AEE23837.1| pseudouridine synthase [Glaciecola agarilytica 4H-3-7+YE-5] Length = 289 Score = 154 bits (388), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 133/218 (61%), Gaps = 7/218 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ KV+A AG+ SRRE+E+ IA R+ VNG + V D + VDG + A ++ Sbjct: 3 EKLQKVLANAGVGSRREMEKWIASGRISVNGKVAT-LGDRVEPVDQLRVDGNLITSAAKS 61 Query: 74 ---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGG 129 R+ +Y+KP G + + DP GR TVFD LP I + R I+VGRLDINT GLLL TNDG Sbjct: 62 TMCRVLMYNKPEGELCSRKDPQGRPTVFDRLPKIQNGRWIAVGRLDINTSGLLLFTNDGE 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GIC-YGDMQVTLDTQKGSNA 187 LA L P + R Y VR G+V+ D + LKKG+ ++ G+ + +++ + N+ Sbjct: 122 LANRLMHPKHEIEREYAVRVFGEVEDDMIKRLKKGVELEDGVSKFTEIRKRPGDDESLNS 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EGKNRE+++++E +V+RLIR+ YG L Sbjct: 182 WYNVSLSEGKNREVRRLWESQGLQVSRLIRVRYGTLNL 219 >gi|310767747|gb|ADP12697.1| 23S rRNA pseudouridylate synthase B [Erwinia sp. Ejp617] Length = 295 Score = 154 bits (388), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 92/218 (42%), Positives = 132/218 (60%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I+ RV V+G L V ++ I +DG VP+ ++ Sbjct: 3 EKLQKVLARAGHGSRREIETLISAGRVSVDGKLATLGDRVEPGASLKIRIDGHVVPVSES 62 Query: 71 --ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T SDP+GR TVFD LP + +R ++VGRLD+NT GLLL T D Sbjct: 63 ISEVCRILAYYKPEGELCTRSDPEGRPTVFDRLPKLRGARWVAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G VD +K+ LL +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGAVDDEKIKLLSRGVQLEDGPAAFKTLKFTGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIRI YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRIRYGDIDL 220 >gi|229166414|ref|ZP_04294170.1| Pseudouridine synthase [Bacillus cereus AH621] gi|228616988|gb|EEK74057.1| Pseudouridine synthase [Bacillus cereus AH621] Length = 242 Score = 154 bits (388), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 82/226 (36%), Positives = 135/226 (59%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ SD GR+ V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLY-KPTGVISSVSDDKGRNVVTDFFPEIRQRLFPIGRLDYDTSGVLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ Q + + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVALEDGKTAPAQAKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELT 226 >gi|300173429|ref|YP_003772595.1| ribosomal large subunit pseudouridine synthase B [Leuconostoc gasicomitatum LMG 18811] gi|299887808|emb|CBL91776.1| ribosomal large subunit pseudouridine synthase B [Leuconostoc gasicomitatum LMG 18811] Length = 249 Score = 154 bits (388), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 89/226 (39%), Positives = 134/226 (59%), Gaps = 2/226 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ K+IA+AG+ASRR E +IA+ RV+VNG + + V DH+EVDG P+ E+ Sbjct: 6 QRLQKIIAQAGLASRRGAEELIAKGRVQVNGQTITELGMKVEPNDHVEVDGSPIEGREKL 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+VTT++D GR TV D L + RV +GRLD +T G+LLLTNDG +A Sbjct: 66 VYYLLNKPRGVVTTNNDEKGRQTVIDLLGDVSQRVYPIGRLDYDTTGVLLLTNDGVVANQ 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P ++ +VY + G +KL LK G+VI+G +VT++ + + V V Sbjct: 126 LMHPKSRVDKVYVAKVEGIATDEKLAPLKHGVVIKGRKTAPARVTIERVDKDKKTSMVRV 185 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+N +IK + + + V +L R Y F L L +G R+++ Sbjct: 186 IIHEGRNHQIKNMLQKVHLPVVKLTREQYAFFDLIGLQSGEYRKLT 231 >gi|85059383|ref|YP_455085.1| 23S rRNA pseudouridylate synthase B [Sodalis glossinidius str. 'morsitans'] gi|84779903|dbj|BAE74680.1| putative pseudouridine synthase [Sodalis glossinidius str. 'morsitans'] Length = 297 Score = 154 bits (388), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 131/218 (60%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+AR+G SRRE+E +I Q RV V+G + V+V ST I +DG + ++ Sbjct: 5 EKLQKVLARSGQGSRREIEAVIEQGRVSVDGKVATLGDRVDVTSTTKIRIDGRIIAIKPV 64 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T DP+GR TVFD LP + +R ++VGRLDINT GLLL T D Sbjct: 65 EDAVCRVLTYYKPEGELCTRRDPEGRPTVFDRLPRLNNARWVAVGRLDINTSGLLLFTTD 124 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y +R G+VD+DK L +G+ + +T +G N Sbjct: 125 GELANRLMHPSCKIEREYALRVFGEVDEDKQRQLTRGVQLDDGPAAFRSLTFQGGEGLNQ 184 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 185 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDVTL 222 >gi|229074764|ref|ZP_04207783.1| Pseudouridine synthase [Bacillus cereus Rock4-18] gi|229096063|ref|ZP_04227037.1| Pseudouridine synthase [Bacillus cereus Rock3-29] gi|229102175|ref|ZP_04232885.1| Pseudouridine synthase [Bacillus cereus Rock3-28] gi|229115019|ref|ZP_04244430.1| Pseudouridine synthase [Bacillus cereus Rock1-3] gi|228668435|gb|EEL23866.1| Pseudouridine synthase [Bacillus cereus Rock1-3] gi|228681245|gb|EEL35412.1| Pseudouridine synthase [Bacillus cereus Rock3-28] gi|228687355|gb|EEL41259.1| Pseudouridine synthase [Bacillus cereus Rock3-29] gi|228708362|gb|EEL60516.1| Pseudouridine synthase [Bacillus cereus Rock4-18] Length = 242 Score = 154 bits (388), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 81/226 (35%), Positives = 136/226 (60%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ SD GR+ V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLY-KPTGVISSVSDDKGRNVVTDFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ ++++ ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVTLEDGKTAPANVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELT 226 >gi|296112011|ref|YP_003622393.1| pseudouridylate synthase [Leuconostoc kimchii IMSNU 11154] gi|295833543|gb|ADG41424.1| pseudouridylate synthase [Leuconostoc kimchii IMSNU 11154] Length = 249 Score = 154 bits (388), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 91/226 (40%), Positives = 131/226 (57%), Gaps = 2/226 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QRV KVIA+AG+ASRR E +I + RV+VNG + V V TD + VD +PL E+ Sbjct: 6 QRVQKVIAQAGLASRRGAEELIIKGRVQVNGQTITALGVKVEPTDTVTVDSIPLEGREKL 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+VTT++D GR TV D L + RV +GRLD +T G+LLLTNDG +A Sbjct: 66 VYYLLNKPRGVVTTNNDEKGRRTVLDILSDVNERVYPIGRLDYDTTGVLLLTNDGVIANQ 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P ++ +VY + G DKL LK G+VI+G +VT++ + + V V Sbjct: 126 LMHPKSRVDKVYIAKVAGIATDDKLAPLKHGVVIKGRKTAPARVTIERIDKDKKTSMVRV 185 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+N ++K + + V +L R Y F L L +G R+++ Sbjct: 186 ILHEGRNHQVKNMLQKVGLPVEKLTREQYAFFDLTGLQSGEYRKLT 231 >gi|221214882|ref|ZP_03587850.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD1] gi|221165109|gb|EED97587.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD1] Length = 554 Score = 154 bits (388), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 86/229 (37%), Positives = 133/229 (58%), Gaps = 9/229 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHI 60 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 170 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQV 226 Query: 61 EVDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDI 116 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD Sbjct: 227 RINGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDF 286 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLL+LT G LA P R Y VR G++ + L GI + ++ Sbjct: 287 NTEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSESARQKLLHGIELDDGPANFLR 346 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 347 IRDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 395 >gi|167629967|ref|YP_001680466.1| pseudouridine synthase [Heliobacterium modesticaldum Ice1] gi|167592707|gb|ABZ84455.1| pseudouridine synthase [Heliobacterium modesticaldum Ice1] Length = 333 Score = 153 bits (387), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 93/243 (38%), Positives = 132/243 (54%), Gaps = 1/243 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G+ASRRE E MI RV++NG ++ V V + D IEVDG L++ E Sbjct: 7 RLQKLLAAHGVASRREAEAMIRAGRVRINGTVVREQGVRVDGARDVIEVDGRILKRREAP 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G+VTT DP GR TV L + RV VGRLD +TEGLLLLTNDG LA Sbjct: 67 LYYALYKPRGVVTTCKDPQGRQTVIGLLSGVNERVYPVGRLDRDTEGLLLLTNDGQLAFR 126 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + YR R G V L L +G+ ++ QV L ++G W+ + + Sbjct: 127 LTHPRFGVEKTYRARLRGDVSAGALKALAEGVQLEDGVTAPAQVRLLRREGDATWIEIKI 186 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 EG+ R+I+++ + V L RI++GP LG L G R ++ LR ++EA Sbjct: 187 HEGRKRQIRRMGDAIGHPVIDLERIAFGPITLGKLKPGEVRPLTSAELRALKSAAGMKEA 246 Query: 254 QVN 256 + Sbjct: 247 TAH 249 >gi|71735145|ref|YP_275686.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. phaseolicola 1448A] gi|289650389|ref|ZP_06481732.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. aesculi str. 2250] gi|71555698|gb|AAZ34909.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. phaseolicola 1448A] gi|331012316|gb|EGH92372.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. tabaci ATCC 11528] Length = 408 Score = 153 bits (387), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 107/270 (39%), Positives = 154/270 (57%), Gaps = 20/270 (7%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAISVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--I 170 RLDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPA 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LL 229 + D+Q + G N W + EG+NRE+++++E V+RL R+ YGP L + L Sbjct: 180 RFTDIQQAPGGE-GFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLP 238 Query: 230 AGSTREVSK---KILREQLGPHLLEEAQVN 256 G RE+S+ IL ++G + + Q+N Sbjct: 239 MGRWREMSQYEVDILAAEVGLQPVAQPQMN 268 >gi|221197754|ref|ZP_03570800.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD2M] gi|221204688|ref|ZP_03577705.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD2] gi|221175545|gb|EEE07975.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD2] gi|221181686|gb|EEE14087.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD2M] Length = 541 Score = 153 bits (387), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 86/229 (37%), Positives = 133/229 (58%), Gaps = 9/229 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHI 60 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 157 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQV 213 Query: 61 EVDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDI 116 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD Sbjct: 214 RINGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDF 273 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLL+LT G LA P R Y VR G++ + L GI + ++ Sbjct: 274 NTEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSESARQKLLHGIELDDGPANFLR 333 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 334 IRDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 382 >gi|302188863|ref|ZP_07265536.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae 642] Length = 409 Score = 153 bits (387), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 107/270 (39%), Positives = 154/270 (57%), Gaps = 20/270 (7%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAISVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--I 170 RLDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPA 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LL 229 + D+Q + G N W + EG+NRE+++++E V+RL R+ YGP L + L Sbjct: 180 RFTDIQQAPGGE-GFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLP 238 Query: 230 AGSTREVSK---KILREQLGPHLLEEAQVN 256 G RE+S+ IL ++G + + Q+N Sbjct: 239 MGRWREMSQYEVDILAAEVGLQPVAQPQMN 268 >gi|237799081|ref|ZP_04587542.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. oryzae str. 1_6] gi|331021935|gb|EGI01992.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. oryzae str. 1_6] Length = 409 Score = 153 bits (387), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 107/270 (39%), Positives = 154/270 (57%), Gaps = 20/270 (7%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAISVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--I 170 RLDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPA 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LL 229 + D+Q + G N W + EG+NRE+++++E V+RL R+ YGP L + L Sbjct: 180 RFTDIQQAPGGE-GFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLP 238 Query: 230 AGSTREVSK---KILREQLGPHLLEEAQVN 256 G RE+S+ IL ++G + + Q+N Sbjct: 239 MGRWREMSQYEVDILAAEVGLQPVAQPQMN 268 >gi|330980378|gb|EGH78489.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. aptata str. DSM 50252] Length = 408 Score = 153 bits (387), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 107/270 (39%), Positives = 154/270 (57%), Gaps = 20/270 (7%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAISVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--I 170 RLDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPA 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LL 229 + D+Q + G N W + EG+NRE+++++E V+RL R+ YGP L + L Sbjct: 180 RFTDIQQAPGGE-GFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLP 238 Query: 230 AGSTREVSK---KILREQLGPHLLEEAQVN 256 G RE+S+ IL ++G + + Q+N Sbjct: 239 MGRWREMSQYEVDILAAEVGLQPVAQPQMN 268 >gi|330866214|gb|EGH00923.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. aesculi str. 0893_23] Length = 408 Score = 153 bits (387), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 107/270 (39%), Positives = 154/270 (57%), Gaps = 20/270 (7%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAISVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--I 170 RLDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPA 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LL 229 + D+Q + G N W + EG+NRE+++++E V+RL R+ YGP L + L Sbjct: 180 RFTDIQQAPGGE-GFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLP 238 Query: 230 AGSTREVSK---KILREQLGPHLLEEAQVN 256 G RE+S+ IL ++G + + Q+N Sbjct: 239 MGRWREMSQYEVDILAAEVGLQPVAQPQMN 268 >gi|298488132|ref|ZP_07006169.1| Pseudouridine synthase family protein [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|298157411|gb|EFH98494.1| Pseudouridine synthase family protein [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] Length = 408 Score = 153 bits (387), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 107/270 (39%), Positives = 154/270 (57%), Gaps = 20/270 (7%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAISVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--I 170 RLDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILKDGPA 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LL 229 + D+Q + G N W + EG+NRE+++++E V+RL R+ YGP L + L Sbjct: 180 RFTDIQQAPGGE-GFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLP 238 Query: 230 AGSTREVSK---KILREQLGPHLLEEAQVN 256 G RE+S+ IL ++G + + Q+N Sbjct: 239 MGRWREMSQYEVDILAAEVGLQPVAQPQMN 268 >gi|327394043|dbj|BAK11465.1| ribosomal large subunit pseudouridine synthase B RluB [Pantoea ananatis AJ13355] Length = 294 Score = 153 bits (387), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 92/218 (42%), Positives = 126/218 (57%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E MIA RV V+G L + I +DG + Sbjct: 3 EKLQKVLARAGHGSRREIEAMIAAGRVSVDGKLATLGDRIENSKALKIRIDGHLVSIAES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T SDP+GR TVFD LP + SR I+VGRLD+NT GL+L T D Sbjct: 63 ATEVCRVLAYYKPEGELCTRSDPEGRPTVFDRLPRLRGSRWIAVGRLDVNTCGLMLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD DK+ L KG+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDDKIRQLSKGVQLEDGPAAFKTLRFAGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RL+R+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLMRVRYGDITL 220 >gi|119469277|ref|ZP_01612216.1| pseudouridine synthase [Alteromonadales bacterium TW-7] gi|119447141|gb|EAW28410.1| pseudouridine synthase [Alteromonadales bacterium TW-7] Length = 289 Score = 153 bits (387), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 93/221 (42%), Positives = 134/221 (60%), Gaps = 6/221 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR- 68 N +++ KV+ARAG+ SRRE+E+ I RV VNG + + V TD I VDG ++ Sbjct: 2 NIQGEKLQKVLARAGVGSRREMEKYIDANRVSVNGKVA-KLGDRVEETDLIRVDGHTVKI 60 Query: 69 --KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLL 124 KA+R R+ +Y+KP G ++T DP+GR TVFD LP I R I+VGRLD+NT GL+L Sbjct: 61 EEKADRICRVIMYNKPEGELSTRKDPEGRRTVFDRLPRIDGDRWIAVGRLDVNTSGLMLF 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LA L PS + R Y R G+V + L L +G+ ++ + +G Sbjct: 121 TNDGELANRLMHPSYEVEREYSSRVFGEVTNETLKNLMRGVELEDGPAKFTNIKPLGGEG 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE++++++ + +V+RLIRI YG +L Sbjct: 181 INRWFNVTLNEGRNREVRRLWQSQDVEVSRLIRIRYGKLEL 221 >gi|126455204|ref|YP_001066028.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106a] gi|242317672|ref|ZP_04816688.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106b] gi|254198293|ref|ZP_04904715.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei S13] gi|126228846|gb|ABN92386.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106a] gi|169655034|gb|EDS87727.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei S13] gi|242140911|gb|EES27313.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106b] Length = 554 Score = 153 bits (387), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 133/228 (58%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 173 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVR 229 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ ++ R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 230 INGKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFN 289 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 290 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQRLLHGVELDDGPANFLRI 349 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 350 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 397 >gi|66046810|ref|YP_236651.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae B728a] gi|63257517|gb|AAY38613.1| Pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae B728a] gi|330897271|gb|EGH28690.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. japonica str. M301072PT] gi|330972281|gb|EGH72347.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. aceris str. M302273PT] Length = 409 Score = 153 bits (387), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 107/270 (39%), Positives = 154/270 (57%), Gaps = 20/270 (7%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAISVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--I 170 RLDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPA 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LL 229 + D+Q + G N W + EG+NRE+++++E V+RL R+ YGP L + L Sbjct: 180 RFTDIQQAPGGE-GFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLP 238 Query: 230 AGSTREVSK---KILREQLGPHLLEEAQVN 256 G RE+S+ IL ++G + + Q+N Sbjct: 239 MGRWREMSQYEVDILAAEVGLQPVAQPQMN 268 >gi|322420558|ref|YP_004199781.1| pseudouridine synthase [Geobacter sp. M18] gi|320126945|gb|ADW14505.1| pseudouridine synthase [Geobacter sp. M18] Length = 262 Score = 153 bits (386), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 86/225 (38%), Positives = 130/225 (57%), Gaps = 1/225 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K++++AGIASRRE E +IA+ RV VNG ++ TD I VDG P+ AE+ Sbjct: 3 ERLQKILSQAGIASRRESETIIAEGRVAVNGTVVTELGTKADPDTDTITVDGKPITIAEQ 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G +TT DP+GR V D L I RV +GRLD NTEGLLLLTNDG LA Sbjct: 63 RVYLLLYKPVGYMTTMKDPEGRPIVSDLLKGISERVYPIGRLDYNTEGLLLLTNDGALAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y VR G V ++ L +G+ ++ +V ++ +N+W+++ Sbjct: 123 TLMHPSHEVDKGYLVRVSGHVSPAQIQELSEGVKLEDGMTAPAKVLPVSESENNSWISIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+ R+++++ E V RL R Y +G + G R ++ Sbjct: 183 IHEGRYRQVRRMCEAVGLNVVRLKRSRYDFLVIGEMKPGDFRHLT 227 >gi|167719822|ref|ZP_02403058.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei DM98] Length = 399 Score = 153 bits (386), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 133/228 (58%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 97 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVR 153 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ ++ R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 154 INGKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFN 213 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 214 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRI 273 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 274 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 321 >gi|53719535|ref|YP_108521.1| hypothetical protein BPSL1921 [Burkholderia pseudomallei K96243] gi|126440981|ref|YP_001058776.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 668] gi|217423361|ref|ZP_03454862.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 576] gi|237812039|ref|YP_002896490.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei MSHR346] gi|254179983|ref|ZP_04886582.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1655] gi|254259934|ref|ZP_04950988.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1710a] gi|52209949|emb|CAH35921.1| conserved hypothetical protein [Burkholderia pseudomallei K96243] gi|126220474|gb|ABN83980.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 668] gi|184210523|gb|EDU07566.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1655] gi|217393219|gb|EEC33240.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 576] gi|237504108|gb|ACQ96426.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei MSHR346] gi|254218623|gb|EET08007.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1710a] Length = 554 Score = 153 bits (386), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 133/228 (58%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 173 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVR 229 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ ++ R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 230 INGKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFN 289 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 290 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRI 349 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 350 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 397 >gi|226199665|ref|ZP_03795218.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei Pakistan 9] gi|225928251|gb|EEH24285.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei Pakistan 9] Length = 554 Score = 153 bits (386), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 133/228 (58%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 173 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVR 229 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ ++ R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 230 INGKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFN 289 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 290 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQRLLHGVELDDGPANFLRI 349 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 350 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 397 >gi|167894529|ref|ZP_02481931.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 7894] Length = 395 Score = 153 bits (386), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 133/228 (58%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 90 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVR 146 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ ++ R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 147 INGKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFN 206 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 207 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRI 266 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 267 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 314 >gi|121600285|ref|YP_992840.1| RNA pseudouridine synthase family protein [Burkholderia mallei SAVP1] gi|124385307|ref|YP_001026183.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10229] gi|126448664|ref|YP_001080547.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10247] gi|167004349|ref|ZP_02270107.1| RNA pseudouridine synthase family protein [Burkholderia mallei PRL-20] gi|238562585|ref|ZP_00440124.2| RNA pseudouridine synthase family protein [Burkholderia mallei GB8 horse 4] gi|254177730|ref|ZP_04884385.1| RNA pseudouridine synthase family protein [Burkholderia mallei ATCC 10399] gi|254199711|ref|ZP_04906077.1| RNA pseudouridine synthase family protein [Burkholderia mallei FMH] gi|254358407|ref|ZP_04974680.1| RNA pseudouridine synthase family protein [Burkholderia mallei 2002721280] gi|121229095|gb|ABM51613.1| RNA pseudouridine synthase family protein [Burkholderia mallei SAVP1] gi|124293327|gb|ABN02596.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10229] gi|126241534|gb|ABO04627.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10247] gi|147749307|gb|EDK56381.1| RNA pseudouridine synthase family protein [Burkholderia mallei FMH] gi|148027534|gb|EDK85555.1| RNA pseudouridine synthase family protein [Burkholderia mallei 2002721280] gi|160698769|gb|EDP88739.1| RNA pseudouridine synthase family protein [Burkholderia mallei ATCC 10399] gi|238522261|gb|EEP85706.1| RNA pseudouridine synthase family protein [Burkholderia mallei GB8 horse 4] gi|243060317|gb|EES42503.1| RNA pseudouridine synthase family protein [Burkholderia mallei PRL-20] Length = 554 Score = 153 bits (386), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 133/228 (58%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 173 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVR 229 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ ++ R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 230 INGKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFN 289 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 290 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRI 349 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 350 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 397 >gi|167919194|ref|ZP_02506285.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei BCC215] Length = 408 Score = 153 bits (386), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 133/228 (58%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 99 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVR 155 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ ++ R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 156 INGKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFN 215 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 216 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRI 275 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 276 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 323 >gi|206559870|ref|YP_002230634.1| RNA pseudouridylate synthase family protein [Burkholderia cenocepacia J2315] gi|198035911|emb|CAR51803.1| RNA pseudouridylate synthase family protein [Burkholderia cenocepacia J2315] Length = 583 Score = 153 bits (386), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 85/229 (37%), Positives = 134/229 (58%), Gaps = 9/229 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHI 60 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 172 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNG---EPAHIGQRIMPTDQV 228 Query: 61 EVDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDI 116 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD Sbjct: 229 RINGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDF 288 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLL+LT G LA P R Y VR G++ + L G+ ++ ++ Sbjct: 289 NTEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLHGVELEDGPANFLR 348 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 349 IRDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 397 >gi|76809714|ref|YP_333311.1| RNA pseudouridylate synthase family protein [Burkholderia pseudomallei 1710b] gi|76579167|gb|ABA48642.1| RNA pseudouridylate synthase family protein [Burkholderia pseudomallei 1710b] Length = 513 Score = 153 bits (386), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 133/228 (58%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 132 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVR 188 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ ++ R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 189 INGKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFN 248 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 249 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRI 308 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 309 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 356 >gi|167845952|ref|ZP_02471460.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei B7210] Length = 384 Score = 153 bits (386), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 133/228 (58%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 84 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVR 140 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ ++ R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 141 INGKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFN 200 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 201 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQRLLHGVELDDGPANFLRI 260 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 261 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 308 >gi|289624030|ref|ZP_06456984.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. aesculi str. NCPPB3681] Length = 308 Score = 152 bits (385), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 107/270 (39%), Positives = 154/270 (57%), Gaps = 20/270 (7%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAISVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--I 170 RLDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPA 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LL 229 + D+Q + G N W + EG+NRE+++++E V+RL R+ YGP L + L Sbjct: 180 RFTDIQQAPGGE-GFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLP 238 Query: 230 AGSTREVSK---KILREQLGPHLLEEAQVN 256 G RE+S+ IL ++G + + Q+N Sbjct: 239 MGRWREMSQYEVDILAAEVGLQPVAQPQMN 268 >gi|320323233|gb|EFW79321.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. glycinea str. B076] gi|320329736|gb|EFW85725.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. glycinea str. race 4] gi|330881434|gb|EGH15583.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. glycinea str. race 4] Length = 408 Score = 152 bits (385), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 108/269 (40%), Positives = 153/269 (56%), Gaps = 18/269 (6%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTD 58 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG + A V V D Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNG---KDATVGQRVDLHD 60 Query: 59 HIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGR 113 I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GR Sbjct: 61 AISVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGR 120 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--IC 171 LDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 121 LDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPAR 180 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLA 230 + D+Q + G N W + EG+NRE+++++E V+RL R+ YGP L + L Sbjct: 181 FTDIQQAPGGE-GFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPM 239 Query: 231 GSTREVSK---KILREQLGPHLLEEAQVN 256 G RE+S+ IL ++G + + Q+N Sbjct: 240 GRWREMSQYEVDILAAEVGLQPVAQPQMN 268 >gi|170717435|ref|YP_001784534.1| pseudouridine synthase [Haemophilus somnus 2336] gi|168825564|gb|ACA30935.1| pseudouridine synthase [Haemophilus somnus 2336] Length = 348 Score = 152 bits (385), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 93/226 (41%), Positives = 134/226 (59%), Gaps = 6/226 (2%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG 64 I Q+ +R+ KV+AR G SRR +E MI+ R+ ++G + V++ S I +DG Sbjct: 60 INQQKVEGERLQKVLARVGQGSRRTIEAMISANRISIDGKMATLGDRVDIHSGVKIRIDG 119 Query: 65 --VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTE 119 V L +A++ R+ LY+KP G + T DP+GR+TVFD LP + SR I+VGRLDINT Sbjct: 120 HIVNLTQAQKEVCRVLLYYKPEGELCTRHDPEGRATVFDRLPRLNGSRWIAVGRLDINTS 179 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T DG LA L P + R Y VR G+VD + L+KG+ ++ + Sbjct: 180 GLLLFTTDGELANRLMHPRHEVEREYAVRVFGEVDDTMIARLRKGVQLEDGPANFTSIKA 239 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 240 TGGQGMNQWFDVTLIEGRNREVRRLWESQGIQVSRLIRIRYGNIKL 285 >gi|295676258|ref|YP_003604782.1| pseudouridine synthase [Burkholderia sp. CCGE1002] gi|295436101|gb|ADG15271.1| pseudouridine synthase [Burkholderia sp. CCGE1002] Length = 589 Score = 152 bits (385), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 134/228 (58%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRR++E +I RV VNG E A + +M TD + Sbjct: 188 KRVLSPDDDAPKLHKVLAEAGMGSRRDMEELIIAGRVSVNG---EPAHIGQRIMPTDQVR 244 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ ++ R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 245 INGKPVKRKLASKPPRVLLYHKPTGEIVSHADPEGRPSVFDKLPPMKTAKWVAVGRLDFN 304 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ ++ +++ Sbjct: 305 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLHGVELEDGPANFLRI 364 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 365 RDGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPISL 412 >gi|315282990|ref|ZP_07871273.1| ribosomal large subunit pseudouridine synthase B [Listeria marthii FSL S4-120] gi|313613361|gb|EFR87222.1| ribosomal large subunit pseudouridine synthase B [Listeria marthii FSL S4-120] Length = 244 Score = 152 bits (385), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 87/226 (38%), Positives = 133/226 (58%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E++I + +V VNG +++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGITSRRKAEKLIQEGKVTVNGKVVKELGVKVSGTERIEVEGIQLTKEEH- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G V+ +D GR+TV D I R+ VGRLD +T GLLL+TNDG A + Sbjct: 61 RYFLFYKPRGTVSAVTDDKGRTTVADYFADIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y R G +++ + L++G+VI G ++V + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRQLERGVVIDGRKTAPAKVKVRSSDKTKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++K+FE ++V +L R Y L L AG RE+S Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELS 226 >gi|167587342|ref|ZP_02379730.1| pseudouridine synthase [Burkholderia ubonensis Bu] Length = 389 Score = 152 bits (385), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 85/229 (37%), Positives = 133/229 (58%), Gaps = 9/229 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHI 60 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 66 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNG---EPAHIGQRIMPTDQV 122 Query: 61 EVDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDI 116 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD Sbjct: 123 RINGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDF 182 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLL+LT G LA P R Y VR G++ + L G+ + ++ Sbjct: 183 NTEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEGNRQKLLHGVELDDGPANFLR 242 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 243 IRDGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPIPL 291 >gi|330966753|gb|EGH67013.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. actinidiae str. M302091] Length = 408 Score = 152 bits (385), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 108/272 (39%), Positives = 154/272 (56%), Gaps = 24/272 (8%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQSRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAISVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILE---D 176 Query: 173 GDMQVTLDTQ----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT- 227 G + T Q +G N W + EG+NRE+++++E V+RL R+ YGP L + Sbjct: 177 GPARFTDIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSD 236 Query: 228 LLAGSTREVSK---KILREQLGPHLLEEAQVN 256 L G RE+S+ IL ++G + + Q+N Sbjct: 237 LPMGRWREMSQYEVDILSAEVGLQPVAQPQMN 268 >gi|167620251|ref|ZP_02388882.1| RNA pseudouridylate synthase family protein [Burkholderia thailandensis Bt4] Length = 431 Score = 152 bits (385), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 132/228 (57%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 129 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVR 185 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 186 INGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFN 245 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 246 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRI 305 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 306 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 353 >gi|312796184|ref|YP_004029106.1| ribosomal large subunit pseudouridine synthase B [Burkholderia rhizoxinica HKI 454] gi|312167959|emb|CBW74962.1| Ribosomal large subunit pseudouridine synthase B (EC 4.2.1.70) [Burkholderia rhizoxinica HKI 454] Length = 563 Score = 152 bits (385), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 85/217 (39%), Positives = 129/217 (59%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKA-- 70 ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + ++G P+++ Sbjct: 196 KLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVRINGKPVKRKLP 252 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 + R+ +YHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTEGLLLLT G Sbjct: 253 NKPPRVLIYHKPAGEIVSHADPEGRPSVFDKLPPMKTAKWLAVGRLDFNTEGLLLLTTSG 312 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA P Q R Y VR G++ + L G+ + +++ +G+N W Sbjct: 313 DLANRFMHPRYQVEREYAVRVIGELAESARQKLLNGVELDDGPASFLRIQDGGGEGTNRW 372 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EG+NRE++++FE V+RLIR +GP L Sbjct: 373 YHVALAEGRNREVRRMFEAVGLTVSRLIRTRHGPIVL 409 >gi|115351432|ref|YP_773271.1| pseudouridine synthase, Rsu [Burkholderia ambifaria AMMD] gi|115281420|gb|ABI86937.1| ribosomal large subunit pseudouridine synthase B [Burkholderia ambifaria AMMD] Length = 572 Score = 152 bits (385), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 85/229 (37%), Positives = 133/229 (58%), Gaps = 9/229 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHI 60 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 176 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNG---EPAHIGQRIMPTDQV 232 Query: 61 EVDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDI 116 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD Sbjct: 233 RINGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDF 292 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLL+LT G LA P R Y VR G++ + L G+ + ++ Sbjct: 293 NTEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEGMRQKLLHGVELDDGPANFLR 352 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 353 IRDGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPIPL 401 >gi|134295571|ref|YP_001119306.1| ribosomal large subunit pseudouridine synthase B [Burkholderia vietnamiensis G4] gi|134138728|gb|ABO54471.1| ribosomal large subunit pseudouridine synthase B [Burkholderia vietnamiensis G4] Length = 563 Score = 152 bits (385), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 85/229 (37%), Positives = 133/229 (58%), Gaps = 9/229 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHI 60 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 173 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNG---EPAHIGQRIMPTDQV 229 Query: 61 EVDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDI 116 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD Sbjct: 230 RINGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDF 289 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLL+LT G LA P R Y VR G++ + L G+ + ++ Sbjct: 290 NTEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEGMRQKLLHGVELDDGPANFLR 349 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 350 IRDGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPIPL 398 >gi|167824420|ref|ZP_02455891.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 9] Length = 374 Score = 152 bits (385), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 133/228 (58%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 66 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVR 122 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ ++ R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 123 INGKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFN 182 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 183 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQRLLHGVELDDGPANFLRI 242 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 243 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 290 >gi|167738823|ref|ZP_02411597.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 14] Length = 359 Score = 152 bits (385), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 134/230 (58%), Gaps = 9/230 (3%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDH 59 + K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD Sbjct: 47 QPKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQ 103 Query: 60 IEVDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLD 115 + ++G P+++ ++ R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD Sbjct: 104 VRINGKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLD 163 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 NTEGLL+LT G LA P R Y VR G++ + L G+ + + Sbjct: 164 FNTEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQRLLHGVELDDGPANFL 223 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 224 RIRDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 273 >gi|170700025|ref|ZP_02891050.1| RNA-binding S4 domain protein [Burkholderia ambifaria IOP40-10] gi|170135084|gb|EDT03387.1| RNA-binding S4 domain protein [Burkholderia ambifaria IOP40-10] Length = 427 Score = 152 bits (385), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 85/229 (37%), Positives = 133/229 (58%), Gaps = 9/229 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHI 60 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 31 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNG---EPAHIGQRIMPTDQV 87 Query: 61 EVDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDI 116 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD Sbjct: 88 RINGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDF 147 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLL+LT G LA P R Y VR G++ + L G+ + ++ Sbjct: 148 NTEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEGMRQKLLHGVELDDGPANFLR 207 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 208 IRDGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPIPL 256 >gi|172060471|ref|YP_001808123.1| RNA-binding S4 domain-containing protein [Burkholderia ambifaria MC40-6] gi|171992988|gb|ACB63907.1| RNA-binding S4 domain protein [Burkholderia ambifaria MC40-6] Length = 572 Score = 152 bits (384), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 85/229 (37%), Positives = 133/229 (58%), Gaps = 9/229 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHI 60 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 176 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNG---EPAHIGQRIMPTDQV 232 Query: 61 EVDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDI 116 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD Sbjct: 233 RINGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDF 292 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLL+LT G LA P R Y VR G++ + L G+ + ++ Sbjct: 293 NTEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEGMRQKLLHGVELDDGPANFLR 352 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 353 IRDGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPIPL 401 >gi|196248745|ref|ZP_03147445.1| pseudouridine synthase [Geobacillus sp. G11MC16] gi|196211621|gb|EDY06380.1| pseudouridine synthase [Geobacillus sp. G11MC16] Length = 243 Score = 152 bits (384), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 88/226 (38%), Positives = 132/226 (58%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIARAGIASRR+ E MI Q RVKVNG ++ V V D +EVDG+P+ + E Sbjct: 2 ERLQKVIARAGIASRRKAEEMILQGRVKVNGRVVTELGVKVGPRDDVEVDGIPVEREEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ D GR V D I R+ +GRLD +T GLLLLTNDG A + Sbjct: 62 -YYLLYKPRGVISSVKDEKGRKVVTDFFKDIHQRIYPIGRLDYDTSGLLLLTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G +++L L+KG++++ +V L + +K A V + Sbjct: 121 LMHPRYEIEKVYVAKVKGIPTREQLKQLEKGVLLEDGITAPAKVKLLSADRKKRTAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE +V +L R Y L L G RE+S Sbjct: 181 SIHEGRNRQVRRMFEAIGCEVLKLKRERYAFLDLKGLRPGEYRELS 226 >gi|330939561|gb|EGH42880.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. pisi str. 1704B] Length = 299 Score = 152 bits (384), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 107/270 (39%), Positives = 154/270 (57%), Gaps = 20/270 (7%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAISVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--I 170 RLDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPA 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LL 229 + D+Q + G N W + EG+NRE+++++E V+RL R+ YGP L + L Sbjct: 180 RFTDIQQAPGGE-GFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLP 238 Query: 230 AGSTREVSK---KILREQLGPHLLEEAQVN 256 G RE+S+ IL ++G + + Q+N Sbjct: 239 MGRWREMSQYEVDILAAEVGLQPVAQPQMN 268 >gi|171317089|ref|ZP_02906292.1| RNA-binding S4 domain protein [Burkholderia ambifaria MEX-5] gi|171097723|gb|EDT42550.1| RNA-binding S4 domain protein [Burkholderia ambifaria MEX-5] Length = 427 Score = 152 bits (384), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 85/229 (37%), Positives = 133/229 (58%), Gaps = 9/229 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHI 60 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 31 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNG---EPAHIGQRIMPTDQV 87 Query: 61 EVDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDI 116 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD Sbjct: 88 RINGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDF 147 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLL+LT G LA P R Y VR G++ + L G+ + ++ Sbjct: 148 NTEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEGMRQKLLHGVELDDGPANFLR 207 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 208 IRDGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPIPL 256 >gi|325571145|ref|ZP_08146717.1| ribosomal large subunit pseudouridine synthase B [Enterococcus casseliflavus ATCC 12755] gi|325156230|gb|EGC68416.1| ribosomal large subunit pseudouridine synthase B [Enterococcus casseliflavus ATCC 12755] Length = 240 Score = 152 bits (384), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 88/228 (38%), Positives = 131/228 (57%), Gaps = 3/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E +I + RV+VNG +++ V V S D +EVDGVP+ + E Sbjct: 4 ERLQKVIAHAGITSRRKAEGLITEGRVRVNGQVIKELGVQVGSKDVVEVDGVPIEQ-EPH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+++ +D R V D + RV VGRLD +T GLLLLTNDG L++ Sbjct: 63 VYYLFYKPRGVISAVTDDKKRKVVLDYFAEVPERVYPVGRLDYDTSGLLLLTNDGELSQT 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G D+ +L L KGI I+G ++ Q ++ V + Sbjct: 123 LMHPKHEVEKVYVAKVKGIADKKQLLPLTKGIRIEGRKTAPARFEILSTDQTAQSSIVQL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++K + + V +L R +YGP L L G RE+SKK Sbjct: 183 TIHEGRNHQVKNMLKAVGLPVQKLKRENYGPLDLKGLRPGEYRELSKK 230 >gi|148264550|ref|YP_001231256.1| pseudouridine synthase [Geobacter uraniireducens Rf4] gi|146398050|gb|ABQ26683.1| ribosomal large subunit pseudouridine synthase B [Geobacter uraniireducens Rf4] Length = 239 Score = 152 bits (384), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 92/223 (41%), Positives = 129/223 (57%), Gaps = 3/223 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K++++AGIASRRE ER+I RV VNG ++ E D I VDG P+R E Sbjct: 3 ERLQKILSQAGIASRREAERIITDGRVAVNGQVVTELGTKADAEKDRITVDGRPIR-VEA 61 Query: 73 TRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L+ L +KP+G +TT DP+GR V D L I RV VGRLD NTEGLLLLTNDG LA Sbjct: 62 NKLYVLLYKPVGYMTTMKDPEGRPIVTDLLKGIKERVYPVGRLDYNTEGLLLLTNDGALA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS + + Y VR G+V +L L G+ ++ V+L + N W+++ Sbjct: 122 NRLAHPSHEVDKGYLVRVRGKVTPAQLKHLAVGVDLEDGRTAPAVVSLVRESEQNCWISI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EG+ R+++++ E V RL R YG ++G L G R Sbjct: 182 TIHEGRYRQVRRMCEAVGLTVVRLKRSRYGFLEIGELKPGEYR 224 >gi|257867652|ref|ZP_05647305.1| pseudouridine synthase [Enterococcus casseliflavus EC30] gi|257873981|ref|ZP_05653634.1| pseudouridine synthase [Enterococcus casseliflavus EC10] gi|257801735|gb|EEV30638.1| pseudouridine synthase [Enterococcus casseliflavus EC30] gi|257808145|gb|EEV36967.1| pseudouridine synthase [Enterococcus casseliflavus EC10] Length = 240 Score = 152 bits (384), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 87/228 (38%), Positives = 132/228 (57%), Gaps = 3/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E +I + RV+VNG +++ V V S D +EVDGVP+ + E+ Sbjct: 4 ERLQKVIAHAGITSRRKAEGLITEGRVRVNGQVIKELGVQVSSKDVVEVDGVPIEQ-EQH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+++ +D R V D + RV VGRLD +T GLLLLTNDG L++ Sbjct: 63 VYYLFYKPRGVISAVTDDKKRKVVLDYFAEVPERVYPVGRLDYDTSGLLLLTNDGELSQT 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G D+ +L L KGI I+G ++ Q ++ V + Sbjct: 123 LMHPKHEVDKVYVAKVKGIADKKQLLPLTKGIRIEGRKTAPARFEILSTDQTAQSSIVQL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++K + + V +L R +YGP L L G RE++KK Sbjct: 183 TIHEGRNHQVKNMLKAVGLPVQKLKRENYGPLDLKGLRPGEYRELTKK 230 >gi|167816044|ref|ZP_02447724.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 91] Length = 358 Score = 152 bits (384), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 133/228 (58%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 60 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVR 116 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ ++ R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 117 INGKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFN 176 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 177 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRI 236 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 237 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 284 >gi|217963899|ref|YP_002349577.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes HCC23] gi|290892109|ref|ZP_06555105.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL J2-071] gi|217333169|gb|ACK38963.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes HCC23] gi|290558232|gb|EFD91750.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL J2-071] gi|307571531|emb|CAR84710.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes L99] gi|313607907|gb|EFR84057.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL F2-208] Length = 244 Score = 152 bits (384), Expect = 8e-35, Method: Compositional matrix adjust. Identities = 87/226 (38%), Positives = 132/226 (58%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E++I + +V VNG ++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGITSRRKAEKLIQEGKVTVNGKVVTELGVKVSGTERIEVEGIQLTKEEH- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G V+ +D GR+TV D I R+ VGRLD +T GLLL+TNDG A + Sbjct: 61 RYFLFYKPRGTVSAVTDDKGRTTVADYFADIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y R G +++ + L++G+VI G ++V + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRQLERGVVIDGRKTAPAKVKVRSSDKAKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++K+FE ++V +L R Y L L AG RE+S Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELS 226 >gi|192360200|ref|YP_001982275.1| RNA pseudouridylate synthase family protein [Cellvibrio japonicus Ueda107] gi|190686365|gb|ACE84043.1| RNA pseudouridylate synthase family protein [Cellvibrio japonicus Ueda107] Length = 376 Score = 152 bits (384), Expect = 8e-35, Method: Compositional matrix adjust. Identities = 100/227 (44%), Positives = 135/227 (59%), Gaps = 13/227 (5%) Query: 4 KNIVQENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTD 58 K V+E+ +P +++ KV+ARAGI SRRE+ER I + RVKVN +R A V TD Sbjct: 77 KPSVKESASPVDEKLQKVLARAGIGSRREMERAIEEGRVKVN----DRIATLGDRVTLTD 132 Query: 59 HIEVDG--VPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRL 114 I V G V LR +A R R+ LY+KP G + + DP+GR TV+D+LPS+ R ISVGRL Sbjct: 133 KIFVGGQRVVLRTEAARRRVILYNKPEGEICSRHDPEGRPTVYDSLPSLKGERWISVGRL 192 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D NT GLLL TNDG LA L PS+ R Y VR G VD D L +G+++ Sbjct: 193 DFNTSGLLLFTNDGELANKLMHPSSVIDREYLVRIQGDVDDDMKERLLEGVLLDDGVARF 252 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + +G N W + EG+NRE+++++E KV+RL R+ Y Sbjct: 253 TDIVDGAGEGKNRWFYCVVMEGRNREVRRLWESQGVKVSRLKRVRYA 299 >gi|170660220|ref|YP_001740050.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. tomato str. DC3000] gi|170652970|gb|ACB22026.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. tomato str. DC3000] gi|331017433|gb|EGH97489.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. lachrymans str. M302278PT] Length = 408 Score = 152 bits (384), Expect = 8e-35, Method: Compositional matrix adjust. Identities = 108/272 (39%), Positives = 154/272 (56%), Gaps = 24/272 (8%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAISVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILE---D 176 Query: 173 GDMQVTLDTQ----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT- 227 G + T Q +G N W + EG+NRE+++++E V+RL R+ YGP L + Sbjct: 177 GPARFTDIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSD 236 Query: 228 LLAGSTREVSK---KILREQLGPHLLEEAQVN 256 L G RE+S+ IL ++G + + Q+N Sbjct: 237 LPMGRWREMSQYEVDILSAEVGLQPVAQPQMN 268 >gi|107022570|ref|YP_620897.1| pseudouridine synthase, Rsu [Burkholderia cenocepacia AU 1054] gi|116689519|ref|YP_835142.1| pseudouridine synthase, Rsu [Burkholderia cenocepacia HI2424] gi|105892759|gb|ABF75924.1| ribosomal large subunit pseudouridine synthase B [Burkholderia cenocepacia AU 1054] gi|116647608|gb|ABK08249.1| ribosomal large subunit pseudouridine synthase B [Burkholderia cenocepacia HI2424] Length = 586 Score = 152 bits (384), Expect = 8e-35, Method: Compositional matrix adjust. Identities = 85/229 (37%), Positives = 133/229 (58%), Gaps = 9/229 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHI 60 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 174 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNG---EPAHIGQRIMPTDQV 230 Query: 61 EVDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDI 116 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD Sbjct: 231 RINGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDF 290 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLL+LT G LA P R Y VR G++ + L G+ + ++ Sbjct: 291 NTEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLHGVELDDGPANFLR 350 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 351 IRDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 399 >gi|213968651|ref|ZP_03396793.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. tomato T1] gi|301384619|ref|ZP_07233037.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. tomato Max13] gi|302059631|ref|ZP_07251172.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. tomato K40] gi|302130734|ref|ZP_07256724.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. tomato NCPPB 1108] gi|213926584|gb|EEB60137.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. tomato T1] gi|330879716|gb|EGH13865.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. morsprunorum str. M302280PT] Length = 408 Score = 152 bits (384), Expect = 8e-35, Method: Compositional matrix adjust. Identities = 108/272 (39%), Positives = 154/272 (56%), Gaps = 24/272 (8%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAISVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILE---D 176 Query: 173 GDMQVTLDTQ----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT- 227 G + T Q +G N W + EG+NRE+++++E V+RL R+ YGP L + Sbjct: 177 GPARFTDIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSD 236 Query: 228 LLAGSTREVSK---KILREQLGPHLLEEAQVN 256 L G RE+S+ IL ++G + + Q+N Sbjct: 237 LPMGRWREMSQYEVDILSAEVGLQPVAQPQMN 268 >gi|170732823|ref|YP_001764770.1| RNA-binding S4 domain-containing protein [Burkholderia cenocepacia MC0-3] gi|169816065|gb|ACA90648.1| RNA-binding S4 domain protein [Burkholderia cenocepacia MC0-3] Length = 586 Score = 152 bits (384), Expect = 8e-35, Method: Compositional matrix adjust. Identities = 85/229 (37%), Positives = 133/229 (58%), Gaps = 9/229 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHI 60 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 174 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNG---EPAHIGQRIMPTDQV 230 Query: 61 EVDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDI 116 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD Sbjct: 231 RINGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDF 290 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLL+LT G LA P R Y VR G++ + L G+ + ++ Sbjct: 291 NTEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLHGVELDDGPANFLR 350 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 351 IRDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 399 >gi|116873391|ref|YP_850172.1| ribosomal large subunit pseudouridine synthase B [Listeria welshimeri serovar 6b str. SLCC5334] gi|116742269|emb|CAK21393.1| ribosomal large subunit pseudouridine synthase B [Listeria welshimeri serovar 6b str. SLCC5334] Length = 244 Score = 152 bits (384), Expect = 8e-35, Method: Compositional matrix adjust. Identities = 89/226 (39%), Positives = 134/226 (59%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E++I + +V VNG ++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGITSRRKAEKLIQEGKVTVNGKVVTELGVKVSGTERIEVEGIQLTKEEH- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G V+ +D GR+TV D I R+ VGRLD +T GLLL+TNDG A + Sbjct: 61 RYFLFYKPRGTVSAVTDDKGRTTVADYFTDIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-DTQKGSN-AWVTV 191 L P + + Y R G +++ + L++G+VI G +V + + K N A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRELERGVVIDGRKTAPAKVKVRSSDKAKNKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++K+FE ++V +L R Y L L AG RE+S Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELS 226 >gi|117620907|ref|YP_857421.1| ribosomal large subunit pseudouridine synthase B [Aeromonas hydrophila subsp. hydrophila ATCC 7966] gi|117562314|gb|ABK39262.1| ribosomal large subunit pseudouridine synthase B [Aeromonas hydrophila subsp. hydrophila ATCC 7966] Length = 307 Score = 152 bits (383), Expect = 9e-35, Method: Compositional matrix adjust. Identities = 94/220 (42%), Positives = 131/220 (59%), Gaps = 12/220 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDG--VPLR 68 +++ KV+ARAG SRRE+E +I RV V+G L +R VN + I VDG + R Sbjct: 3 EKLQKVLARAGHGSRREMEALITAGRVSVDGKVATLGDRVEVNAV----IRVDGHQIKTR 58 Query: 69 KAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 AE R+ YHKP G + T DP+GR TVFD LP + +R I+VGRLD+NT GLLL T Sbjct: 59 AAEEVICRVLAYHKPEGEMCTRHDPEGRPTVFDRLPKMEGARWIAVGRLDVNTSGLLLFT 118 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR G++ + L L+KG+ ++ ++ +G Sbjct: 119 TDGELANRLMHPSHEVEREYAVRVFGEITEAMLQRLRKGVQLEDGMAKFNKIKPAGGEGL 178 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RL+RI YG QL Sbjct: 179 NQWFNVTLTEGRNREVRRLWESQEVQVSRLMRIRYGDVQL 218 >gi|83720156|ref|YP_443084.1| RNA pseudouridylate synthase family protein [Burkholderia thailandensis E264] gi|83653981|gb|ABC38044.1| RNA pseudouridylate synthase family protein [Burkholderia thailandensis E264] Length = 502 Score = 152 bits (383), Expect = 9e-35, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 132/228 (57%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 122 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVR 178 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 179 INGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFN 238 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 239 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRI 298 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 299 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 346 >gi|16803988|ref|NP_465473.1| hypothetical protein lmo1949 [Listeria monocytogenes EGD-e] gi|46908183|ref|YP_014572.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes serotype 4b str. F2365] gi|47093378|ref|ZP_00231145.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes str. 4b H7858] gi|47097092|ref|ZP_00234662.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes str. 1/2a F6854] gi|224498601|ref|ZP_03666950.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes Finland 1988] gi|224501251|ref|ZP_03669558.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL R2-561] gi|226224554|ref|YP_002758661.1| hypothetical protein Lm4b_01968 [Listeria monocytogenes Clip81459] gi|254825555|ref|ZP_05230556.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL J1-194] gi|254827166|ref|ZP_05231853.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL N3-165] gi|254831450|ref|ZP_05236105.1| hypothetical protein Lmon1_08853 [Listeria monocytogenes 10403S] gi|254852851|ref|ZP_05242199.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL R2-503] gi|254899354|ref|ZP_05259278.1| hypothetical protein LmonJ_06059 [Listeria monocytogenes J0161] gi|254912507|ref|ZP_05262519.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes J2818] gi|254931879|ref|ZP_05265238.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes HPB2262] gi|254936834|ref|ZP_05268531.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes F6900] gi|254992999|ref|ZP_05275189.1| hypothetical protein LmonocytoFSL_08071 [Listeria monocytogenes FSL J2-064] gi|255026085|ref|ZP_05298071.1| hypothetical protein LmonocytFSL_06510 [Listeria monocytogenes FSL J2-003] gi|255520090|ref|ZP_05387327.1| hypothetical protein LmonocFSL_02452 [Listeria monocytogenes FSL J1-175] gi|284802394|ref|YP_003414259.1| hypothetical protein LM5578_2150 [Listeria monocytogenes 08-5578] gi|284995536|ref|YP_003417304.1| hypothetical protein LM5923_2101 [Listeria monocytogenes 08-5923] gi|300763739|ref|ZP_07073736.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL N1-017] gi|16411402|emb|CAD00027.1| lmo1949 [Listeria monocytogenes EGD-e] gi|46881453|gb|AAT04749.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes serotype 4b str. F2365] gi|47014537|gb|EAL05500.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes str. 1/2a F6854] gi|47018249|gb|EAL09015.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes str. 4b H7858] gi|225877016|emb|CAS05725.1| Hypothetical protein of unknown function [Listeria monocytogenes serotype 4b str. CLIP 80459] gi|258599548|gb|EEW12873.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL N3-165] gi|258606184|gb|EEW18792.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL R2-503] gi|258609430|gb|EEW22038.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes F6900] gi|284057956|gb|ADB68897.1| hypothetical protein LM5578_2150 [Listeria monocytogenes 08-5578] gi|284061003|gb|ADB71942.1| hypothetical protein LM5923_2101 [Listeria monocytogenes 08-5923] gi|293583430|gb|EFF95462.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes HPB2262] gi|293590492|gb|EFF98826.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes J2818] gi|293594796|gb|EFG02557.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL J1-194] gi|300515475|gb|EFK42525.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL N1-017] gi|328466297|gb|EGF37454.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes 1816] gi|328472791|gb|EGF43640.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes 220] gi|332312390|gb|EGJ25485.1| Pseudouridine synthase [Listeria monocytogenes str. Scott A] Length = 244 Score = 152 bits (383), Expect = 9e-35, Method: Compositional matrix adjust. Identities = 87/226 (38%), Positives = 132/226 (58%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E++I + +V VNG ++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGITSRRKAEKLIQEGKVTVNGKVVTELGVKVSGTERIEVEGIQLTKEEH- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G V+ +D GR+TV D I R+ VGRLD +T GLLL+TNDG A + Sbjct: 61 RYFLFYKPRGTVSAVTDDKGRTTVADYFADIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y R G +++ + L++G+VI G ++V + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRQLERGVVIDGRKTAPAKVKVRSSDKTKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++K+FE ++V +L R Y L L AG RE+S Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELS 226 >gi|220935178|ref|YP_002514077.1| ribosomal large subunit pseudouridine synthase B [Thioalkalivibrio sp. HL-EbGR7] gi|219996488|gb|ACL73090.1| ribosomal large subunit pseudouridine synthase B [Thioalkalivibrio sp. HL-EbGR7] Length = 268 Score = 152 bits (383), Expect = 9e-35, Method: Compositional matrix adjust. Identities = 97/233 (41%), Positives = 133/233 (57%), Gaps = 15/233 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +R+ K++AR G SRRE+ER I + V VNG + D + + G VPL A Sbjct: 3 ERLQKLLARLGHGSRREIERWIEEGLVTVNGKVAS-LGDQAGPDDKVAIRGRVVPLDVAP 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGL 130 + R+ YHKP G +TT DP+GR TVF++LP + + R I+VGRLD NT GLLL T DG L Sbjct: 62 KPRVIAYHKPDGELTTRKDPEGRPTVFEHLPRLRNGRWIAVGRLDYNTSGLLLFTTDGEL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-----GS 185 A L PS + R Y VR G+V D L L G+ ++ D +T + G+ Sbjct: 122 AAKLMHPSGEVEREYAVRILGEVSPDALKQLTTGVELE-----DGPARFETLREAGGTGA 176 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 N W V LREG+NRE+++++E V+RL R+ YGP LG L AG R++ Sbjct: 177 NRWYHVTLREGRNREVRRLWEAVGLTVSRLTRVRYGPISLGRDLRAGRWRDLE 229 >gi|325520892|gb|EGC99873.1| ribosomal large subunit pseudouridine synthase B [Burkholderia sp. TJI49] Length = 328 Score = 152 bits (383), Expect = 9e-35, Method: Compositional matrix adjust. Identities = 85/229 (37%), Positives = 133/229 (58%), Gaps = 9/229 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHI 60 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 38 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQV 94 Query: 61 EVDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDI 116 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD Sbjct: 95 RINGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDF 154 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLL+LT G LA P R Y VR G++ + L G+ + ++ Sbjct: 155 NTEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELTEASRQKLLHGVELDDGPANFLR 214 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 215 IRDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 263 >gi|330960474|gb|EGH60734.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. maculicola str. ES4326] Length = 408 Score = 152 bits (383), Expect = 9e-35, Method: Compositional matrix adjust. Identities = 108/272 (39%), Positives = 154/272 (56%), Gaps = 24/272 (8%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAISVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILE---D 176 Query: 173 GDMQVTLDTQ----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT- 227 G + T Q +G N W + EG+NRE+++++E V+RL R+ YGP L + Sbjct: 177 GPARFTDIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSD 236 Query: 228 LLAGSTREVSK---KILREQLGPHLLEEAQVN 256 L G RE+S+ IL ++G + + Q+N Sbjct: 237 LPMGRWREMSQYEVDILSAEVGLQPVAQPQMN 268 >gi|146306872|ref|YP_001187337.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas mendocina ymp] gi|145575073|gb|ABP84605.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas mendocina ymp] Length = 385 Score = 152 bits (383), Expect = 9e-35, Method: Compositional matrix adjust. Identities = 103/262 (39%), Positives = 150/262 (57%), Gaps = 19/262 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ KV+AR G+ASRRE+E I + RVKVNG V + D I +DG L++ E T Sbjct: 12 EKLQKVLARMGLASRREIETWIGEGRVKVNGAAAT-LGQRVDANDAIALDGRLLKREEIT 70 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDG 128 R+ +Y+KP G + T DP+GR TVFD LP R I++GRLDINT GLLL T DG Sbjct: 71 GSVRRVLIYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLDINTTGLLLFTTDG 130 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSN 186 LA L PS Q R Y VR G+V ++ L LKKG++++ + D++ + G N Sbjct: 131 ELANRLMHPSYQMDREYAVRVRGEVTEEMLENLKKGVMLEDGPAKFTDIKEAPGGE-GFN 189 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP-FQLGTLLAGSTREVSKK---ILR 242 W + EG+NRE+++++E V+RL R+ +GP F L G RE+ ++ IL Sbjct: 190 HWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLTSDLTMGRWREMDQREVDILS 249 Query: 243 EQLG------PHLLEEAQVNLD 258 ++G P + E+ + LD Sbjct: 250 AEVGLAPQALPAMKEKTREKLD 271 >gi|284048580|ref|YP_003398919.1| pseudouridine synthase [Acidaminococcus fermentans DSM 20731] gi|283952801|gb|ADB47604.1| pseudouridine synthase [Acidaminococcus fermentans DSM 20731] Length = 244 Score = 152 bits (383), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 89/229 (38%), Positives = 131/229 (57%), Gaps = 4/229 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R+ KV+A AG+ASRRE E++I RV+VNG + V D I VDG L + Sbjct: 4 TKERLQKVMAAAGVASRRECEKIILAGRVQVNGKPVTELGTRVGKADRITVDGKALHRKS 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+VTT DP GR TV D + + R+ VGRLD TEGLLL+TNDG LA Sbjct: 64 ARHTYLLYKPGGVVTTMKDPQGRRTVADLMAGLHQRLYPVGRLDYLTEGLLLMTNDGELA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQKGSNAW 188 + L PS + Y V HG+V ++KL++L+ G+ ++ V + D +K + Sbjct: 124 QHLTHPSHHVDKTYEVEVHGRVPEEKLDVLRLGVPLEDGLTAPAVVYVKKWDPEKNLTRF 183 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 TV + EG+NR+++++ +F + V L RI G L + G RE++ Sbjct: 184 -TVTIHEGRNRQVRRMCDFIGFPVKSLKRIQVGTLTLEGMKKGEFRELT 231 >gi|313623106|gb|EFR93379.1| ribosomal large subunit pseudouridine synthase B [Listeria innocua FSL J1-023] Length = 244 Score = 152 bits (383), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 86/226 (38%), Positives = 132/226 (58%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ SRR+ E++I + +V VNG ++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGVTSRRKAEKLIQEGKVTVNGKVVTELGVKVTGTERIEVEGIQLTKEEH- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G V+ +D GR+TV D I R+ VGRLD +T GLLL+TNDG A + Sbjct: 61 RYFLFYKPRGTVSAVTDDKGRTTVADYFTDIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y R G +++ + L++G+VI G ++V + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRELERGVVIDGRKTAPAKVKVRSSDKAKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++K+FE ++V +L R Y L L AG RE+S Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLAREEYSFLNLRGLNAGERRELS 226 >gi|85712444|ref|ZP_01043493.1| RNA pseudouridylate synthase-family protein [Idiomarina baltica OS145] gi|85693722|gb|EAQ31671.1| RNA pseudouridylate synthase-family protein [Idiomarina baltica OS145] Length = 291 Score = 152 bits (383), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 88/222 (39%), Positives = 137/222 (61%), Gaps = 7/222 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAER 72 +++ KV+AR+G SRRE+E MI R++VNG + + + + + +DG + K+E Sbjct: 3 EKLQKVLARSGYGSRREIEAMIGAGRIRVNGKVAQ-VGERIDADASVRIDGHEVVIKSEN 61 Query: 73 T---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 + R+ YHKP G + T DP+GR TV++ LP + +R ++VGRLD+NT GLLL T DG Sbjct: 62 SVVCRVLTYHKPEGELCTRKDPEGRPTVYERLPRMSGARWVAVGRLDVNTSGLLLFTTDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNA 187 LA L PS + R Y VR G+V +N LKKG+ ++ G+ + D + +G N Sbjct: 122 ELANRLMHPSQEVEREYAVRIFGEVTDAMINRLKKGVQLEDGLAHFDTIKAVGGGEGMNR 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 W V L+EG+NRE+++++E +V+RLIR+ YG +L + L Sbjct: 182 WYHVTLKEGRNREVRRLWESQEVQVSRLIRVRYGDIKLESGL 223 >gi|167562943|ref|ZP_02355859.1| RNA pseudouridylate synthase family protein [Burkholderia oklahomensis EO147] Length = 354 Score = 152 bits (383), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 134/230 (58%), Gaps = 9/230 (3%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDH 59 + K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD Sbjct: 46 QPKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQ 102 Query: 60 IEVDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLD 115 + ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP++ ++ ++VGRLD Sbjct: 103 VRINGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPTMKTAKWLAVGRLD 162 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 NTEGLL+LT G LA P R Y VR G++ + L G+ + + Sbjct: 163 FNTEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELPEASRQKLLHGVELDDGPANFL 222 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 223 RIRDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 272 >gi|77164554|ref|YP_343079.1| pseudouridine synthase, Rsu [Nitrosococcus oceani ATCC 19707] gi|254433620|ref|ZP_05047128.1| conserved hypothetical protein, putative [Nitrosococcus oceani AFC27] gi|76882868|gb|ABA57549.1| ribosomal large subunit pseudouridine synthase B [Nitrosococcus oceani ATCC 19707] gi|207089953|gb|EDZ67224.1| conserved hypothetical protein, putative [Nitrosococcus oceani AFC27] Length = 268 Score = 152 bits (383), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 92/217 (42%), Positives = 129/217 (59%), Gaps = 6/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----K 69 +R+ K++AR G+ SRREVE I RV++NGI R V D + V+G PL + Sbjct: 3 ERLQKILARGGLGSRREVEEWIKAGRVRINGIP-ARLGDKVSDEDQVTVNGRPLSPRRLQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 A +++ LYHKP G + + DP+GR TVF +LP R +SVGRLDINT GLLL T DG Sbjct: 62 APSSQVILYHKPAGEICSRKDPEGRPTVFRSLPRPRQGRWVSVGRLDINTSGLLLFTTDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PSTQ R Y VR G V + L L++G+ ++ ++ +G+N W Sbjct: 122 ELANRLMHPSTQVEREYAVRVLGTVTEVILERLQRGVQLEDGLASFKRILDAGGEGANHW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EG+ RE+++++E +V+RLIRI +GP L Sbjct: 182 YHVILWEGRKREVRRLWESQGIQVSRLIRIRFGPVSL 218 >gi|332140787|ref|YP_004426525.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Alteromonas macleodii str. 'Deep ecotype'] gi|327550809|gb|AEA97527.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Alteromonas macleodii str. 'Deep ecotype'] Length = 298 Score = 152 bits (383), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 93/222 (41%), Positives = 130/222 (58%), Gaps = 11/222 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RKAER 72 +++ KV+A G+ SRRE+ER I + RV VNG + V T I VDG L R+ E+ Sbjct: 3 EKLQKVLANQGLGSRREMERWIEEGRVSVNGSVAT-LGDRVDHTAQIRVDGHLLSRQTEQ 61 Query: 73 --TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 R+ +Y+KP G + + DP+GR TVFD LP+I R I+VGRLD+NT GLLL TNDG Sbjct: 62 PICRVLMYNKPEGELCSRHDPEGRDTVFDRLPAIRLGRWITVGRLDMNTSGLLLFTNDGE 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG------ICYGDMQVTLDTQK 183 LA L P + R Y VR G+V LN L+KG+ + G ++ Sbjct: 122 LANRLMHPKCEVEREYAVRVFGEVSTKTLNTLQKGVELDDGEAKFLTISGTPTPQHAEEE 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L+EG+NRE+++++E +V+RLIR+ YGP +L Sbjct: 182 SMNRWFNVTLKEGRNREVRRLWESQGVQVSRLIRVKYGPIEL 223 >gi|167570132|ref|ZP_02363006.1| RNA pseudouridylate synthase family protein [Burkholderia oklahomensis C6786] Length = 371 Score = 152 bits (383), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 133/228 (58%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 60 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVR 116 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP++ ++ ++VGRLD N Sbjct: 117 INGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPTMKTAKWLAVGRLDFN 176 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 177 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELPEASRQKLLHGVELDDGPANFLRI 236 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 237 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 284 >gi|16801129|ref|NP_471397.1| hypothetical protein lin2063 [Listeria innocua Clip11262] gi|16414564|emb|CAC97293.1| lin2063 [Listeria innocua Clip11262] gi|313618115|gb|EFR90216.1| ribosomal large subunit pseudouridine synthase B [Listeria innocua FSL S4-378] Length = 244 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 86/226 (38%), Positives = 132/226 (58%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ SRR+ E++I + +V VNG ++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGVTSRRKAEKLIQEGKVTVNGKVVTELGVKVSGTERIEVEGIQLTKEEH- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G V+ +D GR+TV D I R+ VGRLD +T GLLL+TNDG A + Sbjct: 61 RYFLFYKPRGTVSAVTDDKGRTTVADYFTDIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y R G +++ + L++G+VI G ++V + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRELERGVVIDGRKTAPAKVKVRSSDKAKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++K+FE ++V +L R Y L L AG RE+S Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLAREEYSFLNLRGLNAGERRELS 226 >gi|296124373|ref|YP_003632151.1| pseudouridine synthase [Planctomyces limnophilus DSM 3776] gi|296016713|gb|ADG69952.1| pseudouridine synthase [Planctomyces limnophilus DSM 3776] Length = 554 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 87/229 (37%), Positives = 129/229 (56%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+A AG SRR E I RV ++G++ + V V +S + VDG LR E Sbjct: 37 ERLQKVLASAGYGSRRACEEYIEMGRVTIDGVVAKELGVRVDLSRQKVAVDGEKLR-VEE 95 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R +L+HKP G++ T+SDP GR+ V D P R+ +VGRLD TEGLL++TNDG LA Sbjct: 96 KRYFLFHKPAGVLCTNSDPAGRTRVIDCFPPNVGRLFTVGRLDDGTEGLLIVTNDGDLAE 155 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P R+YR G + +N L +G+ + V +GS + + Sbjct: 156 RLTHPKFGIPRIYRAVVAGNPSTEAINQLLEGLYFAEGRFRMSSVNRVKSQGSATVLEIT 215 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +REG+NREI+++ KV +L R +GP +LG L G+ R++S++ L Sbjct: 216 MREGQNREIRRLLARVGHKVMKLKRTHFGPIKLGDLERGAHRKLSEEEL 264 >gi|123442465|ref|YP_001006444.1| 23S rRNA pseudouridylate synthase B [Yersinia enterocolitica subsp. enterocolitica 8081] gi|122089426|emb|CAL12274.1| putative RNA pseudouridylate synthase-family protein [Yersinia enterocolitica subsp. enterocolitica 8081] Length = 309 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 88/212 (41%), Positives = 128/212 (60%), Gaps = 6/212 (2%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKAER--TR 74 +ARAG SRRE+E +I Q RV V+G + + V V I +DG + ++++E R Sbjct: 1 MARAGHGSRREIETIIQQGRVSVDGKISKLGDRVEVTQATKIRLDGHLLSIKESEEAVCR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + Y+KP G + T +DP+GR TVFD LP + SR ++VGRLD+NT GLLL T DG LA Sbjct: 61 VLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTDGELANR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + R Y VR GQ+D +K+ L +G+ ++ +T +G N W V L Sbjct: 121 LMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTITFQGGEGINQWYNVTL 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EG+NRE+++++E +V+RLIR+ YG L Sbjct: 181 TEGRNREVRRLWEAVGVQVSRLIRVRYGDINL 212 >gi|311694421|gb|ADP97294.1| RNA-binding S4 domain protein [marine bacterium HP15] Length = 327 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 92/222 (41%), Positives = 128/222 (57%), Gaps = 6/222 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+ K++ARAGI SRRE+E + R+ VNG + D E+DG L + Sbjct: 22 PERIQKLLARAGIGSRREIEGWMEAGRLLVNGQPVA-PGQKATVEDRFELDGKRLEVSGA 80 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 R+ +Y+KP G VTT DP+GR TVFD LP + R IS+GRLDINT GL+L T D Sbjct: 81 AEVMRRVLIYNKPEGEVTTRKDPEGRPTVFDRLPRLKEHRWISIGRLDINTTGLVLFTTD 140 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G+VD K+ L +G++++ ++ G N Sbjct: 141 GELANRLMHPSNQIDREYAVRIFGEVDDAKIERLLQGVLLEDGMAKFTDISPAGGSGINR 200 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 W V L EG+NRE+++++E +V+RL R+ YGP L + L Sbjct: 201 WFHVTLLEGRNREVRRLWESQGVRVSRLKRVRYGPIFLPSRL 242 >gi|257876560|ref|ZP_05656213.1| pseudouridine synthase [Enterococcus casseliflavus EC20] gi|257810726|gb|EEV39546.1| pseudouridine synthase [Enterococcus casseliflavus EC20] Length = 240 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 87/228 (38%), Positives = 132/228 (57%), Gaps = 3/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E +I + RV+VNG +++ V V S D +EVDGVP+ + E+ Sbjct: 4 ERLQKVIAHAGITSRRKAEGLITEGRVRVNGQVIKELGVQVSSKDVVEVDGVPIEQ-EQH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+++ +D R V D + RV VGRLD +T GLLLLTNDG L++ Sbjct: 63 VYYLFYKPRGVISAVTDDKKRKVVLDYFAEVPERVYPVGRLDYDTSGLLLLTNDGELSQT 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G D+ +L L KGI I+G ++ Q ++ V + Sbjct: 123 LMHPKHEVDKVYVAKVKGIADKKQLLPLTKGIRIEGRKTAPARFEILSTDQTTQSSIVQL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++K + + V +L R +YGP L L G RE++KK Sbjct: 183 TIHEGRNHQVKNMLKAVGLPVQKLKRENYGPLDLKGLRPGEYRELTKK 230 >gi|91782986|ref|YP_558192.1| ribosomal large subunit pseudouridine synthase B [Burkholderia xenovorans LB400] gi|91686940|gb|ABE30140.1| ribosomal large subunit pseudouridine synthase B [Burkholderia xenovorans LB400] Length = 633 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 133/228 (58%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRR++E +I RV VNG E A + +M TD + Sbjct: 207 KRVLAADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNG---EPAHIGQRIMPTDQVR 263 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ ++ R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 264 INGKPVKRKLASKPPRVLLYHKPTGEIVSHADPEGRPSVFDKLPPMKTAKWLAVGRLDFN 323 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 324 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLHGVELDDGPANFLRI 383 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 384 RDGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPISL 431 >gi|167582090|ref|ZP_02374964.1| RNA pseudouridylate synthase family protein [Burkholderia thailandensis TXDOH] Length = 379 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 132/228 (57%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 73 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVR 129 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 130 INGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFN 189 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 190 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRI 249 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 250 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 297 >gi|53726360|ref|YP_102763.1| RNA pseudouridylate synthase family protein [Burkholderia mallei ATCC 23344] gi|52429783|gb|AAU50376.1| RNA pseudouridylate synthase family protein [Burkholderia mallei ATCC 23344] Length = 380 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 84/217 (38%), Positives = 129/217 (59%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRK--- 69 ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + ++G P+++ Sbjct: 10 KLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVRINGKPVKRKLP 66 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 ++ R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTEGLL+LT G Sbjct: 67 SKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTEGLLMLTTSG 126 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA P R Y VR G++ + L G+ + +++ +G+N W Sbjct: 127 DLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRIRDGGGEGTNHW 186 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EG+NRE++++FE V+RLIR +GP L Sbjct: 187 YHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 223 >gi|325274077|ref|ZP_08140221.1| RNA-binding S4 domain-containing protein [Pseudomonas sp. TJI-51] gi|324100788|gb|EGB98490.1| RNA-binding S4 domain-containing protein [Pseudomonas sp. TJI-51] Length = 355 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 107/279 (38%), Positives = 159/279 (56%), Gaps = 28/279 (10%) Query: 1 MKDKNIVQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNV 54 M ++++ TP +++ KV+AR G+ SRR+VE I+Q R+KVNG+ L +R ++ Sbjct: 1 MSEQDLQDTAITPPSGEKLQKVLARIGVGSRRDVEAWISQGRIKVNGVAATLGQRVDLH- 59 Query: 55 MSTDHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVI 109 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I Sbjct: 60 ---DAIAVDGKLIKREEAAEATRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWI 116 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 ++GRLDINT GLLL T DG LA L PS + R Y VR G+VD + + LK G++++ Sbjct: 117 NIGRLDINTTGLLLFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVMLED 176 Query: 170 ICYGDMQVTLDTQK-----GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 G + T D QK G N W + EG+NRE+++++E V+RL R+ +GP Sbjct: 177 ---GPAKFT-DIQKAPGGEGFNHWYHCVVMEGRNREVRRLWESQGMVVSRLKRVRFGPVF 232 Query: 225 LGT-LLAGSTREVSK---KILREQLGPHLLEEAQVNLDA 259 L + L G RE+S+ IL ++G + +NL A Sbjct: 233 LNSDLPMGRWREMSQGEIDILAAEVGLQPVALPALNLKA 271 >gi|311113298|ref|YP_003984520.1| pseudouridine synthase [Rothia dentocariosa ATCC 17931] gi|310944792|gb|ADP41086.1| pseudouridine synthase [Rothia dentocariosa ATCC 17931] Length = 357 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 91/227 (40%), Positives = 136/227 (59%), Gaps = 4/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 R+ K++A+AG+ASRR E MI + RV VNG ++ V V D I +VDG+ ++ E+ Sbjct: 120 RLQKLMAQAGVASRRVCEEMITEGRVTVNGEVVTELGVRVNPADVIVQVDGMTVQTNEKL 179 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++KP G+V+T DPDGR + D L S+ RV VGRLD+ TEGLLLLTNDG LA Sbjct: 180 IYMAFNKPAGVVSTMEDPDGRPCIKDFLRDSMNERVFHVGRLDVETEGLLLLTNDGELAN 239 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L PS + + Y V+ G V+ LKKGI ++ G+ D +D+ G + + V Sbjct: 240 RLTHPSYEVPKTYLVQVRGPVESGIGAELKKGIRLEDGVSRVDSFKLVDSAPG-HVLIEV 298 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + GKNR ++++FE + V +L+R+ GP ++G+ G+ R +SK Sbjct: 299 TIHSGKNRIVRRLFEAVGYPVEKLVRVQMGPIRIGSQKQGTVRNLSK 345 >gi|30248452|ref|NP_840522.1| pseudouridylate synthase family protein 1 [Nitrosomonas europaea ATCC 19718] gi|30138338|emb|CAD84346.1| possible pseudouridylate synthase family 1 [Nitrosomonas europaea ATCC 19718] Length = 292 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 88/216 (40%), Positives = 128/216 (59%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---KAE 71 R+ K++AR G+ SRRE+E MIA RV +NG+ + D I +DG +R A Sbjct: 35 RLQKLLARNGLGSRREIEDMIAAGRVSINGVT-AKPGDRAGPGDMIRIDGKIIRFRLAAL 93 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGL 130 R+ +YHKP G + + DP GR +VFD LP I S+ I++GRLD NT GLL+ T DG L Sbjct: 94 LPRVIIYHKPEGEIVSVRDPQGRPSVFDKLPHIRSSKWIAIGRLDFNTSGLLIFTTDGTL 153 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L P Q R Y VR G++ +++ L GI ++ G+ D Q+ + G+N W Sbjct: 154 ANHLMHPRYQMEREYAVRIVGELTPEQITRLTTGIELEDGLAKFD-QLLDEGGTGTNHWY 212 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + L+EG+NRE++++FE V+RLIR+ +GP L Sbjct: 213 RIMLKEGRNREVRRMFEALGLTVSRLIRVRFGPVNL 248 >gi|253989545|ref|YP_003040901.1| 23S rRNA pseudouridylate synthase B [Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949] gi|253780995|emb|CAQ84157.1| ribosomal large subunit pseudouridine synthase B [Photorhabdus asymbiotica] Length = 310 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG--VPLRKA 70 +++ K++AR+G SRRE+E I Q RV V+G I + V I +DG + ++++ Sbjct: 9 EKLQKILARSGHGSRREIEGYIQQGRVSVDGKIATLGDRIEVQPATKIRLDGRILSIKES 68 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 ++ R+ Y+KP G + T DP+GR TVFD LP + SR I+VGRLD+NT GLLL T D Sbjct: 69 QKAICRVLAYYKPEGELCTRHDPEGRPTVFDRLPKLLGSRWIAVGRLDVNTCGLLLFTTD 128 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+VD KL L KGI ++ V +G N Sbjct: 129 GELANRLMHPSREVEREYAVRVFGEVDDAKLKQLAKGIQLEDGPAAFRTVAFKGGEGINQ 188 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 189 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIGL 226 >gi|260598145|ref|YP_003210716.1| 23S rRNA pseudouridylate synthase B [Cronobacter turicensis z3032] gi|260217322|emb|CBA31307.1| Ribosomal large subunit pseudouridine synthase B [Cronobacter turicensis z3032] Length = 364 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 93/220 (42%), Positives = 128/220 (58%), Gaps = 10/220 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E MI RV V+G L +R V V I +DG + Sbjct: 3 EKLQKVLARAGHGSRREIEAMIEAGRVSVDGKIATLGDR--VEVTPALKIRIDGHLISVK 60 Query: 71 ER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 E R+ Y+KP G + T SDP+GR TVFD LP + +R I+VGRLD+NT GLLL T Sbjct: 61 ESVEQICRVLAYYKPEGELCTRSDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQVD +K+ L +G+ ++ + +G Sbjct: 121 TDGELANRLMHPSQEVEREYAVRVFGQVDDNKVRELARGVQLEDGPAAFKTIRFSGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|319651400|ref|ZP_08005529.1| pseudouridine synthase [Bacillus sp. 2_A_57_CT2] gi|317396931|gb|EFV77640.1| pseudouridine synthase [Bacillus sp. 2_A_57_CT2] Length = 241 Score = 151 bits (381), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 86/226 (38%), Positives = 131/226 (57%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG ASRR+ E ++A+ RVKVNG ++ V V +D IEVDG+P+ + E Sbjct: 2 ERLQKVIAHAGFASRRKAEELMAEGRVKVNGKTVKELGVKVSPSDRIEVDGIPVEREEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+++ SD GR V D I R+ VGRLD +T G+L+LTNDG A + Sbjct: 62 YFLLY-KPRGVISAVSDDKGRKVVTDFFEGIKQRIYPVGRLDYDTSGILILTNDGEFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L PS + +VY + G ++ + L++G+V++ + L + +K A V + Sbjct: 121 LMHPSNEIEKVYVAKIKGIPSKEGMRSLQRGVVLEDGKTAPAKTKLLSMDKKKQTAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE V +L R YG L L AG RE++ Sbjct: 181 SIHEGRNRQVRRMFEAIGHPVLKLKRERYGYLTLQGLSAGDARELT 226 >gi|330502861|ref|YP_004379730.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas mendocina NK-01] gi|328917147|gb|AEB57978.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas mendocina NK-01] Length = 385 Score = 151 bits (381), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 120/341 (35%), Positives = 180/341 (52%), Gaps = 40/341 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ KV+AR G+ASRRE+E IA+ RVKVNG V + D I +DG L++ E T Sbjct: 12 EKLQKVLARLGLASRREIETWIAEGRVKVNGAAAT-LGQRVDANDAIALDGRLLKREEIT 70 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDG 128 R+ +Y+KP G + T DP+GR TVFD LP R I++GRLDINT GLLL T DG Sbjct: 71 GSVRRVLIYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLDINTTGLLLFTTDG 130 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSN 186 LA L PS Q R Y VR G+V ++ L LK G++++ + D++ + G N Sbjct: 131 ELANRLMHPSYQMDREYAVRVRGEVTEEMLENLKTGVMLEDGPAKFTDIKEAPGGE-GFN 189 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W + EG+NRE+++++E V+RL R+ +GP L T E++ RE Sbjct: 190 HWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFL-------TSELTMARWRE--- 239 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK-QKKLATPV 305 +++ +V+ I S+E + P MK+ + +K L + Q+K A PV Sbjct: 240 ---MDQREVD----ILSAE---------VGLTPQALPAMKEKTREK--LDRLQRKSAKPV 281 Query: 306 HRRN--LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 R + G S+ S + +R+E +R+P P K Sbjct: 282 EVRGKRVLRPAKDEAGADSARPSRAPRRDEAEQRTPRGPRK 322 >gi|71280018|ref|YP_270193.1| ribosomal large subunit pseudouridine synthase B [Colwellia psychrerythraea 34H] gi|71145758|gb|AAZ26231.1| ribosomal large subunit pseudouridine synthase B [Colwellia psychrerythraea 34H] Length = 355 Score = 151 bits (381), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 91/235 (38%), Positives = 142/235 (60%), Gaps = 13/235 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDG----VP 66 ++V KV+ARAG SRRE+E MI++ RV ++G L +R + T+ I +DG + Sbjct: 71 EKVQKVLARAGKGSRREMETMISEGRVSIDGKVAFLGDR----ITGTEQIRLDGHHVKLT 126 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 + + R+ +Y+KP G + T DP+GR TVFD LP + + R ++VGRLDINT G+LL T Sbjct: 127 AQDEDICRVLVYNKPEGEMCTRKDPEGRPTVFDRLPPLDAGRWVAVGRLDINTSGMLLFT 186 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR G++++ L L+ G+ ++ ++T +G Sbjct: 187 TDGELANRLMHPSQKVEREYAVRVFGEINEAMLQTLRAGVKLEDGMARFQKITYRGGEGR 246 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVSKK 239 N W V L EG+NRE+++++E + +V+RLIR+ YG ++ L G RE++ K Sbjct: 247 NHWFHVVLSEGRNREVRRLWESQDVQVSRLIRVRYGDMEMQRQLPMGGWRELALK 301 >gi|300741224|ref|ZP_07071245.1| ribosomal large subunit pseudouridine synthase B [Rothia dentocariosa M567] gi|300380409|gb|EFJ76971.1| ribosomal large subunit pseudouridine synthase B [Rothia dentocariosa M567] Length = 357 Score = 151 bits (381), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 91/227 (40%), Positives = 136/227 (59%), Gaps = 4/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 R+ K++A+AG+ASRR E MI + RV VNG ++ V V D I +VDG+ ++ E+ Sbjct: 120 RLQKLMAQAGVASRRVCEEMITEGRVTVNGEVVTELGVRVNPADVIVQVDGMTVQTNEKL 179 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++KP G+V+T DPDGR + D L S+ RV VGRLD+ TEGLLLLTNDG LA Sbjct: 180 IYMAFNKPAGVVSTMEDPDGRPCIKDFLRDSMNERVFHVGRLDVETEGLLLLTNDGELAN 239 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L PS + + Y V+ G V+ LKKGI ++ G+ D +D+ G + + V Sbjct: 240 RLTHPSYEVPKTYLVQVRGPVESGIGAELKKGIRLEDGVSRVDSFKLVDSAPG-HVLIEV 298 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + GKNR ++++FE + V +L+R+ GP ++G+ G+ R +SK Sbjct: 299 TIHSGKNRIVRRLFEAVGYPVEKLVRVQMGPIRIGSQKQGTVRNLSK 345 >gi|253998637|ref|YP_003050700.1| pseudouridine synthase [Methylovorus sp. SIP3-4] gi|313200711|ref|YP_004039369.1| pseudouridine synthase [Methylovorus sp. MP688] gi|253985316|gb|ACT50173.1| pseudouridine synthase [Methylovorus sp. SIP3-4] gi|312440027|gb|ADQ84133.1| pseudouridine synthase [Methylovorus sp. MP688] Length = 362 Score = 151 bits (381), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 82/220 (37%), Positives = 131/220 (59%), Gaps = 5/220 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR- 68 + PQR+ K++A AG+ SRRE+E +I R+ +NG + E A V+ D + D P+ Sbjct: 25 DAVPQRLHKLLALAGLGSRREMEELILSGRITINGKVAEVGAA-VVPGDVVRFDSRPVHL 83 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 +AE ++ +YHKP G + + DP+ R+TVFD LP + ++ I++GRLDINT GLL+ T Sbjct: 84 PFEAELAQVLIYHKPEGEIVSQDDPEKRATVFDKLPRVRGAKWIAIGRLDINTSGLLIFT 143 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 G LA P + R Y VR G++ + ++ L +GI ++ + +G+ Sbjct: 144 TSGELANRFMHPRYEVEREYAVRIFGELTEGEMLQLTQGIELEDGPASFDSIRPQGGEGA 203 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V LREG+NRE++++F+ F V+RL+R+ +GP L Sbjct: 204 NHWYQVILREGRNREVRRLFDAFQKPVSRLMRVRFGPVNL 243 >gi|330830517|ref|YP_004393469.1| ribosomal large subunit pseudouridine synthase B [Aeromonas veronii B565] gi|328805653|gb|AEB50852.1| Ribosomal large subunit pseudouridine synthase B [Aeromonas veronii B565] Length = 307 Score = 151 bits (381), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 94/220 (42%), Positives = 131/220 (59%), Gaps = 12/220 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDG--VPLR 68 +++ KV+ARAG SRRE+E +I RV V+G L +R VN + I VDG V R Sbjct: 3 EKLQKVLARAGHGSRREMEALITAGRVSVDGKVATLGDRVEVNAV----IRVDGHQVKTR 58 Query: 69 KAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 AE R+ YHKP G + T DP+GR TVFD LP + +R I+VGRLD+NT GLLL T Sbjct: 59 AAEEVICRVLAYHKPEGEMCTRHDPEGRPTVFDRLPKMEGARWIAVGRLDVNTSGLLLFT 118 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR G++ + L L+KG+ ++ ++ +G Sbjct: 119 TDGELANRLMHPSHEVEREYAVRVFGEITEAMLQRLRKGVQLEDGTAKFNKIKPAGGEGL 178 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RL+RI YG +L Sbjct: 179 NQWFNVTLTEGRNREVRRLWESQEVQVSRLMRIRYGDVKL 218 >gi|170722948|ref|YP_001750636.1| RNA-binding S4 domain-containing protein [Pseudomonas putida W619] gi|169760951|gb|ACA74267.1| RNA-binding S4 domain protein [Pseudomonas putida W619] Length = 354 Score = 151 bits (381), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 106/279 (37%), Positives = 159/279 (56%), Gaps = 28/279 (10%) Query: 1 MKDKNIVQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNV 54 M ++++ TP +++ KV+AR G+ SRR+VE I+Q R+KVNG+ L +R ++ Sbjct: 1 MSEQDLQNTEITPPAGEKLQKVLARIGVGSRRDVEAWISQGRIKVNGVEATLGQRVDLH- 59 Query: 55 MSTDHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVI 109 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I Sbjct: 60 ---DAIAVDGKLIKREEAAEATRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWI 116 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 ++GRLDINT GLLL T DG LA L PS + R Y VR G+VD + + LK G++++ Sbjct: 117 NIGRLDINTTGLLLFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVMLED 176 Query: 170 ICYGDMQVTLDTQK-----GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 G + T D QK G N W + EG+NRE+++++E V+RL R+ +GP Sbjct: 177 ---GPAKFT-DIQKAPGGEGFNHWYHCVVMEGRNREVRRLWESQGMVVSRLKRVRFGPVF 232 Query: 225 LGT-LLAGSTREVSK---KILREQLGPHLLEEAQVNLDA 259 L + L G RE+++ IL ++G + +NL A Sbjct: 233 LNSDLPMGRWREMTQGEIDILAAEVGLQPVALPAMNLKA 271 >gi|170696462|ref|ZP_02887588.1| pseudouridine synthase [Burkholderia graminis C4D1M] gi|170138615|gb|EDT06817.1| pseudouridine synthase [Burkholderia graminis C4D1M] Length = 639 Score = 151 bits (381), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 132/228 (57%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRR++E +I RV VNG E A + +M TD + Sbjct: 213 KRVLSADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNG---EPAHIGQRIMPTDQVR 269 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 270 INGKPVKRKLANKPPRVLLYHKPTGEIVSHADPEGRPSVFDKLPPMKTAKWLAVGRLDFN 329 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 330 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLNGVELDDGPANFLRI 389 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 390 RDGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPISL 437 >gi|320663977|gb|EFX31164.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. LSU-61] Length = 290 Score = 151 bits (381), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 130/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + +R++ Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +GSN Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGSNQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|307730031|ref|YP_003907255.1| pseudouridine synthase [Burkholderia sp. CCGE1003] gi|307584566|gb|ADN57964.1| pseudouridine synthase [Burkholderia sp. CCGE1003] Length = 614 Score = 151 bits (381), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 132/228 (57%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRR++E +I RV VNG E A + +M TD + Sbjct: 205 KRVLSADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNG---EPAHIGQRIMPTDQVR 261 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 262 INGKPVKRKLANKPPRVLLYHKPTGEIVSHADPEGRPSVFDKLPPMKTAKWLAVGRLDFN 321 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 322 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLNGVELDDGPANFLRI 381 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 382 RDGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPISL 429 >gi|78066108|ref|YP_368877.1| ribosomal large subunit pseudouridine synthase B [Burkholderia sp. 383] gi|77966853|gb|ABB08233.1| ribosomal large subunit pseudouridine synthase B [Burkholderia sp. 383] Length = 588 Score = 151 bits (381), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 85/229 (37%), Positives = 133/229 (58%), Gaps = 9/229 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHI 60 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 175 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNG---EPAHIGQRIMPTDQV 231 Query: 61 EVDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDI 116 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD Sbjct: 232 RINGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDF 291 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLL+LT G LA P R Y VR G++ + L G+ + ++ Sbjct: 292 NTEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLHGVELDDGPANFLR 351 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 352 IRDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPL 400 >gi|315126449|ref|YP_004068452.1| pseudouridine synthase [Pseudoalteromonas sp. SM9913] gi|315014963|gb|ADT68301.1| pseudouridine synthase [Pseudoalteromonas sp. SM9913] Length = 289 Score = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 91/217 (41%), Positives = 133/217 (61%), Gaps = 6/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---KA 70 +++ KV+ARAG+ SRRE+E+ I RV VNG + + V TD I VDG ++ KA Sbjct: 6 EKLQKVLARAGVGSRREMEKYIDANRVSVNGKVA-KLGDRVEETDLIRVDGHTVKIEEKA 64 Query: 71 ER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 +R R+ +Y+KP G ++T DP+GR TVFD LP I R I+VGRLD+NT GL+L TNDG Sbjct: 65 DRICRVIMYNKPEGELSTRKDPEGRRTVFDRLPRIDGDRWIAVGRLDVNTSGLMLFTNDG 124 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y R G+V + + L +G+ ++ + +G N W Sbjct: 125 ELANRLMHPSYEVEREYSARVFGEVTDETMKNLLRGVELEDGPAKFTGIKPMGGEGINRW 184 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EG+NRE++++++ + +V+RLIRI YG +L Sbjct: 185 YNVTLNEGRNREVRRLWQSQDVEVSRLIRIRYGKLEL 221 >gi|37526345|ref|NP_929689.1| 23S rRNA pseudouridylate synthase B [Photorhabdus luminescens subsp. laumondii TTO1] gi|36785776|emb|CAE14826.1| unnamed protein product [Photorhabdus luminescens subsp. laumondii TTO1] Length = 310 Score = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 130/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG--VPLRKA 70 +++ K++AR+G SRRE+E I Q RV V+G I + V I +DG + ++++ Sbjct: 9 EKLQKILARSGHGSRREIEGYIQQGRVSVDGKIATLGDRLEVQPATKIRLDGRILNIKES 68 Query: 71 ERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 ++T R+ Y+KP G + T DP+GR TVFD LP + SR I+VGRLD+NT GLLL T D Sbjct: 69 QKTVCRVLAYYKPEGELCTRHDPEGRPTVFDRLPKLLGSRWIAVGRLDVNTCGLLLFTTD 128 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+VD KL L KGI ++ + +G N Sbjct: 129 GELANRLMHPSREVEREYAVRVFGEVDDAKLKQLAKGIQLEEGPASFRTIAFKGGEGMNQ 188 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 189 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIGL 226 >gi|323525722|ref|YP_004227875.1| pseudouridine synthase [Burkholderia sp. CCGE1001] gi|323382724|gb|ADX54815.1| pseudouridine synthase [Burkholderia sp. CCGE1001] Length = 618 Score = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 132/228 (57%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRR++E +I RV VNG E A + +M TD + Sbjct: 208 KRVLSADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNG---EPAHIGQRIMPTDQVR 264 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 265 INGKPVKRKLANKPPRVLLYHKPTGEIVSHADPEGRPSVFDKLPPMKTAKWLAVGRLDFN 324 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 325 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLNGVELDDGPANFLRI 384 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 385 RDGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPISL 432 >gi|329894510|ref|ZP_08270324.1| Ribosomal large subunit pseudouridine synthase B [gamma proteobacterium IMCC3088] gi|328923035|gb|EGG30360.1| Ribosomal large subunit pseudouridine synthase B [gamma proteobacterium IMCC3088] Length = 303 Score = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 92/211 (43%), Positives = 120/211 (56%), Gaps = 4/211 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--E 71 +++ KV+ARAG+ SRRE+E+ I+ RVK++G + E V IEVDG L +A E Sbjct: 32 EKLQKVLARAGLGSRREMEKWISDGRVKLDGRIAE-LGDRVCDNAAIEVDGQALSRAPAE 90 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGL 130 R LYHKP G V T DP+GR TVF+ LP + R IS+GRLD NT GLLL T DG L Sbjct: 91 AVRCLLYHKPTGEVCTRKDPEGRRTVFERLPKVKGGRWISIGRLDYNTSGLLLFTTDGEL 150 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS R Y VR G+ D D L L G+ + + G N W Sbjct: 151 ANALMHPSAVIEREYMVRVMGEWDTDTLQRLIHGVELDDGFARFTDIQDGGGDGINHWFY 210 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V L EG+NRE+++++E V+RL R+ YG Sbjct: 211 VVLMEGRNREVRRLWESQGLTVSRLKRVRYG 241 >gi|156933739|ref|YP_001437655.1| 23S rRNA pseudouridylate synthase B [Cronobacter sakazakii ATCC BAA-894] gi|156531993|gb|ABU76819.1| hypothetical protein ESA_01565 [Cronobacter sakazakii ATCC BAA-894] Length = 361 Score = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 93/220 (42%), Positives = 127/220 (57%), Gaps = 10/220 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E MI RV V+G L +R V V I +DG + Sbjct: 3 EKLQKVLARAGHGSRREIEAMIEAGRVSVDGKIATLGDR--VEVTPALKIRIDGHLISVK 60 Query: 71 ER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 E R+ Y+KP G + T SDP+GR TVFD LP + +R I+VGRLD+NT GLLL T Sbjct: 61 ESVEQICRVLAYYKPEGELCTRSDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQVD K+ L +G+ ++ + +G Sbjct: 121 TDGELANRLMHPSQEVEREYAVRVFGQVDDAKVRELARGVQLEDGPAAFKTIRFSGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|291617615|ref|YP_003520357.1| RluB [Pantoea ananatis LMG 20103] gi|291152645|gb|ADD77229.1| RluB [Pantoea ananatis LMG 20103] Length = 294 Score = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 127/218 (58%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E MIA RV V+G L + I +DG + Sbjct: 3 EKLQKVLARAGHGSRREIEAMIAAGRVSVDGKLATLGDRIENSKALKIRIDGHLVSIAES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T SDP+GR TVFD LP + SR I+VGRLD+NT GL+L T D Sbjct: 63 ATEVCRVLAYYKPEGELCTRSDPEGRPTVFDRLPRLRGSRWIAVGRLDVNTCGLMLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD DK+ L KG+ ++ + KG + Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDDKIRQLSKGVQLEDGPAAFKTLRFAGGKGLTS 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +T+ L EG+NRE+++++E +V+RL+R+ YG L Sbjct: 183 GITLTLTEGRNREVRRLWEAVGVQVSRLMRVRYGDITL 220 >gi|134282285|ref|ZP_01768990.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 305] gi|134246323|gb|EBA46412.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 305] Length = 554 Score = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 132/228 (57%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + Sbjct: 173 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNG---EPAHIGQRIMPTDQVR 229 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ ++ R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 230 INGKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFN 289 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 290 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRI 349 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++ E V+RLIR +GP L Sbjct: 350 RDGGGEGTNHWYHVALAEGRNREVRRMLEAVGLMVSRLIRTRHGPIPL 397 >gi|71908073|ref|YP_285660.1| ribosomal large subunit pseudouridine synthase B [Dechloromonas aromatica RCB] gi|71847694|gb|AAZ47190.1| ribosomal large subunit pseudouridine synthase B [Dechloromonas aromatica RCB] Length = 340 Score = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 92/243 (37%), Positives = 139/243 (57%), Gaps = 11/243 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR-- 68 P R+ KV+A AG+ SRRE+E IA +V VNG++ +V+++D +++ G + +R Sbjct: 85 PVRLQKVLAEAGVGSRREMEEWIAAGKVSVNGVVAT-VGQSVVNSDKVKIGGRLINIRFT 143 Query: 69 -KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTN 126 + R+ +YHKP G + + DPDGR +VF LP + R I+VGRLD NT GLLL T Sbjct: 144 GSSRPPRVLMYHKPEGEIVSRDDPDGRPSVFAALPRMRGGRWINVGRLDFNTSGLLLFTT 203 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 G LA L PS++ +R Y VR G++ D L G+ ++ + +G+N Sbjct: 204 SGELANKLMHPSSELVREYAVRVLGELTLDAQQKLLHGVELEDGRANFGSLHDGGGEGAN 263 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF----QLGTLLAGSTREVSKKILR 242 W V + EG+NRE++++FE V+RLIR+ YGPF QL +A +E K+L Sbjct: 264 HWYRVTISEGRNREVRRMFEAVGCTVSRLIRVRYGPFILPPQLKRGMARELKEAEIKMLM 323 Query: 243 EQL 245 +L Sbjct: 324 REL 326 >gi|229592262|ref|YP_002874381.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas fluorescens SBW25] gi|229364128|emb|CAY51757.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas fluorescens SBW25] Length = 403 Score = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 104/272 (38%), Positives = 156/272 (57%), Gaps = 24/272 (8%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNVMST 57 KD+N QE +++ KV+AR G+ SRR+VE I Q+R+KVNG+ L +R ++ Sbjct: 4 KDQNDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQKRIKVNGVEATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVG 112 D I +DG +++ E R+ +Y+KP G + T DP+GR TVFD +P R I++G Sbjct: 60 DAITIDGKVIKREEAAESVRRVIMYNKPDGEICTRDDPEGRPTVFDKMPKPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLDINT GLL+ T DG LA L PS + R Y VR G+VD + + LK G+V++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVVLED--- 176 Query: 173 GDMQVTLDTQ----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT- 227 G + T Q +G N W + EG+NRE+++++E V+RL R+ +GP L + Sbjct: 177 GPAKFTDIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLNSD 236 Query: 228 LLAGSTREVSK---KILREQLGPHLLEEAQVN 256 L G RE+S+ IL ++G + Q+N Sbjct: 237 LPMGRWREMSQYEVDILSAEVGLTPVAMPQMN 268 >gi|330989187|gb|EGH87290.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. lachrymans str. M301315] Length = 408 Score = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 106/270 (39%), Positives = 153/270 (56%), Gaps = 20/270 (7%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VD +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAISVDDRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--I 170 RLDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPA 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LL 229 + D+Q + G N W + EG+NRE+++++E V+RL R+ YGP L + L Sbjct: 180 RFTDIQQAPGGE-GFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLP 238 Query: 230 AGSTREVSK---KILREQLGPHLLEEAQVN 256 G RE+S+ IL ++G + + Q+N Sbjct: 239 MGRWREMSQYEVDILAAEVGLQPVAQPQMN 268 >gi|296158769|ref|ZP_06841598.1| pseudouridine synthase [Burkholderia sp. Ch1-1] gi|295890974|gb|EFG70763.1| pseudouridine synthase [Burkholderia sp. Ch1-1] Length = 626 Score = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 132/228 (57%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRR++E +I RV VNG E A + +M TD + Sbjct: 202 KRVLAADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNG---EPAHIGQRIMPTDQVR 258 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 259 INGKPVKRKLANKPPRVLLYHKPTGEIVSHADPEGRPSVFDKLPPMKTAKWLAVGRLDFN 318 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 319 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLHGVELDDGPANFLRI 378 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 379 RDGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPISL 426 >gi|317048303|ref|YP_004115951.1| pseudouridine synthase [Pantoea sp. At-9b] gi|316949920|gb|ADU69395.1| pseudouridine synthase [Pantoea sp. At-9b] Length = 290 Score = 150 bits (379), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 92/218 (42%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E MI+ RV V+G L + + I +DG + AE Sbjct: 3 EKLQKVLARAGHGSRREIETMISAGRVSVDGKLATLGDRIENDKSLKIRIDGHLVSIAES 62 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 T R+ Y+KP G + T +DP+GR TVFD LP + SR I+VGRLD+NT GLLL T D Sbjct: 63 TTEVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPRLRGSRWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V DK+ L KG+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGEVGDDKIRQLSKGVQLEDGPAAFKTLRFAGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RL+R+ YG QL Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLMRVRYGDIQL 220 >gi|332283699|ref|YP_004415610.1| pseudouridylate synthase [Pusillimonas sp. T7-7] gi|330427652|gb|AEC18986.1| pseudouridylate synthase [Pusillimonas sp. T7-7] Length = 598 Score = 150 bits (379), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 92/226 (40%), Positives = 138/226 (61%), Gaps = 14/226 (6%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K + + TP ++ KV+A AG+ SRRE+E +I RV VNG E A + V + D + Sbjct: 144 KYLNSDALTP-KLHKVLADAGVGSRREMEELIVAGRVSVNG---EPAHIGQRVGANDQVR 199 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 V+G P+ + + R+ LYHKP G + +H DP+GR+TVF LP + + +SVGRLD+N Sbjct: 200 VNGRPIVRPNAKKPPRIILYHKPAGEIVSHDDPEGRATVFARLPKMRVGKWLSVGRLDLN 259 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GIC-YGDM 175 TEGLL+LT G LA L P R Y VR G++ +++ + L KGI ++ G+ +G + Sbjct: 260 TEGLLILTTSGDLANRLMHPRYGAEREYAVRVLGELGEEQQDKLLKGIQLEDGLAQFGSL 319 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + +GSN W V L+EG+NRE++++FE V+RLIR +G Sbjct: 320 EYL--GGEGSNRWYRVTLKEGRNREVRRMFEAAGVTVSRLIRTRFG 363 >gi|94499317|ref|ZP_01305855.1| hypothetical protein RED65_11024 [Oceanobacter sp. RED65] gi|94428949|gb|EAT13921.1| hypothetical protein RED65_11024 [Oceanobacter sp. RED65] Length = 290 Score = 150 bits (379), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 91/215 (42%), Positives = 130/215 (60%), Gaps = 11/215 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNVMSTDHIEVDGVPLRKA 70 +++ K++A+AG+ SRRE+ER I Q RV++NG L ERA + D I+VDG + Sbjct: 3 EKLQKILAQAGLGSRREMERWIEQGRVELNGSPAKLGERAE----AKDQIKVDGKVIEHG 58 Query: 71 ERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 +R R+ Y+KP G V T DP+GR TVFD LP + R I+VGRLDINT GLLL T D Sbjct: 59 QRKARRVLAYNKPEGEVCTRHDPEGRPTVFDRLPKLHGERWIAVGRLDINTSGLLLFTTD 118 Query: 128 GGLARVLELPSTQWL-RVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 G LA L PST + R Y VR G+V + + + +G++++ V G N Sbjct: 119 GELANKLMHPSTNTVDREYAVRVAGEVTDEAVKAMTEGVLLEDGMAKFTDVQYFDGDGFN 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 W V + EG+NRE+++++E +KV+RL R+ YG Sbjct: 179 QWYHVCIMEGRNREVRRLWESQGFKVSRLKRVRYG 213 >gi|148546656|ref|YP_001266758.1| RNA-binding S4 domain-containing protein [Pseudomonas putida F1] gi|148510714|gb|ABQ77574.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas putida F1] gi|313497712|gb|ADR59078.1| RNA-binding S4 domain-containing protein [Pseudomonas putida BIRD-1] Length = 355 Score = 150 bits (379), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 97/252 (38%), Positives = 149/252 (59%), Gaps = 19/252 (7%) Query: 1 MKDKNIVQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNV 54 M ++++ + TP +++ KV+AR G+ SRR+VE I+Q R+KVNG+ L +R ++ Sbjct: 1 MSEQDLKETEITPPSGEKLQKVLARIGVGSRRDVEAWISQGRIKVNGVEATLGQRVDLH- 59 Query: 55 MSTDHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVI 109 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I Sbjct: 60 ---DAIAVDGKLIKREEAAEATRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWI 116 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 ++GRLDINT GLLL T DG LA L PS + R Y VR G+VD + + LK G++++ Sbjct: 117 NIGRLDINTTGLLLFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVMLED 176 Query: 170 --ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 + D+Q + G N W + EG+NRE+++++E V+RL R+ +GP L + Sbjct: 177 GPAKFTDIQKAPGGE-GFNHWYHCVVMEGRNREVRRLWESQGMVVSRLKRVRFGPVFLNS 235 Query: 228 -LLAGSTREVSK 238 L G RE+++ Sbjct: 236 DLPMGRWREMTQ 247 >gi|15598375|ref|NP_251869.1| hypothetical protein PA3179 [Pseudomonas aeruginosa PAO1] gi|107102709|ref|ZP_01366627.1| hypothetical protein PaerPA_01003775 [Pseudomonas aeruginosa PACS2] gi|116051168|ref|YP_790001.1| hypothetical protein PA14_23110 [Pseudomonas aeruginosa UCBPP-PA14] gi|218890629|ref|YP_002439493.1| putative pseudouridine synthase [Pseudomonas aeruginosa LESB58] gi|254236141|ref|ZP_04929464.1| conserved hypothetical protein [Pseudomonas aeruginosa C3719] gi|254241866|ref|ZP_04935188.1| conserved hypothetical protein [Pseudomonas aeruginosa 2192] gi|296388337|ref|ZP_06877812.1| putative pseudouridine synthase [Pseudomonas aeruginosa PAb1] gi|34098721|sp|Q9HZ55|RLUB_PSEAE RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|9949297|gb|AAG06567.1|AE004742_3 conserved hypothetical protein [Pseudomonas aeruginosa PAO1] gi|115586389|gb|ABJ12404.1| putative pseudouridine synthase [Pseudomonas aeruginosa UCBPP-PA14] gi|126168072|gb|EAZ53583.1| conserved hypothetical protein [Pseudomonas aeruginosa C3719] gi|126195244|gb|EAZ59307.1| conserved hypothetical protein [Pseudomonas aeruginosa 2192] gi|218770852|emb|CAW26617.1| putative pseudouridine synthase [Pseudomonas aeruginosa LESB58] Length = 386 Score = 150 bits (379), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 98/244 (40%), Positives = 143/244 (58%), Gaps = 13/244 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ KV+AR G+ SRR+VE IA+ RV VNG + V S D I VDG +R+ E Sbjct: 14 EKLQKVLARLGVGSRRDVEVWIAEGRVNVNGSVAS-LGQRVDSHDAITVDGHLIRREEAA 72 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R+ +Y+KP G V T DP+GR T+FD LP + + R I+VGRLDINT GLLL T DG Sbjct: 73 ESVRRVLIYNKPEGEVCTRDDPEGRPTIFDRLPRLRTGRWINVGRLDINTTGLLLFTTDG 132 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSN 186 LA L PS + R Y VR G+V ++ + L G++++ + D+Q + G N Sbjct: 133 ELANRLMHPSYEMDREYAVRVRGEVTEEMIERLLNGVMLEDGPAKFSDIQQAPGGE-GFN 191 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP-FQLGTLLAGSTREVSKK---ILR 242 W + EG+NRE+++++E V+RL R+ +GP F L G RE+ ++ IL Sbjct: 192 HWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLTSELTMGRYREMDQREIDILS 251 Query: 243 EQLG 246 E++G Sbjct: 252 EEVG 255 >gi|146329607|ref|YP_001209391.1| ribosomal large subunit pseudouridine synthase, RluB [Dichelobacter nodosus VCS1703A] gi|146233077|gb|ABQ14055.1| ribosomal large subunit pseudouridine synthase, RluB [Dichelobacter nodosus VCS1703A] Length = 266 Score = 150 bits (379), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 94/240 (39%), Positives = 138/240 (57%), Gaps = 16/240 (6%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 ++N QR+ K +A G+ SRR++E I + R+KV+G + E + + + +DG PL Sbjct: 3 KKNDDAQRIQKYLAARGVGSRRQIETWIKEGRLKVDGRVAE-LGQKISGNERLSLDGKPL 61 Query: 68 RKAERTR----LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLL 122 R A + + +YHKP G + T DP+GR +VF +LP I R +++GRLD+NT GLL Sbjct: 62 RIAVEHKNPHMILMYHKPAGEICTRKDPEGRVSVFQHLPKISHGRWVAIGRLDLNTSGLL 121 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-------ICYGDM 175 L TNDG LA L PS + R Y VR G+V ++ L L++GI + IC Sbjct: 122 LFTNDGALANQLMHPSAEIEREYWVRVAGEVTEEMLTALRQGIPLDDGLARFTEICPLKT 181 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTR 234 DTQ N + +V L+EG+NRE+++++E KV+RL RI YG L +L AG R Sbjct: 182 LHEDDTQ--FNRYFSVTLKEGRNREVRRLWEAVGCKVSRLKRIRYGTISLPPSLSAGRHR 239 >gi|288941903|ref|YP_003444143.1| pseudouridine synthase [Allochromatium vinosum DSM 180] gi|288897275|gb|ADC63111.1| pseudouridine synthase [Allochromatium vinosum DSM 180] Length = 299 Score = 150 bits (379), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 103/258 (39%), Positives = 143/258 (55%), Gaps = 12/258 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-----VPL 67 P R+ K++A AG+ SRR++E I++ RV+VNG L + D I VDG P Sbjct: 17 PVRLQKLLAEAGLGSRRQIEGWISEGRVRVNG-QLAKLGDQATRADRIRVDGRDVTLKPK 75 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 R +E T++ +YHKP G + T DP+ R TVF LP R I+VGRLDINT GL+L T Sbjct: 76 RDSE-TQIIVYHKPEGELVTRRDPEERPTVFRRLPRPKQGRWIAVGRLDINTSGLILFTT 134 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G+V + L L GI + ++T G+N Sbjct: 135 DGELANRLMHPSREIEREYSVRILGEVAPETLERLTAGIELDDGPAKFERITDQGGTGAN 194 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 W V LREG+NRE+++++E V+RLIRI YG +LG L G+ R ++ E + Sbjct: 195 HWYNVVLREGRNREVRRLWEAAGCTVSRLIRIRYGNVELGRRLFPGNWRPLTDAERAELM 254 Query: 246 ---GPHLLEEAQVNLDAP 260 G +LE ++ AP Sbjct: 255 ALAGLRVLERPRLRRPAP 272 >gi|152987584|ref|YP_001347332.1| hypothetical protein PSPA7_1951 [Pseudomonas aeruginosa PA7] gi|150962742|gb|ABR84767.1| conserved hypothetical protein [Pseudomonas aeruginosa PA7] Length = 386 Score = 150 bits (379), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 98/244 (40%), Positives = 143/244 (58%), Gaps = 13/244 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ KV+AR G+ SRR+VE IA+ RV VNG + V S D I VDG +R+ E Sbjct: 14 EKLQKVLARLGVGSRRDVEVWIAEGRVNVNGSVAS-LGQRVDSHDAITVDGHLIRREEAA 72 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R+ +Y+KP G V T DP+GR T+FD LP + + R I+VGRLDINT GLLL T DG Sbjct: 73 ENVRRVLIYNKPEGEVCTRDDPEGRPTIFDRLPRLRTGRWINVGRLDINTTGLLLFTTDG 132 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSN 186 LA L PS + R Y VR G+V ++ + L G++++ + D+Q + G N Sbjct: 133 ELANRLMHPSYEMDREYAVRVRGEVSEEMIERLLDGVMLEDGPAKFSDIQQAPGGE-GFN 191 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP-FQLGTLLAGSTREVSKK---ILR 242 W + EG+NRE+++++E V+RL R+ +GP F L G RE+ ++ IL Sbjct: 192 HWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLTSELTMGRYREMDQREIDILS 251 Query: 243 EQLG 246 E++G Sbjct: 252 EEVG 255 >gi|258544383|ref|ZP_05704617.1| ribosomal large subunit pseudouridine synthase B [Cardiobacterium hominis ATCC 15826] gi|258520387|gb|EEV89246.1| ribosomal large subunit pseudouridine synthase B [Cardiobacterium hominis ATCC 15826] Length = 260 Score = 150 bits (378), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 95/237 (40%), Positives = 142/237 (59%), Gaps = 16/237 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAER 72 +R+ K +A G+ SRRE+E I + R++VNG L E + + + +DG PLR ER Sbjct: 6 ERIQKWLAARGLGSRREIEGWIREGRLRVNGKLAE-LGQRISGYERLSLDGKPLRVSPER 64 Query: 73 T---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 ++ +YHKP G + + +DPDGR TVF +LP + R +S+GRLD+NT GLLL TNDG Sbjct: 65 EAPRQILMYHKPPGEICSRNDPDGRPTVFRHLPKLRQGRWVSIGRLDLNTAGLLLFTNDG 124 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTL-----DT 181 LA L PS + R Y VR G+V++D L L+ G+ ++ C+ D+Q DT Sbjct: 125 ELANRLMHPSAEIEREYWVRVAGEVNEDTLQALRNGLELEDGFACFDDVQPLQALHEDDT 184 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 Q N + +V L+EG+NRE+++++E +V+RL RI +G L L AG R ++ Sbjct: 185 Q--YNRYFSVVLKEGRNREVRRLWEAVGCQVSRLKRIRFGNLWLPKNLAAGRWRPLT 239 >gi|94970889|ref|YP_592937.1| pseudouridine synthase, Rsu [Candidatus Koribacter versatilis Ellin345] gi|94552939|gb|ABF42863.1| Pseudouridine synthase, Rsu [Candidatus Koribacter versatilis Ellin345] Length = 680 Score = 150 bits (378), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 93/237 (39%), Positives = 134/237 (56%), Gaps = 27/237 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K+IA AG+ASRR+ E ++ RV VNG + E + TD I VDG PL KAE+ Sbjct: 4 ERLQKIIAAAGMASRRKAEELVTAGRVTVNGEVKNELGSKADPETDDIRVDGKPL-KAEQ 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L HKP G VTT SDP+GR TV D + I +R+ VGRLD +EGLLLLTNDG +A Sbjct: 63 LVYVLLHKPKGYVTTVSDPEGRETVMDLVKGIPARLYPVGRLDYLSEGLLLLTNDGEMAA 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGD--------------- 174 L ST + Y V+ G+ ++++ L+ G+ + QG + D Sbjct: 123 KLTHASTHVPKKYLVKVSGEPTEEQIQELRNGVQLPPEQGHIHADPREGGRFGGEKRRST 182 Query: 175 ------MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ L T++G N W V L EG+NR+I+++F+F V ++ R+ YGP +L Sbjct: 183 AVKTAPCKIEL-TREGDNPWYEVTLNEGRNRQIRRMFDFIGHHVEKIKRVEYGPLKL 238 >gi|187931629|ref|YP_001891613.1| 16S rRNA pseudouridine synthase [Francisella tularensis subsp. mediasiatica FSC147] gi|187712538|gb|ACD30835.1| 16S rRNA pseudouridine synthase [Francisella tularensis subsp. mediasiatica FSC147] Length = 271 Score = 150 bits (378), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 98/235 (41%), Positives = 133/235 (56%), Gaps = 14/235 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPL-- 67 P+R+ K++A+ GI SRR++E I Q RVKVNG L ++A+ D I DG L Sbjct: 12 PERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVATLGDKAS----EADKISFDGKALHS 67 Query: 68 --RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLL 124 + R R+ +YHK G V T D R TVFD+LP + SR I VGRLDINT GLLL Sbjct: 68 YGQPMTRPRVVIYHKRAGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLDINTTGLLLF 127 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHG-QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS Q R Y VR G Q+ + +N LK+GI ++ + + Sbjct: 128 TTDGDLANRLMHPSYQIEREYAVRVFGQQLSDETINKLKEGIQLEDGMAKFNSIKFSGGE 187 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 G+N W V L EG+NRE++++FE V+RL RI +G L ++ G T E++ Sbjct: 188 GANLWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGDIILPKFVSRGKTLELN 242 >gi|163791509|ref|ZP_02185915.1| RluB [Carnobacterium sp. AT7] gi|159873232|gb|EDP67330.1| RluB [Carnobacterium sp. AT7] Length = 244 Score = 150 bits (378), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 84/225 (37%), Positives = 132/225 (58%), Gaps = 3/225 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR+ E +I++ VKVNG +++ + + ++D +EVDGVP+ + E Sbjct: 2 ERLQKVLAHAGVASRRKSEELISKGHVKVNGKVVKEMGIQIGNSDVVEVDGVPIYREEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP ++T SD GR V D P+I R+ VGRLD +T G L+LTNDG L+++ Sbjct: 62 -YFLLNKPRNMITAVSDDKGRPVVTDLFPNIEQRIYPVGRLDYDTTGALMLTNDGELSQL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P Q + Y + G VD+ LN L+KG+V++G ++ + V + Sbjct: 121 LMHPKYQINKTYVAKVKGLVDRKALNKLEKGVVVEGKKTAPAKAKILSADRAKDITMVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + EG+NR++K +F+ V +L R SYG L L G RE+ Sbjct: 181 TIHEGRNRQVKNMFQAIGHPVEKLKRESYGTLNLDGLQTGEWREL 225 >gi|167627916|ref|YP_001678416.1| 16S rRNA pseudouridine synthase [Francisella philomiragia subsp. philomiragia ATCC 25017] gi|167597917|gb|ABZ87915.1| 16S rRNA pseudouridine synthase [Francisella philomiragia subsp. philomiragia ATCC 25017] Length = 271 Score = 149 bits (377), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 97/235 (41%), Positives = 135/235 (57%), Gaps = 12/235 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPL-- 67 TP+R+ K++A+ GI SRR++E I Q RV+VNG + A + +TD I DG L Sbjct: 11 TPERLQKLLAKYGIGSRRKIEEFIEQGRVRVNGKV---ATIGDKATDKDKISFDGKALHS 67 Query: 68 --RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLL 124 + R R+ +YHK G V T D R TVFD+LP + SR I +GRLDINT GLLL Sbjct: 68 YGQPMTRPRVIIYHKREGEVCTSKDEKDRKTVFDSLPRLAKSRWIMIGRLDINTTGLLLF 127 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQ-VDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS + R Y VR +GQ + + LN LK+GI ++ + + Sbjct: 128 TTDGDLANRLMHPSYEIEREYAVRVYGQELSDETLNKLKEGIQLEDGMAKFNNIKFSGGE 187 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 G+N W V L EG+NRE++++FE V+RL RI +G L ++ G T E++ Sbjct: 188 GANLWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGNIILPKFVSRGKTLELN 242 >gi|167836825|ref|ZP_02463708.1| RNA pseudouridylate synthase family protein [Burkholderia thailandensis MSMB43] Length = 358 Score = 149 bits (377), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 83/217 (38%), Positives = 128/217 (58%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKA-- 70 ++ KV+A AG+ SRRE+E +I RV VNG E A + +M TD + ++G P+++ Sbjct: 71 KLHKVLAEAGMGSRREMEELIVAGRVSVNG---EPAHIGQRIMPTDQVRINGKPVKRKLP 127 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTEGLL+LT G Sbjct: 128 NKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTEGLLMLTTSG 187 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA P R Y VR G++ + L G+ + +++ +G+N W Sbjct: 188 DLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRIRDGGGEGTNHW 247 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EG+NRE++++F+ V+RLIR +GP L Sbjct: 248 YHVALAEGRNREVRRMFDAVGLMVSRLIRTRHGPIPL 284 >gi|254496468|ref|ZP_05109345.1| pseudouridine synthase [Legionella drancourtii LLAP12] gi|254354324|gb|EET12982.1| pseudouridine synthase [Legionella drancourtii LLAP12] Length = 252 Score = 149 bits (377), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 91/235 (38%), Positives = 135/235 (57%), Gaps = 7/235 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----P 66 + +R+ K++++AG+ SRRE+ER I V+VNG + + + D I V G P Sbjct: 1 MSSERLQKILSQAGLGSRREMERWIENGWVQVNGKPV-KLGDSASGDDKITVKGKLIPNP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 L+ + TR+ LYHKP+G +++ DP TVFD LP + R + VGRLD+NT GLL+ T Sbjct: 60 LKIKQNTRILLYHKPVGEISSRHDPKFEKTVFDRLPHLRQGRWVQVGRLDLNTSGLLIFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N+G LA L P R Y VR HGQV Q+ L +L+KG+ + ++ G+ Sbjct: 120 NNGELANQLMHPRYGLEREYAVRVHGQVTQEMLTVLQKGVELDDGPAKFSRLESRGGDGA 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 N W V L EG+NRE+++++E +V+RLIRI YG + L T E++ K Sbjct: 180 NTWYHVTLNEGRNREVRRLWESQGVEVSRLIRIRYGMLTMPRFLGRAQTYELTPK 234 >gi|241668468|ref|ZP_04756046.1| 16S rRNA pseudouridine synthase [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|254877002|ref|ZP_05249712.1| ribosomal large subunit pseudouridine synthase B [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|254843023|gb|EET21437.1| ribosomal large subunit pseudouridine synthase B [Francisella philomiragia subsp. philomiragia ATCC 25015] Length = 271 Score = 149 bits (377), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 97/235 (41%), Positives = 135/235 (57%), Gaps = 12/235 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPL-- 67 TP+R+ K++A+ GI SRR++E I Q RV+VNG + A + +TD I DG L Sbjct: 11 TPERLQKLLAKYGIGSRRKIEEFIEQGRVRVNGKV---ATLGDKATDKDKISFDGKALHS 67 Query: 68 --RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLL 124 + R R+ +YHK G V T D R TVFD+LP + SR I +GRLDINT GLLL Sbjct: 68 YGQPMTRPRVIIYHKREGEVCTSKDEKDRKTVFDSLPKLAKSRWIMIGRLDINTTGLLLF 127 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQ-VDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS + R Y VR +GQ + + LN LK+GI ++ + + Sbjct: 128 TTDGDLANRLMHPSYEIEREYAVRVYGQELSDETLNKLKEGIQLEDGMAKFNNIKFSGGE 187 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 G+N W V L EG+NRE++++FE V+RL RI +G L ++ G T E++ Sbjct: 188 GANLWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGDIILPKFVSRGKTLELN 242 >gi|226943690|ref|YP_002798763.1| Pseudouridine synthase [Azotobacter vinelandii DJ] gi|226718617|gb|ACO77788.1| Pseudouridine synthase [Azotobacter vinelandii DJ] Length = 382 Score = 149 bits (377), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 95/243 (39%), Positives = 142/243 (58%), Gaps = 14/243 (5%) Query: 8 QENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +EN P +++ KV+AR G+ SRR++E IA+ RV VNG + V D I +D Sbjct: 5 EENSPPAAQGEKLQKVLARMGLGSRRDIEARIAEGRVMVNGTVAT-LGQRVGRHDAIALD 63 Query: 64 GVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINT 118 G LR+ E R+ +Y+KP G + T +DP+GR TVFD LP + R +++GRLDINT Sbjct: 64 GRLLRREEGAELVRRVLIYNKPDGEICTRNDPEGRPTVFDRLPRLKEGRWVNIGRLDINT 123 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQ 176 GLLL T DG LA L PS + R Y VR G+V ++ L LK+G++++ + D+Q Sbjct: 124 TGLLLFTTDGELANRLMHPSYEMDREYAVRVRGEVTEEMLETLKRGVMLEDGPARFTDIQ 183 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP-FQLGTLLAGSTRE 235 + G N W + EG+NRE+++++E V+RL R+ +GP F L G RE Sbjct: 184 EAPGGE-GLNHWFHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFMTSDLAMGRWRE 242 Query: 236 VSK 238 +++ Sbjct: 243 MTQ 245 >gi|85859158|ref|YP_461360.1| RNA pseudouridylate synthase S4 domain-containing protein [Syntrophus aciditrophicus SB] gi|85722249|gb|ABC77192.1| RNA pseudouridylate synthase S4 domain [Syntrophus aciditrophicus SB] Length = 251 Score = 149 bits (377), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 87/223 (39%), Positives = 134/223 (60%), Gaps = 3/223 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K++AR+G+ASRR+ E MI + RV VN I+ E + + D I VDG L AE Sbjct: 3 ERLQKILARSGVASRRKAEEMIREGRVSVNSEIVRELGSKADIERDEIRVDG-KLICAEE 61 Query: 73 TRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 T+++ + +KP G VT SDP R V LP + R+ VGRLD ++EGLLLLTNDGG A Sbjct: 62 TKVYVMLNKPRGYVTALSDPQKRPLVIHLLPELGVRLFPVGRLDYDSEGLLLLTNDGGFA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + ++ P + + YRV+ G+++ + N L+KG+ ++ + +V L+ ++W+T+ Sbjct: 122 QRVQHPRYRISKTYRVKISGRLNAAEFNRLQKGLELEDGKFAPDEVALEEINPKSSWLTM 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EG+NR I++ FE +V RLIR + LG L G R Sbjct: 182 KISEGRNRVIRRAFEQLGHEVLRLIRTAVADLHLGNLREGDYR 224 >gi|284007498|emb|CBA72981.1| ribosomal large subunit pseudouridine synthase B [Arsenophonus nasoniae] Length = 322 Score = 149 bits (377), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 91/223 (40%), Positives = 131/223 (58%), Gaps = 16/223 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLR--KA 70 +++ KV+AR G SRRE+E I R+ V+G L + V + I +DG LR +A Sbjct: 23 EKLQKVLARCGYGSRREIESFIQSGRISVDGQLATLGDRIEVKANTKIRLDGHLLRIKEA 82 Query: 71 ERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 E++ R+ Y+KP G + TH DP+GR TVFD LP + SR I++GRLD+NT GLLL T D Sbjct: 83 EKSICRILAYYKPEGELCTHHDPEGRPTVFDRLPKLTGSRWIAIGRLDVNTCGLLLFTTD 142 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK---- 183 G LA L P + R Y VR G+++ K+ L KG+ ++ D + + T K Sbjct: 143 GELANRLMHPRHEVEREYAVRVFGEINDAKIRQLTKGVQLE-----DGEASFKTLKFRGG 197 Query: 184 -GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 198 EGMNQWFNVTLTEGRNREVRRLWEAVGIQVSRLIRVRYGDIYL 240 >gi|117919973|ref|YP_869165.1| ribosomal large subunit pseudouridine synthase B [Shewanella sp. ANA-3] gi|117612305|gb|ABK47759.1| ribosomal large subunit pseudouridine synthase B [Shewanella sp. ANA-3] Length = 291 Score = 149 bits (377), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 89/218 (40%), Positives = 134/218 (61%), Gaps = 8/218 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E IA RV ++G++ + + + +DG V L+ A+ Sbjct: 3 EKLQKVLARAGHGSRREMEAWIAAGRVSIDGVIAN-LGDRIEADAKVRIDGRAVSLKSAD 61 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP G + + DP+GR TVFD LP + SR ++VGRLDINT GLLL T+DG Sbjct: 62 DVICRVLAYHKPEGEICSRKDPEGRPTVFDRLPKVRDSRWVAVGRLDINTSGLLLFTSDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNA 187 LA L PS + R Y VR G+V + + L+ G++++ G+ D + +G N Sbjct: 122 ELANRLMHPSNEVEREYAVRTFGEVPEAAVQRLRTGVMLEDGMAQFDA-IKAAGGEGMNQ 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V LREG+NRE+++++E +V+RLIR+ YG +L Sbjct: 181 WWHVCLREGRNREVRRLWESQEVQVSRLIRVRYGMVEL 218 >gi|329297659|ref|ZP_08254995.1| 23S rRNA pseudouridylate synthase B [Plautia stali symbiont] Length = 292 Score = 149 bits (377), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 89/218 (40%), Positives = 126/218 (57%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E MI+ R+ V+G L + T I +DG + Sbjct: 3 EKLQKVLARAGHGSRREIEAMISAGRISVDGKLATLGDRIENDKTLKIRIDGHLVSIAES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T +DP+GR TVFD LP + SR I+VGRLD+NT GL+L T D Sbjct: 63 ATEVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPRLRGSRWIAVGRLDVNTCGLMLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS R Y VR G+VD +K+ L KG+ ++ + +G N Sbjct: 123 GELANRLMHPSRAVEREYAVRVFGEVDDEKVRQLSKGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG NRE+++++E +V+RL+R+ YG QL Sbjct: 183 WYNVTLTEGCNREVRRLWEAVGVQVSRLMRVRYGDIQL 220 >gi|167034997|ref|YP_001670228.1| RNA-binding S4 domain-containing protein [Pseudomonas putida GB-1] gi|166861485|gb|ABY99892.1| RNA-binding S4 domain protein [Pseudomonas putida GB-1] Length = 355 Score = 149 bits (377), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 100/255 (39%), Positives = 149/255 (58%), Gaps = 25/255 (9%) Query: 1 MKDKNIVQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNV 54 M ++++ TP +++ KV+AR G+ SRR+VE I+Q R+KVNG+ L +R ++ Sbjct: 1 MSEQDLQDTEITPPSGEKLQKVLARIGVGSRRDVEAWISQGRIKVNGVEATLGQRVDLH- 59 Query: 55 MSTDHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVI 109 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I Sbjct: 60 ---DAIAVDGKLIKREEAAEATRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWI 116 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 ++GRLDINT GLLL T DG LA L PS + R Y VR G+VD + + LK G++++ Sbjct: 117 NIGRLDINTTGLLLFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVMLED 176 Query: 170 ICYGDMQVTLDTQK-----GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 G + T D QK G N W + EG+NRE+++++E V+RL R+ +GP Sbjct: 177 ---GPAKFT-DIQKAPGGEGFNHWYHCVVMEGRNREVRRLWESQGMVVSRLKRVRFGPVF 232 Query: 225 LGT-LLAGSTREVSK 238 L + L G RE+++ Sbjct: 233 LNSDLPMGRWREMTQ 247 >gi|312962716|ref|ZP_07777205.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas fluorescens WH6] gi|311283091|gb|EFQ61683.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas fluorescens WH6] Length = 402 Score = 149 bits (376), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 102/274 (37%), Positives = 156/274 (56%), Gaps = 25/274 (9%) Query: 1 MKDKNIVQENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNVM 55 M D++ + P +++ KV+AR G+ SRR+VE I Q+R+KVNG+ L +R ++ Sbjct: 1 MNDQDHKDQEIGPAGEKLQKVLARIGVGSRRDVEAWITQKRIKVNGVEATLGQRVDLH-- 58 Query: 56 STDHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVIS 110 D I +DG +++ E R+ +Y+KP G + T DP+GR TVFD +P R I+ Sbjct: 59 --DAITIDGKVIKREEAAESVRRVIMYNKPDGEICTRDDPEGRPTVFDKMPKPKEGRWIN 116 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 +GRLDINT GLL+ T DG LA L PS + R Y VR G+VD + + LK G+V++ Sbjct: 117 IGRLDINTTGLLMFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVVLED- 175 Query: 171 CYGDMQVTLDTQ----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 G + T Q +G N W + EG+NRE+++++E V+RL R+ +GP L Sbjct: 176 --GPAKFTDIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLN 233 Query: 227 T-LLAGSTREVSK---KILREQLGPHLLEEAQVN 256 + L G RE+S+ IL ++G + Q+N Sbjct: 234 SDLPMGRWREMSQYEVDILSAEVGLTPVAMPQMN 267 >gi|257453996|ref|ZP_05619272.1| RNA pseudouridine synthase family protein [Enhydrobacter aerosaccus SK60] gi|257448661|gb|EEV23628.1| RNA pseudouridine synthase family protein [Enhydrobacter aerosaccus SK60] Length = 287 Score = 149 bits (376), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 131/218 (60%), Gaps = 8/218 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----K 69 +++ K +AR G+ SRR++E +I + RV VNG + V D I VDG LR Sbjct: 4 EKLQKALARLGLGSRRQMEDVIREGRVSVNGTVAT-IGDRVGQGDEIRVDGRLLRYTAEN 62 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 +R R+ +Y+KP G + + DP+GR TVF+ LP + R + VGRLDIN+ GLLL TNDG Sbjct: 63 EKRRRILMYYKPEGEICSAHDPEGRPTVFERLPPLNHDRWVMVGRLDINSTGLLLFTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNA 187 LA L PS + R Y VR G+V + + LK+G++++ G+ D + +G N Sbjct: 123 ELAHRLMHPSNEIEREYAVRVMGEVTPEIMLNLKRGVMLEDGMAQFD-DIVEKGGEGINK 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L+EG+NRE++++FE KV+RL+RI YG L Sbjct: 182 WYQVKLKEGRNREVRRLFESQGLKVSRLLRIRYGSVSL 219 >gi|206576006|ref|YP_002238999.1| ribosomal large subunit pseudouridine synthase B [Klebsiella pneumoniae 342] gi|288935908|ref|YP_003439967.1| pseudouridine synthase [Klebsiella variicola At-22] gi|290512947|ref|ZP_06552311.1| 23S rRNA pseudouridylate synthase B [Klebsiella sp. 1_1_55] gi|206565064|gb|ACI06840.1| ribosomal large subunit pseudouridine synthase B [Klebsiella pneumoniae 342] gi|288890617|gb|ADC58935.1| pseudouridine synthase [Klebsiella variicola At-22] gi|289774560|gb|EFD82564.1| 23S rRNA pseudouridylate synthase B [Klebsiella sp. 1_1_55] Length = 300 Score = 149 bits (376), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 126/218 (57%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E I RV V+G I V ++ I +DG V Sbjct: 3 EKLQKVLARAGHGSRREIEAKIEAGRVSVDGKIATLGDRVEIVPGLKIRIDGHLISVKES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD DKL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDDKLRQLSRGVQLEDGPAAFKTIKFTGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILL 220 >gi|149907885|ref|ZP_01896553.1| ribosomal large subunit pseudouridine synthase B [Moritella sp. PE36] gi|149808891|gb|EDM68822.1| ribosomal large subunit pseudouridine synthase B [Moritella sp. PE36] Length = 335 Score = 149 bits (376), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 93/227 (40%), Positives = 128/227 (56%), Gaps = 22/227 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 +++ KV+ARAG+ SRRE+E +IA+ RV VNG ++ V D I +DG P+ + Sbjct: 3 EKLQKVLARAGLGSRREMEAVIAEGRVSVNGEMVT-LGTRVEEVDRIRLDGNPVSVVKEE 61 Query: 73 ---TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R+ YHKP G + T DP+GR TVFD LP + S R I++GRLDINT GLLL T DG Sbjct: 62 DAVCRILAYHKPEGELCTRKDPEGRKTVFDRLPPLKSGRWIAIGRLDINTSGLLLFTTDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV----------IQGICYGDMQVT 178 LA L PS + R Y R G+V + L+ G+ I+G+ G Sbjct: 122 ELANRLMHPSHEVEREYSCRIFGEVTPKIIQNLRMGVELEDGPAKFQKIKGVAEG----- 176 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G N W V L EG+NRE+++++E +V+RLIRI YG L Sbjct: 177 -TGGEGLNQWYNVLLSEGRNREVRRLWESQGIQVSRLIRIRYGSLVL 222 >gi|152969819|ref|YP_001334928.1| 23S rRNA pseudouridylate synthase B [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|238894324|ref|YP_002919058.1| 23S rRNA pseudouridylate synthase B [Klebsiella pneumoniae NTUH-K2044] gi|262043008|ref|ZP_06016151.1| ribosomal large subunit pseudouridine synthase B [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|150954668|gb|ABR76698.1| pseudouridine synthase [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|238546640|dbj|BAH62991.1| pseudouridine synthase [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] gi|259039610|gb|EEW40738.1| ribosomal large subunit pseudouridine synthase B [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] Length = 300 Score = 149 bits (376), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 126/218 (57%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E I RV V+G I V ++ I +DG V Sbjct: 3 EKLQKVLARAGHGSRREIEAKIEAGRVSVDGKIATLGDRVEIVPGLKIRIDGHLISVKES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD DKL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDDKLRQLSRGVQLEDGPAAFKTIKFTGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILL 220 >gi|253699802|ref|YP_003020991.1| pseudouridine synthase [Geobacter sp. M21] gi|251774652|gb|ACT17233.1| pseudouridine synthase [Geobacter sp. M21] Length = 266 Score = 149 bits (376), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 83/225 (36%), Positives = 130/225 (57%), Gaps = 1/225 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K++++AG+ASRRE E +IA RV VNG ++ TD I +DG P+ E+ Sbjct: 3 ERLQKILSQAGVASRRESEGIIAAGRVAVNGTVVTELGTKADPDTDTITLDGKPITIEEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G +TT DP+GR V D L + RV +GRLD NTEGLLLLTNDG LA Sbjct: 63 RVYILLYKPVGYMTTMKDPEGRPIVSDLLKGVKERVYPIGRLDYNTEGLLLLTNDGALAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y VR GQV ++ L +G+ ++ +V ++ +N+W+++ Sbjct: 123 SLMHPSHEVDKGYLVRVSGQVSPLQIKKLSEGVKLEDGMTAPAKVLPMSESENNSWISIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+ R+++++ E V RL R Y ++G + G R ++ Sbjct: 183 IHEGRYRQVRRMCEAVGLNVVRLKRARYDFLEIGDMKPGEYRHLA 227 >gi|300114572|ref|YP_003761147.1| RNA-binding S4 domain-containing protein [Nitrosococcus watsonii C-113] gi|299540509|gb|ADJ28826.1| RNA-binding S4 domain protein [Nitrosococcus watsonii C-113] Length = 268 Score = 149 bits (376), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 89/217 (41%), Positives = 129/217 (59%), Gaps = 6/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----K 69 +R+ K++AR G+ SRREVE I RV++NGI + V D + ++G PL + Sbjct: 3 ERLQKILARGGLGSRREVEAWIKAGRVRINGIPAQ-LGDKVSDEDQVTINGRPLSPRRLQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 A +++ LYHK G + + DP+GR TVF +LP R +SVGRLDI+T GLLL T DG Sbjct: 62 APSSQVILYHKSAGEICSRKDPEGRPTVFRSLPRPRQGRWVSVGRLDISTSGLLLFTTDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PSTQ R Y VR G V + L L++G+ ++ ++ +G+N W Sbjct: 122 ELANRLMHPSTQVEREYAVRVLGAVTEATLERLQRGVQLEDGLASFKRILDAGGEGANHW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V LREG+ RE+++++E +V+RLIRI +GP L Sbjct: 182 YHVILREGRKREVRRLWESQGIQVSRLIRIRFGPVSL 218 >gi|188533752|ref|YP_001907549.1| 23S rRNA pseudouridylate synthase B [Erwinia tasmaniensis Et1/99] gi|188028794|emb|CAO96656.1| Ribosomal large subunit pseudouridine synthase B [Erwinia tasmaniensis Et1/99] Length = 295 Score = 149 bits (376), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 130/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E MI+ RV V+G L V + I +DG VP+ ++ Sbjct: 3 EKLQKVLARAGHGSRREIETMISAGRVSVDGKLATLGDRVEPSVSLKIRIDGHVVPVSES 62 Query: 71 --ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T +DP+GR TVFD LP + +R ++VGRLD+NT GLLL T D Sbjct: 63 ISEVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWVAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G VD +K+ L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGAVDDEKIKQLSRGVQLEDGPAAFKTLKFTGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIDL 220 >gi|138895852|ref|YP_001126305.1| pseudouridylate synthase [Geobacillus thermodenitrificans NG80-2] gi|134267365|gb|ABO67560.1| Pseudouridylate synthase [Geobacillus thermodenitrificans NG80-2] Length = 243 Score = 149 bits (376), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 87/226 (38%), Positives = 131/226 (57%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIARAGIASRR+ E MI Q RVKVNG ++ V V D +EVDG+P+ + E Sbjct: 2 ERLQKVIARAGIASRRKAEEMILQGRVKVNGRVVTELGVKVGPRDDVEVDGIPVEREEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ D GR V D I R+ +GRLD +T GLLLLTNDG A + Sbjct: 62 -YYLLYKPRGVISSVKDEKGRKVVTDFFKDIHQRIYPIGRLDYDTSGLLLLTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G +++L +KG++++ +V L + +K A V + Sbjct: 121 LMHPRYEIEKVYVAKVKGIPTREQLKQPEKGVLLEDGITAPAKVKLLSADRKKRAAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE +V +L R Y L L G RE+S Sbjct: 181 SIHEGRNRQVRRMFEAIGCEVLKLKRERYAFLDLKGLRPGEYRELS 226 >gi|330816691|ref|YP_004360396.1| hypothetical protein bgla_1g17950 [Burkholderia gladioli BSR3] gi|327369084|gb|AEA60440.1| hypothetical protein bgla_1g17950 [Burkholderia gladioli BSR3] Length = 575 Score = 149 bits (376), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 84/226 (37%), Positives = 134/226 (59%), Gaps = 10/226 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVD 63 + E+ P ++ KV+A AG+ SRRE+E +I RV VNG E A + ++ TD + ++ Sbjct: 181 LAPEDDAP-KLHKVLAEAGMGSRREMEELIVAGRVSVNG---EPAHIGQRILPTDQVRIN 236 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR++VFD LP + ++ ++VGRLD NTE Sbjct: 237 GKPVKRKLANKPPRVLLYHKPTGEIVSHADPEGRASVFDRLPPMKTAKWLAVGRLDFNTE 296 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++++ L G+ ++ +++ Sbjct: 297 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELNEASRQKLLHGVELEDGPANFLRIRD 356 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +G L Sbjct: 357 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGSIPL 402 >gi|324117539|gb|EGC11445.1| RNA pseudouridylate synthase [Escherichia coli E1167] Length = 299 Score = 149 bits (376), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 130/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + +R++ Sbjct: 12 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRES 71 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ +Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 72 AEQICRVLVYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 131 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 132 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 191 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 192 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 229 >gi|168700584|ref|ZP_02732861.1| ribosomal large subunit pseudouridine synthase B [Gemmata obscuriglobus UQM 2246] Length = 271 Score = 149 bits (376), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 90/235 (38%), Positives = 133/235 (56%), Gaps = 12/235 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 +R++K +A AG+ SRR +++I+ RVKVNG+ + + + + H I VD P+R AE+ Sbjct: 2 ERLNKYLAHAGVGSRRHCDKLISAGRVKVNGVKVTELGLKIDPSAHQIAVDDQPVR-AEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 W +KP+G + T+ DP GR D LP + RV +VGRLD ++GLLL+TNDG LA+ Sbjct: 61 LVYWAVNKPVGHLCTNHDPAGRPRAVDLLPHVEQRVYTVGRLDEGSDGLLLMTNDGDLAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-----GSNA 187 L P ++Y V G+ D L L + G+ D +V + K G+ Sbjct: 121 GLTHPRYGVPKMYFVLVAGRPTDDDLQKL-----MDGVWLSDGKVRAKSAKRIKAQGNGT 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 WV V L EGKNREI+++ F KV RL R++ GP +L L G R +S + L+ Sbjct: 176 WVRVVLTEGKNREIRRMLAKFGHKVMRLKRVAIGPVKLDKLPKGKARRISDEELK 230 >gi|186476490|ref|YP_001857960.1| pseudouridine synthase [Burkholderia phymatum STM815] gi|184192949|gb|ACC70914.1| pseudouridine synthase [Burkholderia phymatum STM815] Length = 597 Score = 149 bits (376), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 83/228 (36%), Positives = 133/228 (58%), Gaps = 9/228 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++ + ++ KV+A AG+ SRR++E +I RV VNG E A + ++ TD + Sbjct: 191 KRVLSPDDDAPKLHKVLADAGMGSRRDMEELIVAGRVSVNG---EPAHIGQRILPTDLVR 247 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G P+++ ++ R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD N Sbjct: 248 INGKPIKRKLQSKPPRVLLYHKPTGEIVSHADPEGRPSVFDKLPPMKTAKWLAVGRLDFN 307 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 308 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELTEGNRQKLLHGVELDDGPANFLRI 367 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +GP L Sbjct: 368 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIAL 415 >gi|197285199|ref|YP_002151071.1| 23S rRNA pseudouridylate synthase B [Proteus mirabilis HI4320] gi|227355624|ref|ZP_03840018.1| ribosomal large subunit pseudouridine synthase B [Proteus mirabilis ATCC 29906] gi|194682686|emb|CAR42838.1| ribosomal large subunit pseudouridine synthase B [Proteus mirabilis HI4320] gi|227164231|gb|EEI49124.1| ribosomal large subunit pseudouridine synthase B [Proteus mirabilis ATCC 29906] Length = 308 Score = 149 bits (376), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 88/220 (40%), Positives = 133/220 (60%), Gaps = 10/220 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNVMSTDHIEVDG--VPLR 68 +++ K++AR+G SRRE+E + + R+ ++G+ L +R N ST I +DG + +R Sbjct: 9 EKLQKILARSGHGSRREIEGYLQEGRISIDGVKAKLGDRIDAN--STAKIRLDGRILSIR 66 Query: 69 KAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 +A++ R+ Y+KP G + T SDP GR TVF LP + S R I+VGRLD+NT GLLL T Sbjct: 67 EAQKDVCRVLAYYKPEGELCTRSDPQGRPTVFQRLPRLNSARWIAVGRLDVNTSGLLLFT 126 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR G++D K+ L +G+ ++ V+ +G Sbjct: 127 TDGELANRLMHPSREVEREYAVRVFGEIDDAKIRQLTRGVQLEDGPASFRSVSYRGGEGI 186 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 187 NQWYNVSLTEGRNREVRRMWEAVGVQVSRLIRVRYGDIDL 226 >gi|152979359|ref|YP_001344988.1| pseudouridine synthase [Actinobacillus succinogenes 130Z] gi|150841082|gb|ABR75053.1| pseudouridine synthase [Actinobacillus succinogenes 130Z] Length = 373 Score = 149 bits (375), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 105/255 (41%), Positives = 147/255 (57%), Gaps = 12/255 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +IA+ RV V+G + V V S I +DG V L Sbjct: 92 EKLQKVLARAGQGSRREIEAVIAEGRVSVDGKIAALGDRVIVHSGLKIRIDGHLVNLTGV 151 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 ++ R+ +Y+KP G + T DP+GR+TVF+ LP + SR ++VGRLDINT GLLL T D Sbjct: 152 QKDVCRVLMYYKPEGELCTRHDPEGRATVFERLPRLTGSRWVAVGRLDINTSGLLLFTTD 211 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G VD L L+KG+ ++ + G N Sbjct: 212 GELANRLMHPSREVEREYSVRVFGNVDDAMLARLQKGVQLEDGPANFTAIKPAGGTGMNR 271 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILRE 243 W V L EG+NRE+++++E +V+RLIRI YG +L TL G +E+ + LRE Sbjct: 272 WFDVTLIEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKTLPRGGWQEMDLENVNYLRE 331 Query: 244 QLGPHLLEEAQVNLD 258 +G L E + LD Sbjct: 332 LVG--LPPETETRLD 344 >gi|113969809|ref|YP_733602.1| ribosomal large subunit pseudouridine synthase B [Shewanella sp. MR-4] gi|114047038|ref|YP_737588.1| ribosomal large subunit pseudouridine synthase B [Shewanella sp. MR-7] gi|113884493|gb|ABI38545.1| ribosomal large subunit pseudouridine synthase B [Shewanella sp. MR-4] gi|113888480|gb|ABI42531.1| ribosomal large subunit pseudouridine synthase B [Shewanella sp. MR-7] Length = 291 Score = 149 bits (375), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 88/218 (40%), Positives = 134/218 (61%), Gaps = 8/218 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E IA RV ++G++ + + + +DG + L+ A+ Sbjct: 3 EKLQKVLARAGHGSRREMEAWIAAGRVSIDGVIAN-LGDRIEADAKVRIDGRAISLKSAD 61 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP G + + DP+GR TVFD LP + SR ++VGRLDINT GLLL T+DG Sbjct: 62 DVICRVLAYHKPEGEICSRKDPEGRPTVFDRLPKVRDSRWVAVGRLDINTSGLLLFTSDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNA 187 LA L PS + R Y VR G+V + + L+ G++++ G+ D + +G N Sbjct: 122 ELANRLMHPSNEVEREYAVRTFGEVPEAAVQRLRTGVMLEDGMAQFDA-IKAAGGEGMNQ 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V LREG+NRE+++++E +V+RLIR+ YG +L Sbjct: 181 WWHVCLREGRNREVRRLWESQEVQVSRLIRVRYGMVEL 218 >gi|197119460|ref|YP_002139887.1| 23S rRNA pseudouridine 2605 synthase [Geobacter bemidjiensis Bem] gi|197088820|gb|ACH40091.1| 23S rRNA pseudouridine 2605 synthase [Geobacter bemidjiensis Bem] Length = 266 Score = 149 bits (375), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 83/225 (36%), Positives = 130/225 (57%), Gaps = 1/225 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K++++AG+ASRRE E +IA RV VNG ++ TD I +DG P+ E+ Sbjct: 3 ERLQKILSQAGVASRRESEGIIAAGRVAVNGTVVTELGTKADPDTDTITLDGKPITIEEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G +TT DP+GR V D L + RV +GRLD NTEGLLLLTNDG LA Sbjct: 63 RVYILLYKPVGYMTTMKDPEGRPIVSDLLNGVKERVYPIGRLDYNTEGLLLLTNDGALAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y VR GQV ++ L +G+ ++ +V ++ +N+W+++ Sbjct: 123 SLMHPSHEVDKGYLVRVSGQVSPLQIKKLSEGVKLEDGMTAPAKVLPVSESENNSWISIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+ R+++++ E V RL R Y ++G + G R ++ Sbjct: 183 IHEGRYRQVRRMCEAVGLNVVRLKRARYDFLEIGDMKPGEYRHLA 227 >gi|62261679|gb|AAX78007.1| unknown protein [synthetic construct] Length = 306 Score = 149 bits (375), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 98/235 (41%), Positives = 133/235 (56%), Gaps = 14/235 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPL-- 67 P+R+ K++A+ GI SRR++E I Q RVKVNG L ++A+ D I DG L Sbjct: 38 PERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVATLGDKAS----EADKISFDGKALHS 93 Query: 68 --RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLL 124 + R R+ +YHK G V T D R TVFD+LP + SR I VGRLDINT GLLL Sbjct: 94 YGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLDINTTGLLLF 153 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHG-QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS Q R Y VR G Q+ + +N LK+GI ++ + + Sbjct: 154 TTDGDLANRLMHPSYQIEREYAVRVFGQQLSDETINKLKEGIQLEDGMAKFNSIKFSGGE 213 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 G+N W V L EG+NRE++++FE V+RL RI +G L ++ G T E++ Sbjct: 214 GANLWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGDIILPKFVSRGKTLELN 268 >gi|56708141|ref|YP_170037.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. tularensis SCHU S4] gi|110670612|ref|YP_667169.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. tularensis FSC198] gi|118497537|ref|YP_898587.1| 16S rRNA pseudouridine synthase [Francisella tularensis subsp. novicida U112] gi|195536233|ref|ZP_03079240.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. novicida FTE] gi|208779336|ref|ZP_03246682.1| ribosomal large subunit pseudouridine synthase B [Francisella novicida FTG] gi|224457237|ref|ZP_03665710.1| 16S rRNA pseudouridine synthase [Francisella tularensis subsp. tularensis MA00-2987] gi|254370626|ref|ZP_04986631.1| hypothetical protein [Francisella tularensis subsp. tularensis FSC033] gi|254874944|ref|ZP_05247654.1| rluB, ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. tularensis MA00-2987] gi|56604633|emb|CAG45689.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. tularensis SCHU S4] gi|110320945|emb|CAL09072.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. tularensis FSC198] gi|118423443|gb|ABK89833.1| 16S rRNA pseudouridine synthase [Francisella novicida U112] gi|151568869|gb|EDN34523.1| hypothetical protein FTBG_00414 [Francisella tularensis subsp. tularensis FSC033] gi|194372710|gb|EDX27421.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. novicida FTE] gi|208745136|gb|EDZ91434.1| ribosomal large subunit pseudouridine synthase B [Francisella novicida FTG] gi|254840943|gb|EET19379.1| rluB, ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. tularensis MA00-2987] gi|282159347|gb|ADA78738.1| 16S rRNA pseudouridine synthase [Francisella tularensis subsp. tularensis NE061598] gi|332184099|gb|AEE26353.1| Ribosomal large subunit pseudouridine synthase B [Francisella cf. novicida 3523] Length = 271 Score = 149 bits (375), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 98/235 (41%), Positives = 133/235 (56%), Gaps = 14/235 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPL-- 67 P+R+ K++A+ GI SRR++E I Q RVKVNG L ++A+ D I DG L Sbjct: 12 PERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVATLGDKAS----EADKISFDGKALHS 67 Query: 68 --RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLL 124 + R R+ +YHK G V T D R TVFD+LP + SR I VGRLDINT GLLL Sbjct: 68 YGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLDINTTGLLLF 127 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHG-QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS Q R Y VR G Q+ + +N LK+GI ++ + + Sbjct: 128 TTDGDLANRLMHPSYQIEREYAVRVFGQQLSDETINKLKEGIQLEDGMAKFNSIKFSGGE 187 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 G+N W V L EG+NRE++++FE V+RL RI +G L ++ G T E++ Sbjct: 188 GANLWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGDIILPKFVSRGKTLELN 242 >gi|257094536|ref|YP_003168177.1| RNA-binding S4 domain-containing protein [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] gi|257047060|gb|ACV36248.1| RNA-binding S4 domain protein [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] Length = 322 Score = 149 bits (375), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 89/219 (40%), Positives = 133/219 (60%), Gaps = 9/219 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDG--VPLR 68 P+R+ K++A++GI SRRE+E +IA R+ +NG E A+V ++ D ++V+G V LR Sbjct: 66 PERLHKLLAQSGIGSRREMEELIAAGRISING---ETASVGQTASAGDRVKVNGKLVQLR 122 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTN 126 ++R R+ LYHKP G + + +DP+ R VF ++P I + R ++VGRLD NT GLLLLT Sbjct: 123 FSDRLPRVILYHKPEGEIVSRNDPEHRPNVFTSMPRISAGRWVAVGRLDFNTSGLLLLTT 182 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 G LA L P Q +R Y VR G++ ++ L GI + +G+N Sbjct: 183 SGDLANRLMHPRYQLVREYAVRILGELTEEVRRQLLDGIDLDDGPAQFASFQEAGGEGAN 242 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE++++FE V+RL+R+ YGPF L Sbjct: 243 RWYRVSLHEGRNREVRRMFEAVGVVVSRLMRVRYGPFAL 281 >gi|254427640|ref|ZP_05041347.1| conserved hypothetical protein, putative [Alcanivorax sp. DG881] gi|196193809|gb|EDX88768.1| conserved hypothetical protein, putative [Alcanivorax sp. DG881] Length = 280 Score = 149 bits (375), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 89/219 (40%), Positives = 134/219 (61%), Gaps = 8/219 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAER 72 +++ KV+ARAG+ SRRE+E I+ RV VNG + V S D + VDG ++ KAE Sbjct: 3 EKLQKVLARAGLGSRRELETWISDGRVSVNGTVAT-LGDRVGSEDTLRVDGRMIKVKAEE 61 Query: 73 ---TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R+ +YHKP G V + +DP+GR TVFDNLP + R + VGRLDINT G++L T DG Sbjct: 62 DTVQRVIMYHKPPGEVCSRNDPEGRPTVFDNLPRLQGMRWVQVGRLDINTTGMMLFTTDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GIC-YGDMQVTLDTQKGSN 186 LA L PS ++R Y VR G + Q+K + G++++ G+ + ++ ++G+N Sbjct: 122 ELAHRLMHPSNGFVREYAVRVRGGMTQEKRQAMLDGVLLEDGVSKFDSIEDAGGAEEGAN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L GK RE++++F+ + +V RL+RI +G L Sbjct: 182 HWYKVTLTGGKYREVRRLFQSQDLEVARLMRIRFGDLNL 220 >gi|237731717|ref|ZP_04562198.1| 23S rRNA pseudouridylate synthase B [Citrobacter sp. 30_2] gi|226907256|gb|EEH93174.1| 23S rRNA pseudouridylate synthase B [Citrobacter sp. 30_2] Length = 291 Score = 149 bits (375), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 92/218 (42%), Positives = 126/218 (57%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E +IA RV V+G I V V I +DG V Sbjct: 3 EKLQKVLARAGHGSRREIESIIAAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRDARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|134301954|ref|YP_001121923.1| putative RNA pseudouridine synthase B [Francisella tularensis subsp. tularensis WY96-3418] gi|134049731|gb|ABO46802.1| putative RNA pseudouridine synthase B [Francisella tularensis subsp. tularensis WY96-3418] Length = 271 Score = 149 bits (375), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 96/232 (41%), Positives = 130/232 (56%), Gaps = 8/232 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL----R 68 P+R+ K++A+ GI SRR++E I Q RVKVNG + + D I DG L + Sbjct: 12 PERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVAT-LGDKAIEADKISFDGKALHSYGQ 70 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R R+ +YHK G V T D R TVFD+LP + SR I VGRLDINT GLLL T D Sbjct: 71 PMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLDINTTGLLLFTTD 130 Query: 128 GGLARVLELPSTQWLRVYRVRFHG-QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 G LA L PS Q R Y VR G Q+ + +N LK+GI ++ + +G+N Sbjct: 131 GDLANRLMHPSYQIEREYAVRVFGQQLSDETINKLKEGIQLEDGMAKFNSIKFSGGEGAN 190 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 W V L EG+NRE++++FE V+RL RI +G L ++ G T E++ Sbjct: 191 LWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGDIILPKFVSRGKTLELN 242 >gi|254372898|ref|ZP_04988387.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. novicida GA99-3549] gi|254374352|ref|ZP_04989834.1| ribosomal large subunit pseudouridine synthase B [Francisella novicida GA99-3548] gi|151570625|gb|EDN36279.1| ribosomal large subunit pseudouridine synthase B [Francisella novicida GA99-3549] gi|151572072|gb|EDN37726.1| ribosomal large subunit pseudouridine synthase B [Francisella novicida GA99-3548] gi|332678236|gb|AEE87365.1| Ribosomal large subunit pseudouridine synthase B [Francisella cf. novicida Fx1] Length = 271 Score = 149 bits (375), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 98/235 (41%), Positives = 133/235 (56%), Gaps = 14/235 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPL-- 67 P+R+ K++A+ GI SRR++E I Q RVKVNG L ++A+ D I DG L Sbjct: 12 PERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVATLGDKAS----EADKISFDGKALHS 67 Query: 68 --RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLL 124 + R R+ +YHK G V T D R TVFD+LP + SR I VGRLDINT GLLL Sbjct: 68 YGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLDINTTGLLLF 127 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHG-QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS Q R Y VR G Q+ + +N LK+GI ++ + + Sbjct: 128 TTDGDLANRLMHPSYQIEREYAVRVFGQQLSDETINKLKEGIQLEDGMAKFNNIKFSGGE 187 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 G+N W V L EG+NRE++++FE V+RL RI +G L ++ G T E++ Sbjct: 188 GANLWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGDIILPKFVSRGKTLELN 242 >gi|227890935|ref|ZP_04008740.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus salivarius ATCC 11741] gi|227867344|gb|EEJ74765.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus salivarius ATCC 11741] Length = 242 Score = 149 bits (375), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 84/234 (35%), Positives = 130/234 (55%), Gaps = 2/234 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR E++I + RV VNG+++ V S D I VDG L+K E+ Sbjct: 3 ERLQKVMANAGVASRRASEKLIQEGRVMVNGVVVTELGTKVESDDSISVDGKLLKKDEKK 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D GR V D L + R+ VGRLD +T GLL+LTNDG A Sbjct: 63 VYYLLYKPRGVISAAKDNKGREVVTDYLKDVPERLYPVGRLDYDTSGLLILTNDGDFANQ 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y + G + D + L+ G+VI G ++ K + + V++ Sbjct: 123 MMHPRYKVDKTYVAKVEGLITPDSIKKLRNGVVIDGKPTSRARAKIISRDAKKNTSIVSL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+ ++KK+F+ KV +L R +YG L L +G RE+S +RE L Sbjct: 183 TIHEGRYHQVKKMFDAVGHKVQKLSRTTYGTLTLDGLTSGEYRELSHNEVRELL 236 >gi|331677046|ref|ZP_08377742.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli H591] gi|331075735|gb|EGI47033.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli H591] Length = 299 Score = 149 bits (375), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + +R++ Sbjct: 12 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRES 71 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 72 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 131 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 132 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 191 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 192 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 229 >gi|294501116|ref|YP_003564816.1| pseudouridine synthase [Bacillus megaterium QM B1551] gi|295706463|ref|YP_003599538.1| pseudouridine synthase [Bacillus megaterium DSM 319] gi|294351053|gb|ADE71382.1| pseudouridine synthase [Bacillus megaterium QM B1551] gi|294804122|gb|ADF41188.1| pseudouridine synthase [Bacillus megaterium DSM 319] Length = 241 Score = 149 bits (375), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 85/227 (37%), Positives = 133/227 (58%), Gaps = 5/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I Q RVKVNG ++ V D IEVD VP+ ++E Sbjct: 2 ERLQKVIAHAGVASRRKAEELIGQGRVKVNGKVVRELGTKVGPNDKIEVDEVPV-ESEAP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G+++ +D GR TV D P + R+ +GRLD +T GLLLLTNDG A Sbjct: 61 VYFMLYKPRGVISAANDDKGRKTVVDFFPHVEERIYPIGRLDYDTSGLLLLTNDGEFANQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVT 190 L P + +VY + G ++K+ L++G++++ + +++D K A V Sbjct: 121 LMHPKFEVDKVYVAKIKGIPSREKIRQLQRGVMLEDGKTAPARAKVLSIDKSK-QTAIVE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EGKNR+++++F+ V +L R YGP L L AG RE++ Sbjct: 180 LTIHEGKNRQVRRMFDAIGHSVLKLKRERYGPLDLRGLNAGEARELT 226 >gi|170017037|ref|YP_001727956.1| 16S rRNA uridine-516 pseudouridylate synthase [Leuconostoc citreum KM20] gi|169803894|gb|ACA82512.1| 16S rRNA uridine-516 pseudouridylate synthase [Leuconostoc citreum KM20] Length = 249 Score = 149 bits (375), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 88/225 (39%), Positives = 130/225 (57%), Gaps = 2/225 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KV+A+AG+ASRR E MI + RVKVNG + V V D +EVDG P+ E+ Sbjct: 7 RLQKVVAQAGLASRRGAETMITEGRVKVNGETVTTLGVKVGIHDTVEVDGAPIEGREKLV 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G+VTT SD GR TV D L I RV VGRLD +T G LLLTNDG +A L Sbjct: 67 YYLLNKPRGVVTTTSDEKGRKTVLDLLEDIDQRVYPVGRLDYDTTGALLLTNDGTIANQL 126 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTVG 192 P ++ ++Y + G +KL LK+G++I+G +VT++ + + V + Sbjct: 127 MHPKSRVDKIYLAKVSGIATVEKLAPLKQGVIIKGRKTAPARVTIERVDKDKKTSMVRII 186 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+N ++K + + V++L R Y F L L +G R+++ Sbjct: 187 IHEGRNHQVKDMLQKVGLPVDKLTREQYAFFDLIGLQSGEYRKLT 231 >gi|283832909|ref|ZP_06352650.1| ribosomal large subunit pseudouridine synthase B [Citrobacter youngae ATCC 29220] gi|291071514|gb|EFE09623.1| ribosomal large subunit pseudouridine synthase B [Citrobacter youngae ATCC 29220] Length = 291 Score = 149 bits (375), Expect = 9e-34, Method: Compositional matrix adjust. Identities = 92/218 (42%), Positives = 126/218 (57%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E +IA RV V+G I V V I +DG V Sbjct: 3 EKLQKVLARAGHGSRREIESIIAAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRDARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|90961915|ref|YP_535831.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus salivarius UCC118] gi|301299322|ref|ZP_07205607.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus salivarius ACS-116-V-Col5a] gi|90821109|gb|ABD99748.1| Ribosomal large subunit pseudouridine synthase B [Lactobacillus salivarius UCC118] gi|300214638|gb|ADJ79054.1| Pseudouridine synthase [Lactobacillus salivarius CECT 5713] gi|300853062|gb|EFK80661.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus salivarius ACS-116-V-Col5a] Length = 242 Score = 149 bits (375), Expect = 9e-34, Method: Compositional matrix adjust. Identities = 84/234 (35%), Positives = 130/234 (55%), Gaps = 2/234 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR E++I + RV VNG+++ V S D I VDG L+K E+ Sbjct: 3 ERLQKVMANAGVASRRASEKLIQEGRVMVNGVVVTELGTKVESDDSISVDGKLLKKDEKK 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D GR V D L + R+ VGRLD +T GLL+LTNDG A Sbjct: 63 VYYLLYKPRGVISAAKDNKGREVVTDYLKDVPERLYPVGRLDYDTSGLLILTNDGDFANQ 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y + G + D + L+ G+VI G ++ K + + V++ Sbjct: 123 MMHPRYKVDKTYVAKVEGLITPDSIKKLRNGVVIDGKPTSRARAKILSRDAKKNTSIVSL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+ ++KK+F+ KV +L R +YG L L +G RE+S +RE L Sbjct: 183 TIHEGRYHQVKKMFDAVGHKVQKLSRTTYGTLTLDGLTSGEYRELSHNEVRELL 236 >gi|218553820|ref|YP_002386733.1| 23S rRNA pseudouridylate synthase B [Escherichia coli IAI1] gi|218694839|ref|YP_002402506.1| 23S rRNA pseudouridylate synthase B [Escherichia coli 55989] gi|218351571|emb|CAU97283.1| 23S rRNA pseudouridylate synthase [Escherichia coli 55989] gi|218360588|emb|CAQ98146.1| 23S rRNA pseudouridylate synthase [Escherichia coli IAI1] gi|323947451|gb|EGB43455.1| RNA pseudouridylate synthase [Escherichia coli H120] Length = 299 Score = 149 bits (375), Expect = 9e-34, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + +R++ Sbjct: 12 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRES 71 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 72 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 131 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 132 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 191 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 192 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 229 >gi|293414601|ref|ZP_06657250.1| 23S rRNA pseudouridylate synthase B [Escherichia coli B185] gi|291434659|gb|EFF07632.1| 23S rRNA pseudouridylate synthase B [Escherichia coli B185] Length = 311 Score = 149 bits (375), Expect = 9e-34, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + +R++ Sbjct: 24 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRES 83 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 84 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 143 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 144 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 203 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 204 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 241 >gi|238027587|ref|YP_002911818.1| hypothetical protein bglu_1g20050 [Burkholderia glumae BGR1] gi|237876781|gb|ACR29114.1| Hypothetical protein bglu_1g20050 [Burkholderia glumae BGR1] Length = 571 Score = 149 bits (375), Expect = 9e-34, Method: Compositional matrix adjust. Identities = 84/226 (37%), Positives = 132/226 (58%), Gaps = 10/226 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVD 63 + E+ P ++ KV+A AG+ SRRE+E +I RV VNG E A + ++ TD + ++ Sbjct: 177 LAPEDDAP-KLHKVLAEAGMGSRREMEELIVAGRVSVNG---EPAHIGQRILPTDQVRIN 232 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR++VFD LP + ++ ++VGRLD NTE Sbjct: 233 GKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRASVFDRLPPMKTAKWLAVGRLDFNTE 292 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 293 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRIRD 352 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G+N W V L EG+NRE++++FE V+RLIR +G L Sbjct: 353 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGSISL 398 >gi|54112711|gb|AAV28989.1| NT02FT0029 [synthetic construct] Length = 271 Score = 149 bits (375), Expect = 9e-34, Method: Compositional matrix adjust. Identities = 98/235 (41%), Positives = 133/235 (56%), Gaps = 14/235 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPL-- 67 P+R+ K++A+ GI SRR++E I Q RVKVNG L ++A+ D I DG L Sbjct: 12 PERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVATLGDKAS----EADKISFDGKALHS 67 Query: 68 --RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLL 124 + R R+ +YHK G V T D R TVFD+LP + SR I VGRLDINT GLLL Sbjct: 68 YGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLDINTTGLLLF 127 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHG-QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS Q R Y VR G Q+ + +N LK+GI ++ + + Sbjct: 128 TTDGDLANRLMHPSYQIEREYAVRVFGQQLSDETINKLKEGIQLEDGMAKFNSIKFSGGE 187 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 G+N W V L EG+NRE++++FE V+RL RI +G L ++ G T E++ Sbjct: 188 GANLWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGDIILPKFVSRGKTLELN 242 >gi|156740189|ref|YP_001430318.1| pseudouridine synthase [Roseiflexus castenholzii DSM 13941] gi|156231517|gb|ABU56300.1| pseudouridine synthase [Roseiflexus castenholzii DSM 13941] Length = 556 Score = 149 bits (375), Expect = 9e-34, Method: Compositional matrix adjust. Identities = 95/240 (39%), Positives = 133/240 (55%), Gaps = 9/240 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRK 69 + +R+ KV+A AGIASRR+ E IA RV VNG ++ V D I VDG P+ K Sbjct: 1 MSAERLQKVLASAGIASRRDCEEYIAAGRVMVNGKVVRIPGTRVDPEHDEILVDGKPIGK 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTND 127 + HKP G+V+T DP GR TV D NLP R+ VGRLD ++EGLLLLT+D Sbjct: 61 IHHRTYVMLHKPAGVVSTTDDPHGRPTVVDLVNLPQ---RLFPVGRLDYDSEGLLLLTDD 117 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + L PS Q + Y+V + + L + G+ + G+ V L + A Sbjct: 118 GELTQKLTHPSYQVEKEYQVLLNDAPSPNALRAWRTGVELDGVKTAPAWVELIERTPEGA 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK---ILREQ 244 WV V L EG+ R+I++V ++V RLIR+ GP LG L +G+ R ++ + +LRE Sbjct: 178 WVRVILHEGRKRQIREVARLLGYEVRRLIRVREGPLALGDLPSGTWRFLTDEEVDMLREH 237 >gi|170768335|ref|ZP_02902788.1| ribosomal large subunit pseudouridine synthase B [Escherichia albertii TW07627] gi|170123101|gb|EDS92032.1| ribosomal large subunit pseudouridine synthase B [Escherichia albertii TW07627] Length = 291 Score = 148 bits (374), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 130/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG V +R++ Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLVSVRES 62 Query: 71 --ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 VEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDTKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|206889194|ref|YP_002248392.1| ribosomal large subunit pseudouridine synthase B [Thermodesulfovibrio yellowstonii DSM 11347] gi|206741132|gb|ACI20189.1| ribosomal large subunit pseudouridine synthase B [Thermodesulfovibrio yellowstonii DSM 11347] Length = 237 Score = 148 bits (374), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 87/226 (38%), Positives = 131/226 (57%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+++ GIASRR E +I + RV VNG + D+I+VDG L K E Sbjct: 3 ERLQKILSDYGIASRRHAEELIKEGRVTVNGQIAVIGQKADPEKDYIKVDGKLLIKPEPK 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++KP ++T DP GR T+ D + I R+ VGRLD ++EGLLLLTNDG LA Sbjct: 63 VYYAFYKPRKVITALLDPQGRPTIRDFIKGIKFRIYPVGRLDFDSEGLLLLTNDGELAYK 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + PS+Q + Y V+ G V+ + + L+KGI I+G + V L + +N+W+ + L Sbjct: 123 VMHPSSQIEKTYMVKVDGIVEPETIEKLRKGIKIEGKLAVPVSVHLVKKLKANSWIKITL 182 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 EG+ R+I+K+ E V RLIRI+ +LG L G R ++K+ Sbjct: 183 HEGRKRQIRKMLERVGHPVIRLIRIAIDGVKLGDLKPGQLRPLTKE 228 >gi|270160115|ref|ZP_06188771.1| ribosomal large subunit pseudouridine synthase B [Legionella longbeachae D-4968] gi|289165108|ref|YP_003455246.1| ribosomal large subunit pseudouridine synthase B (Pseudouridylate synthase) [Legionella longbeachae NSW150] gi|269988454|gb|EEZ94709.1| ribosomal large subunit pseudouridine synthase B [Legionella longbeachae D-4968] gi|288858281|emb|CBJ12149.1| putative ribosomal large subunit pseudouridine synthase B (Pseudouridylate synthase) [Legionella longbeachae NSW150] Length = 246 Score = 148 bits (374), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 90/232 (38%), Positives = 135/232 (58%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----PLRK 69 +R+ K++++AG+ SRRE+ER I V+VNG + + + D I V G PL+ Sbjct: 4 ERLQKILSQAGLGSRREMERWIENGWVQVNGKPV-KLGDSASEEDKITVKGKLIPNPLKV 62 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 + R+ LYHKP+G +++ DP TVFD+LP + R + VGRLD+NT GLL+ TN G Sbjct: 63 KKNVRILLYHKPVGEISSRHDPKFEKTVFDHLPHLRQGRWVQVGRLDLNTSGLLIFTNSG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + R Y VR GQV Q+ LN L KG+ + ++ +G+N+W Sbjct: 123 ELANQLMHPKYGFEREYAVRVRGQVSQEVLNNLTKGVELDDGMAKFTRLEFRGGEGANSW 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 V L EG+NRE+++++E +V+RLIRI YG + L+ G E++ K Sbjct: 183 YHVTLNEGRNREVRRLWESQGLEVSRLIRIRYGTITMPRYLSRGQHYELTPK 234 >gi|289435297|ref|YP_003465169.1| ribosomal large subunit pseudouridine synthase B [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|289171541|emb|CBH28087.1| ribosomal large subunit pseudouridine synthase B [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|313632602|gb|EFR99592.1| ribosomal large subunit pseudouridine synthase B [Listeria seeligeri FSL N1-067] gi|313637139|gb|EFS02679.1| ribosomal large subunit pseudouridine synthase B [Listeria seeligeri FSL S4-171] Length = 243 Score = 148 bits (374), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 86/226 (38%), Positives = 132/226 (58%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E +I + +V VNG ++ V V ++ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGITSRRKAETLIKEGKVTVNGKVVTELGVKVSGSERIEVEGIQLTKEEH- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G V+ +D GR+TV D I R+ VGRLD +T GLLL+TNDG A + Sbjct: 61 RYFLFYKPRGTVSAVTDDKGRTTVADYFTDIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 L P + + Y R G +++ + L++G+VI G +V + + + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRELERGVVIDGRKTAPAKVKIRSSDKAKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++K+FE ++V +L R Y L L AG RE+S Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELS 226 >gi|239993811|ref|ZP_04714335.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Alteromonas macleodii ATCC 27126] Length = 298 Score = 148 bits (374), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 94/229 (41%), Positives = 135/229 (58%), Gaps = 25/229 (10%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPL-RKA 70 +++ KV+A G+ SRRE+ER I + RV V+G +A + V T I VDG L R+ Sbjct: 3 EKLQKVLANQGLGSRREMERWIEEGRVSVDGT---KATLGDRVDHTAQIRVDGHLLSRQT 59 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E+ R+ +Y+KP G + + DP+GR TVFD LP+I R I+VGRLD+NT GLLL TND Sbjct: 60 EQPICRVLMYNKPEGELCSRHDPEGRDTVFDRLPAIRLGRWITVGRLDMNTSGLLLFTND 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS-- 185 G LA L P + R Y VR G+V L+ L+KG+ ++ D + T G+ Sbjct: 120 GELANRLMHPKCEVEREYAVRVFGEVTGKTLHTLQKGVELE-----DGEAKFLTISGAPT 174 Query: 186 ---------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L+EG+NRE+++++E +V+RLIR+ YGP +L Sbjct: 175 PQHAEDESMNRWYNVTLKEGRNREVRRLWESQGVQVSRLIRVKYGPIEL 223 >gi|165918548|ref|ZP_02218634.1| RNA pseudouridine synthase family protein [Coxiella burnetii RSA 334] gi|165917794|gb|EDR36398.1| RNA pseudouridine synthase family protein [Coxiella burnetii RSA 334] Length = 244 Score = 148 bits (374), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 89/215 (41%), Positives = 126/215 (58%), Gaps = 4/215 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +R+ KV+AR+G SRRE+E+MIA+ R+KVN L + + D + +DG L E Sbjct: 3 ERIQKVLARSGYGSRREIEKMIAEGRIKVNQRLAQLGD-RITEQDLVYIDGQLSSLSAPE 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 + R+ LYHKP G + T DP+GR+TVF+ LP + R + +GRLDINT GLLL TN+G L Sbjct: 62 QVRILLYHKPEGEICTRKDPEGRTTVFETLPRLKDGRWVIIGRLDINTSGLLLFTNEGEL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS Q R Y VR G VD D L G+ ++ + G N W Sbjct: 122 ANRLMHPSAQVEREYAVRVLGAVDADMTQKLAHGVGLEDGKARFEDIVDVGGDGKNRWFH 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG++R +++++E KV+RLIR+ +GP L Sbjct: 182 VVVVEGRHRFVRRLWESQGVKVSRLIRVRFGPIVL 216 >gi|30062791|ref|NP_836962.1| 23S rRNA pseudouridylate synthase B [Shigella flexneri 2a str. 2457T] gi|110805271|ref|YP_688791.1| 23S rRNA pseudouridylate synthase B [Shigella flexneri 5 str. 8401] gi|34098404|sp|P59815|RLUB_SHIFL RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|30041039|gb|AAP16769.1| hypothetical protein S1356 [Shigella flexneri 2a str. 2457T] gi|110614819|gb|ABF03486.1| conserved hypothetical protein [Shigella flexneri 5 str. 8401] gi|281600690|gb|ADA73674.1| Ribosomal large subunit pseudouridine synthase B [Shigella flexneri 2002017] gi|313649457|gb|EFS13888.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri 2a str. 2457T] gi|332757920|gb|EGJ88247.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri 4343-70] gi|332759264|gb|EGJ89572.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri 2747-71] gi|332760363|gb|EGJ90653.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri K-671] gi|332767503|gb|EGJ97697.1| 23S rRNA pseudouridine synthase [Shigella flexneri 2930-71] gi|333005742|gb|EGK25260.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri K-218] gi|333019134|gb|EGK38424.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri K-304] Length = 290 Score = 148 bits (374), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + +R++ Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|153206799|ref|ZP_01945640.1| RNA pseudouridine synthase family protein [Coxiella burnetii 'MSU Goat Q177'] gi|212218389|ref|YP_002305176.1| ribosomal large subunit pseudouridine synthase B [Coxiella burnetii CbuK_Q154] gi|120577162|gb|EAX33786.1| RNA pseudouridine synthase family protein [Coxiella burnetii 'MSU Goat Q177'] gi|212012651|gb|ACJ20031.1| ribosomal large subunit pseudouridine synthase B [Coxiella burnetii CbuK_Q154] Length = 244 Score = 148 bits (374), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 89/215 (41%), Positives = 126/215 (58%), Gaps = 4/215 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +R+ KV+AR+G SRRE+E+MIA+ R+KVN L + + D + +DG L E Sbjct: 3 ERIQKVLARSGYGSRREIEKMIAEGRIKVNQRLAQLGD-RITEQDLVYIDGQLSSLSAPE 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 + R+ LYHKP G + T DP+GR+TVF+ LP + R + +GRLDINT GLLL TN+G L Sbjct: 62 QVRILLYHKPEGEICTRKDPEGRTTVFETLPRLKDGRWVIIGRLDINTSGLLLFTNEGEL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS Q R Y VR G VD D L G+ ++ + G N W Sbjct: 122 ANRLMHPSAQVEREYAVRVLGAVDADMTQKLAHGVGLEDGKARFEDIVDVGGDGKNRWFH 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG++R +++++E KV+RLIR+ +GP L Sbjct: 182 VVVVEGRHRFVRRLWESQGVKVSRLIRVRFGPIVL 216 >gi|16129230|ref|NP_415785.1| 23S rRNA pseudouridylate synthase [Escherichia coli str. K-12 substr. MG1655] gi|89108115|ref|AP_001895.1| 23S rRNA pseudouridylate synthase [Escherichia coli str. K-12 substr. W3110] gi|157160774|ref|YP_001458092.1| 23S rRNA pseudouridylate synthase B [Escherichia coli HS] gi|170020367|ref|YP_001725321.1| 23S rRNA pseudouridylate synthase B [Escherichia coli ATCC 8739] gi|170080946|ref|YP_001730266.1| 23S rRNA pseudouridylate synthase [Escherichia coli str. K-12 substr. DH10B] gi|170682451|ref|YP_001743918.1| 23S rRNA pseudouridylate synthase B [Escherichia coli SMS-3-5] gi|188492201|ref|ZP_02999471.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 53638] gi|194435058|ref|ZP_03067297.1| ribosomal large subunit pseudouridine synthase B [Shigella dysenteriae 1012] gi|218699976|ref|YP_002407605.1| 23S rRNA pseudouridylate synthase B [Escherichia coli IAI39] gi|238900502|ref|YP_002926298.1| 23S rRNA pseudouridylate synthase [Escherichia coli BW2952] gi|253773734|ref|YP_003036565.1| 23S rRNA pseudouridylate synthase B [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254161349|ref|YP_003044457.1| 23S rRNA pseudouridylate synthase B [Escherichia coli B str. REL606] gi|256023023|ref|ZP_05436888.1| 23S rRNA pseudouridylate synthase B [Escherichia sp. 4_1_40B] gi|300927775|ref|ZP_07143339.1| conserved hypothetical protein [Escherichia coli MS 187-1] gi|300940072|ref|ZP_07154682.1| conserved hypothetical protein [Escherichia coli MS 21-1] gi|300951921|ref|ZP_07165725.1| conserved hypothetical protein [Escherichia coli MS 116-1] gi|300955866|ref|ZP_07168205.1| hypothetical protein HMPREF9547_01723 [Escherichia coli MS 175-1] gi|301019493|ref|ZP_07183662.1| conserved hypothetical protein [Escherichia coli MS 69-1] gi|301022795|ref|ZP_07186637.1| conserved hypothetical protein [Escherichia coli MS 196-1] gi|301647237|ref|ZP_07247056.1| conserved hypothetical protein [Escherichia coli MS 146-1] gi|307137906|ref|ZP_07497262.1| 23S rRNA pseudouridylate synthase B [Escherichia coli H736] gi|312971458|ref|ZP_07785633.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 1827-70] gi|331641827|ref|ZP_08342962.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli H736] gi|331652309|ref|ZP_08353328.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli M718] gi|1175678|sp|P37765|RLUB_ECOLI RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|1742064|dbj|BAA14806.1| 23S rRNA pseudouridylate synthase [Escherichia coli str. K12 substr. W3110] gi|1787524|gb|AAC74351.1| 23S rRNA pseudouridylate synthase [Escherichia coli str. K-12 substr. MG1655] gi|157066454|gb|ABV05709.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli HS] gi|169755295|gb|ACA77994.1| pseudouridine synthase [Escherichia coli ATCC 8739] gi|169888781|gb|ACB02488.1| 23S rRNA pseudouridylate synthase [Escherichia coli str. K-12 substr. DH10B] gi|170520169|gb|ACB18347.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli SMS-3-5] gi|188487400|gb|EDU62503.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 53638] gi|194416715|gb|EDX32845.1| ribosomal large subunit pseudouridine synthase B [Shigella dysenteriae 1012] gi|218369962|emb|CAR17736.1| 23S rRNA pseudouridylate synthase [Escherichia coli IAI39] gi|238859761|gb|ACR61759.1| 23S rRNA pseudouridylate synthase [Escherichia coli BW2952] gi|242377048|emb|CAQ31772.1| 23S rRNA pseudouridine 2605 synthase [Escherichia coli BL21(DE3)] gi|253324778|gb|ACT29380.1| pseudouridine synthase [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|253973250|gb|ACT38921.1| 23S rRNA pseudouridylate synthase [Escherichia coli B str. REL606] gi|253977464|gb|ACT43134.1| 23S rRNA pseudouridylate synthase [Escherichia coli BL21(DE3)] gi|260449601|gb|ACX40023.1| pseudouridine synthase [Escherichia coli DH1] gi|299881096|gb|EFI89307.1| conserved hypothetical protein [Escherichia coli MS 196-1] gi|300317268|gb|EFJ67052.1| hypothetical protein HMPREF9547_01723 [Escherichia coli MS 175-1] gi|300399234|gb|EFJ82772.1| conserved hypothetical protein [Escherichia coli MS 69-1] gi|300448865|gb|EFK12485.1| conserved hypothetical protein [Escherichia coli MS 116-1] gi|300455107|gb|EFK18600.1| conserved hypothetical protein [Escherichia coli MS 21-1] gi|300464168|gb|EFK27661.1| conserved hypothetical protein [Escherichia coli MS 187-1] gi|301074599|gb|EFK89405.1| conserved hypothetical protein [Escherichia coli MS 146-1] gi|309701567|emb|CBJ00874.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli ETEC H10407] gi|310336055|gb|EFQ01255.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 1827-70] gi|315135905|dbj|BAJ43064.1| 23S rRNA pseudouridylate synthase B [Escherichia coli DH1] gi|315297258|gb|EFU56538.1| conserved hypothetical protein [Escherichia coli MS 16-3] gi|315619347|gb|EFU99891.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 3431] gi|320181709|gb|EFW56620.1| 23S rRNA pseudouridylate synthase B [Shigella boydii ATCC 9905] gi|320195718|gb|EFW70343.1| 23S rRNA pseudouridylate synthase B [Escherichia coli WV_060327] gi|323937590|gb|EGB33858.1| RNA pseudouridylate synthase [Escherichia coli E1520] gi|323942383|gb|EGB38553.1| RNA pseudouridylate synthase [Escherichia coli E482] gi|323962569|gb|EGB58149.1| RNA pseudouridylate synthase [Escherichia coli H489] gi|323973491|gb|EGB68677.1| RNA pseudouridylate synthase [Escherichia coli TA007] gi|331038625|gb|EGI10845.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli H736] gi|331050587|gb|EGI22645.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli M718] gi|332091659|gb|EGI96739.1| ribosomal large subunit pseudouridine synthase B [Shigella boydii 5216-82] gi|332097910|gb|EGJ02883.1| ribosomal large subunit pseudouridine synthase B [Shigella dysenteriae 155-74] gi|332342861|gb|AEE56195.1| 23S rRNA pseudouridylate synthase RluB [Escherichia coli UMNK88] Length = 291 Score = 148 bits (374), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + +R++ Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|154707706|ref|YP_001424364.1| ribosomal large subunit pseudouridine synthase B [Coxiella burnetii Dugway 5J108-111] gi|154356992|gb|ABS78454.1| ribosomal large subunit pseudouridine synthase B [Coxiella burnetii Dugway 5J108-111] Length = 244 Score = 148 bits (374), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 92/227 (40%), Positives = 133/227 (58%), Gaps = 5/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +R+ KV+AR+G SRRE+E+MIA+ R+KVN L + + D + +DG L E Sbjct: 3 ERIQKVLARSGYGSRREIEKMIAEGRIKVNQRLAQLGD-RITEQDLVYIDGQLSSLSAPE 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 + R+ LYHKP G + T DP+GR+TVF+ LP + R + +GRLDINT GLLL TN+G L Sbjct: 62 QVRVLLYHKPEGEICTRKDPEGRTTVFETLPRLKDGRWVIIGRLDINTSGLLLFTNEGEL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS Q R Y VR G VD D L G+ ++ + G N W Sbjct: 122 ANRLMHPSAQVEREYAVRVLGAVDADMTQKLAHGVGLEDGKARFEDIVDVGGDGKNRWFH 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 V + EG++R +++++E KV+RLIR+ +GP L +L G+ +E+ Sbjct: 182 VVVVEGRHRFVRRLWESQGVKVSRLIRVRFGPIVLSKSLRRGAWKEL 228 >gi|290475293|ref|YP_003468181.1| Ribosomal large subunit pseudouridine synthase B [Xenorhabdus bovienii SS-2004] gi|289174614|emb|CBJ81408.1| Ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Xenorhabdus bovienii SS-2004] Length = 317 Score = 148 bits (374), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 93/234 (39%), Positives = 138/234 (58%), Gaps = 11/234 (4%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMS 56 M DK Q+ +++ K++ARAG SRRE+E I + R+ ++G L +R + V Sbjct: 1 MSDKTQKTQKTERTEKLQKILARAGHGSRREIEGYIQEGRISIDGKTATLGDR--IEVKP 58 Query: 57 TDHIEVDG--VPLRKAERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISV 111 + I +DG + +++ ++T R+ Y+KP G + T DP+GR TVFD LP + +R I+V Sbjct: 59 SIKIRLDGRILSIKEPQKTICRVLAYYKPEGELCTRHDPEGRPTVFDRLPKMQDARWIAV 118 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDINT GLLL T DG LA L PS + R Y VR G+VD KL L +G+ ++ Sbjct: 119 GRLDINTCGLLLFTTDGELANRLMHPSREVEREYAVRVFGEVDNAKLRQLTQGVQLEDGP 178 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V+ +G N W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 179 ASFKTVSFKGGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIDL 232 >gi|15801910|ref|NP_287930.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 EDL933] gi|15831095|ref|NP_309868.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. Sakai] gi|74312362|ref|YP_310781.1| 23S rRNA pseudouridylate synthase B [Shigella sonnei Ss046] gi|82544277|ref|YP_408224.1| 23S rRNA pseudouridylate synthase B [Shigella boydii Sb227] gi|157154729|ref|YP_001462565.1| 23S rRNA pseudouridylate synthase B [Escherichia coli E24377A] gi|168751157|ref|ZP_02776179.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4113] gi|168758353|ref|ZP_02783360.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4401] gi|168763584|ref|ZP_02788591.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4501] gi|168771267|ref|ZP_02796274.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4486] gi|168775077|ref|ZP_02800084.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4196] gi|168783771|ref|ZP_02808778.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4076] gi|168790068|ref|ZP_02815075.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC869] gi|168801615|ref|ZP_02826622.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC508] gi|191166646|ref|ZP_03028474.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli B7A] gi|193062722|ref|ZP_03043816.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli E22] gi|193069992|ref|ZP_03050940.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli E110019] gi|194426137|ref|ZP_03058693.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli B171] gi|195939202|ref|ZP_03084584.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. EC4024] gi|208810912|ref|ZP_03252745.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4206] gi|208815453|ref|ZP_03256632.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4045] gi|208820806|ref|ZP_03261126.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4042] gi|209396722|ref|YP_002270323.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4115] gi|209918508|ref|YP_002292592.1| 23S rRNA pseudouridylate synthase B [Escherichia coli SE11] gi|217329090|ref|ZP_03445170.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. TW14588] gi|254792857|ref|YP_003077694.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. TW14359] gi|256018485|ref|ZP_05432350.1| 23S rRNA pseudouridylate synthase B [Shigella sp. D9] gi|260843616|ref|YP_003221394.1| 23S rRNA pseudouridylate synthase RluB [Escherichia coli O103:H2 str. 12009] gi|260854966|ref|YP_003228857.1| 23S rRNA pseudouridylate synthase RluB [Escherichia coli O26:H11 str. 11368] gi|260867717|ref|YP_003234119.1| 23S rRNA pseudouridylate synthase RluB [Escherichia coli O111:H- str. 11128] gi|261224251|ref|ZP_05938532.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. FRIK2000] gi|261257493|ref|ZP_05950026.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. FRIK966] gi|291282356|ref|YP_003499174.1| Ribosomal large subunit pseudouridine synthase B [Escherichia coli O55:H7 str. CB9615] gi|300820147|ref|ZP_07100316.1| conserved hypothetical protein [Escherichia coli MS 107-1] gi|300822569|ref|ZP_07102708.1| conserved hypothetical protein [Escherichia coli MS 119-7] gi|300904135|ref|ZP_07122008.1| hypothetical protein HMPREF9536_02226 [Escherichia coli MS 84-1] gi|300919449|ref|ZP_07135950.1| conserved hypothetical protein [Escherichia coli MS 115-1] gi|301304781|ref|ZP_07210887.1| hypothetical protein HMPREF9347_03390 [Escherichia coli MS 124-1] gi|307309978|ref|ZP_07589628.1| pseudouridine synthase [Escherichia coli W] gi|309793259|ref|ZP_07687686.1| conserved hypothetical protein [Escherichia coli MS 145-7] gi|331667653|ref|ZP_08368517.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli TA271] gi|332279541|ref|ZP_08391954.1| ribosomal large subunit pseudouridine synthase B [Shigella sp. D9] gi|34098616|sp|Q8X4Q8|RLUB_ECO57 RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|12515528|gb|AAG56546.1|AE005380_5 orf, hypothetical protein [Escherichia coli O157:H7 str. EDL933] gi|13361306|dbj|BAB35264.1| hypothetical protein [Escherichia coli O157:H7 str. Sakai] gi|73855839|gb|AAZ88546.1| conserved hypothetical protein [Shigella sonnei Ss046] gi|81245688|gb|ABB66396.1| conserved hypothetical protein [Shigella boydii Sb227] gi|157076759|gb|ABV16467.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli E24377A] gi|187769333|gb|EDU33177.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4196] gi|188014796|gb|EDU52918.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4113] gi|188998981|gb|EDU67967.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4076] gi|189354811|gb|EDU73230.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4401] gi|189359963|gb|EDU78382.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4486] gi|189366282|gb|EDU84698.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4501] gi|189370413|gb|EDU88829.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC869] gi|189376287|gb|EDU94703.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC508] gi|190903295|gb|EDV63016.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli B7A] gi|192931844|gb|EDV84444.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli E22] gi|192956745|gb|EDV87200.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli E110019] gi|194416192|gb|EDX32458.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli B171] gi|208724418|gb|EDZ74126.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4206] gi|208732101|gb|EDZ80789.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4045] gi|208740929|gb|EDZ88611.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4042] gi|209158122|gb|ACI35555.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4115] gi|209772018|gb|ACI84321.1| hypothetical protein ECs1841 [Escherichia coli] gi|209772020|gb|ACI84322.1| hypothetical protein ECs1841 [Escherichia coli] gi|209772022|gb|ACI84323.1| hypothetical protein ECs1841 [Escherichia coli] gi|209772024|gb|ACI84324.1| hypothetical protein ECs1841 [Escherichia coli] gi|209772026|gb|ACI84325.1| hypothetical protein ECs1841 [Escherichia coli] gi|209911767|dbj|BAG76841.1| putative pseudouridine synthase [Escherichia coli SE11] gi|217317529|gb|EEC25957.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. TW14588] gi|254592257|gb|ACT71618.1| 23S rRNA pseudouridylate synthase [Escherichia coli O157:H7 str. TW14359] gi|257753615|dbj|BAI25117.1| 23S rRNA pseudouridylate synthase RluB [Escherichia coli O26:H11 str. 11368] gi|257758763|dbj|BAI30260.1| 23S rRNA pseudouridylate synthase RluB [Escherichia coli O103:H2 str. 12009] gi|257764073|dbj|BAI35568.1| 23S rRNA pseudouridylate synthase RluB [Escherichia coli O111:H- str. 11128] gi|290762229|gb|ADD56190.1| Ribosomal large subunit pseudouridine synthase B [Escherichia coli O55:H7 str. CB9615] gi|300403900|gb|EFJ87438.1| hypothetical protein HMPREF9536_02226 [Escherichia coli MS 84-1] gi|300413471|gb|EFJ96781.1| conserved hypothetical protein [Escherichia coli MS 115-1] gi|300524985|gb|EFK46054.1| conserved hypothetical protein [Escherichia coli MS 119-7] gi|300527302|gb|EFK48364.1| conserved hypothetical protein [Escherichia coli MS 107-1] gi|300839902|gb|EFK67662.1| hypothetical protein HMPREF9347_03390 [Escherichia coli MS 124-1] gi|306909696|gb|EFN40190.1| pseudouridine synthase [Escherichia coli W] gi|308122846|gb|EFO60108.1| conserved hypothetical protein [Escherichia coli MS 145-7] gi|315060519|gb|ADT74846.1| 23S rRNA pseudouridylate synthase [Escherichia coli W] gi|315254773|gb|EFU34741.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli MS 85-1] gi|320176684|gb|EFW51722.1| 23S rRNA pseudouridylate synthase B [Shigella dysenteriae CDC 74-1112] gi|320187507|gb|EFW62193.1| 23S rRNA pseudouridylate synthase B [Shigella flexneri CDC 796-83] gi|320189980|gb|EFW64632.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. EC1212] gi|320199303|gb|EFW73894.1| 23S rRNA pseudouridylate synthase B [Escherichia coli EC4100B] gi|320637163|gb|EFX06989.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. G5101] gi|320642529|gb|EFX11777.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H- str. 493-89] gi|320647882|gb|EFX16590.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H- str. H 2687] gi|320653484|gb|EFX21589.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O55:H7 str. 3256-97 TW 07815] gi|320659184|gb|EFX26773.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O55:H7 str. USDA 5905] gi|323153300|gb|EFZ39558.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli EPECa14] gi|323162371|gb|EFZ48226.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli E128010] gi|323168243|gb|EFZ53928.1| ribosomal large subunit pseudouridine synthase B [Shigella sonnei 53G] gi|323172376|gb|EFZ58013.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli LT-68] gi|323179780|gb|EFZ65341.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 1180] gi|323185573|gb|EFZ70934.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 1357] gi|323378918|gb|ADX51186.1| pseudouridine synthase [Escherichia coli KO11] gi|326341071|gb|EGD64864.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. 1125] gi|326343312|gb|EGD67079.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. 1044] gi|331065238|gb|EGI37133.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli TA271] gi|332094735|gb|EGI99779.1| ribosomal large subunit pseudouridine synthase B [Shigella boydii 3594-74] gi|332101893|gb|EGJ05239.1| ribosomal large subunit pseudouridine synthase B [Shigella sp. D9] gi|333004583|gb|EGK24107.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri VA-6] gi|333007605|gb|EGK27083.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri K-272] gi|333019539|gb|EGK38819.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri K-227] Length = 290 Score = 148 bits (374), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + +R++ Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|167549772|ref|ZP_02343530.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|204927933|ref|ZP_03219134.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|204323275|gb|EDZ08471.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205324943|gb|EDZ12782.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] Length = 291 Score = 148 bits (373), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 126/218 (57%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E +I RV V+G I V V I +DG V Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD+ KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDESKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|149926275|ref|ZP_01914537.1| hypothetical protein LMED105_02043 [Limnobacter sp. MED105] gi|149825093|gb|EDM84305.1| hypothetical protein LMED105_02043 [Limnobacter sp. MED105] Length = 458 Score = 148 bits (373), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 86/221 (38%), Positives = 132/221 (59%), Gaps = 9/221 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 ++ KV+A +G+ SRRE+E +I RV VN E A + V+ TD + V+G +++ + Sbjct: 70 KLHKVLADSGMGSRREMEELIVAGRVSVNA---EPAHLGQRVLPTDQVRVNGKLIQRKNK 126 Query: 73 T---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 + R+ +YHKP G + + DP GR+TVF LP I + + I+VGRLD NTEGLLL T+ G Sbjct: 127 SKPPRVLIYHKPAGEIVSMDDPQGRTTVFQKLPKISNGKWIAVGRLDFNTEGLLLFTSSG 186 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + R Y VR G++ +++ L GI ++ + V +G+N W Sbjct: 187 ELANRLMHPRYEVQREYAVRILGELSEEQRQQLLTGIQLEDGPAKFLYVDAAGGEGANRW 246 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 VGL+EG+NRE++++FE N V+RLIR +G + + L Sbjct: 247 YKVGLKEGRNREVRRMFEACNLTVSRLIRTRFGDIMMPSTL 287 >gi|325266342|ref|ZP_08133021.1| ribosomal large subunit pseudouridine synthase B [Kingella denitrificans ATCC 33394] gi|324982304|gb|EGC17937.1| ribosomal large subunit pseudouridine synthase B [Kingella denitrificans ATCC 33394] Length = 362 Score = 148 bits (373), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 86/232 (37%), Positives = 137/232 (59%), Gaps = 11/232 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMST 57 +K+K P+R+ KV+A +G+ SRRE+E I V+VNG R AV + Sbjct: 99 LKEKRTDLSRIEPERLQKVLAASGVGSRREMEEWINNGWVQVNG----RVAVLGEKITPE 154 Query: 58 DHIEVDG--VPLRKAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGR 113 D + V G + L+ A+R R+ LY+K G + + DP GR ++FD LP + SR +++GR Sbjct: 155 DQVTVKGSAIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGR 214 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LDINT GLL+LT G L + PS + R Y VR G++ Q+++N L +G++++ Sbjct: 215 LDINTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGELTQEQMNALSEGVMLEDGLAR 274 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ +G+N W V L+EG+NRE++++FE V+RL+R+ +GP L Sbjct: 275 VERIYEQGGEGANKWYNVVLKEGRNREVRRLFESQGLTVSRLVRVGFGPIGL 326 >gi|307824285|ref|ZP_07654511.1| RNA-binding S4 domain protein [Methylobacter tundripaludum SV96] gi|307734665|gb|EFO05516.1| RNA-binding S4 domain protein [Methylobacter tundripaludum SV96] Length = 279 Score = 148 bits (373), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 91/217 (41%), Positives = 131/217 (60%), Gaps = 6/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRK-- 69 +R+ KV+AR G+ SRRE+ER I + R+K+NG + + + DH+ ++ V K Sbjct: 17 ERIQKVLARGGVGSRREIERWIDEGRLKINGKPVGLGD-RLKAGDHLLINDRVVHWEKFV 75 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 + TR+ LYHKP+G V T DP+GR VF LP + SR I+VGRLDINT GLLL+TN+G Sbjct: 76 EQPTRVLLYHKPVGEVVTRRDPEGRPVVFTQLPKLAISRWIAVGRLDINTSGLLLVTNNG 135 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PSTQ R Y VR G+V L LK+G+ ++ + +G+N W Sbjct: 136 ELANRLMHPSTQVEREYAVRILGEVSDATLAKLKQGVELEDGKAKFDDIIFFGGEGANKW 195 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NR +++++E V+RL+R+ YGP L Sbjct: 196 YNVIVAEGRNRLVRRLWESQELIVSRLMRVRYGPVVL 232 >gi|261340036|ref|ZP_05967894.1| ribosomal large subunit pseudouridine synthase B [Enterobacter cancerogenus ATCC 35316] gi|288317956|gb|EFC56894.1| ribosomal large subunit pseudouridine synthase B [Enterobacter cancerogenus ATCC 35316] Length = 291 Score = 148 bits (373), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 128/218 (58%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E +I RV V+G I V ++ I +DG V Sbjct: 3 EKLQKVLARAGHGSRREIEAIIEAGRVSVDGKIATLGDRVEIVPGLKIRIDGHLISVKES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD++KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDENKLRDLSRGVQLEDGPAAFKTIKFTGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILL 220 >gi|16765063|ref|NP_460678.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|29142068|ref|NP_805410.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|56413355|ref|YP_150430.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|161613791|ref|YP_001587756.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|167993774|ref|ZP_02574867.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|168230158|ref|ZP_02655216.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|168237772|ref|ZP_02662830.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|168241298|ref|ZP_02666230.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|168260059|ref|ZP_02682032.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|168462806|ref|ZP_02696737.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|168819542|ref|ZP_02831542.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|194444498|ref|YP_002040973.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194451051|ref|YP_002045766.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194471762|ref|ZP_03077746.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194733904|ref|YP_002114751.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|197249960|ref|YP_002146307.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197265930|ref|ZP_03166004.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197362279|ref|YP_002141916.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|198242127|ref|YP_002215422.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|200389338|ref|ZP_03215949.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|205352607|ref|YP_002226408.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|207856768|ref|YP_002243419.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|213163149|ref|ZP_03348859.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E00-7866] gi|213421199|ref|ZP_03354265.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] gi|213424436|ref|ZP_03357249.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E02-1180] gi|213582563|ref|ZP_03364389.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] gi|213649101|ref|ZP_03379154.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. J185] gi|213855225|ref|ZP_03383465.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. M223] gi|224583789|ref|YP_002637587.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|238911889|ref|ZP_04655726.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] gi|289829089|ref|ZP_06546769.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E98-3139] gi|34098653|sp|Q8ZP51|RLUB_SALTY RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|16420249|gb|AAL20637.1| putative ribosomal large subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|29137697|gb|AAO69259.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|56127612|gb|AAV77118.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|161363155|gb|ABX66923.1| hypothetical protein SPAB_01525 [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|194403161|gb|ACF63383.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194409355|gb|ACF69574.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194458126|gb|EDX46965.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194709406|gb|ACF88627.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|195634468|gb|EDX52820.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|197093756|emb|CAR59230.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|197213663|gb|ACH51060.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197244185|gb|EDY26805.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197289238|gb|EDY28605.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|197936643|gb|ACH73976.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|199601783|gb|EDZ00329.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|205272388|emb|CAR37268.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205328271|gb|EDZ15035.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|205335319|gb|EDZ22083.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|205339577|gb|EDZ26341.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|205343695|gb|EDZ30459.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|205350643|gb|EDZ37274.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|206708571|emb|CAR32892.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|224468316|gb|ACN46146.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|261246909|emb|CBG24726.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. D23580] gi|267993665|gb|ACY88550.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S] gi|301158247|emb|CBW17746.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344] gi|312912712|dbj|BAJ36686.1| 23S rRNA pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhimurium str. T000240] gi|320085782|emb|CBY95558.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1] gi|321224350|gb|EFX49413.1| Ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhimurium str. TN061786] gi|322614978|gb|EFY11903.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 315996572] gi|322621428|gb|EFY18282.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-1] gi|322623230|gb|EFY20072.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-3] gi|322628520|gb|EFY25308.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-4] gi|322633684|gb|EFY30424.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-1] gi|322638508|gb|EFY35203.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-2] gi|322640822|gb|EFY37471.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 531954] gi|322645314|gb|EFY41842.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. NC_MB110209-0054] gi|322651803|gb|EFY48175.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. OH_2009072675] gi|322654300|gb|EFY50622.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. CASC_09SCPH15965] gi|322659265|gb|EFY55513.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] gi|322662733|gb|EFY58940.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 81038-01] gi|322667656|gb|EFY63816.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. MD_MDA09249507] gi|322671930|gb|EFY68051.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 414877] gi|322677024|gb|EFY73088.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 366867] gi|322680314|gb|EFY76353.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 413180] gi|322685257|gb|EFY81253.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 446600] gi|323129991|gb|ADX17421.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhimurium str. 4/74] gi|323195433|gb|EFZ80612.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 609458-1] gi|323199316|gb|EFZ84410.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 556150-1] gi|323204774|gb|EFZ89770.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 609460] gi|323205930|gb|EFZ90893.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 507440-20] gi|323217255|gb|EGA01976.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. MB101509-0077] gi|323220712|gb|EGA05157.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. MB102109-0047] gi|323227964|gb|EGA12116.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. MB110209-0055] gi|323232119|gb|EGA16226.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. MB111609-0052] gi|323234646|gb|EGA18733.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 2009083312] gi|323238098|gb|EGA22157.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 2009085258] gi|323243298|gb|EGA27317.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 315731156] gi|323248445|gb|EGA32380.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2009159199] gi|323252551|gb|EGA36394.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008282] gi|323255424|gb|EGA39190.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008283] gi|323260826|gb|EGA44428.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008284] gi|323267587|gb|EGA51070.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008285] gi|323270947|gb|EGA54383.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008287] gi|326623169|gb|EGE29514.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Dublin str. 3246] gi|326627671|gb|EGE34014.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Gallinarum str. 9] gi|332988608|gb|AEF07591.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhimurium str. UK-1] Length = 291 Score = 148 bits (373), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 126/218 (57%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E +I RV V+G I V V I +DG V Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD+ KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDESKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|311279823|ref|YP_003942054.1| pseudouridine synthase [Enterobacter cloacae SCF1] gi|308749018|gb|ADO48770.1| pseudouridine synthase [Enterobacter cloacae SCF1] Length = 299 Score = 148 bits (373), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 126/218 (57%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E MI RV V+G I V + I +DG + E Sbjct: 3 EKLQKVLARAGHGSRREIESMIEAGRVSVDGKIATLGDRVEITPGLKIRIDGHLISVKES 62 Query: 73 ----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 VEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD +K+ L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDNKVRELARGVQLEDGPAAFKTIKFTGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|299821620|ref|ZP_07053508.1| ribosomal large subunit pseudouridine synthase B [Listeria grayi DSM 20601] gi|299817285|gb|EFI84521.1| ribosomal large subunit pseudouridine synthase B [Listeria grayi DSM 20601] Length = 243 Score = 148 bits (373), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 88/236 (37%), Positives = 135/236 (57%), Gaps = 6/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA +G+ SRR+ E++IA RV VNG ++ V D IEV+G+ L K E Sbjct: 2 ERLQKVIANSGVTSRRKAEQLIAAGRVTVNGEVVRELGTKVSPNDRIEVEGIELTKEEH- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G+V+ +D GR TV D I R+ VGRLD T GLLL+TNDG A Sbjct: 61 RYFLFYKPRGVVSAVTDDKGRKTVADYFVDIPERLYPVGRLDYETSGLLLMTNDGDFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y R G +++L L++G+VI G +V L + + A + + Sbjct: 121 LMHPKHEVEKQYIARVKGIPTKEQLRRLERGVVIDGRKTAPAKVKLRSADKAKEKAIIEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQ 244 + EG+NR+++K+FE + V +L+R +Y + + AG RE+S K+L+ Q Sbjct: 181 TIHEGRNRQVRKMFESIGFPVQKLMREAYAFLNVAGMNAGERRELSHHEVKLLKTQ 236 >gi|295095683|emb|CBK84773.1| ribosomal large subunit pseudouridine synthase B [Enterobacter cloacae subsp. cloacae NCTC 9394] Length = 291 Score = 148 bits (373), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 128/218 (58%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E +I RV V+G I V ++ I +DG V Sbjct: 3 EKLQKVLARAGHGSRREIEAIIEAGRVSVDGKIATLGDRVEIVPGLKIRIDGHLISVKES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD++KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDENKLRDLSRGVQLEDGPAAFKTIKFTGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILL 220 >gi|62180286|ref|YP_216703.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|62127919|gb|AAX65622.1| putative ribosomal large subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|322714760|gb|EFZ06331.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] Length = 291 Score = 148 bits (373), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 126/218 (57%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E +I RV V+G I V V I +DG V Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD+ KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDESKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|16760161|ref|NP_455778.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. CT18] gi|34098636|sp|Q8Z7D5|RLUB_SALTI RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|25324005|pir||AI0653 probable pseudouridine synthase STY1331 [imported] - Salmonella enterica subsp. enterica serovar Typhi (strain CT18) gi|16502455|emb|CAD08412.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhi] Length = 291 Score = 148 bits (373), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 126/218 (57%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E +I RV V+G I V V I +DG V Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD+ KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDESKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|297520148|ref|ZP_06938534.1| 23S rRNA pseudouridylate synthase B [Escherichia coli OP50] Length = 281 Score = 148 bits (373), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + +R++ Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|296102094|ref|YP_003612240.1| 23S rRNA pseudouridylate synthase B [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295056553|gb|ADF61291.1| 23S rRNA pseudouridylate synthase B [Enterobacter cloacae subsp. cloacae ATCC 13047] Length = 291 Score = 148 bits (373), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 128/218 (58%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E +I RV V+G I V ++ I +DG V Sbjct: 3 EKLQKVLARAGHGSRREIEAIIEAGRVSVDGKIATLGDRVEIVPGLKIRIDGHLISVKES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD++KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDENKLRDLSRGVQLEDGPAAFKTIKFTGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILL 220 >gi|187928207|ref|YP_001898694.1| pseudouridine synthase [Ralstonia pickettii 12J] gi|187725097|gb|ACD26262.1| pseudouridine synthase [Ralstonia pickettii 12J] Length = 594 Score = 148 bits (373), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 94/250 (37%), Positives = 141/250 (56%), Gaps = 7/250 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG L +++TD + Sbjct: 202 KARELTSEDDAP-KLHKILADAGLGSRRDMEDLILQGRVSVNG-LPAHIGQRILATDQVR 259 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 V+G +++ + R+ LYHKP G + + SDP+GR TVFD LP + + ++VGRLD N Sbjct: 260 VNGKLIQRKLPNKPPRVLLYHKPSGEIVSQSDPEGRPTVFDALPRMKTGKWVAVGRLDFN 319 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L GI +Q ++ Sbjct: 320 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAETDRQKLLHGISLQDGEANFLRC 379 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 380 VDGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 439 Query: 237 SKKILREQLG 246 S + +R +G Sbjct: 440 SAEDVRTLMG 449 >gi|295399019|ref|ZP_06809001.1| pseudouridine synthase [Geobacillus thermoglucosidasius C56-YS93] gi|312110375|ref|YP_003988691.1| pseudouridine synthase [Geobacillus sp. Y4.1MC1] gi|294978485|gb|EFG54081.1| pseudouridine synthase [Geobacillus thermoglucosidasius C56-YS93] gi|311215476|gb|ADP74080.1| pseudouridine synthase [Geobacillus sp. Y4.1MC1] Length = 243 Score = 147 bits (372), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 87/227 (38%), Positives = 132/227 (58%), Gaps = 5/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIARAGIASRR+ E++I Q +VKVNG ++ V V D +EVDG+P+ K E Sbjct: 2 ERLQKVIARAGIASRRKAEQLILQGKVKVNGKIVTELGVKVGPRDKVEVDGIPVEKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G++++ D GR V D I R+ VGRLD +T G+LLLTNDG A + Sbjct: 62 -YYLFYKPRGVISSVKDDKGRKVVTDFFKDIDKRIYPVGRLDYDTSGILLLTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQKGSNAWVT 190 L P + +VY + +++L L+KGI+++ +V L D QK A + Sbjct: 121 LMHPRYEIEKVYIAKVKKIPTREQLKQLEKGIMLEDGMTAPAKVKLLSHDKQK-QTAIIE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE V +L R Y L L G RE++ Sbjct: 180 IRIHEGRNRQVRRMFEAIGCNVMKLKRERYAFLDLKGLNPGEYRELT 226 >gi|293409653|ref|ZP_06653229.1| conserved hypothetical protein [Escherichia coli B354] gi|291470121|gb|EFF12605.1| conserved hypothetical protein [Escherichia coli B354] Length = 291 Score = 147 bits (372), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 89/218 (40%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V + I +DG + +R++ Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPGLKIRIDGHLISVRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDTKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|161503173|ref|YP_001570285.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980] gi|160864520|gb|ABX21143.1| hypothetical protein SARI_01241 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:--] Length = 291 Score = 147 bits (372), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 126/218 (57%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E +I RV V+G I V V I +DG V Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD+ KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDESKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILL 220 >gi|218689259|ref|YP_002397471.1| 23S rRNA pseudouridylate synthase B [Escherichia coli ED1a] gi|218426823|emb|CAR07673.2| 23S rRNA pseudouridylate synthase [Escherichia coli ED1a] Length = 291 Score = 147 bits (372), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 89/218 (40%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V + I +DG + +R++ Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPRLKIRIDGHLISVRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|229543960|ref|ZP_04433019.1| pseudouridine synthase [Bacillus coagulans 36D1] gi|229325099|gb|EEN90775.1| pseudouridine synthase [Bacillus coagulans 36D1] Length = 245 Score = 147 bits (372), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 84/227 (37%), Positives = 135/227 (59%), Gaps = 5/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ SRR+ E++I + +VKVNG + V +D IEV+G+PL + E+ Sbjct: 2 ERLQKVIAQAGVTSRRKAEQLILEGKVKVNGETVRTLGTKVSQSDKIEVEGIPLEREEKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+++ SD GR TV D +RV VGRLD +T GLL++TNDG A + Sbjct: 62 -YYLFYKPRGVISAVSDDKGRKTVSDYFRDAGARVYPVGRLDYDTSGLLVVTNDGEFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVT 190 L P + + Y R G + +L L+KGI ++ + +++D +K A V Sbjct: 121 LMHPRFEIDKTYIARLSGIPSRQELKQLEKGIRLKDGMTAPARAKLLSMDKRK-KKAIVQ 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE + V +L R +YG L L AG RE++ Sbjct: 180 LTIHEGRNRQVRRMFEHLGYPVEKLRREAYGMLTLKGLNAGEKRELT 226 >gi|241662811|ref|YP_002981171.1| pseudouridine synthase [Ralstonia pickettii 12D] gi|240864838|gb|ACS62499.1| pseudouridine synthase [Ralstonia pickettii 12D] Length = 594 Score = 147 bits (372), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 94/250 (37%), Positives = 141/250 (56%), Gaps = 7/250 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG L +++TD + Sbjct: 202 KARELTSEDDAP-KLHKILADAGLGSRRDMEDLILQGRVSVNG-LPAHIGQRILATDQVR 259 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 V+G +++ + R+ LYHKP G + + SDP+GR TVFD LP + + ++VGRLD N Sbjct: 260 VNGKLIQRKLPNKPPRVLLYHKPSGEIVSQSDPEGRPTVFDALPRMKTGKWVAVGRLDFN 319 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L GI +Q ++ Sbjct: 320 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAETDRQKLLHGIPLQDGEANFLRC 379 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 380 VDGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 439 Query: 237 SKKILREQLG 246 S + +R +G Sbjct: 440 SAEDVRTLMG 449 >gi|26247598|ref|NP_753638.1| 23S rRNA pseudouridylate synthase B [Escherichia coli CFT073] gi|91210560|ref|YP_540546.1| 23S rRNA pseudouridylate synthase B [Escherichia coli UTI89] gi|110641498|ref|YP_669228.1| 23S rRNA pseudouridylate synthase B [Escherichia coli 536] gi|191171000|ref|ZP_03032551.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli F11] gi|215486564|ref|YP_002328995.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O127:H6 str. E2348/69] gi|218549040|ref|YP_002382831.1| 23S rRNA pseudouridylate synthase B [Escherichia fergusonii ATCC 35469] gi|218558254|ref|YP_002391167.1| 23S rRNA pseudouridylate synthase B [Escherichia coli S88] gi|218704792|ref|YP_002412311.1| 23S rRNA pseudouridylate synthase B [Escherichia coli UMN026] gi|227886303|ref|ZP_04004108.1| 23S rRNA pseudouridylate synthase [Escherichia coli 83972] gi|237705292|ref|ZP_04535773.1| ribosomal large subunit pseudouridine synthase B [Escherichia sp. 3_2_53FAA] gi|293404810|ref|ZP_06648802.1| 23S rRNA pseudouridylate synthase B [Escherichia coli FVEC1412] gi|298380451|ref|ZP_06990050.1| 23S rRNA pseudouridylate synthase B [Escherichia coli FVEC1302] gi|300897321|ref|ZP_07115752.1| conserved hypothetical protein [Escherichia coli MS 198-1] gi|300971792|ref|ZP_07171626.1| hypothetical protein HMPREF9553_00034 [Escherichia coli MS 200-1] gi|300982412|ref|ZP_07176109.1| conserved hypothetical protein [Escherichia coli MS 45-1] gi|301046931|ref|ZP_07194045.1| conserved hypothetical protein [Escherichia coli MS 185-1] gi|306813708|ref|ZP_07447889.1| 23S rRNA pseudouridylate synthase B [Escherichia coli NC101] gi|312966803|ref|ZP_07781021.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 2362-75] gi|331646590|ref|ZP_08347693.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli M605] gi|331662681|ref|ZP_08363604.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli TA143] gi|331672793|ref|ZP_08373579.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli TA280] gi|331682754|ref|ZP_08383373.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli H299] gi|34098555|sp|Q8FHV4|RLUB_ECOL6 RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|26108000|gb|AAN80200.1|AE016760_59 Hypothetical protein yciL [Escherichia coli CFT073] gi|91072134|gb|ABE07015.1| hypothetical protein YciL [Escherichia coli UTI89] gi|110343090|gb|ABG69327.1| putative ribosomal large subunit pseudouridine synthase [Escherichia coli 536] gi|190908732|gb|EDV68320.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli F11] gi|215264636|emb|CAS09007.1| 23S rRNA pseudouridy late synthase [Escherichia coli O127:H6 str. E2348/69] gi|218356581|emb|CAQ89204.1| 23S rRNA pseudouridylate synthase [Escherichia fergusonii ATCC 35469] gi|218365023|emb|CAR02726.1| 23S rRNA pseudouridylate synthase [Escherichia coli S88] gi|218431889|emb|CAR12774.1| 23S rRNA pseudouridylate synthase [Escherichia coli UMN026] gi|222033073|emb|CAP75813.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli LF82] gi|226900049|gb|EEH86308.1| ribosomal large subunit pseudouridine synthase B [Escherichia sp. 3_2_53FAA] gi|227836507|gb|EEJ46973.1| 23S rRNA pseudouridylate synthase [Escherichia coli 83972] gi|281178457|dbj|BAI54787.1| putative pseudouridine synthase [Escherichia coli SE15] gi|284921150|emb|CBG34216.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 042] gi|291427018|gb|EFF00045.1| 23S rRNA pseudouridylate synthase B [Escherichia coli FVEC1412] gi|294492436|gb|ADE91192.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli IHE3034] gi|298277893|gb|EFI19407.1| 23S rRNA pseudouridylate synthase B [Escherichia coli FVEC1302] gi|300301157|gb|EFJ57542.1| conserved hypothetical protein [Escherichia coli MS 185-1] gi|300309298|gb|EFJ63818.1| hypothetical protein HMPREF9553_00034 [Escherichia coli MS 200-1] gi|300358900|gb|EFJ74770.1| conserved hypothetical protein [Escherichia coli MS 198-1] gi|300408750|gb|EFJ92288.1| conserved hypothetical protein [Escherichia coli MS 45-1] gi|305852982|gb|EFM53427.1| 23S rRNA pseudouridylate synthase B [Escherichia coli NC101] gi|307553327|gb|ADN46102.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli ABU 83972] gi|307627157|gb|ADN71461.1| 23S rRNA pseudouridylate synthase B [Escherichia coli UM146] gi|312288267|gb|EFR16169.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 2362-75] gi|312945903|gb|ADR26730.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O83:H1 str. NRG 857C] gi|315289107|gb|EFU48505.1| conserved hypothetical protein [Escherichia coli MS 110-3] gi|315294756|gb|EFU54099.1| conserved hypothetical protein [Escherichia coli MS 153-1] gi|323187500|gb|EFZ72809.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli RN587/1] gi|323949128|gb|EGB45020.1| RNA pseudouridylate synthase [Escherichia coli H252] gi|323953860|gb|EGB49661.1| RNA pseudouridylate synthase [Escherichia coli H263] gi|323964605|gb|EGB60078.1| RNA pseudouridylate synthase [Escherichia coli M863] gi|323977101|gb|EGB72188.1| RNA pseudouridylate synthase [Escherichia coli TW10509] gi|324006121|gb|EGB75340.1| hypothetical protein HMPREF9532_04240 [Escherichia coli MS 57-2] gi|324011320|gb|EGB80539.1| hypothetical protein HMPREF9533_04708 [Escherichia coli MS 60-1] gi|327253958|gb|EGE65587.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli STEC_7v] gi|331045342|gb|EGI17469.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli M605] gi|331061103|gb|EGI33067.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli TA143] gi|331070014|gb|EGI41383.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli TA280] gi|331080385|gb|EGI51564.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli H299] Length = 291 Score = 147 bits (372), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 89/218 (40%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V + I +DG + +R++ Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPGLKIRIDGHLISVRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|324113141|gb|EGC07116.1| RNA pseudouridylate synthase [Escherichia fergusonii B253] gi|325497457|gb|EGC95316.1| 23S rRNA pseudouridylate synthase B [Escherichia fergusonii ECD227] Length = 290 Score = 147 bits (372), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 89/218 (40%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V + I +DG + +R++ Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPGLKIRIDGHLISVRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|323141768|ref|ZP_08076638.1| pseudouridylate synthase [Phascolarctobacterium sp. YIT 12067] gi|322413757|gb|EFY04606.1| pseudouridylate synthase [Phascolarctobacterium sp. YIT 12067] Length = 241 Score = 147 bits (372), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 90/234 (38%), Positives = 138/234 (58%), Gaps = 6/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K++A AG+ASRRE E++I RV+VNG ++ E I VDG P+ + E Sbjct: 3 ERLQKILAAAGVASRREAEKIITAGRVRVNGKVVTELGCKFDADKVRISVDGKPIAQ-EA 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++++KP G+VTT SDP R ++ D + ++ RV VGRLD NTEGLLLLTNDG LA+ Sbjct: 62 KAYYMFYKPRGVVTTMSDPQNRRSIADFVQNLPERVFPVGRLDFNTEGLLLLTNDGALAQ 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQKGSNAWV 189 L PS + + Y V+ G V Q+KL+ L+ G+ ++ V L D ++G + Sbjct: 122 ALMHPSHEVNKTYFVKVPGIVPQEKLDQLRLGVKLEDGPTAPAIVNLRDYDHERGFTLF- 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + EG+NR+I+++ + + V L RI GP QL L G R +S++ L + Sbjct: 181 DITIHEGRNRQIRRMCDAIGFPVRDLKRIKLGPLQLQNLGRGKFRSLSEQELSQ 234 >gi|152974996|ref|YP_001374513.1| pseudouridine synthase [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|152023748|gb|ABS21518.1| pseudouridine synthase [Bacillus cytotoxicus NVH 391-98] Length = 242 Score = 147 bits (372), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 80/226 (35%), Positives = 133/226 (58%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG ++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVTELGTKVTPQDKVEVNHIPLEKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ SD GR V D I R+ +GRLD +T G+LL+TNDG A + Sbjct: 62 YFLLY-KPTGVISSVSDDKGRKVVTDFFQDIPQRLFPIGRLDYDTSGVLLMTNDGDFANI 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L+KG++++ +V + + ++ + V + Sbjct: 121 LMHPKYKVEKTYVAKVKGPLTGEKIRMLEKGVILEDGKTSPARVKIISWDKRKEMSIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE KV +L R Y ++G+L G RE++ Sbjct: 181 TIHEGRNRQVRRMFEAIGCKVMKLKRERYAFLEVGSLRPGDARELT 226 >gi|227513314|ref|ZP_03943363.1| pseudouridylate synthase [Lactobacillus buchneri ATCC 11577] gi|227083515|gb|EEI18827.1| pseudouridylate synthase [Lactobacillus buchneri ATCC 11577] Length = 241 Score = 147 bits (372), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 87/239 (36%), Positives = 129/239 (53%), Gaps = 10/239 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR+ E++I + VKVNG +++ V +D +EVD VP+ K E Sbjct: 3 ERLQKVMAHAGVASRRKAEKLIVEGHVKVNGKVVKELGTKVTESDEVEVDEVPISK-EVP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++T +D R TV D L + R+ VGRLD +T GLLLLTNDG L Sbjct: 62 VYYLLYKPRGVITAVTDDKHRKTVIDLLSEVTERIYPVGRLDYDTSGLLLLTNDGDLDNH 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + + Y + G + D + L+ GI I G + T+ ++ V++ + Sbjct: 122 LTHPKYEVDKTYVAKVKGTITNDDMKKLRTGIHIDGRKTASAKATIIRNNNNSTIVSLTI 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 EG+N ++KK+F V +L R SYG L L G R +L PH +EE Sbjct: 182 HEGRNHQVKKMFLALGHPVEKLSRQSYGFLNLDGLQPGDYR---------RLKPHEVEE 231 >gi|330911132|gb|EGH39642.1| ribosomal large subunit pseudouridine synthase B LSU [Escherichia coli AA86] Length = 291 Score = 147 bits (372), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 89/218 (40%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V + I +DG + +R++ Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPGLKIRIDGHLISVRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|295398585|ref|ZP_06808617.1| ribosomal large subunit pseudouridine synthase B [Aerococcus viridans ATCC 11563] gi|294973186|gb|EFG48981.1| ribosomal large subunit pseudouridine synthase B [Aerococcus viridans ATCC 11563] Length = 240 Score = 147 bits (372), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 88/236 (37%), Positives = 131/236 (55%), Gaps = 5/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRRE E++IA RVKVNG ++ V + D IEVD VP+ K E Sbjct: 2 ERLQKVMAHAGVASRRESEKLIAAGRVKVNGEVVRELGYKVSNNDRIEVDQVPIYKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++++KPIG+++ D R V D P I R+ VGRLD NT GLLLLTNDG A Sbjct: 62 -YYVFYKPIGVISAVKDDKDRKVVTDFFPGIEQRIYPVGRLDYNTSGLLLLTNDGEFANT 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVT 190 L P + +VY + G + ++ L++G+ I G+ Q +++D K + Sbjct: 121 LMHPRYEINKVYVAKVEGVITGEERKQLERGVEIDGVKTAPAQAKILSVDKDK-KTTIIE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + + EG+NR+++K+ E V +L R YG L L G +R + K + E L Sbjct: 180 LVIHEGRNRQVRKMLEAVGHPVTKLKRERYGFLDLKGLKPGDSRTLLKHEIEELLA 235 >gi|89901090|ref|YP_523561.1| pseudouridine synthase Rsu [Rhodoferax ferrireducens T118] gi|89345827|gb|ABD70030.1| ribosomal large subunit pseudouridine synthase B [Rhodoferax ferrireducens T118] Length = 466 Score = 147 bits (372), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 89/220 (40%), Positives = 127/220 (57%), Gaps = 10/220 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR- 68 TP ++ KV+A+AG+ SR E+E++I + R+ VN E A + + DH++V+G P+R Sbjct: 96 TP-KLHKVLAQAGMGSRLEMEQLIMEGRITVNN---EPAHIGQRIQFGDHVKVNGKPIRF 151 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 A R+ YHKP+G V TH DP R TVF LP +F + SVGRLD+NTEGLLL T Sbjct: 152 RIDAPPARVIAYHKPVGEVVTHDDPQNRPTVFRRLPKLFQGKWQSVGRLDLNTEGLLLFT 211 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 + G LA L P R Y VR G +++D+ L G+ + + +G+ Sbjct: 212 SSGELANNLMHPRFGLEREYAVRVLGALNKDEKQRLLDGVKLDDGVAQFGSIEAGGGEGA 271 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V + EG+NRE++++FE V+RLIRI YG L Sbjct: 272 NCWYRVTIAEGRNREVRRMFEAVGHAVSRLIRIRYGAMML 311 >gi|238899278|ref|YP_002924961.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] gi|229467039|gb|ACQ68813.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] Length = 288 Score = 147 bits (372), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG--VPLRKA 70 +++ K++AR+G SRRE+E I + V VNG I V+VM + I +DG +P+ + Sbjct: 3 EKLQKILARSGYGSRREIEEKIQRGLVSVNGKISTLGDRVSVMPSTQIRLDGRILPITEP 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 ++ R+ Y+K G + T DP GR TVFD LP + SR I +GRLDINT GLLL T D Sbjct: 63 QKIPCRVLAYYKIEGEICTRKDPKGRPTVFDRLPKLHHSRWIGIGRLDINTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y R GQV++ + L +GI ++ +VT +G N Sbjct: 123 GELAHRLMHPSQEIEREYASRIFGQVNEPSIKQLTQGIQLEDGMAAFRRVTFGGGEGLNH 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 183 WYNVILTEGRNREVRRLWEAIGVQVSRLIRIRYGDIKL 220 >gi|225874153|ref|YP_002755612.1| pseudouridine synthase rsuA family protein [Acidobacterium capsulatum ATCC 51196] gi|225791360|gb|ACO31450.1| pseudouridine synthase rsuA family protein [Acidobacterium capsulatum ATCC 51196] Length = 406 Score = 147 bits (371), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 88/222 (39%), Positives = 128/222 (57%), Gaps = 10/222 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K++A AG+ASRR+ E +I RV+VNG ++ E ++DHI VDG L+ E+ Sbjct: 24 ERLQKILASAGVASRRKAEELILAGRVQVNGQVVTEMGFKADAASDHIRVDGKLLQGPEK 83 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV---FDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R ++ +KP G VTT SDP+GR TV F R+ VGRLD +EGLLL+TNDG Sbjct: 84 LRYFMLNKPKGYVTTVSDPEGRHTVMEFFHGRGKGGERLYPVGRLDYASEGLLLMTNDGA 143 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------TQK 183 LA L S+ +VY V+ G+ +++L ++ GI+I G+ +V + Sbjct: 144 LANTLTKASSHVEKVYLVKVSGRPTEEQLEQIRAGIMIDRGRPGEGRVMTAPAGVRMVRD 203 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W + L EG+NREI+K+FE V ++ RI YGP L Sbjct: 204 AENPWFELTLIEGRNREIRKMFEETGHFVEKIRRIGYGPLVL 245 >gi|70728994|ref|YP_258728.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas fluorescens Pf-5] gi|68343293|gb|AAY90899.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas fluorescens Pf-5] Length = 396 Score = 147 bits (371), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 110/316 (34%), Positives = 169/316 (53%), Gaps = 28/316 (8%) Query: 1 MKDKNIVQENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M D + + P +++ KV+AR G+ SRR+VE I+Q R+KVNG + V D Sbjct: 1 MSDTDQNDQEIRPAGEKLQKVLARIGVGSRRDVESWISQGRIKVNGKEAT-LGLRVDLHD 59 Query: 59 HIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGR 113 I +DG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GR Sbjct: 60 AISIDGKVIKREEAAESVRRVIMYNKPDGEICTRDDPEGRPTVFDKLPRPREGRWINIGR 119 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--IC 171 LDINT GLL+ T DG LA L PS + R Y VR G+VD + + LK G++++ Sbjct: 120 LDINTTGLLMFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVMLEDGPAK 179 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLA 230 + D+Q + G N W + EG+NRE+++++E V+RL R+ +GP L + L Sbjct: 180 FTDIQQAPGGE-GFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLNSDLPM 238 Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 G RE+S Q +L A+V L P+ P + ++ D RM++ SS Sbjct: 239 GRWREMS------QYEVDVL-SAEVGL-TPVAM--------PQLNAKSKDKLERMQRKSS 282 Query: 291 QKNGLSKQKKLATPVH 306 + G S++ + P + Sbjct: 283 RPVGKSERVRTLRPAN 298 >gi|329115789|ref|ZP_08244506.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus parauberis NCFD 2020] gi|326906194|gb|EGE53108.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus parauberis NCFD 2020] Length = 241 Score = 147 bits (371), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 86/230 (37%), Positives = 130/230 (56%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V +NG ++ A V S D +E++G P+ E+ Sbjct: 2 RINKFIAHAGVASRRKAEELIKQGLVTINGQVVTELATTVKSGDQVEIEGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVIDLLPQVKERIYPVGRLDWDTSGLLLLTNDGDFTDMM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +D L L +G+VI G Y ++V D + + V Sbjct: 121 IHPRNEIDKVYLARVKGIATKDNLRPLTRGVVIDGKKTKPARYNIIRVEADKNR---SIV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G L L G R ++KK Sbjct: 178 ELTIHEGRNHQVKKMFESVGLIVDKLSRTQFGTLDLTGLRPGEARRLNKK 227 >gi|114330607|ref|YP_746829.1| pseudouridine synthase, Rsu [Nitrosomonas eutropha C91] gi|114307621|gb|ABI58864.1| ribosomal large subunit pseudouridine synthase B [Nitrosomonas eutropha C91] Length = 272 Score = 147 bits (371), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 87/218 (39%), Positives = 127/218 (58%), Gaps = 11/218 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNVMSTDHIEVDGVPLR--- 68 R+ K++AR G+ SRRE+E MIA RV +N L +RA + D I +DG +R Sbjct: 34 RLQKLLARNGLGSRREIEAMIAAGRVSINNTTAKLGDRAGLG----DKIRIDGRIIRLSM 89 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 A R+ +YHKP G + + DP GR +VFD LP I S+ I++GRLD NT GLL+ T D Sbjct: 90 PALLPRIIIYHKPEGEIVSARDPQGRLSVFDKLPHIQSSKWIAIGRLDFNTSGLLIFTTD 149 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P Q R Y VR G++ +++ L GI ++ Q+ + G+N Sbjct: 150 GALANRLMHPRYQMEREYAVRIVGELSPEQITHLTTGIELEDGSAKFDQLLDEGGLGTNH 209 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W + L+EG+NRE++++FE V+RL+R+ +GP L Sbjct: 210 WYRIVLKEGRNREVRRMFEALGITVSRLMRVRFGPVNL 247 >gi|82776628|ref|YP_402977.1| 23S rRNA pseudouridylate synthase B [Shigella dysenteriae Sd197] gi|309789069|ref|ZP_07683664.1| ribosomal large subunit pseudouridine synthase B [Shigella dysenteriae 1617] gi|81240776|gb|ABB61486.1| conserved hypothetical protein [Shigella dysenteriae Sd197] gi|308923340|gb|EFP68852.1| ribosomal large subunit pseudouridine synthase B [Shigella dysenteriae 1617] Length = 290 Score = 147 bits (371), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 89/218 (40%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV ++G + + V V I +DG + +R++ Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSIDGRIAKLGDRVEVTPGLKIRIDGHLISVRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|187731466|ref|YP_001880099.1| 23S rRNA pseudouridylate synthase B [Shigella boydii CDC 3083-94] gi|187428458|gb|ACD07732.1| ribosomal large subunit pseudouridine synthase B [Shigella boydii CDC 3083-94] Length = 290 Score = 147 bits (371), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + +R++ Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKIIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|309782266|ref|ZP_07676994.1| RNA pseudouridine synthase family protein [Ralstonia sp. 5_7_47FAA] gi|308918959|gb|EFP64628.1| RNA pseudouridine synthase family protein [Ralstonia sp. 5_7_47FAA] Length = 605 Score = 147 bits (371), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 93/250 (37%), Positives = 141/250 (56%), Gaps = 7/250 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + ++ P ++ K++A AG+ SRR++E +I Q RV VNG L +++TD + Sbjct: 213 KTRELTSDDDAP-KLHKILADAGLGSRRDMEDLILQGRVSVNG-LPAHIGQRILATDQVR 270 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 V+G +++ + R+ LYHKP G + + SDP+GR TVFD LP + + ++VGRLD N Sbjct: 271 VNGKLIQRKLPNKPPRVLLYHKPAGEIVSQSDPEGRPTVFDALPRMKTGKWVAVGRLDFN 330 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L GI +Q ++ Sbjct: 331 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAETDRQKLLHGIPLQDGEANFLRC 390 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 391 VDGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 450 Query: 237 SKKILREQLG 246 S + +R +G Sbjct: 451 SAEDVRTLMG 460 >gi|82702976|ref|YP_412542.1| pseudouridine synthase, Rsu [Nitrosospira multiformis ATCC 25196] gi|82411041|gb|ABB75150.1| ribosomal large subunit pseudouridine synthase B [Nitrosospira multiformis ATCC 25196] Length = 315 Score = 147 bits (371), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 85/220 (38%), Positives = 131/220 (59%), Gaps = 5/220 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 Q++ KV+A+AG+ SRRE+E +IA +V +NG + + + D + V V R A Sbjct: 73 QKLHKVLAQAGLGSRREMEELIASGQVTINGKTAQ-VGDRIAARDVVRVGKRVVHFRSAR 131 Query: 72 R-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 R R+ LYHKP G + + DP GR++VFD LP + S+ I++GRLD NT GLL+ T DG Sbjct: 132 RLPRVMLYHKPEGEIVSQDDPQGRTSVFDKLPQLRSSKWIAIGRLDYNTSGLLVFTTDGE 191 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P + R Y VR G++ ++ LL G+ ++ ++ + +GSN W Sbjct: 192 LANRLMHPRFEVEREYAVRIIGRLTPEQATLLTSGVELEDGAAKFDYLSDEGGEGSNHWY 251 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V L+EG+NRE++++FE V+RL+R+ +GP L + L Sbjct: 252 RVILKEGRNREVRRMFEAVGMTVSRLMRVRFGPINLPSRL 291 >gi|227524458|ref|ZP_03954507.1| pseudouridylate synthase [Lactobacillus hilgardii ATCC 8290] gi|227088377|gb|EEI23689.1| pseudouridylate synthase [Lactobacillus hilgardii ATCC 8290] Length = 241 Score = 147 bits (371), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 87/239 (36%), Positives = 129/239 (53%), Gaps = 10/239 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR+ E++I + VKVNG +++ V +D +EVD VP+ K E Sbjct: 3 ERLQKVMAHAGVASRRKAEKLIVEGHVKVNGKVVKELGTKVTESDEVEVDEVPISK-EVP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++T +D R TV D L + R+ VGRLD +T GLLLLTNDG L Sbjct: 62 VYYLLYKPRGVITAVTDDKHRKTVIDLLSEVTERIYPVGRLDYDTSGLLLLTNDGDLDNH 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + + Y + G + D + L+ GI I G + T+ ++ V++ + Sbjct: 122 LTHPKYEVDKTYVAKVKGTITNDDMKRLRTGIHIDGRKTASAKATVIRNNNNSTIVSLTI 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 EG+N ++KK+F V +L R SYG L L G R +L PH +EE Sbjct: 182 HEGRNHQVKKMFLALGHPVEKLSRQSYGFLNLDGLQPGDYR---------RLKPHEVEE 231 >gi|153001233|ref|YP_001366914.1| pseudouridine synthase [Shewanella baltica OS185] gi|160875907|ref|YP_001555223.1| RNA-binding S4 domain-containing protein [Shewanella baltica OS195] gi|304411914|ref|ZP_07393525.1| RNA-binding S4 domain protein [Shewanella baltica OS183] gi|307303318|ref|ZP_07583073.1| RNA-binding S4 domain protein [Shewanella baltica BA175] gi|151365851|gb|ABS08851.1| pseudouridine synthase [Shewanella baltica OS185] gi|160861429|gb|ABX49963.1| RNA-binding S4 domain protein [Shewanella baltica OS195] gi|304349774|gb|EFM14181.1| RNA-binding S4 domain protein [Shewanella baltica OS183] gi|306913678|gb|EFN44100.1| RNA-binding S4 domain protein [Shewanella baltica BA175] gi|315268098|gb|ADT94951.1| RNA-binding S4 domain protein [Shewanella baltica OS678] Length = 291 Score = 147 bits (371), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 92/224 (41%), Positives = 135/224 (60%), Gaps = 20/224 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRK 69 +++ KV+ARAG SRRE+E IA RV ++G E A++ + + + +DG + L+ Sbjct: 3 EKLQKVLARAGHGSRREMEAWIAAGRVSIDG---EIASLGDRIEADAKVRIDGRSISLKS 59 Query: 70 AER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTN 126 AE R+ YHKP G + + DP+GR TVFD LP + SR ++VGRLDINT GLLL T+ Sbjct: 60 AEDVICRVLAYHKPEGEICSRKDPEGRPTVFDRLPKVRDSRWVAVGRLDINTSGLLLFTS 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--- 183 DG LA L PS + R Y VR G++ + + L+ G++++ D D+ K Sbjct: 120 DGELANRLMHPSNEVDREYAVRTFGEIPEATVQRLRTGVMLE-----DGPAQFDSIKPAG 174 Query: 184 --GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V LREG+NRE+++++E +V+RLIRI YG +L Sbjct: 175 GEGMNQWWHVCLREGRNREVRRLWESQEVQVSRLIRIRYGMVEL 218 >gi|328957343|ref|YP_004374729.1| ribosomal large subunit pseudouridine synthase B [Carnobacterium sp. 17-4] gi|328673667|gb|AEB29713.1| ribosomal large subunit pseudouridine synthase B [Carnobacterium sp. 17-4] Length = 251 Score = 147 bits (371), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 85/225 (37%), Positives = 131/225 (58%), Gaps = 3/225 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR+ E +I++ VKVNG +++ + + ++D +EVDGVP+ + E Sbjct: 8 ERLQKVLAHAGVASRRKSEELISKGHVKVNGKVVKEMGIQIGNSDVVEVDGVPIYREEPV 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP ++T SD GR V D +I R+ VGRLD +T G L+LTNDG L+++ Sbjct: 68 -YFLLNKPRNMITAVSDDKGRPVVTDLFTNIEQRIYPVGRLDYDTTGALMLTNDGELSQL 126 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P Q + Y + G VD+ LN L+KGIVI+G ++ + V + Sbjct: 127 LMHPKYQIDKTYVAKVKGLVDRKALNKLEKGIVIEGKKTAPAKAKILSADRAKDITMVEL 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + EG+NR++K +F+ V +L R SYG L L G RE+ Sbjct: 187 TIHEGRNRQVKNMFQAIGHPVEKLKRESYGTLTLDGLQTGEWREL 231 >gi|331657316|ref|ZP_08358278.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli TA206] gi|331055564|gb|EGI27573.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli TA206] Length = 291 Score = 147 bits (371), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 89/218 (40%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E ++ RV V+G + + V V I +DG + +R++ Sbjct: 3 EKLQKVLARAGHGSRREIESILEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|126174904|ref|YP_001051053.1| pseudouridine synthase [Shewanella baltica OS155] gi|217972846|ref|YP_002357597.1| RNA-binding S4 domain-containing protein [Shewanella baltica OS223] gi|125998109|gb|ABN62184.1| ribosomal large subunit pseudouridine synthase B [Shewanella baltica OS155] gi|217497981|gb|ACK46174.1| RNA-binding S4 domain protein [Shewanella baltica OS223] Length = 291 Score = 147 bits (371), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 92/224 (41%), Positives = 135/224 (60%), Gaps = 20/224 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRK 69 +++ KV+ARAG SRRE+E IA RV ++G E A++ + + + +DG + L+ Sbjct: 3 EKLQKVLARAGHGSRREMEAWIAAGRVSIDG---EIASLGDRIEADAKVRIDGRAISLKS 59 Query: 70 AER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTN 126 AE R+ YHKP G + + DP+GR TVFD LP + SR ++VGRLDINT GLLL T+ Sbjct: 60 AEDVICRVLAYHKPEGEICSRKDPEGRPTVFDRLPKVRDSRWVAVGRLDINTSGLLLFTS 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--- 183 DG LA L PS + R Y VR G++ + + L+ G++++ D D+ K Sbjct: 120 DGELANRLMHPSNEVDREYAVRTFGEIPEATVQRLRTGVMLE-----DGPAQFDSIKPAG 174 Query: 184 --GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V LREG+NRE+++++E +V+RLIRI YG +L Sbjct: 175 GEGMNQWWHVCLREGRNREVRRLWESQEVQVSRLIRIRYGMVEL 218 >gi|17546005|ref|NP_519407.1| hypothetical protein RSc1286 [Ralstonia solanacearum GMI1000] gi|17428300|emb|CAD14988.1| putative rrna uridine-516 pseudouridylate synthase-related pseudouridylate synthase protein [Ralstonia solanacearum GMI1000] Length = 598 Score = 147 bits (371), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 93/250 (37%), Positives = 142/250 (56%), Gaps = 7/250 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG L ++ TD + Sbjct: 203 KVRELTAEDDAP-KLHKILADAGLGSRRDMEDLILQGRVSVNG-LPAHIGQRILPTDQVR 260 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 V+G +++ ++ R+ LYHKP G + + SDP+GR TVFD+LP + + ++VGRLD N Sbjct: 261 VNGKLIQRKLPSKPPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFN 320 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L +GI + ++ Sbjct: 321 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELPESDRQKLLQGIRLDDGEANFLRC 380 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 381 ADGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 440 Query: 237 SKKILREQLG 246 S + +R +G Sbjct: 441 SAEDVRGLMG 450 >gi|229822888|ref|ZP_04448958.1| hypothetical protein GCWU000282_00178 [Catonella morbi ATCC 51271] gi|229787701|gb|EEP23815.1| hypothetical protein GCWU000282_00178 [Catonella morbi ATCC 51271] Length = 290 Score = 147 bits (370), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 91/225 (40%), Positives = 123/225 (54%), Gaps = 3/225 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KV+A AGIASRR+ E +I + RV VNG + V S D IEVDGVP+ + E R Sbjct: 3 RLQKVMAHAGIASRRKCESLITEGRVSVNGQTVRELGTQVSSKDRIEVDGVPIYR-EEPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP +++ SD R + D + I R+ VGRLD +T GLLLLTNDG A L Sbjct: 62 YILINKPRHVISAVSDDKNRQVILDYIQGIEERIYPVGRLDYDTTGLLLLTNDGAFANQL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVG 192 P Q +VY + G + L L+ GIV+ G + L +Q N A V + Sbjct: 122 MHPRHQIDKVYVAKVKGIPSEKSLARLEAGIVLDGKKTAKAKAQLLSQNLDNQTAIVELT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +REG N ++K++FE VN+L R Y LG LL G RE++ Sbjct: 182 IREGWNHQVKRMFEAVGHPVNKLKRERYAFLTLGKLLPGEWRELT 226 >gi|218461411|ref|ZP_03501502.1| probable RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli Kim 5] Length = 153 Score = 147 bits (370), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 68/102 (66%), Positives = 84/102 (82%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+SKV+ARAG+ASRR++ERMI + RV +NG +LE VNV D IEVDGVP+R ERT Sbjct: 52 ERISKVMARAGVASRRDIERMIMEGRVTLNGRVLETPVVNVTLADRIEVDGVPIRGIERT 111 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 RLWLYHKP GLVTT++DP+GR+TVFDNLP RV+S+GRLD Sbjct: 112 RLWLYHKPAGLVTTNADPEGRATVFDNLPEELPRVMSIGRLD 153 >gi|78485572|ref|YP_391497.1| pseudouridine synthase, Rsu [Thiomicrospira crunogena XCL-2] gi|78363858|gb|ABB41823.1| ribosomal large subunit pseudouridine synthase B [Thiomicrospira crunogena XCL-2] Length = 317 Score = 147 bits (370), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 91/223 (40%), Positives = 137/223 (61%), Gaps = 15/223 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKA 70 +++ K++AR G SRREVE++I+Q VKVNG L +RA TD ++V+ +++ Sbjct: 18 EKLQKILARGGFGSRREVEKLISQGLVKVNGKVATLGDRA----FPTDTLKVNDQLVKET 73 Query: 71 ----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 + T++ LY+KP G V + D GR T+F +LP I SR ISVGRLDINT GLL+LT Sbjct: 74 RLEKQPTQVILYNKPEGQVCSRKDEKGRETIFTSLPRIINSRWISVGRLDINTSGLLILT 133 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDM--QVTLDTQ 182 N+G LA L PS + R Y VR G+V + L+ LKKG+ ++ G + ++ + Sbjct: 134 NNGELANRLMHPSYEMEREYSVRVFGEVSDEILDRLKKGVKLEDGFAKFESIGKIPQQEE 193 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE+++++E +V+RL+R YG F L Sbjct: 194 DSINQWYRVVIKEGRNREVRRIWESQGVQVSRLVRTRYGQFSL 236 >gi|242242766|ref|ZP_04797211.1| pseudouridylate synthase [Staphylococcus epidermidis W23144] gi|242233902|gb|EES36214.1| pseudouridylate synthase [Staphylococcus epidermidis W23144] Length = 245 Score = 147 bits (370), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 79/223 (35%), Positives = 132/223 (59%), Gaps = 3/223 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA++G SRR+ E +I + RVKVNG + VM +D +EVDG+ + + ++ Sbjct: 6 ERLQKRIAKSGYTSRRKAEVLITEGRVKVNGQTVTELGSKVMPSDLVEVDGIKIEQEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L++KP ++T+ SD GR V D + SR+ VGRLD +T G+LLLTNDG + Sbjct: 66 YI-LFYKPTQVITSVSDDRGRRVVTDYFDDLESRIYPVGRLDYDTSGVLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + Y + G + ++++ L+KGI ++ QV + Q + + V + Sbjct: 125 MTHPRYHIKKKYIAKLKGYLMREEIKQLEKGIELEDGYTQPAQVKIKKQDKEKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EG+NR+++++FE+F +VN+L+RI +GP L L AG R Sbjct: 185 TISEGRNRQVRRMFEYFGHQVNKLVRIQFGPIDLKGLNAGEGR 227 >gi|28378541|ref|NP_785433.1| pseudouridylate synthase [Lactobacillus plantarum WCFS1] gi|254556755|ref|YP_003063172.1| pseudouridylate synthase [Lactobacillus plantarum JDM1] gi|300767486|ref|ZP_07077398.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum ATCC 14917] gi|308180698|ref|YP_003924826.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum ST-III] gi|28271377|emb|CAD64282.1| pseudouridylate synthase [Lactobacillus plantarum WCFS1] gi|254045682|gb|ACT62475.1| pseudouridylate synthase [Lactobacillus plantarum JDM1] gi|300495305|gb|EFK30461.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum ATCC 14917] gi|308046189|gb|ADN98732.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum ST-III] Length = 238 Score = 147 bits (370), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 88/225 (39%), Positives = 122/225 (54%), Gaps = 3/225 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AGIASRR+ E +I VKVNG + V V +DH+EVDGVPL AE+ Sbjct: 3 ERLQKVMAEAGIASRRKSEVLITSGHVKVNGKTVTTLGVKVEPSDHVEVDGVPLN-AEKL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+VTT D GR TV D + R+ VGRLD +T GLL++TNDG LA Sbjct: 62 VYYLFYKPRGVVTTVHDEKGRKTVLDFFEDVPERIYPVGRLDYDTSGLLIMTNDGALANR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTV 191 L P + + Y + G L L+ G+ I G + L K +NA V + Sbjct: 122 LTHPKYEVKKTYLAKVEGVPTNADLKQLRLGVEIDGRKTAPAKSNLLDSDHKKNNALVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + EG N ++KK+ V +L R YG L +L G R++ Sbjct: 182 TIHEGHNHQVKKMLAAVGHPVTKLKRERYGVLDLQSLQPGEYRKL 226 >gi|219120673|ref|XP_002181070.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217407786|gb|EEC47722.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 331 Score = 147 bits (370), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 99/270 (36%), Positives = 144/270 (53%), Gaps = 47/270 (17%) Query: 15 RVSKVIARAG---IASRREVERMIAQQRVKVNGILLERAAVNVMSTD----HIEVDG--V 65 R+SKV++ + SRRE ERMI V + G +L + + D ++V+G V Sbjct: 38 RLSKVLSLHTENLVISRREAERMIRSGDVTLAGNVLTSPMMMLKEEDLNDGALKVNGKVV 97 Query: 66 PLRKAE-------------RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--- 109 LR ++ +TR+W+ HK G + +DP R PS+ R+I Sbjct: 98 NLRSSKGPRSVAGEENSVHKTRVWIAHKLPGEIVADNDPYDR-------PSLLQRLIRGG 150 Query: 110 ------------SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 SVGRLD+NTEGL+L+TNDG AR +ELPS + R YRVR HG + K Sbjct: 151 VGKVGKTRLHLKSVGRLDMNTEGLILVTNDGKYAREMELPSNKLHRTYRVRVHGLLTDHK 210 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGS---NAWVTVGLREGKNREIKKVFEFFNWKVNR 214 L ++KG+ ++GI Y M++ ++ + S N W+ V EGKNR+I+ VF++ V R Sbjct: 211 LARIRKGVTVEGIRYPPMRIIPESTRQSQSTNKWLKVTCTEGKNRQIRNVFKYLGLTVTR 270 Query: 215 LIRISYGPFQLGTLLAGSTREVSKKILREQ 244 LIRISYG ++L T+ G EV K + Q Sbjct: 271 LIRISYGDYRLQTIPPGMAIEVPAKHIENQ 300 >gi|120598427|ref|YP_963001.1| pseudouridine synthase [Shewanella sp. W3-18-1] gi|146293494|ref|YP_001183918.1| pseudouridine synthase [Shewanella putrefaciens CN-32] gi|120558520|gb|ABM24447.1| ribosomal large subunit pseudouridine synthase B [Shewanella sp. W3-18-1] gi|145565184|gb|ABP76119.1| ribosomal large subunit pseudouridine synthase B [Shewanella putrefaciens CN-32] gi|319426799|gb|ADV54873.1| RNA-binding S4 domain protein [Shewanella putrefaciens 200] Length = 291 Score = 147 bits (370), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 92/224 (41%), Positives = 135/224 (60%), Gaps = 20/224 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRK 69 +++ KV+ARAG SRRE+E IA RV ++G E A++ + + + +DG + L+ Sbjct: 3 EKLQKVLARAGHGSRREMEAWIAAGRVSIDG---EIASLGDRIEADAKVRIDGRAISLKS 59 Query: 70 AER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTN 126 AE R+ YHKP G + + DP+GR TVFD LP + SR ++VGRLDINT GLLL T+ Sbjct: 60 AEDVICRVLAYHKPEGEICSRKDPEGRPTVFDRLPKVRDSRWVAVGRLDINTSGLLLFTS 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--- 183 DG LA L PS + R Y VR G++ + + L+ G++++ D D+ K Sbjct: 120 DGELANRLMHPSNEVDREYAVRTFGEIPEATVQRLRTGVMLE-----DGPAQFDSIKPAG 174 Query: 184 --GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V LREG+NRE+++++E +V+RLIRI YG +L Sbjct: 175 GEGMNQWWHVCLREGRNREVRRLWESQEVQVSRLIRIRYGMVEL 218 >gi|194436993|ref|ZP_03069092.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 101-1] gi|194423976|gb|EDX39964.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 101-1] Length = 291 Score = 147 bits (370), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 128/218 (58%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + +R++ Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ + + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLGDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|313901543|ref|ZP_07834987.1| ribosomal large subunit pseudouridine synthase B [Thermaerobacter subterraneus DSM 13965] gi|313468182|gb|EFR63652.1| ribosomal large subunit pseudouridine synthase B [Thermaerobacter subterraneus DSM 13965] Length = 327 Score = 147 bits (370), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 94/240 (39%), Positives = 138/240 (57%), Gaps = 23/240 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPL--- 67 +R+ K+++RAG+ASRR+VE IA R+ VNG +L RA + D I +DG PL Sbjct: 4 ERLQKILSRAGVASRRQVEAWIAAGRLTVNGRPAVLGTRAD---PARDVIALDGRPLAGL 60 Query: 68 -RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR------VISVGRLDINTEG 120 + R R L+HKP G+VTT DP GR V D F R + VGRLD ++EG Sbjct: 61 AERLSRKRYVLFHKPRGMVTTLRDPQGRPNVGD-----FCRRHGLQGLHPVGRLDFDSEG 115 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL 179 LLLLT+DG L L P + +VY V G +D +L L+ G+++ G + L Sbjct: 116 LLLLTDDGELTFALTHPRHEVDKVYHVLVRGDLDPARLRRLRDGVLLDDGPARARIARVL 175 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + G WV V LREG+ R+++++ + W+V RL+R++ GP +LG L AG+ R +S++ Sbjct: 176 RPRPGGG-WVEVVLREGRKRQVRRMCQAVGWQVVRLVRVAVGPLRLGRLAAGAWRPLSRQ 234 >gi|602963|gb|AAB59990.1| ORF4 [Escherichia coli str. K-12 substr. W3110] Length = 243 Score = 147 bits (370), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 90/218 (41%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + +R++ Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|254481782|ref|ZP_05095025.1| conserved hypothetical protein, putative [marine gamma proteobacterium HTCC2148] gi|214037911|gb|EEB78575.1| conserved hypothetical protein, putative [marine gamma proteobacterium HTCC2148] Length = 298 Score = 147 bits (370), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 93/216 (43%), Positives = 128/216 (59%), Gaps = 14/216 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRK- 69 +++ KV+AR G+ SRRE+ER I Q RV ++G L +R V + I VDG P+ Sbjct: 21 EKLQKVLARTGLGSRREMERWIEQGRVSIDGKPATLGDR----VTHRERISVDGRPVNTT 76 Query: 70 -AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 A+ TR LYHKP G V + DP GR TVF+ LP + S R IS+GRLD NT GLLL T D Sbjct: 77 PAQETRCILYHKPTGEVCSRKDPQGRRTVFERLPKLKSGRWISIGRLDYNTSGLLLFTTD 136 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GIC-YGDMQVTLDTQKGS 185 G LA L PS+ R Y VR G+ +D L L G++++ G+ + D+Q G Sbjct: 137 GDLANKLMHPSSNIEREYMVRVMGEWKEDMLQRLLDGVMLEDGVARFSDIQD--GGGDGI 194 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 N W V + EG+NRE+++++E V+RL R+ YG Sbjct: 195 NHWFYVVIMEGRNREVRRLWESQGLTVSRLKRVRYG 230 >gi|300723349|ref|YP_003712652.1| Ribosomal large subunit pseudouridine synthase B [Xenorhabdus nematophila ATCC 19061] gi|297629869|emb|CBJ90487.1| Ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Xenorhabdus nematophila ATCC 19061] Length = 307 Score = 147 bits (370), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 89/220 (40%), Positives = 133/220 (60%), Gaps = 10/220 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDG--VPLR 68 +++ K++AR+G SRRE+E I Q R+ ++G L +R + V + I +DG + ++ Sbjct: 6 EKLQKILARSGHGSRREIEGYIQQGRISIDGKTATLGDR--IEVKPSIKIRLDGRILNIK 63 Query: 69 KAERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 + ++T R+ Y+KP G + T DP+GR TVFD LP + +R I+VGRLDINT GLLL T Sbjct: 64 EPQKTVCRVLAYYKPEGELCTRHDPEGRPTVFDRLPRMQGARWIAVGRLDINTCGLLLFT 123 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR G+VD KL L +G+ ++ +T +G Sbjct: 124 TDGELANRLMHPSQEVEREYAVRVFGEVDTAKLRQLTQGVQLEDGPASFKTITFKGGEGI 183 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 184 NQWYNVTLTEGRNREVRRLWESVGVQVSRLIRVRYGDINL 223 >gi|227510307|ref|ZP_03940356.1| pseudouridylate synthase [Lactobacillus brevis subsp. gravesensis ATCC 27305] gi|227189959|gb|EEI70026.1| pseudouridylate synthase [Lactobacillus brevis subsp. gravesensis ATCC 27305] Length = 241 Score = 147 bits (370), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 87/239 (36%), Positives = 128/239 (53%), Gaps = 10/239 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR+ E++I + VKVNG ++ V +D +EVD VP+ K E Sbjct: 3 ERLQKVMAHAGVASRRKAEKLIVEGHVKVNGKVVRELGTKVTESDEVEVDEVPISK-EVP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++T +D R TV D L + R+ VGRLD +T GLLLLTNDG L Sbjct: 62 VYYLLYKPRGVITAVTDDKHRKTVIDLLSEVTERIYPVGRLDYDTSGLLLLTNDGDLDNH 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + + Y + G + D + L+ GI I G + T+ ++ V++ + Sbjct: 122 LTHPKYEVDKTYVAKVKGTITNDDMKKLRTGIHIDGRKTASAKATVIRNNNNSTIVSLTI 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 EG+N ++KK+F V +L R SYG L L G R +L PH +EE Sbjct: 182 HEGRNHQVKKMFLALGHPVEKLSRQSYGFLNLDGLQPGDYR---------RLKPHEVEE 231 >gi|307544267|ref|YP_003896746.1| RNA-binding S4 domain protein [Halomonas elongata DSM 2581] gi|307216291|emb|CBV41561.1| RNA-binding S4 domain protein [Halomonas elongata DSM 2581] Length = 287 Score = 146 bits (369), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 92/215 (42%), Positives = 126/215 (58%), Gaps = 6/215 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--LRK 69 T +++ KV+ARAG+ SRRE+E IA RVKVNG + V D + D P LR Sbjct: 4 TSEKLQKVLARAGLGSRREMETAIADGRVKVNGQVAT-LGDRVELRDKVAFDDRPVALRG 62 Query: 70 AERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTN 126 A+ R+ +Y+KP G + T DP+GR TVFD LP + R I++GRLDINT GLLL T Sbjct: 63 ADEVPRRVIMYNKPEGELCTRKDPEGRRTVFDRLPRLKGERWIAIGRLDINTSGLLLFTT 122 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PSTQ R Y VR G+V D + + +G+++ V +G N Sbjct: 123 DGELANRLMHPSTQIEREYAVRVMGEVTMDHIKAMVEGVMLDDGPARFTDVQEFGGEGIN 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 W V + EG+NRE+++++E N V+RL R+ YG Sbjct: 183 TWFHVVIMEGRNREVRRLWESQNLTVSRLKRVRYG 217 >gi|304310662|ref|YP_003810260.1| Ribosomal large subunit pseudouridine synthase B [gamma proteobacterium HdN1] gi|301796395|emb|CBL44603.1| Ribosomal large subunit pseudouridine synthase B [gamma proteobacterium HdN1] Length = 282 Score = 146 bits (369), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 96/239 (40%), Positives = 144/239 (60%), Gaps = 13/239 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPL---- 67 +++ KV+ARAGI SRR +E IA RV VNG ++A V V D + VDG + Sbjct: 3 EKLQKVLARAGIGSRRSMEDWIASGRVSVNG---KKAKVGDRVERGDVLRVDGRSMDYSG 59 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTN 126 ++ R+ +Y+KP G V T +DP+GR TVFD LP + + R ++VGRLD+NT+GLLL T Sbjct: 60 EDSDSRRMIIYYKPEGEVCTRTDPEGRPTVFDRLPRLDNERWVAVGRLDVNTQGLLLFTT 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGS 185 DG LA L PS++ R Y R G+V + L+ L+ G+ + G + D ++ +G Sbjct: 120 DGDLANRLMHPSSEIEREYAARIFGEVTPEMLHNLRTGVQLFDGPAHFD-EILHSGGEGM 178 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 NAW V ++EG+ RE+++++E +V+RLIR+ YG L L AG E+S+ + E Sbjct: 179 NAWYHVIIKEGRRREVRRMWETQGVQVSRLIRVRYGCVTLPRGLKAGRWEELSEDQISE 237 >gi|146311853|ref|YP_001176927.1| 23S rRNA pseudouridylate synthase B [Enterobacter sp. 638] gi|145318729|gb|ABP60876.1| ribosomal large subunit pseudouridine synthase B [Enterobacter sp. 638] Length = 291 Score = 146 bits (369), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 88/218 (40%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E +I RV V+G + + V V++ I +DG V Sbjct: 3 EKLQKVLARAGHGSRREIETIIEAGRVSVDGKIAKLGDRVEVVAGMKIRLDGHVISVKES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GL+L T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLMLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+VD+ KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGEVDEHKLRDLSRGVQLEDGPAAFKTIKFTGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILL 220 >gi|251771881|gb|EES52455.1| Pseudouridine synthase, Rsu [Leptospirillum ferrodiazotrophum] Length = 638 Score = 146 bits (369), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 86/237 (36%), Positives = 135/237 (56%), Gaps = 3/237 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IE 61 D I +E R+ K++A G+ASRR+ E++IA V V+G ++ V I Sbjct: 15 DSEIPEEADGRLRLHKILAHRGVASRRKSEQLIAAGSVTVDGEVVTEPGTRVDPKHQVIL 74 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VDG PL + T L+L++KP G+V+T DP+GR T+ D P I ++ +GRLD TEG Sbjct: 75 VDGRPLPREPETFLFLFYKPKGVVSTLFDPEGRPTLRDYFPGIDP-LLHIGRLDFQTEGA 133 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLD 180 LLLTN+G L++ + P + R Y V+ G + L + +G I + G +++ + Sbjct: 134 LLLTNNGDLSQRILHPRFEIPRTYLVKIQGGMSPAHLERMARGEIRLDGRPVVPLELVPE 193 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 Q +NAW + L EG+NRE++++FE N+ V +L+R ++GP L L G R V+ Sbjct: 194 RQTSTNAWYRITLTEGRNREVRRLFETLNYFVLKLVRTAFGPLTLAGLEPGEYRTVT 250 >gi|119775259|ref|YP_927999.1| pseudouridine synthase, Rsu [Shewanella amazonensis SB2B] gi|119767759|gb|ABM00330.1| ribosomal large subunit pseudouridine synthase B [Shewanella amazonensis SB2B] Length = 295 Score = 146 bits (369), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 89/217 (41%), Positives = 131/217 (60%), Gaps = 6/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E IA RV +NG + V + + +DG V ++ A+ Sbjct: 3 EKLQKVLARAGHGSRREMEAWIAAGRVSINGEIAN-LGDRVDADAKVRLDGRLVSIKSAD 61 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP G + + DP+GR TVFD LP + +R ++VGRLDINT GLLL T+DG Sbjct: 62 DIICRVLAYHKPEGEICSRKDPEGRPTVFDRLPKLRDARWVAVGRLDINTSGLLLFTSDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y VR G+V+ + L+ G++++ V +G N W Sbjct: 122 ELANRLMHPSNEVDREYAVRTFGEVNDFTIQKLRTGVMLEDGPAQFDYVKAAGGEGVNQW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 VGLREG+NRE+++++E +V+RLIR+ YG +L Sbjct: 182 WHVGLREGRNREVRRLWESQEVQVSRLIRVRYGMIEL 218 >gi|117623529|ref|YP_852442.1| 23S rRNA pseudouridylate synthase B [Escherichia coli APEC O1] gi|115512653|gb|ABJ00728.1| 23S rRNA pseudouridylate synthase [Escherichia coli APEC O1] Length = 291 Score = 146 bits (369), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 88/218 (40%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ K++ARAG SRRE+E +I RV V+G + + V + I +DG + +R++ Sbjct: 3 EKLQKLLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPGLKIRIDGHLISVRES 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|157961474|ref|YP_001501508.1| pseudouridine synthase [Shewanella pealeana ATCC 700345] gi|157846474|gb|ABV86973.1| pseudouridine synthase [Shewanella pealeana ATCC 700345] Length = 290 Score = 146 bits (369), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 93/221 (42%), Positives = 128/221 (57%), Gaps = 6/221 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E IA RV V+G + V S I +DG V +R E Sbjct: 3 EKLQKVLARAGHGSRREMEAWIAAGRVSVDGEIAS-LGDRVESDAKIRIDGRTVSIRSEE 61 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+DG Sbjct: 62 DVVCRVIAYHKPEGEICSRKDPEGRPTVFDRLPKTRDSRWVAVGRLDINTSGLLLFTSDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y VR G+V+ + L+ G+ ++ +V +G N W Sbjct: 122 ELANRLMHPSNEVEREYAVRTFGEVNDACIQRLRMGVTLEDGPANFDKVKAAGGEGMNKW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V L EG+NRE+++++E +V+RLIRI YG +L L Sbjct: 182 WHVSLAEGRNREVRRLWESQEVQVSRLIRIRYGMIELPKAL 222 >gi|261855955|ref|YP_003263238.1| pseudouridine synthase [Halothiobacillus neapolitanus c2] gi|261836424|gb|ACX96191.1| pseudouridine synthase [Halothiobacillus neapolitanus c2] Length = 369 Score = 146 bits (369), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 101/249 (40%), Positives = 141/249 (56%), Gaps = 16/249 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ K++A G+ SRR +E I+ VK+NG++ + V + D ++V G + ++ T Sbjct: 4 QRLQKILATQGLGSRRMIEGWISAGEVKLNGVVAQLGDV-AEAGDVLDVRGQKITVSDET 62 Query: 74 ---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGG 129 R+ +YHKP G +T+ SDP+GR TVF +LP+I R I+VGRLD NT GLLL TNDG Sbjct: 63 PIRRVIIYHKPEGEITSTSDPEGRPTVFGSLPAIRQGRWITVGRLDFNTSGLLLATNDGE 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G + +D++ L + + G + D Q++ G N W Sbjct: 123 LANRLMHPSHQIERTYAVRVLGGLTEDQVKQLTTEVQLDDGPAHFD-QLSDAGGTGVNRW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V LREG+NREI+++ E V+RLIRISY L L K R Q P Sbjct: 182 YHVTLREGRNREIRRMIEAVGAVVSRLIRISYAGIPLPPRL---------KPGRAQDLPP 232 Query: 249 LLEEAQVNL 257 +E+A V L Sbjct: 233 EMEDALVKL 241 >gi|89256369|ref|YP_513731.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. holarctica LVS] gi|115314814|ref|YP_763537.1| pseudouridylate synthase [Francisella tularensis subsp. holarctica OSU18] gi|156502454|ref|YP_001428519.1| RNA pseudouridine synthase B [Francisella tularensis subsp. holarctica FTNF002-00] gi|167010714|ref|ZP_02275645.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. holarctica FSC200] gi|254367705|ref|ZP_04983726.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. holarctica 257] gi|254369343|ref|ZP_04985355.1| pseudouridylate synthase [Francisella tularensis subsp. holarctica FSC022] gi|89144200|emb|CAJ79469.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. holarctica LVS] gi|115129713|gb|ABI82900.1| pseudouridylate synthase [Francisella tularensis subsp. holarctica OSU18] gi|134253516|gb|EBA52610.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. holarctica 257] gi|156253057|gb|ABU61563.1| RNA pseudouridine synthase B [Francisella tularensis subsp. holarctica FTNF002-00] gi|157122293|gb|EDO66433.1| pseudouridylate synthase [Francisella tularensis subsp. holarctica FSC022] Length = 271 Score = 146 bits (369), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 97/235 (41%), Positives = 132/235 (56%), Gaps = 14/235 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPL-- 67 P+R+ K++A+ GI SRR++E I Q RVKVNG L ++A+ D I D L Sbjct: 12 PERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVATLGDKAS----EADKISFDSKALHS 67 Query: 68 --RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLL 124 + R R+ +YHK G V T D R TVFD+LP + SR I VGRLDINT GLLL Sbjct: 68 YGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLDINTTGLLLF 127 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHG-QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS Q R Y VR G Q+ + +N LK+GI ++ + + Sbjct: 128 TTDGDLANRLMHPSYQIEREYAVRVFGQQLSDETINKLKEGIQLEDGIAKFNSIKFSGGE 187 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 G+N W V L EG+NRE++++FE V+RL RI +G L ++ G T E++ Sbjct: 188 GANLWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGDIILPKFVSRGKTLELN 242 >gi|282848924|ref|ZP_06258314.1| pseudouridylate synthase [Veillonella parvula ATCC 17745] gi|294793632|ref|ZP_06758769.1| pseudouridylate synthase [Veillonella sp. 3_1_44] gi|282581429|gb|EFB86822.1| pseudouridylate synthase [Veillonella parvula ATCC 17745] gi|294455202|gb|EFG23574.1| pseudouridylate synthase [Veillonella sp. 3_1_44] Length = 242 Score = 146 bits (369), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 86/228 (37%), Positives = 137/228 (60%), Gaps = 6/228 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K IA GIASRR+ E +I + +V+VNG + V + D ++V+G L E+ Sbjct: 2 ERLQKYIASCGIASRRKAEELITEGKVQVNGRKVTELGVKINPQKDKVKVNG-QLLAQEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++T+ SDP GR TV D + + R+ +GRLD+ TEGLLLLTNDG LA+ Sbjct: 61 PVYYLLNKPKGVITSVSDPQGRETVLDYIKNETKRIYPIGRLDLYTEGLLLLTNDGELAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL--DTQKGSNAWV 189 L PS + Y VR G+V D L ++ G+ ++ GI V L D G + V Sbjct: 121 NLTHPSKGIEKTYEVRIKGRVRDDDLQIIANGVELEDGITAPATIVDLGFDDHNGVHE-V 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE F ++++ L RI+Y LG + G++R+++ Sbjct: 180 EITIHEGRNRQVRRMFEHFGYRIHNLKRIAYAGLTLGGVKRGASRQLT 227 >gi|326791357|ref|YP_004309178.1| pseudouridine synthase Rsu [Clostridium lentocellum DSM 5427] gi|326542121|gb|ADZ83980.1| pseudouridine synthase Rsu [Clostridium lentocellum DSM 5427] Length = 240 Score = 146 bits (368), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 79/225 (35%), Positives = 128/225 (56%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A GIASRR+ E +I + +V VNG +++ V D + + ++ E+ Sbjct: 2 RLQKYLASCGIASRRKCEELILEGKVSVNGQIIQTLGTQVEEDDEVYYNHKRVQLEEKHV 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G VTT D R+TV D + + +R+ VGRLD NT GLLLLT+DG L L Sbjct: 62 YYMLNKPAGYVTTVQDEKQRATVLDLMKGVKTRIFPVGRLDYNTSGLLLLTSDGALTYGL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V+ G+V + L++L+KG++I +V + Q + W+ + + Sbjct: 122 THPKHHVNKTYEVKLSGKVTERSLDMLRKGVMIDHRKTYPAEVEVVKQNAKHTWLKITIH 181 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 EG+NR+I+K+ E + V +L R+S G QLG+L G R ++K+ Sbjct: 182 EGRNRQIRKMCEAVGYPVVQLKRLSVGSIQLGSLKVGEYRALTKE 226 >gi|295426293|ref|ZP_06818953.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus amylolyticus DSM 11664] gi|295064032|gb|EFG54980.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus amylolyticus DSM 11664] Length = 239 Score = 146 bits (368), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 85/231 (36%), Positives = 130/231 (56%), Gaps = 3/231 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T +R+ KVIA AGIASRR+ E+MI RV+V+G L+ + V + I VD P+ + Sbjct: 1 MTLERLQKVIAEAGIASRRKAEKMIVAGRVRVDGKLVTKLGTKVDTFSTITVDDEPIER- 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +L++KP G+V+T D GR TV D + R+ VGRLD +T GLLL+TNDG L Sbjct: 60 ESLHTYLFYKPRGVVSTAHDDKGRKTVVDYFDDLPYRLYPVGRLDYDTSGLLLMTNDGKL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAW 188 A +L P + +VY + G ++ D++ LKKG+ + G +++ QK +N Sbjct: 120 ANLLMHPKNEVPKVYVAKIEGILEPDQIMTLKKGVKVDGRKCAPAKVKILKTNQKKNNQI 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + + EG E+K++F+ V +L R Y L L G RE++++ Sbjct: 180 VQLTIHEGHYHEVKRMFKAVGHPVEKLSRERYAFLDLHALTYGQYRELTRE 230 >gi|319941976|ref|ZP_08016297.1| pseudouridine synthase [Sutterella wadsworthensis 3_1_45B] gi|319804629|gb|EFW01499.1| pseudouridine synthase [Sutterella wadsworthensis 3_1_45B] Length = 400 Score = 146 bits (368), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 90/228 (39%), Positives = 130/228 (57%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +++ K +A AG+ SRRE+ER+I V VNG + V + D I V+G +R+ Sbjct: 41 EKLQKALADAGMGSRREMERLIESGIVTVNGNPA-KLGDRVSAEDVIRVEGRLVRRLSPE 99 Query: 70 -AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 A+ R+ LYHKP G + + DP+GR +VF++LP + R I+VGRLD NTEGLLL T Sbjct: 100 AADTPRVLLYHKPAGEIVSRDDPEGRPSVFNHLPRVPGGRWIAVGRLDFNTEGLLLFTTS 159 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P + R Y VR G++ + L G+ ++ +T + KG N Sbjct: 160 GSLANRLMHPRYEMEREYAVRTVGELTPEDEAKLLAGVELEDGPAKFETLTDEGGKGLNH 219 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 W V +REG+NRE++++FE N V+RLIR+ YG +L L RE Sbjct: 220 WYVVTIREGRNREVRRLFESVNLTVSRLIRVRYGAVELPPGLVRGKRE 267 >gi|294791771|ref|ZP_06756919.1| pseudouridylate synthase [Veillonella sp. 6_1_27] gi|294457001|gb|EFG25363.1| pseudouridylate synthase [Veillonella sp. 6_1_27] Length = 242 Score = 146 bits (368), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 86/228 (37%), Positives = 137/228 (60%), Gaps = 6/228 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K IA GIASRR+ E +I + +V+VNG + V + D ++V+G L E+ Sbjct: 2 ERLQKYIASCGIASRRKAEELITEGKVQVNGRKVTELGVKINPQKDKVKVNG-QLLAQEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++T+ SDP GR TV D + + R+ +GRLD+ TEGLLLLTNDG LA+ Sbjct: 61 PVYYLLNKPKGVITSVSDPQGRETVLDYIKNETKRIYPIGRLDLYTEGLLLLTNDGELAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL--DTQKGSNAWV 189 L PS + Y VR G+V D L ++ G+ ++ GI V L D G + V Sbjct: 121 NLTHPSKGVEKTYEVRIKGRVRDDDLQIIANGVELEDGITAPATIVDLGFDDHNGVHE-V 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE F ++++ L RI+Y LG + G++R+++ Sbjct: 180 EITIHEGRNRQVRRMFEHFGYRIHNLKRIAYAGLTLGGVKRGASRQLT 227 >gi|330811302|ref|YP_004355764.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas brassicacearum subsp. brassicacearum NFM421] gi|327379410|gb|AEA70760.1| Ribosomal large subunit pseudouridine synthase B [Pseudomonas brassicacearum subsp. brassicacearum NFM421] Length = 411 Score = 146 bits (368), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 109/317 (34%), Positives = 168/317 (52%), Gaps = 35/317 (11%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +D+N QE +++ KV+AR G+ SRR+VE I Q R+KVNG + V D I Sbjct: 4 QDQNDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-LGLRVDMHDAI 62 Query: 61 EVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLD 115 +DG +++ E R+ +Y+KP G + T DP+GR TVFD +P R I++GRLD Sbjct: 63 TIDGKVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDKMPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD + + LK G+V++ G Sbjct: 123 INTTGLLMFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVVLE---DGPA 179 Query: 176 QVTLDTQ----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLA 230 + T Q +G N W + EG+NRE+++++E V+RL R+ +GP L + L Sbjct: 180 RFTDIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLNSDLPM 239 Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRD--RPNIISEVPDDFTRMKKN 288 G RE+S Q +D I ++E ++ P + ++ D RM++ Sbjct: 240 GRWREMS----------------QYEVD--ILAAEVGLKPVAMPQMTAKSKDKLERMQRK 281 Query: 289 SSQKNGLSKQKKLATPV 305 SS+ G +++ + P Sbjct: 282 SSRPMGKTERVRTLRPA 298 >gi|283458425|ref|YP_003363049.1| 16S rRNA uridine-516 pseudouridylate synthase [Rothia mucilaginosa DY-18] gi|283134464|dbj|BAI65229.1| 16S rRNA uridine-516 pseudouridylate synthase [Rothia mucilaginosa DY-18] Length = 378 Score = 146 bits (368), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 88/227 (38%), Positives = 136/227 (59%), Gaps = 4/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A+AG+ASRR E MI + RV VNG ++ V V S ++VDG+ ++ ++ Sbjct: 141 RLQKLLAQAGVASRRVCEEMITEGRVTVNGEVVTELGVRVDPSKVTVQVDGMTVQTNDKL 200 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 ++KP G+V+T DP+GR + D L S S RV VGRLD+ TEGLLLLTNDG LA Sbjct: 201 VYMAFNKPAGVVSTMEDPEGRPCISDFLRSSMSERVFHVGRLDVETEGLLLLTNDGELAN 260 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L PS + + Y V+ G ++ +KKGI ++ G+ D +D+ G + V V Sbjct: 261 RLTHPSYEVPKTYLVQVPGPMEPGVGAAMKKGIRLEDGVTRVDEFKLVDSTPG-HVLVEV 319 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + GKNR ++++F+ + V RL+R+ GP ++G+ G+ R +SK Sbjct: 320 TIHSGKNRIVRRLFDAVGYPVERLVRVEMGPIRIGSQKQGTVRNLSK 366 >gi|327490097|gb|EGF21885.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK1058] Length = 242 Score = 146 bits (368), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 87/230 (37%), Positives = 136/230 (59%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q +V +NG ++ A+NV S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIKQGKVSINGQVVRELAINVKSGDRVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVVDLLPQVKERIYPVGRLDWDTSGILILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +GI I+G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTQPAVYEIIKV--DPAK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+F+ +V++L R +G L L G R++SKK Sbjct: 178 QLTIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKK 227 >gi|157145597|ref|YP_001452916.1| 23S rRNA pseudouridylate synthase B [Citrobacter koseri ATCC BAA-895] gi|157082802|gb|ABV12480.1| hypothetical protein CKO_01343 [Citrobacter koseri ATCC BAA-895] Length = 291 Score = 146 bits (368), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 101/257 (39%), Positives = 137/257 (53%), Gaps = 12/257 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E +I RV V+G I V + I +DG V Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEITPGLKIRIDGHLISVKES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG--PFQLGTLLAGSTR--EVSKKILRE 243 W V L EG+NRE+++++E +V+RLIR+ YG P G G T LRE Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLRE 242 Query: 244 --QLGPHLLEEAQVNLD 258 QL P + V D Sbjct: 243 LVQLAPETTSKVAVEKD 259 >gi|283785437|ref|YP_003365302.1| ribosomal large subunit pseudouridine synthase B [Citrobacter rodentium ICC168] gi|282948891|emb|CBG88493.1| ribosomal large subunit pseudouridine synthase B [Citrobacter rodentium ICC168] Length = 291 Score = 146 bits (368), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 89/218 (40%), Positives = 125/218 (57%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG V Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIARLGDRVEVTPGLKIRIDGHLISVKES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQVD K+ L +G+ ++ + +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDDAKIRDLSRGVQLEDGPAAFRTIKFSGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220 >gi|124267190|ref|YP_001021194.1| ribosomal large subunit pseudouridine synthase B [Methylibium petroleiphilum PM1] gi|124259965|gb|ABM94959.1| ribosomal large subunit pseudouridine synthase B [Methylibium petroleiphilum PM1] Length = 686 Score = 146 bits (368), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 88/211 (41%), Positives = 123/211 (58%), Gaps = 5/211 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---KAE 71 ++ KV+A++GI SRR++E+ I +V VN + + + D I VDG P+R + Sbjct: 236 KLHKVLAQSGIGSRRDMEQFILDGKVTVNDEVAH-VGMRISYGDRIAVDGKPVRLRIQPG 294 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 RL YHKP G V T +DP+GR TVF LP + + SVGRLDINTEGLLL TN G L Sbjct: 295 PARLLAYHKPTGEVVTLNDPEGRPTVFRRLPRLQQGKWQSVGRLDINTEGLLLFTNSGEL 354 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P R Y VR G +++++ L +G+ I G G + +G+N W Sbjct: 355 ANQLMHPRFGVEREYAVRVLGSLNEEQRAKLLEGVEIDGQTAGFKSIEEGGGEGANRWYR 414 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V + EG+NRE++K+F+ V+RLIRI YG Sbjct: 415 VVITEGRNREVRKLFDKVGLAVSRLIRIRYG 445 >gi|299067338|emb|CBJ38535.1| Ribosomal large subunit pseudouridine synthase B [Ralstonia solanacearum CMR15] Length = 601 Score = 145 bits (367), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 93/250 (37%), Positives = 139/250 (55%), Gaps = 7/250 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG L ++ TD + Sbjct: 203 KVRELTAEDDAP-KLHKILADAGLGSRRDMEDLILQGRVSVNG-LPAHIGQRILPTDQVR 260 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 V+G +++ ++ R+ LYHKP G + + SDP+GR TVFD+LP + + ++VGRLD N Sbjct: 261 VNGKLIQRKLPSKPPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFN 320 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L GI + + Sbjct: 321 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELPESDRQKLLHGIRLDDGEANFLSC 380 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 381 ADGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 440 Query: 237 SKKILREQLG 246 S +R +G Sbjct: 441 SADDVRGLMG 450 >gi|300704339|ref|YP_003745942.1| ribosomal large subunit pseudouridine synthase b [Ralstonia solanacearum CFBP2957] gi|299072003|emb|CBJ43333.1| Ribosomal large subunit pseudouridine synthase B [Ralstonia solanacearum CFBP2957] Length = 597 Score = 145 bits (367), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 92/250 (36%), Positives = 141/250 (56%), Gaps = 7/250 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG L ++ TD + Sbjct: 203 KVRELTAEDDAP-KLHKILADAGLGSRRDMEDLIMQGRVSVNG-LPAHIGQRILPTDQVR 260 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 V+G +++ + R+ LYHKP G + + SDP+GR TVFD+LP + + ++VGRLD N Sbjct: 261 VNGKLIQRKLPNKAPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFN 320 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L +G+ + ++ Sbjct: 321 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAESDRQKLLQGVRLDDGEANFLRC 380 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 381 ADGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 440 Query: 237 SKKILREQLG 246 S + +R +G Sbjct: 441 SAEEVRVLMG 450 >gi|194289952|ref|YP_002005859.1| ribosomal large subunit pseudouridine synthase b [Cupriavidus taiwanensis LMG 19424] gi|193223787|emb|CAQ69794.1| Ribosomal large subunit pseudouridine synthase B [Cupriavidus taiwanensis LMG 19424] Length = 613 Score = 145 bits (367), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 87/226 (38%), Positives = 125/226 (55%), Gaps = 6/226 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + + E+ P ++ KV+A G+ SRRE+E +I Q RV VNG L ++ D + V+ Sbjct: 210 RELSAEDDAP-KLHKVLAEGGLGSRREMEELILQGRVSVNG-LPAHIGQRILPADQVRVN 267 Query: 64 GVPLRKAERT---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTE 119 G + + T R+ LYHKP G + + SDP+GR TVFDNLP I + ++VGRLD NTE Sbjct: 268 GKLIHRKVSTKPPRVLLYHKPAGEIVSQSDPEGRPTVFDNLPRIKTGKWVAVGRLDFNTE 327 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+ T G +A P R Y VR G++ + L GI + +++ Sbjct: 328 GLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAEADRQRLLHGIKLDDGEANFLRIAD 387 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +G N W V L EG+NRE++++FE V+RLIR YG F L Sbjct: 388 GGGEGVNHWYHVALTEGRNREVRRMFEAVGLTVSRLIRTRYGQFLL 433 >gi|257482791|ref|ZP_05636832.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. tabaci ATCC 11528] Length = 241 Score = 145 bits (367), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 98/239 (41%), Positives = 138/239 (57%), Gaps = 16/239 (6%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAISVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--I 170 RLDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPA 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + D+Q + G N W + EG+NRE+++++E V+RL R+ YGP L + L Sbjct: 180 RFTDIQQAPGGE-GFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDL 237 >gi|313884122|ref|ZP_07817888.1| pseudouridine synthase B, ribosomal large subunit [Eremococcus coleocola ACS-139-V-Col8] gi|312620569|gb|EFR31992.1| pseudouridine synthase B, ribosomal large subunit [Eremococcus coleocola ACS-139-V-Col8] Length = 236 Score = 145 bits (367), Expect = 7e-33, Method: Compositional matrix adjust. Identities = 88/225 (39%), Positives = 126/225 (56%), Gaps = 3/225 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AGIASRR+ E +I+Q RV VNG + V +D IEVD VP+ E Sbjct: 2 ERLQKVMAHAGIASRRKCEEIISQGRVTVNGQTVTELGFKVKQSDKIEVDQVPIY-LEEP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP +++ SD GR V D I R+ +GRLD +T GLLLLTNDG A Sbjct: 61 RYFLFYKPRNVISAVSDDKGRPVVLDYFKHIDQRIYPIGRLDFDTTGLLLLTNDGEFANQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQ-KGSNAWVTV 191 L P Q +VY + +D++ L L++GI+I G + LDT + + V + Sbjct: 121 LMHPRYQVDKVYVAKLDKILDKEALRKLERGIIIDGKKTSKARAKVLDTNLEKKMSVVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + EG N ++KK+FE V +L R +GP LG + G RE+ Sbjct: 181 TIHEGWNHQVKKMFEAVGAHVVKLKREKFGPLNLGKMQPGEYREL 225 >gi|126668319|ref|ZP_01739278.1| Pseudouridine synthase, Rsu [Marinobacter sp. ELB17] gi|126627236|gb|EAZ97874.1| Pseudouridine synthase, Rsu [Marinobacter sp. ELB17] Length = 367 Score = 145 bits (367), Expect = 7e-33, Method: Compositional matrix adjust. Identities = 91/235 (38%), Positives = 134/235 (57%), Gaps = 7/235 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+ K++ARAG+ SRRE+E + R+ VNG + +S D E+DG L A Sbjct: 56 PERIQKLLARAGVGSRREIEGWMDAGRLLVNGKPVTPGQKATVS-DVFELDGKRLEVAAA 114 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 R+ +Y+KP G VTT DP+GR TVFD LP + R IS+GRLD+NT GL++ T D Sbjct: 115 AEVLRRVLIYNKPEGEVTTRKDPEGRPTVFDRLPRLREHRWISIGRLDLNTTGLVMFTTD 174 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS++ R Y VR G+VD + L+ G+ ++ ++ G N Sbjct: 175 GELANRLMHPSSEIDREYAVRIFGEVDDAMIERLRTGVTLEDGEAKFSDISAAGGTGMNR 234 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 W V L EG+NRE+++++E +V+RL R+ YG L + L G E+ +K + Sbjct: 235 WFHVTLLEGRNREVRRLWESQGVRVSRLKRVRYGSIFLPSRLTVGKWEELDQKAV 289 >gi|56420818|ref|YP_148136.1| ribosomal large subunit pseudouridine synthase B [Geobacillus kaustophilus HTA426] gi|261417880|ref|YP_003251562.1| pseudouridine synthase [Geobacillus sp. Y412MC61] gi|297529548|ref|YP_003670823.1| pseudouridine synthase [Geobacillus sp. C56-T3] gi|319767308|ref|YP_004132809.1| pseudouridine synthase [Geobacillus sp. Y412MC52] gi|56380660|dbj|BAD76568.1| ribosomal large subunit pseudouridine synthaseB (pseudouridylate synthase) (uracil hydrolyase) [Geobacillus kaustophilus HTA426] gi|261374337|gb|ACX77080.1| pseudouridine synthase [Geobacillus sp. Y412MC61] gi|297252800|gb|ADI26246.1| pseudouridine synthase [Geobacillus sp. C56-T3] gi|317112174|gb|ADU94666.1| pseudouridine synthase [Geobacillus sp. Y412MC52] Length = 243 Score = 145 bits (367), Expect = 7e-33, Method: Compositional matrix adjust. Identities = 86/227 (37%), Positives = 133/227 (58%), Gaps = 5/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIARAGIASRR+ E +I Q RVKVNG +++ V V D +EVDG+P+ + E Sbjct: 2 ERLQKVIARAGIASRRKAEELILQGRVKVNGRVVKELGVKVGPRDDVEVDGIPIEREEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ D GR V D + R+ +GRLD +T GLLLLTNDG A + Sbjct: 62 -YYLLYKPRGVISSVKDDRGRKVVTDFFKDLDKRIYPIGRLDYDTSGLLLLTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQKGSNAWVT 190 L P + +VY + G ++L L++G+ ++ +V L D +KG+ A V Sbjct: 121 LMHPRYEIEKVYIAKVKGIPTHEQLKRLEQGVQLEDGMTAPAKVKLLSADRKKGT-AIVE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE +V +L R Y L L G RE++ Sbjct: 180 IRIHEGRNRQVRRMFEAIGCEVLKLKRERYAFLDLKGLRPGEYRELT 226 >gi|332527848|ref|ZP_08403885.1| ribosomal large subunit pseudouridine synthase B [Rubrivivax benzoatilyticus JA2] gi|332112425|gb|EGJ12218.1| ribosomal large subunit pseudouridine synthase B [Rubrivivax benzoatilyticus JA2] Length = 487 Score = 145 bits (367), Expect = 7e-33, Method: Compositional matrix adjust. Identities = 91/213 (42%), Positives = 120/213 (56%), Gaps = 9/213 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR---K 69 ++ KV+A+AGI SRR++E+MI + R+ VNG E A + + + D I V G P+R Sbjct: 55 KLHKVLAQAGIGSRRDMEQMILEGRITVNG---EPAHIGQRIAAGDRIAVGGKPVRYRIA 111 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 TR+ YHKP G V TH DP R TVF LP + + SVGRLDINTEGLLL TN G Sbjct: 112 PPPTRVIAYHKPAGEVVTHDDPQQRPTVFRRLPRLHQGKWQSVGRLDINTEGLLLFTNSG 171 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P R Y VR G +D L +G+ I G + +G+N W Sbjct: 172 ELANQLMHPRFGIEREYAVRSLGGLDDASRQKLLEGVEIDGQRCAFKSIENGGGEGANQW 231 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + EG+NRE++K+F+ V+RLIRI YG Sbjct: 232 YRCVITEGRNREVRKLFDAVGHAVSRLIRIRYG 264 >gi|114562614|ref|YP_750127.1| pseudouridine synthase, Rsu [Shewanella frigidimarina NCIMB 400] gi|114333907|gb|ABI71289.1| ribosomal large subunit pseudouridine synthase B [Shewanella frigidimarina NCIMB 400] Length = 290 Score = 145 bits (367), Expect = 7e-33, Method: Compositional matrix adjust. Identities = 92/222 (41%), Positives = 132/222 (59%), Gaps = 16/222 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E IA RV V+G + V + I +DG V L+ A+ Sbjct: 3 EKLQKVLARAGHGSRREMEAWIAAGRVSVDG-EISGLGDRVEADAKIRIDGRAVSLKSAD 61 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP G + + DP+GR+TVF+ LP + +R ++VGRLDINT GLLL T DG Sbjct: 62 DIICRVLAYHKPEGEICSRKDPEGRTTVFERLPKVRDARWVAVGRLDINTSGLLLFTCDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----- 183 LA L PS + R Y VR G+V + + L+ G+ ++ D DT K Sbjct: 122 ELANRLMHPSNEVEREYAVRTFGEVPEAAVQRLRTGVTLE-----DGPAQFDTIKAAGGE 176 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V LREG+NRE+++++E + +V+RLIR+ YG +L Sbjct: 177 GINQWWHVTLREGRNREVRRLWESQDVQVSRLIRVRYGKVEL 218 >gi|319936458|ref|ZP_08010874.1| pseudouridine synthase [Coprobacillus sp. 29_1] gi|319808573|gb|EFW05125.1| pseudouridine synthase [Coprobacillus sp. 29_1] Length = 247 Score = 145 bits (367), Expect = 7e-33, Method: Compositional matrix adjust. Identities = 85/225 (37%), Positives = 124/225 (55%), Gaps = 7/225 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +IA RVKVNG ++ V D I +D L K E Sbjct: 2 ERLQKAIAASGYTSRRKAEDLIAAGRVKVNGEVISELGFKVKKGDMIMIDDKAL-KGENK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++++KP G + + SD GRSTV D P + R+ VGRLD +T G+LL++NDG A + Sbjct: 61 VYYVFYKPKGCICSLSDELGRSTVIDYFPEVEERIYPVGRLDYDTTGVLLMSNDGEFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----CYGDMQVTLDTQKGSNAWV 189 + PS+ +VY V G V + L+ L+KG+ ++G C ++VT + + Sbjct: 121 MMHPSSHLEKVYEVSVSGLVQGETLHKLEKGVYLEGTKTLPC--KIKVTHKDVEHKTTIL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNR++KK+FE KV RL R+ G L L G R Sbjct: 179 MIKLVEGKNRQVKKMFEAMGHKVKRLHRLQVGTINLKGLTPGHYR 223 >gi|319400836|gb|EFV89055.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus epidermidis FRI909] Length = 245 Score = 145 bits (367), Expect = 8e-33, Method: Compositional matrix adjust. Identities = 79/223 (35%), Positives = 131/223 (58%), Gaps = 3/223 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA++G SRR+ E +I + RVKVNG + VM +D +EVDG+ + + ++ Sbjct: 6 ERLQKRIAKSGYTSRRKAEVLITEGRVKVNGQTVTELGSKVMPSDLVEVDGIKIEQEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L++KP ++T+ SD GR V D + SR+ VGRLD +T G+LLLTNDG + Sbjct: 66 YI-LFYKPTQVITSVSDDRGRRVVTDYFDDLESRIYPVGRLDYDTSGVLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + Y + G + ++++ L+KGI ++ QV + Q + + V + Sbjct: 125 MTHPRYHIKKKYVAKLKGYLMREEIKQLEKGIELEDGYTQPAQVKIKKQDKEKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EG+NR+++++FE+F +VN+L RI +GP L L AG R Sbjct: 185 TISEGRNRQVRRMFEYFGHQVNKLARIQFGPIDLKGLNAGEGR 227 >gi|325111054|ref|YP_004272122.1| pseudouridine synthase Rsu [Planctomyces brasiliensis DSM 5305] gi|324971322|gb|ADY62100.1| pseudouridine synthase Rsu [Planctomyces brasiliensis DSM 5305] Length = 368 Score = 145 bits (367), Expect = 8e-33, Method: Compositional matrix adjust. Identities = 87/236 (36%), Positives = 133/236 (56%), Gaps = 2/236 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPL 67 E T R+ K +A AG+ SRR+ E +I RV V+G+ +E +NV + E DG L Sbjct: 25 ETPTEFRLQKFLASAGLGSRRQCEELIRTGRVTVDGLPVENPGINVNPLKQVVEYDGERL 84 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 K ER + ++ +KP G++ T+ DP GR+ V D R+ VGRLD ++EGLL++TND Sbjct: 85 -KPERLKYFVLNKPKGVLCTNHDPAGRTRVIDLFAKERVRLFPVGRLDEDSEGLLIVTND 143 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P + R YRV+ G +KL L+ GI + + + ++G +A Sbjct: 144 GDLANQLAHPRYRIYRTYRVQVAGFPTNEKLQQLRDGIFFREGKFQVISAKFAGKQGKSA 203 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 ++ + L +G NREI+++F KV L RI++GP +LG G RE+++ L E Sbjct: 204 FLEIVLGQGHNREIRRLFARIGHKVMSLQRIAFGPIRLGKQKVGQYRELTRNELEE 259 >gi|77457719|ref|YP_347224.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas fluorescens Pf0-1] gi|77381722|gb|ABA73235.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas fluorescens Pf0-1] Length = 405 Score = 145 bits (367), Expect = 8e-33, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 136/233 (58%), Gaps = 10/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ KV+AR G+ SRR+VE IA R+KVNG + V D I +DG +++ E Sbjct: 17 EKLQKVLARIGVGSRRDVESWIAAGRIKVNGKDAT-LGLRVDMHDAITIDGKVIKREEAA 75 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDG 128 R+ +Y+KP G + T DP+GR TVFD LP R I++GRLDINT GLL+ T DG Sbjct: 76 ESVRRVIMYNKPDGEICTRDDPEGRPTVFDKLPRPKEGRWINIGRLDINTTGLLMFTTDG 135 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSN 186 LA L PS + R Y VR G+VD + + LK G+V++ + D+Q + G N Sbjct: 136 ELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVVLEDGPARFTDIQQAPGGE-GFN 194 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSK 238 W + EG+NRE+++++E V+RL R+ +GP L + L G RE+S+ Sbjct: 195 HWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLNSDLPMGRWREMSQ 247 >gi|149175162|ref|ZP_01853785.1| ribosomal large subunit pseudouridine synthase B [Planctomyces maris DSM 8797] gi|148846140|gb|EDL60480.1| ribosomal large subunit pseudouridine synthase B [Planctomyces maris DSM 8797] Length = 352 Score = 145 bits (366), Expect = 8e-33, Method: Compositional matrix adjust. Identities = 87/230 (37%), Positives = 133/230 (57%), Gaps = 2/230 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A G+ SRR E I RV V+G ++ E A T IEVDG +R R Sbjct: 24 RLQKFLAATGLGSRRHCEEYIETGRVSVDGDVITELGAKIDPETQFIEVDGERVRLQPR- 82 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L +KP G + T++DP GR V D P+ R+ +VGRLD N+EGL+L+TNDG LA+ Sbjct: 83 RYYLLNKPSGFLCTNNDPAGRRRVVDLFPNDGQRLFTVGRLDENSEGLILVTNDGELAQR 142 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + R Y V+ G ++KL+ L+KG+ + + + ++G +A++ + L Sbjct: 143 LAHPRYRVARTYHVQVVGNPPREKLDELRKGVRFKEGVFRVSGLKYLKKQGKSAFLELTL 202 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 EG+NREI+++ KV +L+RI +GP LG L G +R +S L++ Sbjct: 203 HEGQNREIRRMMARIGHKVIQLVRIRFGPLNLGKLKTGESRRLSDTELKK 252 >gi|300691724|ref|YP_003752719.1| ribosomal large subunit pseudouridine synthase B [Ralstonia solanacearum PSI07] gi|299078784|emb|CBJ51444.1| Ribosomal large subunit pseudouridine synthase B [Ralstonia solanacearum PSI07] Length = 594 Score = 145 bits (366), Expect = 8e-33, Method: Compositional matrix adjust. Identities = 92/250 (36%), Positives = 140/250 (56%), Gaps = 7/250 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG L ++ TD + Sbjct: 204 KVRELTSEDDAP-KLHKILADAGLGSRRDMEDLILQGRVSVNG-LPAHIGQRILPTDQVR 261 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 V+G +++ + R+ LYHKP G + + SDP+GR TVFD+LP + + ++VGRLD N Sbjct: 262 VNGKLIQRKLPNKAPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFN 321 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L +G+ + + Sbjct: 322 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELSESDRQKLLQGVRLDDGEANFLSC 381 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 382 ADGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 441 Query: 237 SKKILREQLG 246 S + +R +G Sbjct: 442 SAEEVRVLMG 451 >gi|255326184|ref|ZP_05367270.1| ribosomal large subunit pseudouridine synthase B [Rothia mucilaginosa ATCC 25296] gi|255296638|gb|EET75969.1| ribosomal large subunit pseudouridine synthase B [Rothia mucilaginosa ATCC 25296] Length = 386 Score = 145 bits (366), Expect = 8e-33, Method: Compositional matrix adjust. Identities = 88/227 (38%), Positives = 136/227 (59%), Gaps = 4/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A+AG+ASRR E MI + RV VNG ++ V V S ++VDG+ ++ ++ Sbjct: 149 RLQKLLAQAGVASRRVCEEMITEGRVTVNGEVVTELGVRVDPSKVTVQVDGMTVQTNDKL 208 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 ++KP G+V+T DP+GR + D L S S RV VGRLD+ TEGLLLLTNDG LA Sbjct: 209 VYMAFNKPAGVVSTMEDPEGRPCISDFLRSSMSERVFHVGRLDVETEGLLLLTNDGELAN 268 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L PS + + Y V+ G ++ +KKGI ++ G+ D +D+ G + V V Sbjct: 269 RLTHPSYEVPKTYLVQVPGPMEPGVGAAMKKGIRLEDGVTRVDEFKLVDSTPG-HVLVEV 327 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + GKNR ++++F+ + V RL+R+ GP ++G+ G+ R +SK Sbjct: 328 TIHSGKNRIVRRLFDAVGYPVERLVRVEMGPIRIGSQKQGTVRNLSK 374 >gi|91793788|ref|YP_563439.1| pseudouridine synthase, Rsu [Shewanella denitrificans OS217] gi|91715790|gb|ABE55716.1| ribosomal large subunit pseudouridine synthase B [Shewanella denitrificans OS217] Length = 290 Score = 145 bits (366), Expect = 8e-33, Method: Compositional matrix adjust. Identities = 94/225 (41%), Positives = 133/225 (59%), Gaps = 22/225 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDG--VPLR 68 +++ KV+ARAG SRRE+E IA RV V+G L +R V+ I +DG ++ Sbjct: 3 EKLQKVLARAGHGSRREMEAWIAAGRVSVDGEIATLGDRVEVDA----KIRIDGRTTSIK 58 Query: 69 KAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 A+ R+ YHKP G + + DP+GR TVF+ LP I SR ++VGRLDINT GLLL T Sbjct: 59 TADDMICRVLAYHKPEGEICSRKDPEGRPTVFERLPKIRDSRWVAVGRLDINTSGLLLFT 118 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-- 183 +DG LA L PS + R Y VR GQV + L+ G++++ D DT K Sbjct: 119 SDGDLANRLMHPSNEVEREYAVRTFGQVTDANVQSLRTGVMLE-----DGPAQFDTIKPA 173 Query: 184 ---GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N+W V L+EG+NRE+++++E +V+RLIR+ YG +L Sbjct: 174 GGEGINSWWHVTLKEGRNREVRRLWESQEIQVSRLIRVRYGMVEL 218 >gi|27468095|ref|NP_764732.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus epidermidis ATCC 12228] gi|57866960|ref|YP_188633.1| pseudouridine synthase RluB [Staphylococcus epidermidis RP62A] gi|251810910|ref|ZP_04825383.1| pseudouridylate synthase [Staphylococcus epidermidis BCM-HMP0060] gi|293366546|ref|ZP_06613223.1| pseudouridine synthase RluB [Staphylococcus epidermidis M23864:W2(grey)] gi|27315641|gb|AAO04776.1|AE016748_10 ribosomal large subunit pseudouridine synthase B [Staphylococcus epidermidis ATCC 12228] gi|57637618|gb|AAW54406.1| pseudouridine synthase RluB [Staphylococcus epidermidis RP62A] gi|251805590|gb|EES58247.1| pseudouridylate synthase [Staphylococcus epidermidis BCM-HMP0060] gi|291319315|gb|EFE59684.1| pseudouridine synthase RluB [Staphylococcus epidermidis M23864:W2(grey)] gi|329725404|gb|EGG61887.1| pseudouridine synthase B, ribosomal large subunit [Staphylococcus epidermidis VCU144] gi|329735190|gb|EGG71482.1| pseudouridine synthase B, ribosomal large subunit [Staphylococcus epidermidis VCU045] Length = 245 Score = 145 bits (366), Expect = 9e-33, Method: Compositional matrix adjust. Identities = 86/246 (34%), Positives = 140/246 (56%), Gaps = 11/246 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + RVKVNG + VM +D +EVDG+ + + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAEVLITEGRVKVNGQTVTELGSKVMPSDLVEVDGIKIEQEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L++KP ++T+ SD GR V D + SR+ VGRLD +T G+LLLTNDG + Sbjct: 66 YI-LFYKPTQVITSVSDDRGRRVVTDYFDDLESRIYPVGRLDYDTSGVLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + Y + G + ++++ L+KGI ++ QV + Q + + V + Sbjct: 125 MTHPRYHIKKKYVAKLKGYLMREEIKQLEKGIELEDGYTQPAQVKIKKQDKEKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQLGPH 248 + EG+NR+++++FE+F +VN+L RI +GP L L AG R ++ KILR H Sbjct: 185 TISEGRNRQVRRMFEYFGHQVNKLTRIQFGPIDLKGLNAGEGRVLTPHEVKILR-----H 239 Query: 249 LLEEAQ 254 L E + Sbjct: 240 LAENGK 245 >gi|319944113|ref|ZP_08018391.1| hypothetical protein HMPREF0551_1238 [Lautropia mirabilis ATCC 51599] gi|319742607|gb|EFV95016.1| hypothetical protein HMPREF0551_1238 [Lautropia mirabilis ATCC 51599] Length = 918 Score = 145 bits (366), Expect = 9e-33, Method: Compositional matrix adjust. Identities = 98/263 (37%), Positives = 143/263 (54%), Gaps = 25/263 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +++ K++A AGI SRR++E +I RV VNG L V + D I V+G PL + Sbjct: 290 EKLHKILADAGIGSRRDMEELIIAGRVSVNG-LPAHVGQRVGTEDVIRVNGKPLSRKRSA 348 Query: 70 -AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 ++ ++ LYHKP G + T DP R VFD LP + +R I+VGRLD+N+EGLL+ T Sbjct: 349 ASQTPQVLLYHKPTGELVTRDDPGSRPKVFDRLPRLRGARWIAVGRLDLNSEGLLIFTTS 408 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-----Q 182 G LA L P W R Y VR G+VD L G+ ++ D TL + Sbjct: 409 GDLANKLMHPRYGWEREYAVRVLGRVDDGIRQQLLTGVTLE-----DGPATLQSIEDIGG 463 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP------FQLGTLLAGSTREV 236 +G+N W V + EG+NRE++++F+ V+RL+RI +GP Q G L A + EV Sbjct: 464 EGANHWYRVVILEGRNREVRRLFDAVGLTVSRLVRIRFGPIALPPRLQRGRLHALTEAEV 523 Query: 237 SKKILREQLGPHLLEEAQVNLDA 259 + L++Q+ H+ E DA Sbjct: 524 --RQLQQQMRRHVAEMTDGAADA 544 >gi|167624536|ref|YP_001674830.1| pseudouridine synthase [Shewanella halifaxensis HAW-EB4] gi|167354558|gb|ABZ77171.1| pseudouridine synthase [Shewanella halifaxensis HAW-EB4] Length = 290 Score = 145 bits (366), Expect = 9e-33, Method: Compositional matrix adjust. Identities = 91/217 (41%), Positives = 127/217 (58%), Gaps = 6/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E IA RV V+G + V + I +DG V +R E Sbjct: 3 EKLQKVLARAGHGSRREMEAWIAAGRVSVDGEIAS-LGDRVETDAKIRIDGRTVSIRSEE 61 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+DG Sbjct: 62 DVVCRVIAYHKPEGEICSRKDPEGRPTVFDRLPKTRDSRWVAVGRLDINTSGLLLFTSDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y VR G+V+ + L+ G+ ++ +V +G N W Sbjct: 122 ELANRLMHPSNEVEREYAVRTFGEVNDACIQRLRMGVTLEDGPANFDKVKAAGGEGMNKW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 182 WHVSLAEGRNREVRRLWESQEVQVSRLIRIRYGMIEL 218 >gi|207723237|ref|YP_002253636.1| rrna uridine-516 pseudouridylate synthase-related pseudouridylate synthase protein [Ralstonia solanacearum MolK2] gi|206588433|emb|CAQ35396.1| rrna uridine-516 pseudouridylate synthase-related pseudouridylate synthase protein [Ralstonia solanacearum MolK2] Length = 501 Score = 145 bits (366), Expect = 9e-33, Method: Compositional matrix adjust. Identities = 92/250 (36%), Positives = 141/250 (56%), Gaps = 7/250 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG L ++ TD + Sbjct: 109 KVRELTAEDDAP-KLHKILADAGLGSRRDMEDLIMQGRVSVNG-LPAHIGQRILPTDQVR 166 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 V+G +++ + R+ LYHKP G + + SDP+GR TVFD+LP + + ++VGRLD N Sbjct: 167 VNGKLIQRKLPNKAPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFN 226 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L +G+ + ++ Sbjct: 227 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAESDRQKLLQGVRLDDGEANFLRC 286 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 287 ADGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 346 Query: 237 SKKILREQLG 246 S + +R +G Sbjct: 347 SAEEVRVLMG 356 >gi|171059554|ref|YP_001791903.1| pseudouridine synthase [Leptothrix cholodnii SP-6] gi|170776999|gb|ACB35138.1| pseudouridine synthase [Leptothrix cholodnii SP-6] Length = 736 Score = 145 bits (366), Expect = 9e-33, Method: Compositional matrix adjust. Identities = 85/221 (38%), Positives = 127/221 (57%), Gaps = 5/221 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K +++ ++ KV+A+AG+ SRR++E++I + +V VNG + + + D I++ Sbjct: 280 KRVLRPEPEAPKLHKVLAQAGVGSRRDMEQLIQEGQVSVNGEVAH-IGMRIAQGDQIKIA 338 Query: 64 GVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTE 119 G P++ R+ YHKP+G V TH DP+GR TVF LP + + +SVGRLDINTE Sbjct: 339 GRPIKVRIAPPPARVLAYHKPVGEVVTHHDPEGRPTVFRRLPRLPVGKWLSVGRLDINTE 398 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL TN G LA L P R Y VR G +D+ L +G+ I+G + Sbjct: 399 GLLLFTNSGELANQLMHPRFGVEREYAVRVLGSLDEAARARLLEGVEIEGQRAMFKSIDD 458 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 +G N W V + EG+NRE++++F+ V+RLIRI Y Sbjct: 459 GGGEGINHWYRVVITEGRNREVRRLFDAVGLTVSRLIRIRY 499 >gi|225018711|ref|ZP_03707903.1| hypothetical protein CLOSTMETH_02661 [Clostridium methylpentosum DSM 5476] gi|224948439|gb|EEG29648.1| hypothetical protein CLOSTMETH_02661 [Clostridium methylpentosum DSM 5476] Length = 255 Score = 145 bits (366), Expect = 9e-33, Method: Compositional matrix adjust. Identities = 89/230 (38%), Positives = 130/230 (56%), Gaps = 2/230 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 R+ K+IA +G SRR+ E++I ++RVKVNG + D + VD + A R Sbjct: 14 RLQKIIAESGFCSRRKAEQLIEERRVKVNGHPAKIGDKADPRKDVVTVDDERITVARRPT 73 Query: 74 -RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + HKP G VTT SD GR V D + I R+ VGRLD+N+EGLLL TNDG LA Sbjct: 74 YRYVMLHKPRGYVTTMSDEKGRRCVADLVADIDERLYPVGRLDVNSEGLLLFTNDGRLAN 133 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + PS + YRV + ++ L +G+VI G QV + T++ + + V Sbjct: 134 DIMHPSRHVTKTYRVTVRPDITDEQAARLAEGVVIDGRKTAPAQVHVLTKEPNRVVMEVV 193 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +REG+NR+I+K+ E +V RL R S GP +LG L G+ R+++ + L+ Sbjct: 194 IREGRNRQIRKMMEAVGLEVARLKRTSLGPIKLGMLKPGAHRDLTAEELK 243 >gi|307274982|ref|ZP_07556145.1| hypothetical protein HMPREF9521_00595 [Enterococcus faecalis TX2134] gi|306508430|gb|EFM77537.1| hypothetical protein HMPREF9521_00595 [Enterococcus faecalis TX2134] Length = 238 Score = 145 bits (366), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 85/234 (36%), Positives = 131/234 (55%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA AG+ SRR+ E +I + RVKVNG +++ V D +EVDGVP+ + E Sbjct: 2 ERLQKAIAHAGVTSRRKAEELIVKGRVKVNGQVVKELGTQVSKQDTVEVDGVPIYQEEYG 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+++ SD GR V D + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 62 -YYLFYKPRGVISAVSDDKGRKVVTDYFTDVTERIYPVGRLDYDTSGLLLLTNDGSFSQK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G + +L L KGI I G + Q+ K ++ V + Sbjct: 121 LTHPKHEVDKVYVAKIKGVPTKRELLPLAKGIRIDGKRTAPANFQILSADIKTGSSVVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+N ++KK+F+ + V +L R YG L L G R+++KK + + L Sbjct: 181 TIHEGRNHQVKKMFQAVGFPVQKLKRERYGELTLQGLRPGQYRDLTKKEISQLL 234 >gi|145298420|ref|YP_001141261.1| ribosomal large subunit pseudouridine synthase B [Aeromonas salmonicida subsp. salmonicida A449] gi|142851192|gb|ABO89513.1| ribosomal large subunit pseudouridine synthase B [Aeromonas salmonicida subsp. salmonicida A449] Length = 307 Score = 145 bits (365), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 92/220 (41%), Positives = 128/220 (58%), Gaps = 12/220 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDG--VPLR 68 +++ KV+ARAG SRRE+E +I RV V+G L +R VN + I VDG V R Sbjct: 3 EKLQKVLARAGHGSRREMEALITAGRVSVDGKVATLGDRVEVNAV----IRVDGHTVKTR 58 Query: 69 KAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 E R+ YHK G + T DP+GR TVFD LP + S R I+VGRLD+NT GLLL T Sbjct: 59 AEEEMICRVLAYHKSEGEMCTRHDPEGRPTVFDRLPKLDSARWIAVGRLDVNTSGLLLFT 118 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR G++ + L L+KG+ ++ ++ +G Sbjct: 119 TDGELANRLMHPSHEVEREYAVRVFGEITEAMLQRLRKGVQMEDGMAKFNKIKPAGGEGL 178 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RL+R+ YG L Sbjct: 179 NQWFNVTLTEGRNREVRRLWESQEVQVSRLMRVRYGDVTL 218 >gi|295112967|emb|CBL31604.1| ribosomal large subunit pseudouridine synthase B [Enterococcus sp. 7L76] Length = 238 Score = 145 bits (365), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 85/234 (36%), Positives = 130/234 (55%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA AG+ SRR+ E +I + RVKVNG +++ V D +EVDGVP+ + E Sbjct: 2 ERLQKAIAHAGVTSRRKAEELIVKGRVKVNGQVVKELGTQVSKQDTVEVDGVPIYQEEYG 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+++ SD GR V D + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 62 -YYLFYKPKGVISAVSDDKGRKVVTDYFTDVTERIYPVGRLDYDTSGLLLLTNDGSFSQK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G + L L KGI I G + Q+ K ++ V + Sbjct: 121 LTHPKHEVDKVYVAKIKGVPTKRDLLPLAKGIRIDGKRTAPANFQILSADIKTGSSVVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+N ++KK+F+ + V +L R YG L L G R+++KK + + L Sbjct: 181 TIHEGRNHQVKKMFQAVGFPVQKLKRERYGELTLQGLRPGQYRDLTKKEISQLL 234 >gi|161829731|ref|YP_001596671.1| RNA pseudouridine synthase family protein [Coxiella burnetii RSA 331] gi|161761598|gb|ABX77240.1| RNA pseudouridine synthase family protein [Coxiella burnetii RSA 331] Length = 244 Score = 145 bits (365), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 88/215 (40%), Positives = 125/215 (58%), Gaps = 4/215 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +R+ KV+AR+G SRRE+E+MIA+ R+KVN L + + D + +DG L E Sbjct: 3 ERIQKVLARSGYGSRREIEKMIAEGRIKVNQRLAQLGD-RITEQDLVYIDGQLSSLSAPE 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 + R+ LYHKP G + T DP+ R+TVF+ LP + R + +GRLDINT GLLL TN+G L Sbjct: 62 QVRVLLYHKPEGEICTRKDPEWRTTVFETLPRLKDGRWVIIGRLDINTSGLLLFTNEGEL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS Q R Y VR G VD D L G+ ++ + G N W Sbjct: 122 ANRLMHPSAQVEREYAVRVLGAVDADMTQKLAHGVGLEDGKARFEDIVDVGGDGKNRWFH 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG++R +++++E KV+RLIR+ +GP L Sbjct: 182 VVVVEGRHRLVRRLWESQGLKVSRLIRVRFGPIVL 216 >gi|258511697|ref|YP_003185131.1| pseudouridine synthase [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] gi|257478423|gb|ACV58742.1| pseudouridine synthase [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] Length = 273 Score = 145 bits (365), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 90/231 (38%), Positives = 136/231 (58%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E +I RV V+G ++ + V S I VDGVP+ + E+ Sbjct: 2 ERLQKVLAHAGVASRRKCEELILAGRVSVDGEIVTQLGAKVDPSRQRIAVDGVPI-ELEQ 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP+ ++T SDP GR TV LP I RV VGRLD +T GLLL TNDG L + Sbjct: 61 PVVLVLNKPVAYLSTVSDPLGRRTVMQLLPPIRERVYPVGRLDYDTSGLLLFTNDGELTQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL----DTQKGSNAW 188 L PS + +VYRV G VD++ L +G+ ++ +V + D + G A Sbjct: 121 RLLHPSREIEKVYRVSVRGIVDRETRRALMEGVELEDGVTAPAKVEVLRQADREDGV-AV 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + + EG+NR+++++FE V RL RI++GP LG L G R ++++ Sbjct: 180 VHLAIHEGRNRQVRRMFERLGLPVLRLKRIAFGPVSLGHLKTGEWRALTQE 230 >gi|218289586|ref|ZP_03493806.1| pseudouridine synthase [Alicyclobacillus acidocaldarius LAA1] gi|218240236|gb|EED07419.1| pseudouridine synthase [Alicyclobacillus acidocaldarius LAA1] Length = 273 Score = 145 bits (365), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 90/231 (38%), Positives = 136/231 (58%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E +I RV V+G ++ + V S I VDGVP+ + E+ Sbjct: 2 ERLQKVLAHAGVASRRKCEELILAGRVSVDGEIVTQLGAKVDPSRQRIAVDGVPI-ELEQ 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP+ ++T SDP GR TV LP I RV VGRLD +T GLLL TNDG L + Sbjct: 61 PVVLVLNKPVAYLSTVSDPLGRRTVMQLLPPIRERVYPVGRLDYDTSGLLLFTNDGELTQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL----DTQKGSNAW 188 L PS + +VYRV G VD++ L +G+ ++ +V + D + G A Sbjct: 121 RLLHPSREIEKVYRVSVRGIVDRETRRALMEGVELEDGVTAPAKVEVLRQADREDGV-AV 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + + EG+NR+++++FE V RL RI++GP LG L G R ++++ Sbjct: 180 VHLAIHEGRNRQVRRMFERLGLPVLRLKRIAFGPVSLGHLKTGEWRALTQE 230 >gi|227518731|ref|ZP_03948780.1| pseudouridylate synthase [Enterococcus faecalis TX0104] gi|227553340|ref|ZP_03983389.1| pseudouridylate synthase [Enterococcus faecalis HH22] gi|229545844|ref|ZP_04434569.1| pseudouridylate synthase [Enterococcus faecalis TX1322] gi|229550036|ref|ZP_04438761.1| pseudouridylate synthase [Enterococcus faecalis ATCC 29200] gi|255972817|ref|ZP_05423403.1| pseudouridine synthase [Enterococcus faecalis T1] gi|255975873|ref|ZP_05426459.1| pseudouridine synthase [Enterococcus faecalis T2] gi|256619043|ref|ZP_05475889.1| pseudouridine synthase [Enterococcus faecalis ATCC 4200] gi|256762469|ref|ZP_05503049.1| pseudouridine synthase [Enterococcus faecalis T3] gi|256853105|ref|ZP_05558475.1| pseudouridine synthase [Enterococcus faecalis T8] gi|256958960|ref|ZP_05563131.1| pseudouridine synthase [Enterococcus faecalis DS5] gi|256961947|ref|ZP_05566118.1| pseudouridine synthase [Enterococcus faecalis Merz96] gi|256965145|ref|ZP_05569316.1| pseudouridine synthase [Enterococcus faecalis HIP11704] gi|257078991|ref|ZP_05573352.1| pseudouridine synthase [Enterococcus faecalis JH1] gi|257082570|ref|ZP_05576931.1| pseudouridine synthase [Enterococcus faecalis E1Sol] gi|257085203|ref|ZP_05579564.1| pseudouridine synthase [Enterococcus faecalis Fly1] gi|257086764|ref|ZP_05581125.1| pseudouridine synthase [Enterococcus faecalis D6] gi|257089865|ref|ZP_05584226.1| pseudouridine synthase [Enterococcus faecalis CH188] gi|257416073|ref|ZP_05593067.1| pseudouridine synthase [Enterococcus faecalis AR01/DG] gi|257419276|ref|ZP_05596270.1| pseudouridine synthase [Enterococcus faecalis T11] gi|257422639|ref|ZP_05599629.1| pseudouridine synthase [Enterococcus faecalis X98] gi|293383015|ref|ZP_06628933.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecalis R712] gi|293389496|ref|ZP_06633953.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecalis S613] gi|294781343|ref|ZP_06746686.1| pseudouridylate synthase [Enterococcus faecalis PC1.1] gi|300860430|ref|ZP_07106517.1| pseudouridine synthase B, ribosomal large subunit [Enterococcus faecalis TUSoD Ef11] gi|307271038|ref|ZP_07552321.1| hypothetical protein HMPREF9498_03124 [Enterococcus faecalis TX4248] gi|307273245|ref|ZP_07554491.1| hypothetical protein HMPREF9514_02011 [Enterococcus faecalis TX0855] gi|307278094|ref|ZP_07559178.1| hypothetical protein HMPREF9515_00429 [Enterococcus faecalis TX0860] gi|307289085|ref|ZP_07569041.1| hypothetical protein HMPREF9505_02455 [Enterococcus faecalis TX0109] gi|307292016|ref|ZP_07571885.1| hypothetical protein HMPREF9509_02313 [Enterococcus faecalis TX0411] gi|312900740|ref|ZP_07760037.1| conserved hypothetical protein [Enterococcus faecalis TX0470] gi|312903287|ref|ZP_07762467.1| conserved hypothetical protein [Enterococcus faecalis TX0635] gi|312907514|ref|ZP_07766505.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 512] gi|312910132|ref|ZP_07768979.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 516] gi|312951473|ref|ZP_07770369.1| conserved hypothetical protein [Enterococcus faecalis TX0102] gi|227073812|gb|EEI11775.1| pseudouridylate synthase [Enterococcus faecalis TX0104] gi|227177527|gb|EEI58499.1| pseudouridylate synthase [Enterococcus faecalis HH22] gi|229304842|gb|EEN70838.1| pseudouridylate synthase [Enterococcus faecalis ATCC 29200] gi|229309043|gb|EEN75030.1| pseudouridylate synthase [Enterococcus faecalis TX1322] gi|255963835|gb|EET96311.1| pseudouridine synthase [Enterococcus faecalis T1] gi|255968745|gb|EET99367.1| pseudouridine synthase [Enterococcus faecalis T2] gi|256598570|gb|EEU17746.1| pseudouridine synthase [Enterococcus faecalis ATCC 4200] gi|256683720|gb|EEU23415.1| pseudouridine synthase [Enterococcus faecalis T3] gi|256711564|gb|EEU26602.1| pseudouridine synthase [Enterococcus faecalis T8] gi|256949456|gb|EEU66088.1| pseudouridine synthase [Enterococcus faecalis DS5] gi|256952443|gb|EEU69075.1| pseudouridine synthase [Enterococcus faecalis Merz96] gi|256955641|gb|EEU72273.1| pseudouridine synthase [Enterococcus faecalis HIP11704] gi|256987021|gb|EEU74323.1| pseudouridine synthase [Enterococcus faecalis JH1] gi|256990600|gb|EEU77902.1| pseudouridine synthase [Enterococcus faecalis E1Sol] gi|256993233|gb|EEU80535.1| pseudouridine synthase [Enterococcus faecalis Fly1] gi|256994794|gb|EEU82096.1| pseudouridine synthase [Enterococcus faecalis D6] gi|256998677|gb|EEU85197.1| pseudouridine synthase [Enterococcus faecalis CH188] gi|257157901|gb|EEU87861.1| pseudouridine synthase [Enterococcus faecalis ARO1/DG] gi|257161104|gb|EEU91064.1| pseudouridine synthase [Enterococcus faecalis T11] gi|257164463|gb|EEU94423.1| pseudouridine synthase [Enterococcus faecalis X98] gi|291079680|gb|EFE17044.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecalis R712] gi|291081113|gb|EFE18076.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecalis S613] gi|294451573|gb|EFG20032.1| pseudouridylate synthase [Enterococcus faecalis PC1.1] gi|300849469|gb|EFK77219.1| pseudouridine synthase B, ribosomal large subunit [Enterococcus faecalis TUSoD Ef11] gi|306497014|gb|EFM66562.1| hypothetical protein HMPREF9509_02313 [Enterococcus faecalis TX0411] gi|306499794|gb|EFM69155.1| hypothetical protein HMPREF9505_02455 [Enterococcus faecalis TX0109] gi|306505491|gb|EFM74677.1| hypothetical protein HMPREF9515_00429 [Enterococcus faecalis TX0860] gi|306510230|gb|EFM79254.1| hypothetical protein HMPREF9514_02011 [Enterococcus faecalis TX0855] gi|306512536|gb|EFM81185.1| hypothetical protein HMPREF9498_03124 [Enterococcus faecalis TX4248] gi|310626542|gb|EFQ09825.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 512] gi|310630439|gb|EFQ13722.1| conserved hypothetical protein [Enterococcus faecalis TX0102] gi|310633163|gb|EFQ16446.1| conserved hypothetical protein [Enterococcus faecalis TX0635] gi|311289405|gb|EFQ67961.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 516] gi|311292221|gb|EFQ70777.1| conserved hypothetical protein [Enterococcus faecalis TX0470] gi|315027286|gb|EFT39218.1| conserved hypothetical protein [Enterococcus faecalis TX2137] gi|315029405|gb|EFT41337.1| conserved hypothetical protein [Enterococcus faecalis TX4000] gi|315033949|gb|EFT45881.1| conserved hypothetical protein [Enterococcus faecalis TX0017] gi|315036958|gb|EFT48890.1| conserved hypothetical protein [Enterococcus faecalis TX0027] gi|315144437|gb|EFT88453.1| conserved hypothetical protein [Enterococcus faecalis TX2141] gi|315147244|gb|EFT91260.1| conserved hypothetical protein [Enterococcus faecalis TX4244] gi|315150557|gb|EFT94573.1| conserved hypothetical protein [Enterococcus faecalis TX0012] gi|315152504|gb|EFT96520.1| conserved hypothetical protein [Enterococcus faecalis TX0031] gi|315155782|gb|EFT99798.1| conserved hypothetical protein [Enterococcus faecalis TX0043] gi|315158051|gb|EFU02068.1| conserved hypothetical protein [Enterococcus faecalis TX0312] gi|315160465|gb|EFU04482.1| conserved hypothetical protein [Enterococcus faecalis TX0645] gi|315163994|gb|EFU08011.1| conserved hypothetical protein [Enterococcus faecalis TX1302] gi|315169055|gb|EFU13072.1| conserved hypothetical protein [Enterococcus faecalis TX1341] gi|315169707|gb|EFU13724.1| conserved hypothetical protein [Enterococcus faecalis TX1342] gi|315575887|gb|EFU88078.1| conserved hypothetical protein [Enterococcus faecalis TX0309B] gi|315577727|gb|EFU89918.1| conserved hypothetical protein [Enterococcus faecalis TX0630] gi|315580539|gb|EFU92730.1| conserved hypothetical protein [Enterococcus faecalis TX0309A] gi|323480703|gb|ADX80142.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecalis 62] gi|327535112|gb|AEA93946.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecalis OG1RF] Length = 238 Score = 145 bits (365), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 85/234 (36%), Positives = 130/234 (55%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA AG+ SRR+ E +I + RVKVNG +++ V D +EVDGVP+ + E Sbjct: 2 ERLQKAIAHAGVTSRRKAEELIVKGRVKVNGQVVKELGTQVSKQDTVEVDGVPIYQEEYG 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+++ SD GR V D + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 62 -YYLFYKPRGVISAVSDDKGRKVVTDYFTDVTERIYPVGRLDYDTSGLLLLTNDGSFSQK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G + L L KGI I G + Q+ K ++ V + Sbjct: 121 LTHPKHEVDKVYVAKIKGVPTKRDLLPLAKGIRIDGKRTAPANFQILSADIKTGSSVVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+N ++KK+F+ + V +L R YG L L G R+++KK + + L Sbjct: 181 TIHEGRNHQVKKMFQAVGFPVQKLKRERYGELTLQGLRPGQYRDLTKKEISQLL 234 >gi|269797888|ref|YP_003311788.1| pseudouridine synthase [Veillonella parvula DSM 2008] gi|269094517|gb|ACZ24508.1| pseudouridine synthase [Veillonella parvula DSM 2008] Length = 242 Score = 145 bits (365), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 136/228 (59%), Gaps = 6/228 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K IA GIASRR+ E +I + +V+VNG + V + D ++V+G L E+ Sbjct: 2 ERLQKYIASCGIASRRKAEELITEGKVQVNGRKVTELGVKINPQKDKVKVNG-QLLAQEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++T+ SDP GR TV D + + R+ +GRLD+ TEGLLLLTNDG A+ Sbjct: 61 PVYYLLNKPKGVITSVSDPQGRETVLDYIKNETKRIYPIGRLDLYTEGLLLLTNDGEFAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL--DTQKGSNAWV 189 L PS + Y VR G+V D L ++ G+ ++ GI V L D G + V Sbjct: 121 NLTHPSKGVEKTYEVRIKGRVRDDDLQIIANGVELEDGITAPATIVDLGFDDHNGVHE-V 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE F ++++ L RI+Y LG + G++R+++ Sbjct: 180 EITIHEGRNRQVRRMFEHFGYRIHNLKRIAYAGLTLGGVKRGASRQLT 227 >gi|56460844|ref|YP_156125.1| RNA pseudouridylate synthase-family protein [Idiomarina loihiensis L2TR] gi|56179854|gb|AAV82576.1| RNA pseudouridylate synthase-family protein [Idiomarina loihiensis L2TR] Length = 286 Score = 145 bits (365), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 86/225 (38%), Positives = 131/225 (58%), Gaps = 8/225 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+AR+G SRRE+E I+ R++VNG + + + + + +DG V ++ E Sbjct: 3 EKLQKVLARSGHGSRREIETKISAGRIRVNGKVAQ-LGERIDADAKVRIDGHEVQIKPEE 61 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ +YHKP G + T DP+GR TV+D LP + +R ++VGRLD+NT GLLL T DG Sbjct: 62 EVICRVLIYHKPEGELCTRKDPEGRPTVYDRLPRMSGARWVAVGRLDVNTSGLLLFTTDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G VD+ + L+KG+ ++ + G N W Sbjct: 122 ELANRLMHPSQQVEREYAVRVFGDVDEAMMQRLRKGVQLEDGPAHFNSIKPAGGDGMNRW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG--PFQLGTLLAG 231 V + EG+NRE+++++E +V+RLIR+ YG P + G G Sbjct: 182 FHVTISEGRNREVRRLWESQEVQVSRLIRVRYGDIPLEPGLPQGG 226 >gi|325690957|gb|EGD32957.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK115] Length = 242 Score = 144 bits (364), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 87/230 (37%), Positives = 135/230 (58%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q +V +NG ++ A NV S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIRQGKVSINGQVVRELATNVKSGDRVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVVDLLPQVKERIYPVGRLDWDTSGILILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +GI I+G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTQPAVYEIIKV--DPAK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+F+ +V++L R +G L L G R++SKK Sbjct: 178 QLTIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKK 227 >gi|118595131|ref|ZP_01552478.1| pseudouridylate synthase [Methylophilales bacterium HTCC2181] gi|118440909|gb|EAV47536.1| pseudouridylate synthase [Methylophilales bacterium HTCC2181] Length = 280 Score = 144 bits (364), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 89/250 (35%), Positives = 142/250 (56%), Gaps = 10/250 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPL---R 68 +R+ K++A++G SRRE+E+ I + +V VN + A + + +D I +G + Sbjct: 20 ERIHKLLAQSGYGSRREIEKAILEDKVLVNN---QNAKIGQLITPSDKIIFNGKAIFLNN 76 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ +YHKP G + T +DP GRSTVF+ LP I + +S+GRLD NT GLL+ T+ Sbjct: 77 DNNLPRVLIYHKPEGEIVTENDPGGRSTVFEKLPRIKKGKWMSIGRLDFNTSGLLIFTSY 136 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P + R Y VR G++ +D++ K GI I G + + +G+N Sbjct: 137 GELANRLMHPKYEIEREYSVRILGELSEDQIKEFKSGIDIDGGKAKFESIYFEGGEGANK 196 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLG 246 W V L+EG+NRE++++FE+F+ V+RLIR+ +G L + L G E+++ + L Sbjct: 197 WYRVVLKEGRNREVRRMFEYFDLTVSRLIRVRFGIVILPSHLKRGMHTELTQAEVTRLLQ 256 Query: 247 PHLLEEAQVN 256 H +E N Sbjct: 257 KHDIEPNDFN 266 >gi|77358718|ref|YP_338282.1| RNA pseudouridine synthase family protein [Coxiella burnetii RSA 493] gi|71066708|gb|AAZ22630.1| ribosomal large subunit pseudouridine synthase B [Coxiella burnetii RSA 493] Length = 244 Score = 144 bits (364), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 88/215 (40%), Positives = 125/215 (58%), Gaps = 4/215 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +R+ KV+AR+G SRRE+E+MIA+ R+KVN L + + D + +DG L E Sbjct: 3 ERIQKVLARSGYGSRREIEKMIAEGRIKVNQRLAQLGD-RITEQDLVYIDGQLSSLSAPE 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 + R+ LYHKP G + T DP+ R+TVF+ LP + R + +GRLDINT GLLL TN+G L Sbjct: 62 QVRVLLYHKPEGEICTRKDPEWRTTVFETLPRLKDGRWVIIGRLDINTSGLLLFTNEGEL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS Q R Y VR G VD D L G+ ++ + G N W Sbjct: 122 ANRLMHPSAQVEREYAVRVLGAVDADMTQKLAHGVGLEDGKARFEDIVDVGGDGKNRWFH 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG++R +++++E KV+RLIR+ +GP L Sbjct: 182 VVVVEGRHRLVRRLWESQGVKVSRLIRVRFGPIVL 216 >gi|92112979|ref|YP_572907.1| ribosomal large subunit pseudouridine synthase B [Chromohalobacter salexigens DSM 3043] gi|91796069|gb|ABE58208.1| ribosomal large subunit pseudouridine synthase B [Chromohalobacter salexigens DSM 3043] Length = 286 Score = 144 bits (364), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 91/217 (41%), Positives = 127/217 (58%), Gaps = 6/217 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--L 67 N +++ KV+ARAG SRRE+E IA RVKVNG + + + D + D P L Sbjct: 2 NTPTEKLQKVLARAGFGSRREMETAIADGRVKVNGQVAT-LGDRIETRDRVTFDERPVNL 60 Query: 68 RKAERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLL 124 R AE R+ +Y+KP G + T DP+GR TVF+ LP + R I+VGRLDINT GLLL Sbjct: 61 RDAEEVPRRVIMYNKPEGELCTRRDPEGRRTVFERLPRLKGERWIAVGRLDINTSGLLLF 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T DG LA L P+TQ R Y VR G V Q+ +N + +G++++ V +G Sbjct: 121 TTDGELANRLMHPATQVEREYAVRVMGNVRQEHVNAMVEGVMLEDGPARFTDVQEFGGEG 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 N W V + EG+NRE+++++E V+RL R+ YG Sbjct: 181 INTWFHVVILEGRNREVRRLWESQGLTVSRLKRVRYG 217 >gi|323351021|ref|ZP_08086678.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis VMC66] gi|322122745|gb|EFX94454.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis VMC66] gi|324991310|gb|EGC23243.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK353] gi|325696344|gb|EGD38235.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK160] gi|327474540|gb|EGF19945.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK408] gi|332362256|gb|EGJ40056.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK1056] Length = 242 Score = 144 bits (364), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 87/230 (37%), Positives = 135/230 (58%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q +V +NG ++ A NV S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIRQGKVSINGQVVRELATNVKSGDRVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVVDLLPQVKERIYPVGRLDWDTSGILILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +GI I+G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKV--DPAK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+F+ +V++L R +G L L G R++SKK Sbjct: 178 QLTIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKK 227 >gi|331701399|ref|YP_004398358.1| pseudouridine synthase Rsu [Lactobacillus buchneri NRRL B-30929] gi|329128742|gb|AEB73295.1| pseudouridine synthase Rsu [Lactobacillus buchneri NRRL B-30929] Length = 242 Score = 144 bits (364), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 88/239 (36%), Positives = 127/239 (53%), Gaps = 10/239 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +IA+ VKVNG +++ V D ++VD VP+ K E Sbjct: 4 ERLQKVIAHAGVASRRKAEELIAKGHVKVNGEVVKELGTKVTPNDEVKVDEVPISK-EAP 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++T +D R TV D L + R+ VGRLD +T GLLLLTNDG L Sbjct: 63 VYYLLYKPRGVITAVTDDKHRKTVVDILEEVPERIYPVGRLDYDTSGLLLLTNDGDLDNK 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + + Y + G V D L L+ G+VI+ + L ++ V + + Sbjct: 123 LTHPKYEVEKTYVAKVKGIVTNDDLKHLRTGVVIEHRKTAKAKTKLIRTNKDSSIVQLTI 182 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 EG+N ++K +FE + V +L R +YG L L G R L PH +EE Sbjct: 183 HEGRNHQVKNMFEKIGYPVEKLSRETYGFLTLKGLQPGDYR---------PLKPHEVEE 232 >gi|322411180|gb|EFY02088.1| hypothetical protein SDD27957_02020 [Streptococcus dysgalactiae subsp. dysgalactiae ATCC 27957] Length = 240 Score = 144 bits (364), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 132/230 (57%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V +NG ++ +A V S D +E++G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTLNGQVITDSATTVKSGDVVEIEGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP + R+ VGRLD NT G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWNTSGVLILTNDGDFTDTM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++ L L +G+VI G Y ++V D + + V Sbjct: 121 IHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIRVEADKNR---SIV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G +L L G +R ++KK Sbjct: 178 ELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLELTGLRPGESRRLNKK 227 >gi|311030759|ref|ZP_07708849.1| pseudouridine synthase [Bacillus sp. m3-13] Length = 242 Score = 144 bits (363), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 86/249 (34%), Positives = 140/249 (56%), Gaps = 12/249 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E +I + +V+VN +++ V V D IEV+G+P+ + E+ Sbjct: 2 ERLQKVIAHAGIASRRKAEELIKEGKVRVNDKVVKELGVKVNPNDKIEVEGIPVER-EKP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR D P I R+ VGRLD +T GLLL+TNDG A V Sbjct: 61 VYFLLYKPRGVISSVSDDKGRKVATDFFPYIEERIYPVGRLDYDTSGLLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKGSNAWV-TV 191 L P+++ +VY + G ++ + L++GI ++ ++ L ++ N + + Sbjct: 121 LMHPASEVEKVYVAKLKGIPSREAIKSLERGIKLEDGKTAPARIKLLSMERTKNTSIFEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE V +L R YG L L AG RE L PH ++ Sbjct: 181 SIHEGRNRQVRRMFEAIGHPVMKLKRERYGFLNLHGLSAGEARE---------LTPHEVK 231 Query: 252 EAQVNLDAP 260 + +V P Sbjct: 232 QLRVMATKP 240 >gi|119505054|ref|ZP_01627130.1| 16S rRNA uridine-516 pseudouridylate synthase [marine gamma proteobacterium HTCC2080] gi|119459036|gb|EAW40135.1| 16S rRNA uridine-516 pseudouridylate synthase [marine gamma proteobacterium HTCC2080] Length = 305 Score = 144 bits (363), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 84/210 (40%), Positives = 119/210 (56%), Gaps = 4/210 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--LRKAER 72 ++ K +A+ G+ SRRE+ER I Q R+ + G + VM + + +DG P L + ER Sbjct: 24 KLQKALAKTGLGSRREIERWIEQGRLTIGG-RKAKLGDRVMLGERVTLDGKPVELDETER 82 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLA 131 R LYHKP+G V + DP+GR TVFD+LP + R I VGRLD NT GLLL T DG LA Sbjct: 83 VRCLLYHKPVGEVCSRKDPEGRRTVFDSLPELQGGRWIVVGRLDFNTSGLLLFTTDGELA 142 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + PS+ R Y VR G + L+ L+ G+++ + G N W V Sbjct: 143 HKMMHPSSTIEREYLVRVMGNATDEILDTLRAGVILDDGPARFTDIVDGGGDGINRWFYV 202 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYG 221 L EG+NRE+++++E V+RL R+ YG Sbjct: 203 VLMEGRNREVRRLWESQGLTVSRLKRVRYG 232 >gi|319778229|ref|YP_004129142.1| Ribosomal large subunit pseudouridine synthase B [Taylorella equigenitalis MCE9] gi|317108253|gb|ADU90999.1| Ribosomal large subunit pseudouridine synthase B [Taylorella equigenitalis MCE9] Length = 418 Score = 144 bits (363), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 85/223 (38%), Positives = 125/223 (56%), Gaps = 5/223 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 V EN + ++ K++A AG+ SRR++E +I Q RV VNG+ + D ++V+G Sbjct: 98 VAENSSKPKLHKILADAGVGSRRDMEDLIIQGRVSVNGVPAH-IGQRISDEDVVKVNGRI 156 Query: 67 LRKAERTRL---WLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLL 122 + + + R+ LYHKP G + T DP R+TVF LP + ++ +SVGRLDINTEGLL Sbjct: 157 INRPKSNRVPRVILYHKPAGEIVTQDDPKNRATVFARLPKMKTAKWVSVGRLDINTEGLL 216 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T G LA L P R Y VR G++D +L L +GI ++ + Sbjct: 217 IFTTSGDLANRLMHPRYGNEREYAVRILGELDSTQLKTLTEGIHLEDGLAKFGSIDYIGG 276 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 GSN W V + EG+NRE++++FE V+RLIR +G L Sbjct: 277 DGSNKWYRVTIEEGRNREVRRMFEALGLTVSRLIRSRFGDVHL 319 >gi|323703049|ref|ZP_08114704.1| pseudouridine synthase [Desulfotomaculum nigrificans DSM 574] gi|323531943|gb|EGB21827.1| pseudouridine synthase [Desulfotomaculum nigrificans DSM 574] Length = 238 Score = 144 bits (363), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 88/226 (38%), Positives = 125/226 (55%), Gaps = 1/226 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+ARAGIASRR E +I +VKVNG + V + D IEV+G P+ ++ Sbjct: 3 ERLQKVLARAGIASRRRCEELIVAGKVKVNGKAVTALGTKVDAAKDKIEVNGQPVTASQP 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G VTT D GR TV D L I RV VGRLD ++EGLLLLTNDG L Sbjct: 63 KVYFMLNKPRGYVTTLHDERGRKTVIDLLEGIEQRVYPVGRLDYDSEGLLLLTNDGELTN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y VR G + KL + +G+V+ QV L + + A + + Sbjct: 123 ALTHPKHKVPKTYLVRVEGVPEPAKLKAMARGLVLADGPTAPAQVRLAGVRDNRALLEIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG+NR+++++ E V RL RI GP L L G R +++ Sbjct: 183 IHEGRNRQVRRMCEHIGHPVLRLKRIRVGPLVLEGLKPGQFRPLTE 228 >gi|303229867|ref|ZP_07316643.1| pseudouridine synthase B, ribosomal large subunit [Veillonella atypica ACS-134-V-Col7a] gi|303232045|ref|ZP_07318748.1| pseudouridine synthase B, ribosomal large subunit [Veillonella atypica ACS-049-V-Sch6] gi|302513151|gb|EFL55190.1| pseudouridine synthase B, ribosomal large subunit [Veillonella atypica ACS-049-V-Sch6] gi|302515423|gb|EFL57389.1| pseudouridine synthase B, ribosomal large subunit [Veillonella atypica ACS-134-V-Col7a] Length = 241 Score = 144 bits (362), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 137/230 (59%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K IA G+ASRR+ E +IA +V+VNG + V V D + VDG L E+ Sbjct: 2 ERLQKFIASCGVASRRKAEELIASGKVRVNGRKVTELGVKVDPMKDKVMVDG-QLLAVEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++T+ +DP GR TV D + + R+ +GRLD++TEGLLLLTNDG LA+ Sbjct: 61 PVYYLMNKPKGVITSVTDPQGRETVMDYIKNEKRRIYPIGRLDLHTEGLLLLTNDGELAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL--DTQKGSNAWV 189 L PS + Y VR G+V+ L ++ G+ ++ G+ V L D G + V Sbjct: 121 NLTHPSKGVEKTYEVRIKGRVNDTDLQVIADGVPLEDGVTAPATLVDLGFDDHNGVHE-V 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+NR+++++FE F ++++ L RI+YG L + G R+++++ Sbjct: 180 EITIHEGRNRQVRRMFEHFGYRIHNLKRIAYGGLTLSGVKRGGVRQLTQR 229 >gi|313892540|ref|ZP_07826127.1| pseudouridine synthase B, ribosomal large subunit [Dialister microaerophilus UPII 345-E] gi|313118937|gb|EFR42142.1| pseudouridine synthase B, ribosomal large subunit [Dialister microaerophilus UPII 345-E] Length = 240 Score = 144 bits (362), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 86/234 (36%), Positives = 139/234 (59%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K+I+ AG+ SRR+ E +I + RVKVNG + + S D IEV+G ++K ER Sbjct: 3 ERLQKIISHAGVCSRRKAEELIKEGRVKVNGHTVTKLGTEADSVRDCIEVNGKVIKK-ER 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +L++KP ++T+ +DP GR TV D I RV VGRLD ++EGLLL+TNDG L Sbjct: 62 LKYFLFNKPDKVITSMTDPAGRRTVSDYFSQIKERVFPVGRLDYHSEGLLLMTNDGDLDY 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GI---CYGDMQVTLDTQKGSNAW 188 +L PS + ++Y V G+ + + +G+ I GI C D+++ ++ + + Sbjct: 122 ILTHPSHEVYKIYEVVVRGKFSERLAEKMSEGVKIDSGITAPC--DIEIISYDKEKNKTF 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + L EGKNREI+K+ E F++ V +L R+ Y L + G+ R +S + +R Sbjct: 180 LKMVLHEGKNREIRKMMEAFHFPVFKLERVGYSFLTLKGVSRGTFRSLSPEEVR 233 >gi|73541719|ref|YP_296239.1| ribosomal large subunit pseudouridine synthase B [Ralstonia eutropha JMP134] gi|72119132|gb|AAZ61395.1| ribosomal large subunit pseudouridine synthase B [Ralstonia eutropha JMP134] Length = 615 Score = 144 bits (362), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 84/215 (39%), Positives = 121/215 (56%), Gaps = 5/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 ++ KV+A G+ SRRE+E +I Q RV VNG L ++ TD + V+G + + T Sbjct: 219 KLHKVLAEGGLGSRREMEELILQGRVSVNG-LPAHIGQRILPTDQVRVNGKLIHRKVSTK 277 Query: 74 --RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGL 130 R+ LYHKP G + + SDP+GR TVFD+LP + + ++VGRLD NTEGLL+ T G + Sbjct: 278 PPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFNTEGLLIFTTSGDI 337 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A P R Y VR G++ + L GI + +++ +G N W Sbjct: 338 ANRFMHPRYGVEREYAVRTLGELAEADRQRLLHGIKLDDGEANFLRIADGGGEGVNQWYH 397 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EG+NRE++++FE V+RLIR YG F L Sbjct: 398 VALTEGRNREVRRMFEAVGLTVSRLIRTRYGQFLL 432 >gi|110834248|ref|YP_693107.1| S4 domain-containing protein [Alcanivorax borkumensis SK2] gi|110647359|emb|CAL16835.1| S4 domain protein [Alcanivorax borkumensis SK2] Length = 280 Score = 144 bits (362), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 86/219 (39%), Positives = 132/219 (60%), Gaps = 8/219 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG+ SRRE+E I+ RV VNG + V S D + VDG + ++ E Sbjct: 3 EKLQKVLARAGLGSRRELETWISDGRVSVNGTVAT-LGDRVGSEDTLRVDGRIIKVKTEE 61 Query: 72 RT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 T R+ +YHKP G V + +DP+GR TVFDNLP + R + VGRLDINT G++L T DG Sbjct: 62 DTVQRVIMYHKPPGEVCSRNDPEGRPTVFDNLPRLQGMRWVQVGRLDINTTGMMLFTTDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GIC-YGDMQVTLDTQKGSN 186 LA L PS ++R Y VR G + +K + G++++ G+ + ++ ++G+N Sbjct: 122 ELAHRLMHPSNGFVREYAVRVRGVMTPEKRQAMLDGVLLEDGVSKFDSIEDAGGAEEGAN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W L GK RE++++F+ + +V RL+RI +G L Sbjct: 182 HWYKATLTGGKYREVRRLFQSQDLEVARLMRIRFGDLTL 220 >gi|315172332|gb|EFU16349.1| conserved hypothetical protein [Enterococcus faecalis TX1346] Length = 238 Score = 144 bits (362), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 85/234 (36%), Positives = 130/234 (55%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA AG+ SRR+ E +I + RVKVNG +++ V D +EVDGVP+ + E Sbjct: 2 ERLQKAIAHAGVTSRRKAEELIVKGRVKVNGQVVKELGTQVSKQDTVEVDGVPIYQEEYG 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+++ SD GR V D + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 62 -YYLFYKPRGVISAVSDDKGRKVVTDYFTDVTERIYPVGRLDYDTSGLLLLTNDGSFSQK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G + L L KGI I G + Q+ K ++ V + Sbjct: 121 LTHPKHEVDKVYVAKIKGVPTKRDLLPLVKGIRIDGKRTAPANFQILSADIKTGSSVVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+N ++KK+F+ + V +L R YG L L G R+++KK + + L Sbjct: 181 TIHEGRNHQVKKMFQAVGFPVQKLKRERYGELTLQGLRPGQYRDLTKKEISQLL 234 >gi|225076444|ref|ZP_03719643.1| hypothetical protein NEIFLAOT_01490 [Neisseria flavescens NRL30031/H210] gi|224952123|gb|EEG33332.1| hypothetical protein NEIFLAOT_01490 [Neisseria flavescens NRL30031/H210] Length = 352 Score = 144 bits (362), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 81/220 (36%), Positives = 134/220 (60%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 F P+R+ KV+A +G+ SRRE+E I+ V VNG + + V DH+ V G + L+ Sbjct: 97 FEPERLQKVLAASGVGSRREMEEWISNGWVTVNGRVAQ-LGEKVTPDDHVTVKGSIIKLK 155 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 156 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 215 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G++ +++ +L ++G++++ ++ +G+ Sbjct: 216 SGELVQRFAHPSFEVEREYAVRVLGELTTEQMRVLTEEGVMLEDGLAKVERIYEQGGEGA 275 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 276 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 315 >gi|241760499|ref|ZP_04758592.1| ribosomal large subunit pseudouridine synthase B [Neisseria flavescens SK114] gi|261380706|ref|ZP_05985279.1| ribosomal large subunit pseudouridine synthase B [Neisseria subflava NJ9703] gi|241319003|gb|EER55505.1| ribosomal large subunit pseudouridine synthase B [Neisseria flavescens SK114] gi|284796417|gb|EFC51764.1| ribosomal large subunit pseudouridine synthase B [Neisseria subflava NJ9703] Length = 352 Score = 144 bits (362), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 81/220 (36%), Positives = 134/220 (60%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 F P+R+ KV+A +G+ SRRE+E I+ V VNG + + V DH+ V G + L+ Sbjct: 97 FEPERLQKVLAASGVGSRREMEEWISNGWVTVNGRVAQ-LGEKVTPDDHVTVKGSIIKLK 155 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 156 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 215 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G++ +++ +L ++G++++ ++ +G+ Sbjct: 216 SGELVQRFAHPSFEVEREYAVRVLGELTTEQMRVLTEEGVMLEDGLAKVERIYEQGGEGA 275 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 276 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 315 >gi|116333418|ref|YP_794945.1| 16S rRNA uridine-516 pseudouridylate synthase related enzyme [Lactobacillus brevis ATCC 367] gi|116098765|gb|ABJ63914.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus brevis ATCC 367] Length = 240 Score = 144 bits (362), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 88/232 (37%), Positives = 125/232 (53%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR+ E++I RVKVNG + V D I VDGVP+ Sbjct: 2 ERLQKVLAHAGVASRRQSEKLIMSGRVKVNGAAVTELGTKVGVHDQILVDGVPISSEAPI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY KP G+V+T +D GR TV D + ++ RV VGRLD +T GLLLLTNDG LA Sbjct: 62 YIMLY-KPRGVVSTANDDKGRKTVVDLVENVSQRVYPVGRLDYDTSGLLLLTNDGELANR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTV 191 L P + + Y R G D + L++GI + G Y +V A +++ Sbjct: 121 LTHPRYEVEKTYIARVTGVPTNDAMKQLRQGITVDGETYAPAKSKVLSAADDRKTAIISL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EGKN ++KK+ V +L R YG L L AG R++ + ++E Sbjct: 181 TIHEGKNHQVKKMLAAVGCPVEKLKREQYGFLTLKGLNAGEARQLKPEEVKE 232 >gi|83748669|ref|ZP_00945686.1| Ribosomal large subunit pseudouridine synthase B [Ralstonia solanacearum UW551] gi|83724631|gb|EAP71792.1| Ribosomal large subunit pseudouridine synthase B [Ralstonia solanacearum UW551] Length = 614 Score = 144 bits (362), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 92/250 (36%), Positives = 141/250 (56%), Gaps = 7/250 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG L ++ TD + Sbjct: 207 KVRELTAEDDAP-KLHKILADAGLGSRRDMEDLIMQGRVSVNG-LPAHIGQRILPTDQVR 264 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 V+G +++ + R+ LYHKP G + + SDP+GR TVFD+LP + + ++VGRLD N Sbjct: 265 VNGKLIQRKLPNKAPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFN 324 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L +G+ + ++ Sbjct: 325 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAEFDRQKLLQGVRLDDGEANFLRC 384 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 385 ADGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 444 Query: 237 SKKILREQLG 246 S + +R +G Sbjct: 445 SAEEVRVLMG 454 >gi|294788878|ref|ZP_06754119.1| ribosomal large subunit pseudouridine synthase B [Simonsiella muelleri ATCC 29453] gi|294483360|gb|EFG31046.1| ribosomal large subunit pseudouridine synthase B [Simonsiella muelleri ATCC 29453] Length = 353 Score = 144 bits (362), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 82/229 (35%), Positives = 134/229 (58%), Gaps = 5/229 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K+K P+R+ KV+A +G+ SRRE+E I V+VNG + R + D + Sbjct: 90 LKEKRTDLSRIQPERLQKVLAASGVGSRREMEEWINNGWVQVNG-HVARLGEKITPNDQV 148 Query: 61 EVDG--VPLRKAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDI 116 + G + L+ A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDI Sbjct: 149 TIKGNAIKLKWADRLPRIILYYKQEGEIVSRDDPQGRISIFDRLPQAASSRWVAIGRLDI 208 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NT GLL+LT G L + PS + R Y VR G++ ++LN L +G++++ + Sbjct: 209 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGELTPEQLNALSEGVMLEDGLAKVER 268 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 269 IYEQGGEGVNKWYNVIIKEGRNREVRRLFESQGLTVSRLVRVGFGPIGL 317 >gi|313893433|ref|ZP_07827005.1| pseudouridine synthase B, ribosomal large subunit [Veillonella sp. oral taxon 158 str. F0412] gi|313442074|gb|EFR60494.1| pseudouridine synthase B, ribosomal large subunit [Veillonella sp. oral taxon 158 str. F0412] Length = 242 Score = 144 bits (362), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 137/228 (60%), Gaps = 6/228 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K IA GIASRR+ E +I + +V+VNG + V + D ++V+G L E+ Sbjct: 2 ERLQKYIASCGIASRRKAEELITEGKVQVNGRKVTELGVKINPQKDKVKVNG-QLLAQEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++T+ SDP GR TV D + + R+ VGRLD+ TEGLLLLTNDG LA+ Sbjct: 61 PVYYLLNKPKGVITSVSDPQGRETVLDYIKNESKRIYPVGRLDLYTEGLLLLTNDGELAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL--DTQKGSNAWV 189 L PS + Y VR G+V + L ++ G+ ++ G+ V L D G + V Sbjct: 121 NLTHPSKGVEKTYEVRIKGRVRDEDLQVIANGVKLEDGMTAPATIVDLGFDDHNGVHE-V 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE F ++++ L RI+Y LG + G++R+++ Sbjct: 180 EITIHEGRNRQVRRMFEHFGYRIHNLKRIAYAGLTLGGVKRGASRQLT 227 >gi|212212525|ref|YP_002303461.1| ribosomal large subunit pseudouridine synthase B [Coxiella burnetii CbuG_Q212] gi|212010935|gb|ACJ18316.1| ribosomal large subunit pseudouridine synthase B [Coxiella burnetii CbuG_Q212] Length = 244 Score = 144 bits (362), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 88/215 (40%), Positives = 125/215 (58%), Gaps = 4/215 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +R+ KV+AR+G SRRE+E+MIA+ R+KVN L + + D + +DG L E Sbjct: 3 ERIQKVLARSGYGSRREIEKMIAEGRIKVNQRLAQLGD-RITEQDLVYIDGQLSSLSVPE 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 + R+ LYHKP G + T DP+ R+TVF+ LP + R + +GRLDINT GLLL TN+G L Sbjct: 62 QVRVLLYHKPEGEICTRKDPEWRTTVFETLPRLKDGRWVIIGRLDINTSGLLLFTNEGEL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS Q R Y VR G VD D L G+ ++ + G N W Sbjct: 122 ANRLMHPSAQVEREYAVRVLGAVDADMTQKLAHGVGLEDGKARFEDIVDVGGDGKNRWFH 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG++R +++++E KV+RLIR+ +GP L Sbjct: 182 VVVVEGRHRLVRRLWESQGVKVSRLIRVRFGPIVL 216 >gi|239827574|ref|YP_002950198.1| pseudouridine synthase [Geobacillus sp. WCH70] gi|239807867|gb|ACS24932.1| pseudouridine synthase [Geobacillus sp. WCH70] Length = 243 Score = 144 bits (362), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 80/226 (35%), Positives = 132/226 (58%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E++I Q +VKVNG ++ V V D +EVDG+P+ + E Sbjct: 2 ERLQKVIAHAGIASRRKAEQLILQGKVKVNGKVVTELGVKVGPQDKVEVDGIPVEREEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G++++ D GR V D + R+ +GRLD +T G+LLLTNDG A + Sbjct: 62 -YYLFYKPRGVISSVKDDKGRKVVTDFFKDVDKRIYPIGRLDYDTSGILLLTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTV 191 L P + +VY + G +++L L++GI+++ +V L ++ A + + Sbjct: 121 LMHPRYEIEKVYIAKVKGIPTREQLKQLERGIMLEDGMTAPAKVKLLSHNKQKQTAIIEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE KV +L R Y L L G R+++ Sbjct: 181 RIHEGRNRQVRRMFEAIGCKVMKLKRERYAFLDLKGLNPGEYRKLT 226 >gi|207743366|ref|YP_002259758.1| rrna uridine-516 pseudouridylate synthase-related pseudouridylate synthase protein [Ralstonia solanacearum IPO1609] gi|206594763|emb|CAQ61690.1| rrna uridine-516 pseudouridylate synthase-related pseudouridylate synthase protein [Ralstonia solanacearum IPO1609] Length = 610 Score = 144 bits (362), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 92/250 (36%), Positives = 141/250 (56%), Gaps = 7/250 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG L ++ TD + Sbjct: 203 KVRELTAEDDAP-KLHKILADAGLGSRRDMEDLIMQGRVSVNG-LPAHIGQRILPTDQVR 260 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 V+G +++ + R+ LYHKP G + + SDP+GR TVFD+LP + + ++VGRLD N Sbjct: 261 VNGKLIQRKLPNKAPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFN 320 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L +G+ + ++ Sbjct: 321 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAEFDRQKLLQGVRLDDGEANFLRC 380 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 381 ADGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 440 Query: 237 SKKILREQLG 246 S + +R +G Sbjct: 441 SAEEVRVLMG 450 >gi|222152585|ref|YP_002561760.1| ribosomal large subunit pseudouridine synthase B [Streptococcus uberis 0140J] gi|222113396|emb|CAR41051.1| ribosomal large subunit pseudouridine synthase B [Streptococcus uberis 0140J] Length = 240 Score = 143 bits (361), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 86/230 (37%), Positives = 130/230 (56%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V +NG ++ A V S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTLNGQVVSDLATTVKSGDTVEVEGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVIDLLPQVKERIYPVGRLDWDTSGLLILTNDGDFTDKM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +D L L +G+VI G Y ++V D + + V Sbjct: 121 IHPRNEIDKVYLARVKGIATKDNLRPLTRGVVIDGKKTKPARYNIIRVEADKNR---SIV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G L L G +R ++KK Sbjct: 178 ELTIHEGRNHQVKKMFESVGLIVDKLSRTRFGTLDLTGLRPGESRRLNKK 227 >gi|330719107|ref|ZP_08313707.1| 16S rRNA uridine-516 pseudouridylate synthase [Leuconostoc fallax KCTC 3537] Length = 252 Score = 143 bits (361), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 85/226 (37%), Positives = 129/226 (57%), Gaps = 2/226 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ASRR E +I + RV VNG ++ V +D + VDGVP+ ER Sbjct: 8 ERLQKVIAQAGLASRRGAEALIVEGRVSVNGQQVKELGTKVRRSDTVAVDGVPIEGRERL 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+VTT D GR+TV D L + RV VGRLD +T G LLLTNDG +A Sbjct: 68 VYYLLNKPRGVVTTTQDEKGRATVLDILDDVSQRVYPVGRLDYDTTGALLLTNDGTIANE 127 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P ++ +VY + G ++ L LKKG++I+G +V++++ + + V + Sbjct: 128 LMHPKSKVDKVYIAKVKGMATENDLLPLKKGVMIEGHKTQPARVSVESVDKTKKTSMVKL 187 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EGKN ++K + + V +L R Y L L G R+++ Sbjct: 188 IIHEGKNHQVKNMLAKVGFPVEKLKREQYAFLDLVGLQPGEYRKLT 233 >gi|163750232|ref|ZP_02157474.1| putative RNA pseudouridylate synthase [Shewanella benthica KT99] gi|161330088|gb|EDQ01072.1| putative RNA pseudouridylate synthase [Shewanella benthica KT99] Length = 288 Score = 143 bits (361), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 90/220 (40%), Positives = 129/220 (58%), Gaps = 12/220 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNVMSTDHIEVDG--VPLR 68 +++ KV+ARAG SRRE+E IA R+ ++G L +R +V I +DG + ++ Sbjct: 3 EKLQKVLARAGHGSRREMEAWIAAGRISIDGEIANLGDRIEADV----KIRIDGRAISIK 58 Query: 69 KAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 AE R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T Sbjct: 59 SAEDLICRVIAYHKPEGEICSRKDPEGRPTVFDRLPKTRDSRWVAVGRLDINTSGLLLFT 118 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG LA L PS + R Y VR G+V + L+ G+ ++ +V +G Sbjct: 119 SDGELANRLMHPSNEVEREYAVRTFGEVTDACIQRLRTGVTLEDGPASFDKVKAAGGEGM 178 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 179 NKWWHVSLAEGRNREVRRLWESQEVQVSRLIRIRYGKIEL 218 >gi|320547375|ref|ZP_08041664.1| ribosomal large subunit pseudouridine synthase B [Streptococcus equinus ATCC 9812] gi|320447971|gb|EFW88725.1| ribosomal large subunit pseudouridine synthase B [Streptococcus equinus ATCC 9812] Length = 241 Score = 143 bits (361), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 133/228 (58%), Gaps = 5/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I + V +NG ++ A V S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIKKGLVSINGKVVTELATTVKSGDIVEVEGTPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP++ R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVVDLLPNVTERIYPVGRLDWDTTGLLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVTV 191 P + +VY R G ++ L L +G+VI G + + +D +K + + V + Sbjct: 121 IHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIKVDPEK-NRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+FE V++L R ++G L L G +R +SKK Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTNFGTLDLSGLRPGESRRLSKK 227 >gi|116618395|ref|YP_818766.1| ribosomal large subunit pseudouridine synthase B [Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293] gi|116097242|gb|ABJ62393.1| ribosomal large subunit pseudouridine synthase B [Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293] Length = 249 Score = 143 bits (361), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 130/228 (57%), Gaps = 6/228 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ K+IA+AG+ASRR E +I RV+VNG + V + D ++VDG P+ E+ Sbjct: 6 QRLQKIIAQAGLASRRGAEELIINGRVQVNGQTVTELGTKVTANDKVQVDGAPIEGREKL 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+VTT+ D GR TV D L + RV VGRLD +T G+LLLTNDG +A Sbjct: 66 VYYLLNKPRGVVTTNDDEKGRRTVLDILEDVDQRVYPVGRLDYDTTGVLLLTNDGVVANQ 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----TQKGSNAWV 189 L P T+ + Y + G ++KL LK+G+V++G +V+++ T++ S + Sbjct: 126 LMHPKTKVDKTYVAKVEGIATEEKLAPLKRGVVLKGRKTAPARVSIERIEPTKRTSMVRL 185 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 T+ EG+N ++K + V +L R Y F + L G R+++ Sbjct: 186 TI--HEGRNHQVKNMLAKVGLPVQKLKREQYAFFDVTGLQPGEYRKLT 231 >gi|15606629|ref|NP_214009.1| hypothetical protein aq_1464 [Aquifex aeolicus VF5] gi|3915445|sp|O67444|Y1464_AQUAE RecName: Full=Uncharacterized RNA pseudouridine synthase aq_1464; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|2983856|gb|AAC07410.1| hypothetical protein aq_1464 [Aquifex aeolicus VF5] Length = 249 Score = 143 bits (361), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 87/226 (38%), Positives = 129/226 (57%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K ++ AG+ASRR+ E++I + RVKVNG ++ V V D +EVDG P+ K +R Sbjct: 5 RINKFLSEAGVASRRKAEKLILEGRVKVNGEVVRSLGVKVNPEVDIVEVDGKPV-KPQRK 63 Query: 74 RLWLYHKPIGLVTTHS-DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + +KP +T PDGR T+ + + I RV VGRLD NTEGLL+LTNDG LA Sbjct: 64 RYIILNKPCCYLTQLGRSPDGRKTIEELIKDIPERVFPVGRLDYNTEGLLILTNDGELAN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY G+VDQ L +K+GI ++ + + +G N + + Sbjct: 124 RILHPRYKLPKVYLALVEGKVDQKTLKRMKQGIELEDGFAKPDNIRIVRYEGKNTLLEIT 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EG+ +K+ F KV RL RI+ GP +LG L G RE+++ Sbjct: 184 FHEGRKHLVKRFLGAFGHKVKRLKRIAIGPIKLGKLSPGKWRELNQ 229 >gi|290579936|ref|YP_003484328.1| putative pseudouridylate synthase B large subunit [Streptococcus mutans NN2025] gi|254996835|dbj|BAH87436.1| putative pseudouridylate synthase B large subunit [Streptococcus mutans NN2025] Length = 240 Score = 143 bits (361), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 84/227 (37%), Positives = 128/227 (56%), Gaps = 3/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V +NG ++ A V S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTLNGQMVTELATTVKSGDRVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ D GR TV D LP + R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVRDDKGRQTVVDLLPEVKERIYPVGRLDWDTSGLLILTNDGDFTDKM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVG 192 P + +VY R G +D L L KGIVI G ++ ++ + + V + Sbjct: 121 LHPRHEIDKVYVARVKGLASKDNLRPLTKGIVIDGKKTQPARYRIVKTDREKNRSVVELT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+FE V++L R +G L L +G R ++KK Sbjct: 181 IHEGRNHQVKKMFEAVGLMVDKLSRTRFGTLDLSGLNSGEARRLNKK 227 >gi|94310972|ref|YP_584182.1| ribosomal large subunit pseudouridine synthase B [Cupriavidus metallidurans CH34] gi|93354824|gb|ABF08913.1| pseudouridine synthase, Rsu [Cupriavidus metallidurans CH34] Length = 631 Score = 143 bits (361), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 85/215 (39%), Positives = 121/215 (56%), Gaps = 5/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 ++ KV+A G+ SRRE+E +I Q RV VNG L ++ TD + V+G + + T Sbjct: 236 KLHKVLAEGGLGSRREMEELILQGRVSVNG-LPAHIGQRILPTDQVRVNGKLIHRKVTTK 294 Query: 74 --RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGL 130 R+ LYHKP G + + SDP+GR TVFD+LP I + ++VGRLD NTEGLL+ T G + Sbjct: 295 PPRVLLYHKPSGEIVSQSDPEGRPTVFDSLPRIKNGKWVAVGRLDFNTEGLLIFTTSGDI 354 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A P R Y VR G++ + L GI + +++ +G N W Sbjct: 355 ANRFMHPRYGVEREYAVRTLGELAEADRQRLLHGIQLDDGEANFLRIADGGGEGVNQWYH 414 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EG+NRE++++FE V+RLIR YG F L Sbjct: 415 VALTEGRNREVRRMFEAVGLTVSRLIRTRYGQFLL 449 >gi|212710702|ref|ZP_03318830.1| hypothetical protein PROVALCAL_01769 [Providencia alcalifaciens DSM 30120] gi|212686399|gb|EEB45927.1| hypothetical protein PROVALCAL_01769 [Providencia alcalifaciens DSM 30120] Length = 313 Score = 143 bits (361), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 83/218 (38%), Positives = 130/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ K++AR+G SRRE+E ++ + R+ V+G + V V +T I +DG + +++ Sbjct: 17 EKLQKILARSGHGSRREIEGLLKEGRISVDGKMATLGDRVEVKATTKIRLDGRLLAIKEP 76 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 E+ R+ Y+KP G + T DP+GR TVF+ LP + +R I+VGRLD+NT GLLL T D Sbjct: 77 EKEICRVMAYYKPEGELCTRHDPEGRPTVFNRLPRLTGARWIAVGRLDVNTSGLLLFTTD 136 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G++ K+ L G+ ++ V+ +G N Sbjct: 137 GELANRLMHPSREVEREYAVRVFGEITDAKIRQLTTGVQLEDGPASFKTVSYRGGEGMNQ 196 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 197 WYNVTLTEGRNREVRRLWESVGVQVSRLIRVRYGDIDL 234 >gi|317402968|gb|EFV83508.1| pseudouridine synthase [Achromobacter xylosoxidans C54] Length = 469 Score = 143 bits (361), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 85/213 (39%), Positives = 123/213 (57%), Gaps = 9/213 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKA-- 70 ++ KV+A AGI SRRE+E +I RV VNG E A + V D + V+G P+ +A Sbjct: 114 KLHKVLADAGIGSRREMEELIVAGRVSVNG---EPAHIGQRVAPNDQVRVNGKPIMRANT 170 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 + R+ LYHKP G + +H DP GR++VF LP + + +SVGRLD+NTEGLL+ T G Sbjct: 171 KKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTEGLLIFTTSG 230 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 +A + P R Y VR G++D+ + L GI ++ + GSN W Sbjct: 231 DMANRIMHPRYGTEREYAVRVLGEMDEAQRQSLVDGIELEDGVAAFGALDYLGGDGSNRW 290 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V L+EG+NRE++++FE V+RLIR +G Sbjct: 291 YRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFG 323 >gi|171780251|ref|ZP_02921155.1| hypothetical protein STRINF_02039 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] gi|171281599|gb|EDT47034.1| hypothetical protein STRINF_02039 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] Length = 241 Score = 143 bits (360), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 133/228 (58%), Gaps = 5/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I + V +NG ++ A V + D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEDLIKRGLVTINGKVVTELATTVKAGDVVEVEGTPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP++ R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVVDLLPNVTERIYPVGRLDWDTTGLLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVTV 191 P + +VY R G ++ L L +G+VI G + + +D +K + + V + Sbjct: 121 IHPRNEIDKVYLARVKGLATKENLRPLTRGVVIDGKKTKPARYNIIKVDPEK-NRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+FE V++L R ++G L L G +R +SKK Sbjct: 180 TIHEGRNHQVKKMFELVGLLVDKLSRTNFGTLDLSGLRPGESRRLSKK 227 >gi|21672551|ref|NP_660618.1| hypothetical protein BUsg271 [Buchnera aphidicola str. Sg (Schizaphis graminum)] gi|22654296|sp|P42395|RLUB_BUCAP RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|21623176|gb|AAM67829.1| hypothetical 30.2 kDa protein [Buchnera aphidicola str. Sg (Schizaphis graminum)] Length = 257 Score = 143 bits (360), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 85/217 (39%), Positives = 131/217 (60%), Gaps = 13/217 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV----NVMSTDHIEVDGVPL--- 67 ++ K+++ G SRR +E MI ++ +NG E+A + N + I +D + Sbjct: 4 KIQKILSDLGYGSRRFIECMIKCGKISING---EKAIIGQYLNKKNPGEILIDKKKIIVK 60 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTN 126 R ++ +Y+KPIG V T D R TVFD LP + +R +SVGRLDINT+GLLL TN Sbjct: 61 RNKNLPKVLIYNKPIGEVCTRDDFQKRLTVFDKLPKLNLNRWVSVGRLDINTKGLLLFTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQG-ICYGDMQVTLDTQKG 184 DG LA L P +Q R Y +R G+++++K+N+L+KG+ +I G + + ++ D ++G Sbjct: 121 DGTLANKLMHPRSQIEREYNIRIFGEMNKNKINILRKGVKIIHGYVSFKEIVPLYDKKEG 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 N W L EGKNREI+ +F+ +VN+LIR+ YG Sbjct: 181 KNKWFKGILCEGKNREIRLMFKSIQCQVNQLIRVRYG 217 >gi|113868284|ref|YP_726773.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Ralstonia eutropha H16] gi|113527060|emb|CAJ93405.1| Predicted 16S rRNA uridine-516 pseudouridylate synthase or related pseudouridylate synthase [Ralstonia eutropha H16] Length = 629 Score = 143 bits (360), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 84/215 (39%), Positives = 120/215 (55%), Gaps = 5/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 ++ KV+A G+ SRRE+E +I Q RV VNG L ++ D + V+G + + T Sbjct: 225 KLHKVLAEGGLGSRREMEELILQGRVSVNG-LPAHIGQRILPADQVRVNGKLIHRKVSTK 283 Query: 74 --RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGL 130 R+ LYHKP G + + SDP+GR TVFD+LP I + ++VGRLD NTEGLL+ T G + Sbjct: 284 PPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRIKTGKWVAVGRLDFNTEGLLIFTTSGDI 343 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A P R Y VR G++ + L GI + +++ +G N W Sbjct: 344 ANRFMHPRYGVEREYAVRTLGELAEADRQRLLHGIKLDDGEANFLRIADGGGEGVNQWYH 403 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EG+NRE++++FE V+RLIR YG F L Sbjct: 404 VALTEGRNREVRRMFEAVGLTVSRLIRTRYGQFLL 438 >gi|319638171|ref|ZP_07992934.1| pseudouridine synthase [Neisseria mucosa C102] gi|317400444|gb|EFV81102.1| pseudouridine synthase [Neisseria mucosa C102] Length = 352 Score = 143 bits (360), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 81/220 (36%), Positives = 134/220 (60%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 F P+R+ KV+A +G+ SRRE+E I+ V VNG + + V DH+ V G + L+ Sbjct: 97 FEPERLQKVLAASGVGSRREMEEWISNGWVTVNGRVAQ-LGDKVTPDDHVTVKGSIIKLK 155 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 156 WADRLPRIILYYKQEGEIVSRDDPQGRISIFDRLPQAASSRWVAIGRLDINTSGLLILTT 215 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G++ +++ +L ++G++++ ++ +G+ Sbjct: 216 SGELVQRFAHPSFEVEREYAVRVLGELTTEQMRVLTEEGVMLEDGLAKVERIYEQGGEGA 275 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 276 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 315 >gi|212634749|ref|YP_002311274.1| pseudouridine synthase Rsu [Shewanella piezotolerans WP3] gi|212556233|gb|ACJ28687.1| Pseudouridine synthase, Rsu [Shewanella piezotolerans WP3] Length = 290 Score = 143 bits (360), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 89/217 (41%), Positives = 127/217 (58%), Gaps = 6/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAER 72 +++ KV+ARAG SRRE+E IA R+ V+G + V S + +DG + K+E Sbjct: 3 EKLQKVLARAGHGSRREMEAWIAAGRISVDGEIAS-LGDRVESDVKVRIDGRAISIKSEE 61 Query: 73 ---TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+DG Sbjct: 62 DVVCRVIAYHKPEGEICSRKDPEGRPTVFDRLPKTRDSRWVAVGRLDINTSGLLLFTSDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y VR G+V+ + L+ G+ ++ +V +G N W Sbjct: 122 ELANRLMHPSNEVEREYAVRTFGEVNDACIQRLRMGVTLEDGPASFDKVKAAGGEGMNKW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 182 WHVSLAEGRNREVRRLWESQEVQVSRLIRIRYGMIEL 218 >gi|329121295|ref|ZP_08249922.1| ribosomal large subunit pseudouridine synthase B [Dialister micraerophilus DSM 19965] gi|327470229|gb|EGF15692.1| ribosomal large subunit pseudouridine synthase B [Dialister micraerophilus DSM 19965] Length = 240 Score = 143 bits (360), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 86/234 (36%), Positives = 138/234 (58%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K+I+ AG+ SRR+ E +I RVKVNG + + S D IEV+G ++K ER Sbjct: 3 ERLQKIISHAGVCSRRKAEELIKDGRVKVNGHTVTKLGTEADSVRDCIEVNGKVIKK-ER 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +L++KP ++T+ +DP GR TV D I RV VGRLD ++EGLLL+TNDG L Sbjct: 62 LKYFLFNKPDKVITSMTDPAGRRTVADYFSQIKERVFPVGRLDYHSEGLLLMTNDGDLDY 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GI---CYGDMQVTLDTQKGSNAW 188 +L PS + ++Y V G+ + + +G+ I GI C D+++ ++ + + Sbjct: 122 ILTHPSHEVYKIYEVVVRGKFSERLAEKMSEGVKIDSGITAPC--DIEIISYDKEKNKTF 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + L EGKNREI+K+ E F++ V +L R+ Y L + G+ R +S + +R Sbjct: 180 LKMVLHEGKNREIRKMMEAFHFPVFKLERVGYSFLTLKGVSRGTFRSLSPEEVR 233 >gi|212638876|ref|YP_002315396.1| Pseudouridine synthase [Anoxybacillus flavithermus WK1] gi|212560356|gb|ACJ33411.1| Pseudouridine synthase [Anoxybacillus flavithermus WK1] Length = 255 Score = 143 bits (360), Expect = 5e-32, Method: Compositional matrix adjust. Identities = 84/227 (37%), Positives = 131/227 (57%), Gaps = 5/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E++I + +VKVNG ++ V V D IEVDG+PL + E Sbjct: 12 ERLQKVIAHAGVASRRKAEQLIVEGKVKVNGKVVTELGVKVSPQDRIEVDGIPLEREEPV 71 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ D GR V D + R+ +GRLD +T GLLLLTNDG A + Sbjct: 72 YYLLY-KPRGVISSVKDEKGRKVVTDFFKHVNKRIYPIGRLDYDTSGLLLLTNDGEFANI 130 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVT 190 L P + +VY + G ++K+ L+KG++++ + +++D +K A V Sbjct: 131 LMHPRYEIEKVYIAKVKGIPAREKVKQLEKGVMLEDGVTAPAKAKVLSIDKRK-QTAIVE 189 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE V +L R Y L L G RE+S Sbjct: 190 LRIHEGRNRQVRRMFEAIGHPVLKLKRERYAFLDLKGLNPGDYRELS 236 >gi|184201169|ref|YP_001855376.1| pseudouridine synthase [Kocuria rhizophila DC2201] gi|183581399|dbj|BAG29870.1| pseudouridine synthase [Kocuria rhizophila DC2201] Length = 368 Score = 143 bits (360), Expect = 5e-32, Method: Compositional matrix adjust. Identities = 87/226 (38%), Positives = 132/226 (58%), Gaps = 4/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A+AG+ASRR E MI RV V+G ++ V V + + VDG+ ++ E+ Sbjct: 131 RLQKLMAQAGVASRRVCEEMIQDGRVSVDGEIVTELGVRVDPALQAVHVDGMRIQTDEKL 190 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + ++KP G+V+T DPDGR V D L P RV VGRLD+ TEGLLLLTNDG L Sbjct: 191 VYYAFNKPAGVVSTMEDPDGRRCVSDFLDPRKHQRVFHVGRLDVETEGLLLLTNDGELTN 250 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L PS + + Y V+ HG V++ N +K+GI ++ GI D +D+ G + + V Sbjct: 251 RLTHPSYEVPKTYLVQVHGPVEKGIGNQMKQGIRLEDGIAKVDDFRLVDSTPG-HVLIEV 309 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L G+NR ++++F+ + V +L R GP +G G+ R++S Sbjct: 310 VLHSGRNRIVRRMFDAVDHPVEKLARTHVGPIAIGDQKQGTVRKLS 355 >gi|125718577|ref|YP_001035710.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK36] gi|125498494|gb|ABN45160.1| Ribosomal large subunit pseudouridine synthase B, putative [Streptococcus sanguinis SK36] gi|325695058|gb|EGD36961.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK150] gi|328946852|gb|EGG40989.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK1087] gi|332367409|gb|EGJ45142.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK1059] Length = 242 Score = 142 bits (359), Expect = 5e-32, Method: Compositional matrix adjust. Identities = 86/230 (37%), Positives = 135/230 (58%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q +V +NG ++ A NV S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIRQGKVSINGQVVRELATNVKSGDRVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV + LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVVELLPQVKERIYPVGRLDWDTSGILILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +GI I+G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKV--DPAK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+F+ +V++L R +G L L G R++SKK Sbjct: 178 QLTIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKK 227 >gi|119476913|ref|ZP_01617194.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [marine gamma proteobacterium HTCC2143] gi|119449720|gb|EAW30957.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [marine gamma proteobacterium HTCC2143] Length = 282 Score = 142 bits (359), Expect = 5e-32, Method: Compositional matrix adjust. Identities = 93/243 (38%), Positives = 142/243 (58%), Gaps = 12/243 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNVMSTDHIEVDGV 65 E+ ++ K++A+AG+ SRRE+E++IA +RV VNG L +RA+ S D I VDG Sbjct: 5 ESPAGDKLQKLLAQAGVGSRREMEKVIADRRVTVNGKVAKLGDRAS----SRDKIAVDGK 60 Query: 66 PLRKAERT---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGL 121 + AE+ R+ +Y+KP G + + SDP+GR TVF+ LP + SR I+VGRLD NT GL Sbjct: 61 LVGVAEQDSAGRVLIYNKPEGEICSRSDPEGRKTVFERLPKLTGSRWIAVGRLDFNTSGL 120 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 ++ T DG LA L PS++ R Y R G V L L G++++ + Sbjct: 121 MIFTTDGQLANALMHPSSEIDREYLCRVLGNVSDVVLQRLSDGVLLEDGTAKFTDIVDGG 180 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP-FQLGTLLAGSTREVSKKI 240 +G+N W V L EG+NRE+++++E +V+RL R+ +G F L G +E+ K Sbjct: 181 GEGANHWYYVALMEGRNREVRRLWESQEIQVSRLKRVRFGGVFLPSKLRQGQWQEMPYKE 240 Query: 241 LRE 243 ++E Sbjct: 241 VQE 243 >gi|332969784|gb|EGK08795.1| ribosomal large subunit pseudouridine synthase B [Psychrobacter sp. 1501(2011)] Length = 354 Score = 142 bits (359), Expect = 6e-32, Method: Compositional matrix adjust. Identities = 83/220 (37%), Positives = 129/220 (58%), Gaps = 12/220 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLR-- 68 +++ K +AR G+ SRR++E +I RV +N ++ A V +D I VDG ++ Sbjct: 47 EKLQKALARMGLGSRRQMEEVIKAGRVSIN----QKPATIGDRVEQSDEIRVDGRLIKYK 102 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 + +R R+ Y+KP G + + +DP+GR+TVF+ LP + R I VGRLDIN+ GLLL T Sbjct: 103 SEREKRRRVLAYYKPEGEICSANDPEGRTTVFERLPKLTHDRWIMVGRLDINSTGLLLFT 162 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + +R Y VR G++ + + L G++++ + +G Sbjct: 163 NDGELAHRLMHPSNEIVREYAVRILGELTPEMMRNLTDGVMLEDGLAKFEDIRQGGGEGV 222 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L+EG+NRE++++ E KV+RL+R SYG L Sbjct: 223 NKWYHVKLKEGRNREVRRLIESQGLKVSRLLRTSYGSVDL 262 >gi|24380085|ref|NP_722040.1| putative pseudouridylate synthase B, large subunit [Streptococcus mutans UA159] gi|24378080|gb|AAN59346.1|AE015000_4 putative pseudouridylate synthase B, large subunit [Streptococcus mutans UA159] Length = 240 Score = 142 bits (359), Expect = 6e-32, Method: Compositional matrix adjust. Identities = 84/227 (37%), Positives = 127/227 (55%), Gaps = 3/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V +NG ++ A V S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTLNGQMVTELATTVKSGDRVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ D GR TV D LP + R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVRDDKGRQTVVDLLPEVKERIYPVGRLDWDTSGLLILTNDGDFTDKM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVG 192 P + +VY R G +D L L KGIVI G ++ ++ + + V + Sbjct: 121 LHPRHEIDKVYVARVKGLASKDNLRPLTKGIVIDGKKTQPARYRIVKTDREKNRSVVELT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+FE V++L R +G L L G R ++KK Sbjct: 181 IHEGRNHQVKKMFEAVGLMVDKLSRTRFGTLDLSGLNPGEARRLNKK 227 >gi|317121959|ref|YP_004101962.1| ribosomal large subunit pseudouridine synthase B [Thermaerobacter marianensis DSM 12885] gi|315591939|gb|ADU51235.1| ribosomal large subunit pseudouridine synthase B [Thermaerobacter marianensis DSM 12885] Length = 320 Score = 142 bits (359), Expect = 6e-32, Method: Compositional matrix adjust. Identities = 96/265 (36%), Positives = 140/265 (52%), Gaps = 20/265 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPL--- 67 QR+ K+++RAGIASRR+VE IA R+ VNG +L RA D I VDG PL Sbjct: 4 QRLQKLLSRAGIASRRQVENWIAAGRITVNGRPAVLGTRADPE---RDVIAVDGRPLADL 60 Query: 68 -RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-SVGRLDINTEGLLLLT 125 ++ R R + HKP G+VTT DP GR +V D R + VGRLD ++EGLLLLT Sbjct: 61 RQRLARKRYVMLHKPRGMVTTLRDPQGRPSVGDFCRRAGLRGLHPVGRLDFDSEGLLLLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG L L P + +VY V G ++ +L L+ G+++ + + Sbjct: 121 DDGELTFALTHPRHEVDKVYHVLVRGPLEPQRLRRLRDGVLLDDGPARARSARILRPRPG 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 WV V LREG+ R+++++ W V RL+R++ GP +LG L AG R +S++ Sbjct: 181 GGWVEVVLREGRKRQVRRMCRAVGWDVVRLVRVAVGPLRLGRLTAGQWRPLSRQ------ 234 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRD 270 +E + PI+ E R+ Sbjct: 235 ---EVEALRAAAGLPIHGDEPAPRE 256 >gi|282599636|ref|ZP_05971291.2| ribosomal large subunit pseudouridine synthase B [Providencia rustigianii DSM 4541] gi|282568029|gb|EFB73564.1| ribosomal large subunit pseudouridine synthase B [Providencia rustigianii DSM 4541] Length = 313 Score = 142 bits (359), Expect = 6e-32, Method: Compositional matrix adjust. Identities = 83/218 (38%), Positives = 128/218 (58%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ K++AR+G SRRE+E + + R+ V+G + V V ++ I +DG + +R+ Sbjct: 17 EKLQKILARSGHGSRREIEGFLKEGRISVDGKMATLGDRVEVTTSTKIRLDGRLLTIREP 76 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 E+ R+ Y+KP G + T DP+GR TVF LP + +R I+VGRLD+NT GLLL T D Sbjct: 77 EKDICRVMAYYKPEGELCTRHDPEGRPTVFTRLPKLTGARWIAVGRLDVNTSGLLLFTTD 136 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G++ K+ L G+ ++ V+ +G N Sbjct: 137 GELANRLMHPSREVEREYAVRVFGEITDAKIRQLTMGVQLEDGPASFKTVSFRGGEGMNQ 196 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 197 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIDL 234 >gi|170078952|ref|YP_001735590.1| RNA pseudouridylate synthase [Synechococcus sp. PCC 7002] gi|169886621|gb|ACB00335.1| RNA pseudouridylate synthase [Synechococcus sp. PCC 7002] Length = 259 Score = 142 bits (359), Expect = 6e-32, Method: Compositional matrix adjust. Identities = 90/256 (35%), Positives = 136/256 (53%), Gaps = 12/256 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV K++AR GIASRR E++I RV +NG ++ D + VDG PL+ ER Sbjct: 3 ERVQKILARWGIASRRGAEKLILAGRVTLNGKPVQLGDQADPEGDRLCVDGKPLKATERP 62 Query: 74 RLWLY--HKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 R + Y HKP G+V+T +DP GRSTV D LP + + +GRLD + G LLLTNDG Sbjct: 63 RHYYYLIHKPKGVVSTCADPKGRSTVLDLLPPPLRQGKGIHPIGRLDAQSTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L P + YRV G+V + L+ ++G+++ Q+ L T Sbjct: 123 NFTLALTHPRYHIPKTYRVWLKGKVPEHVLDQWRQGVMLGDRRTLPTQIHLKTITQDKTC 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + L EG+NR+I++V E + V +L R++ G LG L G R ++K +++ Sbjct: 183 IDIMLTEGRNRQIRRVAEQLGFPVVKLHRLAIGNLHLGDLQRGQARPLTKAEIKQL---- 238 Query: 249 LLEEAQVNLDAPIYSS 264 +Q N + P +SS Sbjct: 239 ---RSQYNSNFPFHSS 251 >gi|325687113|gb|EGD29136.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK72] Length = 242 Score = 142 bits (359), Expect = 6e-32, Method: Compositional matrix adjust. Identities = 86/230 (37%), Positives = 135/230 (58%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q +V +NG ++ A NV S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIRQGKVSINGQVVRELATNVKSGDCVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV + LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVVELLPQVKERIYPVGRLDWDTSGILILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +GI I+G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKV--DPAK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+F+ +V++L R +G L L G R++SKK Sbjct: 178 QLTIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKK 227 >gi|329119926|ref|ZP_08248600.1| ribosomal large subunit pseudouridine synthase B [Neisseria bacilliformis ATCC BAA-1200] gi|327464082|gb|EGF10393.1| ribosomal large subunit pseudouridine synthase B [Neisseria bacilliformis ATCC BAA-1200] Length = 369 Score = 142 bits (359), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 82/218 (37%), Positives = 130/218 (59%), Gaps = 6/218 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--LRKA 70 P+R+ KV+A +G SRRE+E IA V+VNG + V D + V G P L+ A Sbjct: 117 PERLQKVLAASGAGSRREMEEWIAAGLVQVNGKTAQ-LGDKVTPDDQVTVKGSPIKLKWA 175 Query: 71 ER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDG 128 +R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT G Sbjct: 176 DRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTTSG 235 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 L + PS + R Y VR G++ +++ L +G+++ ++ +G+N Sbjct: 236 ELVQRFAHPSFEVEREYAVRVLGELTAEQMRELTTEGVMLDDGLAKVERIFEQGGEGANK 295 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W +V ++EG+NRE++++FE F V+RL+R+ +GP L Sbjct: 296 WYSVVIKEGRNREVRRIFEHFGLTVSRLVRVGFGPIGL 333 >gi|323489657|ref|ZP_08094884.1| pseudouridine synthase [Planococcus donghaensis MPA1U2] gi|323396788|gb|EGA89607.1| pseudouridine synthase [Planococcus donghaensis MPA1U2] Length = 243 Score = 142 bits (359), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 86/234 (36%), Positives = 134/234 (57%), Gaps = 6/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR+ E++I +V+VNG ++ V V ++D IEV+GV L K ++ Sbjct: 2 ERLQKVLAHAGVASRRKSEQLILDGKVRVNGKTIKELGVKVSNSDKIEVEGVQLEKEQKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+++ SD R V D I R+ VGRLD +T GLL++TNDG A + Sbjct: 62 YHLLY-KPRGVISAVSDDKNRKVVTDFFEGIEKRIYPVGRLDYDTSGLLIMTNDGEFANM 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTV 191 L P + + Y R G ++D L L++GI ++ +V L +K A V + Sbjct: 121 LTHPKFEIDKTYVARLKGIPEKDDLRKLERGIKLEDGMTAPAKVKLLSGDKKTGKAIVQI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILR 242 + EG+NR+++++FE + V +L R + L L AG +RE+S K+LR Sbjct: 181 TIHEGRNRQVRRMFEAIGYPVQKLSREQFAFLTLHGLNAGESRELSAHEVKLLR 234 >gi|190575146|ref|YP_001972991.1| ribosomal large subunit pseudouridine synthase B [Stenotrophomonas maltophilia K279a] gi|190013068|emb|CAQ46700.1| ribosomal large subunit pseudouridine synthase B [Stenotrophomonas maltophilia K279a] Length = 542 Score = 142 bits (359), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 90/226 (39%), Positives = 134/226 (59%), Gaps = 10/226 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA+ VKVNG + + ++V S D IE+DG V A Sbjct: 24 ERLHKVLAQAGLGSRRALEQRIAEGLVKVNGEVAQ-TGMSVKSGDKIELDGRGFVATALA 82 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G VTT DP+GR TVF++LP + +R I++GRLDINT GLLL T DG Sbjct: 83 EPSRVLVYNKPEGEVTTREDPEGRPTVFESLPPLKGARWIAIGRLDINTTGLLLATTDGE 142 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-----QKG 184 LA + PS + R Y VR ++K++ + +G+ D D Sbjct: 143 LANAMMHPSFEVEREYVVRVRAPEGEEKVSDAIVDRLARGVALEDGPAKFDEIERIGGTD 202 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 S+ W V ++EG+NRE+++++E +V+RL R YG L LA Sbjct: 203 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGKVSLPRELA 248 >gi|148658668|ref|YP_001278873.1| pseudouridine synthase [Roseiflexus sp. RS-1] gi|148570778|gb|ABQ92923.1| pseudouridine synthase [Roseiflexus sp. RS-1] Length = 624 Score = 142 bits (358), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 91/225 (40%), Positives = 125/225 (55%), Gaps = 2/225 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRK 69 + +R+ KV+A AGIASRR+ E IA RV VNG ++ V D I VDG P+ K Sbjct: 1 MSAERLQKVLASAGIASRRDCEEYIAAGRVMVNGKVVRIPGTRVDPEHDEILVDGRPIGK 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + HKP G+V+T DP GR TV D L ++ R+ VGRLD ++EGLLLLT+DG Sbjct: 61 IHHRTYVMLHKPAGVVSTTDDPQGRPTVID-LVNLEQRLFPVGRLDYDSEGLLLLTDDGE 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + L PS Q + YRV + L + G+ + G+ V L + AWV Sbjct: 120 LTQKLTHPSYQVEKEYRVLLNEAPSPAALRAWRTGVELDGVKTAPAWVELIERTPDGAWV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V L EG+ R+I++V ++V RLIR+ GP LG L +G+ R Sbjct: 180 RVILHEGRKRQIREVARVLGYEVRRLIRVREGPLTLGDLPSGTWR 224 >gi|116625544|ref|YP_827700.1| ribosomal large subunit pseudouridine synthase B [Candidatus Solibacter usitatus Ellin6076] gi|116228706|gb|ABJ87415.1| ribosomal large subunit pseudouridine synthase B [Candidatus Solibacter usitatus Ellin6076] Length = 249 Score = 142 bits (358), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 84/223 (37%), Positives = 132/223 (59%), Gaps = 4/223 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K++++AG++SRR+ E+++ + RV VNG ++ E + + DHI+VDG L KA + Sbjct: 4 ERLQKILSQAGVSSRRQAEKLMQEGRVTVNGSVITELGSKADLDRDHIKVDG-RLLKAPK 62 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++++ +KP G VTT DP+GR TV D L + RV VGRLD ++EGLLLLTNDG LA Sbjct: 63 HQIYIALNKPKGTVTTVHDPEGRETVMDLLHRVKERVYPVGRLDYHSEGLLLLTNDGELA 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + +T + Y V+ G + ++ + G+ + G + L + N W V Sbjct: 123 NSIMSAATHLEKTYVVKVTGTLTAEQEEKFRTGVPLSGRRTLPAGLKL-LSRAENPWYEV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 L EG+N +I+ +F F V +L R+ GP +LGTL G+ R Sbjct: 182 KLTEGRNNQIRMMFRHFGKLVEKLKRVRIGPIELGTLKTGAFR 224 >gi|327470426|gb|EGF15882.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK330] Length = 242 Score = 142 bits (358), Expect = 8e-32, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 135/230 (58%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q +V +NG ++ A N+ S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIRQGKVSINGQVVRELATNIKSGDRVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV + LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVVELLPQVKERIYPVGRLDWDTSGILILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +GI I+G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKV--DPAK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+F+ +V++L R +G L L G R++SKK Sbjct: 178 QLTIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKK 227 >gi|324993667|gb|EGC25586.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK405] gi|324995021|gb|EGC26934.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK678] gi|327462936|gb|EGF09257.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK1] Length = 242 Score = 142 bits (358), Expect = 8e-32, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 135/230 (58%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q +V +NG ++ A NV S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIRQGKVSINGQVVRELATNVKSGDRVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV + LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVVELLPQVKERIYPVGRLDWDTSGILILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +GI I+G Y ++V D K + + + Sbjct: 121 IHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKV--DPAK-NRSVI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+F+ +V++L R +G L L G R++SKK Sbjct: 178 QLTIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKK 227 >gi|33592372|ref|NP_880016.1| hypothetical protein BP1244 [Bordetella pertussis Tohama I] gi|33572017|emb|CAE41540.1| conserved hypothetical protein [Bordetella pertussis Tohama I] gi|332381788|gb|AEE66635.1| hypothetical protein BPTD_1234 [Bordetella pertussis CS] Length = 588 Score = 142 bits (358), Expect = 8e-32, Method: Compositional matrix adjust. Identities = 85/215 (39%), Positives = 124/215 (57%), Gaps = 13/215 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKA-- 70 ++ KV+A AGI SRRE+E +I RV VNG E A + V D + V+G P+ + Sbjct: 118 KLHKVLADAGIGSRREMEELIVAGRVSVNG---EPAHIGQRVAPNDQVRVNGKPIARPNA 174 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 + R+ LYHKP G + +H DP GR++VF LP + + +SVGRLD+NTEGLL+ T G Sbjct: 175 KKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTEGLLIFTTSG 234 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSN 186 +A + P R Y VR G++D + L +GI ++ +G + GSN Sbjct: 235 DMANRIMHPRYGTEREYAVRVLGEMDDAQRKSLTEGIELEDGKAAFGSFEYL--GGDGSN 292 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 W V L+EG+NRE++++FE V+RLIR +G Sbjct: 293 RWYRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFG 327 >gi|33602225|ref|NP_889785.1| hypothetical protein BB3249 [Bordetella bronchiseptica RB50] gi|33576663|emb|CAE33741.1| conserved hypothetical protein [Bordetella bronchiseptica RB50] Length = 593 Score = 142 bits (358), Expect = 8e-32, Method: Compositional matrix adjust. Identities = 85/215 (39%), Positives = 124/215 (57%), Gaps = 13/215 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKA-- 70 ++ KV+A AGI SRRE+E +I RV VNG E A + V D + V+G P+ + Sbjct: 125 KLHKVLADAGIGSRREMEELIVAGRVSVNG---EPAHIGQRVAPNDQVRVNGKPIARPNA 181 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 + R+ LYHKP G + +H DP GR++VF LP + + +SVGRLD+NTEGLL+ T G Sbjct: 182 KKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTEGLLIFTTSG 241 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSN 186 +A + P R Y VR G++D + L +GI ++ +G + GSN Sbjct: 242 DMANRIMHPRYGTEREYAVRVLGEMDDAQRKSLTEGIELEDGKAAFGSFEYL--GGDGSN 299 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 W V L+EG+NRE++++FE V+RLIR +G Sbjct: 300 RWYRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFG 334 >gi|33596480|ref|NP_884123.1| hypothetical protein BPP1859 [Bordetella parapertussis 12822] gi|33566249|emb|CAE37160.1| conserved hypothetical protein [Bordetella parapertussis] Length = 592 Score = 142 bits (358), Expect = 8e-32, Method: Compositional matrix adjust. Identities = 85/215 (39%), Positives = 124/215 (57%), Gaps = 13/215 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKA-- 70 ++ KV+A AGI SRRE+E +I RV VNG E A + V D + V+G P+ + Sbjct: 125 KLHKVLADAGIGSRREMEELIVAGRVSVNG---EPAHIGQRVAPNDQVRVNGKPIARPNA 181 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 + R+ LYHKP G + +H DP GR++VF LP + + +SVGRLD+NTEGLL+ T G Sbjct: 182 KKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTEGLLIFTTSG 241 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSN 186 +A + P R Y VR G++D + L +GI ++ +G + GSN Sbjct: 242 DMANRIMHPRYGTEREYAVRVLGEMDDAQRKSLTEGIELEDGKAAFGSFEYL--GGDGSN 299 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 W V L+EG+NRE++++FE V+RLIR +G Sbjct: 300 RWYRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFG 334 >gi|238019398|ref|ZP_04599824.1| hypothetical protein VEIDISOL_01262 [Veillonella dispar ATCC 17748] gi|237864097|gb|EEP65387.1| hypothetical protein VEIDISOL_01262 [Veillonella dispar ATCC 17748] Length = 242 Score = 142 bits (358), Expect = 8e-32, Method: Compositional matrix adjust. Identities = 83/228 (36%), Positives = 137/228 (60%), Gaps = 6/228 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K IA G+ASRR+ E +I + +V+VNG + V + D ++V+G L E+ Sbjct: 2 ERLQKFIASCGVASRRKAEELITEGKVQVNGRKVTELGVKIDPQKDKVKVNG-QLLAQEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++T+ SDP GR TV D + + R+ +GRLD+ TEGLLLLTNDG LA+ Sbjct: 61 PVYYLLNKPKGVITSVSDPQGRETVLDYIKNESKRIYPIGRLDLYTEGLLLLTNDGELAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL--DTQKGSNAWV 189 L PS + Y VR G+V + L ++ G+ ++ G+ V L D G + V Sbjct: 121 NLTHPSKGVEKTYEVRIKGRVRDEDLQVIANGVKLEDGMTAPATIVDLGFDDHNGVHE-V 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE F ++++ L RI+Y LG + G++R+++ Sbjct: 180 EITIHEGRNRQVRRMFEHFGYRIHNLKRIAYAGLTLGGVKRGASRQLT 227 >gi|149181685|ref|ZP_01860178.1| RluB [Bacillus sp. SG-1] gi|148850663|gb|EDL64820.1| RluB [Bacillus sp. SG-1] Length = 243 Score = 142 bits (358), Expect = 8e-32, Method: Compositional matrix adjust. Identities = 84/226 (37%), Positives = 127/226 (56%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I + +VKVNG + V TD IEV+G+ + + + Sbjct: 2 ERLQKVIAHAGVASRRKAEELILEGKVKVNGKTEKELGTKVSGTDKIEVNGIQIERENKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+++ +D R V D P I R+ VGRLD +T GL+LLTNDG A + Sbjct: 62 YYLLY-KPRGVISAVTDDKDRKVVTDFFPYIQERIYPVGRLDYDTSGLILLTNDGEFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + Y R G + KL L+KGI+++ ++V +K + V + Sbjct: 121 LTHPRYNIDKTYVARLKGIPPKFKLKELEKGIMLEDGKTAPAKVKVLKIEKKQDKSIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EGKNR++K++FE ++V +L R + L L AG +RE+S Sbjct: 181 TIHEGKNRQVKRMFEAIGYQVQKLKRERFAFLDLHGLNAGESRELS 226 >gi|254525039|ref|ZP_05137094.1| pseudouridylate synthase [Stenotrophomonas sp. SKA14] gi|219722630|gb|EED41155.1| pseudouridylate synthase [Stenotrophomonas sp. SKA14] Length = 546 Score = 142 bits (358), Expect = 8e-32, Method: Compositional matrix adjust. Identities = 90/226 (39%), Positives = 134/226 (59%), Gaps = 10/226 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA+ VKVNG + + ++V S D IE+DG V A Sbjct: 24 ERLHKVLAQAGLGSRRALEQRIAEGLVKVNGEVAQ-TGMSVKSGDKIELDGRGFVATALA 82 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G VTT DP+GR TVF++LP + +R I++GRLDINT GLLL T DG Sbjct: 83 EPSRVLVYNKPEGEVTTREDPEGRPTVFESLPPLKGARWIAIGRLDINTTGLLLATTDGE 142 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-----QKG 184 LA + PS + R Y VR ++K++ + +G+ D D Sbjct: 143 LANAMMHPSFEVEREYVVRVRAPEGEEKVSDAIVDRLSRGVALEDGPAKFDEIERIGGTD 202 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 S+ W V ++EG+NRE+++++E +V+RL R YG L LA Sbjct: 203 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGKVSLPRELA 248 >gi|326565822|gb|EGE15984.1| ribosomal large subunit pseudouridine synthase B [Moraxella catarrhalis BC1] Length = 328 Score = 142 bits (358), Expect = 8e-32, Method: Compositional matrix adjust. Identities = 88/214 (41%), Positives = 127/214 (59%), Gaps = 8/214 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAER 72 +++ K++AR G+ SRR +E +I R+ +NG + V+ TD I +DG +R KAER Sbjct: 24 EKLQKLLARLGLGSRRGLEEIIKSGRISINGKVAT-LGDRVILTDEIRIDGRQVRLKAER 82 Query: 73 T---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + + SDP GR TVFD LP + + R + VGRLDIN+ GLLL TNDG Sbjct: 83 EKRRRVIAYYKPEGEICSASDPQGRPTVFDRLPKLTNDRWVMVGRLDINSSGLLLFTNDG 142 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNA 187 LA L PS+ +R Y VR G+V + L G+ ++ G+ D + G N Sbjct: 143 ELAHRLMHPSSGIIREYAVRVLGEVTSQIASQLTAGVELEDGVAKFD-DIKEGGGIGVNK 201 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 W V ++EG+ RE++++FE KV+RLIR YG Sbjct: 202 WYHVTIKEGRKREVRRMFESQTLKVSRLIRTRYG 235 >gi|86607697|ref|YP_476459.1| RNA pseudouridine synthase family protein [Synechococcus sp. JA-2-3B'a(2-13)] gi|86556239|gb|ABD01196.1| RNA pseudouridine synthase family protein [Synechococcus sp. JA-2-3B'a(2-13)] Length = 274 Score = 142 bits (358), Expect = 9e-32, Method: Compositional matrix adjust. Identities = 92/248 (37%), Positives = 134/248 (54%), Gaps = 13/248 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG--VPLRK 69 PQR+ K++A+ G+ASRR+VE I RV+VNG ++ E + D IEV+G +PL K Sbjct: 4 PQRLQKLLAQQGLASRRQVEAWILAGRVRVNGKVVTELGSKADPERDCIEVNGQVIPLAK 63 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTN 126 + L HKP+G+++T +DP GR TV D LP + +R+ VGRLD ++ G LLLTN Sbjct: 64 DPARYVLLLHKPVGVLSTCADPWGRKTVLDLLPPSWKRQTRLYPVGRLDADSSGALLLTN 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------- 179 DG L L P + YRV+ G Q L + G+ ++G +V Sbjct: 124 DGDLTLKLTHPRYHLPKTYRVQVQGHPSQATLQHWRDGVDLEGYTTLPAEVEFCPAPDFR 183 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + +W+ V L EG+NR+I++V E V L R + GP LG L AG R++ Sbjct: 184 QREHPNCSWLRVVLFEGRNRQIRRVAERLGHPVLSLHREAIGPLGLGNLKAGQFRQLDPH 243 Query: 240 ILREQLGP 247 L+ L P Sbjct: 244 ELQALLAP 251 >gi|306834130|ref|ZP_07467250.1| ribosomal large subunit pseudouridine synthase B [Streptococcus bovis ATCC 700338] gi|304423703|gb|EFM26849.1| ribosomal large subunit pseudouridine synthase B [Streptococcus bovis ATCC 700338] Length = 241 Score = 142 bits (358), Expect = 9e-32, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 133/228 (58%), Gaps = 5/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I + V +NG ++ A V + D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEDLIKRGLVTINGKVVTELATTVKAGDVVEVEGTPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP++ R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVVDLLPNVTERIYPVGRLDWDTTGLLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVTV 191 P + +VY R G ++ L L +G+VI G + + +D +K + + V + Sbjct: 121 IHPRNEIDKVYLARVKGLATKENLRPLTRGVVIDGKKTKPARYNIIKVDPEK-NRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+FE V++L R ++G L L G +R +SKK Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTNFGTLDLSGLRPGESRRLSKK 227 >gi|294141568|ref|YP_003557546.1| ribosomal large subunit pseudouridine synthase B [Shewanella violacea DSS12] gi|293328037|dbj|BAJ02768.1| ribosomal large subunit pseudouridine synthase B [Shewanella violacea DSS12] Length = 288 Score = 142 bits (357), Expect = 9e-32, Method: Compositional matrix adjust. Identities = 90/220 (40%), Positives = 129/220 (58%), Gaps = 12/220 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNVMSTDHIEVDG--VPLR 68 +++ KV+ARAG SRRE+E IA R+ ++G L +R +V I +DG V ++ Sbjct: 3 EKLQKVLARAGHGSRREMEAWIAAGRISIDGEIANLGDRIEADV----KIRIDGRTVSIK 58 Query: 69 KAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 E R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T Sbjct: 59 SEEDLICRVIAYHKPEGEICSRKDPEGRPTVFDRLPKTRDSRWVAVGRLDINTSGLLLFT 118 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG LA L PS + R Y VR G+V+ + L+ G+ ++ +V +G Sbjct: 119 SDGELANRLMHPSNEVEREYAVRTFGEVNDACIQRLRTGVTLEDGPASFDKVKAAGGEGM 178 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 179 NKWWHVTLAEGRNREVRRLWESQEVQVSRLIRIRYGKIEL 218 >gi|322391362|ref|ZP_08064832.1| ribosomal large subunit pseudouridine synthase B [Streptococcus peroris ATCC 700780] gi|321145788|gb|EFX41179.1| ribosomal large subunit pseudouridine synthase B [Streptococcus peroris ATCC 700780] Length = 240 Score = 142 bits (357), Expect = 9e-32, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 133/230 (57%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G D+D L L +G+ I G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGIADKDNLRPLTRGVEIDGKKTKPAVYEILKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE +V++L R +G L L G +R ++KK Sbjct: 178 QLTIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKK 227 >gi|254491124|ref|ZP_05104305.1| conserved hypothetical protein, putative [Methylophaga thiooxidans DMS010] gi|224463637|gb|EEF79905.1| conserved hypothetical protein, putative [Methylophaga thiooxydans DMS010] Length = 293 Score = 142 bits (357), Expect = 9e-32, Method: Compositional matrix adjust. Identities = 87/222 (39%), Positives = 133/222 (59%), Gaps = 20/222 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAE 71 +R+ KV+ARAG SRR+VE I + +V NG E A + + D +++D L Sbjct: 3 ERIQKVLARAGYGSRRQVETWIKEGKVSCNG---ETATLGDQISEGDRLKLDNKLLSPK- 58 Query: 72 RTRLW-------LYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLL 123 RLW LY+KP+G V T SDP+GR T+F LP+ R +SVGRLD+NT GL++ Sbjct: 59 --RLWQQPQQVILYNKPVGEVCTRSDPEGRRTIFQALPTPEQGRWVSVGRLDLNTSGLII 116 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDT 181 LT DG LA L PS + R Y VR G+V + + L+ G++++ + D+Q + Sbjct: 117 LTTDGELANRLMHPSNEMDREYAVRVLGEVTPEIMQNLRDGVMLEDGEAHFADIQES--G 174 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 +G+N W V ++EG+NRE+++++E +V+RL+R+ YGP Sbjct: 175 GEGANHWYHVVIQEGRNREVRRLWESQGVQVSRLMRVRYGPI 216 >gi|194366464|ref|YP_002029074.1| RNA-binding S4 domain-containing protein [Stenotrophomonas maltophilia R551-3] gi|194349268|gb|ACF52391.1| RNA-binding S4 domain protein [Stenotrophomonas maltophilia R551-3] Length = 549 Score = 142 bits (357), Expect = 9e-32, Method: Compositional matrix adjust. Identities = 97/245 (39%), Positives = 143/245 (58%), Gaps = 14/245 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA+ VKVNG + + ++V S D IE+DG V A Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIAEGLVKVNGEVAQ-TGMSVKSGDKIELDGRGFVATALA 86 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G VTT DP+GR TVF++LP + +R I+VGRLDINT GLLL T DG Sbjct: 87 EPSRVLVYNKPEGEVTTREDPEGRPTVFESLPPLKGARWIAVGRLDINTTGLLLATTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-----QKG 184 LA + PS + R Y VR ++K++ + +G+ D D Sbjct: 147 LANAMMHPSFEVEREYVVRVRAPEGEEKVSDAIIDRLGRGVALEDGPAKFDEIERIGGTD 206 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK---KI 240 S+ W V ++EG+NRE+++++E +V+RL R YG L LA G + E+ + Sbjct: 207 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGKVTLPRELARGHSVELGSAQVEA 266 Query: 241 LREQL 245 LR QL Sbjct: 267 LRAQL 271 >gi|51892921|ref|YP_075612.1| ribosomal large subunit pseudouridine synthase B [Symbiobacterium thermophilum IAM 14863] gi|51856610|dbj|BAD40768.1| ribosomal large subunit pseudouridine synthase B [Symbiobacterium thermophilum IAM 14863] Length = 254 Score = 142 bits (357), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 91/229 (39%), Positives = 130/229 (56%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ KV+ARAG+ASRR E +I RV VNG ++ + V+ D IEVDG PL E Sbjct: 3 ERLQKVMARAGVASRRHCEALIQAGRVTVNGQVVTQLGTKVVPGKDVIEVDGRPLGTPET 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G V+T DP GR V D L + RV VGRLD +TEGLLLLTNDG LA Sbjct: 63 KVYVMLNKPKGYVSTLYDPQGRPKVIDLLGDEVAQRVYPVGRLDFDTEGLLLLTNDGDLA 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNAWVT 190 L PS + Y V+ G KL L++GI ++ +V LD + ++A ++ Sbjct: 123 HGLMHPSRMVKKTYIVKVRGVPGPAKLRALQEGIELEDGPTAPAEVKMLDVRPPNSATLS 182 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + EG+NR+++++F +V L R + GP +LG L G R ++ + Sbjct: 183 VRIHEGRNRQVRRMFAALGHEVIHLRRTTLGPLKLGDLSVGEWRYLTDQ 231 >gi|262369297|ref|ZP_06062625.1| ribosomal large subunit pseudouridine synthase B [Acinetobacter johnsonii SH046] gi|262315365|gb|EEY96404.1| ribosomal large subunit pseudouridine synthase B [Acinetobacter johnsonii SH046] Length = 368 Score = 142 bits (357), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 84/213 (39%), Positives = 124/213 (58%), Gaps = 6/213 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----VPLRK 69 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG + Sbjct: 3 EKLQKVLARVGLGSRRYMEEVIAAGRVSVNGQVAQ-VGERIEPGDELRIDGRKVSFQIED 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R R+ +Y+KP G + + +DP+ R TVFD LP+I + R + VGRLDIN+ GLLL TNDG Sbjct: 62 EIRRRVLIYYKPEGEICSRNDPESRPTVFDQLPAIANDRWVMVGRLDINSTGLLLFTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y VR G+V N + KG+V+ + +G N W Sbjct: 122 ELANRLMHPSNEVEREYAVRVMGEVTPQIKNNMLKGVVLDDGPAKFESFSEIGGEGINRW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V ++EG+NRE++++FE KV+RL+R YG Sbjct: 182 YQVVVKEGRNREVRRIFESQGLKVSRLLRTRYG 214 >gi|170727249|ref|YP_001761275.1| pseudouridine synthase [Shewanella woodyi ATCC 51908] gi|169812596|gb|ACA87180.1| pseudouridine synthase [Shewanella woodyi ATCC 51908] Length = 287 Score = 142 bits (357), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 92/221 (41%), Positives = 131/221 (59%), Gaps = 14/221 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNVMSTDHIEVDG--VPLR 68 +++ KV+ARAG SRRE+E IA R+ ++G L +R +V I +DG V ++ Sbjct: 3 EKLQKVLARAGHGSRREMEAWIAAGRISIDGEIANLGDRVEADV----KIRIDGRAVSIK 58 Query: 69 KAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 E R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T Sbjct: 59 SEEDLVCRVIAYHKPEGEICSRKDPEGRPTVFDRLPKTRDSRWVAVGRLDINTSGLLLFT 118 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG 184 +DG LA L PS + R Y VR G+V + L+ G+ ++ G + D +V +G Sbjct: 119 SDGELANRLMHPSNEVEREYAVRTFGEVTDACIQRLRTGVTLEDGPAHFD-KVKAAGGEG 177 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 178 MNKWWHVSLAEGRNREVRRLWESQEVQVSRLIRIRYGMIEL 218 >gi|40063061|gb|AAR37917.1| RNA pseudouridylate synthase family protein [uncultured marine bacterium 560] Length = 244 Score = 142 bits (357), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 86/219 (39%), Positives = 133/219 (60%), Gaps = 12/219 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDG--VPLR 68 +R+ K+IA AG SRR ER+I Q RV +N L ++A +N D + +DG + L+ Sbjct: 3 ERLQKLIANAGYGSRRWAERLIEQGRVSLNNHDVKLGDKAVLN----DKVRIDGKLIDLK 58 Query: 69 KAERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + +T ++ + +K G + + DP+GR +VFD LP SR I +GRLD+N+ GLLL TN Sbjct: 59 RYAKTETKVLILNKQAGFICSTKDPEGRKSVFDLLPE-NSRWIMIGRLDLNSSGLLLFTN 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G LA L PS Q R Y VR G+V ++ + L G+ ++ +VT +G+N Sbjct: 118 NGELASKLMHPSAQIDREYAVRVLGKVKEEHIKKLTNGVELEDGFAKFHKVTQGGGEGAN 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V +REG+ RE+++++EF ++KV+RLIRI +G L Sbjct: 178 RWYRVVIREGRKREVRRLWEFLDFKVSRLIRIRFGDICL 216 >gi|251781834|ref|YP_002996136.1| ribosomal large subunit pseudouridine synthase B [Streptococcus dysgalactiae subsp. equisimilis GGS_124] gi|242390463|dbj|BAH80922.1| ribosomal large subunit pseudouridine synthase B [Streptococcus dysgalactiae subsp. equisimilis GGS_124] gi|323126647|gb|ADX23944.1| hypothetical protein SDE12394_02010 [Streptococcus dysgalactiae subsp. equisimilis ATCC 12394] Length = 240 Score = 142 bits (357), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 83/230 (36%), Positives = 131/230 (56%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V +NG ++ A V S D +E++G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTLNGQIITDLATTVKSGDVVEIEGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDTM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++ L L +G+VI G Y ++V D + + V Sbjct: 121 IHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIRVEADKNR---SIV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G +L L G +R ++KK Sbjct: 178 ELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLELTGLRPGESRRLNKK 227 >gi|148653754|ref|YP_001280847.1| RNA-binding S4 domain-containing protein [Psychrobacter sp. PRwf-1] gi|148572838|gb|ABQ94897.1| ribosomal large subunit pseudouridine synthase B [Psychrobacter sp. PRwf-1] Length = 345 Score = 141 bits (356), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 83/219 (37%), Positives = 129/219 (58%), Gaps = 10/219 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR--- 68 +++ K +AR G+ SRR++E +I RV +N + A++ V D I VDG ++ Sbjct: 43 EKLQKALARMGLGSRRQMEEVIKAGRVSIN---QKPASIGDRVEQGDEIRVDGRLIKYKS 99 Query: 69 -KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTN 126 + +R R+ Y+KP G + + +DP+GR+TVF+ LP + R I VGRLDIN+ GLLL TN Sbjct: 100 EREKRRRVLAYYKPEGEICSANDPEGRTTVFERLPKLTHDRWIMVGRLDINSTGLLLFTN 159 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + +R Y VR G++ + + L G++++ + +G N Sbjct: 160 DGELAHRLMHPSNEIVREYAVRILGELTPEMMRNLTDGVMLEDGLAKFEDIKQGGGEGVN 219 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L+EG+NRE++++ E KV+RL+R SYG L Sbjct: 220 KWYHVKLKEGRNREVRRLIESQGLKVSRLLRTSYGSVDL 258 >gi|326564224|gb|EGE14460.1| ribosomal large subunit pseudouridine synthase B [Moraxella catarrhalis 12P80B1] Length = 328 Score = 141 bits (356), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 88/214 (41%), Positives = 127/214 (59%), Gaps = 8/214 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAER 72 +++ K++AR G+ SRR +E +I R+ +NG + V+ TD I +DG +R KAER Sbjct: 24 EKLQKLLARLGLGSRRGLEEIIKSGRISINGKVAT-LGDRVILTDEIRIDGRQVRLKAER 82 Query: 73 T---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + + SDP GR TVFD LP + + R + VGRLDIN+ GLLL TNDG Sbjct: 83 EKRRRVIAYYKPEGEICSASDPQGRPTVFDRLPKLTNDRWVMVGRLDINSSGLLLFTNDG 142 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNA 187 LA L PS+ +R Y VR G+V + L G+ ++ G+ D + G N Sbjct: 143 ELAHRLMHPSSGIIREYAVRVLGEVTPQIASQLTAGVELEDGVAKFD-DIKEGGGIGVNK 201 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 W V ++EG+ RE++++FE KV+RLIR YG Sbjct: 202 WYHVTIKEGRKREVRRMFESQTLKVSRLIRTRYG 235 >gi|332359120|gb|EGJ36941.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK49] Length = 242 Score = 141 bits (356), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 134/230 (58%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q +V +NG ++ A NV S D +EV+ P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIRQGKVSINGQVVRELATNVKSGDRVEVEDQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDEKGRKTVVDLLPQVKERIYPVGRLDWDTSGILILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +GI I+G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKV--DPAK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+F+ +V++L R +G L + G R++SKK Sbjct: 178 QLTIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTDIKPGEYRKLSKK 227 >gi|326575652|gb|EGE25575.1| ribosomal large subunit pseudouridine synthase B [Moraxella catarrhalis CO72] Length = 328 Score = 141 bits (356), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 88/214 (41%), Positives = 127/214 (59%), Gaps = 8/214 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAER 72 +++ K++AR G+ SRR +E +I R+ +NG + V+ TD I +DG +R KAER Sbjct: 24 EKLQKLLARLGLGSRRGLEEIIKSGRISINGKVAT-LGDRVILTDEIRIDGRQVRLKAER 82 Query: 73 T---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + + SDP GR TVFD LP + + R + VGRLDIN+ GLLL TNDG Sbjct: 83 EKRRRVIAYYKPEGEICSASDPQGRPTVFDRLPKLTNDRWVMVGRLDINSSGLLLFTNDG 142 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNA 187 LA L PS+ +R Y VR G+V + L G+ ++ G+ D + G N Sbjct: 143 ELAHRLMHPSSGIIREYAVRVLGEVTPQIASQLTTGVELEDGVAKFD-DIKEGGGIGVNK 201 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 W V ++EG+ RE++++FE KV+RLIR YG Sbjct: 202 WYHVTIKEGRKREVRRMFESQTLKVSRLIRTRYG 235 >gi|296113067|ref|YP_003627005.1| ribosomal large subunit pseudouridine synthase B [Moraxella catarrhalis RH4] gi|295920761|gb|ADG61112.1| ribosomal large subunit pseudouridine synthase B [Moraxella catarrhalis RH4] gi|326561647|gb|EGE11984.1| ribosomal large subunit pseudouridine synthase B [Moraxella catarrhalis 103P14B1] gi|326562610|gb|EGE12921.1| ribosomal large subunit pseudouridine synthase B [Moraxella catarrhalis 46P47B1] gi|326570476|gb|EGE20516.1| ribosomal large subunit pseudouridine synthase B [Moraxella catarrhalis BC8] gi|326573451|gb|EGE23419.1| ribosomal large subunit pseudouridine synthase B [Moraxella catarrhalis 101P30B1] gi|326577116|gb|EGE27010.1| ribosomal large subunit pseudouridine synthase B [Moraxella catarrhalis O35E] Length = 328 Score = 141 bits (356), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 88/214 (41%), Positives = 127/214 (59%), Gaps = 8/214 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAER 72 +++ K++AR G+ SRR +E +I R+ +NG + V+ TD I +DG +R KAER Sbjct: 24 EKLQKLLARLGLGSRRGLEEIIKSGRISINGKVAT-LGDRVILTDEIRIDGRQVRLKAER 82 Query: 73 T---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + + SDP GR TVFD LP + + R + VGRLDIN+ GLLL TNDG Sbjct: 83 EKRRRVIAYYKPEGEICSASDPQGRPTVFDRLPKLTNDRWVMVGRLDINSSGLLLFTNDG 142 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNA 187 LA L PS+ +R Y VR G+V + L G+ ++ G+ D + G N Sbjct: 143 ELAHRLMHPSSGIIREYAVRVLGEVTPQIASQLTAGVELEDGVAKFD-DIKEGGGIGVNK 201 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 W V ++EG+ RE++++FE KV+RLIR YG Sbjct: 202 WYHVTIKEGRKREVRRMFESQTLKVSRLIRTRYG 235 >gi|288905991|ref|YP_003431213.1| ribosomal large subunit pseudouridine synthase [Streptococcus gallolyticus UCN34] gi|306832010|ref|ZP_07465165.1| ribosomal large subunit pseudouridine synthase B [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|325978958|ref|YP_004288674.1| ribosomal large subunit pseudouridine synthase B [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] gi|288732717|emb|CBI14291.1| ribosomal large subunit pseudouridine synthase [Streptococcus gallolyticus UCN34] gi|304425936|gb|EFM29053.1| ribosomal large subunit pseudouridine synthase B [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|325178886|emb|CBZ48930.1| ribosomal large subunit pseudouridine synthase B [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] Length = 241 Score = 141 bits (356), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 132/228 (57%), Gaps = 5/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I + V +NG ++ A V S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKKGLVTINGKVVTELATTVKSGDVVEVEGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP++ R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDEKGRKTVVDLLPNVTERIYPVGRLDWDTTGLLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVTV 191 P + +VY R G ++ L L +G+VI G + V +D +K + + V + Sbjct: 121 IHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIVKVDPEK-NRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+FE V++L R +G L L G +R ++KK Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTQFGTLDLAGLRPGESRRLNKK 227 >gi|193782973|gb|ACF20459.1| pseudouridine synthase [Serratia symbiotica] Length = 300 Score = 141 bits (356), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 91/221 (41%), Positives = 130/221 (58%), Gaps = 9/221 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNVMSTDHIEVDGVPLRKA 70 +++ KV+AR G SRRE+E MI RV +NG L +R ++ M I+ + + ++KA Sbjct: 3 EKLHKVLARTGYGSRREIEAMINACRVSINGKIAKLGDRIEIHPMMKIRIDGNIISIKKA 62 Query: 71 ERT--RLWLYHKPIGLVTT---HSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLL 124 E T R+ Y+KP G + T S+P+GR TVFD+LP + + R +SVGRLDINT GLLL Sbjct: 63 EETICRVLAYYKPEGELCTISNPSNPEGRLTVFDHLPKLRNLRWVSVGRLDINTSGLLLF 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T +G LA L PS + R Y VR G+ + + LK I ++ +T KG Sbjct: 123 TTNGELANRLMHPSRKIEREYAVRVFGKPSAENIKKLKHNIELEDGPAFFRTITFQGGKG 182 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L EG+NRE+++++E +V+RLIRI YG L Sbjct: 183 LNQWYHVTLTEGRNREVRRLWEAVGIQVSRLIRIRYGNIVL 223 >gi|269467788|gb|EEZ79546.1| 16S rRNA uridine-516 pseudouridylate synthase [uncultured SUP05 cluster bacterium] Length = 241 Score = 141 bits (356), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 85/218 (38%), Positives = 134/218 (61%), Gaps = 10/218 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS--TDHIEVDGVPL---- 67 +R+ K+IA AG SRR ER+I Q RV+VN + A++ + TD +++DG + Sbjct: 2 ERLQKLIATAGYGSRRWAERLIEQGRVEVNN---KTASIGDKADITDKVKIDGRTIDLSR 58 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E T++ + +K G++ ++ D +GR + +D LP SR + VGRLD+NT GLLL TN+ Sbjct: 59 YNEEETKVIILNKQAGVICSNKDKEGRKSAYDLLPK-ESRWVMVGRLDLNTSGLLLFTNN 117 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS++ R Y VR G+V+ + L L +GI ++ +VT+ +G+N Sbjct: 118 GDLANKLMHPSSEIEREYAVRVLGKVENEDLKQLTEGIDLEDGFAKFSRVTIGGGQGANR 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L+EGK RE+++++E +KV+RLIRI +G +L Sbjct: 178 WYKVVLKEGKKREVRRLWEALGFKVSRLIRIRFGEIRL 215 >gi|320106004|ref|YP_004181594.1| pseudouridine synthase [Terriglobus saanensis SP1PR4] gi|319924525|gb|ADV81600.1| pseudouridine synthase [Terriglobus saanensis SP1PR4] Length = 301 Score = 141 bits (356), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 91/244 (37%), Positives = 133/244 (54%), Gaps = 28/244 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K++A AGIASRR+ E +I + RV+VNG ++ E DHI VDG L+ E Sbjct: 15 RLQKILADAGIASRRKSEEVILEGRVQVNGKVVTELGTRANPEKDHIRVDGKLLQGPEEH 74 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD------NLPSIFSRVISVGRLDINTEGLLLLTND 127 R +L +KP G VTT DP+ R T+ D +P + R+ VGRLD N+EGLLL+TND Sbjct: 75 RYYLVNKPRGYVTTMHDPEKRPTIVDLLIKDGKMPDV--RLYPVGRLDYNSEGLLLMTND 132 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK---- 183 G LA L S + Y V+ GQ + ++ L++G++I+ G +Q T ++ Sbjct: 133 GELANALSKASNSVEKTYLVKVAGQPSEQAIDQLRRGVMIE---RGRLQETQGARRNRVM 189 Query: 184 -----------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 G N W V L EG+NR+++K+FE + V ++ RI YG L + G Sbjct: 190 TAPAKVKLVRAGLNPWFEVSLTEGRNRQLRKMFEEIDHHVEKIRRIGYGALVL-DVAPGE 248 Query: 233 TREV 236 RE+ Sbjct: 249 FREL 252 >gi|224004838|ref|XP_002296070.1| predicted protein [Thalassiosira pseudonana CCMP1335] gi|209586102|gb|ACI64787.1| predicted protein [Thalassiosira pseudonana CCMP1335] Length = 365 Score = 141 bits (356), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 92/256 (35%), Positives = 141/256 (55%), Gaps = 16/256 (6%) Query: 2 KDKNIVQENFTPQ----RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MS 56 K K+I N + R++ ++ + SRR+ ERM+ RV + G +++ + S Sbjct: 63 KRKDITNTNLSNGTEGVRITTLLCKHLGLSRRQSERMVLLGRVTLFGKVVDSPSFEFSAS 122 Query: 57 TDH----IEVDGVPLRKAERT-RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-----IFS 106 TD I+VDG + AE+T R+WL +K G + T DPDGR ++ L + + + Sbjct: 123 TDEGEIAIKVDGRLIYGAEKTTRVWLANKLKGELITEDDPDGRPSMLQRLKANGTKHLPT 182 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 + VGRLD+ TEGL++ +NDG AR LELPS R YRVR HG++ KL ++KG+ Sbjct: 183 HLKPVGRLDMMTEGLMIFSNDGQYARNLELPSNHLWRTYRVRVHGRLTLGKLTAMRKGVT 242 Query: 167 IQGICYGDMQVT-LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++G +Q T D +N W+ + EGKNR+++++ V RLIRISYG + L Sbjct: 243 VRGASGEVVQSTGKDVNGSTNTWLQITCTEGKNRQLRRILGSMGLDVTRLIRISYGDYDL 302 Query: 226 GTLLAGSTREVSKKIL 241 ++ G EV K L Sbjct: 303 NSIPPGLAIEVPVKPL 318 >gi|269925805|ref|YP_003322428.1| pseudouridine synthase [Thermobaculum terrenum ATCC BAA-798] gi|269789465|gb|ACZ41606.1| pseudouridine synthase [Thermobaculum terrenum ATCC BAA-798] Length = 253 Score = 141 bits (356), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 91/239 (38%), Positives = 132/239 (55%), Gaps = 8/239 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K++A+ G+ASRR ERMIA+ RV VNG ++ D I VDG +R+ + Sbjct: 4 PIRLHKLLAQMGVASRRAAERMIAEGRVSVNGRIVNTPGAMASPEDEIRVDGKLVRQQPK 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R L +KP G+++T D GR TV D L +RV VGRLD ++EGL+LLTNDG LA+ Sbjct: 64 MRYILLNKPAGVLSTAKDERGRKTVIDLLGQ-SNRVYPVGRLDKDSEGLMLLTNDGELAQ 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYG-DMQVTLDTQKGSNAWVT 190 + P + Y V G L L +G+ ++ G D ++ ++ S +T Sbjct: 123 RITHPRYGVHKQYMVEVEGYFSDRSLQDLLQGVELEDGFSKPLDAKIISRSRDKSKLLIT 182 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS---KKILREQLG 246 +G EG+ R++++ +KV RL R++ GP LG L G RE+S K LR QLG Sbjct: 183 MG--EGRKRQVRRTLAALGYKVKRLTRVALGPLSLGNLKPGEYRELSDQEAKWLRSQLG 239 >gi|86605480|ref|YP_474243.1| RNA pseudouridine synthase family protein [Synechococcus sp. JA-3-3Ab] gi|86554022|gb|ABC98980.1| RNA pseudouridine synthase family protein [Synechococcus sp. JA-3-3Ab] Length = 272 Score = 141 bits (355), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 93/249 (37%), Positives = 136/249 (54%), Gaps = 14/249 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG--VPLR 68 TPQR+ K++A+ G+ASRR+VE I R++VNG ++ E D +EVDG +P Sbjct: 3 TPQRLQKLLAQQGLASRRQVEAWILAGRIRVNGKVVTELGFKADPERDRVEVDGRVIPFG 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI---SVGRLDINTEGLLLLT 125 R L L HKP+G+++T DP GR TV D LP ++R I VGRLD ++ G LLLT Sbjct: 63 DPARYVL-LLHKPLGVLSTCKDPWGRKTVLDLLPPPWNRQIRLYPVGRLDADSSGALLLT 121 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT---- 181 NDG L L P ++YRV+ G+ + L + G+ ++G +V Sbjct: 122 NDGDLTLKLTHPRYHLPKIYRVQVQGRPSRATLQQWRDGVNLEGYTTLPAEVEFCPAPNF 181 Query: 182 ---QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 Q +++W+ V L EG+NR+I++V E V RL R + GP LG L AG R + Sbjct: 182 GYRQDANSSWLRVVLFEGRNRQIRRVAEQLGHPVLRLHREAIGPLHLGNLKAGQFRLLEP 241 Query: 239 KILREQLGP 247 + ++ L P Sbjct: 242 QEVQALLAP 250 >gi|78045168|ref|YP_360757.1| ribosomal large subunit pseudouridine synthase B [Carboxydothermus hydrogenoformans Z-2901] gi|77997283|gb|ABB16182.1| ribosomal large subunit pseudouridine synthase B [Carboxydothermus hydrogenoformans Z-2901] Length = 241 Score = 141 bits (355), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 79/205 (38%), Positives = 121/205 (59%), Gaps = 2/205 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +ARAG+A+RR+ E++I RVKVNG +++ V D +EVDG + K E+ Sbjct: 2 ERLQKYLARAGVAARRDAEQLILAGRVKVNGKVVKELGFKVSDRDVVEVDG-RIVKPEKL 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G +TT DP GR TV L + RV VGRLD+NTEGLL+LTNDG LA Sbjct: 61 VYILMYKPAGYITTVDDPFGRPTVLSLLAGKVKERVFPVGRLDMNTEGLLILTNDGDLAM 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P Q + Y G ++ KL L++G++++ +V +G N+W+ + Sbjct: 121 ALTHPKHQVPKTYLALVRGTPNRAKLKELERGVLLEDGYTAPAKVNFKKPEGKNSWIEIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIR 217 + EG+ R+++++F+ V +LIR Sbjct: 181 IHEGRKRQVRRMFKKIGHPVLKLIR 205 >gi|296126235|ref|YP_003633487.1| RNA-binding S4 domain protein [Brachyspira murdochii DSM 12563] gi|296018051|gb|ADG71288.1| RNA-binding S4 domain protein [Brachyspira murdochii DSM 12563] Length = 381 Score = 141 bits (355), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 82/237 (34%), Positives = 132/237 (55%), Gaps = 6/237 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 Q+N R+ KVI +G ASRR E+ I R++VN ++ A V +D + +D L Sbjct: 4 QKNEEAVRLVKVILESGFASRRNCEKAIMSGRIRVNNEVILDPAYRVKESDSVSIDR-KL 62 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + +R R +KP+G+V+T GR + + I R+ GRLD + G++++TND Sbjct: 63 IERQRKRYMALYKPLGVVSTTKYLPGRRIITEFFKGIKERLFYAGRLDSESRGIMIITND 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G A ++ PS + L+VY V +G++D +KL KGI I+ I Y + + ++ + Sbjct: 123 GEFANIITHPSYEILKVYDVTVNGKIDSEKLYEASKGITIKNITYSPFKFKILSKGRVQS 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSKK 239 + + + EGKNREI+K+F++ +KV L RIS G GTL AG R+++KK Sbjct: 183 KIRLTINEGKNREIRKIFDYLGYKVIDLERISVGCVSKYDETSGTLEAGHIRDLTKK 239 >gi|227498494|ref|ZP_03928640.1| pseudouridine synthase [Acidaminococcus sp. D21] gi|226903952|gb|EEH89870.1| pseudouridine synthase [Acidaminococcus sp. D21] Length = 246 Score = 141 bits (355), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 87/230 (37%), Positives = 132/230 (57%), Gaps = 11/230 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++A +G+ASRRE E++I Q RV VNG + V TD I +DG PLRK ER Sbjct: 7 ERLQKMMAASGVASRRECEKIILQGRVTVNGKPVIELGTKVSPTDRILIDGRPLRK-ERH 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L +KP ++TT DP GR TV + + RV VGRLD TEGLL++TNDG LA+ Sbjct: 66 RYFLLNKPPAVMTTMKDPRGRRTVAELMDKERERVYPVGRLDFMTEGLLIMTNDGALAQG 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------DTQKGSNA 187 + PS + Y V G V+++KL+ L+ GI +C G L D+++ + Sbjct: 126 MTHPSYHINKTYEVVVDGHVEEEKLDKLRTGI---RLCDGMTAPALVEVKRYDSRRDQSI 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + V + EG+NR+++++ E + V +L R L + G+ RE++ Sbjct: 183 F-EVTIHEGRNRQVRRMCEAIGYPVRKLKRTQVAFLSLQGVKKGAYRELT 231 >gi|172057049|ref|YP_001813509.1| RNA-binding S4 domain-containing protein [Exiguobacterium sibiricum 255-15] gi|171989570|gb|ACB60492.1| RNA-binding S4 domain protein [Exiguobacterium sibiricum 255-15] Length = 253 Score = 141 bits (355), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 92/229 (40%), Positives = 131/229 (57%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA+AG+ASRR+ E +I + RVKVNG ++ V +EVDGV L + E Sbjct: 2 ERLQKIIAQAGVASRRKAEELITEGRVKVNGKVITELGTKVGGRAEVEVDGVKLEREEHV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+V+T D GR TV D +P RV VGRLD NT GLLLLTNDG + + Sbjct: 62 YYMLY-KPTGVVSTVEDDKGRKTVVDLVPP-GHRVFPVGRLDYNTSGLLLLTNDGEFSNL 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTL-DTQKGSN-AWVT 190 L P + + Y V+ G D + L+KG+V+ G G +V + D K N A + Sbjct: 120 LLHPKYKVPKRYIVKIKGVPDYYHVKGLEKGVVLPDGFKTGKARVEMRDIDKKKNTAILE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG NR+++++ E +V +L R +G L L +G RE+SKK Sbjct: 180 MVIYEGHNRQVRQMVETLGAEVIKLKREQFGFLTLAGLTSGDWRELSKK 228 >gi|22537733|ref|NP_688584.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae 2603V/R] gi|76787925|ref|YP_330211.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae A909] gi|76799444|ref|ZP_00781590.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae 18RS21] gi|77406891|ref|ZP_00783916.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae H36B] gi|77409463|ref|ZP_00786156.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae COH1] gi|77412369|ref|ZP_00788680.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae CJB111] gi|22534623|gb|AAN00457.1|AE014264_12 ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae 2603V/R] gi|76562982|gb|ABA45566.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae A909] gi|76585200|gb|EAO61812.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae 18RS21] gi|77161589|gb|EAO72589.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae CJB111] gi|77171930|gb|EAO75106.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae COH1] gi|77174500|gb|EAO77344.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae H36B] gi|319745532|gb|EFV97834.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae ATCC 13813] Length = 240 Score = 141 bits (355), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 130/228 (57%), Gaps = 5/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q V +NG ++ A V + D +E++G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIKQGMVTINGQVVNELATQVKAGDLVEIEGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVIDLLPQVKERIYPVGRLDWDTTGLLILTNDGDFTDKM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQKGSNAWVTV 191 P + +VY R G ++ L L +G+VI G + T+ D +K + + V + Sbjct: 121 IHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYTIIKVDHEK-NRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+FE V++L R +G L L G R ++KK Sbjct: 180 TIHEGRNHQVKKMFEQVGLLVDKLSRTQFGTLDLTGLRPGEARRLNKK 227 >gi|224826317|ref|ZP_03699419.1| RNA-binding S4 domain protein [Lutiella nitroferrum 2002] gi|224601418|gb|EEG07599.1| RNA-binding S4 domain protein [Lutiella nitroferrum 2002] Length = 497 Score = 141 bits (355), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 83/227 (36%), Positives = 129/227 (56%), Gaps = 9/227 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTD 58 ++D + E P R+ K +A +G+ SRRE+E I + VNG ++A + V D Sbjct: 235 LRDTRVDMEQIEPVRLQKALAASGVGSRREMEEWIEAGLILVNG---KKATLGDRVGPQD 291 Query: 59 HIEVDGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRL 114 + G P+R R+ LYHK G + T DP+GR T+FD LP SR ++VGRL Sbjct: 292 RVTAKGNPIRLKWPDRLPRVILYHKQEGELVTRDDPEGRVTIFDRLPQAKSSRWVAVGRL 351 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D+NT GLL++T G LA L PS + R Y VR GQ++ +++ + +GI ++ Sbjct: 352 DVNTSGLLIVTTSGELANRLMHPSFEAEREYAVRVLGQLEPEQMKEMTRGIELEDGPAHF 411 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 ++ +G N W V ++EG+NRE++++FE F V+RLIR+ +G Sbjct: 412 QRIVEQGGEGVNHWYRVVIKEGRNREVRRIFEHFGLTVSRLIRVRFG 458 >gi|307709770|ref|ZP_07646221.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis SK564] gi|307619472|gb|EFN98597.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis SK564] Length = 240 Score = 141 bits (355), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 133/230 (57%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++D L L +G+ I G Y ++V D K + A V Sbjct: 121 IHPRNEIDKVYVARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKV--DPVK-NRAVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE +V++L R +G L L G +R ++KK Sbjct: 178 QLTIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKK 227 >gi|311104985|ref|YP_003977838.1| ribosomal large subunit pseudouridine synthase B [Achromobacter xylosoxidans A8] gi|310759674|gb|ADP15123.1| ribosomal large subunit pseudouridine synthase B [Achromobacter xylosoxidans A8] Length = 604 Score = 141 bits (355), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 84/213 (39%), Positives = 122/213 (57%), Gaps = 9/213 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKA-- 70 ++ KV+A AGI SRRE+E +I RV VNG E A + V D + V+G P+ + Sbjct: 111 KLHKVLADAGIGSRREMEELIVAGRVSVNG---EPAHIGQRVAPNDQVRVNGKPIMRVNT 167 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 + R+ LYHKP G + +H DP GR++VF LP + + +SVGRLD+NTEGLL+ T G Sbjct: 168 KKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTEGLLIFTTSG 227 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 +A + P R Y VR G++D+ + L GI ++ + GSN W Sbjct: 228 DMANRIMHPRYGTEREYAVRVLGEMDEAQRQSLVDGIELEDGLAAFGALDYLGGDGSNRW 287 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V L+EG+NRE++++FE V+RLIR +G Sbjct: 288 YRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFG 320 >gi|157374830|ref|YP_001473430.1| pseudouridine synthase [Shewanella sediminis HAW-EB3] gi|157317204|gb|ABV36302.1| pseudouridine synthase [Shewanella sediminis HAW-EB3] Length = 288 Score = 141 bits (355), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 89/219 (40%), Positives = 128/219 (58%), Gaps = 10/219 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR-KA 70 +++ KV+ARAG SRRE+E IA R+ ++G E A++ + + I +DG + K+ Sbjct: 3 EKLQKVLARAGHGSRREMEAWIAAGRISIDG---EIASLGDRIEADAKIRIDGRAISIKS 59 Query: 71 ER---TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTN 126 E R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+ Sbjct: 60 EEDIVCRVIAYHKPEGEICSRKDPEGRPTVFDRLPKTRDSRWVAVGRLDINTSGLLLFTS 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G V + L+ G+ ++ +V +G N Sbjct: 120 DGELANRLMHPSNEVEREYAVRTFGDVSDACIQHLRTGVTLEDGPANFDKVKAAGGEGMN 179 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 180 KWWHVTLSEGRNREVRRLWESQEVQVSRLIRIRYGSIEL 218 >gi|320355051|ref|YP_004196390.1| ribosomal large subunit pseudouridine synthase B [Desulfobulbus propionicus DSM 2032] gi|320123553|gb|ADW19099.1| ribosomal large subunit pseudouridine synthase B [Desulfobulbus propionicus DSM 2032] Length = 247 Score = 141 bits (355), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 86/231 (37%), Positives = 131/231 (56%), Gaps = 2/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K++A+AGIASRR+ E++I + R+++NG ++ + + D I DG PL E+ Sbjct: 3 ERLQKILAKAGIASRRKAEQLILEGRIRINGHVVTGMGSKADPNRDTITCDGHPLVFEEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G VTT SDP GR V D L I R+ VGRLD++TEG LL+TNDG L Sbjct: 63 IYVLL-NKPAGYVTTLSDPQGRPMVSDLLADIPLRLFPVGRLDLDTEGALLMTNDGELGN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y G DKL L+ GI I G+ V L + V + Sbjct: 122 AILHPRYEVNKTYEAEVSGSPSVDKLKRLESGIEIDGVMTRPAVVRLLRRHKGTTLVEIT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EGK R+++K+F+ N +V L R +YG +LG+L G R +++ L++ Sbjct: 182 IHEGKKRQVRKMFQAINHRVLHLRRTAYGNLRLGSLPLGKYRVLNQNDLKK 232 >gi|188026069|ref|ZP_02960759.2| hypothetical protein PROSTU_02727 [Providencia stuartii ATCC 25827] gi|188021498|gb|EDU59538.1| hypothetical protein PROSTU_02727 [Providencia stuartii ATCC 25827] Length = 313 Score = 141 bits (355), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 82/218 (37%), Positives = 127/218 (58%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG--VPLRKA 70 +++ K++AR+G SRRE+E + + R+ V+G I + V I +DG + +++ Sbjct: 17 EKLQKILARSGHGSRREIETFLKEGRISVDGKIATLGDRIEVKPATKIRLDGRILAIKEP 76 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 E+ R+ Y+KP G + T DP+GR TVF LP + +R I+VGRLD+NT GLLL T D Sbjct: 77 EKEICRVMAYYKPEGELCTRHDPEGRPTVFTRLPKLVGARWIAVGRLDVNTSGLLLFTTD 136 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G++ K+ L +G+ ++ V+ +G N Sbjct: 137 GELANRLMHPSREVEREYAVRVFGEITDAKIRQLTQGVQLEDGPAAFKTVSFRGGEGMNQ 196 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 197 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIDL 234 >gi|163841326|ref|YP_001625731.1| ribosomal large subunit pseudouridine synthase B [Renibacterium salmoninarum ATCC 33209] gi|162954802|gb|ABY24317.1| ribosomal large subunit pseudouridine synthase B [Renibacterium salmoninarum ATCC 33209] Length = 345 Score = 141 bits (355), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 91/241 (37%), Positives = 140/241 (58%), Gaps = 7/241 (2%) Query: 5 NIVQENFTPQ--RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIE 61 N Q+ P+ R+ KV+A AG+ASRR E MI RV+V+G ++ + V + T I Sbjct: 95 NAGQDMHDPEGVRLQKVMAAAGVASRRVCEEMIEDGRVEVDGSIVTELGLRVNVETAVIS 154 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTE 119 VDG+ L+ E +++KP G+V+T DP+GR + D L + ++ R+ VGRLD TE Sbjct: 155 VDGIRLQLKENMIYLVFNKPRGVVSTMDDPEGRRNISDFLKNKYAHERLFHVGRLDQATE 214 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVT 178 GLLLLTNDG LA L PS + + Y V+ G ++ N ++KGI ++ G+ D Sbjct: 215 GLLLLTNDGELANRLTHPSYEVPKTYLVQTKGPMETGVSNQMRKGIELEDGVTKIDAFKL 274 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +D+ G + V V L GKNR ++++F+ + V RL+R+ GP +LG GS R + + Sbjct: 275 VDSTPG-HVLVEVVLHSGKNRIVRRLFDAVGYPVERLVRLQVGPIRLGDQKQGSIRALGQ 333 Query: 239 K 239 + Sbjct: 334 Q 334 >gi|314936380|ref|ZP_07843727.1| pseudouridylate synthase [Staphylococcus hominis subsp. hominis C80] gi|313654999|gb|EFS18744.1| pseudouridylate synthase [Staphylococcus hominis subsp. hominis C80] Length = 245 Score = 141 bits (355), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 80/234 (34%), Positives = 138/234 (58%), Gaps = 6/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +VKVNG ++ V S+D +EV+G+ + + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLITEGKVKVNGQVVTELGTKVKSSDTVEVEGIKIEQEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L++KP ++T+ SD GR+ V D ++ +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 YI-LFYKPTQVITSVSDDRGRTVVTDYFKNLEARIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + Y + G + ++++ L++GI ++ QV + Q + + V + Sbjct: 125 MTHPRYHIQKKYVAKLKGYLMREEVKALEQGIELEDGFTQPAQVKIKNQNKEKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILR 242 + EG+NR+++++FE FN V++LIRI +G L L AG R ++ KILR Sbjct: 185 TISEGRNRQVRRMFEHFNHTVDKLIRIEFGNLNLKGLNAGEGRVLTPHEVKILR 238 >gi|71910124|ref|YP_281674.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS5005] gi|71852906|gb|AAZ50929.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS5005] Length = 248 Score = 140 bits (354), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 86/230 (37%), Positives = 128/230 (55%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G P+ E+ Sbjct: 10 RINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVVEIEGSPIYNEEKV- 68 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G +++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 69 YYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDTM 128 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++ L L +GIVI G Y ++V D S + V Sbjct: 129 IHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVRVEADK---SRSIV 185 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G L L G R ++KK Sbjct: 186 ELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPGEARRLNKK 235 >gi|319892477|ref|YP_004149352.1| Ribosomal large subunit pseudouridine synthase B [Staphylococcus pseudintermedius HKU10-03] gi|317162173|gb|ADV05716.1| Ribosomal large subunit pseudouridine synthase B [Staphylococcus pseudintermedius HKU10-03] gi|323464420|gb|ADX76573.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus pseudintermedius ED99] Length = 248 Score = 140 bits (354), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 82/246 (33%), Positives = 141/246 (57%), Gaps = 11/246 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +V+VNG + V +D + V+G+PL + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLIEEGKVQVNGKTVTELGTKVRPSDEVTVEGIPLEQEDKL 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L++KP ++T+ SD GR V D + +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 YI-LFYKPAQVITSVSDDRGRKVVTDYFDDLVTRIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQKGSNAWVTV 191 + P + + Y + G + ++++ L+KGI ++ G+ ++V ++ + + V + Sbjct: 125 MTHPRYKIPKTYVAKIEGYILREQVKQLEKGIQLEDGLTQPAKVKVKKQNKEKNTSLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQLGPH 248 + EG+NR+++++FE F + V +L R+S+GP L L AG R +S K LR H Sbjct: 185 TITEGRNRQVRRMFEHFGFSVQKLSRVSFGPLTLKGLGAGEGRVLSPHEVKSLR-----H 239 Query: 249 LLEEAQ 254 L E Q Sbjct: 240 LAENGQ 245 >gi|206601589|gb|EDZ38072.1| Pseudouridine synthase, Rsu [Leptospirillum sp. Group II '5-way CG'] Length = 583 Score = 140 bits (354), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 85/225 (37%), Positives = 133/225 (59%), Gaps = 3/225 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K++A G+ASRR E MI VKVNGI++ V TD + VDG + Sbjct: 19 RLQKLLAHRGLASRRNAEEMIRGGLVKVNGIVVTVPGTKVHPETDRVTVDGKNVPVEPEP 78 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L+L++KP G+V+T DPDG++T+ D P I + +I VGRLDI +EG+LLLTN+G LA+ Sbjct: 79 FLFLFYKPKGVVSTLHDPDGKTTLKDFFPRI-NPLIHVGRLDIQSEGVLLLTNNGDLAQR 137 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + R Y V+ G V + L+ L+ G V + G +++ + +N+W + Sbjct: 138 ILHPRYEIPRTYLVKVQGVVTPEHLDRLRSGKVRLDGRPVQPLELEQERLTETNSWYRIT 197 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+NRE++++F+ ++ V +L RI++G L L G R V+ Sbjct: 198 LTEGRNREVRRLFDALHYFVLKLTRIAFGNLDLTGLEPGEYRLVT 242 >gi|71065212|ref|YP_263939.1| ribosomal large subunit pseudouridine synthase B [Psychrobacter arcticus 273-4] gi|71038197|gb|AAZ18505.1| ribosomal large subunit pseudouridine synthase B [Psychrobacter arcticus 273-4] Length = 315 Score = 140 bits (354), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 85/220 (38%), Positives = 125/220 (56%), Gaps = 12/220 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN---GILLERAAVNVMSTDHIEVDGVPLR-- 68 +++ K +AR G+ SRR++E +I RV VN + +R V D I VDG ++ Sbjct: 4 EKLQKALARMGLGSRRQMEEVIKAGRVTVNNGPATIGDR----VEQGDEIRVDGRQIKYT 59 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 +R R+ Y+KP G V + +DP+GR TVF+ LP + R + VGRLDIN+ GLLL T Sbjct: 60 AENEKRRRVLAYYKPEGEVCSANDPEGRPTVFERLPKLTHDRWVMVGRLDINSTGLLLFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG +A L PS++ R Y VR G V D + G++++ + +G Sbjct: 120 NDGEMAHRLMHPSSEVTREYAVRVLGDVTPDMARAMTTGVMLEDGMAKFEDIKEGGGEGV 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L+EG+NRE++++FE KV+RL+R SYG L Sbjct: 180 NKWHHVKLKEGRNREVRRLFESQGLKVSRLLRTSYGNIAL 219 >gi|322385923|ref|ZP_08059564.1| ribosomal large subunit pseudouridine synthase B [Streptococcus cristatus ATCC 51100] gi|321270038|gb|EFX52957.1| ribosomal large subunit pseudouridine synthase B [Streptococcus cristatus ATCC 51100] Length = 273 Score = 140 bits (354), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 86/230 (37%), Positives = 131/230 (56%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E+ Sbjct: 32 RINKYIAHAGIASRRKAEELIKQGLVTVNGQVVRELATTIKSGDRVEVEGQPIYNEEKV- 90 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ +D GR TV D LP + R+ VGRLD +T G L+LTNDG + Sbjct: 91 YYLLNKPRGVISSVTDDKGRKTVVDLLPQVKERIYPVGRLDWDTSGALILTNDGDFTDEM 150 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +G+VI+G Y ++V D K + + V Sbjct: 151 IHPRNEIDKVYVARVKGVANKEVLRPLTRGLVIEGKKTKPAVYEILKV--DPVK-NRSVV 207 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G L L G R +SKK Sbjct: 208 QLTIHEGRNHQVKKMFEAVGLPVDKLSRTQFGHLDLTGLKPGEARRLSKK 257 >gi|313668495|ref|YP_004048779.1| pseudouridine synthase [Neisseria lactamica ST-640] gi|313005957|emb|CBN87414.1| putative pseudouridine synthase [Neisseria lactamica 020-06] Length = 350 Score = 140 bits (354), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 81/221 (36%), Positives = 132/221 (59%), Gaps = 6/221 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPL 67 +F P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L Sbjct: 94 HFEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKL 152 Query: 68 RKAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLT 125 + A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 153 KWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILT 212 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKG 184 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G Sbjct: 213 TSGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRMLTEEGVMLEDGLAKVERIYEQGGEG 272 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 273 ANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 313 >gi|332358327|gb|EGJ36153.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK355] Length = 242 Score = 140 bits (354), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 135/230 (58%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q +V +NG ++ A NV S D +E++G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIRQGKVSINGQVVRELATNVKSGDRVEIEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV + LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVVELLPQVKERIYPVGRLDWDTSGILILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +GI I+G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKV--DPAK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+F+ +V++L R +G L L G R+++KK Sbjct: 178 QLTIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLNKK 227 >gi|302037904|ref|YP_003798226.1| pseudouridine synthase, rsuA family [Candidatus Nitrospira defluvii] gi|300605968|emb|CBK42301.1| Pseudouridine synthase, rsuA family [Candidatus Nitrospira defluvii] Length = 255 Score = 140 bits (354), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 87/231 (37%), Positives = 127/231 (54%), Gaps = 2/231 (0%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 + +++++ GIASR + + I RV++N L+ + D + +D P+ + + Sbjct: 3 LDRLLSKLGIASRSQAQEWIRAGRVRINRRLVRMPDTWIDWPGDAVTLDDRPIEQRP-PQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L+HKP G+VTTH D GR T+FD LP + +VGRLD T GLLLLTND L+ L Sbjct: 62 FILFHKPKGVVTTHQDEKGRPTIFDVLPPELKGLHAVGRLDQATSGLLLLTNDSTLSSFL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P Q R+Y V G+V ++ G+ QG VT+ + G + + V L Sbjct: 122 TDPKQQVPRLYLVTVRGEVSEETGRAALDGVDDQGERLHCASVTIQKRSGRESHLVVTLT 181 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 EGKNREI+++F+ +V RL RI YGPF LG L G+ RE+ + R QL Sbjct: 182 EGKNREIRRLFKALGHEVTRLRRIQYGPFILGDLQPGAWRELPIEAARAQL 232 >gi|15674518|ref|NP_268692.1| hypothetical protein SPy_0369 [Streptococcus pyogenes M1 GAS] gi|13621621|gb|AAK33413.1| putative hypothetical protein [Streptococcus pyogenes M1 GAS] Length = 240 Score = 140 bits (354), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 86/230 (37%), Positives = 128/230 (55%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVVEIEGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G +++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDTM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++ L L +GIVI G Y ++V D S + V Sbjct: 121 IHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVRVEADK---SRSIV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G L L G R ++KK Sbjct: 178 ELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPGEARRLNKK 227 >gi|326803723|ref|YP_004321541.1| pseudouridine synthase B, ribosomal large subunit [Aerococcus urinae ACS-120-V-Col10a] gi|326650759|gb|AEA00942.1| pseudouridine synthase B, ribosomal large subunit [Aerococcus urinae ACS-120-V-Col10a] Length = 240 Score = 140 bits (354), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 84/227 (37%), Positives = 125/227 (55%), Gaps = 3/227 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E++I RV+VNG ++ V D +EVD VP+ K E Sbjct: 2 ERLQKVIAHAGVASRRDAEKLILAGRVRVNGQVVTELGTKVTKKDLVEVDQVPIYKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G++++ +D GR V D I R+ +GRLD +T G+LLLTNDG A + Sbjct: 62 -YYLFNKPDGVISSVADDKGRKVVVDYFKEIPQRIYPIGRLDYHTTGVLLLTNDGEFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 L P + +VY + G D L L++G+VI G + + K + NA V + Sbjct: 121 LMHPRYEIDKVYVAKVKGYPSPDALKRLEEGLVIDGQKTAKARARIRKNKAAKENATVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG+NR+++K+ E V RL R YG L G R + K Sbjct: 181 TIHEGRNRQVRKMLEAVGHPVKRLNRERYGFLTTEGLGVGEYRPLLK 227 >gi|23099278|ref|NP_692744.1| ribosomal large subunit pseudouridylate synthase [Oceanobacillus iheyensis HTE831] gi|22777507|dbj|BAC13779.1| ribosomal large subunit pseudouridylate synthase [Oceanobacillus iheyensis HTE831] Length = 244 Score = 140 bits (354), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 87/229 (37%), Positives = 131/229 (57%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA++G+ SRR+ E+MI +VKVNG ++ V V + D I VDGVPL K E Sbjct: 6 ERLQKVIAQSGVTSRRKAEQMILDGKVKVNGETVQEMGVKVTANDEIVVDGVPLEK-ETP 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ D GR V D ++ R+ +GRLD +T G+LLLTNDG A + Sbjct: 65 VYFLLYKPRGVISSVKDDKGRKVVTDYFEAVEQRIFPIGRLDYDTSGVLLLTNDGDFANL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQKGSNAWVT 190 L P + +VY + G ++ +L LL+KGI +QV L D QK + + Sbjct: 125 LMHPRHEIDKVYIAKVRGIPNKKELALLQKGIRSDKDVLKAVQVKLLSTDHQK-KTSIIE 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + L EGKNR+++++ E + V +L R Y L L AG R ++ K Sbjct: 184 LTLHEGKNRQVRRMLEELGYPVMKLKRERYDFIGLEGLNAGEYRSLTPK 232 >gi|253576375|ref|ZP_04853705.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14] gi|251844268|gb|EES72286.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14] Length = 256 Score = 140 bits (354), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 85/234 (36%), Positives = 133/234 (56%), Gaps = 6/234 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLR 68 N +R+ K++A AG+ASRR+ E +I +V+VNG + S D I V+G P+ Sbjct: 6 NANMERLQKILAAAGVASRRKCEELILSGKVQVNGETVTTLGTKADPSVDVITVEGKPI- 64 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 AE+ +++KP G++T+ SDP GR V D L I RV VGRLD +TEGLLLLTNDG Sbjct: 65 GAEKKLYLMFNKPKGVITSASDPQGRKIVTDYLKGIKERVYPVGRLDYDTEGLLLLTNDG 124 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT---LDTQKGS 185 A +L P + Y G L+ LK+G++++ +V +D ++ Sbjct: 125 EFAHLLTHPKHHVPKTYLATVKGVPHGTALDKLKQGVMLEDGMTAPAEVEYYDIDPEE-K 183 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 A +++ + EG+NR+++++F+ + V RL RIS+G LG L G R ++K+ Sbjct: 184 YATISITIHEGRNRQVRRMFDAISHPVTRLKRISFGDLVLGNLKRGLYRHLTKE 237 >gi|309378850|emb|CBX22555.1| unnamed protein product [Neisseria lactamica Y92-1009] Length = 349 Score = 140 bits (354), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 81/221 (36%), Positives = 132/221 (59%), Gaps = 6/221 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPL 67 +F P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L Sbjct: 93 HFEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKL 151 Query: 68 RKAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLT 125 + A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 152 KWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILT 211 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVIQGICYGDMQVTLDTQKG 184 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G Sbjct: 212 TSGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVERIYEQGGEG 271 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 272 ANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 312 >gi|121604769|ref|YP_982098.1| pseudouridine synthase [Polaromonas naphthalenivorans CJ2] gi|120593738|gb|ABM37177.1| ribosomal large subunit pseudouridine synthase B [Polaromonas naphthalenivorans CJ2] Length = 527 Score = 140 bits (354), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 84/213 (39%), Positives = 121/213 (56%), Gaps = 9/213 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR---K 69 ++ KV+A+AG+ SR E+E++I + R+ VN E A + + D ++V+G P+R Sbjct: 97 KLHKVLAQAGLGSRLEMEQLILEGRISVN---AEPAHIGQRIQFGDTVKVNGKPIRVQID 153 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP G V TH DP R TVF LP +F + SVGRLD+NTEGLLLLT+ G Sbjct: 154 PPPPRVIAYHKPAGEVVTHDDPQNRPTVFRRLPKLFQGKWQSVGRLDLNTEGLLLLTSSG 213 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P R Y VR G ++ ++ L G+ + + +G+N W Sbjct: 214 ELANKLMHPRFGLEREYAVRVLGALNNEEKKRLLDGVTLDDGVAQFGSIEAGGGEGANCW 273 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V + EG+NRE++++FE V+RLIRI YG Sbjct: 274 YRVTISEGRNREVRRMFEAVGHAVSRLIRIRYG 306 >gi|300361572|ref|ZP_07057749.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus gasseri JV-V03] gi|300354191|gb|EFJ70062.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus gasseri JV-V03] Length = 244 Score = 140 bits (354), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 81/233 (34%), Positives = 131/233 (56%), Gaps = 3/233 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++E+ +R+ KVIA+AG+ASRR+ E+MI +V VNG + V +D IEV+GVP Sbjct: 1 MKESKMAERLQKVIAQAGVASRRKAEKMITAGQVTVNGKRITELGTKVEPSDKIEVNGVP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + K E +L++KP G++++ D GR TV D + R+ VGRLD +T GLLL+TN Sbjct: 61 IEK-ETLHTYLFYKPRGVISSVKDDKGRKTVVDYFEDVPYRLYPVGRLDYDTSGLLLMTN 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKG 184 DG LA L P + +VY + G + + ++ L G+ I G +++ +K Sbjct: 120 DGELANKLMHPRNEVPKVYVAKIKGLLSPEDIHSLTHGVRIDGRKSAPAKLKILKTDEKK 179 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + V + + EG ++K++FE + V +L R Y L +L +G RE++ Sbjct: 180 NTQIVQLTIHEGHYHQVKRMFEAVHHFVEKLSREKYAFLTLKSLTSGEYRELT 232 >gi|269214394|ref|ZP_05986473.2| ribosomal large subunit pseudouridine synthase B [Neisseria lactamica ATCC 23970] gi|269209982|gb|EEZ76437.1| ribosomal large subunit pseudouridine synthase B [Neisseria lactamica ATCC 23970] Length = 350 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 81/221 (36%), Positives = 132/221 (59%), Gaps = 6/221 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPL 67 +F P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L Sbjct: 94 HFEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKL 152 Query: 68 RKAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLT 125 + A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 153 KWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILT 212 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVIQGICYGDMQVTLDTQKG 184 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G Sbjct: 213 TSGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVERIYEQGGEG 272 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 273 ANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 313 >gi|257887727|ref|ZP_05667380.1| pseudouridine synthase [Enterococcus faecium 1,141,733] gi|257823781|gb|EEV50713.1| pseudouridine synthase [Enterococcus faecium 1,141,733] Length = 238 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 86/228 (37%), Positives = 123/228 (53%), Gaps = 3/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E I RVKVNG ++ + V D +EVD VP+ + E Sbjct: 2 ERLQKVIAHAGITSRRKAEEFILAGRVKVNGQVIRELGIKVGKHDTVEVDEVPIYQEEYG 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+++ +D GR V D LP + R+ VGRLD +T G+LLLTNDG A+ Sbjct: 62 YYLLY-KPKGVISAVADDKGRKVVTDLLPMVKERIYPVGRLDYDTSGILLLTNDGDFAQR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G + L L KGI I+G Q+ K +++ V + Sbjct: 121 LTHPKHEVDKVYVAKVKGIATKSMLAPLAKGIKIEGRKTSPAKFQILSVDPKTNHSIVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++K + + V +L R YG L L G RE++KK Sbjct: 181 TIHEGRNHQVKNMLQAVGLPVQKLKREKYGDLTLQGLRPGDYRELNKK 228 >gi|296133130|ref|YP_003640377.1| pseudouridine synthase [Thermincola sp. JR] gi|296031708|gb|ADG82476.1| pseudouridine synthase [Thermincola potens JR] Length = 244 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 83/225 (36%), Positives = 129/225 (57%), Gaps = 1/225 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 QR+ K +A AG+ASRR+ E +IA +VKVNG ++ V S D +EV G+ + E+ Sbjct: 4 QRLQKFMAHAGVASRRKCEELIAAGKVKVNGKVVTEMGYTVDPSVDRVEVAGLGIIVHEK 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G++++ SD GR TV D + + +R+ VGRLD +TEGL+LLTNDG L Sbjct: 64 KEYILLYKPAGVLSSASDDRGRKTVVDLIKNAKTRLYPVGRLDYDTEGLILLTNDGRLTN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +L P + + YR G +DKL L+ GI+++ +V + Q N V + Sbjct: 124 LLIHPRYKVDKTYRAVVQGIPGEDKLAALRNGIMLEDGPTYPARVKMLKQINGNGLVEIT 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++F+ V +L R +G +LG L G R +S Sbjct: 184 IHEGRNRQVRRMFDAIGHPVLKLKRTRFGFLELGNLQPGQYRALS 228 >gi|327462027|gb|EGF08356.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK1057] Length = 242 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 135/230 (58%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q +V +NG ++ A NV S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIRQGKVSINGQVVCELATNVKSGDRVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV + LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVVELLPQVKERIYPVGRLDWDTSGILILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +GI I+G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKV--DPAK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+F+ +V++L R +G L L G R+++KK Sbjct: 178 QLTIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLNKK 227 >gi|293604235|ref|ZP_06686643.1| pseudouridine synthase [Achromobacter piechaudii ATCC 43553] gi|292817460|gb|EFF76533.1| pseudouridine synthase [Achromobacter piechaudii ATCC 43553] Length = 614 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 84/213 (39%), Positives = 122/213 (57%), Gaps = 9/213 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKA-- 70 ++ KV+A AGI SRRE+E +I RV VNG E A + V D + V+G P+ + Sbjct: 116 KLHKVLADAGIGSRREMEELIVAGRVSVNG---EPAHIGQRVAPNDQVRVNGKPIMRTNT 172 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 + R+ LYHKP G + +H DP GR++VF LP + + +SVGRLD+NTEGLL+ T G Sbjct: 173 KKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTEGLLIFTTSG 232 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 +A + P R Y VR G++D+ + L GI ++ + GSN W Sbjct: 233 DMANRIMHPRYGTEREYAVRVLGEMDEAQRQSLVDGIELEDGVAAFGALDYLGGDGSNRW 292 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V L+EG+NRE++++FE V+RLIR +G Sbjct: 293 YRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFG 325 >gi|237747775|ref|ZP_04578255.1| ribosomal large subunit pseudouridine synthase B [Oxalobacter formigenes OXCC13] gi|229379137|gb|EEO29228.1| ribosomal large subunit pseudouridine synthase B [Oxalobacter formigenes OXCC13] Length = 510 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 88/218 (40%), Positives = 129/218 (59%), Gaps = 11/218 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPL-RKAE 71 ++ KV+A AG+ SRR++E +I RV VNG E A + ++ TD + ++G L RK Sbjct: 170 KLHKVLADAGLGSRRDMEELIIAGRVSVNG---EPAHIGQRILPTDQVRINGKLLQRKVT 226 Query: 72 RT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 ++ ++ LYHKP G + + DP+ R++VFDNLPS+ S+ ++VGRLD NTEGLLL TN+G Sbjct: 227 KSLPKVMLYHKPAGEIVSRDDPEKRASVFDNLPSLKNSKWLAVGRLDFNTEGLLLFTNNG 286 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-TQKGSNA 187 LA L P R Y VR G++++ L G+ + G G D +G N Sbjct: 287 DLANRLMHPRYNIEREYAVRTLGELEEGMRQKLLAGVDL-GDGIGQFSSIADGGGEGINK 345 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V + EG+NRE++++FE V+RLIR YG L Sbjct: 346 WYRVTIGEGRNREVRRMFESVGLTVSRLIRTRYGVITL 383 >gi|220929165|ref|YP_002506074.1| pseudouridine synthase [Clostridium cellulolyticum H10] gi|219999493|gb|ACL76094.1| pseudouridine synthase [Clostridium cellulolyticum H10] Length = 235 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 82/228 (35%), Positives = 121/228 (53%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA AG+ASRR E MI Q RV VN +++ V + D + VDG P++ E Sbjct: 5 RLQKFIAHAGVASRRTAEEMIKQGRVAVNNTVVQDMGFTVSNDDFVTVDGKPVKIEEEKV 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + HKP+G V+T D GR TV D + R+ VGRLD +T GL+LLTNDG L Sbjct: 65 YIMLHKPVGYVSTSQDQFGRPTVVDLVKDAGKRLYPVGRLDYDTSGLILLTNDGDFTYRL 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + +VY G +++++ + G+ I+ + + ++G N V + + Sbjct: 125 THPKHEINKVYEAVISGFPEKNEIKSFESGLKIENYQTSPAEFVVLEKQGINTLVRITIH 184 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EGKNR+++K+ E KV L RI GP L L G R +S + L+ Sbjct: 185 EGKNRQVRKMCEAIGHKVLTLKRIQIGPIALDNLPVGKWRHLSLRELK 232 >gi|93005438|ref|YP_579875.1| pseudouridine synthase, Rsu [Psychrobacter cryohalolentis K5] gi|92393116|gb|ABE74391.1| ribosomal large subunit pseudouridine synthase B [Psychrobacter cryohalolentis K5] Length = 310 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 85/220 (38%), Positives = 125/220 (56%), Gaps = 12/220 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN---GILLERAAVNVMSTDHIEVDGVPLR-- 68 +++ K +AR G+ SRR++E +I RV VN + +R V D I VDG ++ Sbjct: 4 EKLQKALARMGLGSRRQMEEVIKAGRVTVNNGPATIGDR----VEQGDEIRVDGRQIKYT 59 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 +R R+ Y+KP G V + +DP+GR TVF+ LP + R + VGRLDIN+ GLLL T Sbjct: 60 SENEKRRRVLAYYKPEGEVCSANDPEGRPTVFERLPKLTHDRWVMVGRLDINSTGLLLFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG +A L PS++ R Y VR G V D + G++++ + +G Sbjct: 120 NDGEMAHRLMHPSSEVTREYAVRVLGDVTPDMARAMTTGVMLEDGMAKFEDIKEGGGEGV 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L+EG+NRE++++FE KV+RL+R SYG L Sbjct: 180 NKWHHVQLKEGRNREVRRLFESQGLKVSRLLRTSYGNITL 219 >gi|308069544|ref|YP_003871149.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) [Paenibacillus polymyxa E681] gi|305858823|gb|ADM70611.1| Ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) [Paenibacillus polymyxa E681] Length = 252 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 128/228 (56%), Gaps = 4/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K++A+AG+ASRR+ E +I V+VNG+++ D I V G P+ K E+ Sbjct: 2 ERLQKILAQAGVASRRKCEELIQAGSVEVNGVIVTELGTKADPDQDMITVKGRPI-KTEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++T+ SDP+GR V D L + RV VGRLD +TEGLLLLTNDG A Sbjct: 61 KIYLMMNKPKGVITSASDPEGRKIVSDYLKGVKERVYPVGRLDYDTEGLLLLTNDGEFAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 +L P + Y G +L+ LKKGIV++ +V G + + Sbjct: 121 LLTHPKHHVPKTYVATVKGVPHGTELDKLKKGIVLEDGITAPAEVEYKDVDPNGKESVIQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + EG+NR+++++FE + V RL RI++G L L G TR ++K Sbjct: 181 ITIYEGRNRQVRRMFEAISHPVIRLKRIAFGDLLLQNLKRGLTRPLTK 228 >gi|293570237|ref|ZP_06681306.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E980] gi|291609644|gb|EFF38905.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E980] Length = 238 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 86/228 (37%), Positives = 123/228 (53%), Gaps = 3/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E I RVKVNG ++ + V D +EVD VP+ + E Sbjct: 2 ERLQKVIAHAGITSRRKAEEFILAGRVKVNGQVVRELGIKVGKQDTVEVDEVPIYQEEYG 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+++ +D GR V D LP + R+ VGRLD +T G+LLLTNDG A+ Sbjct: 62 YYLLY-KPKGVISAVADDKGRKVVTDLLPMVKERIYPVGRLDYDTSGILLLTNDGDFAQR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G + L L KGI I+G Q+ K +++ V + Sbjct: 121 LTHPKHEVDKVYVAKVKGIATKSMLAPLAKGIKIEGRKTSPAKFQILSVDPKTNHSIVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++K + + V +L R YG L L G RE++KK Sbjct: 181 TIHEGRNHQVKNMLQAVGLPVQKLKREKYGDLTLQGLRPGDYRELNKK 228 >gi|319763718|ref|YP_004127655.1| pseudouridine synthase [Alicycliphilus denitrificans BC] gi|330824019|ref|YP_004387322.1| pseudouridine synthase Rsu [Alicycliphilus denitrificans K601] gi|317118279|gb|ADV00768.1| pseudouridine synthase [Alicycliphilus denitrificans BC] gi|329309391|gb|AEB83806.1| pseudouridine synthase Rsu [Alicycliphilus denitrificans K601] Length = 451 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 86/217 (39%), Positives = 122/217 (56%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR---K 69 ++ KV+A+AG+ SR E+E++I + R+ VN E A + V D I+V+G P+R Sbjct: 132 KLHKVLAQAGMGSRLEMEQLILEGRISVNN---EPAHIGQRVQFGDQIKVNGKPIRFRVA 188 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 TR+ YHKP+G V TH DP R TVF LP + + SVGRLD+NTEGLLL T+ G Sbjct: 189 PPPTRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLQQGKWQSVGRLDLNTEGLLLFTSSG 248 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P R Y VR G + ++ L G+ ++ + +G+N W Sbjct: 249 ELANKLMHPRFGLEREYAVRVLGALSDEERQRLLDGVSLEDGMAAFGSIEDGGGEGANCW 308 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE++++FE V+RLIRI YG L Sbjct: 309 YRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMML 345 >gi|268589491|ref|ZP_06123712.1| ribosomal large subunit pseudouridine synthase B [Providencia rettgeri DSM 1131] gi|291315159|gb|EFE55612.1| ribosomal large subunit pseudouridine synthase B [Providencia rettgeri DSM 1131] Length = 339 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 83/218 (38%), Positives = 128/218 (58%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG--VPLRKA 70 +++ K++AR+G SRRE+E + R+ V+G I V V I +DG + +++ Sbjct: 43 EKLQKILARSGHGSRREIETFLQAGRISVDGKIATLGDRVEVTPATKIRLDGRLLAIKEP 102 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 E+ R+ Y+KP G + T DP+GR TVF+ LP + +R I+VGRLD+NT GLLL T D Sbjct: 103 EKEICRVMAYYKPEGELCTRHDPEGRPTVFNRLPRLTGARWIAVGRLDVNTSGLLLFTTD 162 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+++ K+ L +G+ ++ V+ +G N Sbjct: 163 GELANRLMHPSREVEREYAVRVFGEINDAKIRQLTQGVQLEDGPASFKTVSYRGGEGMNQ 222 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 223 WFNVTLTEGRNREVRRLWESVGVQVSRLIRVRYGDIDL 260 >gi|91788475|ref|YP_549427.1| ribosomal large subunit pseudouridine synthase B [Polaromonas sp. JS666] gi|91697700|gb|ABE44529.1| ribosomal large subunit pseudouridine synthase B [Polaromonas sp. JS666] Length = 544 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 84/213 (39%), Positives = 121/213 (56%), Gaps = 9/213 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR---K 69 ++ KV+A+AG+ SR E+E++I + R+ VN E A + + D ++V+G P+R Sbjct: 98 KLHKVLAQAGLGSRLEMEQLILEGRISVNA---EPAHIGQRIQFGDTVKVNGKPIRVRID 154 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP G V TH DP R TVF LP +F + SVGRLD+NTEGLLLLT+ G Sbjct: 155 PPPPRVIAYHKPSGEVVTHDDPQNRPTVFRRLPKLFQGKWQSVGRLDLNTEGLLLLTSSG 214 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P R Y VR G + ++ L +G+ + + +G+N W Sbjct: 215 ELANKLMHPRFGLEREYAVRVLGALSNEEKKRLLEGVTLDDGVAQFSSIEAGGGEGANCW 274 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V + EG+NRE++++FE V+RLIRI YG Sbjct: 275 YRVTISEGRNREVRRMFEAVGHAVSRLIRIRYG 307 >gi|25011682|ref|NP_736077.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae NEM316] gi|24413222|emb|CAD47301.1| Unknown [Streptococcus agalactiae NEM316] Length = 240 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 83/228 (36%), Positives = 130/228 (57%), Gaps = 5/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q V +NG ++ A V + D +E++G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIKQGMVTINGQVVNELATKVKAGDLVEIEGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVIDLLPQVKERIYPVGRLDWDTTGLLILTNDGDFTDKM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVTV 191 P + +VY R G ++ L L +G+VI G + + +D +K + + V + Sbjct: 121 IHPRNEIDKVYLARIKGIATKENLRPLTRGVVIDGKKTKPARYNIIKVDHEK-NRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+FE V++L R +G L L G R ++KK Sbjct: 180 TIHEGRNHQVKKMFEQVGLLVDKLSRTQFGTLDLTGLRPGEARRLNKK 227 >gi|77414368|ref|ZP_00790523.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae 515] gi|77159558|gb|EAO70714.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae 515] Length = 240 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 83/228 (36%), Positives = 130/228 (57%), Gaps = 5/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q V +NG ++ A V + D +E++G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIKQGMVTINGQVVNELATKVKAGDLVEIEGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVIDLLPQVKERIYPVGRLDWDTTGLLILTNDGDFTDKM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVTV 191 P + +VY R G ++ L L +G+VI G + + +D +K + + V + Sbjct: 121 IHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIKVDHEK-NRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+FE V++L R +G L L G R ++KK Sbjct: 180 TIHEGRNHQVKKMFEQVGLLVDKLSRTQFGTLDLTGLRPGEARRLNKK 227 >gi|227551154|ref|ZP_03981203.1| pseudouridylate synthase [Enterococcus faecium TX1330] gi|257896222|ref|ZP_05675875.1| pseudouridine synthase [Enterococcus faecium Com12] gi|257898859|ref|ZP_05678512.1| pseudouridine synthase [Enterococcus faecium Com15] gi|293379537|ref|ZP_06625679.1| pseudouridylate synthase [Enterococcus faecium PC4.1] gi|227179716|gb|EEI60688.1| pseudouridylate synthase [Enterococcus faecium TX1330] gi|257832787|gb|EEV59208.1| pseudouridine synthase [Enterococcus faecium Com12] gi|257836771|gb|EEV61845.1| pseudouridine synthase [Enterococcus faecium Com15] gi|292641846|gb|EFF60014.1| pseudouridylate synthase [Enterococcus faecium PC4.1] Length = 238 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 86/228 (37%), Positives = 123/228 (53%), Gaps = 3/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E I RVKVNG ++ + V D +EVD VP+ + E Sbjct: 2 ERLQKVIAHAGITSRRKAEEFILAGRVKVNGQVVRELGIKVGKHDTVEVDEVPIYQEEYG 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+++ +D GR V D LP + R+ VGRLD +T G+LLLTNDG A+ Sbjct: 62 YYLLY-KPKGVISAVADDKGRKVVTDLLPMVKERIYPVGRLDYDTSGILLLTNDGDFAQR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G + L L KGI I+G Q+ K +++ V + Sbjct: 121 LTHPKHEVDKVYVAKVKGIATKSMLAPLAKGIKIEGRKTSPAKFQILSVDPKTNHSIVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++K + + V +L R YG L L G RE++KK Sbjct: 181 TIHEGRNHQVKNMLQAVGLPVQKLKREKYGDLTLQGLRPGDYRELNKK 228 >gi|139474355|ref|YP_001129071.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes str. Manfredo] gi|134272602|emb|CAM30869.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes str. Manfredo] Length = 240 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 128/230 (55%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVVEIEGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G +++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDTM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++ L L +GIVI G Y ++V D + + V Sbjct: 121 IHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVRVEADKNR---SIV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G L L G R ++KK Sbjct: 178 ELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVNLKGLRPGEARRLNKK 227 >gi|50913682|ref|YP_059654.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS10394] gi|50902756|gb|AAT86471.1| Ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS10394] Length = 248 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 127/230 (55%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G P+ E+ Sbjct: 10 RINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVVEIEGSPIYNEEKV- 68 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G +++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 69 YYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDTM 128 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++ L L +GIVI G Y + V D + + V Sbjct: 129 IHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVHVEADKNR---SIV 185 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G L L G R ++KK Sbjct: 186 ELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPGEARRLNKK 235 >gi|19745526|ref|NP_606662.1| hypothetical protein spyM18_0418 [Streptococcus pyogenes MGAS8232] gi|71902965|ref|YP_279768.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS6180] gi|94987940|ref|YP_596041.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS9429] gi|94989814|ref|YP_597914.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS10270] gi|94993700|ref|YP_601798.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS10750] gi|19747645|gb|AAL97161.1| putative hypothetical protein [Streptococcus pyogenes MGAS8232] gi|71802060|gb|AAX71413.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS6180] gi|94541448|gb|ABF31497.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS9429] gi|94543322|gb|ABF33370.1| Ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS10270] gi|94547208|gb|ABF37254.1| Ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS10750] Length = 248 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 128/230 (55%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G P+ E+ Sbjct: 10 RINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVVEIEGSPIYNEEKV- 68 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G +++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 69 YYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDTM 128 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++ L L +GIVI G Y ++V D + + V Sbjct: 129 IHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVRVEADKNR---SIV 185 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G L L G R ++KK Sbjct: 186 ELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPGEARRLNKK 235 >gi|228476152|ref|ZP_04060860.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus hominis SK119] gi|228269975|gb|EEK11455.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus hominis SK119] Length = 245 Score = 140 bits (352), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 80/234 (34%), Positives = 137/234 (58%), Gaps = 6/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +VKVNG ++ V S+D +EV+G+ + + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLITEGKVKVNGQVVTELGTKVKSSDTVEVEGIKIEQEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L++KP ++T+ SD GR+ V D + +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 YI-LFYKPTQVITSVSDDRGRTVVTDYFKDLEARIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + Y + G + ++++ L++GI ++ QV + Q + + V + Sbjct: 125 MTHPRYHIQKKYVAKLKGYLMREEVKSLEQGIELEDGFTQPAQVKIKNQNKEKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILR 242 + EG+NR+++++FE FN V++LIRI +G L L AG R ++ KILR Sbjct: 185 TISEGRNRQVRRMFEHFNHTVDKLIRIEFGNLNLKGLNAGEGRVLTPHEVKILR 238 >gi|297584469|ref|YP_003700249.1| pseudouridine synthase [Bacillus selenitireducens MLS10] gi|297142926|gb|ADH99683.1| pseudouridine synthase [Bacillus selenitireducens MLS10] Length = 239 Score = 140 bits (352), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 90/237 (37%), Positives = 137/237 (57%), Gaps = 10/237 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K+IA+AGI SRR+ E++I + RV VNG ++ + TD I VDGVPL+K E Sbjct: 2 ERLQKLIAQAGITSRRKAEKLIEEGRVYVNGNQVKEVGAKADLQTDEISVDGVPLQKEEP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++++ D GR TV D +P F RV VGRLD +T GL++LTNDG A Sbjct: 62 V-YYLLYKPSGVISSAGDDKGRKTVIDLVPGEF-RVFPVGRLDFDTSGLIVLTNDGEFAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWV 189 +L P + + Y + G ++ L L +GIV++ + + D +KG+ A V Sbjct: 120 LLMHPKYRIHKTYIAKVKGLPLREDLKKLDRGIVLEDGKTAPAKTKVIKTDKRKGT-AVV 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILRE 243 + + EG+NR+++++F+ + V +L R YG L L AG RE+ K LRE Sbjct: 179 EITIHEGRNRQVRRMFDAIGFPVMKLKRERYGILDLKGLNAGDWRELKPHEVKTLRE 235 >gi|125624024|ref|YP_001032507.1| pseudouridylate synthase [Lactococcus lactis subsp. cremoris MG1363] gi|124492832|emb|CAL97787.1| pseudouridylate synthase [Lactococcus lactis subsp. cremoris MG1363] Length = 257 Score = 140 bits (352), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 80/227 (35%), Positives = 127/227 (55%), Gaps = 3/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A AG+ASRR+ E +I +V VN + + V + D +EV+GV + E Sbjct: 20 RINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDVVEVNGVAVYNEEPV- 78 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G +++ SD GR TV D +P + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 79 YYLLNKPRGYISSVSDDKGRQTVMDLMPQVKERIYPVGRLDWDTSGLLLLTNDGEFTNMM 138 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVG 192 PS +VY + GQ +++ L L G+ I+G + ++ + +++ V++ Sbjct: 139 THPSHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIKQEKTKNHSIVSLT 198 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+F V +L RI YG L L G R +SKK Sbjct: 199 IHEGQNHQVKKMFAAAGLPVQKLSRIQYGTLTLDGLPTGQFRRLSKK 245 >gi|220912302|ref|YP_002487611.1| pseudouridine synthase [Arthrobacter chlorophenolicus A6] gi|219859180|gb|ACL39522.1| pseudouridine synthase [Arthrobacter chlorophenolicus A6] Length = 403 Score = 140 bits (352), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 89/230 (38%), Positives = 131/230 (56%), Gaps = 6/230 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A AG+ASRR E MIA+ RV+V+G ++ V + +T I VDG+ ++ E Sbjct: 164 RLQKVMASAGVASRRVCEEMIAEGRVEVDGQVVTELGVRIDPATAVIHVDGLRIQLDENL 223 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD---NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +++KP G+V+T DPDGR + D N + R+ VGRLD+ TEGLLLLTNDG L Sbjct: 224 VYMVFNKPKGVVSTMEDPDGRPCISDFLKNNKNTGERLFHVGRLDVATEGLLLLTNDGEL 283 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y V+ G Q LK G+ ++ G D +D+ G + + Sbjct: 284 ANRLTHPSYEVPKTYLVQVRGPFPQGIGAQLKAGVELEDGPAAVDSFRLVDSTPG-HVLI 342 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V L GKNR ++++F+ + V RL+R+ GP LG GS R + K+ Sbjct: 343 EVVLHSGKNRIVRRMFDAVGFPVQRLVRVKVGPIGLGDQRQGSIRNLGKQ 392 >gi|116629543|ref|YP_814715.1| 16S rRNA uridine-516 pseudouridylate synthase related enzyme [Lactobacillus gasseri ATCC 33323] gi|116095125|gb|ABJ60277.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus gasseri ATCC 33323] Length = 245 Score = 140 bits (352), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 81/234 (34%), Positives = 132/234 (56%), Gaps = 3/234 (1%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 +++E+ +R+ KVIA+AG+ASRR+ E+MI+ +V VNG + V +D IEV+GV Sbjct: 1 MMKESKMAERLQKVIAQAGVASRRKAEKMISAGQVTVNGKKITELGTKVEPSDKIEVNGV 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+ K E +L++KP G++++ D GR TV D + R+ VGRLD +T GLLL+T Sbjct: 61 PIEK-ETLHTYLFYKPRGVISSVKDDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQK 183 NDG LA L P + +VY + G + + + L G+ I G +++ +K Sbjct: 120 NDGELANKLMHPRNEVPKVYVAKIKGLLSPEDIRSLTHGVRIDGRKSAPAKLKILKTDEK 179 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + V + + EG ++K++FE + V +L R Y L +L +G RE++ Sbjct: 180 KNTQIVQLTIHEGHYHQVKRMFEAVHHFVEKLSREKYAFLTLKSLTSGEYRELT 233 >gi|21909805|ref|NP_664073.1| putative ribosomal large subunit pseudouridine synthase [Streptococcus pyogenes MGAS315] gi|28896502|ref|NP_802852.1| hypothetical protein SPs1590 [Streptococcus pyogenes SSI-1] gi|21903991|gb|AAM78876.1| putative ribosomal large subunit pseudouridine synthase [Streptococcus pyogenes MGAS315] gi|28811756|dbj|BAC64685.1| putative hypothetical protein [Streptococcus pyogenes SSI-1] Length = 240 Score = 140 bits (352), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 128/230 (55%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVVEIEGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G +++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDTM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++ L L +GIVI G Y ++V D + + V Sbjct: 121 IHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVRVEADKNR---SIV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G L L G R ++KK Sbjct: 178 ELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPGEARRLNKK 227 >gi|315604212|ref|ZP_07879278.1| ribosomal large subunit pseudouridine synthase B [Actinomyces sp. oral taxon 180 str. F0310] gi|315313918|gb|EFU61969.1| ribosomal large subunit pseudouridine synthase B [Actinomyces sp. oral taxon 180 str. F0310] Length = 249 Score = 140 bits (352), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 94/242 (38%), Positives = 132/242 (54%), Gaps = 18/242 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A+AGIASRR E+MIA RV V+G ++ V V +T I VDG L E Sbjct: 12 RLQKVLAQAGIASRRASEQMIADGRVSVDGTVVRTQGVRVDPATQVIHVDGERLILDEAK 71 Query: 74 RLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KPIG V+T SDP+GR T+ D + R+ VGRLDI+T GLLLLTNDG LA Sbjct: 72 HIVLAVNKPIGTVSTMSDPEGRPTIADLIADYPERLYHVGRLDIDTSGLLLLTNDGELAN 131 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI---VIQGICYGDMQVTLDTQK-----G 184 L PS + + Y R HG+V K G+ ++ GI D + +D+ + G Sbjct: 132 RLTHPSYEIRKTYVARLHGEV--------KPGVRRRLLAGIELEDGPIAVDSFRLVDTYG 183 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V + + EG+NR ++++ E + V L+R +GP L L G+TR + L Sbjct: 184 DITTVEIVVHEGRNRLVRRMMEAVGYPVRELVRTGFGPISLDHLKQGTTRRIKGNALTAL 243 Query: 245 LG 246 G Sbjct: 244 YG 245 >gi|223043161|ref|ZP_03613208.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus capitis SK14] gi|222443372|gb|EEE49470.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus capitis SK14] Length = 245 Score = 140 bits (352), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 75/223 (33%), Positives = 130/223 (58%), Gaps = 3/223 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +VKVNG ++ V +D +EV+G+ + + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLITEGKVKVNGQVVTELGTKVSHSDTVEVEGIKIEQEDKM 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L++KP ++T+ SD GR V D I +R+ VGRLD +T G+LLLTNDG + Sbjct: 66 YI-LFYKPTQVITSVSDDRGRKVVTDYFEDIETRIYPVGRLDYDTSGVLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + Y + G + ++++ L++GI ++ QV + Q + + V + Sbjct: 125 MTHPRYHIKKKYVAKLKGYLMREQVKELEQGIELEDGFTQPAQVKIKRQDKEKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EG+NR+++++FE+F +VN+L RI +GP L L AG R Sbjct: 185 TISEGRNRQVRRMFEYFGHEVNKLTRIQFGPLDLKGLNAGEGR 227 >gi|302036776|ref|YP_003797098.1| 23S rRNA pseudouridylate synthase B [Candidatus Nitrospira defluvii] gi|190343191|gb|ACE75579.1| ribosomal large subunit pseudouridine synthase B [Candidatus Nitrospira defluvii] gi|300604840|emb|CBK41172.1| 23S rRNA pseudouridylate synthase B (modular protein) [Candidatus Nitrospira defluvii] Length = 420 Score = 140 bits (352), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 77/215 (35%), Positives = 125/215 (58%), Gaps = 1/215 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K+IA G+ASRR+ E +I RV +NG +++ V + DH++VDG LR A+ Sbjct: 4 RLQKLIAGTGLASRRKAEELITSGRVTINGSVVKELGTKVDPARDHVKVDGKHLRAAQPY 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP +++T DP+GR TV D L + RV VGRLD ++EGL+LLTN G LA+ Sbjct: 64 VYLILNKPKNVMSTLDDPEGRPTVKDLLHGVTVRVFPVGRLDFDSEGLMLLTNHGDLAQA 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y ++ G +D K+ L++G+ ++ +V ++ SN+W+ V + Sbjct: 124 LLHPRYHVPKTYLIKVKGVLDDAKIEALERGVKLEDGFTAPAKVKKVSRAESNSWLEVTI 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 EG+ ++K++ E V +L+R+ GP LG L Sbjct: 184 HEGRKHQVKRMVEAVGHSVIKLVRVRMGPLLLGDL 218 >gi|69248060|ref|ZP_00604605.1| Pseudouridine synthase, Rsu [Enterococcus faecium DO] gi|257877984|ref|ZP_05657637.1| pseudouridine synthase [Enterococcus faecium 1,230,933] gi|257881230|ref|ZP_05660883.1| pseudouridine synthase [Enterococcus faecium 1,231,502] gi|257884895|ref|ZP_05664548.1| pseudouridine synthase [Enterococcus faecium 1,231,501] gi|257889817|ref|ZP_05669470.1| pseudouridine synthase [Enterococcus faecium 1,231,410] gi|257892245|ref|ZP_05671898.1| pseudouridine synthase [Enterococcus faecium 1,231,408] gi|258616531|ref|ZP_05714301.1| ribosomal large subunit pseudouridine synthase B, putative [Enterococcus faecium DO] gi|260559035|ref|ZP_05831221.1| pseudouridine synthase [Enterococcus faecium C68] gi|261207569|ref|ZP_05922254.1| pseudouridine synthase [Enterococcus faecium TC 6] gi|289565081|ref|ZP_06445534.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium D344SRF] gi|293556726|ref|ZP_06675289.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1039] gi|293563384|ref|ZP_06677833.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1162] gi|293568042|ref|ZP_06679380.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1071] gi|294614860|ref|ZP_06694755.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1636] gi|294618690|ref|ZP_06698224.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1679] gi|294622981|ref|ZP_06701871.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium U0317] gi|314939485|ref|ZP_07846719.1| conserved hypothetical protein [Enterococcus faecium TX0133a04] gi|314941116|ref|ZP_07848014.1| conserved hypothetical protein [Enterococcus faecium TX0133C] gi|314948728|ref|ZP_07852100.1| conserved hypothetical protein [Enterococcus faecium TX0082] gi|314951701|ref|ZP_07854744.1| conserved hypothetical protein [Enterococcus faecium TX0133A] gi|314993952|ref|ZP_07859279.1| conserved hypothetical protein [Enterococcus faecium TX0133B] gi|314997516|ref|ZP_07862461.1| conserved hypothetical protein [Enterococcus faecium TX0133a01] gi|68194579|gb|EAN09070.1| Pseudouridine synthase, Rsu [Enterococcus faecium DO] gi|257812212|gb|EEV40970.1| pseudouridine synthase [Enterococcus faecium 1,230,933] gi|257816888|gb|EEV44216.1| pseudouridine synthase [Enterococcus faecium 1,231,502] gi|257820733|gb|EEV47881.1| pseudouridine synthase [Enterococcus faecium 1,231,501] gi|257826177|gb|EEV52803.1| pseudouridine synthase [Enterococcus faecium 1,231,410] gi|257828624|gb|EEV55231.1| pseudouridine synthase [Enterococcus faecium 1,231,408] gi|260074792|gb|EEW63108.1| pseudouridine synthase [Enterococcus faecium C68] gi|260077952|gb|EEW65658.1| pseudouridine synthase [Enterococcus faecium TC 6] gi|289163088|gb|EFD10935.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium D344SRF] gi|291589263|gb|EFF21073.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1071] gi|291592322|gb|EFF23936.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1636] gi|291595073|gb|EFF26416.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1679] gi|291597609|gb|EFF28770.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium U0317] gi|291601058|gb|EFF31347.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1039] gi|291604645|gb|EFF34130.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1162] gi|313588427|gb|EFR67272.1| conserved hypothetical protein [Enterococcus faecium TX0133a01] gi|313591554|gb|EFR70399.1| conserved hypothetical protein [Enterococcus faecium TX0133B] gi|313596165|gb|EFR75010.1| conserved hypothetical protein [Enterococcus faecium TX0133A] gi|313600117|gb|EFR78960.1| conserved hypothetical protein [Enterococcus faecium TX0133C] gi|313641287|gb|EFS05867.1| conserved hypothetical protein [Enterococcus faecium TX0133a04] gi|313644794|gb|EFS09374.1| conserved hypothetical protein [Enterococcus faecium TX0082] Length = 238 Score = 140 bits (352), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 86/228 (37%), Positives = 123/228 (53%), Gaps = 3/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E I RVKVNG ++ + V D +EVD VP+ + E Sbjct: 2 ERLQKVIAHAGITSRRKAEEFILAGRVKVNGQVVRELGIKVGKHDTVEVDEVPIYQEEYG 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+++ +D GR V D LP + R+ VGRLD +T G+LLLTNDG A+ Sbjct: 62 YYLLY-KPKGVISAVADDKGRKVVTDLLPMVKERIYPVGRLDYDTSGILLLTNDGDFAQR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G + L L KGI I+G Q+ K +++ V + Sbjct: 121 LTHPKHEVDKVYVAKVKGIATKSMLAPLTKGIKIEGRKTSPAKFQILSVDPKTNHSIVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++K + + V +L R YG L L G RE++KK Sbjct: 181 TIHEGRNHQVKNMLQAVGLPVQKLKREKYGDLTLQGLRPGDYRELNKK 228 >gi|153835311|ref|ZP_01987978.1| RNA pseudouridine synthase family protein [Vibrio harveyi HY01] gi|156975027|ref|YP_001445934.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio harveyi ATCC BAA-1116] gi|148868176|gb|EDL67329.1| RNA pseudouridine synthase family protein [Vibrio harveyi HY01] gi|156526621|gb|ABU71707.1| hypothetical protein VIBHAR_02753 [Vibrio harveyi ATCC BAA-1116] Length = 312 Score = 140 bits (352), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 90/217 (41%), Positives = 123/217 (56%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-VPLRKAER 72 +++ KV+ARAG SRRE+E +I RV VNGI+ + + +DG V KA+ Sbjct: 3 EKLQKVLARAGHGSRREIESLIKSGRVSVNGIVAKLGERLEDENSVVRIDGHVVSAKAQE 62 Query: 73 ---TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V + K+ L +G+ ++ V +G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVTEQKVKNLVRGVELEDGMARFEDVVYAGGEGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE+++++E + V+RL R+ YG L Sbjct: 183 FYVAINEGRNREVRRLWESQDTTVSRLKRVRYGDIYL 219 >gi|148244476|ref|YP_001219170.1| ribosomal large subunit pseudouridine synthase B [Candidatus Vesicomyosocius okutanii HA] gi|146326303|dbj|BAF61446.1| ribosomal large subunit pseudouridine synthase B [Candidatus Vesicomyosocius okutanii HA] Length = 241 Score = 140 bits (352), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 87/220 (39%), Positives = 130/220 (59%), Gaps = 12/220 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVN---GILLERAAVNVMSTDHIEVDGVPLRK 69 R+ K+IA AG SRR VER+I Q R++VN I+ ++ + T +++DG + Sbjct: 2 ANRLQKLIANAGYGSRRWVERLIEQGRIEVNNKIAIIGDKTEI----TSLVKIDGRKINL 57 Query: 70 A----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + + T++ + +K G++ ++ D GR +V+ LP SR I VGRLD+NT GLLL+T Sbjct: 58 SRYVEQETKVIILNKQAGVICSNRDDKGRKSVYSLLPK-ESRWIMVGRLDLNTSGLLLVT 116 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N+G LA L PS++ R Y VR GQV L L +G+V Q+T KG+ Sbjct: 117 NNGDLANKLMHPSSEIDREYAVRVLGQVKNKDLKKLTQGVVFDDGFSKFNQITFSGGKGA 176 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V LREGK RE+++++E +KV+RLIRI +G +L Sbjct: 177 NRWYKVVLREGKKREVRRLWEVLGFKVSRLIRIRFGEIRL 216 >gi|300070794|gb|ADJ60194.1| ribosomal large subunit pseudouridine synthase B [Lactococcus lactis subsp. cremoris NZ9000] Length = 239 Score = 140 bits (352), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 80/227 (35%), Positives = 127/227 (55%), Gaps = 3/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A AG+ASRR+ E +I +V VN + + V + D +EV+GV + E Sbjct: 2 RINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDVVEVNGVAVYNEEPV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G +++ SD GR TV D +P + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 61 YYLLNKPRGYISSVSDDKGRQTVMDLMPQVKERIYPVGRLDWDTSGLLLLTNDGEFTNMM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVG 192 PS +VY + GQ +++ L L G+ I+G + ++ + +++ V++ Sbjct: 121 THPSHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIKQEKTKNHSIVSLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+F V +L RI YG L L G R +SKK Sbjct: 181 IHEGQNHQVKKMFAAAGLPVQKLSRIQYGTLTLDGLPTGQFRRLSKK 227 >gi|226953468|ref|ZP_03823932.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter sp. ATCC 27244] gi|226835753|gb|EEH68136.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter sp. ATCC 27244] Length = 314 Score = 140 bits (352), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 85/216 (39%), Positives = 126/216 (58%), Gaps = 12/216 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +++ KV+AR G+ SRR +E +IA RV +NG + + + D + +DG RK + Sbjct: 3 EKLQKVLARVGLGSRRYMEEVIAAGRVSINGRIAQ-VGERIEPGDELRIDG---RKVQFQ 58 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 R R+ +Y+KP G + + +DP+ R TVFD+LP I + R + VGRLDIN+ GLLL T Sbjct: 59 VEDEIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFT 118 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + R Y VR G+V N + KG+ ++ + G Sbjct: 119 NDGELANRLMHPSNEVEREYAVRVMGEVTPQIRNNMLKGVELEDGPAKFESFSEIGGDGI 178 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 N W V ++EG+NRE++++FE N KV+RL+R YG Sbjct: 179 NRWYQVVVKEGRNREVRRIFESQNLKVSRLLRTRYG 214 >gi|168487318|ref|ZP_02711826.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC1087-00] gi|183569796|gb|EDT90324.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC1087-00] Length = 240 Score = 140 bits (352), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 133/230 (57%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++D L L +G+ I G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE +V++L R +G L L G +R ++KK Sbjct: 178 QLTIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLHPGESRRLNKK 227 >gi|163857448|ref|YP_001631746.1| pseudouridine synthase [Bordetella petrii DSM 12804] gi|163261176|emb|CAP43478.1| pseudouridine synthase [Bordetella petrii] Length = 588 Score = 139 bits (351), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 86/218 (39%), Positives = 123/218 (56%), Gaps = 19/218 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKA-- 70 ++ KV+A AGI SRRE+E +I RV VNG E A + V +D + V+G P+ + Sbjct: 124 KLHKVLADAGIGSRREMEELITAGRVSVNG---EPAHIGQRVAPSDQVRVNGKPVARPNT 180 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 + R+ LYHKP G + +H DP GR++VF LP + + +SVGRLD+NTEGLL+ T G Sbjct: 181 KKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTEGLLIFTTSG 240 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-----QK 183 +A + P R Y VR G++D L +GI ++ D Q Sbjct: 241 DMANRIMHPRYGTEREYAVRVLGEMDDATRKSLVEGIELE-----DGQAAFGALDYLGGD 295 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 GSN W V L+EG+NRE++++FE V+RLIR +G Sbjct: 296 GSNRWYRVTLQEGRNREVRRMFESVGVTVSRLIRTRFG 333 >gi|15901702|ref|NP_346306.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae TIGR4] gi|15903731|ref|NP_359281.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae R6] gi|111657282|ref|ZP_01408047.1| hypothetical protein SpneT_02001499 [Streptococcus pneumoniae TIGR4] gi|116515785|ref|YP_817104.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae D39] gi|148984326|ref|ZP_01817621.1| hypothetical protein CGSSp3BS71_03857 [Streptococcus pneumoniae SP3-BS71] gi|148989667|ref|ZP_01820999.1| hypothetical protein CGSSp6BS73_00460 [Streptococcus pneumoniae SP6-BS73] gi|148993332|ref|ZP_01822872.1| hypothetical protein CGSSp9BS68_07037 [Streptococcus pneumoniae SP9-BS68] gi|148998738|ref|ZP_01826176.1| hypothetical protein CGSSp11BS70_11759 [Streptococcus pneumoniae SP11-BS70] gi|149003915|ref|ZP_01828729.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae SP14-BS69] gi|149006471|ref|ZP_01830170.1| segregation and condensation protein B [Streptococcus pneumoniae SP18-BS74] gi|149011261|ref|ZP_01832508.1| segregation and condensation protein B [Streptococcus pneumoniae SP19-BS75] gi|149024998|ref|ZP_01836378.1| hypothetical protein CGSSp23BS72_10018 [Streptococcus pneumoniae SP23-BS72] gi|168483406|ref|ZP_02708358.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC1873-00] gi|168489848|ref|ZP_02714047.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae SP195] gi|168491811|ref|ZP_02715954.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC0288-04] gi|168494210|ref|ZP_02718353.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC3059-06] gi|168574937|ref|ZP_02720900.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae MLV-016] gi|169833469|ref|YP_001695240.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae Hungary19A-6] gi|182684817|ref|YP_001836564.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CGSP14] gi|194398119|ref|YP_002038463.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae G54] gi|221232609|ref|YP_002511763.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae ATCC 700669] gi|225855307|ref|YP_002736819.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae JJA] gi|225859636|ref|YP_002741146.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae 70585] gi|225861667|ref|YP_002743176.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae Taiwan19F-14] gi|237651140|ref|ZP_04525392.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CCRI 1974] gi|237820920|ref|ZP_04596765.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CCRI 1974M2] gi|270292159|ref|ZP_06198374.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. M143] gi|289167211|ref|YP_003445478.1| ribosomal small subunit pseudouridine synthase A [Streptococcus mitis B6] gi|298230346|ref|ZP_06964027.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae str. Canada MDR_19F] gi|298254732|ref|ZP_06978318.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae str. Canada MDR_19A] gi|298503601|ref|YP_003725541.1| pseudouridylate synthase [Streptococcus pneumoniae TCH8431/19A] gi|303254617|ref|ZP_07340719.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae BS455] gi|303258820|ref|ZP_07344800.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae SP-BS293] gi|303261983|ref|ZP_07347929.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae SP14-BS292] gi|303263846|ref|ZP_07349768.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae BS397] gi|303265619|ref|ZP_07351518.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae BS457] gi|303269887|ref|ZP_07355630.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae BS458] gi|307068487|ref|YP_003877453.1| 16S rRNA uridine-516 pseudouridylate synthase-like pseudouridylate synthase [Streptococcus pneumoniae AP200] gi|307128069|ref|YP_003880100.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae 670-6B] gi|307705578|ref|ZP_07642430.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis SK597] gi|307707612|ref|ZP_07644093.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis NCTC 12261] gi|322377639|ref|ZP_08052129.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. M334] gi|14973377|gb|AAK75946.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae TIGR4] gi|15459364|gb|AAL00492.1| Ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae R6] gi|116076361|gb|ABJ54081.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae D39] gi|147755432|gb|EDK62481.1| hypothetical protein CGSSp11BS70_11759 [Streptococcus pneumoniae SP11-BS70] gi|147758055|gb|EDK65060.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae SP14-BS69] gi|147761769|gb|EDK68732.1| segregation and condensation protein B [Streptococcus pneumoniae SP18-BS74] gi|147764251|gb|EDK71182.1| segregation and condensation protein B [Streptococcus pneumoniae SP19-BS75] gi|147923615|gb|EDK74728.1| hypothetical protein CGSSp3BS71_03857 [Streptococcus pneumoniae SP3-BS71] gi|147924984|gb|EDK76066.1| hypothetical protein CGSSp6BS73_00460 [Streptococcus pneumoniae SP6-BS73] gi|147928099|gb|EDK79118.1| hypothetical protein CGSSp9BS68_07037 [Streptococcus pneumoniae SP9-BS68] gi|147929491|gb|EDK80486.1| hypothetical protein CGSSp23BS72_10018 [Streptococcus pneumoniae SP23-BS72] gi|168995971|gb|ACA36583.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae Hungary19A-6] gi|172043185|gb|EDT51231.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC1873-00] gi|182630151|gb|ACB91099.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CGSP14] gi|183571751|gb|EDT92279.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae SP195] gi|183573862|gb|EDT94390.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC0288-04] gi|183575773|gb|EDT96301.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC3059-06] gi|183578730|gb|EDT99258.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae MLV-016] gi|194357786|gb|ACF56234.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae G54] gi|220675071|emb|CAR69649.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae ATCC 700669] gi|225720104|gb|ACO15958.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae 70585] gi|225723654|gb|ACO19507.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae JJA] gi|225728206|gb|ACO24057.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae Taiwan19F-14] gi|270279687|gb|EFA25529.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. M143] gi|288906776|emb|CBJ21610.1| ribosomal small subunit pseudouridine synthase A [Streptococcus mitis B6] gi|298239196|gb|ADI70327.1| pseudouridylate synthase [Streptococcus pneumoniae TCH8431/19A] gi|301794836|emb|CBW37292.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae INV104] gi|301800653|emb|CBW33297.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae OXC141] gi|301802565|emb|CBW35326.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae INV200] gi|302598329|gb|EFL65373.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae BS455] gi|302637066|gb|EFL67555.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae SP14-BS292] gi|302640321|gb|EFL70776.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae SP-BS293] gi|302640590|gb|EFL70994.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae BS458] gi|302644746|gb|EFL74994.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae BS457] gi|302646884|gb|EFL77109.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae BS397] gi|306410024|gb|ADM85451.1| 16S rRNA uridine-516 pseudouridylate synthase-like pseudouridylate synthase [Streptococcus pneumoniae AP200] gi|306485131|gb|ADM92000.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae 670-6B] gi|307616325|gb|EFN95517.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis NCTC 12261] gi|307620855|gb|EFN99939.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis SK597] gi|321281404|gb|EFX58414.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. M334] gi|327390035|gb|EGE88380.1| hypothetical protein SPAR5_1727 [Streptococcus pneumoniae GA04375] gi|332072212|gb|EGI82697.1| hypothetical protein SPAR148_1785 [Streptococcus pneumoniae GA17545] gi|332072697|gb|EGI83180.1| hypothetical protein SPAR50_1869 [Streptococcus pneumoniae GA17570] gi|332073025|gb|EGI83505.1| hypothetical protein SPAR68_1901 [Streptococcus pneumoniae GA41301] gi|332199894|gb|EGJ13969.1| hypothetical protein SPAR69_1806 [Streptococcus pneumoniae GA41317] gi|332200429|gb|EGJ14502.1| hypothetical protein SPAR93_1907 [Streptococcus pneumoniae GA47368] gi|332201284|gb|EGJ15355.1| hypothetical protein SPAR120_1791 [Streptococcus pneumoniae GA47901] Length = 240 Score = 139 bits (351), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 133/230 (57%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++D L L +G+ I G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE +V++L R +G L L G +R ++KK Sbjct: 178 QLTIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKK 227 >gi|121593577|ref|YP_985473.1| ribosomal large subunit pseudouridine synthase B [Acidovorax sp. JS42] gi|120605657|gb|ABM41397.1| ribosomal large subunit pseudouridine synthase B [Acidovorax sp. JS42] Length = 447 Score = 139 bits (351), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 96/255 (37%), Positives = 139/255 (54%), Gaps = 16/255 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR- 68 TP ++ KV+A+AG+ SR E+E++I + R+ VN E A + V D I+V+G P+R Sbjct: 122 TP-KLHKVLAQAGMGSRLEMEQLILEGRISVNN---EPAHIGQRVQFGDQIKVNGKPIRF 177 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 R+ YHKP+G V TH DP R TVF LP + + SVGRLD+NTEGLLL T Sbjct: 178 RIAPPPVRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLQQGKWQSVGRLDLNTEGLLLFT 237 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 + G LA L P R Y VR G + ++ L +G+ ++ V +G+ Sbjct: 238 SSGELANKLMHPRFGLEREYAVRVLGALSTEEKQRLLEGVPLEDGMASFGSVEDGGGEGA 297 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 N W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ ++ +R Sbjct: 298 NCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMMLPRGLKRGAWLELDERDIRA- 356 Query: 245 LGPHLLEEAQVNLDA 259 L++ A LD Sbjct: 357 ----LMQAAGATLDG 367 >gi|124515286|gb|EAY56796.1| Pseudouridine synthase, Rsu [Leptospirillum rubarum] Length = 616 Score = 139 bits (351), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 84/225 (37%), Positives = 132/225 (58%), Gaps = 3/225 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K++A G+ASRR E MI VKVNGI++ V TD + VDG + Sbjct: 19 RLQKLLAHRGLASRRNAEEMIRGGLVKVNGIVVTVPGTKVHPETDRVTVDGKTVPVEPEP 78 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L+L++KP G+V+T DPD ++T+ D P I + +I VGRLDI +EG+LLLTN+G LA+ Sbjct: 79 FLFLFYKPKGIVSTLHDPDEKTTLKDFFPQI-NPLIHVGRLDIQSEGVLLLTNNGDLAQR 137 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + R Y V+ G V + L+ L+ G V + G +++ + +N+W + Sbjct: 138 ILHPRYEIPRTYLVKVQGVVKPEHLDRLRSGKVRLDGRPVQPLELEQERLTETNSWYRIT 197 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+NRE++++F+ ++ V +L RI++G L L G R V+ Sbjct: 198 LTEGRNREVRRLFDALHYFVLKLTRIAFGNLDLAGLEPGEYRLVT 242 >gi|262373293|ref|ZP_06066572.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter junii SH205] gi|262313318|gb|EEY94403.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter junii SH205] Length = 313 Score = 139 bits (351), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 82/213 (38%), Positives = 124/213 (58%), Gaps = 6/213 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----VPLRK 69 +++ KV+AR G+ SRR +E +IA RV +NG + + + TD + +DG + Sbjct: 3 EKLQKVLARVGLGSRRYMEEVIAAGRVSINGKIAQ-VGERIEPTDELRIDGRKVQFQIED 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R R+ +Y+KP G + + +DP+ R TVFD+LP I + R + VGRLDIN+ GLL+ TNDG Sbjct: 62 EIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLIFTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y VR G+V N + KG+ ++ + G N W Sbjct: 122 ELANRLMHPSNEVEREYAVRVMGEVTPQIRNNMLKGVELEDGPAKFESFSEIGGDGINRW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V ++EG+NRE++++FE KV+RL+R YG Sbjct: 182 YQVVVKEGRNREVRRIFESQGLKVSRLLRTRYG 214 >gi|332523615|ref|ZP_08399867.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus porcinus str. Jelinkova 176] gi|332314879|gb|EGJ27864.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus porcinus str. Jelinkova 176] Length = 240 Score = 139 bits (351), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 129/230 (56%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V +NG ++ A V S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTLNGQVITDLATIVKSGDVVEVEGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVIDLLPQVKERIYPVGRLDWDTSGLLILTNDGDFTDKM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++ L L +G+VI G Y ++V D + + V Sbjct: 121 IHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIRVEADKNR---SIV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G L L G R ++KK Sbjct: 178 ELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLDLTGLRPGEARRLNKK 227 >gi|307710771|ref|ZP_07647199.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis SK321] gi|307617377|gb|EFN96549.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis SK321] Length = 240 Score = 139 bits (351), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 133/230 (57%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++D L L +G+ I G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGVANKDNLRPLTRGLDIDGKKTKPAVYEILKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE +V++L R +G L L G +R ++KK Sbjct: 178 QLTIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKK 227 >gi|300312901|ref|YP_003776993.1| 16S rRNA uridine-516 pseudouridylate synthase [Herbaspirillum seropedicae SmR1] gi|300075686|gb|ADJ65085.1| 16S rRNA uridine-516 pseudouridylate synthase protein [Herbaspirillum seropedicae SmR1] Length = 560 Score = 139 bits (351), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 91/256 (35%), Positives = 144/256 (56%), Gaps = 11/256 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 +++ E+ P ++ KV+A AG+ SRR++E +I RV VNG E A + ++ TD + Sbjct: 188 RDLTAEDDAP-KLHKVLADAGLGSRRDMEELIVAGRVSVNG---EPAHIGQRILPTDAVR 243 Query: 62 VDGVPL-RKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G + RK + R+ +YHKP G + +H+DP+GR++VFD LP++ + ++VGRLD N Sbjct: 244 INGKLIQRKVSKRPPRVLVYHKPAGEIVSHADPEGRNSVFDRLPTMKAGKWLAVGRLDYN 303 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLL T G LA L P R Y VR G++++ L G+ + ++ Sbjct: 304 TEGLLLFTTSGDLANRLMHPRYNIEREYAVRTLGELEEGMRQKLLSGVELDDGPAQFSRI 363 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V + EG+NRE++++FE V+RLIR YG L TL G E+ Sbjct: 364 ADGGGEGVNKWYRVTIGEGRNREVRRMFEAVGLTVSRLIRTRYGAMTLPQTLRRGRWEEL 423 Query: 237 SKKILREQLGPHLLEE 252 + +R + LE+ Sbjct: 424 EENAVRNLMAACGLEK 439 >gi|294649541|ref|ZP_06726962.1| ribosomal large subunit pseudouridine synthase B [Acinetobacter haemolyticus ATCC 19194] gi|292824602|gb|EFF83384.1| ribosomal large subunit pseudouridine synthase B [Acinetobacter haemolyticus ATCC 19194] Length = 310 Score = 139 bits (351), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 85/216 (39%), Positives = 126/216 (58%), Gaps = 12/216 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +++ KV+AR G+ SRR +E +IA RV +NG + + + D + +DG RK + Sbjct: 3 EKLQKVLARVGLGSRRYMEEVIAAGRVSINGRIAQ-VGERIEPGDELRIDG---RKVQFQ 58 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 R R+ +Y+KP G + + +DP+ R TVFD+LP I + R + VGRLDIN+ GLLL T Sbjct: 59 VEDEIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFT 118 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + R Y VR G+V N + KG+ ++ + G Sbjct: 119 NDGELANRLMHPSNEVEREYAVRVMGEVTPQIRNNMLKGVELEDGPAKFESFSEIGGDGI 178 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 N W V ++EG+NRE++++FE N KV+RL+R YG Sbjct: 179 NRWYQVVVKEGRNREVRRIFESQNLKVSRLLRTRYG 214 >gi|326202112|ref|ZP_08191982.1| pseudouridine synthase [Clostridium papyrosolvens DSM 2782] gi|325987907|gb|EGD48733.1| pseudouridine synthase [Clostridium papyrosolvens DSM 2782] Length = 235 Score = 139 bits (351), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 81/223 (36%), Positives = 116/223 (52%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A AG+ASRR+ E MI Q RV VN +++E V D + VDG P+ E Sbjct: 5 RLQKYLAHAGVASRRKAEEMIKQGRVAVNNVIIENMGATVTCNDVVTVDGKPVTTEEAKV 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +KP+G V+T D GR V D + R+ VGRLD +T GL+LLTNDG L Sbjct: 65 YIMLNKPVGYVSTSKDQFGRPAVIDLVKDAGKRLYPVGRLDYDTSGLILLTNDGDFTYRL 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + +VY G D++++ + G+ I + + +KG N V + + Sbjct: 125 THPKHEVNKVYEAVISGFPDKNEITRFETGLKIDDYQTSPAEFEVLNKKGINTLVRITIH 184 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 EGKNR+++K+ E KV L RI GP L L G R +S Sbjct: 185 EGKNRQVRKMCEAIGHKVLTLKRIQIGPIALENLPEGKWRHLS 227 >gi|293192784|ref|ZP_06609679.1| ribosomal large subunit pseudouridine synthase B [Actinomyces odontolyticus F0309] gi|292820031|gb|EFF79029.1| ribosomal large subunit pseudouridine synthase B [Actinomyces odontolyticus F0309] Length = 249 Score = 139 bits (351), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 94/235 (40%), Positives = 127/235 (54%), Gaps = 4/235 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E+MIA RV V+G ++ V V T I VDG L E Sbjct: 12 RLQKVLAQAGVASRRASEQMIADGRVSVDGTVVRNQGVRVDPTKQVIHVDGERLILDETK 71 Query: 74 RLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KPIG V+T SDP+GR T+ D + R+ VGRLDI+T GLLLLTNDG LA Sbjct: 72 HIVLAVNKPIGTVSTMSDPEGRPTIADLIADYPERLYHVGRLDIDTSGLLLLTNDGELAN 131 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y R HG+V L GI ++ G D +DT G V + Sbjct: 132 RLTHPKYEIRKTYVARLHGEVKPGVKRTLMNGIELEDGPIKVDSFRIVDTY-GDITTVEI 190 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EG+NR ++++ E + V L+R +GP L L G+TR V L G Sbjct: 191 VVHEGRNRLVRRMMEAVGYPVRELVRTGFGPISLDHLKQGTTRRVKGNALSALYG 245 >gi|227889866|ref|ZP_04007671.1| pseudouridylate synthase [Lactobacillus johnsonii ATCC 33200] gi|227849730|gb|EEJ59816.1| pseudouridylate synthase [Lactobacillus johnsonii ATCC 33200] Length = 244 Score = 139 bits (351), Expect = 6e-31, Method: Compositional matrix adjust. Identities = 82/226 (36%), Positives = 127/226 (56%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E+MI +V VNG + V +D IEV+GVP+ K E Sbjct: 8 ERLQKVIAQAGIASRRKAEKMITAGQVTVNGKKVTELGTKVEPSDKIEVNGVPIEK-EAL 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G++++ SD GR TV D + R+ VGRLD +T GLLL+TNDG LA Sbjct: 67 HTYLFYKPRGVISSVSDDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMTNDGELANK 126 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G + +++ L G+ I G +++ +K V + Sbjct: 127 LMHPRNEVPKVYVAKIKGILSPEEIRSLTHGVRIDGRKSAPAKLKILKTDEKKKTQIVQL 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG ++K++FE + V +L R Y L +L +G RE++ Sbjct: 187 TIHEGHYHQVKRMFEAVHHFVEKLAREKYAFLTLKSLNSGEYRELT 232 >gi|199598710|ref|ZP_03212124.1| 16S rRNA uridine-516 pseudouridylate synthase related enzyme [Lactobacillus rhamnosus HN001] gi|229552173|ref|ZP_04440898.1| pseudouridylate synthase [Lactobacillus rhamnosus LMS2-1] gi|258508377|ref|YP_003171128.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus rhamnosus GG] gi|258539588|ref|YP_003174087.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus rhamnosus Lc 705] gi|199590398|gb|EDY98490.1| 16S rRNA uridine-516 pseudouridylate synthase related enzyme [Lactobacillus rhamnosus HN001] gi|229314475|gb|EEN80448.1| pseudouridylate synthase [Lactobacillus rhamnosus LMS2-1] gi|257148304|emb|CAR87277.1| Ribosomal large subunit pseudouridine synthase B [Lactobacillus rhamnosus GG] gi|257151264|emb|CAR90236.1| Ribosomal large subunit pseudouridine synthase B [Lactobacillus rhamnosus Lc 705] gi|259649691|dbj|BAI41853.1| pseudouridylate synthase [Lactobacillus rhamnosus GG] Length = 248 Score = 139 bits (351), Expect = 6e-31, Method: Compositional matrix adjust. Identities = 86/232 (37%), Positives = 124/232 (53%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR E +IA VKVNG + + + D +EVDGVP+ K E Sbjct: 6 ERLQKVIANAGIASRRHAETLIASGHVKVNGHVTTEMGIKIGPHDTVEVDGVPIGK-EAK 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G+++ D GR V D + R+ VGRLD +T GLL++TNDG LA Sbjct: 65 RYFLFYKPRGVISAVEDNKGRKVVTDYFEDVQERLYPVGRLDYDTSGLLVMTNDGELANH 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG-SNAWVTV 191 L P + Y + G ++ L LK G+ I G +V L T K A V + Sbjct: 125 LMHPRYALEKKYVAKVEGIPNRPALAPLKTGVSIDGKMTAPAKVEILSTDKAKKTAIVAL 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + +G N ++KK+F+ + V +L R +YG L L G R + + L + Sbjct: 185 TIHQGMNHQVKKMFKAVGFPVIKLSREAYGNLTLAGLQPGEHRPIKPQELHD 236 >gi|262375673|ref|ZP_06068905.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter lwoffii SH145] gi|262309276|gb|EEY90407.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter lwoffii SH145] Length = 350 Score = 139 bits (351), Expect = 6e-31, Method: Compositional matrix adjust. Identities = 84/213 (39%), Positives = 122/213 (57%), Gaps = 6/213 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----VPLRK 69 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG + Sbjct: 3 EKLQKVLARVGLGSRRYMEEVIAAGRVSVNGQIAQ-VGERIEPGDELRIDGRKVAFQIED 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R R+ +Y+KP G + + SDP+ R TVF+ LP+I R + VGRLDIN+ GLLL TNDG Sbjct: 62 EIRRRVIIYYKPEGEICSRSDPENRPTVFEQLPAIPGDRWVMVGRLDINSTGLLLFTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y VR G+V N + KG+V+ + G N W Sbjct: 122 ELANRLMHPSNEIEREYAVRVMGEVTPQIRNNMLKGVVLDDGPAKFESFSELGGDGINRW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V ++EG+NRE++++FE KV+RL+R YG Sbjct: 182 FQVVVKEGRNREVRRIFESQGLKVSRLLRTRYG 214 >gi|242373794|ref|ZP_04819368.1| pseudouridylate synthase [Staphylococcus epidermidis M23864:W1] gi|242348531|gb|EES40133.1| pseudouridylate synthase [Staphylococcus epidermidis M23864:W1] Length = 245 Score = 139 bits (351), Expect = 6e-31, Method: Compositional matrix adjust. Identities = 75/223 (33%), Positives = 130/223 (58%), Gaps = 3/223 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +V VNG ++ V ++D +EV+G+ + + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLITEGKVSVNGQVVTELGTKVSNSDTVEVEGIKIEQEDKM 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L++KP ++T+ SD GR+ V D I +R+ VGRLD +T G+LLLTNDG + Sbjct: 66 YI-LFYKPTQVITSVSDDRGRTVVTDYFDDIETRIYPVGRLDYDTSGILLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + Y + G + ++++ L+KGI ++ QV + Q + + V + Sbjct: 125 MTHPRYHIKKKYVAKLKGYLMREEVKELEKGIQLEDGFTQPAQVKIKKQDKEKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EG+NR+++++FE F +VN+L RI +GP L L AG R Sbjct: 185 TISEGRNRQVRRMFEHFGHQVNKLTRIQFGPLDLKGLNAGEGR 227 >gi|260887142|ref|ZP_05898405.1| ribosomal large subunit pseudouridine synthase B [Selenomonas sputigena ATCC 35185] gi|330839088|ref|YP_004413668.1| pseudouridine synthase Rsu [Selenomonas sputigena ATCC 35185] gi|260863204|gb|EEX77704.1| ribosomal large subunit pseudouridine synthase B [Selenomonas sputigena ATCC 35185] gi|329746852|gb|AEC00209.1| pseudouridine synthase Rsu [Selenomonas sputigena ATCC 35185] Length = 242 Score = 139 bits (350), Expect = 6e-31, Method: Compositional matrix adjust. Identities = 90/228 (39%), Positives = 131/228 (57%), Gaps = 4/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K+I+RAG+ASRR+ E +IA RV V+G ++ ST IEVDG + ER Sbjct: 3 ERLQKIISRAGVASRRKAEELIAAGRVTVDGAVVREPGTKADASTARIEVDGKRIPAEER 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G V+T SD GR TV D LP RV VGRLD NTEGL+LLTNDG L + Sbjct: 63 LVYFLLNKPKGCVSTVSDERGRRTVLDLLPVKNVRVYPVGRLDQNTEGLILLTNDGTLTQ 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICY-GDMQVTLDTQKGSNAWVT 190 L P + YR + G++ + L L+ GI + G+ +++V T+KG + V Sbjct: 123 ALLHPRFLVHKTYRAKVAGELTPEALKKLRSGIELADGMTAPAEVRVYGVTEKGLSD-VE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V L EG+NR+++++FE V L R + L + G++R ++K Sbjct: 182 VTLHEGRNRQVRRMFEAVGCDVRALKRTRFAQLTLDGVKRGASRPLTK 229 >gi|319938699|ref|ZP_08013063.1| pseudouridine synthase [Streptococcus anginosus 1_2_62CV] gi|319811749|gb|EFW08015.1| pseudouridine synthase [Streptococcus anginosus 1_2_62CV] Length = 241 Score = 139 bits (350), Expect = 6e-31, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 130/230 (56%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q V VNG ++ A + S D +EV G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIKQGLVTVNGQVVRELATTIKSGDRVEVSGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVTDDKGRPTVVDLLPNVTERIYPVGRLDWDTSGALILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G D++ L L KG+ + G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGVADKEVLRPLTKGVEVDGKKTKPAVYEILKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE +V++L R +G L L G R ++KK Sbjct: 178 QLTIHEGRNHQVKKMFEAVGLQVDKLSRTQFGHLNLTGLRPGEARRLNKK 227 >gi|239906975|ref|YP_002953716.1| pseudouridine synthase [Desulfovibrio magneticus RS-1] gi|239796841|dbj|BAH75830.1| pseudouridine synthase [Desulfovibrio magneticus RS-1] Length = 322 Score = 139 bits (350), Expect = 6e-31, Method: Compositional matrix adjust. Identities = 93/250 (37%), Positives = 138/250 (55%), Gaps = 12/250 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K +A AG+ SRR + +IA RV VNG ++ A + + + D + VDG P+ A Sbjct: 10 RINKALASAGVCSRRHADDLIAAGRVTVNGAVVTEAGLRIDPARDALAVDGAPVNLAPEI 69 Query: 74 RLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGL 130 + L HK G+VTT SDP+GR TVFD LP ++ R+ VGRLD +EGLLLLT DG L Sbjct: 70 PITLALHKKPGVVTTASDPEGRPTVFDGLPEVWRGKRLFPVGRLDFFSEGLLLLTTDGEL 129 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQV-TLDTQKGSNAW 188 A L P + YRV GQV D L + +G+ + +G + ++ + Sbjct: 130 ALRLTHPRWHVPKRYRVTVRGQVTPDMLGTMARGMRLAEGERLAPVAARVVEGPAQDRSI 189 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQL 245 + + L +G NR+I+++ V RL R+S GP LG L G+ RE++ LR+ + Sbjct: 190 LEMELHQGVNRQIRRMCRDLGLTVLRLARVSQGPVALGDLPLGACRELTPAELATLRQSV 249 Query: 246 GPHLLEEAQV 255 G L++A V Sbjct: 250 G---LDDADV 256 >gi|314933670|ref|ZP_07841035.1| pseudouridine synthase RluB [Staphylococcus caprae C87] gi|313653820|gb|EFS17577.1| pseudouridine synthase RluB [Staphylococcus caprae C87] Length = 245 Score = 139 bits (350), Expect = 6e-31, Method: Compositional matrix adjust. Identities = 75/223 (33%), Positives = 130/223 (58%), Gaps = 3/223 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +VKVNG ++ V +D +EV+G+ + + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLITEGKVKVNGQVVTELGTKVSHSDTVEVEGIKIEQEDKM 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L++KP ++T+ SD GR V D I +R+ VGRLD +T G+LLLTNDG + Sbjct: 66 YI-LFYKPTQVITSVSDDLGRKVVTDYFEDIETRIYPVGRLDYDTSGVLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + Y + G + ++++ L++GI ++ QV + Q + + V + Sbjct: 125 MTHPRYHIKKKYVAKLKGYLMREQVKELEQGIELEDGFTQPAQVKIKRQDKEKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EG+NR+++++FE+F +VN+L RI +GP L L AG R Sbjct: 185 TISEGRNRQVRRMFEYFGHEVNKLTRIQFGPLDLKGLNAGEGR 227 >gi|42519012|ref|NP_964942.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus johnsonii NCC 533] gi|41583299|gb|AAS08908.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus johnsonii NCC 533] Length = 239 Score = 139 bits (350), Expect = 6e-31, Method: Compositional matrix adjust. Identities = 81/226 (35%), Positives = 128/226 (56%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ASRR+ E+MI+ +V VNG + V +D IEV+GVP+ K E Sbjct: 3 ERLQKVIAQAGVASRRKAEKMISAGQVTVNGKKVTELGTKVEPSDKIEVNGVPIEK-EAL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G++++ SD GR TV D + R+ VGRLD +T GLLL+TNDG LA Sbjct: 62 HTYLFYKPRGVISSVSDDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMTNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G + +++ L G+ I G +++ +K V + Sbjct: 122 LMHPRNEVPKVYVAKIKGILSPEEIRSLTHGVRIDGRKSAPAKLKILKTDEKKKTQIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG ++K++FE + V +L R Y L +L +G RE++ Sbjct: 182 TIHEGHYHQVKRMFEAVHHFVEKLAREKYAFLTLKSLNSGEYRELT 227 >gi|319946464|ref|ZP_08020701.1| ribosomal large subunit pseudouridine synthase B [Streptococcus australis ATCC 700641] gi|319747432|gb|EFV99688.1| ribosomal large subunit pseudouridine synthase B [Streptococcus australis ATCC 700641] Length = 242 Score = 139 bits (350), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 83/230 (36%), Positives = 131/230 (56%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGKVVRELATTIKSGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRPTVIDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +G+ I G Y ++V D +K + + V Sbjct: 121 IHPRNEIDKVYVARVKGLANKENLRPLTRGVTIDGKKTKPATYEILKV--DPEK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G + L G R ++KK Sbjct: 178 QLTIHEGRNHQVKKMFEAVGLLVDKLSRTQFGNLDVSGLRPGEYRRLNKK 227 >gi|331265750|ref|YP_004325380.1| ribosomal small subunit pseudouridine synthase A, 16S rRNA pseudouridylate synthase and related pseudouridylate synthases [Streptococcus oralis Uo5] gi|326682422|emb|CBZ00039.1| ribosomal small subunit pseudouridine synthase A, 16S rRNA pseudouridylate synthase and related pseudouridylate synthases [Streptococcus oralis Uo5] Length = 240 Score = 139 bits (350), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 132/230 (57%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++D L L +G+ I G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYIARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE +V++L R +G L L G R ++KK Sbjct: 178 QLTIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGEARRLNKK 227 >gi|127513174|ref|YP_001094371.1| pseudouridine synthase [Shewanella loihica PV-4] gi|126638469|gb|ABO24112.1| ribosomal large subunit pseudouridine synthase B [Shewanella loihica PV-4] Length = 293 Score = 139 bits (350), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 87/218 (39%), Positives = 129/218 (59%), Gaps = 8/218 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E IA RV ++G + + + + + +DG V ++ + Sbjct: 8 EKLQKVLARAGHGSRREMEAWIAAGRVSIDG-EIAKLGDRIEADAKVRIDGRTVSIKSED 66 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+DG Sbjct: 67 DLVCRVIAYHKPEGEICSRKDPEGRPTVFDRLPKTRDSRWVAVGRLDINTSGLLLFTSDG 126 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNA 187 LA L PS + R Y VR G+V + L+ G+ ++ G + D ++ +G N Sbjct: 127 ELANRLMHPSHEVEREYAVRTFGEVTDACIQRLRSGVTLEDGPAHFD-KIKPAGGEGMNK 185 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+NRE+++++E +V+RLIRI YG L Sbjct: 186 WWHVSLAEGRNREVRRLWESQEVQVSRLIRIRYGMIDL 223 >gi|325679067|ref|ZP_08158661.1| pseudouridylate synthase [Ruminococcus albus 8] gi|324109191|gb|EGC03413.1| pseudouridylate synthase [Ruminococcus albus 8] Length = 244 Score = 139 bits (350), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 126/230 (54%), Gaps = 2/230 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K+IA +G SRR+ E IA +V VNG + + D I VDG+ + + ++ Sbjct: 5 RIQKIIAESGFCSRRKAEEFIAAGKVTVNGRKVTLGDKALPGKDLIVVDGIKIDQPKKRN 64 Query: 75 LW--LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + HKP G VTT +D R V D L + RV VGRLD ++EGLLLLTNDGG A Sbjct: 65 LYYIMLHKPRGYVTTMNDELNRKCVTDLLDGVPERVYPVGRLDKDSEGLLLLTNDGGFAN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + PS + YRV ++ ++L L G+ I G + V + ++ + + + Sbjct: 125 DIMHPSRHVAKTYRVTVRPDINDEQLVKLASGVEIDGRMTAECSVVVLDKQPNRVVLQMT 184 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+I+K+ E +V RL R + GP +LG L AG RE+ LR Sbjct: 185 IHEGRNRQIRKMCEAVGLEVARLKRTAVGPLRLGMLKAGEWRELKPDELR 234 >gi|310642601|ref|YP_003947359.1| pseudouridine synthase [Paenibacillus polymyxa SC2] gi|309247551|gb|ADO57118.1| Pseudouridine synthase [Paenibacillus polymyxa SC2] Length = 252 Score = 139 bits (350), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 127/228 (55%), Gaps = 4/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K++A+AG+ASRR+ E +I V+VNG+ + D I V G P+ K E+ Sbjct: 2 ERLQKILAQAGVASRRKCEELIQAGSVEVNGVTVTELGTKADPDQDMITVKGRPI-KTEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++T+ SDP+GR V D L + RV VGRLD +TEGLLLLTNDG A Sbjct: 61 KIYLMMNKPKGVITSASDPEGRKIVSDYLKGVKERVYPVGRLDYDTEGLLLLTNDGEFAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 +L P + Y G +L+ LKKGIV++ +V G + + Sbjct: 121 LLTHPKHHVPKTYVATVKGVPHGTELDKLKKGIVLEDGITAPAEVEYKDVDPDGKESVIQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + EG+NR+++++FE + V RL RI++G L L G TR ++K Sbjct: 181 ITIYEGRNRQVRRMFEAISHPVIRLKRIAFGDLLLQNLKRGLTRPLTK 228 >gi|225620831|ref|YP_002722089.1| pseudouridine synthase [Brachyspira hyodysenteriae WA1] gi|225215651|gb|ACN84385.1| pseudouridine synthase [Brachyspira hyodysenteriae WA1] Length = 359 Score = 139 bits (350), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 93/307 (30%), Positives = 151/307 (49%), Gaps = 22/307 (7%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 Q+N R+ KVI +G ASRR E+ I RV+VN ++ A V D + +D + Sbjct: 4 QQNEEAVRLVKVILESGFASRRNCEKAIMSGRVRVNNQVILDPAYRVKEDDSVSIDRELI 63 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + + LY KPIG+V+T GR + + I R+ GRLD + G++++TND Sbjct: 64 KRQTKRYMALY-KPIGVVSTTKYLPGRRIITEFFKGIKERLFYAGRLDSESRGIMIITND 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G A ++ PS + L+VY V +G++D + L KGI I+ + Y + + ++ + Sbjct: 123 GEFANIITHPSYEILKVYDVTVNGKIDSEALLNASKGITIKNVSYSPFKFKILSKGRIQS 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ-----LGTLLAGSTREVSKKILR 242 + + + EGKNREI+K+F+ +KV L RIS G GTL AG R+++KK Sbjct: 183 KIRLTINEGKNREIRKIFDHLGYKVIDLERISVGCVSKYDEVSGTLEAGHIRDLTKK--- 239 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 +D + ++D +I +PDD S N + K+ Sbjct: 240 -------------EIDFFFKQKDKKLKDIESIFENIPDDIEDENYEDSILNSSNNDKEEN 286 Query: 303 TPVHRRN 309 VH R+ Sbjct: 287 KKVHDRS 293 >gi|251796373|ref|YP_003011104.1| pseudouridine synthase [Paenibacillus sp. JDR-2] gi|247543999|gb|ACT01018.1| pseudouridine synthase [Paenibacillus sp. JDR-2] Length = 250 Score = 139 bits (350), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 89/238 (37%), Positives = 135/238 (56%), Gaps = 9/238 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K++A+AG+ASRR+ E +I V+VNG + V +TD I V+G P+R ++ Sbjct: 5 ERLQKILAQAGVASRRKCEELILAGAVEVNGEKVTTLGVKADPATDEITVNGKPIRSEKK 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP G++T+ DP GR V D LP I RV VGRLD +TEGLLLLTNDG A Sbjct: 65 IYLML-NKPKGVITSAKDPQGRKVVADFLPGIRERVYPVGRLDYDTEGLLLLTNDGEFAN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT---LDTQKGSNAWV 189 +L PS + Y G L+ LKKG++++ +V +D +K + + + Sbjct: 124 LLTHPSHHVPKTYYATVKGVPHGSLLDQLKKGVMLEDGLTAPAEVEYQDIDEEK-NMSTI 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE---VSKKILREQ 244 + + EG+NR+++++F+ V +L R+ +G L TL G R V K LR+Q Sbjct: 183 RITIYEGRNRQVRRMFDAIKHPVLKLRRVKFGELGLRTLARGQFRHLTPVEVKELRDQ 240 >gi|113953004|ref|YP_730229.1| 16S rRNA pseudouridylate synthase [Synechococcus sp. CC9311] gi|113880355|gb|ABI45313.1| 16S rRNA pseudouridylate synthase [Synechococcus sp. CC9311] Length = 244 Score = 139 bits (349), Expect = 8e-31, Method: Compositional matrix adjust. Identities = 86/229 (37%), Positives = 123/229 (53%), Gaps = 1/229 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T QR+ K+IA AGI SRR E ++ + RV VN + S D IEVDG PL A Sbjct: 1 MTRQRLQKLIAAAGICSRRHAEELMREGRVTVNQVTAGLGDQADPSIDRIEVDGRPLSHA 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-SVGRLDINTEGLLLLTNDGG 129 R RL L +KP G++++ SDP GR TV D +P R + VGRLD ++ G LLLTN G Sbjct: 61 SRPRLILLNKPRGVISSCSDPQGRETVLDLIPKSLRRGLHPVGRLDGDSRGALLLTNQGA 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + L P + Y+V+ G LN G+ + G+ +V+L Q + + + Sbjct: 121 ITLQLTHPRYSHSKTYKVQVRGTPTNTTLNRWCNGVELDGVPTQPAEVSLLKQGANQSLL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V LREG+NR+I++V + V L R + LG+L G RE+++ Sbjct: 181 KVILREGRNRQIRRVADALGHPVLDLQRTAISSIDLGSLPEGHWRELTR 229 >gi|225867942|ref|YP_002743890.1| ribosomal large subunit pseudouridine synthase B [Streptococcus equi subsp. zooepidemicus] gi|225871142|ref|YP_002747089.1| ribosomal large subunit pseudouridine synthase B [Streptococcus equi subsp. equi 4047] gi|225700546|emb|CAW95028.1| ribosomal large subunit pseudouridine synthase B [Streptococcus equi subsp. equi 4047] gi|225701218|emb|CAW98156.1| ribosomal large subunit pseudouridine synthase B [Streptococcus equi subsp. zooepidemicus] Length = 240 Score = 139 bits (349), Expect = 8e-31, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 131/230 (56%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I + V +NG ++ A V S D +EV+G+P+ E+ Sbjct: 2 RINKYIAHAGLASRRKAEELIKRGLVTLNGQVITDLATTVKSGDLVEVEGIPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRQTVIDLLPQVKERIYPVGRLDWDTSGLLILTNDGDFTDKM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G V ++ L L +G+VI G Y ++V D + + V Sbjct: 121 IHPRNEIDKVYLARVKGVVTKESLRPLTRGVVIDGKKTKPARYRIIRVEPDKNR---SIV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG++ ++KK+FE V++L R +G + L G R +SKK Sbjct: 178 ELTIHEGRHHQVKKMFEVVGHLVDKLSRTQFGSLDVRGLKPGEARRLSKK 227 >gi|325962913|ref|YP_004240819.1| pseudouridine synthase family protein [Arthrobacter phenanthrenivorans Sphe3] gi|323469000|gb|ADX72685.1| pseudouridine synthase family protein [Arthrobacter phenanthrenivorans Sphe3] Length = 400 Score = 139 bits (349), Expect = 8e-31, Method: Compositional matrix adjust. Identities = 89/230 (38%), Positives = 131/230 (56%), Gaps = 6/230 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A AG+ASRR E MIA+ RV+V+G ++ V V T I VDG+ ++ E Sbjct: 161 RLQKVMASAGVASRRVCEEMIAEGRVEVDGQVVTELGVRVDPKTAVIHVDGIRIQLDENM 220 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD---NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +++KP G+V+T DP+GR + D N + R+ VGRLD+ TEGLLLLTNDG L Sbjct: 221 VYMVFNKPKGVVSTMEDPEGRPCISDFLKNAKNKGERLFHVGRLDVATEGLLLLTNDGEL 280 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y V+ G Q LK+G+ ++ G D +D+ G + + Sbjct: 281 ANRLTHPSYEVPKTYLVQVRGPFPQGIGAQLKEGVELEDGFASVDSFRLVDSTPG-HVLI 339 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V L GKNR ++++F+ + V RL+R+ GP LG GS R + K+ Sbjct: 340 EVVLHSGKNRIVRRLFDAVGFPVLRLVRVKVGPIGLGDQRQGSIRNLGKQ 389 >gi|227879091|ref|ZP_03996980.1| pseudouridylate synthase [Lactobacillus crispatus JV-V01] gi|256843080|ref|ZP_05548568.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus crispatus 125-2-CHN] gi|256850268|ref|ZP_05555697.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus crispatus MV-1A-US] gi|262046340|ref|ZP_06019302.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus crispatus MV-3A-US] gi|293379763|ref|ZP_06625895.1| pseudouridine synthase [Lactobacillus crispatus 214-1] gi|295692876|ref|YP_003601486.1| pseudouridine synthase [Lactobacillus crispatus ST1] gi|312977265|ref|ZP_07789013.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus crispatus CTV-05] gi|227861332|gb|EEJ68962.1| pseudouridylate synthase [Lactobacillus crispatus JV-V01] gi|256614500|gb|EEU19701.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus crispatus 125-2-CHN] gi|256712905|gb|EEU27897.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus crispatus MV-1A-US] gi|260573211|gb|EEX29769.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus crispatus MV-3A-US] gi|290923672|gb|EFE00543.1| pseudouridine synthase [Lactobacillus crispatus 214-1] gi|295030982|emb|CBL50461.1| Pseudouridine synthase [Lactobacillus crispatus ST1] gi|310895696|gb|EFQ44762.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus crispatus CTV-05] Length = 238 Score = 139 bits (349), Expect = 8e-31, Method: Compositional matrix adjust. Identities = 81/227 (35%), Positives = 126/227 (55%), Gaps = 3/227 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E+MI RVKV+G ++ + V + +I VD P+ + E Sbjct: 3 ERLQKVIAEAGIASRRKAEKMIVAGRVKVDGHVVTKLGTKVDTFSNITVDDEPIER-ESL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+V+T D GR TV D + R+ VGRLD +T GLLL+TNDG LA + Sbjct: 62 HTYLFYKPRGVVSTAEDDRGRKTVVDYFEDLPYRLYPVGRLDYDTSGLLLMTNDGKLANL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G + D++ L +G+ + ++V K V + Sbjct: 122 LMHPKNEVAKVYVAKIKGILTPDEIKTLTQGVKLDHFKAAPAKVKVLKTDHKKDTQIVQI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG ++K++F+ V++L R Y L +L +G RE+SK Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVDKLAREKYAFLTLDSLTSGQYRELSK 228 >gi|289208914|ref|YP_003460980.1| RNA-binding S4 domain protein [Thioalkalivibrio sp. K90mix] gi|288944545|gb|ADC72244.1| RNA-binding S4 domain protein [Thioalkalivibrio sp. K90mix] Length = 318 Score = 139 bits (349), Expect = 8e-31, Method: Compositional matrix adjust. Identities = 93/234 (39%), Positives = 131/234 (55%), Gaps = 20/234 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKA 70 +RV KV+A G+ SRRE+E I + VKVN +R A V D I V G + A Sbjct: 3 ERVQKVLAARGLGSRREIEGWIERGEVKVN----QRTAKLGDQVGPNDVIRVRGRVIHMA 58 Query: 71 ERTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 E WL YHKP+G + + SDP+GR VF +LP + R ++VGRLD+NT GLLL T DG Sbjct: 59 EHAHRWLVYHKPVGEICSRSDPEGRKPVFASLPRLKGQRWVAVGRLDLNTSGLLLFTTDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----- 183 LA L PS R Y VR G+V D +L +G+ ++ D D + Sbjct: 119 ELANRLMHPSHSLEREYAVRVLGEVPDDTRRMLLEGVELE-----DGPARFDVLEERGGD 173 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 G+N W V + EG+NR ++++++ V+RLIR+ YGP LG L G++R++ Sbjct: 174 GANHWFHVVVSEGRNRLVRRLWDAVGVTVSRLIRVRYGPVVLGRGLKTGASRDL 227 >gi|396661|emb|CAA79503.1| unknown open reading frame [Buchnera aphidicola] Length = 258 Score = 139 bits (349), Expect = 8e-31, Method: Compositional matrix adjust. Identities = 85/218 (38%), Positives = 131/218 (60%), Gaps = 14/218 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV----NVMSTDHIEVDGVPL--- 67 ++ K+++ G SRR +E MI ++ +NG E+A + N + I +D + Sbjct: 4 KIQKILSDLGYGSRRFIECMIKCGKISING---EKAIIGQYLNKKNPGEILIDKKKIIVK 60 Query: 68 RKAERTRLWLYH-KPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 R ++ +Y+ KPIG V T D R TVFD LP + +R +SVGRLDINT+GLLL T Sbjct: 61 RNKNLPKVLIYNNKPIGEVCTRDDFQKRLTVFDKLPKLNLNRWVSVGRLDINTKGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQG-ICYGDMQVTLDTQK 183 NDG LA L P +Q R Y +R G+++++K+N+L+KG+ +I G + + ++ D ++ Sbjct: 121 NDGTLANKLMHPRSQIEREYNIRIFGEMNKNKINILRKGVKIIHGYVSFKEIVPLYDKKE 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 G N W L EGKNREI+ +F+ +VN+LIR+ YG Sbjct: 181 GKNKWFKGILCEGKNREIRLMFKSIQCQVNQLIRVRYG 218 >gi|323340736|ref|ZP_08080988.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus ruminis ATCC 25644] gi|323091859|gb|EFZ34479.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus ruminis ATCC 25644] Length = 261 Score = 139 bits (349), Expect = 8e-31, Method: Compositional matrix adjust. Identities = 79/237 (33%), Positives = 131/237 (55%), Gaps = 3/237 (1%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 KN +++ R+ K +A AG+ASRR E++I + RVKVNG++++ V D IEV+ Sbjct: 7 KNNKEDHMAEVRLQKAMADAGVASRRASEKLILEGRVKVNGVVVKELGTKVKGDDAIEVN 66 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G + + +L++KP G+++ D GR V D +R+ +GRLD +T G+LL Sbjct: 67 GTLIERERNKVYYLFYKPRGVISAVKDDKGRRVVTDYFEGEKNRIYPIGRLDYDTSGILL 126 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY---GDMQVTLD 180 LTNDG LA +L P + + Y + G V D L L+KG+ ++ Y +V Sbjct: 127 LTNDGELANLLMHPRYKVDKTYVAKVEGLVQSDDLKRLRKGVKMKDGHYSARAKAKVISS 186 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +++ V++ + EG+N ++K +FE V +L R +Y L L++G RE+S Sbjct: 187 DRAKNHSIVSLTIHEGRNHQVKNMFEAIGHPVMKLKRETYDFLTLKGLVSGQYRELS 243 >gi|225857461|ref|YP_002738972.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae P1031] gi|225725990|gb|ACO21842.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae P1031] Length = 240 Score = 139 bits (349), Expect = 8e-31, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 133/230 (57%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++D L L +G+ I G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE +V++L R +G L L G +R ++KK Sbjct: 178 QLIIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKK 227 >gi|293364213|ref|ZP_06610939.1| ribosomal large subunit pseudouridine synthase B [Streptococcus oralis ATCC 35037] gi|306824561|ref|ZP_07457907.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. oral taxon 071 str. 73H25AP] gi|307702434|ref|ZP_07639390.1| ribosomal large subunit pseudouridine synthase B [Streptococcus oralis ATCC 35037] gi|291317059|gb|EFE57486.1| ribosomal large subunit pseudouridine synthase B [Streptococcus oralis ATCC 35037] gi|304433348|gb|EFM36318.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. oral taxon 071 str. 73H25AP] gi|307624016|gb|EFO02997.1| ribosomal large subunit pseudouridine synthase B [Streptococcus oralis ATCC 35037] Length = 240 Score = 139 bits (349), Expect = 9e-31, Method: Compositional matrix adjust. Identities = 83/230 (36%), Positives = 133/230 (57%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ A + + D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKAGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++D L L +G+ I G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE +V++L R +G L L G +R ++KK Sbjct: 178 QLTIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKK 227 >gi|74317276|ref|YP_315016.1| ribosomal large subunit pseudouridine synthase B [Thiobacillus denitrificans ATCC 25259] gi|74056771|gb|AAZ97211.1| pseudouridine synthase, Rsu [Thiobacillus denitrificans ATCC 25259] Length = 296 Score = 139 bits (349), Expect = 9e-31, Method: Compositional matrix adjust. Identities = 88/218 (40%), Positives = 126/218 (57%), Gaps = 9/218 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRK 69 +R+ K +A AG+ SRRE+E IA+ RV+VNG E A V V D ++V G V LR Sbjct: 34 ERLHKALASAGLGSRREMEEWIAEGRVQVNG---ETATVGSKVGPRDVVKVSGRRVYLRF 90 Query: 70 AE-RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E RTR+ +YHK G + + DP GR+TVFD LP + S+ I+VGRLD NT+GL++ T Sbjct: 91 DEKRTRILIYHKSEGEIVSRDDPGGRATVFDALPRLRGSKWIAVGRLDYNTDGLMIFTTS 150 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P + R Y VR G++ +D + L G+ + +G+N Sbjct: 151 GDLANRLMHPRFEVEREYAVRVLGELTEDMIAELLAGVELDDGPAQLQSCFAAGGEGANR 210 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V ++EG+ RE++++FE V+RL RI +GP L Sbjct: 211 WYRVVIKEGRKREVRRLFEHLGLTVSRLTRIRFGPIVL 248 >gi|32472361|ref|NP_865355.1| ribosomal large subunit pseudouridine synthase B [Rhodopirellula baltica SH 1] gi|32443597|emb|CAD73039.1| ribosomal large subunit pseudouridine synthase B [Rhodopirellula baltica SH 1] Length = 395 Score = 139 bits (349), Expect = 9e-31, Method: Compositional matrix adjust. Identities = 83/226 (36%), Positives = 135/226 (59%), Gaps = 5/226 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+++++A AG SRR+ E +I + RV V+G + V + VDG LR ++ Sbjct: 26 RINQLLASAGFGSRRQCEELIREGRVDVDGETITELGTTVDPDLQKVRVDGNYLR-PQKL 84 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP+G+VTT+ DP GR V D +P RV VGRLDI++EGL+LLTNDG LA+ Sbjct: 85 VYYVVNKPVGIVTTNRDPRGRPRVIDLVPPT-ERVFPVGRLDISSEGLILLTNDGDLAQK 143 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VYRV G+V + + +++GI I +G+ D + + + + + Sbjct: 144 LAHPKFGIQKVYRVVVAGEVRGETMKKMREGIYIAEGLVQVDGAKIIKARTKAT-EMEIR 202 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L+EGKNREI+++ F KV +L R++ GP +LG + G+ R++++ Sbjct: 203 LKEGKNREIRRILARFGHKVQQLRRVAIGPLKLGDVPRGAYRKLTR 248 >gi|327538428|gb|EGF25099.1| ribosomal large subunit pseudouridine synthase B [Rhodopirellula baltica WH47] Length = 395 Score = 139 bits (349), Expect = 9e-31, Method: Compositional matrix adjust. Identities = 83/226 (36%), Positives = 135/226 (59%), Gaps = 5/226 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+++++A AG SRR+ E +I + RV V+G + V + VDG LR ++ Sbjct: 26 RINQLLASAGFGSRRQCEELIREGRVDVDGETITELGTTVDPDLQKVRVDGNYLR-PQKL 84 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP+G+VTT+ DP GR V D +P RV VGRLDI++EGL+LLTNDG LA+ Sbjct: 85 VYYVVNKPVGIVTTNRDPRGRPRVIDLVPPT-ERVFPVGRLDISSEGLILLTNDGDLAQK 143 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VYRV G+V + + +++GI I +G+ D + + + + + Sbjct: 144 LAHPKFGIQKVYRVVVAGEVRGETMKKMREGIYIAEGLVQVDGAKIIKARTKAT-EMEIR 202 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L+EGKNREI+++ F KV +L R++ GP +LG + G+ R++++ Sbjct: 203 LKEGKNREIRRILARFGHKVQQLRRVAIGPLKLGDVPRGAYRKLTR 248 >gi|332974446|gb|EGK11370.1| ribosomal large subunit pseudouridine synthase B [Kingella kingae ATCC 23330] Length = 390 Score = 139 bits (349), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 83/232 (35%), Positives = 134/232 (57%), Gaps = 11/232 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMST 57 +++K P+R+ KV+A +G+ SRRE+E I V+VNG R A V Sbjct: 127 LREKRTDLSRIEPERLQKVLAASGVGSRREMEEWINNGWVQVNG----RVATLGEKVSPD 182 Query: 58 DHIEVDG--VPLRKAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGR 113 D + V G + L+ A+R R+ LY+K G + + DP GR ++FD LP + SR +++GR Sbjct: 183 DQVTVKGSAIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGR 242 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LDINT GLL+LT G L + PS + R Y VR G++ +++N L +G++++ Sbjct: 243 LDINTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGELSPEQMNDLCEGVMLEDGLAK 302 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ +G N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 303 VERIYEQGGEGVNKWYNVIIKEGRNREVRRLFESQGVTVSRLVRVGFGPIGL 354 >gi|326560444|gb|EGE10826.1| ribosomal large subunit pseudouridine synthase B [Moraxella catarrhalis 7169] gi|326571160|gb|EGE21184.1| ribosomal large subunit pseudouridine synthase B [Moraxella catarrhalis BC7] Length = 328 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 87/214 (40%), Positives = 126/214 (58%), Gaps = 8/214 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAER 72 +++ K++AR G+ SRR +E +I R+ +N + V+ TD I +DG +R KAER Sbjct: 24 EKLQKLLARLGLGSRRGLEEIIKSGRISINDKVAT-LGDRVILTDEIRIDGRQVRLKAER 82 Query: 73 T---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + + SDP GR TVFD LP + + R + VGRLDIN+ GLLL TNDG Sbjct: 83 EKRRRVIAYYKPEGEICSASDPQGRPTVFDRLPKLTNDRWVMVGRLDINSSGLLLFTNDG 142 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNA 187 LA L PS+ +R Y VR G+V + L G+ ++ G+ D + G N Sbjct: 143 ELAHRLMHPSSGIIREYAVRVLGEVTPQIASQLTAGVELEDGVAKFD-DIKEGGGIGVNK 201 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 W V ++EG+ RE++++FE KV+RLIR YG Sbjct: 202 WYHVTIKEGRKREVRRMFESQTLKVSRLIRTRYG 235 >gi|159026975|emb|CAO86693.1| unnamed protein product [Microcystis aeruginosa PCC 7806] Length = 248 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 88/219 (40%), Positives = 122/219 (55%), Gaps = 5/219 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV K++A+ GIASRR E MI +RV+ NG +++ DH+E+DG + A R Sbjct: 3 ERVQKILAQWGIASRRRAEEMIVARRVRRNGKIVQLGEKADPEKDHLEIDGKKIEPANRP 62 Query: 74 -RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 RL+ L +KPIG+V+T DP R TV D LP + + VGRLDINT G LLLTNDG Sbjct: 63 KRLYILVNKPIGVVSTCKDPQNRPTVIDLLPDSLASETGLHPVGRLDINTTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + YRV G +D L ++GI+++G QV + Q Sbjct: 123 QLTLTLTHPRYHLPKTYRVWLDGAIDTLALQRWREGILLEGKKTLPAQVEILKQTDQKTL 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 + V L EG+NR+I+ V E + V +L R + GP QL + Sbjct: 183 LEVILVEGRNRQIRCVAEELGYHVLKLHRSAIGPIQLNS 221 >gi|308050240|ref|YP_003913806.1| ribosomal large subunit pseudouridine synthase B [Ferrimonas balearica DSM 9799] gi|307632430|gb|ADN76732.1| ribosomal large subunit pseudouridine synthase B [Ferrimonas balearica DSM 9799] Length = 291 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 86/218 (39%), Positives = 129/218 (59%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ KV+ARAG SRRE+E MIA RV ++G + + V+ + + +DG V L+ Sbjct: 3 EKLQKVLARAGHGSRREIEAMIAAGRVSIDGQVAKLGDRVDGRAELKVRIDGHAVSLKAE 62 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + + SDP GR TVF+ LP + SR ++VGRLDINT GLLL T D Sbjct: 63 EEVICRVLAYYKPEGELCSRSDPQGRPTVFERLPRVRDSRWVAVGRLDINTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y +R G+V ++ L L+ G+ ++ ++ +G N Sbjct: 123 GELANRLMHPSQEVEREYAIRVFGEVTEEMLKNLRTGVELEDGTAQFKRLVPAGGEGLNT 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W L EG+NRE+++++E +V+RL+RI YG L Sbjct: 183 WYHGVLSEGRNREVRRLWESQEVQVSRLMRIRYGDITL 220 >gi|238926990|ref|ZP_04658750.1| pseudouridylate synthase [Selenomonas flueggei ATCC 43531] gi|238885224|gb|EEQ48862.1| pseudouridylate synthase [Selenomonas flueggei ATCC 43531] Length = 290 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 80/231 (34%), Positives = 125/231 (54%), Gaps = 1/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 +R+ K+I+ AG ASRR E +I RV V+G+ + + H I VDG P+R+ ER Sbjct: 3 ERLQKIISNAGAASRRAAEALIRAGRVTVDGLPVTALGGKYDAARHEIAVDGTPIRRNER 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L HKP G ++T D GR TV D LP +R+ VGRLD +TEGLL++TNDG + + Sbjct: 63 RFYILLHKPRGCLSTAYDDRGRRTVLDLLPHFPARLYPVGRLDADTEGLLIITNDGAMTQ 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VYR G V +D L L+ GI++ ++ + ++G V Sbjct: 123 GLLHPRFEIDKVYRAEVTGNVTEDGLTALRNGILLDDGRTAPARLRVLHREGERTVVETI 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EG+ R+++++F +V RL R+ + L + GS R ++ + E Sbjct: 183 IHEGRKRQVRRMFAAIGCRVQRLCRVRFAMLTLDGVSCGSFRHLTSDEIHE 233 >gi|258423147|ref|ZP_05686040.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9635] gi|257846597|gb|EEV70618.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9635] Length = 245 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 79/223 (35%), Positives = 128/223 (57%), Gaps = 3/223 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I++ +VKVNG + V +D IEV+G+ + + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIEQEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 YI-LFHKPTQVITSVSDDRGRTVVTDYFKDIDARIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN-AWVTV 191 + P Q + Y + G + ++++ L+KGI ++ G+ K N V + Sbjct: 125 MTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELEDGLTQPADVKVKKQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EG+NR+++++FE F +V +L RI YGP + L AG R Sbjct: 185 TITEGRNRQVRRMFEHFGHQVTKLSRIEYGPLNVVGLNAGEGR 227 >gi|56963596|ref|YP_175327.1| ribosomal large subunit pseudouridine synthase B [Bacillus clausii KSM-K16] gi|56909839|dbj|BAD64366.1| ribosomal large subunit pseudouridine synthase B [Bacillus clausii KSM-K16] Length = 242 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 89/224 (39%), Positives = 126/224 (56%), Gaps = 5/224 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KVIA+AG+ASRR+ E I + RVKVNG + V S D +EVDGVPL K E Sbjct: 2 ERLQKVIAKAGVASRRKAEEYIVEGRVKVNGETVTELGTKVNPSKDAVEVDGVPLDKEEP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY KP G+V+T +D GR V D + S R+ +GRLD +T GLLLLTNDG A Sbjct: 62 VYHLLY-KPTGVVSTSNDEKGRKVVTDFIES-EQRIYPIGRLDYDTSGLLLLTNDGEFAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVT 190 +L P + + Y + G ++ ++ L+ GIV++ +V +K A V Sbjct: 120 LLMHPRYKIEKEYIAKVKGIPERKRIKELETGIVLEDGKTAPAKAKVLSIDKKKQTAIVR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + EGKNR+++++FE V +L R YG LG L G +R Sbjct: 180 LIIHEGKNRQVRRMFEAIGHPVVKLKRERYGFLTLGHLHPGESR 223 >gi|296136237|ref|YP_003643479.1| RNA-binding S4 domain protein [Thiomonas intermedia K12] gi|295796359|gb|ADG31149.1| RNA-binding S4 domain protein [Thiomonas intermedia K12] Length = 562 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 85/217 (39%), Positives = 127/217 (58%), Gaps = 19/217 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRK--- 69 ++ KV+A++G+ SRRE+E +I RV VNG E A + ++ TD I V+G +++ Sbjct: 173 KLHKVLAQSGVGSRREMEDLILAGRVSVNG---EPAHLGQRILPTDQIRVNGKIIKRRLR 229 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 + R+ YHKP G V + DP+GR TVF +LP + ++ +VGRLDINTEGLLL T G Sbjct: 230 PAQARVLAYHKPTGEVVSFKDPEGRPTVFQHLPKLQGAKWTAVGRLDINTEGLLLFTTSG 289 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD-----MQVTLDTQK 183 LA L PS R Y VR G++D + L ++G+ GD + + + Sbjct: 290 DLANRLMHPSYGAEREYAVRVLGELDAAARDEL-----LEGVQLGDGPARFLSLEEAGGE 344 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 G+N W V + EG+NRE++++FE V+RLIR+ Y Sbjct: 345 GANRWWRVVISEGRNREVRRMFEAVGLTVSRLIRVRY 381 >gi|294340472|emb|CAZ88853.1| putative Pseudouridine synthase [Thiomonas sp. 3As] Length = 562 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 85/217 (39%), Positives = 127/217 (58%), Gaps = 19/217 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRK--- 69 ++ KV+A++G+ SRRE+E +I RV VNG E A + ++ TD I V+G +++ Sbjct: 176 KLHKVLAQSGVGSRREMEDLILAGRVSVNG---EPAHLGQRILPTDQIRVNGKIIKRRLR 232 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 + R+ YHKP G V + DP+GR TVF +LP + ++ +VGRLDINTEGLLL T G Sbjct: 233 PAQARVLAYHKPTGEVVSFKDPEGRPTVFQHLPKLQGAKWTAVGRLDINTEGLLLFTTSG 292 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD-----MQVTLDTQK 183 LA L PS R Y VR G++D + L ++G+ GD + + + Sbjct: 293 DLANRLMHPSYGAEREYAVRVLGELDAAARDEL-----LEGVQLGDGPARFLSLEEAGGE 347 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 G+N W V + EG+NRE++++FE V+RLIR+ Y Sbjct: 348 GANRWWRVVISEGRNREVRRMFEAVGLTVSRLIRVRY 384 >gi|163803033|ref|ZP_02196919.1| anthranilate synthase component II [Vibrio sp. AND4] gi|159173207|gb|EDP58036.1| anthranilate synthase component II [Vibrio sp. AND4] Length = 312 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 87/217 (40%), Positives = 121/217 (55%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----VPLRK 69 +++ KV+ARAG SRRE+E I RV VNGI+ + + +DG +++ Sbjct: 3 EKLQKVLARAGHGSRREIESFIKSGRVSVNGIVAKLGERLEDENSVVRIDGHVVSAKIQE 62 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V + K+ L +G+ ++ V +G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVTEQKVKNLVRGVELEDGMARFEDVVYAGGEGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE+++++E + V+RL R+ YG L Sbjct: 183 FYVAINEGRNREVRRLWESQDTTVSRLKRVRYGDIYL 219 >gi|12724251|gb|AAK05373.1|AE006360_2 pseudouridine synthase [Lactococcus lactis subsp. lactis Il1403] Length = 257 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 79/227 (34%), Positives = 126/227 (55%), Gaps = 3/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A AG+ASRR+ E +I +V VN + + V + D +EV+GV + E Sbjct: 20 RINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDIVEVNGVAVYNEEPV- 78 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G +++ SD GR TV D +P + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 79 YYLLNKPRGYISSVSDDKGRQTVMDLMPQVKERIYPVGRLDWDTSGLLLLTNDGEFTNMM 138 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVG 192 P +VY + GQ +++ L L G+ I+G + ++ + +++ V++ Sbjct: 139 THPRHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIKQEKTKNHSIVSLT 198 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+F V +L RI YG L L G R +SKK Sbjct: 199 IHEGQNHQVKKMFAAAGLPVQKLSRIQYGSLTLDGLPTGQFRRLSKK 245 >gi|306827950|ref|ZP_07461217.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes ATCC 10782] gi|304429869|gb|EFM32911.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes ATCC 10782] Length = 240 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 127/230 (55%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q V +NG ++ A V D +E++G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKLGDVVEIEGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G +++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDTM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++ L L +GIVI G Y ++V D + + V Sbjct: 121 THPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVRVEADKNR---SIV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G L L G R ++KK Sbjct: 178 ELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPGEARRLNKK 227 >gi|160900456|ref|YP_001566038.1| pseudouridine synthase [Delftia acidovorans SPH-1] gi|160366040|gb|ABX37653.1| pseudouridine synthase [Delftia acidovorans SPH-1] Length = 467 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 84/217 (38%), Positives = 121/217 (55%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR---K 69 ++ KV+A+AG+ SR E+E++I + R+ VN E A V + D I+V+G P+R Sbjct: 114 KLHKVLAQAGLGSRLEMEQLILEGRISVNN---EPAHVGQRIQFGDQIKVNGQPIRFRID 170 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP+G V TH DP R TVF LP + + SVGRLD+NTEGLLL T+ G Sbjct: 171 PPPARVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLQHGKWQSVGRLDLNTEGLLLFTSSG 230 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P R Y R G + +++ L G+ ++ + +G+N W Sbjct: 231 ELANSLMHPRFGLEREYAARVLGALSKEEKQRLTDGVQLEDGVAAFGSIEDGGGEGANCW 290 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE++++FE V+RLIRI YG L Sbjct: 291 YRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMVL 327 >gi|222110298|ref|YP_002552562.1| pseudouridine synthase [Acidovorax ebreus TPSY] gi|221729742|gb|ACM32562.1| pseudouridine synthase [Acidovorax ebreus TPSY] Length = 435 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 95/255 (37%), Positives = 138/255 (54%), Gaps = 16/255 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR- 68 TP ++ KV+A+AG+ SR E+E++I + R+ VN E A + V D I+V+G P+R Sbjct: 110 TP-KLHKVLAQAGMGSRLEMEQLILEGRISVNN---EPAHIGQRVQFGDQIKVNGKPIRF 165 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 R+ YHKP+G V TH DP R TVF LP + + SVGRLD+NTEGLLL T Sbjct: 166 RIAPPPVRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLQQGKWQSVGRLDLNTEGLLLFT 225 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 + G LA L P R Y R G + ++ L +G+ ++ V +G+ Sbjct: 226 SSGELANKLMHPRFGLEREYAARVLGALSTEEKQRLLEGVPLEDGMASFGSVEDGGGEGA 285 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 N W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ ++ +R Sbjct: 286 NCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMMLPRGLKRGAWLELDERDIRA- 344 Query: 245 LGPHLLEEAQVNLDA 259 L++ A LD Sbjct: 345 ----LMQAAGATLDG 355 >gi|326406814|gb|ADZ63885.1| ribosomal large subunit pseudouridine synthase B [Lactococcus lactis subsp. lactis CV56] Length = 257 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 79/227 (34%), Positives = 126/227 (55%), Gaps = 3/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A AG+ASRR+ E +I +V VN + + V + D +EV+GV + E Sbjct: 20 RINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDIVEVNGVAVYNEEPV- 78 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G +++ SD GR TV D +P + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 79 YYLLNKPRGYISSVSDDKGRQTVMDLMPQVKERIYPVGRLDWDTSGLLLLTNDGEFTNMM 138 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVG 192 P +VY + GQ +++ L L G+ I+G + ++ + +++ V++ Sbjct: 139 THPRHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIKQEKTKNHSIVSLT 198 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+F V +L RI YG L L G R +SKK Sbjct: 199 IHEGQNHQVKKMFAAAGLPVQKLSRIQYGTLTLDGLPTGQFRRLSKK 245 >gi|239636840|ref|ZP_04677839.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus warneri L37603] gi|239597514|gb|EEQ80012.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus warneri L37603] Length = 246 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 79/223 (35%), Positives = 129/223 (57%), Gaps = 3/223 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I +VKVNG ++ V ++D +EV+G+ L + ++ Sbjct: 6 ERLQKRIASSGYTSRRKAETLITDGKVKVNGHVVTELGTKVSNSDTVEVEGIKLEQEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L++KP ++T+ SD GR V D I +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 YI-LFNKPAQVITSVSDDRGRKVVTDYFKDIETRIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KGSN-AWVTV 191 + P + Y + G + ++++ L+KGI ++ QV + Q K N V + Sbjct: 125 MTHPRYHIKKKYVAKLKGYLMREEVKALEKGIELEDGFTQPAQVKVKNQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EG+NR+++++FE F +V++L RI +GP L L AG R Sbjct: 185 TISEGRNRQVRRMFEHFGHQVSKLTRIQFGPLDLKGLNAGEGR 227 >gi|313890897|ref|ZP_07824521.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus pseudoporcinus SPIN 20026] gi|313120795|gb|EFR43910.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus pseudoporcinus SPIN 20026] Length = 240 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 130/230 (56%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V +NG ++ A V S+D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTLNGQVITDLATLVKSSDVVEVEGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVIDLLPQVKERIYPVGRLDWDTSGLLILTNDGDFTDKM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++ L L +G+VI G Y ++V D + + V Sbjct: 121 IHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIRVEADKNR---SIV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG++ ++KK+FE V++L R +G L L G R ++KK Sbjct: 178 ELTIHEGRHHQVKKMFESVGLLVDKLSRTRFGTLDLTGLRPGEARRLNKK 227 >gi|281491795|ref|YP_003353775.1| ribosomal large subunit pseudouridine synthase B [Lactococcus lactis subsp. lactis KF147] gi|281375509|gb|ADA65019.1| Ribosomal large subunit pseudouridine synthase B [Lactococcus lactis subsp. lactis KF147] Length = 257 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 79/227 (34%), Positives = 126/227 (55%), Gaps = 3/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A AG+ASRR+ E +I +V VN + + V + D +EV+GV + E Sbjct: 20 RINKYLAHAGVASRRKAEELILAGKVTVNNVSMTNLGYQVSTGDIVEVNGVAVYNEEPV- 78 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G +++ SD GR TV D +P + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 79 YYLLNKPRGYISSVSDDKGRQTVMDLMPQVKERIYPVGRLDWDTSGLLLLTNDGEFTNMM 138 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVG 192 P +VY + GQ +++ L L G+ I+G + ++ + +++ V++ Sbjct: 139 THPRHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIKQEKTKNHSIVSLT 198 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+F V +L RI YG L L G R +SKK Sbjct: 199 IHEGQNHQVKKMFAAAGLPVQKLSRIQYGTLTLDGLPTGQFRRLSKK 245 >gi|15677226|ref|NP_274379.1| hypothetical protein NMB1361 [Neisseria meningitidis MC58] gi|7226606|gb|AAF41735.1| conserved hypothetical protein [Neisseria meningitidis MC58] Length = 350 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 80/220 (36%), Positives = 130/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I + VNG + V DH+ V G + L+ Sbjct: 95 MEPERLQKVLAASGVGSRREMEEWITNGWITVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 153 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 154 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 213 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 214 SGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGA 273 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+RI +GP L Sbjct: 274 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRIGFGPIGL 313 >gi|316984168|gb|EFV63146.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis H44/76] gi|325140419|gb|EGC62940.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis CU385] gi|325144504|gb|EGC66803.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis M01-240013] Length = 349 Score = 138 bits (347), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 80/220 (36%), Positives = 130/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I + VNG + V DH+ V G + L+ Sbjct: 94 MEPERLQKVLAASGVGSRREMEEWITNGWITVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 152 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 153 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 212 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 213 SGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGA 272 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+RI +GP L Sbjct: 273 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRIGFGPIGL 312 >gi|294669327|ref|ZP_06734406.1| ribosomal large subunit pseudouridine synthase B [Neisseria elongata subsp. glycolytica ATCC 29315] gi|291308737|gb|EFE49980.1| ribosomal large subunit pseudouridine synthase B [Neisseria elongata subsp. glycolytica ATCC 29315] Length = 345 Score = 138 bits (347), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 80/220 (36%), Positives = 130/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + + D + V G + L+ Sbjct: 92 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKITPDDQVLVKGNIIKLK 150 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 151 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 210 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + P + R Y VR G + +++ +L ++GI+++ ++ +G Sbjct: 211 SGELVQRFAHPRFEVEREYAVRTLGGLTTEQMRMLTEEGIMLEDGLAKVERIREQGGEGV 270 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE+F+ V+RL+RI +GP L Sbjct: 271 NKWYNVVIKEGRNREVRRIFEYFDLTVSRLVRIGFGPIGL 310 >gi|253732136|ref|ZP_04866301.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus USA300_TCH959] gi|253724091|gb|EES92820.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus USA300_TCH959] Length = 245 Score = 138 bits (347), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 78/223 (34%), Positives = 131/223 (58%), Gaps = 3/223 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I++ +VKVNG + V +D IEV+G+ + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIELEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 YI-LFHKPTQVITSVSDDRGRTVVTDYFKDIEARIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQKGSNAWVTV 191 + P Q + Y + G + ++++ L+KGI ++ G+ +++V + + V + Sbjct: 125 MTHPRYQIKKKYVAKLKGYIMREEVKALEKGIELEDGMTQPAEVKVKKQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EG+NR+++++FE F +V +L RI YGP + L AG R Sbjct: 185 TITEGRNRQVRRMFEHFGHQVTKLSRIEYGPLNVVGLNAGEGR 227 >gi|169827290|ref|YP_001697448.1| ribosomal large subunit pseudouridine synthase B [Lysinibacillus sphaericus C3-41] gi|168991778|gb|ACA39318.1| Ribosomal large subunit pseudouridine synthase B [Lysinibacillus sphaericus C3-41] Length = 243 Score = 138 bits (347), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 83/227 (36%), Positives = 128/227 (56%), Gaps = 3/227 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E++I + +VKVNGI++ V ++D IEV+GV L K ++ Sbjct: 2 ERLQKVIAYAGVASRRKAEQLIVEGKVKVNGIVVRELGTKVSNSDTIEVEGVKLEKEDKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G ++ +D GR TV D I R+ VGRLD +T GLLLLTNDG + + Sbjct: 62 YFLLY-KPRGTISAVTDDKGRKTVTDLFHHIPQRIFPVGRLDYDTSGLLLLTNDGEFSYM 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y R G + L L++GI ++ +V++ + + A + Sbjct: 121 LTHPKFKIDKTYIARVKGIPTIEGLKKLQRGIKLEDGKTAPAKVSMTSFDENAGKAICEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG+NR+++++FE V +L R + L L G RE+SK Sbjct: 181 TIHEGRNRQVRRMFEAIGTPVVKLKRERFAFLDLYGLAPGEFRELSK 227 >gi|238852693|ref|ZP_04643103.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus gasseri 202-4] gi|282852074|ref|ZP_06261432.1| pseudouridylate synthase [Lactobacillus gasseri 224-1] gi|311110814|ref|ZP_07712211.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus gasseri MV-22] gi|238834839|gb|EEQ27066.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus gasseri 202-4] gi|282556834|gb|EFB62438.1| pseudouridylate synthase [Lactobacillus gasseri 224-1] gi|311065968|gb|EFQ46308.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus gasseri MV-22] Length = 239 Score = 138 bits (347), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 80/226 (35%), Positives = 127/226 (56%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ASRR+ E+MI+ +V VNG + V +D IEV+GVP+ K E Sbjct: 3 ERLQKVIAQAGVASRRKAEKMISAGQVTVNGKKITELGTKVEPSDKIEVNGVPIEK-ETL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G++++ D GR TV D + R+ VGRLD +T GLLL+TNDG LA Sbjct: 62 HTYLFYKPRGVISSVKDDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMTNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G + + + L G+ I G +++ +K + V + Sbjct: 122 LMHPRNEVPKVYVAKIKGLLSPEDIRSLTHGVRIDGRKSAPAKLKILKTDEKKNTQIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG ++K++FE + V +L R Y L +L +G RE++ Sbjct: 182 TIHEGHYHQVKRMFEAVHHFVEKLSREKYAFLTLKSLTSGEYRELT 227 >gi|119513289|ref|ZP_01632329.1| hypothetical protein N9414_09736 [Nodularia spumigena CCY9414] gi|119462052|gb|EAW43049.1| hypothetical protein N9414_09736 [Nodularia spumigena CCY9414] Length = 264 Score = 138 bits (347), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 85/216 (39%), Positives = 120/216 (55%), Gaps = 5/216 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K++A+ GIASRRE E MI + RV++NG+L D I VDG P+ +R Sbjct: 4 RLQKILAQWGIASRRESEEMIRRSRVRINGVLAHLGQKVDPERDKISVDGKPVYAQQRPP 63 Query: 75 L--WLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGG 129 L L HKP G+V+T DP GR TV D LP S + VGRLD + G L+LTNDG Sbjct: 64 LIYLLLHKPAGVVSTCYDPQGRKTVLDLLPPELRKGSGLHPVGRLDAESTGALILTNDGD 123 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + Y+V G + L + +KG+V++G +V L N+ + Sbjct: 124 LTFGLTHPSHSIPKTYQVLVKGHPSEAVLEMWRKGVVLEGRKTRPAKVHLIESLAKNSHL 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + L+EG+NR+I++V + + V +L R S GP QL Sbjct: 184 EIVLKEGRNRQIRRVAQQLGYPVIQLHRTSIGPIQL 219 >gi|315223141|ref|ZP_07865009.1| conserved hypothetical protein [Streptococcus anginosus F0211] gi|315187830|gb|EFU21577.1| conserved hypothetical protein [Streptococcus anginosus F0211] Length = 241 Score = 138 bits (347), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 130/230 (56%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +GIASRR+ E +I Q V VNG ++ A + S D +EV G P+ E+ Sbjct: 2 RINKYIAHSGIASRRKAEELIKQGLVTVNGQVVRELATTIKSGDRVEVSGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVTDDKGRPTVVDLLPNVTERIYPVGRLDWDTSGALILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G D++ L L KG+ + G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGVADKEVLRPLTKGVEVDGKKTKPAVYEILKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE +V++L R +G L L G R ++KK Sbjct: 178 QLTIHEGRNHQVKKMFEAVGLQVDKLSRTQFGHLNLTGLRPGEARRLNKK 227 >gi|315611769|ref|ZP_07886691.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis ATCC 49296] gi|322375935|ref|ZP_08050446.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. C300] gi|315316184|gb|EFU64214.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis ATCC 49296] gi|321279203|gb|EFX56245.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. C300] Length = 240 Score = 138 bits (347), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 83/230 (36%), Positives = 133/230 (57%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +G+ I G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGVANKENLRPLTRGLEIDGKKTKPAVYEILKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE +V++L R +G L L G +R ++KK Sbjct: 178 QLTIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKK 227 >gi|268319598|ref|YP_003293254.1| hypothetical protein FI9785_1123 [Lactobacillus johnsonii FI9785] gi|262397973|emb|CAX66987.1| conserved hypothetical protein [Lactobacillus johnsonii FI9785] Length = 239 Score = 138 bits (347), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 81/226 (35%), Positives = 127/226 (56%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ASRR+ E+MI+ +V VNG + V D IEV+GVP+ K E Sbjct: 3 ERLQKVIAQAGVASRRKAEKMISAGQVTVNGKKVTELGTKVEPRDKIEVNGVPIEK-EAL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G++++ SD GR TV D + R+ VGRLD +T GLLL+TNDG LA Sbjct: 62 HTYLFYKPRGVISSVSDDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMTNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G + +++ L G+ I G +++ +K V + Sbjct: 122 LMHPRNEVPKVYVAKIKGILSTEEIRSLTHGVRIDGRKSAPAKLKILKTDEKKKTQIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG ++K++FE + V +L R Y L +L +G RE++ Sbjct: 182 TIHEGHYHQVKRMFEAVHHFVEKLAREKYAFLTLKSLNSGEYRELT 227 >gi|126650120|ref|ZP_01722353.1| RluB [Bacillus sp. B14905] gi|126593292|gb|EAZ87254.1| RluB [Bacillus sp. B14905] Length = 243 Score = 138 bits (347), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 84/227 (37%), Positives = 128/227 (56%), Gaps = 3/227 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E++I + +VKVNG ++ V ++D IEV+GV L K ++ Sbjct: 2 ERLQKVIAYAGIASRRKAEQLILEGKVKVNGKVIRELGTKVSNSDTIEVEGVKLEKEDKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G ++ +D GR TV D I R+ VGRLD +T GLLLLTNDG + + Sbjct: 62 YFLLY-KPRGTISAVTDDKGRKTVTDLFHHIPQRIFPVGRLDYDTSGLLLLTNDGEFSYM 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y R G + L L++GI ++ +V++ + +K A + Sbjct: 121 LTHPKFKIDKTYIARVKGIPTIEGLKKLQRGIKLEDGKTAPAKVSMTSFDEKAGKAICEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG+NR+++++FE V +L R + L L G RE+SK Sbjct: 181 TIHEGRNRQVRRMFEAIGTPVVKLKRERFAFLDLFGLAPGEFRELSK 227 >gi|312864688|ref|ZP_07724919.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus downei F0415] gi|311099815|gb|EFQ58028.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus downei F0415] Length = 241 Score = 138 bits (347), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 81/228 (35%), Positives = 129/228 (56%), Gaps = 5/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V +NG ++ A V + D +EV G P+ E+ Sbjct: 2 RINKYIAHAGLASRRKAEELIKQGLVTINGQVVTELATTVKNGDRVEVSGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVLDLLPDVKERIYPVGRLDWDTTGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVTV 191 P + +VY R G ++ L L +G+VI G G + + ++ K + + V + Sbjct: 121 IHPRNEIDKVYLARLKGLATKENLRPLTRGVVIDGKKTGPARYKIIKVEPDK-NRSLVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++K +F+ V++L R +G L L G +R +SKK Sbjct: 180 TIHEGRNHQVKNMFQAVGLLVDKLSRTQFGTLNLRGLQPGESRRLSKK 227 >gi|296314446|ref|ZP_06864387.1| ribosomal large subunit pseudouridine synthase B [Neisseria polysaccharea ATCC 43768] gi|296838734|gb|EFH22672.1| ribosomal large subunit pseudouridine synthase B [Neisseria polysaccharea ATCC 43768] Length = 349 Score = 138 bits (347), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 80/220 (36%), Positives = 130/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 94 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 152 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 153 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 212 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 213 SGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVERIYEQGGEGA 272 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 273 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 312 >gi|268596680|ref|ZP_06130847.1| pseudouridine synthase [Neisseria gonorrhoeae FA19] gi|268550468|gb|EEZ45487.1| pseudouridine synthase [Neisseria gonorrhoeae FA19] Length = 416 Score = 138 bits (347), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 79/220 (35%), Positives = 131/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 161 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 219 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 220 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 279 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 280 SGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVERIREQGGEGA 339 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W + ++EG+NRE++++FE V+RL+R+++GP L Sbjct: 340 NKWYNIVIKEGRNREVRRIFESQGLTVSRLVRVAFGPIGL 379 >gi|88855489|ref|ZP_01130153.1| RNA pseudouridine synthase [marine actinobacterium PHSC20C1] gi|88815396|gb|EAR25254.1| RNA pseudouridine synthase [marine actinobacterium PHSC20C1] Length = 257 Score = 138 bits (347), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 82/229 (35%), Positives = 125/229 (54%), Gaps = 1/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR E +I Q RV VNG ++E A V+ TD + VD V ++ Sbjct: 15 ERLQKVMAAAGVASRRVCEDLIYQGRVAVNGEVVEAAGRRVLPTDRVTVDDVAIQLDTTK 74 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + +KP+G+V++ +D GR + + R+ +VGRLD NT GLL+LTNDG LA + Sbjct: 75 QYVMLNKPVGVVSSMADESGRPDLREFTRDYDERLFNVGRLDANTSGLLILTNDGELAHI 134 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + Y + G V + L KGI + G D L G+ V + Sbjct: 135 LAHPSFGVSKTYIAKVEGIVSAQTIAKLTKGIELDDGPIVADKARALGRASGNETMVEIT 194 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L G+N ++++ + V L+R +GP LG+L G TR+++K L Sbjct: 195 LHSGRNHIVRRMLDAVGHPVIDLVRRQFGPLTLGSLPVGRTRDLTKAEL 243 >gi|30024033|ref|NP_267431.2| pseudouridine synthase [Lactococcus lactis subsp. lactis Il1403] Length = 239 Score = 138 bits (347), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 79/227 (34%), Positives = 126/227 (55%), Gaps = 3/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A AG+ASRR+ E +I +V VN + + V + D +EV+GV + E Sbjct: 2 RINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDIVEVNGVAVYNEEPV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G +++ SD GR TV D +P + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 61 YYLLNKPRGYISSVSDDKGRQTVMDLMPQVKERIYPVGRLDWDTSGLLLLTNDGEFTNMM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVG 192 P +VY + GQ +++ L L G+ I+G + ++ + +++ V++ Sbjct: 121 THPRHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIKQEKTKNHSIVSLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+F V +L RI YG L L G R +SKK Sbjct: 181 IHEGQNHQVKKMFAAAGLPVQKLSRIQYGSLTLDGLPTGQFRRLSKK 227 >gi|254672143|emb|CBA04924.1| conserved hypothetical protein [Neisseria meningitidis alpha275] Length = 349 Score = 138 bits (347), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 81/220 (36%), Positives = 130/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 94 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 152 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 153 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 212 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 213 SGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGA 272 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+RI +GP L Sbjct: 273 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRIGFGPIGL 312 >gi|59801084|ref|YP_207796.1| hypothetical protein NGO0657 [Neisseria gonorrhoeae FA 1090] gi|59717979|gb|AAW89384.1| conserved hypothetical protein [Neisseria gonorrhoeae FA 1090] Length = 350 Score = 138 bits (347), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 79/220 (35%), Positives = 131/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 95 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 153 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 154 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 213 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 214 SGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVERIYEQGGEGA 273 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W + ++EG+NRE++++FE V+RL+R+++GP L Sbjct: 274 NKWYNIVIKEGRNREVRRIFESQGLTVSRLVRVAFGPIGL 313 >gi|304436412|ref|ZP_07396387.1| ribosomal large subunit pseudouridine synthase B [Selenomonas sp. oral taxon 149 str. 67H29BP] gi|304370576|gb|EFM24226.1| ribosomal large subunit pseudouridine synthase B [Selenomonas sp. oral taxon 149 str. 67H29BP] Length = 292 Score = 138 bits (347), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 77/223 (34%), Positives = 124/223 (55%), Gaps = 1/223 (0%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERTR 74 + K+++ AG+ASRR E +I RV V+G+ + + H I VDG P++ +E Sbjct: 1 MQKILSHAGVASRRAAEALIRDGRVTVDGVPVTMLGSKYDPSFHEIAVDGTPVQGSEEKL 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L HKP G ++T D GR TV D LP R+ VGRLD +TEGLL++TNDG + + L Sbjct: 61 YILLHKPRGCLSTAHDDRGRRTVLDLLPHFPVRLYPVGRLDADTEGLLIITNDGAMTQGL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + +VY G V +DKL+ L++GI++ Q+++ ++G V + Sbjct: 121 LHPRFEIDKVYHAEVTGTVTEDKLSKLRRGILLDDGKTAPAQLSILRREGGRTLVETIIH 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 EG+NR+++++F +V RL R+ + L L G+ R ++ Sbjct: 181 EGRNRQVRRMFAAVGCRVQRLRRVRFAMLTLDGLPCGAFRHLT 223 >gi|119962911|ref|YP_947435.1| RNA pseudouridine synthase [Arthrobacter aurescens TC1] gi|119949770|gb|ABM08681.1| putative RNA pseudouridine synthase [Arthrobacter aurescens TC1] Length = 404 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 94/248 (37%), Positives = 140/248 (56%), Gaps = 13/248 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E MI + RV+V+G++ + V T I VDG+ ++ E Sbjct: 165 RLQKVMAQAGVASRRVCEEMILEGRVEVDGVVTTELGMRVDPTSAVIHVDGIRIQLDETL 224 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD---NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +++KP G+V+T DP+GR + D N + R+ VGRLD+ TEGLLLLTNDG L Sbjct: 225 VYMVFNKPKGVVSTMEDPEGRPCISDFLKNNKNKGERLFHVGRLDVATEGLLLLTNDGEL 284 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y V+ G Q LK G+ ++ G+ D +D+ G + + Sbjct: 285 ANRLTHPSYEVPKTYLVQVRGPFPQGVGAKLKNGVELEDGVAAVDSFRLVDSTPG-HVLI 343 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 V L GKNR ++++F+ + V RL+R+ GP LG GS R + R+++G HL Sbjct: 344 EVVLHSGKNRIVRRMFDAVGFPVERLVRVKVGPIGLGDQRQGSIRNLG----RQEVG-HL 398 Query: 250 LEEAQVNL 257 L A V L Sbjct: 399 L--ASVGL 404 >gi|194098813|ref|YP_002001876.1| Pseudouridine synthase [Neisseria gonorrhoeae NCCP11945] gi|254493881|ref|ZP_05107052.1| pseudouridine synthase [Neisseria gonorrhoeae 1291] gi|268594941|ref|ZP_06129108.1| pseudouridine synthase [Neisseria gonorrhoeae 35/02] gi|193934103|gb|ACF29927.1| Pseudouridine synthase [Neisseria gonorrhoeae NCCP11945] gi|226512921|gb|EEH62266.1| pseudouridine synthase [Neisseria gonorrhoeae 1291] gi|268548330|gb|EEZ43748.1| pseudouridine synthase [Neisseria gonorrhoeae 35/02] gi|317164395|gb|ADV07936.1| Pseudouridine synthase [Neisseria gonorrhoeae TCDC-NG08107] Length = 416 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 79/220 (35%), Positives = 131/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 161 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 219 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 220 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 279 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 280 SGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVERIYEQGGEGA 339 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W + ++EG+NRE++++FE V+RL+R+++GP L Sbjct: 340 NKWYNIVIKEGRNREVRRIFESQGLTVSRLVRVAFGPIGL 379 >gi|84394229|ref|ZP_00992957.1| pseudouridine synthase family 1 protein [Vibrio splendidus 12B01] gi|218709944|ref|YP_002417565.1| ribosomal large subunit pseudouridine synthase B [Vibrio splendidus LGP32] gi|84375143|gb|EAP92062.1| pseudouridine synthase family 1 protein [Vibrio splendidus 12B01] gi|218322963|emb|CAV19140.1| Ribosomal large subunit pseudouridine synthase B [Vibrio splendidus LGP32] Length = 342 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 108/303 (35%), Positives = 154/303 (50%), Gaps = 13/303 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E +I RV VNG + + I +DG + + +E Sbjct: 3 EKLQKVLARAGHGSRRELEGLIKSGRVSVNGQVAKLGERLEDENSVIRIDGHTITGKASE 62 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVVCRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V + K+ + +G+ ++ V +G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVTEQKVKNVTRGVQLEDGMARFEDVVYAGGEGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK---ILREQ 244 V + EG+NRE+++++E V+RL R+ YG L L G +E+ + LRE Sbjct: 183 FYVAINEGRNREVRRLWESQETTVSRLKRVRYGDIYLDKKLPRGGWKELDLQEVNYLREL 242 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 + +E ++LD P +S R R I R ++ ++ G S Q K P Sbjct: 243 VELQPEKETLLDLD-PANTSRKRERSRSQKIRRA---VKRHEERANAPKGRSNQTKRKKP 298 Query: 305 VHR 307 R Sbjct: 299 ATR 301 >gi|297626538|ref|YP_003688301.1| Pseudouridine synthase [Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1] gi|296922303|emb|CBL56875.1| Pseudouridine synthase [Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1] Length = 275 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 87/233 (37%), Positives = 130/233 (55%), Gaps = 6/233 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ KV+A+AGIASRR E +I + RV+VNG I++E D I VDG + R Sbjct: 40 RLQKVLAQAGIASRRASEGLITEGRVEVNGHIVVELGTRVDPEHDSIRVDGARIPPPRRH 99 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+V+T DP+GR T+ + +P R+ VGRLD TEGL++LTNDG Sbjct: 100 MYLLLNKPRGVVSTMDDPEGRPTLAEYVPR-HQRLFHVGRLDTETEGLIILTNDGEFGHR 158 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + + Y V G +D + L+KG+ ++ +V L ++ + + + L Sbjct: 159 LSHPSYEVRKTYLVDAEGLMDNRTIRRLEKGLTLEDGPIKPDRVKLVSRGPVHTMLQITL 218 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 G+NR ++++ + V +L RI GP +LG L G TRE+S RE+LG Sbjct: 219 HSGRNRIVRRMMDSVGHPVRQLARIGIGPVRLGNLAVGETRELS----REELG 267 >gi|261365463|ref|ZP_05978346.1| ribosomal large subunit pseudouridine synthase B [Neisseria mucosa ATCC 25996] gi|288566133|gb|EFC87693.1| ribosomal large subunit pseudouridine synthase B [Neisseria mucosa ATCC 25996] Length = 348 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 80/220 (36%), Positives = 130/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 93 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 151 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 152 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 211 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 212 SGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVERIYEQGGEGA 271 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 272 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 311 >gi|240080549|ref|ZP_04725092.1| Pseudouridine synthase [Neisseria gonorrhoeae FA19] gi|240118135|ref|ZP_04732197.1| Pseudouridine synthase [Neisseria gonorrhoeae PID1] gi|240123684|ref|ZP_04736640.1| Pseudouridine synthase [Neisseria gonorrhoeae PID332] gi|260440347|ref|ZP_05794163.1| Pseudouridine synthase [Neisseria gonorrhoeae DGI2] gi|268603851|ref|ZP_06138018.1| pseudouridine synthase [Neisseria gonorrhoeae PID1] gi|268682316|ref|ZP_06149178.1| pseudouridine synthase [Neisseria gonorrhoeae PID332] gi|268587982|gb|EEZ52658.1| pseudouridine synthase [Neisseria gonorrhoeae PID1] gi|268622600|gb|EEZ55000.1| pseudouridine synthase [Neisseria gonorrhoeae PID332] Length = 349 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 79/220 (35%), Positives = 131/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 94 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 152 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 153 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 212 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 213 SGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVERIREQGGEGA 272 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W + ++EG+NRE++++FE V+RL+R+++GP L Sbjct: 273 NKWYNIVIKEGRNREVRRIFESQGLTVSRLVRVAFGPIGL 312 >gi|239999104|ref|ZP_04719028.1| Pseudouridine synthase [Neisseria gonorrhoeae 35/02] gi|240013989|ref|ZP_04720902.1| Pseudouridine synthase [Neisseria gonorrhoeae DGI18] gi|240016430|ref|ZP_04722970.1| Pseudouridine synthase [Neisseria gonorrhoeae FA6140] gi|240113081|ref|ZP_04727571.1| Pseudouridine synthase [Neisseria gonorrhoeae MS11] gi|240115837|ref|ZP_04729899.1| Pseudouridine synthase [Neisseria gonorrhoeae PID18] gi|240121555|ref|ZP_04734517.1| Pseudouridine synthase [Neisseria gonorrhoeae PID24-1] gi|240125874|ref|ZP_04738760.1| Pseudouridine synthase [Neisseria gonorrhoeae SK-92-679] gi|240128384|ref|ZP_04741045.1| Pseudouridine synthase [Neisseria gonorrhoeae SK-93-1035] gi|268599167|ref|ZP_06133334.1| pseudouridine synthase [Neisseria gonorrhoeae MS11] gi|268601513|ref|ZP_06135680.1| pseudouridine synthase [Neisseria gonorrhoeae PID18] gi|268684473|ref|ZP_06151335.1| pseudouridine synthase [Neisseria gonorrhoeae SK-92-679] gi|268686783|ref|ZP_06153645.1| pseudouridine synthase [Neisseria gonorrhoeae SK-93-1035] gi|268583298|gb|EEZ47974.1| pseudouridine synthase [Neisseria gonorrhoeae MS11] gi|268585644|gb|EEZ50320.1| pseudouridine synthase [Neisseria gonorrhoeae PID18] gi|268624757|gb|EEZ57157.1| pseudouridine synthase [Neisseria gonorrhoeae SK-92-679] gi|268627067|gb|EEZ59467.1| pseudouridine synthase [Neisseria gonorrhoeae SK-93-1035] Length = 349 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 79/220 (35%), Positives = 131/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 94 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 152 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 153 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 212 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 213 SGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVERIYEQGGEGA 272 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W + ++EG+NRE++++FE V+RL+R+++GP L Sbjct: 273 NKWYNIVIKEGRNREVRRIFESQGLTVSRLVRVAFGPIGL 312 >gi|322387120|ref|ZP_08060731.1| ribosomal large subunit pseudouridine synthase B [Streptococcus infantis ATCC 700779] gi|321142107|gb|EFX37601.1| ribosomal large subunit pseudouridine synthase B [Streptococcus infantis ATCC 700779] Length = 241 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 83/230 (36%), Positives = 133/230 (57%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +G+ I G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGIANKENLRPLTRGLEIDGKKTKPAVYEILKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE +V++L R +G L L G +R ++KK Sbjct: 178 QLTIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKK 227 >gi|116512118|ref|YP_809334.1| ribosomal large subunit pseudouridine synthase B [Lactococcus lactis subsp. cremoris SK11] gi|116107772|gb|ABJ72912.1| ribosomal large subunit pseudouridine synthase B [Lactococcus lactis subsp. cremoris SK11] Length = 239 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 79/227 (34%), Positives = 126/227 (55%), Gaps = 3/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A AG+ASRR+ E +I +V VN + + V + D +EV+GV + E Sbjct: 2 RINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDVVEVNGVAVYNEEPV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G +++ D GR TV D +P + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 61 YYLLNKPRGYISSVRDDKGRQTVMDLMPQVKERIYPVGRLDWDTSGLLLLTNDGEFTNMM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVG 192 PS +VY + GQ +++ L L G+ I+G + ++ + +++ V++ Sbjct: 121 THPSHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIKQEKTKNHSIVSLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+F V +L RI YG L L G R +SKK Sbjct: 181 IHEGQNHQVKKMFAAAGLPVQKLSRIQYGTLTLDGLPTGQFRRLSKK 227 >gi|325205871|gb|ADZ01324.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis M04-240196] Length = 349 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 79/220 (35%), Positives = 130/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I + VNG + V DH+ V G + L+ Sbjct: 94 MEPERLQKVLAASGVGSRREMEEWITNGWITVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 152 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 153 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 212 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 213 SGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGA 272 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 273 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 312 >gi|154508819|ref|ZP_02044461.1| hypothetical protein ACTODO_01329 [Actinomyces odontolyticus ATCC 17982] gi|153798453|gb|EDN80873.1| hypothetical protein ACTODO_01329 [Actinomyces odontolyticus ATCC 17982] Length = 249 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 93/235 (39%), Positives = 126/235 (53%), Gaps = 4/235 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E+MIA RV V+G ++ V V I VDG L E Sbjct: 12 RLQKVLAQAGVASRRASEQMIADGRVSVDGTVVRNQGVRVDPAKQVIHVDGERLILDETK 71 Query: 74 RLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KPIG V+T SDP+GR T+ D + R+ VGRLDI+T GLLLLTNDG LA Sbjct: 72 HIVLAVNKPIGTVSTMSDPEGRPTIADLIADYPERLYHVGRLDIDTSGLLLLTNDGELAN 131 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y R HG+V L GI ++ G D +DT G V + Sbjct: 132 RLTHPKYEIRKTYVARLHGEVKPGVKRTLMNGIELEDGPIKVDSFRIVDTY-GDITTVEI 190 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EG+NR ++++ E + V L+R +GP L L G+TR V L G Sbjct: 191 VVHEGRNRLVRRMMEAVGYPVRELVRTGFGPISLDHLKQGTTRRVKGNALSALYG 245 >gi|223934211|ref|ZP_03626147.1| pseudouridine synthase [Streptococcus suis 89/1591] gi|302024332|ref|ZP_07249543.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis 05HAS68] gi|330833322|ref|YP_004402147.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis ST3] gi|223897127|gb|EEF63552.1| pseudouridine synthase [Streptococcus suis 89/1591] gi|329307545|gb|AEB81961.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis ST3] Length = 243 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 133/230 (57%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ + S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELGTVIKSGDKVEVEGKPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP++ R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVVDLLPTVKERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +G+VI G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYLARVKGVANKEVLRPLTRGVVIDGKKTKPAVYEIIKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE +V++L R +G L L G R+++KK Sbjct: 178 ELTIHEGRNHQVKKMFEAVGLQVDKLSRTRFGNLDLTGLRPGEYRKLNKK 227 >gi|325132446|gb|EGC55139.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis M6190] Length = 349 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 79/220 (35%), Positives = 130/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I + VNG + V DH+ V G + L+ Sbjct: 94 MEPERLQKVLAASGVGSRREMEEWITNGWITVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 152 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 153 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 212 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 213 SGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGA 272 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 273 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 312 >gi|291043642|ref|ZP_06569358.1| pseudouridine synthase [Neisseria gonorrhoeae DGI2] gi|291012105|gb|EFE04094.1| pseudouridine synthase [Neisseria gonorrhoeae DGI2] Length = 399 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 79/220 (35%), Positives = 131/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 144 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 202 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 203 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 262 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 263 SGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVERIREQGGEGA 322 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W + ++EG+NRE++++FE V+RL+R+++GP L Sbjct: 323 NKWYNIVIKEGRNREVRRIFESQGLTVSRLVRVAFGPIGL 362 >gi|329667453|gb|AEB93401.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus johnsonii DPC 6026] Length = 239 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 81/226 (35%), Positives = 127/226 (56%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ASRR+ E+MI+ +V VNG + V +D IEV+GVP+ K E Sbjct: 3 ERLQKVIAQAGVASRRKAEKMISAGQVTVNGKKVTELGTKVEPSDKIEVNGVPIEK-EAL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L+ KP G++++ SD GR TV D + R+ VGRLD +T GLLL+TNDG LA Sbjct: 62 HTYLFCKPRGVISSVSDDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMTNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G + +++ L G+ I G +++ +K V + Sbjct: 122 LMHPRNEVPKVYVAKIKGILSPEEIRSLTHGVRIDGRKSAPAKLKILKTDEKKKTQIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG ++K++FE + V +L R Y L +L +G RE++ Sbjct: 182 TIHEGHYHQVKRMFEAVHHFVEKLAREKYAFLTLKSLNSGEYRELT 227 >gi|146319353|ref|YP_001199065.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis 05ZYH33] gi|146321558|ref|YP_001201269.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis 98HAH33] gi|253752382|ref|YP_003025523.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis SC84] gi|253754208|ref|YP_003027349.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis P1/7] gi|253756142|ref|YP_003029282.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis BM407] gi|145690159|gb|ABP90665.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Streptococcus suis 05ZYH33] gi|145692364|gb|ABP92869.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Streptococcus suis 98HAH33] gi|251816671|emb|CAZ52312.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis SC84] gi|251818606|emb|CAZ56440.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis BM407] gi|251820454|emb|CAR47153.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis P1/7] gi|319758787|gb|ADV70729.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis JS14] Length = 243 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 133/230 (57%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ + S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELGTVIKSGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP++ R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVVDLLPTVKERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +G+VI G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYLARVKGVANKEVLRPLTRGVVIDGKKTKPAVYEIIKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE +V++L R +G L L G R+++KK Sbjct: 178 ELTIHEGRNHQVKKMFEAVGLQVDKLSRTRFGNLDLTGLRPGEYRKLNKK 227 >gi|15924483|ref|NP_372017.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus Mu50] gi|15927074|ref|NP_374607.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus N315] gi|21283176|ref|NP_646264.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus MW2] gi|49483743|ref|YP_040967.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus MRSA252] gi|49486331|ref|YP_043552.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus MSSA476] gi|57650449|ref|YP_186378.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus COL] gi|82751087|ref|YP_416828.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus RF122] gi|87160582|ref|YP_494139.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|88195298|ref|YP_500102.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus NCTC 8325] gi|148267977|ref|YP_001246920.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus JH9] gi|150394042|ref|YP_001316717.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus JH1] gi|151221613|ref|YP_001332435.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus str. Newman] gi|156979812|ref|YP_001442071.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus Mu3] gi|161509722|ref|YP_001575381.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|221140086|ref|ZP_03564579.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus str. JKD6009] gi|253314861|ref|ZP_04838074.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus str. CF-Marseille] gi|253733259|ref|ZP_04867424.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus TCH130] gi|255006279|ref|ZP_05144880.2| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus Mu50-omega] gi|257425616|ref|ZP_05602040.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 55/2053] gi|257428277|ref|ZP_05604675.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 65-1322] gi|257430914|ref|ZP_05607294.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 68-397] gi|257433603|ref|ZP_05609961.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus E1410] gi|257436516|ref|ZP_05612560.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus M876] gi|257793570|ref|ZP_05642549.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9781] gi|258407188|ref|ZP_05680336.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9763] gi|258437324|ref|ZP_05689308.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9299] gi|258443529|ref|ZP_05691868.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A8115] gi|258446736|ref|ZP_05694890.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A6300] gi|258448651|ref|ZP_05696763.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A6224] gi|258451151|ref|ZP_05699186.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A5948] gi|258454267|ref|ZP_05702237.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A5937] gi|262049080|ref|ZP_06021957.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus D30] gi|262053234|ref|ZP_06025385.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus 930918-3] gi|269203120|ref|YP_003282389.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus ED98] gi|282892992|ref|ZP_06301226.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A8117] gi|282904073|ref|ZP_06311961.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus C160] gi|282905900|ref|ZP_06313755.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus Btn1260] gi|282908810|ref|ZP_06316628.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus WW2703/97] gi|282911129|ref|ZP_06318931.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus WBG10049] gi|282914298|ref|ZP_06322084.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus M899] gi|282916759|ref|ZP_06324517.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus D139] gi|282919267|ref|ZP_06327002.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus C427] gi|282924592|ref|ZP_06332260.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus C101] gi|282924742|ref|ZP_06332409.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9765] gi|282928963|ref|ZP_06336550.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A10102] gi|283958255|ref|ZP_06375706.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus A017934/97] gi|284024553|ref|ZP_06378951.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 132] gi|293503375|ref|ZP_06667222.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 58-424] gi|293510390|ref|ZP_06669096.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus M809] gi|293530929|ref|ZP_06671611.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus M1015] gi|294848523|ref|ZP_06789269.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9754] gi|295406613|ref|ZP_06816418.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A8819] gi|295428069|ref|ZP_06820701.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus EMRSA16] gi|296276357|ref|ZP_06858864.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus MR1] gi|297207787|ref|ZP_06924222.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus ATCC 51811] gi|297245803|ref|ZP_06929668.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A8796] gi|297590963|ref|ZP_06949601.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus MN8] gi|300911868|ref|ZP_07129311.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus TCH70] gi|304380920|ref|ZP_07363580.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|13701292|dbj|BAB42586.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus N315] gi|14247264|dbj|BAB57655.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus Mu50] gi|21204616|dbj|BAB95312.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus MW2] gi|49241872|emb|CAG40565.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus MRSA252] gi|49244774|emb|CAG43210.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus MSSA476] gi|57284635|gb|AAW36729.1| pseudouridine synthase [Staphylococcus aureus subsp. aureus COL] gi|82656618|emb|CAI81043.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus RF122] gi|87126556|gb|ABD21070.1| ribosomal large subunit pseudouridine synthase B, RluB [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|87202856|gb|ABD30666.1| ribosomal large subunit pseudouridine synthase B, putative [Staphylococcus aureus subsp. aureus NCTC 8325] gi|147741046|gb|ABQ49344.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus JH9] gi|149946494|gb|ABR52430.1| pseudouridine synthase [Staphylococcus aureus subsp. aureus JH1] gi|150374413|dbj|BAF67673.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus str. Newman] gi|156721947|dbj|BAF78364.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus Mu3] gi|160368531|gb|ABX29502.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|253728799|gb|EES97528.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus TCH130] gi|257271310|gb|EEV03456.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 55/2053] gi|257275118|gb|EEV06605.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 65-1322] gi|257278344|gb|EEV08980.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 68-397] gi|257281696|gb|EEV11833.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus E1410] gi|257283867|gb|EEV13990.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus M876] gi|257787542|gb|EEV25882.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9781] gi|257841215|gb|EEV65661.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9763] gi|257848529|gb|EEV72517.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9299] gi|257850935|gb|EEV74878.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A8115] gi|257854311|gb|EEV77260.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A6300] gi|257857929|gb|EEV80818.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A6224] gi|257861206|gb|EEV84019.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A5948] gi|257863546|gb|EEV86304.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A5937] gi|259158873|gb|EEW43966.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus 930918-3] gi|259162749|gb|EEW47314.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus D30] gi|262075410|gb|ACY11383.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus ED98] gi|269940985|emb|CBI49369.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus TW20] gi|282313427|gb|EFB43822.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus C101] gi|282317077|gb|EFB47451.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus C427] gi|282319246|gb|EFB49598.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus D139] gi|282321479|gb|EFB51804.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus M899] gi|282324824|gb|EFB55134.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus WBG10049] gi|282327074|gb|EFB57369.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus WW2703/97] gi|282331192|gb|EFB60706.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus Btn1260] gi|282589370|gb|EFB94461.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A10102] gi|282592749|gb|EFB97755.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9765] gi|282595691|gb|EFC00655.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus C160] gi|282764310|gb|EFC04436.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A8117] gi|283470772|emb|CAQ49983.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus ST398] gi|283790404|gb|EFC29221.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus A017934/97] gi|285817174|gb|ADC37661.1| Ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus 04-02981] gi|290920197|gb|EFD97263.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus M1015] gi|291095041|gb|EFE25306.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 58-424] gi|291466754|gb|EFF09274.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus M809] gi|294824549|gb|EFG40972.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9754] gi|294968360|gb|EFG44384.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A8819] gi|295128427|gb|EFG58061.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus EMRSA16] gi|296887804|gb|EFH26702.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus ATCC 51811] gi|297177454|gb|EFH36706.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A8796] gi|297575849|gb|EFH94565.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus MN8] gi|300886114|gb|EFK81316.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus TCH70] gi|302751325|gb|ADL65502.1| ribosomal large subunit pseudouridine synthase B, RluB [Staphylococcus aureus subsp. aureus str. JKD6008] gi|304340647|gb|EFM06581.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|312438039|gb|ADQ77110.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus TCH60] gi|312829882|emb|CBX34724.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Staphylococcus aureus subsp. aureus ECT-R 2] gi|315129766|gb|EFT85756.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus CGS03] gi|315195390|gb|EFU25777.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus CGS00] gi|315198816|gb|EFU29144.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus CGS01] gi|320140623|gb|EFW32477.1| hypothetical protein HMPREF9528_01247 [Staphylococcus aureus subsp. aureus MRSA131] gi|320144159|gb|EFW35928.1| hypothetical protein HMPREF9529_00596 [Staphylococcus aureus subsp. aureus MRSA177] gi|323441527|gb|EGA99178.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus O46] gi|329314171|gb|AEB88584.1| Pseudouridine synthase [Staphylococcus aureus subsp. aureus T0131] gi|329725278|gb|EGG61765.1| pseudouridine synthase B, ribosomal large subunit [Staphylococcus aureus subsp. aureus 21189] gi|329727675|gb|EGG64131.1| pseudouridine synthase B, ribosomal large subunit [Staphylococcus aureus subsp. aureus 21172] gi|329730831|gb|EGG67209.1| pseudouridine synthase B, ribosomal large subunit [Staphylococcus aureus subsp. aureus 21193] Length = 245 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 78/223 (34%), Positives = 131/223 (58%), Gaps = 3/223 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I++ +VKVNG + V +D IEV+G+ + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIELEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 YI-LFHKPTQVITSVSDDRGRTVVTDYFKDIEARIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQKGSNAWVTV 191 + P Q + Y + G + ++++ L+KGI ++ G+ +++V + + V + Sbjct: 125 MTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELEDGMTQPAEVKVKKQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EG+NR+++++FE F +V +L RI YGP + L AG R Sbjct: 185 TITEGRNRQVRRMFEHFGHQVTKLSRIEYGPLNVVGLNAGEGR 227 >gi|261377503|ref|ZP_05982076.1| ribosomal large subunit pseudouridine synthase B [Neisseria cinerea ATCC 14685] gi|269146237|gb|EEZ72655.1| ribosomal large subunit pseudouridine synthase B [Neisseria cinerea ATCC 14685] Length = 349 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 80/220 (36%), Positives = 130/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 94 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 152 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 153 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 212 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 213 SGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVERIYEQGGEGA 272 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 273 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 312 >gi|303242311|ref|ZP_07328797.1| pseudouridine synthase [Acetivibrio cellulolyticus CD2] gi|302590150|gb|EFL59912.1| pseudouridine synthase [Acetivibrio cellulolyticus CD2] Length = 237 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 80/224 (35%), Positives = 121/224 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA G+ASRR+ E +I Q VKVNGI++ + V S+D +EV+G ++ + Sbjct: 5 RLQKYIADCGVASRRKAEELIQQGSVKVNGIVVSEMGIKVSSSDRVEVNGSVIKPESKKV 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G VTT D R TV D L + RV VGRLD T GLL+LTNDG + Sbjct: 65 YILLNKPSGYVTTVKDQFRRPTVIDLLKGVDERVFPVGRLDYETTGLLVLTNDGDFTHKM 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y+ G +D+++ + G+ I+ ++ + + K + V + Sbjct: 125 THPRHEIEKTYQATIAGTPTKDEIHSFESGLEIEDYVTSPAKLKIISTKERTCVIEVTIH 184 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EG+NR+++K+ E V L RIS G LG L GS RE+++ Sbjct: 185 EGRNRQVRKMCEAIGHPVLALKRISLGKVTLGNLPEGSWRELTR 228 >gi|257869547|ref|ZP_05649200.1| pseudouridine synthase [Enterococcus gallinarum EG2] gi|257803711|gb|EEV32533.1| pseudouridine synthase [Enterococcus gallinarum EG2] Length = 238 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 81/232 (34%), Positives = 126/232 (54%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E +I RV VNG +++ V V + D +EVDGVP+ + E Sbjct: 2 ERLQKVIAHAGITSRRKAEELIVAGRVSVNGQIVKELGVQVSAKDRVEVDGVPIEQ-ESP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G+++ +D R V D + R+ +GRLD +T GLLLLTNDG L++ Sbjct: 61 VYYMLYKPRGVISAVTDDKKRKVVLDFFTEVPERLYPIGRLDYDTSGLLLLTNDGDLSQK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G D+ +L L +GI I+G ++ + V + Sbjct: 121 LMHPKHEVDKVYVAKVKGIADKKQLLPLSRGIRIEGKKTAPARFEILSTDAATQTSIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EG+N ++K + + V +L R YG L L G RE++KK + E Sbjct: 181 TIHEGRNHQVKNMLKAVGLPVQKLKREMYGSLTLAGLRPGEYRELTKKEVNE 232 >gi|239631549|ref|ZP_04674580.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus paracasei subsp. paracasei 8700:2] gi|301066420|ref|YP_003788443.1| 16S rRNA uridine-516 pseudouridylate synthase-like protein [Lactobacillus casei str. Zhang] gi|239526014|gb|EEQ65015.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus paracasei subsp. paracasei 8700:2] gi|300438827|gb|ADK18593.1| 16S rRNA uridine-516 pseudouridylate synthase related enzyme [Lactobacillus casei str. Zhang] Length = 247 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 84/231 (36%), Positives = 125/231 (54%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA AGIASRR E +IA VKVNG + + + D +EVDGVP+ K E Sbjct: 6 ERLQKIIANAGIASRRHAETLIATGHVKVNGQIETEMGIKIGPHDEVEVDGVPIGK-EAK 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G+++ D GR V D I R+ VGRLD +T GLL++TNDG LA Sbjct: 65 RYFLFYKPRGVISAVQDNKGRDVVTDYFKDIAERLYPVGRLDYDTSGLLVMTNDGDLANH 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG-SNAWVTV 191 L P + Y + G ++ L LK G+ + G +V + T K A V++ Sbjct: 125 LMHPRYALEKKYVAKVQGVPNRPALAPLKTGVEVDGKMTAPAKVDIISTDKAKKTAIVSL 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + +G N ++KK+F+ + V +L R +YG L L G R + + L+ Sbjct: 185 TIHQGMNHQVKKMFKAVGFPVLKLSREAYGNLTLVGLQPGEHRPIKPQELQ 235 >gi|292558985|gb|ADE31986.1| Pseudouridine synthase, Rsu [Streptococcus suis GZ1] Length = 245 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 133/230 (57%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ + S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELGTVIKSGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP++ R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRKTVVDLLPTVKERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +G+VI G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYLARVKGVANKEVLRPLTRGVVIDGKKTKPAVYEIIKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE +V++L R +G L L G R+++KK Sbjct: 178 ELTIHEGRNHQVKKMFEAVGLQVDKLSRTRFGNLDLTGLRPGEYRKLNKK 227 >gi|161870231|ref|YP_001599401.1| pseudouridine synthase [Neisseria meningitidis 053442] gi|161595784|gb|ABX73444.1| pseudouridine synthase [Neisseria meningitidis 053442] Length = 416 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 80/220 (36%), Positives = 130/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 161 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 219 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 220 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 279 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 280 SGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGA 339 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 340 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 379 >gi|293398946|ref|ZP_06643111.1| ribosomal large subunit pseudouridine synthase B [Neisseria gonorrhoeae F62] gi|291610360|gb|EFF39470.1| ribosomal large subunit pseudouridine synthase B [Neisseria gonorrhoeae F62] Length = 399 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 79/220 (35%), Positives = 131/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 144 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 202 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 203 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 262 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 263 SGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGA 322 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W + ++EG+NRE++++FE V+RL+R+++GP L Sbjct: 323 NKWYNIVIKEGRNREVRRIFESQGLTVSRLVRVAFGPIGL 362 >gi|254805154|ref|YP_003083375.1| putative pseudouridine synthase [Neisseria meningitidis alpha14] gi|254668696|emb|CBA06445.1| putative pseudouridine synthase [Neisseria meningitidis alpha14] Length = 349 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 80/220 (36%), Positives = 130/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 94 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 152 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 153 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 212 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 213 SGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGA 272 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 273 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 312 >gi|319410624|emb|CBY90993.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B; rRNA pseudouridylate synthase B) [Neisseria meningitidis WUE 2594] Length = 349 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 80/220 (36%), Positives = 130/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 94 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 152 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 153 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 212 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 213 SGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIYEQGGEGA 272 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 273 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 312 >gi|325136137|gb|EGC58745.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis M0579] gi|325136446|gb|EGC59053.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis M0579] gi|325208319|gb|ADZ03771.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis NZ-05/33] Length = 349 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 80/220 (36%), Positives = 130/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 94 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 152 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 153 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 212 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 213 SGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGA 272 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 273 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 312 >gi|254230520|ref|ZP_04923892.1| ribosomal large subunit pseudouridine synthase B [Vibrio sp. Ex25] gi|262393864|ref|YP_003285718.1| ribosomal large subunit pseudouridine synthase B [Vibrio sp. Ex25] gi|151936968|gb|EDN55854.1| ribosomal large subunit pseudouridine synthase B [Vibrio sp. Ex25] gi|262337458|gb|ACY51253.1| ribosomal large subunit pseudouridine synthase B [Vibrio sp. Ex25] Length = 312 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 87/217 (40%), Positives = 122/217 (56%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----VPLRK 69 +++ KV+ARAG SRRE+E +I RV VNG++ + + + +DG +++ Sbjct: 3 EKLQKVLARAGHGSRREIESLIKSGRVSVNGVVAKLGERLEDESSVVRIDGHIVSAKIQE 62 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V + K+ L KG+ ++ V +G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVTEQKVRNLVKGVELEDGLARFEDVVYAGGEGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE+++++E V+RL R+ YG L Sbjct: 183 FYVVINEGRNREVRRLWESQECTVSRLKRVRYGDIFL 219 >gi|315640594|ref|ZP_07895700.1| ribosomal large subunit pseudouridine synthase B [Enterococcus italicus DSM 15952] gi|315483622|gb|EFU74112.1| ribosomal large subunit pseudouridine synthase B [Enterococcus italicus DSM 15952] Length = 236 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 123/228 (53%), Gaps = 5/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA+AGI SRR+ E I RVKVNG+++ V S D IEVD VP+ + E + Sbjct: 3 RLQKVIAQAGITSRRKAEVYILDGRVKVNGVVVNELGTKVSSKDTIEVDNVPISQ-EGSV 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L++KP G+++ SD R V D + R+ +GRLD NT GLLLLTNDG +++L Sbjct: 62 YYLFYKPRGVISAVSDDKKRKVVTDFFTEVSERIYPIGRLDYNTSGLLLLTNDGEFSQLL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVTV 191 P + + Y + G L L +G+ +G Y + ++ DT + + V + Sbjct: 122 THPKNEIEKKYVAKVKGVALPHALKPLTRGLKYKGEKYAPAKYDILSTDT-RAETSIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EGKN ++K + E V +L R YG LG L G R + KK Sbjct: 181 TIHEGKNHQVKNMLEAVGLPVQKLKREQYGNLTLGNLKPGEYRPLLKK 228 >gi|298368371|ref|ZP_06979689.1| ribosomal large subunit pseudouridine synthase B [Neisseria sp. oral taxon 014 str. F0314] gi|298282374|gb|EFI23861.1| ribosomal large subunit pseudouridine synthase B [Neisseria sp. oral taxon 014 str. F0314] Length = 348 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 80/220 (36%), Positives = 130/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 94 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 152 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 153 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 212 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 213 SGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVERIYEQGGEGA 272 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 273 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 312 >gi|261392364|emb|CAX49904.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B; rRNA pseudouridylate synthase B) [Neisseria meningitidis 8013] Length = 350 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 80/220 (36%), Positives = 130/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 95 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 153 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 154 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 213 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 214 SGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGA 273 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 274 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 313 >gi|330685968|gb|EGG97591.1| pseudouridine synthase B, ribosomal large subunit [Staphylococcus epidermidis VCU121] Length = 246 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 78/223 (34%), Positives = 129/223 (57%), Gaps = 3/223 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I +VKVNG ++ V ++D +EV+G+ L + ++ Sbjct: 6 ERLQKRIASSGYTSRRKAETLITDGKVKVNGQVVTELGTKVSNSDTVEVEGIKLEQEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L++KP ++T+ SD GR V D I +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 YI-LFNKPAQVITSVSDDRGRKVVTDYFKDIETRIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KGSN-AWVTV 191 + P + Y + G + ++++ L+KGI ++ QV + Q K N V + Sbjct: 125 MTHPRYHIKKKYVAKLKGYLMREEVKALEKGIELEDGFTQPAQVKVKNQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EG+NR+++++FE F +V++L RI +GP + L AG R Sbjct: 185 TISEGRNRQVRRMFEHFGHQVSKLTRIQFGPLDIKGLNAGEGR 227 >gi|302333165|gb|ADL23358.1| ribosomal large subunit pseudouridine synthase B, RluB [Staphylococcus aureus subsp. aureus JKD6159] Length = 245 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 78/223 (34%), Positives = 131/223 (58%), Gaps = 3/223 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I++ +VKVNG + V +D IEV+G+ + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIELEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 YI-LFHKPTQVITSVSDDRGRTVVTDYFKDIDARIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQKGSNAWVTV 191 + P Q + Y + G + ++++ L+KGI ++ G+ +++V + + V + Sbjct: 125 MTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELEDGMTQPAEVKVKKQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EG+NR+++++FE F +V +L RI YGP + L AG R Sbjct: 185 TITEGRNRQVRRMFEHFGHQVTKLSRIEYGPLNVVGLNAGEGR 227 >gi|257458228|ref|ZP_05623378.1| ribosomal large subunit pseudouridine synthase B [Treponema vincentii ATCC 35580] gi|257444338|gb|EEV19431.1| ribosomal large subunit pseudouridine synthase B [Treponema vincentii ATCC 35580] Length = 252 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 83/239 (34%), Positives = 127/239 (53%), Gaps = 6/239 (2%) Query: 1 MKDKNIVQENFTPQ-RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N ++ P+ R+ +A AG+ASRR E++I + RV VNG ++ V + D Sbjct: 1 MRGNNHFSQSSKPEMRLQVYLAHAGVASRRACEKIIEEGRVSVNGTVVTGMGSKVCAGDT 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINT 118 + DG P+ R L +KP G V T SD GR T D L +S R+ ++GRLD+ + Sbjct: 61 VLFDGKPVHPEARKCYVLLNKPAGFVCTLSDEKGRPTAADLLKEAYSERLYNIGRLDMFS 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 G +L TNDG A +E PS Q + Y + + L ++GI + GI Y Sbjct: 121 SGAILFTNDGDFAAKIEHPSAQIEKEYVIETTQDFPPELLTRFERGIRVDGIFYKCRSAA 180 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++ + + L EGKNREI++V + FN + RL+R+ G +LGTL AG R+++ Sbjct: 181 AVNRR----KLRIVLVEGKNREIRRVLDSFNCTIKRLVRVRIGNLELGTLKAGEFRDLT 235 >gi|299530511|ref|ZP_07043931.1| Pseudouridine synthase, Rsu [Comamonas testosteroni S44] gi|298721487|gb|EFI62424.1| Pseudouridine synthase, Rsu [Comamonas testosteroni S44] Length = 529 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 86/231 (37%), Positives = 125/231 (54%), Gaps = 9/231 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTD 58 M K ++ ++ KV+A+AG+ SR E+E++I + R+ VN E A V + D Sbjct: 150 MPAKRVLAPQVDSPKLHKVLAQAGMGSRLEMEQLILEGRISVNN---EPAHVGQRIQFGD 206 Query: 59 HIEVDGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRL 114 ++V+G P+R R+ YHKP+G V TH DP R TVF LP + + SVGRL Sbjct: 207 IVKVNGQPIRFRIDPPPARVIAYHKPVGEVVTHDDPQNRPTVFRKLPKLQHGKWQSVGRL 266 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D+NTEGLLL T+ G LA L P R Y R G + +++ L G+ ++ Sbjct: 267 DLNTEGLLLFTSSGELANSLMHPRFGLEREYAARVLGALSKEEKQRLLDGVQLEDGEASF 326 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V +G+N W V + EG+NRE++++FE V+RLIRI YG L Sbjct: 327 GAVEDGGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMML 377 >gi|28898725|ref|NP_798330.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus RIMD 2210633] gi|153839754|ref|ZP_01992421.1| RNA pseudouridine synthase family protein [Vibrio parahaemolyticus AQ3810] gi|260363727|ref|ZP_05776503.1| pseudouridine synthase B, ribosomal large subunit [Vibrio parahaemolyticus K5030] gi|260877279|ref|ZP_05889634.1| pseudouridine synthase B, ribosomal large subunit [Vibrio parahaemolyticus AN-5034] gi|260897774|ref|ZP_05906270.1| pseudouridine synthase B, ribosomal large subunit [Vibrio parahaemolyticus Peru-466] gi|260903494|ref|ZP_05911889.1| pseudouridine synthase B, ribosomal large subunit [Vibrio parahaemolyticus AQ4037] gi|34098479|sp|Q87NB7|RLUB_VIBPA RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|28806943|dbj|BAC60214.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus RIMD 2210633] gi|149746721|gb|EDM57709.1| RNA pseudouridine synthase family protein [Vibrio parahaemolyticus AQ3810] gi|308087596|gb|EFO37291.1| pseudouridine synthase B, ribosomal large subunit [Vibrio parahaemolyticus Peru-466] gi|308090332|gb|EFO40027.1| pseudouridine synthase B, ribosomal large subunit [Vibrio parahaemolyticus AN-5034] gi|308106753|gb|EFO44293.1| pseudouridine synthase B, ribosomal large subunit [Vibrio parahaemolyticus AQ4037] gi|308114915|gb|EFO52455.1| pseudouridine synthase B, ribosomal large subunit [Vibrio parahaemolyticus K5030] gi|328474711|gb|EGF45516.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus 10329] Length = 312 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 89/217 (41%), Positives = 122/217 (56%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E +I RV VNG++ + + + +DG V + E Sbjct: 3 EKLQKVLARAGHGSRREIESLIKSGRVSVNGVVAKLGERLEDESSVVRIDGHIVSAKVQE 62 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V + K+ L KG+ ++ V +G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVTEQKVRNLVKGVELEDGLARFEDVVYAGGEGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE+++++E V+RL R+ YG L Sbjct: 183 FYVVINEGRNREVRRLWESQECTVSRLKRVRYGDIFL 219 >gi|254670545|emb|CBA06380.1| conserved hypothetical protein [Neisseria meningitidis alpha153] Length = 349 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 80/220 (36%), Positives = 130/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 94 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 152 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 153 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 212 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 213 SGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGA 272 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 273 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 312 >gi|227818294|ref|YP_002822265.1| ribosomal pseudouridine synthase B [Sinorhizobium fredii NGR234] gi|227337293|gb|ACP21512.1| putative ribosomal pseudouridine synthase B [Sinorhizobium fredii NGR234] Length = 263 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 86/229 (37%), Positives = 135/229 (58%), Gaps = 11/229 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 +++ +++ G SR + ER+IA+ RV V G ++ + + D I VDG P+ R Sbjct: 28 LARALSKLGYCSRTQAERLIAEGRVSVGGRKTTDLSLWIDIDRDRITVDGTPVAAEARIY 87 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 L L +KP GLVTT DP+GR TVFD L + +R +S VGRLD +EGLLL TND LA+ Sbjct: 88 LML-NKPRGLVTTRDDPEGRPTVFDCLGKVDARFMSPVGRLDKASEGLLLFTNDTVLAQR 146 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----GSNAWV 189 L P+T + Y V+ G D+ + G V +G G+M +D ++ N+W+ Sbjct: 147 LLDPATHLGKTYHVQVRGLFDEAAARAMMDG-VSEG---GEMLKAIDVRRLRSGDKNSWI 202 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V L+EG+NR+I+++ + ++ RL+R+S G +LG L G++R +S+ Sbjct: 203 EVELQEGRNRQIRRMLDALGFECLRLVRVSIGEIRLGDLPKGASRPLSE 251 >gi|116670095|ref|YP_831028.1| pseudouridine synthase, Rsu [Arthrobacter sp. FB24] gi|116610204|gb|ABK02928.1| Pseudouridine synthase, Rsu [Arthrobacter sp. FB24] Length = 406 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 88/228 (38%), Positives = 131/228 (57%), Gaps = 4/228 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A AG+ASRR E MI++ RV+V+G ++ V V T I VDG+ ++ E Sbjct: 169 RLQKVMASAGVASRRVCEEMISEGRVEVDGKVVTELGVRVDPKTAVIHVDGLRIQLDENM 228 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 +++KP G+V+T DPDGR + D + + R+ VGRLD+ TEGLLLLTNDG LA Sbjct: 229 VYMVFNKPKGVVSTMEDPDGRPCISDFVRNTHGERLFHVGRLDVATEGLLLLTNDGELAN 288 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L PS + + Y V+ G Q LK G+ ++ G+ D +D+ G + + V Sbjct: 289 RLTHPSYEVPKTYLVQVRGPFPQGIGAQLKAGVELEDGMASVDSFKLVDSTPG-HVLIEV 347 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L GKNR ++++F+ + V RL+R+ GP LG GS R + K+ Sbjct: 348 VLHSGKNRIVRRLFDAVGFPVLRLVRVKVGPIGLGDQRQGSIRNLGKQ 395 >gi|91228669|ref|ZP_01262584.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 12G01] gi|269967050|ref|ZP_06181118.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 40B] gi|91187790|gb|EAS74107.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 12G01] gi|269828309|gb|EEZ82575.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 40B] Length = 312 Score = 137 bits (345), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 87/217 (40%), Positives = 122/217 (56%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----VPLRK 69 +++ KV+ARAG SRRE+E +I RV VNG++ + + + +DG +++ Sbjct: 3 EKLQKVLARAGHGSRREIESLIKSGRVSVNGVVAKLGERLEDESSVVRIDGHIVSAKIQE 62 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V + K+ L KG+ ++ V +G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVTEQKVRNLVKGVELEDGLARFEDVVYAGGEGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE+++++E V+RL R+ YG L Sbjct: 183 FYVVINEGRNREVRRLWESQECTVSRLKRVRYGDIFL 219 >gi|225024981|ref|ZP_03714173.1| hypothetical protein EIKCOROL_01870 [Eikenella corrodens ATCC 23834] gi|224942211|gb|EEG23420.1| hypothetical protein EIKCOROL_01870 [Eikenella corrodens ATCC 23834] Length = 325 Score = 137 bits (345), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 82/220 (37%), Positives = 126/220 (57%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P R+ K +A +G+ SRRE+E I V VNG + + V D + V G + L+ Sbjct: 71 IEPVRLQKALAASGVGSRREMEEWIQNGWVTVNGKVAQ-LGDKVQPEDQVLVKGSVIKLK 129 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 +R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 130 WPDRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 189 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G LA PS + R Y VR G++ D++ LL +G++++ ++ +G Sbjct: 190 SGELANRFAHPSFEVEREYAVRVLGELGMDEMRLLTSEGVMLEDGLARVERIHSQGGEGV 249 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V L+EG+NRE++++FE F V+RL+R +GP L Sbjct: 250 NKWYNVVLKEGRNREVRRIFEHFGLTVSRLVRTGFGPIGL 289 >gi|238855198|ref|ZP_04645517.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 269-3] gi|260664561|ref|ZP_05865413.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii SJ-7A-US] gi|282932508|ref|ZP_06337933.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 208-1] gi|313471973|ref|ZP_07812465.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 1153] gi|238832090|gb|EEQ24408.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 269-3] gi|239529095|gb|EEQ68096.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 1153] gi|260561626|gb|EEX27598.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii SJ-7A-US] gi|281303457|gb|EFA95634.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 208-1] Length = 237 Score = 137 bits (345), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 83/229 (36%), Positives = 134/229 (58%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA+AGIASRR+ E++I + RV VNG ++ V S+ IEVDG+P++K E Sbjct: 3 ERLQKLIAQAGIASRRKAEKLITEGRVAVNGKIVTELGTKVESSASIEVDGLPIQK-ESK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ D GR TV D R+ VGRLD +T GLLL+TNDG LA Sbjct: 62 HTYLLYKPRGVISSVKDDKGRKTVLDFFEESPYRLYPVGRLDYDTSGLLLITNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQKGSNAWVT 190 L P +VY + G + ++++ LK G+ I G +V + + +KG+ + V Sbjct: 122 LMHPRHMVDKVYVAKIKGFLTPEEIHSLKHGVRIDGKKSAPAKVKIISTNREKGT-SIVQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG ++K++F+ V++L R Y L +L AG RE++++ Sbjct: 181 LTIHEGHYHQVKRMFKAVGHLVDKLSRERYAFLTLKSLTAGKYRELTRE 229 >gi|221066029|ref|ZP_03542134.1| pseudouridine synthase [Comamonas testosteroni KF-1] gi|220711052|gb|EED66420.1| pseudouridine synthase [Comamonas testosteroni KF-1] Length = 529 Score = 137 bits (345), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 86/231 (37%), Positives = 125/231 (54%), Gaps = 9/231 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTD 58 M K ++ ++ KV+A+AG+ SR E+E++I + R+ VN E A V + D Sbjct: 150 MPAKRVLAPQVDSPKLHKVLAQAGMGSRLEMEQLILEGRISVNN---EPAHVGQRIQFGD 206 Query: 59 HIEVDGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRL 114 ++V+G P+R R+ YHKP+G V TH DP R TVF LP + + SVGRL Sbjct: 207 IVKVNGQPIRFRIDPPPARVIAYHKPVGEVVTHDDPQNRPTVFRKLPKLQHGKWQSVGRL 266 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D+NTEGLLL T+ G LA L P R Y R G + +++ L G+ ++ Sbjct: 267 DLNTEGLLLFTSSGELANSLMHPRFGLEREYAARVLGALSKEEKQRLLDGVQLEDGEASF 326 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V +G+N W V + EG+NRE++++FE V+RLIRI YG L Sbjct: 327 GAVEDGGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMML 377 >gi|320528289|ref|ZP_08029451.1| hypothetical protein HMPREF9430_01576 [Solobacterium moorei F0204] gi|320131203|gb|EFW23771.1| hypothetical protein HMPREF9430_01576 [Solobacterium moorei F0204] Length = 243 Score = 137 bits (345), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 88/225 (39%), Positives = 131/225 (58%), Gaps = 3/225 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA+AGIASRR+ E +I +VKVNG+++ V D I V+GV L+K E+ Sbjct: 2 ERLQKTIAKAGIASRRKAEELIVSGKVKVNGVVVTELGTQVSPDDDISVNGVVLKKEEKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP ++++ SD GR TV L + R+ VGRLD +T G+LLLTNDG A Sbjct: 62 -YYLLNKPRRVISSVSDEKGRETVLAYLSDVRERIYPVGRLDYDTSGILLLTNDGDFANA 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT-V 191 + PS+ + Y V G + D LN L +GI++ G V L+ N V + Sbjct: 121 MMHPSSHLPKTYEVAVTGVLTDDMLNRLARGIMLSDGKTLPAEVVLLERSTKKNKTVLHI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 ++EG+NRE++++ E+F+ +V RL RI YG LG L G R++ Sbjct: 181 TIQEGRNREVRRMMEYFHCEVTRLNRIGYGFLDLGNLRQGQYRKL 225 >gi|191638365|ref|YP_001987531.1| Pseudouridine synthase [Lactobacillus casei BL23] gi|190712667|emb|CAQ66673.1| Pseudouridine synthase [Lactobacillus casei BL23] gi|327382393|gb|AEA53869.1| Ribosomal large subunit pseudouridine synthase B [Lactobacillus casei LC2W] gi|327385594|gb|AEA57068.1| Ribosomal large subunit pseudouridine synthase B [Lactobacillus casei BD-II] Length = 247 Score = 137 bits (345), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 84/231 (36%), Positives = 125/231 (54%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA AGIASRR E +IA VKVNG + + + D +EVDGVP+ K E Sbjct: 6 ERLQKIIANAGIASRRHAETLIATGHVKVNGQIETEMGIKIGPHDEVEVDGVPIGK-EAK 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G+++ D GR V D I R+ VGRLD +T GLL++TNDG LA Sbjct: 65 RYFLFYKPRGVISAVQDNKGRDVVTDYFKDITERLYPVGRLDYDTSGLLVMTNDGDLANH 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG-SNAWVTV 191 L P + Y + G ++ L LK G+ + G +V + T K A V++ Sbjct: 125 LMHPRYALEKKYVAKVQGVPNRPALAPLKTGVEVDGKMTAPAKVDIISTDKAKKTAIVSL 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + +G N ++KK+F+ + V +L R +YG L L G R + + L+ Sbjct: 185 TIHQGMNHQVKKMFKAVGFPVLKLSREAYGNLTLVGLQPGEHRPIKPQELQ 235 >gi|308389478|gb|ADO31798.1| putative pseudouridine synthase [Neisseria meningitidis alpha710] Length = 349 Score = 137 bits (345), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 80/220 (36%), Positives = 130/220 (59%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 94 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 152 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT Sbjct: 153 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTT 212 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 213 SGELVQRFTHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGA 272 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 273 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 312 >gi|298694777|gb|ADI97999.1| pseudouridine synthase [Staphylococcus aureus subsp. aureus ED133] Length = 245 Score = 137 bits (345), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 78/223 (34%), Positives = 131/223 (58%), Gaps = 3/223 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I++ +VKVNG + V +D IEV+G+ + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIELEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 YI-LFHKPTQVITSVSDDRGRTVVTDYFKDIDARIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQKGSNAWVTV 191 + P Q + Y + G + ++++ L+KGI ++ G+ +++V + + V + Sbjct: 125 MTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELEDGMTQPAEVKVKKQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EG+NR+++++FE F +V +L RI YGP + L AG R Sbjct: 185 TITEGRNRQVRRMFEHFGHQVTKLSRIDYGPLNVVGLNAGEGR 227 >gi|259046873|ref|ZP_05737274.1| ribosomal large subunit pseudouridine synthase B [Granulicatella adiacens ATCC 49175] gi|259036496|gb|EEW37751.1| ribosomal large subunit pseudouridine synthase B [Granulicatella adiacens ATCC 49175] Length = 241 Score = 137 bits (345), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 82/226 (36%), Positives = 128/226 (56%), Gaps = 5/226 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR+ E I + RVKVNG ++ V + D IEVDG+P+ K E Sbjct: 2 ERLQKVMAHAGVASRRKCEAFIQEGRVKVNGEVVRELGFKVGANDKIEVDGIPIYKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++++KP G++++ SD GR+ V D + RV VGRLD +T GLLLLTNDG + + Sbjct: 62 -YFMFYKPKGVLSSASDDKGRTVVTDYFKDVEQRVYPVGRLDYDTTGLLLLTNDGEFSNL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD---MQVTLDTQKGSNAWVT 190 + P + Y + G ++ L++GIV+ G + +++DT KG+ V Sbjct: 121 MTHPKHHVEKKYIAKVKGIPTPRQMRQLERGIVLDGKKTSNAIAQILSVDTDKGT-GIVA 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EG N ++K++FE V +L R +G L L G RE+ Sbjct: 180 LTIHEGWNHQVKRMFEAVELPVMKLKREEFGFLTLENLRPGDYREL 225 >gi|58337261|ref|YP_193846.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus acidophilus NCFM] gi|227903846|ref|ZP_04021651.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus acidophilus ATCC 4796] gi|58254578|gb|AAV42815.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus acidophilus NCFM] gi|227868733|gb|EEJ76154.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus acidophilus ATCC 4796] Length = 238 Score = 137 bits (345), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 84/227 (37%), Positives = 127/227 (55%), Gaps = 3/227 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E+MI RVKV+G ++ + V + +I VD P+ + E Sbjct: 3 ERLQKVIAEAGIASRRKAEKMITAGRVKVDGQVVTKLGTKVDTFSNITVDDEPIER-ESL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++++KP G+V+T D GR TV D I RV +GRLD +T GLLL+TNDG LA + Sbjct: 62 HTYIFYKPRGVVSTADDDKGRKTVVDYFEDIPYRVYPIGRLDYDTSGLLLMTNDGELANL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNAW-VTV 191 L P + +VY + G + +++ L KG+ + +V L T K N V + Sbjct: 122 LMHPRNEVSKVYVAKIKGILTPEEIKSLTKGVKLGRFKSAPAKVKVLKTDKRKNTQIVQI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG ++K++F+ V +L R Y L +L +G RE+SK Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVEKLSREKYAFLTLDSLTSGQYRELSK 228 >gi|332530537|ref|ZP_08406476.1| pseudouridine synthase [Hylemonella gracilis ATCC 19624] gi|332040012|gb|EGI76399.1| pseudouridine synthase [Hylemonella gracilis ATCC 19624] Length = 444 Score = 137 bits (345), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 97/277 (35%), Positives = 143/277 (51%), Gaps = 15/277 (5%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 K ++Q ++ KV+A+AG+ SR E+E++I + R+ VN E A + + D I+ Sbjct: 73 KRVLQPQAETPKLHKVLAQAGMGSRLEMEQLIMEGRISVNN---EPAHIGQRIQFGDQIK 129 Query: 62 VDGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDIN 117 V+G P+R R+ YHKP+G V TH DP R TVF LP + + SVGRLD+N Sbjct: 130 VNGKPIRFRIAPPPARVIAYHKPVGEVVTHDDPQNRPTVFRRLPKLPQGKWQSVGRLDLN 189 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLL TN G LA L P R Y R G + ++ L G+ + + Sbjct: 190 TEGLLLFTNSGDLANRLMHPRFGLEREYAARVLGALSNEEKQRLLDGVPLDDTKAQFGSI 249 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +GSN W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ Sbjct: 250 EEGGGEGSNLWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMVLPRGLRRGAWMEL 309 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPN 273 + +R L++ A ++++ T R RP Sbjct: 310 DDRDIRA-----LMQAAGGSVESSEPGGGTSSRGRPG 341 >gi|264679428|ref|YP_003279335.1| Pseudouridine synthase, Rsu [Comamonas testosteroni CNB-2] gi|262209941|gb|ACY34039.1| Pseudouridine synthase, Rsu [Comamonas testosteroni CNB-2] Length = 529 Score = 137 bits (345), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 86/231 (37%), Positives = 125/231 (54%), Gaps = 9/231 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTD 58 M K ++ ++ KV+A+AG+ SR E+E++I + R+ VN E A V + D Sbjct: 150 MPAKRVLAPQVDSPKLHKVLAQAGMGSRLEMEQLILEGRISVNN---EPAHVGQRIQFGD 206 Query: 59 HIEVDGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRL 114 ++V+G P+R R+ YHKP+G V TH DP R TVF LP + + SVGRL Sbjct: 207 IVKVNGQPIRFRIDPPPARVIAYHKPVGEVVTHDDPQNRPTVFRKLPKLQHGKWQSVGRL 266 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D+NTEGLLL T+ G LA L P R Y R G + +++ L G+ ++ Sbjct: 267 DLNTEGLLLFTSSGELANSLMHPRFGLEREYAARVLGALSKEEKQRLLDGVQLEDGEASF 326 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V +G+N W V + EG+NRE++++FE V+RLIRI YG L Sbjct: 327 GAVEDGGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMML 377 >gi|116494858|ref|YP_806592.1| 16S rRNA uridine-516 pseudouridylate synthase related enzyme [Lactobacillus casei ATCC 334] gi|227535145|ref|ZP_03965194.1| pseudouridylate synthase [Lactobacillus paracasei subsp. paracasei ATCC 25302] gi|116105008|gb|ABJ70150.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus casei ATCC 334] gi|227187190|gb|EEI67257.1| pseudouridylate synthase [Lactobacillus paracasei subsp. paracasei ATCC 25302] Length = 247 Score = 137 bits (345), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 84/231 (36%), Positives = 125/231 (54%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA AGIASRR E +IA VKVNG + + + D +EVDGVP+ K E Sbjct: 6 ERLQKIIANAGIASRRHAETLIATGHVKVNGQIETEMGIKIGPHDEVEVDGVPIGK-EAK 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G+++ D GR V D I R+ VGRLD +T GLL++TNDG LA Sbjct: 65 RYFLFYKPRGVISAVQDNKGRDVVTDYFKDITERLYPVGRLDYDTSGLLVMTNDGDLANH 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG-SNAWVTV 191 L P + Y + G ++ L LK G+ + G +V + T K A V++ Sbjct: 125 LMHPRYALEKKYVAKVQGVPNRPALAPLKTGVEVDGKMTAPAKVDIISTDKAKKTAIVSL 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + +G N ++KK+F+ + V +L R +YG L L G R + + L+ Sbjct: 185 TIHQGMNHQVKKMFKAVGFPVLKLSREAYGNLTLVGLQPGEHRPIKPQELQ 235 >gi|323492456|ref|ZP_08097604.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio brasiliensis LMG 20546] gi|323313243|gb|EGA66359.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio brasiliensis LMG 20546] Length = 312 Score = 137 bits (344), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 102/257 (39%), Positives = 139/257 (54%), Gaps = 14/257 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E +I RV VNGI+ + + +DG V + E Sbjct: 3 EKLQKVLARAGHGSRRELEALIKAGRVSVNGIVAKLGERLEDENAVVRIDGHTVSAKAQE 62 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V + K+ L +G+ ++ V G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVTEQKVKNLVRGVELEDGMARFEDVVYAGGDGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK---ILRE- 243 V + EG+NRE+++++E + V+RL R+ YG L L G E+ K LRE Sbjct: 183 FYVAINEGRNREVRRLWESQDTTVSRLKRVRYGDIYLDKKLPRGGWMELDLKEVNYLREL 242 Query: 244 -QLGPH---LLEEAQVN 256 +L P LL+E++ N Sbjct: 243 VELRPERQTLLDESKAN 259 >gi|88808924|ref|ZP_01124433.1| Pseudouridine synthase, Rsu [Synechococcus sp. WH 7805] gi|88786866|gb|EAR18024.1| Pseudouridine synthase, Rsu [Synechococcus sp. WH 7805] Length = 247 Score = 137 bits (344), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 127/230 (55%), Gaps = 1/230 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T QR+ K+IA AGI SRR E ++ Q RVKVNG L + D +EVDG PL++A Sbjct: 1 MTRQRLQKLIAAAGICSRRRAEDLLRQHRVKVNGQLAAIGDQADLDQDDVEVDGRPLQRA 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGG 129 R+ L +KP G++ + DP R TV D +P+ + + VGRLD + G LLL+N G Sbjct: 61 LVPRVLLLNKPPGVICSCRDPQQRKTVLDLVPAHLRDGLHPVGRLDAESRGALLLSNQGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + YRV G + +L ++G+V+ G +VTL ++ + Sbjct: 121 LTLQLTHPRYNHCKTYRVTVAGLPPEKQLRQWRRGVVLDGTVTRPAEVTLLEGTTRSSVL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V LREG+NR+I+++ +V L RI+ G LG++ G RE+S++ Sbjct: 181 EVVLREGRNRQIRRIALSLGHRVLDLQRIAIGDLMLGSVAEGCWRELSRQ 230 >gi|148981773|ref|ZP_01816521.1| pseudouridine synthase family 1 protein [Vibrionales bacterium SWAT-3] gi|145960740|gb|EDK26079.1| pseudouridine synthase family 1 protein [Vibrionales bacterium SWAT-3] Length = 305 Score = 137 bits (344), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 110/303 (36%), Positives = 154/303 (50%), Gaps = 13/303 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E +I RV VNG + + I +DG V + +E Sbjct: 3 EKLQKVLARAGHGSRRELEGLIKSGRVSVNGQVAKLGERLEDENSVIRIDGHTVSGKASE 62 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVVCRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V + K+ L +G+ ++ V +G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVTEQKVKNLVRGVELEDGMARFEDVVYAGGEGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK---ILREQ 244 V + EG+NRE+++++E V+RL R+ YG L L G +E+ + LRE Sbjct: 183 FYVAINEGRNREVRRLWESQETTVSRLKRVRYGDIYLDKKLPRGGWKELDLQEVNYLREL 242 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 + +E ++LD P +S R R I R ++ ++ G S Q K P Sbjct: 243 VELKPEKETLLDLD-PSNTSRKRERSRSQKIRRA---VRRHEERANAPKGRSNQAKRKKP 298 Query: 305 VHR 307 R Sbjct: 299 ATR 301 >gi|187478887|ref|YP_786911.1| ribosomal large subunit pseudouridine synthase B [Bordetella avium 197N] gi|115423473|emb|CAJ50007.1| ribosomal large subunit pseudouridine synthase B [Bordetella avium 197N] Length = 457 Score = 137 bits (344), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 84/218 (38%), Positives = 124/218 (56%), Gaps = 19/218 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKA-- 70 ++ KV+A AGI SRRE+E +I RV VNG E A + V + D + V+G + + Sbjct: 3 KLHKVLADAGIGSRREMEELIVAGRVSVNG---EPAHIGQRVAANDQVRVNGKLISRPNA 59 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 + R+ LYHKP G + +H DP+GR+ VF LP + + +SVGRLD+NTEGLL+ T G Sbjct: 60 KKPPRVILYHKPAGEIVSHDDPNGRANVFTRLPKLRTGKWLSVGRLDLNTEGLLIFTTSG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-----QK 183 +A + P R Y VR G++D+ + L ++GI D + + Sbjct: 120 DMANRIMHPRYGTEREYAVRVLGEMDEAQRTSL-----VEGIDLDDGKAAFGSFDYLGGD 174 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 GSN W V L+EG+NRE++++FE V+RLIR +G Sbjct: 175 GSNRWYRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFG 212 >gi|224541350|ref|ZP_03681889.1| hypothetical protein CATMIT_00510 [Catenibacterium mitsuokai DSM 15897] gi|224525684|gb|EEF94789.1| hypothetical protein CATMIT_00510 [Catenibacterium mitsuokai DSM 15897] Length = 247 Score = 137 bits (344), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 83/225 (36%), Positives = 124/225 (55%), Gaps = 7/225 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA++G SRR+ E +I Q +V VNG ++ V D I V+G + K ++ Sbjct: 3 ERLQKVIAQSGYTSRRKAEELIQQGKVTVNGEVVTVLGTKVTKKDTICVNGKLINKEDKV 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP V T SD R+ V D RV VGRLD +T G L +TNDG A + Sbjct: 63 -YYLFYKPEKCVCTMSDEHDRTCVADYFADSNERVYPVGRLDYDTTGALFMTNDGEFANL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----CYGDMQVTLDTQKGSNAWV 189 + PS+ +VY V G + + + N L+KGI ++G+ C ++ +T + ++ + Sbjct: 122 IMHPSSHLEKVYEVSVKGLLTKAEKNQLEKGIYLEGVKTLPC--EIAITGNDEEHGTTML 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNR+IKK+FE V RL RI GP L L G+ R Sbjct: 180 LIRLVEGKNRQIKKMFEEVGHPVKRLRRIMIGPIDLKGLTPGTYR 224 >gi|315658229|ref|ZP_07911101.1| pseudouridine synthase RluB [Staphylococcus lugdunensis M23590] gi|315496558|gb|EFU84881.1| pseudouridine synthase RluB [Staphylococcus lugdunensis M23590] Length = 247 Score = 137 bits (344), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 76/236 (32%), Positives = 135/236 (57%), Gaps = 6/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +VKVNG ++ V +D +EV+G+ + + ++ Sbjct: 8 ERLQKRIANSGYTSRRKAETLITEGKVKVNGEVVTELGTKVKPSDQVEVEGIKMEQEDKI 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+HKP ++T+ SD GR+ V D + +R+ VGRLD +T G+LLLTNDG + Sbjct: 68 YI-LFHKPAQVITSVSDDHGRTVVTDYFKDLDTRIYPVGRLDYDTSGVLLLTNDGEFTNL 126 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQKGSNAWVTV 191 + P + Y + G + ++++ L+ GI ++ G+ +++ + + V + Sbjct: 127 MTHPRYHIPKTYVAKLKGYLMREEVKTLEAGIELEDGLTQPATVKIKRQDKDKNTTLVEI 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQ 244 + EG+NR+++++FE F VN+L RI +G L L AG R ++ K+LR Q Sbjct: 187 TISEGRNRQVRRMFEHFGHSVNKLTRIQFGSLNLKGLNAGEGRVLTPHEVKVLRHQ 242 >gi|37679411|ref|NP_934020.1| pseudouridine synthase family 1 protein [Vibrio vulnificus YJ016] gi|320156837|ref|YP_004189216.1| ribosomal large subunit pseudouridine synthase B [Vibrio vulnificus MO6-24/O] gi|37198154|dbj|BAC93991.1| pseudouridine synthase family 1 protein [Vibrio vulnificus YJ016] gi|319932149|gb|ADV87013.1| ribosomal large subunit pseudouridine synthase B [Vibrio vulnificus MO6-24/O] Length = 320 Score = 137 bits (344), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 89/217 (41%), Positives = 122/217 (56%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E +I RV VNGI+ + + +DG V ++ E Sbjct: 3 EKLQKVLARAGHGSRRELEALIKSGRVSVNGIVAKLGERLEDEQAVVRIDGHVVSVKAQE 62 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V++ K+ L G+ + V +G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVNEHKVRNLVNGVELDDGLARFEDVVYTGGEGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE+++++E + V+RL R+ YG L Sbjct: 183 FYVVINEGRNREVRRLWESQDCTVSRLKRVRYGDIYL 219 >gi|317051704|ref|YP_004112820.1| pseudouridine synthase [Desulfurispirillum indicum S5] gi|316946788|gb|ADU66264.1| pseudouridine synthase [Desulfurispirillum indicum S5] Length = 251 Score = 137 bits (344), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 90/243 (37%), Positives = 133/243 (54%), Gaps = 12/243 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K++A+AG+ASRR+ E I Q RV VNG ++ E D + VDG ++ Sbjct: 4 RLQKILAQAGVASRRKAEEYIRQGRVMVNGKVVTELGTQADPDEDFVAVDGKRIQIFHNH 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G +T+ SD R V D LP+I +I VGRLD +T GLLLLTNDG LA V Sbjct: 64 AYIILHKPTGYITSRSDDKERPVVMDLLPNIREPLIPVGRLDWDTSGLLLLTNDGDLAYV 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGS---NAWV 189 L P+ + Y VR + + + + +KGI+++ +V ++T K + N W Sbjct: 124 LTHPAFHVAKTYLVRLDKPMTAEHMQVFEKGILLEDGKTKPARVRRVNTGKQTATPNLWY 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR-------EVSKKILR 242 V + EG+NR+I+K+FE + V +L R+S G LG + G R E +K+ R Sbjct: 184 EVTITEGRNRQIRKMFEALKYDVRKLKRVSLGEILLGGVGVGKYRRAEAWEIEYFEKLKR 243 Query: 243 EQL 245 E+L Sbjct: 244 EKL 246 >gi|295696420|ref|YP_003589658.1| pseudouridine synthase [Bacillus tusciae DSM 2912] gi|295412022|gb|ADG06514.1| pseudouridine synthase [Bacillus tusciae DSM 2912] Length = 245 Score = 137 bits (344), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 94/234 (40%), Positives = 132/234 (56%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KVIA AG+ SRR+ E+ IAQ RV+VNG ++ V D IEVDG + +R Sbjct: 3 ERLQKVIAGAGLTSRRKAEQWIAQGRVRVNGRVVVEQGFKVDPEVDRIEVDGRSVAIPDR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T +L++KPIG+VTT DP GR V D + + RV VGRLDIN+ GLLLLTNDG LA Sbjct: 63 TVCFLFYKPIGVVTTLHDPQGRPAVADYVRDLPKRVFPVGRLDINSSGLLLLTNDGELAH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + YRV G +D + L+ GIV+ G+ +V L + + + Sbjct: 123 RLMHPRFGVEKTYRVAVRGYLDNPGIRRLETGIVLDGVRTAPARVRLWGRGRERSEFDIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR---EVSKKILRE 243 L EG+NR+++++ + V L RI YG + L G R E ++ILR+ Sbjct: 183 LHEGRNRQVRRMCKAVGHPVLELTRIQYGNLTIDGLAPGEIRPLTEEEERILRQ 236 >gi|226941109|ref|YP_002796183.1| Pseudouridine synthase [Laribacter hongkongensis HLHK9] gi|226716036|gb|ACO75174.1| Pseudouridine synthase [Laribacter hongkongensis HLHK9] Length = 703 Score = 137 bits (344), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 79/213 (37%), Positives = 126/213 (59%), Gaps = 7/213 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--LRKAER 72 R+ K +A AG+ SRR+++ ++A RV +NG + E A V D + VD P +R +R Sbjct: 454 RLQKALALAGLGSRRDMDELVAAGRVSINGAVAELGA-RVRPGDKVRVDSKPVLIRWPDR 512 Query: 73 -TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGL 130 R+ +YHK G + T DP+GR+TVFD LP S+ +++GRLD+NT GLL+ T G L Sbjct: 513 LPRVIVYHKQEGEIVTRDDPEGRTTVFDRLPQTRSSKWVAIGRLDVNTSGLLIFTTSGDL 572 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAW 188 A + PS + R Y VR G++ +++ G+ + + ++ D + N W Sbjct: 573 ANRMTHPSFEVEREYAVRVLGKLTPEQMKETTAGVQLDDGPASFQFIREDDDKEDSVNHW 632 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 VG+REG+NRE++++FE F V+RL+R+ +G Sbjct: 633 YRVGIREGRNREVRRMFEHFGLTVSRLMRVRFG 665 >gi|119944821|ref|YP_942501.1| pseudouridine synthase [Psychromonas ingrahamii 37] gi|119863425|gb|ABM02902.1| ribosomal large subunit pseudouridine synthase B [Psychromonas ingrahamii 37] Length = 293 Score = 137 bits (344), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 88/222 (39%), Positives = 131/222 (59%), Gaps = 8/222 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILL---ERAA-VNVMSTD-HIEVDGVPLR 68 +++ KV+ARAG+ SRR++E +I + RV V+G ++ ER V V+ D HI + P Sbjct: 3 EKLQKVLARAGLGSRRKMEVVIQEGRVSVDGKVVGLGERVTDVQVIRVDGHIVKNLTP-- 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T SD +GR+TVF+ LPS+ +R IS+GRLDINT GLLL T D Sbjct: 61 ENTMCRILAYNKPEGEICTRSDEEGRTTVFERLPSLKGARWISIGRLDINTSGLLLFTTD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G A + PS Q R Y VR G V + LN L+ G+ ++ + + +G N Sbjct: 121 GEFANKMMHPSQQIEREYAVRIFGDVTEAILNRLRMGVQLEDGEAKFLDIKESGGEGINR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 W V L EG+ RE+++++E +V+RL+R+ YG L L Sbjct: 181 WFHVVLTEGRTREVRRLWESQGLQVSRLMRVRYGNITLSKQL 222 >gi|261253231|ref|ZP_05945804.1| ribosomal large subunit pseudouridine synthase B [Vibrio orientalis CIP 102891] gi|260936622|gb|EEX92611.1| ribosomal large subunit pseudouridine synthase B [Vibrio orientalis CIP 102891] Length = 312 Score = 137 bits (344), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 88/217 (40%), Positives = 121/217 (55%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E +I RV VNG++ + + +DG V + E Sbjct: 3 EKLQKVLARAGHGSRRELEALIKAGRVSVNGVVAKLGERLEDENAIVRIDGHTVSAKAQE 62 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVVCRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V + K+ L +G+ ++ V G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVTEQKVKNLVRGVELEDGMARFEDVVYAGGDGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE+++++E + V+RL R+ YG L Sbjct: 183 FYVAINEGRNREVRRLWESQDTTVSRLKRVRYGDIYL 219 >gi|300812160|ref|ZP_07092604.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] gi|300496845|gb|EFK31923.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] Length = 239 Score = 137 bits (344), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 129/228 (56%), Gaps = 3/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRRE E+MI RV+V+G ++ + V S + + VD P+ + E Sbjct: 4 ERLQKVIAQAGIASRREAEKMILAGRVRVDGQVVTKLGTKVSSIEQVVVDNQPIER-ESH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+++ D GR TV D + R+ VGRLD +T GLLL+TNDG LA + Sbjct: 63 HTYLFYKPRGVISAVKDNKGRKTVADYFTDLPYRLYPVGRLDYDTSGLLLMTNDGELANL 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQ-KGSNAWVTV 191 L P + +VY + G + D++ LKKG+ I QV L T + V + Sbjct: 123 LMHPRNEVDKVYVAKIKGILQPDEIKALKKGVQIGRYKTKPAQVKVLKTNPRAQTQIVQL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG ++K++F+ N V++L R Y L L +G RE+++K Sbjct: 183 TIHEGHYHQVKEMFKAVNHLVDKLSRERYSFLDLQGLTSGQYRELNRK 230 >gi|262276079|ref|ZP_06053888.1| ribosomal large subunit pseudouridine synthase B [Grimontia hollisae CIP 101886] gi|262219887|gb|EEY71203.1| ribosomal large subunit pseudouridine synthase B [Grimontia hollisae CIP 101886] Length = 331 Score = 137 bits (344), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 86/217 (39%), Positives = 123/217 (56%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----VPLRK 69 +++ KV+ARAG+ SRRE+E MI RV VNG++ + I VDG V Sbjct: 3 EKLQKVLARAGLGSRREIESMIQAGRVSVNGVVAKLGDRLEDLNAAIRVDGHHVSVSASS 62 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 + R+ Y+KP G + T SDP+GR TVFD LP + +R ++VGRLD NT GLLL T DG Sbjct: 63 EQVCRVLAYNKPEGELCTRSDPEGRRTVFDRLPRLNGARWVAVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V++ + L +G+ ++ V +G+N Sbjct: 123 ELANRLMHPSRQVQREYMVRVFGEVNEQMVKNLVRGVELEDGEARFEDVVYAGGEGANHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE+++++E V+RL R+ YG L Sbjct: 183 FYVVITEGRNREVRRLWETQGVTVSRLKRVRYGDIYL 219 >gi|297570484|ref|YP_003691828.1| pseudouridine synthase [Desulfurivibrio alkaliphilus AHT2] gi|296926399|gb|ADH87209.1| pseudouridine synthase [Desulfurivibrio alkaliphilus AHT2] Length = 240 Score = 137 bits (344), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 83/229 (36%), Positives = 130/229 (56%), Gaps = 1/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +ARAGIASRR+ E IAQ RV+V+G + + + + + DG P+ R Sbjct: 3 ERLQKFLARAGIASRRKAEEYIAQGRVQVDGRPVAQMGLTIDPERQQVTFDGQPVLPPSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G VTT +DP GR V + R+ VGRLD++TEG LLLTNDG LA+ Sbjct: 63 KLTVLLNKPAGYVTTMADPQGRPIVTSLINEPGLRLFPVGRLDLDTEGALLLTNDGELAQ 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + PS Q R Y G+ +++ L L++GI+++G ++ + + + V Sbjct: 123 NILHPSRQINRTYHATVKGRPNREALQQLRRGIMLEGRRTWPARIRELRRNQESTTLEVI 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG+ R+++K+F N V +L R++YG +LG+L G R +S + L Sbjct: 183 IHEGRKRQVRKMFAAINHPVLQLKRVAYGGLRLGSLPTGRYRRLSPEDL 231 >gi|255318614|ref|ZP_05359845.1| RNA pseudouridine synthase family protein [Acinetobacter radioresistens SK82] gi|262379160|ref|ZP_06072316.1| ribosomal large subunit pseudouridine synthase B [Acinetobacter radioresistens SH164] gi|255304296|gb|EET83482.1| RNA pseudouridine synthase family protein [Acinetobacter radioresistens SK82] gi|262298617|gb|EEY86530.1| ribosomal large subunit pseudouridine synthase B [Acinetobacter radioresistens SH164] Length = 301 Score = 137 bits (344), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 87/217 (40%), Positives = 128/217 (58%), Gaps = 14/217 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG RK + Sbjct: 3 EKLQKVLARIGLGSRRYMEEVIAAGRVSVNGRVAQ-VGERIEPGDELRIDG---RKVQFQ 58 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 R R+ +Y+KP G + + +DP+ R TVFD+LP+I + R + VGRLDIN+ GLLL T Sbjct: 59 IEDEIRRRVLIYYKPEGEICSRNDPESRPTVFDHLPTIANDRWVMVGRLDINSTGLLLFT 118 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVD-QDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 NDG LA L PS + R Y VR G+V Q + N+L G+V+ + G Sbjct: 119 NDGELANRLMHPSNEIEREYAVRVMGEVTPQIRQNML-NGVVLDDGPAKFESFSEIGGDG 177 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 N W V ++EG+NRE++++FE KV+RL+R YG Sbjct: 178 INRWYQVVVKEGRNREVRRIFESQGLKVSRLLRTRYG 214 >gi|27366329|ref|NP_761857.1| ribosomal large subunit pseudouridine synthase B [Vibrio vulnificus CMCP6] gi|34098527|sp|Q8D8C0|RLUB_VIBVU RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|27362530|gb|AAO11384.1| Ribosomal large subunit pseudouridine synthase B [Vibrio vulnificus CMCP6] Length = 320 Score = 137 bits (344), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 89/217 (41%), Positives = 122/217 (56%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E +I RV VNGI+ + + +DG V ++ E Sbjct: 3 EKLQKVLARAGHGSRRELEALIKSGRVSVNGIVAKLGERLEDEQAVVRIDGHVVSVKAQE 62 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V++ K+ L G+ + V +G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVNEHKVRNLVNGVELDDGLARFEDVVYTGGEGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE+++++E + V+RL R+ YG L Sbjct: 183 FYVVINEGRNREVRRLWESQDCTVSRLKRVRYGDIYL 219 >gi|290968712|ref|ZP_06560250.1| pseudouridylate synthase [Megasphaera genomosp. type_1 str. 28L] gi|290781365|gb|EFD93955.1| pseudouridylate synthase [Megasphaera genomosp. type_1 str. 28L] Length = 238 Score = 136 bits (343), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 84/234 (35%), Positives = 134/234 (57%), Gaps = 6/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ KV++ G+ASRR E+MI RV+VNG+++ V D I VDG L + + Sbjct: 2 ERLQKVMSNCGVASRRASEQMILDGRVRVNGVIVRELGTKVKPEQDIILVDGRRL-EIQP 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L++KP G++TT SD GR TV D I R+ ++GRLD NTEGLLL+TNDG LA Sbjct: 61 KHYYLFNKPKGVITTCSDEQGRPTVLDYFKRIKDRIYAIGRLDQNTEGLLLMTNDGELAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICY-GDM-QVTLDTQKGSNAWV 189 +L P + Y V+ G + L L G+++ G+ D+ V DT G + + Sbjct: 121 ILMHPGHMVDKTYEVKIKGHIADAVLQQLADGVLLSDGMTAPADVYYVGYDTHTGITS-L 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + EGKNR+++++ E F ++V+ L R+ Y L + G+ R ++++ + E Sbjct: 180 EITIHEGKNRQVRRMMEHFGYQVHNLRRVQYAFLTLSGVKRGAYRALTREEVME 233 >gi|220931567|ref|YP_002508475.1| ribosomal large subunit pseudouridine synthase B [Halothermothrix orenii H 168] gi|219992877|gb|ACL69480.1| ribosomal large subunit pseudouridine synthase B [Halothermothrix orenii H 168] Length = 237 Score = 136 bits (343), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 82/227 (36%), Positives = 128/227 (56%), Gaps = 2/227 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +A AG+ASRR+ E++I Q RVKVNG ++ + D +EVDG + K E+ Sbjct: 2 ERLQKYMAHAGVASRRKSEKIITQGRVKVNGKIVTELGTKIDPDKDIVEVDGRVISK-EK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G +T+ SDP GR TV + + R+ VGRLD +T GLL+LTNDG L Sbjct: 61 YVYILLNKPVGYITSVSDPHGRKTVTGLIKGVSQRIYPVGRLDYDTSGLLILTNDGELTY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 VL PS + YRV G + L L+ G+ ++ +V+ +K N + Sbjct: 121 VLTHPSHMVEKTYRVEVKGFPSDEVLKKLETGVKLKDGLTAPARVSAVKRKEKNTIFNLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+NR+++++ + + V L RI++GP L L G R +++K Sbjct: 181 IHEGRNRQVRRMCDKIGFPVVNLKRIAFGPLNLKGLKTGQYRFLTEK 227 >gi|304440267|ref|ZP_07400157.1| ribosomal large subunit pseudouridine synthase B [Peptoniphilus duerdenii ATCC BAA-1640] gi|304371316|gb|EFM24932.1| ribosomal large subunit pseudouridine synthase B [Peptoniphilus duerdenii ATCC BAA-1640] Length = 234 Score = 136 bits (343), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 126/230 (54%), Gaps = 2/230 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K +A AG+ASRR E +I RVKVNG ++ V D + D L+ Sbjct: 2 RLQKYLAHAGVASRRTSEELILNGRVKVNGEVVTELGYKVDPLKDKVYFDDKKLKLVREY 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KPIG+V+T D R TV D +P+ R+ +GRLDI+T GLL+LTNDG LA Sbjct: 62 TYVMINKPIGIVSTAKDEKNRKTVVDLVPN-DERIYPIGRLDIDTTGLLILTNDGELANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + +VY G + L+ L+ GI I G ++ + S++ V V + Sbjct: 121 LMHPRKEIDKVYIATVEGTPSKSGLDKLRNGITIDGYKLSKSEIKILKSYESDSIVRVTI 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 EG+NR++KK+FE V +L RIS+GP +L L G+ R ++ + ++E Sbjct: 181 HEGRNRQVKKMFERIGNPVKKLKRISFGPIELANLEIGAYRYLTNEEIKE 230 >gi|315646387|ref|ZP_07899505.1| pseudouridine synthase [Paenibacillus vortex V453] gi|315278030|gb|EFU41350.1| pseudouridine synthase [Paenibacillus vortex V453] Length = 251 Score = 136 bits (343), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 81/227 (35%), Positives = 130/227 (57%), Gaps = 4/227 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K++A+AG+ASRR+ E +I + +V+VNG + E + D I V G P++ ++ Sbjct: 2 ERLQKIMAQAGVASRRKCEELILEGKVQVNGETVTELGTKADPAQDMITVSGKPIKHEKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G++T+ SDP+GR V D L I RV +GRLD +TEGLLLLTNDG A Sbjct: 62 VYVML-NKPKGVITSASDPEGRKIVSDYLKGIKERVYPIGRLDYDTEGLLLLTNDGEFAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 +L P + Y G +L+ L++GI+++ +V N + ++ Sbjct: 121 LLSHPKYHVPKTYLATVKGVPHGTELDKLRQGIMLEDGMTSPAEVEYKDVDPDNKQSVIS 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE + V RL RISYG L L G R ++ Sbjct: 181 ITIHEGRNRQVRRMFEAISHPVLRLKRISYGDLLLQNLKRGLYRHLT 227 >gi|88859932|ref|ZP_01134571.1| pseudouridine synthase [Pseudoalteromonas tunicata D2] gi|88817926|gb|EAR27742.1| pseudouridine synthase [Pseudoalteromonas tunicata D2] Length = 293 Score = 136 bits (343), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 89/221 (40%), Positives = 128/221 (57%), Gaps = 6/221 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E+ I RV V+G + R V I +DG V + + E Sbjct: 3 EKLQKVLARAGKGSRREIEKFIEAHRVSVDGNVA-RLGDRVEPHQLIRLDGHIVKIEEPE 61 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R+ +YHKP G + T DP+GR TVFD L + R I+VGRLD+NT GLLL TNDG Sbjct: 62 ERVCRVLMYHKPEGELCTRKDPEGRPTVFDRLMRLDDDRWIAVGRLDVNTSGLLLFTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + R Y VR G+V + L L KG+ ++ +++ +G N W Sbjct: 122 ELANRLMHPRYEVEREYAVRVFGEVTTETLKTLTKGVELEDGPAKFLKIMPHGGEGINKW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V L EG+NRE++++++ +V+RLIR+ YG +L L Sbjct: 182 YNVLLTEGRNREVRRLWQSQGVEVSRLIRVRYGDLELNKRL 222 >gi|329915247|ref|ZP_08276235.1| Ribosomal large subunit pseudouridine synthase B [Oxalobacteraceae bacterium IMCC9480] gi|327544952|gb|EGF30293.1| Ribosomal large subunit pseudouridine synthase B [Oxalobacteraceae bacterium IMCC9480] Length = 621 Score = 136 bits (343), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 80/224 (35%), Positives = 129/224 (57%), Gaps = 10/224 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 +++ ++ P ++ KV+A AG+ SRR++E +I RV VNG E A + +++ D + Sbjct: 198 RDLTADDDAP-KLHKVLAEAGLGSRRDMEELIISGRVSVNG---EPAHIGQRILAQDQVR 253 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G +++ + R+ +YHKP G + +H DPDGR +VF+ LP++ + ++VGRLD N Sbjct: 254 INGKLIQRRVSKKPPRVLVYHKPAGEIVSHDDPDGRPSVFERLPNMKAGKWLAVGRLDFN 313 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLL T G LA L P R Y VR G++++ L G+ + +V Sbjct: 314 TEGLLLFTTSGDLANRLMHPRYNIDREYAVRTLGELEEGMRQKLLAGVELDDGVAQFSRV 373 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 +G N W V + EG+NRE++++FE V+RLIR YG Sbjct: 374 ADGGGEGVNKWYRVTIGEGRNREVRRMFEAIGLTVSRLIRTRYG 417 >gi|259500661|ref|ZP_05743563.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus iners DSM 13335] gi|302191350|ref|ZP_07267604.1| 16S rRNA uridine-516 pseudouridylate synthase related enzyme [Lactobacillus iners AB-1] gi|312871408|ref|ZP_07731503.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LEAF 3008A-a] gi|315653504|ref|ZP_07906425.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus iners ATCC 55195] gi|259168045|gb|EEW52540.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus iners DSM 13335] gi|311093061|gb|EFQ51410.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LEAF 3008A-a] gi|315489195|gb|EFU78836.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus iners ATCC 55195] Length = 239 Score = 136 bits (343), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 87/225 (38%), Positives = 125/225 (55%), Gaps = 3/225 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA AGIASRR+ E +I +V VNG L+ V D IEV+GVP+ K E+ Sbjct: 4 RLQKVIAEAGIASRRKAEILITSGQVTVNGNLVTTLGTKVDDNDKIEVNGVPIHK-EQLH 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP +V+T SD GR TV D + R+ VGRLD +T GLLL+TNDG LA L Sbjct: 63 TYLLYKPRNVVSTVSDNKGRKTVTDFFKDLPYRLYPVGRLDYDTSGLLLMTNDGELANRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSN-AWVTVG 192 P + +VY + G + ++ LK G+ I G +V + T K N V + Sbjct: 123 MHPKNEIEKVYVAKISGFLTASEIYDLKHGVTIDGRKTAPAKVKIIKTDKNRNIQLVQLT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG ++K +F+ N V++L R Y L +L++G RE++ Sbjct: 183 IHEGHYHQVKNMFKAVNHLVDKLSRERYAFLTLKSLISGEYRELT 227 >gi|289550733|ref|YP_003471637.1| Ribosomal large subunit pseudouridine synthase B [Staphylococcus lugdunensis HKU09-01] gi|289180265|gb|ADC87510.1| Ribosomal large subunit pseudouridine synthase B [Staphylococcus lugdunensis HKU09-01] Length = 245 Score = 136 bits (342), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 76/236 (32%), Positives = 135/236 (57%), Gaps = 6/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +VKVNG ++ V +D +EV+G+ + + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLITEGKVKVNGEVVTELGTKVKPSDQVEVEGIKMEQEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+HKP ++T+ SD GR+ V D + +R+ VGRLD +T G+LLLTNDG + Sbjct: 66 YI-LFHKPAQVITSVSDDRGRTVVTDYFKDLDTRIYPVGRLDYDTSGVLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQKGSNAWVTV 191 + P + Y + G + ++++ L+ GI ++ G+ +++ + + V + Sbjct: 125 MTHPRYHIPKTYVAKLKGYLMREEVKALEAGIELEDGLTQPATVKIKRQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQ 244 + EG+NR+++++FE F VN+L RI +G L L AG R ++ K+LR Q Sbjct: 185 TISEGRNRQVRRMFEHFGHSVNKLTRIQFGSLNLKGLNAGEGRVLTPHEVKVLRHQ 240 >gi|258515325|ref|YP_003191547.1| pseudouridine synthase [Desulfotomaculum acetoxidans DSM 771] gi|257779030|gb|ACV62924.1| pseudouridine synthase [Desulfotomaculum acetoxidans DSM 771] Length = 264 Score = 136 bits (342), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 89/235 (37%), Positives = 126/235 (53%), Gaps = 1/235 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLR 68 N +R+ KV+ARAGIASRR+ E +IA+ VKVNG L++ + V D I V G + Sbjct: 8 NVQKERLQKVMARAGIASRRKCEELIAEGVVKVNGRLVKEQGIKVDPQKDRIMVQGKIIN 67 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + E L +KP G VTT DP+GR T+ D L +I RV VGRLD ++EGLLL+TNDG Sbjct: 68 RLEDKIYLLMYKPRGYVTTLHDPEGRKTIVDLLKNIKERVFPVGRLDYDSEGLLLVTNDG 127 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + + Y V G L + KG+ ++ QV L + Sbjct: 128 ELANALTHPRHEVKKTYLVTVAGIPLPKSLEQMSKGLELEDGMTAPTQVALVELLEDRSL 187 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + + EGKNR ++++ E V RL RI G + + G R ++ K +RE Sbjct: 188 LEITVHEGKNRLVRRMCEKIGHPVLRLKRIKLGTLSIKGVKPGQYRLLNTKEIRE 242 >gi|324018876|gb|EGB88095.1| hypothetical protein HMPREF9542_02380 [Escherichia coli MS 117-3] Length = 277 Score = 136 bits (342), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 84/206 (40%), Positives = 119/206 (57%), Gaps = 6/206 (2%) Query: 26 ASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKAER--TRLWLYHK 80 A RRE+E +I RV V+G + + V V I +DG + +R++ R+ Y+K Sbjct: 2 APRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRESAEQICRVLAYYK 61 Query: 81 PIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARVLELPST 139 P G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T DG LA L PS Sbjct: 62 PEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSR 121 Query: 140 QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNR 199 + R Y VR GQVD KL L +G+ ++ + +G N W V L EG+NR Sbjct: 122 EVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQWYNVTLTEGRNR 181 Query: 200 EIKKVFEFFNWKVNRLIRISYGPFQL 225 E+++++E +V+RLIR+ YG L Sbjct: 182 EVRRLWEAVGVQVSRLIRVRYGDIPL 207 >gi|256851006|ref|ZP_05556395.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 27-2-CHN] gi|260661218|ref|ZP_05862132.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 115-3-CHN] gi|282932041|ref|ZP_06337499.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 208-1] gi|256616068|gb|EEU21256.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 27-2-CHN] gi|260548155|gb|EEX24131.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 115-3-CHN] gi|281303808|gb|EFA95952.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 208-1] Length = 237 Score = 136 bits (342), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 82/229 (35%), Positives = 134/229 (58%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA+AG+ASRR+ E+MI + RV VNG ++ V + +IEVDG+P++K E Sbjct: 3 ERLQKLIAQAGVASRRKAEKMITEGRVAVNGRIVTELGTKVEPSANIEVDGLPIQK-ESK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ D GR TV D R+ VGRLD +T GLLL+TNDG LA Sbjct: 62 HTYLLYKPRGVISSVKDDKGRKTVLDFFEESPYRLYPVGRLDYDTSGLLLITNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQKGSNAWVT 190 L P +VY + G + ++++ LK G+ I G +V + + +KG+ + V Sbjct: 122 LMHPRHMVDKVYVAKIKGFLTPEEIHSLKHGVRIDGKKSAPAKVKIISTNREKGT-SIVQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG ++K++F+ V++L R Y L +L AG RE++++ Sbjct: 181 LTIHEGHYHQVKRMFKAVGHLVDKLSRERYAFLTLKSLTAGKYRELTRE 229 >gi|120610106|ref|YP_969784.1| ribosomal large subunit pseudouridine synthase B [Acidovorax citrulli AAC00-1] gi|120588570|gb|ABM32010.1| ribosomal large subunit pseudouridine synthase B [Acidovorax citrulli AAC00-1] Length = 483 Score = 136 bits (342), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 84/217 (38%), Positives = 120/217 (55%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR---K 69 ++ KV+A+AG+ SR E+E++I + R+ VN E A + V D ++V+G P+R Sbjct: 150 KLHKVLAQAGLGSRLEMEQLILEGRISVNN---EPAHIGQRVQYGDQVKVNGRPIRYRID 206 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP+G V TH DP R TVF LP + + SVGRLD+NTEGLLL T+ G Sbjct: 207 PPAPRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLAHGKWQSVGRLDLNTEGLLLFTSAG 266 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P R Y VR G + ++ L G+ ++ + +GSN W Sbjct: 267 ELANKLMHPRFGLEREYAVRVLGALSNEEKQRLLDGVQLEDGMAAFGSIEDGGGEGSNCW 326 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE++++ E V+RLIRI YG L Sbjct: 327 YRVTISEGRNREVRRMLESVGHAVSRLIRIRYGSMML 363 >gi|254506983|ref|ZP_05119121.1| ribosomal large subunit pseudouridine synthase B [Vibrio parahaemolyticus 16] gi|219549978|gb|EED26965.1| ribosomal large subunit pseudouridine synthase B [Vibrio parahaemolyticus 16] Length = 322 Score = 136 bits (342), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 88/217 (40%), Positives = 120/217 (55%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E +I RV VNG++ + + +DG V + E Sbjct: 3 EKLQKVLARAGHGSRRELEALIKAGRVSVNGVVAKLGERLEDENAIVRIDGHTVSAKAQE 62 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V + K+ L +G+ ++ V G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVTEQKVKNLVRGVELEDGMARFEDVVYAGGDGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE+++++E V+RL R+ YG L Sbjct: 183 FYVAINEGRNREVRRLWESQETTVSRLKRVRYGDIYL 219 >gi|104773906|ref|YP_618886.1| pseudouridylate synthase [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] gi|116513914|ref|YP_812820.1| 16S rRNA uridine-516 pseudouridylate synthase related enzyme [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] gi|103422987|emb|CAI97669.1| Pseudouridylate synthase [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] gi|116093229|gb|ABJ58382.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] gi|325125580|gb|ADY84910.1| Ribosomal large subunit pseudouridine synthase B [Lactobacillus delbrueckii subsp. bulgaricus 2038] Length = 239 Score = 136 bits (342), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 128/228 (56%), Gaps = 3/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRRE E+MI RV+V+G ++ + V S + + VD P+ + E Sbjct: 4 ERLQKVIAQAGIASRREAEKMILAGRVRVDGQVVTKLGTKVSSIEQVVVDNQPIER-ESH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+++ D GR TV D + R+ VGRLD +T GLLL+TNDG LA + Sbjct: 63 HTYLFYKPRGVISAVKDNKGRKTVADYFTDLPYRLYPVGRLDYDTSGLLLMTNDGELANL 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQ-KGSNAWVTV 191 L P + +VY + G + D++ LKKG+ I QV L T + V + Sbjct: 123 LMHPRNEVDKVYVAKIKGILQPDEIKALKKGVQIGRYKTKPAQVKVLKTNPRAQTQIVQL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG ++K++F+ N V++L R Y L L +G RE++ K Sbjct: 183 TIHEGHYHQVKEMFKAVNHLVDKLSRERYSFLDLQGLTSGQYRELNHK 230 >gi|269959632|ref|ZP_06174012.1| pseudouridine synthase family 1 protein [Vibrio harveyi 1DA3] gi|269835555|gb|EEZ89634.1| pseudouridine synthase family 1 protein [Vibrio harveyi 1DA3] Length = 312 Score = 136 bits (342), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 89/217 (41%), Positives = 121/217 (55%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E +I RV VNGI+ + + +DG V + E Sbjct: 3 EKLQKVLARAGHGSRREIESLIKSGRVSVNGIVAKLGERLEDENSVVRIDGHIVSAKAQE 62 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V++ K+ L G+ ++ V +G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVNEKKVRNLVSGVELEDGMARFEDVVHAGGEGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE+++++E V+RL R+ YG L Sbjct: 183 FYVVINEGRNREVRRLWESQECTVSRLKRVRYGDIFL 219 >gi|188586260|ref|YP_001917805.1| pseudouridine synthase [Natranaerobius thermophilus JW/NM-WN-LF] gi|179350947|gb|ACB85217.1| pseudouridine synthase [Natranaerobius thermophilus JW/NM-WN-LF] Length = 238 Score = 136 bits (342), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 87/226 (38%), Positives = 126/226 (55%), Gaps = 6/226 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K ++RAGIASRR+ E +I Q RV VNG ++ R + TD ++VDG P+ + E Sbjct: 2 RLQKFMSRAGIASRRKSEELIQQGRVTVNGQVITRLGTKINPDTDTVKVDGEPITQEESN 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP +T+ DP GR TV D L + RV VGRLD ++ GL+LLTNDG LA Sbjct: 62 VYIMLNKPKDYITSKDDPQGRKTVMD-LIQVKERVYPVGRLDYDSRGLVLLTNDGELANR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V+ QDKL+ L GI + +G+C D LDT+ N + + Sbjct: 121 LMHPKYNIPKTYMVKVDKLPLQDKLDNLVNGIYLEEGLCKADHVEILDTK---NNILKII 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L EG+ R+I+++ +V L R S G L L G+ R+++K Sbjct: 178 LSEGRKRQIRRMLASLGIEVKDLKRDSLGTLTLKDLSEGNYRKLTK 223 >gi|195978740|ref|YP_002123984.1| ribosomal large subunit pseudouridine synthase B RluB [Streptococcus equi subsp. zooepidemicus MGCS10565] gi|195975445|gb|ACG62971.1| ribosomal large subunit pseudouridine synthase B RluB [Streptococcus equi subsp. zooepidemicus MGCS10565] Length = 266 Score = 136 bits (342), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 83/230 (36%), Positives = 130/230 (56%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I + V +NG ++ A V S D +E++G P+ E+ Sbjct: 28 RINKYIAHAGVASRRKAEELIKRGLVTLNGQVVTDLATTVKSGDLVEIEGSPIYNEEKV- 86 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLL+LTNDG + Sbjct: 87 YYLLNKPRGVISSVSDDKGRQTVIDLLPQVKERIYPVGRLDWDTSGLLILTNDGDFTDKM 146 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G V ++ L L +G+VI G Y ++V D + + V Sbjct: 147 IHPRNEIDKVYLARVKGVVTKESLRPLTRGVVIDGKKTKPARYRIIRVEPDKNR---SIV 203 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG++ ++KK+FE V++L R +G + L G R +SKK Sbjct: 204 ELTIHEGRHHQVKKMFEAVGHLVDKLSRTQFGSLDVRGLKPGEARRLSKK 253 >gi|323497601|ref|ZP_08102618.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio sinaloensis DSM 21326] gi|323317350|gb|EGA70344.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio sinaloensis DSM 21326] Length = 321 Score = 136 bits (342), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 89/217 (41%), Positives = 119/217 (54%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E +I RV VNGI+ + + +DG V + E Sbjct: 3 EKLQKVLARAGHGSRRELEALIKAGRVSVNGIVAKLGERLEDENAVVRIDGHTVSAKAQE 62 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G V + K+ L +G+ ++ V G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGDVTEQKVKNLVRGVELEDGMARFEDVVYAGGDGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE+++++E V+RL R+ YG L Sbjct: 183 FYVAINEGRNREVRRLWESQETTVSRLKRVRYGDIYL 219 >gi|326316275|ref|YP_004233947.1| pseudouridine synthase Rsu [Acidovorax avenae subsp. avenae ATCC 19860] gi|323373111|gb|ADX45380.1| pseudouridine synthase Rsu [Acidovorax avenae subsp. avenae ATCC 19860] Length = 485 Score = 136 bits (342), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 84/217 (38%), Positives = 120/217 (55%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR---K 69 ++ KV+A+AG+ SR E+E++I + R+ VN E A + V D ++V+G P+R Sbjct: 152 KLHKVLAQAGLGSRLEMEQLILEGRISVNN---EPAHIGQRVQYGDQVKVNGRPIRYRID 208 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP+G V TH DP R TVF LP + + SVGRLD+NTEGLLL T+ G Sbjct: 209 PPAPRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLAHGKWQSVGRLDLNTEGLLLFTSAG 268 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P R Y VR G + ++ L G+ ++ + +GSN W Sbjct: 269 ELANKLMHPRFGLEREYAVRVLGALSNEEKQRLLDGVQLEDGMAAFGSIEDGGGEGSNCW 328 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE++++ E V+RLIRI YG L Sbjct: 329 YRVTISEGRNREVRRMLESVGHAVSRLIRIRYGSMML 365 >gi|312898944|ref|ZP_07758332.1| conserved hypothetical protein [Megasphaera micronuciformis F0359] gi|310620106|gb|EFQ03678.1| conserved hypothetical protein [Megasphaera micronuciformis F0359] Length = 231 Score = 136 bits (342), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 80/223 (35%), Positives = 132/223 (59%), Gaps = 4/223 (1%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLWLY 78 ++ G+ASRR E MIA RV+VNG++++ V V + D I VDG L K + + +L+ Sbjct: 1 MSNCGVASRRASEEMIAAGRVRVNGVIVKTPGVKVDLQKDIIVVDGKRLEKPAK-QYYLF 59 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS 138 +KP G++TT D R+TV D ++ R+ VGRLD NTEGLL++TNDG LA +L PS Sbjct: 60 NKPKGVLTTVKDDRERNTVMDYFKNVKDRIYPVGRLDQNTEGLLIMTNDGALANILMHPS 119 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN-AWVTVGLREG 196 + Y VR G++ L L +G+ ++ G+ + V + +N V + + EG Sbjct: 120 KLVDKTYNVRIKGRITDAVLEKLAQGVPLKDGMTAPAVVVYVGYDGATNITEVEITIHEG 179 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +NR+++++FE+F ++V+ L R Y L + G+ R ++++ Sbjct: 180 RNRQVRRMFEYFGFQVHNLRRTQYAFLTLSGVKRGAYRRLTRE 222 >gi|317057433|ref|YP_004105900.1| pseudouridine synthase [Ruminococcus albus 7] gi|315449702|gb|ADU23266.1| pseudouridine synthase [Ruminococcus albus 7] Length = 244 Score = 136 bits (342), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 88/231 (38%), Positives = 123/231 (53%), Gaps = 4/231 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K+I+ +G SRR+ E IA +V VNG + D I VDG+ + + + Sbjct: 5 RIQKIISESGFCSRRKAEEFIAAGKVTVNGRPCTLGDKALPGKDLIVVDGIKIDQPRKRT 64 Query: 75 LW--LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + HKP G VTT +D R V D L + RV VGRLD N+EGLLLLTNDG A Sbjct: 65 LYYIMLHKPRGYVTTMNDELDRKCVTDLLTGLPERVYPVGRLDKNSEGLLLLTNDGAFAN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKGSNAWVTV 191 + PS + YRV ++ ++L L G+ I G + VT LD Q G + + Sbjct: 125 DIMHPSKHVNKTYRVTVRPDINDEQLVKLASGVEIDGRMTSECSVTVLDKQPG-RVVLQM 183 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+I+K+ E +V RL R + GP +LG L G RE+ LR Sbjct: 184 TIHEGRNRQIRKMCEAVGLEVARLKRTAIGPLRLGMLKPGEYRELKPDELR 234 >gi|325134403|gb|EGC57048.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis M13399] gi|325142531|gb|EGC64931.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis 961-5945] gi|325198505|gb|ADY93961.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis G2136] gi|325200018|gb|ADY95473.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis H44/76] Length = 256 Score = 135 bits (341), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 80/218 (36%), Positives = 130/218 (59%), Gaps = 6/218 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKA 70 P+R+ KV+A +G+ SRRE+E I + VNG + V DH+ V G + L+ A Sbjct: 3 PERLQKVLAASGVGSRREMEEWITNGWITVNGKTAQLGD-KVTPDDHVTVKGSIIKLKWA 61 Query: 71 ER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDG 128 +R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT G Sbjct: 62 DRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTTSG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNA 187 L + PS + R Y VR G + +++ +L ++G++++ ++ +G+N Sbjct: 122 ELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGANK 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V ++EG+NRE++++FE V+RL+RI +GP L Sbjct: 182 WYNVVIKEGRNREVRRIFESQGLTVSRLVRIGFGPIGL 219 >gi|312277674|gb|ADQ62331.1| Pseudouridine synthase [Streptococcus thermophilus ND03] Length = 255 Score = 135 bits (341), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 131/230 (56%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I + RV +NG + A V + D +EV+G P+ E+ Sbjct: 16 RINKYIAHAGVASRRKAEELIKEGRVTLNGKTVMELATIVKNGDIVEVNGSPIYNEEKV- 74 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD R TV D +P + R+ VGRLD +T GLL+LTNDG + Sbjct: 75 YYLLNKPRGVISSVSDEKNRKTVIDLMPHVKERIYPVGRLDWDTTGLLILTNDGDFTDKM 134 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++ L L +G+VI G Y ++V D +K + + V Sbjct: 135 IHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTQPAHYNIIKV--DHEK-NRSVV 191 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G L L G +R +SKK Sbjct: 192 ELTIHEGRNHQVKKMFESVGLIVDKLSRTRFGTLDLTGLRPGESRRLSKK 241 >gi|312883597|ref|ZP_07743322.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio caribbenthicus ATCC BAA-2122] gi|309368820|gb|EFP96347.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio caribbenthicus ATCC BAA-2122] Length = 311 Score = 135 bits (341), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 88/217 (40%), Positives = 120/217 (55%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E +I RV VNG++ + +DG V + E Sbjct: 3 EKLQKVLARAGHGSRRELEALIKAGRVSVNGVVARLGERLEDENAVVRIDGHIVSAKAQE 62 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V + K+ L +G+ ++ V G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVTEQKVKNLVRGVELEDGLARFEDVVYAGGDGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE+++++E + V+RL R+ YG L Sbjct: 183 FYVAINEGRNREVRRLWESQDTTVSRLKRVRYGDIYL 219 >gi|15614139|ref|NP_242442.1| pseudouridylate synthase [Bacillus halodurans C-125] gi|10174193|dbj|BAB05295.1| pseudouridylate synthase [Bacillus halodurans C-125] Length = 242 Score = 135 bits (341), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 84/224 (37%), Positives = 131/224 (58%), Gaps = 5/224 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KVIA+AGIASRR+ E++I + +VKVNG +++ + V + D IEV+GVP+ K E Sbjct: 2 ERLQKVIAQAGIASRRKAEQLILEGKVKVNGQVVKELGIKVNPNQDDIEVEGVPVEKEEP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY KP G++++ D GR V D L I RV VGRLD +T GLLLLTNDG A Sbjct: 62 VYFLLY-KPTGVISSVKDDKGRKVVTDFL-EIEQRVYPVGRLDYDTSGLLLLTNDGEFAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 +L P + +VY + G +D+L LL +G+ ++ +V + + ++ A V Sbjct: 120 LLMHPRHKIEKVYVAKVKGIPTRDQLKLLARGVKLEDGPTAPAKVKMLSVDRRKQTAIVK 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + EG+NR+++++FE +V +L R + L + G R Sbjct: 180 LTIHEGRNRQVRRMFETIGCEVMKLKREQFAFLDLSGMNPGDVR 223 >gi|297205889|ref|ZP_06923284.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii JV-V16] gi|297149015|gb|EFH29313.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii JV-V16] Length = 237 Score = 135 bits (341), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 83/229 (36%), Positives = 133/229 (58%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA+AGIASRR+ E+MI + RV VNG ++ V + +IEVDG+P++K E Sbjct: 3 ERLQKLIAQAGIASRRKAEKMITEGRVAVNGRIVTELGTKVEPSANIEVDGLPIQK-ESK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ D GR TV D R+ VGRLD +T GLLL+TNDG LA Sbjct: 62 HTYLLYKPRGVISSVKDDKGRKTVLDFFEESPYRLYPVGRLDYDTSGLLLITNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQKGSNAWVT 190 L P +VY + G + +++ LK G+ I G +V + + +KG+ + V Sbjct: 122 LMHPRHMVDKVYVAKIKGFLTPEEIYSLKHGVRIDGKKSAPAKVKIISTNREKGT-SIVQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG ++K++F+ V++L R Y L +L AG RE++++ Sbjct: 181 LTIHEGHYHQVKRMFKAVGHLVDKLSRERYAFLTLKSLTAGKYRELTRE 229 >gi|309805712|ref|ZP_07699752.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LactinV 09V1-c] gi|309809248|ref|ZP_07703117.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners SPIN 2503V10-D] gi|312872332|ref|ZP_07732402.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LEAF 2062A-h1] gi|312873963|ref|ZP_07733999.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LEAF 2052A-d] gi|308164965|gb|EFO67208.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LactinV 09V1-c] gi|308170361|gb|EFO72385.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners SPIN 2503V10-D] gi|311090512|gb|EFQ48920.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LEAF 2052A-d] gi|311092155|gb|EFQ50529.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LEAF 2062A-h1] Length = 239 Score = 135 bits (341), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 87/225 (38%), Positives = 124/225 (55%), Gaps = 3/225 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA AGIASRR+ E +I +V VNG L+ V D IEV+GVP+ K E+ Sbjct: 4 RLQKVIAEAGIASRRKAEILITSGQVTVNGNLVTTLGTKVDDNDKIEVNGVPIHK-EQLH 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP +V+T SD GR TV D + R+ VGRLD +T GLLL+TNDG LA L Sbjct: 63 TYLLYKPRNVVSTVSDNKGRKTVTDFFKDLPYRLYPVGRLDYDTSGLLLMTNDGELANRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSN-AWVTVG 192 P + +VY + G + ++ LK G+ I G +V + T K N V + Sbjct: 123 MHPKNEIEKVYVAKIRGFLTASEIYDLKHGVTIDGRKTAPAKVKIIKTDKNRNIQLVQLT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG ++K +F+ N V +L R Y L +L++G RE++ Sbjct: 183 IHEGHYHQVKNMFKAVNHLVEKLSRERYAFLTLKSLISGEYRELT 227 >gi|309807073|ref|ZP_07701052.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LactinV 03V1-b] gi|308166503|gb|EFO68703.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LactinV 03V1-b] Length = 239 Score = 135 bits (341), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 87/225 (38%), Positives = 124/225 (55%), Gaps = 3/225 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA AGIASRR+ E +I +V VNG L+ V D IEV+GVP+ K E+ Sbjct: 4 RLQKVIAEAGIASRRKAEILITSGQVTVNGDLVTTLGTKVDDNDKIEVNGVPIHK-EQLH 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP +V+T SD GR TV D + R+ VGRLD +T GLLL+TNDG LA L Sbjct: 63 TYLLYKPRNVVSTVSDNKGRKTVTDFFKDLPYRLYPVGRLDYDTSGLLLMTNDGELANRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSN-AWVTVG 192 P + +VY + G + ++ LK G+ I G +V + T K N V + Sbjct: 123 MHPKNEIEKVYVAKIRGFLTASEIYDLKHGVTIDGRKTAPAKVKIIKTDKNRNIQLVQLT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG ++K +F+ N V +L R Y L +L++G RE++ Sbjct: 183 IHEGHYHQVKNMFKAVNHLVEKLSRERYAFLTLKSLISGEYRELT 227 >gi|309807638|ref|ZP_07701581.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LactinV 01V1-a] gi|312875457|ref|ZP_07735460.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LEAF 2053A-b] gi|325911995|ref|ZP_08174397.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners UPII 143-D] gi|325912892|ref|ZP_08175270.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners UPII 60-B] gi|329921334|ref|ZP_08277772.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners SPIN 1401G] gi|308169119|gb|EFO71194.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LactinV 01V1-a] gi|311088968|gb|EFQ47409.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LEAF 2053A-b] gi|325476180|gb|EGC79344.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners UPII 143-D] gi|325477885|gb|EGC81019.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners UPII 60-B] gi|328934626|gb|EGG31130.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners SPIN 1401G] Length = 239 Score = 135 bits (341), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 87/225 (38%), Positives = 124/225 (55%), Gaps = 3/225 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA AGIASRR+ E +I +V VNG L+ V D IEV+GVP+ K E+ Sbjct: 4 RLQKVIAEAGIASRRKAEILITSGQVTVNGNLVTTLGTKVDDNDKIEVNGVPIHK-EQLH 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP +V+T SD GR TV D + R+ VGRLD +T GLLL+TNDG LA L Sbjct: 63 TYLLYKPRNVVSTVSDNKGRKTVTDFFKDLPYRLYPVGRLDYDTSGLLLMTNDGELANRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSN-AWVTVG 192 P + +VY + G + ++ LK G+ I G +V + T K N V + Sbjct: 123 MHPKNEIEKVYVAKISGFLTASEIYDLKHGVTIDGRKTAPAKVKIIKTDKNRNIQLVQLT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG ++K +F+ N V +L R Y L +L++G RE++ Sbjct: 183 IHEGHYHQVKNMFKAVNHLVEKLSRERYAFLTLKSLISGEYRELT 227 >gi|242279370|ref|YP_002991499.1| RNA-binding S4 domain protein [Desulfovibrio salexigens DSM 2638] gi|242122264|gb|ACS79960.1| RNA-binding S4 domain protein [Desulfovibrio salexigens DSM 2638] Length = 251 Score = 135 bits (341), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 86/237 (36%), Positives = 134/237 (56%), Gaps = 7/237 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKA 70 T R++K IA AGIASRR + ++ + +VKVNG L + + V D +EV+G ++ Sbjct: 5 TTIRLNKYIASAGIASRRGADELVQKGKVKVNGELADSPGIQVDPDNDRVEVNGKLVQHD 64 Query: 71 ERTR--LWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTN 126 E+++ L HK I VTT DP GR TV D LP I RV VGRLD +EG+LLLT Sbjct: 65 EKSKDLYILLHKTIETVTTAKDPQGRKTVLDLLPPDVINRRVFPVGRLDFYSEGMLLLTT 124 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKG 184 DG L + P ++Y V G++ + +L++++ G+ ++ G +++ ++ G Sbjct: 125 DGELCNRMTHPKWHLPKIYHVTIRGKLSEKELSVMQNGMYLEDKGELLAPVKIKAISEVG 184 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + LR+G NR+I+++F F+ + RL R+ G +LG L G RE+S K L Sbjct: 185 ETTKYEMELRQGINRQIRRMFGEFDKTILRLKRVRQGRIELGALKPGKWRELSAKEL 241 >gi|322373877|ref|ZP_08048412.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. C150] gi|321277249|gb|EFX54319.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. C150] Length = 241 Score = 135 bits (341), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 82/228 (35%), Positives = 130/228 (57%), Gaps = 5/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I + RV +NG + A V + D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKEGRVTLNGKTVTELATIVKNGDTVEVNGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD R TV D +P + R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDEKDRKTVIDLMPHVKERIYPVGRLDWDTTGLLILTNDGDFTDKM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVTV 191 P + +VY R G ++ L L +G+VI G + V +D +K + + V + Sbjct: 121 IHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIVKVDHEK-NRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+FE V++L R +G L L G +R ++KK Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLDLTGLRPGESRRLNKK 227 >gi|94263642|ref|ZP_01287451.1| Pseudouridine synthase, Rsu [delta proteobacterium MLMS-1] gi|93455947|gb|EAT06102.1| Pseudouridine synthase, Rsu [delta proteobacterium MLMS-1] Length = 240 Score = 135 bits (341), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 86/228 (37%), Positives = 118/228 (51%), Gaps = 1/228 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRK 69 TP+R+ KV+ARAG+ SRR E IA RV V+G + + V I DG PLR Sbjct: 1 MTPERLQKVLARAGVGSRRRAEEFIAAGRVTVDGRRVTEMGLRVDPEKQAITFDGRPLRL 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L +KP G VTT +DP GR V L R+ VGRLD +TEG LLLTNDG Sbjct: 61 PENKVTVLLNKPAGYVTTMADPQGRPMVGSLLKEPGLRLFPVGRLDFDTEGALLLTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PS + R Y+ G L L++GI ++G V ++G + Sbjct: 121 LAHRLLHPSFEIKRTYQATVEGTPGAQALRALRQGIELEGRRTHPAMVKTLRRRGEQTVL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+ R+++K+ V L R++YG +LG L GS R ++ Sbjct: 181 EIIIHEGRKRQVRKMLAAVGHPVLHLKRVAYGDLRLGRLPLGSYRRLN 228 >gi|121535833|ref|ZP_01667633.1| pseudouridine synthase [Thermosinus carboxydivorans Nor1] gi|121305605|gb|EAX46547.1| pseudouridine synthase [Thermosinus carboxydivorans Nor1] Length = 241 Score = 135 bits (341), Expect = 8e-30, Method: Compositional matrix adjust. Identities = 89/229 (38%), Positives = 125/229 (54%), Gaps = 6/229 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAE 71 P+R+ K++++AGIASRR E++I RV VNG I+ E A D + VDG P+ AE Sbjct: 2 PERLQKILSQAGIASRRAAEKLILDGRVAVNGKIITELGAKVDWPRDRVTVDGKPI-AAE 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP G++T+ DP GR TV D L + RV VGRLD NTEGLLLLTNDG L Sbjct: 61 APVYILLNKPKGVITSLKDPRGRKTVIDLLKDVPERVYPVGRLDYNTEGLLLLTNDGDLT 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQKGSNAW 188 L PS + + Y + G ++++L+ L+ GI + V L D K A Sbjct: 121 HALTHPSHEIKKTYVSKIAGLPNEEQLDRLRAGIKLSDGMTSPAAVRLLDFDPVK-QVAV 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V + + EG+NR+++++FE V L R Y L L G R ++ Sbjct: 180 VEITIHEGRNRQVRRMFEAIGHPVKSLKRTKYAFLTLTGLKRGEYRRLT 228 >gi|283769102|ref|ZP_06342007.1| pseudouridylate synthase [Bulleidia extructa W1219] gi|283104288|gb|EFC05666.1| pseudouridylate synthase [Bulleidia extructa W1219] Length = 242 Score = 135 bits (341), Expect = 8e-30, Method: Compositional matrix adjust. Identities = 86/227 (37%), Positives = 135/227 (59%), Gaps = 3/227 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ KVIA+AGIASRR+ E +IAQ +VKVNG +++ V V D I V+G ++K E+ Sbjct: 2 QRLQKVIAQAGIASRRKAEELIAQGKVKVNGKVVKEMGVQVSFDDEIMVNGQSIQKEEKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP +++T D R+T+ D + R+ VGRLD T GLLL+TNDG A Sbjct: 62 -YFLLNKPKKMISTVHDDLKRATIMDCFRDVKQRIFPVGRLDYETTGLLLVTNDGEFANA 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQKGSNAWVTV 191 + PS ++Y V +G ++ L LKKGI ++ G+ ++V ++K + + + Sbjct: 121 MMHPSHHMDKIYEVYVNGYLEDHMLTKLKKGIPLEDGMTLPASVEVLERSRKTNKTRIRL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 ++EGKNRE++++ +F ++V+ L RI Y LG L G R + K Sbjct: 181 TIQEGKNREVRRMMAYFGFEVHTLQRIGYSFLNLGNLRQGEYRRLKK 227 >gi|94267153|ref|ZP_01290785.1| Pseudouridine synthase, Rsu [delta proteobacterium MLMS-1] gi|93452121|gb|EAT02795.1| Pseudouridine synthase, Rsu [delta proteobacterium MLMS-1] Length = 240 Score = 135 bits (341), Expect = 8e-30, Method: Compositional matrix adjust. Identities = 86/228 (37%), Positives = 118/228 (51%), Gaps = 1/228 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRK 69 TP+R+ KV+ARAG+ SRR E IA RV V+G + + V I DG PLR Sbjct: 1 MTPERLQKVLARAGVGSRRRAEEFIAAGRVTVDGRRVTEMGLRVDPEKQAITFDGRPLRF 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L +KP G VTT +DP GR V L R+ VGRLD +TEG LLLTNDG Sbjct: 61 PENKVTVLLNKPAGYVTTMADPQGRPMVGSLLKEPGLRLFPVGRLDFDTEGALLLTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PS + R Y+ G L L++GI ++G V ++G + Sbjct: 121 LAHRLLHPSFEIKRTYQATVEGTPGAQALRALRQGIELEGRRTHPAMVKTLRRRGEQTVL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+ R+++K+ V L R++YG +LG L GS R ++ Sbjct: 181 EIIIHEGRKRQVRKMLAAVGHPVLHLKRVAYGDLRLGRLPLGSYRRLN 228 >gi|52786201|ref|YP_092030.1| RluB [Bacillus licheniformis ATCC 14580] gi|163119522|ref|YP_079621.2| pseudouridine synthase [Bacillus licheniformis ATCC 14580] gi|319645211|ref|ZP_07999444.1| pseudouridine synthase [Bacillus sp. BT1B_CT2] gi|52348703|gb|AAU41337.1| RluB [Bacillus licheniformis ATCC 14580] gi|145903029|gb|AAU23983.2| pseudouridine synthase [Bacillus licheniformis ATCC 14580] gi|317393020|gb|EFV73814.1| pseudouridine synthase [Bacillus sp. BT1B_CT2] Length = 244 Score = 135 bits (340), Expect = 8e-30, Method: Compositional matrix adjust. Identities = 82/226 (36%), Positives = 123/226 (54%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E +I + RV VNG + V V S+D IEV+GV L E Sbjct: 2 ERLQKVIAHAGIASRRKAEELIKEGRVTVNGKTVRELGVKVSSSDRIEVNGVQLESEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+++ D GR V D + R+ +GRLD +T GLLLLTNDG A Sbjct: 62 YFLLY-KPRGVISAVKDDKGRKVVTDFFTEVEERIYPIGRLDYDTSGLLLLTNDGDFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G ++ L L++G+ ++ +V L + +K + V + Sbjct: 121 LMHPKYEINKTYVAKLKGIPLKENLKKLERGVRLEDGKTAPAKVKLLSLDKKKQTSIVQI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE +V +L R Y L L G RE++ Sbjct: 181 TIHEGRNRQVRRMFEAIGHEVLKLKREEYAFLNLAGLKTGEKRELT 226 >gi|116492846|ref|YP_804581.1| ribosomal large subunit pseudouridine synthase B [Pediococcus pentosaceus ATCC 25745] gi|116102996|gb|ABJ68139.1| ribosomal large subunit pseudouridine synthase B [Pediococcus pentosaceus ATCC 25745] Length = 241 Score = 135 bits (340), Expect = 9e-30, Method: Compositional matrix adjust. Identities = 79/224 (35%), Positives = 130/224 (58%), Gaps = 5/224 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR+ E++I + V+VNG ++++ V + D IEVDGVPL++ E+ Sbjct: 4 ERLQKVMAEAGVASRRKSEKLITEGHVRVNGKVIKQLGTKVTAHDKIEVDGVPLQR-EKM 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++T+ SD R TV D P + R+ VGRLD +T G +L+TNDG LA Sbjct: 63 VYFLLNKPRGVITSVSDDKKRKTVMDFFPDVVERIYPVGRLDYDTSGAVLMTNDGTLANG 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVT 190 L P ++ + Y + G V+ L L+ G+VI + ++ D +K + + V+ Sbjct: 123 LTHPKFKFEKTYTAKVKGIVNSLDLKKLENGLVIDHKKTAKAKAHLISTDDEKKT-SIVS 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + EG+N ++K +F V +L R SY + + +G R Sbjct: 182 LTIHEGRNHQVKNMFMAVGHPVQKLRRDSYSFLNIDGVQSGKWR 225 >gi|271964497|ref|YP_003338693.1| pseudouridine synthase, Rsu [Streptosporangium roseum DSM 43021] gi|270507672|gb|ACZ85950.1| pseudouridine synthase, Rsu [Streptosporangium roseum DSM 43021] Length = 621 Score = 135 bits (340), Expect = 9e-30, Method: Compositional matrix adjust. Identities = 96/248 (38%), Positives = 134/248 (54%), Gaps = 8/248 (3%) Query: 3 DKNIVQENFTPQ-----RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 D++ V E T + R+ KV+A+AG+ASRR E MI RV V+G ++ R V Sbjct: 368 DRDYVDERDTTEVPDGVRLQKVLAQAGVASRRACEDMIGDGRVTVDGQVVRRFGARVDPA 427 Query: 58 DH-IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 I VDG L +KPIG+V+T SDPDGR ++ D + R+ VGRLD Sbjct: 428 KQVIHVDGKRLPTMPDLVYLAINKPIGVVSTMSDPDGRPSLADFVADRTERLFHVGRLDT 487 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDM 175 TEGL+LLTNDG LA L PS + Y + G++++D LKKGI ++ GI D Sbjct: 488 ETEGLILLTNDGELANRLTHPSYGVQKKYWAKVPGRIERDLGRRLKKGIELEDGIAKAD- 546 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 TL + G A V V L EG+ ++++ E V L RI +GP +LG L G+ R Sbjct: 547 SFTLVQEHGQQALVEVVLHEGRKHIVRRMLEEVGHPVIDLARIEFGPVKLGRLKPGTVRA 606 Query: 236 VSKKILRE 243 ++ K + E Sbjct: 607 LTVKEVGE 614 >gi|260776099|ref|ZP_05884994.1| ribosomal large subunit pseudouridine synthase B [Vibrio coralliilyticus ATCC BAA-450] gi|260607322|gb|EEX33587.1| ribosomal large subunit pseudouridine synthase B [Vibrio coralliilyticus ATCC BAA-450] Length = 314 Score = 135 bits (340), Expect = 9e-30, Method: Compositional matrix adjust. Identities = 89/217 (41%), Positives = 120/217 (55%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E +I RV VNG++ + + +DG V + E Sbjct: 3 EKLQKVLARAGHGSRRELEALIKAGRVSVNGVVAKLGERLEDENAVVRIDGHTVSAKAQE 62 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVVCRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G VD+ K+ L G+ ++ V G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGDVDEKKIRNLVGGVELEDGLARFEDVVYAGGDGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE+++++E + V+RL R+ YG L Sbjct: 183 FYVVINEGRNREVRRLWESQDCTVSRLKRVRYGDIFL 219 >gi|309804173|ref|ZP_07698251.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LactinV 11V1-d] gi|308163756|gb|EFO66025.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LactinV 11V1-d] Length = 239 Score = 135 bits (340), Expect = 9e-30, Method: Compositional matrix adjust. Identities = 87/225 (38%), Positives = 123/225 (54%), Gaps = 3/225 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA AGIASRR E +I +V VNG L+ V D IEV+GVP+ K E+ Sbjct: 4 RLQKVIAEAGIASRRNAEILITSGQVTVNGNLVTTLGTKVDDNDKIEVNGVPIHK-EQLH 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP +V+T SD GR TV D + R+ VGRLD +T GLLL+TNDG LA L Sbjct: 63 TYLLYKPRNVVSTVSDNKGRKTVTDFFKDLPYRLYPVGRLDYDTSGLLLMTNDGELANRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSN-AWVTVG 192 P + +VY + G + ++ LK G+ I G +V + T K N V + Sbjct: 123 MHPKNEIEKVYVAKISGFLTASEIYDLKHGVTIDGRKTAPAKVKIIKTDKNRNIQLVQLT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG ++K +F+ N V +L R Y L +L++G RE++ Sbjct: 183 IHEGHYHQVKNMFKAVNHLVEKLSRERYAFLTLKSLISGEYRELT 227 >gi|254448673|ref|ZP_05062131.1| ribosomal large subunit pseudouridine synthase B [gamma proteobacterium HTCC5015] gi|198261681|gb|EDY85968.1| ribosomal large subunit pseudouridine synthase B [gamma proteobacterium HTCC5015] Length = 298 Score = 135 bits (340), Expect = 9e-30, Method: Compositional matrix adjust. Identities = 90/235 (38%), Positives = 130/235 (55%), Gaps = 27/235 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLE---------RAAVNVMSTDHIEVDG 64 +R+ K +A+ G+ SRR++E I ++ VNG + + R ++ + D +VD Sbjct: 3 ERIQKRLAQLGMGSRRQIEHWIRDGKITVNGKVAQLGDTLEWSDRVTLDGKAIDLEQVDT 62 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLL 123 +P + LYHKP G V T SDP GR+TVF+ LP + + R ISVGRLD+NT GLLL Sbjct: 63 IP------KEVLLYHKPEGEVCTRSDPQGRTTVFERLPRLRAGRWISVGRLDVNTAGLLL 116 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-------ICYGDMQ 176 T DG LA L PS + R Y VR G V + LN L +G+ ++ I GD + Sbjct: 117 FTTDGELANRLMHPSREIDREYAVRVLGDVSDEMLNQLVEGVQLEDGAAKFSEIVIGDHE 176 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW-KVNRLIRISYGPFQLGTLLA 230 D +N W V L+EG+NRE+++++E F+ V+RL R+ Y L LA Sbjct: 177 YDSDR---ANRWYYVCLQEGRNREVRRLWESFSGVTVSRLKRVRYANIFLPKTLA 228 >gi|326773388|ref|ZP_08232671.1| ribosomal large subunit pseudouridine synthase B [Actinomyces viscosus C505] gi|326636618|gb|EGE37521.1| ribosomal large subunit pseudouridine synthase B [Actinomyces viscosus C505] Length = 324 Score = 135 bits (340), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 91/236 (38%), Positives = 125/236 (52%), Gaps = 14/236 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 QR+ KV+A AG+ASRR E++IA RV V+G+ + A V V T I VDG + Sbjct: 78 QRLQKVLAHAGVASRRACEQLIADGRVSVDGVTVTEAGVRVDPLTQEIRVDGSRILTNPE 137 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV----------FDNLPSIFSRVISVGRLDINTEGLL 122 + HKP G+VTT DP+GR TV LP R++ VGRLD TEGLL Sbjct: 138 LITLMLHKPAGVVTTMEDPEGRPTVAQYGRDYLTEHPELPDSL-RLVHVGRLDTETEGLL 196 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT 181 LL+NDG L+ L PS + + Y GQV+ L++GI ++ G D +VT+ Sbjct: 197 LLSNDGELSHRLMHPSFEIAKTYVAIVEGQVEPWVPRKLRRGIELEDGEAKAD-RVTVKD 255 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + V + L GKNR ++++ + V RL R GP +LG L G TR +S Sbjct: 256 SGPRGSIVEITLHSGKNRIVRRMLDAVGHPVTRLARTRLGPLRLGNLRPGQTRPLS 311 >gi|260773017|ref|ZP_05881933.1| ribosomal large subunit pseudouridine synthase B [Vibrio metschnikovii CIP 69.14] gi|260612156|gb|EEX37359.1| ribosomal large subunit pseudouridine synthase B [Vibrio metschnikovii CIP 69.14] Length = 346 Score = 135 bits (340), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 92/220 (41%), Positives = 125/220 (56%), Gaps = 11/220 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDG--VPLR 68 +++ KV+ARAG SRRE+E +I RV VNG IL ER T + +DG V + Sbjct: 3 EKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAILGERLE---DETAVVRIDGHAVSAK 59 Query: 69 KAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 E R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T Sbjct: 60 APEEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS Q R Y VR G+++++K+ L +G+ ++ V +G Sbjct: 120 TDGELANRLMHPSRQVEREYLVRVFGEINEEKIRNLVRGVQLEDGMARFEDVMYAGGEGM 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N V + EG+NRE+++++E V+RL R+ YG L Sbjct: 180 NHTFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFL 219 >gi|296875977|ref|ZP_06900036.1| ribosomal large subunit pseudouridine synthase B [Streptococcus parasanguinis ATCC 15912] gi|296433052|gb|EFH18840.1| ribosomal large subunit pseudouridine synthase B [Streptococcus parasanguinis ATCC 15912] Length = 243 Score = 135 bits (340), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 79/230 (34%), Positives = 130/230 (56%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ A + + D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATIIKTGDQVEVEGTPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR+TV D L + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRTTVVDLLSQVPERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +G+ I G Y ++V ++ + + V Sbjct: 121 IHPRNEIDKVYVARVKGIANKENLRPLTRGVTIDGKKTKPATYEILKVDVEKNR---SVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G + L G R ++KK Sbjct: 178 QLTIHEGRNHQVKKMFEAVGLLVDKLSRTQFGNLDVSGLRPGEYRRLNKK 227 >gi|330002604|ref|ZP_08304373.1| pseudouridine synthase B, ribosomal large subunit [Klebsiella sp. MS 92-3] gi|328537255|gb|EGF63515.1| pseudouridine synthase B, ribosomal large subunit [Klebsiella sp. MS 92-3] Length = 292 Score = 135 bits (340), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 84/204 (41%), Positives = 115/204 (56%), Gaps = 6/204 (2%) Query: 28 RREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLRKAERTRLWLYHKPI 82 RRE+E I RV V+G I V ++ I +DG V + R+ Y+KP Sbjct: 9 RREIEAKIEAGRVSVDGKIATLGDRVEIVPGLKIRIDGHLISVKESAEQICRVLAYYKPE 68 Query: 83 GLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQW 141 G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T DG LA L PS + Sbjct: 69 GELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREV 128 Query: 142 LRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREI 201 R Y VR GQVD DKL L +G+ ++ + +G N W V L EG+NRE+ Sbjct: 129 EREYAVRVFGQVDDDKLRQLSRGVQLEDGPAAFKTIKFTGGEGINQWYNVTLTEGRNREV 188 Query: 202 KKVFEFFNWKVNRLIRISYGPFQL 225 ++++E +V+RLIR+ YG L Sbjct: 189 RRLWEAVGVQVSRLIRVRYGDILL 212 >gi|161507454|ref|YP_001577408.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus helveticus DPC 4571] gi|260101634|ref|ZP_05751871.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus helveticus DSM 20075] gi|160348443|gb|ABX27117.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus helveticus DPC 4571] gi|260084567|gb|EEW68687.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus helveticus DSM 20075] Length = 238 Score = 135 bits (340), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 82/227 (36%), Positives = 126/227 (55%), Gaps = 3/227 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E+MI RVKV+G ++ + V + +I VD P+ + E Sbjct: 3 ERLQKVIAEAGIASRRKAEKMIVAGRVKVDGKVVTKLGTKVETFSNITVDDEPIER-ESL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+V+T D GR TV D + R+ VGRLD +T GLLL+TNDG LA + Sbjct: 62 HTYLFYKPRGVVSTADDDKGRKTVVDYFEDVPYRLYPVGRLDYDTSGLLLMTNDGKLANL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNAWVT-V 191 L P + +VY + G + D++ L G+ + +V L T K + + + Sbjct: 122 LMHPRNEVSKVYVAKIKGILTPDEIKTLTTGVKLDRFKAAPAKVKILKTDKRKDTQIIQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG ++K++F+ V +L R Y L +L +G RE+SK Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVEKLSREKYAFLTLDSLTSGQYRELSK 228 >gi|312868359|ref|ZP_07728559.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus parasanguinis F0405] gi|322390066|ref|ZP_08063601.1| ribosomal large subunit pseudouridine synthase B [Streptococcus parasanguinis ATCC 903] gi|311096104|gb|EFQ54348.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus parasanguinis F0405] gi|321143193|gb|EFX38636.1| ribosomal large subunit pseudouridine synthase B [Streptococcus parasanguinis ATCC 903] Length = 243 Score = 135 bits (340), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 79/230 (34%), Positives = 130/230 (56%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ A + + D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATIIKTGDQVEVEGTPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GR+TV D L + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDDKGRTTVVDLLSQVPERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +G+ I G Y ++V ++ + + V Sbjct: 121 IHPRNEIDKVYVARVKGIANKENLRPLTRGVTIDGKKTKPATYEILKVDVEKNR---SVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G + L G R ++KK Sbjct: 178 QLTIHEGRNHQVKKMFEAVGLLVDKLSRTQFGNLDVSGLRPGEYRRLNKK 227 >gi|218768378|ref|YP_002342890.1| putative pseudouridine synthase [Neisseria meningitidis Z2491] gi|121052386|emb|CAM08718.1| putative pseudouridine synthase [Neisseria meningitidis Z2491] Length = 256 Score = 135 bits (340), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 80/218 (36%), Positives = 130/218 (59%), Gaps = 6/218 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKA 70 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ A Sbjct: 3 PERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQLGD-KVTPDDHVTVKGSIIKLKWA 61 Query: 71 ER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDG 128 +R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT G Sbjct: 62 DRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTTSG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNA 187 L + PS + R Y VR G + +++ +L ++G++++ ++ +G+N Sbjct: 122 ELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGANK 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 182 WYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 219 >gi|50084073|ref|YP_045583.1| putative ribosomal large subunit pseudouridine synthase B (pseudouridylate synthase) (Uracil hydrolyase) [Acinetobacter sp. ADP1] gi|49530049|emb|CAG67761.1| putative ribosomal large subunit pseudouridine synthase B (Pseudouridylate synthase) (Uracil hydrolyase) [Acinetobacter sp. ADP1] Length = 313 Score = 135 bits (340), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 83/213 (38%), Positives = 121/213 (56%), Gaps = 6/213 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----VPLRK 69 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG + Sbjct: 3 EKLQKVLARIGLGSRRYMEEVIAAGRVSVNGQIAQ-VGERIEPGDELRIDGRKVQFQIED 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R R+ +Y+KP G + + +DP+ R TVFD+LP I + R + VGRLDIN+ GLLL TNDG Sbjct: 62 EIRRRVLIYYKPEGEICSRNDPEQRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y VR G+V L G+V+ + G N W Sbjct: 122 ELANRLMHPSNEIEREYAVRVMGEVTPQIRQTLLNGVVLDDGPAKFESFSELGGDGINRW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V ++EG+NRE++++FE KV+RL+R YG Sbjct: 182 YQVVVKEGRNREVRRLFESQGLKVSRLLRTRYG 214 >gi|293375505|ref|ZP_06621784.1| pseudouridylate synthase [Turicibacter sanguinis PC909] gi|325844949|ref|ZP_08168314.1| pseudouridine synthase B, ribosomal large subunit [Turicibacter sp. HGF1] gi|292645905|gb|EFF63936.1| pseudouridylate synthase [Turicibacter sanguinis PC909] gi|325488999|gb|EGC91388.1| pseudouridine synthase B, ribosomal large subunit [Turicibacter sp. HGF1] Length = 255 Score = 135 bits (340), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 85/227 (37%), Positives = 127/227 (55%), Gaps = 4/227 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E++I +V VN ++ V + IEV+GVPL++ E+ Sbjct: 2 ERLQKVIAQAGIASRRKAEQLILDGKVTVNDKVVRELGTKVTGKEKIEVEGVPLQR-EKK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ HKP G V+T SD GR TV D + RV VGRLD +T G+LL+TNDG A Sbjct: 61 VYYVLHKPRGYVSTVSDELGRRTVLDFFADRVSERVYPVGRLDYDTSGVLLMTNDGEFAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 + PS + +VY R G V + L KGI I G TL + +K ++ V Sbjct: 121 KMMHPSGEIDKVYLARVKGIVLPENLKPFGKGIEIDGYKTKPASATLVSVDKKNQSSLVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+ ++KK+F+ + V +L R +G + L AG R ++ Sbjct: 181 LTIHEGRYHQVKKMFDAIGFPVKKLRREQFGTIDVQGLAAGEFRPLT 227 >gi|241896291|ref|ZP_04783587.1| pseudouridylate synthase [Weissella paramesenteroides ATCC 33313] gi|241870452|gb|EER74203.1| pseudouridylate synthase [Weissella paramesenteroides ATCC 33313] Length = 255 Score = 135 bits (339), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 84/231 (36%), Positives = 124/231 (53%), Gaps = 11/231 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A+AG+ASRR E+MI + +V VNG ++ V TDHIEV+G P+ E+ Sbjct: 3 ERLQKVMAQAGVASRRASEKMITEGQVTVNGQVIRELGTKVEPTDHIEVNGTPIDSKEKL 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L KP G+VTT+SD GR TV D + RV VGRLD +T G LLLTNDG LA Sbjct: 63 VYFLLDKPRGVVTTNSDDKGRQTVMDIVDEP-ERVYPVGRLDYDTTGALLLTNDGDLANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG----------DMQVTLDTQK 183 L P + +VY + G ++L L+ G+ ++ + G ++ +K Sbjct: 122 LMHPKYRIDKVYVAKVKGIPTNEELEKLRHGVTVKTVQNGRHYTFNAAPAHAEILSTDKK 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 A V + + EGK ++K++ + +V +L R YG L L G R Sbjct: 182 KHTAIVKLTIHEGKYHQVKEMLKSVGHEVIKLTRERYGMLDLTGLTPGEYR 232 >gi|325130402|gb|EGC53166.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis OX99.30304] gi|325204354|gb|ADY99807.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis M01-240355] Length = 256 Score = 135 bits (339), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 80/218 (36%), Positives = 130/218 (59%), Gaps = 6/218 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKA 70 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ A Sbjct: 3 PERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQLGD-KVTPDDHVTVKGSIIKLKWA 61 Query: 71 ER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDG 128 +R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT G Sbjct: 62 DRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTTSG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNA 187 L + PS + R Y VR G + +++ +L ++G++++ ++ +G+N Sbjct: 122 ELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGANK 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 182 WYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 219 >gi|121635067|ref|YP_975312.1| putative pseudouridine synthase [Neisseria meningitidis FAM18] gi|120866773|emb|CAM10526.1| putative pseudouridine synthase [Neisseria meningitidis FAM18] gi|325138220|gb|EGC60789.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis ES14902] Length = 256 Score = 135 bits (339), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 79/218 (36%), Positives = 130/218 (59%), Gaps = 6/218 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKA 70 P+R+ KV+A +G+ SRRE+E I + VNG + V DH+ V G + L+ A Sbjct: 3 PERLQKVLAASGVGSRREMEEWITNGWITVNGKTAQLGD-KVTPDDHVTVKGSIIKLKWA 61 Query: 71 ER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDG 128 +R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT G Sbjct: 62 DRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTTSG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNA 187 L + PS + R Y VR G + +++ +L ++G++++ ++ +G+N Sbjct: 122 ELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGANK 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 182 WYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 219 >gi|325201930|gb|ADY97384.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis M01-240149] Length = 256 Score = 135 bits (339), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 80/218 (36%), Positives = 130/218 (59%), Gaps = 6/218 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKA 70 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ A Sbjct: 3 PERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQLGD-KVTPDDHVTVKGSIIKLKWA 61 Query: 71 ER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDG 128 +R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT G Sbjct: 62 DRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTTSG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNA 187 L + PS + R Y VR G + +++ +L ++G++++ ++ +G+N Sbjct: 122 ELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGANK 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 182 WYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 219 >gi|163848780|ref|YP_001636824.1| pseudouridine synthase [Chloroflexus aurantiacus J-10-fl] gi|222526730|ref|YP_002571201.1| pseudouridine synthase [Chloroflexus sp. Y-400-fl] gi|163670069|gb|ABY36435.1| pseudouridine synthase [Chloroflexus aurantiacus J-10-fl] gi|222450609|gb|ACM54875.1| pseudouridine synthase [Chloroflexus sp. Y-400-fl] Length = 528 Score = 135 bits (339), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 86/219 (39%), Positives = 125/219 (57%), Gaps = 2/219 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRK 69 +P+R+ KV+A AGIASRR+ E +IA RV VNG ++ V + D + VDG PL+ Sbjct: 1 MSPERLQKVLASAGIASRRDCEALIAAGRVMVNGRVVVVPGTRVDLDHDEVLVDGQPLQM 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + HKP G+V+T D GR TV D L ++ +RV VGRLD+++EGL+LLT+DG Sbjct: 61 PTKRTYIMLHKPAGVVSTAEDTHGRPTVLD-LVNVPARVFPVGRLDMDSEGLILLTDDGE 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PS + + YRV + + L + G+++ G V L WV Sbjct: 120 LAYALTHPSFEVEKEYRVLLDRALTPEALRSWRNGVLLDGEMTAPAWVELIGTAPEGVWV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + LREG+ R+I+ V + ++V RLIR+ G LG L Sbjct: 180 RIVLREGRKRQIRAVAKLLGYEVRRLIRVREGDLVLGDL 218 >gi|304387322|ref|ZP_07369514.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis ATCC 13091] gi|304338573|gb|EFM04691.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis ATCC 13091] Length = 350 Score = 135 bits (339), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 80/220 (36%), Positives = 129/220 (58%), Gaps = 6/220 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ Sbjct: 95 MEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLK 153 Query: 69 KAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 A+R R+ LY+K G + + DP GR ++FD LP + SR ++GRLDINT GLL+LT Sbjct: 154 WADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWGAIGRLDINTSGLLILTT 213 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 G L + PS + R Y VR G + +++ +L ++G++++ ++ +G+ Sbjct: 214 SGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGA 273 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 274 NKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 313 >gi|320534116|ref|ZP_08034657.1| hypothetical protein HMPREF9057_02553 [Actinomyces sp. oral taxon 171 str. F0337] gi|320133695|gb|EFW26102.1| hypothetical protein HMPREF9057_02553 [Actinomyces sp. oral taxon 171 str. F0337] Length = 324 Score = 135 bits (339), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 91/236 (38%), Positives = 125/236 (52%), Gaps = 14/236 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 QR+ KV+A AG+ASRR E++IA RV V+GI + A V V T I +DG + Sbjct: 78 QRLQKVLAHAGVASRRACEQLIADGRVSVDGITVTEAGVRVDPLTQEIRLDGSRILTNPE 137 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV----------FDNLPSIFSRVISVGRLDINTEGLL 122 + HKP G+VTT DP+GR TV LP R++ VGRLD TEGLL Sbjct: 138 LITLMLHKPAGVVTTMDDPEGRPTVAQYGRDYLAEHPELPDSL-RLVHVGRLDTETEGLL 196 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT 181 LL+NDG L+ L PS + + Y GQV+ L++GI ++ G D +VT+ Sbjct: 197 LLSNDGELSHRLMHPSFEIAKTYVAIVEGQVEPWVPRKLRRGIELEDGEAKAD-RVTVKD 255 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + V + L GKNR ++++ + V RL R GP +LG L G TR +S Sbjct: 256 SGPRGSIVEITLHSGKNRIVRRMLDAVGHPVTRLARTRLGPLRLGNLRPGETRPLS 311 >gi|31789454|gb|AAP58568.1| pseudouridylate synthase [uncultured Acidobacteria bacterium] Length = 317 Score = 135 bits (339), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 85/234 (36%), Positives = 128/234 (54%), Gaps = 7/234 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----V 65 F +R+ K+IA AGIASRR E++I V VNG ++ E DHI+V G Sbjct: 54 FMEERLQKIIATAGIASRRHAEQLITAGEVTVNGKVVTELGTKADAQNDHIKVRGKLINP 113 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 L++ E+ + L +KP G +++ SDP+GR TV + LP+ RV VGRLD NTEGLLLLT Sbjct: 114 TLKRVEKNYI-LLNKPRGYLSSVSDPEGRPTVLELLPASLGRVYPVGRLDFNTEGLLLLT 172 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG 184 NDG + + +VY + G + + L++G+ + G+ ++ L + Sbjct: 173 NDGDFTNFITSARNKVDKVYEAKVKGVPTEASVERLRRGVTLDDGVRTAPAKIRLLGETE 232 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 SNAW V L EGKN++I+++F+ V +L R G + L G R +S+ Sbjct: 233 SNAWFEVLLHEGKNQQIRRMFDLIGHSVVKLRRSRIGGLRDDELKPGKWRRLSE 286 >gi|229525790|ref|ZP_04415195.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae bv. albensis VL426] gi|229339371|gb|EEO04388.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae bv. albensis VL426] Length = 322 Score = 135 bits (339), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 94/222 (42%), Positives = 126/222 (56%), Gaps = 15/222 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDH--IEVDG--VP 66 +++ KV+ARAG SRRE+E +I RV VNG IL ER + D+ + +DG V Sbjct: 3 EKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAILGER-----LEEDNAVVRIDGHVVS 57 Query: 67 LRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLL 123 ++ E R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL Sbjct: 58 VKAQEEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLL 117 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS Q R Y VR G V +DK+ L +G+ ++ V + Sbjct: 118 FTTDGELANRLMHPSRQVEREYLVRVFGDVTEDKVRNLVRGVQLEDGMARFEDVMYAGGE 177 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N V + EG+NRE+++++E V+RL R+ YG L Sbjct: 178 GINHTFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFL 219 >gi|329946750|ref|ZP_08294162.1| pseudouridylate synthase [Actinomyces sp. oral taxon 170 str. F0386] gi|328526561|gb|EGF53574.1| pseudouridylate synthase [Actinomyces sp. oral taxon 170 str. F0386] Length = 324 Score = 135 bits (339), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 91/236 (38%), Positives = 124/236 (52%), Gaps = 14/236 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 QR+ KV+A AG+ASRR E++IA RV V+GI + V V T I VDG + Sbjct: 78 QRLQKVLAHAGVASRRACEQLIADGRVSVDGITVTEPGVRVDPLTQEIRVDGSRILTNPE 137 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV----------FDNLPSIFSRVISVGRLDINTEGLL 122 + HKP G+VTT DP+GR TV LP R++ VGRLD TEGLL Sbjct: 138 LITLMLHKPAGVVTTMEDPEGRPTVAQYGLDYLAEHPELPDSL-RLVHVGRLDTETEGLL 196 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT 181 LL+NDG L+ L PS + + Y GQV+ L++GI ++ G D +VT+ Sbjct: 197 LLSNDGELSHRLMHPSFEIAKTYVAIVEGQVEPWVPRKLRRGIALEDGETRAD-RVTVKD 255 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + V + L GKNR ++++ + V RL R GP +LG L G TR +S Sbjct: 256 SGPRGSIVEITLHSGKNRIVRRMLDAVGHPVTRLARTRLGPLRLGNLRPGETRPLS 311 >gi|228476518|ref|ZP_04061208.1| ribosomal large subunit pseudouridine synthase B [Streptococcus salivarius SK126] gi|228251939|gb|EEK10985.1| ribosomal large subunit pseudouridine synthase B [Streptococcus salivarius SK126] Length = 241 Score = 135 bits (339), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 81/228 (35%), Positives = 130/228 (57%), Gaps = 5/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I + RV +NG + A V + D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKEGRVTLNGKTVTELATIVKNGDIVEVNGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD R TV D +P + R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDEKNRKTVIDLMPHVKERIYPVGRLDWDTTGLLILTNDGDFTDKM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVTV 191 P + +VY R G ++ L L +G+VI G + + +D +K + + V + Sbjct: 121 IHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIKVDHEK-NRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++KK+FE V++L R +G L L G +R ++KK Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLDLTGLRPGESRRLNKK 227 >gi|157149683|ref|YP_001450946.1| ribosomal large subunit pseudouridine synthase B [Streptococcus gordonii str. Challis substr. CH1] gi|157074477|gb|ABV09160.1| ribosomal large subunit pseudouridine synthase B [Streptococcus gordonii str. Challis substr. CH1] Length = 242 Score = 135 bits (339), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 82/230 (35%), Positives = 132/230 (57%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V +NG ++ A V + D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTINGQVVRELATLVKTGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ +D GR TV D LP + R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVTDDKGRKTVVDLLPQVKERIYPVGRLDWDTSGLLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +G+ I G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGIANKENLRPLTRGVEINGKKTKPAVYEIIKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+F+ +V++L R +G L L G +R ++KK Sbjct: 178 QLTIHEGRNHQVKKMFQAVGLEVDKLSRTRFGHLDLTGLRPGESRRLNKK 227 >gi|261406009|ref|YP_003242250.1| pseudouridine synthase [Paenibacillus sp. Y412MC10] gi|329929803|ref|ZP_08283479.1| pseudouridine synthase B, ribosomal large subunit [Paenibacillus sp. HGF5] gi|261282472|gb|ACX64443.1| pseudouridine synthase [Paenibacillus sp. Y412MC10] gi|328935781|gb|EGG32242.1| pseudouridine synthase B, ribosomal large subunit [Paenibacillus sp. HGF5] Length = 251 Score = 134 bits (338), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 81/227 (35%), Positives = 130/227 (57%), Gaps = 4/227 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K++A+AG+ASRR+ E +I + +V+VNG + E + D I V G P++ ++ Sbjct: 2 ERLQKIMAQAGVASRRKCEELILEGKVQVNGETVTELGTKADPAQDIITVSGKPIKNEKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G++T+ SDP+GR V D L I RV +GRLD +TEGLLLLTNDG A Sbjct: 62 VYVML-NKPKGVITSASDPEGRKIVSDYLKGIKERVYPIGRLDYDTEGLLLLTNDGEFAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 +L P + Y G +L+ L++GI+++ +V N + ++ Sbjct: 121 LLSHPKYHVPKTYLATVKGVPHGTELDKLRQGIMLEDGMTSPAEVEYKDVDPDNKQSVIS 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE + V RL RISYG L L G R ++ Sbjct: 181 ITIHEGRNRQVRRMFEAISHPVLRLKRISYGDLLLQNLKRGLYRHLT 227 >gi|227893487|ref|ZP_04011292.1| pseudouridylate synthase [Lactobacillus ultunensis DSM 16047] gi|227864712|gb|EEJ72133.1| pseudouridylate synthase [Lactobacillus ultunensis DSM 16047] Length = 238 Score = 134 bits (338), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 84/227 (37%), Positives = 127/227 (55%), Gaps = 3/227 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E+MI RVKV+G ++ + V + +I VD P+ + E Sbjct: 3 ERLQKVIAEAGIASRRKAEKMITAGRVKVDGKVITKLGTKVDTFSNITVDDEPIER-ESL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+V+T SD GR TV D I R+ VGRLD +T GLLL+TNDG LA + Sbjct: 62 HTYLFYKPRGVVSTASDDKGRRTVVDYFEDIPYRLYPVGRLDYDTSGLLLMTNDGKLANL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNAW-VTV 191 L P + +VY + G + +++ L G+ + +V L T K + V + Sbjct: 122 LMHPRNEVQKVYVAKIKGILTPEEIEGLTHGVKLDRFKAAPAKVKILKTDKRKDTQIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG ++K++F+ V +L R Y L +L +G RE+SK Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVEKLSREKYAFLTLDSLTSGQYRELSK 228 >gi|282882075|ref|ZP_06290716.1| ribosomal large subunit pseudouridine synthase B [Peptoniphilus lacrimalis 315-B] gi|300814964|ref|ZP_07095192.1| putative pseudouridine synthase B, ribosomal large subunit [Peptoniphilus sp. oral taxon 836 str. F0141] gi|281298105|gb|EFA90560.1| ribosomal large subunit pseudouridine synthase B [Peptoniphilus lacrimalis 315-B] gi|300510934|gb|EFK38206.1| putative pseudouridine synthase B, ribosomal large subunit [Peptoniphilus sp. oral taxon 836 str. F0141] Length = 235 Score = 134 bits (338), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 81/221 (36%), Positives = 123/221 (55%), Gaps = 2/221 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A AG ASRR+ E +I + RVKVN ++ + V + D + +DG L Sbjct: 2 RLQKFMAHAGAASRRKSEELIKEGRVKVNNNIVTEMGLEVDPNKDRVYLDGKRLNLENEN 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KPIG+VTT SD GR V D L RV VGRLDI+T GL+LLTNDG LA + Sbjct: 62 IYIILNKPIGVVTTSSDEKGRINVVD-LVDETKRVYPVGRLDIDTTGLVLLTNDGTLANI 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y G+ + +LNLL+ G+ ++ + +V + ++ + + + Sbjct: 121 LMHPKNNIYKTYIATVEGKPNARELNLLRNGLSLRDLKTSKAKVKILKNFDKDSIIEISI 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 EGKN ++K++F + +V +L RIS G +LG L G+ R Sbjct: 181 HEGKNHQVKRMFSYIGHEVKKLKRISIGKIELGNLEIGNYR 221 >gi|55820359|ref|YP_138801.1| ribosomal large subunit pseudouridine synthase B [Streptococcus thermophilus LMG 18311] gi|55822249|ref|YP_140690.1| ribosomal large subunit pseudouridine synthase B [Streptococcus thermophilus CNRZ1066] gi|116627195|ref|YP_819814.1| ribosomal large subunit pseudouridine synthase B [Streptococcus thermophilus LMD-9] gi|55736344|gb|AAV59986.1| ribosomal large subunit pseudouridine synthase B [Streptococcus thermophilus LMG 18311] gi|55738234|gb|AAV61875.1| ribosomal large subunit pseudouridine synthase B [Streptococcus thermophilus CNRZ1066] gi|116100472|gb|ABJ65618.1| ribosomal large subunit pseudouridine synthase B [Streptococcus thermophilus LMD-9] Length = 255 Score = 134 bits (338), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 83/230 (36%), Positives = 131/230 (56%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I + RV +NG + A V + D +EV+G P+ E+ Sbjct: 16 RINKYIAHAGVASRRKAEELIKEGRVTLNGKTVMELATIVKNGDIVEVNGSPIYNEEKV- 74 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD R TV D +P + R+ VGRLD +T GLL+LTNDG + Sbjct: 75 YYLLNKPRGVISSVSDEKNRKTVIDLMPHVKERIYPVGRLDWDTTGLLILTNDGDFTDKM 134 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++ L L +G+VI G Y ++V D +K + + V Sbjct: 135 IHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTQPAHYNIIKV--DHEK-NRSVV 191 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G L L G +R ++KK Sbjct: 192 ELTIHEGRNHQVKKMFESVGLIVDKLSRTRFGTLDLTGLRPGESRRLNKK 241 >gi|320093560|ref|ZP_08025451.1| ribosomal large subunit pseudouridine synthase B [Actinomyces sp. oral taxon 178 str. F0338] gi|319979487|gb|EFW10958.1| ribosomal large subunit pseudouridine synthase B [Actinomyces sp. oral taxon 178 str. F0338] Length = 249 Score = 134 bits (338), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 92/235 (39%), Positives = 130/235 (55%), Gaps = 4/235 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E+MIA RV V+G ++ + V T I VDG L E Sbjct: 12 RLQKVLAQAGVASRRAAEQMIADGRVSVDGQVVRGQGMRVDPTAQVIHVDGERLILDETK 71 Query: 74 RLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP+G+V+T SDP+GR TV D + R+ VGRLDI+T GLLLLTNDG LA Sbjct: 72 HVVLAINKPVGVVSTMSDPEGRPTVADIVAGYPERLYHVGRLDIDTSGLLLLTNDGELAN 131 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L PS + + Y R HG+V L GI ++ G D +DT G V + Sbjct: 132 RLTHPSYEISKTYVARLHGEVRPGVKRRLMAGIELEDGPIAVDGFRVVDTY-GDITTVEI 190 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EG+NR ++++ + + V L+R +GP +L L G++R V L G Sbjct: 191 VVHEGRNRLVRRMMDAVGFPVRELVRTGFGPIRLDHLQPGTSRRVKGNALTALYG 245 >gi|325128449|gb|EGC51330.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis N1568] Length = 256 Score = 134 bits (338), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 80/218 (36%), Positives = 130/218 (59%), Gaps = 6/218 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKA 70 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G + L+ A Sbjct: 3 PERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQLGD-KVTPDDHVTVKGSIIKLKWA 61 Query: 71 ER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDG 128 +R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+LT G Sbjct: 62 DRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTTSG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNA 187 L + PS + R Y VR G + +++ +L ++G++++ ++ +G+N Sbjct: 122 ELVQRFAHPSFEVEREYAVRVLGGLTGEQIRVLTEEGVMLEDGLAKVERIREQGGEGANK 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 182 WYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 219 >gi|300926650|ref|ZP_07142426.1| hypothetical protein HMPREF9548_04653 [Escherichia coli MS 182-1] gi|300417316|gb|EFK00627.1| hypothetical protein HMPREF9548_04653 [Escherichia coli MS 182-1] Length = 276 Score = 134 bits (338), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 83/206 (40%), Positives = 118/206 (57%), Gaps = 6/206 (2%) Query: 26 ASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKAER--TRLWLYHK 80 RRE+E +I RV V+G + + V V I +DG + +R++ R+ Y+K Sbjct: 1 GPRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRESAEQICRVLAYYK 60 Query: 81 PIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARVLELPST 139 P G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T DG LA L PS Sbjct: 61 PEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSR 120 Query: 140 QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNR 199 + R Y VR GQVD KL L +G+ ++ + +G N W V L EG+NR Sbjct: 121 EVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQWYNVTLTEGRNR 180 Query: 200 EIKKVFEFFNWKVNRLIRISYGPFQL 225 E+++++E +V+RLIR+ YG L Sbjct: 181 EVRRLWEAVGVQVSRLIRVRYGDIPL 206 >gi|147677969|ref|YP_001212184.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Pelotomaculum thermopropionicum SI] gi|146274066|dbj|BAF59815.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Pelotomaculum thermopropionicum SI] Length = 252 Score = 134 bits (338), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 87/237 (36%), Positives = 127/237 (53%), Gaps = 4/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG+ASRR ER+IA VKVNG ++ V + D I+V + R Sbjct: 14 ERLQKVMARAGVASRRHCERLIAAGAVKVNGKVVTEVGCKVDPARDKIQVGNRTISLFPR 73 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G VTT SD GR V D L + RV VGRLD ++EGLLLLTNDG L Sbjct: 74 RYYILLYKPRGYVTTLSDEKGRKKVTDLLKGVAGRVYPVGRLDYDSEGLLLLTNDGELTY 133 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y V G ++KL + G++++ +V L ++G N + + Sbjct: 134 ALTHPKHRVPKTYVVSVKGLPGREKLEKMAGGLMLEDGPTAPARVRLIGRRGKNVLLEIT 193 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQLG 246 + EG+NR+I+++ + V RL R G +G L G R +++ K L+E G Sbjct: 194 ISEGRNRQIRRMCDSIGHPVVRLKRTKLGSLSIGNLRPGQYRHLTREEIKKLKEDAG 250 >gi|270291299|ref|ZP_06197521.1| ribosomal large subunit pseudouridine synthase B [Pediococcus acidilactici 7_4] gi|304385048|ref|ZP_07367394.1| ribosomal large subunit pseudouridine synthase B [Pediococcus acidilactici DSM 20284] gi|270280145|gb|EFA25981.1| ribosomal large subunit pseudouridine synthase B [Pediococcus acidilactici 7_4] gi|304329242|gb|EFL96462.1| ribosomal large subunit pseudouridine synthase B [Pediococcus acidilactici DSM 20284] Length = 237 Score = 134 bits (338), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 81/227 (35%), Positives = 128/227 (56%), Gaps = 5/227 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ KV+A AG+ASRR+ E++IA+ VKVNG +++ V D IEVD VP+++ Sbjct: 1 MAEERLQKVMAEAGVASRRKSEKLIAEGHVKVNGRVVKELGTKVEQHDRIEVDEVPIQR- 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E+ +L +KP G++T+ SD R TV D P + R+ VGRLD +T G +L+TNDG L Sbjct: 60 EQNVYFLLNKPRGVITSVSDDKNRKTVMDFFPDVTERIYPVGRLDYDTSGAVLMTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQKGSNA 187 A L P ++ + Y + G V+ L L++G+VI + L D +K + + Sbjct: 120 ANRLMHPKFKFEKTYTAKVKGLVNGSALKRLEEGVVIDHRKTAKAKAKLISTDLEKKT-S 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V + + EG+N ++KK+F V +L R SY + + +G R Sbjct: 179 IVQLTIHEGRNHQVKKMFMAVGHPVQKLHRNSYSFLSIDDVQSGKWR 225 >gi|313895603|ref|ZP_07829159.1| pseudouridine synthase B, ribosomal large subunit [Selenomonas sp. oral taxon 137 str. F0430] gi|312975729|gb|EFR41188.1| pseudouridine synthase B, ribosomal large subunit [Selenomonas sp. oral taxon 137 str. F0430] Length = 243 Score = 134 bits (338), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 82/231 (35%), Positives = 130/231 (56%), Gaps = 1/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 +R+ K++A AGIASRR E MI RV V+G+ + + H I VDG+P++K Sbjct: 3 ERLQKILANAGIASRRSAEEMIRAGRVTVDGVCVTGLGRKYDAALHEIAVDGIPVQKETE 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G ++T D GR TV D LP +R+ VGRLD +TEGLLL+TNDG + + Sbjct: 63 RVYLLLNKPVGYLSTARDDRGRKTVLDLLPHTSTRLYPVGRLDADTEGLLLITNDGAMTQ 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VYR G + +KL L+ GI+++ +V + + V + Sbjct: 123 GLLHPRYEIDKVYRAEIEGALTPEKLRHLRGGILLEDGITAPARVRIFAADSTVTTVEIV 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EG+NR+++++F +V RL R+ + L L G++R +S + +RE Sbjct: 183 IHEGRNRQVRRMFAAVGCRVLRLRRVRFAMLTLKDLPCGASRPLSAEEIRE 233 >gi|332686546|ref|YP_004456320.1| ribosomal large subunit pseudouridine synthase B [Melissococcus plutonius ATCC 35311] gi|332370555|dbj|BAK21511.1| ribosomal large subunit pseudouridine synthase B [Melissococcus plutonius ATCC 35311] Length = 236 Score = 134 bits (338), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 87/228 (38%), Positives = 129/228 (56%), Gaps = 5/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KV+A AGIASRR+ E++I + RVKVNG ++ V D IEVD VP+ + E Sbjct: 3 RLQKVLAHAGIASRRKAEQIILEGRVKVNGEIINELGRQVSKQDKIEVDNVPIYQ-EAPV 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L++KP G++T+ SD R TV D RV VGRLD +T GLL++TNDG L + L Sbjct: 62 YYLFYKPRGIITSVSDDKKRKTVADYFLHSNERVYPVGRLDYDTTGLLIVTNDGSLTQQL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQV-TLDTQKGSNAWVTV 191 PS + +VY + G + L L KGI I+G + Q+ ++DT+K + V + Sbjct: 122 THPSHEIDKVYVAKVKGIALRKTLLPLTKGIKIKGRKTAPANFQILSVDTKK-QTSLVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+N ++K + + + V +L R G L L G R ++KK Sbjct: 181 TIHEGRNHQVKDMLDTVGYPVQKLKRERIGDLTLEGLHPGEYRRLTKK 228 >gi|323342117|ref|ZP_08082350.1| pseudouridylate synthase [Erysipelothrix rhusiopathiae ATCC 19414] gi|322464542|gb|EFY09735.1| pseudouridylate synthase [Erysipelothrix rhusiopathiae ATCC 19414] Length = 246 Score = 134 bits (338), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 79/225 (35%), Positives = 126/225 (56%), Gaps = 5/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +G SRR+ E +I + +VKVNGI + + V + D + V+G+ + E+ Sbjct: 8 RLQKFIAMSGYCSRRKAEVLINEGKVKVNGIKVTEQGLKVSTEDRVMVNGILINVEEKKV 67 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G+V++ +D R +V D +P+ RV VGRLD T G L+LTNDG A + Sbjct: 68 YYILNKPRGIVSSANDDKDRESVVDLVPNDI-RVFPVGRLDRETTGALILTNDGDFAYYM 126 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT---LDTQKGSNAWVTV 191 P ++YRV G++ + N LK+GI I+G+ Y ++++ D K + ++ Sbjct: 127 THPKFDLSKIYRVSVRGRLSYEVTNSLKEGITIEGVEYKGVEISRVKYDAAKDKTQF-SI 185 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 L EGKNR+I+K+F F V +L R G + L G RE+ Sbjct: 186 TLHEGKNRQIRKIFAHFGLPVLKLHRYQIGYLDIDELKIGQYREL 230 >gi|152981088|ref|YP_001354188.1| ribosomal large subunit pseudouridine synthase B [Janthinobacterium sp. Marseille] gi|151281165|gb|ABR89575.1| ribosomal large subunit pseudouridine synthase B [Janthinobacterium sp. Marseille] Length = 546 Score = 134 bits (338), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 79/224 (35%), Positives = 131/224 (58%), Gaps = 10/224 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 +++ ++ P ++ KV+A AG+ SRR++E +I RV VNG E A + ++ TD + Sbjct: 175 RDLTADDDAP-KLHKVLAEAGLGSRRDMEELIIAGRVSVNG---EPAHIGQRILPTDQVR 230 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G +++ + R+ +YHKP G + + +DP+GR +VFD LP++ ++ ++VGRLD N Sbjct: 231 INGKLIQRKVSKKPPRVLVYHKPAGEIVSTNDPEGRPSVFDRLPTMKAAKWLAVGRLDFN 290 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLL T G LA L P R Y VR G++++ L G+ ++ ++ Sbjct: 291 TEGLLLFTTSGDLANRLMHPRYGIDREYAVRTLGELEEGMRQKLLAGVELEDGLAQFSKI 350 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 +G N W V + EG+NRE++++FE V+RLIR YG Sbjct: 351 ADGGGEGVNKWYRVTIGEGRNREVRRMFEAIGLTVSRLIRTRYG 394 >gi|301327006|ref|ZP_07220295.1| conserved hypothetical protein [Escherichia coli MS 78-1] gi|300846389|gb|EFK74149.1| conserved hypothetical protein [Escherichia coli MS 78-1] Length = 274 Score = 134 bits (337), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 83/204 (40%), Positives = 118/204 (57%), Gaps = 6/204 (2%) Query: 28 RREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKAER--TRLWLYHKPI 82 RRE+E +I RV V+G + + V V I +DG + +R++ R+ Y+KP Sbjct: 1 RREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRESAEQICRVLAYYKPE 60 Query: 83 GLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQW 141 G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T DG LA L PS + Sbjct: 61 GELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREV 120 Query: 142 LRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREI 201 R Y VR GQVD KL L +G+ ++ + +G N W V L EG+NRE+ Sbjct: 121 EREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQWYNVTLTEGRNREV 180 Query: 202 KKVFEFFNWKVNRLIRISYGPFQL 225 ++++E +V+RLIR+ YG L Sbjct: 181 RRLWEAVGVQVSRLIRVRYGDIPL 204 >gi|293609082|ref|ZP_06691385.1| conserved hypothetical protein [Acinetobacter sp. SH024] gi|292829655|gb|EFF88017.1| conserved hypothetical protein [Acinetobacter sp. SH024] gi|325121143|gb|ADY80666.1| putative ribosomal large subunit pseudouridine synthase B [Acinetobacter calcoaceticus PHEA-2] Length = 307 Score = 134 bits (337), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 81/213 (38%), Positives = 123/213 (57%), Gaps = 6/213 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----VPLRK 69 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG + Sbjct: 3 EKLQKVLARIGLGSRRYMEEVIAAGRVSVNGRVAQ-VGERIEPGDELRIDGRKVQFQIED 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R R+ +Y+KP G + + +DP+ R TVFD+LP I + R + VGRLDIN+ GLLL TNDG Sbjct: 62 EIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y VR G+V + G+ ++ + +G N W Sbjct: 122 ELANRLMHPSNEIEREYAVRVMGEVTPKLRQNMVNGVELEDGPAKFESFSEIGGEGINRW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V ++EG+NRE++++FE + KV+RL+R YG Sbjct: 182 YQVVVKEGRNREVRRIFESQDLKVSRLLRTRYG 214 >gi|313123532|ref|YP_004033791.1| pseudouridine synthase [Lactobacillus delbrueckii subsp. bulgaricus ND02] gi|312280095|gb|ADQ60814.1| Pseudouridine synthase [Lactobacillus delbrueckii subsp. bulgaricus ND02] gi|325684293|gb|EGD26466.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus delbrueckii subsp. lactis DSM 20072] Length = 239 Score = 134 bits (337), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 81/228 (35%), Positives = 127/228 (55%), Gaps = 3/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRRE E+MI RV+V+G ++ + V S + + VD P+ + E Sbjct: 4 ERLQKVIAQAGIASRREAEKMILAGRVRVDGQVVTKLGTKVSSIEQVVVDNQPIER-ESH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+++ D GR TV D + R+ VGRLD +T GLLL+TNDG LA + Sbjct: 63 HTYLFYKPRGVISAVKDNKGRKTVADYFTDLPYRLYPVGRLDYDTSGLLLMTNDGELANL 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G + D++ LKKG+ I ++V + V + Sbjct: 123 LMHPRNEVDKVYVAKIKGILQPDEIKALKKGVQIGRYKTKPARVKVLKTNPRAQTQIVQL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG ++K++F+ N V++L R Y L L +G RE++ K Sbjct: 183 TIHEGHYHQVKEMFKAVNHLVDKLSRERYSFLDLQGLTSGQYRELNHK 230 >gi|261210662|ref|ZP_05924954.1| ribosomal large subunit pseudouridine synthase B [Vibrio sp. RC341] gi|260840147|gb|EEX66727.1| ribosomal large subunit pseudouridine synthase B [Vibrio sp. RC341] Length = 319 Score = 134 bits (337), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 114/293 (38%), Positives = 156/293 (53%), Gaps = 38/293 (12%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDH--IEVDG--VP 66 +++ KV+ARAG SRRE+E +I RV VNG +L ER + D+ + VDG V Sbjct: 3 EKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGER-----LEDDNALVRVDGHVVS 57 Query: 67 LRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLL 123 ++ E R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL Sbjct: 58 VKAQEEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLL 117 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS Q R Y VR G V+++K+ L +G+ ++ V + Sbjct: 118 FTTDGELANRLMHPSRQVEREYLVRVFGDVNEEKVRNLVRGVQLEDGMARFEDVMYAGGE 177 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 G N V + EG+NRE+++++E V+RL R+ YG L KK+ R Sbjct: 178 GINHTFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFL-----------DKKLPRG 226 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRP---NIISEVPDDFTRMKKNS-SQK 292 G L+ QVN Y E LV RP +++ PD TR ++ + SQK Sbjct: 227 --GWMELDLKQVN-----YLRE-LVELRPEKETVLNTAPDAATRKRERTRSQK 271 >gi|184157088|ref|YP_001845427.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter baumannii ACICU] gi|332872664|ref|ZP_08440632.1| pseudouridine synthase B, ribosomal large subunit [Acinetobacter baumannii 6014059] gi|183208682|gb|ACC56080.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter baumannii ACICU] gi|322506987|gb|ADX02441.1| Pseudouridine synthase [Acinetobacter baumannii 1656-2] gi|323516854|gb|ADX91235.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter baumannii TCDC-AB0715] gi|332739193|gb|EGJ70052.1| pseudouridine synthase B, ribosomal large subunit [Acinetobacter baumannii 6014059] Length = 307 Score = 134 bits (337), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 84/219 (38%), Positives = 126/219 (57%), Gaps = 18/219 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----VPLRK 69 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG + Sbjct: 3 EKLQKVLARIGLGSRRYMEEVIAAGRVSVNGRIAQ-VGERIEPGDELRIDGRKVQFQIED 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R R+ +Y+KP G + + +DP+ R TVFD+LP I + R + VGRLDIN+ GLLL TNDG Sbjct: 62 EIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVD-QDKLNLLKKGIVIQGICYGDMQVTLDT-----Q 182 LA L PS + R Y VR G+V Q + N+ + G+ D ++ Sbjct: 122 ELANRLMHPSNEIEREYAVRVMGEVTPQLRQNM------VNGVELEDGPAKFESFSEIGG 175 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 +G N W V ++EG+NRE++++FE KV+RL+R YG Sbjct: 176 EGINRWYQVVVKEGRNREVRRIFESQGLKVSRLLRTRYG 214 >gi|160872807|ref|ZP_02062939.1| RNA pseudouridine synthase family protein [Rickettsiella grylli] gi|159121606|gb|EDP46944.1| RNA pseudouridine synthase family protein [Rickettsiella grylli] Length = 245 Score = 134 bits (336), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 78/217 (35%), Positives = 125/217 (57%), Gaps = 6/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----K 69 +++ K++A G+ SRRE+ER I RV +NG + + + + +D +R K Sbjct: 3 EKIQKILAHFGLGSRREIERWIHDGRVHING-QPAKLGMRIHLKAKVTIDNQRIRLTTNK 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ +YHKP+G + + SDP TVF++LP + R + +GRLD+NT GLL+ TN+G Sbjct: 62 PFERRVLIYHKPLGEICSRSDPRHHVTVFEHLPRLRDQRWVMIGRLDMNTSGLLIFTNEG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 A L PS Q R Y VR G+V++ L+ LKKG++++ + G+N W Sbjct: 122 EFAYRLSHPSYQIEREYVVRVLGKVNKSMLDRLKKGVMLKEKRAAFTSIQASGGSGANRW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L+EG+NRE+++++E V+RL+RI +G L Sbjct: 182 YHVVLKEGRNREVRRLWETQGVTVSRLMRIRFGNVSL 218 >gi|312862494|ref|ZP_07722736.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus vestibularis F0396] gi|322517477|ref|ZP_08070350.1| ribosomal large subunit pseudouridine synthase B [Streptococcus vestibularis ATCC 49124] gi|311101899|gb|EFQ60100.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus vestibularis F0396] gi|322123959|gb|EFX95518.1| ribosomal large subunit pseudouridine synthase B [Streptococcus vestibularis ATCC 49124] Length = 241 Score = 134 bits (336), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 83/230 (36%), Positives = 131/230 (56%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I + RV +NG + A V S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKEGRVTLNGKTVTELATIVKSGDIVEVNGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD R TV D +P + R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVSDEKNRKTVIDLMPHVKERIYPVGRLDWDTTGLLILTNDGDFTDKM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G ++ L L +G+V+ G Y ++V D +K + + V Sbjct: 121 IHPRNEIDKVYLARVKGIATKENLRPLIRGVVLDGKKTQPARYNIIKV--DHEK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE V++L R +G L L G +R ++KK Sbjct: 178 ELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLDLTGLRPGESRRLNKK 227 >gi|262165448|ref|ZP_06033185.1| ribosomal large subunit pseudouridine synthase B [Vibrio mimicus VM223] gi|262402464|ref|ZP_06079025.1| ribosomal large subunit pseudouridine synthase B [Vibrio sp. RC586] gi|262025164|gb|EEY43832.1| ribosomal large subunit pseudouridine synthase B [Vibrio mimicus VM223] gi|262351246|gb|EEZ00379.1| ribosomal large subunit pseudouridine synthase B [Vibrio sp. RC586] Length = 319 Score = 134 bits (336), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 114/293 (38%), Positives = 156/293 (53%), Gaps = 38/293 (12%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDH--IEVDG--VP 66 +++ KV+ARAG SRRE+E +I RV VNG +L ER + D+ + VDG V Sbjct: 3 EKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGER-----LEDDNALVRVDGHVVS 57 Query: 67 LRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLL 123 ++ E R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL Sbjct: 58 VKAQEEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLL 117 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS Q R Y VR G V+++K+ L +G+ ++ V + Sbjct: 118 FTTDGELANRLMHPSRQVEREYLVRVFGDVNEEKVRNLVRGVQLEDGMARFEDVMYAGGE 177 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 G N V + EG+NRE+++++E V+RL R+ YG L KK+ R Sbjct: 178 GINHTFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFL-----------DKKLPRG 226 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRP---NIISEVPDDFTRMKKNS-SQK 292 G L+ QVN Y E LV RP +++ PD TR ++ + SQK Sbjct: 227 --GWMELDLKQVN-----YLRE-LVELRPEKETVLNTAPDAATRKRERTRSQK 271 >gi|260768728|ref|ZP_05877662.1| ribosomal large subunit pseudouridine synthase B [Vibrio furnissii CIP 102972] gi|260616758|gb|EEX41943.1| ribosomal large subunit pseudouridine synthase B [Vibrio furnissii CIP 102972] Length = 314 Score = 134 bits (336), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 122/218 (55%), Gaps = 7/218 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E +I RV VNG +L ER + + I+ V + Sbjct: 3 EKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLE-DENAVVRIDGHAVSAKAQ 61 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G V +DK+ L +G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGDVTEDKIRNLVRGVQLEDGLARFEDVVYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE+++++E V+RL R+ YG L Sbjct: 182 TFYVVINEGRNREVRRLWESQETTVSRLKRVRYGDIFL 219 >gi|262280085|ref|ZP_06057870.1| ribosomal large subunit pseudouridine synthase B [Acinetobacter calcoaceticus RUH2202] gi|262260436|gb|EEY79169.1| ribosomal large subunit pseudouridine synthase B [Acinetobacter calcoaceticus RUH2202] Length = 307 Score = 134 bits (336), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 81/213 (38%), Positives = 122/213 (57%), Gaps = 6/213 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----VPLRK 69 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG + Sbjct: 3 EKLQKVLARIGLGSRRYMEEVIAAGRVSVNGRVAQ-VGERIEPGDELRIDGRKVQFQIED 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R R+ +Y+KP G + + +DP+ R TVFD+LP I + R + VGRLDIN+ GLLL TNDG Sbjct: 62 EIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y VR G+V + G+ ++ + +G N W Sbjct: 122 ELANRLMHPSNEIEREYAVRVMGEVTPKIRQKMVTGVELEDGPAKFESFSEIGGEGINRW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V ++EG+NRE++++FE KV+RL+R YG Sbjct: 182 YQVVVKEGRNREVRRIFESQELKVSRLLRTRYG 214 >gi|262171789|ref|ZP_06039467.1| ribosomal large subunit pseudouridine synthase B [Vibrio mimicus MB-451] gi|261892865|gb|EEY38851.1| ribosomal large subunit pseudouridine synthase B [Vibrio mimicus MB-451] Length = 319 Score = 134 bits (336), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 114/293 (38%), Positives = 156/293 (53%), Gaps = 38/293 (12%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDH--IEVDG--VP 66 +++ KV+ARAG SRRE+E +I RV VNG +L ER + D+ + VDG V Sbjct: 3 EKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGER-----LEDDNALVRVDGHVVS 57 Query: 67 LRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLL 123 ++ E R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL Sbjct: 58 VKAQEEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLL 117 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS Q R Y VR G V+++K+ L +G+ ++ V + Sbjct: 118 FTTDGELANRLMHPSRQVEREYLVRVFGDVNEEKVRNLVRGVQLEDGMARFEDVMYAGGE 177 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 G N V + EG+NRE+++++E V+RL R+ YG L KK+ R Sbjct: 178 GINHTFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFL-----------DKKLPRG 226 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRP---NIISEVPDDFTRMKKNS-SQK 292 G L+ QVN Y E LV RP +++ PD TR ++ + SQK Sbjct: 227 --GWMELDLKQVN-----YLRE-LVELRPEKETVLNTAPDAATRKRERTRSQK 271 >gi|166366480|ref|YP_001658753.1| ribosomal large subunit pseudouridine synthase B [Microcystis aeruginosa NIES-843] gi|166088853|dbj|BAG03561.1| probable ribosomal large subunit pseudouridine synthase B [Microcystis aeruginosa NIES-843] Length = 248 Score = 134 bits (336), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 87/219 (39%), Positives = 121/219 (55%), Gaps = 5/219 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV K++A+ GIASRR E MI RV+ NG +++ DH+E+DG + A R Sbjct: 3 ERVQKILAQWGIASRRRAEEMIVAGRVRRNGKIVQLGEKADPEKDHLEIDGKKIEPANRP 62 Query: 74 -RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 RL+ L +KPIG+V+T DP R TV D LP + + VGRLDINT G LLLTNDG Sbjct: 63 KRLYILVNKPIGVVSTCRDPQNRPTVIDLLPDSLASETGLHPVGRLDINTTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + YRV G +D+ L ++GI+++G QV + Q Sbjct: 123 QLTLTLTHPRYHLPKTYRVWLDGAIDRLALQRWREGILLEGKKTLPAQVEILKQTDQKTL 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 + V L EG+NR+I+ V E + V +L R + G QL + Sbjct: 183 LEVILVEGRNRQIRSVAEELGYHVLKLHRSAIGRIQLNS 221 >gi|260555709|ref|ZP_05827929.1| ribosomal large subunit pseudouridine synthase B [Acinetobacter baumannii ATCC 19606] gi|260410620|gb|EEX03918.1| ribosomal large subunit pseudouridine synthase B [Acinetobacter baumannii ATCC 19606] Length = 307 Score = 134 bits (336), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 81/213 (38%), Positives = 122/213 (57%), Gaps = 6/213 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----VPLRK 69 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG + Sbjct: 3 EKLQKVLARIGLGSRRYMEEVIAAGRVSVNGRVAQ-VGERIEPGDELRIDGRKVQFQIED 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R R+ +Y+KP G + + +DP+ R TVFD+LP I + R + VGRLDIN+ GLLL TNDG Sbjct: 62 EIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y VR G+V + G+ ++ + +G N W Sbjct: 122 ELANRLMHPSNEIEREYAVRVMGEVTPQLRQNMVNGVELEDGPAKFESFSEIGGEGINRW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V ++EG+NRE++++FE KV+RL+R YG Sbjct: 182 YQVVVKEGRNREVRRIFESQGLKVSRLLRTRYG 214 >gi|315180431|gb|ADT87345.1| pseudouridine synthase family 1 protein [Vibrio furnissii NCTC 11218] Length = 315 Score = 134 bits (336), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 122/218 (55%), Gaps = 7/218 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E +I RV VNG +L ER + + I+ V + Sbjct: 3 EKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLE-DENAVVRIDGHAVSAKAQ 61 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G V +DK+ L +G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGDVTEDKIRNLVRGVQLEDGLARFEDVVYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE+++++E V+RL R+ YG L Sbjct: 182 TFYVVINEGRNREVRRLWESQETTVSRLKRVRYGDIFL 219 >gi|260550972|ref|ZP_05825177.1| ribosomal large subunit pseudouridine synthase B [Acinetobacter sp. RUH2624] gi|260405920|gb|EEW99407.1| ribosomal large subunit pseudouridine synthase B [Acinetobacter sp. RUH2624] Length = 307 Score = 134 bits (336), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 84/219 (38%), Positives = 126/219 (57%), Gaps = 18/219 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----VPLRK 69 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG + Sbjct: 3 EKLQKVLARIGLGSRRYMEEVIAAGRVSVNGRVAQ-VGERIEPGDELRIDGRKVQFQIED 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R R+ +Y+KP G + + +DP+ R TVFD+LP I + R + VGRLDIN+ GLLL TNDG Sbjct: 62 EIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVD-QDKLNLLKKGIVIQGICYGDMQVTLDT-----Q 182 LA L PS + R Y VR G+V Q + N+ + G+ D ++ Sbjct: 122 ELANRLMHPSNEIEREYAVRVMGEVTPQLRQNM------VNGVELEDGPAKFESFSEIGG 175 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 +G N W V ++EG+NRE++++FE KV+RL+R YG Sbjct: 176 EGINRWYQVVVKEGRNREVRRIFESQGLKVSRLLRTRYG 214 >gi|320104277|ref|YP_004179868.1| pseudouridine synthase [Isosphaera pallida ATCC 43644] gi|319751559|gb|ADV63319.1| pseudouridine synthase [Isosphaera pallida ATCC 43644] Length = 655 Score = 134 bits (336), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 99/267 (37%), Positives = 135/267 (50%), Gaps = 15/267 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAE 71 PQR+ K++A AGIASRR E +I Q RV VNG + E A I +DG P+ K E Sbjct: 125 PQRLQKILAHAGIASRRACEELILQGRVTVNGETVRELGARYNPYESKIAIDGEPI-KLE 183 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +KP G + ++ DPD R V D LP I RV ++GRLD + GL+LLTNDG LA Sbjct: 184 KLVYFAVNKPKGYICSNEDPDNRPRVVDLLPEIPQRVYTIGRLDEASTGLILLTNDGELA 243 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V G D+D L L G+ + +V ++G ++ + + Sbjct: 244 NKLTHPKFGVEKRYEVVVAGHPDRDVLRKLIDGVWLSDGKVRAKKVRELGRRGDSSILEL 303 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR-----EVS--KKILREQ 244 L EGKNREI+++ KV L R++ GP L L G R EV K+I R Sbjct: 304 VLAEGKNREIRRMLARLGHKVMSLTRVAVGPITLKGLRTGEVRVLGTAEVDRLKQIARNP 363 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDR 271 P +LD+ SS RDR Sbjct: 364 FPP------TESLDSDAGSSAPAQRDR 384 >gi|169634122|ref|YP_001707858.1| putative ribosomal large subunit pseudouridine synthase B (pseudouridylate synthase) (Uracil hydrolyase) [Acinetobacter baumannii SDF] gi|169796999|ref|YP_001714792.1| putative ribosomal large subunit pseudouridine synthase B (pseudouridylate synthase) (Uracil hydrolyase) [Acinetobacter baumannii AYE] gi|213156596|ref|YP_002318257.1| ribosomal large subunit pseudouridine synthase B [Acinetobacter baumannii AB0057] gi|215484461|ref|YP_002326694.1| Ribosomal large subunit pseudouridine synthase B [Acinetobacter baumannii AB307-0294] gi|239501231|ref|ZP_04660541.1| Ribosomal large subunit pseudouridine synthase B [Acinetobacter baumannii AB900] gi|301347312|ref|ZP_07228053.1| Ribosomal large subunit pseudouridine synthase B [Acinetobacter baumannii AB056] gi|301510844|ref|ZP_07236081.1| Ribosomal large subunit pseudouridine synthase B [Acinetobacter baumannii AB058] gi|301594338|ref|ZP_07239346.1| Ribosomal large subunit pseudouridine synthase B [Acinetobacter baumannii AB059] gi|332852087|ref|ZP_08433914.1| pseudouridine synthase B, ribosomal large subunit [Acinetobacter baumannii 6013150] gi|332867485|ref|ZP_08437638.1| pseudouridine synthase B, ribosomal large subunit [Acinetobacter baumannii 6013113] gi|169149926|emb|CAM87820.1| putative ribosomal large subunit pseudouridine synthase B (Pseudouridylate synthase) (Uracil hydrolyase) [Acinetobacter baumannii AYE] gi|169152914|emb|CAP01955.1| putative ribosomal large subunit pseudouridine synthase B (Pseudouridylate synthase) (Uracil hydrolyase) [Acinetobacter baumannii] gi|193076586|gb|ABO11248.2| putative ribosomal large subunit pseudouridine synthase B [Acinetobacter baumannii ATCC 17978] gi|213055756|gb|ACJ40658.1| ribosomal large subunit pseudouridine synthase B [Acinetobacter baumannii AB0057] gi|213987354|gb|ACJ57653.1| Ribosomal large subunit pseudouridine synthase B [Acinetobacter baumannii AB307-0294] gi|332729459|gb|EGJ60798.1| pseudouridine synthase B, ribosomal large subunit [Acinetobacter baumannii 6013150] gi|332733902|gb|EGJ65047.1| pseudouridine synthase B, ribosomal large subunit [Acinetobacter baumannii 6013113] Length = 307 Score = 134 bits (336), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 84/219 (38%), Positives = 126/219 (57%), Gaps = 18/219 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----VPLRK 69 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG + Sbjct: 3 EKLQKVLARIGLGSRRYMEEVIAAGRVSVNGRVAQ-VGERIEPGDELRIDGRKVQFQIED 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R R+ +Y+KP G + + +DP+ R TVFD+LP I + R + VGRLDIN+ GLLL TNDG Sbjct: 62 EIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVD-QDKLNLLKKGIVIQGICYGDMQVTLDT-----Q 182 LA L PS + R Y VR G+V Q + N+ + G+ D ++ Sbjct: 122 ELANRLMHPSNEIEREYAVRVMGEVTPQLRQNM------VNGVELEDGPAKFESFSEIGG 175 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 +G N W V ++EG+NRE++++FE KV+RL+R YG Sbjct: 176 EGINRWYQVVVKEGRNREVRRIFESQGLKVSRLLRTRYG 214 >gi|325982253|ref|YP_004294655.1| pseudouridine synthase Rsu [Nitrosomonas sp. AL212] gi|325531772|gb|ADZ26493.1| pseudouridine synthase Rsu [Nitrosomonas sp. AL212] Length = 276 Score = 134 bits (336), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 77/218 (35%), Positives = 127/218 (58%), Gaps = 11/218 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVN---GILLERAAVNVMSTDHIEVDGVPLR--- 68 ++ K++A+ G+ SRRE+E +IA +VK+N ++ +RA D + + +R Sbjct: 38 KLQKLLAQKGLGSRREMEALIASGQVKLNDHIAVIGDRAG----PGDIVRIGRRVIRIHE 93 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + E ++ LYHKP G + + +DP R +VFD LP + S+ I++GRLD NT GLL+ TND Sbjct: 94 EEELPKVLLYHKPEGEIVSRNDPQDRPSVFDKLPYLRSSKWIAIGRLDFNTSGLLIFTND 153 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA + P + R Y VR G++ ++++ L GI ++ + +G+N Sbjct: 154 GALANRMMHPRFEMEREYAVRILGELTEEQMQQLTTGITLEDGEAAFTYLADQGGEGANH 213 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L+EGKNRE++++F V+RL+R+ +GP L Sbjct: 214 WYRVILKEGKNREVRRMFGAIGLTVSRLMRVRFGPINL 251 >gi|125973211|ref|YP_001037121.1| ribosomal large subunit pseudouridine synthase B [Clostridium thermocellum ATCC 27405] gi|256003686|ref|ZP_05428674.1| pseudouridine synthase [Clostridium thermocellum DSM 2360] gi|281417410|ref|ZP_06248430.1| pseudouridine synthase [Clostridium thermocellum JW20] gi|125713436|gb|ABN51928.1| ribosomal large subunit pseudouridine synthase B [Clostridium thermocellum ATCC 27405] gi|255992247|gb|EEU02341.1| pseudouridine synthase [Clostridium thermocellum DSM 2360] gi|281408812|gb|EFB39070.1| pseudouridine synthase [Clostridium thermocellum JW20] gi|316940559|gb|ADU74593.1| pseudouridine synthase [Clostridium thermocellum DSM 1313] Length = 239 Score = 134 bits (336), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 83/226 (36%), Positives = 121/226 (53%), Gaps = 2/226 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A G+ASRR+ E +I+Q RVKVNG + + V D +EVDG L K E+ + Sbjct: 5 RLQKYLAECGVASRRKAEELISQGRVKVNGETVTQMGKKVSQNDVVEVDG-KLVKMEKRK 63 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +++ +KP+G +++ D GR TV D + I R+ VGRLD +T GLLLLTNDG A Sbjct: 64 VYIALNKPVGYISSVKDQFGRKTVMDLVKDIKERIFPVGRLDYDTSGLLLLTNDGDFAYR 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + +VY G +D + K G+ I + G V + + Sbjct: 124 LTHPKHEIKKVYEADLLGVPSKDDIMRFKNGLWIDDYFTSPADFEILKSDGKTTKVRITI 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 EGKNR+++K+ V RL RIS G LG L GS R ++++ Sbjct: 184 HEGKNRQVRKMCNKIGCPVIRLKRISIGEVSLGDLKEGSWRNLTER 229 >gi|258621657|ref|ZP_05716688.1| pseudouridine synthase family 1 protein [Vibrio mimicus VM573] gi|258626398|ref|ZP_05721245.1| pseudouridine synthase family 1 protein [Vibrio mimicus VM603] gi|258581450|gb|EEW06352.1| pseudouridine synthase family 1 protein [Vibrio mimicus VM603] gi|258585888|gb|EEW10606.1| pseudouridine synthase family 1 protein [Vibrio mimicus VM573] Length = 319 Score = 134 bits (336), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 93/222 (41%), Positives = 127/222 (57%), Gaps = 15/222 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDH--IEVDG--VP 66 +++ KV+ARAG SRRE+E +I RV VNG +L ER + D+ + VDG V Sbjct: 3 EKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGER-----LEDDNALVRVDGHVVS 57 Query: 67 LRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLL 123 ++ E R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL Sbjct: 58 VKAQEEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLL 117 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS Q R Y VR G V+++K+ L +G+ ++ V + Sbjct: 118 FTTDGELANRLMHPSRQVEREYLVRVFGDVNEEKVRNLVRGVQLEDGMARFEDVMYAGGE 177 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N V + EG+NRE+++++E V+RL R+ YG L Sbjct: 178 GINHTFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFL 219 >gi|262283235|ref|ZP_06061002.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. 2_1_36FAA] gi|262261487|gb|EEY80186.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. 2_1_36FAA] Length = 242 Score = 133 bits (335), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 82/230 (35%), Positives = 132/230 (57%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V +NG ++ A V + D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTINGQVVRELATLVKTGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ +D GR TV D LP + R+ VGRLD +T GLL+LTNDG + Sbjct: 61 YYLLNKPRGVISSVTDDKGRKTVVDLLPQVKERIYPVGRLDWDTSGLLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +G+ I G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGIANKENLLPLTRGVEIDGKKTKPAVYEIIKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+F+ +V++L R +G L L G +R ++KK Sbjct: 178 QLTIHEGRNHQVKKMFQAVGLEVDKLSRTRFGHLDLTGLRPGESRRLNKK 227 >gi|323439505|gb|EGA97226.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus O11] Length = 245 Score = 133 bits (335), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 76/223 (34%), Positives = 129/223 (57%), Gaps = 3/223 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I++ + KVNG + V +D IEV+G+ + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLISEGKAKVNGTTVTELGTKVKPSDTIEVEGIKIELEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 YI-LFHKPTQVITSVSDDRGRTVVTDYFKDIEARIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQKGSNAWVTV 191 + P Q + Y + G + ++++ L+KGI ++ G+ +++V + + V + Sbjct: 125 MTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELEDGMTQPAEVKVKKQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EG+NR+++++ E F +V +L RI YGP + L AG R Sbjct: 185 TITEGRNRQVRRMLEHFGHQVTKLSRIEYGPLNVVGLNAGEGR 227 >gi|320529017|ref|ZP_08030109.1| hypothetical protein HMPREF9555_00165 [Selenomonas artemidis F0399] gi|320138647|gb|EFW30537.1| hypothetical protein HMPREF9555_00165 [Selenomonas artemidis F0399] Length = 244 Score = 133 bits (335), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 80/231 (34%), Positives = 131/231 (56%), Gaps = 1/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 +R+ K++A AGIASRR E MI RV V+G+ + + H I VDG+P++K Sbjct: 4 ERLQKILANAGIASRRSAEEMIRAGRVTVDGVCVTELGRKYDAALHEIAVDGIPVQKETE 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G ++T D GR TV D LP +R+ VGRLD +TEGLLL+TNDG + + Sbjct: 64 RVYLLLNKPVGYLSTARDDRGRKTVLDLLPHTSARLYPVGRLDADTEGLLLITNDGAMTQ 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VYR G + +KL L+ GI+++ ++ + + + + + Sbjct: 124 GLLHPRYEIDKVYRAEIEGALTPEKLRHLRGGILLEDGITAPARMRILSADDTVTTIEIV 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EG+NR+++++F +V RL R+ + L L G++R +S + +RE Sbjct: 184 IHEGRNRQVRRMFAAVGCRVLRLRRVRFAMLTLKDLPCGASRPLSAEEIRE 234 >gi|319794363|ref|YP_004156003.1| pseudouridine synthase [Variovorax paradoxus EPS] gi|315596826|gb|ADU37892.1| pseudouridine synthase [Variovorax paradoxus EPS] Length = 601 Score = 133 bits (335), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 82/213 (38%), Positives = 119/213 (55%), Gaps = 9/213 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR---K 69 ++ KV+A+AG+ SR E+E +I Q R+ VN E A + + D ++++G P+R Sbjct: 186 KLHKVLAQAGLGSRLEMEALILQGRISVNN---EPAHIGQRIQYGDQVKINGKPIRYRIA 242 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP+G V TH DP R TVF LP + + SVGRLD+NTEGLLL ++ G Sbjct: 243 PPPPRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLQQGKWQSVGRLDLNTEGLLLFSSSG 302 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P R Y VR G + ++ L G+ ++ + +GSN W Sbjct: 303 DLANQLMHPRFGLEREYAVRVLGALSSEEKQKLLDGVRLEDGMAQFGTIEEGGGEGSNCW 362 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V + EG+NRE++++FE V+RLIRI YG Sbjct: 363 YRVTISEGRNREVRRLFESVGHAVSRLIRIRYG 395 >gi|299771357|ref|YP_003733383.1| Ribosomal large subunit pseudouridine synthase B [Acinetobacter sp. DR1] gi|298701445|gb|ADI92010.1| Ribosomal large subunit pseudouridine synthase B [Acinetobacter sp. DR1] Length = 307 Score = 133 bits (335), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 81/213 (38%), Positives = 122/213 (57%), Gaps = 6/213 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----VPLRK 69 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG + Sbjct: 3 EKLQKVLARIGLGSRRYMEEVIAAGRVSVNGRVAQ-VGERIEPGDELRIDGRKVQFQIED 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R R+ +Y+KP G + + +DP+ R TVFD+LP I + R + VGRLDIN+ GLLL TNDG Sbjct: 62 EIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y VR G+V + G+ ++ + +G N W Sbjct: 122 ELANRLMHPSNEVEREYAVRVMGEVTPKIRQNMVNGVELEDGPAKFESFSEIGGEGINRW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V ++EG+NRE++++FE KV+RL+R YG Sbjct: 182 YQVVVKEGRNREVRRIFESQELKVSRLLRTRYG 214 >gi|291544370|emb|CBL17479.1| ribosomal large subunit pseudouridine synthase B [Ruminococcus sp. 18P13] Length = 242 Score = 133 bits (335), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 89/233 (38%), Positives = 128/233 (54%), Gaps = 9/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDG--VPLRK 69 R+ K+IA +G SRR+ E IA +VK NG L ++A S D I V+G + + K Sbjct: 5 RIQKIIADSGYCSRRKAESFIAAGQVKCNGRPVKLGDKAG----SRDLITVNGERIAIPK 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ + +KP G VTT SD R V D L + RV VGRLD N+EGLLLLTNDG Sbjct: 61 KKQKLYLMLNKPRGYVTTMSDELDRRCVMDLLEDVPERVYPVGRLDRNSEGLLLLTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + PS + YRV + +L L +G+ I G V + T++ + Sbjct: 121 FANSIMHPSRHVSKTYRVTVRPDITDQQLVQLSEGVEIDGKPTLPATVNVLTKEPGRVVL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + +REG+NR+I+++ E +V RL RIS GP +LG L G+ RE++ + LR Sbjct: 181 LITIREGRNRQIRRMCEAVGLEVARLRRISIGPLKLGMLKPGTYRELTAEELR 233 >gi|315038194|ref|YP_004031762.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus amylovorus GRL 1112] gi|325956646|ref|YP_004292058.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus acidophilus 30SC] gi|312276327|gb|ADQ58967.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus amylovorus GRL 1112] gi|325333211|gb|ADZ07119.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus acidophilus 30SC] gi|327183471|gb|AEA31918.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus amylovorus GRL 1118] Length = 238 Score = 133 bits (335), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 81/227 (35%), Positives = 126/227 (55%), Gaps = 3/227 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA AGIASRR+ E+MI RVKV+G ++ + V + +I VD P+ + E Sbjct: 3 ERLQKIIAEAGIASRRKAEKMITAGRVKVDGKVITKLGTKVDTFSNITVDDEPIER-ESL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+V+T SD R TV D + R+ VGRLD +T GLLL+TNDG LA + Sbjct: 62 HTYLFYKPRGVVSTASDDKDRKTVVDYFEDVPYRLYPVGRLDYDTSGLLLMTNDGKLANL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNAW-VTV 191 L P + +VY + G + +++ L G+ + +V L T K + V + Sbjct: 122 LMHPRNEVSKVYVAKIKGILTPEEIKTLTHGVKLDDFKAAPAKVKVLKTDKRKDTQIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG ++K++F+ V +L R Y L +L +G RE+SK Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVEKLSREKYAFLTLDSLTSGQYRELSK 228 >gi|160931609|ref|ZP_02079004.1| hypothetical protein CLOLEP_00441 [Clostridium leptum DSM 753] gi|156869480|gb|EDO62852.1| hypothetical protein CLOLEP_00441 [Clostridium leptum DSM 753] Length = 242 Score = 133 bits (335), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 79/223 (35%), Positives = 126/223 (56%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K++A G+ASRR+ E +I Q +VKVNG + + TDH+ V G + + + Sbjct: 7 RLQKMLADCGVASRRKAEELIQQGKVKVNGHVAQIGDKVNPKTDHVTVAGRRIVASRQYY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + HKP G V+T SD GR V + + I +RV VGRLD ++EGLLL+TNDG A ++ Sbjct: 67 YIMLHKPRGYVSTMSDEMGRKCVAELVKDIPARVYPVGRLDRDSEGLLLMTNDGEFANLI 126 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 PS + YRV + +++L L+ G+ I G+ + +++ + + LR Sbjct: 127 MHPSKHVPKTYRVTVRPDISEEQLALMNVGMEIDGVRTAPADAWVISREPGRVVLEIILR 186 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 EG+NR+I+K+ E +V RL R++ G +LG L G R ++ Sbjct: 187 EGRNRQIRKMCEQLGVEVARLKRVAVGQVKLGMLQPGKWRNLT 229 >gi|239815173|ref|YP_002944083.1| pseudouridine synthase [Variovorax paradoxus S110] gi|239801750|gb|ACS18817.1| pseudouridine synthase [Variovorax paradoxus S110] Length = 604 Score = 133 bits (335), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 86/218 (39%), Positives = 121/218 (55%), Gaps = 19/218 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR---K 69 ++ KV+A+AG+ SR E+E +I Q R+ VN E A + + D ++++G P+R Sbjct: 199 KLHKVLAQAGLGSRLEMEALILQGRISVNN---EPAHIGQRIQYGDQVKINGKPIRYRIA 255 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP+G V TH DP R TVF LP + + SVGRLD+NTEGLLL ++ G Sbjct: 256 PPPPRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLQQGKWQSVGRLDLNTEGLLLFSSSG 315 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-----QK 183 LA L P R Y VR G LN +K +++G+ D T + Sbjct: 316 DLANQLMHPRFGLEREYAVRVLG-----ALNAEEKKKLLEGVRLDDGMAQFGTIEEGGGE 370 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 GSN W V + EG+NRE++++FE V+RLIRI YG Sbjct: 371 GSNHWYRVTISEGRNREVRRLFESVGHAVSRLIRIRYG 408 >gi|40062484|gb|AAR37436.1| RNA pseudouridylate synthase, putative [uncultured marine bacterium 105] Length = 255 Score = 133 bits (334), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 88/226 (38%), Positives = 122/226 (53%), Gaps = 7/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A AGI+SRR ER+I RV VNG + + D I VDG + K R Sbjct: 7 RLQKVLASAGISSRRAAERLIEVGRVTVNGRSVTKLGAKADPDLDDIRVDGRKV-KTGRP 65 Query: 74 RLWLY-HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R++L KP G VTT DP+GR T+ + + ++ V VGRLD ++EGL++LTNDG LA Sbjct: 66 RIYLLVCKPRGYVTTRFDPEGRRTILNLISNVREYVYPVGRLDYDSEGLVILTNDGTLAA 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT----LDTQKGSNAW 188 L P RVY VR G Q ++ L+ G++I G V L + NA Sbjct: 126 RLTHPRYGVERVYEVRVRGVPSQAAIDSLRHGVLINGRRTASSSVKFLRRLKAKSSENAL 185 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + V +REG+NR+++K+ E V RL R GP + +L G R Sbjct: 186 LRVAIREGRNRQVRKMCEAIGHPVIRLRRTQIGPLRDSSLKVGKHR 231 >gi|256391653|ref|YP_003113217.1| pseudouridine synthase [Catenulispora acidiphila DSM 44928] gi|256357879|gb|ACU71376.1| pseudouridine synthase [Catenulispora acidiphila DSM 44928] Length = 332 Score = 133 bits (334), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 81/214 (37%), Positives = 127/214 (59%), Gaps = 4/214 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ SRR E +IA RV+VNG ++ + V T I VDG+ + AE Sbjct: 97 RLQKVLAQAGVGSRRVSEDLIAAGRVEVNGEIVRHQGMRVDPETAVIRVDGMRISTAEGI 156 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++KP+G+V+ DPD R + D + R+ +GRLD++TEGL+LLTNDG LA Sbjct: 157 VHFAFNKPMGVVSAMDDPD-RPNLGDYVRGRNERLFHIGRLDVDTEGLILLTNDGELAHR 215 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L PS + +VYR + +G V +D L++G+ ++ G+ D LD+ G NA V + Sbjct: 216 LAHPSYEIRKVYRAQVYGTVPKDLGRRLREGVDLEDGLARVDHFRLLDSV-GRNALVEIT 274 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 + EG+NR ++++ + V L+R +GP LG Sbjct: 275 IHEGRNRIVRRIMDAVGLPVRGLVRTKFGPISLG 308 >gi|257068695|ref|YP_003154950.1| pseudouridine synthase family protein [Brachybacterium faecium DSM 4810] gi|256559513|gb|ACU85360.1| pseudouridine synthase family protein [Brachybacterium faecium DSM 4810] Length = 306 Score = 133 bits (334), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 87/232 (37%), Positives = 129/232 (55%), Gaps = 5/232 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG SRR E +I+ RV+V+G +++ V + + + VDG L+ E Sbjct: 67 ERLQKVLARAGFGSRRACETLISTGRVRVDGAVVQEQGVRIDPAAQVVHVDGRRLQLDET 126 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G+V+ SDP+GR + + + R+ VGRLD TEGLLLLTNDG LA Sbjct: 127 KLTLVLNKPRGVVSAMSDPEGRRDLSEFTAAHSQRLYHVGRLDYETEGLLLLTNDGELAH 186 Query: 133 VLELPSTQWLRVYRVRFH--GQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 L PS + + Y RF G + + L+ G+ ++ G D L Q G A V Sbjct: 187 RLTHPSFEVAKTYVCRFDAPGGPPRGLVRTLRDGVELEDGPARADRARVL-AQDGREAVV 245 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+NR ++++F +++ LIR GP LG L G+TRE+S + L Sbjct: 246 EVTLHEGRNRIVRRMFASRGFELTALIRTRIGPVLLGDLAPGTTRELSGREL 297 >gi|296269471|ref|YP_003652103.1| pseudouridine synthase [Thermobispora bispora DSM 43833] gi|296092258|gb|ADG88210.1| pseudouridine synthase [Thermobispora bispora DSM 43833] Length = 426 Score = 133 bits (334), Expect = 5e-29, Method: Compositional matrix adjust. Identities = 86/236 (36%), Positives = 126/236 (53%), Gaps = 14/236 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAER 72 +R+ KV+ARAG+ASRR E +I Q RV V+G ++ R V I VDG + + Sbjct: 189 ERLQKVLARAGVASRRACEELIGQGRVTVDGQVVRRYGARVDPERQIIRVDGKRIPTSTG 248 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + ++KP G+V+T DP+GR + D + + R+ VGRLD TEGLLL TNDG LA Sbjct: 249 LAYYAFNKPAGVVSTMDDPEGRPCLADYVQDLAPRLFHVGRLDTATEGLLLFTNDGELAH 308 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-----QKGSNA 187 L PS + Y + G V + L+ G+ ++ D +VT+D Q G A Sbjct: 309 RLTHPSYGVRKKYIAKVAGPVPRKLARTLRAGVELE-----DGKVTVDGFTVIQQHGRQA 363 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V + L EG+ ++++ E V L RI +GP +LG L G+ R ++ LRE Sbjct: 364 LVEIVLHEGRKHIVRRLMEAVGHPVLELARIEFGPVKLGRLKPGTVRALT---LRE 416 >gi|300870781|ref|YP_003785652.1| ribosomal large subunit pseudouridine synthase B [Brachyspira pilosicoli 95/1000] gi|300688480|gb|ADK31151.1| ribosomal large subunit pseudouridine synthase B [Brachyspira pilosicoli 95/1000] Length = 351 Score = 133 bits (334), Expect = 5e-29, Method: Compositional matrix adjust. Identities = 77/230 (33%), Positives = 127/230 (55%), Gaps = 6/230 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVI +G ASRR E+ I RV+VN ++ A V +D + +D + + + Sbjct: 11 RLVKVILESGFASRRNCEKAIMSGRVRVNNQVILDPAYRVKESDSVSIDRNIIERQTKRY 70 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + LY KP+G+V+T GR + + I R+ GRLD + G++++TNDG A ++ Sbjct: 71 MALY-KPLGVVSTTKYLPGRRIITEFFKGIKERLFYAGRLDSESRGIMIITNDGEFANII 129 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 PS + L+VY V +G++D + L GI I+ + Y + + ++ + + + + Sbjct: 130 THPSYEILKVYDVTVNGKIDSEALLKASAGITIKNVTYSPFKFKILSKGRVQSKIRLTIN 189 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQ-----LGTLLAGSTREVSKK 239 EGKNREI+K+F++ +KV L RIS G GTL AG R+++KK Sbjct: 190 EGKNREIRKIFDYLGYKVIDLERISVGCVSKYDDISGTLEAGHIRDLTKK 239 >gi|239917903|ref|YP_002957461.1| pseudouridine synthase family protein [Micrococcus luteus NCTC 2665] gi|281413596|ref|ZP_06245338.1| pseudouridine synthase family protein [Micrococcus luteus NCTC 2665] gi|289706509|ref|ZP_06502862.1| pseudouridylate synthase [Micrococcus luteus SK58] gi|239839110|gb|ACS30907.1| pseudouridine synthase family protein [Micrococcus luteus NCTC 2665] gi|289556767|gb|EFD50105.1| pseudouridylate synthase [Micrococcus luteus SK58] Length = 318 Score = 133 bits (334), Expect = 5e-29, Method: Compositional matrix adjust. Identities = 82/230 (35%), Positives = 135/230 (58%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR E +IA+ RV+V+G+++ V V +T I VDG+ ++ Sbjct: 81 ERLQKVLAAAGVASRRVSEDLIAEGRVEVDGVVVTEPGVRVDPATAVIRVDGISVQTDVT 140 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + ++++KP G+++T DP+GR ++ L + VGRLD TEGLL+LTNDG LA Sbjct: 141 KQYFVFNKPRGVISTMVDPEGRPSIATYLKPGQEHLFHVGRLDNETEGLLILTNDGELAN 200 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L PS + + Y V+ G + + N L++G+ ++ G+ D +D+ G + V V Sbjct: 201 RLTHPSYEVPKTYVVQTRGPLAKGVSNRLREGVELEDGVAQVDSFKLVDSTPG-HVLVEV 259 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L GKNR ++++F+ V RL+R+ GP LG G+ R ++ + L Sbjct: 260 VLHSGKNRIVRRMFQEIGHPVERLVRVKVGPILLGDQKQGTVRALNAQEL 309 >gi|241764490|ref|ZP_04762511.1| pseudouridine synthase [Acidovorax delafieldii 2AN] gi|241366074|gb|EER60671.1| pseudouridine synthase [Acidovorax delafieldii 2AN] Length = 504 Score = 133 bits (334), Expect = 5e-29, Method: Compositional matrix adjust. Identities = 85/220 (38%), Positives = 121/220 (55%), Gaps = 10/220 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR- 68 TP ++ KV+A+AG+ SR E+E++I + R+ VN E A + V D ++V+G P+R Sbjct: 156 TP-KLHKVLAQAGLGSRLEMEQLILEGRISVNN---EPAHIGQRVQFGDQVKVNGKPIRY 211 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 R+ YHKP+G V +H DP R TVF LP + + SVGRLD+NTEGLLL T Sbjct: 212 RIDPPPARVIAYHKPVGEVVSHDDPQNRPTVFRKLPRLQQGKWQSVGRLDLNTEGLLLFT 271 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 + G LA L P R Y VR G + ++ L G+ + + +GS Sbjct: 272 SSGELANKLMHPRFGLEREYAVRVLGALSNEEKQQLLDGVRLDDGMAAFGSIEDGGGEGS 331 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N W V + EG+NRE++++ E V+RLIRI YG L Sbjct: 332 NCWYRVTISEGRNREVRRMLEAVGHAVSRLIRIRYGAMVL 371 >gi|227495415|ref|ZP_03925731.1| pseudouridylate synthase [Actinomyces coleocanis DSM 15436] gi|226830962|gb|EEH63345.1| pseudouridylate synthase [Actinomyces coleocanis DSM 15436] Length = 248 Score = 133 bits (334), Expect = 5e-29, Method: Compositional matrix adjust. Identities = 81/232 (34%), Positives = 128/232 (55%), Gaps = 5/232 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KVI++AG+ASRR E++I RVKV+G ++ + V S I VDG + ++ Sbjct: 12 RLQKVISQAGVASRRHAEKLIISGRVKVDGNIVRTLGIRVDPSVQTIHVDGNQIMLDTKS 71 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+V+T DPDGR + + + R+ VGRLD +T GL+LLTNDG L+ Sbjct: 72 LTIALNKPAGVVSTMDDPDGRPCLAEFVEQYNQRLYHVGRLDTDTAGLILLTNDGELSHR 131 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L PS + + Y HG+V + L +GI ++ + D Q+T G V + Sbjct: 132 LMHPSWEVPKTYVATVHGEVPRGLGRKLARGITLEDGPVKVEDFQIT--DHYGEMTLVQL 189 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 L EG+NR ++++ + + V L+R +GP +G L +G TR + +L+E Sbjct: 190 TLHEGRNRIVRRIMDHVGFPVIELVRTQFGPVHIGRLHSGVTRRIEGPVLQE 241 >gi|256832502|ref|YP_003161229.1| pseudouridine synthase [Jonesia denitrificans DSM 20603] gi|256686033|gb|ACV08926.1| pseudouridine synthase [Jonesia denitrificans DSM 20603] Length = 265 Score = 132 bits (333), Expect = 5e-29, Method: Compositional matrix adjust. Identities = 86/230 (37%), Positives = 125/230 (54%), Gaps = 11/230 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 R+ KV+A AG+ SRRE E +I Q RV+V+G ++ V V T H+ VDG+ + Sbjct: 29 RLQKVMADAGVGSRRECENLIRQGRVEVDGQIVMELGVRVDPTAHVVTVDGLRIMADASK 88 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP +V T DP+GR+TV D + R+ VGRLD +EGLLLLTNDG LA Sbjct: 89 ITIAVNKPQKMVATMHDPEGRATVADLVSKRTERLFHVGRLDYESEGLLLLTNDGELANR 148 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-----QKGSNAW 188 L P + Y V G+V + L +GI ++ D +V LD+ Q + Sbjct: 149 LSHPRYNVRKTYVVTVKGRVANGVGSQLLRGITLE-----DGEVALDSYRVIDQTDTETM 203 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + V L G+NR ++++F+ V RL+R S GP +LG L G TR +++ Sbjct: 204 IEVQLHSGRNRIVRRIFDSLGHPVTRLVRTSIGPIKLGDLKQGRTRVLNR 253 >gi|306830112|ref|ZP_07463296.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis ATCC 6249] gi|304427638|gb|EFM30734.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis ATCC 6249] Length = 240 Score = 132 bits (333), Expect = 6e-29, Method: Compositional matrix adjust. Identities = 80/230 (34%), Positives = 131/230 (56%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ A + + D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKAGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ +D GR TV D L ++ R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVTDDKGRKTVVDLLSNVKERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L +G+ I+G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGVANKENLRPFTRGVEIEGKKTKPAVYEILKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+N ++KK+FE +V++L R +G L L G R ++KK Sbjct: 178 QLTIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGEARRLNKK 227 >gi|237745585|ref|ZP_04576065.1| ribosomal large subunit pseudouridine synthase B [Oxalobacter formigenes HOxBLS] gi|229376936|gb|EEO27027.1| ribosomal large subunit pseudouridine synthase B [Oxalobacter formigenes HOxBLS] Length = 510 Score = 132 bits (333), Expect = 6e-29, Method: Compositional matrix adjust. Identities = 86/225 (38%), Positives = 129/225 (57%), Gaps = 12/225 (5%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 + + E+ P ++ KV+A AG+ SRR++E +I RV VNG E A + ++ TD + Sbjct: 165 RELTAEDDAP-KLHKVLADAGLGSRRDMEELIVAGRVSVNG---EPAHIGQRILPTDQVR 220 Query: 62 VDGVPL-RKAERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G + RK ++ R+ YHKP G + + DP+ R +VFD LP + S+ ++VGRLD N Sbjct: 221 LNGKLIQRKIAKSLPRVLTYHKPAGEIVSRDDPEKRPSVFDRLPLLKNSKWLAVGRLDFN 280 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLL TN G LA L P R Y VR G++++ L G+ + G G Sbjct: 281 TEGLLLFTNSGDLANRLMHPRYNIEREYAVRTLGELEEGMRQKLLAGVDL-GDGIGQFSK 339 Query: 178 TLD-TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 +D +G N W V + EG+NRE++++FE V+RLIR YG Sbjct: 340 IVDGGGEGVNKWYRVTIGEGRNREVRRMFEAVGLTVSRLIRTRYG 384 >gi|332977338|gb|EGK14123.1| ribosomal large subunit pseudouridine synthase B [Desmospora sp. 8437] Length = 236 Score = 132 bits (333), Expect = 6e-29, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 127/230 (55%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG+ASRR+ E I +V+VNG + + V D IEV+G +R E+ Sbjct: 2 ERLQKVMARAGVASRRKSEEWILSGKVRVNGKTVTQLGTRVDPERDRIEVEGRLIR-PEQ 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R +L++KP G++T+ SDPDGR V D + RV VGRLD +TEGLLLLTNDG L Sbjct: 61 KRYFLFYKPKGVITSLSDPDGRPVVTDWFREVEERVYPVGRLDYDTEGLLLLTNDGELTH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VY+ G + L L+ G+ + +V + A + + Sbjct: 121 GLAHPRHEVDKVYQATVKGIPAKKSLRRLETGVKLTDGWTAPAKVRMLRSGKEQACLELT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+++++ E V L+R+ L L G RE+SK+ +R Sbjct: 181 IHEGRNRQVRRMCEAVGHPVVHLVRVQLAFLTLSGLQPGEYRELSKEEIR 230 >gi|289641301|ref|ZP_06473467.1| pseudouridine synthase [Frankia symbiont of Datisca glomerata] gi|289508899|gb|EFD29832.1| pseudouridine synthase [Frankia symbiont of Datisca glomerata] Length = 248 Score = 132 bits (333), Expect = 6e-29, Method: Compositional matrix adjust. Identities = 91/237 (38%), Positives = 130/237 (54%), Gaps = 15/237 (6%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLR 68 N R+ KV+A AG+ SRR E +IA RV+V+G ++E + V T IEVDG Sbjct: 7 NAEGVRLQKVLAAAGVGSRRHSEELIAAGRVRVDGRVVETQGMRVDPQTAIIEVDG---- 62 Query: 69 KAER--TRLWLYH----KPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 ER TR L H KP+G+++ SD GR TV D + + VGRLD+++EGLL Sbjct: 63 --ERVVTRAGLVHLALNKPVGVLSAMSDDRGRPTVADLVTDAGPGLFHVGRLDVDSEGLL 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDT 181 L+TNDG LA L PS + + Y V G V +D L++G+ + G D V + Sbjct: 121 LVTNDGELAHRLSHPSFEVAKTYLVEVAGPVGRDVPRRLREGVELADGPVRAD-AVRIVG 179 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 GS + + L EG+NR ++++ E + V RL+R GP LG+L G TR +S+ Sbjct: 180 SAGSRVMLEITLHEGRNRVVRRLMEAVDHPVRRLVRTRIGPVHLGSLRVGRTRHLSR 236 >gi|312143709|ref|YP_003995155.1| pseudouridine synthase [Halanaerobium sp. 'sapolanicus'] gi|311904360|gb|ADQ14801.1| pseudouridine synthase [Halanaerobium sp. 'sapolanicus'] Length = 236 Score = 132 bits (333), Expect = 7e-29, Method: Compositional matrix adjust. Identities = 80/230 (34%), Positives = 126/230 (54%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E +IA+ RVKVNG ++ V D IEVDG + K ++ Sbjct: 2 ERLQKVMAHAGVASRRKSEEIIAEGRVKVNGEIVTEMGFKVDPKKDEIEVDGEVIAKEKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L HKP G +TT SDP R TV D +P + RV GRLD ++ GLL+LTNDG L Sbjct: 62 VYLLL-HKPEGYITTVSDPKERQTVMDLIPDLKQRVYPAGRLDYDSSGLLILTNDGDLCY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y VR G + + N ++G+VI G ++ + + Sbjct: 121 KLTHPKKEVDKRYWVRAKGTIFAEDFNKFEEGMVIDGRKTAPAKIANINYLDNYTEFEIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+++++ + V +L R ++ L L G R ++++ ++ Sbjct: 181 IHEGRNRQVRRMCRIAGFSVVKLKRTAFAFLSLDGLAEGEYRYLNEEEIK 230 >gi|260583963|ref|ZP_05851711.1| ribosomal large subunit pseudouridine synthase B [Granulicatella elegans ATCC 700633] gi|260158589|gb|EEW93657.1| ribosomal large subunit pseudouridine synthase B [Granulicatella elegans ATCC 700633] Length = 241 Score = 132 bits (333), Expect = 7e-29, Method: Compositional matrix adjust. Identities = 81/226 (35%), Positives = 125/226 (55%), Gaps = 5/226 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AGIASRR+ E I + RVKVNG ++ V +D IEVDG+P+ K E Sbjct: 2 ERLQKVMAHAGIASRRKCEAFIEEGRVKVNGTVVRELGYKVSQSDKIEVDGIPIYKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++++KP ++++ +D GR+ + D I RV VGRLD +T GL+LLTNDG A + Sbjct: 62 -YFMFYKPKSVLSSVTDDRGRTVISDYFKDIPQRVYPVGRLDYDTTGLILLTNDGEFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVT 190 + P + Y + G + L++GI I G +++DT+K + V+ Sbjct: 121 MTHPKHHVEKKYIAKVKGVPTPRHMRQLERGIWIDGKKTSKAVARILSVDTEKNTGI-VS 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EG N ++KK+FE V +L R +G L L G RE+ Sbjct: 180 LTIHEGWNHQVKKMFEAVELPVQKLKREEFGFLTLENLRPGDYREL 225 >gi|121607089|ref|YP_994896.1| pseudouridine synthase [Verminephrobacter eiseniae EF01-2] gi|121551729|gb|ABM55878.1| ribosomal large subunit pseudouridine synthase B [Verminephrobacter eiseniae EF01-2] Length = 520 Score = 132 bits (333), Expect = 7e-29, Method: Compositional matrix adjust. Identities = 82/217 (37%), Positives = 120/217 (55%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR---K 69 ++ KV+A+AG+ SR E+E++I + R+ VN E A + + D ++V+G P+R Sbjct: 172 KLHKVLAQAGLGSRLEMEQLILEGRISVNN---EPAHIGQRIQFGDQVKVNGKPIRYRID 228 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP+G V +H DP R TVF LP + + SVGRLD+NTEGLLLLT+ G Sbjct: 229 PPPARVIAYHKPVGEVVSHDDPHNRPTVFRRLPRLVQGKWQSVGRLDLNTEGLLLLTSSG 288 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P R Y VR G + ++ L G+ + + +G+N W Sbjct: 289 ELANQLMHPRFGLEREYAVRVLGALSNEEKQKLLDGVRLDDGIASFGTIEDGGGEGANCW 348 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE++++ E V+RLIRI YG L Sbjct: 349 YRVTIAEGRNREVRRMLEAVGHAVSRLIRIRYGAMVL 385 >gi|134095614|ref|YP_001100689.1| putative pseudouridine synthase (Uracil hydrolyase) [Herminiimonas arsenicoxydans] gi|133739517|emb|CAL62568.1| Pseudouridine synthase [Herminiimonas arsenicoxydans] Length = 538 Score = 132 bits (332), Expect = 7e-29, Method: Compositional matrix adjust. Identities = 86/260 (33%), Positives = 145/260 (55%), Gaps = 11/260 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 +++ ++ P ++ KV+A AG+ SRR++E +I RV VNG E A + ++ D + Sbjct: 168 RDLTADDDAP-KLHKVLAEAGLGSRRDMEELIIAGRVSVNG---EPAHIGQRILPADQVR 223 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 ++G +++ + R+ +YHKP G + + +DP+GR +VF+ LP++ ++ ++VGRLD N Sbjct: 224 INGKLIQRKVSNKPPRVLVYHKPAGEIVSTNDPEGRPSVFERLPTMKAAKWLAVGRLDFN 283 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLL T G LA L P R Y VR G++++ L G+ ++ ++ Sbjct: 284 TEGLLLFTTSGDLANRLMHPRYGIDREYAVRTLGELEEGMRQKLLAGVELEDGLAQFSKI 343 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V + EG+NRE++++FE V+RLIR YG L L G E+ Sbjct: 344 ADGGGEGVNKWYRVTIGEGRNREVRRMFEAIGLTVSRLIRTRYGTLTLPKNLKRGRWEEM 403 Query: 237 SKKILREQLGPHLLEEAQVN 256 + +R+ L LE+ V+ Sbjct: 404 EEHAVRDLLAMSGLEKKSVD 423 >gi|50954353|ref|YP_061641.1| RNA pseudouridine synthase [Leifsonia xyli subsp. xyli str. CTCB07] gi|50950835|gb|AAT88536.1| RNA pseudouridine synthase [Leifsonia xyli subsp. xyli str. CTCB07] Length = 260 Score = 132 bits (332), Expect = 7e-29, Method: Compositional matrix adjust. Identities = 82/230 (35%), Positives = 122/230 (53%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR E +IA RV VNG ++ V DH+ VDG ++ Sbjct: 8 ERLQKVMAAAGVASRRVSEELIAAGRVSVNGTVVTELGRRVDPVVDHVAVDGAAVQLDTT 67 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + +KP+G+V++ D GR + + R+ +VGRLD T GLL+LTNDG LA Sbjct: 68 LRYVMLNKPVGVVSSLRDEQGRPDLSRFVADYEERLFNVGRLDAETSGLLILTNDGELAH 127 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 VL P + Y R G V + L +G+ ++ G D L + G + V V Sbjct: 128 VLAHPRFGVTKTYIARVRGAVTPQTIGRLTRGVELEDGPIAADRAKLLQSDPGGGSLVEV 187 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L G+NR ++++ V L+R +GP LGTL AG+ R+++K L Sbjct: 188 TLHSGRNRIVRRMLAEVGHPVVELVRRQFGPLHLGTLKAGALRDLTKAEL 237 >gi|15641192|ref|NP_230824.1| pseudouridine synthase family 1 protein [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121587810|ref|ZP_01677569.1| pseudouridine synthase family 1 protein [Vibrio cholerae 2740-80] gi|121728227|ref|ZP_01681260.1| pseudouridine synthase family 1 protein [Vibrio cholerae V52] gi|153215349|ref|ZP_01949962.1| pseudouridine synthase family 1 protein [Vibrio cholerae 1587] gi|153819079|ref|ZP_01971746.1| pseudouridine synthase family 1 protein [Vibrio cholerae NCTC 8457] gi|153823509|ref|ZP_01976176.1| pseudouridine synthase family 1 protein [Vibrio cholerae B33] gi|153826657|ref|ZP_01979324.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-2] gi|183179584|ref|ZP_02957795.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-3] gi|227081351|ref|YP_002809902.1| pseudouridine synthase family 1 protein [Vibrio cholerae M66-2] gi|229505227|ref|ZP_04394737.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae BX 330286] gi|229511103|ref|ZP_04400582.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae B33] gi|229515560|ref|ZP_04405019.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae TMA 21] gi|229518222|ref|ZP_04407666.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae RC9] gi|229520392|ref|ZP_04409817.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae TM 11079-80] gi|229529733|ref|ZP_04419123.1| LSU pseudouridine synthase B [Vibrio cholerae 12129(1)] gi|229608246|ref|YP_002878894.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae MJ-1236] gi|254226705|ref|ZP_04920282.1| pseudouridine synthase family 1 protein [Vibrio cholerae V51] gi|254291998|ref|ZP_04962777.1| pseudouridine synthase family 1 protein [Vibrio cholerae AM-19226] gi|254848305|ref|ZP_05237655.1| pseudouridine synthase family 1 protein [Vibrio cholerae MO10] gi|255745589|ref|ZP_05419537.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholera CIRS 101] gi|262158338|ref|ZP_06029454.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae INDRE 91/1] gi|297578779|ref|ZP_06940707.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae RC385] gi|298498719|ref|ZP_07008526.1| pseudouridine synthase family 1 protein [Vibrio cholerae MAK 757] gi|34098735|sp|Q9KSS7|RLUB_VIBCH RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|9655656|gb|AAF94338.1| pseudouridine synthase family 1 protein [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121547974|gb|EAX58055.1| pseudouridine synthase family 1 protein [Vibrio cholerae 2740-80] gi|121629478|gb|EAX61904.1| pseudouridine synthase family 1 protein [Vibrio cholerae V52] gi|124114792|gb|EAY33612.1| pseudouridine synthase family 1 protein [Vibrio cholerae 1587] gi|125620766|gb|EAZ49123.1| pseudouridine synthase family 1 protein [Vibrio cholerae V51] gi|126510362|gb|EAZ72956.1| pseudouridine synthase family 1 protein [Vibrio cholerae NCTC 8457] gi|126518977|gb|EAZ76200.1| pseudouridine synthase family 1 protein [Vibrio cholerae B33] gi|149739519|gb|EDM53747.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-2] gi|150422075|gb|EDN14043.1| pseudouridine synthase family 1 protein [Vibrio cholerae AM-19226] gi|183012995|gb|EDT88295.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-3] gi|227009239|gb|ACP05451.1| pseudouridine synthase family 1 protein [Vibrio cholerae M66-2] gi|229333507|gb|EEN98993.1| LSU pseudouridine synthase B [Vibrio cholerae 12129(1)] gi|229342490|gb|EEO07483.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae TM 11079-80] gi|229344937|gb|EEO09911.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae RC9] gi|229347329|gb|EEO12289.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae TMA 21] gi|229351068|gb|EEO16009.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae B33] gi|229357450|gb|EEO22367.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae BX 330286] gi|229370901|gb|ACQ61324.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae MJ-1236] gi|254844010|gb|EET22424.1| pseudouridine synthase family 1 protein [Vibrio cholerae MO10] gi|255736664|gb|EET92061.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholera CIRS 101] gi|262029779|gb|EEY48427.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae INDRE 91/1] gi|297536373|gb|EFH75206.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae RC385] gi|297543052|gb|EFH79102.1| pseudouridine synthase family 1 protein [Vibrio cholerae MAK 757] gi|327483880|gb|AEA78287.1| Ribosomal large subunit pseudouridine synthase B LSU Psi2605 [Vibrio cholerae LMA3894-4] Length = 321 Score = 132 bits (332), Expect = 8e-29, Method: Compositional matrix adjust. Identities = 92/222 (41%), Positives = 126/222 (56%), Gaps = 15/222 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDH--IEVDG--VP 66 +++ KV+ARAG SRRE+E +I RV VNG +L ER + D+ + +DG V Sbjct: 3 EKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGER-----LEDDNAVVRIDGHVVS 57 Query: 67 LRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLL 123 ++ E R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL Sbjct: 58 VKAQEEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLL 117 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS Q R Y VR G V ++K+ L +G+ ++ V + Sbjct: 118 FTTDGELANRLMHPSRQVEREYLVRVFGDVTEEKVRNLVRGVQLEDGMARFEDVMYAGGE 177 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N V + EG+NRE+++++E V+RL R+ YG L Sbjct: 178 GINHTFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFL 219 >gi|288556014|ref|YP_003427949.1| pseudouridylate synthase [Bacillus pseudofirmus OF4] gi|288547174|gb|ADC51057.1| pseudouridylate synthase [Bacillus pseudofirmus OF4] Length = 242 Score = 132 bits (332), Expect = 8e-29, Method: Compositional matrix adjust. Identities = 84/224 (37%), Positives = 127/224 (56%), Gaps = 5/224 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KVIA+AGI SRR+ E MI + +VKVNG ++ V V + D IEV+GVP+ K E Sbjct: 2 ERLQKVIAQAGITSRRKAETMITEGKVKVNGQVVRELGVKVNPNKDEIEVEGVPIDKEEP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++++ D GR V D L I RV +GRLD +T GL+LLTNDG A Sbjct: 62 V-YYLMYKPQGVISSVKDEKGRKVVTDFL-EIEQRVFPIGRLDYDTSGLILLTNDGEFAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 L P + +VY + G ++ L L+ G+V++ +V L + +K A V Sbjct: 120 QLMHPKFKIDKVYVAKVKGIPARESLKKLQHGVVLEDGKTAPAKVKLVSMDKKKQTAIVQ 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + EG+NR+++++FE V +L R Y L ++ G R Sbjct: 180 LTIHEGRNRQVRRMFEAIGHPVMKLKREQYSFLNLRSMNPGDVR 223 >gi|301165765|emb|CBW25337.1| putative RNA pseudouridylate synthase [Bacteriovorax marinus SJ] Length = 343 Score = 132 bits (332), Expect = 8e-29, Method: Compositional matrix adjust. Identities = 86/234 (36%), Positives = 124/234 (52%), Gaps = 2/234 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K IA GI SRR+ E +I Q RVKVNG + V D + VDG Sbjct: 5 RLQKFIADCGITSRRKAEELIVQGRVKVNGETIRVLGTKVNPDIDAVIVDGQIADLGSVD 64 Query: 74 RLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++L +KP G VTT DP+GR TV D + R+ VGRLD +EGLLLLTNDG +A Sbjct: 65 KVYLVMNKPRGYVTTVEDPEGRKTVMDLCKEVAERIYPVGRLDYLSEGLLLLTNDGEVAN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 ++ PS +VY V+ G V + L L+ G+ ++ + V + Q + WV Sbjct: 125 MVMHPSFNITKVYEVKVFGSVTETILKKLRAGVQLEEGFVKPLSVRVIKQLPNKTWVEFR 184 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L EG+NREI+K+ E V++L R++ + + G R ++KK L +G Sbjct: 185 LGEGRNREIRKICEACGLTVDKLKRVAIEGLTVEGIAPGKFRYINKKQLLSLIG 238 >gi|308176960|ref|YP_003916366.1| pseudouridylate synthase [Arthrobacter arilaitensis Re117] gi|307744423|emb|CBT75395.1| pseudouridylate synthase [Arthrobacter arilaitensis Re117] Length = 373 Score = 132 bits (332), Expect = 8e-29, Method: Compositional matrix adjust. Identities = 81/230 (35%), Positives = 131/230 (56%), Gaps = 7/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A AG+ASRR E MI + RV+VNG L+ V + D I VDG+ ++ + Sbjct: 135 RLQKAMANAGVASRRVCEEMILEGRVEVNGNLVVELGSRVDPAKDRIHVDGMRIQMNQAN 194 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 R ++++KP ++ T DP+GR T+ D + R+ VGRLD TEG+L+LTNDG LA Sbjct: 195 RYFVFNKPKHVMCTMDDPEGRRTIADYFKNEHHSLRLFHVGRLDYKTEGVLILTNDGELA 254 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWV 189 L+ P + + Y V+ G + + N L++G+ ++ I D+++ T K + V Sbjct: 255 NRLQHPKYEVPKTYLVQIPGPLPRAVSNQLREGVKLEDGWIKVDDLKIIATTPK--HVMV 312 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V L G+NR ++++F+ V RL+R++ GP QLG G+ R + + Sbjct: 313 EVTLHSGRNRIVRRMFDEVGHPVQRLVRVAVGPVQLGDQKQGTIRSLGNQ 362 >gi|320536822|ref|ZP_08036818.1| hypothetical protein HMPREF9554_01551 [Treponema phagedenis F0421] gi|320146331|gb|EFW37951.1| hypothetical protein HMPREF9554_01551 [Treponema phagedenis F0421] Length = 239 Score = 132 bits (332), Expect = 8e-29, Method: Compositional matrix adjust. Identities = 83/246 (33%), Positives = 132/246 (53%), Gaps = 13/246 (5%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M DK I R+ +A++GIASRR E++I RV VNGI + V+ +D + Sbjct: 1 MPDKEI--------RLQVYLAKSGIASRRASEKLILDGRVSVNGIKVTELGTKVLPSDIV 52 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 D ++ + R L +KP+G V + SD GR+T D L ++ R+ ++GRLD+ + Sbjct: 53 CFDNQQIKFEKEKRYVLLNKPVGYVCSLSDEMGRATAADLLKEAYTERLYNIGRLDMYSG 112 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G +L TNDG + +E PS + + Y + + + +GI I+GI Y + Sbjct: 113 GAILFTNDGDFSARIEHPSAEIEKEYLIETTQDIPDTLIERFTRGIRIEGIFYR----CV 168 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ ++ ++ L EGKNREI+KVF+FF + RLIR+ G QL L G R ++K+ Sbjct: 169 SAKRQASRKASIVLIEGKNREIRKVFDFFKIPIKRLIRVRIGGIQLNGLKPGEFRNLTKE 228 Query: 240 ILREQL 245 + E L Sbjct: 229 EIAELL 234 >gi|114776453|ref|ZP_01451498.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Mariprofundus ferrooxydans PV-1] gi|114553283|gb|EAU55681.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Mariprofundus ferrooxydans PV-1] Length = 289 Score = 132 bits (332), Expect = 8e-29, Method: Compositional matrix adjust. Identities = 81/250 (32%), Positives = 137/250 (54%), Gaps = 10/250 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+++ +A G+ SRRE +R I RV +NG L+E V V S D + VD + + Sbjct: 42 PERINRYLAHCGLCSRREADRWIQAGRVSINGQLIEAPGVIVKSGDTVMVDDKLVEPQQG 101 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY+KP G + + D R ++D + + V S+GRLD++TEGLL+LT+DG L R Sbjct: 102 HTYILYNKPKGQLCSRLDKKKRPLIYDFI-DVAPNVQSIGRLDMDTEGLLMLTDDGALTR 160 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG--IVIQGICYGDMQVTLDTQKGSNAWVT 190 L P+ + R YR R G V+ + L L++G + +G +VT+D++ + W+ Sbjct: 161 ALTHPAAKVPREYRARVAGIVELETLAKLRRGGMDIGRGDTSDAWEVTVDSESAGHTWLN 220 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHL 249 + + G+ RE+++ E V RL+R +GP +L + G+ R +++ +R+ Sbjct: 221 IIILRGRWREVRRTLEECGHPVRRLMRTRFGPIKLDEDMPKGTWRALNRGEIRK------ 274 Query: 250 LEEAQVNLDA 259 L + +N DA Sbjct: 275 LRDRVINPDA 284 >gi|167772309|ref|ZP_02444362.1| hypothetical protein ANACOL_03686 [Anaerotruncus colihominis DSM 17241] gi|167665412|gb|EDS09542.1| hypothetical protein ANACOL_03686 [Anaerotruncus colihominis DSM 17241] Length = 259 Score = 132 bits (332), Expect = 9e-29, Method: Compositional matrix adjust. Identities = 82/224 (36%), Positives = 121/224 (54%), Gaps = 2/224 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV--PLRKAER 72 R+ KV++ G+ SRR+ E IAQ RV VNG + + D I +DGV LRK ++ Sbjct: 14 RIQKVLSENGVMSRRKAEEAIAQGRVTVNGHPAQPGNPVDPARDVIAIDGVRVQLRKKKQ 73 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP G VTT SD GR V D + + V VGRLD N+EGLLLLTNDG A Sbjct: 74 NVYIMLHKPRGFVTTTSDELGRRCVTDLVKDAPAHVYPVGRLDRNSEGLLLLTNDGAFAN 133 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 ++ PS + YRV V ++ + G+++ G V + ++ + + Sbjct: 134 LVMHPSNHISKTYRVTVRPDVSDEQAAKMSAGVMLDGRMTLPATVLVLEKQDGRVVLQIT 193 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 ++EG+NR+++++ E +V RL R S GP +LG L G RE+ Sbjct: 194 IQEGRNRQVRRMCEAVGLEVARLKRTSVGPLKLGMLQPGQWREL 237 >gi|147673214|ref|YP_001216750.1| pseudouridine synthase family 1 protein [Vibrio cholerae O395] gi|262169496|ref|ZP_06037188.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae RC27] gi|262191635|ref|ZP_06049813.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae CT 5369-93] gi|146315097|gb|ABQ19636.1| pseudouridine synthase family 1 protein [Vibrio cholerae O395] gi|227013096|gb|ACP09306.1| pseudouridine synthase family 1 protein [Vibrio cholerae O395] gi|262022309|gb|EEY41018.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae RC27] gi|262032477|gb|EEY51037.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae CT 5369-93] Length = 321 Score = 132 bits (332), Expect = 9e-29, Method: Compositional matrix adjust. Identities = 92/222 (41%), Positives = 126/222 (56%), Gaps = 15/222 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDH--IEVDG--VP 66 +++ KV+ARAG SRRE+E +I RV VNG +L ER + D+ + +DG V Sbjct: 3 EKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGER-----LEDDNAVVRIDGHVVS 57 Query: 67 LRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLL 123 ++ E R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL Sbjct: 58 VKAQEEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLL 117 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS Q R Y VR G V ++K+ L +G+ ++ V + Sbjct: 118 FTTDGELANRLMHPSRQVEREYLVRVFGDVTEEKVRNLVRGVQLEDGMARFEDVMYAGGE 177 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N V + EG+NRE+++++E V+RL R+ YG L Sbjct: 178 GINHTFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFL 219 >gi|153829628|ref|ZP_01982295.1| pseudouridine synthase family 1 protein [Vibrio cholerae 623-39] gi|148874904|gb|EDL73039.1| pseudouridine synthase family 1 protein [Vibrio cholerae 623-39] Length = 321 Score = 132 bits (332), Expect = 9e-29, Method: Compositional matrix adjust. Identities = 92/222 (41%), Positives = 126/222 (56%), Gaps = 15/222 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDH--IEVDG--VP 66 +++ KV+ARAG SRRE+E +I RV VNG +L ER + D+ + +DG V Sbjct: 3 EKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGER-----LEDDNAVVRIDGHVVS 57 Query: 67 LRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLL 123 ++ E R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL Sbjct: 58 VKAQEEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLL 117 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS Q R Y VR G V ++K+ L +G+ ++ V + Sbjct: 118 FTTDGELANRLMHPSRQVEREYLVRVFGDVTEEKVRNLVRGVQLEDGMARFEDVMYAGGE 177 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N V + EG+NRE+++++E V+RL R+ YG L Sbjct: 178 GINHTFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFL 219 >gi|251792414|ref|YP_003007140.1| hypothetical protein NT05HA_0650 [Aggregatibacter aphrophilus NJ8700] gi|247533807|gb|ACS97053.1| hypothetical protein NT05HA_0650 [Aggregatibacter aphrophilus NJ8700] Length = 254 Score = 132 bits (331), Expect = 9e-29, Method: Compositional matrix adjust. Identities = 88/217 (40%), Positives = 125/217 (57%), Gaps = 11/217 (5%) Query: 52 VNVMSTDHIEVDG--VPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-S 106 +NV S+ + +DG + L +A++ R+ +Y+KP G + T DP+GR+TVFD LP + + Sbjct: 12 INVHSSVKVRIDGNLINLTQAQKEVCRVLMYYKPEGELCTRHDPEGRATVFDRLPRLTGA 71 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 R I+VGRLDINT GLLL T DG LA L P+ + R Y VR G VD LN LKKG+ Sbjct: 72 RWIAVGRLDINTSGLLLFTTDGELANRLMHPNREVEREYSVRVFGHVDDAMLNRLKKGVQ 131 Query: 167 IQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL- 225 ++ + G N W V L EG+NRE+++++E +V+RLIRI YG +L Sbjct: 132 LEDGPANFKDIKFGGGVGMNQWFDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLM 191 Query: 226 GTLLAGSTREV---SKKILREQLGPHLLEEAQVNLDA 259 TL G +E+ LR+ +G L E + LD Sbjct: 192 KTLPRGGWQEMPLDEVNYLRDLVG--LAPETETKLDV 226 >gi|227499448|ref|ZP_03929559.1| pseudouridylate synthase [Anaerococcus tetradius ATCC 35098] gi|227218510|gb|EEI83753.1| pseudouridylate synthase [Anaerococcus tetradius ATCC 35098] Length = 234 Score = 132 bits (331), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 79/224 (35%), Positives = 130/224 (58%), Gaps = 5/224 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IAR+G SRR+ + +I VKVN +++ ++V D +EVDG L ++ Sbjct: 3 RINKFIARSGYTSRRKADELIKNGLVKVNYKIIKEPGIDVKENDLVEVDGQILEIEDKFY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L LY KP+G +T++ DP + +NL + R + GRLD ++EGLL++TNDG + Sbjct: 63 LKLY-KPVGFITSNFDPYNDKDL-NNLLDLDKRFFAAGRLDKDSEGLLIITNDGDFTNEI 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVGL 193 PS + + Y V+ ++ +++L +KGI I G D ++ L +K + VT+ Sbjct: 121 IHPSKKLDKTYIVKVSKLLNNKEISLFEKGIDIGNGEVTSDSKIVLIDKKTNKYKVTI-- 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +G NR+I+++FE+F+ KV L RIS GP QL + TR+ + Sbjct: 179 HQGYNRQIRRMFEYFSSKVINLKRISIGPIQLSNMKPYETRQFT 222 >gi|313113861|ref|ZP_07799427.1| conserved hypothetical protein [Faecalibacterium cf. prausnitzii KLE1255] gi|310623827|gb|EFQ07216.1| conserved hypothetical protein [Faecalibacterium cf. prausnitzii KLE1255] Length = 276 Score = 132 bits (331), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 81/228 (35%), Positives = 132/228 (57%), Gaps = 3/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKAE 71 +R+ K++A G+ SRR E++IA+ RVKVNG ++ + D H++ + + +RK + Sbjct: 4 ERIQKIMAEQGLCSRRAAEQIIAEGRVKVNGHPVKVGDKMDPNRDVLHVDDERIYIRKDQ 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G VTT SD GR TV + + I +R+ VGRLD ++EGLLL+TNDG A Sbjct: 64 QMYYLALYKPRGYVTTASDELGRKTVMELVSDIPARLYPVGRLDKDSEGLLLMTNDGAFA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + + PS ++YRV + D+ ++ L G+V+ G + + T + + Sbjct: 124 QAVTHPSGGISKLYRVTVQPRADESQILKLSSGVVLDDGTKTMPCAINVVTDEPGRTVME 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + L+EGKNREI+++ E +V RL R + G +LG L G+ RE++K Sbjct: 184 MTLKEGKNREIRRMCETVGLEVVRLKRNAEGVVKLGMLKPGTYRELTK 231 >gi|325922798|ref|ZP_08184528.1| ribosomal large subunit pseudouridine synthase B [Xanthomonas gardneri ATCC 19865] gi|325546740|gb|EGD17864.1| ribosomal large subunit pseudouridine synthase B [Xanthomonas gardneri ATCC 19865] Length = 442 Score = 132 bits (331), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 98/247 (39%), Positives = 151/247 (61%), Gaps = 18/247 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG V Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQ-TGMSVRSGDKIELDGRSFVASALT 86 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G VTT DP+GR TVF++LP++ SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDK-----LNLLKKGIVIQ--GICYGDMQVTLDTQ 182 LA + PS + R Y VR +DK + L +G++++ G + +++ T Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEDKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK-- 239 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV+++ Sbjct: 207 --SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGQSVEVAQEKV 264 Query: 240 -ILREQL 245 LR +L Sbjct: 265 DALRAEL 271 >gi|311068833|ref|YP_003973756.1| RluB protein [Bacillus atrophaeus 1942] gi|310869350|gb|ADP32825.1| RluB [Bacillus atrophaeus 1942] Length = 244 Score = 132 bits (331), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 78/227 (34%), Positives = 126/227 (55%), Gaps = 5/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I + +VKVNG ++ V V +D IEV+G+ + + E Sbjct: 2 ERLQKVIAHAGVASRRKAEELIKEGKVKVNGKIITELGVKVTGSDQIEVNGMKIEREEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+++ D GR V D I R+ +GRLD +T GLLLLTNDG A Sbjct: 62 YFLLY-KPRGVISAADDDKGRKVVTDFFKEIPQRIYPIGRLDYDTSGLLLLTNDGDFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVT 190 L P Q + Y + G ++ + L++G+ ++ + ++LD +K + + Sbjct: 121 LMHPKYQIDKTYVAKVKGIPSKELVRKLERGVQLEEGKTAPAKAKLLSLDKRK-QTSIIQ 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE +V +L R Y L L G RE++ Sbjct: 180 LTIHEGRNRQVRRMFEAIGHEVLKLKREEYAFLDLRGLHTGDARELT 226 >gi|117928443|ref|YP_872994.1| ribosomal large subunit pseudouridine synthase B [Acidothermus cellulolyticus 11B] gi|117648906|gb|ABK53008.1| ribosomal large subunit pseudouridine synthase B [Acidothermus cellulolyticus 11B] Length = 269 Score = 132 bits (331), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 86/233 (36%), Positives = 127/233 (54%), Gaps = 3/233 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A AG+ SRR E +IA RV+V+G+ + R V V T I VDG + A Sbjct: 33 RLQKVLAAAGVGSRRACEELIAAGRVEVDGVPVTRLGVRVDPQTAVIRVDGKRIPPATPF 92 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G+VTT SDP GR V D + + RV VGRLD ++EGLLLLTNDG L Sbjct: 93 AYFALNKPRGVVTTMSDPRGRPCVGDLVADLPVRVFHVGRLDTDSEGLLLLTNDGRLTHR 152 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + Y G++ + ++LL+ G+ + G D L+ + G+ V V Sbjct: 153 LTHPSHAVPKTYVADVEGRLGRTGVHLLRSGVDLADGPAQADAVRILE-RYGARTLVEVV 211 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+ ++++ V RL+R + GP LG L G+ R+++ + L E L Sbjct: 212 VHEGRTHLVRRMLAAVGHPVRRLVRTAIGPVALGQLRPGARRQLTPRELGELL 264 >gi|148239883|ref|YP_001225270.1| 16S rRNA pseudouridylate synthase [Synechococcus sp. WH 7803] gi|147848422|emb|CAK23973.1| 16S rRNA pseudouridylate synthase [Synechococcus sp. WH 7803] Length = 243 Score = 131 bits (330), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 82/230 (35%), Positives = 125/230 (54%), Gaps = 1/230 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T QR+ K+IA AG+ SRR+ E ++ +RV+VNG L + D IEVD PL+ A Sbjct: 1 MTRQRLQKLIASAGVCSRRKAEDLLRDRRVRVNGQLATLGDQADLDVDTIEVDDRPLQTA 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-SVGRLDINTEGLLLLTNDGG 129 + R+ L +KP G++ + DP R TV + +P + VGRLD + G LLL+N G Sbjct: 61 PQARVLLLNKPPGVICSCRDPQRRRTVLELVPPDLREGLHPVGRLDAESRGALLLSNQGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + YRV G + +LN ++G+V+ G +V L + + + Sbjct: 121 LTLQLTHPRYNHRKTYRVTVAGLPSEKQLNQWRRGVVLDGTVTRPAEVNLVKKSPQASVL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V LREG+NR+I++V +V L RI+ G LG++ G RE+S++ Sbjct: 181 EVILREGRNRQIRRVALSLGHRVLDLQRIAIGRLTLGSMREGCWRELSRQ 230 >gi|302878407|ref|YP_003846971.1| pseudouridine synthase [Gallionella capsiferriformans ES-2] gi|302581196|gb|ADL55207.1| pseudouridine synthase [Gallionella capsiferriformans ES-2] Length = 302 Score = 131 bits (330), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 86/234 (36%), Positives = 132/234 (56%), Gaps = 23/234 (9%) Query: 7 VQENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 ++ + P+ ++ KV+A+AG SRR +E IA RV VNG E A + V+ D ++ Sbjct: 6 IEAEYQPEAGEKLQKVLAQAGFGSRRNMEEWIAAGRVSVNG---EPATLGMRVVPGDLVK 62 Query: 62 VDGVPLRKAER---TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 + +R ER R+ LYHKP G + + DP+ R++VFD LP + + I+VGRLD N Sbjct: 63 TERRTIRVGERDHTARVLLYHKPEGEIVSRDDPEKRASVFDKLPKLRGQKWIAVGRLDFN 122 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN-LLKKGIVIQGICYGDMQ 176 T GLL+ T G LA L P + R Y VR G + +D++ +LK+G++++ D Sbjct: 123 TSGLLIFTTSGELANRLMHPRFEVEREYAVRVQGSMTEDQITQVLKEGVMLE-----DGP 177 Query: 177 VTLDT-----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 VT D +G N W V L+EG+NR +++ F+ V+RLIR+ +G L Sbjct: 178 VTFDKLEDNGGEGFNHWYKVMLKEGRNRIVRRTFDALALPVSRLIRVRFGIINL 231 >gi|22298198|ref|NP_681445.1| pseudouridylate synthase [Thermosynechococcus elongatus BP-1] gi|22294377|dbj|BAC08207.1| pseudouridylate synthase [Thermosynechococcus elongatus BP-1] Length = 250 Score = 131 bits (330), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 87/237 (36%), Positives = 123/237 (51%), Gaps = 7/237 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV---PL 67 T +R+ KV+A G+ASRR E +I +V VNG + + D IE G P Sbjct: 1 MTTERLQKVLAHWGVASRRHAETLIRSGQVFVNGQRAKLGDKVDPARDRIEYKGERLNPP 60 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLL 124 R +R L L HKP G++ T DP GR+TV D LP ++ RV VGRLD ++ G LLL Sbjct: 61 RPPQRLYL-LLHKPKGVLCTCHDPQGRTTVLDLLPPMYQRVGGLHPVGRLDADSSGALLL 119 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG L P + YRV GQ ++ L ++GI + G+ V +G Sbjct: 120 TNDGAFTYYLSHPRHHIPKTYRVWVQGQPPENVLQRWRQGIPLDGVMTLPATVKRLRSEG 179 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 A + + L EG+NR+I++V + + V L RI+ GP LG L + R +S+ L Sbjct: 180 DRALLEIILHEGRNRQIRRVADQLGYPVLALQRIAIGPVHLGHLRPRAVRPLSRHEL 236 >gi|149190891|ref|ZP_01869154.1| pseudouridine synthase family 1 protein [Vibrio shilonii AK1] gi|148835246|gb|EDL52220.1| pseudouridine synthase family 1 protein [Vibrio shilonii AK1] Length = 310 Score = 131 bits (330), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 87/217 (40%), Positives = 119/217 (54%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +++ KV+ARAG SRRE+E +I RV VNG + I +DG V + E Sbjct: 3 EKLQKVLARAGHGSRRELEALIKSGRVSVNGQVARLGERLEDENAVIRIDGHTVSAKAQE 62 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVVCRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G++++ K+ + G+ ++ V +G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEINEKKVRNVVNGVELEDGMARFEDVVYAGGEGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE+++++E V+RL R+ YG L Sbjct: 183 FYVVINEGRNREVRRLWESQETTVSRLKRVRYGDIYL 219 >gi|322434202|ref|YP_004216414.1| pseudouridine synthase [Acidobacterium sp. MP5ACTX9] gi|321161929|gb|ADW67634.1| pseudouridine synthase [Acidobacterium sp. MP5ACTX9] Length = 312 Score = 131 bits (330), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 86/243 (35%), Positives = 129/243 (53%), Gaps = 22/243 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A+AG+ASRR+ E +I RV+VNG ++ +T DHI VDG ++ E+ Sbjct: 24 ERLQKILAQAGLASRRKAEEIILDGRVQVNGTVVTELGTRADATKDHIRVDGKLIKGPEQ 83 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS------RVISVGRLDINTEGLLLLTN 126 + ++ +KP G VTT DP R TV + R+ VGRLD +EGLLL+TN Sbjct: 84 QKYYMVNKPRGYVTTLDDPQHRPTVMQLMTPKSGPHETQVRLYPVGRLDYLSEGLLLMTN 143 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-------------QGICYG 173 DG LA L ST + Y V+ G L+ +++GI+I I Sbjct: 144 DGDLANALSKASTGVEKTYLVKTSGVPPDSALDQIRRGIMIDRGRLDEVRAGRRDRILTA 203 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +V L ++G N W V L EG+NR+++K+FE V ++ RI YG +L + G Sbjct: 204 PAKVEL-VRRGDNPWYEVTLTEGRNRQLRKMFEEVGHHVEKIRRIGYGALRL-DVAPGEF 261 Query: 234 REV 236 RE+ Sbjct: 262 REL 264 >gi|197122579|ref|YP_002134530.1| pseudouridine synthase [Anaeromyxobacter sp. K] gi|196172428|gb|ACG73401.1| pseudouridine synthase [Anaeromyxobacter sp. K] Length = 329 Score = 131 bits (330), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 82/237 (34%), Positives = 123/237 (51%), Gaps = 4/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +A AGIASRR+ E +I+ RV+VN + V D + VDG + + E+ Sbjct: 4 ERLQKFLAGAGIASRRKAEALISAGRVRVNQRTVTELGTKVDPGRDLVTVDGALVSQPEQ 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G VTT SDP GR T + L + R VGRLD + EG LLLT+DG LA Sbjct: 64 RSYYLLYKPSGCVTTASDPQGRPTAMEYLRGVPGRPFPVGRLDYDAEGALLLTDDGELAN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P RVY V+ G + L +K G+ ++ ++V + N W+ V Sbjct: 124 RLAHPRYGHQRVYLVKVKGDPPAEALERMKAGVRLEDGPARALEVAVHEHADRNVWIRVV 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQLG 246 + EG+ +K++ E +V RL R +G +G L G R + + LR+++G Sbjct: 184 VGEGRFHLVKRLCEAVGLQVQRLFRPEFGGIGVGGLRPGKFRRLEPEEVRALRQRVG 240 >gi|328952678|ref|YP_004370012.1| pseudouridine synthase Rsu [Desulfobacca acetoxidans DSM 11109] gi|328453002|gb|AEB08831.1| pseudouridine synthase Rsu [Desulfobacca acetoxidans DSM 11109] Length = 242 Score = 131 bits (330), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 84/233 (36%), Positives = 123/233 (52%), Gaps = 1/233 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRK 69 T +R+ K +ARAG+ASRR+ E +I RV V+G ++ + S + VDG + Sbjct: 1 MTKERLQKYLARAGVASRRQGEELIRAGRVSVDGRIVTTLGQLIDSEKAEVMVDGRKVLP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R + +KP G VTT +DP GR V D LP R+ VGRLD + GLLLLTNDG Sbjct: 61 PPHCRTIVLNKPYGCVTTMADPQGRRKVIDLLPDQEERLYPVGRLDYDATGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P + + YR GQ L++GI + G QV L + + Sbjct: 121 LAHRLMHPRYKVAKTYRATVAGQFSPAARRRLREGITLDGRLTIPEQVRLVKTSSERSVL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + +REG+ +K++ V +L RI+YGP +LG L G+ RE++++ +R Sbjct: 181 ELTIREGRYHLVKRLCAAVGCPVLKLKRIAYGPLRLGRLALGTWRELTQEEVR 233 >gi|220917363|ref|YP_002492667.1| pseudouridine synthase [Anaeromyxobacter dehalogenans 2CP-1] gi|219955217|gb|ACL65601.1| pseudouridine synthase [Anaeromyxobacter dehalogenans 2CP-1] Length = 324 Score = 131 bits (329), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 82/237 (34%), Positives = 123/237 (51%), Gaps = 4/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +A AGIASRR+ E +I+ RV+VN + V D + VDG + + E+ Sbjct: 4 ERLQKFLAGAGIASRRKAEALISAGRVRVNQRTVTELGTKVDPGRDLVTVDGALVSQPEQ 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G VTT SDP GR T + L + R VGRLD + EG LLLT+DG LA Sbjct: 64 RSYYLLYKPSGCVTTASDPQGRPTAMEYLRGVPGRPFPVGRLDYDAEGALLLTDDGELAN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P RVY V+ G + L +K G+ ++ ++V + N W+ V Sbjct: 124 RLAHPRYGHQRVYLVKVKGDPPAEALERMKAGVRLEDGPARALEVAVHEHADRNVWIRVV 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQLG 246 + EG+ +K++ E +V RL R +G +G L G R + + LR+++G Sbjct: 184 VGEGRFHLVKRLCEAVGLQVQRLFRPEFGGIGVGGLRPGRFRRLEPEEVRALRQRVG 240 >gi|87124763|ref|ZP_01080611.1| putative pseudouridylate synthase specific to ribosomal small subunit [Synechococcus sp. RS9917] gi|86167642|gb|EAQ68901.1| putative pseudouridylate synthase specific to ribosomal small subunit [Synechococcus sp. RS9917] Length = 246 Score = 131 bits (329), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 86/243 (35%), Positives = 126/243 (51%), Gaps = 6/243 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T +R+ K+IA AG+ SRR+ E ++ QQRV+VNG ++ D I VDG PLR Sbjct: 1 MTGERLQKLIAAAGLCSRRKAEELLRQQRVRVNGQIVALGDRADPEQDRICVDGRPLRAP 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-SVGRLDINTEGLLLLTNDGG 129 E TRL L +KP+G++++ DP GR TV D +P+ R + +GRLD ++ G LLLTN G Sbjct: 61 EATRLLLLNKPVGVISSCYDPRGRRTVLDLIPNHLRRGLHPIGRLDADSRGALLLTNRGQ 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + YRV G L + G+ + G V ++G + Sbjct: 121 LTLRLSHPRYAHSKTYRVWLEGDPSPQHLQSWRDGVWLDGQRTQPATVQRLRREGGRTLL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 V L+EG+NR+I++ + V L RI+ LG+L G R + + R HL Sbjct: 181 EVTLQEGRNRQIRRTADQLGHPVLDLQRIAIAGIPLGSLAEGEWRALHRGEWR-----HL 235 Query: 250 LEE 252 + E Sbjct: 236 MPE 238 >gi|302533645|ref|ZP_07285987.1| pseudouridine synthase [Streptomyces sp. C] gi|302442540|gb|EFL14356.1| pseudouridine synthase [Streptomyces sp. C] Length = 239 Score = 131 bits (329), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 81/225 (36%), Positives = 125/225 (55%), Gaps = 3/225 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ V D I+VDG+ + + Sbjct: 4 ERLQKVLARAGMGSRRACEELIEQARVEVNGEIVTEQGKRVQPKDEIKVDGLTV-ATQSF 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 63 LFFALNKPAGVVSTMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGIILLTNHGELAHR 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y G + +D LK+GI ++ G D +D Q G N V V Sbjct: 123 LTHPKYGVQKTYVAAITGSLPRDIGKRLKEGIELEDGYARADNFRVVD-QVGKNYLVEVT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ + V++L+R S+GP +LG +G R ++ Sbjct: 182 LHEGRKHIVRRMLAEAGFPVDKLVRTSFGPIELGDQKSGWLRRLT 226 >gi|159037542|ref|YP_001536795.1| pseudouridine synthase [Salinispora arenicola CNS-205] gi|157916377|gb|ABV97804.1| pseudouridine synthase [Salinispora arenicola CNS-205] Length = 256 Score = 131 bits (329), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 87/227 (38%), Positives = 125/227 (55%), Gaps = 3/227 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+ KV+A AG+ SRR E +I ++RV VNG + + ++D I VDG L+ R Sbjct: 18 PERLQKVLAAAGVGSRRACEDLIFRRRVTVNGRIAQLGDRADPTSDTIHVDGERLQADTR 77 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP G+V+T +D GR+ + D L + + RV VGRLD ++EGLLLLTNDG LA Sbjct: 78 LVYLAMNKPRGVVSTMADEKGRTAIADFLGNRVQERVYHVGRLDADSEGLLLLTNDGTLA 137 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVT 190 L PS + Y G + + L GI + G D +DT G A V Sbjct: 138 HRLTHPSYGVPKTYLCEVSGPIPRTLGRRLAAGIELTDGPATVDAFRVVDTL-GRTAQVE 196 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V L EG+ ++++F+ V+RL+R S GP +LG L AG TR ++ Sbjct: 197 VTLHEGRKHIVRRLFDAVGHPVSRLVRTSIGPIRLGDLRAGRTRRLT 243 >gi|298529600|ref|ZP_07017003.1| RNA-binding S4 domain protein [Desulfonatronospira thiodismutans ASO3-1] gi|298511036|gb|EFI34939.1| RNA-binding S4 domain protein [Desulfonatronospira thiodismutans ASO3-1] Length = 262 Score = 130 bits (328), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 126/228 (55%), Gaps = 8/228 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K +ARAGI SRR + ++ RVKVN ++ + V D I VDG P++ Sbjct: 6 RLNKALARAGICSRRRADGLVFSGRVKVNDEVVREPGIRVDPEKDSIIVDGRPVKIETEQ 65 Query: 74 RLWLYH----KPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTND 127 L H KP+ +VTT SDP GR+ V D LP R + VGRLD + GLL+LTND Sbjct: 66 ERELVHVMLNKPVQVVTTTSDPGGRAKVTDLLPDRLRRMRLFPVGRLDYFSRGLLILTND 125 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G LA L PS + +VYRV+ G + + KL ++++G+V+ +G ++V + Q + Sbjct: 126 GDLAHSLTHPSRKIPKVYRVKMRGDLSKKKLQIMRRGMVLSEGEKLAPVEVKILQQTRDS 185 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L +G NR+I+++ + V L+RI GP LG L G R Sbjct: 186 VLAEMTLVQGINRQIRRMCRDLDMVVLSLVRIRQGPLALGELKPGEWR 233 >gi|162452113|ref|YP_001614480.1| pseudouridine synthase [Sorangium cellulosum 'So ce 56'] gi|161162695|emb|CAN94000.1| Pseudouridine synthase [Sorangium cellulosum 'So ce 56'] Length = 399 Score = 130 bits (328), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 78/208 (37%), Positives = 115/208 (55%), Gaps = 2/208 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K+IARAG+ASRR E +I RV+VNG ++ E D IEVDG L +E Sbjct: 3 ERLQKIIARAGVASRRASEELILAGRVRVNGRVVTELGLKADRQKDRIEVDGKRL-VSEA 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 HKP +V+T DP+GR TV D++ +R+ VGRLD T G+LL+TNDG A Sbjct: 62 PVYVALHKPRNVVSTLRDPEGRPTVADHVRGTGARLYPVGRLDFATSGILLMTNDGDFAN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y ++ G + D L ++GI ++ + L +G W+ V Sbjct: 122 ALLHPRGGVPKTYVLKVQGVMSDDDLTPWREGIRLEDGVTLPAEARLLRHEGDKTWLEVT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISY 220 LREG+N++I+++ E W V RL R ++ Sbjct: 182 LREGRNQQIRRMGEATGWPVMRLARTTF 209 >gi|154686561|ref|YP_001421722.1| RluB [Bacillus amyloliquefaciens FZB42] gi|154352412|gb|ABS74491.1| RluB [Bacillus amyloliquefaciens FZB42] Length = 244 Score = 130 bits (328), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 79/227 (34%), Positives = 125/227 (55%), Gaps = 5/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I + +VKVNG ++ V V +D IEV+G+ + + E Sbjct: 2 ERLQKVIAHAGVASRRKAEELIKEGKVKVNGKVITELGVKVTGSDQIEVNGLKVEREEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+++ D GR V D + R+ +GRLD +T GLLLLTNDG A Sbjct: 62 YFLLY-KPRGVISAADDDKGRKVVTDFFKEVPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVT 190 L P + + Y + G ++ L L++GI ++ + ++LD +K + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPSKELLRKLERGIQLEEGKTAPARAKLLSLDKRK-QTSIIQ 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE V +L R Y L L G RE+S Sbjct: 180 LTIHEGRNRQVRRMFEAIGHDVLKLKREEYAFLDLRGLRTGDARELS 226 >gi|325295025|ref|YP_004281539.1| pseudouridine synthase Rsu [Desulfurobacterium thermolithotrophum DSM 11699] gi|325065473|gb|ADY73480.1| pseudouridine synthase Rsu [Desulfurobacterium thermolithotrophum DSM 11699] Length = 252 Score = 130 bits (328), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 85/233 (36%), Positives = 130/233 (55%), Gaps = 10/233 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K +A AG+ +RR+VE +I Q RV VNG ++E AV V D + VDG +R +R Sbjct: 2 RLNKFLAYAGLGARRKVEELIKQGRVTVNGEVVENPAVEVDPKKDEVRVDGERVRLPKRF 61 Query: 74 RLWLYHKPIGLVTT-HSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++KP G++T +P D R V D R+ VGRLD NTEGLLL+TNDG LA Sbjct: 62 IYLAFNKPQGVLTAMEREPGDKRPIVADYFRKYPVRLFPVGRLDYNTEGLLLMTNDGELA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYG----DMQVTLDTQKG 184 L P + Y + G+V ++ +KKG + +G + D+++ ++ G Sbjct: 122 ERLAHPRYHIPKTYIAKVKGRVTPAEIERMKKGAKLVDDKGKPFFAKPIDIKLLKPSRTG 181 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 N +V + GKNR +++ F+ F+ V +L RI+ GP +LG L G RE++ Sbjct: 182 RNTYVQISFDIGKNRVVRRFFDRFDHGVLKLKRIAIGPLKLGNLPKGMYRELT 234 >gi|315103786|gb|EFT75762.1| conserved hypothetical protein [Propionibacterium acnes HL050PA2] Length = 245 Score = 130 bits (328), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 87/235 (37%), Positives = 129/235 (54%), Gaps = 8/235 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E MIA RV+VNG +++E+ D I VDG + A R Sbjct: 8 RLQKVLAQAGLASRRAAEDMIAAGRVEVNGELIVEQGRRVDPERDEIRVDGSRIPTARRH 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+T DP+GR + D +P R+ VGRLD T GL+LLTNDG A Sbjct: 68 VYYVLNKPQGVVSTMDDPEGRPCLSDLEGVPRGI-RLFHVGRLDTETSGLILLTNDGEFA 126 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + PS + L+ Y G+VD ++ L KG+ ++ V L ++ V V Sbjct: 127 NRMTHPSYKVLKTYLADVEGRVDDKVIHRLSKGLTLEDGPVKPDAVRLVQASEEHSLVEV 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L EG+NR ++++ + V RL R + GP +L L G RE++ E+LG Sbjct: 187 SLHEGRNRIVRRIMDSVAHPVRRLSRTAIGPVRLKRLGRGDMRELTH----EELG 237 >gi|289665762|ref|ZP_06487343.1| pseudouridylate synthase [Xanthomonas campestris pv. vasculorum NCPPB702] Length = 527 Score = 130 bits (328), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 97/247 (39%), Positives = 152/247 (61%), Gaps = 18/247 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG V Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQ-TGMSVRSGDKIELDGRSFVASALT 86 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G VTT DP+GR TVF++LP++ SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLN-----LLKKGIVIQ--GICYGDMQVTLDTQ 182 LA + PS + R Y VR ++K++ L +G++++ G + +++ T Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK-- 239 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV+++ Sbjct: 207 --SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGQSVEVAQEKV 264 Query: 240 -ILREQL 245 LR +L Sbjct: 265 DALRAEL 271 >gi|221319479|ref|ZP_03600773.1| RluB [Bacillus subtilis subsp. subtilis str. JH642] gi|221323755|ref|ZP_03605049.1| RluB [Bacillus subtilis subsp. subtilis str. SMY] gi|255767501|ref|NP_390197.2| pseudouridine synthase [Bacillus subtilis subsp. subtilis str. 168] gi|321311788|ref|YP_004204075.1| pseudouridine synthase [Bacillus subtilis BSn5] gi|251757325|sp|P35159|RLUB_BACSU RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|225185129|emb|CAB14248.2| pseudouridine synthase [Bacillus subtilis subsp. subtilis str. 168] gi|291484745|dbj|BAI85820.1| pseudouridine synthase [Bacillus subtilis subsp. natto BEST195] gi|320018062|gb|ADV93048.1| pseudouridine synthase [Bacillus subtilis BSn5] Length = 244 Score = 130 bits (328), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 79/227 (34%), Positives = 127/227 (55%), Gaps = 5/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I + +VKVNG ++ V V +D IEV+G+ + + E Sbjct: 2 ERLQKVIAHAGVASRRKAEELIKEGKVKVNGKVVTELGVKVTGSDQIEVNGLKVEREEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+++ D GR V D +I R+ +GRLD +T GLLLLTNDG A Sbjct: 62 YFLLY-KPRGVISAAQDDKGRKVVTDFFKNIPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVT 190 L P + + Y + G ++ L L++GI ++ + ++LD +K + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPPKELLRKLERGIRLEEGKTAPAKAKLLSLDKKK-QTSIIQ 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE +V +L R Y L L G RE++ Sbjct: 180 LTIHEGRNRQVRRMFEAIGHEVIKLKREEYAFLNLRGLHTGDARELT 226 >gi|303326819|ref|ZP_07357261.1| ribosomal large subunit pseudouridine synthase B [Desulfovibrio sp. 3_1_syn3] gi|302862807|gb|EFL85739.1| ribosomal large subunit pseudouridine synthase B [Desulfovibrio sp. 3_1_syn3] Length = 244 Score = 130 bits (328), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 80/226 (35%), Positives = 121/226 (53%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA G+ SRR+ + +I +V++NG L E A V+ D I V+ L A+ Sbjct: 2 RLNKAIAATGLCSRRKADELILAGQVRINGTLEENPARRVLPGDCIAVNDRELAAAQEYY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLAR 132 L HKP+ V T +DP+GR TV LP R+ VGRLD +EGLLLLTNDG LA+ Sbjct: 62 YLLLHKPVQTVCTVNDPEGRPTVMAYLPPEVRHLRLYPVGRLDYFSEGLLLLTNDGELAQ 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V G V + L +++G+ + +G + V T + N + + Sbjct: 122 RLTHPRHHQPKTYEVLIRGSVPETALAAMRRGMRLDEGQALLPVDVEAKTAENGNTLLRM 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L +G NR+I+++ + RL R++ GP LG L G+ R ++ Sbjct: 182 VLHQGVNRQIRRMCRDLGLTILRLRRVAQGPLALGNLKPGAARALT 227 >gi|87307978|ref|ZP_01090120.1| ribosomal large subunit pseudouridine synthase B [Blastopirellula marina DSM 3645] gi|87289060|gb|EAQ80952.1| ribosomal large subunit pseudouridine synthase B [Blastopirellula marina DSM 3645] Length = 517 Score = 130 bits (328), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 83/241 (34%), Positives = 136/241 (56%), Gaps = 8/241 (3%) Query: 1 MKDKNIVQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M + +N P +R+ KV+A AGI SRR+ E +I + RV+V+G + + V Sbjct: 1 MPENPAESDNPAPLRLERLHKVLAFAGIDSRRKCEALIQEGRVEVDGKFVTELGMKV-DP 59 Query: 58 DHIE--VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 +H E VDG L+ +R ++ +KP G+++T+ DP GR+ V D +P R+ ++GRLD Sbjct: 60 EHQEILVDGQRLKFGKRV-YYMLNKPPGVLSTNFDPAGRTRVIDMVPQDV-RLFTIGRLD 117 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 +EGL+++TNDG LA L P + + YRV G + D + +++G+ + + Sbjct: 118 RASEGLIVVTNDGELANRLAHPRYEIEKTYRVEVAGHPEPDAITFVRRGVHLAEGFVQPV 177 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 V + + + + V L EGKNREI+++ KV RL RI+ GP +LG + G+ RE Sbjct: 178 SVVMKRKNKQSTTLEVILDEGKNREIRRLMAKIGHKVLRLKRIAMGPLRLGEMPEGAFRE 237 Query: 236 V 236 + Sbjct: 238 L 238 >gi|224373604|ref|YP_002607976.1| ribosomal large subunit pseudouridine synthase B [Nautilia profundicola AmH] gi|223588928|gb|ACM92664.1| ribosomal large subunit pseudouridine synthase B [Nautilia profundicola AmH] Length = 253 Score = 130 bits (328), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 84/251 (33%), Positives = 132/251 (52%), Gaps = 27/251 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE +++I RVKVNG +++ V D + V+G P++K+ + Sbjct: 2 RLNKFISHHTTYSRREADKLIFDGRVKVNGRVIKEPGFEVEEGDKVAVNGKPVKKSTKYT 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +Y+KP G + T D GR T++D+LP + I VGRLD N+EGLL+LT+ +A L Sbjct: 62 CIVYNKPRGELVTKKDDRGRKTIYDSLPKKYRHFIPVGRLDFNSEGLLILTDSPKVAHAL 121 Query: 135 ---ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--------------YGDMQV 177 +LP RVY+++ G++ + ++ G+ + + Q+ Sbjct: 122 MNSDLP-----RVYKLKIKGEITDKMIEAMQNGVEVGDAGAHEENEIKKMVLKPFLSAQI 176 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +T K S V +G EGKNRE+++ F F +V L R+SYG L L G TR Sbjct: 177 IKNTPKYSTLKVAIG--EGKNRELRRFFANFGSEVVDLKRLSYGWVSLNALPTGKTRYFD 234 Query: 238 K---KILREQL 245 K K+L+E L Sbjct: 235 KKEYKLLKEFL 245 >gi|186685861|ref|YP_001869057.1| pseudouridine synthase [Nostoc punctiforme PCC 73102] gi|186468313|gb|ACC84114.1| pseudouridine synthase [Nostoc punctiforme PCC 73102] Length = 252 Score = 130 bits (328), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 80/219 (36%), Positives = 120/219 (54%), Gaps = 5/219 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++A+ GIASRRE E MI RV++NG L D I +DG L + +R Sbjct: 3 ERLQKILAQWGIASRREAEEMIRHSRVQINGKLAHLGQKVDPQKDAIAIDGKTLSEKQRP 62 Query: 74 RL--WLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDG 128 L L HKP G+V+T DP R TV D LP S + VGRLD ++ G L+LTNDG Sbjct: 63 ALIYLLLHKPAGVVSTCYDPHRRKTVLDLLPKELREGSGIHPVGRLDADSTGALILTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + YRV G + L + ++G+V++G +V L + ++ Sbjct: 123 NLTFGLTHPRHSISKTYRVLVKGHPPEVVLQMWREGVVLEGRKTRAAEVHLIEHRAEQSF 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 + + L+EG+NR+I+++ + + V +L R + GP QL T Sbjct: 183 LEIVLQEGRNRQIRRIAQQLGYPVIKLHRTAIGPIQLQT 221 >gi|295105527|emb|CBL03071.1| ribosomal large subunit pseudouridine synthase B [Faecalibacterium prausnitzii SL3/3] Length = 275 Score = 130 bits (328), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 81/228 (35%), Positives = 131/228 (57%), Gaps = 3/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKAE 71 +R+ K++A G+ SRR E++IA+ RVKVNG ++ + D H++ + + ++K + Sbjct: 4 ERIQKIMAEQGLCSRRAAEQIIAEGRVKVNGHPVKVGDKMDPNRDVLHVDDERIYIQKNQ 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G VTT SD GR TV D + I +R+ VGRLD ++EGLLL+TNDG A Sbjct: 64 QLYYLALYKPRGYVTTASDELGRKTVMDLVSDIPARLYPVGRLDKDSEGLLLMTNDGAFA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + + PS ++YRV + D+ + L G+V+ G + + T + + Sbjct: 124 QAVTHPSGGISKLYRVTVQPRADEATILKLSSGVVLDDGTKTMPCAINVVTDEPGRTVME 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + L+EGKNREI+++ E +V RL R + G +LG L G+ RE++K Sbjct: 184 MTLKEGKNREIRRMCESVGLEVVRLKRNAEGVVKLGMLKPGTYRELTK 231 >gi|160945258|ref|ZP_02092484.1| hypothetical protein FAEPRAM212_02777 [Faecalibacterium prausnitzii M21/2] gi|158442989|gb|EDP19994.1| hypothetical protein FAEPRAM212_02777 [Faecalibacterium prausnitzii M21/2] Length = 275 Score = 130 bits (328), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 81/228 (35%), Positives = 131/228 (57%), Gaps = 3/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKAE 71 +R+ K++A G+ SRR E++IA+ RVKVNG ++ + D H++ + + ++K + Sbjct: 4 ERIQKIMAEQGLCSRRAAEQIIAEGRVKVNGHPVKVGDKMDPNRDVLHVDDERIYIQKNQ 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G VTT SD GR TV D + I +R+ VGRLD ++EGLLL+TNDG A Sbjct: 64 QLYYLALYKPRGYVTTASDELGRKTVMDLVSDIPARLYPVGRLDKDSEGLLLMTNDGAFA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + + PS ++YRV + D+ + L G+V+ G + + T + + Sbjct: 124 QAVTHPSGGISKLYRVTVQPRADEATILKLSSGVVLDDGTKTMPCAINVVTDEPGRTVME 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + L+EGKNREI+++ E +V RL R + G +LG L G+ RE++K Sbjct: 184 MTLKEGKNREIRRMCESVGLEVVRLKRNAEGVVKLGMLKPGTYRELTK 231 >gi|220904481|ref|YP_002479793.1| pseudouridine synthase [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] gi|219868780|gb|ACL49115.1| pseudouridine synthase [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] Length = 243 Score = 130 bits (327), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 86/237 (36%), Positives = 128/237 (54%), Gaps = 7/237 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +G+ SRR+ + +I RV VNGI A V D + VDG PL A+ Sbjct: 2 RLNKAIAASGLCSRRKADELILSGRVTVNGIAEPNPARQVSPEDALGVDGRPLTGAQDFY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP+ +V T +DP+GR TV + LP R+ VGRLD +EGLLLLTNDG LA+ Sbjct: 62 YLMLNKPVQVVCTVNDPEGRPTVMEYLPKNMRALRLYPVGRLDYFSEGLLLLTNDGQLAQ 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS + Y V G V L ++ G+ + +G ++V KG V Sbjct: 122 RLTHPSHHQPKTYEVLVRGAVSDASLAAMRHGMRLAEGEDLMPVEVEASFTKGRTLLRMV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQL 245 L +G NR+I+++ + L R+S GP +LG L +G R+++ K+L+E + Sbjct: 182 -LHQGLNRQIRRMCRDLGLTILYLKRVSQGPIELGGLASGRARQLTAAEIKVLKESV 237 >gi|58581784|ref|YP_200800.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae KACC10331] gi|58426378|gb|AAW75415.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae KACC10331] Length = 566 Score = 130 bits (327), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 94/237 (39%), Positives = 147/237 (62%), Gaps = 15/237 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG V Sbjct: 48 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGTVAQ-TGMSVRSGDKIELDGRSFVASALT 106 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G VTT DP+GR TVF++LP++ SR I++GRLDINT GLLLLT DG Sbjct: 107 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 166 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLN-----LLKKGIVIQ--GICYGDMQVTLDTQ 182 LA + PS + R Y VR ++K++ L +G++++ G + +++ T Sbjct: 167 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 226 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV++ Sbjct: 227 --SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGQSVEVAQ 281 >gi|296332250|ref|ZP_06874712.1| pseudouridine synthase [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305674952|ref|YP_003866624.1| pseudouridine synthase [Bacillus subtilis subsp. spizizenii str. W23] gi|296150564|gb|EFG91451.1| pseudouridine synthase [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305413196|gb|ADM38315.1| pseudouridine synthase [Bacillus subtilis subsp. spizizenii str. W23] Length = 244 Score = 130 bits (327), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 78/227 (34%), Positives = 126/227 (55%), Gaps = 5/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I + +VKVNG ++ V V +D IEV+G+ + + E Sbjct: 2 ERLQKVIAHAGVASRRKAEELIKEGKVKVNGKVVTELGVKVTGSDQIEVNGLKVEREEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+++ D GR V D + R+ +GRLD +T GLLLLTNDG A Sbjct: 62 YFLLY-KPRGVISAAQDDKGRKVVTDFFKEVPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVT 190 L P + + Y + G ++ L L++GI ++ + ++LD +K + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPPKELLRKLERGIRLEEGKTAPAKAKLLSLDKKK-QTSIIQ 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE +V +L R Y L L G RE++ Sbjct: 180 LTIHEGRNRQVRRMFEAIGHEVIKLKREEYAFLNLRGLHTGDARELT 226 >gi|50842867|ref|YP_056094.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes KPA171202] gi|282853641|ref|ZP_06262978.1| pseudouridylate synthase [Propionibacterium acnes J139] gi|50840469|gb|AAT83136.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes KPA171202] gi|282583094|gb|EFB88474.1| pseudouridylate synthase [Propionibacterium acnes J139] gi|313813285|gb|EFS50999.1| conserved hypothetical protein [Propionibacterium acnes HL025PA1] gi|314923703|gb|EFS87534.1| conserved hypothetical protein [Propionibacterium acnes HL001PA1] gi|314967055|gb|EFT11154.1| conserved hypothetical protein [Propionibacterium acnes HL082PA2] gi|314983150|gb|EFT27242.1| conserved hypothetical protein [Propionibacterium acnes HL110PA3] gi|315092372|gb|EFT64348.1| conserved hypothetical protein [Propionibacterium acnes HL110PA4] gi|315092741|gb|EFT64717.1| conserved hypothetical protein [Propionibacterium acnes HL060PA1] gi|315105956|gb|EFT77932.1| conserved hypothetical protein [Propionibacterium acnes HL030PA1] gi|327327189|gb|EGE68965.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes HL103PA1] Length = 245 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 87/235 (37%), Positives = 129/235 (54%), Gaps = 8/235 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E MIA RV+VNG +++E+ D I VDG + A R Sbjct: 8 RLQKVLAQAGLASRRAAEDMIAAGRVEVNGELIVEQGRRVDPERDEIRVDGSRIPTARRH 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+T DP+GR + D +P R+ VGRLD T GL+LLTNDG A Sbjct: 68 VYYVLNKPQGVVSTMDDPEGRPCLSDLEGVPRGI-RLFHVGRLDTETSGLILLTNDGEFA 126 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + PS + L+ Y G+VD ++ L KG+ ++ V L ++ V V Sbjct: 127 NRMTHPSYKVLKTYLADVEGRVDDKVIHRLSKGLTLEDGPVKPDAVRLVQAGEEHSLVEV 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L EG+NR ++++ + V RL R + GP +L L G RE++ E+LG Sbjct: 187 SLHEGRNRIVRRIMDSVAHPVRRLSRTAIGPVRLKRLGRGDMRELTH----EELG 237 >gi|84623687|ref|YP_451059.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae MAFF 311018] gi|188576662|ref|YP_001913591.1| ribosomal large subunit pseudouridine synthase B [Xanthomonas oryzae pv. oryzae PXO99A] gi|84367627|dbj|BAE68785.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae MAFF 311018] gi|188521114|gb|ACD59059.1| ribosomal large subunit pseudouridine synthase B [Xanthomonas oryzae pv. oryzae PXO99A] Length = 546 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 94/237 (39%), Positives = 147/237 (62%), Gaps = 15/237 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG V Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGTVAQ-TGMSVRSGDKIELDGRSFVASALT 86 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G VTT DP+GR TVF++LP++ SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLN-----LLKKGIVIQ--GICYGDMQVTLDTQ 182 LA + PS + R Y VR ++K++ L +G++++ G + +++ T Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV++ Sbjct: 207 --SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGQSVEVAQ 261 >gi|167462334|ref|ZP_02327423.1| pseudouridylate synthase [Paenibacillus larvae subsp. larvae BRL-230010] gi|322381784|ref|ZP_08055738.1| pseudouridine synthase-like protein [Paenibacillus larvae subsp. larvae B-3650] gi|321154172|gb|EFX46494.1| pseudouridine synthase-like protein [Paenibacillus larvae subsp. larvae B-3650] Length = 249 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 86/249 (34%), Positives = 137/249 (55%), Gaps = 10/249 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E +I RV+VN ++ V V D I+VDG ++ E+ Sbjct: 3 ERLQKVLAAAGVASRRKCEEIILAGRVEVNDKVVSTLGVKVNPHQDVIKVDGRAIQNQEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L++KP G++T+ SDP+GR V D L I RV VGRLD +TEGLL+LTNDG A Sbjct: 63 IYI-LFNKPKGVITSVSDPEGRRVVGDFLKGIKERVYPVGRLDYDTEGLLILTNDGEFAN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT---LDTQKGSNAWV 189 ++ P + Y G L L++G+ ++ +V +D K + + Sbjct: 122 MVTHPRHHVSKTYHATVKGVPHGSVLEKLREGVKLEDGMTAPAEVEYHDIDPDK-KQSVI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK----ILREQL 245 ++ + EGKNR+++++FE + V RL R+ +G L L G R + K+ +L E Sbjct: 181 SITIYEGKNRQVRRMFEAVGYPVTRLKRVKFGSIPLVGLPRGKFRRMRKEEVQALLNEAS 240 Query: 246 GPHLLEEAQ 254 H +++ Q Sbjct: 241 QSHKVQKGQ 249 >gi|34498841|ref|NP_903056.1| hypothetical protein CV_3386 [Chromobacterium violaceum ATCC 12472] gi|34104693|gb|AAQ61050.1| conserved hypothetical protein [Chromobacterium violaceum ATCC 12472] Length = 479 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 80/229 (34%), Positives = 132/229 (57%), Gaps = 11/229 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTD 58 +K+ + P R+ K ++ +G+ SRRE+E I V VNG ++A++ V D Sbjct: 199 LKEVRVDHAEIEPVRLQKALSSSGVGSRREMEEWIEAGLVTVNG---KKASLGDKVGPQD 255 Query: 59 HIEVDG--VPLRKAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRL 114 + V G + L+ +R R+ +YHK G + T DP+GR TVFD LP SR +++GRL Sbjct: 256 KVLVKGDQIKLKWPDRLPRVIMYHKEEGEIVTRDDPEGRVTVFDRLPQAKSSRWVAIGRL 315 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICY 172 D+NT GLLL+T G LA + PS + R Y VR G++ + + + KG+ ++ + Sbjct: 316 DVNTSGLLLITTSGELANRMMHPSFEVEREYSVRVLGELTPEIMKEMTKGVELEDGEARF 375 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + T ++ +N W V ++EG+NRE++++FE F V+RL+R+ +G Sbjct: 376 DRIFQTGGQEESANQWYNVVIKEGRNREVRRMFEHFGLTVSRLMRVRFG 424 >gi|308174106|ref|YP_003920811.1| pseudouridine synthase [Bacillus amyloliquefaciens DSM 7] gi|307606970|emb|CBI43341.1| pseudouridine synthase [Bacillus amyloliquefaciens DSM 7] gi|328552765|gb|AEB23257.1| pseudouridine synthase [Bacillus amyloliquefaciens TA208] gi|328912437|gb|AEB64033.1| pseudouridine synthase [Bacillus amyloliquefaciens LL3] Length = 244 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 79/228 (34%), Positives = 125/228 (54%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I + +VKVNG ++ V V +D IEV+G+ + + E Sbjct: 2 ERLQKVIAHAGVASRRKAEELIKEGKVKVNGKVITELGVKVTGSDQIEVNGLKVEREEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+++ D GR V D + R+ +GRLD +T GLLLLTNDG A Sbjct: 62 YFLLY-KPRGVISAADDDKGRKVVTDFFKEVPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ----GICYGDMQVTLDTQKGSNAWV 189 L P + + Y + G ++ L L++GI ++ M ++LD +K + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPSKELLRKLERGIQLEEGKTAPARAKM-LSLDKRK-QTSII 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE V +L R Y L L G RE++ Sbjct: 179 QLTIHEGRNRQVRRMFEAIGHDVLKLKREEYAFLDLRGLHTGDARELT 226 >gi|257063679|ref|YP_003143351.1| ribosomal large subunit pseudouridine synthase B [Slackia heliotrinireducens DSM 20476] gi|256791332|gb|ACV22002.1| ribosomal large subunit pseudouridine synthase B [Slackia heliotrinireducens DSM 20476] Length = 249 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 79/233 (33%), Positives = 122/233 (52%), Gaps = 2/233 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVP 66 +E P RV K +ARAG+ASRR E ++ RV VNG ++ E A D + VDG Sbjct: 5 EERIVPMRVQKFLARAGVASRRRSEDLMTAGRVCVNGEVVTELGAKVDPRVDTVTVDGRE 64 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 +R + + +KP G +TT SDP GR+ V + +PS + + VGRLD +T GLLL + Sbjct: 65 VRLTDGPVTIMLNKPCGFITTMSDPYGRACVAELVPSDDYPGLFPVGRLDTDTSGLLLFS 124 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG L L P + Y G++ + L L+ G+ + VTL ++ Sbjct: 125 TDGELGNSLLHPRHHVDKTYEACVQGRISDEALQTLRDGVELDDGVTSPAAVTLVSRSKE 184 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + +T+ + EG+ R+++++ + V L R +GP LG L GS RE++K Sbjct: 185 KSRITLVIHEGRTRQVRRMCQKVGHPVLELHRAQFGPLTLGDLPEGSWRELTK 237 >gi|166712399|ref|ZP_02243606.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzicola BLS256] Length = 553 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 94/237 (39%), Positives = 147/237 (62%), Gaps = 15/237 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG V Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGTVAQ-TGMSVRSGDKIELDGRSFVASALT 86 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G VTT DP+GR TVF++LP++ SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLN-----LLKKGIVIQ--GICYGDMQVTLDTQ 182 LA + PS + R Y VR ++K++ L +G++++ G + +++ T Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV++ Sbjct: 207 --SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGQSVEVAQ 261 >gi|15616893|ref|NP_240106.1| hypothetical protein BU282 [Buchnera aphidicola str. APS (Acyrthosiphon pisum)] gi|11387285|sp|P57369|RLUB_BUCAI RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|25323981|pir||H84962 hypothetical protein [imported] - Buchnera sp. (strain APS) gi|10038957|dbj|BAB12992.1| hypothetical protein [Buchnera aphidicola str. APS (Acyrthosiphon pisum)] Length = 250 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 77/219 (35%), Positives = 125/219 (57%), Gaps = 7/219 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKA 70 +++ K+++ G SRR +E MI + +NG ++ +R + I+ + V ++K Sbjct: 3 EKIQKILSHLGYGSRRNIENMIKFGDISINGKKIVIGQRLNNKNIEVITIKGETVSIKKT 62 Query: 71 E-RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 + +T++ +Y+KP G + T +D R VFD LP + R IS+GRLDINT GLLL TN+G Sbjct: 63 DFKTKIIIYNKPEGEICTRNDYKKRPIVFDKLPLLNIHRWISIGRLDINTRGLLLFTNNG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKGSN 186 LA L PS + R Y +R G+++++ +N+LK G+ I+ + +Q N Sbjct: 123 NLANELMHPSNKIEREYYIRVFGKINKNTMNILKNGVKIKDGNAAFKSIQTIDHACSKKN 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W L EG+NREI+ +++ +V+RLIRI YG L Sbjct: 183 KWFKGVLCEGRNREIRSMWQAVQCQVSRLIRIRYGNIFL 221 >gi|21231653|ref|NP_637570.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|34098581|sp|Q8P8M6|RLUB_XANCP RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|21113349|gb|AAM41494.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. ATCC 33913] Length = 492 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 96/247 (38%), Positives = 151/247 (61%), Gaps = 18/247 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG V Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQ-TGMSVRSGDKIELDGRSFVASALT 86 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G VTT DP+GR TVF++LP++ SR I++GRLDINT GLLLLT DG Sbjct: 87 ESSRVLVYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDK-----LNLLKKGIVIQ--GICYGDMQVTLDTQ 182 LA + PS + R Y VR ++K + L +G++++ G + +++ T Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVPDSMIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK-- 239 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + E++++ Sbjct: 207 --SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGKVSLPRELLRGQSVELAQEKV 264 Query: 240 -ILREQL 245 LR +L Sbjct: 265 DALRAEL 271 >gi|227496094|ref|ZP_03926400.1| possible pseudouridine synthase Rsu [Actinomyces urogenitalis DSM 15434] gi|226834328|gb|EEH66711.1| possible pseudouridine synthase Rsu [Actinomyces urogenitalis DSM 15434] Length = 325 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 90/242 (37%), Positives = 122/242 (50%), Gaps = 15/242 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKA 70 T +R+ KV+A AG+ASRR E +IA RV V+G+++ V V S I VDG + Sbjct: 74 TGERLQKVLAHAGVASRRACEEIIAAGRVSVDGVVVTEPGVRVDPSRQEIRVDGSRVLTD 133 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS------------RVISVGRLDINT 118 L HKP G+VTT DP GR TV D S R++ VGRLD T Sbjct: 134 PDVITVLLHKPAGVVTTMEDPQGRPTVADLAEQFISEHRTELEHPESVRLVHVGRLDTET 193 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQV 177 EGLLLL+NDG LA L PS + + Y GQV+ L++GI + G+ D V Sbjct: 194 EGLLLLSNDGDLAHRLMHPSFEISKTYVAIVEGQVEGWVPRKLRRGIELDDGLAQADRVV 253 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 D S + V + L GKNR ++++ + V RL R GP +G L G R ++ Sbjct: 254 VKDAGP-SGSIVEITLHSGKNRIVRRMLDAVGHPVTRLARTKLGPLGIGGLRPGQMRRLT 312 Query: 238 KK 239 + Sbjct: 313 GE 314 >gi|294625442|ref|ZP_06704073.1| pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] gi|292600265|gb|EFF44371.1| pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] Length = 552 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 94/237 (39%), Positives = 147/237 (62%), Gaps = 15/237 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG V Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQ-TGMSVRSGDKIELDGRSFVASALT 86 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G VTT DP+GR TVF++LP++ SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLN-----LLKKGIVIQ--GICYGDMQVTLDTQ 182 LA + PS + R Y VR ++K++ L +G++++ G + +++ T Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV++ Sbjct: 207 --SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGHSVEVAQ 261 >gi|317128531|ref|YP_004094813.1| pseudouridine synthase [Bacillus cellulosilyticus DSM 2522] gi|315473479|gb|ADU30082.1| pseudouridine synthase [Bacillus cellulosilyticus DSM 2522] Length = 242 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 78/226 (34%), Positives = 128/226 (56%), Gaps = 5/226 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KVIA+AG+ SRR+ E++I + +V VNG + V + D + V+GVPL K E Sbjct: 5 ERLQKVIAQAGVTSRRKAEQLILEGKVIVNGNKVTELGTKVDLQHDEVIVEGVPLEKEEP 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY KP G++++ D GR V D +P+ R+ +GRLD +T GL+LLTNDG A Sbjct: 65 IYFLLY-KPTGVISSVDDEKGRKVVTDFIPT-DKRIFPIGRLDYDTSGLILLTNDGDFAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVT 190 +L P + + Y + G ++ + L+KGI ++ ++V+ +K + + Sbjct: 123 LLMHPKHEIYKTYIAKVEGVPLREDIKKLEKGIHLEDGRTAPAKVKVSRSDKKKGTSIIE 182 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EG+NR+++++FE V +L R +YG L L AG RE+ Sbjct: 183 ISIHEGRNRQVRRMFEAIGHPVMKLKRENYGFLNLKGLNAGDFREL 228 >gi|325915975|ref|ZP_08178268.1| ribosomal large subunit pseudouridine synthase B [Xanthomonas vesicatoria ATCC 35937] gi|325537785|gb|EGD09488.1| ribosomal large subunit pseudouridine synthase B [Xanthomonas vesicatoria ATCC 35937] Length = 545 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 94/237 (39%), Positives = 147/237 (62%), Gaps = 15/237 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG V Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQ-TGMSVRSGDKIELDGRSFVASALT 86 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G VTT DP+GR TVF++LP++ SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLN-----LLKKGIVIQ--GICYGDMQVTLDTQ 182 LA + PS + R Y VR ++K++ L +G++++ G + +++ T Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV++ Sbjct: 207 --SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGQSIEVAQ 261 >gi|227529187|ref|ZP_03959236.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus vaginalis ATCC 49540] gi|227350912|gb|EEJ41203.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus vaginalis ATCC 49540] Length = 240 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 82/229 (35%), Positives = 124/229 (54%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR E++IA V+VNG + + V D + VDGVPL + E Sbjct: 2 ERLQKVMAEAGVASRRASEKLIASGHVQVNGKTVTEMGIKVSEHDEVVVDGVPLHR-EAH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP ++T+ D GR TV D L + RV VGRLD +T G+LLLTNDG LA Sbjct: 61 VYYLLNKPRSVITSAHDDKGRRTVVDILKEEGVAERVYPVGRLDYDTTGILLLTNDGELA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWV 189 L P + + Y + G V+ + L L+ G+ + G + L K + V Sbjct: 121 NRLMHPKFEVEKTYIAKVRGIVNNNDLKQLRIGVEVNGRLTKKAKSRLIETDHKKQTSLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + EG+ ++K +F+ + V +L R +YGP L L +G RE+ + Sbjct: 181 KLTIHEGRYHQVKLMFDAIHHPVIKLHRETYGPLDLNGLQSGEFRELKQ 229 >gi|226312000|ref|YP_002771894.1| ribosomal large subunit pseudouridine synthase B [Brevibacillus brevis NBRC 100599] gi|226094948|dbj|BAH43390.1| probable ribosomal large subunit pseudouridine synthase B [Brevibacillus brevis NBRC 100599] Length = 249 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 87/227 (38%), Positives = 125/227 (55%), Gaps = 4/227 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR E +IAQ +V+VNG ++ + V D I V+G ++ + Sbjct: 2 ERLQKVLAHAGVASRRHCEELIAQGKVQVNGQVVREQGIKVDPLKDKIVVNGQQVKLEQH 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L LY KP G++T+ +DP GR V D L I RV VGRLD +T GLLLLTNDG LA Sbjct: 62 VYLLLY-KPTGVITSVTDPQGRRVVIDLLKGIQERVYPVGRLDYDTSGLLLLTNDGELAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN-AWVT 190 L PS + +VYR G +K+ L GI ++ G+ L + S A V Sbjct: 121 RLAHPSYEIDKVYRAWVKGIPSPEKVRKLATGIRLEDGMTSPGQSKLLKAESSSQRALVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++ E V L RI G L L G R+++ Sbjct: 181 LTIHEGRNRQVRRMCEAIGHPVLTLERIRLGFLTLDGLKPGEFRKLT 227 >gi|219681647|ref|YP_002468033.1| 23S rRNA pseudouridine synthase (YciL) [Buchnera aphidicola str. 5A (Acyrthosiphon pisum)] gi|219682204|ref|YP_002468588.1| 23S rRNA pseudouridine synthase (YciL) [Buchnera aphidicola str. Tuc7 (Acyrthosiphon pisum)] gi|257471336|ref|ZP_05635335.1| 23S rRNA pseudouridine synthase (YciL) [Buchnera aphidicola str. LSR1 (Acyrthosiphon pisum)] gi|219621937|gb|ACL30093.1| 23S rRNA pseudouridine synthase (YciL) [Buchnera aphidicola str. Tuc7 (Acyrthosiphon pisum)] gi|219624490|gb|ACL30645.1| 23S rRNA pseudouridine synthase (YciL) [Buchnera aphidicola str. 5A (Acyrthosiphon pisum)] gi|311086019|gb|ADP66101.1| 23S rRNA pseudouridine synthase (YciL) [Buchnera aphidicola str. LL01 (Acyrthosiphon pisum)] gi|311086593|gb|ADP66674.1| 23S rRNA pseudouridine synthase (YciL) [Buchnera aphidicola str. TLW03 (Acyrthosiphon pisum)] gi|311087176|gb|ADP67256.1| 23S rRNA pseudouridine synthase (YciL) [Buchnera aphidicola str. JF99 (Acyrthosiphon pisum)] gi|311087705|gb|ADP67784.1| 23S rRNA pseudouridine synthase (YciL) [Buchnera aphidicola str. JF98 (Acyrthosiphon pisum)] Length = 250 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 78/219 (35%), Positives = 125/219 (57%), Gaps = 7/219 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKA 70 +++ K+++ G SRR +E MI V +NG ++ +R + I+ + V ++K Sbjct: 3 EKIQKILSHLGYGSRRNIENMIKFGDVSINGKKIVIGQRLNNKNIEVITIKGETVSIKKT 62 Query: 71 E-RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 + +T++ +Y+KP G + T +D R VFD LP + R IS+GRLDINT GLLL TN+G Sbjct: 63 DFKTKIIIYNKPEGEICTRNDYKKRPIVFDKLPLLNIHRWISIGRLDINTRGLLLFTNNG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSN 186 LA L PS + R Y +R G+++++ +N+LK G+ I+ + +Q N Sbjct: 123 NLANELMHPSNKIEREYYIRVFGKINKNTMNILKNGVKIKDGYAAFKSIQTIDHACSKKN 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W L EG+NREI+ +++ +V+RLIRI YG L Sbjct: 183 KWFKGVLCEGRNREIRSMWQAVQCQVSRLIRIRYGNIFL 221 >gi|222084363|ref|YP_002542892.1| pseudouridylate synthase [Agrobacterium radiobacter K84] gi|221721811|gb|ACM24967.1| pseudouridylate synthase [Agrobacterium radiobacter K84] Length = 278 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 80/233 (34%), Positives = 131/233 (56%), Gaps = 19/233 (8%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNG---------ILLERAAVNVMSTDHIEVDGVP 66 + + +++ G SR + E +IA RV V+G I L+RA I VDG Sbjct: 27 LPRALSKLGYCSRTQAEALIAAGRVTVDGREITDPTAWIDLDRA--------RIAVDGEA 78 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLT 125 + AE+ ++ +KP GLVTT DP+GR TV+D L I +R ++ VGRLD +EGLLL T Sbjct: 79 I-AAEKKLYFMLNKPRGLVTTRDDPEGRPTVYDCLRDIDARHLAPVGRLDKASEGLLLFT 137 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 ND LA+ L P + ++Y V+ + ++Q+ L+ +++G++ G L Sbjct: 138 NDTVLAQALLDPISHVGKIYHVQVNTIMEQELLDRMERGVIDDGELLTATAARLLRSGDR 197 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 N W+ V L+EG+NR+I+++ E + RL+R+++G LG L G+ R +++ Sbjct: 198 NGWIEVELKEGRNRQIRRMLEVLGVECLRLVRVAFGDIALGDLAKGAVRALTE 250 >gi|261367368|ref|ZP_05980251.1| ribosomal large subunit pseudouridine synthase B [Subdoligranulum variabile DSM 15176] gi|282570129|gb|EFB75664.1| ribosomal large subunit pseudouridine synthase B [Subdoligranulum variabile DSM 15176] Length = 267 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 82/229 (35%), Positives = 127/229 (55%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ KV+A GI SRRE ER+IA +VKVNG + D + +DG +R R Sbjct: 4 QRIQKVLADQGICSRREAERLIAAGKVKVNGRPVGLGDKMDPDYDKVSIDGKNVRIV-RK 62 Query: 74 RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R + Y HKP G +TT SD GR TV D + + + + VGRLD ++EGLLL+T+DG Sbjct: 63 RQYTYIMLHKPRGYLTTRSDDRGRKTVMDLVADVPAMLRPVGRLDKDSEGLLLMTDDGAF 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 +L PS ++YRV + + ++++ + G+V+ G+ + + T + + Sbjct: 123 INLLTHPSGGVGKLYRVTVNPRATEEQVVQMASGVVLDDGVRTQPCVIHVVTDEPGRTVL 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + L EG+NR+I+++ +V RL R + GP +LG L G RE+ K Sbjct: 183 EITLHEGRNRQIRRMCSAVGLQVVRLKRSAEGPVKLGMLQPGEYRELKK 231 >gi|313837519|gb|EFS75233.1| conserved hypothetical protein [Propionibacterium acnes HL037PA2] gi|314927273|gb|EFS91104.1| conserved hypothetical protein [Propionibacterium acnes HL044PA1] gi|314972725|gb|EFT16822.1| conserved hypothetical protein [Propionibacterium acnes HL037PA3] gi|328907871|gb|EGG27634.1| pseudouridylate synthase [Propionibacterium sp. P08] Length = 245 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 87/235 (37%), Positives = 128/235 (54%), Gaps = 8/235 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E MIA RV+VNG +++E+ D I VDG + A R Sbjct: 8 RLQKVLAQAGLASRRAAEEMIAAGRVEVNGELIVEQGRRVDPEHDEIRVDGSRIPTARRH 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+T DP+ R + D +P R+ VGRLD T GL+LLTNDG A Sbjct: 68 VYYVLNKPRGVVSTMDDPESRPCLSDLEGVPRGI-RLFHVGRLDTETSGLILLTNDGEFA 126 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + PS + L+ Y G+VD + L KG+ ++ V L ++ V V Sbjct: 127 NRMTHPSYKVLKTYLADVEGRVDDKVIRRLSKGLTLEDGPVKPDAVRLVQAGDEHSLVEV 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L EG+NR ++++ + V RL R + GP +L L G RE++ RE+LG Sbjct: 187 SLHEGRNRIVRRMMDSVAHPVRRLSRTAIGPVRLKRLSRGDMRELT----REELG 237 >gi|188991361|ref|YP_001903371.1| putative pseudouridine synthase [Xanthomonas campestris pv. campestris str. B100] gi|167733121|emb|CAP51319.1| putative pseudouridine synthase [Xanthomonas campestris pv. campestris] Length = 538 Score = 130 bits (326), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 96/247 (38%), Positives = 151/247 (61%), Gaps = 18/247 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG V Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQ-TGMSVRSGDKIELDGRSFVASALT 86 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G VTT DP+GR TVF++LP++ SR I++GRLDINT GLLLLT DG Sbjct: 87 ESSRVLVYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDK-----LNLLKKGIVIQ--GICYGDMQVTLDTQ 182 LA + PS + R Y VR ++K + L +G++++ G + +++ T Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVPDSMIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK-- 239 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + E++++ Sbjct: 207 --SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGKVSLPRELLRGQSVELAQEKV 264 Query: 240 -ILREQL 245 LR +L Sbjct: 265 DALRAEL 271 >gi|221310234|ref|ZP_03592081.1| pseudouridine synthase [Bacillus subtilis subsp. subtilis str. 168] Length = 245 Score = 129 bits (325), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 81/234 (34%), Positives = 129/234 (55%), Gaps = 5/234 (2%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 I+ E +R+ KVIA AG+ASRR+ E +I + +VKVNG ++ V V +D IEV+G+ Sbjct: 10 IILEVKDMERLQKVIAHAGVASRRKAEELIKEGKVKVNGKVVTELGVKVTGSDQIEVNGL 69 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + + E LY KP G+++ D GR V D +I R+ +GRLD +T GLLLLT Sbjct: 70 KVEREEPVYFLLY-KPRGVISAAQDDKGRKVVTDFFKNIPQRIYPIGRLDYDTSGLLLLT 128 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQ 182 NDG A L P + + Y + G ++ L L++GI ++ + ++LD + Sbjct: 129 NDGEFANKLMHPKYEIDKTYVAKVKGIPPKELLRKLERGIRLEEGKTAPAKAKLLSLDKK 188 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 K + + + + EG+NR+++++FE +V +L R Y L L G RE+ Sbjct: 189 K-QTSIIQLTIHEGRNRQVRRMFEAIGHEVIKLKREEYAFLNLRGLHTGDAREL 241 >gi|169351006|ref|ZP_02867944.1| hypothetical protein CLOSPI_01783 [Clostridium spiroforme DSM 1552] gi|169292068|gb|EDS74201.1| hypothetical protein CLOSPI_01783 [Clostridium spiroforme DSM 1552] Length = 241 Score = 129 bits (325), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 77/225 (34%), Positives = 120/225 (53%), Gaps = 7/225 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA +G SRR+ E +I Q +V+VNG ++ V D + V+G P+ E Sbjct: 2 ERLQKVIAASGYTSRRKAEDLIVQGKVEVNGQVVRELGTKVKKGDIVTVEGKPIV-GENK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++++KP G V T D R V D + R+ VGRLD +T GL++++NDG A + Sbjct: 61 VYYVFYKPKGCVCTLDDEFDRPIVTDYFTDVKERIYPVGRLDFDTTGLIIMSNDGEFANM 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----CYGDMQVTLDTQKGSNAWV 189 + P + ++Y V G ++ LN L+KGI ++G+ C ++V + + Sbjct: 121 IMHPRSHLEKIYEVSVKGLINGQTLNKLEKGIYLEGVKTLPC--KIKVVNKDIEHKTTML 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNR++KK+FE V RL R+S G L L G R Sbjct: 179 KIKLVEGKNRQVKKMFESVGHPVKRLHRVSIGCVNLKGLTPGKYR 223 >gi|227515180|ref|ZP_03945229.1| pseudouridylate synthase [Lactobacillus fermentum ATCC 14931] gi|227086512|gb|EEI21824.1| pseudouridylate synthase [Lactobacillus fermentum ATCC 14931] Length = 241 Score = 129 bits (325), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 83/230 (36%), Positives = 125/230 (54%), Gaps = 5/230 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ KVIA AG+ASRR E +I +VKVNG ++ V D + V+G P+ + Sbjct: 1 MAKERLQKVIAHAGVASRRAAEGLILAGKVKVNGQVVTELGTKVDGNDEVMVNGEPVEQ- 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDG 128 E+ +L KP G++++ D GR TV D L + + +RV VGRLD +T GLL++TNDG Sbjct: 60 EQHEYYLLDKPRGVISSAHDDKGRKTVVDILKNEGVQTRVYPVGRLDYDTTGLLVMTNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSN 186 LA L P + +VY + G V D++ LL++G+ I G + L Q+ Sbjct: 120 ELANRLMHPRFEVDKVYIAKVKGLVSNDEMRLLREGVKIDGKKSQPARTKLLEANQRQKT 179 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + V + + EG ++KK+ E V +L R SYGP L L G R++ Sbjct: 180 SVVKLTIHEGHYHQVKKMMEAVGHPVLKLHRESYGPLTLAGLNPGQFRKL 229 >gi|221314557|ref|ZP_03596362.1| pseudouridine synthase [Bacillus subtilis subsp. subtilis str. NCIB 3610] Length = 229 Score = 129 bits (325), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 79/226 (34%), Positives = 126/226 (55%), Gaps = 5/226 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I + +VKVNG ++ V V +D IEV+G+ + + E Sbjct: 2 ERLQKVIAHAGVASRRKAEELIKEGKVKVNGKVVTELGVKVTGSDQIEVNGLKVEREEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+++ D GR V D +I R+ +GRLD +T GLLLLTNDG A Sbjct: 62 YFLLY-KPRGVISAAQDDKGRKVVTDFFKNIPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVT 190 L P + + Y + G ++ L L++GI ++ + ++LD +K + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPPKELLRKLERGIRLEEGKTAPAKAKLLSLDKKK-QTSIIQ 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EG+NR+++++FE +V +L R Y L L G RE+ Sbjct: 180 LTIHEGRNRQVRRMFEAIGHEVIKLKREEYAFLNLRGLHTGDAREL 225 >gi|256847151|ref|ZP_05552597.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus coleohominis 101-4-CHN] gi|256715815|gb|EEU30790.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus coleohominis 101-4-CHN] Length = 240 Score = 129 bits (325), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 81/225 (36%), Positives = 124/225 (55%), Gaps = 9/225 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR E++IA V VNG ++ V +D + VDGVP+++ E Sbjct: 2 ERLQKVMAEAGVASRRASEKLIAAGHVAVNGQVVTELGTKVTKSDQVTVDGVPIKR-EPL 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +L +KP G+V+T D GR TV D L + RV VGRLD +T G+LLLTNDG LA Sbjct: 61 KYYLLNKPRGVVSTAHDDKGRRTVVDILKDDDVEERVYPVGRLDYDTTGILLLTNDGALA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL----DTQKGSNA 187 L P + + Y + G + L L++G+++ G + + L D ++ S Sbjct: 121 NKLMHPKFEVEKTYIAKVKGVLSNHDLQKLRQGVIVDGRKTREAKSKLLEVADNRQSSRV 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 +T+ EG ++K++ + V +L R SYGP L L +G Sbjct: 181 RLTI--HEGHYHQVKRMLKAVGHPVIKLHRESYGPLNLYGLASGG 223 >gi|327330001|gb|EGE71755.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes HL097PA1] Length = 245 Score = 129 bits (325), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 88/235 (37%), Positives = 127/235 (54%), Gaps = 8/235 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E MIA RV+VNG L+ V D I VDG + A R Sbjct: 8 RLQKVLAQAGLASRRAAEDMIAAGRVEVNGELIVDQGRRVDPERDEIRVDGSRIPTARRH 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+T DP+GR + D +P R+ VGRLD T GL+LLTNDG A Sbjct: 68 VYYVLNKPQGVVSTMDDPEGRPCLSDLEGVPRGI-RLFHVGRLDTETSGLILLTNDGEFA 126 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + PS + L+ Y G+VD ++ L KG+ ++ V L ++ V V Sbjct: 127 NRMTHPSYKVLKTYLADVEGRVDDKVIHRLSKGLTLEDGPVKPDAVRLVQAGEEHSLVEV 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L EG+NR ++++ + V RL R + GP +L L G RE++ E+LG Sbjct: 187 SLHEGRNRIVRRIMDSVAHPVRRLSRTAIGPVRLKRLGRGDMRELTH----EELG 237 >gi|85057763|ref|YP_456679.1| 16S rRNA pseudouridylate synthase [Aster yellows witches'-broom phytoplasma AYWB] gi|84789868|gb|ABC65600.1| 16S rRNA pseudouridylate synthase [Aster yellows witches'-broom phytoplasma AYWB] Length = 245 Score = 129 bits (325), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 76/226 (33%), Positives = 124/226 (54%), Gaps = 6/226 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ KV+A A +ASRR+ E +I ++R+KVNG ++ V S+D I +D P+ KA + Sbjct: 2 QRLQKVLAYANVASRRKAEILILEKRIKVNGKIISELGTKVSSSDIITLDDKPITKATYS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G ++T D R TV D + + R+ +GRLD NT GLLL+TNDG L + Sbjct: 62 -YFLLNKPNGFLSTAKDKKNRPTVLDLIEEASIQRLYPIGRLDFNTTGLLLITNDGDLTQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ----GICYGDMQVTLDTQKGSNAW 188 L PS + Y V+ + + + L+ KGI+I +C + + + W Sbjct: 121 KLTHPSFCIPKEYHVKINACLQKKDLSTFCKGIIIDKKYLAVCKEIDILKISYMPKPSTW 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + + EGKNR+++K+ + ++V +L R Y + L G+ R Sbjct: 181 LKLVITEGKNRQVRKMMQALGYQVLKLKRYRYSFLTIENLTIGAYR 226 >gi|289671226|ref|ZP_06492301.1| pseudouridylate synthase [Xanthomonas campestris pv. musacearum NCPPB4381] Length = 291 Score = 129 bits (325), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 94/238 (39%), Positives = 147/238 (61%), Gaps = 15/238 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG V Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQ-TGMSVRSGDKIELDGRSFVASALT 86 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G VTT DP+GR TVF++LP++ SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDK-----LNLLKKGIVIQ--GICYGDMQVTLDTQ 182 LA + PS + R Y VR ++K + L +G++++ G + +++ T Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV+++ Sbjct: 207 --SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGQSVEVAQE 262 >gi|288918462|ref|ZP_06412813.1| pseudouridine synthase [Frankia sp. EUN1f] gi|288350102|gb|EFC84328.1| pseudouridine synthase [Frankia sp. EUN1f] Length = 308 Score = 129 bits (325), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 88/232 (37%), Positives = 127/232 (54%), Gaps = 15/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ KV+A AGI SRR E +I RV+V+G ++ V IEVDG R RT Sbjct: 72 RLQKVLAAAGIGSRRASEELIDAGRVRVDGEVVREQGRRVDPERAVIEVDGE--RVVTRT 129 Query: 74 RL--WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP G+++T +D GR T+ D L +R+ VGRLD ++EGLLL+TNDG LA Sbjct: 130 GLVHLALHKPRGVLSTMADDRGRPTIADLLTEFGTRLFHVGRLDADSEGLLLVTNDGDLA 189 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-----GSN 186 L PS + Y V G V +D L+ G+ ++ D V +D+ + S Sbjct: 190 HRLMHPSYGVQKTYLVEITGPVRKDLPRRLRSGVELE-----DGPVKVDSARIIDMAASR 244 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + L EG+N +++V E V+RL+R+S+GP LGTL AG R +++ Sbjct: 245 VMMEIVLHEGRNHVVRRVMESVGHPVHRLVRVSFGPVALGTLRAGRARHLTR 296 >gi|184155350|ref|YP_001843690.1| pseudouridine synthase [Lactobacillus fermentum IFO 3956] gi|260662137|ref|ZP_05863033.1| pseudouridine synthase [Lactobacillus fermentum 28-3-CHN] gi|183226694|dbj|BAG27210.1| pseudouridine synthase [Lactobacillus fermentum IFO 3956] gi|260553520|gb|EEX26412.1| pseudouridine synthase [Lactobacillus fermentum 28-3-CHN] Length = 241 Score = 129 bits (325), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 83/230 (36%), Positives = 125/230 (54%), Gaps = 5/230 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ KVIA AG+ASRR E +I +VKVNG ++ V D + V+G P+ + Sbjct: 1 MVKERLQKVIAHAGVASRRAAEGLILAGKVKVNGQVVTELGTKVDGNDEVMVNGEPVEQ- 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDG 128 E+ +L KP G++++ D GR TV D L + + +RV VGRLD +T GLL++TNDG Sbjct: 60 EQHEYYLLDKPRGVISSAHDDKGRKTVVDILKNEGVQTRVYPVGRLDYDTTGLLVMTNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSN 186 LA L P + +VY + G V D++ LL++G+ I G + L Q+ Sbjct: 120 ELANRLMHPRFEVDKVYIAKVKGLVSNDEMRLLREGVKIDGKKSQPARTKLLEANQRQKT 179 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + V + + EG ++KK+ E V +L R SYGP L L G R++ Sbjct: 180 SVVKLTIHEGHYHQVKKMMEAVGHPVLKLHRESYGPLTLAGLNPGQFRKL 229 >gi|291613735|ref|YP_003523892.1| RNA-binding S4 domain protein [Sideroxydans lithotrophicus ES-1] gi|291583847|gb|ADE11505.1| RNA-binding S4 domain protein [Sideroxydans lithotrophicus ES-1] Length = 280 Score = 129 bits (325), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 82/219 (37%), Positives = 126/219 (57%), Gaps = 8/219 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---KA 70 +R+ KV+A+AGI SRRE+E I+ RV VNG + + V D ++VDG +R + Sbjct: 12 ERLQKVLAQAGIGSRREMEEWISAGRVTVNGTVAT-LGMRVAEGDKVQVDGRNVRLQLQT 70 Query: 71 ERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E+T R+ LYHK G + + DP R++VFD LP + + I++GRLD NT GLL+ T Sbjct: 71 EQTMPRILLYHKQEGEIVSRDDPGERASVFDALPKLRGQKWIAIGRLDFNTSGLLIFTTS 130 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVIQGICYGDMQVTLDTQKGSN 186 G LA L P + R Y VR GQ+ + + + K+GI + Q++ + +G N Sbjct: 131 GELANRLMHPRFEVEREYAVRVQGQMTPEHMRQVTKEGIELDDGVVRFEQLSDEGGEGFN 190 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W + L+EG+NR +++ FE V+RL+R+ +G L Sbjct: 191 HWYRLVLKEGRNRVVRRTFEALGLPVSRLMRVRFGIIGL 229 >gi|302392426|ref|YP_003828246.1| ribosomal large subunit pseudouridine synthase B [Acetohalobium arabaticum DSM 5501] gi|302204503|gb|ADL13181.1| ribosomal large subunit pseudouridine synthase B [Acetohalobium arabaticum DSM 5501] Length = 244 Score = 129 bits (325), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 81/231 (35%), Positives = 124/231 (53%), Gaps = 2/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+++AG+ASRR+ E +I RV+VNG ++ V D I+VDG +++ E+ Sbjct: 2 ERLQKVMSQAGVASRRKSEDIITAGRVEVNGEVVTELGTKVDPEQDTIKVDGQQIKR-EK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G +TT DP R TV D + + V VGRLD +TEGLLLLTNDG L Sbjct: 61 LVYLLLNKPQGYITTVDDPHNRRTVIDLIQDVSQAVHPVGRLDKDTEGLLLLTNDGDLTY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + Y G +Q K+ L+KGI ++ + L + A V++ Sbjct: 121 ALTHPSHGIDKTYMATVKGVPNQSKIEALEKGIKLKDGWTAPAEAKLVAELAERAVVSLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EG+ ++K++ + V L RI +GP L L G R ++ ++E Sbjct: 181 IHEGRKHQVKRMLKSVGHPVEELKRIKFGPLDLTGLSPGEYRHLTNSEIKE 231 >gi|223940522|ref|ZP_03632370.1| pseudouridine synthase [bacterium Ellin514] gi|223890803|gb|EEF57316.1| pseudouridine synthase [bacterium Ellin514] Length = 235 Score = 129 bits (325), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 88/226 (38%), Positives = 125/226 (55%), Gaps = 4/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A AG+ASRR ER+I RV VNG + V D I +DG PLR + Sbjct: 3 RLQKFLAEAGVASRRASERIILGGRVSVNGDTVRELGTKVDPIHDSIALDGAPLRLKRKL 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP G V + D R + D LP+ + + SVGRLD ++EGL+ LTNDG + Sbjct: 63 YVAL-NKPRGYVCSRKDDRKRKVIGDLLPAEWDNLYSVGRLDSDSEGLIFLTNDGEFSLH 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG-DMQVTLDTQKGSNAWVTVG 192 L P + L+ Y G+V+Q+ L K GIV +G D TL Q S + V + Sbjct: 122 LTHPRYRVLKKYLATVEGRVEQEMLQRFKHGIVHEGEKLKVDRARTLSVQN-STSLVELE 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L EGKNREI+++FE V+RL+R+ G +LG L +G R +++ Sbjct: 181 LTEGKNREIRRLFESQGLTVSRLVRMQIGKIKLGELRSGKWRMLTE 226 >gi|13472018|ref|NP_103585.1| hypothetical protein mlr2177 [Mesorhizobium loti MAFF303099] gi|14022763|dbj|BAB49371.1| mlr2177 [Mesorhizobium loti MAFF303099] Length = 250 Score = 129 bits (325), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 82/228 (35%), Positives = 126/228 (55%), Gaps = 3/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 +++ +++ G+ SR + E +IA+ RV+V G ++ AA+ V ++ D I VDG P+ AER Sbjct: 19 LNRALSKLGLCSRTQAELLIAEGRVRVGGKVVRDAALRVDLNRDRIVVDGEPV-IAERKV 77 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP GLVTT DP R TV+ L + V VGRLD +EGLLL+TND A Sbjct: 78 YVMLNKPRGLVTTRDDPQQRDTVYACLEGLDLPFVSPVGRLDKASEGLLLMTNDTHFANR 137 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P++ + Y V+ D+ L L+ G+ + G + L G AW+ + L Sbjct: 138 LMDPASHLPKTYHVQVGTVPDEAMLETLRAGVSVDGETLTANSIVLLRSGGRTAWLEIVL 197 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+NR I+++ +V RLIRI+ G LG L G+ R ++ + L Sbjct: 198 DEGRNRHIRRLLAAHGIEVKRLIRIAIGRLPLGDLAKGTARHLTPEEL 245 >gi|323705338|ref|ZP_08116913.1| pseudouridine synthase [Thermoanaerobacterium xylanolyticum LX-11] gi|323535240|gb|EGB25016.1| pseudouridine synthase [Thermoanaerobacterium xylanolyticum LX-11] Length = 235 Score = 129 bits (324), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 81/226 (35%), Positives = 122/226 (53%), Gaps = 2/226 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +A GIASRR+ E++I +VKVNG + V V + D +E +G + K + Sbjct: 2 ERLQKYLAECGIASRRKCEQLILDGKVKVNGETVRELGVKVDPNKDVVEYNGKVVTKVNK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP+G +TT D R +V D L SI RV +GRLD +T GLLLLTNDG LA Sbjct: 62 NIYIMLNKPVGYITTVKDQFDRPSVID-LVSIDDRVYPIGRLDYDTSGLLLLTNDGDLAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY + G D+ KL++ + G+ I ++ + N+ V + Sbjct: 121 KLMHPRHNINKVYIAQIKGVPDKMKLDMFRNGLRIDNYKTAKAEIDILKVTNGNSTVKIA 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG+NR+I+K+ E V +L R+ G +G L G R +SK Sbjct: 181 IHEGRNRQIRKMCELIGHPVLKLKRVKIGNLDIGNLKTGQWRYLSK 226 >gi|289428195|ref|ZP_06429891.1| pseudouridylate synthase [Propionibacterium acnes J165] gi|295130922|ref|YP_003581585.1| pseudouridylate synthase [Propionibacterium acnes SK137] gi|289158576|gb|EFD06783.1| pseudouridylate synthase [Propionibacterium acnes J165] gi|291375273|gb|ADD99127.1| pseudouridylate synthase [Propionibacterium acnes SK137] gi|313764054|gb|EFS35418.1| conserved hypothetical protein [Propionibacterium acnes HL013PA1] gi|313771915|gb|EFS37881.1| conserved hypothetical protein [Propionibacterium acnes HL074PA1] gi|313807148|gb|EFS45643.1| conserved hypothetical protein [Propionibacterium acnes HL087PA2] gi|313809640|gb|EFS47376.1| conserved hypothetical protein [Propionibacterium acnes HL083PA1] gi|313816404|gb|EFS54118.1| conserved hypothetical protein [Propionibacterium acnes HL059PA1] gi|313819344|gb|EFS57058.1| conserved hypothetical protein [Propionibacterium acnes HL046PA2] gi|313819993|gb|EFS57707.1| conserved hypothetical protein [Propionibacterium acnes HL036PA1] gi|313823215|gb|EFS60929.1| conserved hypothetical protein [Propionibacterium acnes HL036PA2] gi|313824997|gb|EFS62711.1| conserved hypothetical protein [Propionibacterium acnes HL063PA1] gi|313827299|gb|EFS65013.1| conserved hypothetical protein [Propionibacterium acnes HL063PA2] gi|313829960|gb|EFS67674.1| conserved hypothetical protein [Propionibacterium acnes HL007PA1] gi|313833036|gb|EFS70750.1| conserved hypothetical protein [Propionibacterium acnes HL056PA1] gi|314914915|gb|EFS78746.1| conserved hypothetical protein [Propionibacterium acnes HL005PA4] gi|314917860|gb|EFS81691.1| conserved hypothetical protein [Propionibacterium acnes HL050PA1] gi|314919749|gb|EFS83580.1| conserved hypothetical protein [Propionibacterium acnes HL050PA3] gi|314924832|gb|EFS88663.1| conserved hypothetical protein [Propionibacterium acnes HL036PA3] gi|314930009|gb|EFS93840.1| conserved hypothetical protein [Propionibacterium acnes HL067PA1] gi|314956415|gb|EFT00727.1| conserved hypothetical protein [Propionibacterium acnes HL027PA1] gi|314957284|gb|EFT01387.1| conserved hypothetical protein [Propionibacterium acnes HL002PA1] gi|314960611|gb|EFT04713.1| conserved hypothetical protein [Propionibacterium acnes HL002PA2] gi|314967733|gb|EFT11832.1| conserved hypothetical protein [Propionibacterium acnes HL037PA1] gi|314972874|gb|EFT16971.1| conserved hypothetical protein [Propionibacterium acnes HL053PA1] gi|314975703|gb|EFT19798.1| conserved hypothetical protein [Propionibacterium acnes HL045PA1] gi|314978089|gb|EFT22183.1| conserved hypothetical protein [Propionibacterium acnes HL072PA2] gi|314984113|gb|EFT28205.1| conserved hypothetical protein [Propionibacterium acnes HL005PA1] gi|314986250|gb|EFT30342.1| conserved hypothetical protein [Propionibacterium acnes HL005PA2] gi|314989536|gb|EFT33627.1| conserved hypothetical protein [Propionibacterium acnes HL005PA3] gi|315080909|gb|EFT52885.1| conserved hypothetical protein [Propionibacterium acnes HL078PA1] gi|315084832|gb|EFT56808.1| conserved hypothetical protein [Propionibacterium acnes HL027PA2] gi|315086005|gb|EFT57981.1| conserved hypothetical protein [Propionibacterium acnes HL002PA3] gi|315088276|gb|EFT60252.1| conserved hypothetical protein [Propionibacterium acnes HL072PA1] gi|315095697|gb|EFT67673.1| conserved hypothetical protein [Propionibacterium acnes HL038PA1] gi|315098205|gb|EFT70181.1| conserved hypothetical protein [Propionibacterium acnes HL059PA2] gi|315101641|gb|EFT73617.1| conserved hypothetical protein [Propionibacterium acnes HL046PA1] gi|315109460|gb|EFT81436.1| conserved hypothetical protein [Propionibacterium acnes HL030PA2] gi|327327900|gb|EGE69674.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes HL096PA3] gi|327330039|gb|EGE71792.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes HL096PA2] gi|327442730|gb|EGE89384.1| hypothetical protein HMPREF9570_02678 [Propionibacterium acnes HL043PA1] gi|327443872|gb|EGE90526.1| hypothetical protein HMPREF9571_02471 [Propionibacterium acnes HL043PA2] gi|327443940|gb|EGE90594.1| hypothetical protein HMPREF9568_01854 [Propionibacterium acnes HL013PA2] gi|327452345|gb|EGE98999.1| hypothetical protein HMPREF9581_01384 [Propionibacterium acnes HL087PA3] gi|327452780|gb|EGE99434.1| hypothetical protein HMPREF9586_02253 [Propionibacterium acnes HL083PA2] gi|328752647|gb|EGF66263.1| hypothetical protein HMPREF9588_02444 [Propionibacterium acnes HL025PA2] gi|328753801|gb|EGF67417.1| hypothetical protein HMPREF9579_01456 [Propionibacterium acnes HL087PA1] gi|328755029|gb|EGF68645.1| hypothetical protein HMPREF9563_01406 [Propionibacterium acnes HL020PA1] gi|328761441|gb|EGF74967.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes HL099PA1] gi|332675803|gb|AEE72619.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes 266] Length = 245 Score = 129 bits (324), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 87/235 (37%), Positives = 128/235 (54%), Gaps = 8/235 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E MIA RV+VNG +++E+ D I VDG + A R Sbjct: 8 RLQKVLAQAGLASRRAAEDMIAAGRVEVNGELIVEQGRRVDPERDEIRVDGSRIPTARRH 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+T DP+GR + D +P R+ VGRLD T GL+LLTNDG A Sbjct: 68 VYYVLNKPQGVVSTMDDPEGRPCLSDLEGVPRGI-RLFHVGRLDTETSGLILLTNDGEFA 126 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + PS + L+ Y G+VD + L KG+ ++ V L ++ V V Sbjct: 127 NRMTHPSYKVLKTYLADVEGRVDDKVIRRLSKGLTLEDGPVKPDAVRLVQAGEEHSLVEV 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L EG+NR ++++ + V RL R + GP +L L G RE++ E+LG Sbjct: 187 SLHEGRNRIVRRIMDSVAHPVRRLSRTAIGPVRLKRLGRGDMRELTH----EELG 237 >gi|121308590|dbj|BAF43685.1| hypothetical protein [Vibrio fischeri] Length = 354 Score = 129 bits (324), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 88/224 (39%), Positives = 125/224 (55%), Gaps = 11/224 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTD-HIEVDGVPLRKA 70 +++ KV+ARAG+ SRRE+E MI RV V+G +RA + + + D I +DG + Sbjct: 3 EKLQKVLARAGLGSRRELETMIQAGRVSVDG---QRAKLGDRLENVDAKIRIDGHVVSVK 59 Query: 71 ERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 E T R+ YHKP G + T DP+GR TVFD LP I SR +SVGRLD NT GLLL T Sbjct: 60 ESTDVICRVLAYHKPEGELCTRHDPEGRRTVFDRLPKIRDSRWVSVGRLDANTAGLLLFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y R G++++ + L G+ ++ V +G Sbjct: 120 TDGELANRLMHPSRKVEREYMCRVFGEINEKMIRNLVSGVKLEDGEARFEDVMYAGGEGM 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 N V + EG+NRE++++++ V+RL R+ YG L L Sbjct: 180 NHTFYVVINEGRNREVRRLWDSQGVTVSRLKRVRYGDIFLEKAL 223 >gi|325068740|ref|ZP_08127413.1| pseudouridine synthase family protein [Actinomyces oris K20] Length = 303 Score = 129 bits (324), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 87/227 (38%), Positives = 120/227 (52%), Gaps = 14/227 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 QR+ KV+A AG+ASRR E++IA RV V+G+ + A V V T I VDG + Sbjct: 78 QRLQKVLAHAGVASRRACEQLIADGRVSVDGVTVTEAGVRVDPLTQEIRVDGSRILTNPE 137 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV----------FDNLPSIFSRVISVGRLDINTEGLL 122 + HKP G+VTT DP+GR TV LP R++ VGRLD TEGLL Sbjct: 138 LITLMLHKPAGVVTTMEDPEGRPTVAQYGRDYLAEHPELPDSL-RLVHVGRLDTETEGLL 196 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT 181 LL+NDG L+ L PS + + Y GQV+ L++GI ++ G D +VT+ Sbjct: 197 LLSNDGELSHRLMHPSFEIAKTYVAIVEGQVEAWVPRKLRRGIELEDGEAKAD-RVTVKD 255 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + V + L GKNR ++++ + V RL R GP +LG L Sbjct: 256 SGPRGSIVEITLHSGKNRIVRRMLDAVGHPVTRLARTRLGPLRLGNL 302 >gi|66768225|ref|YP_242987.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. 8004] gi|66573557|gb|AAY48967.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. 8004] Length = 542 Score = 129 bits (324), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 96/247 (38%), Positives = 151/247 (61%), Gaps = 18/247 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG V Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQ-TGMSVRSGDKIELDGRSFVASALT 86 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G VTT DP+GR TVF++LP++ SR I++GRLDINT GLLLLT DG Sbjct: 87 ESSRVLVYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDK-----LNLLKKGIVIQ--GICYGDMQVTLDTQ 182 LA + PS + R Y VR ++K + L +G++++ G + +++ T Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVPDSMIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK-- 239 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + E++++ Sbjct: 207 --SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGKVSLPRELLRGQSVELAQEKV 264 Query: 240 -ILREQL 245 LR +L Sbjct: 265 DALRAEL 271 >gi|194467810|ref|ZP_03073796.1| pseudouridine synthase [Lactobacillus reuteri 100-23] gi|194452663|gb|EDX41561.1| pseudouridine synthase [Lactobacillus reuteri 100-23] Length = 238 Score = 129 bits (324), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 82/226 (36%), Positives = 123/226 (54%), Gaps = 7/226 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +A AG+ASRR E++I Q +V VNG ++ V D I V+GVP+ E+ Sbjct: 2 ERLQKAMAEAGVASRRASEKLILQGKVAVNGKIVTELGTKVGVHDEIVVNGVPIHH-EQH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G++++ D GR TV D + I R+ VGRLD +T G+LLLTNDG LA Sbjct: 61 VYYLLNKPRGVISSAHDDKGRRTVVDIIHDADIDERIYPVGRLDYDTTGILLLTNDGALA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 L P + + Y + G V D+L L+ G+VI G + + +D K + Sbjct: 121 NKLMHPKYEVEKTYVAKVEGIVKNDELKQLRLGVVIDGRKTKPAKSKLLNVDRAK-KTSL 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V + + EG+N ++K +F+ V +L R +YGP L L G R Sbjct: 180 VQLTIHEGRNHQVKNMFKAVGHPVTKLHRETYGPLNLYGLQPGEFR 225 >gi|197334991|ref|YP_002155841.1| ribosomal large subunit pseudouridine synthase B [Vibrio fischeri MJ11] gi|197316481|gb|ACH65928.1| ribosomal large subunit pseudouridine synthase B [Vibrio fischeri MJ11] Length = 354 Score = 129 bits (324), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 88/224 (39%), Positives = 125/224 (55%), Gaps = 11/224 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTD-HIEVDGVPLRKA 70 +++ KV+ARAG+ SRRE+E MI RV V+G +RA + + + D I +DG + Sbjct: 3 EKLQKVLARAGLGSRRELETMIQAGRVSVDG---QRAKLGDRLENVDAKIRIDGHVVSVK 59 Query: 71 ERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 E T R+ YHKP G + T DP+GR TVFD LP I SR +SVGRLD NT GLLL T Sbjct: 60 ESTDVICRVLAYHKPEGELCTRHDPEGRRTVFDRLPKIRDSRWVSVGRLDANTAGLLLFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y R G++++ + L G+ ++ V +G Sbjct: 120 TDGELANRLMHPSRKVEREYMCRVFGEINEKMIRNLVTGVKLEDGEARFEDVMYAGGEGM 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 N V + EG+NRE++++++ V+RL R+ YG L L Sbjct: 180 NHTFYVVINEGRNREVRRLWDSQGVTVSRLKRVRYGDIFLEKAL 223 >gi|59711645|ref|YP_204421.1| 23S rRNA pseudouridylate synthase [Vibrio fischeri ES114] gi|59479746|gb|AAW85533.1| 23S rRNA pseudouridylate synthase [Vibrio fischeri ES114] Length = 354 Score = 129 bits (324), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 88/224 (39%), Positives = 125/224 (55%), Gaps = 11/224 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTD-HIEVDGVPLRKA 70 +++ KV+ARAG+ SRRE+E MI RV V+G +RA + + + D I +DG + Sbjct: 3 EKLQKVLARAGLGSRRELETMIQAGRVSVDG---QRAKLGDRLENVDAKIRIDGHVVSVK 59 Query: 71 ERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 E T R+ YHKP G + T DP+GR TVFD LP I SR +SVGRLD NT GLLL T Sbjct: 60 ESTDVICRVLAYHKPEGELCTRHDPEGRRTVFDRLPKIRDSRWVSVGRLDANTAGLLLFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y R G++++ + L G+ ++ V +G Sbjct: 120 TDGELANRLMHPSRKVEREYMCRVFGEINEKMIRNLVTGVKLEDGEARFEDVMYAGGEGM 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 N V + EG+NRE++++++ V+RL R+ YG L L Sbjct: 180 NHTFYVVINEGRNREVRRLWDSQGVTVSRLKRVRYGDIFLEKAL 223 >gi|282902023|ref|ZP_06309921.1| Pseudouridine synthase, Rsu [Cylindrospermopsis raciborskii CS-505] gi|281193110|gb|EFA68109.1| Pseudouridine synthase, Rsu [Cylindrospermopsis raciborskii CS-505] Length = 252 Score = 129 bits (324), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 82/216 (37%), Positives = 120/216 (55%), Gaps = 5/216 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 RV K+I++ GIASRRE E MI Q RV++NGIL D I +DG P+ + R Sbjct: 4 RVQKIISQWGIASRREAEEMIGQSRVRINGILARLGQKVDPRVDIISIDGKPVIQGNRPA 63 Query: 75 L--WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGG 129 L L +KP G+V+T +DP GR+TV D LP+ + + VGRLD ++ G L+LTNDG Sbjct: 64 LVYLLLNKPTGVVSTCNDPQGRTTVLDLLPAKLRQGTGIHPVGRLDADSTGALILTNDGD 123 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + Y V G + L + +G+++ G QV L Q + + + Sbjct: 124 LTFALTHPSHDISKTYHVVVEGHPPTNVLRMWSQGVMLDGRKTRTAQVKLIEQGVTQSKL 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + L+EG+NR+I++V + + V L R + G QL Sbjct: 184 EIILQEGRNRQIRRVAQQLGYPVVHLDRRAVGTIQL 219 >gi|172039420|ref|YP_001805921.1| pseudouridine synthase [Cyanothece sp. ATCC 51142] gi|171700874|gb|ACB53855.1| pseudouridine synthase [Cyanothece sp. ATCC 51142] Length = 259 Score = 129 bits (324), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 79/219 (36%), Positives = 122/219 (55%), Gaps = 5/219 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QRV K++++ G+ASRR E MI RV++NG ++ + D +EVDG ++ +R Sbjct: 3 QRVQKILSQWGVASRRHAEDMIVAGRVRLNGEIVTLGDKADPNCDRLEVDGKLIQPNQRP 62 Query: 74 RLW--LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 +L L +KPIG+V T +DP RS V D LP FS+ + VGRLD N+ G LLLTNDG Sbjct: 63 QLLYILMNKPIGVVCTCNDPQNRSIVLDFLPKAFSQGTGIHPVGRLDFNSSGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y V G +++L ++G+++ G QV + + + Sbjct: 123 ELTLRLTHPRYHLPKTYEVWVQGYPTEERLQQWREGVMLMGKKTLPAQVEVIRRSRQHTC 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 + V L EG+NR+I+++ + + V RL R + GP L + Sbjct: 183 LKVVLTEGRNRQIRRIVQHLGFHVLRLHRTAIGPLVLSS 221 >gi|257438983|ref|ZP_05614738.1| ribosomal large subunit pseudouridine synthase B [Faecalibacterium prausnitzii A2-165] gi|257198568|gb|EEU96852.1| ribosomal large subunit pseudouridine synthase B [Faecalibacterium prausnitzii A2-165] Length = 294 Score = 129 bits (324), Expect = 8e-28, Method: Compositional matrix adjust. Identities = 79/228 (34%), Positives = 132/228 (57%), Gaps = 3/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKAE 71 +R+ K++A G+ SRR E++IA+ RVKVNG ++ + D H++ + + ++K + Sbjct: 21 ERIQKIMAEQGLCSRRAAEQIIAEGRVKVNGHPVKVGDKMDPNRDVLHVDDERIYIQKNQ 80 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G VTT SD GR TV + + I +R+ VGRLD ++EGLLL+TNDG A Sbjct: 81 QLYYLALYKPRGYVTTASDELGRKTVMELVSDIPARLYPVGRLDKDSEGLLLMTNDGAFA 140 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + + PS ++YRV + D+ ++ + G+V+ G + + T + + Sbjct: 141 QAVTHPSGGISKLYRVTVQPRADESQILKMSSGVVLDDGTKTMPCAINVVTDEPGRTVME 200 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + L+EGKNREI+++ E +V RL R + G +LG L G+ RE++K Sbjct: 201 MTLKEGKNREIRRMCEAVGLEVVRLKRNAEGVVKLGMLKPGTYRELTK 248 >gi|70726424|ref|YP_253338.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus haemolyticus JCSC1435] gi|68447148|dbj|BAE04732.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus haemolyticus JCSC1435] Length = 245 Score = 129 bits (323), Expect = 8e-28, Method: Compositional matrix adjust. Identities = 74/223 (33%), Positives = 125/223 (56%), Gaps = 3/223 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +VKVNG + V S+D +EV+G+ + + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLITEGKVKVNGQTVTELGTKVKSSDTVEVEGIKIEQEDKM 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L++KP ++T+ SD GR+ V D + +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 YI-LFYKPTQVITSVSDDRGRTVVTDYFKDLETRIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN-AWVTV 191 + P + Y + G + ++++ L+ GI ++ G K N V + Sbjct: 125 MTHPRYHIQKKYVAKLKGYLMREEVKALENGIELEDGFTQPAQVKVKKQDKDKNITLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EG+NR+++++FE F +V++L RI +G L L AG R Sbjct: 185 TISEGRNRQVRRMFEHFGHQVDKLTRIEFGNLNLKGLNAGEGR 227 >gi|241206129|ref|YP_002977225.1| pseudouridine synthase [Rhizobium leguminosarum bv. trifolii WSM1325] gi|240860019|gb|ACS57686.1| pseudouridine synthase [Rhizobium leguminosarum bv. trifolii WSM1325] Length = 268 Score = 129 bits (323), Expect = 8e-28, Method: Compositional matrix adjust. Identities = 83/245 (33%), Positives = 133/245 (54%), Gaps = 8/245 (3%) Query: 9 ENFTPQRVS--KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGV 65 +N +RV+ + +++ G SR + ER+IA+ RV V+G + A+ V ++T I +DG+ Sbjct: 18 DNAAAKRVTLPRALSKLGYCSRTQAERLIAENRVAVDGRTVSDASAWVDLATASISIDGL 77 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLL 124 + AE + +KP GLVTT DP+GR TV+D L + VGRLD +EGLLL Sbjct: 78 VI-AAEAKIYLMLNKPRGLVTTRHDPEGRPTVYDCLRDFDIPHLSPVGRLDKASEGLLLF 136 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TND A++L P T + Y V+ +D + + + GI G Q Sbjct: 137 TNDTEFAQILLDPVTHVTKTYHVQIDRIMDDEDIAAMTAGIRHDGELLTATAARRLRQGD 196 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KIL 241 N+W+ V L EG+NR+I+++ E + RL+R++ G +LG L G+ R +++ + L Sbjct: 197 RNSWIEVELDEGRNRQIRRMLEALGTECLRLVRVAIGGLELGELPKGAVRALTEPELQAL 256 Query: 242 REQLG 246 R + G Sbjct: 257 RRKTG 261 >gi|227544893|ref|ZP_03974942.1| pseudouridylate synthase [Lactobacillus reuteri CF48-3A] gi|300910080|ref|ZP_07127540.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus reuteri SD2112] gi|227185105|gb|EEI65176.1| pseudouridylate synthase [Lactobacillus reuteri CF48-3A] gi|300892728|gb|EFK86088.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus reuteri SD2112] Length = 238 Score = 129 bits (323), Expect = 9e-28, Method: Compositional matrix adjust. Identities = 81/226 (35%), Positives = 123/226 (54%), Gaps = 7/226 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +A AG+ASRR E++I Q +V VNG ++ V D I V+GVP+ E+ Sbjct: 2 ERLQKAMAEAGVASRRASEKLILQGKVAVNGKIVTELGTKVGVHDEIVVNGVPIHH-EQH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G++++ D GR TV D + I R+ VGRLD +T G+LLLTNDG LA Sbjct: 61 VYYLLNKPRGVISSAHDDKGRRTVVDIIHDAEIDERIYPVGRLDYDTTGILLLTNDGALA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P + + Y + G V D+L L+ G+VI G + + +D K + Sbjct: 121 NKMMHPKYEVEKTYVAKVEGIVKNDELKQLRLGVVIDGRKTKPAKSKLLNVDRAK-KTSL 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V + + EG+N ++K +F+ V +L R +YGP L L G R Sbjct: 180 VQLTIHEGRNHQVKNMFKAVGHPVTKLHRETYGPLNLYGLQPGEFR 225 >gi|224476606|ref|YP_002634212.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus carnosus subsp. carnosus TM300] gi|222421213|emb|CAL28027.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus carnosus subsp. carnosus TM300] Length = 245 Score = 129 bits (323), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 75/224 (33%), Positives = 129/224 (57%), Gaps = 4/224 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +VKVNG + V +D++EV+GV L + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLIVEGKVKVNGETVTELGTKVKPSDNVEVEGVKLEQEDKL 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L++KP ++T+ SD GR+ V D + +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 YI-LFYKPAQVITSVSDDRGRTVVTDYFDDLETRIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + + Y + G + +D++ L+KGI ++ +V + Q + + V + Sbjct: 125 MTHPRYKIKKKYVAKLKGYLMRDEVKALEKGIQLEDGKTHPAEVKIKNQNKEKNTTVVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPF-QLGTLLAGSTR 234 + EG+NR+++++FE F +V++L R+ F L L AG R Sbjct: 185 TISEGRNRQVRRMFEHFGHEVSKLSRVELADFLTLKGLNAGEGR 228 >gi|157692817|ref|YP_001487279.1| pseudouridylate synthase [Bacillus pumilus SAFR-032] gi|157681575|gb|ABV62719.1| pseudouridylate synthase [Bacillus pumilus SAFR-032] Length = 281 Score = 129 bits (323), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 78/227 (34%), Positives = 123/227 (54%), Gaps = 5/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I + RV VNG + V V S+D IEV+G+ L + E Sbjct: 39 ERLQKVIAHAGVASRRKAEELIKEGRVTVNGQTVTELGVKVGSSDKIEVNGLKLEREEPV 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+++ D GR V D + R+ +GRLD +T GL+L+TNDG A Sbjct: 99 YFMLY-KPRGVISAAEDDKGRKVVTDFFDDVPQRLYPIGRLDYDTSGLILITNDGEFAHK 157 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVT 190 L P + + Y + G ++ L L+KGI++ + +++D +K V Sbjct: 158 LMHPKYEIDKTYAAKLKGIPSKELLRKLEKGIMLDHKKTAPARAKMLSIDKRK-QTCIVQ 216 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE V +L R Y + + G RE+S Sbjct: 217 LTIHEGRNRQVRRMFEAIGHDVLKLKREHYAFLHIEGMRPGDRRELS 263 >gi|255657972|ref|ZP_05403381.1| ribosomal large subunit pseudouridine synthase B [Mitsuokella multacida DSM 20544] gi|260850173|gb|EEX70180.1| ribosomal large subunit pseudouridine synthase B [Mitsuokella multacida DSM 20544] Length = 250 Score = 129 bits (323), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 78/233 (33%), Positives = 127/233 (54%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 +R+ K+I++AGIASRR E+MI + RV+V+G ++ V H I VDG + E+ Sbjct: 5 ERLQKIISQAGIASRRAAEKMILEGRVRVDGQVVRELGTKVDPAAHTILVDGKKIAGEEQ 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G ++T D GR TV D LP + RV VGRLD NTEGLLL+TNDG L Sbjct: 65 HVYLLLNKPKGYLSTAKDDRGRRTVLDLLPEVRERVYPVGRLDNNTEGLLLITNDGALMN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV--- 189 L P + + Y G++ ++KL +L+ G++++ +V+L ++ V Sbjct: 125 GLLHPRFEVEKTYHAGVTGKLTEEKLQMLRDGLLLEDGMTAPAKVSLLPEREPGERVRGL 184 Query: 190 ---TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+NR+++++F V L R+ + L + G R ++++ Sbjct: 185 TRAAITIHEGRNRQVRRMFAAVGCDVKSLKRVRFAGLTLKGVARGQHRALTEE 237 >gi|330445592|ref|ZP_08309244.1| 23S rRNA pseudouridine 2605 synthase [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|328489783|dbj|GAA03741.1| 23S rRNA pseudouridine 2605 synthase [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 364 Score = 128 bits (322), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 84/217 (38%), Positives = 119/217 (54%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----K 69 +++ KV+ARAG SRRE+E MI RV V+G++ + T ++ VDG + Sbjct: 3 EKLQKVLARAGQGSRREIELMIQNGRVSVDGVVAKLGDRLEDMTANVRVDGHRIELISSD 62 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 E R+ Y+KP G + T DP+GR TVFD LP + + R +SVGRLD NT GLLL T DG Sbjct: 63 EEICRILAYNKPEGELCTRHDPEGRRTVFDRLPRLNTGRWVSVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS R Y VR G V + + L KG+ ++ V +G N Sbjct: 123 ELANRLMHPSRTVEREYMVRVFGDVTEQMVKNLVKGVELEDGLARFEDVVYAGGEGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE++++++ V+RL R+ YG L Sbjct: 183 FYVVITEGRNREVRRLWDSQGVTVSRLKRVRYGDVYL 219 >gi|254385863|ref|ZP_05001182.1| pseudouridine synthase [Streptomyces sp. Mg1] gi|194344727|gb|EDX25693.1| pseudouridine synthase [Streptomyces sp. Mg1] Length = 260 Score = 128 bits (322), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 82/226 (36%), Positives = 126/226 (55%), Gaps = 5/226 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ V D I+VDG+ + A ++ Sbjct: 25 ERLQKVLARAGMGSRRACEELIEQARVEVNGEIVLEQGKRVQPKDEIKVDGLTV--ATQS 82 Query: 74 RLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 83 YLFFALNKPAGVVSTMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGIILLTNHGELAH 142 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P + Y G + ++ LK GI ++ G D +D Q G N V V Sbjct: 143 RLTHPKYGVKKTYVAAITGPLPREIGKRLKDGIELEDGYARADHFRVVD-QVGKNYLVEV 201 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ + V +L+R S+GP +LG +G R ++ Sbjct: 202 TLHEGRKHIVRRMMAEAGFPVEKLVRTSFGPIELGDQKSGWLRRLT 247 >gi|258591956|emb|CBE68261.1| Uncharacterized RNA pseudouridine synthase aq_1464 (RNA-uridine isomerase) (RNA pseudouridylate synthase) [NC10 bacterium 'Dutch sediment'] Length = 282 Score = 128 bits (322), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 79/226 (34%), Positives = 119/226 (52%), Gaps = 2/226 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ + +ARAG+ SRR E++I RV+VNG + + V D + D P+ ++ Sbjct: 25 ERLQRYLARAGLGSRRSCEQLILDGRVRVNGRIASQLGTKVSPGLDTVTCDHKPVTSSQS 84 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLA 131 + HKP G++T+ SDP GR + D LP R+ VGRLD TEGL+LLTNDG LA Sbjct: 85 LHYLILHKPAGVLTSLSDPRGRPVIGDLLPPRGLPRLFPVGRLDYQTEGLVLLTNDGVLA 144 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS + + Y + G D L LK G+V +G + +AW+ + Sbjct: 145 HGLMHPSFEVEKEYLAKVRGCPTPDDLARLKAGVVSEGEKLWATHAAIVKPGIGSAWLKL 204 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +G+ EI+++ + V RL RI GP LG L G R+++ Sbjct: 205 IVHQGRYHEIRRMCDAIGHPVLRLQRIRVGPIVLGKLPKGCWRQLT 250 >gi|78048073|ref|YP_364248.1| pseudouridylate synthase [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|78036503|emb|CAJ24194.1| Pseudouridylate synthase [Xanthomonas campestris pv. vesicatoria str. 85-10] Length = 547 Score = 128 bits (322), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 94/237 (39%), Positives = 145/237 (61%), Gaps = 15/237 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG V Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQ-TGMSVRSGDKIELDGRSFVASALT 86 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G VTT DP+GR TVF++LP + SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPVLKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDK-----LNLLKKGIVIQ--GICYGDMQVTLDTQ 182 LA + PS + R Y VR ++K + L +G++++ G + +++ T Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVPDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV++ Sbjct: 207 --SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGHSVEVAQ 261 >gi|294054852|ref|YP_003548510.1| pseudouridine synthase [Coraliomargarita akajimensis DSM 45221] gi|293614185|gb|ADE54340.1| pseudouridine synthase [Coraliomargarita akajimensis DSM 45221] Length = 243 Score = 128 bits (322), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 85/231 (36%), Positives = 125/231 (54%), Gaps = 6/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-AER 72 QR+ K+IA AG+ SRRE ER+I +V+VNG + + +S D I V+ PL K ER Sbjct: 7 QRIQKLIANAGLCSRREAERLIEDGKVRVNGKIAQLGDKARISDD-IFVNNKPLNKHVER 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 + L +KP G++ T+SDP TVFD LP R + GRLD ++EGLL+LTNDG L Sbjct: 66 SVTVLMNKPKGVLCTNSDPHADRTVFDLLPLDLQRQRMFCAGRLDKDSEGLLVLTNDGDL 125 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW-- 188 A + P++ ++ YRV H D+ + L G+ +G +V G Sbjct: 126 AHRITHPTSNVVKRYRVVLHRDFDKADIPKLLNGVDYEGDFLKAEKVIPAPAVGEGHLRR 185 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V L GK REI+++FE + V +L+R+ G L + G + + KK Sbjct: 186 LEVHLHHGKKREIRRLFEANRYYVKKLVRVQIGGMVLKNMPKGGIKVLGKK 236 >gi|325925508|ref|ZP_08186898.1| ribosomal large subunit pseudouridine synthase B [Xanthomonas perforans 91-118] gi|325544075|gb|EGD15468.1| ribosomal large subunit pseudouridine synthase B [Xanthomonas perforans 91-118] Length = 532 Score = 128 bits (322), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 94/237 (39%), Positives = 146/237 (61%), Gaps = 15/237 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG V Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQ-TGMSVRSGDKIELDGRSFVASALT 86 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G VTT DP+GR TVF++LP + SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPVLKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLN-----LLKKGIVIQ--GICYGDMQVTLDTQ 182 LA + PS + R Y VR ++K++ L +G++++ G + +++ T Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV++ Sbjct: 207 --SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGHSVEVAQ 261 >gi|167756635|ref|ZP_02428762.1| hypothetical protein CLORAM_02172 [Clostridium ramosum DSM 1402] gi|237733923|ref|ZP_04564404.1| ribosomal large subunit pseudouridine synthase B [Mollicutes bacterium D7] gi|167702810|gb|EDS17389.1| hypothetical protein CLORAM_02172 [Clostridium ramosum DSM 1402] gi|229383004|gb|EEO33095.1| ribosomal large subunit pseudouridine synthase B [Coprobacillus sp. D7] Length = 241 Score = 128 bits (322), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 76/225 (33%), Positives = 118/225 (52%), Gaps = 7/225 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I Q +V+VNG ++ V D I V+G PL E Sbjct: 2 ERLQKAIAASGYTSRRKAEDLIVQGKVEVNGKVVTELGTKVKQGDLITVEGKPLV-GENK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++++KP G V T D R + D + R+ VGRLD +T GL++++NDG A + Sbjct: 61 VYYVFYKPKGCVCTLDDEFDRPIITDYFTEVKERIYPVGRLDFDTTGLIIMSNDGEFANM 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----CYGDMQVTLDTQKGSNAWV 189 + P + ++Y V G + LN L+KG+ ++G+ C ++V + + Sbjct: 121 IMHPRSHLEKIYEVSIKGLITGPTLNKLEKGVYLEGVKTLPC--KIKVVDKDTEHKTTML 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNR++KK+FE V RL R+S G L L G R Sbjct: 179 KIKLVEGKNRQVKKMFESVGHPVKRLHRVSIGGINLKGLTPGRYR 223 >gi|73662568|ref|YP_301349.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305] gi|72495083|dbj|BAE18404.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305] Length = 245 Score = 128 bits (322), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 78/227 (34%), Positives = 130/227 (57%), Gaps = 3/227 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N +R+ K IA +G SRR+ E +I + +VKVNG + V +D IEV+G+ L + Sbjct: 2 NKDTERLQKRIANSGYTSRRKAETLITEGKVKVNGTVETELGTKVKPSDSIEVEGIKLEQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ + L++KP ++T+ SD GR V D I +R+ VGRLD +T GLLLLTNDG Sbjct: 62 EDKLYI-LFYKPAQVITSVSDDRGRKVVTDYFKQIKTRIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN-A 187 ++ P + + Y V+ G + ++++ L++G+ ++ G+ + + K N Sbjct: 121 FTNLMTHPRYKIKKKYVVKLKGYLMREEVKSLEQGVQLEDGVTQPAIIKVKNQDKDKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V + + EG+NR+++++FE F +V +L RI +GP L L AG R Sbjct: 181 LVEITITEGRNRQVRRMFEHFGHQVTKLQRIEFGPLNLKGLNAGEGR 227 >gi|310778392|ref|YP_003966725.1| ribosomal large subunit pseudouridine synthase B [Ilyobacter polytropus DSM 2926] gi|309747715|gb|ADO82377.1| ribosomal large subunit pseudouridine synthase B [Ilyobacter polytropus DSM 2926] Length = 236 Score = 128 bits (322), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 75/225 (33%), Positives = 126/225 (56%), Gaps = 2/225 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G+ASRRE++R++ + +KVNG + + V +D IE++G RK Sbjct: 6 RINKYLSSIGVASRREIDRLVEKGSIKVNGAIAT-PGMQVSESDTIEINGKKFRKNRGKV 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G+++ D GR TV D L R+ VGRLD +TEGL+LLTNDG + Sbjct: 65 YFMLYKPTGVISAAKDDRGRKTVVD-LVKYQERIYPVGRLDFDTEGLILLTNDGDFFNKI 123 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P ++ + Y V G+V++ +++ LK+G+ ++ +V L + + + +R Sbjct: 124 MHPKSEVYKEYHVDVMGKVNKLEIDKLKRGVRLEDGITLPAKVELLDSSHETSKLRISIR 183 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 EG+NR+I+++ + V L R G LG L G RE+SKK Sbjct: 184 EGRNRQIRRMCKAVGHPVTHLKREKIGELSLGRLKKGGFRELSKK 228 >gi|317970403|ref|ZP_07971793.1| 16S rRNA pseudouridylate synthase [Synechococcus sp. CB0205] Length = 235 Score = 128 bits (321), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 81/233 (34%), Positives = 123/233 (52%), Gaps = 5/233 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ K+IA+AG+ SRR E ++ RV VNG + ++D I +DG PL + Sbjct: 1 MAAERLQKLIAQAGVCSRRRAEELLRDGRVTVNGQRAQLGDKADPNSDAISLDGQPLGAS 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTND 127 + L +KP G++++ DP+GR V D LP +R + VGRLD + G LLL+ND Sbjct: 61 AEPMVLLLNKPAGVLSSCFDPEGRPIVLDLLPPELARGQGLHPVGRLDFESRGALLLSND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSN 186 G L L P + YRV GQ Q L+ +G+ + G+ +QV +L +++G Sbjct: 121 GALTLQLTHPRYAHSKTYRVWVQGQPSQRVLDQWARGVSLDGLPSQPVQVRSLSSEQGRT 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + EGKNR+I++ E V L RI+ GP LG L G R ++ + Sbjct: 181 LLELV-MGEGKNRQIRRTAELLGHHVLDLQRIAIGPIHLGALPEGRWRRINDQ 232 >gi|289425044|ref|ZP_06426821.1| pseudouridylate synthase [Propionibacterium acnes SK187] gi|289154022|gb|EFD02710.1| pseudouridylate synthase [Propionibacterium acnes SK187] gi|313792449|gb|EFS40542.1| conserved hypothetical protein [Propionibacterium acnes HL110PA1] gi|313801506|gb|EFS42755.1| conserved hypothetical protein [Propionibacterium acnes HL110PA2] gi|313838267|gb|EFS75981.1| conserved hypothetical protein [Propionibacterium acnes HL086PA1] gi|314963143|gb|EFT07243.1| conserved hypothetical protein [Propionibacterium acnes HL082PA1] gi|315078206|gb|EFT50249.1| conserved hypothetical protein [Propionibacterium acnes HL053PA2] gi|327453532|gb|EGF00187.1| hypothetical protein HMPREF9584_01968 [Propionibacterium acnes HL092PA1] Length = 245 Score = 128 bits (321), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 87/235 (37%), Positives = 127/235 (54%), Gaps = 8/235 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E MIA RV+VNG +++E+ D I VDG + A R Sbjct: 8 RLQKVLAQAGLASRRAAEDMIAAGRVEVNGELIVEQGRRVDPERDEIRVDGSRIPTARRH 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+T DP+GR + D +P R+ VGRLD T GL+LLTNDG A Sbjct: 68 VYYVLNKPQGVVSTMDDPEGRPCLSDLEGVPRGI-RLFHVGRLDTETSGLILLTNDGEFA 126 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + PS + L+ Y G+VD + L KG+ ++ V L ++ V V Sbjct: 127 NRMTHPSYKVLKTYLADVEGRVDDKVIRRLSKGLTLEDGPVKPDAVRLVQAGEEHSLVEV 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L EG+NR ++++ + V RL R GP +L L G RE++ E+LG Sbjct: 187 SLHEGRNRIVRRIMDSVAHPVRRLSRTVIGPVRLKRLGRGDMRELTH----EELG 237 >gi|320451314|ref|YP_004203410.1| ribosomal large subunit pseudouridine synthase B [Thermus scotoductus SA-01] gi|320151483|gb|ADW22861.1| ribosomal large subunit pseudouridine synthase B [Thermus scotoductus SA-01] Length = 236 Score = 128 bits (321), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 87/238 (36%), Positives = 124/238 (52%), Gaps = 16/238 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRK 69 P R+ +ARAG+ SRR+ E +I Q RV+VNG + AV V D +EVDG P+ Sbjct: 4 PLRLQAFLARAGVGSRRKAEELIRQGRVRVNG----KVAVLGQKVNPGDVVEVDGKPVEP 59 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + HKP G TT DP + TVFD LP I + +GRLD ++EGLLLLTNDG Sbjct: 60 PRERIVLALHKPRGYTTTRHDPHAQKTVFDLLPDIPG-LHPIGRLDRDSEGLLLLTNDGH 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P +VYRV ++ L L +++G+ D + + Sbjct: 119 LTLRLTHPRYGVRKVYRV----YTERGTLPLAICQRLLEGVDLEDGPARALACRPAPGGA 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK----ILRE 243 + L EG+ RE++++ + + V RLIR+ GP LG L G R++S + +LRE Sbjct: 175 LLTLAEGRKREVRRMLKAVGYPVKRLIRLQVGPIHLGHLPPGKWRQLSPREVEALLRE 232 >gi|268610237|ref|ZP_06143964.1| pseudouridine synthase [Ruminococcus flavefaciens FD-1] Length = 247 Score = 128 bits (321), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 84/232 (36%), Positives = 128/232 (55%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----VPLRKA 70 R+ K+IA +G+ SRR+ E +I++ RVK+NG + + D I +DG +P +K+ Sbjct: 9 RIQKMIADSGVCSRRKAEELISRGRVKLNGHPV-KLGDKCGYKDIITIDGERLYIPKKKS 67 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R + +KP G VTT SD R V D L + RV VGRLD N+EGLLL TNDG Sbjct: 68 --FRYIIMNKPRGYVTTVSDELDRRCVMDLLDDVEDRVYPVGRLDRNSEGLLLFTNDGEF 125 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + PS + YRV + ++L L +G+ I G V + ++ + Sbjct: 126 ANSIMHPSRHISKTYRVTVRPDISDEQLIQLSEGVEIDGKRTLPATVIVKDKQPGRVVLL 185 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + ++EG+NR+I+K+ E +V RL R S GP +LG L G+ R+++ + LR Sbjct: 186 MTIKEGRNRQIRKMCEAVGLEVARLRRTSIGPIKLGMLKPGTYRDLTAEELR 237 >gi|86358998|ref|YP_470890.1| pseudouridylate synthase, ribosomal large subunit protein [Rhizobium etli CFN 42] gi|86283100|gb|ABC92163.1| probable pseudouridylate synthase, ribosomal large subunit protein [Rhizobium etli CFN 42] Length = 312 Score = 128 bits (321), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 79/225 (35%), Positives = 124/225 (55%), Gaps = 3/225 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 + + +++ G SR + ER+IA+ RV V+G + A+ V +ST I VDG+ + AE Sbjct: 72 LPRALSKLGYCSRTQAERLIAESRVAVDGRTVSDASAWVDLSTARISVDGLVI-AAEAKI 130 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP GLVTT DP+GR TV+D L + + VGRLD +EGLLL TND A+ Sbjct: 131 YLMLNKPRGLVTTRQDPEGRPTVYDCLKNFDIPHLSPVGRLDKASEGLLLFTNDTEFAQT 190 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T + Y V+ +D +++ + GI G Q N+W+ V L Sbjct: 191 LLDPLTHVTKTYHVQIDRLMDDEEIAAMTSGIRHDGELLTAAATRRLRQGDRNSWIEVEL 250 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EG+NR+I+++ E + RL+R++ G +LG L G+ R +++ Sbjct: 251 DEGRNRQIRRMLEALGAECLRLVRVAIGGLELGELPKGAVRALTE 295 >gi|21243053|ref|NP_642635.1| pseudouridylate synthase [Xanthomonas axonopodis pv. citri str. 306] gi|34098587|sp|Q8PK58|RLUB_XANAC RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|21108565|gb|AAM37171.1| pseudouridylate synthase [Xanthomonas axonopodis pv. citri str. 306] Length = 550 Score = 128 bits (321), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 94/237 (39%), Positives = 146/237 (61%), Gaps = 15/237 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG V Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQ-TGMSVRSGDKIELDGRSFVASALT 86 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G VTT DP+GR TVF++LP + SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPVLKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLN-----LLKKGIVIQ--GICYGDMQVTLDTQ 182 LA + PS + R Y VR ++K++ L +G++++ G + +++ T Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV++ Sbjct: 207 --SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGHSVEVAQ 261 >gi|261416560|ref|YP_003250243.1| RNA-binding S4 domain protein [Fibrobacter succinogenes subsp. succinogenes S85] gi|261373016|gb|ACX75761.1| RNA-binding S4 domain protein [Fibrobacter succinogenes subsp. succinogenes S85] gi|302327436|gb|ADL26637.1| pseudouridine synthase B, ribosomal large subunit [Fibrobacter succinogenes subsp. succinogenes S85] Length = 243 Score = 128 bits (321), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 82/229 (35%), Positives = 121/229 (52%), Gaps = 6/229 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDG--VPLRKAE 71 R++K I+ +G ASRR + ++A RV+VNG + V T D + VDG + L + Sbjct: 2 RINKYISLSGFASRRAADELVADGRVQVNGETISDLGHQVDETKDQVTVDGKLLKLPTNK 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +T++ ++HKP G V T DP GR TV+D LP + VGRLD+ + GLLL T+DG L Sbjct: 62 KTKVIMFHKPAGCVCTKDDPQGRRTVYDYLPPGYHNFKYVGRLDLQSRGLLLFTDDGELL 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---SNAW 188 L PS + R Y V + + L G+ I+ D Q + N + Sbjct: 122 YRLTHPSFEVPRSYYVWTTRPLSESAAQRLVDGVDIRDPEDPDAQEEIAFATDVYLENGF 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L EGKNREI+++ +++ L R+SY QLG L AG RE++ Sbjct: 182 AELVLIEGKNREIRRMMRAIGYEIRDLKRVSYCQIQLGDLPAGEFRELT 230 >gi|262067505|ref|ZP_06027117.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium periodonticum ATCC 33693] gi|291378768|gb|EFE86286.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium periodonticum ATCC 33693] Length = 234 Score = 128 bits (321), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 80/237 (33%), Positives = 133/237 (56%), Gaps = 24/237 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAER 72 R++K ++ GIASRR +++ I + R+KVNG++ ++V D I +D + +K E Sbjct: 2 RINKFLSSLGIASRRAIDKYIEEGRIKVNGVIAS-TGIDVTEDDEICIDDKKIETKKIEE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP+ +++ SD GR TV D L R+ +GRLD T GL+LLTNDG L Sbjct: 61 KVYFMLNKPLEVLSASSDDRGRKTVVD-LIKTDKRIFPIGRLDYMTSGLILLTNDGELFN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ----------GICYGDMQVTLDTQ 182 L P ++ + Y ++ G+V +++++ LKKG++++ GI Y D Sbjct: 120 RLVHPKSEIYKKYYIKVFGEVKKEEIDELKKGVLLEDGKTLPAKVAGIKY-------DKN 172 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 K S + + +REG+NR+I+++ E F +KV L R G LG L G RE++K+ Sbjct: 173 KTS---MYISIREGRNRQIRRMIEKFGYKVLMLRREKIGELSLGDLKEGKYRELTKE 226 >gi|148543988|ref|YP_001271358.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus reuteri DSM 20016] gi|184153383|ref|YP_001841724.1| putative pseudouridylate synthase [Lactobacillus reuteri JCM 1112] gi|227364901|ref|ZP_03848946.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus reuteri MM2-3] gi|325682474|ref|ZP_08161991.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus reuteri MM4-1A] gi|148531022|gb|ABQ83021.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus reuteri DSM 20016] gi|183224727|dbj|BAG25244.1| putative pseudouridylate synthase [Lactobacillus reuteri JCM 1112] gi|227070048|gb|EEI08426.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus reuteri MM2-3] gi|324978313|gb|EGC15263.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus reuteri MM4-1A] Length = 238 Score = 128 bits (321), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 81/226 (35%), Positives = 123/226 (54%), Gaps = 7/226 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +A AG+ASRR E++I Q +V VNG ++ V D I V+GVP+ E+ Sbjct: 2 ERLQKAMAEAGVASRRASEKLILQGKVAVNGKIVTELGTKVGVHDEIVVNGVPIHH-EQH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G++++ D GR TV D + I R+ VGRLD +T G+LLLTNDG LA Sbjct: 61 VYYLLNKPRGVISSAHDDKGRRTVVDIIHDADIDERIYPVGRLDYDTTGILLLTNDGTLA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 L P + + Y + G V D+L L+ G++I G + + +D K + Sbjct: 121 NKLMHPKYEVEKTYVAKVEGIVKNDELKQLRLGVIIDGRKTKPAKSKLLNVDRAK-KTSL 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V + + EG+N ++K +F+ V +L R +YGP L L G R Sbjct: 180 VQLTIHEGRNHQVKNMFKAVGHPVTKLHRETYGPLNLYGLQPGEFR 225 >gi|304406989|ref|ZP_07388643.1| pseudouridine synthase [Paenibacillus curdlanolyticus YK9] gi|304343976|gb|EFM09816.1| pseudouridine synthase [Paenibacillus curdlanolyticus YK9] Length = 445 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 85/243 (34%), Positives = 131/243 (53%), Gaps = 9/243 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K++A+AGIASRR+ E +I +V+VNG+ + D I V G P+ + Sbjct: 5 ERLQKILAQAGIASRRKCEELIISGQVEVNGVPVTTLGAKADPEEDVITVGGKPIVSENK 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G++T+ SDP GR V D L I RV +GRLD +TEGLLLLTNDG A Sbjct: 65 LYIML-NKPKGVITSASDPQGRKVVSDFLTGIKQRVYPIGRLDYDTEGLLLLTNDGEFAN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 +L P + Y G DKL+ L+KGI ++ +V + S+ + + Sbjct: 124 LLTHPKHHVPKTYWATVKGVPHGDKLDKLRKGIELEDGMTSPAEVEYQDIEPSDKESTIR 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG+NR+++++F+ V RL R+ +G L L G R + ++E LL Sbjct: 184 ITIYEGRNRQVRRMFDAIGHPVIRLKRVKFGELGLQNLKRGGWRPLKPHEVQE-----LL 238 Query: 251 EEA 253 +EA Sbjct: 239 QEA 241 >gi|15805921|ref|NP_294620.1| ribosomal large subunit pseudouridine synthase B [Deinococcus radiodurans R1] gi|6458615|gb|AAF10472.1|AE001942_4 ribosomal large subunit pseudouridine synthase B [Deinococcus radiodurans R1] Length = 257 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 93/244 (38%), Positives = 127/244 (52%), Gaps = 16/244 (6%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VP 66 + +R+ K +ARAGIASRR E +I RV VNG + A + V TD + VDG V Sbjct: 1 MSAERLHKRLARAGIASRRAAEELIRAGRVTVNG---QTAGLGQGVNDTDDVRVDGRLVE 57 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L + E LY KP+G VTT D GR V D +P + + VGRLD ++EGLLLLTN Sbjct: 58 LTRPETVTYALY-KPVGFVTTAHDEYGRRNVLDAMPDVPG-LHPVGRLDKDSEGLLLLTN 115 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQ--VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 DG L L P + YR G+ Q +L++L +GI + G Q Sbjct: 116 DGDLTLTLTHPRYGHEKAYRAWTEGREPPTQAELDVLVRGIAMDD---GPAQALSAAPAE 172 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 A+V +G EG+NR+++++ E V RL+R G LG L G RE+ + L + Sbjct: 173 DGAYVVLG--EGRNRQVRRMLEALGHPVGRLVRYRVGGLWLGDLNPGEYRELGPRDLEQL 230 Query: 245 LGPH 248 L PH Sbjct: 231 LHPH 234 >gi|86158107|ref|YP_464892.1| ribosomal large subunit pseudouridine synthase B [Anaeromyxobacter dehalogenans 2CP-C] gi|85774618|gb|ABC81455.1| ribosomal large subunit pseudouridine synthase B [Anaeromyxobacter dehalogenans 2CP-C] Length = 328 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 80/237 (33%), Positives = 122/237 (51%), Gaps = 4/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +A AGIASRR+ E +I+ RV+VN + V D + VDG + + ++ Sbjct: 4 ERLQKYLAGAGIASRRKAEALISAGRVRVNQRTVTELGTKVDPGRDLVTVDGALVSQPDQ 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G VTT SDP GR T + L + R VGRLD + EG LLLT+DG LA Sbjct: 64 RSYYLLYKPSGCVTTASDPQGRPTAMEYLRGVPGRPFPVGRLDYDAEGALLLTDDGELAN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P RVY V+ G + L +K G+ ++ ++ + N W+ V Sbjct: 124 RLAHPRYGHQRVYLVKVKGDPPAEALERMKAGVRLEDGPARAIEAAVHDHADRNVWIRVV 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQLG 246 + EG+ +K++ E +V RL R +G +G L G R + + LR+++G Sbjct: 184 VGEGRFHLVKRLCEAVGLQVQRLFRPEFGGIGVGGLRPGKFRRLQPEEVRALRQRVG 240 >gi|15895126|ref|NP_348475.1| pseudouridylate synthase [Clostridium acetobutylicum ATCC 824] gi|15024828|gb|AAK79815.1|AE007694_1 Predicted pseudouridylate synthase [Clostridium acetobutylicum ATCC 824] gi|325509265|gb|ADZ20901.1| pseudouridylate synthase [Clostridium acetobutylicum EA 2018] Length = 236 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 79/227 (34%), Positives = 124/227 (54%), Gaps = 2/227 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E+MI RVKVNG ++ V D IE+D ++ ++ Sbjct: 3 ERLQKYMAECGVASRRKCEKMIQDGRVKVNGTIVTELGFKVDYKKDTIELDNKEIKLEDK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T SD GR TV D L + RV VGRLD NT GLL++TNDG + Sbjct: 63 KVYAILNKPKGYLTAASDYRGRKTVID-LLNFKERVFPVGRLDFNTTGLLIVTNDGEIFN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G+ L+ L+KGI I G + +V++ + G N+ + + Sbjct: 122 RIMHPRQNVNKCYLATVKGKPQFKHLDALRKGIDIGGYITKEAEVSVVSFDGKNSILKIV 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EGK R+++++ + V L RIS G +LG L G+ R ++K+ Sbjct: 182 IHEGKKRQVRRMCAAVGFPVEELKRISIGNIKLGDLKEGNVRMLNKE 228 >gi|284045196|ref|YP_003395536.1| pseudouridine synthase [Conexibacter woesei DSM 14684] gi|283949417|gb|ADB52161.1| pseudouridine synthase [Conexibacter woesei DSM 14684] Length = 233 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 77/230 (33%), Positives = 129/230 (56%), Gaps = 6/230 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A AG+ASRR E++IA+ R+ V G ++ A +V ++ + DG P+R E Sbjct: 2 RLAKFLAHAGVASRRASEQLIAEGRIAVGGEIVLDPARDVDASSGVTYDGEPVRGEEPRV 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ HKP G+V+T +D GR TV + +P R+ VGRLD ++ GL+LLTNDG LA L Sbjct: 62 VYALHKPAGVVSTAADTHGRRTVTELVPQ-GRRLYPVGRLDADSTGLILLTNDGELANRL 120 Query: 135 ELPSTQWLRVYRVRFHG-QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 P + + YR G Q+ L L++G+ ++ M ++ S + + + Sbjct: 121 THPRFEVPKTYRATVGGPQIGDRTLRQLREGVRLE----DGMTAPARVRRLSAHVLELTI 176 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 EG+ R+++++ E V L+R +GP LG L G +R ++ + +RE Sbjct: 177 HEGRKRQVRRMCEEVGHPVKSLVRTQFGPLSLGDLGTGRSRRLTAREVRE 226 >gi|209558865|ref|YP_002285337.1| Putative ribosomal large subunit pseudouridine synthase [Streptococcus pyogenes NZ131] gi|209540066|gb|ACI60642.1| Putative ribosomal large subunit pseudouridine synthase [Streptococcus pyogenes NZ131] Length = 240 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 88/233 (37%), Positives = 130/233 (55%), Gaps = 15/233 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIKQGLVTLNGQVIMDLATTVKSGDVVEIEGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G +++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDTM 120 Query: 135 ELPSTQWLRV-YRVRFHGQVDQDKLNL--LKKGIVIQG-----ICYGDMQVTLDTQKGSN 186 P + +V +RV +V Q K NL L +GIVI G Y ++V D + Sbjct: 121 IHPRNEIDKVIWRV---SKVLQRKKNLRPLTRGIVIDGKKTKPARYNIVRVEADKNR--- 174 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V + + EG+N ++KK+FE V++L R G L L G R ++KK Sbjct: 175 SIVELTIHEGRNHQVKKMFESVGLLVDKLSRTRLGTVDLKGLRPGEARRLNKK 227 >gi|81428635|ref|YP_395635.1| pseudouridylate synthase, 16SrRNA-specific [Lactobacillus sakei subsp. sakei 23K] gi|78610277|emb|CAI55326.1| Pseudouridylate synthase, 16SrRNA-specific [Lactobacillus sakei subsp. sakei 23K] Length = 256 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 77/224 (34%), Positives = 125/224 (55%), Gaps = 4/224 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAER 72 +R+ KVIA AG+ASRR+ E +IA V +NG +++ + V ST HIEVDGVPL + ++ Sbjct: 2 ERLQKVIANAGVASRRKAETLIATGHVTLNGKVVKEMGIKVDSTSAHIEVDGVPLTREKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY KP +++ +D R V + L I RV +GRLD +T GLLLLTNDG A Sbjct: 62 VYYALY-KPRQVISAVTDDKKRRVVTEYLEDIQERVYPIGRLDYDTSGLLLLTNDGDFAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKGSNAWVT 190 ++ P + + Y + G + L L+KGI+++ +++ ++ + A ++ Sbjct: 121 MMMHPKYKVDKTYVAKVSGLPTAEMLRQLRKGIMLEKRKTAPAKVKIISTDRRKNTAILS 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + EG N ++K + V++L R +YG L L++G R Sbjct: 181 ITIHEGMNHQVKNMLAAVGLPVSKLKRETYGFLTLDGLVSGEYR 224 >gi|294664707|ref|ZP_06730039.1| Pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] gi|292605532|gb|EFF48851.1| Pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] Length = 544 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 93/237 (39%), Positives = 146/237 (61%), Gaps = 15/237 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG V Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQ-TGMSVRSGDKIELDGRSFVASALT 86 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E +R+ +Y+KP G V T DP+GR TVF++LP++ SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVITREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLN-----LLKKGIVIQ--GICYGDMQVTLDTQ 182 LA + PS + R Y VR ++K++ L +G++++ G + +++ T Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV++ Sbjct: 207 --SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGHSVEVAQ 261 >gi|182439522|ref|YP_001827241.1| putative pseudouridine synthase [Streptomyces griseus subsp. griseus NBRC 13350] gi|178468038|dbj|BAG22558.1| putative pseudouridine synthase [Streptomyces griseus subsp. griseus NBRC 13350] Length = 434 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 82/227 (36%), Positives = 127/227 (55%), Gaps = 6/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG+ SRR E +I Q RV+VNG I++E+ + D I+VDG+ + A+ Sbjct: 198 ERLQKVLARAGMGSRRACEELIEQARVEVNGEIVVEQGMRVDVHKDEIKVDGLTV-AAQS 256 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G+V++ DPDGR + D + + +R+ VGRLD TEG+++LTN G LA Sbjct: 257 YLFFALNKPAGVVSSMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGIIMLTNHGELAH 316 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWVT 190 L P + Y G + +D LK GI ++ G D +V +T G N V Sbjct: 317 RLTHPKYGVKKTYLAAIQGPLPRDLGKRLKDGIQLEDGYARADHFRVVENT--GKNYLVE 374 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V L EG+ ++++ + V RL+R S+GP LG +G R ++ Sbjct: 375 VTLHEGRKHIVRRMLAEAGFPVERLVRTSFGPIPLGDQKSGWLRRLT 421 >gi|239940238|ref|ZP_04692175.1| putative pseudouridine synthase [Streptomyces roseosporus NRRL 15998] gi|239986727|ref|ZP_04707391.1| putative pseudouridine synthase [Streptomyces roseosporus NRRL 11379] gi|291443668|ref|ZP_06583058.1| pseudouridine synthase [Streptomyces roseosporus NRRL 15998] gi|291346615|gb|EFE73519.1| pseudouridine synthase [Streptomyces roseosporus NRRL 15998] Length = 427 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 82/227 (36%), Positives = 127/227 (55%), Gaps = 6/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG+ SRR E +I Q RV+VNG I++E+ + D I+VDG+ + A+ Sbjct: 191 ERLQKVLARAGMGSRRACEELIEQARVEVNGEIVVEQGMRVDVHKDEIKVDGLTV-AAQS 249 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G+V++ DPDGR + D + + +R+ VGRLD TEG+++LTN G LA Sbjct: 250 YLFFALNKPAGVVSSMEDPDGRQCLGDYVNNRETRLFHVGRLDTETEGIIMLTNHGELAH 309 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWVT 190 L P + Y G + +D LK GI ++ G D +V +T G N V Sbjct: 310 RLTHPKYGVKKTYLAAIQGPLPRDLGKRLKDGIQLEDGYARADHFRVVENT--GKNYLVE 367 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V L EG+ ++++ + V RL+R S+GP LG +G R ++ Sbjct: 368 VTLHEGRKHIVRRMLAEAGFPVERLVRTSFGPIPLGDQKSGWLRRLT 414 >gi|298490451|ref|YP_003720628.1| pseudouridine synthase ['Nostoc azollae' 0708] gi|298232369|gb|ADI63505.1| pseudouridine synthase ['Nostoc azollae' 0708] Length = 254 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 85/244 (34%), Positives = 130/244 (53%), Gaps = 13/244 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K+I++ GIASRRE E MI + RVK+NGIL D I +DG P+ +++ Sbjct: 4 RIQKIISQWGIASRREAEEMIKRSRVKINGILAHLGQKVDPQIDTISIDGQPISQSQHPS 63 Query: 75 L--WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGG 129 L L +KP G+V+T DP GR TV D LP + VGRLD ++ G L+LTNDG Sbjct: 64 LIYLLLNKPPGVVSTCDDPQGRPTVLDLLPQKLRHGLGIHPVGRLDADSTGALILTNDGD 123 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + Y + G + L ++G+ ++G +V L + + Sbjct: 124 LTFSLTHPSHNIAKTYHIVVKGHPPEVVLGRWREGVFLEGRKTRPAKVQLIESLAHQSKL 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREVSKK---IL 241 + L+EG+NR+I++V E + V +L R + G QL T LL G R ++ + +L Sbjct: 184 EIILQEGRNRQIRRVAEQLGYPVIQLHRTAIGSIQLQTPKARFLLWGDYRHITPEEIIVL 243 Query: 242 REQL 245 ++Q+ Sbjct: 244 KKQI 247 >gi|307578345|gb|ADN62314.1| RNA-binding S4 domain-containing protein [Xylella fastidiosa subsp. fastidiosa GB514] Length = 519 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 98/250 (39%), Positives = 144/250 (57%), Gaps = 24/250 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ I+ +KVNG + + ++V S D IE+DG V Sbjct: 27 ERLHKVLAQAGLGSRRALEQRISNGLIKVNGDIAQ-LGMSVKSGDKIELDGRSFVASALT 85 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E R+ +Y+KP G VTT DP+GR TVF+ LP + +R I++GRLDINT GLLLLT DG Sbjct: 86 EPARVLIYNKPEGEVTTREDPEGRPTVFETLPVLKGARWIAIGRLDINTTGLLLLTTDGE 145 Query: 130 LARVLELPSTQWLRVYRVRFHG-----QVDQDKLNLLKKGIVIQGICYGDMQVTLDT--- 181 LA + PS++ R Y VR V + L L +G++++ D DT Sbjct: 146 LANAMMHPSSEIEREYVVRVRSPEGEEHVQDELLEQLTRGVMLE-----DGTAKFDTIER 200 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + E+ K Sbjct: 201 IGNTDSHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGSVLLPRELLRGQSTELPK 260 Query: 239 ---KILREQL 245 + LR QL Sbjct: 261 TQVEALRTQL 270 >gi|329769599|ref|ZP_08261003.1| hypothetical protein HMPREF0433_00767 [Gemella sanguinis M325] gi|328838354|gb|EGF87963.1| hypothetical protein HMPREF0433_00767 [Gemella sanguinis M325] Length = 243 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 75/224 (33%), Positives = 124/224 (55%), Gaps = 3/224 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K+IA +G SRR+ E++I +V VNG ++ + V +D I V+GV L K E Sbjct: 2 AERLQKLIAASGYTSRRKAEQLILDGKVTVNGTVVNQLGVKAEPSDIIIVEGVRLLK-EN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R +L++KP ++T+ SD R+ V D S+ RV+ VGRLD +T G L+++NDG Sbjct: 61 KRYYLFYKPEKVITSMSDEKDRTCVKDFFESVNERVVPVGRLDYDTSGALIMSNDGEFIN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 ++ P + + Y + G++D L +L+ G+ I +V + + K SN V Sbjct: 121 LITHPRHKIKKTYVAKISGKLDDRHLKILRSGVRIDNYKTAPAEVNIVKNKNKSSNTLVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + EGKNR+I+++FE ++V +L R + L L G R Sbjct: 181 LTIHEGKNRQIRRMFETLGYEVLKLKREAIEDLTLEGLKKGEYR 224 >gi|20807779|ref|NP_622950.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Thermoanaerobacter tengcongensis MB4] gi|254478705|ref|ZP_05092076.1| conserved hypothetical protein, putative [Carboxydibrachium pacificum DSM 12653] gi|20516335|gb|AAM24554.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Thermoanaerobacter tengcongensis MB4] gi|214035392|gb|EEB76095.1| conserved hypothetical protein, putative [Carboxydibrachium pacificum DSM 12653] Length = 236 Score = 127 bits (319), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 78/229 (34%), Positives = 123/229 (53%), Gaps = 2/229 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A GIASRR+ E I Q RVKVNG +++ + D IE D +R+ E+ Sbjct: 3 RLQKYLAECGIASRRKCEEYILQGRVKVNGKVVKELGTKIDPDVDIIEFDDKIVRREEKK 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G +T+ DP GR TV D L + R+ VGRLD +T GLLLLTNDG LA + Sbjct: 63 VYIMLYKPAGYITSVKDPFGRPTVLD-LVKVKERIYPVGRLDFDTSGLLLLTNDGELANI 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + ++ Y + G ++++ + G++I G ++ + K + V + + Sbjct: 122 LMHPKHEIVKTYVAKIKGIPTKEEMERFENGLIIDGRKTAKAKIRILNVKNGTSVVEIQI 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+NR++KK+ + V L R G +L L G R +++ +R Sbjct: 182 HEGRNRQVKKMCKAIGHPVIALKRTKIGELELKGLKPGEWRYLTEDEIR 230 >gi|326780186|ref|ZP_08239451.1| pseudouridine synthase Rsu [Streptomyces cf. griseus XylebKG-1] gi|326660519|gb|EGE45365.1| pseudouridine synthase Rsu [Streptomyces cf. griseus XylebKG-1] Length = 433 Score = 127 bits (319), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 82/227 (36%), Positives = 127/227 (55%), Gaps = 6/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG+ SRR E +I Q RV+VNG I++E+ + D I+VDG+ + A+ Sbjct: 197 ERLQKVLARAGMGSRRACEELIEQARVEVNGEIVVEQGMRVDVHKDEIKVDGLTV-AAQS 255 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G+V++ DPDGR + D + + +R+ VGRLD TEG+++LTN G LA Sbjct: 256 YLFFALNKPAGVVSSMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGIIMLTNHGELAH 315 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWVT 190 L P + Y G + +D LK GI ++ G D +V +T G N V Sbjct: 316 RLTHPKYGVKKTYLAAIQGPLPRDLGKRLKDGIQLEDGYARADHFRVVENT--GKNYLVE 373 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V L EG+ ++++ + V RL+R S+GP LG +G R ++ Sbjct: 374 VTLHEGRKHIVRRMLAEAGFPVERLVRTSFGPIPLGDQKSGWLRRLT 420 >gi|320011602|gb|ADW06452.1| pseudouridine synthase [Streptomyces flavogriseus ATCC 33331] Length = 389 Score = 127 bits (319), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 128/228 (56%), Gaps = 8/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K++ARAG+ SRR E +I Q RV+VNG I+LE+ D I+VDG+ + A + Sbjct: 153 ERLQKILARAGMGSRRACEELIEQARVEVNGEIVLEQGMRVDPQKDEIKVDGLTV--ATQ 210 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L+ +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 211 SYLFFALNKPAGVVSTMGDPDGRQNLGDYVNNRETRLFHVGRLDTETEGIILLTNHGELA 270 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWV 189 L P + Y G + +D LK GI ++ G D +V +T G N V Sbjct: 271 HRLTHPKYGVKKTYLAAIQGPLPRDLGKRLKDGIQLEDGYARADHFRVVENT--GKNYLV 328 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V L EG+ ++++ + V RL+R S+GP LG +G R ++ Sbjct: 329 EVTLHEGRKHIVRRMLAEAGFPVERLVRTSFGPIPLGDQKSGWLRRLT 376 >gi|255994193|ref|ZP_05427328.1| ribosomal large subunit pseudouridine synthase B [Eubacterium saphenum ATCC 49989] gi|255993861|gb|EEU03950.1| ribosomal large subunit pseudouridine synthase B [Eubacterium saphenum ATCC 49989] Length = 250 Score = 127 bits (319), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 83/250 (33%), Positives = 129/250 (51%), Gaps = 28/250 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA+ GI SRR+ + +I + RV V GI L VNV I +DG P+ ++T Sbjct: 2 RINKYIAKCGICSRRKADELIKEGRVTVGGIPLLECGVNVDEDAVIAIDGRPIEIQKKTV 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G V T SD GR TV+D L I R+ ++GRLD ++EGL+LLTNDG LA+ L Sbjct: 62 YIAMNKPCGYVCTVSDELGRRTVYDLLTDIDERLFTIGRLDKDSEGLILLTNDGDLAQKL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------------- 181 P + + Y V G + + L GI I D++++ Sbjct: 122 LSPKRKIEKNYEVVVRGVPGANDIKKLSGGITI------DVEISQTKQNKPVKSIVKYHT 175 Query: 182 ---------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 QK + +++ ++EGK R+I+K+F+ +V +L R+ + +LG L G Sbjct: 176 KPAKIFEIGQKQGDMKLSMIIKEGKKRQIRKMFDVIGHEVIKLKRVKFAGIELGDLRPGE 235 Query: 233 TREVSKKILR 242 R +S+ +R Sbjct: 236 FRHLSEDEVR 245 >gi|153864123|ref|ZP_01997120.1| ribosomal large subunit pseudouridine synthase B [Beggiatoa sp. SS] gi|152146384|gb|EDN72882.1| ribosomal large subunit pseudouridine synthase B [Beggiatoa sp. SS] Length = 230 Score = 127 bits (319), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 93/225 (41%), Positives = 131/225 (58%), Gaps = 7/225 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +++ KV+AR G+ SRRE+E I + RVKVN + A V D I V+ +R+++ Sbjct: 3 EKLQKVLARVGLGSRREIETWIEEGRVKVNQYIATLGA-RVSPHDEIRVNERRIRQSDLQ 61 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R ++ YHKPIG V T D +GR+T+F+ LPS R IS+GRLD+NT GLLLLT D Sbjct: 62 TPSRQQILCYHKPIGEVCTRHDEEGRTTIFERLPSPKHGRWISIGRLDLNTAGLLLLTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS R Y VR G+VD D L L++GI ++ +V G+N Sbjct: 122 GDLAHRLMHPSYDIEREYAVRILGEVDLDMLKRLREGIELEDGMAQFKRVFDAGGSGANH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 W V L EG+ E+++++E V+RL+RI +GP L LA + Sbjct: 182 WYHVTLMEGRKHEVRRLWESQGVTVSRLMRIRFGPVSLPKRLASA 226 >gi|90408508|ref|ZP_01216666.1| probable pseudouridine synthase [Psychromonas sp. CNPT3] gi|90310387|gb|EAS38514.1| probable pseudouridine synthase [Psychromonas sp. CNPT3] Length = 295 Score = 127 bits (319), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 85/222 (38%), Positives = 125/222 (56%), Gaps = 10/222 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKA 70 +++ KV+AR+G+ SRR++E +I + RV V+G ++ V + VDG V Sbjct: 2 SEKLQKVLARSGLGSRRKMETVIQEGRVSVDGQVVG-LGTRVTVEQILRVDGHTVKYITE 60 Query: 71 ERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 E T R+ Y+KP G V T SD GR TVF+ LP + +R IS+GRLDINT GLLL T D Sbjct: 61 ENTICRILAYNKPEGEVCTRSDEAGRKTVFERLPRLNGARWISIGRLDINTSGLLLFTTD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----K 183 G A + PS + R Y VR G VD LN L+ G+ ++ + + + + Sbjct: 121 GEFANRMMHPSREVEREYAVRIFGNVDDAMLNRLRMGVKLEDGEAKFLSIKESGKEAGGE 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G N W V L EG+ RE+++++E +V+RL+R+ YG L Sbjct: 181 GINRWYHVVLTEGRTREVRRLWESQGVQVSRLMRVRYGHLHL 222 >gi|410137|gb|AAA67493.1| ORFX13 [Bacillus subtilis subsp. subtilis str. 168] Length = 229 Score = 127 bits (319), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 78/226 (34%), Positives = 125/226 (55%), Gaps = 5/226 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASR + E +I + +VKVNG ++ V V +D IEV+G+ + + E Sbjct: 2 ERLQKVIAHAGVASRSKAEELIKEGKVKVNGKVVTELGVKVTGSDQIEVNGLKVEREEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+++ D GR V D +I R+ +GRLD +T GLLLLTNDG A Sbjct: 62 YFLLY-KPRGVISAAQDDKGRKVVTDFFKNIPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVT 190 L P + + Y + G ++ L L++GI ++ + ++LD +K + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPPKELLRKLERGIRLEEGKTAPAKAKLLSLDKKK-QTSIIQ 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EG+NR+++++FE +V +L R Y L L G RE+ Sbjct: 180 LTIHEGRNRQVRRMFEAIGHEVIKLKREEYAFLNLRGLHTGDAREL 225 >gi|295100683|emb|CBK98228.1| ribosomal large subunit pseudouridine synthase B [Faecalibacterium prausnitzii L2-6] Length = 278 Score = 127 bits (319), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 79/231 (34%), Positives = 131/231 (56%), Gaps = 3/231 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLR 68 +R+ K+++ G+ SRR E++IA+ RVKVNG ++ + D H++ + + ++ Sbjct: 1 MAEERIQKIMSEQGLCSRRAAEQIIAEGRVKVNGHPVKVGDKMDPNRDVLHVDDERIYIQ 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 K ++ +KP G VTT SD GR TV + + I +R+ VGRLD ++EGLLL+TNDG Sbjct: 61 KNQQMYYLALYKPRGYVTTASDELGRKTVMELVADIPARLYPVGRLDKDSEGLLLMTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNA 187 A+ + PS ++YRV + D+ ++ L G+V+ G + + T + Sbjct: 121 AFAQAVTHPSGGISKLYRVTVQPRADEAQILKLSSGVVLDDGTKTMPCAINVVTDEPGRT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + L+EGKNREI+++ E +V RL R + G +LG L G RE++K Sbjct: 181 VMEMTLKEGKNREIRRMCEAVGLEVIRLKRNAEGVVKLGMLQPGRYRELTK 231 >gi|318061409|ref|ZP_07980130.1| pseudouridine synthase [Streptomyces sp. SA3_actG] gi|318078007|ref|ZP_07985339.1| pseudouridine synthase [Streptomyces sp. SA3_actF] Length = 416 Score = 127 bits (319), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 79/225 (35%), Positives = 124/225 (55%), Gaps = 3/225 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+ARAG SRR E +I Q RV+VNG ++ + V +D I+VDG+ + + Sbjct: 181 ERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGLRVKPSDEIKVDGLTV-ATQSY 239 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + +KP G+V T DP+GR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 240 QFFSLNKPAGVVATMEDPEGRQNLGDYVNNRETRLFHVGRLDTETEGVILLTNHGELAHR 299 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y G + +D LK GI ++ G D ++ Q G N V V Sbjct: 300 LTHPRYGVRKTYLAHIVGPIPRDLGKRLKDGIELEDGWARADHFRVVE-QTGKNYLVEVT 358 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ + V++L+R ++GP LG +G R +S Sbjct: 359 LHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLS 403 >gi|282864458|ref|ZP_06273514.1| pseudouridine synthase [Streptomyces sp. ACTE] gi|282560945|gb|EFB66491.1| pseudouridine synthase [Streptomyces sp. ACTE] Length = 382 Score = 127 bits (319), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 128/230 (55%), Gaps = 12/230 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K++ARAG+ SRR E +I Q RV+VNG I+LE+ D I+VDG+ + Sbjct: 146 ERLQKILARAGMGSRRACEELIEQARVEVNGEIVLEQGKRVDPQKDEIKVDGLTVA---- 201 Query: 73 TRLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 T+ +L+ +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++LLTN G Sbjct: 202 TQSYLFFALNKPAGVVSTMGDPDGRQNLGDYVTNRETRLFHVGRLDTETEGIILLTNHGE 261 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNA 187 LA L P + Y G + +D LK GI ++ G D +V +T G N Sbjct: 262 LAHRLTHPRYGVKKTYLAAIQGPLPRDLGKRLKDGIQLEDGYARADHFRVVENT--GKNY 319 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V V L EG+ ++++ + V RL+R S+GP LG +G R ++ Sbjct: 320 LVEVTLHEGRKHIVRRMLAEAGFPVERLVRTSFGPIPLGDQKSGWLRRLT 369 >gi|116253609|ref|YP_769447.1| ribosomal large subunit pseudouridine synthase B [Rhizobium leguminosarum bv. viciae 3841] gi|115258257|emb|CAK09359.1| putative ribosomal large subunit pseudouridine synthase B [Rhizobium leguminosarum bv. viciae 3841] Length = 268 Score = 127 bits (319), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 83/245 (33%), Positives = 133/245 (54%), Gaps = 8/245 (3%) Query: 9 ENFTPQRVS--KVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGV 65 +N +RV+ + +++ G SR + ER+IA+ RV V+G I+ + +A ++T I +DG+ Sbjct: 18 DNAAAKRVTLPRALSKLGYCSRTQAERLIAENRVAVDGRIVNDTSAWVDLATARISIDGL 77 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLL 124 + AE + +KP GLVTT DP+GR TV+D L + VGRLD +EGLLL Sbjct: 78 VI-AAEAKIYLMLNKPRGLVTTRHDPEGRPTVYDCLRDFDIPHLSPVGRLDKASEGLLLF 136 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TND A++L P T + Y V+ +D + + + GI G Sbjct: 137 TNDTEFAQILLDPVTHVTKTYHVQIDRIMDDEDIAAMTSGIRHDGELLTATAARRLRHGD 196 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KIL 241 N+W+ V L EG+NR+I+++ E + RL+R++ G +LG L G+ R +S+ + L Sbjct: 197 RNSWIEVELDEGRNRQIRRMLEALGTECLRLVRVAIGGLELGELPKGAVRALSEPELQAL 256 Query: 242 REQLG 246 R + G Sbjct: 257 RRKTG 261 >gi|283850767|ref|ZP_06368054.1| pseudouridine synthase [Desulfovibrio sp. FW1012B] gi|283574010|gb|EFC21983.1| pseudouridine synthase [Desulfovibrio sp. FW1012B] Length = 285 Score = 127 bits (319), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 91/272 (33%), Positives = 145/272 (53%), Gaps = 19/272 (6%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDH 59 M DK ++ R++K +A AG+ SRR+ + +I RV V+G ++ + + + Sbjct: 1 MDDKALL-------RLNKALADAGVCSRRQADALITAGRVTVDGAVVTELGNKIDPARNR 53 Query: 60 IEVDGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRL 114 + VDG P+R A+ L +K G VTT +DP+GR TVFD LP+ + R+ VGRL Sbjct: 54 LAVDGRPVRLSGAADAPLTLLLNKRPGCVTTANDPEGRPTVFDELPAAYRARRLFPVGRL 113 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYG 173 D +EGLLLLT DG LA L P + Y V G V+ L+ + KG+ + +G Sbjct: 114 DYFSEGLLLLTTDGELANRLAHPRWHVDKRYLVTVRGTVNGQTLDTMAKGMTLAEGEQLA 173 Query: 174 DMQVTLDTQKGSNAWV-TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 ++ + + ++ +V + L +G NR+I+++ + V +L RI+ GP LG L AG Sbjct: 174 PVRARITARLAADRFVLEMELSQGVNRQIRRMCRDLDLTVLKLCRIAQGPVSLGGLPAGK 233 Query: 233 TREVSKK---ILREQLG-PHLLEEAQVNLDAP 260 RE++ LR +G P A+ ++ AP Sbjct: 234 CRELAASELAALRRSVGLPSSAAPAKPSVKAP 265 >gi|333028084|ref|ZP_08456148.1| putative pseudouridine synthase [Streptomyces sp. Tu6071] gi|332747936|gb|EGJ78377.1| putative pseudouridine synthase [Streptomyces sp. Tu6071] Length = 455 Score = 127 bits (319), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 79/225 (35%), Positives = 124/225 (55%), Gaps = 3/225 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+ARAG SRR E +I Q RV+VNG ++ + V +D I+VDG+ + + Sbjct: 220 ERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGLRVKPSDEIKVDGLTV-ATQSY 278 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + +KP G+V T DP+GR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 279 QFFSLNKPAGVVATMEDPEGRQNLGDYVNNRETRLFHVGRLDTETEGVILLTNHGELAHR 338 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y G + +D LK GI ++ G D ++ Q G N V V Sbjct: 339 LTHPRYGVRKTYLAHIVGPIPRDLGKRLKDGIELEDGWARADHFRVVE-QTGKNYLVEVT 397 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ + V++L+R ++GP LG +G R +S Sbjct: 398 LHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLS 442 >gi|118602371|ref|YP_903586.1| ribosomal large subunit pseudouridine synthase B [Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)] gi|118567310|gb|ABL02115.1| ribosomal large subunit pseudouridine synthase B [Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)] Length = 242 Score = 127 bits (319), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 79/217 (36%), Positives = 127/217 (58%), Gaps = 10/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV--NVMSTDHIEVDGVPLRKA-- 70 R+ K+IA AG SRR E +I Q R++V+ + A++ N TD +++DG + + Sbjct: 4 RLQKLIANAGYGSRRWAEHLIEQGRIEVDN---KTASIGDNAEITDCVKIDGQKIDLSRY 60 Query: 71 --ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ++ + +K G++ ++ D GR +V+ LP SR + VGRLD+NT GLLL TN+G Sbjct: 61 LEQEIKVIILNKQAGVICSNLDDKGRKSVYSLLPK-ESRWVMVGRLDLNTSGLLLFTNNG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS+Q R Y VR GQV+ + L L +G+ + Q+ +G+N W Sbjct: 120 DLANKLMHPSSQIDREYAVRVLGQVEDEDLKKLTQGVKLDDGFAKFSQIIFGGGQGANRW 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L+EG+ E+++++E +KV+RLIRI +G +L Sbjct: 180 YKVVLKEGRKHEVRRLWEELGFKVSRLIRIRFGEIRL 216 >gi|293400699|ref|ZP_06644844.1| ribosomal large subunit pseudouridine synthase B [Erysipelotrichaceae bacterium 5_2_54FAA] gi|291305725|gb|EFE46969.1| ribosomal large subunit pseudouridine synthase B [Erysipelotrichaceae bacterium 5_2_54FAA] Length = 245 Score = 127 bits (319), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 80/224 (35%), Positives = 123/224 (54%), Gaps = 5/224 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E MIAQ RV VNG ++ V D +EVDG P+ K + Sbjct: 2 ERLQKVIAQAGIASRRKAEEMIAQGRVCVNGDIITEMGYKVKRGDVVEVDGNPIEKENKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP + T +D R+TV D +P R+ +VGRLD +T G+LLLTNDG A Sbjct: 62 -YFLMNKPKKTMCTSNDEFDRTTVIDLIPC-KERIFTVGRLDYDTSGVLLLTNDGEFANE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWVT 190 + P +VY + +G + +++ +KKGIV+ + +++T + Sbjct: 120 IIHPRYHIPKVYNLTINGILTPEEMIQIKKGIVLDDGKKTLPAKLKLTEKDVTKNQCSFD 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + EG+NR+IK++ E ++V RL R + L G R Sbjct: 180 LTIYEGRNRQIKRMMEALGYEVRRLHRKELAFLKCSDLRQGEYR 223 >gi|302518236|ref|ZP_07270578.1| pseudouridine synthase [Streptomyces sp. SPB78] gi|302427131|gb|EFK98946.1| pseudouridine synthase [Streptomyces sp. SPB78] Length = 447 Score = 127 bits (319), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 79/225 (35%), Positives = 124/225 (55%), Gaps = 3/225 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+ARAG SRR E +I Q RV+VNG ++ + V +D I+VDG+ + + Sbjct: 212 ERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGLRVKPSDEIKVDGLTV-ATQSY 270 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + +KP G+V T DP+GR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 271 QFFSLNKPAGVVATMEDPEGRQNLGDYVNNRETRLFHVGRLDTETEGVILLTNHGELAHR 330 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y G + +D LK GI ++ G D ++ Q G N V V Sbjct: 331 LTHPRYGVRKTYLAHIVGPIPRDLGKRLKDGIELEDGWARADHFRVVE-QTGKNYLVEVT 389 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ + V++L+R ++GP LG +G R +S Sbjct: 390 LHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLS 434 >gi|87303407|ref|ZP_01086195.1| Pseudouridine synthase, Rsu [Synechococcus sp. WH 5701] gi|87282055|gb|EAQ74017.1| Pseudouridine synthase, Rsu [Synechococcus sp. WH 5701] Length = 241 Score = 127 bits (319), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 79/236 (33%), Positives = 122/236 (51%), Gaps = 3/236 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T QR+ K++A AG+ SRR E +I Q RV +NG + +S+D +E+DG P+ A Sbjct: 1 MTAQRLQKLLASAGLCSRRRAEELILQGRVTLNGAVARLGDQADLSSDRLELDGTPVAAA 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---VGRLDINTEGLLLLTND 127 T L +KP G++ + DP+GR+TV D LP S VGRLD + G LLL+ND Sbjct: 61 APTITVLLNKPRGVICSCHDPEGRTTVLDLLPPELSEATGLHPVGRLDGASRGALLLSND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + YRV G+ + L ++G+ + G + V + Sbjct: 121 GALTLRLTHPRFGHRKHYRVWVTGEPAAEALEQWRRGVPLDGQPSQPVGVRELARGQRGT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + + EG+NR+I++ E V L R++ GP +LG L G R ++ + R+ Sbjct: 181 LLELEMVEGRNRQIRRTAELLGHPVRDLQRVAIGPLRLGELPEGRWRHLAPQEWRD 236 >gi|283782395|ref|YP_003373150.1| pseudouridine synthase [Pirellula staleyi DSM 6068] gi|283440848|gb|ADB19290.1| pseudouridine synthase [Pirellula staleyi DSM 6068] Length = 811 Score = 127 bits (319), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 91/256 (35%), Positives = 143/256 (55%), Gaps = 12/256 (4%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IE 61 +K I + +R+ KV+A AGI SRR+ E +I + RV V+G ++ V I Sbjct: 23 EKQIGPDGVVAERLQKVLAAAGIGSRRDCEELITEGRVDVDGKVVTELGTRVDPVKQTIR 82 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VDG LRK +R ++ +KP G+VTT+ D GR+ V D +P+ RV +VGRLD +EGL Sbjct: 83 VDGEALRKPQRL-YFVVNKPEGVVTTNYDQAGRTRVIDLVPTD-ERVFAVGRLDRASEGL 140 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGD-MQVTL 179 +++TNDG A + P + Y VR G+ +L L++GI + G C D +QV Sbjct: 141 IIVTNDGEFANRVTHPRYGVTKTYLVRVAGEASTAELAKLRRGIHLSDGFCKVDAIQVKR 200 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ ++ + + L EGKNREI+++ KV +L R++ G +LG L G+ R + K+ Sbjct: 201 RHKQSTD--MVIQLSEGKNREIRRILARIGHKVLKLKRLAVGSLKLGELPLGAWRWLDKQ 258 Query: 240 ILREQLGPHLLEEAQV 255 + LL EA++ Sbjct: 259 EIE-----RLLSEARL 269 >gi|28199352|ref|NP_779666.1| pseudouridylate synthase [Xylella fastidiosa Temecula1] gi|182682078|ref|YP_001830238.1| RNA-binding S4 domain-containing protein [Xylella fastidiosa M23] gi|34098468|sp|Q87BI2|RLUB_XYLFT RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|28057458|gb|AAO29315.1| pseudouridylate synthase [Xylella fastidiosa Temecula1] gi|182632188|gb|ACB92964.1| RNA-binding S4 domain protein [Xylella fastidiosa M23] Length = 476 Score = 127 bits (319), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 98/250 (39%), Positives = 144/250 (57%), Gaps = 24/250 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ I+ +KVNG + + ++V S D IE+DG V Sbjct: 27 ERLHKVLAQAGLGSRRALEQRISNGLIKVNGDIAQ-LGMSVKSGDKIELDGRSFVASALT 85 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E R+ +Y+KP G VTT DP+GR TVF+ LP + +R I++GRLDINT GLLLLT DG Sbjct: 86 EPARVLIYNKPEGEVTTREDPEGRPTVFETLPVLKGARWIAIGRLDINTTGLLLLTTDGE 145 Query: 130 LARVLELPSTQWLRVYRVRFHG-----QVDQDKLNLLKKGIVIQGICYGDMQVTLDT--- 181 LA + PS++ R Y VR V + L L +G++++ D DT Sbjct: 146 LANAMMHPSSEIEREYVVRVRSPEGEEHVQDELLEQLTRGVMLE-----DGTAKFDTIER 200 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + E+ K Sbjct: 201 IGNTDSHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGSVLLPRELLRGQSTELPK 260 Query: 239 ---KILREQL 245 + LR QL Sbjct: 261 TQVEALRTQL 270 >gi|89099078|ref|ZP_01171957.1| ribosomal large subunit pseudouridine synthaseB (pseudouridylate synthase) (uracil hydrolyase) [Bacillus sp. NRRL B-14911] gi|89086208|gb|EAR65330.1| ribosomal large subunit pseudouridine synthaseB (pseudouridylate synthase) (uracil hydrolyase) [Bacillus sp. NRRL B-14911] Length = 224 Score = 127 bits (319), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 75/201 (37%), Positives = 118/201 (58%), Gaps = 5/201 (2%) Query: 40 VKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 VKVNG +++ + V S+D +EVDG+P+ + E + LY KP G++++ +D GR V D Sbjct: 6 VKVNGKVVKELGLKVSSSDRVEVDGIPVEREEPVYILLY-KPRGVISSVTDEKGRKVVTD 64 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 LP I RV VGRLD +T GLLL+TNDG A +L P + +VY + G ++KL Sbjct: 65 LLPQIKERVYPVGRLDFDTSGLLLMTNDGEFANLLMHPKNEVEKVYVAKIKGIPAREKLK 124 Query: 160 LLKKGIVIQGICYGDMQV---TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 L++G+ ++ +V ++D QK + A V + + EG+NR+++++ E V +L Sbjct: 125 SLERGVRLEDGKTAPARVKVLSIDKQKNT-AIVELVIHEGRNRQVRRMLEAIGHPVMKLK 183 Query: 217 RISYGPFQLGTLLAGSTREVS 237 R YG L L AG RE++ Sbjct: 184 RERYGFLTLQGLSAGDARELT 204 >gi|302550431|ref|ZP_07302773.1| pseudouridine synthase [Streptomyces viridochromogenes DSM 40736] gi|302468049|gb|EFL31142.1| pseudouridine synthase [Streptomyces viridochromogenes DSM 40736] Length = 372 Score = 127 bits (318), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 79/226 (34%), Positives = 125/226 (55%), Gaps = 4/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG SRR E +I + RV++NG I+LE+ D I+VDG+ + + Sbjct: 136 ERLQKVLARAGFGSRRACEELIEEARVEINGEIVLEQGRRVDPEKDEIKVDGLTV-ATQS 194 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP G+V+T DP+GR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 195 YQFFSLNKPAGVVSTMEDPEGRQCLGDYVTNRETRLFHVGRLDTETEGVILLTNHGELAH 254 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P + Y G + +D LK GI ++ G D + Q G N V V Sbjct: 255 RLTHPKYGVKKTYLAHIVGPIPRDLGKQLKDGIQLEDGYARAD-HFRVVQQTGKNYLVEV 313 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ + V++L+R+++GP LG +G R +S Sbjct: 314 TLHEGRKHIVRRMLAEAGFPVDKLVRVAFGPITLGDQKSGWLRRLS 359 >gi|239978707|ref|ZP_04701231.1| pseudouridine synthase [Streptomyces albus J1074] gi|291450599|ref|ZP_06589989.1| pseudouridine synthase [Streptomyces albus J1074] gi|291353548|gb|EFE80450.1| pseudouridine synthase [Streptomyces albus J1074] Length = 351 Score = 127 bits (318), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 81/226 (35%), Positives = 125/226 (55%), Gaps = 4/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG SRR E +I RV+VNG I+LE+ D I+VDG+ + + Sbjct: 115 ERLQKVLARAGYGSRRACEELIEDARVEVNGEIVLEQGLRVDPENDEIKVDGLTV-ATQS 173 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 174 YQFFSLNKPAGVVSTMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGVILLTNHGELAH 233 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P + Y G + +D LK GI ++ G D ++ Q G N V V Sbjct: 234 RLTHPRYGVKKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVE-QTGKNYLVEV 292 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ + V++L+R+++GP LG +G R +S Sbjct: 293 TLHEGRKHIVRRMLAEAGFPVDKLVRVAFGPITLGDQKSGWLRRLS 338 >gi|256825344|ref|YP_003149304.1| pseudouridine synthase family protein [Kytococcus sedentarius DSM 20547] gi|256688737|gb|ACV06539.1| pseudouridine synthase family protein [Kytococcus sedentarius DSM 20547] Length = 284 Score = 127 bits (318), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 78/226 (34%), Positives = 130/226 (57%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+A AG+ SRR E+MIA RV+V+G+ + V + S + VDG+P++ + Sbjct: 47 ERLQKVLAAAGLGSRRACEQMIADGRVEVDGVPVTELGVRIDPSRQKVAVDGLPVQLDDS 106 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++KP+G+++T D +GR +V D + R+ VGRLD +T GLLLLTNDG LA Sbjct: 107 KVYLVFNKPVGVISTMEDEEGRLSVGDYTYTRKERLFHVGRLDQDTSGLLLLTNDGELAH 166 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L+ PS + Y + G V + NLL++G+ ++ G+ D + +Q G A V + Sbjct: 167 RLQHPSYSVPKTYVAKVPGPVKKGLGNLLREGVELEDGVVKVDDFSVVASQPGW-AMVQL 225 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+ ++++ E + V L+R G ++G L G+ R V+ Sbjct: 226 VIHEGRKHVVRRLLEEVGYPVEELVRTQVGEIRMGDLRPGNLRAVT 271 >gi|194016715|ref|ZP_03055328.1| ribosomal large subunit pseudouridine synthase B [Bacillus pumilus ATCC 7061] gi|194011321|gb|EDW20890.1| ribosomal large subunit pseudouridine synthase B [Bacillus pumilus ATCC 7061] Length = 290 Score = 127 bits (318), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 77/227 (33%), Positives = 124/227 (54%), Gaps = 5/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I + RV VNG + V V S+D IEV+G+ L + E Sbjct: 48 ERLQKVIAHAGVASRRKAEELIKEGRVTVNGQTVTELGVKVGSSDKIEVNGLKLEREEPV 107 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G+++ D GR V D + R+ +GRLD +T GL+L+TNDG A Sbjct: 108 YFMLY-KPRGVISAAEDDKGRKVVTDFFDDVPQRLYPIGRLDYDTSGLILITNDGEFAHK 166 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVT 190 L P + + Y + G ++ L L+KGI++ + +++D +K + V Sbjct: 167 LMHPKYEIDKTYAAKLKGIPSKELLRKLEKGIMLDHKKTARARAKMLSIDKRK-QTSIVQ 225 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+NR+++++FE V +L R Y + + G RE++ Sbjct: 226 LTIHEGRNRQVRRMFEAIGHDVLKLKREQYAFLHIEGMRPGDRRELT 272 >gi|299139090|ref|ZP_07032266.1| pseudouridine synthase [Acidobacterium sp. MP5ACTX8] gi|298598770|gb|EFI54932.1| pseudouridine synthase [Acidobacterium sp. MP5ACTX8] Length = 307 Score = 127 bits (318), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 87/247 (35%), Positives = 128/247 (51%), Gaps = 25/247 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A+AGIASRR E +I + RV+VNG ++ +T DHI VDG L E Sbjct: 14 RLQKILAQAGIASRRAAETIILEGRVQVNGQVVTELGTRADATRDHIRVDGKLLHGPEPQ 73 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-----------SIFSRVISVGRLDINTEGLL 122 R ++ +KP G VTT DP+ R TV L + R+ VGRLD +EGLL Sbjct: 74 RYFMVNKPRGYVTTLDDPEHRPTVMQLLGQDAQKKSVGEHNKLPRLYPVGRLDYLSEGLL 133 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-----GICYGDMQV 177 L+TNDG LA L + + Y V+ G + ++ L++GI+I + G Sbjct: 134 LMTNDGELANKLSKAAAGVEKTYLVKVSGSPTDEAIDQLRRGIMIDRGRLNEVRSGRRDR 193 Query: 178 TLDT-------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 L + ++G N W V L EG+NR+++K+FE V ++ RI YG L + Sbjct: 194 VLTSPAKIEQVRRGENPWFEVTLTEGRNRQLRKMFEEIGHHVEKIRRIGYGALVL-DIPP 252 Query: 231 GSTREVS 237 G RE++ Sbjct: 253 GGFRELT 259 >gi|15839044|ref|NP_299732.1| hypothetical protein XF2453 [Xylella fastidiosa 9a5c] gi|34098741|sp|Q9PAP2|RLUB_XYLFA RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|9107649|gb|AAF85252.1|AE004054_4 conserved hypothetical protein [Xylella fastidiosa 9a5c] Length = 476 Score = 127 bits (318), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 98/250 (39%), Positives = 144/250 (57%), Gaps = 24/250 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ I+ +KVNG + + ++V S D IE+DG V Sbjct: 27 ERLHKVLAQAGLGSRRALEQRISNGLIKVNGDIAQ-LGMSVKSGDKIELDGRSFVASALT 85 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E R+ +Y+KP G VTT DP+GR TVF+ LP + +R I++GRLDINT GLLLLT DG Sbjct: 86 EPARVLIYNKPEGEVTTREDPEGRPTVFETLPVLKGARWIAIGRLDINTTGLLLLTTDGE 145 Query: 130 LARVLELPSTQWLRVYRVRFHG-----QVDQDKLNLLKKGIVIQGICYGDMQVTLDT--- 181 LA + PS++ R Y VR V + L L +G++++ D DT Sbjct: 146 LANAMMHPSSEIEREYVVRVRSPEGEEHVQDELLEQLTRGVMLE-----DGTAKFDTIER 200 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + E+ K Sbjct: 201 IGNTDSHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGSVLLPRELLRGQSTELPK 260 Query: 239 ---KILREQL 245 + LR QL Sbjct: 261 TQVEALRTQL 270 >gi|297170719|gb|ADI21742.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [uncultured actinobacterium HF0130_15N16] Length = 239 Score = 127 bits (318), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 79/232 (34%), Positives = 128/232 (55%), Gaps = 12/232 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN---GILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ K ++RAG+ASRR E MI RV +N + +R +V TD IE+DG+P+ + Sbjct: 8 ERLQKALSRAGVASRRVSEGMIEAGRVTINRRVATVGDRVSV----TDRIELDGIPVIRD 63 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +L +KP+G+V+T DP R TV D L S R+ VGRLD ++EGL++LTNDG L Sbjct: 64 PDLVHYLLNKPVGVVSTSKDPQKRRTVVD-LVSSNERIFPVGRLDADSEGLIILTNDGEL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L PS + Y V G + L LL++G+ ++ C V + + + Sbjct: 123 THRLTHPSFGVSKEYLVHVEGVPSRSSLRLLREGVELEDGCTAPANVAMP----QDGVMR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EG+NR+++++ V RL+R+ G + +L G+ R +S + +R Sbjct: 179 ITIHEGRNRQVRRMCAAIGHPVQRLVRVRIGSIKDPSLRVGTARRLSVEEVR 230 >gi|289677286|ref|ZP_06498176.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. syringae FF5] Length = 208 Score = 127 bits (318), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 87/209 (41%), Positives = 119/209 (56%), Gaps = 16/209 (7%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAISVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--I 170 RLDINT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPA 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNR 199 + D+Q + G N W + EG+NR Sbjct: 180 RFTDIQQAPGGE-GFNHWYHCVVMEGRNR 207 >gi|327398425|ref|YP_004339294.1| pseudouridine synthase Rsu [Hippea maritima DSM 10411] gi|327181054|gb|AEA33235.1| pseudouridine synthase Rsu [Hippea maritima DSM 10411] Length = 240 Score = 127 bits (318), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 74/225 (32%), Positives = 131/225 (58%), Gaps = 4/225 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA A SRRE + + + RVKVNG + + V V +D +EVDG L ++ Sbjct: 2 RINKYIATALKISRREADNYVKEGRVKVNGKSIT-SFVEVDGSDKVEVDGELLSLNKKKS 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + ++KP ++++ D +GR+TV D +I ++I VGRLD +EGLL++T+DG A +L Sbjct: 61 YFAFYKPPFVISSTKDNEGRTTVCDFFKNIEEKLICVGRLDYLSEGLLIITSDGEFANLL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y V+ G + + L + KG+ ++ + +++ + S WV + + Sbjct: 121 MHPRFKIRKTYLVKTKGPIKTETLKAMSKGVNLEDGFFRPIRI---KKTNSPNWVLISID 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G+NR I++ + F+ K+++L RI+ G +LG L G RE++K+ Sbjct: 178 TGRNRIIRRFLKKFDIKIDKLKRIAIGNIELGNLRNGEFRELTKQ 222 >gi|298245869|ref|ZP_06969675.1| pseudouridine synthase [Ktedonobacter racemifer DSM 44963] gi|297553350|gb|EFH87215.1| pseudouridine synthase [Ktedonobacter racemifer DSM 44963] Length = 277 Score = 126 bits (317), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 81/234 (34%), Positives = 126/234 (53%), Gaps = 12/234 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+++ +A AG+ASRR E +IAQ RV+VNG ++ ++ D I VDG ++ Sbjct: 37 ERLARFLAHAGVASRRHAEELIAQGRVRVNGTIITAQGTRILPGQDRIVVDGKEIQAKAP 96 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 L HKP G V+T SDP+GR+TV D LP R+ VGRLD +T GLLLLTNDG Sbjct: 97 HAYLLLHKPAGYVSTVSDPEGRATVLDLLPPELRSLRLYPVGRLDRDTSGLLLLTNDGAF 156 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGS-- 185 A+ L P + + Y V+ G + L L+ G+ G Y T+K S Sbjct: 157 AQHLTHPRYEKEKHYEVQVKGIPTERTLQALRDGVTFTEDDGKHYTSSPAR--TRKLSST 214 Query: 186 --NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++W+T+ + EG+ R+++++ + + V +L R+ G L + G R ++ Sbjct: 215 EQSSWLTLTIHEGRKRQVRRMLQAVDHPVLQLRRVGLGSLTLRGVTPGKWRHLT 268 >gi|145594471|ref|YP_001158768.1| pseudouridine synthase [Salinispora tropica CNB-440] gi|145303808|gb|ABP54390.1| ribosomal large subunit pseudouridine synthase B [Salinispora tropica CNB-440] Length = 262 Score = 126 bits (317), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 85/227 (37%), Positives = 125/227 (55%), Gaps = 3/227 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+ KV+A AG+ SRR E +I ++RV VNG + + ++D I V+G L+ R Sbjct: 24 PERLQKVLAAAGVGSRRACEDLIFRRRVTVNGRVAQLGDRADPTSDTIYVNGERLQADTR 83 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP G+V+T +D GR+ + D L + + RV VGRLD ++EGLLLLTNDG LA Sbjct: 84 LVYLAMNKPRGVVSTMADEKGRTAIGDFLGNRVEQRVYHVGRLDADSEGLLLLTNDGTLA 143 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVT 190 L PS + Y G + + L G+ + G D +DT G A V Sbjct: 144 HRLMHPSYGVPKTYLCEVSGPIPRSLGRRLAAGVELTDGPATVDAFRVVDTL-GKTAQVE 202 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V L EG+ ++++F+ V+RL+R S GP +LG L AG TR ++ Sbjct: 203 VTLHEGRKHIVRRLFDAVGHPVSRLVRTSIGPIRLGDLRAGRTRRLT 249 >gi|54309646|ref|YP_130666.1| pseudouridine synthase family 1 protein [Photobacterium profundum SS9] gi|46914084|emb|CAG20864.1| putative pseudouridine synthase family 1 protein [Photobacterium profundum SS9] Length = 377 Score = 126 bits (317), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 84/219 (38%), Positives = 124/219 (56%), Gaps = 9/219 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGIL------LERAAVNVMSTDHIEVDGVPL 67 +++ KV+ARAG SRRE+E MI RV ++G++ L+ +V V H ++D V Sbjct: 6 EKLQKVLARAGQGSRREIELMIQSGRVSIDGVVAKLGDRLDDFSVLVRIDGH-KIDLVSP 64 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTN 126 E R+ Y+KP G + T DP+GR TVFD LP + S R +SVGRLD NT GLLL T Sbjct: 65 -SEEVCRVLAYNKPEGELCTRHDPEGRRTVFDRLPRLSSGRWVSVGRLDANTSGLLLFTT 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS R Y VR G+++++ + L +G+ ++ V +G N Sbjct: 124 DGELANRLMHPSRSVEREYMVRVFGEINENMVKNLVQGVELEDGMARFEDVVYSGGEGMN 183 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE++++++ V+RL R+ YG L Sbjct: 184 HTFYVVITEGRNREVRRLWDSQGVTVSRLKRVRYGDIYL 222 >gi|71276226|ref|ZP_00652505.1| Pseudouridine synthase, Rsu [Xylella fastidiosa Dixon] gi|170730719|ref|YP_001776152.1| pseudouridylate synthase [Xylella fastidiosa M12] gi|71162987|gb|EAO12710.1| Pseudouridine synthase, Rsu [Xylella fastidiosa Dixon] gi|167965512|gb|ACA12522.1| pseudouridylate synthase [Xylella fastidiosa M12] Length = 476 Score = 126 bits (317), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 97/250 (38%), Positives = 144/250 (57%), Gaps = 24/250 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ I+ +KVNG + + ++V S D IE+DG V Sbjct: 27 ERLHKVLAQAGLGSRRALEQRISNGLIKVNGDIAQ-LGMSVKSGDKIELDGRSFVASALT 85 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E R+ +Y+KP G VTT DP+GR TVF+ LP + +R I++GRLDINT GLLLLT DG Sbjct: 86 EPARVLIYNKPEGEVTTREDPEGRPTVFETLPVLKGARWIAIGRLDINTTGLLLLTTDGE 145 Query: 130 LARVLELPSTQWLRVYRVRFHG-----QVDQDKLNLLKKGIVIQGICYGDMQVTLDT--- 181 LA + PS++ R Y VR V + L L +G++++ D DT Sbjct: 146 LANAMMHPSSEIEREYVVRVRSPEGEEHVQDELLEQLTRGVMLE-----DGTAKFDTIER 200 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 S+ W + ++EG+NRE+++++E +V+RL R YG L LL G + E+ K Sbjct: 201 IGNTDSHDWFRIVVKEGRNREVRRLWESQGCQVSRLKRTRYGSVLLPRELLRGQSTELPK 260 Query: 239 ---KILREQL 245 + LR QL Sbjct: 261 TQVEALRTQL 270 >gi|294628596|ref|ZP_06707156.1| LOW QUALITY PROTEIN: pseudouridine synthase, Rsu [Streptomyces sp. e14] gi|292831929|gb|EFF90278.1| LOW QUALITY PROTEIN: pseudouridine synthase, Rsu [Streptomyces sp. e14] Length = 358 Score = 126 bits (317), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 80/226 (35%), Positives = 125/226 (55%), Gaps = 4/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG SRR E +I Q RV+VNG I+LE+ D ++VDG+ + + Sbjct: 122 ERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGKRVDPEKDEVKVDGLTV-ATQS 180 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP G+V+T DP+GR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 181 YQFFSLNKPAGVVSTMEDPEGRQCLGDYVTNRETRLFHVGRLDTETEGVILLTNHGELAH 240 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P + Y G + +D LK GI ++ G D ++ Q G N V V Sbjct: 241 RLTHPKYGVRKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVE-QTGKNYLVEV 299 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ + V++L+R ++GP LG +G R +S Sbjct: 300 TLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLS 345 >gi|126659748|ref|ZP_01730876.1| hypothetical protein CY0110_23321 [Cyanothece sp. CCY0110] gi|126618996|gb|EAZ89737.1| hypothetical protein CY0110_23321 [Cyanothece sp. CCY0110] Length = 259 Score = 126 bits (317), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 79/219 (36%), Positives = 119/219 (54%), Gaps = 5/219 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QRV K++++ G+ASRR E MI RVK+NG ++ S D +EVDG ++ ++R Sbjct: 3 QRVQKILSQWGVASRRHAEDMIIAGRVKLNGEIVTLGDKADPSCDRLEVDGRMIQPSQRP 62 Query: 74 RLW--LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 +L L +KP+G+V T DP RS V D LP S+ + VGRLD N+ G LLLTNDG Sbjct: 63 QLLYILINKPVGVVCTCDDPQNRSIVLDLLPKQLSKGTGIHPVGRLDFNSSGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y V G +++L ++G+++ G QV + + N Sbjct: 123 ELTLRLTHPRYHLPKTYEVLIQGHPTEERLQQWREGVMLMGKKTLPAQVEVICRYRQNTR 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 + V L EG+NR+I+ + + + V RL R + G L + Sbjct: 183 LKVILTEGRNRQIRHIVQHLGFHVLRLHRTAIGSLVLSS 221 >gi|39938724|ref|NP_950490.1| 16S rRNA pseudouridylate synthase [Onion yellows phytoplasma OY-M] gi|39721833|dbj|BAD04323.1| 16S rRNA pseudouridylate synthase [Onion yellows phytoplasma OY-M] Length = 245 Score = 126 bits (317), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 85/247 (34%), Positives = 132/247 (53%), Gaps = 15/247 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ KV+A A +ASRR+ E +I ++R+KVNG ++ V S+D I +D P+ K + Sbjct: 2 QRLQKVLAYANVASRRKAEILILEKRIKVNGKIISELGTKVSSSDIITLDDKPITKTTYS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G ++T D R TV D + R+ +GRLD NT GLLL+TNDG L + Sbjct: 62 -YFLLNKPNGFLSTAKDNKKRPTVLDLIEEANIQRLYPIGRLDFNTTGLLLITNDGDLTQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS-----NA 187 L PS + Y V+ + + + L +KGI+I Y +D K S + Sbjct: 121 KLTHPSFCIPKEYHVKINACLQKKDLATFRKGIIIDK-NYLAFCKEIDILKSSYKPKPST 179 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR-----EVSK-KIL 241 W+ + + EGKNR+++K+ + ++V +L R Y + L G+ R E+ K K L Sbjct: 180 WLKLVITEGKNRQVRKMMQSLGYQVLKLKRYRYSFLTIENLTIGAYRPLKIHEIKKLKTL 239 Query: 242 REQLGPH 248 Q+ PH Sbjct: 240 TTQI-PH 245 >gi|17231365|ref|NP_487913.1| hypothetical protein all3873 [Nostoc sp. PCC 7120] gi|17133007|dbj|BAB75572.1| all3873 [Nostoc sp. PCC 7120] Length = 262 Score = 126 bits (317), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 85/234 (36%), Positives = 126/234 (53%), Gaps = 5/234 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAER 72 R+ KV+A+ GIASRRE E MI + RV++NG L E D I VDG V ++ R Sbjct: 4 RLQKVLAQWGIASRREAEEMIRRSRVQINGTLAELGQKVNPEKDIITVDGKSVSAQRHPR 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGG 129 L +KP G+V+T DP GR TV D LP + + VGRLD ++ G L+LTNDG Sbjct: 64 LTYLLLNKPTGVVSTCYDPQGRKTVLDLLPEELRKGPGLHPVGRLDADSTGALILTNDGD 123 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + Y+V G + L + ++G+++ G +V+L + + Sbjct: 124 LTFRLTHPSHSIPKTYQVLVKGHPPKAVLEMWREGVLLDGRKTRKAKVSLLESLAEKSRL 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L+EG+NR+I++V E + V +L R + G QL T R + +ILR+ Sbjct: 184 EIVLQEGRNRQIRRVAEQLGYPVIKLHRTAIGSIQLQTSKQPLLRAGNYRILRD 237 >gi|71898735|ref|ZP_00680904.1| Pseudouridine synthase, Rsu [Xylella fastidiosa Ann-1] gi|71731500|gb|EAO33562.1| Pseudouridine synthase, Rsu [Xylella fastidiosa Ann-1] Length = 476 Score = 126 bits (317), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 97/250 (38%), Positives = 144/250 (57%), Gaps = 24/250 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ I+ +KVNG + + ++V S D IE+DG V Sbjct: 27 ERLHKVLAQAGLGSRRALEQRISNGLIKVNGDIAQ-LGMSVKSGDKIELDGRSFVASALT 85 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E R+ +Y+KP G VTT DP+GR TVF+ LP + +R I++GRLDINT GLLLLT DG Sbjct: 86 EPARVLIYNKPEGEVTTREDPEGRPTVFETLPVLKGARWIAIGRLDINTTGLLLLTTDGE 145 Query: 130 LARVLELPSTQWLRVYRVRFHG-----QVDQDKLNLLKKGIVIQGICYGDMQVTLDT--- 181 LA + PS++ R Y VR V + L L +G++++ D DT Sbjct: 146 LANAMMHPSSEIEREYVVRVRSPEGEEHVQDELLEQLTRGVMLE-----DGTAKFDTIER 200 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 S+ W + ++EG+NRE+++++E +V+RL R YG L LL G + E+ K Sbjct: 201 IGNTDSHDWFRIVVKEGRNREVRRLWESQGCQVSRLKRTRYGSVLLPRELLRGQSTELPK 260 Query: 239 ---KILREQL 245 + LR QL Sbjct: 261 TQVEALRTQL 270 >gi|310658781|ref|YP_003936502.1| rlub [Clostridium sticklandii DSM 519] gi|308825559|emb|CBH21597.1| RluB [Clostridium sticklandii] Length = 235 Score = 126 bits (317), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 77/222 (34%), Positives = 116/222 (52%), Gaps = 5/222 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA GIASRR+ E MI + RV++N ++ + V D +++DG + K E Sbjct: 2 RINKFIASCGIASRRKAEEMIQEGRVRINDSVVSDLSTKVSEIDIVKIDGKIISKVEEKY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KPIG V+T D GR +V D R+ VGRLD ++ GLLL+TNDG L L Sbjct: 62 YYMLNKPIGYVSTAKDQFGRPSVVDFFDKK-QRIYPVGRLDYDSRGLLLMTNDGDLTYAL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P ++Y V + ++ K GI I G ++T N V ++ Sbjct: 121 THPKYHIEKIYEVIVSSTLSNSEIEKFKSGIDIGGYVTAKSRITFI----GNTSYEVIIK 176 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 EGKNR+I+K+F V L R+S G +L L G+ R++ Sbjct: 177 EGKNRQIRKMFSALGKDVLDLKRVSIGKLKLMDLKEGTYRKL 218 >gi|213619052|ref|ZP_03372878.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 270 Score = 126 bits (316), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 80/198 (40%), Positives = 110/198 (55%), Gaps = 6/198 (3%) Query: 34 MIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLRKAERTRLWLYHKPIGLVTTH 88 +I RV V+G I V V I +DG V + R+ Y+KP G + T Sbjct: 2 IIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKESAEQICRVLAYYKPEGELCTR 61 Query: 89 SDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRV 147 +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T DG LA L PS + R Y V Sbjct: 62 NDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREVEREYAV 121 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 R GQVD+ KL L +G+ ++ + +G N W V L EG+NRE+++++E Sbjct: 122 RVFGQVDESKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQWYNVTLTEGRNREVRRLWEA 181 Query: 208 FNWKVNRLIRISYGPFQL 225 +V+RLIR+ YG L Sbjct: 182 VGVQVSRLIRVRYGDIPL 199 >gi|89074056|ref|ZP_01160557.1| putative pseudouridine synthase family 1 protein [Photobacterium sp. SKA34] gi|89050194|gb|EAR55705.1| putative pseudouridine synthase family 1 protein [Photobacterium sp. SKA34] Length = 376 Score = 126 bits (316), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 86/220 (39%), Positives = 122/220 (55%), Gaps = 11/220 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGIL------LERAAVNVMSTDH-IEVDGVP 66 +++ KV+ARAG SRRE+E MI RV V+G++ LE +V+V H IE+ Sbjct: 3 EKLQKVLARAGQGSRREIELMIQNGRVSVDGVVAKLGDRLEDLSVSVRIDGHNIELISS- 61 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 E R+ Y+KP G + T DP+GR TVFD LP + + R +SVGRLD NT GLLL T Sbjct: 62 --DEEICRILAYNKPEGELCTRHDPEGRRTVFDRLPRLNTGRWVSVGRLDANTSGLLLFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS R Y VR G+V + + + KG+ ++ V +G Sbjct: 120 TDGELANRLMHPSRTVEREYMVRVFGEVTEQMVKNVVKGVELEDGLARFEDVVYAGGEGM 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N V + EG+NRE++++++ V+RL R+ YG L Sbjct: 180 NHTFYVVITEGRNREVRRLWDSQGVTVSRLKRVRYGDVYL 219 >gi|90581222|ref|ZP_01237020.1| putative pseudouridine synthase family 1 protein [Vibrio angustum S14] gi|90437593|gb|EAS62786.1| putative pseudouridine synthase family 1 protein [Vibrio angustum S14] Length = 376 Score = 126 bits (316), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 86/220 (39%), Positives = 122/220 (55%), Gaps = 11/220 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGIL------LERAAVNVMSTDH-IEVDGVP 66 +++ KV+ARAG SRRE+E MI RV V+G++ LE +V+V H IE+ Sbjct: 3 EKLQKVLARAGQGSRREIELMIQNGRVSVDGVVAKLGDRLEDLSVSVRIDGHNIELISS- 61 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 E R+ Y+KP G + T DP+GR TVFD LP + + R +SVGRLD NT GLLL T Sbjct: 62 --DEEICRILAYNKPEGELCTRHDPEGRRTVFDRLPRLNTGRWVSVGRLDANTSGLLLFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS R Y VR G+V + + + KG+ ++ V +G Sbjct: 120 TDGELANRLMHPSRTVEREYMVRVFGEVTEQMVKNVVKGVELEDGLARFEDVVYAGGEGM 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 N V + EG+NRE++++++ V+RL R+ YG L Sbjct: 180 NHTFYVVITEGRNREVRRLWDSQGVTVSRLKRVRYGDVYL 219 >gi|315656791|ref|ZP_07909678.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus curtisii subsp. holmesii ATCC 35242] gi|315492746|gb|EFU82350.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus curtisii subsp. holmesii ATCC 35242] Length = 278 Score = 126 bits (316), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 82/238 (34%), Positives = 128/238 (53%), Gaps = 5/238 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+ KV++RAG+ASRR E +IA+ RV++NG + V V+ TD I VDG + Sbjct: 41 PERLQKVLSRAGVASRRASEDLIARGRVQINGETVREMGVKVLPTDRITVDGQRIHTDTV 100 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++W +HKP+G V++ D R + D + + RV +VGRLD T GLLLLTN+G LA Sbjct: 101 LQVWAFHKPVGTVSSMQPEDDRPCIGDWVTKLPERVYNVGRLDAATAGLLLLTNNGELAN 160 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 + PS + + Y GQV +L++G+ ++ G D ++ ++GS + V + Sbjct: 161 RIMHPSYEVPKTYVAVVQGQVKMGLGKVLRRGVELEDGKVKVDKFKLIEVRRGS-SIVQL 219 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK---ILREQLG 246 L GKNR ++++ V+ L R L L G R + K L+E +G Sbjct: 220 TLHSGKNRVVRRLLSAVGHPVSALTRTGIANLTLDGLKEGQFRLLHGKELAALQEMVG 277 >gi|90412191|ref|ZP_01220197.1| putative pseudouridine synthase family 1 protein [Photobacterium profundum 3TCK] gi|90326915|gb|EAS43300.1| putative pseudouridine synthase family 1 protein [Photobacterium profundum 3TCK] Length = 374 Score = 126 bits (316), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 84/219 (38%), Positives = 124/219 (56%), Gaps = 9/219 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGIL------LERAAVNVMSTDHIEVDGVPL 67 +++ KV+ARAG SRRE+E MI RV ++G++ L+ +V V H ++D V Sbjct: 3 EKLQKVLARAGQGSRREIELMIQSGRVSIDGVVAKLGDRLDDLSVLVRLDGH-KIDLVSP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTN 126 E R+ Y+KP G + T DP+GR TVFD LP + S R +SVGRLD NT GLLL T Sbjct: 62 -SDEVCRVLAYNKPEGELCTRHDPEGRRTVFDRLPRLSSGRWVSVGRLDANTSGLLLFTT 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS R Y VR G+++++ + L +G+ ++ V +G N Sbjct: 121 DGELANRLMHPSRSVEREYMVRVFGEINENMVKNLVQGVELEDGMARFEDVVYSGGEGMN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EG+NRE++++++ V+RL R+ YG L Sbjct: 181 HTFYVVITEGRNREVRRLWDSQGVTVSRLKRVRYGDIYL 219 >gi|319790166|ref|YP_004151799.1| pseudouridine synthase [Thermovibrio ammonificans HB-1] gi|317114668|gb|ADU97158.1| pseudouridine synthase [Thermovibrio ammonificans HB-1] Length = 251 Score = 126 bits (316), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 80/233 (34%), Positives = 133/233 (57%), Gaps = 10/233 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K +A AG +RR+VE +I Q RV+VNG +++ AV V D ++VDG +R + Sbjct: 2 RLNKFLAYAGFGARRKVEELIKQGRVEVNGQVVDSPAVEVDPKKDVVKVDGERVRLPNKF 61 Query: 74 RLWLYHKPIGLVTT--HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++KP G++T + D R V D + R+ VGRLD NTEGLL++TNDG LA Sbjct: 62 VYIAFNKPQGVLTAMERAPGDKRPIVADYFRNYPVRLFPVGRLDYNTEGLLIMTNDGELA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYG----DMQVTLDTQKG 184 L P + Y + G+V ++ +KKG ++ +G + D+++ ++ G Sbjct: 122 DRLAHPRYHVPKTYIAKVKGRVKPAEIERMKKGALLVDDKGKKFFIKPLDVKLLHPSKTG 181 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 N +V + + +GKNR +++ F+ F+ V +L R++ GP +LG L G RE++ Sbjct: 182 RNTYVQITIDQGKNRVVRRFFDRFDHGVLKLKRVAIGPVKLGDLPKGYYRELT 234 >gi|315655295|ref|ZP_07908195.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus curtisii ATCC 51333] gi|315490235|gb|EFU79860.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus curtisii ATCC 51333] Length = 278 Score = 126 bits (316), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 82/238 (34%), Positives = 128/238 (53%), Gaps = 5/238 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+ KV++RAG+ASRR E +IA+ RV++NG + V V+ TD I VDG + Sbjct: 41 PERLQKVLSRAGVASRRASEDLIARGRVQINGETVREMGVKVLPTDRITVDGQRIHTDTV 100 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++W +HKP+G V++ D R + D + + RV +VGRLD T GLLLLTN+G LA Sbjct: 101 LQVWAFHKPVGTVSSMQPEDDRPCIGDWVTKLPERVYNVGRLDAATAGLLLLTNNGELAN 160 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 + PS + + Y GQV +L++G+ ++ G D ++ ++GS + V + Sbjct: 161 RIMHPSYEVPKTYVAVVQGQVKMGLGKVLRRGVELEDGKVKVDKFKLIEVRRGS-SIVQL 219 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK---ILREQLG 246 L GKNR ++++ V+ L R L L G R + K L+E +G Sbjct: 220 TLHSGKNRVVRRLLSAVGHPVSALTRTGIANLTLDGLKEGQFRLLHGKELAALQEMVG 277 >gi|298346749|ref|YP_003719436.1| pseudouridylate synthase [Mobiluncus curtisii ATCC 43063] gi|304389546|ref|ZP_07371509.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus curtisii subsp. curtisii ATCC 35241] gi|298236810|gb|ADI67942.1| pseudouridylate synthase [Mobiluncus curtisii ATCC 43063] gi|304327356|gb|EFL94591.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus curtisii subsp. curtisii ATCC 35241] Length = 278 Score = 126 bits (316), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 82/238 (34%), Positives = 128/238 (53%), Gaps = 5/238 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+ KV++RAG+ASRR E +IA+ RV++NG + V V+ TD I VDG + Sbjct: 41 PERLQKVLSRAGVASRRASEDLIARGRVQINGETVREMGVKVLPTDRITVDGQRIHTDTV 100 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++W +HKP+G V++ D R + D + + RV +VGRLD T GLLLLTN+G LA Sbjct: 101 LQVWAFHKPVGTVSSMQPEDDRPCIGDWVTKLPERVYNVGRLDAATAGLLLLTNNGELAN 160 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 + PS + + Y GQV +L++G+ ++ G D ++ ++GS + V + Sbjct: 161 RIMHPSYEVPKTYVAVVQGQVKMGLGKVLRRGVELEDGKVKVDKFKLIEVRRGS-SIVQL 219 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK---ILREQLG 246 L GKNR ++++ V+ L R L L G R + K L+E +G Sbjct: 220 TLHSGKNRVVRRLLSAVGHPVSALTRTGIANLTLDGLKEGQFRLLHGKELAALQEMVG 277 >gi|297571446|ref|YP_003697220.1| pseudouridine synthase [Arcanobacterium haemolyticum DSM 20595] gi|296931793|gb|ADH92601.1| pseudouridine synthase [Arcanobacterium haemolyticum DSM 20595] Length = 251 Score = 126 bits (316), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 81/234 (34%), Positives = 128/234 (54%), Gaps = 5/234 (2%) Query: 8 QENFTPQ--RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDG 64 Q+ PQ R+ KV+A AG+ASRR E MI Q RV V G ++ + + V + I VDG Sbjct: 6 QDLHNPQGERLQKVLAHAGVASRRAAEDMIQQGRVSVEGTIVRQLGIRVDPQSAVIHVDG 65 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 ++ + +KP G+V+T SD GR T+ D + R++ VGRLD++TEGL+LL Sbjct: 66 NRVQLDQELITVALYKPPGVVSTMSDDQGRKTLADFVEDYPQRLVHVGRLDVDTEGLILL 125 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQK 183 +NDG L L PS + + Y R G V + +++KGI ++ G + D + + K Sbjct: 126 SNDGELVHRLTHPSYEVPKTYIARVEGTVTRGLQRVMEKGITLEDGPVHADRFIIREVAK 185 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 N+ V + L G+NR ++++ E V L+R+ +G G L G R+++ Sbjct: 186 -KNSIVEITLHSGRNRIVRRMMEEVGHPVMELVRMQFGNIVAGHLKPGQVRQIA 238 >gi|309389185|gb|ADO77065.1| ribosomal large subunit pseudouridine synthase B [Halanaerobium praevalens DSM 2228] Length = 236 Score = 126 bits (316), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 72/226 (31%), Positives = 126/226 (55%), Gaps = 2/226 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E +IA+ RVKVNG ++ + + + VDG + + ++ Sbjct: 2 ERLQKVMAHAGVASRRKSEEIIAEGRVKVNGQVITEMGYKIDPAQAEVMVDGQVISEEKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G +TT SDP+ R TV D +P + R+ GRLD ++ GLL++TNDG L Sbjct: 62 VYILL-NKPEGYITTVSDPENRPTVMDLIPDLNQRLYPAGRLDFDSSGLLIMTNDGDLTY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + YRV G+++++ + G+VI G +++ KG + Sbjct: 121 KLTHPKKEVDKKYRVLIQGKLEEEDFEKFEAGMVIDGQETAPAEISNVDYKGEQTEFDIV 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG+NR+++++ + + V L RI + L + G R +++ Sbjct: 181 IHEGRNRQVRRMAKIAGFSVISLKRIGFAFLTLTGVEEGKFRYLTE 226 >gi|269102962|ref|ZP_06155659.1| ribosomal large subunit pseudouridine synthase B [Photobacterium damselae subsp. damselae CIP 102761] gi|268162860|gb|EEZ41356.1| ribosomal large subunit pseudouridine synthase B [Photobacterium damselae subsp. damselae CIP 102761] Length = 385 Score = 126 bits (316), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 82/221 (37%), Positives = 119/221 (53%), Gaps = 5/221 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----K 69 +++ KV+ARAG SRRE+E MI RV V+G + + T + +DG + Sbjct: 3 EKLQKVLARAGQGSRREIELMIQNGRVSVDGDVAKLGDRLEDMTASVRIDGRRIELVAST 62 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 E R+ Y+KP G + T DP+GR TVFD LP + + R +SVGRLD NT G+LL T DG Sbjct: 63 DEVCRVLAYNKPEGELCTRHDPEGRRTVFDRLPRLNNGRWVSVGRLDANTSGMLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS R Y VR G++ +D + L +G+ ++ V +G N Sbjct: 123 ELANRLMHPSHSVQREYMVRVFGEISEDMVRNLVRGVELEDGMARFEDVVYAGGEGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V + EG+NRE+++++ V+RL R+ YG L L Sbjct: 183 FYVVITEGRNREVRRLWASQGVTVSRLKRVRYGDIYLSKEL 223 >gi|210633114|ref|ZP_03297681.1| hypothetical protein COLSTE_01590 [Collinsella stercoris DSM 13279] gi|210159268|gb|EEA90239.1| hypothetical protein COLSTE_01590 [Collinsella stercoris DSM 13279] Length = 282 Score = 126 bits (316), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 81/243 (33%), Positives = 120/243 (49%), Gaps = 13/243 (5%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVP 66 E P R+ + +ARAG+ASRR E +++ RV VNG + V + D + VDGVP Sbjct: 22 DERVVPMRLQRFLARAGVASRRGSEALMSAGRVSVNGEVKTELGTKVDPAIDQVAVDGVP 81 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLT 125 + + +KP G++TT SDP GR V D +P + + VGRLD++T GLLL T Sbjct: 82 VVLGVGAAYLMLNKPAGVLTTMSDPHGRPCVADIMPVRSYPGLFPVGRLDMDTTGLLLFT 141 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQ-- 182 DG L L PS + Y G + L L++GIV+ G C D + Sbjct: 142 TDGDLGHALLHPSRHVWKTYVAVVDGVCREGDLEPLRRGIVLDDGPCQPARCALRDERDV 201 Query: 183 --------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + V + +REG+ ++K++ V RL R+ +GP +L L GS R Sbjct: 202 RDIAPRGLRAGTTAVRIEIREGRKNQVKRMLSKIGHPVLRLHRLRFGPLELNDLPCGSWR 261 Query: 235 EVS 237 E++ Sbjct: 262 ELT 264 >gi|329766937|ref|ZP_08258465.1| hypothetical protein HMPREF0428_00162 [Gemella haemolysans M341] gi|328837662|gb|EGF87287.1| hypothetical protein HMPREF0428_00162 [Gemella haemolysans M341] Length = 243 Score = 126 bits (316), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 72/227 (31%), Positives = 126/227 (55%), Gaps = 3/227 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K+IA +G SRR+ E++I +V VNG +++ V +D I V+GV L K E Sbjct: 2 AERLQKLIAASGYTSRRKAEQLILDGKVSVNGEVVKELGVKAEPSDIIIVEGVRLLK-EN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R +L++KP ++T+ SD R+ V D + RV+ VGRLD +T G L+++NDG Sbjct: 61 KRYYLFYKPEKVITSMSDEKDRTCVKDFFEDVNERVVPVGRLDYDTSGALIMSNDGEFIN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 ++ P + + Y + +G+++ + L +L+ G+ I +V + + K N V Sbjct: 121 LITHPKHKIRKTYVAKINGKLEDNHLRILRNGVRIDNYKTAKAEVNIVKNKNKSGNTLVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EGKNR+++++FE ++V +L R S L L G R ++ Sbjct: 181 LTIHEGKNRQVRRMFEALGYEVMKLKRESIEDLTLEGLKKGEYRTLT 227 >gi|319782459|ref|YP_004141935.1| pseudouridine synthase [Mesorhizobium ciceri biovar biserrulae WSM1271] gi|317168347|gb|ADV11885.1| pseudouridine synthase [Mesorhizobium ciceri biovar biserrulae WSM1271] Length = 250 Score = 125 bits (315), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 81/228 (35%), Positives = 125/228 (54%), Gaps = 3/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 +++ +++ G+ SR + E +IA+ RV+V G ++ AA+ V + D I VD P+ AER Sbjct: 19 LNRALSKLGLCSRTQAEVLIAEGRVRVGGKVVRDAALRVDLDRDRIVVDDRPV-VAERKV 77 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 + +KP GLVTT DP R TV+ L + +S VGRLD +EGLLL+TND A Sbjct: 78 YLMLNKPRGLVTTRDDPQQRDTVYACLEGLDLPFVSPVGRLDKASEGLLLMTNDTRFANR 137 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P++ + Y V+ D L L+ G+++ G + L G AW+ + L Sbjct: 138 LMDPASHLPKTYHVQIGTVPDAPMLETLRAGVIVDGEVLTANAIELLRSGGRTAWLEIVL 197 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+NR I+++ +V RLIRI+ G LG L G+ R ++ + L Sbjct: 198 DEGRNRHIRRLLAAHGVEVLRLIRIAIGRLPLGDLAKGTARHLTAEEL 245 >gi|309810348|ref|ZP_07704183.1| pseudouridylate synthase [Dermacoccus sp. Ellin185] gi|308435661|gb|EFP59458.1| pseudouridylate synthase [Dermacoccus sp. Ellin185] Length = 303 Score = 125 bits (315), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 82/227 (36%), Positives = 126/227 (55%), Gaps = 3/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ SRR E +IA+ RV+V+G ++ + + I VDG ++ + Sbjct: 67 RLQKVLAQAGVGSRRHCENLIAEGRVEVDGQVVTELGTRIDPESAVIHVDGDRIQLDDTL 126 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++KP G+V+T D +GR V + L R+ VGRLD +TEGLLLLTNDG LA Sbjct: 127 VYLAFNKPTGVVSTMQDEEGRPCVGEYLEGRTERLFHVGRLDYDTEGLLLLTNDGNLANR 186 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L+ P +VY G V +D +++GI ++ G D +D+Q G A V + Sbjct: 187 LQHPRYGVEKVYLATIPGPVPRDLGKRMREGIELEDGPAAVDSFKVVDSQPGM-ALVEIV 245 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L EG+NR ++++FE V L R GP ++G L G R ++K+ Sbjct: 246 LHEGRNRIVRRMFEEVGHPVIALARPQVGPVKVGDLRPGKMRPLNKR 292 >gi|328881450|emb|CCA54689.1| Ribosomal large subunit pseudouridine synthase B [Streptomyces venezuelae ATCC 10712] Length = 453 Score = 125 bits (315), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 82/229 (35%), Positives = 126/229 (55%), Gaps = 10/229 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG+ SRR E +I Q RV+VNG I+LE+ D I+VDG+ + Sbjct: 217 ERLQKVLARAGMGSRRACEELIEQARVEVNGEIVLEQGKRVDPEKDEIKVDGLTVA---- 272 Query: 73 TRLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 T+ +L+ +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++LLTN G Sbjct: 273 TQSYLFFALNKPSGVVSTMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGIILLTNHGE 332 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAW 188 LA L P + Y G + ++ LK GI ++ G D + Q G N Sbjct: 333 LAHRLTHPKYGVKKTYLAAITGPLPREVGKRLKDGIQLEDGYARAD-HFRVVEQTGKNYL 391 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V V L EG+ ++++ + V +L+R ++GP LG +G R ++ Sbjct: 392 VEVTLHEGRKHIVRRMLAEAGFPVEKLVRTAFGPIALGDQKSGWLRRLT 440 >gi|241889716|ref|ZP_04777014.1| ribosomal large subunit pseudouridine synthase B [Gemella haemolysans ATCC 10379] gi|241863338|gb|EER67722.1| ribosomal large subunit pseudouridine synthase B [Gemella haemolysans ATCC 10379] Length = 243 Score = 125 bits (315), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 72/224 (32%), Positives = 125/224 (55%), Gaps = 3/224 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K+IA +G SRR+ E++I +V VNG +++ V +D I V+GV L K E Sbjct: 2 AERLQKLIAASGYTSRRKAEQLILDGKVSVNGEVVKELGVKAEPSDIIIVEGVRLLK-EN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R +L++KP ++T+ SD R+ V D ++ RV+ VGRLD +T G L+++NDG Sbjct: 61 KRYYLFYKPEKVITSMSDEKDRTCVKDFFENVNERVVPVGRLDYDTSGALIMSNDGEFIN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVT 190 ++ P + + Y + +G+++ + L +L+ G+ I ++ V + K N V Sbjct: 121 LITHPKHKIKKTYVAKINGKLEDNHLRILRNGVRIDNYKTAKAEVNVVKNKNKSGNTLVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + EGKNR+++++FE ++V +L R S L L G R Sbjct: 181 LTIHEGKNRQVRRMFEALGYEVIKLKRESIEDLTLEGLKKGEYR 224 >gi|255325636|ref|ZP_05366733.1| ribosomal large subunit pseudouridine synthase B [Corynebacterium tuberculostearicum SK141] gi|255297246|gb|EET76566.1| ribosomal large subunit pseudouridine synthase B [Corynebacterium tuberculostearicum SK141] Length = 303 Score = 125 bits (315), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 82/229 (35%), Positives = 127/229 (55%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ KV+A+AG+ASRR E +I RV+VNG ++ + V V S D I VDGV + E Sbjct: 63 ERLQKVLAKAGVASRRHAEILIDAGRVEVNGKIISKQGVKVNPSVDVIRVDGVRVNVNEE 122 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGG 129 ++ +KP G+ +T SD GR V D + + R+ VGRLD +TEGLL+LTNDG Sbjct: 123 HEYFVLNKPRGMQSTMSDDLGRPCVGDVVSEKVAAGQRLFHVGRLDADTEGLLILTNDGE 182 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAW 188 LA L P + + Y G+ D+ + LK+GI ++ G+ D +DT +G + Sbjct: 183 LANRLMHPKYEVTKTYLATVLGEADRKLVRQLKEGIELEDGLAKADFAQVVDTNQGY-SL 241 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V + L EG+ ++++ + + V RL+R QLG + G R ++ Sbjct: 242 VRLELHEGRKHIVRRMLKEAGFPVQRLVRTKLHTVQLGDMKPGGLRALN 290 >gi|302561440|ref|ZP_07313782.1| RNA pseudouridine synthase [Streptomyces griseoflavus Tu4000] gi|302479058|gb|EFL42151.1| RNA pseudouridine synthase [Streptomyces griseoflavus Tu4000] Length = 359 Score = 125 bits (315), Expect = 8e-27, Method: Compositional matrix adjust. Identities = 80/226 (35%), Positives = 125/226 (55%), Gaps = 4/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG SRR E +I Q RV+VNG I+LE+ D ++VDG+ + + Sbjct: 123 ERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGKRVDPEKDEVKVDGLTV-ATQS 181 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP G+V+T DP+GR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 182 YQFFSLNKPAGVVSTMEDPEGRQCLGDYVTNRETRLFHVGRLDTETEGVILLTNHGELAH 241 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P + Y G + +D LK GI ++ G D ++ Q G N V V Sbjct: 242 RLTHPKYGVKKTYLAAIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVE-QTGKNYLVEV 300 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ + V++L+R ++GP LG +G R +S Sbjct: 301 TLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLS 346 >gi|225848372|ref|YP_002728535.1| ribosomal large subunit pseudouridine synthase B [Sulfurihydrogenibium azorense Az-Fu1] gi|225643927|gb|ACN98977.1| ribosomal large subunit pseudouridine synthase B [Sulfurihydrogenibium azorense Az-Fu1] Length = 247 Score = 125 bits (315), Expect = 8e-27, Method: Compositional matrix adjust. Identities = 76/236 (32%), Positives = 132/236 (55%), Gaps = 4/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R++K IA++GI SRR+ + +I + +VKVNG ++ + + D +EV+G ++ E+ Sbjct: 2 ERLNKYIAKSGICSRRKADELILEGKVKVNGKTVKNLGLKIDPKKDVVEVEGKIVKPTEK 61 Query: 73 TRLWLYHKPIG-LVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +KP+G L D GR T+ D N I ++ VGRLD N+EGLL+LTNDG Sbjct: 62 KIYLAIYKPVGYLSAVGKDRFGRKTLTDFLNELKIPYKLFPVGRLDYNSEGLLILTNDGE 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P + +VY+V+ G+V Q+ L +++G +++ + ++ + ++ W+ Sbjct: 122 FANKVAHPRNEIKKVYKVKVAGEVSQETLKKMEEGTILEDGFFKPDKIKMLKREEDGTWL 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 V + GK R I++ + F +V RLIR+ G +G L R +S+K +R L Sbjct: 182 LVEIHSGKKRIIRRFMDSFGHRVKRLIRVKIGSIDIGNLKPFDYRYLSEKEIRSIL 237 >gi|311739374|ref|ZP_07713209.1| ribosomal large subunit pseudouridine synthase B [Corynebacterium pseudogenitalium ATCC 33035] gi|311305190|gb|EFQ81258.1| ribosomal large subunit pseudouridine synthase B [Corynebacterium pseudogenitalium ATCC 33035] Length = 303 Score = 125 bits (315), Expect = 8e-27, Method: Compositional matrix adjust. Identities = 82/229 (35%), Positives = 127/229 (55%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ KV+A+AG+ASRR E +I RV+VNG ++ + V V S D I VDGV + E Sbjct: 63 ERLQKVLAKAGVASRRHAEILIDAGRVEVNGKIIAKQGVKVNPSVDVIRVDGVRVNVNEE 122 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGG 129 ++ +KP G+ +T SD GR V D + + R+ VGRLD +TEGLL+LTNDG Sbjct: 123 HEYFVLNKPRGMQSTMSDDLGRPCVGDVVSEKVAAGQRLFHVGRLDADTEGLLILTNDGE 182 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAW 188 LA L P + + Y G+ D+ + LK+GI ++ G+ D +DT +G + Sbjct: 183 LANRLMHPKYEVTKTYLATVLGEADRKLVRQLKEGIELEDGLAKADFAQVVDTNQGY-SL 241 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V + L EG+ ++++ + + V RL+R QLG + G R ++ Sbjct: 242 VRLELHEGRKHIVRRMLKEAGFPVQRLVRTKLHTVQLGDMKPGGLRALN 290 >gi|206900740|ref|YP_002251175.1| ribosomal large subunit pseudouridine synthase B [Dictyoglomus thermophilum H-6-12] gi|206739843|gb|ACI18901.1| ribosomal large subunit pseudouridine synthase B [Dictyoglomus thermophilum H-6-12] Length = 241 Score = 125 bits (315), Expect = 8e-27, Method: Compositional matrix adjust. Identities = 76/225 (33%), Positives = 131/225 (58%), Gaps = 5/225 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K IA+AG+ SRR+ E++I + RVKVNG ++ V + D +E+D ++ ++ Sbjct: 3 ERLQKFIAKAGVTSRRKAEKLILEGRVKVNGEVIRTLGVKIDPEKDIVEIDNKIVKPDKK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + LY KP+G +++ DP GR T+ D L + RV VGRLD ++EGLLL TNDG +A Sbjct: 63 IYIALY-KPVGYISSLYDPFGRRTIKDLLRDKVPFRVYPVGRLDFDSEGLLLCTNDGEIA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWV 189 VL P + +VY V G +++L L++G++++ ++ + ++ + + + Sbjct: 122 NVLIHPRYKIPKVYEVLIDGIPKEEELKKLREGVILEEGRTLPAGFEIIWENRRKNISLL 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L +G R+I+++ FN+KV L R+ G +LG L G R Sbjct: 182 KITLYQGWKRQIRRMLALFNYKVLNLKRVQIGKIKLGDLKPGEIR 226 >gi|209694708|ref|YP_002262636.1| ribosomal large subunit pseudouridine synthase B (rRNA pseudouridylate synthase B) [Aliivibrio salmonicida LFI1238] gi|208008659|emb|CAQ78844.1| ribosomal large subunit pseudouridine synthase B (rRNA pseudouridylate synthase B) [Aliivibrio salmonicida LFI1238] Length = 354 Score = 125 bits (315), Expect = 8e-27, Method: Compositional matrix adjust. Identities = 84/221 (38%), Positives = 117/221 (52%), Gaps = 5/221 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ KV+ARAG+ SRRE+E MI RV ++G + I +DG + E T Sbjct: 3 EKLQKVLARAGLGSRRELETMIQAGRVSIDGQKAKLGDRLENVDARIRIDGHVVSVKEST 62 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ YHKP G + T DP+GR TVFD LP I SR +SVGRLD NT GLLL T DG Sbjct: 63 DVICRVLAYHKPEGELCTRHDPEGRRTVFDRLPKIKDSRWVSVGRLDANTAGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y R G ++ + L G+ ++ V +G N Sbjct: 123 ELANRLMHPSRKVEREYMCRIFGDINDKMVKNLVTGVKLEDGEARFEDVMYAGGEGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V + EG+NRE++++++ V+RL R+ YG L L Sbjct: 183 FYVVINEGRNREVRRLWDSQGVTVSRLKRVRYGDIFLEKAL 223 >gi|307328933|ref|ZP_07608102.1| pseudouridine synthase [Streptomyces violaceusniger Tu 4113] gi|306885443|gb|EFN16460.1| pseudouridine synthase [Streptomyces violaceusniger Tu 4113] Length = 366 Score = 125 bits (315), Expect = 8e-27, Method: Compositional matrix adjust. Identities = 82/228 (35%), Positives = 128/228 (56%), Gaps = 8/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ + V D I+VDG+ + A + Sbjct: 130 ERLQKVLARAGMGSRRACEELIDQARVEVNGKIVTEQGLRVDPEKDEIKVDGLTV--ATQ 187 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L+ +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 188 SYLFFALNKPAGVVSTMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGIILLTNHGELA 247 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWV 189 L P + Y G + +D LK GI ++ G D +V +T G N V Sbjct: 248 HRLTHPRYGVKKTYLAAIQGPLPRDLGKRLKSGIELEDGYARADHFRVVQNT--GKNYLV 305 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V L EG+ ++++ + V++L+R ++GP LG +G R ++ Sbjct: 306 EVTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPIALGDQKSGWLRRMT 353 >gi|292670796|ref|ZP_06604222.1| RNA pseudouridine synthase [Selenomonas noxia ATCC 43541] gi|292647417|gb|EFF65389.1| RNA pseudouridine synthase [Selenomonas noxia ATCC 43541] Length = 296 Score = 125 bits (314), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 77/232 (33%), Positives = 124/232 (53%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 +R+ K+++ AG+ASRR E +I RV V+G+ + +H I VD P+ E+ Sbjct: 3 ERLQKILSNAGVASRRAAEDLIRAGRVAVDGVAVTELGRKFDPANHTITVDSKPIHSDEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G ++T D GR TV D LP +R+ VGRLD +TEG+LL+TNDG + + Sbjct: 63 RFYILLNKPRGYLSTARDDRGRKTVLDLLPDFPARLYPVGRLDADTEGVLLITNDGAITQ 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY G V + L L++GI+++ G+ L KG T+ Sbjct: 123 GLLHPRFEIDKVYHAEVAGPVTEGGLTRLRRGILLEDGMTASAKLRILRADKGYTVVETI 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EG+NR+++++F +V L R+ + L L GS R +++ + E Sbjct: 183 -IHEGRNRQVRRMFAAIGCRVCALRRVRFAMLTLRGLSCGSFRHLTRDEIHE 233 >gi|296129772|ref|YP_003637022.1| pseudouridine synthase [Cellulomonas flavigena DSM 20109] gi|296021587|gb|ADG74823.1| pseudouridine synthase [Cellulomonas flavigena DSM 20109] Length = 306 Score = 125 bits (314), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 87/230 (37%), Positives = 127/230 (55%), Gaps = 11/230 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ KV+A AG+ SRR E +IA RV V G ++ V V T I +DG+ ++ Sbjct: 70 RLQKVLASAGLGSRRACEELIAAGRVTVAGQVVTELGVRVDPRTAVIHLDGMRVQLDSSV 129 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+V+T DP+GR ++ + + R+ VGRLD ++EGLLLLTNDG LA Sbjct: 130 VTLALNKPVGVVSTMHDPEGRPSLAQYVANREERLFHVGRLDADSEGLLLLTNDGELANR 189 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----TQKGSNA-W 188 L PS + Y V G+V LK+G+ ++ D V +D Q S+A Sbjct: 190 LAHPSHGVPKTYLVEVQGRVRDALGKQLKEGVELE-----DGTVRVDEFKVVQVASHASL 244 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V V L EG+NR ++++F+ V+RL+R GP +LG L G TR +SK Sbjct: 245 VEVVLHEGRNRVVRRLFDEVGHPVDRLVRTRIGPIRLGDLRPGRTRVLSK 294 >gi|327188988|gb|EGE56177.1| RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli CNPAF512] Length = 267 Score = 125 bits (314), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 77/224 (34%), Positives = 122/224 (54%), Gaps = 3/224 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 + + +++ G SR + ER+IA+ RV ++G + + V + T I VDG+ + AE Sbjct: 27 LPRALSKLGYCSRTQAERLIAESRVSIDGRTVNDPSAWVDLVTAKIRVDGLVI-AAEAKI 85 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP GLVTT DP+GR TV+D L + VGRLD +EGLLL TND A++ Sbjct: 86 YLILNKPRGLVTTRHDPEGRPTVYDCLRDFDIPHLSPVGRLDKASEGLLLFTNDTEFAQI 145 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T + Y V+ +D +++ + GI G V Q N+W+ V L Sbjct: 146 LLDPVTHVTKTYHVQIDRLLDDEEIAAMTSGIRHDGELLTATAVRRLRQGDRNSWIEVEL 205 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 EG+NR+I+++ E + RL+R++ G +LG L G+ R ++ Sbjct: 206 DEGRNRQIRRMLEALGTECLRLVRVAIGGLELGELPKGAARALT 249 >gi|213023264|ref|ZP_03337711.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. 404ty] Length = 244 Score = 125 bits (314), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 68/154 (44%), Positives = 94/154 (61%), Gaps = 1/154 (0%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLA 131 R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T DG LA Sbjct: 20 CRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTDGELA 79 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS + R Y VR GQVD+ KL L +G+ ++ + +G N W V Sbjct: 80 NRLMHPSREVEREYAVRVFGQVDESKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQWYNV 139 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 140 TLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 173 >gi|83590199|ref|YP_430208.1| ribosomal large subunit pseudouridine synthase B [Moorella thermoacetica ATCC 39073] gi|83573113|gb|ABC19665.1| ribosomal large subunit pseudouridine synthase B [Moorella thermoacetica ATCC 39073] Length = 240 Score = 125 bits (314), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 84/224 (37%), Positives = 116/224 (51%), Gaps = 1/224 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A AG+ASRR E +I RV+VNG +++ V V D + VDG P+ ER Sbjct: 2 RLQKYLALAGVASRRRAEDLIRAGRVRVNGRVIKVMGVQVEPGQDKVTVDGQPVTGPERK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L KP G VTT SDP GR V D + I +R+ VGRLD TEGLLLLTNDG L Sbjct: 62 YYLLLFKPAGYVTTVSDPRGRPKVTDLVHGIPARLYPVGRLDYATEGLLLLTNDGELTLR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y G D + + L+ G+ ++ +V L +A + + L Sbjct: 122 LTHPRYGVTKTYLALVRGIPDANTIQHLRCGVKLEDGPTAPARVNLCRAGKDSALLELTL 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 REG+NRE++++ V RL RI L L G+ R ++ Sbjct: 182 REGRNREVRRMLAAVGHPVLRLRRIRLAFLTLRGLKPGTYRHLT 225 >gi|149195571|ref|ZP_01872628.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Lentisphaera araneosa HTCC2155] gi|149141033|gb|EDM29429.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Lentisphaera araneosa HTCC2155] Length = 236 Score = 125 bits (314), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 76/230 (33%), Positives = 124/230 (53%), Gaps = 4/230 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K IA G+ SRR+ E ++ + + +N + + V + D + PL E+ Sbjct: 2 RIAKFIAACGVCSRRKAEELVNEGHITINNHRVTELSTQVDVDNDEVRYRRKPL-VLEKK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP+G V T+ DP D LP R+ +VGRLD +EGL++LTNDG LA++ Sbjct: 61 LYYLLNKPVGYVCTNDDPFAEKKAIDLLPDK-GRLYTVGRLDKPSEGLIVLTNDGDLAKI 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLN-LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + PS + + YRV G+V Q KL+ L++ G+ +G+ Y + + Q + Sbjct: 120 MTHPSFELEKKYRVTVKGRVSQKKLDYLVRDGLTFEGVNYRVLDARIKKQVPGGYMINFT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L EGKNREI+K+ + + +V RL R LG L G+ R +++ +R Sbjct: 180 LNEGKNREIRKICQSLDLQVKRLRRYEIAGIALGKLPPGAWRPMTQSEVR 229 >gi|239932155|ref|ZP_04689108.1| pseudouridine synthase [Streptomyces ghanaensis ATCC 14672] gi|291440523|ref|ZP_06579913.1| pseudouridine synthase [Streptomyces ghanaensis ATCC 14672] gi|291343418|gb|EFE70374.1| pseudouridine synthase [Streptomyces ghanaensis ATCC 14672] Length = 347 Score = 125 bits (314), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 80/226 (35%), Positives = 125/226 (55%), Gaps = 4/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG SRR E +I Q RV+VNG I+LE+ D ++VDG+ + + Sbjct: 111 ERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGRRVDPEKDEVKVDGLTV-ATQS 169 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP G+V+T DP+GR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 170 YQFFSLNKPAGVVSTMEDPEGRQCLGDYVTNRETRLFHVGRLDTETEGVILLTNHGELAH 229 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P + Y G + +D LK GI ++ G D ++ Q G N V V Sbjct: 230 RLTHPRYGVKKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVE-QTGKNYLVEV 288 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ + V++L+R ++GP LG +G R +S Sbjct: 289 TLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLS 334 >gi|190893225|ref|YP_001979767.1| RNA-pseudouridine synthase, ribosomal large subunit B [Rhizobium etli CIAT 652] gi|190698504|gb|ACE92589.1| RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli CIAT 652] Length = 267 Score = 125 bits (314), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 77/224 (34%), Positives = 122/224 (54%), Gaps = 3/224 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 + + +++ G SR + ER+IA+ RV ++G + + V + T I VDG+ + AE Sbjct: 27 LPRALSKLGYCSRTQAERLIAESRVSIDGRTVNDPSAWVDLVTAKIRVDGLVI-AAEAKI 85 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP GLVTT DP+GR TV+D L + VGRLD +EGLLL TND A++ Sbjct: 86 YLILNKPRGLVTTRHDPEGRPTVYDCLRDFDIPHLSPVGRLDKASEGLLLFTNDTEFAQI 145 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T + Y V+ +D +++ + GI G V Q N+W+ V L Sbjct: 146 LLDPVTHVTKTYHVQIDRVLDDEEIAAMTSGIRHDGELLTATAVRRLRQGDRNSWIEVEL 205 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 EG+NR+I+++ E + RL+R++ G +LG L G+ R ++ Sbjct: 206 DEGRNRQIRRMLEALGTECLRLVRVAIGGLELGELPKGAARALT 249 >gi|139439675|ref|ZP_01773088.1| Hypothetical protein COLAER_02116 [Collinsella aerofaciens ATCC 25986] gi|133775016|gb|EBA38836.1| Hypothetical protein COLAER_02116 [Collinsella aerofaciens ATCC 25986] Length = 321 Score = 125 bits (314), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 87/262 (33%), Positives = 136/262 (51%), Gaps = 16/262 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ + +ARAG+ASRR E ++ RV VNG++ V + DHIEVDGVP++ + Sbjct: 31 RLQRFLARAGVASRRGSEDLMTAGRVTVNGLVATELGTKVDVDRDHIEVDGVPVKLNQGA 90 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +TT SDP R V D +P + F + VGRLD +T GLLL T DG L++ Sbjct: 91 VYLMLYKPTGYLTTMSDPQERPCVADLVPRNRFPGLFPVGRLDRDTTGLLLFTTDGDLSQ 150 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQ--------- 182 L PS + Y+ GQ+ L+ L++GI + G+C + ++ + Sbjct: 151 DLLHPSKHVHKTYQALVDGQLTDRDLDQLRRGIELDDGLCQPAICRVINAREAVAVAPQG 210 Query: 183 -KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK-- 239 K V V +REG+ ++K++ + V RL R ++ +L + GS RE++ + Sbjct: 211 VKPGTTAVEVIIREGRKNQVKRMLGKIHHPVIRLHRCNFAGLELEGVAKGSWRELTDREV 270 Query: 240 -ILREQLGPHLLEEAQVNLDAP 260 IL+ P A+ N D P Sbjct: 271 QILKSGGIPPKQASAKRNGDKP 292 >gi|209550726|ref|YP_002282643.1| pseudouridine synthase [Rhizobium leguminosarum bv. trifolii WSM2304] gi|209536482|gb|ACI56417.1| pseudouridine synthase [Rhizobium leguminosarum bv. trifolii WSM2304] Length = 268 Score = 125 bits (314), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 78/228 (34%), Positives = 123/228 (53%), Gaps = 3/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 + + +++ G SR + ER+IA+ RV V+G + + V ++T I VDG+ + AE Sbjct: 27 LPRALSKLGYCSRTQAERLIAESRVAVDGRTISDISAWVDLATARISVDGLVI-AAEAKI 85 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP GLVTT DP+GR TV+D L + VGRLD +EGLLL TND A++ Sbjct: 86 YLMLNKPRGLVTTRDDPEGRPTVYDCLREFDIPHLSPVGRLDKASEGLLLFTNDTEFAQI 145 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T + Y V+ +D + + + GI G Q N+W+ V L Sbjct: 146 LLDPVTHVTKTYHVQIDRIMDDEGIAAMTSGIRHDGELLTATAARRLRQGDRNSWIEVEL 205 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+NR+I+++ E + RL+R++ G +LG L G+ R +++ L Sbjct: 206 DEGRNRQIRRMLEALGTECLRLVRVAIGGLELGELPKGAVRALTEAEL 253 >gi|29833054|ref|NP_827688.1| pseudouridine synthase [Streptomyces avermitilis MA-4680] gi|29610175|dbj|BAC74223.1| putative pseudouridine synthase [Streptomyces avermitilis MA-4680] Length = 356 Score = 125 bits (314), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 81/226 (35%), Positives = 126/226 (55%), Gaps = 4/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG SRR E +I Q RV+VNG I+LE+ D I+VDG+ + + Sbjct: 120 ERLQKVLARAGYGSRRSCEELIEQARVEVNGEIVLEQGLRVDPEKDEIKVDGLTV-ATQS 178 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP G+V+T D +GR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 179 YQFFSLNKPAGVVSTMEDTEGRQCLGDYVTNRETRLFHVGRLDTETEGVILLTNHGELAH 238 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P +VY G + +D LK GI ++ G D ++ Q G N V V Sbjct: 239 RLTHPKYGVKKVYLAHIVGPIPRDLGKRLKDGIQLEDGYAKADHFRVVE-QTGKNYLVEV 297 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ + V++L+R+++GP LG +G R +S Sbjct: 298 TLHEGRKHIVRRMLAEAGFPVDKLVRVAFGPITLGDQKSGWLRRLS 343 >gi|317124964|ref|YP_004099076.1| pseudouridine synthase [Intrasporangium calvum DSM 43043] gi|315589052|gb|ADU48349.1| pseudouridine synthase [Intrasporangium calvum DSM 43043] Length = 334 Score = 125 bits (314), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 81/226 (35%), Positives = 124/226 (54%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 R+ K++A AG+ SRR E +I Q RV+V+G ++ V + + VDGV + E Sbjct: 98 RLQKLMAAAGVGSRRVCENLIEQGRVEVDGQVITELGVRINPQSQVVHVDGVRVNLDEER 157 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++KP G+VTT D GR ++ D + + R+ VGRLD +TEGLLLLTNDG LA Sbjct: 158 VYLAFNKPKGVVTTMHDELGRISLADYVGNREQRLFHVGRLDADTEGLLLLTNDGDLAHR 217 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L+ P+ L+ Y G V +D L++G+ ++ G D +D+Q G A + V Sbjct: 218 LQHPAYGVLKTYLATVRGPVGRDVGKQLREGVELEDGPVTVDSFKVVDSQPG-KALIEVV 276 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L EG+ ++++ E V L+R GP +LG L +G R ++K Sbjct: 277 LHEGRKHVVRRMLELVGHPVLELVRTEVGPIRLGDLRSGRMRRLNK 322 >gi|254393249|ref|ZP_05008402.1| pseudouridine synthase [Streptomyces clavuligerus ATCC 27064] gi|294811815|ref|ZP_06770458.1| Pseudouridine synthase [Streptomyces clavuligerus ATCC 27064] gi|326440444|ref|ZP_08215178.1| pseudouridine synthase [Streptomyces clavuligerus ATCC 27064] gi|197706889|gb|EDY52701.1| pseudouridine synthase [Streptomyces clavuligerus ATCC 27064] gi|294324414|gb|EFG06057.1| Pseudouridine synthase [Streptomyces clavuligerus ATCC 27064] Length = 376 Score = 125 bits (314), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 83/228 (36%), Positives = 128/228 (56%), Gaps = 8/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG+ SRR E +I RV+VNG I++E+ D I+VDG+ + A + Sbjct: 140 ERLQKVLARAGVGSRRACEELIEAGRVEVNGSIVIEQGVRVDPENDEIKVDGLTV--ATQ 197 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L+ +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 198 SYLFFALNKPAGVVSTMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGIILLTNHGELA 257 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWV 189 L P + Y G + ++ LK GI ++ G D +V +T G N V Sbjct: 258 HRLTHPRYGVKKTYLAAIQGPLPRELGKRLKDGIALEDGYARADHFRVVENT--GKNYLV 315 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V L EG+ ++++ + V+RL+R ++GP LG +G R +S Sbjct: 316 EVTLHEGRKHIVRRMLAEAGFPVDRLVRTAFGPIGLGDQKSGWLRRLS 363 >gi|28211002|ref|NP_781946.1| ribosomal large subunit pseudouridine synthase B [Clostridium tetani E88] gi|28203441|gb|AAO35883.1| ribosomal large subunit pseudouridine synthase B [Clostridium tetani E88] Length = 234 Score = 125 bits (314), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 78/227 (34%), Positives = 123/227 (54%), Gaps = 2/227 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +A G+ SRR+ E +I RVKVNG ++ V V D + +D ++K E Sbjct: 2 ERLQKYMASCGVDSRRKCEDIILNGRVKVNGESIKELGVKVDPEKDIVTIDNRIIKKEEN 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +++ D GR T+ D L + R+ +GRLD +T GL+LLTNDG Sbjct: 62 KKYIALNKPTGYISSVKDDKGRKTILD-LIDVKERIYPIGRLDYDTSGLILLTNDGDFYN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY G + +L KKG+VI ++ + + K +NA V + Sbjct: 121 KVIHPREEKEKVYVATIKGIPNSSELQDFKKGLVIDDYLTSPSKIKIISVKNNNAEVIIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+NR+++K+ E N V +L RIS G LG L GS R +++K Sbjct: 181 IMEGRNRQVRKMCEKINHPVIKLKRISVGHVGLGDLPIGSWRYLTQK 227 >gi|218663826|ref|ZP_03519756.1| RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli IE4771] Length = 267 Score = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 78/224 (34%), Positives = 121/224 (54%), Gaps = 3/224 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 + + +++ G SR + ER+IA+ RV V+G + + V + T I VDG+ + AE Sbjct: 27 LPRALSKLGYCSRTQAERLIAEGRVSVDGRTVNDPSAWVDLVTAEIRVDGLVI-AAEAKI 85 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP GLVTT DP+GR TV+D L + VGRLD +EGLLL TND A++ Sbjct: 86 YLMLNKPRGLVTTRHDPEGRPTVYDCLKDFEIPHLSPVGRLDKASEGLLLFTNDTEFAQI 145 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T + Y V+ +D + + + GI G V Q N+W+ V L Sbjct: 146 LLDPITHVTKTYHVQIDRIMDDEAIAAMTSGIRHDGELLTATAVRRLRQGDRNSWIEVEL 205 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 EG+NR+I+++ E + RL+R++ G +LG L G+ R ++ Sbjct: 206 DEGRNRQIRRMLEALGTECLRLVRVAIGGLELGELPKGAVRALT 249 >gi|302871660|ref|YP_003840296.1| pseudouridine synthase [Caldicellulosiruptor obsidiansis OB47] gi|302574519|gb|ADL42310.1| pseudouridine synthase [Caldicellulosiruptor obsidiansis OB47] Length = 236 Score = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 76/220 (34%), Positives = 117/220 (53%), Gaps = 2/220 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A+ G+ASRR+ E +I Q RVKVNG + + + D +EVDG + Sbjct: 2 RLQKFMAQCGVASRRKCEEIIQQGRVKVNGKTVNQLGFKIDPEKDIVEVDGERISLQSHK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++++ D GR TV D + + RV VGRLD +T GL+LLTNDG A Sbjct: 62 VYIMLNKPFGVISSAKDEKGRKTVVDLVKDKVNVRVFPVGRLDFDTTGLILLTNDGEFAY 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G ++++ +KG++I G + + Q NA V + Sbjct: 122 KVTHPKHDIEKTYIALIKGIPSKEEIERFEKGLLIDGKMTAPAKFKVLKQINGNAMVEIK 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + EG+NR+I+K+ + KV +L RI+ G QLG L G Sbjct: 182 IHEGRNRQIRKMCDMIGHKVLKLKRIAIGKLQLGKLKEGE 221 >gi|284991416|ref|YP_003409970.1| pseudouridine synthase [Geodermatophilus obscurus DSM 43160] gi|284064661|gb|ADB75599.1| pseudouridine synthase [Geodermatophilus obscurus DSM 43160] Length = 280 Score = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 88/242 (36%), Positives = 131/242 (54%), Gaps = 9/242 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG+ SRR VE M+ Q R+ VNG + + V D I VDGV + + Sbjct: 43 ERLQKVLARAGVGSRRVVENMVDQGRISVNGKTVAVQGMRVDPERDKIAVDGVRIELRDD 102 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++T SD R TV D + + ++ VGRLD +TEGLLL+TNDG LA Sbjct: 103 RVTYALNKPPGVITAMSDDRNRPTVGDMVGDLAPGLVHVGRLDQDTEGLLLVTNDGELAH 162 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L PS + + Y + G V +D L+ G+ ++ G D +DT G + V V Sbjct: 163 RLAHPSYEVKKTYLAQVSGSVPRDMARRLRSGVELEDGPVKVDSFRVVDTHAGQSV-VEV 221 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L EG+ ++++ V+RL R + GP +L + +GS R +S R ++G LE Sbjct: 222 VLHEGRKHIVRRLLASVGLPVSRLTRTAVGPVKLERMRSGSIRRLS----RAEVG--ALE 275 Query: 252 EA 253 EA Sbjct: 276 EA 277 >gi|332670389|ref|YP_004453397.1| pseudouridine synthase [Cellulomonas fimi ATCC 484] gi|332339427|gb|AEE46010.1| pseudouridine synthase [Cellulomonas fimi ATCC 484] Length = 248 Score = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 88/227 (38%), Positives = 120/227 (52%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ KV+A AG+ SRR E +IA RV V+G + V V T I VDG+ ++ Sbjct: 12 RLQKVLASAGLGSRRACEELIATGRVTVDGSTVRELGVRVDPLTAVIHVDGMRVQLDSSV 71 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+V+T DP+GR +V + R+ VGRLD TEGLLLLTNDG LA Sbjct: 72 VTLALNKPKGVVSTMHDPEGRPSVAQFVADRSERLFHVGRLDSETEGLLLLTNDGELANR 131 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWVTV 191 L PS + Y G+V L +G+ ++ G+ D QV T + S V V Sbjct: 132 LSHPSHGVAKTYLAHVEGRVAGSLAGRLARGVELEDGVVTVDRFQVVQTTPQAS--LVEV 189 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L EG+NR ++++ E V RL+R GP +LG L G TR +SK Sbjct: 190 VLHEGRNRVVRRLLEEVGHPVTRLVRTQIGPIRLGDLKPGRTRVLSK 236 >gi|269127043|ref|YP_003300413.1| pseudouridine synthase [Thermomonospora curvata DSM 43183] gi|268312001|gb|ACY98375.1| pseudouridine synthase [Thermomonospora curvata DSM 43183] Length = 250 Score = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 83/227 (36%), Positives = 126/227 (55%), Gaps = 4/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ KV+A AG+ SRR+ ER+I + RVKV+G ++ V I VDG+ + Sbjct: 15 RLQKVLAEAGLGSRRQCERLIVEGRVKVDGEVVSWLGARVDPAKAVIHVDGLRVETRPEM 74 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP G+V+T +D GR ++ D + + R+ VGRLD +TEGL+LLTNDG LA Sbjct: 75 RYYALNKPRGVVSTMADERGRKSLADYV-DVPERLFHVGRLDTDTEGLILLTNDGDLAHR 133 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L PS +VY G + +D L+ GI ++ G+ D + L Q G A V + Sbjct: 134 LTHPSFGVEKVYLAEIVGPIRRDLGRRLRAGIELEDGLAKAD-RFRLVEQVGKRALVEIT 192 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L EG+ ++++ + V +L RI +GP +LG L GS R ++ K Sbjct: 193 LHEGRKHIVRRMLKEAGHPVQKLARIRFGPIKLGRLKPGSLRALTIK 239 >gi|258404933|ref|YP_003197675.1| pseudouridine synthase [Desulfohalobium retbaense DSM 5692] gi|257797160|gb|ACV68097.1| pseudouridine synthase [Desulfohalobium retbaense DSM 5692] Length = 274 Score = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 89/246 (36%), Positives = 132/246 (53%), Gaps = 17/246 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDG----VPLRK 69 R++K +A+AG+ SRR+ + IA RV+VNG L+ + V V D + VDG +P + Sbjct: 31 RLNKFLAQAGVCSRRKADTYIAAGRVQVNGSLVTQLGVQVHPGQDEVRVDGRVVELPEAQ 90 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSR-VISVGRLDINTEGLLLLTND 127 + L HKP+ +VTT DP GR TV D LPS F+R + VGRLD +EGLLLLT+D Sbjct: 91 SAGHDYILLHKPVQVVTTAKDPQGRRTVLDLLPSQTFTRRIFPVGRLDFMSEGLLLLTSD 150 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P +VY V V ++ + + G+ + G+ +D Q+ A Sbjct: 151 GELANRLTHPRWHVEKVYEVTLREAVTEEHMRQMSSGMRLS---EGEQLAPVDVQRRKTA 207 Query: 188 WVT----VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KI 240 T + L +G NR+I+++ + RL RI GP +LG L G R ++ Sbjct: 208 ADTSSLELTLHQGVNRQIRRMCRDLGLTILRLKRIRQGPVRLGKLPQGHWRHLTATEITT 267 Query: 241 LREQLG 246 L+++LG Sbjct: 268 LKKRLG 273 >gi|149920284|ref|ZP_01908755.1| ribosomal large subunit pseudouridine synthase B [Plesiocystis pacifica SIR-1] gi|149818871|gb|EDM78311.1| ribosomal large subunit pseudouridine synthase B [Plesiocystis pacifica SIR-1] Length = 300 Score = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 78/234 (33%), Positives = 128/234 (54%), Gaps = 15/234 (6%) Query: 2 KDKNIVQENFTPQ--------RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN 53 K + + + FTP R+ K +A AG+ASRR+ E +I V+VNG ++ Sbjct: 11 KGRGMGVQPFTPNLREQRDGVRLQKFMASAGVASRRKAEELITAGVVRVNGQVVRELGTR 70 Query: 54 VMST-DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHS---DPDGRSTVFDNLPSIFSRVI 109 V D + V G P+ +AE ++ +KP G+V++ + D GR TV L + R+ Sbjct: 71 VFPERDRVTVRGEPI-QAESKVYYVLNKPDGVVSSAAGSVDERGRPTVISLLHGVSERLY 129 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ- 168 VGRLD ++ G+LLLTNDGGLA L P ++ Y V+F G++ +++ LL+ G+ + Sbjct: 130 PVGRLDFHSRGVLLLTNDGGLAEALTHPRHGVVKTYHVKFQGKLTEEQEQLLRDGVELDD 189 Query: 169 -GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 I ++ + +N W +G+REG NR+I+++ E V +LIR++ G Sbjct: 190 GAITRPVAELFAFRETATNVWYQIGIREGLNRQIRRMGEAIGHPVLKLIRVAIG 243 >gi|285018093|ref|YP_003375804.1| ribosomal large subunit pseudouridine synthase b (rrna pseudouridylate synthase b) protein [Xanthomonas albilineans GPE PC73] gi|283473311|emb|CBA15816.1| probable ribosomal large subunit pseudouridine synthase b (rrna pseudouridylate synthase b) protein [Xanthomonas albilineans] Length = 511 Score = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 93/257 (36%), Positives = 148/257 (57%), Gaps = 14/257 (5%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +D + ++ +R+ KV+A+AG+ SRR +E+ IA VKVNG + + +++ S D IE Sbjct: 17 RDASAAEQPKLEERLHKVLAQAGLGSRRALEQRIADGLVKVNGEVAQ-TGMSIKSGDRIE 75 Query: 62 VDG---VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 +DG V E R+ +Y+KP G VTT DP+GR T+F+ LP++ +R I++GRLDIN Sbjct: 76 LDGRSFVASALTEPARVLIYNKPEGEVTTREDPEGRPTIFEALPALKGARWIAIGRLDIN 135 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG-----QVDQDKLNLLKKGIVIQGICY 172 T GLLLLT DG LA + PS + R Y VR V + L +G+V++ Sbjct: 136 TTGLLLLTTDGELANAMMHPSYEIEREYVVRVRAPEGEESVPDSMIERLARGVVLEDGSA 195 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAG 231 ++ S+ W V ++EG+NRE+++++E +V+RL R YG L +L G Sbjct: 196 KFDEIERIGGTDSHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGKVALPREVLRG 255 Query: 232 STREVSK---KILREQL 245 + E+++ + LR +L Sbjct: 256 QSMELAQDKVEALRAEL 272 >gi|325283294|ref|YP_004255835.1| pseudouridine synthase Rsu [Deinococcus proteolyticus MRP] gi|324315103|gb|ADY26218.1| pseudouridine synthase Rsu [Deinococcus proteolyticus MRP] Length = 252 Score = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 83/234 (35%), Positives = 124/234 (52%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+ARAG+ASRR E +I RV VNGI V V D + VDG P+ Sbjct: 6 ERLQKVLARAGVASRRAAEELITAGRVAVNGIP-AGLGVRVQPGDRVTVDGEPVAAPTPH 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ HKP G VTT D GR TV D +P + + VGRLD ++EGLL+LT DG L Sbjct: 65 VTYMLHKPAGFVTTAQDELGRRTVLDAMPPVPG-LHPVGRLDKDSEGLLILTTDGDLTLR 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + +VYRV + + +L L++G+ ++ G + ++ G + L Sbjct: 124 LTHPRFEHEKVYRVWCFPEPGEQELAALRRGVELE---EGFARAEVEPAPGGALAL---L 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 REG+ R+++++F V+RL+R G LG L G ++ ++ L L P Sbjct: 178 REGRKRQVRRMFAEVGCPVDRLLRYRVGGLWLGDLGPGEFVQLGEQELDWLLQP 231 >gi|254283917|ref|ZP_04958885.1| ribosomal large subunit pseudouridine synthase B [gamma proteobacterium NOR51-B] gi|219680120|gb|EED36469.1| ribosomal large subunit pseudouridine synthase B [gamma proteobacterium NOR51-B] Length = 265 Score = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 80/201 (39%), Positives = 118/201 (58%), Gaps = 18/201 (8%) Query: 31 VERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDG--VPLRKAERTRLWLYHKPIGLV 85 +ER I Q R++++G R A + ++VDG + L + E R LYHKP+G V Sbjct: 1 MERWIEQGRIEIDG----RVATLGDRIYPDQRLKVDGRRLDLERKEEVRCLLYHKPVGEV 56 Query: 86 TTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRV 144 + DP+GR TVFD+LP++ + R I +GRLD T GLLL T DG LA L PS++ R Sbjct: 57 CSRKDPEGRRTVFDSLPALNNGRWIVIGRLDYTTSGLLLFTTDGELANGLMHPSSEIDRE 116 Query: 145 YRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS----NAWVTVGLREGKNRE 200 Y VR G+VD L+ L++G+++ G + T D Q+G N W V L EG+NRE Sbjct: 117 YLVRVMGEVDDAMLDRLRQGVLLDD---GPARFT-DIQEGGGDGINRWFYVVLMEGRNRE 172 Query: 201 IKKVFEFFNWKVNRLIRISYG 221 +++++E V+RL R+ +G Sbjct: 173 VRRLWESQGLTVSRLKRVRFG 193 >gi|297161649|gb|ADI11361.1| putative pseudouridine synthase [Streptomyces bingchenggensis BCW-1] Length = 333 Score = 124 bits (312), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 81/228 (35%), Positives = 128/228 (56%), Gaps = 8/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ + V D I+VDG+ + A + Sbjct: 97 ERLQKVLARAGMGSRRACEELIDQARVEVNGKIVTEQGLRVDPEKDEIKVDGLTV--ATQ 154 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L+ +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++LLTN G L+ Sbjct: 155 SYLFFALNKPAGVVSTMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGIILLTNHGELS 214 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWV 189 L P + Y G + +D LK GI ++ G D +V +T G N V Sbjct: 215 HRLTHPRYGVTKTYLAAIQGPLPRDLGKRLKDGIQLEDGYARADHFRVVQNT--GKNYLV 272 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V L EG+ ++++ + V++L+R ++GP LG +G R ++ Sbjct: 273 EVSLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPIALGDQKSGWLRRLT 320 >gi|154497957|ref|ZP_02036335.1| hypothetical protein BACCAP_01937 [Bacteroides capillosus ATCC 29799] gi|150272947|gb|EDN00104.1| hypothetical protein BACCAP_01937 [Bacteroides capillosus ATCC 29799] Length = 246 Score = 124 bits (312), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 81/234 (34%), Positives = 128/234 (54%), Gaps = 2/234 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+++ AG+ASRR E + RV VNG D I +DG P+R A Sbjct: 3 ERIQKILSAAGLASRRRAEEYLTAGRVTVNGRTAALGEKADPQRDDIRLDGKPVRPAGAH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G VTT SD GR TV + +RV VGRLD+++EGLLL+T+DG + Sbjct: 63 TYLMLYKPRGYVTTLSDERGRRTVAQLVSGCGARVWPVGRLDLDSEGLLLMTDDGNFTQR 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTVG 192 L PS Q + Y V G VD+ + +L + + GI ++ + +++G++ A ++V Sbjct: 123 LIHPSHQVEKEYLVTVEGDVDR-AIPVLSGPMELDGIPLAPARIGVLSREGADRARLSVV 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EG+NR+++++ +V RL R+ G LG L G R ++ + LR LG Sbjct: 182 IHEGRNRQVRRMCALAGLEVKRLKRVREGGLALGRLRPGEWRRLTPQELRLALG 235 >gi|315303907|ref|ZP_07874374.1| ribosomal large subunit pseudouridine synthase B [Listeria ivanovii FSL F6-596] gi|313627724|gb|EFR96390.1| ribosomal large subunit pseudouridine synthase B [Listeria ivanovii FSL F6-596] Length = 217 Score = 124 bits (312), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 73/201 (36%), Positives = 114/201 (56%), Gaps = 3/201 (1%) Query: 39 RVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVF 98 +V VNG ++ V V ++ IEV+G+ L K E R +L++KP G V+ +D GR+TV Sbjct: 1 KVTVNGKVVTELGVKVSGSERIEVEGIQLTKEEH-RYFLFYKPRGTVSAVTDDKGRTTVA 59 Query: 99 DNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 D I R+ VGRLD +T GLLL+TNDG A +L P + + Y R G +++ + Sbjct: 60 DYFTDIPERLYPVGRLDYDTSGLLLMTNDGDFANLLMHPKNEVAKTYIARIKGIPEREVI 119 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 L++G+VI G +V + + + A V + + EG+NR+++K+FE ++V +L Sbjct: 120 RELERGVVIDGRKTAPAKVKIRSSDKAKDKAIVEITIHEGRNRQVRKMFEAVGFEVQKLS 179 Query: 217 RISYGPFQLGTLLAGSTREVS 237 R Y L L AG RE+S Sbjct: 180 REEYSFLNLRGLNAGERRELS 200 >gi|307267525|ref|ZP_07549006.1| pseudouridine synthase [Thermoanaerobacter wiegelii Rt8.B1] gi|326391079|ref|ZP_08212626.1| pseudouridine synthase [Thermoanaerobacter ethanolicus JW 200] gi|306917457|gb|EFN47750.1| pseudouridine synthase [Thermoanaerobacter wiegelii Rt8.B1] gi|325992864|gb|EGD51309.1| pseudouridine synthase [Thermoanaerobacter ethanolicus JW 200] Length = 236 Score = 124 bits (312), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 77/227 (33%), Positives = 121/227 (53%), Gaps = 2/227 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K +A GIASRR+ E I Q RVKVNG +++ V + D IE D +R+ ++ Sbjct: 2 ERLQKYLAECGIASRRKCEEYILQGRVKVNGKVVKELGVKINPDVDIIEFDDKIVRREKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ D GR TV D L + R+ VGRLD +T GLLLLTNDG +A Sbjct: 62 KVYIMLNKPTGYITSVKDQFGRPTVMD-LVKVKERIYPVGRLDYDTSGLLLLTNDGEIAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +L P + ++ Y + G Q++L + G++I ++ + K + V + Sbjct: 121 ILMHPRHEIVKTYIAKIKGIPTQEELERFRNGLLIGDYLTSKAEIEILAVKNGTSVVEIK 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EGKNR+++++ E V L R G L L G R +++K Sbjct: 181 IHEGKNRQVRRMCEAIGHPVISLTRTKIGELSLEGLKPGEWRYLTQK 227 >gi|254432567|ref|ZP_05046270.1| RNA pseudouridine synthase family protein [Cyanobium sp. PCC 7001] gi|197627020|gb|EDY39579.1| RNA pseudouridine synthase family protein [Cyanobium sp. PCC 7001] Length = 242 Score = 124 bits (312), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 79/231 (34%), Positives = 118/231 (51%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ K+IA AG+ SRR E ++ Q R++VNG D I VDG PL + R Sbjct: 4 QRLQKLIAAAGVCSRRHAEELLRQGRIQVNGAAARLGDSADPDRDSIAVDGRPLDRPARP 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGGL 130 L L +KP+G++ + SDP GR TV D LP + + +GRLD ++ G LLLTN G L Sbjct: 64 VLLLLNKPLGVLCSCSDPQGRPTVLDLLPPELRQGQGLHPIGRLDADSRGALLLTNQGDL 123 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG--DMQVTLDTQKGSNAW 188 L P ++YRV G L G+ + G+ D++V ++G+ Sbjct: 124 TLRLTHPRYGHRKLYRVWVSGTPSATTLERWAAGVPLDGVASQPVDVRVLQRGKRGTRLE 183 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + +G EG+NR+I++ V L R+ GP +LG+L G R + + Sbjct: 184 LAMG--EGRNRQIRRTAALLGHPVLDLQRVGIGPLRLGSLAEGCWRALDHQ 232 >gi|75908041|ref|YP_322337.1| ribosomal large subunit pseudouridine synthase B [Anabaena variabilis ATCC 29413] gi|75701766|gb|ABA21442.1| ribosomal large subunit pseudouridine synthase B [Anabaena variabilis ATCC 29413] Length = 288 Score = 124 bits (312), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 85/234 (36%), Positives = 125/234 (53%), Gaps = 5/234 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAER 72 R+ KV+A+ GIASRRE E MI + RV++NG L E D I VDG V ++ R Sbjct: 30 RLQKVLAQWGIASRREAEEMIRRSRVQINGTLAELGQKVNPERDIITVDGKSVSAQRHHR 89 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGG 129 L +KP G+V+T DP GR TV D LP S + VGRLD + G L+LTNDG Sbjct: 90 LTYLLLNKPTGVVSTCYDPQGRKTVLDLLPEELRKGSGLHPVGRLDAYSTGALILTNDGD 149 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + Y++ G + L + ++G+++ G +V+L + + Sbjct: 150 LTFKLTHPSHNIPKTYQILVKGHPPEAVLKMWREGVLLDGRKTRKAKVSLLESLAEKSRL 209 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L+EG+NR+I++V E + V +L R + G QL T R + +ILR+ Sbjct: 210 EIVLQEGRNRQIRRVAEQLGYPVIKLHRTAIGSIQLQTSKQPLLRAGNYRILRD 263 >gi|299538371|ref|ZP_07051654.1| ribosomal large subunit pseudouridine synthase B [Lysinibacillus fusiformis ZC1] gi|298725958|gb|EFI66550.1| ribosomal large subunit pseudouridine synthase B [Lysinibacillus fusiformis ZC1] Length = 243 Score = 124 bits (312), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 83/227 (36%), Positives = 129/227 (56%), Gaps = 3/227 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E++I + +VKVNG+++ V ++D IEV+GV L K ++ Sbjct: 2 ERLQKVIAYAGVASRRKAEQLILEGKVKVNGVVVRELGTKVSNSDTIEVEGVKLEKEDKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G ++ +D GR TV D I R+ VGRLD +T GLLLLTNDG + + Sbjct: 62 YFLLY-KPRGTISAVTDDKGRKTVTDLFHHIPQRIFPVGRLDYDTSGLLLLTNDGEFSYM 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y R G + L L++GI ++ +V++ + +K A + Sbjct: 121 LTHPKFKIDKTYIARVKGVPTIEGLKKLQRGIKLEDGKTAPAKVSMTSFDEKAGKAICEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG+NR+++++FE V +L R + L L G RE+SK Sbjct: 181 TIHEGRNRQVRRMFEAIGTPVVKLKRERFAFLDLFGLAPGEYRELSK 227 >gi|169831357|ref|YP_001717339.1| pseudouridine synthase [Candidatus Desulforudis audaxviator MP104C] gi|169638201|gb|ACA59707.1| pseudouridine synthase [Candidatus Desulforudis audaxviator MP104C] Length = 238 Score = 124 bits (312), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 83/230 (36%), Positives = 118/230 (51%), Gaps = 2/230 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A AGIASRR E +I RV+VNG ++ V S+ D +EVDG +R + Sbjct: 2 RLQKYLAEAGIASRRASEELILAGRVRVNGEVVRELGTTVDSSRDRVEVDGQKIRPEPKI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY KP G VTT DP GR V D + RV VGRLD ++EGLLLLTNDG LA Sbjct: 62 YVLLY-KPRGYVTTARDPQGRRKVTDLVAGAGGRVFPVGRLDYDSEGLLLLTNDGELAYR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y V L + +G+ + V L + G A V + + Sbjct: 121 LTHPRFHVPKTYHVVLDRSPGPAALRAIARGVELDDGLTAPAGVRLVRRDGREALVEMTI 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 EG+ R++++++ ++V RL R+ +LG L G R + +RE Sbjct: 181 HEGRKRQVRRMWAALGFEVQRLKRVRMAGLELGGLEPGRWRHLRTTEVRE 230 >gi|304316801|ref|YP_003851946.1| pseudouridine synthase [Thermoanaerobacterium thermosaccharolyticum DSM 571] gi|302778303|gb|ADL68862.1| pseudouridine synthase [Thermoanaerobacterium thermosaccharolyticum DSM 571] Length = 235 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 74/225 (32%), Positives = 121/225 (53%), Gaps = 2/225 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +A IASRR+ E++I ++KVNG +++ + + D +E DG + K + Sbjct: 2 ERLQKYLAECSIASRRKCEQLILDGKIKVNGTVIKNLGIKIDPDKDIVEYDGRVVAKVQH 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +TT D GR +V D + I R+ VGRLD +T GLLLLTNDG +A Sbjct: 62 NIYIMLNKPTGFITTVKDQFGRPSVLD-IIKIKDRIYPVGRLDCDTSGLLLLTNDGDIAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VY + G D L+ + G+++ ++ + + ++A V + Sbjct: 121 KLMHPKHEIDKVYIAKIRGIPDDKDLDRFRNGLLLDNRLTAKAKIEILKKINNDALVKIV 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+I+++ E V L RI G +LG L G R +S Sbjct: 181 IHEGRNRQIRRMCELIGHPVMTLKRIKIGDLELGNLKVGQWRYLS 225 >gi|332637861|ref|ZP_08416724.1| ribosomal large subunit pseudouridine synthase B [Weissella cibaria KACC 11862] Length = 255 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 82/231 (35%), Positives = 121/231 (52%), Gaps = 11/231 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A+AG+ASRR E++I +V VNG + V +D IEV G P+ E+ Sbjct: 3 ERLQKVMAQAGVASRRASEQLILDGKVTVNGKTVRELGTKVEPSDKIEVSGEPIDSREKL 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+VTT +D GR TV D + RV VGRLD +T G+LLLTNDG LA Sbjct: 63 VYFLLNKPRGVVTTTNDDKGRQTVMDIVDEP-ERVYPVGRLDYDTTGVLLLTNDGELANR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM----------QVTLDTQK 183 L PS + +VY + G ++L L+ G+ ++ G ++T K Sbjct: 122 LMHPSYRIDKVYVAKVKGIPTNEQLEQLRHGVTVRTKQNGRYTTFKAAPARAEITSTNTK 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 A V + + EGK ++K++ + +V +L R YG L L G R Sbjct: 182 NHTAIVKLTIHEGKYHQVKEMMKAVGHEVLKLTRERYGMLDLAGLTPGEYR 232 >gi|312869081|ref|ZP_07729255.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus oris PB013-T2-3] gi|311095327|gb|EFQ53597.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus oris PB013-T2-3] Length = 238 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 82/228 (35%), Positives = 121/228 (53%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR E++IA V+VNG + V + D IEVDG+PL + E+ Sbjct: 2 ERLQKVMAEAGVASRRASEKLIATGHVQVNGQTVTTLGTKVTAKDKIEVDGIPLHR-EKQ 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G++++ D GR TV D L I R+ VGRLD +T GLLLLTNDG LA Sbjct: 61 VYYLLNKPRGVISSAHDEKGRRTVVDILREDEIEERIYPVGRLDYDTTGLLLLTNDGTLA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQKGSNAW 188 + P + Y + G + D L L+ G+ + G + L D +K + Sbjct: 121 NKMMHPKFAVDKTYVAKVKGLISNDDLKQLRTGVKVDGRRTKPAKTRLKGTDREK-KTSI 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + EG ++K++ V +L R SYG L + G RE+ Sbjct: 180 VQLTIHEGHYHQVKRMLAAVGHPVIKLHRESYGFLNLQGVQPGDYREL 227 >gi|297544608|ref|YP_003676910.1| pseudouridine synthase [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|296842383|gb|ADH60899.1| pseudouridine synthase [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 236 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 78/226 (34%), Positives = 120/226 (53%), Gaps = 2/226 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A GIASRR+ E I Q RVKVNG ++ V + D IE D +R+ ++ Sbjct: 3 RLQKYLAECGIASRRKCEEYILQGRVKVNGKEVKELGVKINPDVDIIEFDDKIVRREKKK 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G +T+ D GR TV D L + R+ VGRLD +T GLLLLTNDG +A + Sbjct: 63 VYIMLNKPTGYITSVKDQFGRPTVMD-LVKVKERIYPVGRLDYDTSGLLLLTNDGEIANI 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + + Y + G +++L + G++I+ ++ + T K + V + + Sbjct: 122 LMHPRHEIAKTYIAKIKGIPTEEELERFRNGLLIEDYVTSKAEIKVLTVKKGTSVVEIKI 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 EGKNR+++K+ E V L+R G L L G R ++ K Sbjct: 182 HEGKNRQVRKMCEAIGHPVISLMRTKIGELSLEGLKPGEWRYLTNK 227 >gi|290961534|ref|YP_003492716.1| pseudouridine synthase [Streptomyces scabiei 87.22] gi|260651060|emb|CBG74179.1| putative pseudouridine synthase [Streptomyces scabiei 87.22] Length = 313 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 79/226 (34%), Positives = 125/226 (55%), Gaps = 4/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K++ARAG SRR E +I Q RV+VNG I+LE+ D ++VDG+ + + Sbjct: 77 ERLQKILARAGYGSRRSCEELIEQARVEVNGEIVLEQGKRVDPEKDEVKVDGLTV-ATQS 135 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP G+V+T D +GR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 136 YQFFSLNKPAGVVSTMEDNEGRQCLGDYVTNRETRLFHVGRLDTETEGVILLTNHGELAH 195 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P +VY G + +D LK GI ++ G D + Q G N V V Sbjct: 196 RLTHPKYGVKKVYLAHIVGPIPRDLGKQLKDGIQLEDGYARAD-HFRVVQQTGKNYLVEV 254 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ + V++L+R+++GP LG +G R +S Sbjct: 255 TLHEGRKHIVRRMLAEAGFPVDKLVRVAFGPITLGDQKSGWLRRLS 300 >gi|150016762|ref|YP_001309016.1| pseudouridine synthase [Clostridium beijerinckii NCIMB 8052] gi|149903227|gb|ABR34060.1| pseudouridine synthase [Clostridium beijerinckii NCIMB 8052] Length = 236 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 76/230 (33%), Positives = 128/230 (55%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I +VKVNG+++ + V D IE DG ++K E Sbjct: 3 ERLQKYLANCGVASRRKCEELIISGKVKVNGVIVNEVGIKVDPLKDMIEYDGKEIKKKED 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +++ D GR T+ D + + R+ +GRLD ++ GLLLLTNDG + Sbjct: 63 KVYIMLNKPEGYISSVKDEKGRDTILD-IVKVNERIYPIGRLDYDSSGLLLLTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + ++ Y G++ D+DK+ + GI I G ++ + + + + + Sbjct: 122 KIIHPRVEIIKRYVAVVKGEITDKDKMK-FEIGIDIGGYITAPAELKVISYDKGVSTIEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G+ EGKNR+I+K+ + V L RIS G +LG L G R+++K+ L Sbjct: 181 GIHEGKNRQIRKMCAAIHHDVLSLKRISIGEIKLGYLKRGEYRKLNKEEL 230 >gi|21220260|ref|NP_626039.1| pseudouridine synthase [Streptomyces coelicolor A3(2)] gi|5738484|emb|CAB52832.1| putative pseudouridine synthase [Streptomyces coelicolor A3(2)] Length = 371 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 79/226 (34%), Positives = 124/226 (54%), Gaps = 4/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG SRR E +I Q RV++NG I+LE+ D ++VDG+ + + Sbjct: 135 ERLQKVLARAGYGSRRACEELIEQARVEINGEIVLEQGRRVDPEKDEVKVDGLTV-ATQS 193 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP G+V+T DP+GR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 194 YQFFSLNKPAGVVSTMEDPEGRQCLGDYVTNRETRLFHVGRLDTETEGVILLTNHGELAH 253 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P + Y G + +D LK GI ++ G D ++ Q G N V V Sbjct: 254 RLTHPRYGVKKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVE-QTGKNYLVEV 312 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ + V+ L+R ++GP LG +G R +S Sbjct: 313 TLHEGRKHIVRRMLAEAGFPVDNLVRTAFGPITLGDQKSGWLRRLS 358 >gi|259503200|ref|ZP_05746102.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus antri DSM 16041] gi|259168857|gb|EEW53352.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus antri DSM 16041] Length = 238 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 82/227 (36%), Positives = 119/227 (52%), Gaps = 5/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +A AG+ASRR E++IA V+VNG + V + D IEVDGVPL + E+ Sbjct: 2 ERLQKAMAEAGVASRRASEKLIATGHVQVNGQTVTTLGTKVAARDRIEVDGVPLHR-EKH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G++++ D GR TV D L I R+ VGRLD +T GLLLLTNDG LA Sbjct: 61 VYYLLNKPRGVISSAHDEKGRRTVVDILREDEIEERIYPVGRLDYDTTGLLLLTNDGALA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWV 189 L P + Y + G V D L L+ G+ + G + L ++ + V Sbjct: 121 NKLMHPKFAVDKTYVAKVKGLVSNDDLKRLRTGVKVDGRRTQPAKARLKATDREKRTSIV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EG ++K++ V +L R SYG L + G RE+ Sbjct: 181 QLTIHEGHYHQVKRMLAAVGHPVIKLHRESYGFLTLQGVQPGDYREL 227 >gi|256788622|ref|ZP_05527053.1| pseudouridine synthase [Streptomyces lividans TK24] gi|289772517|ref|ZP_06531895.1| pseudouridine synthase [Streptomyces lividans TK24] gi|289702716|gb|EFD70145.1| pseudouridine synthase [Streptomyces lividans TK24] Length = 371 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 79/226 (34%), Positives = 124/226 (54%), Gaps = 4/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG SRR E +I Q RV++NG I+LE+ D ++VDG+ + + Sbjct: 135 ERLQKVLARAGYGSRRACEELIEQARVEINGEIVLEQGRRVDPEKDEVKVDGLTV-ATQS 193 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP G+V+T DP+GR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 194 YQFFSLNKPAGVVSTMEDPEGRQCLGDYVTNRETRLFHVGRLDTETEGVILLTNHGELAH 253 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P + Y G + +D LK GI ++ G D ++ Q G N V V Sbjct: 254 RLTHPRYGVKKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVE-QTGKNYLVEV 312 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ + V+ L+R ++GP LG +G R +S Sbjct: 313 TLHEGRKHIVRRMLAEAGFPVDNLVRTAFGPITLGDQKSGWLRRLS 358 >gi|56750544|ref|YP_171245.1| ribosomal large subunit pseudouridine synthase B [Synechococcus elongatus PCC 6301] gi|81299819|ref|YP_400027.1| ribosomal large subunit pseudouridine synthase B [Synechococcus elongatus PCC 7942] gi|56685503|dbj|BAD78725.1| probable ribosomal large subunit pseudouridine synthase B [Synechococcus elongatus PCC 6301] gi|81168700|gb|ABB57040.1| ribosomal large subunit pseudouridine synthase B [Synechococcus elongatus PCC 7942] Length = 243 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 79/227 (34%), Positives = 118/227 (51%), Gaps = 3/227 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 +R+ K++++ G+ASRR+ E+ I Q RV +NG + E + D I +DG LR R Sbjct: 3 ERLQKILSQLGVASRRQAEQWIQQGRVTINGRVAEIGQQADLKRDRIHLDGKRLRPKHRP 62 Query: 73 -TRLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R L HKP+G+V+T DP R TV D + P + VGRLD ++ GLLLL NDG L Sbjct: 63 EARYLLLHKPVGVVSTCRDPQRRRTVIDLVDPEFRPGLHPVGRLDTDSSGLLLLCNDGEL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + YRV G L + G+ + V + + + + Sbjct: 123 TYQISHPRFHIEKTYRVWVEGHPPASVLEHWRSGVWLDDYQTLPAGVRILHDRAESTLLE 182 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V L EG+NR+I++V E V RL R++ GP +LG+L G R ++ Sbjct: 183 VILHEGRNRQIRRVAEQLGHPVLRLTRVAIGPLRLGSLQPGEYRSLT 229 >gi|167037554|ref|YP_001665132.1| pseudouridine synthase [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|167040216|ref|YP_001663201.1| pseudouridine synthase [Thermoanaerobacter sp. X514] gi|300914300|ref|ZP_07131616.1| pseudouridine synthase [Thermoanaerobacter sp. X561] gi|307724464|ref|YP_003904215.1| pseudouridine synthase [Thermoanaerobacter sp. X513] gi|320115969|ref|YP_004186128.1| pseudouridine synthase [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|166854456|gb|ABY92865.1| pseudouridine synthase [Thermoanaerobacter sp. X514] gi|166856388|gb|ABY94796.1| pseudouridine synthase [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|300889235|gb|EFK84381.1| pseudouridine synthase [Thermoanaerobacter sp. X561] gi|307581525|gb|ADN54924.1| pseudouridine synthase [Thermoanaerobacter sp. X513] gi|319929060|gb|ADV79745.1| pseudouridine synthase [Thermoanaerobacter brockii subsp. finnii Ako-1] Length = 236 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 77/227 (33%), Positives = 121/227 (53%), Gaps = 2/227 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K +A GIASRR+ E I Q RVKVNG +++ V + D IE D +R+ ++ Sbjct: 2 ERLQKYLAECGIASRRKCEEYILQGRVKVNGKVVKELGVKINPDVDIIEFDDKIVRREKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ D GR TV D L + R+ VGRLD +T GLLLLTNDG +A Sbjct: 62 KVYIMLNKPTGYITSVKDQFGRPTVMD-LVKVKERIYPVGRLDYDTSGLLLLTNDGEIAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +L P + ++ Y + G Q++L + G++I ++ + K + V + Sbjct: 121 ILMHPRHEIVKTYIAKIKGIPTQEELERFRNGLLIGDYLTSKAEIEILAVKNGTSVVEIK 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EGKNR+++++ E V L R G L L G R +++K Sbjct: 181 IHEGKNRQVRRMCEAIGHPVISLTRTKIGDLSLEGLKPGKWRYLTQK 227 >gi|329939210|ref|ZP_08288584.1| pseudouridine synthase [Streptomyces griseoaurantiacus M045] gi|329302095|gb|EGG45988.1| pseudouridine synthase [Streptomyces griseoaurantiacus M045] Length = 364 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 80/226 (35%), Positives = 124/226 (54%), Gaps = 4/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG SRR E +I RV+VNG I+LE+ D I+VDG+ + + Sbjct: 128 ERLQKVLARAGYGSRRACEELIEDARVEVNGEIVLEQGKRVDPEHDEIKVDGLTV-ATQS 186 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP G+V+T DP+GR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 187 YQFFSLNKPAGVVSTMEDPEGRQCLGDYVTNRETRLFHVGRLDTETEGVILLTNHGELAH 246 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P + Y G + +D LK GI ++ G D ++ Q G N V V Sbjct: 247 RLTHPRYGVRKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVE-QTGKNYLVEV 305 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ + V++L+R ++GP LG +G R +S Sbjct: 306 TLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLS 351 >gi|317495282|ref|ZP_07953652.1| RNA pseudouridylate synthase [Gemella moribillum M424] gi|316914704|gb|EFV36180.1| RNA pseudouridylate synthase [Gemella moribillum M424] Length = 243 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 70/224 (31%), Positives = 126/224 (56%), Gaps = 3/224 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K+IA +G SRR+ E++I + +V VNG ++++ V +D I V+G+ L K E Sbjct: 2 AERLQKLIAASGYTSRRKAEQLILEGKVSVNGEVIKQLGVKAEPSDVIIVEGLRLLK-EN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +L++KP ++T+ SD R V D ++ RV+ VGRLD +T G L+++NDG Sbjct: 61 KKYYLFYKPEKVITSMSDEKDRVCVKDFFEAVNERVVPVGRLDYDTSGALIMSNDGEFIN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 ++ P + + Y + +G++++ L +L+ G+ I +V + + K N V Sbjct: 121 LITHPKHKIKKTYVAKINGKLEEHHLKILRSGVRIDNYKTSPAEVNIVKNKNKSGNTLVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + EGKNR+++++FE ++V +L R S L L G R Sbjct: 181 LTIHEGKNRQVRRMFEALGYEVMKLKRESIEDLTLDGLRKGEYR 224 >gi|229916174|ref|YP_002884820.1| pseudouridine synthase [Exiguobacterium sp. AT1b] gi|229467603|gb|ACQ69375.1| pseudouridine synthase [Exiguobacterium sp. AT1b] Length = 252 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 86/240 (35%), Positives = 127/240 (52%), Gaps = 8/240 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ASRR+ E MI RV+VNG ++ V IEVDGV + + E Sbjct: 2 ERLQKVIAQAGVASRRKAEEMILDGRVRVNGKVVRELGTKVGPKSEIEVDGVKIEQEEHV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G V+T D GR + D +P +RV VGRLD NT GL++LTNDG + + Sbjct: 62 YYLLY-KPSGYVSTVDDDKGRKVITDLVPP-GARVFPVGRLDYNTTGLIILTNDGEFSNM 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--QKGSNAWVT 190 + P + + Y + + L+ G+ + G G +V + + QK + A + Sbjct: 120 MTHPKYKIQKRYVAKVKNIPSYLAIKQLESGVELDDGFKTGSAKVKMKSVDQKKNTAILE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK---ILREQLGP 247 + + EG NR+I+++ E +V +L R +G L L G RE+S K LRE P Sbjct: 180 IVISEGHNRQIRRMVEAIGSEVIKLKREQFGFLTLDGLNTGDWRELSHKEISKLRELANP 239 >gi|150390402|ref|YP_001320451.1| pseudouridine synthase [Alkaliphilus metalliredigens QYMF] gi|149950264|gb|ABR48792.1| pseudouridine synthase [Alkaliphilus metalliredigens QYMF] Length = 234 Score = 124 bits (310), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 82/226 (36%), Positives = 119/226 (52%), Gaps = 2/226 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K IA G+ASRR+ E +I Q V VN ++ + + DH++V G ++ E Sbjct: 2 RLQKYIANCGVASRRKSETLIQQGLVTVNDKVVTEMGFKLDVVEDHVKVRGKLIKPTEEM 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G VTT SD R TV D L + R+ VGRLD +T G LLLTNDG L Sbjct: 62 IYILLNKPTGFVTTVSDQFDRKTVTD-LVGVSERIFPVGRLDYHTSGFLLLTNDGNLTFK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + +VY + G+ KL+L +KG+ I+ ++++ V + L Sbjct: 121 LTHPKFKVSKVYIAKVKGKPSSSKLSLFEKGLEIEDYVTAPAKISIIKILPHEVIVKITL 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 REGKNR+++K+ + V L R S G QLG L G R +++K Sbjct: 181 REGKNRQVRKMCDAIGHPVVELNRESMGDLQLGDLEIGKWRHLTQK 226 >gi|149194803|ref|ZP_01871897.1| Pseudouridine synthase, Rsu [Caminibacter mediatlanticus TB-2] gi|149134962|gb|EDM23444.1| Pseudouridine synthase, Rsu [Caminibacter mediatlanticus TB-2] Length = 256 Score = 124 bits (310), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 83/251 (33%), Positives = 132/251 (52%), Gaps = 27/251 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE +++I +VKVNG ++ A V+ D + V+G P++K+ + Sbjct: 2 RLNKFISHHTSFSRREADKLIFDGKVKVNGKVVTNPAYEVLDGDKVAVNGKPVKKSTKYT 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +Y+KP G + T D GR T++D+LP + I +GRLD +EGLL+LT+ +A L Sbjct: 62 CIIYNKPRGELVTKKDDRGRKTIYDSLPKKYKHFIPIGRLDFASEGLLILTDSPKVADAL 121 Query: 135 ---ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGI------------CYGDMQV 177 +LP RVY++R G + + +++G+ I +G + Q+ Sbjct: 122 MKSDLP-----RVYKLRIKGNITPEIEKAMQEGVEIGVEGAHEKTKQEKIKLKPFYSYQI 176 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + K S + V + EGKNRE+++ F F V L R+SYG L L G TR Sbjct: 177 IKNDPKYST--LKVAITEGKNRELRRFFAHFGRDVLDLKRLSYGWVALNALPTGKTRYFD 234 Query: 238 K---KILREQL 245 K K+L+E L Sbjct: 235 KREYKLLKEFL 245 >gi|256829185|ref|YP_003157913.1| pseudouridine synthase [Desulfomicrobium baculatum DSM 4028] gi|256578361|gb|ACU89497.1| pseudouridine synthase [Desulfomicrobium baculatum DSM 4028] Length = 250 Score = 124 bits (310), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 85/244 (34%), Positives = 129/244 (52%), Gaps = 9/244 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPL--R 68 +P R++K +A AGIASRR + +I RV VNG++ V+ D + +G P+ + Sbjct: 5 SPVRLNKYLADAGIASRRGADALIQGGRVCVNGLIQREPGTRVIPGQDTVLCNGAPVSAK 64 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTN 126 + + + HKP+ VTT +DP GR TV D LP R+ VGRLD +EGLLLLTN Sbjct: 65 QNAPSSYIMLHKPVHTVTTVNDPQGRKTVVDLLPEELRTLRLFPVGRLDYMSEGLLLLTN 124 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGS 185 DG + L PS + + Y V V + L ++++G+ +Q G ++V + G Sbjct: 125 DGEVTLRLTHPSYEHPKKYEVLVREAVTEKSLGIMRQGMRLQEGERLAPVEVESASDAGG 184 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILR 242 + + LR+G NR+I+++ + RL RI GP LG L G R ++ K L+ Sbjct: 185 ATLLRMTLRQGVNRQIRRMCRDLGLTILRLRRIELGPLFLGNLEPGKWRALTDAEIKTLK 244 Query: 243 EQLG 246 LG Sbjct: 245 SSLG 248 >gi|187779593|ref|ZP_02996066.1| hypothetical protein CLOSPO_03189 [Clostridium sporogenes ATCC 15579] gi|187773218|gb|EDU37020.1| hypothetical protein CLOSPO_03189 [Clostridium sporogenes ATCC 15579] Length = 236 Score = 124 bits (310), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 73/227 (32%), Positives = 123/227 (54%), Gaps = 2/227 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I + RV+VNGI ++ ++S D I+VDG ++ E Sbjct: 3 ERLQKYMASCGVASRRKCEDIILEGRVEVNGIKIKEVGTKIISGKDIIKVDGNIIKPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G + T D GR T+ D L + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYLCTAKDEKGRKTILD-LVKVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++ Y+ + G + +D + L KKGI I + + + + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTMKKDHIELFKKGIDIGDYITAPAALEIFKTNKDTSEIIIK 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EGKNR+++++ + V L RIS G G L G R ++KK Sbjct: 182 IHEGKNRQVRRMCKSIGHPVIDLDRISIGNISKGDLKLGEWRYLTKK 228 >gi|282897729|ref|ZP_06305728.1| Pseudouridine synthase, Rsu [Raphidiopsis brookii D9] gi|281197408|gb|EFA72305.1| Pseudouridine synthase, Rsu [Raphidiopsis brookii D9] Length = 252 Score = 124 bits (310), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 78/216 (36%), Positives = 118/216 (54%), Gaps = 5/216 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 RV K+I++ GIASRR+ E MI Q RV+VNG L D I +DG P+ + Sbjct: 4 RVQKIISQWGIASRRQAEEMIGQSRVRVNGNLARLGQKVDPKVDMISIDGKPVTQGSPPA 63 Query: 75 L--WLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGG 129 L L +KP G+V+T +DP GR+TV D LP+ + + VGRLD ++ G L+LTNDG Sbjct: 64 LVYLLLNKPAGVVSTCNDPQGRTTVLDLLPTKLRQGTGICPVGRLDADSTGALILTNDGD 123 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + L PS + Y V G + L + +G+++ G QV L Q + + + Sbjct: 124 VTFALTHPSHDVPKTYHVVVEGHPPTNVLRMWSQGVMLDGRKTRTAQVKLIEQGFTQSKL 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + L+EG+NR+I++V + + V L R + G +L Sbjct: 184 EIILQEGRNRQIRRVAQQLGYPVVHLDRRAIGTIEL 219 >gi|256752042|ref|ZP_05492910.1| pseudouridine synthase [Thermoanaerobacter ethanolicus CCSD1] gi|256749052|gb|EEU62088.1| pseudouridine synthase [Thermoanaerobacter ethanolicus CCSD1] Length = 236 Score = 124 bits (310), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 77/227 (33%), Positives = 121/227 (53%), Gaps = 2/227 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K +A GIASRR+ E I Q RVKVNG +++ V + D IE D +R+ ++ Sbjct: 2 ERLQKYLAECGIASRRKCEEYILQGRVKVNGKVVKELGVKINPDVDIIEFDDKIVRREKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ D GR TV D L + R+ VGRLD +T GLLLLTNDG +A Sbjct: 62 KVYIILNKPTGYITSVKDQFGRPTVMD-LVKVKERIYPVGRLDYDTSGLLLLTNDGEIAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +L P + ++ Y + G Q++L + G++I ++ + K + V + Sbjct: 121 ILMHPRHEIVKTYIAKIKGIPTQEELERFRNGLLIGDYLTSKAEIEILAVKNGTSVVEIK 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EGKNR+++++ E V L R G L L G R +++K Sbjct: 181 IHEGKNRQVRRMCEAIGHPVISLTRTKIGDLSLEGLKPGKWRYLTQK 227 >gi|27904757|ref|NP_777883.1| ribosomal large subunit pseudouridine synthase B [Buchnera aphidicola str. Bp (Baizongia pistaciae)] gi|34098502|sp|Q89AL1|RLUB_BUCBP RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|27904154|gb|AAO26988.1| ribosomal large subunit pseudouridine synthase B [Buchnera aphidicola str. Bp (Baizongia pistaciae)] Length = 247 Score = 124 bits (310), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 78/228 (34%), Positives = 129/228 (56%), Gaps = 11/228 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILL---ERAAVNVMSTDHIEVDGVP--LR 68 +++ K++AR G SRR +E +I VK+N ++ +R ++NV+ I + L Sbjct: 3 EKIQKILARHGYGSRRYIESLIKSHSVKINDEVVKVGQRISINVIQKVIINNNNYKPKLN 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 + ++ LY+KP G + T D R T+F+ LP + +R I++GRLD+N+ GLLL T D Sbjct: 63 INKSLKVLLYNKPEGEICTRKDQRNRRTIFEKLPKLSNARWINIGRLDLNSSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQ-VTLDTQKGS 185 G LA L PS R+Y+VR GQ ++ L L + ++ G Y + + + +G Sbjct: 123 GELAYRLTHPSFNIERIYKVRVFGQFTENILKQLNVRVKLLDG--YANFKSIQFKYGEGK 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGS 232 N W V L EG++R +++++E ++VN+L+RISY L TL G+ Sbjct: 181 NKWFNVSLCEGRHRIVRRIWEKLGFQVNKLVRISYAHLTLPKTLFPGT 228 >gi|319786881|ref|YP_004146356.1| RNA-binding S4 domain protein [Pseudoxanthomonas suwonensis 11-1] gi|317465393|gb|ADV27125.1| RNA-binding S4 domain protein [Pseudoxanthomonas suwonensis 11-1] Length = 509 Score = 124 bits (310), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 91/245 (37%), Positives = 145/245 (59%), Gaps = 14/245 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 +R+ KV+A+AG+ SRR +E+ IA VKVNG + + ++ S D +E+DG V Sbjct: 29 ERLHKVLAQAGLGSRRALEQRIADGLVKVNGEVAQ-VGQSIRSGDRVELDGKAFVASALT 87 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 E R+ +Y+KP G VTT DP+GR T+F++LP + +R I++GRLDINT GLLLLT DG Sbjct: 88 EPARVLVYNKPEGEVTTREDPEGRPTIFESLPRLKGARWIAIGRLDINTTGLLLLTTDGE 147 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDK-----LNLLKKGIVIQGICYGDMQVTLDTQKG 184 +A + PS + R Y VR Q+ ++ L +G+ ++ Q+ Sbjct: 148 IANAMMHPSYEVEREYVVRVRAPEGQESVPDNIVDRLARGVALEDGPAKFDQIERIGGTD 207 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK---KI 240 S+ W V ++EG+NRE+++++E +V+RL R+ YG L LL G ++E+ + + Sbjct: 208 SHDWFKVVVKEGRNREVRRLWESQGCQVSRLKRVRYGKVSLPRELLRGQSQELPQEQVEA 267 Query: 241 LREQL 245 LR++L Sbjct: 268 LRKEL 272 >gi|297198681|ref|ZP_06916078.1| pseudouridine synthase [Streptomyces sviceus ATCC 29083] gi|297147171|gb|EDY58604.2| pseudouridine synthase [Streptomyces sviceus ATCC 29083] Length = 314 Score = 124 bits (310), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 79/226 (34%), Positives = 126/226 (55%), Gaps = 4/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K++ARAG SRR E +I Q RV+VNG I+LE+ D ++VDG+ + + Sbjct: 78 ERLQKILARAGYGSRRSCEELIEQARVEVNGEIVLEQGKRVDPERDEVKVDGLTV-ATQS 136 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP G+V+T D +GR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 137 YQFFSLNKPAGVVSTMEDNEGRQCLGDYVTNRETRLFHVGRLDTETEGVILLTNHGELAH 196 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P +VY G + +D LK GI ++ G D ++ Q G N V V Sbjct: 197 RLTHPRYGVKKVYLAHIVGPIPRDLGKQLKDGIQLEDGYAKADHFRVVE-QTGKNYLVEV 255 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ + V++L+R+++GP LG +G R +S Sbjct: 256 TLHEGRKHIVRRMLAEAGFPVDKLVRVAFGPITLGDQKSGWLRRLS 301 >gi|119486449|ref|ZP_01620507.1| hypothetical protein L8106_00605 [Lyngbya sp. PCC 8106] gi|119456351|gb|EAW37482.1| hypothetical protein L8106_00605 [Lyngbya sp. PCC 8106] Length = 250 Score = 124 bits (310), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 82/218 (37%), Positives = 119/218 (54%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++A GIASRR+ E+MI +RV+VNG + S+D IEVDG P++ + R Sbjct: 3 ERLQKIMATWGIASRRQAEQMILAKRVRVNGNIAHLGQKANPSSDDIEVDGKPIKPSHRP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 L +KPIG+V+T +DP GR V D LP + V VGRLD+++ G LLLTNDG Sbjct: 63 VPIYLLLNKPIGVVSTCADPGGRRNVLDLLPRRLQKGQGVHPVGRLDVDSTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNA 187 L L P + Y+V G + L ++G+++ +V L S Sbjct: 123 ELTFRLTHPRHHVPKTYQVWVQGHPPESVLQAWRQGVILSSRKTLSAEVRRLQQSIDSQT 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V L EG+NR+I+KV E + V +L R + G QL Sbjct: 183 LLEVILFEGRNRQIRKVAEQLGYPVVKLHRSAIGSIQL 220 >gi|332704996|ref|ZP_08425081.1| ribosomal large subunit pseudouridine synthase B [Lyngbya majuscula 3L] gi|332356173|gb|EGJ35628.1| ribosomal large subunit pseudouridine synthase B [Lyngbya majuscula 3L] Length = 251 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 79/217 (36%), Positives = 120/217 (55%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV K++++ GIASRR E+MIA +V++NG + TD IEVDG P+ +R Sbjct: 3 ERVQKILSQWGIASRRRAEKMIAAGQVRLNGTTVHLGQKADPETDVIEVDGKPINPYQRP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 + L +KP G+V+T D R TV D LP ++ + VGRLD ++ G LLLTNDG Sbjct: 63 QSIYLLLNKPAGVVSTCRDSRNRPTVIDLLPDKLTKGQGIHPVGRLDADSTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L PS + Y+V G + L ++G+ + G QV + +KG + Sbjct: 123 ELTFRLTHPSHHIPKTYQVWVRGNPPESVLQTWREGVNLLGKKTLPAQVRVLKRKGQSTL 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V L EG+NR+I++V + ++ V L R + GP +L Sbjct: 183 LEVVLTEGRNRQIRRVAQLLSYPVIHLHRTAIGPIKL 219 >gi|330836580|ref|YP_004411221.1| pseudouridine synthase Rsu [Spirochaeta coccoides DSM 17374] gi|329748483|gb|AEC01839.1| pseudouridine synthase Rsu [Spirochaeta coccoides DSM 17374] Length = 248 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 79/229 (34%), Positives = 123/229 (53%), Gaps = 8/229 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ +A++G SRR E++I RVKVN ++ V D + VDGV ER Sbjct: 6 PIRLQSFLAKSGWGSRRSCEQLIIDGRVKVNSQVVRELGTKVDKDDAVYVDGVLAEPNER 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 T + HKP G V +++DP+ S +L + R + ++GRLD + GL+L TNDG + Sbjct: 66 TYYYALHKPAGYVCSNADPN-ESYFARDLIDVPERNLLFNIGRLDKESTGLVLFTNDGEI 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 ++++ PS + + Y V + + L + GI I G Y + L+T++ WV Sbjct: 125 SQLITHPSYEIEKEYLVNTDRTIMIEDLQEARHGIRIDDGRPYRISRYKLETKR----WV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + L EG+NREI+K+F + + V +LIRI G +LG L R V+K Sbjct: 181 RIILTEGRNREIRKIFTYLGYDVKKLIRIRIGTLELGDLAPAQFRRVTK 229 >gi|218282361|ref|ZP_03488643.1| hypothetical protein EUBIFOR_01225 [Eubacterium biforme DSM 3989] gi|218216647|gb|EEC90185.1| hypothetical protein EUBIFOR_01225 [Eubacterium biforme DSM 3989] Length = 242 Score = 123 bits (309), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 79/224 (35%), Positives = 118/224 (52%), Gaps = 6/224 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGI SRR+ E +I +VKVNG + + V D IEV+G + K E+ Sbjct: 2 ERLQKVIAQAGICSRRKAEELILDGKVKVNGEICDVLGTKVSKQDIIEVNGNMISKEEKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G + T SD GR TV D +P R+ SVGRLD +T G+LLLTNDG Sbjct: 62 -YYIMNKPKGCLCTSSDDKGRKTVLDYMPK-NERIFSVGRLDYDTSGVLLLTNDGEFCNH 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---SNAWVT 190 + P + Y V G + +D + L+KG+ + Y +V + QK + Sbjct: 120 MIHPRYHLEKTYVVNLQGILSEDDIKQLRKGLKTKTEKYQPAKVFV-LQKDLTRNRTQFE 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + EGKN ++K + +V RL R+ + + L AG R Sbjct: 179 LTISEGKNHQVKNMMLALGHEVRRLHRVKFAFLDVKDLRAGEYR 222 >gi|227833146|ref|YP_002834853.1| putative pseudouridylate synthase [Corynebacterium aurimucosum ATCC 700975] gi|227454162|gb|ACP32915.1| putative pseudouridylate synthase [Corynebacterium aurimucosum ATCC 700975] Length = 305 Score = 123 bits (309), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 81/229 (35%), Positives = 127/229 (55%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+A+AG+ASRR E +I + RV+VNG ++ + V + D I VDG + E Sbjct: 65 ERLQKVLAKAGVASRRHAEILIDEGRVEVNGQVIIKQGTRVDPNKDVIRVDGTRINVNEE 124 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGG 129 T+ ++ +KP G+ +T SD GR V D + R+ VGRLD +TEGLLLLTNDG Sbjct: 125 TQYFVLNKPRGMQSTMSDDMGRPCVGDVVADRVVAGQRLFHVGRLDADTEGLLLLTNDGE 184 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAW 188 LA L P + + Y G+ D+ + L++GI ++ G+ D +D +G + Sbjct: 185 LANRLMHPKYEVTKTYLATVLGEADKKLIRQLREGIELEDGLAQADYVQIVDKNQGY-SL 243 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V V L EG+ ++++ + + V RL+R QLG + GS R ++ Sbjct: 244 VRVELHEGRKHIVRRMLKEAGYPVQRLVRTKLHTVQLGDMKPGSLRALN 292 >gi|188589639|ref|YP_001920921.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum E3 str. Alaska E43] gi|188499920|gb|ACD53056.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum E3 str. Alaska E43] Length = 236 Score = 123 bits (309), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 75/225 (33%), Positives = 118/225 (52%), Gaps = 2/225 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E MI VKVNG+++ V D +E G ++K E Sbjct: 3 ERLQKYMASCGLASRRKCEEMILSGEVKVNGVVVTELGTRVNPVEDKVEYKGCLIKKEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ D GR TV D L + R+ +GRLD ++ G++LLTNDG + Sbjct: 63 KVYIILNKPEGYITSAKDEKGRKTVLD-LVKVNERIYPIGRLDYDSSGIILLTNDGDIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y G+V + ++ KGI I G + + + + + V V Sbjct: 122 KIIHPREELNKKYIAVVKGEVSKKDIDTFNKGIDIGGYVTAPASLEVLSYENGKSTVEVC 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EGKNR+I+K+ N +V L R+S G QL L G RE++ Sbjct: 182 IHEGKNRQIRKMCTAINHEVLSLNRVSIGEIQLKYLKKGEWRELT 226 >gi|317486146|ref|ZP_07944990.1| S4 domain-containing protein [Bilophila wadsworthia 3_1_6] gi|316922595|gb|EFV43837.1| S4 domain-containing protein [Bilophila wadsworthia 3_1_6] Length = 262 Score = 123 bits (309), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 81/246 (32%), Positives = 133/246 (54%), Gaps = 25/246 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R++K +A AG+ SRR + +IA RV VNG + + V TD +EVDG P++ + Sbjct: 6 RINKALADAGVCSRRRADELIAAGRVSVNGEPVASPGLQVTPGTDKLEVDGKPVQPIAQA 65 Query: 74 RLWLY-HKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 +L +KP+ +V+T DP+GR+TV D +P+ + R+ GRLD +EGL+LLT+DG L Sbjct: 66 PCYLLLNKPVRVVSTAYDPEGRTTVLDLVPAKWKARRLYPAGRLDFFSEGLVLLTDDGEL 125 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--------------VIQGICYGDMQ 176 + P RVY V G V L +++KG+ V+ G + Sbjct: 126 TNRVVHPRHHMPRVYHVLIRGGVSDRALEVMRKGMTLAEGEKLAPVEIRVLPGQVHDLSG 185 Query: 177 VTLDT-----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 V+ + Q+G+ +T L +G NR+I+++ + + RL+R++ GP +LG + G Sbjct: 186 VSRNAGPPAGQRGTLLEMT--LHQGLNRQIRRMCRDLHLTILRLVRVAQGPLRLGVMKPG 243 Query: 232 STREVS 237 RE++ Sbjct: 244 EARELT 249 >gi|37523966|ref|NP_927343.1| hypothetical protein glr4397 [Gloeobacter violaceus PCC 7421] gi|35214972|dbj|BAC92338.1| glr4397 [Gloeobacter violaceus PCC 7421] Length = 248 Score = 123 bits (309), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 83/227 (36%), Positives = 119/227 (52%), Gaps = 4/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A GIASRR+ E +I +V VNG +++R V D IEV G PL Sbjct: 6 RLQKLLAEHGIASRRKAEALIVSGQVCVNGTVVDRLGTRVDPQIDLIEVFGQPLHCMPPL 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 L HKP+G ++T DP GR TV D LP+ + + VGRLD ++ G L+++NDG Sbjct: 66 LYVLLHKPVGWLSTCFDPRGRRTVLDLLPAEWRTGQGLHPVGRLDCDSSGALIVSNDGEF 125 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P Q + YRV G+ L + G+V++G VT+ ++ + Sbjct: 126 TFRLTHPRHQLPKTYRVWVRGRPTAAVLGRWRAGVVLEGQKTLPAAVTVVSRAAEATELE 185 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V L EG+NR+I+KV E V RL R + GP L L G+ R +S Sbjct: 186 VVLVEGRNRQIRKVAELLGHPVERLHRTAIGPVALAGLPPGAHRLLS 232 >gi|317506859|ref|ZP_07964631.1| RNA pseudouridylate synthase [Segniliparus rugosus ATCC BAA-974] gi|316254787|gb|EFV14085.1| RNA pseudouridylate synthase [Segniliparus rugosus ATCC BAA-974] Length = 278 Score = 123 bits (308), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 83/244 (34%), Positives = 130/244 (53%), Gaps = 18/244 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 QR+ KV+ARAG+ASRR E++IA+ RV V+G L+ + V +T +EVDG + +R Sbjct: 19 QRLHKVLARAGVASRRGAEQLIAEGRVVVDGRLVVEQGMQVDPATAVVEVDGKRVAVDDR 78 Query: 73 TRLWLYHKPIGLVTTHSDPDGRST--VFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+VT SD R + P + + + VGRLD +T GLLL++NDG L Sbjct: 79 HATYLLNKPKGVVTAMSDQRERCVGDLLREQPDLPAGLFHVGRLDADTTGLLLVSNDGEL 138 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQV------------ 177 A L PS + + Y G V + L+ L++G+ ++ G D Sbjct: 139 AHRLAHPSYEIPKTYLATVRGAVGKGALDALRRGVSLEDGPARADAVAVKGEARPAPLRK 198 Query: 178 --TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 T G+ + V + L EG+NR ++++F+ V L R+ GP +LG L AG+ R Sbjct: 199 AQTGHASGGARSVVEITLHEGRNRIVRRMFDAVGHPVVELARLRIGPIRLGGLQAGALRA 258 Query: 236 VSKK 239 ++ + Sbjct: 259 LAPE 262 >gi|225174838|ref|ZP_03728835.1| pseudouridine synthase [Dethiobacter alkaliphilus AHT 1] gi|225169478|gb|EEG78275.1| pseudouridine synthase [Dethiobacter alkaliphilus AHT 1] Length = 242 Score = 123 bits (308), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 82/232 (35%), Positives = 124/232 (53%), Gaps = 2/232 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K ++ AG+ SRR E++I RV VNG + V V D +EVDG ++ + Sbjct: 4 RLQKFLSMAGVCSRRAGEKLIESGRVTVNGSRVTAMGVTVDPENDVVEVDGRRVKVQQNN 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP+G VTT D GR TV + + I +RV VGRLD++T GLLLLTNDG LA Sbjct: 64 EYILLYKPVGYVTTLKDEFGRPTVKELVADIKTRVYPVGRLDLDTSGLLLLTNDGELANQ 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + Y + H ++ L +L KG+ + +V L + V++ + Sbjct: 124 LTHPSFGVEKEYLAKVHDTPKKEALEILAKGVRLDDGMTAPAKVQLVKSGRLTSVVSLII 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +EG+NR+++++ E V L R+ +GP L L G R + + + EQL Sbjct: 184 KEGRNRQVRRMLEAVGHPVVSLKRVRFGPLTLSGLQEGRWRRLEPREI-EQL 234 >gi|297195213|ref|ZP_06912611.1| pseudouridine synthase [Streptomyces pristinaespiralis ATCC 25486] gi|297152696|gb|EFH31937.1| pseudouridine synthase [Streptomyces pristinaespiralis ATCC 25486] Length = 368 Score = 123 bits (308), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 81/228 (35%), Positives = 129/228 (56%), Gaps = 8/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG+ SRR E +I RV+VNG I++E+ D I+VDG+ + A + Sbjct: 132 ERLQKVLARAGMGSRRACEELIDAGRVEVNGKIVIEQGVRVDPEQDEIKVDGLTV--ATQ 189 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L+ +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 190 SHLFFALNKPAGVVSTMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGIILLTNHGELA 249 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWV 189 L P + Y G + ++ LK+GI ++ G D +V +T G N V Sbjct: 250 HRLTHPKYGVKKTYLAAIQGPLPRELGKRLKEGIQLEDGYARADHFRVVENT--GKNYLV 307 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V L EG+ ++++ + V++L+R ++GP LG +G R ++ Sbjct: 308 EVTLHEGRKHIVRRMLSEAGFPVDKLVRTAFGPIALGDQKSGWLRRLT 355 >gi|330953605|gb|EGH53865.1| pseudouridine synthase, Rsu [Pseudomonas syringae Cit 7] Length = 343 Score = 123 bits (308), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 77/190 (40%), Positives = 111/190 (58%), Gaps = 8/190 (4%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R+ +Y+KP G + T DP+GR TVFD LP R I++GRLDINT GLL+ T DG LA Sbjct: 14 RVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLDINTTGLLMFTTDGELAN 73 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVT 190 L PS + R Y VR G+VD D L LK G++++ + D+Q + G N W Sbjct: 74 RLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPARFTDIQQAPGGE-GFNHWYH 132 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSK---KILREQLG 246 + EG+NRE+++++E V+RL R+ YGP L + L G RE+S+ IL ++G Sbjct: 133 CVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRWREMSQYEVDILAAEVG 192 Query: 247 PHLLEEAQVN 256 + + Q+N Sbjct: 193 LQPVAQPQMN 202 >gi|300863940|ref|ZP_07108855.1| ribosomal large subunit pseudouridine synthase B [Oscillatoria sp. PCC 6506] gi|300338060|emb|CBN54001.1| ribosomal large subunit pseudouridine synthase B [Oscillatoria sp. PCC 6506] Length = 263 Score = 123 bits (308), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 79/217 (36%), Positives = 117/217 (53%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++A+ GIASRR+ E MI RV+VNG ++ ++D IEVDGV ++ R Sbjct: 3 ERLQKILAQWGIASRRQAEEMILAGRVRVNGNTVQLGQKANPASDRIEVDGVRVKSERRP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDG 128 + L +KP G+V+T SDP R+TV D LP + VGRLD+ + G LLLTNDG Sbjct: 63 QPVYLLLNKPAGVVSTCSDPAQRTTVLDLLPPKLRAGCGIHPVGRLDVESTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y+V G + L +G+++ QV + + GS Sbjct: 123 NLTFALTHPRHCVPKTYQVWVEGDPPKSVLQTWSQGVLLSRRMTLPAQVRVQERNGSQTL 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V L EG+NR++++V E + V L R + GP L Sbjct: 183 LEVILYEGRNRQVRRVAEQLGYPVIHLHRTAIGPILL 219 >gi|218960682|ref|YP_001740457.1| ribosomal large subunit pseudouridine synthase B [Candidatus Cloacamonas acidaminovorans] gi|167729339|emb|CAO80250.1| ribosomal large subunit pseudouridine synthase B [Candidatus Cloacamonas acidaminovorans] Length = 279 Score = 123 bits (308), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 70/221 (31%), Positives = 122/221 (55%), Gaps = 1/221 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+++ +A G+ SRR+VE I R+ VNG L++ + ++ D + +DG P++ A+ Sbjct: 41 RLNRYLADCGLGSRRKVEEFITTGRIAVNGNLVQDLSRQIIPGKDKVTLDGKPIQPAKEK 100 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G V + +D GR TV+ LP ++ GRLD +EGLL TND L + Sbjct: 101 FYLILNKPRGYVVSQNDELGRKTVYSLLPPKGKQLAYAGRLDKESEGLLFFTNDTALINL 160 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + +VYRV + ++ +LN+L+KG+ I+G + + ++ + + + + Sbjct: 161 LTHPKNKVEKVYRVDINRPLNNMELNMLRKGVEIEGGKTLPAGIFVKSKNANGMTLKIVI 220 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 EG+ R+I+++ E KV L R+ +GP +L L G R Sbjct: 221 TEGRKRQIRQMIEAVGAKVTYLKRLQFGPLKLKDLPVGRWR 261 >gi|213965939|ref|ZP_03394129.1| ribosomal large subunit pseudouridine synthase B [Corynebacterium amycolatum SK46] gi|213951353|gb|EEB62745.1| ribosomal large subunit pseudouridine synthase B [Corynebacterium amycolatum SK46] Length = 324 Score = 123 bits (308), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 85/232 (36%), Positives = 128/232 (55%), Gaps = 6/232 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E++I + RV+V+G ++ R V V +T I VDG + E Sbjct: 85 RLQKVLAQAGVASRRMAEKLIDEGRVEVDGKIVTRQGVRVDPNTSVIRVDGSRVIVNEDM 144 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGL 130 + ++ +KP G+ +T D GR V D + S R+ VGRLD TEGLLLLTNDG L Sbjct: 145 QYFVLNKPRGVQSTMHDDMGRPCVGDIIGEKISAGQRLFHVGRLDAATEGLLLLTNDGEL 204 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G+VD + L+KGI + GI DM +D +G + V Sbjct: 205 ANRLMHPSYEVTKTYMATVVGEVDSKVMRELEKGIELDDGIAKADMAQIIDVWQG-RSIV 263 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EG+ ++++ + + V RL+R QLG G+ R +++ L Sbjct: 264 RIELHEGRKHIVRRMLKTAGFPVERLVRTKIHTVQLGEQTPGALRALNRAEL 315 >gi|221632463|ref|YP_002521684.1| putative pseudouridine synthase [Thermomicrobium roseum DSM 5159] gi|221155848|gb|ACM04975.1| possible pseudouridine synthase [Thermomicrobium roseum DSM 5159] Length = 282 Score = 123 bits (308), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 82/229 (35%), Positives = 122/229 (53%), Gaps = 3/229 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLR 68 T QR+ +V+A G+ASRR+ E +I RV V+G+++ V I VDG PL Sbjct: 4 TMTEQRLQRVLAAHGVASRRKAEELILAGRVTVDGVVVRELGRKVDPERQEICVDGKPL- 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +E R + HKP+G +TT +D GR TV D L + RV+ VGRLD ++ GLLLLTNDG Sbjct: 63 HSEPRRYIVLHKPVGYITTTADEYGRKTVLD-LVQVPERVVPVGRLDRDSSGLLLLTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L + P + + Y V G + L++G+ + G ++ + Sbjct: 122 DLIYRITHPRYELEKEYEVLVDGFPPPEVEEALRRGVPVDGRPVRIRRLEAIRVEPQGTV 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V + EG+NR I++VFE + V RL R+ GP +LG L G R+++ Sbjct: 182 YRVVIHEGRNRIIRRVFERVGYPVLRLQRVRVGPLRLGDLPPGRWRDLT 230 >gi|312622236|ref|YP_004023849.1| pseudouridine synthase [Caldicellulosiruptor kronotskyensis 2002] gi|312202703|gb|ADQ46030.1| pseudouridine synthase [Caldicellulosiruptor kronotskyensis 2002] Length = 240 Score = 122 bits (307), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 80/233 (34%), Positives = 122/233 (52%), Gaps = 6/233 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A+ G+ASRR+ E +I Q RVKVNG L+ + V D +EVDG + + Sbjct: 6 RLQKFMAQCGVASRRKCEEIILQGRVKVNGELVNQLGFKVDPEKDVVEVDGKRISPQMQK 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++++ D GR TV D + + RV VGRLD +T GL+LLTNDG A Sbjct: 66 VYIMLNKPFGVISSAKDEKGRKTVVDLVKDKVNVRVFPVGRLDFDTTGLILLTNDGEFAY 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G + ++ +KG++I G + + NA V + Sbjct: 126 KVTHPKHDIEKTYIALIKGIPSKKEIERFEKGLLIDGKMTAPAKFKILKLINGNALVEIK 185 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS----TREVSKKIL 241 + EG+NR+I+K+ + KV +L RI+ G QLG L G RE + K+ Sbjct: 186 IHEGRNRQIRKMCDQIGHKVLKLKRIAIGKLQLGKLKEGEFVFLDRETANKVF 238 >gi|328955498|ref|YP_004372831.1| ribosomal large subunit pseudouridine synthase B [Coriobacterium glomerans PW2] gi|328455822|gb|AEB07016.1| ribosomal large subunit pseudouridine synthase B [Coriobacterium glomerans PW2] Length = 257 Score = 122 bits (307), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 77/227 (33%), Positives = 120/227 (52%), Gaps = 4/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ + +ARAG+ASRR E +++ RV+VNG++ V + D +EVDG+ + Sbjct: 2 RLQRFLARAGVASRRGSEHLMSAGRVRVNGLVASELGTKVDVGADRVEVDGIEVVFGAPP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +TT SDP GR V + +P F + VGRLD +T G+LL T DG LA+ Sbjct: 62 VYIVLNKPAGYLTTMSDPAGRPCVAELVPIRRFPGLFPVGRLDKDTTGVLLFTTDGDLAQ 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICY-GDMQVTLDTQKGSNAWVT 190 L PS + Y R G D L++L+ GI + G C ++ G ++ V Sbjct: 122 NLLHPSKHVAKTYLARVEGTPDSADLDVLRAGIELDDGPCLPARCRLVERRASGGSSLVE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +REG+ ++K++ V RL+R S+G L G RE++ Sbjct: 182 LIIREGRKNQVKRMLAAVGHPVQRLVRTSFGGVAASDLAEGEWRELT 228 >gi|320160581|ref|YP_004173805.1| pseudouridine synthase [Anaerolinea thermophila UNI-1] gi|319994434|dbj|BAJ63205.1| pseudouridine synthase [Anaerolinea thermophila UNI-1] Length = 245 Score = 122 bits (307), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 89/235 (37%), Positives = 125/235 (53%), Gaps = 11/235 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +RV K++ARAG SRR E +I RVK+NG + S D I VDG +PL+ Sbjct: 4 ERVQKILARAGYGSRRACEELILAGRVKINGQTAVLGSKADPSRDQILVDGQKIPLQPP- 62 Query: 72 RTRLWLYHKPIGL---VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + HKP G+ V H DP R TV D +P + + SVGRLD +EGL+LLTNDG Sbjct: 63 -PVYIMLHKPQGVLSDVEVHKDP--RPTVRDLVP-VEGHLFSVGRLDYESEGLILLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNA 187 LA L P + YRV + D+ +L + G+V++ G QV ++ G A Sbjct: 119 ELANRLTHPRYGHEKEYRVLVGTRPDERQLEAWRHGVVLEDGYRTAPAQVRVEGVAGKGA 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 W+ V LREG+ R+I+++ V R+IRI G LG L G R ++ + +R Sbjct: 179 WLRVILREGRKRQIREMGRLTGLPVLRIIRIRIGSLLLGDLKPGEWRYLTPQEVR 233 >gi|251779623|ref|ZP_04822543.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|243083938|gb|EES49828.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 236 Score = 122 bits (307), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 75/225 (33%), Positives = 118/225 (52%), Gaps = 2/225 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I VKVNG+++ V D +E G ++K E Sbjct: 3 ERLQKYMASCGLASRRKCEEIILSGEVKVNGVVVTELGTRVNPVEDKVEYKGCLIKKEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ D GR TV D L + R+ +GRLD ++ GL+LLTNDG + Sbjct: 63 KVYIILNKPEGYITSAKDEKGRKTVLD-LVKVNERIYPIGRLDYDSSGLILLTNDGDIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y G+V + ++ KGI I G + + + + + V V Sbjct: 122 KIIHPREELNKKYIAVVKGEVSKKDIDAFNKGIDIGGYVTAPASLEVLSYENGKSTVEVC 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EGKNR+I+K+ N +V L R+S G QL L G RE++ Sbjct: 182 IHEGKNRQIRKMCTAINHEVLSLNRVSIGEIQLKYLKKGEWRELT 226 >gi|227504286|ref|ZP_03934335.1| pseudouridine synthase B [Corynebacterium striatum ATCC 6940] gi|227199125|gb|EEI79173.1| pseudouridine synthase B [Corynebacterium striatum ATCC 6940] Length = 287 Score = 122 bits (307), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 83/237 (35%), Positives = 130/237 (54%), Gaps = 6/237 (2%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDG 64 +V +N +R+ KV+A+AG+ASRR E MI RV+VNG ++ + V V + D I VDG Sbjct: 39 LVGDNPKGERLQKVLAKAGVASRRHAEIMIDAGRVEVNGKIVMQQGVRVDPNVDVIRVDG 98 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGL 121 V + E TR ++ +KP GL +T SD GR + D + + R+ VGRLD +TEGL Sbjct: 99 VRINVNEETRYFILNKPRGLQSTMSDELGRPCIGDLIGDRVAAGQRLFHVGRLDADTEGL 158 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLD 180 +L+TNDG LA L P + + Y G+ + LK+G+ ++ G+ D +D Sbjct: 159 ILITNDGELANRLMHPKYEVRKTYLATVLGEAGNGLVRTLKEGVELEDGLAKADYVQIVD 218 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +G + V V L EG+ ++++ + + V RL+R QLG + G R ++ Sbjct: 219 KNQGY-SLVRVELHEGRKHIVRRMLKEAGFPVQRLVRTKLHTLQLGEMKPGILRALN 274 >gi|262182363|ref|ZP_06041784.1| putative pseudouridylate synthase [Corynebacterium aurimucosum ATCC 700975] Length = 286 Score = 122 bits (307), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 81/229 (35%), Positives = 127/229 (55%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+A+AG+ASRR E +I + RV+VNG ++ + V + D I VDG + E Sbjct: 46 ERLQKVLAKAGVASRRHAEILIDEGRVEVNGQVIIKQGTRVDPNKDVIRVDGTRINVNEE 105 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGG 129 T+ ++ +KP G+ +T SD GR V D + R+ VGRLD +TEGLLLLTNDG Sbjct: 106 TQYFVLNKPRGMQSTMSDDMGRPCVGDVVADRVVAGQRLFHVGRLDADTEGLLLLTNDGE 165 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAW 188 LA L P + + Y G+ D+ + L++GI ++ G+ D +D +G + Sbjct: 166 LANRLMHPKYEVTKTYLATVLGEADKKLIRQLREGIELEDGLAQADYVQIVDKNQGY-SL 224 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V V L EG+ ++++ + + V RL+R QLG + GS R ++ Sbjct: 225 VRVELHEGRKHIVRRMLKEAGYPVQRLVRTKLHTVQLGDMKPGSLRALN 273 >gi|291297121|ref|YP_003508519.1| RNA-binding S4 domain-containing protein [Meiothermus ruber DSM 1279] gi|290472080|gb|ADD29499.1| RNA-binding S4 domain protein [Meiothermus ruber DSM 1279] Length = 295 Score = 122 bits (307), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 81/225 (36%), Positives = 123/225 (54%), Gaps = 10/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +ARAGIASRR+ E +I RV +N + AV V D + +DG +R ++ Sbjct: 5 RLQQFLARAGIASRRKAEDLIRAGRVTINEQVASIGAV-VQPGDIVRLDGERVRMPQKKV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + HKP G TTH D V++ +P + +VGRLD +TEGLLLLTNDG L + L Sbjct: 64 VIALHKPKGYTTTHEDEHAEKIVYELVPK-HPGLHAVGRLDKDTEGLLLLTNDGHLTQHL 122 Query: 135 ELPSTQWLRVYRVRF-HGQVDQDKLNLLKKGIVIQGICYGD-MQVTLDTQKGSNAWVTVG 192 P Q ++YR +G+V + L +QG+ GD + L+ N V + Sbjct: 123 THPRNQVPKLYRAWCKNGRVSEKACQQL-----VQGVVLGDGLAQALEAHPTRNG-VKLV 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ RE++++ + V RL+R++ GP +LG L AG R ++ Sbjct: 177 LTEGRKREVRRMLNKVGYPVERLVRLAVGPIELGELEAGEWRYLT 221 >gi|217967848|ref|YP_002353354.1| pseudouridine synthase [Dictyoglomus turgidum DSM 6724] gi|217336947|gb|ACK42740.1| pseudouridine synthase [Dictyoglomus turgidum DSM 6724] Length = 241 Score = 122 bits (306), Expect = 8e-26, Method: Compositional matrix adjust. Identities = 75/225 (33%), Positives = 128/225 (56%), Gaps = 5/225 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K I+R+G+ SRR+ E +I + RVKVNG ++ V + D +EVD ++ ++ Sbjct: 3 ERLQKFISRSGVTSRRKAEELILEGRVKVNGKVIRTLGVKIDPEKDVVEVDNKIIKPEKK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLA 131 + LY KP+G +++ DP GR T+ D L + SRV VGRLD ++EGLLL TNDG +A Sbjct: 63 LYIALY-KPVGYLSSLYDPFGRRTIKDLLKDKLSSRVYPVGRLDFDSEGLLLCTNDGEIA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKGSNAWV 189 + P + ++Y V +G +++L ++G++++ + +V K + + Sbjct: 122 NFVIHPRYKIPKIYEVLVNGIPKEEELKKFREGVILEEGKTLPAEFEVVWKNSKTKRSLL 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V L +G R+I+++ F ++V +L RI G +LG L G R Sbjct: 182 KVVLYQGWKRQIRRMLALFGYEVLKLKRIQIGEIRLGNLKPGEFR 226 >gi|307718784|ref|YP_003874316.1| pseudouridylate synthase [Spirochaeta thermophila DSM 6192] gi|306532509|gb|ADN02043.1| putative pseudouridylate synthase [Spirochaeta thermophila DSM 6192] Length = 255 Score = 122 bits (306), Expect = 8e-26, Method: Compositional matrix adjust. Identities = 87/237 (36%), Positives = 124/237 (52%), Gaps = 9/237 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +AR G SRR E +I + RV+VNG ++ A V D + +DG + + Sbjct: 17 RLHVFLARCGEGSRRACEELIKKGRVRVNGRVITNPAHRVDPQEDRVTLDGRDVHLVGKF 76 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP G + T SDP GR V+D + P + +V S+GRLD + GLLLLTNDG A Sbjct: 77 LYLAFHKPPGYLCTRSDPQGRPLVYDLIDPVLPYKVFSIGRLDFLSSGLLLLTNDGEFAD 136 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 ++ P + + Y V + + L KGI I+G Y V + S V + Sbjct: 137 IVMHPKHRVEKEYLVETKRPIPRALLESYLKGIRIEGERY----VLKAYKSKSPHKVHLI 192 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQLG 246 L EGKNREI+KVF + + R+ RI GP +LG L G R ++K ++LRE G Sbjct: 193 LEEGKNREIRKVFYSSHIPIVRIHRIRIGPVRLGRLRPGHFRNLTKEEIRLLREGRG 249 >gi|301062561|ref|ZP_07203199.1| pseudouridylate synthase [delta proteobacterium NaphS2] gi|300443326|gb|EFK07453.1| pseudouridylate synthase [delta proteobacterium NaphS2] Length = 295 Score = 122 bits (306), Expect = 8e-26, Method: Compositional matrix adjust. Identities = 74/230 (32%), Positives = 117/230 (50%), Gaps = 1/230 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAE 71 P R++++++ AG+ SRR+ ++ I R+ VNG + D I VDG + Sbjct: 56 PWRLNRILSSAGLTSRRKADQWILSGRITVNGKPVNAPGTTAFWGRDDIRVDGQKIPLPP 115 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +KP G + + DP+GR V D I RV VGRLD +T GLLLLTNDG A Sbjct: 116 KKVYLMLNKPFGTICSLDDPEGRPLVTDLTKDIPIRVYPVGRLDFDTLGLLLLTNDGEFA 175 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V G + + L L+ GI + G + L + + + + Sbjct: 176 HRLTHPRFHVPKTYKVTVQGAISDEALKRLQTGITLNDGPAGRARTELINRNNEKSILRM 235 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + +GK+R+++++ E + V LIRIS+G QLG L G R + + L Sbjct: 236 TITQGKSRQVRRMLEKVGFTVIHLIRISFGTLQLGDLKIGHHRHLDSEEL 285 >gi|284032996|ref|YP_003382927.1| pseudouridine synthase [Kribbella flavida DSM 17836] gi|283812289|gb|ADB34128.1| pseudouridine synthase [Kribbella flavida DSM 17836] Length = 244 Score = 122 bits (306), Expect = 8e-26, Method: Compositional matrix adjust. Identities = 82/233 (35%), Positives = 119/233 (51%), Gaps = 3/233 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A+AG+ASRR E +I Q RV+V+G ++ V + I VDG + Sbjct: 8 RLQKALAQAGVASRRNAELLIEQGRVEVDGAVVTEFGTRVDPAVSVIRVDGERIPPVTAH 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G+VTT SDP GR + D + R+ +GRLD +TEGLLLLTN G A Sbjct: 68 VYLVLNKPRGVVTTMSDPQGRPCIADYVQERPERLFHIGRLDTDTEGLLLLTNHGEFAHR 127 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y G V L L G+ ++ G D + KG + + Sbjct: 128 LAHPSYEVSKTYVAEVDGNVKPIVLRRLLDGVELEDGFAQADTVKVMSEIKG-RTLIQIT 186 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L EG+NR ++++F+ V RL R + GP + G L G RE+ K L + L Sbjct: 187 LHEGRNRIVRRMFDAVGHPVKRLTRTAIGPVRRGNLHTGELRELDPKELGQLL 239 >gi|153939039|ref|YP_001391068.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum F str. Langeland] gi|152934935|gb|ABS40433.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum F str. Langeland] gi|295319117|gb|ADF99494.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum F str. 230613] Length = 236 Score = 122 bits (306), Expect = 8e-26, Method: Compositional matrix adjust. Identities = 78/229 (34%), Positives = 124/229 (54%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I + RV+VNGI ++ ++S D I+VDG + E Sbjct: 3 ERLQKYMASCGVASRRKCEDIILEGRVEVNGIKIKELGTKIISGKDIIKVDGNIIEPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G V T D GR T+ D L I R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKGRKTILD-LVKIKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVT 190 + P + ++ Y+ + G + +D + L KKGI I Y TL+ K + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGD--YITAPATLEILKINKDTSEII 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EGKNR+++++ + V L RIS G L G R ++KK Sbjct: 180 IKIHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKSDLKLGEWRYLTKK 228 >gi|269795291|ref|YP_003314746.1| pseudouridine synthase family protein [Sanguibacter keddieii DSM 10542] gi|269097476|gb|ACZ21912.1| pseudouridine synthase family protein [Sanguibacter keddieii DSM 10542] Length = 263 Score = 122 bits (306), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 78/226 (34%), Positives = 123/226 (54%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 R+ KV+A AG+ SRR E +I RV V+ + + V + ++ VDG+ ++ Sbjct: 27 RLQKVLATAGLGSRRACENLITAGRVTVDDVPVHELGVRIDPDKNVVHVDGLRIQLDMSL 86 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+V+T DP+GR T+ + R+ VGRLD ++EGLLLLTNDG LA Sbjct: 87 LTLALNKPLGVVSTMHDPEGRPTLAQFVADRPERLFHVGRLDADSEGLLLLTNDGELANR 146 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y V+ G+V + L KGI ++ G+ D +D + + + V Sbjct: 147 LTHPKYKITKTYTVQVEGRVPANLGTTLLKGIELEDGVATVDKYRLVDATPQA-SLIEVE 205 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L EG+NR I+++FE + V +L+R GP +LG L G R + + Sbjct: 206 LHEGRNRIIRRMFETAGYPVTQLVRTKIGPIRLGDLRQGRVRVIGQ 251 >gi|257469264|ref|ZP_05633358.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium ulcerans ATCC 49185] gi|317063511|ref|ZP_07927996.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium ulcerans ATCC 49185] gi|313689187|gb|EFS26022.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium ulcerans ATCC 49185] Length = 236 Score = 122 bits (306), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 75/226 (33%), Positives = 124/226 (54%), Gaps = 7/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA--VNVMSTDHIEVDGVPLRK-AE 71 R++K +A GIASRREV++MI + +KVNG E+AA + V D I + G + K E Sbjct: 5 RINKYLASLGIASRREVDKMIEEGAIKVNG---EKAAPGIKVSDEDEIYIKGKKIEKNTE 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + ++ +KP+ ++++ D GR TV D L R+ +GRLD NT GL++LTNDG L Sbjct: 62 KKVYYILNKPLEVLSSSKDDRGRKTVVD-LIKCKERIFPIGRLDYNTSGLIILTNDGELF 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y + G++ ++ LL+KG+ + V + ++ + V Sbjct: 121 NRIIHPKAEIFKEYYAKVFGEIKEENAELLRKGVELDDGMTLPANVKILRRERGKTELLV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +REG+NR+++++ + N V L R G LG L G RE++ Sbjct: 181 AIREGRNRQVRRMLDKINHPVITLRREKIGDLSLGNLKLGEYRELT 226 >gi|312127407|ref|YP_003992281.1| pseudouridine synthase [Caldicellulosiruptor hydrothermalis 108] gi|311777426|gb|ADQ06912.1| pseudouridine synthase [Caldicellulosiruptor hydrothermalis 108] Length = 240 Score = 122 bits (306), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 76/219 (34%), Positives = 118/219 (53%), Gaps = 2/219 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A+ G+ASRR+ E +I Q RVKVNG L+ + V D +EVDG + + Sbjct: 6 RLQKFMAQCGVASRRKCEEIILQGRVKVNGKLVNQLGFKVDPEKDVVEVDGKRISLQRQK 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++++ D GR TV D + + RV VGRLD +T GL+LLTNDG A Sbjct: 66 VYIMLNKPFGVISSAKDEKGRKTVVDLVKDKVNVRVFPVGRLDFDTTGLILLTNDGEFAY 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G ++++ +KG++I G + + NA V + Sbjct: 126 KVTHPKHDIEKTYIALIKGIPSKEEIERFEKGLLIDGKMTAPAKFKILKLINGNALVEIK 185 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + EG+NR+I+K+ + KV +L R++ G QLG L G Sbjct: 186 IHEGRNRQIRKMCDQIGHKVLKLKRVAIGKLQLGKLKEG 224 >gi|291542267|emb|CBL15377.1| ribosomal large subunit pseudouridine synthase B [Ruminococcus bromii L2-63] Length = 249 Score = 122 bits (305), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 81/248 (32%), Positives = 132/248 (53%), Gaps = 9/248 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDG--VPL 67 P R+ K IA+ GIASRR+ E +I VKVNG + A+ V+ TD + V G + + Sbjct: 6 PIRLQKFIAQCGIASRRKAEELILGGHVKVNG----KTAILGDKVLPTDKVFVRGKRIVV 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 K R + +KP G +TT +D GR V + ++ RV +GRLD ++EG+L+ TND Sbjct: 62 PKGGNYRYIMLNKPRGFITTMNDERGRKCVAQLVENVGERVYPIGRLDKDSEGMLVFTND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G A + P ++YRV +D+D+L L+ G+ + G V + ++ Sbjct: 122 GDFANKVMHPKNNVYKIYRVTVRPSIDEDQLVKLETGVELDGRKTAPAYVHVIHKEQGRV 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + L EGKNREI+++ E +V RL R G ++G L G R+++++ +++ L Sbjct: 182 VLEMILHEGKNREIRRMCEAVGLEVARLKRTQIGGVKMGMLKQGDWRDLTEQEVKKLLAN 241 Query: 248 HLLEEAQV 255 L Q+ Sbjct: 242 PFLNGKQL 249 >gi|34558267|ref|NP_908082.1| putative ribosomal pseudouridine synthase [Wolinella succinogenes DSM 1740] gi|34483986|emb|CAE10982.1| PUTATIVE RIBOSOMAL PSEUDOURIDINE SYNTHASE [Wolinella succinogenes] Length = 293 Score = 122 bits (305), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 76/236 (32%), Positives = 124/236 (52%), Gaps = 18/236 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AER 72 R+++ I+ SRRE + +I RV + +E A V + + +DG L++ E Sbjct: 12 RLNQYISHHSKYSRREADELIKAGRVNIEKRKIENLATQVKEDERVFIDGKFLKEKSEEN 71 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + T SD GR T++D+LPS F I VGRLD +EGLLLLT+ +A+ Sbjct: 72 YTVIVYHKPKGELVTKSDDRGRKTIYDSLPSGFKHFIPVGRLDFASEGLLLLTDSPKVAK 131 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT------------LD 180 L ++ RVY ++ +V + + +++G+V++ G + + + Sbjct: 132 A--LMESELERVYHLKIDKRVSPEMIKAMEEGLVLEDASAGGHEKSEIKSMSFSPFAGFE 189 Query: 181 TQKGS--NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 K S ++ + V ++EGKNRE+++ F F KV L R+SYG L L G R Sbjct: 190 VAKDSPTHSKIKVAIKEGKNRELRRFFAHFGAKVLDLKRVSYGWVSLNALPDGKNR 245 >gi|312135342|ref|YP_004002680.1| pseudouridine synthase [Caldicellulosiruptor owensensis OL] gi|311775393|gb|ADQ04880.1| pseudouridine synthase [Caldicellulosiruptor owensensis OL] Length = 236 Score = 122 bits (305), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 75/220 (34%), Positives = 117/220 (53%), Gaps = 2/220 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A+ GIASRR+ E +I Q RVKVNG + + V D +E+DG + + Sbjct: 2 RLQKFMAQCGIASRRKCEEIILQGRVKVNGKTVNQLGFKVDPEKDVVEIDGKRISLQRQK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++++ D GR TV D + + RV VGRLD +T GL+LLTNDG A Sbjct: 62 VYIMLNKPFGVISSAKDEKGRKTVVDLVREKVNVRVFPVGRLDFDTTGLILLTNDGEFAY 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G + ++ + ++G++I G + + NA V + Sbjct: 122 KVTHPKHDIEKTYIALVKGIPSKKEIEMFERGLLIDGKMTAPAKFKILKLINGNALVEIK 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + EG+NR+I+K+ + KV +L RI+ G QLG L G Sbjct: 182 IHEGRNRQIRKMCDMIGHKVLKLKRIAIGKLQLGKLKEGE 221 >gi|227488999|ref|ZP_03919315.1| pseudouridine synthase B [Corynebacterium glucuronolyticum ATCC 51867] gi|227091075|gb|EEI26387.1| pseudouridine synthase B [Corynebacterium glucuronolyticum ATCC 51867] Length = 349 Score = 122 bits (305), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 84/233 (36%), Positives = 126/233 (54%), Gaps = 6/233 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E +IAQ RV+VNG ++ R V V T I VDGV ++ E Sbjct: 110 RLQKVLAQAGVASRRMSEELIAQGRVEVNGEIVMRQGVRVDPDTAVIRVDGVRVKVNEDL 169 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGL 130 +KP+G+ +T D GR V D + + VGRLD TEGLLLLTNDG L Sbjct: 170 VYIALNKPLGVQSTMKDDMGRPCVGDIVGEKVDAGLHLFHVGRLDAKTEGLLLLTNDGEL 229 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L P + Y G+ D++ + L++G+ ++ GI D +DT +G + + Sbjct: 230 ANRLMHPKYHVSKTYLATVLGEADRELVKKLREGVDLEDGIAKADYVQIVDTYEG-RSLI 288 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V L EG+ ++++ + + V +L+R QLG L G+ R ++ LR Sbjct: 289 RVELHEGRKHIVRRMLKELGFPVQQLVRTKIHTVQLGELTPGAIRHLNDSELR 341 >gi|260463018|ref|ZP_05811221.1| pseudouridine synthase [Mesorhizobium opportunistum WSM2075] gi|259031139|gb|EEW32412.1| pseudouridine synthase [Mesorhizobium opportunistum WSM2075] Length = 259 Score = 122 bits (305), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 81/228 (35%), Positives = 125/228 (54%), Gaps = 3/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 +++ +++ G+ SR + E +I + RV+V G ++ A+ V ++ D I VDG + AER Sbjct: 28 LNRALSKLGLCSRTQAELLITEGRVRVGGKVVRDPALRVDLNRDSIVVDGEKV-IAERKV 86 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 + +KP GLVTT DP R TV+ L ++ IS VGRLD +EGLLL+TND A Sbjct: 87 YVMLNKPRGLVTTRDDPQQRDTVYACLEALDLPFISPVGRLDKASEGLLLMTNDTRFANR 146 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P++ + Y V+ D L L+ G + G + L G AW+ V L Sbjct: 147 LMDPASHLPKTYHVQVATVPDAAMLETLRAGATVDGEILTANSIDLLRSGGRTAWLEVVL 206 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+NR I+++ + +V RLIRI+ G +LG L G+ R ++ + L Sbjct: 207 DEGRNRHIRRLLAAHDIEVLRLIRIAIGGLRLGDLAKGTARHLTAEEL 254 >gi|256827115|ref|YP_003151074.1| pseudouridine synthase family protein [Cryptobacterium curtum DSM 15641] gi|256583258|gb|ACU94392.1| pseudouridine synthase family protein [Cryptobacterium curtum DSM 15641] Length = 296 Score = 122 bits (305), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 75/224 (33%), Positives = 114/224 (50%), Gaps = 2/224 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAE 71 P R+ K +ARAG+ASRR ER+I+ RV VNGI++ V D + VDG + Sbjct: 49 PLRLQKFLARAGVASRRGSERLISAGRVAVNGIVITELGTKVDPLVDEVCVDGAIVTWGA 108 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGL 130 +KP G++TT D GR V D +P+ + + +GRLD +T GLLL + DG L Sbjct: 109 PAVTLALNKPAGIITTMKDLRGRRCVADIMPTEQYPGLFPIGRLDQDTTGLLLFSTDGNL 168 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L PS +VYR G + Q L L GI++ +V++ ++ + Sbjct: 169 GNALLHPSHGVSKVYRATIEGSIGQAALEQLASGILLDDGMTAPARVSVVQAGKKHSVIE 228 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EG+ ++K++ + V +L R S+GP L L G+ R Sbjct: 229 LELHEGRKHQVKRMCQAVGHPVVKLHRASFGPIDLAGLATGAYR 272 >gi|253581558|ref|ZP_04858783.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium varium ATCC 27725] gi|251836628|gb|EES65163.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium varium ATCC 27725] Length = 236 Score = 122 bits (305), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 78/227 (34%), Positives = 127/227 (55%), Gaps = 9/227 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERA--AVNVMSTDHIEVDGVPLRK-AE 71 R++K +A GIASRREV++MI + +K+NG E+A + V D I + G + K E Sbjct: 5 RINKYLASLGIASRREVDKMIEEGSIKING---EKATPGIKVSDKDEIYIRGKKIEKHTE 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + ++ +KP+ ++++ D GR TV D L + R+ +GRLD NT GL++LTNDG L Sbjct: 62 KKVYYILNKPLEVLSSSKDDRGRKTVVD-LINCKERIFPIGRLDYNTSGLIILTNDGELF 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + P + + Y V+ G++ ++ + LLK G+ + GI L +KG + Sbjct: 121 NRIIHPKAEIFKEYYVKVLGEIKENNVELLKNGVELDDGITLPANVRILRREKGKTELL- 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V +REG+NR+++++ + N V L R G LG L G RE++ Sbjct: 180 VAIREGRNRQVRRMMDKINHPVITLRREKIGNLSLGNLKLGEYRELT 226 >gi|289578329|ref|YP_003476956.1| pseudouridine synthase [Thermoanaerobacter italicus Ab9] gi|289528042|gb|ADD02394.1| pseudouridine synthase [Thermoanaerobacter italicus Ab9] Length = 236 Score = 122 bits (305), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 77/226 (34%), Positives = 119/226 (52%), Gaps = 2/226 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A GIASRR+ E I Q RVKVNG ++ V + D IE D +R+ ++ Sbjct: 3 RLQKYLAECGIASRRKCEEYILQGRVKVNGKEVKELGVKINPDVDIIEFDDKIVRREKKK 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G +T+ D GR TV D L + R+ VGRLD +T GLLLLTNDG +A + Sbjct: 63 VYIMLNKPTGYITSVKDQFGRPTVMD-LVKVKERIYPVGRLDYDTSGLLLLTNDGEIANI 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + ++ Y + G Q++L + G++I ++ + K + V + + Sbjct: 122 LMHPRHEIVKTYIAKIKGIPTQEELERFRNGLLIGDYLTSKAEIEILAVKNGTSVVEIKI 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 EGKNR+++++ E V L R G L L G R +++K Sbjct: 182 HEGKNRQVRRMCEAIGHPVISLTRTKIGDLSLEGLKPGKWRYLTQK 227 >gi|254425390|ref|ZP_05039108.1| conserved hypothetical protein [Synechococcus sp. PCC 7335] gi|196192879|gb|EDX87843.1| conserved hypothetical protein [Synechococcus sp. PCC 7335] Length = 223 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 77/210 (36%), Positives = 109/210 (51%), Gaps = 4/210 (1%) Query: 34 MIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 MI RV VNG + E +S D I VDGV + + +L HKP G+V+T DP Sbjct: 1 MILSGRVTVNGEVAELGQRADVSHDQICVDGVEIGGPPQAAYFLLHKPRGVVSTCHDPRQ 60 Query: 94 RSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 R TV D L S F R + VGRLD ++ G L+LTNDG +L P Q +VY+V+ Sbjct: 61 RKTVLDLLDSAFQRREGIHPVGRLDADSTGALILTNDGDFTYLLTHPRHQMSKVYQVKVR 120 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 G QD L ++G++I G +V+ L + + + L+EG+NR+I++V E Sbjct: 121 GIPSQDTLRQWREGVIIDGRKTLPARVSLLKSHSADGTLLQIDLKEGRNRQIRRVAEMLG 180 Query: 210 WKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V L R G LG L G R +++K Sbjct: 181 HPVTALHRTKIGSLSLGNLACGRYRSLTEK 210 >gi|311899116|dbj|BAJ31524.1| putative ribosomal large subunit pseudouridine synthase B [Kitasatospora setae KM-6054] Length = 428 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 80/227 (35%), Positives = 126/227 (55%), Gaps = 6/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+ARAG+ SRR E +IAQ RV VNG +LE+ D I+VDG+ + A + Sbjct: 192 ERLQKVLARAGMGSRRACEELIAQGRVDVNGETVLEQGRRVDPVKDEIKVDGLTV--ATQ 249 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L+ +KP G+V+T DP+GR + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 250 SYLFFALNKPAGVVSTMEDPEGRQCLGDYVTNRETRLFHVGRLDTETEGIILLTNHGELA 309 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P + Y G + +D L KG+ ++ G D + + G N V Sbjct: 310 HRLTHPKYGVTKTYLAAIQGPLPRDLGKTLAKGVELEDGWARAD-SFKVISNLGKNYLVE 368 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V L EG+ ++++ + V++L+R ++GP LG +G R ++ Sbjct: 369 VTLHEGRKHIVRRLLAEVGFPVDKLVRTAFGPITLGDQKSGWLRRLT 415 >gi|303248052|ref|ZP_07334318.1| RNA-binding S4 domain protein [Desulfovibrio fructosovorans JJ] gi|302490609|gb|EFL50514.1| RNA-binding S4 domain protein [Desulfovibrio fructosovorans JJ] Length = 267 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 83/248 (33%), Positives = 132/248 (53%), Gaps = 14/248 (5%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDH 59 M D N V R++K +A AG+ SRR+ + +IA RV V+G ++ + + Sbjct: 1 MTDDNGV-------RLNKALAEAGVCSRRQADALIAAGRVAVDGSVVTELGRKIDPARSR 53 Query: 60 IEVDGVPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLD 115 + VDG + K + T + HK G VTT DP+GR TVFD LP + R+ SVGRLD Sbjct: 54 LSVDGKDVVKPDTAGTLTLMLHKKPGCVTTARDPEGRPTVFDALPDPYRKRRLFSVGRLD 113 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGD 174 +EGLLLLT DG LA L P + Y V G V + + + +G+ + +G Sbjct: 114 FFSEGLLLLTTDGELAYRLAHPRWHAPKRYLVTVRGHVGPEAIEAMGRGMRLAEGEPLAP 173 Query: 175 MQVTLDTQKGSNAWV-TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + + + ++ +V + LR+G NR+++++ V +L+R++ GP +LG L G Sbjct: 174 VAARIVKRLAADRFVLEMELRQGINRQVRRMCRDLGLTVLKLVRVAQGPLELGGLAPGKC 233 Query: 234 REVSKKIL 241 RE++ + L Sbjct: 234 RELAGEEL 241 >gi|108759403|ref|YP_632021.1| ribosomal large subunit pseudouridine synthase B [Myxococcus xanthus DK 1622] gi|108463283|gb|ABF88468.1| ribosomal large subunit pseudouridine synthase B [Myxococcus xanthus DK 1622] Length = 745 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 75/208 (36%), Positives = 109/208 (52%), Gaps = 1/208 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +ARAG+ASRR E +I RV VN + V TD + VDG + + Sbjct: 4 ERLQKYLARAGVASRRHAEELITAGRVAVNNKTVTELGSRVEPGTDLVTVDGTLVTPPDE 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +L +KP+G+VTT SDP GR TV + + R+ VGRLD + EG LL T+DG LA Sbjct: 64 SSYFLLYKPVGVVTTLSDPQGRPTVANYVEETGKRLFPVGRLDYDAEGALLFTDDGALAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS Q R Y + G D L+ L+ G+ ++ + V++ N W+ + Sbjct: 124 KLTHPSFQVPRTYLAKVKGAPDTATLDKLRGGVRLEDGMATPVSVSVFEAAERNTWLKIV 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISY 220 + EG+ IK++ V RL R SY Sbjct: 184 VAEGRPHLIKRLCAAVGHPVVRLFRPSY 211 >gi|170761840|ref|YP_001787134.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A3 str. Loch Maree] gi|169408829|gb|ACA57240.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A3 str. Loch Maree] Length = 236 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 77/229 (33%), Positives = 124/229 (54%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I + RV+VNGI ++ ++S D I+VDG + E Sbjct: 3 ERLQKYMASCGVASRRKCEDIILEGRVEVNGIKIKELGTKIISGKDIIKVDGNIIEPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G V T D GR T+ D L + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKGRKTILD-LVKVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVT 190 + P + ++ Y+ + G + +D + L KKGI I Y TL+ K + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGD--YITAPATLEILKINKDTSEII 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EGKNR+++++ + V L RIS G L G R ++KK Sbjct: 180 IKIHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKSDLKLGEWRYLTKK 228 >gi|296117982|ref|ZP_06836565.1| RNA pseudouridylate synthase [Corynebacterium ammoniagenes DSM 20306] gi|295969213|gb|EFG82455.1| RNA pseudouridylate synthase [Corynebacterium ammoniagenes DSM 20306] Length = 308 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 81/240 (33%), Positives = 128/240 (53%), Gaps = 6/240 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIE 61 +K+ N +R+ KV+A+AG+ASRR E +I RV+VNG +++R V V + D I Sbjct: 57 EKSTQNPNTEGERLQKVLAKAGVASRRHAEVLIDAGRVEVNGKIIKRQGVRVNPNADVIR 116 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINT 118 VDGV + E ++ +KP G+ +T D GR V D + + R+ VGRLD +T Sbjct: 117 VDGVRVNVNEDHEYFILNKPRGVQSTMQDDMGRPCVGDMVAEKTASGQRLFHVGRLDADT 176 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQV 177 EGLL+LTNDG LA L P + + Y G+ D+ + LK GI + G+ D Sbjct: 177 EGLLILTNDGELANRLMHPKYEVSKTYLATVLGEADKSLVRTLKDGIELDDGMANADFVQ 236 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +D +G + + + L EG+ ++++ + + V RL+R QLG + G R ++ Sbjct: 237 IVDKNQGM-SLIRLELHEGRKHIVRRMLKAAGYPVQRLVRTKIHTVQLGDMKPGGIRALN 295 >gi|315635454|ref|ZP_07890720.1| RNA pseudouridine synthase [Arcobacter butzleri JV22] gi|315480212|gb|EFU70879.1| RNA pseudouridine synthase [Arcobacter butzleri JV22] Length = 275 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 129/246 (52%), Gaps = 20/246 (8%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 F R++K ++ SRRE +++I + +++VN ++ A V STD +E+ G L K Sbjct: 17 FELIRLNKFLSHNSNYSRREADKLIEEGKIRVNNKVVTDLATKVKSTDKVEI-GKKLIKE 75 Query: 71 ERTRLW---LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E+ +L+ +Y+KP G + + DP GR T++D L + +SVGRLD ++EGLLLL++ Sbjct: 76 EKNKLYTVIVYNKPKGEIVSKKDPQGRKTIYDGLEHKYKHFLSVGRLDYSSEGLLLLSDS 135 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--------- 178 + L + RVY+++ +G + ++ GI I+ G + T Sbjct: 136 VDIVNA--LMHSDLERVYKIKLNGVITPAVEQAMQSGITIEDATSGAYKGTKIKSMSFAP 193 Query: 179 -----LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + T ++ + V + EGKNRE+++ F FN V L R+ YG L L G + Sbjct: 194 FLAYDIQTNGTKHSKIKVVINEGKNRELRRFFAHFNLDVLDLKRLEYGGISLNNLPTGKS 253 Query: 234 REVSKK 239 R ++K+ Sbjct: 254 RYLTKE 259 >gi|114566930|ref|YP_754084.1| ribosomal large subunit pseudouridine synthaseB [Syntrophomonas wolfei subsp. wolfei str. Goettingen] gi|114337865|gb|ABI68713.1| ribosomal large subunit pseudouridine synthase B [Syntrophomonas wolfei subsp. wolfei str. Goettingen] Length = 239 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 69/205 (33%), Positives = 115/205 (56%), Gaps = 1/205 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A +GI+SRR+ ER+I Q +VKVN + A + D +E G + + ++ Sbjct: 2 RLAKYLAESGISSRRQAERLITQGKVKVNDKTITELAFTLKPGDRVEFAGKIIEQTDKIY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L HKP G +++ +DP GR V D L ++ +RV VGRLD +TEGLLLL+NDG + ++ Sbjct: 62 LLL-HKPAGYISSLADPQGRPRVIDLLSAVNTRVFPVGRLDYDTEGLLLLSNDGEFSNLM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y G V D + L++G+ ++ +V L + K + + + + Sbjct: 121 THPRYLIPKKYEAWVQGLVKPDTIRQLEQGVALEDGITAPARVRLLSSKKGQSLLELEIH 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRIS 219 EGK R+IK++ +V +L R + Sbjct: 181 EGKKRQIKRMCLAVGHRVTKLKRTA 205 >gi|157736321|ref|YP_001489004.1| ribosomal large subunit pseudouridine synthase B [Arcobacter butzleri RM4018] gi|157698175|gb|ABV66335.1| ribosomal large subunit pseudouridine synthase B [Arcobacter butzleri RM4018] Length = 275 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 129/246 (52%), Gaps = 20/246 (8%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 F R++K ++ SRRE +++I + +++VN ++ A V STD +E+ G L K Sbjct: 17 FELIRLNKFLSHNSNYSRREADKLIEEGKIRVNNKVVTDLATKVKSTDKVEI-GKKLIKE 75 Query: 71 ERTRLW---LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E+ +L+ +Y+KP G + + DP GR T++D L + +SVGRLD ++EGLLLL++ Sbjct: 76 EKNKLYTVIVYNKPKGEIVSKKDPQGRKTIYDGLEHKYKHFLSVGRLDYSSEGLLLLSDS 135 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--------- 178 + L + RVY+++ +G + ++ GI I+ G + T Sbjct: 136 VDIVNA--LMHSDLERVYKIKLNGLITPAVEQAMQSGITIEDATSGAYKGTKIKSMSFAP 193 Query: 179 -----LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + T ++ + V + EGKNRE+++ F FN V L R+ YG L L G + Sbjct: 194 FLAYDIQTNGTKHSKIKVVINEGKNRELRRFFAHFNLDVLDLKRLEYGGISLNNLPTGKS 253 Query: 234 REVSKK 239 R ++K+ Sbjct: 254 RYLTKE 259 >gi|72161610|ref|YP_289267.1| pseudouridine synthase, Rsu [Thermobifida fusca YX] gi|71915342|gb|AAZ55244.1| pseudouridine synthase, Rsu [Thermobifida fusca YX] Length = 375 Score = 121 bits (304), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 79/234 (33%), Positives = 126/234 (53%), Gaps = 6/234 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A+AG+ASRR E +IA RV V+G ++ R V I VDG+ + ++ Sbjct: 136 RLQKALAQAGVASRRACEELIAAGRVSVDGQIVRRFGARVDPEKSEIRVDGMRVVTSQNL 195 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD---NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R + +KP G+V+T DP+GR T+ D + I R+ VGRLD +TEGL+LLTNDG L Sbjct: 196 RYYALNKPRGVVSTMFDPEGRPTIGDYAAQIGPIEERLFHVGRLDTDTEGLILLTNDGEL 255 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + + Y + G V +D + ++KG+ + G D +D + A V Sbjct: 256 ANRLTHPRYKVTKTYLAKVPGPVPRDVIRQIRKGVELDDGFVKVDSFRVIDNIE-PKALV 314 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L EG+ ++++ + V+ L R GP L L +G+ R ++ + + E Sbjct: 315 EIRLHEGRKHIVRRLMKAVGHPVSDLARTQIGPVGLNNLKSGTIRALTSQEVSE 368 >gi|313887215|ref|ZP_07820911.1| pseudouridylate synthase [Porphyromonas asaccharolytica PR426713P-I] gi|312923444|gb|EFR34257.1| pseudouridylate synthase [Porphyromonas asaccharolytica PR426713P-I] Length = 470 Score = 121 bits (303), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 83/275 (30%), Positives = 141/275 (51%), Gaps = 6/275 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E P R++K ++ +G+ SRR ++ IA RVKVNG ++ V+ TD + VD P+ Sbjct: 199 EAGEPIRLNKFLSNSGLCSRRMADQYIAAGRVKVNGAVISELGSQVLPTDQVMVDDKPVS 258 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 + + L +KP VTT +DP+GR TV D + + + R+ +GRLD NT G+LLLTND Sbjct: 259 LEAKVYVLL-NKPKNCVTTLTDPEGRRTVMDLVHNACTERIYPIGRLDRNTTGILLLTND 317 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G LA L P+ + ++Y V +V + + ++ G ++ G + D + Q ++ Sbjct: 318 GDLAVRLMHPAFRKKKIYEVALDKEVTVEHMQMIAHGFELEDGEIHADAISYITGQ--TH 375 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE-QL 245 V + + G+NR ++++FE ++V L R+ Y L G R ++ + +R ++ Sbjct: 376 DKVGIEIHSGRNRIVRRIFEHLGYRVVHLDRVYYAGLTKKDLPRGRWRYLTPEEVRYLRM 435 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPD 280 G E+ V +Y D P E+ D Sbjct: 436 GVKEQEDNGVAPTTKVYHKHQETPDHPFASEEIED 470 >gi|307301432|ref|ZP_07581192.1| pseudouridine synthase [Sinorhizobium meliloti BL225C] gi|306903489|gb|EFN34077.1| pseudouridine synthase [Sinorhizobium meliloti BL225C] Length = 262 Score = 121 bits (303), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 79/225 (35%), Positives = 126/225 (56%), Gaps = 3/225 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 +++ +++ G SR + E++IA+ RV V G + + V + D I VDG + R Sbjct: 27 LARALSKLGYCSRTQAEKLIAEGRVSVAGRKITDLSHWVDIEADRIAVDGTVIAAQARVY 86 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 L L +KP GLVTT DP+GR TVF L ++ +S VGRLD +EGLLL TND LA+ Sbjct: 87 LML-NKPRGLVTTRDDPEGRPTVFSCLDNVDVPSLSPVGRLDKASEGLLLFTNDTVLAQR 145 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T +VY V+ G + + +G+ G ++V N+W+ V L Sbjct: 146 LLDPETHLGKVYHVQVRGIFGEAMAARMVEGVTEGGELLRALRVERLKSGDRNSWIEVEL 205 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EG+NR+I+++ + ++ RL+R+S G +LG L G++R +++ Sbjct: 206 DEGRNRQIRRMLDVLGFECLRLLRVSIGEIRLGDLPKGASRPLTE 250 >gi|238022208|ref|ZP_04602634.1| hypothetical protein GCWU000324_02115 [Kingella oralis ATCC 51147] gi|237866822|gb|EEP67864.1| hypothetical protein GCWU000324_02115 [Kingella oralis ATCC 51147] Length = 234 Score = 121 bits (303), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 71/199 (35%), Positives = 115/199 (57%), Gaps = 5/199 (2%) Query: 31 VERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAER-TRLWLYHKPIGLVTT 87 +E I V+VNG + V D + V G + L+ A+R R+ LY+K G + + Sbjct: 1 MEEWIGNGWVQVNGKTAQLGD-KVSPDDQVTVKGSAIKLKWADRLPRILLYYKQEGEIVS 59 Query: 88 HSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 DP GR +VFD LP + SR +++GRLDINT GLL+LT G L + P + R Y Sbjct: 60 RDDPQGRVSVFDRLPQAASSRWVAIGRLDINTSGLLILTTSGELVQRFAHPKFEVQREYA 119 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 VR G+V ++++ L +GI+++ +++ +G+N W V ++EG+NRE++++FE Sbjct: 120 VRVLGEVSREQMQQLTQGIMLEDGLAQVERISEQGGEGANKWYNVVIKEGRNREVRRIFE 179 Query: 207 FFNWKVNRLIRISYGPFQL 225 V+RL+R+ +GP L Sbjct: 180 HIGLTVSRLVRVGFGPIGL 198 >gi|227431698|ref|ZP_03913728.1| ribosomal large subunit pseudouridine synthase B [Leuconostoc mesenteroides subsp. cremoris ATCC 19254] gi|227352522|gb|EEJ42718.1| ribosomal large subunit pseudouridine synthase B [Leuconostoc mesenteroides subsp. cremoris ATCC 19254] Length = 224 Score = 121 bits (303), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 73/208 (35%), Positives = 114/208 (54%), Gaps = 6/208 (2%) Query: 34 MIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 MI RV+VNG + V + D ++VDG P+ E+ +L +KP G+VTT+ D G Sbjct: 1 MIINGRVQVNGQTVTELGTKVTANDKVQVDGAPIEGREKLVYYLLNKPRGVVTTNDDEKG 60 Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 R TV D L + RV VGRLD +T G+LLLTNDG +A L P T+ + Y + G Sbjct: 61 RRTVLDILEDVDQRVYPVGRLDYDTTGVLLLTNDGVVANQLMHPKTKVDKTYVAKVEGIA 120 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLD----TQKGSNAWVTVGLREGKNREIKKVFEFFN 209 ++KL LK+G+V++G +V+++ T++ S +T+ EG+N ++K + Sbjct: 121 TEEKLAPLKRGVVLKGRKTAPARVSIERIEPTKRTSMVRLTI--HEGRNHQVKNMLAKVG 178 Query: 210 WKVNRLIRISYGPFQLGTLLAGSTREVS 237 V +L R Y F + L G R+++ Sbjct: 179 LPVQKLKREQYAFFDVTGLQPGEYRKLT 206 >gi|227503690|ref|ZP_03933739.1| pseudouridine synthase B [Corynebacterium accolens ATCC 49725] gi|227075726|gb|EEI13689.1| pseudouridine synthase B [Corynebacterium accolens ATCC 49725] Length = 303 Score = 121 bits (303), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 81/229 (35%), Positives = 125/229 (54%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ KV+A+AG+ASRR E +I RV+VNG ++ + V V + D I VDGV + E Sbjct: 63 ERLQKVLAKAGVASRRHAEILIDAGRVEVNGNVILKQGVKVNPAVDVIRVDGVRVNVNED 122 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGG 129 ++ +KP G+ +T SD GR V D + + R+ VGRLD +TEGLL+LTNDG Sbjct: 123 QEYFILNKPRGMQSTMSDDLGRPCVGDVVSEKVASGQRLFHVGRLDADTEGLLILTNDGE 182 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAW 188 LA L P + + Y G+ D + LK+GI ++ G+ D +D +G + Sbjct: 183 LANRLMHPKYEVKKTYLATVLGEADNKLVRQLKEGIELEDGLAKADFVQVVDKNQGF-SL 241 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V V L EG+ ++++ + + V RL+R QLG + G R ++ Sbjct: 242 VRVELHEGRKHIVRRLLKEAGYPVQRLVRTKLHTVQLGDMKPGGLRALN 290 >gi|307316843|ref|ZP_07596285.1| pseudouridine synthase [Sinorhizobium meliloti AK83] gi|306897465|gb|EFN28209.1| pseudouridine synthase [Sinorhizobium meliloti AK83] Length = 262 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 79/225 (35%), Positives = 126/225 (56%), Gaps = 3/225 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 +++ +++ G SR + E++IA+ RV V G + + V + D I VDG + R Sbjct: 27 LARALSKLGYCSRTQAEKLIAEGRVSVAGRKITDLSHWVDIEVDRIAVDGTVIAAQARVY 86 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 L L +KP GLVTT DP+GR TVF L ++ +S VGRLD +EGLLL TND LA+ Sbjct: 87 LML-NKPRGLVTTRDDPEGRPTVFSCLDNVDVPSLSPVGRLDKASEGLLLFTNDTVLAQR 145 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T +VY V+ G + + +G+ G ++V N+W+ V L Sbjct: 146 LLDPETHLGKVYHVQVRGIFGEAMAARMVEGVTEGGELLRALRVERLKSGDRNSWIEVEL 205 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EG+NR+I+++ + ++ RL+R+S G +LG L G++R +++ Sbjct: 206 DEGRNRQIRRMLDVLGFECLRLLRVSIGEIRLGDLPKGASRPLTE 250 >gi|152989816|ref|YP_001355538.1| RNA pseudouridine synthase [Nitratiruptor sp. SB155-2] gi|151421677|dbj|BAF69181.1| RNA pseudouridine synthase [Nitratiruptor sp. SB155-2] Length = 260 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 79/242 (32%), Positives = 125/242 (51%), Gaps = 22/242 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE +R+I + VKVN +++ +V D + V G ++ Sbjct: 2 RLNKYISHNTTYSRREADRLIQEGFVKVNRQIVKEPFYDVQEGDKVFVKGKLIKPKVDYT 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +Y+KP G + T D GR T++D+LP F+ I VGRLD +EGLLLLT+ +A+ L Sbjct: 62 VIVYNKPKGELVTKKDDRGRKTIYDSLPKKFAHYIPVGRLDFASEGLLLLTDSPKIAQAL 121 Query: 135 ---ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT------------- 178 ++P RVY V+ G+V +++G+ ++ G + + Sbjct: 122 MESDIP-----RVYNVKIKGEVTPKMEEAMREGLELEDATAGGHEKSRVTSMKFAPFFAY 176 Query: 179 -LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +D + + + V L EGKNREI++ F F V L R+ YG +L L G TR +S Sbjct: 177 RIDKNAPTFSKLKVALTEGKNREIRRFFAHFGKDVVDLKRVEYGWIKLNALPTGKTRYLS 236 Query: 238 KK 239 KK Sbjct: 237 KK 238 >gi|16263775|ref|NP_436567.1| ribosomal large subunit pseudouridine synthase B [Sinorhizobium meliloti 1021] gi|15139899|emb|CAC48427.1| ribosomal large subunit pseudouridine synthase B [Sinorhizobium meliloti 1021] Length = 320 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 78/225 (34%), Positives = 126/225 (56%), Gaps = 3/225 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 +++ +++ G SR + E++IA+ RV V G + + V + D I VDG + R Sbjct: 85 LARALSKLGYCSRTQAEKLIAEGRVSVAGRKITDLSHWVDIEADRIAVDGTVIAAQARVY 144 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 L L +KP GLVTT DP+GR TVF L ++ +S VGRLD +EGLLL TND LA+ Sbjct: 145 LML-NKPRGLVTTRDDPEGRPTVFSCLDNVDVPSLSPVGRLDKASEGLLLFTNDTVLAQR 203 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T +VY V+ G + + +G+ G ++V N+W+ + L Sbjct: 204 LLDPETHLGKVYHVQVRGIFGEAMAARMVEGVTEGGELLRALRVERLKGGDRNSWIEIEL 263 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EG+NR+I+++ + ++ RL+R+S G +LG L G++R +++ Sbjct: 264 DEGRNRQIRRMLDVLGFECLRLLRVSIGEIRLGDLPKGASRPLTE 308 >gi|187933805|ref|YP_001885871.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum B str. Eklund 17B] gi|187721958|gb|ACD23179.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum B str. Eklund 17B] Length = 236 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 75/225 (33%), Positives = 117/225 (52%), Gaps = 2/225 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I VKVNG+++ V D +E G + K E Sbjct: 3 ERLQKYMASCGVASRRKCEEIILNGEVKVNGVVITELGTRVNPVEDKVEYKGSLITKEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ D GR TV D L + R+ +GRLD ++ GL+LLTNDG + Sbjct: 63 KVYIILNKPEGYITSAKDEKGRKTVLD-LVKVNERIYPIGRLDYDSSGLILLTNDGDVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y G+V + +++ KGI I G + + + + V V Sbjct: 122 KIIHPREELNKKYIAVVKGKVSKKDIDIFNKGIDIGGYITAPASLEVLSYANEKSTVEVC 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EGKNR+I+K+ N +V L R+S G QL L G RE++ Sbjct: 182 IHEGKNRQIRKMCTAINHEVLSLNRVSIGEIQLKYLKKGEWRELT 226 >gi|116748130|ref|YP_844817.1| pseudouridine synthase [Syntrophobacter fumaroxidans MPOB] gi|116697194|gb|ABK16382.1| ribosomal large subunit pseudouridine synthase B [Syntrophobacter fumaroxidans MPOB] Length = 250 Score = 120 bits (302), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 88/227 (38%), Positives = 124/227 (54%), Gaps = 1/227 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRK 69 T R+ KV+A+AGIASRR E +I Q RV VNGI++ V V D I VD V + Sbjct: 1 MTKVRLQKVLAQAGIASRRGAEEVIRQGRVVVNGIVVTELGVKVDPHADRITVDRVTIAM 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L KP VTT DP GR TVFD +P +R+ VGRLD + EGLLLLTNDG Sbjct: 61 VESRVYLLLFKPRCCVTTARDPQGRKTVFDFVPDAGARLFPVGRLDFDAEGLLLLTNDGL 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L+ P + Y V G L+ L+ G++++ +VT+ + + Sbjct: 121 LANRLQHPRYGVTKTYEVAAMGHPTPAALDRLRTGVMLEEGMTAPAEVTVIGSSPRSTRL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + L +G NR+IK++ E V + R+++GP +LG+L G +R + Sbjct: 181 RIVLHQGWNRQIKRMGEAVGHPVLSIKRVAFGPLKLGSLKPGGSRHL 227 >gi|284053272|ref|ZP_06383482.1| pseudouridine synthase [Arthrospira platensis str. Paraca] gi|291565993|dbj|BAI88265.1| putative pseudouridylate synthase [Arthrospira platensis NIES-39] Length = 257 Score = 120 bits (302), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 78/220 (35%), Positives = 118/220 (53%), Gaps = 6/220 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+I+ G+ASRR E MI RVKVNG D IE+DG L + + Sbjct: 3 ERLQKIISHWGVASRRHAEEMILSGRVKVNGDQAYLGQKADPKCDRIEIDGRALHPSSQP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDG 128 + L +KP+G+V+T ++P GR TV D LP + + VGRLD ++ G LL+TNDG Sbjct: 63 QPLYLLLNKPLGVVSTCAEPQGRKTVLDLLPRQLQVGQGLHPVGRLDTDSTGALLITNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNA 187 L +L P + Y+V G + L ++GI++ G +V + +GS Sbjct: 123 ELTFLLTHPRYHVAKTYQVLVQGCPPESVLEQWRQGILLSGKNTLPAKVRRIGKPRGSQT 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 + V LREG+NR+I++V E + V +L R + GP L + Sbjct: 183 LLEVVLREGRNRQIRRVAEALGYPVVQLHRTAIGPIYLNS 222 >gi|218441222|ref|YP_002379551.1| pseudouridine synthase [Cyanothece sp. PCC 7424] gi|218173950|gb|ACK72683.1| pseudouridine synthase [Cyanothece sp. PCC 7424] Length = 259 Score = 120 bits (302), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 79/217 (36%), Positives = 119/217 (54%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV K++++ GIASRR+ E++I RV++NG + +S D +EVDG ++ R Sbjct: 3 ERVQKILSQWGIASRRQAEKLILAGRVRLNGNIACLGDKADLSQDRLEVDGKIIQPVHRP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 R L +KPIG+V+T DP R TV D LP S + VGRLDIN+ G LLLTNDG Sbjct: 63 RSIYILLNKPIGVVSTCDDPQKRRTVLDLLPKKLSHETGIHPVGRLDINSTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y+V G ++ L ++G+++ G QV + + Sbjct: 123 ELTLRLTHPRYHLPKTYQVWIDGDPGEEILQQWREGVMLMGKKTLPAQVNVIKRYQHQTQ 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V L EGKNR+I+++ + + V +L R + G QL Sbjct: 183 LQVILTEGKNRQIRRIVQQMGFNVLKLHRTAIGLIQL 219 >gi|313888050|ref|ZP_07821728.1| pseudouridine synthase B, ribosomal large subunit [Peptoniphilus harei ACS-146-V-Sch2b] gi|312846005|gb|EFR33388.1| pseudouridine synthase B, ribosomal large subunit [Peptoniphilus harei ACS-146-V-Sch2b] Length = 235 Score = 120 bits (302), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 77/226 (34%), Positives = 126/226 (55%), Gaps = 2/226 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A G ASRR+ E I + VKVN ++ + + D + +DG L + Sbjct: 2 RLQKYMAHCGAASRRKCEEFIQEGLVKVNDKVVTELGTKIDPNVDRVYLDGKRLTLEGKK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KPIG+VT+ SD R TV D +P + RV VGRLDI+T GL+ LTNDG LA + Sbjct: 62 VYMILNKPIGVVTSASDEKDRPTVTDLVPDDY-RVYPVGRLDIDTTGLVFLTNDGQLANI 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y V G + +L++L++G+ I+ + V + ++ + + + Sbjct: 121 MMHPRYKIGKKYIVTVDGTPNARELSILREGLDIRDLKTSPANVRILKSFKQDSILEIEI 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 EG+N ++K++F++ KV +L RIS G QL L G+ R +S+K Sbjct: 181 FEGQNHQVKRMFDYIGHKVKKLKRISIGEIQLLDLEPGNYRYLSEK 226 >gi|84496363|ref|ZP_00995217.1| pseudouridine synthase, Rsu [Janibacter sp. HTCC2649] gi|84383131|gb|EAP99012.1| pseudouridine synthase, Rsu [Janibacter sp. HTCC2649] Length = 306 Score = 120 bits (302), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 83/226 (36%), Positives = 125/226 (55%), Gaps = 4/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K++A AG+ SRR E MI + RV+V+G ++ V + S + VDGV + E TR Sbjct: 71 RLQKLLASAGVGSRRVCENMITEGRVEVDGQIVTELGVRINSEQVVHVDGVRVTLDE-TR 129 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++L ++KP+ +VT+ +D GR + D R+ VGRLD +TEGLLLLTNDG LA Sbjct: 130 VYLAFNKPLNVVTSMNDDLGRIDIGDYFGDRKERLFHVGRLDSDTEGLLLLTNDGDLAHR 189 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L+ P L+ Y + G V +D L++GI ++ G D +D+Q G A V V Sbjct: 190 LQHPKYGVLKTYLAQIRGPVPRDLGKKLREGIELEDGPVKVDSFRVVDSQPG-KAIVEVI 248 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L EG+ ++++ V L+R GP +LG G R ++K Sbjct: 249 LHEGRKHIVRRMLAEAGHPVLSLVRTQIGPIRLGDTKPGKFRRLTK 294 >gi|255525211|ref|ZP_05392153.1| pseudouridine synthase [Clostridium carboxidivorans P7] gi|255511074|gb|EET87372.1| pseudouridine synthase [Clostridium carboxidivorans P7] Length = 234 Score = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 78/228 (34%), Positives = 123/228 (53%), Gaps = 4/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +A GIASRR+ E +I Q RVKVNG ++ V + D + +DG L K E+ Sbjct: 3 ERLQKYMAACGIASRRKCEEIILQARVKVNGKIVNELGVKIDEEKDLVTLDG-KLIKKEK 61 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++++ +KP G V+T D GR T+ D L + R+ +GRLD +T GL+LLTNDG + Sbjct: 62 NKVYIALNKPKGYVSTVKDERGRKTILD-LVDVTERIYPIGRLDYDTSGLILLTNDGDIY 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + ++Y G ++ + + GI I G + + + V + Sbjct: 121 NKIIHPKQEKNKIYIALIKGIPTENDIKKFEIGINIDGYVTAPAKFKIIKKFKDYCEVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+NR+I+K+ +F N +V L RI G +LG L G R +S K Sbjct: 181 IIHEGRNRQIRKMCDFINHQVLELKRIQIGDIKLGNLPLGKWRYLSNK 228 >gi|167751640|ref|ZP_02423767.1| hypothetical protein EUBSIR_02645 [Eubacterium siraeum DSM 15702] gi|167655448|gb|EDR99577.1| hypothetical protein EUBSIR_02645 [Eubacterium siraeum DSM 15702] Length = 251 Score = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 81/218 (37%), Positives = 113/218 (51%), Gaps = 1/218 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-ERT 73 R+ K+IA +G SRR+ E I Q VKVNG + D + V+G + + + Sbjct: 5 RLQKIIADSGYCSRRKAEEYIEQGCVKVNGRPVSLGDKADPKNDIVTVNGEKIASSGTQL 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +KP G VTT +D GR V D L I RV VGRLD ++EGLL+LTNDG LA Sbjct: 65 RYIKLYKPRGYVTTMADTHGRKIVTDLLDDIDERVYPVGRLDKDSEGLLILTNDGALANA 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + PS + YRV G+V DKL L G+ I V + ++ + + + Sbjct: 125 VMHPSRHIKKRYRVTVRGEVTDDKLTTLASGVKIDTGVTLPCTVAVLAEEENRTVIEFTI 184 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 EGKNR+I+K+ E ++ RL R + G +LG L G Sbjct: 185 AEGKNRQIRKMCEAVKLQIVRLKRNAVGNIKLGMLKPG 222 >gi|295099584|emb|CBK88673.1| ribosomal large subunit pseudouridine synthase B [Eubacterium cylindroides T2-87] Length = 241 Score = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 79/227 (34%), Positives = 117/227 (51%), Gaps = 12/227 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIAR+GI SRR+ E +I + +V VNG L V D IEVDG L + E Sbjct: 2 ERLQKVIARSGICSRRKAEELILEGKVYVNGELCTTLGTKVSGNDEIEVDG-KLLELEDK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +K G + + +D R TV D L I RV +VGRLD +T G+LLLTNDG Sbjct: 61 VYYVINKTKGCICSSNDDRDRRTVLDYL-DIPQRVYTVGRLDYDTSGVLLLTNDGDFCNQ 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ------VTLDTQKGSNA 187 + P + Y V G + QD + LL+KG+ GD Q ++ D + Sbjct: 120 MIHPRYHLPKTYVVNLQGTLTQDDIRLLRKGLKTN---IGDFQPAKVKIISNDVTRDRTI 176 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + + EGKN ++K + E +V +L R+ +G ++ L G R Sbjct: 177 F-ELTIMEGKNHQVKNMMEALGHQVRKLHRVRFGSIEVNDLKPGEYR 222 >gi|115380386|ref|ZP_01467383.1| ribosomal large subunit pseudouridine synthase B [Stigmatella aurantiaca DW4/3-1] gi|310821617|ref|YP_003953975.1| pseudouridine synthase [Stigmatella aurantiaca DW4/3-1] gi|115362608|gb|EAU61846.1| ribosomal large subunit pseudouridine synthase B [Stigmatella aurantiaca DW4/3-1] gi|309394689|gb|ADO72148.1| Pseudouridine synthase [Stigmatella aurantiaca DW4/3-1] Length = 648 Score = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 77/208 (37%), Positives = 108/208 (51%), Gaps = 1/208 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +ARAG+ASRR E +I RV VN + V TD + VDG + E Sbjct: 3 ERLQKYLARAGVASRRHAEELITAGRVMVNNQKVTELGSRVEPGTDLVSVDGELVSLPET 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +L +KP G+VTT SDP GR TV + + R+ VGRLD + EG LL T+DG LA Sbjct: 63 SSYYLLYKPAGVVTTLSDPQGRPTVASYVEATGKRLFPVGRLDYDAEGALLFTDDGTLAH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS Q R Y + G D+ L L+ G+ ++ + V L Q N W+ + Sbjct: 123 KLTHPSFQVPRTYLAKVKGSPDRATLEKLRGGVRLEDGMATPLSVDLFEQAERNTWLKIV 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISY 220 + EG+ IK++ V RL R +Y Sbjct: 183 VAEGRPHLIKRLCAAVGHPVVRLFRPAY 210 >gi|228469771|ref|ZP_04054729.1| ribosomal large subunit pseudouridine synthase B [Porphyromonas uenonis 60-3] gi|228308610|gb|EEK17361.1| ribosomal large subunit pseudouridine synthase B [Porphyromonas uenonis 60-3] Length = 472 Score = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 83/275 (30%), Positives = 141/275 (51%), Gaps = 6/275 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E P R++K ++ +G+ SRR ++ IA RVKVNG ++ V+ TD + VD P+ Sbjct: 201 EAGEPIRLNKFLSNSGLCSRRTADQYIAAGRVKVNGAVVSELGSQVLPTDQVMVDDKPVT 260 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 + + L +KP VTT +DP+GR TV D + + + R+ +GRLD NT G+LLLTND Sbjct: 261 LEAKVYVLL-NKPKNCVTTLTDPEGRRTVMDLVHNACTERIYPIGRLDRNTTGILLLTND 319 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G LA L P+ + ++Y V +V + + ++ G ++ G + D + Q ++ Sbjct: 320 GDLAVRLMHPAFRKKKIYEVALDKEVTVEHMQMIAHGFELEDGEIHADAISYITGQ--TH 377 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE-QL 245 V + + G+NR ++++FE ++V L R+ Y L G R ++ + +R ++ Sbjct: 378 DKVGIEIHSGRNRIVRRIFEHLGYRVVHLDRVYYAGLTKKDLPRGRWRYLTPEEVRYLRM 437 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPD 280 G E+ V +Y D P E+ D Sbjct: 438 GIKEQEDNGVAPTTKVYHKHQETPDHPFSSEEIED 472 >gi|318040247|ref|ZP_07972203.1| 16S rRNA pseudouridylate synthase [Synechococcus sp. CB0101] Length = 241 Score = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 75/229 (32%), Positives = 116/229 (50%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA AG+ SRR E ++ RV VNG E D I +DG PLR A+ Sbjct: 4 ERLQKLIAAAGLGSRRYAETLLRAGRVSVNGRTAELGERADPERDAICIDGEPLRPAQPP 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGGL 130 L +KP G++ + DP+GR V D LP + + VGRLD ++ G LLL+N+G L Sbjct: 64 LALLLNKPAGVMCSCHDPEGRPIVLDLLPPELASGQGLHPVGRLDFHSRGALLLSNNGAL 123 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P Q + YR+ GQ Q L+ +G+ + G+ + + Q+ + Sbjct: 124 TLQLTHPRFQHSKTYRIWVRGQPSQTVLDRWARGVPLDGLPSQPVTLHRLDQEHDATQLQ 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+NR+I++ E V L R++ G +LG L G R + + Sbjct: 184 LVMHEGRNRQIRRTAELLGHPVLDLQRVAIGSIELGELPEGRWRRLDPQ 232 >gi|256027784|ref|ZP_05441618.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. D11] gi|289765737|ref|ZP_06525115.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. D11] gi|289717292|gb|EFD81304.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. D11] Length = 234 Score = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 76/237 (32%), Positives = 130/237 (54%), Gaps = 24/237 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--ER 72 R++K ++ GIASRR V++ I + R+ VNG + +N+ D+I +DG ++ E Sbjct: 2 RINKFLSTLGIASRRAVDKYIEEGRINVNG-NIATTGMNISENDNIFIDGKKIKTDVNEE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP+ ++++ SD GR TV D L R+ +GRLD T GL+LLTNDG L Sbjct: 61 KVYFMLNKPLEVLSSSSDDRGRKTVVD-LIKTDKRIFPIGRLDYMTSGLILLTNDGELFN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV----------IQGICYGDMQVTLDTQ 182 + P ++ + Y V+ G++ ++++ LKKG++ I GI Y + ++ Sbjct: 120 RIVHPKSEIYKKYYVKIFGEIKKEEIAELKKGVLLNDGKTLPAKISGIKYNKNKTSM--- 176 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + +REG+NR+I+++ E F +KV L R G LG L G R+++K+ Sbjct: 177 -------YISIREGRNRQIRRMIEKFGYKVLMLRREKIGELSLGDLEEGKYRKLTKQ 226 >gi|67920373|ref|ZP_00513893.1| Pseudouridine synthase, Rsu [Crocosphaera watsonii WH 8501] gi|67857857|gb|EAM53096.1| Pseudouridine synthase, Rsu [Crocosphaera watsonii WH 8501] Length = 257 Score = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 75/217 (34%), Positives = 118/217 (54%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV K++++ G+ASRR E MI +RVK+NG ++ S D +EVDG ++ +R Sbjct: 3 ERVQKILSQWGVASRRRAEDMILARRVKLNGKIVTLGDKADPSCDRLEVDGKLIQPNKRP 62 Query: 74 RLW--LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 +L L +KP+G+V+T DP RS V D LP ++ + VGRLD N+ G LLLTNDG Sbjct: 63 KLIYILLNKPVGVVSTCDDPQNRSIVLDLLPKKLTQGTGIHPVGRLDFNSSGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y V G ++ L ++G+++ G +V + + Sbjct: 123 DLTLKLTHPRYHLPKTYEVLVKGHPPEETLQQWREGVILMGKKTLPAEVEVIRRSAQQTQ 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V L EG+NR+I+++ E ++V RL R + L Sbjct: 183 LKVVLTEGRNRQIRRIVEQLGFRVLRLHRTAIDSLCL 219 >gi|153004984|ref|YP_001379309.1| pseudouridine synthase [Anaeromyxobacter sp. Fw109-5] gi|152028557|gb|ABS26325.1| pseudouridine synthase [Anaeromyxobacter sp. Fw109-5] Length = 354 Score = 120 bits (300), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 78/229 (34%), Positives = 116/229 (50%), Gaps = 11/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST------DHIEVDGVPLR 68 R+ K +A AG+ASRR+ E +I RVKVN AV V+ + D + VDG + Sbjct: 13 RLQKYLAEAGVASRRKAEELILAGRVKVNA-----RAVTVLGSKVDPARDLVTVDGRLVS 67 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++E +L +KP G VTT SDP+GR T + L + RV SVGRLD + EG +L T+DG Sbjct: 68 RSETRSYYLLYKPPGCVTTASDPEGRPTALEYLRGVKERVFSVGRLDFDAEGAVLFTDDG 127 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P R Y V+ G+ L L G+ ++ ++ + N W Sbjct: 128 ELANRLAHPRYGHRRTYLVKVRGEPPPAALERLVAGVRLEDGPARALEAVPHERAERNVW 187 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + V + EG+ +K++ E +V RL R +G + L G R ++ Sbjct: 188 IRVVVGEGRFHLVKRLCEAVGLQVQRLYRPEFGGITVEGLRPGQFRPLA 236 >gi|306836036|ref|ZP_07469026.1| ribosomal large subunit pseudouridine synthase B [Corynebacterium accolens ATCC 49726] gi|304568063|gb|EFM43638.1| ribosomal large subunit pseudouridine synthase B [Corynebacterium accolens ATCC 49726] Length = 303 Score = 120 bits (300), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 81/229 (35%), Positives = 125/229 (54%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ KV+A+AG+ASRR E +I RV+VNG ++ + V V + D I VDGV + E Sbjct: 63 ERLQKVLAKAGVASRRHAEILIDGGRVEVNGNVVLKQGVKVNPAVDVIRVDGVRVNVNED 122 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGG 129 ++ +KP G+ +T SD GR V D + + R+ VGRLD +TEGLL+LTNDG Sbjct: 123 QEYFILNKPRGMQSTMSDDLGRPCVGDVVSEKVASGQRLFHVGRLDADTEGLLILTNDGE 182 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAW 188 LA L P + + Y G+ D + LK+GI ++ G+ D +D +G + Sbjct: 183 LANRLMHPKYEVKKTYLATVLGEADNKLVRQLKEGIELEDGLAKADFVQVVDKNQGF-SL 241 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V V L EG+ ++++ + + V RL+R QLG + G R ++ Sbjct: 242 VRVELHEGRKHIVRRLLKEAGYPVQRLVRTKLHTVQLGDMKPGGLRALN 290 >gi|317153278|ref|YP_004121326.1| pseudouridine synthase [Desulfovibrio aespoeensis Aspo-2] gi|316943529|gb|ADU62580.1| pseudouridine synthase [Desulfovibrio aespoeensis Aspo-2] Length = 251 Score = 120 bits (300), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 79/229 (34%), Positives = 118/229 (51%), Gaps = 6/229 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVP--LRKAE 71 R++K IA+ G+ SRR + ++ RV VNG + + V + DH+ VDG P L + Sbjct: 9 RLNKFIAQCGVTSRRGADDLVFGGRVAVNGEKADSPGIKVDPARDHVTVDGRPVVLPGSG 68 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGG 129 + HKP+ +VTT DP GR+TV D LP + R VGRLD +EGLLLLT DG Sbjct: 69 GDITIMLHKPVEIVTTARDPQGRTTVLDLLPPEIVELRPFPVGRLDYYSEGLLLLTTDGE 128 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAW 188 L L P +VY V G V + + ++ G+ ++ G L + Sbjct: 129 LCHRLTHPKWHLPKVYEVTIRGSVPEKAIRTMQSGMTLKAGDRLAPADAILHPPVAGSQV 188 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + L +G NR+I+++ E + RL R+ GP +LG L G RE++ Sbjct: 189 LEITLIQGLNRQIRRMCEELGLTILRLHRVKQGPMELGNLKRGQWRELT 237 >gi|194477231|ref|YP_002049410.1| Pseudouridine synthase, Rsu [Paulinella chromatophora] gi|171192238|gb|ACB43200.1| Pseudouridine synthase, Rsu [Paulinella chromatophora] Length = 242 Score = 120 bits (300), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 72/239 (30%), Positives = 128/239 (53%), Gaps = 3/239 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ K+IA +G SRR+ E+++ Q +V+VNG+L + D IE+DG P+R + Sbjct: 4 QRLQKLIAISGFCSRRQAEKLLIQGQVRVNGLLAHLGDRAISHVDTIEIDGKPIRLPDNH 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFS--RVISVGRLDINTEGLLLLTNDGGL 130 L +KP G++++ DP GR T+ D +P SI ++ +GRLD N+ G L+LT DG L Sbjct: 64 VTLLINKPTGVISSCQDPQGRPTILDLIPQSILQNRKLHPIGRLDSNSRGALILTTDGSL 123 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V G+ + + ++GI + +++ + ++ ++ + Sbjct: 124 TMNLSHPRYSHDKAYKVWVEGRPSSSVIKIWQQGIFLDKKMTSRVELKILCKRVTSTLLE 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + ++EG+ R+I++ F V L RI +LG+L G R+++ L L +L Sbjct: 184 IVMKEGRKRQIRRTATFLGHPVIDLQRIGIASIRLGSLPEGRWRKLNSYELSASLFSYL 242 >gi|146282670|ref|YP_001172823.1| pseudouridine synthase [Pseudomonas stutzeri A1501] gi|145570875|gb|ABP79981.1| pseudouridine synthase [Pseudomonas stutzeri A1501] Length = 297 Score = 120 bits (300), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 73/179 (40%), Positives = 106/179 (59%), Gaps = 8/179 (4%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +Y+KP G + T +DP+GR TVFD LP R I++GRLDINT GLLL T DG LA Sbjct: 1 MLIYNKPDGEICTRNDPEGRPTVFDRLPRPKEGRWINIGRLDINTTGLLLFTTDGELANR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L PS + R Y VR G+VD + + LK G++++ + D+Q + G N W Sbjct: 61 LMHPSYEMDREYAVRVRGEVDDEMIERLKTGVMLEDGPARFTDIQEAPGGE-GFNHWYHC 119 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGP-FQLGTLLAGSTREVSK---KILREQLG 246 + EG+NRE+++++E V+RL R+ +GP F L G RE+S+ IL E++G Sbjct: 120 VVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFMTSDLPMGRWREMSQAEVDILSEEVG 178 >gi|237795222|ref|YP_002862774.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum Ba4 str. 657] gi|229261861|gb|ACQ52894.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum Ba4 str. 657] Length = 236 Score = 119 bits (299), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 77/229 (33%), Positives = 124/229 (54%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I + RV+VNGI ++ ++S D I+VDG + E Sbjct: 3 ERLQKYMASCGVASRRKCEDIILEGRVEVNGIKIKELGTKIISGEDIIKVDGNIIEPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G V T D R T+ D L + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKDRKTILD-LVKVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVT 190 + P + ++ Y+ + G + +D + L KKGI I Y TL+ K S + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGD--YITAPATLEILKISKDTSEII 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EGKNR+++++ + V L RIS G L G R ++KK Sbjct: 180 IKIHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKNDLKLGEWRYLTKK 228 >gi|258645939|ref|ZP_05733408.1| ribosomal large subunit pseudouridine synthase B [Dialister invisus DSM 15470] gi|260403308|gb|EEW96855.1| ribosomal large subunit pseudouridine synthase B [Dialister invisus DSM 15470] Length = 239 Score = 119 bits (299), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 77/216 (35%), Positives = 115/216 (53%), Gaps = 6/216 (2%) Query: 14 QRVSKVIARAGIASRREVERMI-AQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K+++ AG+ SRR+ E +I A + ++ E + TD IE G + K E Sbjct: 3 ERLQKILSHAGVCSRRKAEELILAGRVRVNGRVVRELGTEADVCTDKIEALG-EIVKPEP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R +L+HKP ++T+ SDP GR TV D + RV VGRLD ++EGLLL+TNDG L Sbjct: 62 LRYYLFHKPDCVITSVSDPAGRRTVMDYFRRVRERVFPVGRLDYHSEGLLLVTNDGQLDF 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQKGSNAWV 189 +L P + + Y V G+ + ++KG+ I ++ + D +K Sbjct: 122 ILTHPCHEVQKEYEVVVRGKFSEKLAKKMEKGVKIDSGVTAPCEIEVLGYDAEKNKTRLR 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EGKNREI+K+ E F++ V L RI Y L Sbjct: 182 MV-LHEGKNREIRKMMEIFHYPVFELKRIRYSFLTL 216 >gi|291558038|emb|CBL35155.1| ribosomal large subunit pseudouridine synthase B [Eubacterium siraeum V10Sc8a] Length = 251 Score = 119 bits (299), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 81/218 (37%), Positives = 113/218 (51%), Gaps = 1/218 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-ERT 73 R+ K+IA +G SRR+ E I Q VKVNG + D + V+G + + + Sbjct: 5 RLQKIIADSGYCSRRKAEEYIEQGCVKVNGRPVSLGDKADPKNDIVTVNGEKIASSGTQL 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +KP G VTT +D GR V D L I RV VGRLD ++EGLL+LTNDG LA Sbjct: 65 RYIKLYKPRGYVTTMADTHGRKIVTDLLDDIDERVYPVGRLDKDSEGLLILTNDGALANA 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + PS + YRV G+V DKL L G+ I V + ++ + + + Sbjct: 125 VMHPSRHIKKRYRVTVRGEVTDDKLTTLASGVKIDTGVTLPCTVAVLAEEENRTVLEFTI 184 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 EGKNR+I+K+ E ++ RL R + G +LG L G Sbjct: 185 AEGKNRQIRKMCEAVKLQIVRLKRNAVGNIKLGMLKPG 222 >gi|220905836|ref|YP_002481147.1| pseudouridine synthase [Cyanothece sp. PCC 7425] gi|219862447|gb|ACL42786.1| pseudouridine synthase [Cyanothece sp. PCC 7425] Length = 261 Score = 119 bits (299), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 91/250 (36%), Positives = 132/250 (52%), Gaps = 20/250 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH---IEVDGVPLRKA 70 +R+ K++A+ GIASRR+ E+MI RV +NG E A + + H I+VDG L+ Sbjct: 5 ERLQKILAQWGIASRRQAEQMILDGRVWLNG---EPATLGQKADPHCDRIQVDGRTLQSD 61 Query: 71 ERTRLWLY-HKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTND 127 L+L +KP G+++T SDP GR T+ D LP + + VGRLD T G LL+TND Sbjct: 62 RPDLLYLLLYKPTGVISTCSDPQGRPTILDLLPPHYRNLGLHPVGRLDSETTGALLITND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P Q +VY+V G + L + G+++ G QV L + + Sbjct: 122 GWLTHALTHPCHQVSKVYQVWVSGHPPESVLQQWRDGVMLAGRLTLPAQVRLLERTEIPS 181 Query: 188 WVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSK- 238 +T V L EG+NR+I++V + + V L R GP QL TL G R ++ Sbjct: 182 ALTCLEVILWEGRNRQIRRVAKKLGYPVVHLHRTGIGPVQLQATDQPTLAKGHYRHLTPG 241 Query: 239 --KILREQLG 246 + LREQ+G Sbjct: 242 ELEALREQVG 251 >gi|150376249|ref|YP_001312845.1| pseudouridine synthase [Sinorhizobium medicae WSM419] gi|150030796|gb|ABR62912.1| pseudouridine synthase [Sinorhizobium medicae WSM419] Length = 260 Score = 119 bits (299), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 78/229 (34%), Positives = 129/229 (56%), Gaps = 3/229 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 +++ +++ G +R + E++IA+ RV V G + A V + D I VDG + + Sbjct: 25 LARALSKLGYCTRTQAEKLIAEGRVSVGGRRVTDLAHWVDIEADRIAVDGTVIAAQPKVY 84 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 L L +KP GLVTT DP+GR TVF L ++ + +S VGRLD +EGLLL TND LA+ Sbjct: 85 LML-NKPRGLVTTRDDPEGRPTVFTCLETVDAPSLSPVGRLDKASEGLLLFTNDTVLAQR 143 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T + Y V+ G + + + +G+ G +V L N+W+ V L Sbjct: 144 LLDPQTHLGKRYHVQVRGFLGEAMAARMVEGVTEGGELLRAARVALLRGGDRNSWIEVEL 203 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+NR+I+++ + ++ RL+R++ G +LG L G++R +++ +R Sbjct: 204 TEGRNRQIRRMLDALGFECLRLLRVAIGEVRLGDLPKGASRPLAEAEIR 252 >gi|332704127|ref|ZP_08424215.1| pseudouridine synthase Rsu [Desulfovibrio africanus str. Walvis Bay] gi|332554276|gb|EGJ51320.1| pseudouridine synthase Rsu [Desulfovibrio africanus str. Walvis Bay] Length = 254 Score = 119 bits (299), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 80/234 (34%), Positives = 122/234 (52%), Gaps = 11/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLR----- 68 R++K +A AG+ SRR+ + ++ V VNGI + V D + V G P+ Sbjct: 2 RLNKALAMAGVCSRRKADELVFAGNVAVNGITASSPGIQVDPQNDIVTVFGKPVAFLPQE 61 Query: 69 -KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLT 125 +A ++ +KP+ +VTT SDP GR TV + LP RV VGRLD +EGLLLLT Sbjct: 62 GQATEHAYYMLNKPVEVVTTASDPQGRRTVLEILPEEVRKRRVFPVGRLDFFSEGLLLLT 121 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQV-TLDTQK 183 +DG L + P +VY V G+V +DKL +++G+ + +G ++V LD Q Sbjct: 122 SDGDLTYRMTHPRYHLPKVYEVLVRGEVTRDKLEAMRRGMTLAEGEKLAPVEVKVLDKQM 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + L +G NR+I+++ V +L R GP LG L G R ++ Sbjct: 182 LGKTLLELTLIQGINRQIRRMCRDLGLTVLKLRRTCEGPLSLGALPTGKLRTLT 235 >gi|297567379|ref|YP_003686351.1| RNA-binding S4 domain-containing protein [Meiothermus silvanus DSM 9946] gi|296851828|gb|ADH64843.1| RNA-binding S4 domain protein [Meiothermus silvanus DSM 9946] Length = 369 Score = 119 bits (299), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 77/224 (34%), Positives = 123/224 (54%), Gaps = 8/224 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +ARAG+ASRR+ E +I + RV +N + +V +D + +DG +R E+ Sbjct: 2 RLQQFLARAGVASRRKAEDLIREGRVTINDQIAG-IGSSVSESDVVCLDGERVRLPEKKV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + HKP+G+ TT SDP TV+ +P + + VGRLD ++EGLLLLTNDG L L Sbjct: 61 VIALHKPVGVTTTKSDPHAERTVYQLVPDVPG-LHPVGRLDKDSEGLLLLTNDGDLTLKL 119 Query: 135 ELPSTQWLRVYRVRF-HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 P +VYR HG+V + L +G+ + ++ TQ+G+ + + Sbjct: 120 THPRYGVRKVYRAWCKHGRVSEADCRRLVEGVALDDGLAQALEAE-PTQEGAR----IVM 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 EGK RE++++ + V RL+R+ GP +LG L G R ++ Sbjct: 175 AEGKKREVRRMLGRLGYPVTRLVRLQVGPIKLGKLNPGEWRYLT 218 >gi|55980188|ref|YP_143485.1| ribosomal large subunit pseudouridine synthase B [Thermus thermophilus HB8] gi|55771601|dbj|BAD70042.1| ribosomal large subunit pseudouridine synthase B [Thermus thermophilus HB8] Length = 235 Score = 119 bits (299), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 84/231 (36%), Positives = 121/231 (52%), Gaps = 18/231 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+ +ARAG+ASRR+ E +I + RV+VNG + AV V D +EVDG + + Sbjct: 5 RLQAFLARAGVASRRKAEDLIREGRVRVNG----KVAVLGQKVGPEDLVEVDGKRVELPQ 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + HKP G TT DP R TVFD LP I + VGRLD ++EGLLLLTNDG L Sbjct: 61 KRLVLALHKPKGYTTTRHDPHARRTVFDLLPKIPG-LHPVGRLDRDSEGLLLLTNDGDLT 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI---VIQGICYGDMQVTLDTQKGSNAW 188 L P +VYRV G L K + ++ G+ D + + Sbjct: 120 HRLTHPRFGVRKVYRVWTEG-------GTLPKEVCRRLLLGVDLEDGPARALACRPAPGG 172 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + L EG+ RE++++ + + V RL+R+ GP +LG L G R +S++ Sbjct: 173 AVLVLAEGRKREVRRMLQRVGYPVRRLLRLQVGPIRLGDLPPGKWRRLSER 223 >gi|168180387|ref|ZP_02615051.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum NCTC 2916] gi|168184870|ref|ZP_02619534.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum Bf] gi|226949054|ref|YP_002804145.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A2 str. Kyoto] gi|182668845|gb|EDT80823.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum NCTC 2916] gi|182672066|gb|EDT84027.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum Bf] gi|226841110|gb|ACO83776.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A2 str. Kyoto] Length = 236 Score = 119 bits (299), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 77/229 (33%), Positives = 124/229 (54%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I + RV+VNGI ++ ++S D I+VDG + E Sbjct: 3 ERLQKYMASCGVASRRKCEDIILEGRVEVNGIRIKELGTKIISGEDIIKVDGNIIEPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G V T D R T+ D L + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKDRKTILD-LVKVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVT 190 + P + ++ Y+ + G + +D + L KKGI I Y TL+ K S + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGD--YITAPATLEILKISKDTSEII 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EGKNR+++++ + V L RIS G L G R ++KK Sbjct: 180 IKIHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKNDLKLGEWRYLTKK 228 >gi|238064000|ref|ZP_04608709.1| pseudouridine synthase [Micromonospora sp. ATCC 39149] gi|237885811|gb|EEP74639.1| pseudouridine synthase [Micromonospora sp. ATCC 39149] Length = 256 Score = 119 bits (299), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 84/230 (36%), Positives = 124/230 (53%), Gaps = 11/230 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ SRR E +I ++RV VNG + + + D I VDG L+ R Sbjct: 19 ERLQKVLAAAGVGSRRACEDLIFRRRVTVNGKVAQLGDKADPTRDVILVDGERLQADTRL 78 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+V+T +D GR+ + D + + + RV VGRLD ++EGLLLLTNDG LA Sbjct: 79 VYLALNKPRGVVSTMADEKGRAALSDFIGNRVEQRVYHVGRLDADSEGLLLLTNDGDLAH 138 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-----GSNA 187 L PS + Y G + ++ L GI ++ D VT+D+ K G A Sbjct: 139 RLTHPSYGVPKTYLCEVAGPIPRNLGKRLAAGIELE-----DGPVTVDSFKVVDTLGKTA 193 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V + L EG+ ++++ V RL+R S GP +LG L AG TR ++ Sbjct: 194 QVELTLHEGRKHIVRRLLGEVGHPVFRLVRTSIGPIRLGDLRAGRTRRLT 243 >gi|119716723|ref|YP_923688.1| ribosomal large subunit pseudouridine synthase B [Nocardioides sp. JS614] gi|119537384|gb|ABL82001.1| ribosomal large subunit pseudouridine synthase B [Nocardioides sp. JS614] Length = 251 Score = 119 bits (299), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 82/247 (33%), Positives = 134/247 (54%), Gaps = 16/247 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K++A++G+ASRR+ E ++ + V V+G ++ R V T I VDG L Sbjct: 15 RLQKLLAQSGVASRRKCEELMLEGHVVVDGEVVTRLGTKVDPRTAVIRVDGKRLPPVSEK 74 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G+V+T SDP+GR T+ D + R+ VGRLD +T GLLLLTNDG A Sbjct: 75 VYLVLNKPRGVVSTMSDPEGRRTLSDLVADRPERLFHVGRLDTDTSGLLLLTNDGDFAHR 134 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-----GSNAW 188 + PS + + Y G+V + + L ++G+ D VT+ + + + Sbjct: 135 MAHPSYEVDKTYVAEVEGEVYRRTIKQL-----LEGVTLDDGPVTVSKARIVEATAAKSI 189 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V + + EG+NR ++++ + V RL R + GP LG L +G R+++ R++LG Sbjct: 190 VELVIHEGRNRIVRRLLDQVGHPVRRLTRTAIGPVSLGRLPSGELRDLT----RQELG-E 244 Query: 249 LLEEAQV 255 LL+ AQ+ Sbjct: 245 LLDTAQL 251 >gi|170756858|ref|YP_001781361.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum B1 str. Okra] gi|169122070|gb|ACA45906.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum B1 str. Okra] gi|322806051|emb|CBZ03618.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum H04402 065] Length = 236 Score = 119 bits (298), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 76/229 (33%), Positives = 123/229 (53%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I + RV+VNGI ++ ++S D I+VDG + E Sbjct: 3 ERLQKYMASCGVASRRKCEDIILEGRVEVNGIKIKELGTKIISGKDIIKVDGNIIEPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G V T D GR T+ D L + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKGRKTILD-LVKVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVT 190 + P + ++ Y+ + G + +D + L KKGI I Y TL+ K + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGD--YLTAPATLEILKINKDTSEII 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EGKNR+++++ + V L RIS G L G R ++ K Sbjct: 180 IKIHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKSDLKLGEWRYLTNK 228 >gi|237744367|ref|ZP_04574848.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 7_1] gi|229431596|gb|EEO41808.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 7_1] Length = 234 Score = 119 bits (298), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 78/237 (32%), Positives = 131/237 (55%), Gaps = 24/237 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--ER 72 R++K ++ GIASRR V++ I + R+ VNG + +++ D+I +DG ++ E Sbjct: 2 RINKFLSTLGIASRRAVDKYIEEGRITVNG-NIATTGMDISENDNIFIDGKKIKTDVNEE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP+ ++++ SD GR TV D L R+ +GRLD T GL+LLTNDG L Sbjct: 61 KVYFMLNKPLEVLSSSSDDRGRKTVVD-LIKTDKRIFPIGRLDYMTSGLILLTNDGELFN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV----------IQGICYGDMQVTLDTQ 182 + P ++ + Y V+ G++ ++++ LKKG++ I GI Y D Sbjct: 120 RIVHPKSEIYKKYYVKIFGEIKKEEIAELKKGVLLNDGKTLPAKISGIKY-------DKN 172 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 K S + + ++EG+NR+I+++ E F +KV L R G LG L G RE++K+ Sbjct: 173 KTS---MYISIKEGRNRQIRRMIERFGYKVLMLRREKIGELSLGDLEEGKYRELTKQ 226 >gi|194364580|ref|YP_002027190.1| pseudouridine synthase [Stenotrophomonas maltophilia R551-3] gi|194347384|gb|ACF50507.1| pseudouridine synthase [Stenotrophomonas maltophilia R551-3] Length = 268 Score = 119 bits (298), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 82/228 (35%), Positives = 122/228 (53%), Gaps = 5/228 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERTR 74 +++V+++AG+ SR E R IA+ RV+V+G ++ + S IEVDG P+ +R Sbjct: 33 LARVLSKAGVCSRSEAARWIAEGRVRVSGRIVRDPEFPIASPAPPIEVDGQPMAAPQRLY 92 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L +KP G+VTT D GR TV+ + VGRLD +EGLLL +ND A Sbjct: 93 LML-NKPRGVVTTAQDERGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAAH 151 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T + Y V+ D+D L L+ G+ +G + V + AW+ V L Sbjct: 152 LTDPETGPQKTYHVQVDRLPDEDTLAALRAGVEDEGEFLVALAVRVLRSGDKTAWLEVVL 211 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR--EVSKK 239 EG+NR I+++ F+ +V RL+R++ G LG L G R EVS + Sbjct: 212 DEGRNRHIRRLLAAFDLQVLRLVRVAIGELTLGDLGKGQWRVLEVSDQ 259 >gi|291531258|emb|CBK96843.1| ribosomal large subunit pseudouridine synthase B [Eubacterium siraeum 70/3] Length = 251 Score = 119 bits (298), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 81/218 (37%), Positives = 112/218 (51%), Gaps = 1/218 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-AERT 73 R+ K+IA +G SRR+ E I Q VKVNG + D + V+G + + Sbjct: 5 RLQKIIADSGYCSRRKAEEYIEQGCVKVNGRPVSLGDKADPKNDIVTVNGEKIASLGTQL 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +KP G VTT +D GR V D L I RV VGRLD ++EGLL+LTNDG LA Sbjct: 65 RYIKLYKPRGYVTTMADTHGRKIVTDLLDDIDERVYPVGRLDKDSEGLLILTNDGALANA 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + PS + YRV G+V DKL L G+ I V + ++ + + + Sbjct: 125 VMHPSRHIKKRYRVTVRGEVTDDKLTTLASGVKIDTGVTLPCTVAVLAEEENRTVLEFTI 184 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 EGKNR+I+K+ E ++ RL R + G +LG L G Sbjct: 185 AEGKNRQIRKMCEAVKLQIVRLKRNAVGNIKLGMLKPG 222 >gi|210622938|ref|ZP_03293443.1| hypothetical protein CLOHIR_01391 [Clostridium hiranonis DSM 13275] gi|210153904|gb|EEA84910.1| hypothetical protein CLOHIR_01391 [Clostridium hiranonis DSM 13275] Length = 238 Score = 119 bits (298), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 74/226 (32%), Positives = 118/226 (52%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R++K IA G+ASRR+ E +I RV +NG L+ + V T D +EVDGVP+ + E+ Sbjct: 2 RINKYIASCGVASRRKAEELIISGRVTINGELITELSTTVDETKDIVEVDGVPINQEEKK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G +TT D R +V D L + RV VGRLD T GLL+LTNDG L Sbjct: 62 VYILLNKPEGYITTVKDQFDRPSVLDILKDVDERVYPVGRLDYETSGLLILTNDGDLTYK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y +G + ++ + G+ I+ +++ ++ + + + Sbjct: 122 LTHPKHEVEKTYLAMVNGIITPEEKRRFENGLQIEDYTTAKAKLKIVKVNEEKNYSVCKI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++K+ + N V L RI G + L G R ++ Sbjct: 182 TIHEGRNRQVRKMCKAINHPVRNLRRIQMGRINIRGLEVGEYRNLT 227 >gi|158316819|ref|YP_001509327.1| pseudouridine synthase [Frankia sp. EAN1pec] gi|158112224|gb|ABW14421.1| pseudouridine synthase [Frankia sp. EAN1pec] Length = 259 Score = 119 bits (298), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 88/237 (37%), Positives = 126/237 (53%), Gaps = 24/237 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER- 72 R+ KV+A AGI SRR E +I RV+V+G ++ V T IEVDG ER Sbjct: 22 RLQKVLASAGIGSRRHNEELIDSGRVRVDGEVVREQGRRVDPETAVIEVDG------ERV 75 Query: 73 -TRLWLYH----KPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTN 126 TR L H KP G+++ SD GR T+ D L S + VGRLD ++EGLLL+TN Sbjct: 76 VTRTGLVHLALNKPRGVLSAMSDDRGRPTIADFLTEFGSVGLFHVGRLDGDSEGLLLVTN 135 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--- 183 DG LA L PS + Y V G V +D L+ G+ ++ D V++D + Sbjct: 136 DGDLAHRLTHPSFGVPKTYLVEISGPVRRDVPRRLRSGVTLE-----DGPVSVDAARIVD 190 Query: 184 --GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 S + + L EG+ ++++ E V+RL+R+S+GP LGTL AG R +++ Sbjct: 191 VAASRVMMELTLHEGRKHVVRRMMEAVGHPVHRLVRVSFGPVTLGTLRAGRARHLTR 247 >gi|19704091|ref|NP_603653.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium nucleatum subsp. nucleatum ATCC 25586] gi|296328700|ref|ZP_06871217.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium nucleatum subsp. nucleatum ATCC 23726] gi|19714293|gb|AAL94952.1| Ribosomal large subunit pseudouridine synthase B [Fusobacterium nucleatum subsp. nucleatum ATCC 25586] gi|296154299|gb|EFG95100.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium nucleatum subsp. nucleatum ATCC 23726] Length = 234 Score = 119 bits (298), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 77/237 (32%), Positives = 131/237 (55%), Gaps = 24/237 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--ER 72 R++K ++ GIASRR +++ I + R+ VNG +++ D+I +DG ++ E Sbjct: 2 RINKFLSTLGIASRRAIDKYIEEGRITVNG-NTATTGMDINENDNIFIDGKKIKTKIDEE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP+ ++++ SD GR TV D L R+ +GRLD T GL+LLTNDG L Sbjct: 61 KVYFMLNKPLEVLSSSSDDRGRKTVVD-LIKTDKRIFPIGRLDYMTSGLILLTNDGELFN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV----------IQGICYGDMQVTLDTQ 182 + P ++ + Y ++ G++ +++++ LKKG++ I GI Y D Sbjct: 120 RVVHPKSEIYKKYYIKVFGEIKKEEIDELKKGVLLDDGKTLPAKISGIKY-------DKN 172 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 K S + + +REG+NR+I+++ E F +KV L R G LG L G RE++K+ Sbjct: 173 KTS---MYISIREGRNRQIRRMIEKFEYKVLMLRREKIGELSLGDLPEGKYRELTKQ 226 >gi|169334035|ref|ZP_02861228.1| hypothetical protein ANASTE_00428 [Anaerofustis stercorihominis DSM 17244] gi|169258752|gb|EDS72718.1| hypothetical protein ANASTE_00428 [Anaerofustis stercorihominis DSM 17244] Length = 238 Score = 119 bits (298), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 76/225 (33%), Positives = 120/225 (53%), Gaps = 1/225 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +A G+ASRR+ E +I++ +V VNG ++ E + + D ++V G + + Sbjct: 6 RINKYLASCGVASRRKCEEIISRGKVTVNGEVVRELGTIINVEKDLVKVYGKEVSLDTKK 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G+++ G TV D L R+ VGRLD +T GL++LTNDG A Sbjct: 66 VYYMLNKPQGVISASKSKYGEETVVDLLGKKEHRLFPVGRLDKDTTGLIILTNDGDFAYK 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + + Y G+VD L+ LK+G+VI G +V L G N+ V + L Sbjct: 126 LTHPKYEKEKTYEALVKGKVDSKSLDKLKQGVVIDGKKTSRAKVRLVKMIGVNSLVEITL 185 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EG+ R++KK+ E KV +L R LG L G R+++K Sbjct: 186 IEGRKRQVKKMCEKVGHKVIKLNRTMENGLSLGDLEIGEYRKLTK 230 >gi|290890516|ref|ZP_06553591.1| hypothetical protein AWRIB429_0981 [Oenococcus oeni AWRIB429] gi|290479912|gb|EFD88561.1| hypothetical protein AWRIB429_0981 [Oenococcus oeni AWRIB429] Length = 237 Score = 119 bits (298), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 80/228 (35%), Positives = 123/228 (53%), Gaps = 4/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA+AG+ASRR+ E MI +VKVNG ++ + V S D + VD + + E Sbjct: 5 ERLQKRIAQAGVASRRKAEEMIVNGQVKVNGKIITKLGKKVSSDDIVYVDNKKINE-ESF 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G V+++ + +V + L +R+ SVGRLD +T G+LLLTNDG L + Sbjct: 64 EYYLLNKPAGYVSSNRSYPNQPSVIE-LIKTKTRIFSVGRLDQDTTGVLLLTNDGELTQK 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNAWVTV 191 L P + R Y G V++D+L L K I G Y ++ QK + + + Sbjct: 123 LTHPKHRIKRTYAAWVKGIVNEDELEQLTKPIRFDGEIYFPQAARILKVDQKRQESLIEI 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EGKN EIKK+ +F V +L R + +G L G R +S++ Sbjct: 183 TIAEGKNHEIKKILDFIGHPVIKLNRDMFDGITIGNLKKGQYRALSEQ 230 >gi|160947164|ref|ZP_02094331.1| hypothetical protein PEPMIC_01096 [Parvimonas micra ATCC 33270] gi|158446298|gb|EDP23293.1| hypothetical protein PEPMIC_01096 [Parvimonas micra ATCC 33270] Length = 230 Score = 119 bits (297), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 78/225 (34%), Positives = 125/225 (55%), Gaps = 4/225 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +G SRR + ++ Q +V VNG L + +++ D + V+G ++ E + Sbjct: 2 RINKFIANSGYCSRRNADLLLEQGKVFVNGKLATKG-IDISENDEVLVEGKKIKLEEAKK 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KPIG +T V D + S R+ VGRLD ++ GLLLLTNDG LA L Sbjct: 61 YYLLNKPIGYSSTAKAQFQEKIVLDLIDSK-ERIYPVGRLDKDSFGLLLLTNDGDLAFRL 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 PS + Y V+ + + L L GI+++G + + K + V V L+ Sbjct: 120 THPSHNVEKEYIVKVDKTLKESDLKKLSSGIMLEGKITRKARFEMLDFKSN--IVKVFLK 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 EG+NR+I+K+F+ ++ V L RI++G +LG L G+ RE+SK+ Sbjct: 178 EGRNRQIRKMFKTLDYNVISLERIAFGKIKLGKLKVGNYRELSKE 222 >gi|78184950|ref|YP_377385.1| pseudouridine synthase, Rsu [Synechococcus sp. CC9902] gi|78169244|gb|ABB26341.1| ribosomal large subunit pseudouridine synthase B [Synechococcus sp. CC9902] Length = 247 Score = 119 bits (297), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 77/230 (33%), Positives = 120/230 (52%), Gaps = 1/230 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T QR+ K++A AG+ SRR E + RV V+G + ++ IEVDGVPL Sbjct: 1 MTRQRLQKLMAAAGLCSRRRGEDWLQAGRVTVDGRVASLGDQADPNSQLIEVDGVPLISV 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGG 129 + R++L +KP+G++ + DP GR+TV D LP S + VGRLD ++ G LLLT+ G Sbjct: 61 QEPRVFLLNKPVGVICSCRDPQGRATVLDCLPHQERSGLHPVGRLDADSRGALLLTDQGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + YRV G L + G+++ G +V +G+++ + Sbjct: 121 LTLRLTHPRYNHAKTYRVLVRGIPSSQALRRWRDGLLLDGRLTRPARVHCLRSRGASSLL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V L+EG+NR+I++V E V L R++ +L L G R + + Sbjct: 181 EVELKEGRNRQIRRVAELLGHPVIDLQRVAIDGIRLDDLAEGCWRRLDAR 230 >gi|46200069|ref|YP_005736.1| ribosomal large subunit pseudouridine synthase B [Thermus thermophilus HB27] gi|46197697|gb|AAS82109.1| ribosomal large subunit pseudouridine synthase B [Thermus thermophilus HB27] Length = 235 Score = 119 bits (297), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 84/237 (35%), Positives = 123/237 (51%), Gaps = 30/237 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+ +ARAG+ASRR+ E +I + RV+VNG + AV V D +EVDG + + Sbjct: 5 RLQAFLARAGVASRRKAEDLIREGRVRVNG----KVAVLGQKVGPEDLVEVDGKRVELPQ 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + HKP G TT DP R TVFD LP I + VGRLD ++EGLLLLTNDG L Sbjct: 61 KRLVLALHKPKGYTTTRHDPHARRTVFDLLPKIPG-LHPVGRLDRDSEGLLLLTNDGDLT 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------- 184 L P +VYRV G G + + +C + + +D + G Sbjct: 120 HRLTHPRFGVRKVYRVWTEG------------GTLPKEVCR-RLLLGVDLEDGPARALAC 166 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + L EG+ RE++++ + + V RL+R+ GP +LG L G R +S++ Sbjct: 167 CPAPGGAVLVLAEGRKREVRRMLQRVGYPVRRLLRLQVGPIRLGDLPPGKWRRLSER 223 >gi|306820425|ref|ZP_07454061.1| ribosomal large subunit pseudouridine synthase B [Eubacterium yurii subsp. margaretiae ATCC 43715] gi|304551500|gb|EFM39455.1| ribosomal large subunit pseudouridine synthase B [Eubacterium yurii subsp. margaretiae ATCC 43715] Length = 232 Score = 119 bits (297), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 70/226 (30%), Positives = 123/226 (54%), Gaps = 4/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-RT 73 R++K IA SRR+ + +I ++VK+NG +LE A V D +E+DG + + + Sbjct: 2 RINKFIATKTAYSRRKADELIKDKKVKINGEVLENLAYTVNDDDEVELDGRIISDIKVKK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP +V+T SD GR + D P S V VGRLD ++ GL+++TNDG LA Sbjct: 62 YYYLFNKPKNVVSTVSDEFGRYCITDFFPPDIS-VFPVGRLDYDSTGLIIVTNDGDLANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + PS + Y G++ + ++ + +G+VI + ++ S + + Sbjct: 121 IAHPSHHVKKTYIATLDGRLSEAQMKIFSEGVVID--SKKTLPAEIELYDFSETQYKISI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 EG+NR+I+K+ + V L RIS G +LG ++ G R+++++ Sbjct: 179 YEGRNRQIRKMIDVLGRNVRELKRISIGKIKLGRIVEGKYRKLTEE 224 >gi|158320609|ref|YP_001513116.1| pseudouridine synthase [Alkaliphilus oremlandii OhILAs] gi|158140808|gb|ABW19120.1| pseudouridine synthase [Alkaliphilus oremlandii OhILAs] Length = 234 Score = 119 bits (297), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 80/226 (35%), Positives = 118/226 (52%), Gaps = 2/226 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A G+ASRR+ E +I+ RVKVNG ++ V + D I VD + ER Sbjct: 2 RLQKFLAANGVASRRKSEELISSGRVKVNGNIITEMGYKVDLDIDKISVDNKDIILQERK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G VTT S+ R V D L + R+ VGRLD NT GLL+LTNDG L Sbjct: 62 VYILLNKPTGYVTTVSEQFNRKKVTD-LVDVPYRIFPVGRLDYNTSGLLILTNDGELTYK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + +VY + G ++ L + G+ I+ ++ + + + V V + Sbjct: 121 LTHPKFKVEKVYIAKVKGIPTKEALEAFENGLKIEDYITAPAKIKILKEINQHTLVEVRI 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 REGKNR+++K+ E V L RI+ G LG L G+ R +++ Sbjct: 181 REGKNRQVRKMCEAIGHPVVELKRIAMGRIHLGNLDVGNWRYFTER 226 >gi|33863340|ref|NP_894900.1| putative pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus str. MIT 9313] gi|33640789|emb|CAE21244.1| putative pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus str. MIT 9313] Length = 244 Score = 119 bits (297), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 77/227 (33%), Positives = 118/227 (51%), Gaps = 1/227 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ K+IA +G+ SRR E+++ Q+RV +NG L + D I VDG L T Sbjct: 4 QRLQKLIAASGLCSRRHAEQLLLQERVTLNGHLAKLGDKADPELDKISVDGRVLNSNTET 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-SVGRLDINTEGLLLLTNDGGLAR 132 R+ L++KP G++T+ DP GR TVF LP + + VGRLD ++ G LL+TN G L Sbjct: 64 RVLLFNKPAGVITSCHDPHGRVTVFSMLPDKLCKGLHPVGRLDADSRGALLITNQGELTL 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y+V G+ L+ + G+++ G ++ L S + + V Sbjct: 124 RLTHPRYAHDKTYQVLVEGKPSALVLSSWRHGVMLDGKTTLPAELELLQSHPSQSLLKVV 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 LREG+NR+I++V E V L R + L L G R + ++ Sbjct: 184 LREGRNRQIRRVAEQLGHPVLDLQRTAIANVALNALPEGCWRALDER 230 >gi|229815391|ref|ZP_04445726.1| hypothetical protein COLINT_02438 [Collinsella intestinalis DSM 13280] gi|229809171|gb|EEP44938.1| hypothetical protein COLINT_02438 [Collinsella intestinalis DSM 13280] Length = 272 Score = 119 bits (297), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 82/243 (33%), Positives = 120/243 (49%), Gaps = 15/243 (6%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK 69 P R+ + +ARAG+ASRR E ++ RV+VNG + V D + VDG P+ Sbjct: 18 LVPMRLQRFLARAGVASRRGSEGLMTAGRVRVNGEVKTELGTKVDPRCDEVTVDGAPVVL 77 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDG 128 + +KP G +TT SDP GR TV + +PS F + VGRLD++T GLLL T DG Sbjct: 78 GSGPAYIMLNKPAGFLTTMSDPHGRPTVAELVPSKKFPGLFPVGRLDMDTTGLLLFTTDG 137 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK---- 183 L + L PS + YR G+ L L++G+ + G C L+ Sbjct: 138 DLGQRLLHPSHHVWKTYRAIVDGRCLDGDLEPLRRGLTLDDGPCQPARCRVLEPADAHIP 197 Query: 184 -------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 G+ A V V +REG+ ++K++ V L R +G +LG L GS RE+ Sbjct: 198 GFPRLVTGATA-VEVIIREGRKNQVKRMLSKIGHPVIALHRCRFGELRLGDLAEGSWREL 256 Query: 237 SKK 239 + + Sbjct: 257 TDE 259 >gi|260494080|ref|ZP_05814211.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 3_1_33] gi|260198226|gb|EEW95742.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 3_1_33] Length = 234 Score = 119 bits (297), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 78/237 (32%), Positives = 131/237 (55%), Gaps = 24/237 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--ER 72 R++K ++ GIASRR V++ I + R+ VNG + +++ D+I +DG ++ E Sbjct: 2 RINKFLSTLGIASRRAVDKYIEEGRITVNG-NIATTGMDISENDNIFIDGKKIKTDVNEE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP+ ++++ SD GR TV D L R+ +GRLD T GL+LLTNDG L Sbjct: 61 KVYFMLNKPLEVLSSSSDDRGRKTVVD-LIKTDKRIFPIGRLDYMTSGLILLTNDGELFN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV----------IQGICYGDMQVTLDTQ 182 + P ++ + Y V+ G++ ++++ LKKG++ I GI Y D Sbjct: 120 RIVHPKSEIYKKYYVKIFGEIKKEEIAELKKGVLLNDGKTLPAKISGIKY-------DKN 172 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 K S + + +REG+NR+I+++ E F +KV L R G LG L G R+++K+ Sbjct: 173 KTS---MYISIREGRNRQIRRMIEKFGYKVLMLRREKIGELSLGDLEEGKYRKLTKQ 226 >gi|148241876|ref|YP_001227033.1| 16S rRNA pseudouridylate synthase [Synechococcus sp. RCC307] gi|147850186|emb|CAK27680.1| 16S rRNA pseudouridylate synthase [Synechococcus sp. RCC307] Length = 254 Score = 119 bits (297), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 77/226 (34%), Positives = 114/226 (50%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ KV+++AG+ SRR E ++ Q RV +NG D I VDG + Sbjct: 6 QRLQKVLSQAGVCSRRRAEELMRQGRVLLNGRPASPGDQGDPLRDRILVDGELVSPPAEE 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGGL 130 L HKP G+ +T DP GR TV D LP+ + + VGRLD ++ G LLL+N+G L Sbjct: 66 LTVLLHKPRGVHSTCFDPRGRRTVLDLLPAELAEGQGLHPVGRLDCDSRGALLLSNNGAL 125 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + YR+ G L + G+++ G V Q ++ + Sbjct: 126 TLALTHPRFSHRKSYRIWVSGHPSSAVLQQWRHGVLLDGRPTRSADVRELQQDAEHSQLE 185 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + +REG+NR+I++V E V L+R+S GP QLG L +G R + Sbjct: 186 LVMREGRNRQIRRVAEQLGHPVRDLLRVSIGPVQLGDLPSGQWRRL 231 >gi|297617939|ref|YP_003703098.1| pseudouridine synthase [Syntrophothermus lipocalidus DSM 12680] gi|297145776|gb|ADI02533.1| pseudouridine synthase [Syntrophothermus lipocalidus DSM 12680] Length = 249 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 76/225 (33%), Positives = 118/225 (52%), Gaps = 2/225 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A AGI SRR+ E +I RVKVNG ++ E V D +E+DG L + E Sbjct: 11 RLARYLAAAGITSRRKAETLIQAGRVKVNGRVVRELGFVINEEKDQVELDGWLLHREEPV 70 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP G + T +D GR TV D L + RV VGRLD +TEGLLLL+NDG + Sbjct: 71 YILL-NKPSGYLCTLADTHGRPTVVDLLRGVTQRVYPVGRLDYDTEGLLLLSNDGDFTHL 129 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + +VY G V + + L+ G++I + +V + ++ + + + Sbjct: 130 MTHPRFEIEKVYEAWVQGMVSRKAIERLRAGVIIDAVKTAPAKVRVLAKRKDRTLMEIRI 189 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EG+ R++KK+ V L R +G L L G R ++K Sbjct: 190 HEGRKRQVKKMCASVGHPVVALKRTRFGDLTLDGLRPGEFRYLTK 234 >gi|309798849|ref|ZP_07693110.1| ribosomal large subunit pseudouridine synthase B [Streptococcus infantis SK1302] gi|308117498|gb|EFO54913.1| ribosomal large subunit pseudouridine synthase B [Streptococcus infantis SK1302] Length = 199 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 71/199 (35%), Positives = 114/199 (57%), Gaps = 9/199 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG + Sbjct: 61 YYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDEM 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWV 189 P + +VY R G +++ L L +G+ I G Y ++V D K + + V Sbjct: 121 IHPRNEIDKVYVARVKGIANKENLRPLTRGVEIDGKKTKPAVYEILKV--DPVK-NRSVV 177 Query: 190 TVGLREGKNREIKKVFEFF 208 + + EG+N ++KK + Sbjct: 178 QLTIHEGRNHQVKKCLKLL 196 >gi|312793758|ref|YP_004026681.1| pseudouridine synthase [Caldicellulosiruptor kristjanssonii 177R1B] gi|312180898|gb|ADQ41068.1| pseudouridine synthase [Caldicellulosiruptor kristjanssonii 177R1B] Length = 240 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 75/220 (34%), Positives = 117/220 (53%), Gaps = 2/220 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A+ GIASRR+ E +I Q RVKVNG + + V D +EVDG + + Sbjct: 6 RLQKYMAQCGIASRRKCEEIILQGRVKVNGKTVNQLGFKVDPEKDVVEVDGKRITLQMQK 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++++ D GR TV D + + RV VGRLD +T GL+LLTNDG A Sbjct: 66 VYIMLNKPFGVISSAKDEKGRKTVVDLVKDKVNVRVFPVGRLDFDTTGLILLTNDGEFAY 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G ++++ +KG++I G + + NA V + Sbjct: 126 KVTHPKHDIEKTYIALIRGIPSKEEIERFEKGLLIDGKMTAPAKFKILKLINGNALVEIK 185 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + EG+NR+I+K+ + +V +L R++ G QLG L G Sbjct: 186 IHEGRNRQIRKMCDQIGHEVLKLKRVAIGKLQLGKLKEGE 225 >gi|332300498|ref|YP_004442419.1| pseudouridine synthase Rsu [Porphyromonas asaccharolytica DSM 20707] gi|332177561|gb|AEE13251.1| pseudouridine synthase Rsu [Porphyromonas asaccharolytica DSM 20707] Length = 470 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 84/275 (30%), Positives = 139/275 (50%), Gaps = 6/275 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E P R++K ++ +G+ SRR ++ IA RVKVNG ++ V+ TD + VD L Sbjct: 199 EAGEPIRLNKFLSNSGLCSRRMADQYIAAGRVKVNGAVISELGSQVLPTDQVMVDD-KLV 257 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 E L +KP VTT +DP+GR TV D + + + R+ +GRLD NT G+LLLTND Sbjct: 258 SLEAKVYVLLNKPKNCVTTLTDPEGRRTVMDLVHNACTERIYPIGRLDRNTTGILLLTND 317 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G LA L P+ + ++Y V +V + + ++ G ++ G + D + Q ++ Sbjct: 318 GDLAVRLMHPAFRKKKIYEVALDKEVTVEHMQMIAHGFELEDGEIHADAISYITGQ--TH 375 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE-QL 245 V + + G+NR ++++FE ++V L R+ Y L G R ++ + +R ++ Sbjct: 376 DKVGIEIHSGRNRIVRRIFEHLGYRVVHLDRVYYAGLTKKDLPRGRWRYLTPEEVRYLRM 435 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPD 280 G E+ V +Y D P E+ D Sbjct: 436 GVKEQEDNGVAPTTKVYHKHQETPDHPFASEEIED 470 >gi|94991824|ref|YP_599923.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS2096] gi|94545332|gb|ABF35379.1| Ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS2096] Length = 220 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 74/211 (35%), Positives = 113/211 (53%), Gaps = 9/211 (4%) Query: 34 MIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 MI Q V +NG ++ A V S D +E++G P+ E+ +L +KP G +++ SD G Sbjct: 1 MIKQGLVTLNGQVITDLATTVKSGDVVEIEGSPIYNEEKV-YYLLNKPRGAISSVSDDKG 59 Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 R TV D LP + R+ VGRLD +T G+L+LTNDG + P + +VY R G Sbjct: 60 RKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDTMIHPRNEIDKVYLARVKGIA 119 Query: 154 DQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 ++ L L +GIVI G Y ++V D + + V + + EG+N ++KK+FE Sbjct: 120 TKENLRPLTRGIVIDGKKTKPARYNIVRVEADKNR---SIVELTIHEGRNHQVKKMFESV 176 Query: 209 NWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V++L R +G L L G R ++KK Sbjct: 177 GLLVDKLSRTRFGTVDLKGLRPGEARRLNKK 207 >gi|300781239|ref|ZP_07091093.1| 16S rRNA uridine-516 pseudouridylate synthase [Corynebacterium genitalium ATCC 33030] gi|300532946|gb|EFK54007.1| 16S rRNA uridine-516 pseudouridylate synthase [Corynebacterium genitalium ATCC 33030] Length = 318 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 81/228 (35%), Positives = 124/228 (54%), Gaps = 6/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E MI + RV+VNG ++ + V V + D I VDGV + E Sbjct: 79 RLQKVLAQAGVASRRHSEVMIDEGRVEVNGKIVRQQGVRVDPNVDIIRVDGVRVNVNEDQ 138 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+ TT D GR V D + + R+ VGRLD +TEGLLLLTNDG L Sbjct: 139 QYFALNKPRGVHTTMEDELGRPCVGDFVADRVAAGQRLFHVGRLDADTEGLLLLTNDGEL 198 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 + L P + Y G+ + LKKGI ++ G+ D +DT +G + + Sbjct: 199 SNRLMHPKYGVEKTYLATVLGEAKPALVRELKKGIELEDGVAKADYAQIVDTHQG-QSLI 257 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+ ++++ + + V RL+R QLG L G+ R ++ Sbjct: 258 RLVIHEGRKHVVRRMLKEAGYPVQRLVRTKIHTVQLGELKPGAMRALN 305 >gi|218682180|ref|ZP_03529781.1| RNA-binding S4 domain protein [Rhizobium etli CIAT 894] Length = 130 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 55/83 (66%), Positives = 68/83 (81%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+SKV+ARAG+ASRR++ERMI + RV +NG L+ VNV D IEVDGVP+R ERT Sbjct: 48 ERISKVMARAGVASRRDIERMIMEGRVTLNGRALDTPVVNVTLADRIEVDGVPIRGIERT 107 Query: 74 RLWLYHKPIGLVTTHSDPDGRST 96 RLWLYHKP GLVTT++DP+GRST Sbjct: 108 RLWLYHKPAGLVTTNADPEGRST 130 >gi|182415600|ref|YP_001820666.1| RNA-binding S4 domain-containing protein [Opitutus terrae PB90-1] gi|177842814|gb|ACB77066.1| RNA-binding S4 domain protein [Opitutus terrae PB90-1] Length = 266 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 79/221 (35%), Positives = 109/221 (49%), Gaps = 5/221 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +F P R+ K +A AG+ SRR E +IA V VNG + D + G P+R Sbjct: 3 SFEPIRLQKYLADAGVCSRRAAEALIASGEVWVNGAPAQVGQKVTPGVDRVTTGGKPVRT 62 Query: 70 AERTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTN 126 + R+ L HKP GLV T+ DP T+F LP F+ R GRLD ++EGL++LT Sbjct: 63 TAQPRVTLAMHKPRGLVCTNEDPHNPETIFSVLPREFAKLRFFCAGRLDKDSEGLVILTT 122 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS ++ Y V +L LL KG++ QG + L S+ Sbjct: 123 DGDLAHRLMHPSNLVVKRYHVTLEKPFPAKRLPLLVKGVIAQGERLKVERAALINPSVSH 182 Query: 187 AW--VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V + GK REI+ +F + V RL R G F+L Sbjct: 183 EATNLDVHMHHGKKREIRLLFTELGYPVKRLRRYQIGGFRL 223 >gi|254303780|ref|ZP_04971138.1| pseudouridylate synthase [Fusobacterium nucleatum subsp. polymorphum ATCC 10953] gi|148323972|gb|EDK89222.1| pseudouridylate synthase [Fusobacterium nucleatum subsp. polymorphum ATCC 10953] Length = 234 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 77/237 (32%), Positives = 132/237 (55%), Gaps = 24/237 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--ER 72 R++K ++ GIASRR +++ I + R+ VNG +++ D+I +DG ++ + E Sbjct: 2 RINKFLSTLGIASRRAIDKYIEEGRITVNGNT-ATTGMDINENDNIFIDGKKIKTSINEE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP+ ++++ SD GR TV D L R+ +GRLD T GL+LLTNDG L Sbjct: 61 KVYFMLNKPLEVLSSSSDDRGRKTVVD-LIKTDKRIFPIGRLDYMTSGLILLTNDGELFN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV----------IQGICYGDMQVTLDTQ 182 + P ++ + Y ++ G++ +++++ LKKG++ I GI Y D Sbjct: 120 RVVHPKSEIYKKYYIKILGELKKEEIDELKKGVLLDDGKTLPAKISGIKY-------DKN 172 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 K S + + +REG+NR+I+++ E F +KV L R G LG L G RE++K+ Sbjct: 173 KTS---MFISIREGRNRQIRRMIEKFEYKVLMLRREKIGELALGDLPEGKYRELTKQ 226 >gi|226226929|ref|YP_002761035.1| pseudouridine synthase [Gemmatimonas aurantiaca T-27] gi|226090120|dbj|BAH38565.1| pseudouridine synthase [Gemmatimonas aurantiaca T-27] Length = 237 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 76/228 (33%), Positives = 118/228 (51%), Gaps = 11/228 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 RV + +AR G SRRE ++ +A+ RV+VNG + + D I +DG P+ Sbjct: 2 RVQRALARVGAVSRREADKAVAEGRVQVNGTTAIVGQLVDPARDRITLDGTPVATQVTAH 61 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFD---NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 W+ HKP ++TT DP+GR+TVFD + P + + VGRLD TEG+LLLT DG Sbjct: 62 RWIVLHKPAAVMTTRKDPEGRATVFDLVDDAPGL----VYVGRLDFMTEGVLLLTTDGTA 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV- 189 A VL PS + R Y G ++G+ + +VT G W Sbjct: 118 AHVLTHPSHEVERTYVATVRGDA-VTAAREARRGVKLDDGLVVPSEVTA-YPLGERRWAF 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+ E++++ + +V RL+R +GP +LG L +G+ R ++ Sbjct: 176 ELTITEGRTHEVRRICDALGLEVERLVRTRFGPVRLGELPSGAARALT 223 >gi|281354990|ref|ZP_06241484.1| pseudouridine synthase [Victivallis vadensis ATCC BAA-548] gi|281317870|gb|EFB01890.1| pseudouridine synthase [Victivallis vadensis ATCC BAA-548] Length = 241 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 78/232 (33%), Positives = 124/232 (53%), Gaps = 9/232 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 EN +R+ K+++ AGIASRR +I RV VNG + V D +E DGVP+ Sbjct: 2 ENDNRERLVKILSAAGIASRRGAGDLIKAGRVTVNGETVFEPGFRVAPGDRVEYDGVPVL 61 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLT 125 ER + +KP G V T++DP D + P + R+ S GRLD ++EGL+L + Sbjct: 62 AEERKVYIMLNKPRGYVCTNADPHADLKAVDLIRLTPPL--RLFSAGRLDKDSEGLILFS 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG L P + L+VY+VR + +L +++G++ +G ++V ++ G Sbjct: 120 NDGDYVARLTHPRHEILKVYQVRVRREFKPAELEQMRRGVLERGEL---LKVHAVSRCGD 176 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++ + L EGKNREI+++ RL R+ G +LG L G+ RE++ Sbjct: 177 CTYL-ITLNEGKNREIRRLTAALGSPTRRLKRLQIGALRLGGLPVGNWRELT 227 >gi|313676846|ref|YP_004054842.1| RNA-binding s4 domain protein [Marivirga tractuosa DSM 4126] gi|312943544|gb|ADR22734.1| RNA-binding S4 domain protein [Marivirga tractuosa DSM 4126] Length = 286 Score = 118 bits (295), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 74/227 (32%), Positives = 122/227 (53%), Gaps = 6/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AGI SRRE ++ IA +VKVN ++ V D + +G P+++ E+ Sbjct: 55 RLNKFISNAGICSRREADKHIADGKVKVNNKVVTELGFKVKPMDDVAFEGKPIKR-EKLV 113 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G +TT DP GR TV D + + R+ VGRLD NT GLLL TNDG LA+ Sbjct: 114 YVLLNKPKGFITTMDDPKGRKTVMDLIATAGDERIYPVGRLDRNTTGLLLFTNDGELAKK 173 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNAWVTVG 192 L P + ++Y+V + ++ +++GI ++ G+++V L + + Sbjct: 174 LTHPKHKIKKIYQVELDKPITEEDFLKIQEGITLED---GEVKVDNLAILTPDAKSIGME 230 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +R G+NR +++ FE + V +L R ++ L G R + +K Sbjct: 231 IRMGRNRIVRRTFEHLGYDVVKLDRTTFAGLTKKDLARGKWRFLKEK 277 >gi|116491036|ref|YP_810580.1| ribosomal large subunit pseudouridine synthase B [Oenococcus oeni PSU-1] gi|116091761|gb|ABJ56915.1| ribosomal large subunit pseudouridine synthase B [Oenococcus oeni PSU-1] Length = 237 Score = 118 bits (295), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 79/228 (34%), Positives = 123/228 (53%), Gaps = 4/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA+AG+ASRR+ E MI +VKVNG ++ + V S D + VD + + E Sbjct: 5 ERLQKRIAQAGVASRRKAEEMIVNGQVKVNGKIITKLGKKVSSDDIVYVDNKKINE-ESF 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G V+++ + +V + L +R+ SVGRLD +T G+LLLTNDG L + Sbjct: 64 EYYLLNKPAGYVSSNRSYPNQPSVIE-LIKTKTRIFSVGRLDQDTTGVLLLTNDGELTQK 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNAWVTV 191 L P + R Y G V++D++ L K I G Y ++ QK + + + Sbjct: 123 LTHPKHRIKRTYAAWVKGIVNEDEIEQLTKPIRFDGEIYFPQAARILKVDQKRQESLIEI 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EGKN EIKK+ +F V +L R + +G L G R +S++ Sbjct: 183 TIAEGKNHEIKKILDFIGHPVIKLNRDMFDGITIGNLKKGQHRALSEQ 230 >gi|315506751|ref|YP_004085638.1| pseudouridine synthase [Micromonospora sp. L5] gi|315413370|gb|ADU11487.1| pseudouridine synthase [Micromonospora sp. L5] Length = 256 Score = 118 bits (295), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 83/226 (36%), Positives = 123/226 (54%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ SRR E +I ++RV VNG + + + D I VDG L+ R Sbjct: 19 ERLQKVLAAAGVGSRRACEDLIFRRRVTVNGRVAQLGDKADPARDVIVVDGERLQADVRL 78 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+VTT +D GR+ + D + + + RV VGRLD ++EGLLLLTNDG LA Sbjct: 79 VYVAMNKPRGVVTTMADEKGRTELADFIGARLEQRVYHVGRLDADSEGLLLLTNDGTLAH 138 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L PS + L+ Y G + ++ L G+ ++ G D +DT G A V + Sbjct: 139 KLMHPSYEVLKTYLAEVAGPIPRNLSKRLTAGVELEDGPVKVDGFKVVDTL-GKTAQVEL 197 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ V+RLIR S GP +LG L G R ++ Sbjct: 198 TLHEGRKHIVRRLMAEVGHPVSRLIRTSIGPIKLGDLRTGRMRRLT 243 >gi|218246395|ref|YP_002371766.1| pseudouridine synthase [Cyanothece sp. PCC 8801] gi|257059438|ref|YP_003137326.1| pseudouridine synthase [Cyanothece sp. PCC 8802] gi|218166873|gb|ACK65610.1| pseudouridine synthase [Cyanothece sp. PCC 8801] gi|256589604|gb|ACV00491.1| pseudouridine synthase [Cyanothece sp. PCC 8802] Length = 252 Score = 118 bits (295), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 76/217 (35%), Positives = 114/217 (52%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV K++++ GIASRR+ E +I RVKVNG L++ D +EVDG + +R Sbjct: 3 ERVQKILSQWGIASRRKAESLILAGRVKVNGNLVKLGDKVDPYCDRLEVDGKRIEPTQRP 62 Query: 74 RLW--LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 L +KP+G+V+T DP R TV + LP + + VGRLD N+ G LLLTNDG Sbjct: 63 EFLYILVNKPLGVVSTCDDPQNRPTVLELLPQELRKGTGIHPVGRLDFNSTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y V G + + L ++G+++ G QV + + Sbjct: 123 ELTLRLTHPRYHLPKTYEVSISGDISETSLQQWREGVMLMGKKTLPAQVEVIHRCRQQTC 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V L EG+NR+I+++ E + V RL R + G L Sbjct: 183 LKVILIEGRNRQIRRIVEHLGFSVLRLHRTAVGSIAL 219 >gi|312879945|ref|ZP_07739745.1| RNA-binding S4 domain protein [Aminomonas paucivorans DSM 12260] gi|310783236|gb|EFQ23634.1| RNA-binding S4 domain protein [Aminomonas paucivorans DSM 12260] Length = 242 Score = 118 bits (295), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 85/235 (36%), Positives = 125/235 (53%), Gaps = 7/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+++ +AR G+ASRR+ E +I RV++NG ++ AV V D +EVDG P+ R Sbjct: 6 QRLNQYLARCGVASRRKAEALILGGRVRLNGCVVLDLAVRVQGEDRVEVDGEPV--LPRV 63 Query: 74 RLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGL 130 L+L HKP G+++ D TV D LPS F R VGRLD ++EGLLLLTNDG Sbjct: 64 ALYLVLHKPRGVLSAVEDRR-EQTVVDLLPSRFRPERPFPVGRLDKDSEGLLLLTNDGDF 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A+ L PS ++ Y V+ + + + +G+ +G + + W Sbjct: 123 AQRLLHPSAGIVKSYEVQLDRPLAPEHRERMLEGLWSEGEFLRPLSIR-SLGVPDRRWTV 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L EGK REI+++ F + V RLIR G +L L G +E+S + L Q+ Sbjct: 182 FDLVEGKKREIRRLAALFEYGVLRLIRRRVGKLELRRLETGVAQELSGEALWRQI 236 >gi|237736761|ref|ZP_04567242.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium mortiferum ATCC 9817] gi|229420623|gb|EEO35670.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium mortiferum ATCC 9817] Length = 236 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 72/225 (32%), Positives = 127/225 (56%), Gaps = 3/225 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-AERT 73 R++K +A G+ SRRE++++I + +++VNG ++ A V V D IEV G + K E+ Sbjct: 5 RINKYLASLGVGSRREIDKLIEEGKIRVNGEVIS-AGVKVTDKDIIEVKGKKISKDIEKK 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP+ ++++ D GR TV D + R+ +GRLD NT GL+LLTNDG L Sbjct: 64 VYYMLNKPLEVLSSAKDDRGRKTVVD-IVKCKERIFPIGRLDYNTTGLILLTNDGELFNR 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P ++ + Y V+ G++ + L+ G+ ++ V L +++ + + V + Sbjct: 123 VIHPRSEVYKEYYVKVLGEIKDSSIKKLEDGVELEDGITLPAYVKLISRERGKSELMVSI 182 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 REG+NR+++++ E N V L R G LG L G RE+++ Sbjct: 183 REGRNRQVRRMLEAVNTPVLVLRRERIGKLSLGKLKVGEYRELTE 227 >gi|290954061|ref|ZP_06558682.1| RNA pseudouridine synthase B [Francisella tularensis subsp. holarctica URFT1] gi|295312554|ref|ZP_06803314.1| RNA pseudouridine synthase B [Francisella tularensis subsp. holarctica URFT1] Length = 198 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 79/188 (42%), Positives = 102/188 (54%), Gaps = 13/188 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRK 69 P+R+ K++A+ GI SRR++E I Q RVKVNG L ++A+ D I D L Sbjct: 12 PERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVATLGDKAS----EADKISFDSKALHS 67 Query: 70 ----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLL 124 R R+ +YHK G V T D R TVFD+LP + SR I VGRLDINT GLLL Sbjct: 68 YGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLDINTTGLLLF 127 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHG-QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS Q R Y VR G Q+ + +N LK+GI ++ + + Sbjct: 128 TTDGDLANRLMHPSYQIEREYAVRVFGQQLSDETINKLKEGIQLEDGIAKFNSIKFSGGE 187 Query: 184 GSNAWVTV 191 G+N W V Sbjct: 188 GANLWYYV 195 >gi|323356708|ref|YP_004223104.1| 16S rRNA uridine-516 pseudouridylate synthase [Microbacterium testaceum StLB037] gi|323273079|dbj|BAJ73224.1| 16S rRNA uridine-516 pseudouridylate synthase [Microbacterium testaceum StLB037] Length = 245 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 81/225 (36%), Positives = 120/225 (53%), Gaps = 3/225 (1%) Query: 15 RVSKVIARAGIASRREVERMI-AQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ KV+A AG+ASRR E MI A + ++ E + TD ++VDG ++ Sbjct: 2 RLQKVLANAGVASRRVSEEMIVAGRVRVNGVVVTELGSRIHPETDLVDVDGTAIQLDTSK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP G+V++ SD GR + R+ +VGRLD +T GLL+LTNDG LA V Sbjct: 62 RYVILNKPTGVVSSMSDDRGRPDLRQYTKDWDERLFNVGRLDADTSGLLVLTNDGDLAHV 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L PS +VY + GQV + L KG+ ++ G D LD+ +G + V + Sbjct: 122 LAHPSFGVTKVYIAKVEGQVLPQTIQHLLKGVDLEDGRIAADKARLLDSSRG-ESLVELT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L GKNR ++++ V L+R +GP LGTL G RE++ Sbjct: 181 LHSGKNRIVRRLMAEVGHPVIELVRRQFGPLHLGTLPVGKARELT 225 >gi|189220438|ref|YP_001941078.1| 16S rRNA uridine-516 pseudouridylate synthase or related enzyme [Methylacidiphilum infernorum V4] gi|189187296|gb|ACD84481.1| 16S rRNA uridine-516 pseudouridylate synthase or related enzyme [Methylacidiphilum infernorum V4] Length = 256 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 74/234 (31%), Positives = 130/234 (55%), Gaps = 4/234 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+++ +A G+ SRR E ++ + R+KVNG ++ + + D +E+DG L + ++ Sbjct: 10 PIRINRYLASCGLGSRRSCEDLVREGRIKVNGQIVRTLGQKISAEDKVEIDGFLLLRPQQ 69 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +L++KP G+V + DP G T++D LPS + SVGRLD ++EGLLLLTNDG LA Sbjct: 70 KQYFLFYKPRGIVCSRKDPFGGKTIYDLLPSSLHHLFSVGRLDKDSEGLLLLTNDGLLAN 129 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y V ++ L KG+ I+G +V ++ + + + Sbjct: 130 AVLHPRYHFAKTYIVTLCPSFEEKHQKDLLKGMYIEGKRAKADKVIIENKN----TLKIV 185 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G R+I+ + +KVNRL R++ GP L + G R ++++ ++ G Sbjct: 186 LSQGMKRQIRTMLSLLGYKVNRLRRVALGPLTLKRMKPGELRSLTEREIKSLYG 239 >gi|94984870|ref|YP_604234.1| pseudouridine synthase, Rsu [Deinococcus geothermalis DSM 11300] gi|94555151|gb|ABF45065.1| Pseudouridine synthase, Rsu [Deinococcus geothermalis DSM 11300] Length = 253 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 86/247 (34%), Positives = 125/247 (50%), Gaps = 13/247 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-AER 72 +R+ K +ARAG+ASRR E +I RV VNG + VM D + VDG + A+ Sbjct: 6 ERLQKRLARAGVASRRAAEDLITAGRVTVNGQIAT-LGRTVMPDDEVRVDGRLIEAPAQE 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +L +KP G VTT D GR V +P I + VGRLD ++EGLLLLT DG L Sbjct: 65 SVTFLLYKPAGYVTTARDEYGRRNVLSAMPPIPG-LHPVGRLDKDSEGLLLLTTDGQLTL 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + YR GQ +L +L+ GI + D + + + V Sbjct: 124 TLTHPRYGHEKAYRAWTAGQPVAAELRVLETGIEL-----ADGPARALSARPARGGALVT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP----- 247 L EG+NR+++++ + + V+RL+R G LG L G R +S + L + L P Sbjct: 179 LTEGRNRQVRRMLDAIGYPVHRLLRYRVGGLWLGDLEPGEYRLLSPRDLHDLLHPAQVPR 238 Query: 248 HLLEEAQ 254 H+ E A+ Sbjct: 239 HVWERAE 245 >gi|254495132|ref|ZP_05108056.1| pseudouridylate synthase [Polaribacter sp. MED152] gi|85819482|gb|EAQ40639.1| pseudouridylate synthase [Polaribacter sp. MED152] Length = 282 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 76/225 (33%), Positives = 116/225 (51%), Gaps = 5/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +G+ SRRE + I VKVNG L+ V D ++ DG + E+ R Sbjct: 50 RLNKYIANSGVCSRREADTYIEHGSVKVNGKLVTEMGYKVQPDDVVQFDGTSI-TPEQKR 108 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP +TT D GR TV D + + R+ VGRLD NT GLLL TNDG LA+ Sbjct: 109 YILLNKPKNYITTMDDDRGRKTVMDLVSNASKERIYPVGRLDRNTTGLLLFTNDGDLAKK 168 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWVTVG 192 L P ++Y ++D L L+ ++I+G + D +D Q + + + Sbjct: 169 LTHPKHNVRKLYHASLDRKLDLKDLEKLRGEVIIEGRKVFIDAVSYVDGQPKTE--IGIE 226 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + G+NR ++K+FE +KVN+L R+ + L G R ++ Sbjct: 227 IHSGRNRIVRKIFEHVGYKVNKLDRVIFAELTKKNLPRGRWRALT 271 >gi|124022690|ref|YP_001016997.1| pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus str. MIT 9303] gi|123962976|gb|ABM77732.1| putative pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus str. MIT 9303] Length = 244 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 77/227 (33%), Positives = 118/227 (51%), Gaps = 1/227 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ K+IA +G+ SRR E+++ Q+RV +NG L + D I VDG L T Sbjct: 4 QRLQKLIAASGLCSRRHAEQLLLQERVTLNGHLAKLGDKADPELDKISVDGRVLNSNTET 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-SVGRLDINTEGLLLLTNDGGLAR 132 R+ L++KP G++T+ DP GR TVF LP + + VGRLD ++ G LL+TN G L Sbjct: 64 RVLLFNKPAGVITSCHDPHGRVTVFSLLPDKLCKGLHPVGRLDADSRGALLITNRGELTL 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y+V G+ L+ + G+++ G ++ L S + + V Sbjct: 124 RLTHPRYAHDKTYQVLVEGKPSPLVLSSWRHGVMLDGKTTLPAELELLQSHPSQSLLKVV 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 LREG+NR+I++V E V L R + L L G R + ++ Sbjct: 184 LREGRNRQIRRVAEQLGHPVLDLQRTAIANVALDALPEGCWRALDER 230 >gi|152993935|ref|YP_001359656.1| RNA pseudouridine synthase [Sulfurovum sp. NBC37-1] gi|151425796|dbj|BAF73299.1| RNA pseudouridine synthase [Sulfurovum sp. NBC37-1] Length = 281 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 122/239 (51%), Gaps = 16/239 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA SRRE +R+I + V +N +L A +V DHI V P++ + Sbjct: 2 RLNKYIAHHTKYSRREADRLIEEGEVTLNKKVLRDFAYDVQEGDHIYVKSRPIKPSNEIT 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +Y+KP G++ T D GR+T++ LP F + VGRLD +EGLL+LT+ + V Sbjct: 62 VIVYNKPKGVLVTKKDDRGRATIYHKLPGKFRHFVPVGRLDYASEGLLILTD--SVEVVT 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-------------IQGICYGDM-QVTLD 180 L + R Y ++ V Q+ + + +G+V I G+ + + Sbjct: 120 ALMGSDLERTYNLKIDKPVTQEMVAAMNEGLVLDDARAGGHEKSKIYGMEFAPFAHFEIR 179 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ S + V + EGKNRE+++ F F+ KV L R++YG +L L TR S+K Sbjct: 180 SEGKSYTKLRVTITEGKNRELRRFFGHFDAKVLDLKRVAYGGIELNNLPTNKTRFFSRK 238 >gi|226355753|ref|YP_002785493.1| RNA pseudouridylate synthase [Deinococcus deserti VCD115] gi|226317743|gb|ACO45739.1| putative RNA pseudouridylate synthase [Deinococcus deserti VCD115] Length = 253 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 85/237 (35%), Positives = 122/237 (51%), Gaps = 10/237 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RKAER 72 +R+ K +ARAGIASRR E MI RV VNG++ V D + VDG + A Sbjct: 4 ERLQKRLARAGIASRRAAEEMITAGRVTVNGVVAHLGQ-TVTDADDVRVDGSLVDSTAVP 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G VTT D GR V D +P I + VGRLD ++EGLLLLT DG L Sbjct: 63 AVTYALYKPRGYVTTARDEYGRRNVLDAMPEIPG-LHPVGRLDRDSEGLLLLTTDGQLTL 121 Query: 133 VLELPSTQWLRVYRVRFHGQVD--QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + YR G D Q +L+ L G+ ++ G + + A+V Sbjct: 122 TMTHPRYGHEKAYRAWTEGPHDPTQGELDTLVSGVELED---GPARAVSASPAYGGAFVV 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 +G EG+NR+++++ E V+RL+R G LG + G RE+++K L E + P Sbjct: 179 LG--EGRNRQVRRMLEAVGHPVSRLLRYRVGGLWLGDMEVGEYRELTRKDLDELVNP 233 >gi|224283102|ref|ZP_03646424.1| pseudouridine synthase [Bifidobacterium bifidum NCIMB 41171] gi|310287470|ref|YP_003938728.1| Ribosomal large subunit pseudouridine synthase B [Bifidobacterium bifidum S17] gi|311064385|ref|YP_003971110.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium bifidum PRL2010] gi|313140251|ref|ZP_07802444.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium bifidum NCIMB 41171] gi|309251406|gb|ADO53154.1| Ribosomal large subunit pseudouridine synthase B [Bifidobacterium bifidum S17] gi|310866704|gb|ADP36073.1| RluB Ribosomal large subunit pseudouridine synthase B [Bifidobacterium bifidum PRL2010] gi|313132761|gb|EFR50378.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium bifidum NCIMB 41171] Length = 258 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 77/230 (33%), Positives = 123/230 (53%), Gaps = 10/230 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A+AG SRR+ E+MI RV+V+G L+ V HI VDG + Sbjct: 21 RLQKILAQAGFGSRRKCEQMITDGRVEVDGELVTELGTRVDPKKQHIRVDGSRVHLNPNH 80 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP +++ DP GR T+ D + + RV +GRLD ++EGL+L+TNDG L++ Sbjct: 81 VTLALNKPKKVLSAMDDPKGRYTLADIIGDKYERVFHMGRLDYDSEGLILMTNDGELSQH 140 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA-----W 188 + P + + Y G++ N+ ++ +V QG+ D V LD +A Sbjct: 141 VMHPKYEVEKTYIATIDGKIGG---NVCRR-LVTQGVQLDDGLVKLDHCAIIDANRDQTI 196 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V V L GKNR ++++F + V RL+R GP +LG L +G+ R +S+ Sbjct: 197 VKVVLHSGKNRIVRRIFGAIGYPVRRLVRTQIGPIKLGDLKSGTYRVLSQ 246 >gi|325479564|gb|EGC82660.1| pseudouridylate synthase [Anaerococcus prevotii ACS-065-V-Col13] Length = 233 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 76/226 (33%), Positives = 126/226 (55%), Gaps = 5/226 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA++G SRR+ + +I +VKVNGIL+ V D +E+DG L + Sbjct: 2 RINKYIAKSGYTSRRKADDLIKASKVKVNGILINEPGYEVTDDDILEIDGKRLYIEKNFY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LY KP+G VT++ DP + ++L + R + GRLD ++EGLL++TNDG + Sbjct: 62 KKLY-KPVGYVTSNYDPHNEKDL-NSLIDMKERFFAAGRLDKDSEGLLIITNDGHFTNGI 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVGL 193 PS + + Y V ++ + + +KGI I +G + ++ L K +N + V + Sbjct: 120 IHPSNELEKTYIVTVSRKLSKSQEKKFEKGIDIGRGEITSNSKIKLLDSK-TNKY-EVKI 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++F +F+ KV L RIS GP +L + R+ S+K Sbjct: 178 HQGYNRQIRRMFAYFSSKVINLKRISIGPIKLDDMKEYEIRDFSEK 223 >gi|297588511|ref|ZP_06947154.1| ribosomal large subunit pseudouridine synthase B [Finegoldia magna ATCC 53516] gi|297573884|gb|EFH92605.1| ribosomal large subunit pseudouridine synthase B [Finegoldia magna ATCC 53516] Length = 242 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 74/211 (35%), Positives = 112/211 (53%), Gaps = 1/211 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA++G SRR+ + +I +V VNG +L + V +D +EV+G + K E Sbjct: 2 RINKFIAQSGYCSRRKADELIKNSKVCVNGTILLDLSYQVNDSDIVEVEGKKISKKEEKI 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KPIG +T D V D L +RV VGRLD ++ GLL+LTNDG L L Sbjct: 62 YIAINKPIGYTSTVKDKFADKKVVD-LIKFKTRVYPVGRLDKDSHGLLILTNDGELTYEL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + +VY V G+ +DK+ LK GIV+ G + N V + Sbjct: 121 THPKFEHKKVYEVLVKGRPTKDKIQELKNGIVLDGYKLKKSSIEFIANVKDNTKYMVTIY 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EG+NR+I+K+F++ N V L R+ G +++ Sbjct: 181 EGRNRQIRKMFDYINHPVLDLKRVQIGYYKM 211 >gi|302866907|ref|YP_003835544.1| pseudouridine synthase [Micromonospora aurantiaca ATCC 27029] gi|302569766|gb|ADL45968.1| pseudouridine synthase [Micromonospora aurantiaca ATCC 27029] Length = 256 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 83/226 (36%), Positives = 123/226 (54%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ SRR E +I ++RV VNG + + + D I VDG L+ R Sbjct: 19 ERLQKVLAAAGVGSRRACEDLIFRRRVTVNGRVAQLGDKADPARDVIVVDGERLQADVRL 78 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+VTT +D GR+ + D + + + RV VGRLD ++EGLLLLTNDG LA Sbjct: 79 VYVAMNKPRGVVTTMADEKGRTELADFIGARLEQRVYHVGRLDADSEGLLLLTNDGTLAH 138 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L PS + L+ Y G + ++ L G+ ++ G D +DT G A V + Sbjct: 139 KLMHPSYEVLKTYLAEVAGPIPRNLGKRLTAGVELEDGPVKVDGFKVVDTL-GKTAQVEL 197 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ ++++ V+RLIR S GP +LG L G R ++ Sbjct: 198 TLHEGRKHIVRRLMAEVGHPVSRLIRTSIGPIKLGDLRTGRMRRLT 243 >gi|116073056|ref|ZP_01470318.1| putative pseudouridylate synthase specific to ribosomal small subunit [Synechococcus sp. RS9916] gi|116068361|gb|EAU74113.1| putative pseudouridylate synthase specific to ribosomal small subunit [Synechococcus sp. RS9916] Length = 249 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 77/231 (33%), Positives = 113/231 (48%), Gaps = 1/231 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E +R+ K+IA AG+ SRR E ++ RVKVN + + D I +DG PL Sbjct: 8 ETVKAERLQKLIAAAGVCSRRHAEELLRAGRVKVNDRMAQLGDRAEPGLDRITIDGTPLP 67 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-SVGRLDINTEGLLLLTND 127 + RL L +KP G++++ DP GR V D +P R + VGRLD + G LLLTN Sbjct: 68 ANDPPRLLLLNKPRGVISSCQDPQGRPIVLDLVPKHLRRGLHPVGRLDAESRGALLLTNQ 127 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + YRV G+ L ++G+ + +V + Sbjct: 128 GELTLQLTHPRYSHAKTYRVWVQGRPSHGALEHWRRGLRLDQRLTQPAEVRELHHNANRT 187 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + V LREG+NR+I++V E V L R + LG+L G RE+++ Sbjct: 188 LLEVVLREGRNRQIRRVAELLGHPVLDLQRTAIATVVLGSLQEGRWRELTE 238 >gi|222529534|ref|YP_002573416.1| pseudouridine synthase [Caldicellulosiruptor bescii DSM 6725] gi|222456381|gb|ACM60643.1| pseudouridine synthase [Caldicellulosiruptor bescii DSM 6725] Length = 230 Score = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 76/228 (33%), Positives = 120/228 (52%), Gaps = 6/228 (2%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLWLY 78 +A+ G+ASRR+ E +I Q RVKVNG + + V D +EVDG + + + Sbjct: 1 MAQCGVASRRKCEEIILQGRVKVNGKTVNQLGFKVDPEKDVVEVDGKRISLQMQKVYIML 60 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 +KP G++++ D GR TV D + + RV VGRLD +T GL++LTNDG A + P Sbjct: 61 NKPFGVISSAKDEKGRKTVVDLVKDKVNVRVFPVGRLDFDTTGLIILTNDGEFAYKVTHP 120 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGK 197 + Y V G ++++ +KG++I G + + NA V + + EG+ Sbjct: 121 KHDIEKTYIVLIKGIPSKEEIERFEKGLLIDGKMTAPAKFKILKLINGNALVEIKIHEGR 180 Query: 198 NREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS----TREVSKKIL 241 NR+I+K+ + KV +L R++ G QLG L G RE + K+ Sbjct: 181 NRQIRKMCDQIGHKVLKLKRVAIGKLQLGKLKEGEFVFLDRETANKVF 228 >gi|197294800|ref|YP_001799341.1| 16S rRNA pseudouridylate synthase [Candidatus Phytoplasma australiense] gi|171854127|emb|CAM12116.1| 16S rRNA pseudouridylate synthase [Candidatus Phytoplasma australiense] Length = 243 Score = 117 bits (293), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 78/227 (34%), Positives = 126/227 (55%), Gaps = 8/227 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA A + SRR+VE +I Q+RVKVN ++ + V ++D + +D V ++K Sbjct: 2 ERLQKFIASANLVSRRKVEILILQKRVKVNNQVVSQLGTKVKASDVVTLDDVLIKKTT-L 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G ++T D R TV D + S R+ SVGRLD NT GL+L+TNDG + + Sbjct: 61 FYYLLNKPQGYLSTTKDDKKRPTVLDLIKESQNQRLYSVGRLDFNTTGLILITNDGEMTQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-----GSNA 187 L P + Y V+ + + + L+LL KG++I Y + ++ K + Sbjct: 121 KLTHPCFGIPKEYHVKINVFLTKKDLSLLLKGVIIDH-NYLSIPKEINILKQRYLPKPST 179 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 W+ + + EGKNR+I+K+ E ++V +L R SY + L G+ R Sbjct: 180 WLKIVITEGKNRQIRKMMEALGYQVLKLRRYSYAFLTIEGLKTGAYR 226 >gi|256383874|gb|ACU78444.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma mycoides subsp. capri str. GM12] gi|256384705|gb|ACU79274.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma mycoides subsp. capri str. GM12] gi|296455832|gb|ADH22067.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [synthetic Mycoplasma mycoides JCVI-syn1.0] Length = 252 Score = 117 bits (293), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 75/229 (32%), Positives = 118/229 (51%), Gaps = 7/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +R+ KVI+ G SRR E++I + RVKVN ++ V + I++D V Sbjct: 4 ERLQKVISSRGYCSRRAAEKLILENRVKVNDQIINTLGVKIDPKAEIKIDNKLVLSDSNN 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +L++KP ++TT DP R TV D + RV VGRLD + GLLL+TNDG L+ Sbjct: 64 QKYYYLFYKPRLVLTTMYDPKKRKTVNDYFKDLNHRVYPVGRLDYDVSGLLLMTNDGVLS 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----ICYGDMQVTLDTQKGSNA 187 + P ++L+ Y+ GQV++ ++N L KG+ I Y V D K + + Sbjct: 124 NFIMHPKYEFLKTYQGLCQGQVNKQQINQLIKGVYIDNDYLTKAYSAKLVKYDKLKNT-S 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + EGK +KK+FE ++ +L R ++ L G RE+ Sbjct: 183 IVELTINEGKKHHVKKMFESIQAQLLKLKRTKIEFLEIADLKPGQYREL 231 >gi|218682423|ref|ZP_03530024.1| pseudouridine synthase [Rhizobium etli CIAT 894] Length = 538 Score = 117 bits (293), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 73/209 (34%), Positives = 115/209 (55%), Gaps = 5/209 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 + + +++ G SR + ER+IA+ RV V+G + + V ++T I VDG+ + A T+ Sbjct: 22 LPRALSKLGYCSRTQAERLIAESRVAVDGRTISDTSAWVDLATAKISVDGLVI--AAETK 79 Query: 75 LWLY-HKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++L +KP GLVTT DP+GR TV+D L + VGRLD +EGLLL TND A+ Sbjct: 80 IYLMLNKPRGLVTTRHDPEGRPTVYDCLRDFDIPHLSPVGRLDKASEGLLLFTNDTEFAQ 139 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +L P T + Y V+ +D + + + GI G Q N+W+ V Sbjct: 140 ILLDPVTHVTKTYHVQIDRIMDDEAIAAMTSGIRHDGELLTATAARRLRQGDRNSWIEVE 199 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYG 221 L EG+NR+I+++ E + RL+R++ G Sbjct: 200 LDEGRNRQIRRMLEALGTECLRLVRVAIG 228 >gi|331703388|ref|YP_004400075.1| 23S rRNA pseudouridine synthase [Mycoplasma mycoides subsp. capri LC str. 95010] gi|328801943|emb|CBW54097.1| 23S rRNA pseudouridine synthase [Mycoplasma mycoides subsp. capri LC str. 95010] Length = 252 Score = 117 bits (293), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 75/229 (32%), Positives = 118/229 (51%), Gaps = 7/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +R+ KVI+ G SRR E++I + RVKVN ++ V + I++D V Sbjct: 4 ERLQKVISSRGYCSRRAAEKLILENRVKVNDQIINTLGVKIDPKAEIKIDNKLVLSDSNN 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +L++KP ++TT DP R TV D + RV VGRLD + GLLL+TNDG L+ Sbjct: 64 QKYYYLFYKPRLVLTTMYDPKKRKTVNDYFKDLNHRVYPVGRLDYDVSGLLLMTNDGVLS 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----ICYGDMQVTLDTQKGSNA 187 + P ++L+ Y+ GQV++ ++N L KG+ I Y V D K + + Sbjct: 124 NFIMHPKYEFLKTYQGLCQGQVNKQQINQLIKGVYIDNDYLTKAYSAKLVKYDKLKNT-S 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + EGK +KK+FE ++ +L R ++ L G RE+ Sbjct: 183 IVELTINEGKKHHVKKMFESIQAQLLKLKRTKIEFLEIADLKPGQYREL 231 >gi|152967064|ref|YP_001362848.1| pseudouridine synthase [Kineococcus radiotolerans SRS30216] gi|151361581|gb|ABS04584.1| pseudouridine synthase [Kineococcus radiotolerans SRS30216] Length = 322 Score = 117 bits (293), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 79/230 (34%), Positives = 119/230 (51%), Gaps = 11/230 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 R+ KV+A+AG SRR E MIA RV V+G ++ V + T + VDG+ + Sbjct: 86 RLQKVLAQAGAGSRRACEEMIAAGRVTVDGEVVTELGVRIDPTRQVVHVDGMRFSIDDEL 145 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G+V+T D +GR + D + R+ VGRLD+ TEGL+LLTNDG L Sbjct: 146 VYIMVNKPKGVVSTMYDEEGRLNLADMVGPREERLFHVGRLDLETEGLILLTNDGALTHR 205 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-----QKGSNAW 188 L+ PS + Y G V +D L+ GI + D V++D+ K A Sbjct: 206 LQHPSFGVQKTYLAEVRGPVKRDLGRNLRAGIELD-----DGPVSVDSFKLVDSKPGYAL 260 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V V L EG+ ++++ E + V +L+R+ GP LG L G R +++ Sbjct: 261 VEVVLHEGRKHIVRRMLEAEGYPVLKLVRVQMGPIVLGDLKPGKNRRLTR 310 >gi|222624207|gb|EEE58339.1| hypothetical protein OsJ_09447 [Oryza sativa Japonica Group] Length = 1194 Score = 117 bits (293), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 74/226 (32%), Positives = 123/226 (54%), Gaps = 13/226 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAE 71 PQR++KV+A AG+ASRR E +I Q +V VNG + V +S D I V+G + K Sbjct: 77 PQRLAKVLAAAGVASRRTCEELIFQGKVTVNGSVCTAPQTKVDISKDSIYVNGNRISKKL 136 Query: 72 RTRLWL-YHKPIGLVTTHSDPDGRSTVFDNL--------PSIF-SRVISVGRLDINTEGL 121 +L+ +KP G + + +P ++FD+ P + R+ +VGRLD+ T GL Sbjct: 137 PPKLYFAVNKPKGYICSCGEPKSIISLFDDYLKGWNKIQPGVPKPRLFTVGRLDVATSGL 196 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLD 180 +++TNDG A+ L PS+ ++ Y V G V ++ L + +G I G+ C D+ LD Sbjct: 197 IIITNDGEFAQKLSHPSSNIMKEYVVTIDGPVHRNHLIAISEGTKIDGVKCIPDLVEPLD 256 Query: 181 TQKGSN-AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 Q + + + + EG+N E++++ + +V L R+ G F+L Sbjct: 257 VQSNTKRTRIRIAVHEGRNHEVRELVQNAGLEVYALKRVRIGRFRL 302 >gi|260905260|ref|ZP_05913582.1| pseudouridine synthase, Rsu [Brevibacterium linens BL2] Length = 238 Score = 117 bits (293), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 72/213 (33%), Positives = 116/213 (54%), Gaps = 3/213 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A AG+ SRR E++I RV+V+G ++ + T + VD V + + Sbjct: 2 RLQKILAEAGLGSRRACEQLILDGRVEVDGSIVTELGTRIDTETQAVYVDAVRISTQTQK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G+V+T SDPDGR + D + + R+ VGRLD TEGL+LLTNDG L+ Sbjct: 62 VYLVLNKPAGVVSTMSDPDGRPCLADYVKNRVDRLFHVGRLDTETEGLILLTNDGELSNR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y + GQ+ +D + LK G+ + G D +D+ G + V + Sbjct: 122 LAHPRYEIPKTYLAQVRGQLAKDVGSRLKAGMDLDDGFVKVDSFKLVDSTPGKSV-VELT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 L G+NR ++++ + V RL+R +GP L Sbjct: 181 LHSGRNRIVRRLLKEVGHPVERLVRTKFGPITL 213 >gi|309775550|ref|ZP_07670550.1| pseudouridine synthase RluB [Erysipelotrichaceae bacterium 3_1_53] gi|308916644|gb|EFP62384.1| pseudouridine synthase RluB [Erysipelotrichaceae bacterium 3_1_53] Length = 245 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 78/224 (34%), Positives = 117/224 (52%), Gaps = 5/224 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E +I++ RV VNG + V D IEVDG P+ K ++ Sbjct: 2 ERLQKVIAAAGITSRRKAEVLISEGRVAVNGKTVTELGYKVKRGDLIEVDGKPIAKEDKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP + T D GR TV D L R+ +VGRLD +T GL++LTNDG A Sbjct: 62 -YFLMNKPKRTMCTSEDEFGRQTVVD-LIDCEQRIFTVGRLDYDTSGLIILTNDGDFANE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGI--CYGDMQVTLDTQKGSNAWVT 190 + P +VY + +G + + + +K GIV+ GI ++T + + Sbjct: 120 IIHPRYHIPKVYNLTINGILTSEDMKKIKSGIVLDDGIKTLPAKYRITEKDPQKNQCSFD 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + EG+NR+IK++ E ++V RL R L G R Sbjct: 180 LTIVEGRNRQIKRMMEALGYEVRRLHRSKLAFLHCSDLRQGEYR 223 >gi|312196764|ref|YP_004016825.1| pseudouridine synthase [Frankia sp. EuI1c] gi|311228100|gb|ADP80955.1| pseudouridine synthase [Frankia sp. EuI1c] Length = 285 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 86/233 (36%), Positives = 128/233 (54%), Gaps = 17/233 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER- 72 R+ KV+A AG+ SRR E +I RV+V+G ++ V T IEVDG ER Sbjct: 47 RLQKVLASAGVGSRRHNEELIDAGRVRVDGKVVREQGRRVDPETAVIEVDG------ERV 100 Query: 73 -TRLWLYH----KPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLT 125 TR L H KP G+V+T SDP+ R T+ D L + + VGRLD+++EGLLL+T Sbjct: 101 VTRTGLVHLALNKPRGVVSTMSDPEDRPTISDLLTEFGASAGLFHVGRLDVDSEGLLLVT 160 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG 184 N+G LA L PS Q + Y+V+ +G + ++ + L + + G D +D Q G Sbjct: 161 NNGDLAHRLTHPSYQVPKTYQVQINGPLRKETMRRLHTRVELSDGPVRVDSARIID-QVG 219 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 S + + L EG+NR ++++ E V RL+R +G LGTL +G R ++ Sbjct: 220 SQILLEIVLHEGRNRIVRRMMEEVGHPVVRLLRTEFGAVHLGTLRSGRARHLT 272 >gi|295396784|ref|ZP_06806919.1| ribosomal large subunit pseudouridine synthase B [Brevibacterium mcbrellneri ATCC 49030] gi|294970368|gb|EFG46308.1| ribosomal large subunit pseudouridine synthase B [Brevibacterium mcbrellneri ATCC 49030] Length = 271 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 78/224 (34%), Positives = 120/224 (53%), Gaps = 3/224 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ KV+A AG+ SRR E+MI RV+V+G I++E + + VD +P+ + Sbjct: 35 RLQKVMADAGLGSRRACEQMILDGRVEVDGHIVIELGTRIDPTKQRLVVDSMPIETSTEK 94 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP +V++ DP+GR + + + R+ VGRLD TEGLLLLTNDG +A Sbjct: 95 VYFALNKPAKVVSSMGDPEGRRNLDEFVRDRTERLFHVGRLDYETEGLLLLTNDGDMANR 154 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y + G V +D L++GI + GI D +D+Q G A V V Sbjct: 155 LTHPRYEIPKKYLAQVKGPVAKDVGARLREGIELDDGISRVDSFKLIDSQPGV-ALVEVI 213 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 L GKNR ++++ V RL+R +GP +L G R++ Sbjct: 214 LHSGKNRIVRRLLSAVGNPVLRLVRTEFGPIELAEQRQGKMRQL 257 >gi|302338564|ref|YP_003803770.1| RNA-binding S4 domain protein [Spirochaeta smaragdinae DSM 11293] gi|301635749|gb|ADK81176.1| RNA-binding S4 domain protein [Spirochaeta smaragdinae DSM 11293] Length = 251 Score = 117 bits (292), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 74/227 (32%), Positives = 118/227 (51%), Gaps = 6/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ +AR+G+ SRR E++I++ V+VNG + + V+ D + G P+ + Sbjct: 15 RLQLYLARSGVGSRRACEKLISEGCVRVNGQVANSQGIKVVPGRDSVTYRGKPVFPTGKH 74 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 +KP+ + TH D +GR D + F R+ +VGRLD + GL+ TNDG A+ Sbjct: 75 YYIALNKPVRYLCTHYDLEGRPLAEDLIKGKFPVRLFNVGRLDFLSSGLIFFTNDGEFAK 134 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 ++ PS + + Y V ++ + L +KG+V++G Y + S V + Sbjct: 135 IITHPSHEIEKEYVVETAKRLSSELLEEFRKGVVVEGELYRIHAYNII----SPVKVKIV 190 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 LREGKNREI+K+F N KV RL R+ GP Q+ + G R + K Sbjct: 191 LREGKNREIRKLFTSKNIKVKRLHRVRIGPVQIAGMHPGEFRNLKPK 237 >gi|160895210|ref|ZP_02075982.1| hypothetical protein CLOL250_02769 [Clostridium sp. L2-50] gi|156863089|gb|EDO56520.1| hypothetical protein CLOL250_02769 [Clostridium sp. L2-50] Length = 272 Score = 117 bits (292), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 75/227 (33%), Positives = 122/227 (53%), Gaps = 11/227 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ AGI SRR + I + R+ +NG E + + D + VDG P+RK E T Sbjct: 6 RINKYLSEAGICSRRAADEYILKGRITINGKPAEMGQ-KIEANDRVMVDGKPVRKREETV 64 Query: 75 LWLYHKPIGLVTT--HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + Y+KP+GL T H DPD +FD++ R+ VGRLD +++GLLLLTNDG L+ Sbjct: 65 ILAYNKPLGLTCTASHDDPD---NIFDHIKYPI-RLQYVGRLDKDSQGLLLLTNDGDLSN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 ++ + YRVR + + + L + G+ I ++ K N + Sbjct: 121 SIQKSVNNHEKEYRVRVNKPITDEFLTQMAAGVPILDTVTKKCRLY----KIDNYSFKII 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + +G NR+I+++ E+F +KV L R+ +LG L G R ++K+ Sbjct: 177 ITQGLNRQIRRMCEYFGYKVVNLKRLRVINIRLGNLRPGEYRHLTKE 223 >gi|242310659|ref|ZP_04809814.1| RNA pseudouridine synthase [Helicobacter pullorum MIT 98-5489] gi|239523057|gb|EEQ62923.1| RNA pseudouridine synthase [Helicobacter pullorum MIT 98-5489] Length = 250 Score = 117 bits (292), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 125/229 (54%), Gaps = 18/229 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ IA SRRE +R+IAQ +V +N +++ + V + V+G LRK+E Sbjct: 2 RLNQYIAHHSKYSRREADRLIAQGKVSINKEIIKDFSYQVDDKVKVYVNGKCLRKSEEYT 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +Y+KP G + + D GR T++++LP F+ I VGRLD +EGLLLL++D ARV+ Sbjct: 62 VIVYNKPKGELVSKKDDRGRRTIYESLPKRFAHFIPVGRLDFASEGLLLLSDD---ARVV 118 Query: 135 -ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ----VTLDTQKGSNAWV 189 +L ++ R+Y ++ G++ ++ ++ G+ +Q G + +++ WV Sbjct: 119 TKLMESKMERIYLLKLSGKIQEEVFEAMENGLSLQDARAGGHKESKIQSMEFAPFLGYWV 178 Query: 190 ----------TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 V + EGKNRE+++ F F ++ L RISYG L L Sbjct: 179 LKNSTRYSKIKVAINEGKNRELRRFFAHFGLEILDLKRISYGFVSLNNL 227 >gi|284929158|ref|YP_003421680.1| ribosomal large subunit pseudouridine synthase B [cyanobacterium UCYN-A] gi|284809617|gb|ADB95322.1| ribosomal large subunit pseudouridine synthase B [cyanobacterium UCYN-A] Length = 254 Score = 117 bits (292), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 78/224 (34%), Positives = 127/224 (56%), Gaps = 15/224 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKA 70 +RV K++++ GIASRR E +I ++R+K+NG +L ++A N D +E+DG ++ Sbjct: 3 KRVQKILSQLGIASRRHAEILILEKRLKLNGQIVLLGDKADPN---HDLLELDGKIIKSH 59 Query: 71 ERTRLW--LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLT 125 ++T+L+ L +KP+G++ + D RS V D LPS + + VGRLD+N+ G LLLT Sbjct: 60 KKTQLFYILVNKPVGIICSCKDSQNRSIVMDLLPSNLRKGMGIHPVGRLDMNSSGALLLT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQK 183 NDG L L P ++Y V G Q L ++G+V+ G ++V + ++ Sbjct: 120 NDGNLTLRLTHPRYHLPKIYEVLVRGNFTQAILKDWRQGVVLDGKKTLPAYLEVINNNRQ 179 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 +N + L EGKNR I+++ + F V +L R + GP L T Sbjct: 180 YTNLKII--LTEGKNRHIRRIAQKFELDVIKLHRTAIGPISLST 221 >gi|193216644|ref|YP_001999886.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma arthritidis 158L3-1] gi|193001967|gb|ACF07182.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma arthritidis 158L3-1] Length = 251 Score = 117 bits (292), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 74/234 (31%), Positives = 116/234 (49%), Gaps = 26/234 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVN---GILLERAAVNVMSTDHIEVDGVPLRKAE 71 ++ K I++ G SRR+ E +I Q+R+K+N L +R V++ D I +DG L Sbjct: 13 KIQKAISQVGYCSRRQAEELIKQKRIKINHQVATLGQR----VLADDQIFIDGKKLNIKP 68 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +++KP + T DP+ R T+++ + + SVGRLD N+ G++L+TNDG A Sbjct: 69 PKFYLVFNKPKNTICTLKDPEKRKTIYEYM-GLKEYAYSVGRLDFNSTGIILVTNDGDFA 127 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--- 188 ++ PS RVY V ++ + N L VI L+ +K S + Sbjct: 128 NLIAHPSANIKRVYEVVLEKELSEGDFNYLNSNKVI-----------LNGKKSSQSLSKL 176 Query: 189 ----VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +V L EG+N +K +F N V L R+SYGP L G TR +S+ Sbjct: 177 APFKYSVSLYEGRNHHVKNLFLLVNNYVKELHRVSYGPITDANLKIGKTRHLSE 230 >gi|148379772|ref|YP_001254313.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A str. ATCC 3502] gi|153931029|ref|YP_001384070.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A str. ATCC 19397] gi|153937131|ref|YP_001387610.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A str. Hall] gi|148289256|emb|CAL83352.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A str. ATCC 3502] gi|152927073|gb|ABS32573.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A str. ATCC 19397] gi|152933045|gb|ABS38544.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A str. Hall] Length = 236 Score = 117 bits (292), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 75/229 (32%), Positives = 122/229 (53%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I + RV+VNGI ++ ++S D I+VDG + E Sbjct: 3 ERLQKYMASCGVASRRKCEDIILEGRVEVNGIKIKELGTKIISGKDIIKVDGNIIEPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G V T D R T+ D L + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKDRKTILD-LVKVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVT 190 + P + ++ Y+ + G + +D + L KKGI I Y TL+ K + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGD--YLTAPATLEILKINKDTSEII 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EGKNR+++++ + V L RIS G L G R ++ K Sbjct: 180 IKIHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKSDLKLGEWRYLTNK 228 >gi|196233446|ref|ZP_03132289.1| pseudouridine synthase [Chthoniobacter flavus Ellin428] gi|196222442|gb|EDY16969.1| pseudouridine synthase [Chthoniobacter flavus Ellin428] Length = 237 Score = 117 bits (292), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 80/234 (34%), Positives = 126/234 (53%), Gaps = 7/234 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ +A AG+ SRR VE +I +V++NG ++ + V TD ++V G L + E+ Sbjct: 2 RLNRFLASAGLGSRRGVEELITSGQVRINGQVVTDLSTQVGPTDAVKV-GSRLLRTEQKI 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G V T SD R T+FD LP+ + RV VGRLD ++EGLLL+TNDG L+ L Sbjct: 61 TVLLNKPAGYVCTASDERDRKTIFDLLPANWPRVYHVGRLDKDSEGLLLVTNDGDLSLAL 120 Query: 135 ELPSTQWLRVYRVRFHGQVD-QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 P + + Y V + QD+ LLK +I G + L+ +++ L Sbjct: 121 THPRYKIEKEYEVLLDKPFNPQDREKLLKGFHIIGGRAKAERVEILNPTH-----LSLTL 175 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 +G R+I+ + ++V RL RI GP ++G + G R ++ K + GP Sbjct: 176 TQGIKRQIRLMLYDLGYEVERLARIRLGPLKIGEMRPGEWRLLTSKEIAALKGP 229 >gi|299143841|ref|ZP_07036921.1| ribosomal large subunit pseudouridine synthase B [Peptoniphilus sp. oral taxon 386 str. F0131] gi|298518326|gb|EFI42065.1| ribosomal large subunit pseudouridine synthase B [Peptoniphilus sp. oral taxon 386 str. F0131] Length = 235 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 75/225 (33%), Positives = 124/225 (55%), Gaps = 2/225 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +G ASRR+ E I RVKVNG I+ E V + D + +D L+ + Sbjct: 2 RLQKYMAHSGAASRRKSEEYILDGRVKVNGKIVTELGYVVDENKDKVYLDDKRLKIIKEN 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+V+T D R TV D L +R+ +GRLDI+T GL++LT+DG + Sbjct: 62 TYIALNKPMGIVSTVKDEKDRKTVVD-LIDGSTRLYPIGRLDIDTTGLIILTDDGAITNK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + + Y G+ + +L++++KGI + + +V + +++ + V + Sbjct: 121 LTHPKNEINKTYIATVEGKPTKTELDMIRKGIKVGAEKFSPAKVKILKSFEADSIIEVII 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EGKN E+K +F+ N V +L RIS G +LG L G+ R +++ Sbjct: 181 HEGKNHEVKLMFDKINHPVKKLKRISIGDIELGDLEIGNFRYLTE 225 >gi|160915013|ref|ZP_02077226.1| hypothetical protein EUBDOL_01020 [Eubacterium dolichum DSM 3991] gi|158432812|gb|EDP11101.1| hypothetical protein EUBDOL_01020 [Eubacterium dolichum DSM 3991] Length = 244 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 77/208 (37%), Positives = 113/208 (54%), Gaps = 7/208 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AGIASRR+ E +I Q RV VNG L+ V D I VDG + K + Sbjct: 2 ERLQKVMAAAGIASRRKCEELIVQGRVSVNGQLVSELGYKVKKGDQIAVDGKMIEKEGKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP + T +D GR TV + L R+ +VGRLD +T G+LLLTNDG A Sbjct: 62 -YYLMNKPKKSMCTSNDEFGRKTVIE-LVEGTERIFTVGRLDYDTSGVLLLTNDGDFANE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM----QVTLDTQKGSNAWV 189 + P +VY + +G + + + LK GIV+ Y M ++T K + Sbjct: 120 IIHPRYHLPKVYNLTINGILKPEDMRKLKNGIVLDD-GYKTMPAKFKITEKDLKKNQCSF 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIR 217 + + EG+NR+IK++ E ++V RL R Sbjct: 179 DLTIYEGRNRQIKRMMEALGYEVRRLHR 206 >gi|296271690|ref|YP_003654321.1| RNA-binding S4 domain-containing protein [Arcobacter nitrofigilis DSM 7299] gi|296095865|gb|ADG91815.1| RNA-binding S4 domain protein [Arcobacter nitrofigilis DSM 7299] Length = 266 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 130/242 (53%), Gaps = 20/242 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +IA+ RVKVN + + V+ +D + +D P+ K E+ + Sbjct: 13 RLNKFISHNSKYSRREADAIIAEGRVKVNKKTITDLSTKVLDSDIVAIDNKPI-KFEKNK 71 Query: 75 LW---LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +Y+KP G + T +DP GR +FD L + + + +GRLD +EG+LLLT+ +A Sbjct: 72 MYTVLVYNKPKGELVTKNDPQGRRIIFDTLGAKYKHFLPIGRLDYASEGVLLLTDSVDVA 131 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG---DMQV----------- 177 L Q RVY+++ G +++ + + G+ ++ G D +V Sbjct: 132 NGLMHSDLQ--RVYKIKVSGPINKQVEDAMLHGLELEDATKGAWKDSKVKSMSFAPFLGY 189 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +D+ K + + + V + EGKNRE+++ F F V L R+ YG L L G +R ++ Sbjct: 190 KIDSVKDTFSKLKVAITEGKNRELRRFFAHFGLDVMDLKRVEYGGISLNNLPTGKSRYLT 249 Query: 238 KK 239 ++ Sbjct: 250 RE 251 >gi|113475036|ref|YP_721097.1| ribosomal large subunit pseudouridine synthase B [Trichodesmium erythraeum IMS101] gi|110166084|gb|ABG50624.1| ribosomal large subunit pseudouridine synthase B [Trichodesmium erythraeum IMS101] Length = 254 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 76/218 (34%), Positives = 120/218 (55%), Gaps = 6/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++++ GIASRR+ E+MI RVKVNG +++ D+IEVDG+P+R R Sbjct: 3 ERLQKILSQWGIASRRQAEQMIIAGRVKVNGKIVQLGEKAQPDLDNIEVDGLPIRPEARP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 L +KP+G+++T S+P RS V D L + + VGRLD ++ G LLLTNDG Sbjct: 63 SPIYLLLNKPMGVISTCSEPRKRSKVLDILNAELRNGKGIHPVGRLDADSTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNA 187 + L P + Y+V G + L L ++GI++ G +V L S Sbjct: 123 RVTYCLTHPKYCLSKTYQVLVEGHPQESILKLWRQGIILSGKKTLPAEVKVLKECNSSQT 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V + EG+NR+I++V + +V +L R + G +L Sbjct: 183 LLEVVISEGRNRQIRRVADKLGHRVLKLHRTAIGQIKL 220 >gi|307151744|ref|YP_003887128.1| RNA-binding S4 domain-containing protein [Cyanothece sp. PCC 7822] gi|306981972|gb|ADN13853.1| RNA-binding S4 domain protein [Cyanothece sp. PCC 7822] Length = 259 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 73/217 (33%), Positives = 118/217 (54%), Gaps = 5/217 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV K++++ GIASRR+ E++I RV++NG + D +EVDG ++ R Sbjct: 3 ERVQKILSQWGIASRRQAEKLILAGRVRLNGNIASLGDKADPHQDLLEVDGTIIQPVNRP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 R L +KP+G+V+T DP R TV + LP+ ++ + VGRLDIN+ G L+LTNDG Sbjct: 63 RPIYILLNKPLGVVSTCHDPQNRPTVLELLPATLNQGTGIHPVGRLDINSTGALVLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y+V G + L ++G+++ G QV + + Sbjct: 123 ELTLSLTHPRYHLPKTYQVWIDGNPGEQILQQWREGVMLMGKKTQPAQVKVVKRHHQQTQ 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V + EGKNR+I+++ + + V +L R + G QL Sbjct: 183 LQVVITEGKNRQIRRIVQLLGFNVLKLHRTAIGLIQL 219 >gi|118586875|ref|ZP_01544309.1| ribosomal pseudouridine synthase B, large subunit [Oenococcus oeni ATCC BAA-1163] gi|118432707|gb|EAV39439.1| ribosomal pseudouridine synthase B, large subunit [Oenococcus oeni ATCC BAA-1163] Length = 237 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 79/228 (34%), Positives = 122/228 (53%), Gaps = 4/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA+AG+ASRR+ E MI +VKVNG ++ + V S D + VD + + E Sbjct: 5 ERLQKRIAQAGVASRRKAEEMIVNGQVKVNGKIITKLGKKVSSDDIVYVDNKKINE-ESF 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G V+++ + +V + L +R+ SVGRLD +T G+LLLTNDG L + Sbjct: 64 EYYLLNKPAGYVSSNRSYPNQPSVIE-LIKTKTRIFSVGRLDQDTTGVLLLTNDGELTQK 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNAWVTV 191 L P + R Y G V++D+L L K I G Y ++ QK + + + Sbjct: 123 LTHPKHRIKRTYAAWVKGIVNEDELEQLTKPIRFDGEIYFPQAARILKVDQKRQESLIEI 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EGK EIKK+ +F V +L R + +G L G R +S++ Sbjct: 183 TIAEGKTHEIKKILDFIGHPVIKLNRDMFDGITIGNLKKGQYRALSEQ 230 >gi|296393714|ref|YP_003658598.1| pseudouridine synthase [Segniliparus rotundus DSM 44985] gi|296180861|gb|ADG97767.1| pseudouridine synthase [Segniliparus rotundus DSM 44985] Length = 272 Score = 116 bits (291), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 82/239 (34%), Positives = 127/239 (53%), Gaps = 14/239 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKA 70 + QR+ KV+ARAG+ASRR E++IA+ RV+V+G L+ V V T +EVDG + Sbjct: 17 SAQRLHKVLARAGVASRRGSEQLIAEGRVRVDGRLVTEQGVLVDPHTAVVEVDGKRIAVD 76 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRST-----------VFDNLPSIFSRVISVGRLDINTE 119 +R + +KP G++T SD R D + + + VGRLD +T Sbjct: 77 DRHATYALNKPKGVLTAMSDTRERCVGDLLREAGPDFAADGRAGLPAGLFHVGRLDADTT 136 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVT 178 GLLL++NDG LA L PS + + Y G V + + L+ G+V++ G D +V Sbjct: 137 GLLLVSNDGELAHRLAHPSYEIPKTYIATVRGVVAKRAVEQLRAGVVLEDGPAKAD-EVC 195 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L + V + L EG+NR ++++F+ V L R+ GP +LG L +G+ R +S Sbjct: 196 LRGSQRDRTVVEITLHEGRNRIVRRMFDEVGHPVIELARLRIGPIRLGDLRSGALRALS 254 >gi|188996649|ref|YP_001930900.1| pseudouridine synthase [Sulfurihydrogenibium sp. YO3AOP1] gi|188931716|gb|ACD66346.1| pseudouridine synthase [Sulfurihydrogenibium sp. YO3AOP1] Length = 244 Score = 116 bits (291), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 73/232 (31%), Positives = 124/232 (53%), Gaps = 4/232 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R++K IA++GI SRR+ + +I + +VKVNG +++ + D +EV+G ++ E+ Sbjct: 4 RLNKYIAQSGICSRRKADELIKEGKVKVNGEIIKDLGAKINPEKDIVEVEGNIIKPVEKK 63 Query: 74 RLWLYHKPIG-LVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 +KP+G L D GR T+ D L +I + VGRLD N+EGLL+LTNDG Sbjct: 64 IYIKIYKPVGYLSAVGKDKFGRKTLTDLLKELNIKENLFPVGRLDYNSEGLLILTNDGEF 123 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + P + +VY V +VD++ LN +KKG +++ + +V + + W+ Sbjct: 124 ANKIAHPKHKIKKVYHVEVVPKVDEETLNQMKKGAILEDGFFKPDKVEILKHTKDSTWLL 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + GK R +++ FN KV RL+R+ + L + ++ K +R Sbjct: 184 FEIHSGKKRILRRYVSKFNHKVKRLVRVKIDSISIENLKPHQFKHLTDKEVR 235 >gi|300855314|ref|YP_003780298.1| ribosomal large subunit pseudouridine synthase B [Clostridium ljungdahlii DSM 13528] gi|300435429|gb|ADK15196.1| ribosomal large subunit pseudouridine synthase B [Clostridium ljungdahlii DSM 13528] Length = 229 Score = 116 bits (291), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 74/218 (33%), Positives = 113/218 (51%), Gaps = 4/218 (1%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERTRLWLY 78 +A GIASRR+ E +I Q RVKVNG ++ + D I VD V + K + L Sbjct: 1 MAYCGIASRRKCESIILQGRVKVNGETIKSLGTKIDDKVDKITVDDVKIEKENKKVYILL 60 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS 138 +KP G V+T D GR+T+ D + + R+ +GRLD NT G+++LTNDG + + P Sbjct: 61 NKPTGYVSTVKDDRGRNTILD-IVKVKERIYPIGRLDYNTSGIIILTNDGEVYNKVAHPK 119 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVGLREG 196 + +VY G ++ ++ K G+ I G D + + +N+ V + + EG Sbjct: 120 MEKNKVYVAVIKGIPSKEDIDKFKNGVNIDGYITAKADFNILNINKSKNNSKVRIKIHEG 179 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 KNR+I+K+ + V L RIS G +G L G R Sbjct: 180 KNRQIRKMCDAIGHPVISLTRISIGNINVGNLEEGKWR 217 >gi|302330665|gb|ADL20859.1| Putative pseudourin ine synthase B [Corynebacterium pseudotuberculosis 1002] gi|308276349|gb|ADO26248.1| 16S rRNA uridine-516 pseudouridylate synthase-like pseudouridylate synthase [Corynebacterium pseudotuberculosis I19] Length = 286 Score = 116 bits (291), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 84/246 (34%), Positives = 129/246 (52%), Gaps = 11/246 (4%) Query: 2 KDKNIVQENF-TPQ----RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM- 55 K +N+ Q +F +P R+ KV+A+AG+ASRR E +I R++VNG ++ V V Sbjct: 29 KRQNVEQRDFGSPTGEGIRLQKVLAQAGVASRRHAEILIDAGRIEVNGKIVLTQGVRVNP 88 Query: 56 STDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVG 112 D I VDGV + E + ++ +KP GL +T SD GR V D + + R+ VG Sbjct: 89 HADIIRVDGVRINVNEDMQYFVLNKPRGLQSTMSDDMGRPCVGDIVGERIAAGQRLFHVG 148 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGIC 171 RLD TEGLLLLTNDG LA L P + + Y G+ D+ + L+ GI + G Sbjct: 149 RLDAATEGLLLLTNDGELANRLMHPKYEVTKTYLATVLGEADKRLIKQLRDGIELDDGPA 208 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 D +D +G + + + L EG+ ++++ + + V RL+R QLG G Sbjct: 209 KADFVQIVDAHQG-KSLIRIELHEGRKHIVRRMLKTAGFPVERLVRTKIHTIQLGEQTPG 267 Query: 232 STREVS 237 + R ++ Sbjct: 268 AVRALN 273 >gi|330467060|ref|YP_004404803.1| pseudouridine synthase [Verrucosispora maris AB-18-032] gi|328810031|gb|AEB44203.1| pseudouridine synthase [Verrucosispora maris AB-18-032] Length = 256 Score = 116 bits (291), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 80/231 (34%), Positives = 125/231 (54%), Gaps = 11/231 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+ KV+A AG+ SRR E +I +++V VNG + + +T I V+G L+ R Sbjct: 18 PERLQKVLAAAGVGSRRACEDLIFRRKVTVNGRVAQLGDKVDPATAVIHVNGERLQADTR 77 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP G+V+T +D GR+ + D L + + RV VGRLD ++EGLLLLTNDG LA Sbjct: 78 LVYLAMNKPRGVVSTMADERGRTALADFLNNRVEQRVYHVGRLDADSEGLLLLTNDGTLA 137 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-----GSN 186 L PS + Y G + ++ L GI ++ D V++D + G Sbjct: 138 HRLMHPSYGVQKTYLCEVAGPIPRNLGKRLAAGIELE-----DGPVSVDAFRVVDSLGRT 192 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 A V + L EG+ ++++ V+RL+R + GP +LG L +G TR ++ Sbjct: 193 AQVELSLHEGRKHIVRRLLAEVGHPVSRLVRTAIGPIRLGDLRSGRTRRLT 243 >gi|307720120|ref|YP_003891260.1| RNA-binding S4 domain-containing protein [Sulfurimonas autotrophica DSM 16294] gi|306978213|gb|ADN08248.1| RNA-binding S4 domain protein [Sulfurimonas autotrophica DSM 16294] Length = 267 Score = 116 bits (291), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 78/252 (30%), Positives = 126/252 (50%), Gaps = 24/252 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R++K IA SRRE ++ + V+VN + A V D + + G + E+ Sbjct: 3 RLNKYIAHYSTYSRREADKAVQDGYVRVNSEIETNPATQVQEGVDIVYISGKQVSPQEKY 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +Y+KP G + T +DP GR T++D+L F I VGRLD +EGLLLLT+ +A Sbjct: 63 TVIVYNKPKGELVTKNDPKGRKTIYDSLSKEFRHFIPVGRLDFASEGLLLLTDASHVA-- 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG----------DMQ--VTLDT 181 L + R+Y+++ G+V D + + GI + G D++ + Sbjct: 121 TSLMESDLERIYKLKIKGEVTPDMEDAMLNGIYLDDASAGAHSHSKITSMDIKPFIGYKI 180 Query: 182 QKGSNAW--VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK- 238 QK + + V L+EGKNRE+++ F F +V L R+S+ +L L G TR +S+ Sbjct: 181 QKNQPNYSILKVALKEGKNRELRRFFAHFGAEVADLKRVSFAEIELNNLPTGKTRYLSRS 240 Query: 239 ------KILREQ 244 K L+E+ Sbjct: 241 EYSALYKFLKEE 252 >gi|86147035|ref|ZP_01065352.1| pseudouridine synthase family 1 protein [Vibrio sp. MED222] gi|85835100|gb|EAQ53241.1| pseudouridine synthase family 1 protein [Vibrio sp. MED222] Length = 305 Score = 116 bits (290), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 87/240 (36%), Positives = 121/240 (50%), Gaps = 9/240 (3%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLA 131 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG LA Sbjct: 29 CRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDGELA 88 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS Q R Y VR G+V + K+ + +G+ ++ V +G N V Sbjct: 89 NRLMHPSRQVEREYLVRVFGEVTEQKVKNVTRGVQLEDGMARFEDVVYAGGEGMNHTFYV 148 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK---ILREQLGP 247 + EG+NRE+++++E V+RL R+ YG L L G +E+ + LRE + Sbjct: 149 AINEGRNREVRRLWESQETTVSRLKRVRYGDIYLDKKLPRGGWKELDLQEVNYLRELVEL 208 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 +E ++LD P +S R R I R ++ ++ G S Q K P R Sbjct: 209 QPEKETLLDLD-PANTSRKRERSRSQKIRRA---VKRHEERANAPKGRSNQTKRKKPATR 264 >gi|156340515|ref|XP_001620471.1| hypothetical protein NEMVEDRAFT_v1g223077 [Nematostella vectensis] gi|156205434|gb|EDO28371.1| predicted protein [Nematostella vectensis] Length = 275 Score = 116 bits (290), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 74/226 (32%), Positives = 117/226 (51%), Gaps = 7/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +G+ SRRE + IA V VNG ++ V TD I DG + E+ + Sbjct: 44 RLNKYIANSGVCSRREADTYIASGNVVVNGKVITEMGFKVKPTDDIRFDGTAISPEEK-K 102 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP +TT D GR TV D + + R+ VGRLD NT GLLL TNDG LA+ Sbjct: 103 YVLLNKPKNYITTMDDDRGRKTVMDLVQNAARERIYPVGRLDRNTTGLLLFTNDGDLAKK 162 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P ++Y +++ L+ ++ ++I+G + ++ +K V + Sbjct: 163 LTHPKHNVQKLYHASLDRKLEVKDLHKMRDEVIIEGKRVFIDEVDYVAGEKK---TEVGI 219 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + G+NR ++K+FE F +KV +L R+ + L G RE++ Sbjct: 220 KIHSGRNRIVRKIFEHFGYKVVKLDRVIFAGLTKKNLPRGRYRELT 265 >gi|291320012|ref|YP_003515270.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma agalactiae] gi|290752341|emb|CBH40312.1| Ribosomal large subunit pseudouridine synthaseB [Mycoplasma agalactiae] Length = 246 Score = 116 bits (290), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 83/230 (36%), Positives = 122/230 (53%), Gaps = 15/230 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNVMSTDHIEVDG--VPLRK 69 RV K+IA++G+ SRR+ E+MI++ V VNGI + ++A++N D I+V+G + L K Sbjct: 6 RVQKLIAQSGLMSRRDAEKMISKGLVFVNGIKSSIGDKASIN----DEIKVNGKIINLTK 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + +L +KP +TT DP GR TV D L + R++ VGRLD NT G+LLLT D Sbjct: 62 NTVFKYYLLNKPKNTITTSKDPKGRHTVID-LINTSERIVPVGRLDRNTTGVLLLTTDYE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + RVYR R + + L GI I G M + Q + +++ Sbjct: 121 LVNKLTHPKYEIERVYRARIDSPLTLKEFKELNAGIEID----GKMSYQIVDQVDTKSYL 176 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + L G +KK+FE V L R+SY + L G RE++ K Sbjct: 177 -ISLHVGSYHHVKKLFEKIGHSVLTLKRVSYANLTVDKLPEGMYRELTIK 225 >gi|209524582|ref|ZP_03273130.1| pseudouridine synthase [Arthrospira maxima CS-328] gi|209495040|gb|EDZ95347.1| pseudouridine synthase [Arthrospira maxima CS-328] Length = 257 Score = 116 bits (290), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 79/223 (35%), Positives = 119/223 (53%), Gaps = 12/223 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS---TDHIEVDGVPLRKA 70 +R+ K+I+ G+ASRR E MI RVKVNG +RA + + D IE+DG L + Sbjct: 3 ERLQKIISHWGVASRRHAEEMILSGRVKVNG---DRAYLGQKADPKCDRIEIDGRALHPS 59 Query: 71 ERTR--LWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLT 125 + + L +KP+G+V T ++P GR V D LP + + VGRLD ++ G LL+T Sbjct: 60 SQPQPLYLLLNKPLGVVCTCAEPQGRKAVLDLLPRQMRVGQGLHPVGRLDSDSTGALLIT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG 184 NDG L +L P + Y+V G + L ++GI++ G QV + Sbjct: 120 NDGELTFLLTHPRYHVAKTYQVLVQGCPPESVLEQWRQGILLSGKNTLPAQVRPIGKPSR 179 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 S + V LREG+NR+I++V E + V +L R + GP L + Sbjct: 180 SQTLLEVVLREGRNRQIRRVAEALGYPVVQLHRTAIGPIYLNS 222 >gi|332653044|ref|ZP_08418789.1| ribosomal large subunit pseudouridine synthase B [Ruminococcaceae bacterium D16] gi|332518190|gb|EGJ47793.1| ribosomal large subunit pseudouridine synthase B [Ruminococcaceae bacterium D16] Length = 237 Score = 116 bits (290), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 76/212 (35%), Positives = 111/212 (52%), Gaps = 1/212 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+I++ G+ASRR E I RV VNG L + + D +EVDG PLR Sbjct: 3 ERLQKLISQCGLASRRTAEEWITAGRVTVNGFLAQLGDRADLDRDRVEVDGRPLRGGSPR 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G VTT SD GR TV + RV VGRLD+++EGLLL+T+DG L Sbjct: 63 TYLMLNKPRGYVTTLSDEKGRKTVAALVSGCGKRVWPVGRLDLDSEGLLLMTDDGELTNS 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS Q + Y V G V+ L +L + + G +V + G +++ + Sbjct: 123 LLHPSHQVEKEYLVWVTGDVET-ALPILSGPMELDGEPLAPAKVARGRESGGVTQLSITI 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +GKNR+++++ +V RL RI G L Sbjct: 182 CQGKNRQVRRMCAQAGLEVTRLKRIREGQVSL 213 >gi|294790885|ref|ZP_06756043.1| ribosomal large subunit pseudouridine synthase B [Scardovia inopinata F0304] gi|294458782|gb|EFG27135.1| ribosomal large subunit pseudouridine synthase B [Scardovia inopinata F0304] Length = 257 Score = 116 bits (290), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 77/232 (33%), Positives = 123/232 (53%), Gaps = 2/232 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVP 66 QE+ R+ KV+A+AG SRR+ E MI RV+V+G L+ V V I VDG Sbjct: 13 QESHDGVRLQKVLAQAGFGSRRKCEVMITDGRVEVDGELVTELGVRVDPQHQEIRVDGSR 72 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + + +KP +++T DP GR T+ D + + R+ +GRLD +TEGL+L+T+ Sbjct: 73 IHLSNKHITLALNKPRKVLSTMDDPKGRWTLRDIVGDRYERIFHMGRLDYDTEGLILMTD 132 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN-LLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA+ + P + + Y G + + L++ G+ + Q ++ TQ Sbjct: 133 DGELAQHVMHPKYEIEKTYIATVEGHIGGGVCHRLVRTGVQLDDGWIKLDQCSIITQNRE 192 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + V L G+NR ++++F + V RLIR GP LG L +GS R +S Sbjct: 193 RSVLKVVLHSGRNRIVRRIFGSIGFPVTRLIRTQIGPISLGELKSGSYRILS 244 >gi|262198800|ref|YP_003270009.1| pseudouridine synthase [Haliangium ochraceum DSM 14365] gi|262082147|gb|ACY18116.1| pseudouridine synthase [Haliangium ochraceum DSM 14365] Length = 553 Score = 116 bits (290), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 76/238 (31%), Positives = 128/238 (53%), Gaps = 7/238 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ + +++ G+A+RR+ E +I V VNG + V+ D + V G + E Sbjct: 6 RLQRYLSQCGVAARRKAEELITSGVVSVNGQRVTELGTKVVPGRDRVSVRGEAVYPEEPF 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP G +T +DP+ R TV + L + +RV+ VGRLD +EG+LLLTNDG L+ Sbjct: 66 YVLL-NKPKGCLTAVTDPENRPTVMEYLHGLPARVVPVGRLDFYSEGVLLLTNDGDLSAR 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQV-TLDTQKGSNAWVTV 191 L+ P + Y V+ QV + L +L++G+ ++ G Q+ L K + W+ + Sbjct: 125 LQSPRHHVEKTYHVKVRDQVTERHLEVLRQGVRLEDGTVTRPAQIDMLGGTKSRHDWLVI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK---ILREQLG 246 L EGK+R+I ++ + V +L R+++G L G RE+++ LRE +G Sbjct: 185 TLTEGKSRQIHRMLGVLGYTVMKLQRVAFGGLTFHGLRVGDARELTQAEVNDLRELVG 242 >gi|300858398|ref|YP_003783381.1| hypothetical protein cpfrc_00980 [Corynebacterium pseudotuberculosis FRC41] gi|300685852|gb|ADK28774.1| hypothetical protein cpfrc_00980 [Corynebacterium pseudotuberculosis FRC41] gi|302206111|gb|ADL10453.1| Putative ribosomal large subunit pseudourinine synthase B [Corynebacterium pseudotuberculosis C231] Length = 373 Score = 116 bits (290), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 85/250 (34%), Positives = 130/250 (52%), Gaps = 11/250 (4%) Query: 2 KDKNIVQENF-TPQ----RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM- 55 K +N+ Q +F +P R+ KV+A+AG+ASRR E +I R++VNG ++ V V Sbjct: 116 KRQNVEQRDFGSPTGEGIRLQKVLAQAGVASRRHAEILIDAGRIEVNGKIVLTQGVRVNP 175 Query: 56 STDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVG 112 D I VDGV + E + ++ +KP GL +T SD GR V D + + R+ VG Sbjct: 176 HADIIRVDGVRINVNEDMQYFVLNKPRGLQSTMSDDMGRPCVGDIVGERIAAGQRLFHVG 235 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGIC 171 RLD TEGLLLLTNDG LA L P + + Y G+ D+ + L+ GI + G Sbjct: 236 RLDAATEGLLLLTNDGELANRLMHPKYEVTKTYLATVLGEADKRLIKQLRDGIELDDGPA 295 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 D +D +G + + + L EG+ ++++ + + V RL+R QLG G Sbjct: 296 KADFVQIVDAHQGK-SLIRIELHEGRKHIVRRMLKTAGFPVERLVRTKIHTIQLGEQTPG 354 Query: 232 STREVSKKIL 241 + R ++ L Sbjct: 355 AVRALNSSEL 364 >gi|327403362|ref|YP_004344200.1| ribosomal large subunit pseudouridine synthase B [Fluviicola taffensis DSM 16823] gi|327318870|gb|AEA43362.1| ribosomal large subunit pseudouridine synthase B [Fluviicola taffensis DSM 16823] Length = 339 Score = 115 bits (289), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 76/227 (33%), Positives = 117/227 (51%), Gaps = 4/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ AG+ SRRE + +I V VNG ++ + D I+ DG + AE R Sbjct: 106 RLNKYLSNAGVCSRREADVLIQTGVVSVNGEVITEMGYKIKPGDKIQYDGETIN-AETKR 164 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD-NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G +TT DP GR TV + + R+ VGRLD +T GLLL TNDG +A+ Sbjct: 165 YVLLNKPKGFITTMDDPLGRKTVMGLVIKACKERIYPVGRLDRDTTGLLLFTNDGDMAKK 224 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L P + ++Y V V + L L GI ++ G D + K S+ V V Sbjct: 225 LTHPRYEATKIYHVEVDKPVQSEHLEQLMSGIELEDGTIKADKAEYVKDGK-SSREVGVE 283 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + GKNR ++++FE ++V +L R+ + L G R +++K Sbjct: 284 IHSGKNRIVRRMFEKLGYEVVKLDRVQFASLTKKDLPRGYYRHLTEK 330 >gi|194246524|ref|YP_002004163.1| 16S rRNA pseudouridylate synthase [Candidatus Phytoplasma mali] gi|193806881|emb|CAP18310.1| 16S rRNA pseudouridylate synthase [Candidatus Phytoplasma mali] Length = 242 Score = 115 bits (289), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 72/226 (31%), Positives = 121/226 (53%), Gaps = 6/226 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+++ + +ASRR+ E++I ++RVKVNG L+ + V V D I VD ++ +E Sbjct: 2 ERLQKILSYSNVASRRKSEKLILEKRVKVNGKLVTKLGVKVSKKDIILVDDQIIKNSENC 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G ++T D R TV D + R+ VGRLD NT GLLL+TNDG L + Sbjct: 62 -YYLINKPSGCISTVKDEKNRPTVIDLIKDTEKKRIYPVGRLDFNTTGLLLITNDGQLTK 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ----GICYGDMQVTLDTQKGSNAW 188 L PS+ + Y V+ + + +L L++G++I + + + W Sbjct: 121 KLTHPSSLIEKEYHVKINYCLSSLELKKLQQGVIIDENYLSVPKKIKILKKRLLPKPSTW 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + + EGKN +I+K+ E + + +LIR Y + + G R Sbjct: 181 LQIIITEGKNHQIRKMMEKLGFHILKLIRYRYAFLTIKGIKKGQYR 226 >gi|116623183|ref|YP_825339.1| ribosomal large subunit pseudouridine synthase B [Candidatus Solibacter usitatus Ellin6076] gi|116226345|gb|ABJ85054.1| ribosomal large subunit pseudouridine synthase B [Candidatus Solibacter usitatus Ellin6076] Length = 264 Score = 115 bits (289), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 71/247 (28%), Positives = 134/247 (54%), Gaps = 2/247 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDH 59 M+ K QE T + + +V ++AG SR + + I+ +V+VNG ++L D Sbjct: 1 MEKKRNRQEKITLKTLERVFSKAGAGSRTDARKWISGGKVRVNGKVVLNPDHWVDPDHDK 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + ++G PL+ A ++ + LY KP G +TT+ DP+GR TV+ L + + VGRLD++T Sbjct: 61 VTLEGKPLKAATKSYILLY-KPKGYLTTYRDPEGRPTVYALLGDVGKWLSPVGRLDLDTS 119 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LTND A + P + + Y+++ + +++ L+ G+ + +V Sbjct: 120 GLLVLTNDNDFAERITNPEHKVPKTYQIKAATVLSDEQIERLRAGVELSDGPTRPAEVKR 179 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + ++ + + EG+NR+++++ E KV++L+R + GP ++G L G R ++ Sbjct: 180 LRDGPKHTFLEMTITEGRNRQVRRMLEAVESKVSKLVRTAIGPVRIGELPIGKWRNLTAD 239 Query: 240 ILREQLG 246 + E G Sbjct: 240 EVHELRG 246 >gi|254416564|ref|ZP_05030315.1| conserved hypothetical protein, putative [Microcoleus chthonoplastes PCC 7420] gi|196176530|gb|EDX71543.1| conserved hypothetical protein, putative [Microcoleus chthonoplastes PCC 7420] Length = 255 Score = 115 bits (289), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 81/238 (34%), Positives = 127/238 (53%), Gaps = 17/238 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV K+I++ GIASRR+ E+MI RV++NG +++ TD IEV+G L+ + R Sbjct: 3 ERVQKIISQWGIASRRQAEKMIVAGRVRLNGTVVQLGQKANPETDLIEVNGQRLKPSNRP 62 Query: 74 R--LWLYHKPIGLVTT-------HSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGL 121 + L +KP+G+V+T ++ + R TV D LPS + + VGRLD+ + G Sbjct: 63 QAIYLLLNKPVGVVSTCRNYRVCNTILEKRRTVLDLLPSTIRQGQGIHPVGRLDMESTGA 122 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 L+LTNDG L L P + YRV G + L+ ++G+ + G QV + Sbjct: 123 LILTNDGTLTYKLTHPRHHVPKTYRVWVKGHPPESILSAWRQGVDLSGRTTLPAQVRVLK 182 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTR 234 Q+ + + L EG+NR+I++V + + V L R + GP QL LL+G R Sbjct: 183 QQPDKTLLEIVLTEGRNRQIRRVADLLGYPVIHLHRTAIGPIQLQRPGEPILLSGHYR 240 >gi|116515110|ref|YP_802739.1| YciL [Buchnera aphidicola str. Cc (Cinara cedri)] gi|116256964|gb|ABJ90646.1| ribosomal large subunit pseudouridine synthase B [Buchnera aphidicola str. Cc (Cinara cedri)] Length = 243 Score = 115 bits (289), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 90/231 (38%), Positives = 131/231 (56%), Gaps = 8/231 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILL---ER-AAVNVMSTDHIEVDGVPLR 68 +++ K+++ G+ SRR +E+ I + +K+NG ++ ER N+ S Sbjct: 2 AEKIQKILSNCGVDSRRNIEKHILNKSLKINGKIVHIGERFLKKNIKSIF--LKKKKIFI 59 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 K E+T++ +YHKP+G + T D R TVF LP +F S+ IS+GRLDINT GLLL TN Sbjct: 60 KNEKTKILIYHKPVGEICTKKDQYNRITVFKKLPKLFFSKWISIGRLDINTSGLLLFTNF 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y V G++ + K+ LLKKGI+I ++ +K N Sbjct: 120 GELAHRLMHPSYRIKREYLVCVLGKILKKKILLLKKGILINNSISKFHEIIFLKKKKKNQ 179 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVS 237 W V L +GKNRE++ ++ N KVNRLIRI +G L L +G E+S Sbjct: 180 WFKVSLFQGKNREVRLLWNAINIKVNRLIRIKFGIITLPKFLKSGCFFELS 230 >gi|94968658|ref|YP_590706.1| pseudouridine synthase, Rsu [Candidatus Koribacter versatilis Ellin345] gi|94550708|gb|ABF40632.1| Pseudouridine synthase, Rsu [Candidatus Koribacter versatilis Ellin345] Length = 254 Score = 115 bits (289), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 76/226 (33%), Positives = 119/226 (52%), Gaps = 4/226 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM--STDHIEVDGVPLRKAERT 73 +++V+++ G SR +I V+VNG +ER + D +EV + +R A R Sbjct: 15 LARVLSKLGYCSRARAFELIRADEVRVNG-KVERNPERPTDPARDRVEVAHIAIRAA-RF 72 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP GL+TT SD GR T++ LP V VGRLD +EGLLLLTND A Sbjct: 73 LYYVVNKPRGLITTASDEKGRETIYSLLPPDSPWVAPVGRLDKASEGLLLLTNDSEWAAK 132 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P++ + Y V+ + + L +GI G +V++ G N W+ + L Sbjct: 133 ITDPNSHLDKTYHVQVSTLPSEQMVEALSRGIRSDGELLLAKRVSILRAGGKNGWLEIVL 192 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 EGKNR+I+++ +V RLIR++ GP LG L G R ++ + Sbjct: 193 EEGKNRQIRRMVAALQIEVLRLIRVAIGPLTLGELPKGGCRALTAE 238 >gi|327440834|dbj|BAK17199.1| 16S rRNA uridine-516 pseudouridylate synthase [Solibacillus silvestris StLB046] Length = 247 Score = 115 bits (289), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 81/235 (34%), Positives = 132/235 (56%), Gaps = 7/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E++I + +VKVNG++++ V ++D IEV+GV L K ++ Sbjct: 2 ERLQKVIAYAGVASRRKAEQLIVEGKVKVNGVVVKELGTKVSNSDTIEVEGVKLEKEDKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY KP ++ +D GR TV D + R+ VGRLD +T GLLLLTNDG + Sbjct: 62 YFLLY-KPRAYISAVTDDKGRKTVTDIFKKHVHQRIFPVGRLDYDTTGLLLLTNDGEFSN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 ++ P + + Y R G + L L+ GI ++ +V++ + +K A Sbjct: 121 LMTHPKFKIDKTYIARVKGIPTKQGLMKLQSGIKLEDGKTAPAKVSMTSFDEKAGKAICE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILR 242 + + EG+NR+++++FE V +L R + L L G R+++K K+LR Sbjct: 181 ITIHEGRNRQVRRMFEAIGTPVVKLKRERFAFLDLTGLSPGEYRQLTKHEVKLLR 235 >gi|229496471|ref|ZP_04390186.1| ribosomal large subunit pseudouridine synthase B [Porphyromonas endodontalis ATCC 35406] gi|229316611|gb|EEN82529.1| ribosomal large subunit pseudouridine synthase B [Porphyromonas endodontalis ATCC 35406] Length = 459 Score = 115 bits (289), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 76/233 (32%), Positives = 126/233 (54%), Gaps = 5/233 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 TP R++K +A +G+ SRR +++I V VNG ++ + +V D I VDG P+ E Sbjct: 222 TPLRLNKFLASSGVCSRRVADQLIVDGHVSVNGEIVTQLGKHVTREDFISVDGKPV-SIE 280 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGL 130 + L +KP VTT SDP+ R T D + + + R+ VGRLD NT GLLLLTNDG L Sbjct: 281 KKIYVLLNKPRNCVTTSSDPEKRLTAIDLVRNACNERIYPVGRLDRNTTGLLLLTNDGDL 340 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L P + ++Y+V V + + + GI ++ G + D +D + + A V Sbjct: 341 AAKLMHPKYEKKKIYQVTLDKPVSVEHMQQIASGIELEDGEIHADAISYVD--ENNLAIV 398 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + G+NR ++++F+ ++V +L R+ + L G R +++ +R Sbjct: 399 GIEIHSGRNRIVRRIFKHLGYRVYKLDRVYFAGLTKKDLPRGRWRYLTEDEVR 451 >gi|294507508|ref|YP_003571566.1| ribosomal large subunit pseudouridine synthase B [Salinibacter ruber M8] gi|294343836|emb|CBH24614.1| ribosomal large subunit pseudouridine synthase B [Salinibacter ruber M8] Length = 261 Score = 115 bits (289), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 76/233 (32%), Positives = 121/233 (51%), Gaps = 7/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ SRR+ + ++ Q RV ++G +++ V + VDG + E Sbjct: 24 RINKYIAHAGVCSRRDADDLVEQGRVHIDGERVDQHGTRVREGQTVTVDGEEVYPLEFEY 83 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L +KP ++T DP R TV D + S + VGRLD NT G+LL++NDG LA Sbjct: 84 LLL-NKPKDTISTTDDPKDRRTVLDAIGVPEDNPSGLFPVGRLDRNTTGVLLVSNDGDLA 142 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + ++Y VR V +L+ LK+G+ + G D LD Q+ ++ + Sbjct: 143 HRLMHPRYEIPKIYYVRLQDDVKPHQLDQLKRGVELSDGAAAADQVAYLDPQRKTD--IA 200 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L EG+NR+I+++ E + +L R Y G L G R + + +RE Sbjct: 201 LELHEGRNRQIRRMMEALGHTIVQLERAKYATLTTGRLQRGEWRRLEPEEVRE 253 >gi|83319317|ref|YP_424568.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma capricolum subsp. capricolum ATCC 27343] gi|83283203|gb|ABC01135.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma capricolum subsp. capricolum ATCC 27343] Length = 252 Score = 115 bits (289), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 117/229 (51%), Gaps = 7/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +R+ KVI+ G SRR E++I + RVKVN ++ + V + I +D V Sbjct: 4 ERLQKVISSRGYCSRRTAEKLILENRVKVNNQIINKLGVKIDPKAEIIIDNKLVTSDSNN 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +L++KP ++TT DP R TV D + RV VGRLD + GLL++TNDG L+ Sbjct: 64 QKYYYLFYKPRLVLTTMYDPKKRKTVADYFKDLNHRVYPVGRLDYDVSGLLIMTNDGELS 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----ICYGDMQVTLDTQKGSNA 187 + P ++L+ Y+ GQV++ ++N L KG+ I Y + D K + Sbjct: 124 NFIMHPKYEFLKTYQGLCQGQVNKQQVNQLIKGVYIDNNYLTKAYSSKLIKYDKLKNV-S 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + EGK +KK+FE ++ +L R ++ L G RE+ Sbjct: 183 IVELTINEGKKHHVKKMFESIQAQLLKLKRTRIEFLEIDNLKPGQYREL 231 >gi|254525127|ref|ZP_05137182.1| pseudouridylate synthase [Stenotrophomonas sp. SKA14] gi|219722718|gb|EED41243.1| pseudouridylate synthase [Stenotrophomonas sp. SKA14] Length = 240 Score = 115 bits (289), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 82/226 (36%), Positives = 118/226 (52%), Gaps = 5/226 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 +++V+++AG+ SR E R IA+ RV+V+G ++ + IEVDG PL +R Sbjct: 5 LARVLSKAGVCSRSEAARWIAEGRVRVSGRIVRDPEFPIGQPAPPIEVDGQPLAAPQRLY 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L +KP G+VTT D GR TV+ + VGRLD +EGLLL +ND A Sbjct: 65 LML-NKPRGVVTTVQDERGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAAR 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T + Y V+ G D L L+ G+ +G V + AW+ V L Sbjct: 124 LTDPQTGPDKTYHVQVDGMPDHATLAALQAGVEDEGEFLAAHAVRVLRSGDKTAWLEVVL 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR--EVS 237 EG+NR I+++ F+ +V RL+R++ G LG L G R EVS Sbjct: 184 DEGRNRHIRRLLAAFDLQVLRLVRVAIGGLVLGDLGKGQWRVLEVS 229 >gi|78187542|ref|YP_375585.1| pseudouridine synthase, Rsu [Chlorobium luteolum DSM 273] gi|78167444|gb|ABB24542.1| ribosomal large subunit pseudouridine synthase B [Chlorobium luteolum DSM 273] Length = 250 Score = 115 bits (288), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 77/228 (33%), Positives = 121/228 (53%), Gaps = 8/228 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+++ +A GIASRR ++M+ + RV +NG+L V V+ D + VDG + E Sbjct: 14 RINRYLAMCGIASRRAADQMVLEGRVTINGVLASEPGVKVVPGKDEVIVDGSKFAQPEGR 73 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ L++KP ++TT SD R V D + + RV VGRLD T G+LLLTNDG LA Sbjct: 74 KIYILFNKPRNVITTSSDERNREMVLDFI-DVNERVYPVGRLDRKTTGVLLLTNDGMLAN 132 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKGSNAWVT 190 L PS+ + Y Q L LL G+ + G Q + GS W++ Sbjct: 133 KLMHPSSNVKKEYIAVLDAPFPQASLPLLTGGMRLSDTGEKVSPCQAKI-MGDGSQVWIS 191 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EGKN +++++F+ ++V RL R +Y +G L G R +++ Sbjct: 192 I--HEGKNHQVRRMFKTLGFEVTRLDRPTYAGLTVGDLRRGQWRHLTR 237 >gi|229817643|ref|ZP_04447925.1| hypothetical protein BIFANG_02913 [Bifidobacterium angulatum DSM 20098] gi|229785432|gb|EEP21546.1| hypothetical protein BIFANG_02913 [Bifidobacterium angulatum DSM 20098] Length = 257 Score = 115 bits (288), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 76/234 (32%), Positives = 125/234 (53%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A+AG SRR+ E+MI RV+V+G L+ V T I VDG +R + + Sbjct: 20 RLQKLLAQAGFGSRRKCEQMITDGRVEVDGELVTELGTRVDPTHQQIRVDGSRVRISNKH 79 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TNDG L++ Sbjct: 80 ITLALNKPRKVLSAMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTNDGELSQH 139 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA-----W 188 + P + + Y G++ + + +V G+ D + LD +A Sbjct: 140 VMHPKYEVEKTYIATLEGRIS----GTVCRRLVTTGVQLDDGWIKLDRCAIIDATHDTTI 195 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V V L GKNR ++++F + V RL+R GP +LG L +GS R +S+ +R Sbjct: 196 VKVVLHSGKNRIVRRIFGSIGFPVKRLVRTQIGPIKLGDLKSGSYRVLSQTEVR 249 >gi|42524638|ref|NP_970018.1| putative pseudouridylate synthase [Bdellovibrio bacteriovorus HD100] gi|39576848|emb|CAE78077.1| putative pseudouridylate synthase [Bdellovibrio bacteriovorus HD100] Length = 265 Score = 115 bits (288), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 72/205 (35%), Positives = 111/205 (54%), Gaps = 7/205 (3%) Query: 34 MIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLW-LYHKPIGLVTTHSDP 91 MI + V VNG + + V +D I VDG PLRK +++ + +KP G++TT DP Sbjct: 1 MIEEGLVTVNGKRVYELGIKVDPQSDRILVDGKPLRKPLTQKIYAILNKPTGVLTTMDDP 60 Query: 92 DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG 151 R TV + L + RV VGRLD ++EG+LLLTNDG A + P + + Y V+ +G Sbjct: 61 HDRPTVAEYLTELPVRVFPVGRLDWDSEGMLLLTNDGDFANKVMHPKAEVTKTYLVKLNG 120 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-----AWVTVGLREGKNREIKKVFE 206 + + +L LKKG+ I G + + G N W + + EGKNR+I+++F Sbjct: 121 KPEPFQLEKLKKGVSIVGGKVSARHIEKIKKTGDNKSEKYEWYKIVITEGKNRQIRQMFA 180 Query: 207 FFNWKVNRLIRISYGPFQLGTLLAG 231 + V RL R++ G ++G + G Sbjct: 181 KIGFDVMRLQRVAIGRLRMGAVKTG 205 >gi|311742416|ref|ZP_07716225.1| ribosomal large subunit pseudouridine synthase B [Aeromicrobium marinum DSM 15272] gi|311314044|gb|EFQ83952.1| ribosomal large subunit pseudouridine synthase B [Aeromicrobium marinum DSM 15272] Length = 247 Score = 115 bits (288), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 82/237 (34%), Positives = 126/237 (53%), Gaps = 7/237 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ SRR E+++A+ V+VNG + + + V +TD I VDG L Sbjct: 11 RLQKVLAQAGLGSRRRCEQLMAEGHVEVNGEITTQMGIRVDPATDVIHVDGRRLPPPSDH 70 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+VT+ +D GR + L R+ VGRLD +T GLL++TNDG LA Sbjct: 71 VYVLLNKPRGVVTSMADERGRPDLRSLLADRTERLFHVGRLDTDTSGLLMMTNDGDLAHR 130 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L PS ++ + Y G VD LK G+ + G D DT +G + V + Sbjct: 131 LAHPSFEFTKTYVALVEGVVDPAVGTRLKSGVELDDGPATVDRFRIKDTSQG-RSLVELD 189 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 L G+NR ++++ V L R ++GP +L L +G R+++ R++LG L Sbjct: 190 LHMGRNRIVRRLLAEVGHPVVELTRTAFGPLRLAGLGSGRARDLT----RDELGALL 242 >gi|330723277|gb|AEC45647.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma hyorhinis MCLD] Length = 242 Score = 115 bits (288), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 120/229 (52%), Gaps = 12/229 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILL---ERAAVNVMSTDHIEVDGVPLRKA 70 +++ K+I++ G SRR E++I Q RV VN L ++A+ + D I++D L+KA Sbjct: 3 EKIQKLISQTGYCSRRNAEKLILQNRVFVNNQLATIGQKASFD----DEIKIDNQILKKA 58 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E + ++KP +V T D R + D P + VGRLD NT G++LLTNDG L Sbjct: 59 EHI-YYAFYKPKRVVCTREDNFNRKKIIDFFPKK-EYLFPVGRLDFNTTGIILLTNDGEL 116 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P Q R Y V +G + +++N K ++ Q+ +K +N ++ Sbjct: 117 ANKLIHPKFQIERTYLVHTNGDLSDEQINFANKNVIKLNNEINSRQII--KKKATNKYI- 173 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V L++G N +K++F+ F +V L R+ + L L G R+++ K Sbjct: 174 VKLKQGSNHHVKRLFDHFQIEVLDLKRVQFASINLANLSLGQYRKLTPK 222 >gi|304373099|ref|YP_003856308.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma hyorhinis HUB-1] gi|304309290|gb|ADM21770.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma hyorhinis HUB-1] Length = 237 Score = 115 bits (288), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 120/229 (52%), Gaps = 12/229 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILL---ERAAVNVMSTDHIEVDGVPLRKA 70 +++ K+I++ G SRR E++I Q RV VN L ++A+ + D I++D L+KA Sbjct: 3 EKIQKLISQTGYCSRRNAEKLILQNRVFVNNQLATIGQKASFD----DEIKIDNQILKKA 58 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E + ++KP +V T D R + D P + VGRLD NT G++LLTNDG L Sbjct: 59 EHI-YYAFYKPKRVVCTREDNFNRKKIIDFFPKK-EYLFPVGRLDFNTTGIILLTNDGEL 116 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P Q R Y V +G + +++N K ++ Q+ +K +N ++ Sbjct: 117 ANKLIHPKFQIERTYLVHTNGDLSDEQINFANKNVIKLNNEINSRQII--KKKATNKYI- 173 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V L++G N +K++F+ F +V L R+ + L L G R+++ K Sbjct: 174 VKLKQGSNHHVKRLFDHFQIEVLDLKRVQFASINLANLSLGQYRKLTPK 222 >gi|223985880|ref|ZP_03635918.1| hypothetical protein HOLDEFILI_03224 [Holdemania filiformis DSM 12042] gi|223962146|gb|EEF66620.1| hypothetical protein HOLDEFILI_03224 [Holdemania filiformis DSM 12042] Length = 244 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 75/223 (33%), Positives = 121/223 (54%), Gaps = 4/223 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K+IA +G+ SRR+ E I Q RVKV+G ++ V IEVDG + + ++ Sbjct: 3 RLQKIIAASGLTSRRKAEEWILQGRVKVDGQVVTELGVKPRKGALIEVDGKAIAREDKV- 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP ++ T +D R TV D + + RV VGRLD +T G+L++TNDG A + Sbjct: 62 YYVMNKPKKVLCTLNDEHDRRTVVDLMMDVPQRVFPVGRLDYDTTGVLIMTNDGEFANEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGI--CYGDMQVTLDTQKGSNAWVTV 191 P +VY V +G + +++ L++G+V+ GI + VT + Sbjct: 122 IHPRYHIAKVYEVTINGILKTEEIKQLEQGVVLDDGIKTLPAKLWVTNKDFAHEQTMFEL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 ++EG+NR+IK++ E F ++V RL R S GP + L G R Sbjct: 182 TIQEGRNRQIKRMLEVFGYEVRRLHRRSLGPITVRGLNPGEYR 224 >gi|289548362|ref|YP_003473350.1| pseudouridine synthase [Thermocrinis albus DSM 14484] gi|289181979|gb|ADC89223.1| pseudouridine synthase [Thermocrinis albus DSM 14484] Length = 247 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 77/225 (34%), Positives = 115/225 (51%), Gaps = 3/225 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K ++ G+ SRR+ +++I + RVKVNG+++ + D +EVDG L K R Sbjct: 9 RLNKYLSMCGVTSRRKADQLIKEGRVKVNGLVVRELGYKIDPHRDTVEVDGKVL-KPPRK 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R +KP +T G D L I RV GRLD N EGLL+LTNDG LA Sbjct: 68 RYIALYKPCCYLTAIGRGVGDKKPLDELLKGIPERVFPAGRLDYNAEGLLILTNDGELAN 127 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY+V G+V+Q L + +G + V +G N W+ + Sbjct: 128 RILHPRYKLPKVYKVLVRGKVEQATLKRMLEGAQLLDGFAKPQDVKFLRYEGENTWLQIT 187 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 G+ +K+ F KV RLIRI+ GP +LG L G R+++ Sbjct: 188 FTIGRKHIVKRYCAHFGHKVLRLIRIAIGPIRLGKLSPGKWRDLT 232 >gi|38233785|ref|NP_939552.1| putative pseudouridine synthase B [Corynebacterium diphtheriae NCTC 13129] gi|38200046|emb|CAE49722.1| Putative pseudouridine synthase B [Corynebacterium diphtheriae] Length = 321 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 81/228 (35%), Positives = 123/228 (53%), Gaps = 6/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E +I RV+VNG ++ + V + D I VDGV + E Sbjct: 82 RLQKVLAQAGVASRRHAEILIDAGRVEVNGKIVMTQGMRVNPNVDVIRVDGVRVNVNENL 141 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGL 130 + ++ +KP GL +T SD GR V D + S R+ VGRLD TEGLLLLTNDG L Sbjct: 142 QYFVLNKPRGLQSTMSDDMGRPCVGDIVGERISAGQRLFHVGRLDAATEGLLLLTNDGEL 201 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + + Y G+ D+ + L+ GI + G D+ +DT +G + + Sbjct: 202 ANRLMHPRYEVSKTYLATVLGEADKRLVKQLRDGIELDDGPAKADLVQIIDTFQG-KSLI 260 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L EG+ ++++ + + V RL+R QLG G+ R ++ Sbjct: 261 RIELHEGRKHIVRRMLKTAGFPVQRLVRTKIHTIQLGEQTPGAIRALN 308 >gi|312876843|ref|ZP_07736820.1| pseudouridine synthase [Caldicellulosiruptor lactoaceticus 6A] gi|311796358|gb|EFR12710.1| pseudouridine synthase [Caldicellulosiruptor lactoaceticus 6A] Length = 230 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 73/215 (33%), Positives = 114/215 (53%), Gaps = 2/215 (0%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLWLY 78 +A+ GIASRR+ E +I Q RVKVNG + + V D +EVDG + + + Sbjct: 1 MAQCGIASRRKCEEIILQGRVKVNGKTVNQLGFKVDPEKDVVEVDGKRISLQMQKVYIML 60 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 +KP G++++ D GR TV D + + RV VGRLD +T GL+LLTNDG A + P Sbjct: 61 NKPFGVISSAKDEKGRKTVVDLVKDKVNVRVFPVGRLDFDTTGLILLTNDGEFAYKVTHP 120 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGK 197 + Y G +++++ +KG++I G + + NA V + + EG+ Sbjct: 121 KHDIEKTYIALIRGIPSKEEIDRFEKGLLIDGKMTAPAKFKILKLINGNALVEIKIHEGR 180 Query: 198 NREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 NR+I+K+ +V +L R++ G QLG L G Sbjct: 181 NRQIRKMCAQIGHEVLKLKRVAIGKLQLGKLKEGE 215 >gi|134101741|ref|YP_001107402.1| pseudouridylate synthase ribosomal large subunit [Saccharopolyspora erythraea NRRL 2338] gi|291003087|ref|ZP_06561060.1| pseudouridylate synthase ribosomal large subunit [Saccharopolyspora erythraea NRRL 2338] gi|133914364|emb|CAM04477.1| pseudouridylate synthase ribosomal large subunit [Saccharopolyspora erythraea NRRL 2338] Length = 253 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 85/228 (37%), Positives = 127/228 (55%), Gaps = 5/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLR-KAER 72 R+ KV+++AG+ASRR E+MI + RV+VNG I+LE T I VDG + A+ Sbjct: 17 RLQKVLSQAGVASRRAAEQMIVEGRVEVNGEIVLELGTRVDPDTAVIHVDGNRIMVNADL 76 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L +KP G++ T SD GR + D L R+ VGRLD+++EGLLL+TNDG LA Sbjct: 77 THLLL-NKPKGILCTMSDDQGRPCIGDYLRERQGRLYHVGRLDVDSEGLLLITNDGELAH 135 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L PS + L+ Y G + ++ L+ GI ++ G D +D +G A V V Sbjct: 136 RLMHPSYRILKTYLAEVPGPIPKNLGRELRNGIELEDGPVKVDSFKLVDVNEG-RALVEV 194 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L EG+ ++++ + V RL+R + G +L T G+ R + +K Sbjct: 195 VLHEGRKHVVRRLLKQVGHPVLRLVRTAVGDVRLTTERQGAIRPLDRK 242 >gi|148377344|ref|YP_001256220.1| ribosomal large subunit pseudouridine synthaseB [Mycoplasma agalactiae PG2] gi|148291390|emb|CAL58774.1| Ribosomal large subunit pseudouridine synthaseB [Mycoplasma agalactiae PG2] Length = 246 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 83/230 (36%), Positives = 122/230 (53%), Gaps = 15/230 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNVMSTDHIEVDG--VPLRK 69 RV K+IA++G+ SRR+ E+MI++ V VNGI + ++A++N D I+V+G + L K Sbjct: 6 RVQKLIAQSGLMSRRDAEKMISKGLVFVNGIKSSIGDKASMN----DEIKVNGKIINLTK 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + +L +KP +TT DP GR TV D L + R++ VGRLD NT G+LLLT D Sbjct: 62 NTVFKYYLLNKPKNTITTSKDPKGRHTVID-LINTSERIVPVGRLDRNTTGVLLLTTDYE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + RVYR R + + L GI I G M + Q + +++ Sbjct: 121 LVNKLTHPKYEIERVYRARIDSPLTLKEFRELNAGIEID----GKMSYQIVDQVDTKSYL 176 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + L G +KK+FE V L R+SY + L G RE++ K Sbjct: 177 -ISLHVGSYHHVKKLFEKIGHSVLTLKRVSYANLTVDKLPEGMYRELTIK 225 >gi|255656021|ref|ZP_05401430.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile QCD-23m63] gi|296450550|ref|ZP_06892304.1| ribosomal large subunit pseudouridine synthase B [Clostridium difficile NAP08] gi|296879328|ref|ZP_06903323.1| ribosomal large subunit pseudouridine synthase B [Clostridium difficile NAP07] gi|296260625|gb|EFH07466.1| ribosomal large subunit pseudouridine synthase B [Clostridium difficile NAP08] gi|296429871|gb|EFH15723.1| ribosomal large subunit pseudouridine synthase B [Clostridium difficile NAP07] Length = 238 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 73/227 (32%), Positives = 119/227 (52%), Gaps = 3/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K IA GIASRR+ E +I + R+KVNG +++ NV D +E D ++ +E Sbjct: 2 RINKYIASCGIASRRKAEEIILEGRIKVNGSIVKELFFNVDEEKDIVEFDNKKVKPSENY 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G +TT D R +V D L + RV +GRLD T GLL+LTNDG L Sbjct: 62 IYIVLNKPEGYITTVKDQFNRPSVIDILKDVKERVYPIGRLDYETSGLLILTNDGDLTYK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNAWVTV 191 L P + + Y G + D++ + G+ I+ ++VT + ++ + + + Sbjct: 122 LTHPKHEIDKTYVASVKGIISGDEIRKFETGLKIEDYTTAPAKIKVTKENKEKNYSVCEI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG+NR+++K+ + N V L RIS G L G R +++ Sbjct: 182 TIHEGRNRQVRKMCKAINHPVLNLRRISVGKIVLKDTKVGEYRYLTE 228 >gi|313665476|ref|YP_004047347.1| pseudouridylate synthase [Mycoplasma leachii PG50] gi|312949302|gb|ADR23898.1| pseudouridylate synthase [Mycoplasma leachii PG50] Length = 252 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 116/229 (50%), Gaps = 7/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +R+ KVI+ G SRR E++I + R+KVN ++ + V + I +D V Sbjct: 4 ERLQKVISSRGYCSRRTAEKLILENRIKVNNQIINKLGVKIDPKAEIIIDNKLVTSDSNN 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +L++KP ++TT DP R TV D + RV VGRLD + GLL++TNDG L+ Sbjct: 64 QKYYYLFYKPRLVLTTMYDPKKRKTVADYFKDLNHRVYPVGRLDYDVSGLLIMTNDGELS 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----ICYGDMQVTLDTQKGSNA 187 + P ++L+ Y+ GQV + ++N L KG+ I Y V D K + Sbjct: 124 NFIMHPKYEFLKTYQGLCQGQVSKQQVNQLIKGVYIDNNYLTKAYSAKLVKYDKLKNV-S 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + EGK +KK+FE ++ +L R ++ L G RE+ Sbjct: 183 IVELTINEGKKHHVKKMFESIQAQLLKLKRTKIEFLEIDNLKPGQYREL 231 >gi|269978223|ref|ZP_06185173.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus mulieris 28-1] gi|306818599|ref|ZP_07452322.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus mulieris ATCC 35239] gi|269933732|gb|EEZ90316.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus mulieris 28-1] gi|304648772|gb|EFM46074.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus mulieris ATCC 35239] Length = 278 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 72/223 (32%), Positives = 121/223 (54%), Gaps = 2/223 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K++++AG+ASRR E +I + RV+V+G + + V+ + I V+G + Sbjct: 41 PVRLQKLLSQAGVASRRASEDLIKRGRVQVDGETVTEMGLKVLPSARITVNGQRIHTDAA 100 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++W ++KP+G V+T D R + D + RV VGRLD+ T GL+LLTN+G LA Sbjct: 101 LQVWAFNKPVGTVSTMQPEDDRPCLGDWATKLPQRVFHVGRLDVATSGLILLTNNGDLAN 160 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y GQV +L++G+ ++ G+ D ++ ++GS + V + Sbjct: 161 RLVHPRYEVPKTYVAMVQGQVKPGLGKVLRRGVELEDGVTKVDTFKLVEVRRGS-SIVQL 219 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 L GKNR ++++ V+ L R + G +LG L G R Sbjct: 220 TLHSGKNRVVRRLLSEVGHPVSALTRTAIGTLRLGDLKEGHFR 262 >gi|311114733|ref|YP_003985954.1| ribosomal large subunit pseudouridine synthase B [Gardnerella vaginalis ATCC 14019] gi|310946227|gb|ADP38931.1| ribosomal large subunit pseudouridine synthase B [Gardnerella vaginalis ATCC 14019] Length = 257 Score = 114 bits (286), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 77/241 (31%), Positives = 126/241 (52%), Gaps = 10/241 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVP 66 QE+ R+ K++A AG SRR+ E +I RV+V+ L+ V S I VDG Sbjct: 13 QESKNAVRLQKLLAEAGFGSRRKCEEIILDGRVEVDDELVTTLGTRVDPSKQKIRVDGSR 72 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 ++ + +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TN Sbjct: 73 VKFNHKLVTLALNKPKRVLSAMDDPKGRFTLRDIVGDKYERIFHMGRLDYDSEGLILMTN 132 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-----T 181 DG L++ + P + + Y G+++ ++ + +V QG+ D + LD Sbjct: 133 DGELSQHVMHPKYEVEKTYIATVEGKIN----GMVCRRLVSQGVNLEDGWIKLDRCAIID 188 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 Q V V L GKNR ++++F + V RL+R GP +LG L AGS R +S+ + Sbjct: 189 QNHDATIVKVVLHSGKNRIVRRIFGAVGYPVKRLVRTQIGPIKLGDLKAGSYRVLSQTEV 248 Query: 242 R 242 R Sbjct: 249 R 249 >gi|269119789|ref|YP_003307966.1| RNA-binding S4 domain protein [Sebaldella termitidis ATCC 33386] gi|268613667|gb|ACZ08035.1| RNA-binding S4 domain protein [Sebaldella termitidis ATCC 33386] Length = 228 Score = 114 bits (286), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 68/224 (30%), Positives = 121/224 (54%), Gaps = 6/224 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +G SRR+ + +I+Q RV +N + + V D + +DG ++ Sbjct: 2 RLNKYIAESGFCSRRKADELISQNRVTINKDT-AKLGMEVRDGDIVRIDGEKIKVDTDYE 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP ++ T+SD R D + S R+ + GRLD TEG++L++NDG + Sbjct: 61 YYLLYKPKKVICTNSDNFARRLAVDFIRSK-KRLFTYGRLDYMTEGIILVSNDGDTYNKV 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y + ++ L L+KGI+I G ++ +K +A V V + Sbjct: 120 MHPRKKLFKTYIAKLDKPIEDKDLARLEKGILIDGQKTAPAKI----KKTDDAEVKVSIF 175 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EG+NR+I+K+FE ++ V L R++ G F++G L G R++++ Sbjct: 176 EGRNRQIRKMFENLHYNVKELKRVTIGEFKIGNLKPGEYRKLTE 219 >gi|83815539|ref|YP_445618.1| ribosomal large subunit pseudouridine synthase B [Salinibacter ruber DSM 13855] gi|83756933|gb|ABC45046.1| ribosomal large subunit pseudouridine synthase B [Salinibacter ruber DSM 13855] Length = 249 Score = 114 bits (286), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 76/233 (32%), Positives = 121/233 (51%), Gaps = 7/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ SRR+ + ++ Q RV ++G +++ V + VDG + E Sbjct: 12 RINKYIAHAGVCSRRDADDLVEQGRVHIDGERVDQHGTCVREGQTVTVDGEEVYPLEFEY 71 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L +KP ++T DP R TV D + S + VGRLD NT G+LL++NDG LA Sbjct: 72 LLL-NKPKDTISTTDDPKDRRTVLDAIGVPEDNPSGLFPVGRLDRNTTGVLLVSNDGDLA 130 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + ++Y VR V +L+ LK+G+ + G D LD Q+ ++ + Sbjct: 131 HRLMHPRYEIPKIYYVRVQDDVKPHQLDQLKRGVELSDGAAAADQVAYLDPQRKTD--IA 188 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L EG+NR+I+++ E + +L R Y G L G R + + +RE Sbjct: 189 LELHEGRNRQIRRMMEALGHTIVQLERAKYATLTTGRLQRGEWRRLEPEEVRE 241 >gi|227875336|ref|ZP_03993478.1| possible pseudouridine synthase [Mobiluncus mulieris ATCC 35243] gi|307700863|ref|ZP_07637888.1| putative pseudouridine synthase B, ribosomal large subunit [Mobiluncus mulieris FB024-16] gi|227844241|gb|EEJ54408.1| possible pseudouridine synthase [Mobiluncus mulieris ATCC 35243] gi|307613858|gb|EFN93102.1| putative pseudouridine synthase B, ribosomal large subunit [Mobiluncus mulieris FB024-16] Length = 278 Score = 114 bits (286), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 72/223 (32%), Positives = 121/223 (54%), Gaps = 2/223 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K++++AG+ASRR E +I + RV+V+G + + V+ + I V+G + Sbjct: 41 PVRLQKLLSQAGVASRRASEDLIKRGRVQVDGETVTEMGLKVLPSARITVNGQRIHTDAA 100 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++W ++KP+G V+T D R + D + RV VGRLD+ T GL+LLTN+G LA Sbjct: 101 LQVWAFNKPVGTVSTMQPEDDRPCLGDWATKLPQRVFHVGRLDVATAGLILLTNNGDLAN 160 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y GQV +L++G+ ++ G+ D ++ ++GS + V + Sbjct: 161 RLVHPRYEVPKTYVAMVQGQVKPGLGKVLRRGVELEDGVTKVDTFKLVEVRRGS-SIVQL 219 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 L GKNR ++++ V+ L R + G +LG L G R Sbjct: 220 TLHSGKNRVVRRLLSEVGHPVSALTRTAIGTLRLGDLKEGHFR 262 >gi|53803500|ref|YP_114625.1| RNA pseudouridine synthase family protein [Methylococcus capsulatus str. Bath] gi|53757261|gb|AAU91552.1| RNA pseudouridine synthase family protein [Methylococcus capsulatus str. Bath] Length = 231 Score = 114 bits (286), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 68/171 (39%), Positives = 101/171 (59%), Gaps = 2/171 (1%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLA 131 TR+ LYHKP+G + + DP+GR +F LP + R ++VGRLD+NT+GL+LLTN+G LA Sbjct: 17 TRVLLYHKPVGELVSRRDPEGRPLIFSRLPRLELGRWVAVGRLDVNTQGLILLTNNGELA 76 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS R Y VR G V + + L G+ ++ V +G+N W V Sbjct: 77 HRLMHPSHAVEREYAVRILGTVSEAVIERLLDGVQLEDGPARFESVAEAGGEGANRWFHV 136 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 +REG+NR +++++E N V+RLIR+ YG L L AG++ E+ + L Sbjct: 137 VVREGRNRLVRRLWESQNLVVSRLIRVRYGDIVLPPRLRAGASIELEGEAL 187 >gi|88801341|ref|ZP_01116869.1| putative ribosomal large subunit pseudouridine synthase [Polaribacter irgensii 23-P] gi|88781999|gb|EAR13176.1| putative ribosomal large subunit pseudouridine synthase [Polaribacter irgensii 23-P] Length = 305 Score = 114 bits (286), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 76/229 (33%), Positives = 118/229 (51%), Gaps = 5/229 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +G+ SRRE + I V+VNG L+ V D + DG + E+ + Sbjct: 73 RLNKYIANSGVCSRREADTYIEHGSVEVNGNLVTEMGYKVQPDDVVRFDGTGI-TPEQKK 131 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP +TT D GR TV D + + R+ VGRLD NT GLLL TNDG LA+ Sbjct: 132 YILLNKPKNYITTMDDDRGRKTVMDLISNATKERIYPVGRLDRNTTGLLLFTNDGELAKK 191 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWVTVG 192 L P ++Y +++ L L+ ++I+G + D +D Q S V + Sbjct: 192 LTHPKHDVRKLYHASLDKKLELKDLEKLRGEVLIEGKKVFIDAVSYVDGQPKSE--VGIE 249 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + G+NR ++K+FE +KV++L R+ + L G RE++ + L Sbjct: 250 IHSGRNRIVRKIFEHLGYKVSKLDRVIFAELTKRNLPRGRWRELTNQEL 298 >gi|148273158|ref|YP_001222719.1| putative pseudouridine synthase [Clavibacter michiganensis subsp. michiganensis NCPPB 382] gi|147831088|emb|CAN02033.1| putative pseudouridine synthase [Clavibacter michiganensis subsp. michiganensis NCPPB 382] Length = 286 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 77/233 (33%), Positives = 120/233 (51%), Gaps = 3/233 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A AG+ASRR E MIA RV VNG ++ + D + VD ++ Sbjct: 21 RLQKVMAAAGVASRRVCEDMIAAGRVTVNGEVVTEPGRRIDPDVDEVAVDDQAVQLDTSK 80 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP+G+ ++ D GR + + R+ +VGRLD T GLL+LTNDG LA V Sbjct: 81 RYLMLNKPVGIYSSLRDERGRPDLREFTEEFEERLFNVGRLDAETSGLLILTNDGDLAHV 140 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L PS L+ Y + G+V + L +G+ ++ G D L + G V + Sbjct: 141 LAHPSFGVLKTYIAKVTGRVTPQTIQRLTQGVDLEDGPIQADRARIL-SGGGDQTLVEIT 199 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L G+NR ++++ + V L+R +GP LG+L G R+++ L + L Sbjct: 200 LHSGRNRIVRRMLDEVGHPVEELVRRQFGPLHLGSLGVGRVRDLTSDELGQLL 252 >gi|19552642|ref|NP_600644.1| 16S rRNA uridine-516 pseudouridylate synthase [Corynebacterium glutamicum ATCC 13032] gi|62390310|ref|YP_225712.1| 16S rRNA uridine-516 pseudouridylate synthase or related pseudouridylate synthase [Corynebacterium glutamicum ATCC 13032] gi|41325647|emb|CAF21436.1| 16S rRNA uridine-516 pseudouridylate synthase or related pseudouridylate synthase [Corynebacterium glutamicum ATCC 13032] Length = 320 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 79/232 (34%), Positives = 123/232 (53%), Gaps = 6/232 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E +I Q RV+VN ++ V V + D I VDGV + E Sbjct: 81 RLQKVLAQAGVASRRHAEILIDQGRVEVNDRIVTTQGVRVDPNNDVIRVDGVRIHINEDL 140 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+ +T SD GR V D + + R+ VGRLD +TEGLLLLTNDG L Sbjct: 141 EYFVLNKPRGMHSTMSDELGRPCVGDLVSEKTASGQRLFHVGRLDADTEGLLLLTNDGEL 200 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L P + + Y G+ ++ L+ G+ ++ G D +D +G + + Sbjct: 201 ANRLMHPKYEVSKTYLATVRGEATNKLVSALRDGVELEDGPAKADFAQIIDVFQGK-SLL 259 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + EG+ ++++F+ + V RL+R QLG GS R ++ L Sbjct: 260 RIEIHEGRKHIVRRLFDELGFPVERLVRTKLHTVQLGDQKPGSLRALNSSEL 311 >gi|302389711|ref|YP_003825532.1| ribosomal large subunit pseudouridine synthase B [Thermosediminibacter oceani DSM 16646] gi|302200339|gb|ADL07909.1| ribosomal large subunit pseudouridine synthase B [Thermosediminibacter oceani DSM 16646] Length = 237 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 77/225 (34%), Positives = 117/225 (52%), Gaps = 1/225 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A AGIASRR E++I + RV+VNG + V V + D + VDG R + Sbjct: 4 RLQKFLAMAGIASRRACEKLILEGRVQVNGKTVRELGVKVDPALDEVRVDGNVCRLNNKP 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G++TT DP GR TV D L + RV VGRLD +TEGLL+LTNDG L+ Sbjct: 64 IYILMNKPKGILTTVKDPFGRPTVIDLLKGVRERVFPVGRLDKDTEGLLILTNDGELSYR 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + + Y + G D+ L++GIV++ +V + + + + Sbjct: 124 LTHPKHEIEKTYVAKVVGTPDESDFIRLRRGIVLEDGRTAPAKVRILKAGRDFTVLEIII 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EG+ R+++++ + V L R G L L G R +++ Sbjct: 184 HEGRKRQVRRMCKAIGHPVISLKRTRIGKLNLRGLAPGCWRYMTE 228 >gi|281421747|ref|ZP_06252746.1| ribosomal large subunit pseudouridine synthase B [Prevotella copri DSM 18205] gi|281404242|gb|EFB34922.1| ribosomal large subunit pseudouridine synthase B [Prevotella copri DSM 18205] Length = 253 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 73/232 (31%), Positives = 119/232 (51%), Gaps = 11/232 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ ++ TD ++ P+ E+ Sbjct: 17 PLRLNKFLANAGVCSRREADEFIQAGLVTVNGEVVTELGTKILRTDEVKFHDAPV-TLEK 75 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 76 KVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDVCPERIYPVGRLDRNTTGVLLLTNDGDLA 135 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN----A 187 L P +VY V + ++ +++GI ++ D ++ D + ++ A Sbjct: 136 SKLTHPKFLKKKVYHVHLDKNLTAHDMDQIREGITLE-----DGEIKADAVEYADDRDKA 190 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + + GKNR ++++FE ++V +L R+ + L G R +++K Sbjct: 191 QVGIEIHSGKNRIVRRIFESLGYRVTKLDRVQFAGLTKKNLRRGDWRFLTEK 242 >gi|145295560|ref|YP_001138381.1| hypothetical protein cgR_1487 [Corynebacterium glutamicum R] gi|140845480|dbj|BAF54479.1| hypothetical protein [Corynebacterium glutamicum R] Length = 320 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 79/232 (34%), Positives = 123/232 (53%), Gaps = 6/232 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E +I Q RV+VN ++ V V + D I VDGV + E Sbjct: 81 RLQKVLAQAGVASRRHAEILIDQGRVEVNDRIVTTQGVRVNPNNDVIRVDGVRIHINEDL 140 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+ +T SD GR V D + + R+ VGRLD +TEGLLLLTNDG L Sbjct: 141 EYFVLNKPRGMHSTMSDELGRPCVGDLVSEKTASGQRLFHVGRLDADTEGLLLLTNDGEL 200 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L P + + Y G+ ++ L+ G+ ++ G D +D +G + + Sbjct: 201 ANRLMHPKYEVSKTYLATVRGEATNKLVSALRDGVELEDGPAKADFAQIIDVFQG-KSLL 259 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + EG+ ++++F+ + V RL+R QLG GS R ++ L Sbjct: 260 RIEIHEGRKHIVRRLFDELGFPVERLVRTKLHTVQLGDQKPGSLRALNSSEL 311 >gi|301320594|gb|ADK69237.1| pseudouridylate synthase [Mycoplasma mycoides subsp. mycoides SC str. Gladysdale] Length = 252 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 74/229 (32%), Positives = 117/229 (51%), Gaps = 7/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +R+ KVI+ G SRR E++I + RVKVN ++ V + I++D V Sbjct: 4 ERLQKVISSRGYCSRRAAEKLILENRVKVNDQIINTLGVKIDPKAEIKIDNRLVLSDSNN 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +L++KP ++TT DP R TV D + RV VGRLD + GLLL+TNDG L Sbjct: 64 QKYYYLFYKPRLVLTTMYDPKKRKTVNDYFKDLNHRVYPVGRLDYDVSGLLLMTNDGVLF 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----ICYGDMQVTLDTQKGSNA 187 + P ++L+ Y+ GQV++ ++N L KG+ I Y V D K + + Sbjct: 124 NFIMHPKYEFLKTYQGLCQGQVNKQQINQLIKGVYIDNDYLTKAYSAKLVKYDKLKNT-S 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + EGK +KK+F+ ++ +L R ++ L G RE+ Sbjct: 183 IVELTINEGKKHHVKKMFDSIQAQLLKLKRTKIEFLEIADLKPGQYREL 231 >gi|289664226|ref|ZP_06485807.1| pseudouridylate synthase [Xanthomonas campestris pv. vasculorum NCPPB702] Length = 285 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 78/238 (32%), Positives = 125/238 (52%), Gaps = 9/238 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R IA RV V+ ++ + + H I VDG PL R Sbjct: 39 LARVLSKLGVCSRTEAARWIADGRVSVSARVVRDPEFPIRADQHSSITVDGSPLAGPARC 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP G+VTT D GR TV+ + VGRLD +EGLLL +ND A Sbjct: 99 YLML-NKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAA 157 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNA 187 + P+T + Y V+ + +L L+ G+V +G+ +V++ + NA Sbjct: 158 TVTDPTTGPDKTYHVQIDCRPSAAQLAQLQAGVVDPDPEGEGMLLRAKRVSVLREGERNA 217 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 W+ + L EG+NR+I+++ + V RLIR++ GP +G L G+ R +S + +R L Sbjct: 218 WLEIVLDEGRNRQIRRLLAAVDIGVLRLIRVAIGPLAMGELCKGAWRMLSAEEVRALL 275 >gi|332298353|ref|YP_004440275.1| pseudouridine synthase Rsu [Treponema brennaborense DSM 12168] gi|332181456|gb|AEE17144.1| pseudouridine synthase Rsu [Treponema brennaborense DSM 12168] Length = 257 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 78/224 (34%), Positives = 113/224 (50%), Gaps = 5/224 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ +A G+ASRR E IA RV VNG ++ V+ D + VDG + E R Sbjct: 25 RLQVYLAHCGVASRRSCETYIADGRVSVNGTVVTVPGTKVLPDDTVCVDGKRVTLEETKR 84 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G V + SD GR T L P R+ +VGRLD+ + GL+L TNDG A Sbjct: 85 YVLLNKPAGFVCSLSDEKGRQTAASLLEPHYSERLYNVGRLDMFSAGLVLFTNDGEFAAR 144 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + PS++ + Y V V KGI + + Y ++ ++ + + L Sbjct: 145 VSHPSSEMEKEYVVDTSLPVPPALAEKFVKGIRVDNVFYR----CKSAERLNSRRMRIVL 200 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 EGKNREI++VFE FN V +L+RI G + L G R+++ Sbjct: 201 IEGKNREIRRVFEAFNIGVKQLVRIRIGNLNIQGLGPGEFRDLT 244 >gi|307243938|ref|ZP_07526063.1| pseudouridylate synthase [Peptostreptococcus stomatis DSM 17678] gi|306492760|gb|EFM64788.1| pseudouridylate synthase [Peptostreptococcus stomatis DSM 17678] Length = 243 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 74/227 (32%), Positives = 116/227 (51%), Gaps = 4/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLR-KAER 72 R++K IA AGIASRR+ E ++++ R+KVNG ++ V D +E DG + +E+ Sbjct: 2 RINKYIASAGIASRRKAENLVSEGRIKVNGQIIYDLGYQVNEDKDIVEYDGKKIDINSEK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G +T+ D GR V D + I R+ VGRLD T GLLL+TNDG L Sbjct: 62 LVYILLNKPEGYITSSKDQFGRKDVMDLVTDIKERIYPVGRLDYETSGLLLMTNDGDLTY 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNAWVT- 190 + P + + Y G ++L + G+ I+ ++ L T N V Sbjct: 122 KITHPKHEITKTYIASVKGIPTSEELERFENGLEIEDYVTSKAKIRVLKTDVKKNYSVCR 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V + EG+NR+++K+F N V L R++ G + + G R ++ Sbjct: 182 VSIHEGRNRQVRKMFNAINHPVMNLKRVALGKISVNNVEVGKYRHLT 228 >gi|126699667|ref|YP_001088564.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile 630] gi|255101182|ref|ZP_05330159.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile QCD-63q42] gi|255307056|ref|ZP_05351227.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile ATCC 43255] gi|115251104|emb|CAJ68935.1| Ribosomal large subunit pseudouridine synthase B [Clostridium difficile] Length = 238 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 72/227 (31%), Positives = 119/227 (52%), Gaps = 3/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K IA GIASRR+ E +I R+KVNG +++ + N+ D +E D ++ +E Sbjct: 2 RINKYIASCGIASRRKAEEIILGGRIKVNGSVVKELSFNIDEEKDIVEFDNKKVKPSENY 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G +TT D R +V D L + RV +GRLD T GLL+LTNDG L Sbjct: 62 IYIVLNKPEGYITTVKDQFNRPSVIDILKDVRERVYPIGRLDYETSGLLILTNDGDLTYK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNAWVTV 191 L P + + Y G + D++ + G+ I+ ++VT + ++ + + + Sbjct: 122 LTHPKHEIDKTYVASVKGIISDDEIRQFETGLKIEDYTTAPAKIRVTKENKEKNYSVCEI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG+NR+++K+ + N V L RIS G L G R +++ Sbjct: 182 TIHEGRNRQVRKMCKAINHPVLNLRRISVGKIVLKDTKVGEYRYLTE 228 >gi|218297269|ref|ZP_03497913.1| RNA-binding S4 domain protein [Thermus aquaticus Y51MC23] gi|218242409|gb|EED08950.1| RNA-binding S4 domain protein [Thermus aquaticus Y51MC23] Length = 235 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 83/226 (36%), Positives = 120/226 (53%), Gaps = 12/226 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE--R 72 R+ ++ARAG+ASRR+ E +I Q V+VNG + V D +EV G R+ E R Sbjct: 5 RLQALLARAGVASRRQAEVLIRQGLVRVNGEVAH-LGQKVGPDDLVEVAG---RRVEWPR 60 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL L HKP G TT SDP R TVF+ LP + + +VGRLD +EGLLL TNDG L Sbjct: 61 ERLVLALHKPRGYTTTRSDPHARRTVFELLPEVPG-LQAVGRLDRESEGLLLFTNDGELL 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P +VYRV ++ L +++G+ D + + + + Sbjct: 120 FRLTHPRYGVKKVYRV----WTERGTLPEAVCRKLVEGVALEDGPARALSCRPAQGGAIL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ RE++++ + + V RL+R+ GP +LG L G R +S Sbjct: 176 TLGEGRKREVRRMLQAVGYPVKRLLRLQVGPIRLGNLPPGRWRRLS 221 >gi|289668818|ref|ZP_06489893.1| pseudouridylate synthase [Xanthomonas campestris pv. musacearum NCPPB4381] Length = 285 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 80/245 (32%), Positives = 128/245 (52%), Gaps = 10/245 (4%) Query: 10 NFTPQR-VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVP 66 N P+ +++V+++ G+ SR E R IA RV V+ ++ + + H I VDG P Sbjct: 32 NAAPRHGLARVLSKLGVCSRTEAARWIADGRVSVSARVVRDPEFPIRADQHSSITVDGSP 91 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 L R L L +KP G+VTT D GR TV+ + VGRLD +EGLLL + Sbjct: 92 LAGPARCYLML-NKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFS 150 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLD 180 ND A + P+T + Y V+ + +L L+ G+V +G+ +V++ Sbjct: 151 NDPQWAATVTDPTTGPDKTYHVQIDCRPSAAQLAQLQAGVVDPDPEGEGMLLRAKRVSVL 210 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + NAW+ + L EG+NR+I+++ + V RLIR++ GP +G L G+ R +S + Sbjct: 211 REGERNAWLEIVLDEGRNRQIRRLLAAVDIGVLRLIRVAIGPLAMGELCKGAWRMLSAEE 270 Query: 241 LREQL 245 +R L Sbjct: 271 VRALL 275 >gi|305680918|ref|ZP_07403725.1| putative pseudouridine synthase B, ribosomal large subunit [Corynebacterium matruchotii ATCC 14266] gi|305659123|gb|EFM48623.1| putative pseudouridine synthase B, ribosomal large subunit [Corynebacterium matruchotii ATCC 14266] Length = 285 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 80/233 (34%), Positives = 121/233 (51%), Gaps = 6/233 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E MI RV+VNG ++ + V V D I VDGV + Sbjct: 46 RLQKVLAQAGVASRRNAEIMIDSGRVEVNGAVVMQQGVRVNPKVDVIRVDGVRVNVNNNH 105 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGGL 130 + ++ +KP G+ +T SD GR + D + S + VGRLD +TEGL+LLTNDG L Sbjct: 106 QYFVLNKPRGIHSTMSDDLGRPCIGDLVSERISAGQGLFHVGRLDADTEGLILLTNDGEL 165 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + + Y G+ D+ + LK G+ + G D +D +G + V Sbjct: 166 ANRLSHPKYEVSKTYIAEVLGEADRSLVTTLKNGVELDDGPAAADYVQIVDVHQG-RSLV 224 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V L EG+ ++++ + + V L+R QLG G+ R ++ LR Sbjct: 225 RVQLHEGRKHIVRRMLKAAGYPVQYLVRTKLHTVQLGEQKPGTIRALNDNELR 277 >gi|317488196|ref|ZP_07946767.1| RNA pseudouridylate synthase [Eggerthella sp. 1_3_56FAA] gi|316912701|gb|EFV34239.1| RNA pseudouridylate synthase [Eggerthella sp. 1_3_56FAA] Length = 285 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 83/272 (30%), Positives = 126/272 (46%), Gaps = 33/272 (12%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 M + + + P R+ K +ARAG ASRR E ++ RV VNG ++ V D Sbjct: 1 MGEVSDCESRIVPMRLQKFLARAGAASRRGSENLMTAGRVTVNGKVVTELGSKVDPLVDE 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINT 118 + VDG +R A+ + HKP G VTT SDP GR TV + +P+ + + +GRLD +T Sbjct: 61 VAVDGAVVRLADGPVTIMLHKPAGFVTTMSDPQGRRTVAELVPTERYPGLFPIGRLDFDT 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI------------- 165 GLLL + DG L L P + Y G+ + L LL++GI Sbjct: 121 TGLLLFSTDGELGNGLLHPKHHVTKRYLACVEGRPTERDLALLRRGIELDDGPTQPADVR 180 Query: 166 VIQGICYGDMQVTLD-----TQKGSNAWVTV-------------GLREGKNREIKKVFEF 207 V++G + L+ + S + V G+REG+ R++K++ Sbjct: 181 VVEGGAARHAERLLEIPAAVPPRSSKEYAAVCEGRATRRSIVRLGIREGRKRQVKRMLAA 240 Query: 208 FNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V L R S+GP +LG L G+ R + + Sbjct: 241 VGHPVLALHRDSFGPLELGDLPRGAWRALDAE 272 >gi|285017365|ref|YP_003375076.1| pseudouridylate synthase [Xanthomonas albilineans GPE PC73] gi|283472583|emb|CBA15088.1| probable pseudouridylate synthase protein [Xanthomonas albilineans] Length = 275 Score = 114 bits (285), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 78/224 (34%), Positives = 117/224 (52%), Gaps = 3/224 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERTR 74 +++ +++ G+ SR E R IA RV V+G ++ ++ H + +DG PL +ER Sbjct: 34 LARTLSKLGLCSRTEAVRWIAAGRVAVDGRIVTDPEFPILRGRHRLALDGAPLSASERLY 93 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L +KP GLVTT D GR TV+ + VGRLD +EGLLL TND A Sbjct: 94 LML-NKPRGLVTTAQDERGRETVYRCFDGAGLPWLAPVGRLDKASEGLLLFTNDPQWAAR 152 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P T + Y V+ D L ++ G++ G QV L Q +AW+ + L Sbjct: 153 VTDPGTGPDKTYHVQVDVLPDAALLQRMRAGVMADGEALCAKQVRLLRQGERHAWLEIVL 212 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 EG+NR+I+++ F V RL+R++ G LG L G+ R +S Sbjct: 213 DEGRNRQIRRLLAAFGVDVVRLVRVAIGTLVLGELGKGAWRTLS 256 >gi|25028115|ref|NP_738169.1| hypothetical protein CE1559 [Corynebacterium efficiens YS-314] gi|259507172|ref|ZP_05750072.1| RNA pseudouridine synthase [Corynebacterium efficiens YS-314] gi|23493399|dbj|BAC18369.1| conserved hypothetical protein [Corynebacterium efficiens YS-314] gi|259165253|gb|EEW49807.1| RNA pseudouridine synthase [Corynebacterium efficiens YS-314] Length = 329 Score = 114 bits (285), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 79/228 (34%), Positives = 123/228 (53%), Gaps = 6/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E +I RV+VNG ++ V ++D I VDGV + E Sbjct: 90 RLQKVLAQAGVASRRHAEILIDNGRVEVNGRIVTTQGTRVNPNSDVIRVDGVRININEDL 149 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+ +T SD GR V D + + R+ VGRLD +TEGLLLLTNDG L Sbjct: 150 EYFVLNKPRGMHSTMSDDLGRPCVGDLVSEKTASGQRLFHVGRLDADTEGLLLLTNDGEL 209 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L P + + Y G+ + + L+KGI ++ G D +DT +G + + Sbjct: 210 ANRLMHPKYEVRKTYLATVRGEAGPNLVTTLRKGIELEDGPAKADYVQIIDTFQGK-SLI 268 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+ ++++ + + V RL+R QLG GS R ++ Sbjct: 269 RLEIHEGRKHIVRRMLDEAGFPVERLVRTKLHTVQLGEQKPGSLRALN 316 >gi|50365365|ref|YP_053790.1| 23S rRNA pseudouridine synthase [Mesoplasma florum L1] gi|50363921|gb|AAT75906.1| 23S rRNA pseudouridine synthase [Mesoplasma florum L1] Length = 251 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 67/226 (29%), Positives = 118/226 (52%), Gaps = 3/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+I+ G+ SRR E++I + +VKVNG+++ + IEV+G K Sbjct: 2 ERLQKIISARGVTSRRNAEKLIVEGKVKVNGVVITELGFKTSTDADIEVNGKQTTKNNEK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP ++TT DP R TV D + +RV VGRLD + GL+++TNDG A Sbjct: 62 FYYLFNKPRLVLTTMYDPKQRKTVADYFKDVPTRVYPVGRLDYDVSGLIIMTNDGEFANF 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD-MQVTL--DTQKGSNAWVT 190 + P ++ + Y+ G+V + ++N L KG+ I+ + +Q L Q+ + + Sbjct: 122 VMHPRYEFFKTYQGLCKGKVSKQQVNQLLKGVKIEDDYFTKAIQAELLNYDQEKDQSIIE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EGK +K++F + +L R ++ L G RE+ Sbjct: 182 MTIAEGKKHHVKQMFSAIEANLMKLKRTKIEFLEVDDLEVGRYREL 227 >gi|170781661|ref|YP_001709993.1| putative RNA pseudouridine synthase [Clavibacter michiganensis subsp. sepedonicus] gi|169156229|emb|CAQ01371.1| putative RNA pseudouridine synthase [Clavibacter michiganensis subsp. sepedonicus] Length = 291 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 77/233 (33%), Positives = 119/233 (51%), Gaps = 3/233 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A AG+ASRR E MIA RV VNG + + D + VD ++ Sbjct: 26 RLQKVMAAAGVASRRVCEDMIAAGRVTVNGETVTEPGRRIDPDVDEVAVDDQAVQLDTSK 85 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP+G+ ++ D GR + + R+ +VGRLD T GLL+LTNDG LA V Sbjct: 86 RYLMLNKPVGIYSSLRDERGRPDLREFTEEFEERLFNVGRLDAETSGLLILTNDGDLAHV 145 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L PS L+ Y + G+V + L +G+ ++ G D L + G V + Sbjct: 146 LAHPSFGVLKTYIAKVTGRVTPQTIQRLTQGVDLEDGPIQADRARIL-SGGGDQTLVEIT 204 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L G+NR ++++ + V L+R +GP LG+L G R+++ L + L Sbjct: 205 LHSGRNRIVRRMLDEVGHPVEELVRRQFGPLHLGSLGVGRVRDLTSDELGQLL 257 >gi|237740448|ref|ZP_04570929.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 2_1_31] gi|229422465|gb|EEO37512.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 2_1_31] Length = 234 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 80/238 (33%), Positives = 131/238 (55%), Gaps = 24/238 (10%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 R++K ++ GIASRR +++ I + R+KVNG++ ++V D I +D + ++ E Sbjct: 1 MRINKFLSSLGIASRRAIDKYIEEGRIKVNGVITS-TGIDVTEDDEIYIDNKKIETKRIE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP+ +++ SD GR TV D L R+ +GRLD T GL+LLTNDG L Sbjct: 60 EKVYFMLNKPLEVLSASSDDRGRKTVVD-LIKTDKRIFPIGRLDYMTSGLILLTNDGELF 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV----------IQGICYGDMQVTLDT 181 L P ++ + Y ++ G+V ++++ LKKG++ I GI Y D Sbjct: 119 NRLVHPKSEIYKKYYIKVFGEVKKEEIEELKKGVLLEDGKTLPAKISGIKY-------DK 171 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 K S + + +REG+NR+I+++ E F +KV L R G LG L G RE++K+ Sbjct: 172 NKTS---MYISIREGRNRQIRRMIEKFGYKVLMLRREKIGELSLGDLKEGKYRELTKE 226 >gi|78776413|ref|YP_392728.1| pseudouridine synthase, Rsu [Sulfurimonas denitrificans DSM 1251] gi|78496953|gb|ABB43493.1| Pseudouridine synthase, Rsu [Sulfurimonas denitrificans DSM 1251] Length = 312 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 118/239 (49%), Gaps = 17/239 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R++K IA SRRE ++ I V+VNG + + A ++ D + V G P+ ++ Sbjct: 2 RLNKYIAHHSSYSRREADKAIQDGYVRVNGEIQDNPATDIYEGVDVVYVSGKPVTPRDKY 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +Y+KP G + T SDP R T++D LP + + VGRLD +EGLLLLT+ +A Sbjct: 62 TVIVYNKPKGELVTKSDPKERKTIYDTLPKEYKHYVPVGRLDYASEGLLLLTDASKVASA 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ------------VTLDT 181 L + R+Y+++ G+V + + G+++ G + Sbjct: 122 LM--ESNLERIYKIKIKGEVTSEMEAAMLNGMMLDDATAGGHSHSKVTSMEFKPFIGYKI 179 Query: 182 QKGSNAW--VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 QK + + V L EGKNRE+++ F F + L R+S+ +L L G R +S+ Sbjct: 180 QKNEPNYSILKVALSEGKNRELRRFFAHFGTDIVDLKRVSFAEIELNNLPTGKVRFLSR 238 >gi|86740160|ref|YP_480560.1| ribosomal large subunit pseudouridine synthase B [Frankia sp. CcI3] gi|86567022|gb|ABD10831.1| ribosomal large subunit pseudouridine synthase B [Frankia sp. CcI3] Length = 252 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 84/232 (36%), Positives = 120/232 (51%), Gaps = 15/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER- 72 R+ KV+A AG+ SRR E +IA RV+V+G ++ V T IEVDG ER Sbjct: 16 RLQKVLAAAGVGSRRHGEELIAAGRVRVDGTVVREQGRRVDPETALIEVDG------ERI 69 Query: 73 -TRLWLYH----KPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 TR L H KP G+++ SD GR T+ D L + VGRLD ++EGLLL+TND Sbjct: 70 VTRTGLVHLALNKPRGVLSAMSDDRGRPTIADLLTEFGGGLFHVGRLDADSEGLLLVTND 129 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G LA L PS + Y V G + +D L L+ + + G D +D G Sbjct: 130 GELAHRLTHPSFAVPKTYLVEVSGPLRRDVLRQLRAEVELDDGPVRADSARIVDNANG-R 188 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V V + EG+ ++++ + V+RL+R +G LGTL AG R +++ Sbjct: 189 VMVEVVVHEGRKHVVRRMMDAVGHPVHRLVRTRFGAVSLGTLRAGRARHLTR 240 >gi|298707966|emb|CBJ30337.1| pseudouridine synthase [Ectocarpus siliculosus] Length = 468 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 78/236 (33%), Positives = 129/236 (54%), Gaps = 13/236 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDG--VPLRKA 70 +R+ K ++ AG+ SRR+ E+MI RV+VNG +++ V V D + VDG V +R Sbjct: 35 ERLQKFLSHAGLDSRRQCEQMILDGRVRVNGKMVKELGVKVNPRRDQVHVDGNRVSMRPD 94 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGG 129 + +KP G++ T SD GR T ++P + R++ VGRLD ++ GLLLLTN+ Sbjct: 95 SEIKWVALNKPKGVICTVSDELGRPTAVASIPRGLEMRLVPVGRLDRDSCGLLLLTNENS 154 Query: 130 LARVLELPSTQWLRVYRVRF-HGQVDQDKLNLLKKGIVIQG------ICYGDMQVTLDTQ 182 L PS + YRV G ++ ++L +G+++ G C ++V + Sbjct: 155 WINPLTHPSYGHEKTYRVALTSGYPTTEEWDVLTQGMLLDGDPNPTRPCI--VEVVNYDR 212 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + V + +REGKNR+I+++FE +V + R+S+GP +L L G RE+ + Sbjct: 213 RTRVTTVDIIIREGKNRQIRRMFEGIGHEVKSITRVSHGPIRLKNLRPGEWRELEQ 268 >gi|297243477|ref|ZP_06927409.1| 16S rRNA uridine-516 pseudouridylate synthase [Gardnerella vaginalis AMD] gi|298252770|ref|ZP_06976564.1| 16S rRNA uridine-516 pseudouridylate synthase [Gardnerella vaginalis 5-1] gi|296888522|gb|EFH27262.1| 16S rRNA uridine-516 pseudouridylate synthase [Gardnerella vaginalis AMD] gi|297533134|gb|EFH72018.1| 16S rRNA uridine-516 pseudouridylate synthase [Gardnerella vaginalis 5-1] Length = 257 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 74/234 (31%), Positives = 122/234 (52%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A AG SRR+ E +I RV+V+ L+ V + VDG ++ + Sbjct: 20 RLQKLLAEAGFGSRRKCEEIILDGRVEVDDELVTTLGTRVDPKRQKVRVDGSRVKFNTKL 79 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 HKP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TNDG L++ Sbjct: 80 VTLALHKPKRVLSAMDDPKGRFTLRDIVGDKYERIFHMGRLDYDSEGLILMTNDGELSQH 139 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-----TQKGSNAW 188 + P + + Y G+++ ++ + +V QG+ D + LD Q Sbjct: 140 VMHPKYEVEKTYIATVEGKIN----GMVCRRLVSQGVNLEDGWIKLDRCAIIDQNHDTTM 195 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V V L GKNR ++++F + V RL+R GP +LG L AGS R +S+ +R Sbjct: 196 VKVVLHSGKNRIVRRIFGAVGYPVKRLVRTQIGPIKLGDLKAGSYRVLSQTEVR 249 >gi|317133055|ref|YP_004092369.1| pseudouridine synthase [Ethanoligenens harbinense YUAN-3] gi|315471034|gb|ADU27638.1| pseudouridine synthase [Ethanoligenens harbinense YUAN-3] Length = 243 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 77/228 (33%), Positives = 121/228 (53%), Gaps = 1/228 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K ++ G SRR+ E I RV+VNG S D + VDG + + + Sbjct: 7 RLQKYLSECGETSRRKAEIWITAGRVQVNGRPARLGQSVHPSKDLVTVDGRAVAPSPKVY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L +KP G VTT D R V D L + +RV +GRLD ++EGLLLLT+DG A L Sbjct: 67 IAL-NKPRGYVTTLHDELDRRCVTDLLKGVETRVYPIGRLDRDSEGLLLLTDDGAFANAL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P ++Y V +V ++++ L+ GI + G +VT+ + + + L Sbjct: 126 THPRHHVPKIYHVSVRPRVTEEQVARLQNGIELDGRMTAPAKVTVLRSGSDRSVLELVLY 185 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+NR+I+++ E +V RL R++ G +LG L +G RE++ K +R Sbjct: 186 EGRNRQIRRMCEALGLEVARLSRVAVGTVKLGGLRSGQWRELTDKEVR 233 >gi|262091774|gb|ACY25362.1| pseudouridine synthase family [uncultured actinobacterium] Length = 237 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 76/225 (33%), Positives = 117/225 (52%), Gaps = 5/225 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILL-ERAAVNVMSTDHIEVDGVPLRKAER 72 R++K+IA AGI SRR + +I RV VNGI++ E + D + VDG + + Sbjct: 4 MRLNKIIADAGITSRRGADELIEDGRVAVNGIIVREMGSKFDPEMDKVMVDGETITRTLT 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 HKP G+++T DP+GR ++ D + R+ VGRLD ++EGL+LLTNDG L Sbjct: 64 KSYLALHKPKGVLSTMFDPEGRPSLDDFIDLRKERLFHVGRLDKDSEGLILLTNDGDLTF 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 PS + Y + F G + +L KG+ ++ M L ++ S W+ V Sbjct: 124 RATHPSFGLEKTYIIEFDGILPTGVDKVLLKGVELE----DGMGRVLTFKQLSPKWIEVS 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+ I+++ E V RLIR +GP LG G R+++ Sbjct: 180 IHEGRYHIIRRLMEAVGVNVLRLIRTKFGPISLGDTPEGRWRDLN 224 >gi|291287278|ref|YP_003504094.1| pseudouridine synthase [Denitrovibrio acetiphilus DSM 12809] gi|290884438|gb|ADD68138.1| pseudouridine synthase [Denitrovibrio acetiphilus DSM 12809] Length = 229 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 75/232 (32%), Positives = 125/232 (53%), Gaps = 6/232 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A SRR+ ++ I + RV+VNG L E V + D + +DG + AE Sbjct: 3 RINKYLAARSQLSRRDADKAIEEGRVRVNGKLPEGPWVQLSEKDKVTLDGNDISGAEDYF 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 W ++KP ++T + D G+ T+ + P + + + GRLD ++EGL++ +NDG R Sbjct: 63 YWAFYKPKSVLTAYGDGHGKDTL-EIYPFLREKKPAYSGRLDYDSEGLIIFSNDGDFIRR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L+ + + Y V + + + +++ L+KGIV +GI Y + V ++ S+ V L Sbjct: 122 LQRAEEKVEKEYIVTVNRVLKKGEMDDLRKGIVYEGIRYRECIV----EQHSHDRYQVVL 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 EGK R+I+ +F F +V +L R+ G L L G RE S K +RE L Sbjct: 178 HEGKKRQIRHMFRNFGIRVKKLKRVRIGSVNLNELQPGEFREFSPKEMREML 229 >gi|111221683|ref|YP_712477.1| pseudouridylate synthase [Frankia alni ACN14a] gi|111149215|emb|CAJ60900.1| Pseudouridylate synthase [Frankia alni ACN14a] Length = 254 Score = 113 bits (283), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 83/232 (35%), Positives = 124/232 (53%), Gaps = 13/232 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A AGI SRR E +IA+ RV V+G+++ V T IEVDG + T Sbjct: 16 RLQKVLASAGIGSRRRGEELIAEGRVSVDGVVVREQGRRVNPETAIIEVDGDRIV----T 71 Query: 74 RLWLYH----KPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTND 127 R L H KP G+++ SD GR T+ D L + VGRLD ++EGLLL+TND Sbjct: 72 RTGLVHLALNKPRGVLSAMSDDRGRPTIADLLTEFDGGGGLFHVGRLDGDSEGLLLVTND 131 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G LA L PS + + Y V G + ++ L+ G+ ++ G D V L Q Sbjct: 132 GELAHRLTHPSFEVPKTYLVEVSGPLRREVPRTLRTGVELEDGPARAD-SVQLVDQANGR 190 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + EG+NR ++++ E + V+RL+R G LGTL +G R +++ Sbjct: 191 VMLEIVIHEGRNRIVRRMMETVGYPVHRLVRTRLGAVHLGTLRSGRARHLTR 242 >gi|261337756|ref|ZP_05965640.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium gallicum DSM 20093] gi|270277210|gb|EFA23064.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium gallicum DSM 20093] Length = 258 Score = 113 bits (283), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 78/234 (33%), Positives = 123/234 (52%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A+AG SRR+ E MI RV+V+G L+ V + VDG +R R Sbjct: 21 RLQKILAQAGFGSRRKCEEMILDGRVEVDGELVTELGSRVDPKRQEVRVDGSRIRLNNRH 80 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP +++T DP GR T+ D + + R+ +GRLD ++EGL+L+TNDG L++ Sbjct: 81 VTLALNKPKRVLSTMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTNDGELSQH 140 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA-----W 188 + P + + Y V G + N+ ++ +V G+ D + LD +A Sbjct: 141 VMHPRYEVAKTYVVTLDGHLSG---NVCRR-LVRTGVQLDDGWIKLDQCSIIDANRETTI 196 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V V L GKNR ++++F + V RL+R GP +LG L GS R +S +R Sbjct: 197 VKVVLHSGKNRIVRRIFGAIGFPVRRLVRTQIGPIKLGDLKPGSYRVLSDAEVR 250 >gi|227549324|ref|ZP_03979373.1| 16S rRNA uridine-516 pseudouridylate synthase [Corynebacterium lipophiloflavum DSM 44291] gi|227078643|gb|EEI16606.1| 16S rRNA uridine-516 pseudouridylate synthase [Corynebacterium lipophiloflavum DSM 44291] Length = 295 Score = 113 bits (283), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 80/228 (35%), Positives = 119/228 (52%), Gaps = 6/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E MI Q RV+VNG + + V S D I VDG + E Sbjct: 56 RLQKVLAQAGVASRRHAEIMITQGRVEVNGTRVTTQGMRVDPSRDVIRVDGTRINVNEEL 115 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++++KP G+ +T D R++V L + R+ VGRLD +TEGLLLLTNDG L Sbjct: 116 EYFVFNKPRGVQSTMKDEMDRTSVGSYLSERTASGQRLFHVGRLDADTEGLLLLTNDGEL 175 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + + Y G+ + L++GI + G D +DT G + + Sbjct: 176 ANRLMHPRYEIAKTYMATVLGEAKPALVKKLREGIELDDGPAKADYVQIVDTHNG-QSII 234 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V L EG+ ++++ + V RL+R QLG + GS R ++ Sbjct: 235 RVELHEGRKHIVRRMLKAAGHPVQRLVRTKVHTVQLGDMKPGSLRALN 282 >gi|254975638|ref|ZP_05272110.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile QCD-66c26] gi|255093025|ref|ZP_05322503.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile CIP 107932] gi|255314767|ref|ZP_05356350.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile QCD-76w55] gi|255517442|ref|ZP_05385118.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile QCD-97b34] gi|255650552|ref|ZP_05397454.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile QCD-37x79] gi|260683650|ref|YP_003214935.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile CD196] gi|260687310|ref|YP_003218444.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile R20291] gi|306520500|ref|ZP_07406847.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile QCD-32g58] gi|260209813|emb|CBA63664.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile CD196] gi|260213327|emb|CBE04906.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile R20291] Length = 238 Score = 113 bits (283), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 72/227 (31%), Positives = 119/227 (52%), Gaps = 3/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K IA GIASRR+ E +I R+KVNG +++ + N+ D +E D ++ +E Sbjct: 2 RINKYIASCGIASRRKSEEIILGGRIKVNGSVVKELSFNIDEEKDIVEFDNKKVKPSENY 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G +TT D R +V D L + RV +GRLD T GLL+LTNDG L Sbjct: 62 IYIVLNKPEGYITTVKDQFNRPSVIDILKDVRERVYPIGRLDYETSGLLILTNDGDLTYK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNAWVTV 191 L P + + Y G + D++ + G+ I+ ++VT + ++ + + + Sbjct: 122 LTHPKHEIDKTYVASVKGIISDDEIRQFETGLKIEDYTTAPAKIRVTKENKEKNYSVCEI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG+NR+++K+ + N V L RIS G L G R +++ Sbjct: 182 TIHEGRNRQVRKMCKAINHPVLNLRRISVGKIVLKDTKVGEYRYLTE 228 >gi|325295032|ref|YP_004281546.1| pseudouridine synthase Rsu [Desulfurobacterium thermolithotrophum DSM 11699] gi|325065480|gb|ADY73487.1| pseudouridine synthase Rsu [Desulfurobacterium thermolithotrophum DSM 11699] Length = 238 Score = 113 bits (283), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 81/232 (34%), Positives = 129/232 (55%), Gaps = 6/232 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A +G +R +V+R+I + V VNG ++ + NV D + VDG L + E+ Sbjct: 2 RLDKLLADSGFGTRSQVKRLIKKGFVTVNGETIKDPSFNVDPQKDEVLVDG-ELVEYEKD 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 + HKP G +T S D + TV + + I F R+ VGRLD + EGLLL+TNDG LA Sbjct: 61 YYLILHKPQGYIT--STKDRQMTVMELIADIPRFERLFPVGRLDKDAEGLLLITNDGELA 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY V G+++++ L LKKGI ++ +V + + S + + Sbjct: 119 HRLTHPKWKVPKVYFVVVEGKLNEENLEPLKKGIELKDFRAKPAKVRILKAEESESEAEI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EGK ++K++FE V L RI +G +LG L G R ++K+ L+E Sbjct: 179 EITEGKYHQVKRMFEKIGHPVKYLRRIQFGNLKLGNLPVGEYRFLTKEELKE 230 >gi|218885473|ref|YP_002434794.1| pseudouridine synthase [Desulfovibrio vulgaris str. 'Miyazaki F'] gi|218756427|gb|ACL07326.1| pseudouridine synthase [Desulfovibrio vulgaris str. 'Miyazaki F'] Length = 251 Score = 113 bits (283), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 78/230 (33%), Positives = 119/230 (51%), Gaps = 7/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R++K IA AG+ SRR+ + +I Q V+VNG +++ V+ D IEV G L Sbjct: 7 RLNKAIAGAGVCSRRQADDLIQQGVVRVNGEVVDTPGARVVPGRDRIEVRGQLLELDAAP 66 Query: 74 RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDG 128 + Y HKP+ +V+T DP GR TV LP R+ VGRLD +EGLL+LT+DG Sbjct: 67 AAFTYVMLHKPVQVVSTVRDPQGRPTVLGILPPDLRGGRLYPVGRLDYFSEGLLILTDDG 126 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNA 187 L L P +VY V+ G V + L +++G+ + +G + V L + Sbjct: 127 DLTNRLTHPRYHLPKVYMVKVRGHVTESTLAPMRQGMTLAEGEKLAPVDVRLLQSDRQAS 186 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ V L R+ GP +LG L G+ R ++ Sbjct: 187 LFEMTLHQGVNRQIRRMCRDLGLTVLLLRRVRQGPLELGELPKGAARRLT 236 >gi|297559952|ref|YP_003678926.1| pseudouridine synthase [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] gi|296844400|gb|ADH66420.1| pseudouridine synthase [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] Length = 694 Score = 113 bits (283), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 79/235 (33%), Positives = 120/235 (51%), Gaps = 11/235 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A AG+ASRR E MIA RV V+G ++ R V + I VDG+ + A Sbjct: 458 RLQKALAAAGVASRRASEEMIAAGRVSVDGQVVRRFGARVDPESSEIRVDGMRVVTAPDK 517 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G+V+T DP+GR T+ D R+ VGRLD TEGL+LLTNDG LA Sbjct: 518 LYFALNKPRGVVSTMWDPEGRPTLADYTGQTEERIFHVGRLDTETEGLILLTNDGELANR 577 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-----QKGSNAW 188 L P + ++ Y + G V + ++KG+ ++ D V +D+ + A Sbjct: 578 LTHPRYKVVKTYIAKVPGPVPHRVVREVQKGVELE-----DGPVEVDSFRVVDNEPPKAL 632 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V + L EG+ ++++ E V L R GP L L G+ R ++ + + E Sbjct: 633 VEIRLHEGRKHIVRRLMEAVGHPVADLARTQVGPIDLNALKLGTMRALTSREVSE 687 >gi|78357001|ref|YP_388450.1| pseudouridine synthase, Rsu [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] gi|78219406|gb|ABB38755.1| ribosomal large subunit pseudouridine synthase B [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] Length = 292 Score = 113 bits (282), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 81/231 (35%), Positives = 128/231 (55%), Gaps = 8/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL---RKA 70 R++K +A AG+ SRR + ++AQ V VNG++++ V V+ D + V G + + Sbjct: 49 RINKALADAGVCSRRAADELVAQGVVTVNGVVVDTPGVKVVPDRDELCVRGKKIFLKSSS 108 Query: 71 ERTRLWLY-HKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTND 127 R+ +L HKP+ +VTT SDP+GR TV D LP + R+ VGRLD +EGLLLLT+D Sbjct: 109 SRSHTYLMMHKPVEVVTTVSDPEGRRTVIDILPPLHRKKRLFPVGRLDFFSEGLLLLTDD 168 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G L L PS + Y V+ G V + L ++KG+ + +G ++V + ++ Sbjct: 169 GVLTHRLTHPSWHLPKTYLVKVRGVVQDNDLQAMRKGMTLAEGEKLAPVEVEVLSRHHDW 228 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + L +G NR+I+++ V L R+ GP LG L G RE++ Sbjct: 229 LLLEMTLFQGINRQIRRMCRDAGLTVLSLHRVRQGPLSLGELRTGEVRELT 279 >gi|325830888|ref|ZP_08164272.1| pseudouridine synthase B, ribosomal large subunit [Eggerthella sp. HGA1] gi|325487295|gb|EGC89738.1| pseudouridine synthase B, ribosomal large subunit [Eggerthella sp. HGA1] Length = 301 Score = 113 bits (282), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 83/272 (30%), Positives = 125/272 (45%), Gaps = 33/272 (12%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 + D + P R+ K +ARAG ASRR E ++ RV VNG ++ V D Sbjct: 17 VSDMGECGDRVVPMRLQKFLARAGAASRRGSENLMTAGRVTVNGKVVTELGSKVDPLVDE 76 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINT 118 + VDG +R A+ + HKP G VTT SDP GR TV + +P+ + + +GRLD +T Sbjct: 77 VAVDGAVVRLADGPVTIMLHKPAGFVTTMSDPQGRRTVAELVPTERYPGLFPIGRLDFDT 136 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI------------- 165 GLLL + DG L L P + Y G+ + L LL++GI Sbjct: 137 TGLLLFSTDGELGNGLLHPKHHVTKRYLACVEGRPTERDLALLRRGIELDDGPTQPADVR 196 Query: 166 VIQGICYGDMQVTLD-----TQKGSNAWVTV-------------GLREGKNREIKKVFEF 207 +++G + L+ + S + V G+REG+ R++K++ Sbjct: 197 MVEGGAARHAERLLEIPAAVPPRSSKEYAAVCEGRATRRSIVRLGIREGRKRQVKRMLAA 256 Query: 208 FNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V L R S+GP +LG L GS R + + Sbjct: 257 VGHPVLALHRDSFGPLELGDLPRGSWRALDAE 288 >gi|33865483|ref|NP_897042.1| putative pseudouridylate synthase specific to ribosomal small subunit [Synechococcus sp. WH 8102] gi|33632652|emb|CAE07464.1| putative pseudouridylate synthase specific to ribosomal small subunit [Synechococcus sp. WH 8102] Length = 250 Score = 113 bits (282), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 79/229 (34%), Positives = 114/229 (49%), Gaps = 1/229 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T QR+ K+IA AG+ SRR E I RVKV+G + + I VDG PL Sbjct: 1 MTRQRLQKLIAAAGLCSRRTAEDWIDAGRVKVDGRISSLGDQADPESQLIHVDGRPLSFR 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-SVGRLDINTEGLLLLTNDGG 129 + L +KP G+++T DP GRSTV D LP + + VGRLD ++ G LLLT+ G Sbjct: 61 GEPTVLLINKPAGVISTCRDPRGRSTVLDLLPQQLRQGLHPVGRLDADSRGALLLTDYGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + YRV G L ++G+ + G +V + ++ + Sbjct: 121 LTLRLTHPRYDHAKTYRVWVEGTPLDTSLQRWRQGVTLDGTRTRSAEVRVLQRRSDRTLL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V L EG+NR+I++V E V L R++ +LG L G R +S+ Sbjct: 181 EVVLLEGRNRQIRRVAELLGHPVVDLQRVAIAGLRLGALPEGRWRRLSR 229 >gi|260061659|ref|YP_003194739.1| ribosomal large subunit pseudouridine synthase B [Robiginitalea biformata HTCC2501] gi|88785791|gb|EAR16960.1| ribosomal large subunit pseudouridine synthase B [Robiginitalea biformata HTCC2501] Length = 303 Score = 113 bits (282), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 85/248 (34%), Positives = 125/248 (50%), Gaps = 24/248 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGI SRRE + IA V VNG + V TD + DG L++ ER Sbjct: 71 RLNKYIANAGICSRREADTYIAAGNVTVNGKTITEMGYKVQPTDEVRFDGRLLQR-ERKE 129 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP +TT D GR TV + + + +R++ VGRLD NT GLLL TNDG LA+ Sbjct: 130 YVLLNKPRNFITTTRDEKGRRTVMELISRASNARLVPVGRLDRNTTGLLLFTNDGELAKK 189 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----GSNAWV 189 L P ++Y V L L++G+ ++ D ++ +D S V Sbjct: 190 LTHPKHGVRKIYHVELDKTFKSADLGKLREGLELE-----DGRIEVDEASYIDGASKKEV 244 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 V L G+NR ++++FE ++V +L R+ +LAG ++KK L HL Sbjct: 245 GVELHSGRNRIVRRIFEHLGYQVVKLDRV---------VLAG----LTKKDLPRGHWRHL 291 Query: 250 LEEAQVNL 257 E+ +NL Sbjct: 292 TEQEVINL 299 >gi|313678211|ref|YP_004055951.1| pseudouridine synthase B, ribosomal large subunit [Mycoplasma bovis PG45] gi|312950215|gb|ADR24810.1| pseudouridine synthase B, ribosomal large subunit [Mycoplasma bovis PG45] Length = 246 Score = 112 bits (281), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 89/241 (36%), Positives = 128/241 (53%), Gaps = 18/241 (7%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNVMSTDHIEVD 63 +QE F RV K+IA++G+ SRRE E+MI+ V VNGI L ++A+ + D I+V+ Sbjct: 1 MQELF---RVQKLIAQSGLMSRREAEKMISSGLVFVNGIKASLGDKASAD----DEIKVN 53 Query: 64 G--VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 G + L K+ + +L +KP +TT +DP GR TV D L + R++ VGRLD NT G+ Sbjct: 54 GKILNLTKSPVFKYFLLNKPKNSITTSNDPKGRRTVID-LINTNERIVPVGRLDRNTTGV 112 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLT D L L P + RVYR R + + L I I G M + Sbjct: 113 LLLTTDYELVNKLTHPKYEIERVYRARIDSPLTLKEFKELNARIEID----GKMSRQIVD 168 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 Q + +++ V L G +KK+FE KV L R+SY + L G RE++ K + Sbjct: 169 QVDTKSYL-VSLHVGSYHHVKKLFEKIGHKVLTLKRVSYANLTVDKLPEGMYRELTLKEV 227 Query: 242 R 242 R Sbjct: 228 R 228 >gi|303233760|ref|ZP_07320414.1| putative pseudouridine synthase B, ribosomal large subunit [Finegoldia magna BVS033A4] gi|302495194|gb|EFL54946.1| putative pseudouridine synthase B, ribosomal large subunit [Finegoldia magna BVS033A4] Length = 242 Score = 112 bits (281), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 69/215 (32%), Positives = 113/215 (52%), Gaps = 1/215 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA++G SRR + +I +V VNG +L + V TD +EV+G + E Sbjct: 2 RINKFIAQSGYCSRRNADELIKNSKVYVNGTILLDLSYQVNDTDIVEVEGKKINLKEDKI 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KPIG +T D V D + S +RV VGRLD ++ GLL+LTNDG L Sbjct: 62 YIAINKPIGYASTVKDKFADKKVVDLIKSD-TRVYPVGRLDKDSHGLLILTNDGEFTYEL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + ++Y V G+ ++ ++ LK GI++ G ++ ++ V + Sbjct: 121 THPKFEHKKIYEVLVKGKPNKTEIKQLKDGILLDGYKLKKSKIEFIENVKNDTKYRVTIF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 EG+NR+I+++F+F N V L R+ G +++ L Sbjct: 181 EGRNRQIRRMFDFINHPVLDLKRVQIGNYKMDNSL 215 >gi|169824529|ref|YP_001692140.1| ribosomal large subunit pseudouridine synthase B [Finegoldia magna ATCC 29328] gi|167831334|dbj|BAG08250.1| ribosomal large subunit pseudouridine synthase B [Finegoldia magna ATCC 29328] Length = 242 Score = 112 bits (281), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 72/228 (31%), Positives = 120/228 (52%), Gaps = 2/228 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA++G SRR + +I +V VNG +L + V TD +EV+G + E Sbjct: 2 RINKFIAQSGYCSRRNADELIKNSKVYVNGTILLDLSYQVNDTDIVEVEGKKINLKEDKI 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KPIG +T D V D + S +RV VGRLD ++ GLL+LTNDG L Sbjct: 62 YIAINKPIGYASTVKDKFADKKVVDLIKSD-TRVYPVGRLDKDSHGLLILTNDGEFTYEL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + ++Y V G+ ++ ++ LK GI++ G ++ ++ V + Sbjct: 121 THPKFEHKKIYEVLVKGKPNKTEIKQLKDGILLDGYKLKKSKIEFIENVKNDTKYRVTIF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EG+NR+I+++F+F N V L R+ G +++ +L +G + + K L Sbjct: 181 EGRNRQIRRMFDFINHPVLDLKRVQIGNYKMENSLKSGEYKLLKSKDL 228 >gi|124004166|ref|ZP_01689012.1| ribosomal large subunit pseudouridine synthase B [Microscilla marina ATCC 23134] gi|123990236|gb|EAY29735.1| ribosomal large subunit pseudouridine synthase B [Microscilla marina ATCC 23134] Length = 391 Score = 112 bits (281), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 72/227 (31%), Positives = 121/227 (53%), Gaps = 6/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ I+ +G+ SRRE +++I + VNG ++ V TD ++ G L K E+ Sbjct: 160 RLNRFISNSGVCSRREADKLIEMGMISVNGKVITEMGFQVSPTDTVKY-GKRLLKREKFV 218 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP +TT +DP R TV D + S R+ VGRLD NT GLLL TNDG +A+ Sbjct: 219 YVLLNKPKDFITTTNDPQDRKTVMDLIKNSCDERIYPVGRLDRNTTGLLLFTNDGEVAKK 278 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L PS +VY+V + + L+ + +G++++ G D L+ ++ V V Sbjct: 279 LSHPSHDVKKVYQVELDKPLKDEDLDSIAEGVILEDGYAAVDEIAILNPER---TLVGVE 335 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + G+NR ++++F +++V +L R Y + G R +S+K Sbjct: 336 IHIGRNRIVRRIFNHLDYEVVKLDRTMYAGLNKKNIDRGDWRYLSEK 382 >gi|328951588|ref|YP_004368923.1| pseudouridine synthase Rsu [Marinithermus hydrothermalis DSM 14884] gi|328451912|gb|AEB12813.1| pseudouridine synthase Rsu [Marinithermus hydrothermalis DSM 14884] Length = 240 Score = 112 bits (281), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 82/222 (36%), Positives = 120/222 (54%), Gaps = 9/222 (4%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A+AG+AS RR+ E +I RV +NG + A V D + VDG P+ R Sbjct: 5 RLQKYLAQAGVASSRRKAEALIRAGRVTINGQVAALGA-KVTPGDEVCVDGRPVAPTARR 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+ TT D TVF+ +P+I + +VGRLD ++EGLLLLTNDG L + Sbjct: 64 VVLALHKPPGVTTTRRDRFAERTVFELVPAIPG-LHTVGRLDRDSEGLLLLTNDGRLTQR 122 Query: 134 LELPSTQWLRVYRV-RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VYRV G+V L L+KG+ ++ G + K +T Sbjct: 123 LTHPRYGVPKVYRVWTAKGEVPPFILKRLEKGVRLED---GPARALKARPKVGGCVLT-- 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 L EG+ RE++++ + V RL+R+ GP +LG L G+ R Sbjct: 178 LAEGRKREVRRMLRAVGYPVVRLLRVKIGPIRLGGLKPGAWR 219 >gi|291166791|gb|EFE28837.1| ribosomal large subunit pseudouridine synthase B [Filifactor alocis ATCC 35896] Length = 242 Score = 112 bits (281), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 76/226 (33%), Positives = 118/226 (52%), Gaps = 2/226 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+++ IA GI+SRR+ +++I + RV VNG + + V D ++VDG + Sbjct: 2 RINQYIAHCGISSRRKADQLIEEGRVFVNGKKVTSPGMQVEEGNDMVKVDGKIISSEVNK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP+ ++ SD GR+TV + L R+ VGRLD + GLLLLTNDG LA Sbjct: 62 VYYMLNKPLRYISAVSDDRGRNTVLE-LFRTKERIYPVGRLDYLSTGLLLLTNDGELANR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y V+ G ++ +KG+ + G ++ ++ V L Sbjct: 121 LIHPRYHLEKTYFVQVKGDAPENLKERFQKGMFLDGYKTKPAELEFLGKRDGIIKYKVTL 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 REG+NR+I+K+FE KV L RIS G +G L G R ++ K Sbjct: 181 REGRNRQIRKMFEAARLKVVSLKRISMGDLYIGNLKEGEYRALTSK 226 >gi|261416947|ref|YP_003250630.1| pseudouridine synthase [Fibrobacter succinogenes subsp. succinogenes S85] gi|261373403|gb|ACX76148.1| pseudouridine synthase [Fibrobacter succinogenes subsp. succinogenes S85] gi|302327155|gb|ADL26356.1| RNA pseudouridine synthase family protein [Fibrobacter succinogenes subsp. succinogenes S85] Length = 286 Score = 112 bits (281), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 74/256 (28%), Positives = 124/256 (48%), Gaps = 35/256 (13%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 V +VI++ G SR + E ++ + RV + G ++ D I VDG P++ +E Sbjct: 30 VVRVISKRGFCSRSQAENLVREGRVSLRGKIVRDPDTPARENDEICVDGKPVKASEFV-Y 88 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---------VGRLDINTEGLLLLTN 126 ++ +KP G VTT SD GR+TV D ++++ VGRLD +EGLLL TN Sbjct: 89 FMMNKPRGYVTTASDEKGRATVMDLFREQYAKMFPGKPVPHISPVGRLDAASEGLLLFTN 148 Query: 127 DGGLARVL------------------ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 D A L E ++YRV+ +G ++L+ ++ G + Sbjct: 149 DTQWADALLKTKDERRKTRDDKCVERESRGPIHTKIYRVQVNGHPTAEELSQMEAGFNVP 208 Query: 169 GICYGD-------MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 +G+ + L + N W+ + L EGKNREI+++ ++V RL+RI + Sbjct: 209 PRVFGEPEEFMHAVSAKLYSAGEKNCWLEITLDEGKNREIRRMLAKLGYEVLRLVRIKFC 268 Query: 222 PFQLGTLLAGSTREVS 237 ++LG L G R+++ Sbjct: 269 NYELGDLKQGEIRKIN 284 >gi|313897459|ref|ZP_07831002.1| pseudouridine synthase B, ribosomal large subunit [Clostridium sp. HGF2] gi|312957829|gb|EFR39454.1| pseudouridine synthase B, ribosomal large subunit [Clostridium sp. HGF2] Length = 245 Score = 112 bits (281), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 78/225 (34%), Positives = 119/225 (52%), Gaps = 7/225 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E +I++ RV VNG + V D IEVDG + K ++ Sbjct: 2 ERLQKVIAAAGITSRRKAEVLISEGRVAVNGETITELGYKVKRGDLIEVDGKAIEKEDKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP + T D GR TV D L R+ +VGRLD +T G+++LTNDG A Sbjct: 62 -YFLMNKPKRTMCTSDDEFGRQTVVD-LVDCRQRIFTVGRLDYDTSGVIILTNDGDFANE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTL---DTQKGSNAWV 189 + P +VY + +G + + + +K GIV+ GI + + DT+K ++ Sbjct: 120 IIHPRYHIPKVYNLTINGILTPEDMKKIKAGIVLDDGIKTLPAKYRMTEKDTEKNQCSF- 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + EG+NR+IK++ E ++V RL R L G R Sbjct: 179 DLTIVEGRNRQIKRMMEALGYEVRRLHRSRLAFLHCSDLRQGEYR 223 >gi|163753329|ref|ZP_02160453.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Kordia algicida OT-1] gi|161327061|gb|EDP98386.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Kordia algicida OT-1] Length = 292 Score = 112 bits (281), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 71/208 (34%), Positives = 108/208 (51%), Gaps = 3/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +GI SRRE + I+ V VNG ++ V TD + DG + E+ Sbjct: 61 RLNKYISNSGICSRREADMHISVGSVTVNGKVVTEMGYKVQLTDEVRFDGRII-NPEKAT 119 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G + T D GR TV D + + +R++ VGRL+ T GLLL TNDG LAR Sbjct: 120 YILLNKPKGFLVTTKDEKGRKTVMDLVATATTARIVPVGRLERQTTGLLLFTNDGELARK 179 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P +++ V + Q N +K G+ I+G YG +++ Q S V + + Sbjct: 180 LTDPHQNVRKIFHVELDRNLSQTDFNKIKDGVNIRGDIYGVDEISW-IQGASKREVGIKV 238 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 G N +K +FE ++ V RL R+ + Sbjct: 239 STGSNGLVKAIFEHLSYTVARLDRVVFA 266 >gi|302380740|ref|ZP_07269205.1| putative pseudouridine synthase B, ribosomal large subunit [Finegoldia magna ACS-171-V-Col3] gi|302311683|gb|EFK93699.1| putative pseudouridine synthase B, ribosomal large subunit [Finegoldia magna ACS-171-V-Col3] Length = 242 Score = 112 bits (281), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 72/228 (31%), Positives = 120/228 (52%), Gaps = 2/228 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA++G SRR + +I +V VNG +L + V TD +EV+G + E Sbjct: 2 RINKFIAQSGYCSRRNADELIKNSKVYVNGTILLDLSYQVNDTDIVEVEGKKINLKEDKI 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KPIG +T D V D + S +RV VGRLD ++ GLL+LTNDG L Sbjct: 62 YIAINKPIGYASTVKDKFADKKVVDLIKSD-TRVYPVGRLDKDSHGLLILTNDGEFTYEL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + ++Y V G+ ++ ++ LK GI++ G ++ ++ V + Sbjct: 121 THPKFEHKKIYEVLVKGKPNKTEIKQLKDGILLDGYKLKKSKIEFIENIKNDTKYRVTIF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EG+NR+I+++F+F N V L R+ G +++ +L +G + + K L Sbjct: 181 EGRNRQIRRMFDFINHPVLDLKRVQIGNYKMENSLKSGEYKLLKSKDL 228 >gi|257791082|ref|YP_003181688.1| pseudouridine synthase [Eggerthella lenta DSM 2243] gi|257474979|gb|ACV55299.1| pseudouridine synthase [Eggerthella lenta DSM 2243] Length = 282 Score = 112 bits (281), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 82/264 (31%), Positives = 123/264 (46%), Gaps = 33/264 (12%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPL 67 + P R+ K +ARAG ASRR E ++ RV VNG ++ V D + VDG + Sbjct: 6 DRVVPMRLQKFLARAGAASRRGSENLMTAGRVTVNGKVVTELGSKVDPLVDEVAVDGAVV 65 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTN 126 R A+ + HKP G VTT SDP GR TV + +P+ + + +GRLD +T GLLL + Sbjct: 66 RLADGPVTIMLHKPAGFVTTMSDPQGRRTVAELVPTERYPGLFPIGRLDFDTTGLLLFST 125 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-------------VIQGICYG 173 DG L L P + Y G+ + L LL++GI V++G Sbjct: 126 DGELGNGLLHPKHHVTKRYLACVEGRPTERDLALLRRGIELDDGPTQPADVRVVEGGAAR 185 Query: 174 DMQVTLD-----TQKGSNAWVTV-------------GLREGKNREIKKVFEFFNWKVNRL 215 + L+ + S + V G+REG+ R++K++ V L Sbjct: 186 HAERLLEIPAAVPPRSSKEYAAVCEGRATRRSIVRLGIREGRKRQVKRMLAAVGHPVLAL 245 Query: 216 IRISYGPFQLGTLLAGSTREVSKK 239 R S+GP +LG L G+ R + + Sbjct: 246 HRDSFGPLELGDLPRGAWRALDAE 269 >gi|325954742|ref|YP_004238402.1| pseudouridine synthase Rsu [Weeksella virosa DSM 16922] gi|323437360|gb|ADX67824.1| pseudouridine synthase Rsu [Weeksella virosa DSM 16922] Length = 297 Score = 112 bits (281), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 73/226 (32%), Positives = 118/226 (52%), Gaps = 6/226 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGI+SRRE + +I V VNG ++ V TD + DG + AE+ Sbjct: 65 RLNKYIANAGISSRREADELILTGVVTVNGKVITEMGYKVQPTDEVRFDGKKI-SAEKNV 123 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G +TT D R TV D + + +R+ VGRLD T G+LL TNDG L + Sbjct: 124 YFILNKPKGYITTTKDEKNRQTVLDLMEGATTARIFPVGRLDRQTTGVLLFTNDGFLTKK 183 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--VIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS +VY V ++ + ++KGI + +G+ D +D + + + + Sbjct: 184 LTHPSHDVKKVYHVTLDRKLSSHDMAEIRKGIRLIPEGVATVDEVSFIDGR--PHNEIGL 241 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L G NR ++++FE ++V +L R+S+ L G R ++ Sbjct: 242 ELHIGWNRVVRRIFESLGYQVEKLDRVSFAGLTKSKLRQGQYRALT 287 >gi|225021516|ref|ZP_03710708.1| hypothetical protein CORMATOL_01537 [Corynebacterium matruchotii ATCC 33806] gi|224945898|gb|EEG27107.1| hypothetical protein CORMATOL_01537 [Corynebacterium matruchotii ATCC 33806] Length = 241 Score = 112 bits (281), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 80/233 (34%), Positives = 121/233 (51%), Gaps = 6/233 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E MI RV+VNG ++ + V V D I VDGV + Sbjct: 2 RLQKVLAQAGVASRRNAEIMIDSGRVEVNGAVVMQQGVRVNPEVDVIRVDGVRVNVNNNH 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGGL 130 + ++ +KP G+ +T SD GR + D + S + VGRLD +TEGL+LLTNDG L Sbjct: 62 QYFVLNKPRGIHSTMSDDLGRPCIGDLVSERISAGQGLFHVGRLDADTEGLILLTNDGEL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + + Y G+ D+ + LK G+ + G D +D +G + V Sbjct: 122 ANRLSHPKYEVSKTYIAEVLGEADRSLVTTLKNGVELDDGPAAADYVQIVDVHQG-RSLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V L EG+ ++++ + + V L+R QLG G+ R ++ LR Sbjct: 181 RVQLHEGRKHIVRRMLKAAGYPVQYLVRTKLHTVQLGEQKPGTIRALNDNELR 233 >gi|182419893|ref|ZP_02951131.1| RNA pseudouridine synthase family protein [Clostridium butyricum 5521] gi|237667549|ref|ZP_04527533.1| ribosomal large subunit pseudouridine synthase B [Clostridium butyricum E4 str. BoNT E BL5262] gi|182376262|gb|EDT73846.1| RNA pseudouridine synthase family protein [Clostridium butyricum 5521] gi|237655897|gb|EEP53453.1| ribosomal large subunit pseudouridine synthase B [Clostridium butyricum E4 str. BoNT E BL5262] Length = 238 Score = 112 bits (280), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 75/224 (33%), Positives = 116/224 (51%), Gaps = 4/224 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A GIASRR+ E +I +VKVNG ++E V D +E DG + K ER Sbjct: 3 ERLQKYMASCGIASRRKCEELILLGKVKVNGNIIEELGFKVNPLKDIVEYDGRVITKEER 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP ++T+ D R TV D + + R+ +GRLD ++ GL+LLTNDG L Sbjct: 63 KVYIMLNKPEDVITSVKDEKDRKTVID-IVKVNERIFPIGRLDYDSSGLILLTNDGELYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 + P + + Y G+V D + GI I G ++ + + + + + Sbjct: 122 KIIHPRVELDKKYVAVVKGEVSLDDKEKFESGIDIGGYITAPAKLKMLEYSHRKDLSTIE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V + EGKNR+I+K+ N +V L R+S G +LG L G R Sbjct: 182 VCIHEGKNRQIRKMCSAINHEVISLKRVSIGNIRLGQLKKGEYR 225 >gi|21324194|dbj|BAB98819.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Corynebacterium glutamicum ATCC 13032] Length = 252 Score = 112 bits (280), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 78/228 (34%), Positives = 122/228 (53%), Gaps = 6/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E +I Q RV+VN ++ V V + D I VDGV + E Sbjct: 13 RLQKVLAQAGVASRRHAEILIDQGRVEVNDRIVTTQGVRVDPNNDVIRVDGVRIHINEDL 72 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+ +T SD GR V D + + R+ VGRLD +TEGLLLLTNDG L Sbjct: 73 EYFVLNKPRGMHSTMSDELGRPCVGDLVSEKTASGQRLFHVGRLDADTEGLLLLTNDGEL 132 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L P + + Y G+ ++ L+ G+ ++ G D +D +G + + Sbjct: 133 ANRLMHPKYEVSKTYLATVRGEATNKLVSALRDGVELEDGPAKADFAQIIDVFQGK-SLL 191 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EG+ ++++F+ + V RL+R QLG GS R ++ Sbjct: 192 RIEIHEGRKHIVRRLFDELGFPVERLVRTKLHTVQLGDQKPGSLRALN 239 >gi|257066516|ref|YP_003152772.1| pseudouridine synthase [Anaerococcus prevotii DSM 20548] gi|256798396|gb|ACV29051.1| pseudouridine synthase [Anaerococcus prevotii DSM 20548] Length = 233 Score = 112 bits (280), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 71/216 (32%), Positives = 122/216 (56%), Gaps = 13/216 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +G SRR+ + ++ + +VKVNG +++ +D +E+DG L E+ Sbjct: 2 RINKYIASSGYTSRRKADDLVKKGKVKVNGETTHELGLDIKDSDVVEIDGKVLEIEEKIY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + LY KP G +T++ DP + D L + R + GRLD ++EGLL++TNDG + Sbjct: 62 IKLY-KPRGYITSNFDPYNDRDLND-LVKLDQRFFAAGRLDKDSEGLLIITNDGIFTNQI 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-----KGSNAWV 189 PS + + Y VR +++++ + GI I GD ++T D++ K S + Sbjct: 120 IHPSKKLDKTYIVRVSRLLNKEECQQFESGIDI-----GDSEMTSDSRIELIDKTSKTY- 173 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + +G NR+I+++F +F+ +V L RIS GP +L Sbjct: 174 KVTIHQGYNRQIRRMFAYFSSEVKMLKRISIGPIKL 209 >gi|23465315|ref|NP_695918.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium longum NCC2705] gi|189439325|ref|YP_001954406.1| 16S rRNA uridine-516 pseudouridylate synthase [Bifidobacterium longum DJO10A] gi|227547249|ref|ZP_03977298.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium longum subsp. infantis ATCC 55813] gi|239621483|ref|ZP_04664514.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium longum subsp. infantis CCUG 52486] gi|296454186|ref|YP_003661329.1| pseudouridine synthase [Bifidobacterium longum subsp. longum JDM301] gi|312132697|ref|YP_004000036.1| rsua [Bifidobacterium longum subsp. longum BBMN68] gi|317483248|ref|ZP_07942243.1| RNA pseudouridylate synthase [Bifidobacterium sp. 12_1_47BFAA] gi|322689199|ref|YP_004208933.1| pseudouridine synthase [Bifidobacterium longum subsp. infantis 157F] gi|322691265|ref|YP_004220835.1| pseudouridine synthase [Bifidobacterium longum subsp. longum JCM 1217] gi|23325954|gb|AAN24554.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium longum NCC2705] gi|189427760|gb|ACD97908.1| 16S rRNA uridine-516 pseudouridylate synthase [Bifidobacterium longum DJO10A] gi|227212208|gb|EEI80104.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium longum subsp. infantis ATCC 55813] gi|239515944|gb|EEQ55811.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium longum subsp. infantis CCUG 52486] gi|291516882|emb|CBK70498.1| pseudouridine synthase family [Bifidobacterium longum subsp. longum F8] gi|296183617|gb|ADH00499.1| pseudouridine synthase [Bifidobacterium longum subsp. longum JDM301] gi|311773655|gb|ADQ03143.1| RsuA [Bifidobacterium longum subsp. longum BBMN68] gi|316915317|gb|EFV36744.1| RNA pseudouridylate synthase [Bifidobacterium sp. 12_1_47BFAA] gi|320456121|dbj|BAJ66743.1| pseudouridine synthase [Bifidobacterium longum subsp. longum JCM 1217] gi|320460535|dbj|BAJ71155.1| pseudouridine synthase [Bifidobacterium longum subsp. infantis 157F] Length = 256 Score = 112 bits (280), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 74/241 (30%), Positives = 123/241 (51%), Gaps = 10/241 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVP 66 Q++ R+ K++A+AG SRR+ E MI + RV+V+G L+ V + VDG Sbjct: 12 QDDSNSIRLQKLLAQAGFGSRRKCEDMITEGRVEVDGELVTELGTRVDPHKQQVRVDGSR 71 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TN Sbjct: 72 VRVNPNHVTLALNKPRKVLSAMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTN 131 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-----T 181 DG L++ + P + + Y G++ + + +V G+ D + LD Sbjct: 132 DGELSQHVMHPKYEVEKTYVATLEGKIS----GTVCRRLVTTGVQLDDGWIKLDHCAIID 187 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V V L GKNR ++++F + V RL+R GP +LG L GS R +S+ + Sbjct: 188 SSRDHTMVKVVLHSGKNRIVRRIFGSIGFPVKRLVRTQIGPIKLGDLKPGSYRVLSQTEV 247 Query: 242 R 242 R Sbjct: 248 R 248 >gi|213692048|ref|YP_002322634.1| pseudouridine synthase [Bifidobacterium longum subsp. infantis ATCC 15697] gi|213523509|gb|ACJ52256.1| pseudouridine synthase [Bifidobacterium longum subsp. infantis ATCC 15697] gi|320458160|dbj|BAJ68781.1| pseudouridine synthase [Bifidobacterium longum subsp. infantis ATCC 15697] Length = 256 Score = 112 bits (280), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 75/241 (31%), Positives = 124/241 (51%), Gaps = 10/241 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVP 66 Q++ R+ K++A+AG SRR+ E MI + RV+V+G L+ V + VDG Sbjct: 12 QDDSNSIRLQKLLAQAGFGSRRKCEDMITEGRVEVDGELVTELGTRVDPHKQQVRVDGSR 71 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TN Sbjct: 72 VRVNPNHVTLALNKPRKVLSAMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTN 131 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L++ + P + + Y G++ + + +V G+ D + LD + Sbjct: 132 DGELSQHVMHPKYEVEKTYVATLEGKIS----GTVCRRLVTTGVQLDDGWIKLDHCAIID 187 Query: 187 A-----WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 A V V L GKNR ++++F + V RL+R GP +LG L GS R +S+ + Sbjct: 188 ASRDYTMVKVVLHSGKNRIVRRIFGSIGFPVKRLVRTQIGPIKLGDLKPGSYRVLSQTEV 247 Query: 242 R 242 R Sbjct: 248 R 248 >gi|218779269|ref|YP_002430587.1| pseudouridine synthase [Desulfatibacillum alkenivorans AK-01] gi|218760653|gb|ACL03119.1| pseudouridine synthase [Desulfatibacillum alkenivorans AK-01] Length = 234 Score = 112 bits (280), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 75/227 (33%), Positives = 123/227 (54%), Gaps = 7/227 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +A AG+ SRR E +I+Q +V VNG ++ + V + D I V+G + + Sbjct: 4 ERLQKYLAHAGVCSRRHAEELISQGKVAVNGEIVTQMGVKIDPDKDEIAVNGKKVEPKQS 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +TT P GR V D L + R+ +GRLD N+ GLLLLT+DG + Sbjct: 64 RTYIMLNKPAGYLTTCKQP-GRKIVLD-LIDLPQRLFPIGRLDNNSTGLLLLTDDGRIHH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + Y V L+ +++G++++G +V + G ++ T+ Sbjct: 122 RLSHPSFDHEKEYEVETVKDAPDQALDAMRRGMILEGKKTRPAKV---KRTGPRSF-TIV 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L+EG+NR+I+K+ E KV RL R+ +LG L +G R +++K Sbjct: 178 LKEGRNRQIRKMVELTKNKVKRLHRVRMSTIRLGGLPSGKWRRLNEK 224 >gi|164688313|ref|ZP_02212341.1| hypothetical protein CLOBAR_01958 [Clostridium bartlettii DSM 16795] gi|164602726|gb|EDQ96191.1| hypothetical protein CLOBAR_01958 [Clostridium bartlettii DSM 16795] Length = 237 Score = 112 bits (280), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 73/228 (32%), Positives = 120/228 (52%), Gaps = 5/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K IA G+ASRR+ E +I RV VN ++ + V D ++VD +++ + Sbjct: 2 RINKYIALCGVASRRKAEELILAGRVTVNDEVMTELSYKVDEENDIVKVDDKLIKEENKL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G +TT D R +V D + I RV +GRLD T GLLLLTNDG L Sbjct: 62 VYILLNKPEGYITTVKDQFDRPSVLDLVSDIKERVYPIGRLDYETSGLLLLTNDGDLTYK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVT 190 L P + + Y R G++ ++++ K G+ I+ + + D Q+ S + + Sbjct: 122 LTHPKHEVDKTYVARVKGKLTKEEIERFKTGLKIEDYTTAPAKLKVIKYDEQRDS-SLLE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + EGKNR+++K+ + N V RL R + G ++G G R +++ Sbjct: 181 IKIHEGKNRQVRKMCKAINHPVLRLRRSAMGKIKIGDCEIGKYRYLTE 228 >gi|326331280|ref|ZP_08197572.1| ribosomal large subunit pseudouridine synthase B [Nocardioidaceae bacterium Broad-1] gi|325950913|gb|EGD42961.1| ribosomal large subunit pseudouridine synthase B [Nocardioidaceae bacterium Broad-1] Length = 255 Score = 112 bits (279), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 78/236 (33%), Positives = 126/236 (53%), Gaps = 9/236 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A AGIASRR E ++ V+VNG ++ R V D + V G L Sbjct: 19 RLQKLLALAGIASRRGSEILMLNGEVEVNGEVVTRLGTKVDPGKDVVRVGGKRLPPISGK 78 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G+V+T SDP+GR + D + R+ VGRLD +TEGL++LTNDG A Sbjct: 79 VYLVLNKPRGVVSTMSDPEGRRNLSDLVADRPERLFHVGRLDTDTEGLIILTNDGDFAHR 138 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT----LDTQKGSNAWV 189 L PS + + Y G++ + L G+ ++ G + VT ++T+K + + Sbjct: 139 LAHPSYEVDKTYVAEVKGEIFPNVRKRLLAGVTLED---GPVTVTKARIMETRK-DKSII 194 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + + EG+NR ++++ + V RL R GP +LG + G R++S++ L E L Sbjct: 195 ELVIHEGRNRIVRRLLDHLGHPVTRLTRTRIGPVRLGAMKPGDMRDLSREELGELL 250 >gi|329571723|gb|EGG53404.1| pseudouridine synthase B, ribosomal large subunit [Enterococcus faecalis TX1467] Length = 205 Score = 112 bits (279), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 68/202 (33%), Positives = 107/202 (52%), Gaps = 3/202 (1%) Query: 46 LLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 +++ V D +EVDGVP+ + E +L++KP G+++ SD GR V D + Sbjct: 1 MVKELGTQVSKQDTVEVDGVPIYQEEYG-YYLFYKPRGVISAVSDDKGRKVVTDYFTDVT 59 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 R+ VGRLD +T GLLLLTNDG ++ L P + +VY + G + L L KGI Sbjct: 60 ERIYPVGRLDYDTSGLLLLTNDGSFSQKLTHPKHEVDKVYVAKIKGVPTKRDLLPLAKGI 119 Query: 166 VIQG--ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 I G + Q+ K ++ V + + EG+N ++KK+F+ + V +L R YG Sbjct: 120 RIDGKRTAPANFQILSADIKTGSSVVELTIHEGRNHQVKKMFQAVGFPVQKLKRERYGEL 179 Query: 224 QLGTLLAGSTREVSKKILREQL 245 L L G R+++KK + + L Sbjct: 180 TLQGLRPGQYRDLTKKEISQLL 201 >gi|269215383|ref|ZP_06159237.1| ribosomal large subunit pseudouridine synthase B [Slackia exigua ATCC 700122] gi|269130870|gb|EEZ61945.1| ribosomal large subunit pseudouridine synthase B [Slackia exigua ATCC 700122] Length = 256 Score = 112 bits (279), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 70/229 (30%), Positives = 116/229 (50%), Gaps = 2/229 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRK 69 P RV K +ARAG+ASRR E ++ RV VNG ++ E + D + VDG + Sbjct: 15 IVPMRVQKFLARAGVASRRGSENLMTTGRVSVNGRVVTELGSRVDPRCDVVRVDGHVVHL 74 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDG 128 ++ + + +KP G +TT SDP GR+ V + +P + + +GRLD +T G+LL + DG Sbjct: 75 SDGSTTLMLNKPAGYITTMSDPFGRACVAELVPIDAYPGLFPIGRLDADTTGILLFSTDG 134 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y+ G V +++L L+ G+ ++ + L + Sbjct: 135 ELGNGLLHPRKHVDKTYQALVEGSVSEEELERLRSGVELEDGMTAPAEARLTCVSEDESR 194 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + EG+ R+++++ V L R +GP LG L GS R +S Sbjct: 195 LDITIHEGRKRQVRRMCATVGHPVVTLHRSRFGPLVLGDLPEGSWRMLS 243 >gi|288801457|ref|ZP_06406910.1| ribosomal large subunit pseudouridine synthase B [Prevotella sp. oral taxon 299 str. F0039] gi|288331668|gb|EFC70153.1| ribosomal large subunit pseudouridine synthase B [Prevotella sp. oral taxon 299 str. F0039] Length = 479 Score = 112 bits (279), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 82/238 (34%), Positives = 120/238 (50%), Gaps = 14/238 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ VM TD ++ G L E+ Sbjct: 243 PVRLNKFLANAGVCSRREADEYIQAGSVTVNGQVVTELGTKVMRTDEVKF-GDNLVSLEK 301 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 302 KVYILINKPKDCVTTSDDPQQRKTVLDLVKNACPERIYPVGRLDRNTTGVLLLTNDGDLA 361 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA---- 187 L P +VY V V Q+ L + +GI ++ D ++ D +N Sbjct: 362 SKLTHPKFLKKKVYHVFLDKPVAQEDLQKIAEGIELE-----DGEIHADEIAYANEEDKK 416 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK---ILR 242 V + + GKNR ++++FE ++V +L R+ + L G R +++K ILR Sbjct: 417 QVGIEIHSGKNRIVRRIFEHLGYRVIKLDRVQFAGLTKKNLRRGDWRFLTEKEVDILR 474 >gi|163783757|ref|ZP_02178743.1| hypothetical protein HG1285_01633 [Hydrogenivirga sp. 128-5-R1-1] gi|159881003|gb|EDP74521.1| hypothetical protein HG1285_01633 [Hydrogenivirga sp. 128-5-R1-1] Length = 244 Score = 112 bits (279), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 72/230 (31%), Positives = 119/230 (51%), Gaps = 1/230 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+++ ++ G+ SRR+ +++I + RVKVNG ++ V + D +EVDG ++ + Sbjct: 4 RLNRYLSMCGVTSRRKADKLIEEGRVKVNGEVVRDLGVKIDPEVDRVEVDGKEVKPPRKI 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L L G+ T+ + + + RV VGRLD NTEGLLLLTNDG LA Sbjct: 64 YIILNKPCCYLTQLGKSQSGKKTIEELIKDVPERVFPVGRLDYNTEGLLLLTNDGELANR 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + +VY G+V ++ L +K G ++ V + +G N + + Sbjct: 124 VLHPRYKLPKVYLALVKGKVSKNTLRKMKHGAELEDGFAKPDDVRIVRYEGDNTLLEIVF 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 EG+ +K+ F V +L RI+ G +LG L G RE+S++ LR+ Sbjct: 184 HEGRKHIVKRFLASFGHPVIKLKRIALGTLKLGKLPPGKWRELSQRELRQ 233 >gi|189501858|ref|YP_001957575.1| hypothetical protein Aasi_0430 [Candidatus Amoebophilus asiaticus 5a2] gi|189497299|gb|ACE05846.1| hypothetical protein Aasi_0430 [Candidatus Amoebophilus asiaticus 5a2] Length = 252 Score = 112 bits (279), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 73/209 (34%), Positives = 115/209 (55%), Gaps = 6/209 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AGI SRRE + +I R+ VNG + V +TD ++ L+ + Sbjct: 20 RLNKWISNAGICSRREADELIQAGRITVNGEKITTLGYQVKNTDIVKFRDKVLKPNKHVY 79 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP +TT DP+ R TV D + + RV VGRLD NT GLL+LTNDG LA+ Sbjct: 80 ILL-NKPRNCITTAFDPERRRTVLDFVKGACQERVYPVGRLDRNTTGLLVLTNDGDLAQK 138 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNAWVTVG 192 L PS Q ++Y+V + L +K GI ++ G +QV ++ +G + + + Sbjct: 139 LAHPSYQIKKIYQVELASPIQPKDLAAIKAGICLKD---GIVQVDSISIVQGDESKLGIE 195 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYG 221 + GKNR I+++FE +++ L R+ Y Sbjct: 196 IHSGKNRIIRRLFEHLGYQIINLDRVMYA 224 >gi|159903645|ref|YP_001550989.1| 16S rRNA uridine-516 pseudouridylate synthase [Prochlorococcus marinus str. MIT 9211] gi|159888821|gb|ABX09035.1| 16S rRNA uridine-516 pseudouridylate synthase [Prochlorococcus marinus str. MIT 9211] Length = 237 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 74/224 (33%), Positives = 115/224 (51%), Gaps = 1/224 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ K+IA +GI SRR+ E +I Q +V VNG + D I V+G + K Sbjct: 4 QRLQKIIAESGICSRRKAEELIIQHKVLVNGFAAKIGDKANPENDQIIVNGYRIPKVIFN 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R+ L +KP G++++ +D GR TV +PS I + +GRLD + G +LLTN+G L Sbjct: 64 RVILLNKPRGIISSCNDQFGRKTVLSLIPSDIRKGLYPIGRLDYESRGAILLTNNGDLTL 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V G L+ ++G V+ G +V L + + + Sbjct: 124 KLTHPKFNHTKSYFVWVKGLPSSSTLSEWRQGTVLDGKITMKAKVNLIKSLKHQSLIQIE 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 ++EG+NR+I+++ E F V L R++ +LG L G REV Sbjct: 184 MKEGRNRQIRRISEKFGHPVIDLKRVAISKIKLGNLQEGCWREV 227 >gi|325846603|ref|ZP_08169518.1| pseudouridylate synthase [Anaerococcus hydrogenalis ACS-025-V-Sch4] gi|325481361|gb|EGC84402.1| pseudouridylate synthase [Anaerococcus hydrogenalis ACS-025-V-Sch4] Length = 240 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 77/237 (32%), Positives = 126/237 (53%), Gaps = 23/237 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA+AG+ASRR+ E I + V VNG L+ + V D ++V G L E+ Sbjct: 11 RINKYIAKAGLASRRKSEEYIKKGLVFVNGKKLDDLSYQVKENDEVKVMGKLLEIKEKFY 70 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KPIG ++++ DP + + ++L I R GRLD ++ GL+L+TNDG + L Sbjct: 71 YKL-NKPIGFISSNYDPHNKKDL-NSLVKIDQRFFCAGRLDKDSHGLMLITNDGKITNKL 128 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT---- 190 PS + + Y V+ +++D L +KGI + D +K S+A + Sbjct: 129 IHPSKKIEKTYIVKVDKLLNKDDEALFRKGIKLS-----------DNEKTSDAKINLIDE 177 Query: 191 ------VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + +G NR+++++F +F KV L RI G +LG L G ++++KK L Sbjct: 178 NRKIYEVIIHQGFNRQVRRMFLYFGSKVIDLKRIKIGQIELGKLEDGKYKKLNKKEL 234 >gi|146296765|ref|YP_001180536.1| pseudouridine synthase [Caldicellulosiruptor saccharolyticus DSM 8903] gi|145410341|gb|ABP67345.1| ribosomal large subunit pseudouridine synthase B [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 237 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 71/220 (32%), Positives = 113/220 (51%), Gaps = 2/220 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A G+ASRR+ E +I Q RVKVNG + V D + VDG L ++ Sbjct: 3 RLQKFMADCGVASRRKCEEIILQGRVKVNGRTITELGFKVDPQKDKVLVDGKKLVPVQKK 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++++ D GR TV D + + RV VGRLD +T GL+LLTNDG A Sbjct: 63 IYIMLNKPFGVISSAKDEKGRKTVVDLVKDKVDVRVFPVGRLDFDTTGLILLTNDGEFAY 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G ++++ KKG+ I G + + + V + Sbjct: 123 KVTHPKHDIEKTYIALIEGVPTKEEIEQFKKGLFIDGKLTSPAKFRILKVFKGMSLVEIK 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + EG+NR+++K+ + +V +L R++ G +LG L G Sbjct: 183 IHEGRNRQVRKMCDAIGHRVLKLKRVAIGKLKLGKLKEGE 222 >gi|288929146|ref|ZP_06422991.1| ribosomal large subunit pseudouridine synthase B [Prevotella sp. oral taxon 317 str. F0108] gi|288329248|gb|EFC67834.1| ribosomal large subunit pseudouridine synthase B [Prevotella sp. oral taxon 317 str. F0108] Length = 509 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 78/232 (33%), Positives = 117/232 (50%), Gaps = 11/232 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE ++ I VKVNG ++ V+ +D I P+ E+ Sbjct: 273 PLRLNKFLANAGVCSRREADQFIQSGMVKVNGNVVTELGTKVLRSDEIIFHDQPV-TLEK 331 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 332 KVYVLINKPKDYVTTSDDPQQRKTVMDLVKGVCPERIYPVGRLDRNTTGVLLLTNDGDLA 391 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN----A 187 L P +VY V +V + L + G+ + D +V D + +N Sbjct: 392 SKLAHPKFLKKKVYHVFLDKEVTEHDLQQIATGVTLD-----DGEVHADAIEYANDKDKT 446 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + + GKNR ++++FE ++V RL R+ + L G R +++K Sbjct: 447 QVGIEIHSGKNRIVRRIFESLGYRVVRLDRVQFAGLTKKNLKRGDWRFLTEK 498 >gi|294786929|ref|ZP_06752183.1| ribosomal large subunit pseudouridine synthase B [Parascardovia denticolens F0305] gi|315226566|ref|ZP_07868354.1| ribosomal large subunit pseudouridine synthase B [Parascardovia denticolens DSM 10105] gi|294485762|gb|EFG33396.1| ribosomal large subunit pseudouridine synthase B [Parascardovia denticolens F0305] gi|315120698|gb|EFT83830.1| ribosomal large subunit pseudouridine synthase B [Parascardovia denticolens DSM 10105] Length = 257 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 74/222 (33%), Positives = 118/222 (53%), Gaps = 2/222 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ KV+A+AG SRR+ E MI RV+V+G L+ V V I VDG + + R Sbjct: 20 RLQKVLAQAGFGSRRKCETMITDGRVEVDGDLVTELGVRVDPLHQEIRVDGSRIHISNRH 79 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP +++T DP GR T+ D + + R+ +GRLD +TEGL+L+T+DG LA+ Sbjct: 80 VTLALNKPRKVLSTMDDPKGRWTLRDIVGDRYERIFHMGRLDYDTEGLILMTDDGELAQH 139 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLN-LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y G + + L++ G+ + Q ++ Q + V V Sbjct: 140 VMHPKYEVDKTYIATVEGHIGGSVCHRLVRTGVQLDDGWIKLDQCSIIDQNRDRSVVKVV 199 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + G+NR +++VF + V +LIR GP +LG L +GS R Sbjct: 200 IHSGRNRIVRRVFGAIGFPVVKLIRTQIGPIKLGELKSGSYR 241 >gi|283783292|ref|YP_003374046.1| pseudouridylate synthase [Gardnerella vaginalis 409-05] gi|283441908|gb|ADB14374.1| pseudouridylate synthase [Gardnerella vaginalis 409-05] Length = 284 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 73/234 (31%), Positives = 122/234 (52%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A AG SRR+ E +I RV+V+ L+ V + VDG ++ + Sbjct: 47 RLQKLLAEAGFGSRRKCEEIILDGRVEVDDELVTTLGTRVDPKRQKVRVDGSRVKFNTKL 106 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 HKP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TNDG L++ Sbjct: 107 VTLALHKPKRVLSAMDDPKGRFTLRDIVGDKYERIFHMGRLDYDSEGLILMTNDGELSQH 166 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-----TQKGSNAW 188 + P + + Y G+++ ++ + +V QG+ D + LD Q Sbjct: 167 VMHPKYEVEKTYIATVEGKIN----GMVCRRLVSQGVNLEDGWIKLDRCAIIDQNHDTTM 222 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + L GKNR ++++F + V RL+R GP +LG L AGS R +S+ +R Sbjct: 223 VKIVLHSGKNRIVRRIFGAVGFPVKRLVRTQIGPIKLGDLKAGSYRVLSQTEVR 276 >gi|190572990|ref|YP_001970835.1| putative RNA pseudouridine synthase [Stenotrophomonas maltophilia K279a] gi|190010912|emb|CAQ44521.2| putative RNA pseudouridine synthase [Stenotrophomonas maltophilia K279a] Length = 277 Score = 111 bits (278), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 77/221 (34%), Positives = 114/221 (51%), Gaps = 3/221 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 +++V+++AG+ SR E R IA+ RV+V+G ++ + IEVDG P+ +R Sbjct: 42 LARVLSKAGVCSRSEAARWIAEGRVRVSGRIVRDPEFPIGQPAPPIEVDGQPMGAPQRLY 101 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L +KP G+VTT D GR TV+ + VGRLD +EGLLL +ND A Sbjct: 102 LML-NKPRGVVTTAQDERGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAAR 160 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T + Y V+ D L L+ G+ +G V + AW+ V L Sbjct: 161 LTDPETGPQKTYHVQVDRLPDDATLAALQAGVDDEGEFLVAQAVRVLRSGDKTAWLEVVL 220 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 EG+NR I+++ F+ +V RL+R++ G QL L G R Sbjct: 221 DEGRNRHIRRLLAAFDLQVLRLVRVAIGGLQLADLGKGQWR 261 >gi|322490748|emb|CBZ26012.1| putative tRNA pseudouridine synthase A [Leishmania mexicana MHOM/GT/2001/U1103] Length = 694 Score = 111 bits (278), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 77/225 (34%), Positives = 115/225 (51%), Gaps = 8/225 (3%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAERTRLW 76 + + RAG SRRE +IA +V+VN + V + D + V G R + RLW Sbjct: 336 RTLPRAGFCSRREAAAIIASGQVRVNNVTERNPFRLVQAQDDVHVAGHRSRLRFAPPRLW 395 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +YHKP ++ + +D GR+ + + + ++ VG L + G+LLLTNDG L+R LE Sbjct: 396 MYHKPAHVIVSRNDAAGRTLITKHARILGMDHLVPVGSLPMRAHGILLLTNDGELSRFLE 455 Query: 136 LPSTQWLRVYRVRFHGQVDQ---DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P + R Y +R D KLN +GI I G Y + + ++ S V V Sbjct: 456 NPKSMVQRTYLLRVRPAFDPVLVHKLN--TEGIQINGRLYRNAEFFVNPATKSRYSVKVK 513 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +R G++ I ++ + KV R RIS+GPF L L GS REV+ Sbjct: 514 VR-GESMPIAQLMQHLGRKVERGGRISFGPFALSNLAVGSVREVT 557 >gi|315924794|ref|ZP_07921011.1| ribosomal large subunit pseudouridine synthase B [Pseudoramibacter alactolyticus ATCC 23263] gi|315621693|gb|EFV01657.1| ribosomal large subunit pseudouridine synthase B [Pseudoramibacter alactolyticus ATCC 23263] Length = 246 Score = 111 bits (278), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 83/227 (36%), Positives = 117/227 (51%), Gaps = 9/227 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A+ G+ASRR E MIA RV VNG +++ V V D + VDG L ER Sbjct: 2 RLQKYMAQCGVASRRGSEAMIADGRVMVNGSVVDTPGVQVTPGDVVFVDG-KLIAPERKV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G+VTT D + D L + R+ ++GRLD +TEGLL+LTNDG L L Sbjct: 61 YLLLNKPRGVVTTSEDVHAERRILD-LVAAEVRLYAIGRLDKDTEGLLILTNDGDLTFRL 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD-------MQVTLDTQKGSNA 187 PS +VY GQ+ L L++G+VI G +VT+ +K + Sbjct: 120 THPSYHLDKVYEAVVKGQLTAPALAALREGVVIPLDDAGTKTYRTQPAEVTVLRRKRGST 179 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +++ L EGK R+I+K+ + V L R + G TL G R Sbjct: 180 RLSITLCEGKKRQIRKMCAAVGYPVVALRRTAIGDIADDTLKPGEWR 226 >gi|289423805|ref|ZP_06425600.1| ribosomal large subunit pseudouridine synthase B [Peptostreptococcus anaerobius 653-L] gi|289155844|gb|EFD04514.1| ribosomal large subunit pseudouridine synthase B [Peptostreptococcus anaerobius 653-L] Length = 238 Score = 111 bits (278), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 117/229 (51%), Gaps = 4/229 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLR-KAER 72 R++K IA +G+ASRR+ E +I + R++VN +++ + V D + D P+ K E+ Sbjct: 2 RINKFIAASGVASRRKAETLILEGRIRVNNKVIKELSYQVDEDLDQVTFDNKPISVKDEK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ D R +V D I R+ VGRLD T GLLL+TNDG L Sbjct: 62 LVYIMLNKPEGYITSVKDQFDRPSVSDLTSDIKERIYPVGRLDYETSGLLLMTNDGDLTY 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNAWVT- 190 + P + + Y G V Q++ + G+ I+ + L T N V Sbjct: 122 KITHPKHEMNKTYIASVRGIVTQEEKYAFENGLKIEDYTTAKANLKILKTDTNKNYSVCK 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + EGKNR+++K+F+ N L R+ G +G L G R+++K+ Sbjct: 182 VTIHEGKNRQVRKMFQAINHPTMNLKRVQVGKINIGDLELGKYRKLTKE 230 >gi|42526387|ref|NP_971485.1| ribosomal large subunit pseudouridine synthase B [Treponema denticola ATCC 35405] gi|41816499|gb|AAS11366.1| ribosomal large subunit pseudouridine synthase B [Treponema denticola ATCC 35405] Length = 234 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 121/233 (51%), Gaps = 5/233 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ +AR G+ASRR E +I RV V+G ++ + V + I +DG + R Sbjct: 6 RLQVYLARCGVASRRASENLILNGRVSVDGKIITELGIKVSGKEKICLDGKQIFPEAEKR 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G V + +D R L ++ R+ ++GRLD+ + G +L TNDG + Sbjct: 66 YILLNKPEGYVCSLADEKDRPIAASLLKDTYTERLYNIGRLDMLSGGAILFTNDGDFSAK 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 +E PS++ + Y V + + L +G+ I+G+ Y L ++ S + + L Sbjct: 126 VEHPSSEIEKEYEVITVFEYPDEILQKFLRGVRIEGVFYK----ALSAERISKNKMRIVL 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNREI++V +FFN K+ +L R+ G L L +G R ++ + ++ LG Sbjct: 182 IEGKNREIRRVLKFFNIKIKKLTRVRIGCVYLADLPSGKHRPLTSEEIKGLLG 234 >gi|256420249|ref|YP_003120902.1| pseudouridine synthase [Chitinophaga pinensis DSM 2588] gi|256035157|gb|ACU58701.1| pseudouridine synthase [Chitinophaga pinensis DSM 2588] Length = 516 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 67/212 (31%), Positives = 110/212 (51%), Gaps = 12/212 (5%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K IA +G+ SRR+ + + +V VNG L+ A V + D + ++ + + Sbjct: 282 LNKYIAHSGLCSRRKAVDFVKEGKVTVNGELITEPAFKVTAKDEVAINNRKINIQKNLVY 341 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFD---NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G +TT DP+GR TV + + + RV VGRLD NT GLLLLTNDG LA+ Sbjct: 342 ILLNKPKGYITTTDDPEGRKTVMELIQDATTEEQRVYPVGRLDRNTSGLLLLTNDGELAQ 401 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT----QKGSNAW 188 L P ++Y V + + + ++QG+ D +D + G Sbjct: 402 KLAHPKHNIKKIYHVGLNKPLTKAHFE-----NILQGVTLEDGVANVDALGYVEAGDKTQ 456 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 V + + GKNR ++++FE ++V +L R++Y Sbjct: 457 VGIEIHSGKNRIVRRIFEHLEYEVEKLDRVTY 488 >gi|237755405|ref|ZP_04584032.1| ribosomal large subunit pseudouridine synthase B [Sulfurihydrogenibium yellowstonense SS-5] gi|237692446|gb|EEP61427.1| ribosomal large subunit pseudouridine synthase B [Sulfurihydrogenibium yellowstonense SS-5] Length = 244 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 69/218 (31%), Positives = 118/218 (54%), Gaps = 4/218 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R++K IA++GI SRR+ + +I + VKVNG +++ + D +EV+G ++ E+ Sbjct: 4 RLNKYIAQSGICSRRKADELIKEGIVKVNGEIIKDLGAKINPEKDVVEVEGNIIKPVEKK 63 Query: 74 RLWLYHKPIG-LVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 +KP+G L D GR T+ D L +I + VGRLD N+EGLL+LTNDG Sbjct: 64 IYIKIYKPVGYLSAVGKDKFGRKTLTDLLKELNIKENLFPVGRLDYNSEGLLILTNDGEF 123 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + P + ++Y V +V++++LN +KKG +++ + +V + + W+ Sbjct: 124 ANKIAHPRHEIRKIYHVEVVPKVNEERLNQMKKGAILEDGFFKPDKVEILKHTKDSTWLL 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + GK R +++ FN KV RL+R+ + L Sbjct: 184 FEIHSGKKRILRRYVSKFNHKVRRLVRVKIDSISIENL 221 >gi|306833047|ref|ZP_07466179.1| ribosomal small subunit pseudouridine synthase A [Streptococcus bovis ATCC 700338] gi|304424946|gb|EFM28080.1| ribosomal small subunit pseudouridine synthase A [Streptococcus bovis ATCC 700338] Length = 238 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 78/243 (32%), Positives = 134/243 (55%), Gaps = 19/243 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ +AG SR +V+++I ++V V+G L E +NV S I V G ++++ Sbjct: 2 RLDKLLGQAGFGSRNQVKKLIRSRQVYVDGRLAEADNLNVETSLQKITVSGKQVKQSSE- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + +L +KP G+V+ SD + ++ + D +P ++ VGRLD +TEGLLL+TN+G Sbjct: 61 KYFLLNKPAGVVSAVSDKEHQTVIDLIKESDRVPQLYP----VGRLDRSTEGLLLITNNG 116 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICY-GDMQVTLDTQKGS 185 L + P + Y V + + D + G+ IC +++ + + S Sbjct: 117 PLGYRMLHPKYHVAKTYYVEVNAFLADDAPAFFENGVSFDDGTICKPAKLEIITASTEES 176 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS---KKILR 242 +A+VT+ EGK +IKK+F + KV L R+++G FQLG L +G RE++ K+IL+ Sbjct: 177 SAYVTIS--EGKFHQIKKMFLAYGVKVTYLKRLTFGEFQLGDLPSGQYRELTSTEKEILK 234 Query: 243 EQL 245 L Sbjct: 235 NYL 237 >gi|296131694|ref|YP_003638941.1| pseudouridine synthase [Thermincola sp. JR] gi|296030272|gb|ADG81040.1| pseudouridine synthase [Thermincola potens JR] Length = 244 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 77/230 (33%), Positives = 126/230 (54%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 QR+ KV+A G+ +R+E +++I +++V+VNG L + ++V D I V+G P+ + Sbjct: 7 QRLDKVLAHMGLGTRKEAKKLIKERKVEVNGELAQDPGLHVRPGQDRIVVNGEPVEYRQF 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 L L +KP G+++ D G+ V P+ S VGRLD +TEGLLLLTNDG LA Sbjct: 67 VYLML-NKPQGVLSATGDESGQVVVDLLSPNYQSFHPFPVGRLDKDTEGLLLLTNDGHLA 125 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSNAWVT 190 L P + Y G V Q+ + + ++G+++ Y + L + G + V Sbjct: 126 HRLLSPKKHVPKTYYATVSGTVTQEDVEMFRQGVILDD-GYRTLPGCLKILRSGPESEVE 184 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 + + EGK ++K++F+ KV L RI+ GP L TL G RE++++ Sbjct: 185 LTIYEGKYHQVKRMFQAVGKKVTYLKRIAMGPLTLDNTLKPGEYRELTEE 234 >gi|212715827|ref|ZP_03323955.1| hypothetical protein BIFCAT_00728 [Bifidobacterium catenulatum DSM 16992] gi|212661194|gb|EEB21769.1| hypothetical protein BIFCAT_00728 [Bifidobacterium catenulatum DSM 16992] Length = 257 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 74/231 (32%), Positives = 122/231 (52%), Gaps = 4/231 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A+AG SRR+ E +I + RV+++G L+ V + VDG +R Sbjct: 20 RLQKLLAQAGFGSRRKCEEIITEGRVEIDGELVTELGTRVDPKHQEVRVDGSRVRVNPNH 79 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TNDG L++ Sbjct: 80 VTLALNKPKRVLSAMEDPKGRYTLSDIVGDKYDRIFHMGRLDYDSEGLILMTNDGELSQH 139 Query: 134 LELPSTQWLRVYRVRFHGQVD-QDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y G++ Q L+ G+ + G D LD + N V V Sbjct: 140 VMHPKYEVEKTYIATLEGRISGQVCRRLVTTGVQLDDGWIKLDRCAILDASR-DNTLVKV 198 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L GKNR ++++F + V RL+R GP +LG L +GS R +S+ +R Sbjct: 199 VLHSGKNRIVRRIFGSIGFPVRRLVRTQIGPIKLGDLKSGSYRVLSQTEVR 249 >gi|315607439|ref|ZP_07882435.1| ribosomal large subunit pseudouridine synthase B [Prevotella buccae ATCC 33574] gi|315250871|gb|EFU30864.1| ribosomal large subunit pseudouridine synthase B [Prevotella buccae ATCC 33574] Length = 492 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 77/237 (32%), Positives = 117/237 (49%), Gaps = 8/237 (3%) Query: 8 QENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +EN P R++K +A AG+ SRRE + I V VNG ++ V+ TD ++ Sbjct: 248 EENIDPNEPIRLNKYLANAGVCSRREADEFIQAGVVTVNGEVVTELGTKVLRTDEVKFHD 307 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLL 123 P+ E+ L +KP VTT DP R TV D + + R+ VGRLD NT G+LL Sbjct: 308 NPV-SLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDACPERIYPVGRLDRNTTGVLL 366 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQ 182 LTNDG +A L P +VY V V L + +G+ ++ G + D D Sbjct: 367 LTNDGDMASKLTHPKFLKKKVYHVHLDKNVTAHDLEQIAQGVTLEDGEIHADAVEYADEH 426 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 S V + + GKNR ++++FE ++V +L R+ + L G R +++K Sbjct: 427 DKS--QVGIEIHSGKNRIVRRIFESLGYRVTKLDRVQFAGLTKKNLRRGDWRFLTEK 481 >gi|320334680|ref|YP_004171391.1| pseudouridine synthase Rsu [Deinococcus maricopensis DSM 21211] gi|319755969|gb|ADV67726.1| pseudouridine synthase Rsu [Deinococcus maricopensis DSM 21211] Length = 250 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 92/245 (37%), Positives = 130/245 (53%), Gaps = 14/245 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--RKAE 71 +R+ K +ARAG+ASRR E +I RV VNG+ + V D + VDG P+ R + Sbjct: 3 ERLQKRLARAGVASRRAAEALITSGRVTVNGVTAQ-LGQTVTEADEVLVDGQPIAQRPTQ 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 LY KP G VTT D GR TV D +P++ + VGRLD ++EGLLLLT DG L Sbjct: 62 HVTFALY-KPRGFVTTARDELGRRTVLDAMPNVPG-LHPVGRLDRDSEGLLLLTTDGDLT 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P +VYR GQ D+ L L +G+ ++ G +V AWVT+ Sbjct: 120 LTLTHPRYGHEKVYRAWTDGQPDEAALGRLARGMNLEDGPTGPAEV---RAAPDGAWVTI 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG----P 247 REG+NR+++++ + + V RL+R G L L G RE+ ++ L+E L P Sbjct: 177 --REGRNRQVRRMLDAVGYPVTRLVRTRVGGLWLEDLGPGEYRELDERALQELLNVSLVP 234 Query: 248 HLLEE 252 H + E Sbjct: 235 HRVRE 239 >gi|332799305|ref|YP_004460804.1| pseudouridine synthase Rsu [Tepidanaerobacter sp. Re1] gi|332697040|gb|AEE91497.1| pseudouridine synthase Rsu [Tepidanaerobacter sp. Re1] Length = 237 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 72/226 (31%), Positives = 117/226 (51%), Gaps = 1/226 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +++AG+ SRR E +I Q +V VNG +++ V TD I+V+G Sbjct: 4 RLQKYLSQAGVDSRRACEDIILQGKVSVNGKTIKKLGTKVNPETDIIKVNGKVCSLKYDF 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G++TT DP GR TV D LP RV VGRLD TEGLL+LTNDG + Sbjct: 64 IYILINKPKGILTTVKDPLGRPTVLDLLPEFCERVFPVGRLDKETEGLLILTNDGEVTYK 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + ++ Y G V +K+ L+KGI+++ + + ++ + + + Sbjct: 124 LTHPKYKVIKTYVAHVRGIVGNNKIKSLEKGIILEDGVTAPAKANILKVLRNSTIIKLEI 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 EG+ R+++++ + + L R G + L G R +S++ Sbjct: 184 HEGRKRQVRRMCDSIGHPIIELKRTQIGDISIKGLKPGEWRLLSQR 229 >gi|119356331|ref|YP_910975.1| ribosomal large subunit pseudouridine synthase B [Chlorobium phaeobacteroides DSM 266] gi|119353680|gb|ABL64551.1| ribosomal large subunit pseudouridine synthase B [Chlorobium phaeobacteroides DSM 266] Length = 243 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 77/233 (33%), Positives = 124/233 (53%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+++ +A GIASRR ++++A RV VNG + + + ++ D + VDG E Sbjct: 11 RINRYLAMCGIASRRAADKLVADGRVTVNGKIADEPGLRILPFKDEVIVDGRKFVVPEAK 70 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ L +KP ++TT D R T+ D L S+ RV VGRLD T G++LLTNDG LA Sbjct: 71 KVYILLNKPRNVITTSHDEKDRETILD-LVSVEERVYPVGRLDRKTTGVILLTNDGILAH 129 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKGSNAWVT 190 L PS+ + Y + Q L+ L G+ ++ G Q L G W++ Sbjct: 130 RLMHPSSNVKKEYVAELDKRFPQGLLSQLVGGMKLKDTGEKVSPCQAKL-LDDGMRIWIS 188 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EGKN +++++ E + V +L R++Y + G L G+ R +SK +RE Sbjct: 189 I--HEGKNHQVRRMLETLGFDVTKLERVAYAGLKAGDLRRGAWRHLSKNEVRE 239 >gi|288924576|ref|ZP_06418513.1| ribosomal large subunit pseudouridine synthase B [Prevotella buccae D17] gi|288338363|gb|EFC76712.1| ribosomal large subunit pseudouridine synthase B [Prevotella buccae D17] Length = 492 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 77/237 (32%), Positives = 117/237 (49%), Gaps = 8/237 (3%) Query: 8 QENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +EN P R++K +A AG+ SRRE + I V VNG ++ V+ TD ++ Sbjct: 248 EENIDPNEPIRLNKYLANAGVCSRREADEFIQAGVVTVNGEVVTELGTKVLRTDEVKFHD 307 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLL 123 P+ E+ L +KP VTT DP R TV D + + R+ VGRLD NT G+LL Sbjct: 308 NPV-SLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDACPERIYPVGRLDRNTTGVLL 366 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQ 182 LTNDG +A L P +VY V V L + +G+ ++ G + D D Sbjct: 367 LTNDGDMASKLTHPKFLKKKVYHVHLDKNVTAHDLEQIAQGVTLEDGEIHADAVEYADEH 426 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 S V + + GKNR ++++FE ++V +L R+ + L G R +++K Sbjct: 427 DKS--QVGIEIHSGKNRIVRRIFESLGYRVTKLDRVQFAGLTKKNLRRGDWRFLTEK 481 >gi|291513764|emb|CBK62974.1| pseudouridine synthase family [Alistipes shahii WAL 8301] Length = 455 Score = 110 bits (276), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 123/240 (51%), Gaps = 12/240 (5%) Query: 3 DKNIVQENFTPQ------RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS 56 DK F P+ R+++ IA++GI SRRE + I V VNG ++ V+ Sbjct: 204 DKPASYPKFNPEKQTGEMRLNRFIAQSGICSRREADDFITAGVVSVNGKIVTELGTKVLP 263 Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLD 115 TD + + P++ ++ L L +KP G VT+ DP TV + + + R+ VGRLD Sbjct: 264 TDEVRFNDEPVQGEKKVYLVL-NKPKGYVTSLDDPHAGKTVMELVSGACTERIYPVGRLD 322 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD 174 N+ GLLL TNDG L + L PS + ++Y+V + + ++ + +G+ ++ G + D Sbjct: 323 KNSLGLLLFTNDGDLTKQLTHPSYKKKKIYQVTLDKPLTRADMDRIAEGVTLEDGEIFAD 382 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + K + V + + G+NR ++++FEF + V +L R+ Y L G+ R Sbjct: 383 ---EISYVKENKQEVGIEIHSGRNRIVRRIFEFLGYTVTKLDRVYYAGLTKKNLKRGAWR 439 >gi|256545246|ref|ZP_05472611.1| ribosomal large subunit pseudouridine synthase B [Anaerococcus vaginalis ATCC 51170] gi|256399073|gb|EEU12685.1| ribosomal large subunit pseudouridine synthase B [Anaerococcus vaginalis ATCC 51170] Length = 231 Score = 110 bits (276), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 122/229 (53%), Gaps = 11/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA+ G ASRR+ E I +V VNG LE + V D +++DG L K ++ Sbjct: 2 RINKYIAKTGFASRRKSEEYIKNGKVFVNGNKLEDLSYQVKEEDEVKIDGKIL-KIQKNF 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +KPIG ++++ DP + + L +I R GRLD ++ GL+++TNDG + + Sbjct: 61 YYKLNKPIGYISSNYDPHNEKDL-NKLLNIDERFFCAGRLDKDSHGLMIITNDGKITNKI 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----KGSNAWVT 190 PS + ++Y V+ VD+ KL ++ + G+ ++T D + Sbjct: 120 IHPSKKIDKIYIVK----VDK-KLTAYQEKNFMDGLKLSQKEITSDAKISLIDKEKITYK 174 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + +G NR+I+++FE+F KV L RI G L L G +++SKK Sbjct: 175 VTIHQGYNRQIRRMFEYFKIKVIDLKRIKIGQICLDDLKDGDYKKLSKK 223 >gi|224025133|ref|ZP_03643499.1| hypothetical protein BACCOPRO_01867 [Bacteroides coprophilus DSM 18228] gi|224018369|gb|EEF76367.1| hypothetical protein BACCOPRO_01867 [Bacteroides coprophilus DSM 18228] Length = 253 Score = 110 bits (276), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 79/238 (33%), Positives = 121/238 (50%), Gaps = 7/238 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K+I+ + P R++K +A AG+ SRRE + I V VNG ++ V TD ++ Sbjct: 8 KDILTDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKVKRTDEVKFH 67 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLL 122 P+ ER L +KP VTT DP R TV D + + R+ VGRLD NT G+L Sbjct: 68 DQPV-NIERKVYVLLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTGVL 126 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGD-MQVTLD 180 LLTNDG LA L P ++Y V V + L+ + +GI + G + D + D Sbjct: 127 LLTNDGDLASKLTHPKFLKKKIYHVYCDKNVTKADLDQIVQGITLDDGEIHADAVSYASD 186 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 T K + V + + GKNR ++++FE ++V +L R+ + L G R +++ Sbjct: 187 TDK---SQVGIEIHSGKNRIVRRIFESLGYRVIKLDRVYFAGLTKKGLRRGDWRYLTE 241 >gi|300934025|ref|ZP_07149281.1| putative pseudouridylate synthase [Corynebacterium resistens DSM 45100] Length = 335 Score = 110 bits (276), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 75/233 (32%), Positives = 127/233 (54%), Gaps = 6/233 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV++ AG+ASRR E++IA RV+VNG ++++ + + S D + VDG ++ E Sbjct: 96 RLQKVLSSAGVASRRMSEKLIAAGRVEVNGEVVQQMGLRIDPSVDVVRVDGTRVQVNEEM 155 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGGL 130 + +KP G+ +T D GR V + + + F++ + VGRLD TEGLLLLTNDG L Sbjct: 156 VYFALNKPRGVHSTMHDDLGRPHVGELIEAKFNQGQGLFHVGRLDAATEGLLLLTNDGEL 215 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L P + + Y G+ D+ + LK G+ ++ G+ D +D +G + + Sbjct: 216 ANRLMHPKYEVSKTYMATVLGEADRGLIRTLKDGVDLEDGMARADYVQIVDVWQGK-SLI 274 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V L EG+ ++++ + + V L+R QLG G+ R +++ L+ Sbjct: 275 KVELHEGRKHIVRRMLKAAGFPVQALVRTKIHTVQLGEQKPGTVRALNRSELQ 327 >gi|325106158|ref|YP_004275812.1| RNA-binding S4 domain protein [Pedobacter saltans DSM 12145] gi|324975006|gb|ADY53990.1| RNA-binding S4 domain protein [Pedobacter saltans DSM 12145] Length = 396 Score = 110 bits (276), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 76/239 (31%), Positives = 121/239 (50%), Gaps = 11/239 (4%) Query: 4 KNIVQENFTPQ-----RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-ST 57 KN Q++ TP+ R+++ IA +GI SRR+ + +I + VN +++ V +T Sbjct: 146 KNTSQQSSTPKEPDQIRLNRYIANSGICSRRKADELITSGAITVNDVVVSELGAKVNPTT 205 Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDI 116 D ++ +G L K E+ L +KP +TT DP R TV + + + S R+ VGRLD Sbjct: 206 DKVKYNG-QLLKREKMVYVLLNKPKDFITTTEDPQERKTVMELVKNATSERIYPVGRLDR 264 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDM 175 NT GLLLLTNDG LA L P ++Y V + Q N + G+ ++ G D Sbjct: 265 NTTGLLLLTNDGDLAEKLSHPRNNITKIYNVELSKNLTQGDFNKIAFGVELEDGFIKPDA 324 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + G+ + + + GKNR ++++FE ++V +L R+ Y L G R Sbjct: 325 VSYVSG--GTKKEIGIQIHSGKNRIVRRIFESLGYEVEKLDRVIYANLTKKDLTRGKWR 381 >gi|237708147|ref|ZP_04538628.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 9_1_42FAA] gi|229457700|gb|EEO63421.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 9_1_42FAA] Length = 485 Score = 110 bits (276), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 78/239 (32%), Positives = 121/239 (50%), Gaps = 7/239 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K+I+ + P R++K +A AGI SRRE + I V VNG ++ + TD ++ Sbjct: 240 KDILTDPNEPIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEVKFH 299 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLL 122 P+ ER L +KP VTT DP R TV D + + R+ VGRLD NT G+L Sbjct: 300 DEPV-SIERKTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTGVL 358 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGD-MQVTLD 180 LLTNDG LA L P ++Y V V + L+ + G+ + G + D + + Sbjct: 359 LLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISYASE 418 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 T K + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 419 TDK---SQVGIEIHSGKNRIVRRIFESLGYKVIKLDRVYFAGLTKKGLRRGDWRYLTEQ 474 >gi|226309632|ref|YP_002769526.1| pseudouridine synthase [Brevibacillus brevis NBRC 100599] gi|226092580|dbj|BAH41022.1| pseudouridine synthase [Brevibacillus brevis NBRC 100599] Length = 239 Score = 110 bits (276), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 78/235 (33%), Positives = 130/235 (55%), Gaps = 12/235 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 +R+ KV+A I +R+EV+ ++ Q+ + V+G++ ++V++ + I VDG PL Sbjct: 4 ERLDKVLANMAIGTRKEVKALVKQRLIVVDGVVATDPGMHVIAEEQEILVDGEPLN---- 59 Query: 73 TRLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 + W+Y +KP G+V+ D + TV D LP ++ +V VGRLDI+TEGLLLLTNDG Sbjct: 60 FKRWVYVLLNKPPGVVSATED-NVHETVVDLLPYEWAIKVHPVGRLDIDTEGLLLLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L+ L P + + Y R G+V + + KG+ ++ ++ + G + Sbjct: 119 HLSHSLLSPKKKVDKEYFARIEGRVTERHVQEFAKGVELEDFTTLPAKLEI-ISSGETSE 177 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + V + EGK ++K++F F+ V L RI GP L LA G RE++++ L Sbjct: 178 IRVTIMEGKFHQVKRMFAAFDLHVVYLQRIRMGPLHLDPSLAPGEYRELTEEELH 232 >gi|328948658|ref|YP_004365995.1| RNA-binding S4 domain protein [Treponema succinifaciens DSM 2489] gi|328448982|gb|AEB14698.1| RNA-binding S4 domain protein [Treponema succinifaciens DSM 2489] Length = 247 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 74/225 (32%), Positives = 116/225 (51%), Gaps = 5/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A+ G+ASRR E +I RV VNG ++ V D + VD + E+ Sbjct: 15 RLQQYMAKCGVASRRASEAIICAGRVTVNGTVVTELGTKVDVQDKVCVDEKEIHLEEKKC 74 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G V + SD GR D L +S R+ +VGRLD+ + GL++ TNDG A Sbjct: 75 YVLLNKPSGYVCSASDEKGRPVAADLLKEAYSERLYNVGRLDMFSSGLIIFTNDGDFAAK 134 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + + Y V + + + GI I G+ Y D ++ ++ + + L Sbjct: 135 LSHPSAELEKEYIVDTSLPMPRFLADDFMDGIRIDGVFYR----CKDARELNSHRMRIVL 190 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EGKNREI++VFE + + L+RI G +G L G R++++ Sbjct: 191 VEGKNREIRRVFEKYEVGIKSLMRIRIGCVGVGELQFGQFRDLTQ 235 >gi|237723682|ref|ZP_04554163.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D4] gi|265756803|ref|ZP_06090791.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 3_1_33FAA] gi|229437893|gb|EEO47970.1| ribosomal large subunit pseudouridine synthase B [Bacteroides dorei 5_1_36/D4] gi|263233589|gb|EEZ19209.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 3_1_33FAA] Length = 485 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 78/239 (32%), Positives = 121/239 (50%), Gaps = 7/239 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K+I+ + P R++K +A AGI SRRE + I V VNG ++ + TD ++ Sbjct: 240 KDILTDPNEPIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEVKFH 299 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLL 122 P+ ER L +KP VTT DP R TV D + + R+ VGRLD NT G+L Sbjct: 300 DEPV-SIERKTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTGVL 358 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGD-MQVTLD 180 LLTNDG LA L P ++Y V V + L+ + G+ + G + D + + Sbjct: 359 LLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISYASE 418 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 T K + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 419 TDK---SQVGIEIHSGKNRIVRRIFESLGYKVIKLDRVYFAGLTKKGLRRGDWRYLTEQ 474 >gi|212696088|ref|ZP_03304216.1| hypothetical protein ANHYDRO_00624 [Anaerococcus hydrogenalis DSM 7454] gi|212676717|gb|EEB36324.1| hypothetical protein ANHYDRO_00624 [Anaerococcus hydrogenalis DSM 7454] Length = 231 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 75/228 (32%), Positives = 126/228 (55%), Gaps = 5/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA+AG+ASRR+ E I + V VNG L+ + V D ++V G L E+ Sbjct: 2 RINKYIAKAGLASRRKSEEYIKKGLVFVNGKKLDDLSYQVKENDQVKVMGKLLEIKEKFY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KPIG ++++ DP + + ++L I R GRLD ++ GL+L+TNDG + L Sbjct: 62 YKL-NKPIGFISSNYDPHNKKDL-NSLVKIDHRFFCAGRLDKDSHGLMLITNDGKITNKL 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVGL 193 PS + + Y V+ +++D L +KGI + D ++ L + S + + + Sbjct: 120 IHPSKKIEKTYIVKVDKLLNKDDEALFRKGIKLSVNEKTSDAKINL-IDENSKIYEVI-I 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +G NR+++++F +F KV L RI G +LG L G ++++KK L Sbjct: 178 HQGFNRQVRRMFLYFGSKVIDLKRIKIGQIELGKLEDGKYKKLNKKEL 225 >gi|253681692|ref|ZP_04862489.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum D str. 1873] gi|253561404|gb|EES90856.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum D str. 1873] Length = 236 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 71/222 (31%), Positives = 110/222 (49%), Gaps = 2/222 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I Q RVKVNG ++ V + D + VD V + E+ Sbjct: 3 ERLQKYMAACGVASRRKCEEIILQDRVKVNGEIVNELGFKVDPAKDRVHVDSVLISLEEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G V+T D GR T+ D + + R+ +GRLD NT GL++LTNDG + Sbjct: 63 KVYIALNKPEGYVSTVKDERGRKTILD-IVKVNERIFPIGRLDYNTSGLIILTNDGDVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY G D++ G+ I G + + V + Sbjct: 122 KIIHPREEIDKVYIAVIKGVPSNDEIKNFCNGVDIGGYVTSKANFEIIEKLDDKCKVKIV 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EGKNR+++++ E V L R+S G L T+ G R Sbjct: 182 IHEGKNRQVRRMCEKIGHPVIALKRVSVGKISLSTIKRGEWR 223 >gi|288818760|ref|YP_003433108.1| pseudouridine synthase [Hydrogenobacter thermophilus TK-6] gi|288788160|dbj|BAI69907.1| pseudouridine synthase [Hydrogenobacter thermophilus TK-6] gi|308752347|gb|ADO45830.1| pseudouridine synthase [Hydrogenobacter thermophilus TK-6] Length = 253 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 79/238 (33%), Positives = 129/238 (54%), Gaps = 8/238 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+++ I+ G+ASRR+ +++I + +VKVNGI ++ V D +EV+G + KA R Sbjct: 9 RLNRFISMCGVASRRKADKLIKEGKVKVNGITIKEMGYRVDPQKDVVEVEGRVI-KAPRY 67 Query: 74 RLWLYHKPIGLVTTHSD-PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + +KP +++ ++ DG+ ++ + + +I RV GRLD N EGLL+LTNDG LA Sbjct: 68 RYVILNKPCCYLSSLAEGKDGKKSIKELIKNIPERVYPAGRLDYNAEGLLVLTNDGELAN 127 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y V G+V+ L + KG ++ G D + QK S + V Sbjct: 128 RIMHPRYKLKKTYLVWVEGRVNPKTLKEMAKGAHLEDGFARPDKVRIVKMQKDST-LLEV 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK---ILREQLG 246 EG+ +K+ F KV L R + GP +LG L G R+++ + +LR LG Sbjct: 187 VFHEGRKHIVKRFMAKFGHKVKALKRTAIGPIKLGKLPPGKWRDLTAEELSLLRRALG 244 >gi|115450787|ref|NP_001048994.1| Os03g0152700 [Oryza sativa Japonica Group] gi|108706231|gb|ABF94026.1| RNA pseudouridylate synthase family protein, expressed [Oryza sativa Japonica Group] gi|113547465|dbj|BAF10908.1| Os03g0152700 [Oryza sativa Japonica Group] Length = 415 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 68/207 (32%), Positives = 114/207 (55%), Gaps = 13/207 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAE 71 PQR++KV+A AG+ASRR E +I Q +V VNG + V +S D I V+G + K Sbjct: 172 PQRLAKVLAAAGVASRRTCEELIFQGKVTVNGSVCTAPQTKVDISKDSIYVNGNRISKKL 231 Query: 72 RTRLWL-YHKPIGLVTTHSDPDGRSTVFDNL--------PSIF-SRVISVGRLDINTEGL 121 +L+ +KP G + + +P ++FD+ P + R+ +VGRLD+ T GL Sbjct: 232 PPKLYFAVNKPKGYICSCGEPKSIISLFDDYLKGWNKIQPGVPKPRLFTVGRLDVATSGL 291 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLD 180 +++TNDG A+ L PS+ ++ Y V G V ++ L + +G I G+ C D+ LD Sbjct: 292 IIITNDGEFAQKLSHPSSNIMKEYVVTIDGPVHRNHLIAISEGTKIDGVKCIPDLVEPLD 351 Query: 181 TQKGSN-AWVTVGLREGKNREIKKVFE 206 Q + + + + EG+N E++++ + Sbjct: 352 VQSNTKRTRIRIAVHEGRNHEVRELVQ 378 >gi|254884798|ref|ZP_05257508.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 4_3_47FAA] gi|319644140|ref|ZP_07998665.1| pseudouridine synthase [Bacteroides sp. 3_1_40A] gi|254837591|gb|EET17900.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 4_3_47FAA] gi|317384262|gb|EFV65233.1| pseudouridine synthase [Bacteroides sp. 3_1_40A] Length = 487 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 75/220 (34%), Positives = 114/220 (51%), Gaps = 7/220 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K+I+ + P R++K +A AGI SRRE + I V VNG ++ + TD ++ Sbjct: 242 KDILTDPNEPIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEVKFH 301 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLL 122 P+ ER L +KP VTT DP R TV D + + R+ VGRLD NT G+L Sbjct: 302 DEPV-SIERKTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTGVL 360 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGD-MQVTLD 180 LLTNDG LA L P ++Y V V + L+ + G+ + G + D + + Sbjct: 361 LLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISYASE 420 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 T K + V + + GKNR ++++FE +KV +L R+ + Sbjct: 421 TDK---SQVGIEIHSGKNRIVRRIFESLGYKVIKLDRVYF 457 >gi|126640866|ref|YP_001083850.1| putative ribosomal large subunit pseudouridine synthase B [Acinetobacter baumannii ATCC 17978] Length = 279 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 65/169 (38%), Positives = 96/169 (56%), Gaps = 5/169 (2%) Query: 58 DHIEVDG----VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVG 112 D + +DG + R R+ +Y+KP G + + +DP+ R TVFD+LP I + R + VG Sbjct: 18 DELRIDGRKVQFQIEDEIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVG 77 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLDIN+ GLLL TNDG LA L PS + R Y VR G+V + G+ ++ Sbjct: 78 RLDINSTGLLLFTNDGELANRLMHPSNEIEREYAVRVMGEVTPQLRQNMVNGVELEDGPA 137 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + +G N W V ++EG+NRE++++FE KV+RL+R YG Sbjct: 138 KFESFSEIGGEGINRWYQVVVKEGRNREVRRIFESQGLKVSRLLRTRYG 186 >gi|306830930|ref|ZP_07464092.1| ribosomal small subunit pseudouridine synthase A [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|325977819|ref|YP_004287535.1| ribosomal small subunit pseudouridine synthase A [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] gi|304426953|gb|EFM30063.1| ribosomal small subunit pseudouridine synthase A [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|325177747|emb|CBZ47791.1| ribosomal small subunit pseudouridine synthase A [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] Length = 238 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 78/243 (32%), Positives = 134/243 (55%), Gaps = 19/243 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K++ +AG SR +V+++I ++V V+G L E +NV S I V G ++++ Sbjct: 2 RLDKLLGQAGFGSRNQVKKLIRSRQVYVDGRLAEADNLNVEPSLQKITVSGKQVKQSSE- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + +L +KP G+V+ SD + ++ + D +P ++ VGRLD +TEGLLL+TN+G Sbjct: 61 KYFLLNKPAGVVSAVSDKEHQTVIDLIKEADRVPKLYP----VGRLDRSTEGLLLVTNNG 116 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICY-GDMQVTLDTQKGS 185 L + P + Y V + + D + G+ IC +++ + + S Sbjct: 117 PLGYRMLHPKYHVAKTYYVEVNAFLADDAPAFFENGVSFDDGTICKPAKLEIITASPETS 176 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS---KKILR 242 +A+VT+ EGK +IKK+F + KV L R+++G FQLG L +G RE++ K+IL+ Sbjct: 177 SAYVTIS--EGKFHQIKKMFLAYGVKVTYLKRLTFGEFQLGDLPSGQYRELTSTEKEILK 234 Query: 243 EQL 245 L Sbjct: 235 NYL 237 >gi|225448976|ref|XP_002270186.1| PREDICTED: hypothetical protein [Vitis vinifera] Length = 393 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 81/239 (33%), Positives = 129/239 (53%), Gaps = 17/239 (7%) Query: 9 ENF--TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGV 65 ENF PQR+SKV+A AG+ASRR E +I + RV VNG + V + D I V+G Sbjct: 136 ENFRDPPQRLSKVLAAAGVASRRNSEELIFEGRVTVNGSVCNTPQTRVDPARDMIYVNGN 195 Query: 66 PLRKAERTRLWL-YHKPIGLVTTHSDPDGRS--TVFDNL--------PSIF-SRVISVGR 113 L K +++L +KP G + + + + +S +FD+ P + R+ +VGR Sbjct: 196 RLPKKLPPKVYLALNKPKGYICSSGEKESKSVLCLFDDYLKSWNKQNPGVPKPRIFTVGR 255 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CY 172 LD+ T GL++LTNDG A+ L PS++ + Y G V++ L + +G VI+G+ C Sbjct: 256 LDVATTGLIILTNDGDFAQKLSHPSSKLSKEYIATIDGVVNKRHLIAISEGTVIEGVHCT 315 Query: 173 GDMQVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 D L Q S + V + EG+N E++++ + +++ L RI G F+L + L Sbjct: 316 PDSVELLPPQPNISKPRLRVVVHEGRNHEVRELVKSAGLQIHSLKRIRIGGFRLPSDLG 374 >gi|225164913|ref|ZP_03727129.1| RNA-binding S4 domain protein [Opitutaceae bacterium TAV2] gi|224800471|gb|EEG18851.1| RNA-binding S4 domain protein [Opitutaceae bacterium TAV2] Length = 277 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 81/218 (37%), Positives = 110/218 (50%), Gaps = 9/218 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A AGI SRR E +IA V VNG D I V G +R + + Sbjct: 8 RLQKFLADAGICSRRAAETLIADGEVWVNGQPATLGQKITPDVDKITVRGKNVRTVAQPK 67 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 L L HKP GLV ++ DP TVFD LP +R GRLD ++EGLL+LT DG LA Sbjct: 68 LTLAMHKPRGLVCSNDDPHNPETVFDLLPREMARHRFFCAGRLDKDSEGLLILTTDGDLA 127 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----ICYGDMQVTLDTQKGSNA 187 L PST ++ Y V +L L +G+ I+G + Y + V + + S + Sbjct: 128 NRLMHPSTVVVKRYHVVLAEPFPAKRLGALLRGVTIEGERLKVEYAAL-VNPNAAELSTS 186 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V L GK REI+++F ++V RL R G F L Sbjct: 187 -LDVHLHHGKKREIRQLFMALGFEVRRLRRYQIGAFPL 223 >gi|238924043|ref|YP_002937559.1| 16S pseudouridylate synthase [Eubacterium rectale ATCC 33656] gi|238875718|gb|ACR75425.1| 16S pseudouridylate synthase [Eubacterium rectale ATCC 33656] Length = 250 Score = 110 bits (275), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 76/240 (31%), Positives = 128/240 (53%), Gaps = 15/240 (6%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGV 65 V+ N R+ K ++ G+ +R EV+++I ++ +NG + + V D + V+G Sbjct: 5 VERNINMIRLDKFLSEMGLGTRSEVKKLIKTGQIAINGTVAAKPETKVDTDADEVSVNG- 63 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLL 124 + K +R +L++KP G V+ D + TV D + ++ + VGRLDI+TEGLLL+ Sbjct: 64 RIVKYQRYEYYLFNKPSGCVSATCD-NVHDTVMDYITDAVHDDLFPVGRLDIDTEGLLLI 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-----L 179 TNDG L+ L PS + Y R G+V D + K+GI I G+ + T + Sbjct: 123 TNDGALSHELLSPSKHVAKTYYARIDGEVTLDDIIRFKEGIDI-----GEEKPTKPAELV 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 + GS + + + + EGK ++K++FE +V L RIS GP +L L G+ R +++ Sbjct: 178 IKKSGSVSEIELTITEGKFHQVKRMFEALGKRVIYLKRISMGPLKLPDDLKTGTYRALTQ 237 >gi|183601655|ref|ZP_02963025.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium animalis subsp. lactis HN019] gi|219683811|ref|YP_002470194.1| pseudouridine synthase [Bifidobacterium animalis subsp. lactis AD011] gi|241190846|ref|YP_002968240.1| 16S rRNA uridine-516 pseudo uridylate synthase [Bifidobacterium animalis subsp. lactis Bl-04] gi|241196252|ref|YP_002969807.1| 16S rRNA uridine-516 pseudo uridylate synthase [Bifidobacterium animalis subsp. lactis DSM 10140] gi|183219261|gb|EDT89902.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium animalis subsp. lactis HN019] gi|219621461|gb|ACL29618.1| pseudouridine synthase [Bifidobacterium animalis subsp. lactis AD011] gi|240249238|gb|ACS46178.1| 16S rRNA uridine-516 pseudo uridylate synthase [Bifidobacterium animalis subsp. lactis Bl-04] gi|240250806|gb|ACS47745.1| 16S rRNA uridine-516 pseudo uridylate synthase [Bifidobacterium animalis subsp. lactis DSM 10140] gi|295793835|gb|ADG33370.1| 16S rRNA uridine-516 pseudo uridylate synthase [Bifidobacterium animalis subsp. lactis V9] Length = 257 Score = 110 bits (275), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 73/231 (31%), Positives = 122/231 (52%), Gaps = 4/231 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A+AG SRR+ E MI RV+V+G L+ V + VDG +R R Sbjct: 20 RLQKLLAQAGFGSRRKCEEMITDGRVEVDGELVTELGTRVDPKRQQVRVDGSRIRLNPRH 79 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP +++T DP GR T+ D + + R+ +GRLD ++EGL+L+TNDG L++ Sbjct: 80 ITLALNKPRKVLSTMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTNDGELSQH 139 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y G + L++ G+ + G D +D+ + V V Sbjct: 140 VMHPKYEVEKTYIATLEGHMSGTVCRRLVRTGVQLDDGWIKLDHCSIIDSNR-DQTIVKV 198 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L G+NR ++++F + V RL+R GP +LG + +GS R +S+ +R Sbjct: 199 VLHSGRNRIVRRIFGAIGFPVKRLVRTQIGPIKLGDIKSGSYRVLSQDEVR 249 >gi|150004186|ref|YP_001298930.1| ribosomal large subunit pseudouridine synthase B [Bacteroides vulgatus ATCC 8482] gi|149932610|gb|ABR39308.1| ribosomal large subunit pseudouridine synthase B [Bacteroides vulgatus ATCC 8482] Length = 488 Score = 110 bits (275), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 75/220 (34%), Positives = 114/220 (51%), Gaps = 7/220 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K+I+ + P R++K +A AGI SRRE + I V VNG ++ + TD ++ Sbjct: 243 KDILTDPNEPIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEVKFH 302 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLL 122 P+ ER L +KP VTT DP R TV D + + R+ VGRLD NT G+L Sbjct: 303 DEPV-SIERKTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTGVL 361 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGD-MQVTLD 180 LLTNDG LA L P ++Y V V + L+ + G+ + G + D + + Sbjct: 362 LLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISYASE 421 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 T K + V + + GKNR ++++FE +KV +L R+ + Sbjct: 422 TDK---SQVGIEIHSGKNRIVRRIFESLGYKVIKLDRVYF 458 >gi|294775216|ref|ZP_06740740.1| pseudouridylate synthase [Bacteroides vulgatus PC510] gi|294450921|gb|EFG19397.1| pseudouridylate synthase [Bacteroides vulgatus PC510] Length = 488 Score = 110 bits (275), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 75/220 (34%), Positives = 114/220 (51%), Gaps = 7/220 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K+I+ + P R++K +A AGI SRRE + I V VNG ++ + TD ++ Sbjct: 243 KDILTDPNEPIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEVKFH 302 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLL 122 P+ ER L +KP VTT DP R TV D + + R+ VGRLD NT G+L Sbjct: 303 DEPV-SIERKTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTGVL 361 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGD-MQVTLD 180 LLTNDG LA L P ++Y V V + L+ + G+ + G + D + + Sbjct: 362 LLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISYASE 421 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 T K + V + + GKNR ++++FE +KV +L R+ + Sbjct: 422 TDK---SQVGIEIHSGKNRIVRRIFESLGYKVIKLDRVYF 458 >gi|294782467|ref|ZP_06747793.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 1_1_41FAA] gi|294481108|gb|EFG28883.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 1_1_41FAA] Length = 234 Score = 110 bits (275), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 74/228 (32%), Positives = 129/228 (56%), Gaps = 4/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 R++K ++ GIASRR +++ I + R+KVNG + ++V D I +D + ++ E Sbjct: 1 MRINKFLSSLGIASRRAIDKYIEEGRIKVNG-AIPSIGIDVNEDDEIYIDNKKIETKRIE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP+ +++ SD GR TV D L R+ +GRLD T GL+LLTNDG L Sbjct: 60 EKVYFILNKPLEVLSASSDDRGRRTVVD-LIKTDKRIFPIGRLDYMTSGLILLTNDGELF 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P ++ + Y ++ G+V ++++ LKKG++++ +V+ + + + Sbjct: 119 NRLVHPKSEIYKKYYIKVFGEVKKEEIEELKKGVLLEDGKTLPAKVSGIKYDKNKTSMYI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +REG+NR+I+++ E F +KV L R G LG L G RE++K+ Sbjct: 179 SIREGRNRQIRRMIEKFGYKVLMLRREKIGELSLGDLKEGKYRELTKE 226 >gi|303232224|ref|ZP_07318923.1| pseudouridylate synthase [Atopobium vaginae PB189-T1-4] gi|302481634|gb|EFL44695.1| pseudouridylate synthase [Atopobium vaginae PB189-T1-4] Length = 375 Score = 110 bits (275), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 116/246 (47%), Gaps = 22/246 (8%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVD 63 N+ FT R+ + +AR G+ASRR E++I+ RV VNG++ + V + D + VD Sbjct: 71 NLPSSTFT-MRLQRYLARCGVASRRGAEKLISAGRVTVNGVVQDVLGSKVDCAHDVVCVD 129 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLL 122 G P + + +KP G++TT SDP G V +P + + +VGRLD +T GLL Sbjct: 130 GTPCVLGDEHTYLILNKPQGVLTTMSDPFGHPCVAALVPKDTYPGLFAVGRLDGDTTGLL 189 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICY--------- 172 L + DG + L PS + Y G + + L+ GI++ G C Sbjct: 190 LFSTDGNMGNRLLHPSHHVWKTYVCLLQGSLTRAAQKQLEAGIMLDDGPCAPSHITRLAP 249 Query: 173 GDMQVTLDTQKG---------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 D TL Q ++ +REG+ ++K++F+ V RL R +GP Sbjct: 250 TDALCTLAPQCHILDGIPSARGYTICSISIREGRYHQVKRMFDAVGCPVVRLHRAQFGPL 309 Query: 224 QLGTLL 229 LG L Sbjct: 310 SLGDAL 315 >gi|262340872|ref|YP_003283727.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Blattabacterium sp. (Blattella germanica) str. Bge] gi|262272209|gb|ACY40117.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Blattabacterium sp. (Blattella germanica) str. Bge] Length = 238 Score = 110 bits (274), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 129/235 (54%), Gaps = 9/235 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++ ++ AGI+SRR+ ++ I ++VNG + R + + D + G ++ + Sbjct: 7 RLNHYLSNAGISSRRKADQFIQSGAIEVNGKPVRRLGTVIHTNDLVTFYGEKIKIQNKIY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARV 133 L L +KP G +TT DP R TV + +P++ R+ VGRLD +T G+LLLTNDG +A Sbjct: 67 LLL-NKPKGFITTTKDPFNRKTVMNLIPNLSKYRIFPVGRLDRSTTGVLLLTNDGSIAEK 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + ++Y V ++ + L+ ++KG + + G ++V + S + +GL Sbjct: 126 LTHPKSHVQKIYHVLLDKEIKNEDLDQIRKGKIY--LKEGKVKVIFVNKGHSKYQIKIGL 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPF-----QLGTLLAGSTREVSKKILRE 243 G NR IK++F+ N++V +L R+++G Q+G + +EV ++++ Sbjct: 184 YIGWNRIIKRIFKKLNYQVIQLDRVNFGGLSKKNIQIGNWCFLNQKEVENILIKK 238 >gi|229820641|ref|YP_002882167.1| pseudouridine synthase [Beutenbergia cavernae DSM 12333] gi|229566554|gb|ACQ80405.1| pseudouridine synthase [Beutenbergia cavernae DSM 12333] Length = 245 Score = 110 bits (274), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 83/233 (35%), Positives = 119/233 (51%), Gaps = 5/233 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ KV+A AG+ SRR E +I+ RV V+G ++ V T I VDG+ L+ Sbjct: 9 RLQKVLAGAGLGSRRACEDLISAGRVSVDGEVVRELGTRVDPTAAVIHVDGLRLQLDPGV 68 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ +T D GR + + + R+ VGRLD +TEGLLLLTNDG LA Sbjct: 69 VTLALNKPRGVHSTMHDDRGRPALAELVADRPERLFHVGRLDADTEGLLLLTNDGELAHR 128 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + + Y R G+V + LK GI + + T+ Q +A V + L Sbjct: 129 LAHPSYEVPKTYVARVTGRVARGLGRRLKDGIELDDGPARVDRFTILEQGPDSAVVELVL 188 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EG+NR ++++ + V RL R GP LG L G+TR + E+LG Sbjct: 189 HEGRNRIVRRLLDAAGHPVQRLTRTRVGPVLLGQLRPGATRVIDG----EELG 237 >gi|237737269|ref|ZP_04567750.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium mortiferum ATCC 9817] gi|229421131|gb|EEO36178.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium mortiferum ATCC 9817] Length = 230 Score = 110 bits (274), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 72/226 (31%), Positives = 119/226 (52%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K + G+ SRREV++++ +++VN I+++ N+ S D IE DG L E Sbjct: 6 RLDKFLTECGLGSRREVKKLLDNGKIRVNDIIVKNPQANIKESIDKIEYDGNKLEYKE-F 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++ +K G +T DP TV + LP I + VGRLD +TEGLLL TNDG L Sbjct: 65 RYYIMNKKGGYITATEDPK-EKTVMELLPEWVIKKDLAPVGRLDKDTEGLLLFTNDGKLG 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y + ++ + ++ L++G+ I G + + +K + + Sbjct: 124 HSLLSPKKHVDKTYYAKLEKEIGEVEIKKLEEGVDIGGYITQPAKAKIVGEK----EIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +REGK ++KK+ E N KV L R+++G +L + G RE++ Sbjct: 180 TIREGKFHQVKKMLEAVNNKVVYLKRVTFGKLELKDMELGEVREIN 225 >gi|325971205|ref|YP_004247396.1| pseudouridine synthase Rsu [Spirochaeta sp. Buddy] gi|324026443|gb|ADY13202.1| pseudouridine synthase Rsu [Spirochaeta sp. Buddy] Length = 250 Score = 110 bits (274), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 73/227 (32%), Positives = 115/227 (50%), Gaps = 12/227 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ +A++G SRR E +I RV +N + V D + VD + A+R Sbjct: 6 PIRLQAYMAKSGCGSRRFCETLITAGRVTINTKRVTELGTKVNEEDVVMVDDQLIEPADR 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 T + +KP G V T+ DP+ + D L I + + +GRLD + GL+L TNDG + Sbjct: 66 TYYYALYKPRGYVCTNYDPNEKLYARD-LIDIADKNLLFHIGRLDKESSGLILYTNDGDV 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---SNA 187 A+ + PS + + Y V +V ++ L KGI I D+ ++ S Sbjct: 125 AQKIMHPSREIEKEYLVSCSTEVRREDLEEALKGIYI------DIPQPYRIKRFEILSKK 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 WV + L EGKNREI+K+F ++ + V +L+R+ G +LG + G R Sbjct: 179 WVRIILTEGKNREIRKIFSYYGYDVKQLVRMRIGCIELGEMQPGQYR 225 >gi|289178586|gb|ADC85832.1| Ribosomal large subunit pseudouridine synthase B [Bifidobacterium animalis subsp. lactis BB-12] Length = 266 Score = 110 bits (274), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 73/231 (31%), Positives = 122/231 (52%), Gaps = 4/231 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A+AG SRR+ E MI RV+V+G L+ V + VDG +R R Sbjct: 29 RLQKLLAQAGFGSRRKCEEMITDGRVEVDGELVTELGTRVDPKRQQVRVDGSRIRLNPRH 88 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP +++T DP GR T+ D + + R+ +GRLD ++EGL+L+TNDG L++ Sbjct: 89 ITLALNKPRKVLSTMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTNDGELSQH 148 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y G + L++ G+ + G D +D+ + V V Sbjct: 149 VMHPKYEVEKTYIATLEGHMSGTVCRRLVRTGVQLDDGWIKLDHCSIIDSNR-DQTIVKV 207 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L G+NR ++++F + V RL+R GP +LG + +GS R +S+ +R Sbjct: 208 VLHSGRNRIVRRIFGAIGFPVKRLVRTQIGPIKLGDIKSGSYRVLSQDEVR 258 >gi|225352118|ref|ZP_03743141.1| hypothetical protein BIFPSEUDO_03733 [Bifidobacterium pseudocatenulatum DSM 20438] gi|225157365|gb|EEG70704.1| hypothetical protein BIFPSEUDO_03733 [Bifidobacterium pseudocatenulatum DSM 20438] Length = 257 Score = 110 bits (274), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 74/231 (32%), Positives = 122/231 (52%), Gaps = 4/231 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A+AG SRR+ E +I + RV+++G L+ V + VDG +R Sbjct: 20 RLQKLLAQAGFGSRRKCEEIITEGRVEIDGELVTELGTRVDPKHQEVRVDGSRVRVNPNH 79 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TNDG L++ Sbjct: 80 VTLALNKPKRVLSAMEDPKGRYTLSDIVGDKYDRIFHMGRLDYDSEGLILMTNDGELSQH 139 Query: 134 LELPSTQWLRVYRVRFHGQVD-QDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y G++ Q L+ G+ + G D LD + S V V Sbjct: 140 VMHPKYEVEKTYIATLEGRISGQVCRRLVTTGVQLDDGWIKLDRCAILDASRDST-LVKV 198 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L GKNR ++++F + V RL+R GP +LG L +GS R +S+ +R Sbjct: 199 VLHSGKNRIVRRIFGSIGFPVKRLVRTQIGPIKLGDLKSGSYRVLSQTEVR 249 >gi|224418175|ref|ZP_03656181.1| putative ribosomal pseudouridine synthase [Helicobacter canadensis MIT 98-5491] gi|253827502|ref|ZP_04870387.1| pseudouridine synthase, Rsu [Helicobacter canadensis MIT 98-5491] gi|313141710|ref|ZP_07803903.1| RNA pseudouridine synthase [Helicobacter canadensis MIT 98-5491] gi|253510908|gb|EES89567.1| pseudouridine synthase, Rsu [Helicobacter canadensis MIT 98-5491] gi|313130741|gb|EFR48358.1| RNA pseudouridine synthase [Helicobacter canadensis MIT 98-5491] Length = 250 Score = 110 bits (274), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 67/228 (29%), Positives = 121/228 (53%), Gaps = 16/228 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ IA SRRE +++I + +V +N +++ + V + + V+G L++ E Sbjct: 2 RLNQYIAHHSKFSRREADQLIKEGKVSINKEIIKDFSYQVKNHTKVYVNGKCLKEKEEYT 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +Y+KP G + + D GR ++++LP F I +GRLD +EGLLLLT+ +A Sbjct: 62 VIVYNKPKGELVSKRDDRGRRVIYESLPKRFKDFIPIGRLDFASEGLLLLTDSVKVA--T 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT----LDTQKGSNAWVT 190 +L ++ RVY ++ G++ ++ ++ G+ +Q G Q + ++ WV+ Sbjct: 120 KLMESKLERVYLLKLSGEIKEEVFEAMENGLSLQDARLGGHQKSKIKAMEFSPFMGYWVS 179 Query: 191 ----------VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 V + EGKNRE+++ F FN KV L R++YG L L Sbjct: 180 KNTAKLSKIKVAINEGKNRELRRFFAHFNLKVLDLKRVAYGFVSLNNL 227 >gi|83590579|ref|YP_430588.1| ribosomal small subunit pseudouridine synthase A [Moorella thermoacetica ATCC 39073] gi|83573493|gb|ABC20045.1| ribosomal small subunit pseudouridine synthase A [Moorella thermoacetica ATCC 39073] Length = 243 Score = 110 bits (274), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 79/231 (34%), Positives = 128/231 (55%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 QR+ +V+A G +R+ ++++I ++RV+VNG E ++V+ D+IEV+G PL E Sbjct: 7 QRLDRVLAHMGFGTRKMIKKLIKEKRVQVNGRPAEDPGLHVIPGRDYIEVNGEPLVYEEY 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 L L +KP G+++ D + V D LP + VGRLD + EGLLLLTNDG L Sbjct: 67 IYLML-NKPQGVLSATEDRYAK-VVVDLLPPRYRAFHPFPVGRLDKDAEGLLLLTNDGEL 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSNAWV 189 A L P ++Y G V + + ++GI++ Y M L + G+ + V Sbjct: 125 AHRLLSPKKHVSKMYYAVVDGIVTETDVEAFRQGIILND-GYRTMPGELTILRSGTESEV 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVSKK 239 + + EGK ++K++FE + +V L RI+ GP +L LL G RE++++ Sbjct: 184 ELTIYEGKYHQVKRMFEAVSKRVLYLKRIAMGPLRLDELLRPGEYRELTEE 234 >gi|268678707|ref|YP_003303138.1| RNA-binding S4 domain protein [Sulfurospirillum deleyianum DSM 6946] gi|268616738|gb|ACZ11103.1| RNA-binding S4 domain protein [Sulfurospirillum deleyianum DSM 6946] Length = 261 Score = 110 bits (274), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 76/237 (32%), Positives = 119/237 (50%), Gaps = 16/237 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+I+ SRRE + +I VKV+G +++ + V + IE++G L + Sbjct: 5 RLNKMISHNTHYSRREADELIKAGHVKVDGNVVQDLSTQVSFKNKIELNGKALFEKHGYS 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T++D LPS F+ +SVGRLD +EGLLLL + + L Sbjct: 65 VIVYHKQKGELVSKKDDRGRKTIYDTLPSKFAHYLSVGRLDFASEGLLLLCDSPSVVSAL 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ------------VTLDTQ 182 + RVY V+ +G V +++G+ ++ G V Sbjct: 125 MHGDLE--RVYYVKINGLVSPAMEKAMQEGLSLEDARRGGHAKSEIHAMDFAPFVNYRII 182 Query: 183 KGSNAWVT--VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 K S + T V + EGKNRE+++ F +F+ V L R+SYG LG L G R S Sbjct: 183 KNSPTFSTIKVTINEGKNRELRRFFGYFDVDVVDLKRVSYGKIDLGMLKPGKHRFFS 239 >gi|189347479|ref|YP_001944008.1| pseudouridine synthase [Chlorobium limicola DSM 245] gi|189341626|gb|ACD91029.1| pseudouridine synthase [Chlorobium limicola DSM 245] Length = 252 Score = 110 bits (274), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 76/233 (32%), Positives = 128/233 (54%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A G+ASRR ++++ RV +NG I+LE S D + VDG L E Sbjct: 15 RINRYLAMCGVASRRASDQLVEAGRVMINGSIILEPGLKVDPSVDEVIVDGSMLALPEGK 74 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ L++KP ++TT+SD R TV N S+ R+ VGRLD T G+LLLTNDG LA Sbjct: 75 KVYILFNKPKNVITTNSDEKNRETVL-NYISVKERIYPVGRLDRKTTGVLLLTNDGNLAH 133 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKGSNAWVT 190 L PS+ + Y + L L G+ ++ G Q + +G W++ Sbjct: 134 KLMHPSSNVKKEYIAVLDKKFPHTLLLQLTGGMRLKDTGEKVSPCQAKI-LDEGFQVWLS 192 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EGKN +++++FE ++V++L R++Y ++G L G R + +K +++ Sbjct: 193 I--HEGKNHQVRRMFETLGFEVDKLERVAYAGLKVGDLRRGEWRALDRKEIQQ 243 >gi|288904878|ref|YP_003430100.1| ribosomal small subunit pseudouridine synthase A [Streptococcus gallolyticus UCN34] gi|288731604|emb|CBI13159.1| ribosomal small subunit pseudouridine synthase A [Streptococcus gallolyticus UCN34] Length = 238 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 78/243 (32%), Positives = 134/243 (55%), Gaps = 19/243 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K++ +AG SR +V+++I ++V V+G L E +NV S I V G ++++ Sbjct: 2 RLDKLLGQAGFGSRNQVKKLIRSRQVYVDGRLAEADNLNVEPSLQKITVSGKQVKQSSE- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + +L +KP G+V+ SD + ++ + D +P ++ VGRLD +TEGLLL+TN+G Sbjct: 61 KYFLLNKPAGVVSAVSDKEHQTVIDLIKEADCVPKLYP----VGRLDRSTEGLLLITNNG 116 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICY-GDMQVTLDTQKGS 185 L + P + Y V + + D + G+ IC +++ + + S Sbjct: 117 PLGYRMLHPKYHVAKTYYVEVNAFLADDVPAFFENGVSFDDGTICKPAKLEIITASPEKS 176 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS---KKILR 242 +A+VT+ EGK +IKK+F + KV L R+++G FQLG L +G RE++ K+IL+ Sbjct: 177 SAYVTIS--EGKFHQIKKMFLAYGVKVTYLKRLTFGEFQLGDLPSGQYRELTSTEKEILK 234 Query: 243 EQL 245 L Sbjct: 235 NYL 237 >gi|296085982|emb|CBI31423.3| unnamed protein product [Vitis vinifera] Length = 296 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 81/239 (33%), Positives = 129/239 (53%), Gaps = 17/239 (7%) Query: 9 ENF--TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGV 65 ENF PQR+SKV+A AG+ASRR E +I + RV VNG + V + D I V+G Sbjct: 39 ENFRDPPQRLSKVLAAAGVASRRNSEELIFEGRVTVNGSVCNTPQTRVDPARDMIYVNGN 98 Query: 66 PLRKAERTRLWL-YHKPIGLVTTHSDPDGRS--TVFDNL--------PSIF-SRVISVGR 113 L K +++L +KP G + + + + +S +FD+ P + R+ +VGR Sbjct: 99 RLPKKLPPKVYLALNKPKGYICSSGEKESKSVLCLFDDYLKSWNKQNPGVPKPRIFTVGR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CY 172 LD+ T GL++LTNDG A+ L PS++ + Y G V++ L + +G VI+G+ C Sbjct: 159 LDVATTGLIILTNDGDFAQKLSHPSSKLSKEYIATIDGVVNKRHLIAISEGTVIEGVHCT 218 Query: 173 GDMQVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 D L Q S + V + EG+N E++++ + +++ L RI G F+L + L Sbjct: 219 PDSVELLPPQPNISKPRLRVVVHEGRNHEVRELVKSAGLQIHSLKRIRIGGFRLPSDLG 277 >gi|222823063|ref|YP_002574636.1| ribosomal pseudouridine synthase [Campylobacter lari RM2100] gi|222538284|gb|ACM63385.1| putative ribosomal pseudouridine synthase [Campylobacter lari RM2100] Length = 253 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 78/236 (33%), Positives = 121/236 (51%), Gaps = 21/236 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K I+ SRRE + +I Q VK+N + A +N V + D + ++G L K + Sbjct: 2 RINKFISHNSKYSRREADELIKQGLVKINK---KTALLNDSVNAEDKVFINGKKLHKKTQ 58 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHK G + + D GR T++ LP FS +SVGRLD +EGLLLLT+ +A Sbjct: 59 FSVIIYHKQKGEIVSKKDDRGRKTIYHTLPKQFSTWLSVGRLDFASEGLLLLTDSPVIAD 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--------- 183 L + R Y ++ G +D++ + ++ G+ IQ G T T Sbjct: 119 ALMHSDLE--REYYLKVKGNIDKNVIEAMQNGLEIQNEKKGAHAKTKITSMSFAPFLGFE 176 Query: 184 --GSNAWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 GS+ T V + EGKNRE+++ F F+ +V L R+++G LG L AG R Sbjct: 177 IFGSSGGYTKLKVIINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKYR 232 >gi|313680897|ref|YP_004058636.1| ribosomal large subunit pseudouridine synthase b [Oceanithermus profundus DSM 14977] gi|313153612|gb|ADR37463.1| ribosomal large subunit pseudouridine synthase B [Oceanithermus profundus DSM 14977] Length = 252 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 83/240 (34%), Positives = 119/240 (49%), Gaps = 12/240 (5%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + AG A SRR+ E +I RV VNG ++ A V D + V G ER Sbjct: 8 RLQKYLVLAGAAPSRRKAEDLIRAGRVSVNGAVVGLGA-RVYPGDEVRVGGRRAELPERR 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G TT G TV++ LP + + VGRLD ++EGLLL TNDG L + Sbjct: 67 VVLALHKPKGYETTRQSRSGAPTVYELLPDLPG-LHPVGRLDRDSEGLLLFTNDGALTQR 125 Query: 134 LELPSTQWLRVYRV-RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VYRV G D L L++G+V++ ++V + + + Sbjct: 126 LTHPRYGVKKVYRVWSRKGTPPPDLLRKLERGLVLKS----GVRVQALKARPKDGGAVIT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS----KKILREQLGPH 248 L EGK RE++ + + V RL+R+ GP +LG G+ RE+S K + R GP Sbjct: 182 LTEGKKREVRYMMAAIGYPVERLVRVKMGPIRLGGQKPGTWRELSASELKALDRAAFGPE 241 >gi|269836469|ref|YP_003318697.1| pseudouridine synthase [Sphaerobacter thermophilus DSM 20745] gi|269785732|gb|ACZ37875.1| pseudouridine synthase [Sphaerobacter thermophilus DSM 20745] Length = 337 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 76/225 (33%), Positives = 119/225 (52%), Gaps = 3/225 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ +V+A G+ASRR+ E +I RV V+G ++ V V I VDG LR ER Sbjct: 2 ERLQRVLAAHGVASRRKAEELITAGRVTVDGQVVRELGVRVDPERQEIRVDGKRLR-PER 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + +KP G +TT SD GR TV D L + RV+ GRLD T GLLLLTNDG L Sbjct: 61 RRYIMLNKPPGYITTVSDERGRRTVMD-LVQVPERVVPAGRLDRPTAGLLLLTNDGDLLF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y V G + L+ L++G+ + G QV + + + + Sbjct: 120 RITHPRYELEKEYEVLVDGHPPPEVLDQLRRGVTVDGERVVPDQVRPLRIEEAGTVLRIV 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR ++++ + + V +L R GP + + G+ R+++ Sbjct: 180 IHEGRNRIVRRMMDRVGYPVLKLTRTRIGPIHVRGVPLGAWRDLT 224 >gi|257784526|ref|YP_003179743.1| pseudouridine synthase [Atopobium parvulum DSM 20469] gi|257473033|gb|ACV51152.1| pseudouridine synthase [Atopobium parvulum DSM 20469] Length = 279 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 81/254 (31%), Positives = 130/254 (51%), Gaps = 20/254 (7%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDG 64 + +E P R+ + +ARAG+ASRR ER++ RV VNG ++ V D + VDG Sbjct: 1 MTEERIVPMRLQRFLARAGVASRRGSERLMTSGRVTVNGQVVTELGSKVDPLVDVVAVDG 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLL 123 V AE+ + +KP G +TT DP GR T+ D +P+ + + VGRLD++T GLL Sbjct: 61 VVCSIAEKPVYLMLNKPAGYLTTMKDPQGRPTIVDMVPTDTYPGLFPVGRLDMDTTGLLF 120 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---- 179 T DG +A+ L PS + Y G +++LN L++GI ++ +V + Sbjct: 121 FTTDGQMAQELLHPSKHVWKHYVAHVVGTPTEEQLNRLREGIELEDGPAAPAEVEIISDD 180 Query: 180 -------------DTQKGS-NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 T G NA V+V +REG+ ++KK+ + +V L R ++GP L Sbjct: 181 VKMKNLLAPQGLGKTGGGEPNALVSVTIREGRKHQVKKMLLAIHHRVLALHRDTFGPLHL 240 Query: 226 GTLLAGSTREVSKK 239 + G R ++++ Sbjct: 241 TRVKEGEWRLLTEE 254 >gi|213963701|ref|ZP_03391952.1| ribosomal large subunit pseudouridine synthase B [Capnocytophaga sputigena Capno] gi|213953696|gb|EEB65027.1| ribosomal large subunit pseudouridine synthase B [Capnocytophaga sputigena Capno] Length = 410 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 71/226 (31%), Positives = 118/226 (52%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGI SRR + I+ V VNG ++ V TD + DG L +E+ Sbjct: 178 RLNKYIADAGICSRRNADMYISSGNVTVNGEVMTTLGYRVKPTDEVRFDG-KLLSSEKKE 236 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G +TT +D GR TV D + + S R++ VGRLD T GLLLLTNDG L + Sbjct: 237 YILLNKPKGFITTTNDEKGRKTVMDLVANATSARILPVGRLDRATTGLLLLTNDGELTKK 296 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+ ++Y V ++D ++ G+ ++ +++ K N + + + Sbjct: 297 LTHPTHGVRKIYHVILDRKLDYKDFMKIQDGLELEDGFIEVDEISYVNDKPKNE-IGIKI 355 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G+NR ++++FE ++V +L R+ + L G R ++++ Sbjct: 356 HSGRNRIVRRIFEHLGYQVEKLDRVVFAGLTKKDLPRGHWRRLTQQ 401 >gi|255323628|ref|ZP_05364758.1| S4 domain protein [Campylobacter showae RM3277] gi|255299342|gb|EET78629.1| S4 domain protein [Campylobacter showae RM3277] Length = 257 Score = 109 bits (273), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 71/234 (30%), Positives = 123/234 (52%), Gaps = 16/234 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +I Q +V VNG ++ A +V D ++++G +R + Sbjct: 5 RLNKFISHNTSYSRREADELIKQGKVSVNGRVISELATSVSDEDKVKINGRIVRLKKEFT 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T++D+L F++ +S+GRLD +EGLLLLT+ +A L Sbjct: 65 MIVYHKQKGELVSKKDDRGRKTIYDSLDRQFAKFVSIGRLDYASEGLLLLTDAPAIATAL 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG----------DMQVTLDTQ-K 183 + R Y ++ G++ + + + +G G + + LD + Sbjct: 125 MNSDVE--REYYLKVKGEITPEVITAMNEGFFAADATKGAHAKTAIKSMEFKPFLDYKIF 182 Query: 184 GSNAWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 GS+ T V + EG+NRE+++ F +F+ +V L R+S+G LG L G R Sbjct: 183 GSSGGFTKLKVVINEGQNRELRRFFGYFDLEVMDLKRVSFGRVDLGMLKPGKWR 236 >gi|260587929|ref|ZP_05853842.1| ribosomal large subunit pseudouridine synthase B [Blautia hansenii DSM 20583] gi|331084524|ref|ZP_08333625.1| hypothetical protein HMPREF0992_02549 [Lachnospiraceae bacterium 6_1_63FAA] gi|260541456|gb|EEX22025.1| ribosomal large subunit pseudouridine synthase B [Blautia hansenii DSM 20583] gi|330401232|gb|EGG80823.1| hypothetical protein HMPREF0992_02549 [Lachnospiraceae bacterium 6_1_63FAA] Length = 271 Score = 109 bits (273), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 83/285 (29%), Positives = 151/285 (52%), Gaps = 20/285 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD---HIEVDGVPLRKAE 71 R++K ++ AG+ SRRE +R+I ++RV V+G + AV M + I+VDG +++ E Sbjct: 2 RLNKYLSDAGVCSRREADRLIEEKRVLVDG----KPAVQGMQVEDFQEIKVDGKAIKREE 57 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L ++HKP G+ T ++P+ + V + N P RV GRLD ++EGLLLLTN G Sbjct: 58 KKVLLVFHKPKGIECT-ANPNVKKNVISYINYPI---RVYYAGRLDKDSEGLLLLTNQGE 113 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + + Y V V ++ L +++G+ + G +V +++K + Sbjct: 114 LVNQIMKAGSYHEKEYLVTVDKPVTEEFLQSMREGVPVLGTITRKCKVEKESEKVFRITL 173 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 T GL NR+I+++ + ++V +L RI +LG L GS RE +K+ L ++L + Sbjct: 174 TQGL----NRQIRRMCNYLGYEVVKLKRIRIMNIELGNLPIGSYREATKEEL-DELKRQI 228 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 E+A+ + + + V++ + P + K+ + +NG Sbjct: 229 SEKAEKRQETDFHKGKKPVKNAGKYRN--PSKVRKQKRQEASRNG 271 >gi|322503526|emb|CBZ38612.1| unnamed protein product [Leishmania donovani BPK282A1] Length = 877 Score = 109 bits (273), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 76/225 (33%), Positives = 113/225 (50%), Gaps = 8/225 (3%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAERTRLW 76 + + RAG SRRE +IA +V+VN + V + D + V G R + RLW Sbjct: 519 RTLPRAGFCSRREAAAIIASGQVRVNNVTERNPFRLVQAQDDVHVAGHQSRLRFAPPRLW 578 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +YHKP ++ + +D GR+ + + + ++ VG L + G+LLLTNDG L+R LE Sbjct: 579 IYHKPAHVIVSRNDAAGRTLITKHARILGMDHLVPVGSLPMRAHGILLLTNDGELSRFLE 638 Query: 136 LPSTQWLRVYRVRFHGQVDQ---DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P + R Y +R D KLN +GI I G Y + + ++ S V V Sbjct: 639 NPKSMVQRTYLLRVRPAFDPVLVHKLN--TEGIQINGRLYRNAEFFVNPATKSRYSVKVK 696 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +R G++ I + + V R RIS+GPF L L GS REV+ Sbjct: 697 VR-GESMPIAHLMQHLGRTVERGGRISFGPFALSNLAVGSVREVT 740 >gi|294627879|ref|ZP_06706458.1| Pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] gi|292597793|gb|EFF41951.1| Pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] Length = 286 Score = 109 bits (273), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 76/232 (32%), Positives = 120/232 (51%), Gaps = 9/232 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R IA RV V+ ++ + I VDG PL R Sbjct: 39 LARVLSKLGVCSRTEAARWIADGRVSVSARVVRDPEFPIRGDQQSSIAVDGQPLAGLARC 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP G+VTT D GR TV+ + VGRLD +EGLLL +ND A Sbjct: 99 YLML-NKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAA 157 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNA 187 + P+T + Y V+ + +L L+ G+V QG+ QV++ + NA Sbjct: 158 AVTDPATGPDKTYHVQIDCRPSAAQLAQLQAGVVDPDPQGQGVLLRAKQVSVLREGERNA 217 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 W+ + L EG+NR+I+++ + V RL+R++ GP +G L G+ R +S + Sbjct: 218 WLEIVLDEGRNRQIRRLVAAVDIGVLRLVRVAIGPLAMGELGKGAWRMLSAE 269 >gi|291279397|ref|YP_003496232.1| ribosomal small subunit pseudouridine synthase A [Deferribacter desulfuricans SSM1] gi|290754099|dbj|BAI80476.1| ribosomal small subunit pseudouridine synthase A [Deferribacter desulfuricans SSM1] Length = 239 Score = 109 bits (273), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 71/229 (31%), Positives = 123/229 (53%), Gaps = 5/229 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+IA +G SRRE +R+I V VNG+++ A DH+ V+G L ++ Sbjct: 10 RLNKLIASSGKYSRREADRLIQNGFVLVNGVVITNPAEKFSINDHVVVNGEKLDFNKKVY 69 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + Y KPI ++T++ + ++ D +R+ GRLD +EGL++ TNDG L + Sbjct: 70 IKFY-KPIKVLTSYDKYRDKKSLLDIEFFKKNRLGYSGRLDYESEGLIIFTNDGDLIYKI 128 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + PS++ + Y V +++ +L L++ G+ + I Y ++ N + L Sbjct: 129 QHPSSRIEKEYIVAVDKILEEKELELIRAGLKTKEIKYLPCKINY----LGNYTYNIVLY 184 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 EGK REI+ +F+FF V +L R+ GP ++ L G + +SKK + E Sbjct: 185 EGKKREIRNIFKFFKINVKKLKRVRIGPIRIVDLKPGEYKHLSKKEIEE 233 >gi|146104193|ref|XP_001469756.1| tRNA pseudouridine synthase A [Leishmania infantum] gi|134074126|emb|CAM72868.1| putative tRNA pseudouridine synthase A [Leishmania infantum JPCM5] Length = 877 Score = 109 bits (273), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 76/225 (33%), Positives = 113/225 (50%), Gaps = 8/225 (3%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAERTRLW 76 + + RAG SRRE +IA +V+VN + V + D + V G R + RLW Sbjct: 519 RTLPRAGFCSRREAAAIIASGQVRVNNVTERNPFRLVQAQDDVHVAGHQSRLRFAPPRLW 578 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +YHKP ++ + +D GR+ + + + ++ VG L + G+LLLTNDG L+R LE Sbjct: 579 IYHKPAHVIVSRNDAAGRTLITKHARILGMDHLVPVGSLPMRAHGILLLTNDGELSRFLE 638 Query: 136 LPSTQWLRVYRVRFHGQVDQ---DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P + R Y +R D KLN +GI I G Y + + ++ S V V Sbjct: 639 NPKSMVQRTYLLRVRPAFDPVLVHKLN--TEGIHINGRLYRNAEFFVNPATKSRYSVKVK 696 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +R G++ I + + V R RIS+GPF L L GS REV+ Sbjct: 697 VR-GESMPIAHLMQHLGRTVERGGRISFGPFALSNLAVGSVREVT 740 >gi|323466661|gb|ADX70348.1| Pseudouridine synthase [Lactobacillus helveticus H10] Length = 216 Score = 109 bits (273), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 69/207 (33%), Positives = 109/207 (52%), Gaps = 3/207 (1%) Query: 34 MIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 MI RVKV+G ++ + V + +I VD P+ + E +L++KP G+V+T D G Sbjct: 1 MIVAGRVKVDGKVVTKLGTKVETFSNITVDDEPIER-ESLHTYLFYKPRGVVSTADDDKG 59 Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 R TV D + R+ VGRLD +T GLLL+TNDG LA +L P + +VY + G + Sbjct: 60 RKTVVDYFEDVPCRLYPVGRLDYDTSGLLLMTNDGKLANLLMHPRNEVSKVYVAKIKGIL 119 Query: 154 DQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNAWVT-VGLREGKNREIKKVFEFFNWK 211 D++ L G+ + +V L T K + + + + EG ++K++F+ Sbjct: 120 TPDEIKTLTTGVKLDRFKAAPAKVKILKTDKRKDTQIIQLTIHEGHYHQVKRMFKAVGHL 179 Query: 212 VNRLIRISYGPFQLGTLLAGSTREVSK 238 V +L R Y L +L +G RE+SK Sbjct: 180 VEKLSREKYAFLTLDSLTSGQYRELSK 206 >gi|310828101|ref|YP_003960458.1| pseudouridine synthase [Eubacterium limosum KIST612] gi|308739835|gb|ADO37495.1| pseudouridine synthase [Eubacterium limosum KIST612] Length = 241 Score = 109 bits (273), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 84/240 (35%), Positives = 125/240 (52%), Gaps = 20/240 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A+ G+ASRR+ E MIA RV VNG + + V D + VDG + AE Sbjct: 2 RLQKYMAQCGVASRRKSEEMIAAGRVCVNGEAVLTPGLQVDPEADTVTVDGKTI--AEDK 59 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ L +KP G+V+T +D TV D LP I R+ +VGRLD +TEGLL+LTNDG L Sbjct: 60 KIYVLLNKPKGVVSTSADRHADQTVMDRLP-IKERLFTVGRLDKDTEGLLILTNDGDLTF 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 L PS ++ ++Y G +L L +G+ I+ D TL T Sbjct: 119 RLTHPSHEFNKIYEGLVKGIPSAGELRLFAEGVQIE-----DDDHTLHTTAPASVQVLKT 173 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 S A + + + EG+ R+I+K+ V L R + G L L AG R ++++ +R Sbjct: 174 YRSTALLEMTIHEGRKRQIRKMCAAIGHPVIHLKRTAIGSITLKGLKAGEWRYLTEEEIR 233 >gi|168218095|ref|ZP_02643720.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens NCTC 8239] gi|182379855|gb|EDT77334.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens NCTC 8239] Length = 236 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 68/225 (30%), Positives = 119/225 (52%), Gaps = 2/225 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +AR G+ASRR+ E +I +VKVN I+++ V + + + + E Sbjct: 3 ERLQKYMARCGVASRRKCEEIICSGKVKVNDIVVDSLGTKVDPSVDVVSVNNKVIRPEEN 62 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ + +KP G VTT+ D R T+ D + + R+ +GRLD ++ GLLLLTNDG + Sbjct: 63 KVYIMLNKPEGYVTTNKDEKNRKTILD-IVKVNERIYPIGRLDYDSSGLLLLTNDGDVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G ++++N +KG+ I + ++ L + ++ V + Sbjct: 122 KIIHPRVNLNKEYIALVKGIFTEEEMNKFRKGVDIGDYKTAECEIELLEKYTNSCKVKII 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EGKNR+I+++ FN +V L R + G L L G R +S Sbjct: 182 IHEGKNRQIRRMCAVFNHEVVSLKREAIGSLNLKNLKKGEWRYLS 226 >gi|329117728|ref|ZP_08246445.1| pseudouridylate synthase [Streptococcus parauberis NCFD 2020] gi|326908133|gb|EGE55047.1| pseudouridylate synthase [Streptococcus parauberis NCFD 2020] Length = 238 Score = 109 bits (272), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 80/230 (34%), Positives = 124/230 (53%), Gaps = 10/230 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ GI SR +V+ +I Q+VKVN ++ NV S I G P++ AE Sbjct: 2 RIDKLLEEEGIGSRNQVKTLIKSQQVKVNEKVITDGKTNVDPSLQVITASGTPIQ-AEGH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ SD TV D L ++++ +GRLD +TEGL+LLT++G L Sbjct: 61 HYFILNKPNGVVSARSD-GLHQTVIDCLSVEDRYAKLYPIGRLDRDTEGLVLLTDNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICY-GDMQVTLDTQKGSNAW 188 + PS + Y VR +GQ+ D L ++GIV C +Q+ +K S A Sbjct: 120 FRMLHPSHHVSKTYLVRVNGQLKDDALVFFEEGIVFHDGTKCKPAHLQILKKDEKCSEAV 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 VT+ EGK ++KK+F + KV L RIS+ LG L G R++++ Sbjct: 180 VTIS--EGKFHQVKKMFLAYGLKVIYLKRISFAGLTLGELPVGQYRKLTE 227 >gi|319790172|ref|YP_004151805.1| pseudouridine synthase [Thermovibrio ammonificans HB-1] gi|317114674|gb|ADU97164.1| pseudouridine synthase [Thermovibrio ammonificans HB-1] Length = 238 Score = 109 bits (272), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 73/231 (31%), Positives = 125/231 (54%), Gaps = 6/231 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K++A G +R +V+R+I + V+VNG +++ + V D + VDG P+ E Sbjct: 2 RLDKLLAEGGFGTRSQVKRLIKKGHVEVNGEVVKDPSFQVDPLKDEVTVDGEPVYYEEEY 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 L L +KP G VT S D + TV + + I F ++ VGRLD + EGLLL+T DG LA Sbjct: 62 YLVL-NKPAGYVT--STKDRQMTVMELVADIPRFDKLFPVGRLDKDAEGLLLMTTDGELA 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y V+ G++ ++ + L++GI ++ +V + + + Sbjct: 119 HRLTHPKWKVPKTYVVKVEGRLTEEAVEPLRRGIELKDFKAKPAEVRILRSSEEESEAEI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGK ++K++F V L R+++GP +LG L G R ++++ LR Sbjct: 179 TITEGKFHQVKRMFAAIGHPVKELKRVAFGPLKLGELPTGEYRHLTEEELR 229 >gi|212690763|ref|ZP_03298891.1| hypothetical protein BACDOR_00250 [Bacteroides dorei DSM 17855] gi|212666640|gb|EEB27212.1| hypothetical protein BACDOR_00250 [Bacteroides dorei DSM 17855] Length = 243 Score = 109 bits (272), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 76/230 (33%), Positives = 116/230 (50%), Gaps = 7/230 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AGI SRRE + I V VNG ++ + TD ++ P+ ER Sbjct: 7 PIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEVKFHDEPV-SIER 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 66 KTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTGVLLLTNDGDLA 125 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGD-MQVTLDTQKGSNAWV 189 L P ++Y V V + L+ + G+ + G + D + +T K + V Sbjct: 126 SKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISYASETDK---SQV 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 183 GIEIHSGKNRIVRRIFESLGYKVIKLDRVYFAGLTKKGLRRGDWRYLTEQ 232 >gi|291528900|emb|CBK94486.1| ribosomal small subunit pseudouridine synthase A [Eubacterium rectale M104/1] Length = 240 Score = 109 bits (272), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 75/232 (32%), Positives = 126/232 (54%), Gaps = 15/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K ++ G+ +R EV+++I ++ +NG + + V D + V+G + K +R Sbjct: 3 RLDKFLSEMGLGTRSEVKKLIKTGQIAINGTVAAKPETKVDTDADEVSVNG-RIVKYQRY 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L++KP G V+ SD + TV D + ++ + VGRLDI+TEGLLL+TNDG L+ Sbjct: 62 EYYLFNKPSGCVSATSD-NVHDTVMDYITDAVHDDLFPVGRLDIDTEGLLLITNDGALSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-----LDTQKGSNA 187 L PS + Y R G+V D + K+GI I G+ + T + + GS + Sbjct: 121 ELLSPSKHVAKTYYARIDGEVTLDDIIRFKEGIDI-----GEERPTKPAELVIKKSGSVS 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 + + + EGK ++K++FE +V L RIS GP +L L G+ R +++ Sbjct: 176 EIELTITEGKFHQVKRMFEALGKRVIYLKRISMGPLKLPDDLKTGTYRALTQ 227 >gi|325473332|gb|EGC76527.1| pseudouridine synthase [Treponema denticola F0402] Length = 234 Score = 109 bits (272), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 71/233 (30%), Positives = 120/233 (51%), Gaps = 5/233 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ +AR G+ASRR E +I RV V+G ++ V + I +DG + R Sbjct: 6 RLQVYLARCGVASRRASENLILNGRVSVDGKIITELGTKVSGKEKICLDGKQIFPEAEKR 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G V + +D R L ++ R+ ++GRLD+ + G +L TNDG + Sbjct: 66 YILLNKPEGYVCSLADEKDRPIAASLLKDTYTERLYNIGRLDMLSGGAILFTNDGDFSAK 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 +E PS++ + Y V + + L +G+ I+G+ Y L ++ + + + L Sbjct: 126 VEHPSSEIEKEYEVITVFEYPDEVLQKFLRGVRIEGVFYK----ALSAERIAKNKMRIVL 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNREI++V +FFN K+ +L R+ G L L +G R ++ + ++ LG Sbjct: 182 IEGKNREIRRVLKFFNIKIKKLTRVRIGCVYLADLPSGKHRPLTSEEIKGLLG 234 >gi|168214957|ref|ZP_02640582.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens CPE str. F4969] gi|182626336|ref|ZP_02954091.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens D str. JGS1721] gi|170713593|gb|EDT25775.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens CPE str. F4969] gi|177908355|gb|EDT70900.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens D str. JGS1721] Length = 236 Score = 109 bits (272), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 68/225 (30%), Positives = 119/225 (52%), Gaps = 2/225 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +AR G+ASRR+ E +I +VKVN I+++ V + + + + E Sbjct: 3 ERLQKYMARCGVASRRKCEEIICSGKVKVNDIVVDSLGTKVDPSVDVVSVNNKVIRPEEN 62 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ + +KP G VTT+ D R T+ D + + R+ +GRLD ++ GLLLLTNDG + Sbjct: 63 KVYIMLNKPEGYVTTNKDEKNRKTILD-IVKVNERIYPIGRLDYDSSGLLLLTNDGDVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G ++++N +KG+ I + ++ L + ++ V + Sbjct: 122 KIIHPRVNLNKEYIALVKGIFTEEEMNKFRKGVDIGDYKTAECEIELLEKYTNSCKVKII 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EGKNR+I+++ FN +V L R + G L L G R +S Sbjct: 182 IHEGKNRQIRRMCAAFNHEVVSLKREAIGSLNLKNLKKGEWRYLS 226 >gi|78213141|ref|YP_381920.1| ribosomal large subunit pseudouridine synthase B [Synechococcus sp. CC9605] gi|78197600|gb|ABB35365.1| Pseudouridine synthase, Rsu [Synechococcus sp. CC9605] Length = 250 Score = 109 bits (272), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 74/223 (33%), Positives = 109/223 (48%), Gaps = 1/223 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T QR+ K+IA AG+ SRR E + RV V+G + I VDG PL Sbjct: 1 MTRQRLQKLIAAAGLCSRRRAEEWLQAGRVTVDGQVARVGDQADPQQQTIHVDGQPLPSP 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGG 129 R+ L +KP+G++ + DP GR TV D LP + + VGRLD ++ G LLLT+ G Sbjct: 61 GMARVLLMNKPVGVICSCDDPQGRRTVLDLLPPEHRAGLHPVGRLDADSHGALLLTDLGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + YRV G + L+ ++G+ + G +V G + + Sbjct: 121 LTLKLTHPRYSHAKTYRVWVQGVPSEPVLDRWRRGVPLDGRLTRPARVRQLRTWGDRSLL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + LREG+NR+I+++ E + V L R + LG L G Sbjct: 181 EIELREGRNRQIRRMAEALGYPVVDLQRTAIAGLPLGDLAEGC 223 >gi|198277516|ref|ZP_03210047.1| hypothetical protein BACPLE_03738 [Bacteroides plebeius DSM 17135] gi|198270014|gb|EDY94284.1| hypothetical protein BACPLE_03738 [Bacteroides plebeius DSM 17135] Length = 253 Score = 109 bits (272), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 78/239 (32%), Positives = 121/239 (50%), Gaps = 7/239 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + P R++K +A AGI SRRE + I V VNG ++ V +D ++ Sbjct: 8 KELLTDPDEPIRLNKFLANAGICSRREADEFITAGVVSVNGEIVTELGTKVKRSDEVKFH 67 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLL 122 P+ ER L +KP VTT DP R TV D + + R+ VGRLD NT G+L Sbjct: 68 DQPV-NIERKVYVLLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTGVL 126 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGD-MQVTLD 180 LLTNDG LA L P ++Y V V + L+ + +GI + G + D + D Sbjct: 127 LLTNDGDLASKLTHPKFLKKKIYHVYCDKNVTKADLDQIVQGITLDDGEIHADAISYASD 186 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 T K + V + + GKNR ++++FE ++V +L R+ + L G R ++++ Sbjct: 187 TDK---SQVGIEIHSGKNRIVRRIFESLGYRVIKLDRVYFAGLTKKGLRRGDWRYLTEQ 242 >gi|302546514|ref|ZP_07298856.1| pseudouridine synthase RluB [Streptomyces hygroscopicus ATCC 53653] gi|302464132|gb|EFL27225.1| pseudouridine synthase RluB [Streptomyces himastatinicus ATCC 53653] Length = 226 Score = 109 bits (272), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 76/217 (35%), Positives = 117/217 (53%), Gaps = 8/217 (3%) Query: 25 IASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLWL-YHKPI 82 + SRR E +I Q RV+VNG ++ + V D I+VDG+ + A ++ L+ +KP Sbjct: 1 MGSRRACEDLIDQARVEVNGKIVTEQGLRVDPEKDEIKVDGLTV--ATQSYLFFALNKPA 58 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL 142 G+V+T DPDGR + D + + +R+ VGRLD TEG++LLTN G LA L P Sbjct: 59 GVVSTMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGIILLTNHGELAHRLTHPRYGVK 118 Query: 143 RVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWVTVGLREGKNRE 200 + Y G + +D LK GI ++ G D +V +T G N V V L EG+ Sbjct: 119 KTYLAAIQGPLPRDLGKQLKNGIELEDGYARADHFKVVQNT--GKNYLVEVSLHEGRKHI 176 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++++ + V +L+R S+GP LG +G R ++ Sbjct: 177 VRRMLSEAGFPVEKLVRTSFGPIPLGDQKSGWLRRLT 213 >gi|300728331|ref|ZP_07061696.1| pseudouridine synthase B, ribosomal large subunit [Prevotella bryantii B14] gi|299774396|gb|EFI71023.1| pseudouridine synthase B, ribosomal large subunit [Prevotella bryantii B14] Length = 431 Score = 109 bits (272), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 78/237 (32%), Positives = 114/237 (48%), Gaps = 8/237 (3%) Query: 8 QENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +ENF P R++K +A AG+ SRRE + I + VNG ++ VM TD ++ Sbjct: 187 EENFDPNEPIRLNKYLANAGVCSRREADEFIQAGVITVNGEVVTELGTKVMRTDEVKFHD 246 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLL 123 + E+ L +KP VTT DP R TV D + + R+ VGRLD N G+LL Sbjct: 247 QNV-SLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDACPERIYPVGRLDRNPTGVLL 305 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQ 182 LTNDG LA L P +VY V V L + GI ++ G + D D Sbjct: 306 LTNDGDLASKLTHPKFLKKKVYHVYLDKPVAAHDLQQIADGITLEDGEIHADAIEYADEH 365 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + + GKNR ++++FE ++V +L R+ + L G R +S+K Sbjct: 366 --DKKQVGIEIHSGKNRIVRRIFEALGYRVTKLDRVQFAGLTKKNLRRGDWRFLSEK 420 >gi|332665442|ref|YP_004448230.1| pseudouridine synthase Rsu [Haliscomenobacter hydrossis DSM 1100] gi|332334256|gb|AEE51357.1| pseudouridine synthase Rsu [Haliscomenobacter hydrossis DSM 1100] Length = 274 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 71/229 (31%), Positives = 120/229 (52%), Gaps = 4/229 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ASRRE ++ Q + VN ++ + + D ++ G +R R Sbjct: 39 RLNKYVAHCGVASRREAAEIVKQGHITVNSVVETEPFYQIKTGDIVKYKGQVIRPEVRRV 98 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP ++TT SD GR TV D + + RV VGRLD +T GLLLLTNDG LA Sbjct: 99 YYLMNKPKNVITTTSDEKGRKTVLDLVADRVEERVFPVGRLDRDTTGLLLLTNDGELALK 158 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 + PS + ++Y + V ++ L ++ G+ ++ G D + + S +TV Sbjct: 159 MTHPSYKIKKIYHATLNKTVSKEDLEKIRAGLELEDGPAPVDAADYIIERPHSEVGLTVH 218 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + G+NR ++++FE ++V +L R+ G L G R ++ + L Sbjct: 219 I--GRNRIVRRIFEHLGYEVLKLDRVYLGGLTKKDLPRGFVRRLTSQEL 265 >gi|110801071|ref|YP_695782.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens ATCC 13124] gi|168212063|ref|ZP_02637688.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens B str. ATCC 3626] gi|169342630|ref|ZP_02863674.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens C str. JGS1495] gi|110675718|gb|ABG84705.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens ATCC 13124] gi|169299272|gb|EDS81341.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens C str. JGS1495] gi|170710018|gb|EDT22200.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens B str. ATCC 3626] Length = 236 Score = 108 bits (271), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 68/225 (30%), Positives = 119/225 (52%), Gaps = 2/225 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +AR G+ASRR+ E +I +VKVN I+++ V + + + + E Sbjct: 3 ERLQKYMARCGVASRRKCEEIICSGKVKVNDIVVDSLGTKVDPSVDVVSVNNKVIRPEEN 62 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ + +KP G VTT+ D R T+ D + + R+ +GRLD ++ GLLLLTNDG + Sbjct: 63 KVYIMLNKPEGYVTTNKDEKNRKTILD-IVKVNERIYPIGRLDYDSSGLLLLTNDGDVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G ++++N +KG+ I + ++ L + ++ V + Sbjct: 122 KIIHPRVNLNKEYIALVKGIFTEEEMNKFRKGVDIGDYKTAECEIELLEKYTNSCKVKII 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EGKNR+I+++ FN +V L R + G L L G R +S Sbjct: 182 IHEGKNRQIRRMCAAFNHEVVSLKREAIGSLTLKNLKKGEWRYLS 226 >gi|300087878|ref|YP_003758400.1| pseudouridine synthase [Dehalogenimonas lykanthroporepellens BL-DC-9] gi|299527611|gb|ADJ26079.1| pseudouridine synthase [Dehalogenimonas lykanthroporepellens BL-DC-9] Length = 266 Score = 108 bits (271), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 77/231 (33%), Positives = 114/231 (49%), Gaps = 10/231 (4%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWL 77 K + AG SRRE+ + RV VNG E + + D I +D P+ AE R++L Sbjct: 10 KALRDAGCGSRRELAEAVKAGRVAVNGTTAESFSAAITPADVITLDSRPVVTAESARVYL 69 Query: 78 Y-HKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G++TT DP GR TV D LP + R+ VGRLD NT GL++LTNDG L L Sbjct: 70 LLNKPLGVITTTEDPQGRPTVIDLLPPDWQQKRLFPVGRLDENTTGLIILTNDGELTNRL 129 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW---VTV 191 P + Y V ++ + +K G G+ D + NA + Sbjct: 130 THPRYGVEKEYLVGIDRSLNSEDFEKIKSG----GLELDDGPASPARISPVNAAPFNYRI 185 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+ R ++++F +V L RI G +LG L G+ R+++ LR Sbjct: 186 SIHEGRKRIVRRLFAALGHQVRVLRRIRVGSLELGNLKEGNWRQLTPLELR 236 >gi|154174771|ref|YP_001407361.1| RNA-uridine isomerase [Campylobacter curvus 525.92] gi|112802450|gb|EAT99794.1| RNA-uridine isomerase [Campylobacter curvus 525.92] Length = 257 Score = 108 bits (271), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 70/234 (29%), Positives = 118/234 (50%), Gaps = 16/234 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +I ++ VN L+ A +V D +++ G ++ + Sbjct: 5 RLNKFISHNTSYSRREADELIKSGKISVNNKLVSELATSVSDEDKVKIGGRLVKPKKDFT 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + T D GR T++D LP F++ +S+GRLD +EGLLLLT+ +A Sbjct: 65 MIVYHKQKGELVTKKDDRGRKTIYDALPEGFAKFVSIGRLDYASEGLLLLTDAPAIATA- 123 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG--------DMQ----VTLDTQ 182 L S+ R Y ++ G++ + +++G G M+ V D Sbjct: 124 -LMSSDIEREYYLKVKGEITDEVKTAMREGFFAADASKGAHAKSKIKSMEFKPFVAFDIF 182 Query: 183 KGSNAWVT--VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 S + V + EG+NRE+++ F +F+ +V L R+S+G LG L G R Sbjct: 183 GSSGGYTKFRVIINEGQNRELRRFFGYFDLEVMDLKRVSFGRVDLGMLKPGKWR 236 >gi|254457105|ref|ZP_05070533.1| RNA pseudouridylate synthase family protein [Campylobacterales bacterium GD 1] gi|207085897|gb|EDZ63181.1| RNA pseudouridylate synthase family protein [Campylobacterales bacterium GD 1] Length = 263 Score = 108 bits (271), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 76/239 (31%), Positives = 121/239 (50%), Gaps = 17/239 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 R++K IA SRRE ++ I V++NG + + A V D I V G + ++ Sbjct: 4 RLNKYIAHHSSYSRREADKAILDGYVRINGEIQDNPATQVDEKDDIVYVSGKQITPKDKY 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +Y+KP G + T SDP GR T++D L + I VGRLD TEG+LLLT+ +A Sbjct: 64 TVIVYNKPKGELVTKSDPKGRRTIYDGLEKKYKHYIPVGRLDYATEGVLLLTDASKIASA 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG---DMQVTLDT--------- 181 L ++ R+Y+V+ G+V + + G+ + G +VT T Sbjct: 124 --LMNSNLERIYKVKIKGEVTPEIEAAMMNGLELLDATAGGHSHSKVTSMTFAPFLGYKI 181 Query: 182 QKGSNAW--VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 QK + + + + + EG+NREI++ F F +V L RIS+ +L L G R +S+ Sbjct: 182 QKNEHNYSVLKIAISEGQNREIRRFFAHFGTEVADLKRISFAEVELNNLPTGKVRFLSR 240 >gi|282878147|ref|ZP_06286944.1| pseudouridylate synthase [Prevotella buccalis ATCC 35310] gi|281299725|gb|EFA92097.1| pseudouridylate synthase [Prevotella buccalis ATCC 35310] Length = 488 Score = 108 bits (271), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 74/211 (35%), Positives = 111/211 (52%), Gaps = 7/211 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I VKVNG ++ VM TD + P+ E+ Sbjct: 252 PVRLNKFLANAGVCSRREADEFIQAGVVKVNGEVVTELGTKVMRTDEVVFHDQPV-SLEK 310 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + ++ R+ VGRLD NT G+LLLTNDG LA Sbjct: 311 KVYVLLNKPKDYVTTSDDPQQRKTVMDLVKNVCPERIYPVGRLDRNTTGVLLLTNDGDLA 370 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWV 189 L P +VY V V + + +GI ++ G + D ++ +T K V Sbjct: 371 SKLTHPKYLKKKVYHVFLDKNVTAHDMQKIAEGIELEDGEVHADAIEYAHETDKNQ---V 427 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 + + GKNR ++++FE ++V +L R+ + Sbjct: 428 GIEIHSGKNRIVRRIFESLGYRVIKLDRVQF 458 >gi|193214786|ref|YP_001995985.1| pseudouridine synthase [Chloroherpeton thalassium ATCC 35110] gi|193088263|gb|ACF13538.1| pseudouridine synthase [Chloroherpeton thalassium ATCC 35110] Length = 297 Score = 108 bits (271), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 83/241 (34%), Positives = 124/241 (51%), Gaps = 16/241 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA G ASRR+ + MI Q V VNG +++E D + V+G L + + Sbjct: 44 RLNKFIALCGEASRRKADEMIEQGEVMVNGKVVMELGYKVDRRADEVVVNGKKLHENTQK 103 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP +VTT SD R TV + L + RV VGRLD +T G+LLLTNDG L Sbjct: 104 IYILLNKPKDVVTTSSDEKSRKTVVE-LVGLKDRVFPVGRLDRDTTGVLLLTNDGDLTYR 162 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGSNAWV 189 L P+ + Y ++ L +KKG + + + + ++ D G WV Sbjct: 163 LTHPTFGVQKQYVATLDKKITSVDLQNIKKGFRLKDTGEKVSPCNARILDD---GYTIWV 219 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR-----EVSKKILREQ 244 + EGKN +I ++F F + V +L+R++YG ++GT+ G R EVSK + Q Sbjct: 220 AI--HEGKNHQIHRMFWSFGYNVKKLVRVAYGGLEVGTMRRGEWRFLTQLEVSKLYKQVQ 277 Query: 245 L 245 L Sbjct: 278 L 278 >gi|257056522|ref|YP_003134354.1| ribosomal large subunit pseudouridine synthase B [Saccharomonospora viridis DSM 43017] gi|256586394|gb|ACU97527.1| ribosomal large subunit pseudouridine synthase B [Saccharomonospora viridis DSM 43017] Length = 247 Score = 108 bits (271), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 77/231 (33%), Positives = 119/231 (51%), Gaps = 11/231 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E +IA RV V+G+++ V T I VDG+ ++ + Sbjct: 11 RLQKVLAKAGVASRRASEELIAAGRVSVDGVVVRELGRRVDPDTAVIHVDGIRVQVRDDL 70 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ +T SD GR V D + R+ VGRLD +TEGLLLLTNDG LA Sbjct: 71 VYLALNKPRGVHSTMSDAQGRPCVGDYVADRPERLFHVGRLDADTEGLLLLTNDGDLAHK 130 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-----QKGSNAW 188 L PS + Y G V + L+ G+ + D VT D + + + Sbjct: 131 LMHPSFHVTKTYLAEVEGAVARGLGKRLRAGVQLS-----DGPVTADAFRIKDVRPNRSL 185 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + L EG+ ++++ V +L+R + G +LGT G+ R ++++ Sbjct: 186 VEIVLHEGRKHIVRRLLAEVGHPVRKLVRTAIGEVRLGTTKPGTLRTLTQQ 236 >gi|157876796|ref|XP_001686740.1| tRNA pseudouridine synthase A [Leishmania major strain Friedlin] gi|68129815|emb|CAJ09121.1| putative tRNA pseudouridine synthase A [Leishmania major strain Friedlin] Length = 694 Score = 108 bits (271), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 76/225 (33%), Positives = 113/225 (50%), Gaps = 8/225 (3%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAERTRLW 76 + + RAG SRRE +IA +V+VN + V + D + V G R + RLW Sbjct: 336 RTLPRAGFCSRREAAAIIASGQVRVNNVTERNPFRLVQAEDDVHVAGHQSRLRFAPPRLW 395 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +YHKP ++ + SD GR+ + + + ++ VG L + G+LLLTNDG L+R LE Sbjct: 396 MYHKPAHVIVSRSDTAGRTLITKHARILGMDHLVPVGSLPMRAHGILLLTNDGELSRFLE 455 Query: 136 LPSTQWLRVYRVRFHGQVDQ---DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P + R Y +R D KLN +G+ I G Y + + ++ S V V Sbjct: 456 NPKSMVQRTYLLRVRPAFDPVLVHKLN--TEGVHINGRPYRNAEFFVNPATKSRYSVKVK 513 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +R G++ I + + V R RIS+GPF L L GS REV+ Sbjct: 514 VR-GESMPIAHLMQHLGRTVERGGRISFGPFALSNLAVGSVREVT 557 >gi|305432596|ref|ZP_07401757.1| RNA pseudouridine synthase [Campylobacter coli JV20] gi|304444307|gb|EFM36959.1| RNA pseudouridine synthase [Campylobacter coli JV20] Length = 253 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 78/234 (33%), Positives = 118/234 (50%), Gaps = 17/234 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +I Q VK+N + + V + D + V G LRK + Sbjct: 2 RINKFISHNSPYSRREADELIKQGLVKINN-KIALLSDEVKTNDKVFVKGKALRKKTQFS 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A L Sbjct: 61 VIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDFASEGLLLLTDSPVIADAL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----------- 183 + R Y ++ G V + + ++ G+ I+ G T T Sbjct: 121 MHSDLE--REYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEIF 178 Query: 184 GSNAWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 GS+ T V + EGKNRE+++ F F+ +V L R+++G LG L AG R Sbjct: 179 GSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKYR 232 >gi|291524779|emb|CBK90366.1| ribosomal small subunit pseudouridine synthase A [Eubacterium rectale DSM 17629] Length = 240 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 75/232 (32%), Positives = 126/232 (54%), Gaps = 15/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K ++ G+ +R EV+++I ++ +NG + + V D + V+G + K +R Sbjct: 3 RLDKFLSEMGLGTRSEVKKLIKTGQIAINGTVAAKPETKVDTDADEVSVNG-RIVKYQRY 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L++KP G V+ SD + TV D + ++ + VGRLDI+TEGLLL+TNDG L+ Sbjct: 62 EYYLFNKPSGCVSATSD-NVHDTVMDYITDAVHDDLFPVGRLDIDTEGLLLITNDGALSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-----LDTQKGSNA 187 L PS + Y R G+V D + K+GI I G+ + T + + GS + Sbjct: 121 ELLSPSKHVAKTYYARIDGEVTWDDIIRFKEGIDI-----GEERPTKPAELVIKKSGSVS 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 + + + EGK ++K++FE +V L RIS GP +L L G+ R +++ Sbjct: 176 EIELTITEGKFHQVKRMFEALGKRVIYLKRISMGPLKLPDDLKTGTYRALTQ 227 >gi|282876081|ref|ZP_06284948.1| pseudouridylate synthase [Staphylococcus epidermidis SK135] gi|281295106|gb|EFA87633.1| pseudouridylate synthase [Staphylococcus epidermidis SK135] Length = 194 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 65/194 (33%), Positives = 111/194 (57%), Gaps = 11/194 (5%) Query: 67 LRKAERTRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 L+ ++T+++ L++KP ++T+ SD GR V D + SR+ VGRLD +T G+LLLT Sbjct: 6 LKSNKKTKIYILFYKPTQVITSVSDDRGRRVVTDYFDDLESRIYPVGRLDYDTSGVLLLT 65 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--K 183 NDG ++ P + + Y + G + ++++ L+KGI ++ QV + Q + Sbjct: 66 NDGEFTNLMTHPRYRIKKKYVAKLKGYLMREEIKQLEKGIELEDGYTQPAQVKIKKQDKE 125 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KI 240 + V + + EG+NR+++++FE+F +VN+L RI +GP L L AG R ++ KI Sbjct: 126 KNTTLVEITISEGRNRQVRRMFEYFGHQVNKLTRIQFGPIDLKGLNAGEGRVLTPHEVKI 185 Query: 241 LREQLGPHLLEEAQ 254 LR HL E + Sbjct: 186 LR-----HLAENGK 194 >gi|262202716|ref|YP_003273924.1| pseudouridine synthase [Gordonia bronchialis DSM 43247] gi|262086063|gb|ACY22031.1| pseudouridine synthase [Gordonia bronchialis DSM 43247] Length = 329 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 77/225 (34%), Positives = 117/225 (52%), Gaps = 6/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E MIA RV+++G ++ + + T I VDG + E Sbjct: 90 RLQKVLAQAGVASRRGAEEMIAAGRVEIDGEIVTEQGLRIDPDTAIIRVDGARVIIDETR 149 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G +T +D GR V D + R+ VGRLD +TEGLLLLTNDG L Sbjct: 150 QYLALNKPRGWQSTMADDQGRPCVGDIVAERVMAGQRLFHVGRLDADTEGLLLLTNDGEL 209 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G+V + +L+ G+ + G D +D +G + + Sbjct: 210 AHRLMHPSYEVPKTYLATVRGEVPRSLSRMLRDGVELDDGPVAVDKLTIVDVHEG-QSLL 268 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EG+NR ++++ + + V L+R G LG GS R Sbjct: 269 RITLHEGRNRIVRRMMDEVGFPVVELVRTHVGSVALGEQRPGSLR 313 >gi|258420276|ref|ZP_05683224.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9719] gi|257843739|gb|EEV68140.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9719] Length = 200 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 62/180 (34%), Positives = 106/180 (58%), Gaps = 3/180 (1%) Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 +D IEV+G+ + ++ + L+HKP ++T+ SD GR+ V D I +R+ VGRLD Sbjct: 4 SDTIEVEGIKIELEDKIYI-LFHKPTQVITSVSDDRGRTVVTDYFKDIEARIYPVGRLDY 62 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GD 174 +T GLLLLTNDG ++ P Q + Y + G + ++++ L+KGI ++ G+ + Sbjct: 63 DTSGLLLLTNDGEFTNLMTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELEDGMTQPAE 122 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 ++V + + V + + EG+NR+++++FE F +V +L RI YGP + L AG R Sbjct: 123 VKVKKQDKDKNTTLVEITITEGRNRQVRRMFEHFGHQVTKLSRIEYGPLNVVGLNAGEGR 182 >gi|284039270|ref|YP_003389200.1| RNA-binding S4 domain protein [Spirosoma linguale DSM 74] gi|283818563|gb|ADB40401.1| RNA-binding S4 domain protein [Spirosoma linguale DSM 74] Length = 638 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 68/208 (32%), Positives = 112/208 (53%), Gaps = 6/208 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ IA +G+ SRRE + +IA + VNG ++ V D ++ G + ER Sbjct: 406 RLNRFIANSGVCSRREADELIAHGDISVNGKIVTEMGYKVKEGDTVKY-GTKVLNPERFV 464 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP +TT DP+ R TV + + R+ VGRLD NT GLLL+TNDG LA Sbjct: 465 YVLLNKPKDYITTTEDPEERKTVMELVADAGKFRMYPVGRLDRNTTGLLLITNDGELADK 524 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT-VG 192 L PS ++Y+V + + +KKGI ++ +++ T +A+V + Sbjct: 525 LTHPSNNIRKIYQVELDKPITDEHFEAIKKGIELEDGPIKPDAISIVT---PDAYVVGIE 581 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISY 220 + G+NR ++++FE F ++V +L R +Y Sbjct: 582 IHSGRNRIVRRIFESFGYEVTKLDRTTY 609 >gi|16331284|ref|NP_442012.1| hypothetical protein slr0361 [Synechocystis sp. PCC 6803] gi|3915377|sp|Q55578|Y361_SYNY3 RecName: Full=Uncharacterized RNA pseudouridine synthase slr0361; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|1001457|dbj|BAA10082.1| slr0361 [Synechocystis sp. PCC 6803] Length = 249 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 85/253 (33%), Positives = 123/253 (48%), Gaps = 16/253 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++++ GIASRR E MI RV VNG + D + VDG ++ R Sbjct: 3 ERIQKLLSQWGIASRRHAEEMILAGRVSVNGKVANLGDKADPQQDFLSVDGKQIKADNRP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 R L +KP +++T DP GR TV D LP R + VGRLD N+ G LLLTNDG Sbjct: 63 RDIYLLVNKPRDVLSTCDDPRGRKTVLDLLPQDLQRGKGLHPVGRLDRNSTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y V G + L + G+++ G + + ++ Sbjct: 123 ELTLRLTHPRYHLPKTYDVWLEGNPSDEDLEKWRSGMMLDGKKTLPATLEVISENKDQIH 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT----LLAGSTREVSKKILREQ 244 + V L EG+NR+I+++ E V +L R + GP QL T L +G R +S +R Sbjct: 183 LLVTLTEGRNRQIRRLAEELGLTVLKLHRRTIGPLQLHTRGKVLGSGQFRFLSPAEIR-- 240 Query: 245 LGPHLLEEAQVNL 257 L + QVNL Sbjct: 241 -----LLKKQVNL 248 >gi|256820536|ref|YP_003141815.1| RNA-binding S4 domain-containing protein [Capnocytophaga ochracea DSM 7271] gi|256582119|gb|ACU93254.1| RNA-binding S4 domain protein [Capnocytophaga ochracea DSM 7271] Length = 387 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 70/226 (30%), Positives = 118/226 (52%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGI SRR + I+ V VNG ++ V TD + DG L +E+ Sbjct: 155 RLNKYIADAGICSRRNADMYISAGNVTVNGEVMTTLGYRVKPTDEVRFDG-KLLSSEKKE 213 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G +TT +D GR TV D + + + R++ VGRLD T GLLLLTNDG L + Sbjct: 214 YILLNKPKGFITTTNDEKGRKTVMDLVANATNVRILPVGRLDRATTGLLLLTNDGELTKK 273 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+ ++Y V ++D ++ G+ ++ +++ K N + + + Sbjct: 274 LTHPTHGVRKIYHVILDRKLDYKDFMKVQDGLELEDGLIEVDEISYVNDKPKNE-IGIKI 332 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G+NR ++++FE ++V +L R+ + L G R ++++ Sbjct: 333 HSGRNRIVRRIFEHLGYQVEKLDRVVFAGLTKKDLPRGHWRRLTQQ 378 >gi|315223635|ref|ZP_07865489.1| ribosomal large subunit pseudouridine synthase B [Capnocytophaga ochracea F0287] gi|314946416|gb|EFS98411.1| ribosomal large subunit pseudouridine synthase B [Capnocytophaga ochracea F0287] Length = 387 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 70/226 (30%), Positives = 118/226 (52%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGI SRR + I+ V VNG ++ V TD + DG L +E+ Sbjct: 155 RLNKFIADAGICSRRNADMYISAGNVMVNGEVMTTLGYRVKPTDEVRFDG-KLLSSEKKE 213 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G +TT +D GR TV D + + + R++ VGRLD T GLLLLTNDG L + Sbjct: 214 YILLNKPKGFITTTNDEKGRKTVMDLVANATNVRILPVGRLDRATTGLLLLTNDGELTKK 273 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+ ++Y V ++D ++ G+ ++ +++ K N + + + Sbjct: 274 LTHPTHGVRKIYHVILDRKLDYKDFMKVQDGLELEDGLIEVDEISYVNNKPKNE-IGIKI 332 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G+NR ++++FE ++V +L R+ + L G R ++++ Sbjct: 333 HSGRNRIVRRIFEHLGYQVEKLDRVVFAGLTKKDLPRGHWRRLTQQ 378 >gi|255037667|ref|YP_003088288.1| pseudouridine synthase [Dyadobacter fermentans DSM 18053] gi|254950423|gb|ACT95123.1| pseudouridine synthase [Dyadobacter fermentans DSM 18053] Length = 555 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 77/229 (33%), Positives = 117/229 (51%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ IA AGI SRRE + +I+ ++ VNG ++ V TD ++ G E+ Sbjct: 324 RLNRYIANAGICSRREADDLISSGQISVNGKIVTEMGYKVRPTDVVKY-GKKALNPEKMV 382 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP +TT DP+ R TV D + S RV VGRLD NT GLLLLTNDG LA Sbjct: 383 YILINKPKDYITTTDDPEERKTVLDIIAGACSERVYPVGRLDRNTTGLLLLTNDGELAEK 442 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDM--QVTLDTQKGSNAWVT 190 L PS+ ++Y+ + + LK G+ ++ G D VT D Q V Sbjct: 443 LTHPSSGIKKIYQAELDKPITTEDFEQLKAGVELEDGFIRPDEVGLVTPDAQ-----VVG 497 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + G+NR ++++FE ++V +L R + L G R +++K Sbjct: 498 LEIHSGRNRIVRRMFEHLGYEVQKLDRTVFAGLNKKDLPRGKWRFLTEK 546 >gi|118470853|ref|YP_888039.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium smegmatis str. MC2 155] gi|118172140|gb|ABK73036.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium smegmatis str. MC2 155] Length = 247 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 82/230 (35%), Positives = 118/230 (51%), Gaps = 6/230 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+++AGIASRR ERMI RV+V+G ++ V + I VDG + + Sbjct: 8 RLQKVLSQAGIASRRVAERMIIDGRVEVDGQIVTELGTRVDPAVADIRVDGSRIILDDTM 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 +KP G+ +T SD GR V D + ++ VGRLD +TEGLLLLTNDG L Sbjct: 68 VYLAINKPRGMHSTMSDDRGRPCVGDLVEHRVRGNKKLFHVGRLDADTEGLLLLTNDGEL 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G V + LK G+ + G + D +DT G V Sbjct: 128 AHRLMHPSFEVPKTYVATVMGTVPRGLGKKLKAGVELDDGPAHVDDFAVVDTVPGKT-MV 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V L EG+NR ++++ ++ V L+R G LG GS R +++K Sbjct: 187 KVTLHEGRNRIVRRLLAAVDFPVQELVRTEIGSVSLGDQRPGSIRALTRK 236 >gi|260435028|ref|ZP_05788998.1| pseudouridine synthase [Synechococcus sp. WH 8109] gi|260412902|gb|EEX06198.1| pseudouridine synthase [Synechococcus sp. WH 8109] Length = 250 Score = 108 bits (269), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 74/223 (33%), Positives = 109/223 (48%), Gaps = 1/223 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T QR+ K+IA AG+ SRR E + RV V+G++ I VDG PL Sbjct: 1 MTRQRLQKLIAAAGLCSRRRAEEWLQAGRVTVDGLVASVGDQADPQQQTIHVDGQPLPSR 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGG 129 R+ L +KP+G++ + DP GR TV D LP + + VGRLD ++ G LLLT+ G Sbjct: 61 GVARVLLMNKPVGVICSCDDPQGRRTVLDLLPPEHRAGLHPVGRLDADSHGALLLTDLGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + YRV G + L+ ++G+ + G +V G + + Sbjct: 121 LTLKLTHPRYSHAKTYRVWVKGVPPEPVLDRWRRGLPLDGCLTRPARVRRLRTWGDRSLL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + LREG+NR+I+++ E V L R + LG L G Sbjct: 181 EIELREGRNRQIRRMAEALGHPVLDLQRTAIAGLPLGDLAEGC 223 >gi|291538915|emb|CBL12026.1| ribosomal small subunit pseudouridine synthase A [Roseburia intestinalis XB6B4] Length = 235 Score = 108 bits (269), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 79/232 (34%), Positives = 118/232 (50%), Gaps = 5/232 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ G SR EV++ I V VNG ++++ V D + G PL E Sbjct: 2 RLDKLLTELGTGSRSEVKKYIRSGLVTVNGEVVKKPEQKVDEKNDTVCFRGNPLTYTEY- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 +L+HKP G VT D R TV D L + VGRLDI+TEGLLL+TNDG LA Sbjct: 61 EYYLFHKPAGCVTATEDNLHR-TVMDYLTDTARHDLFPVGRLDIDTEGLLLITNDGALAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ +VY + G+V ++ +NL + G+ I + G N+ + + Sbjct: 120 DLLSPAKHVSKVYYAKIDGRVTEEDVNLFENGVDIGEEKPAKPALLEVLHSGDNSEIRLT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILRE 243 + EG+ ++K++FE KV L R+ G L LA G R +++K L+E Sbjct: 180 ITEGRFHQVKRMFEAVGKKVTYLKRVEMGSLVLPDELAPGEYRPLTEKELQE 231 >gi|291536218|emb|CBL09330.1| ribosomal small subunit pseudouridine synthase A [Roseburia intestinalis M50/1] Length = 235 Score = 108 bits (269), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 79/232 (34%), Positives = 118/232 (50%), Gaps = 5/232 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ G SR EV++ I V VNG ++++ V D + G PL E Sbjct: 2 RLDKLLTELGTGSRSEVKKYIRSGLVTVNGEVVKKPEQKVDEKNDTVCFRGNPLTYTEY- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 +L+HKP G VT D R TV D L + VGRLDI+TEGLLL+TNDG LA Sbjct: 61 EYYLFHKPAGCVTATEDNLHR-TVMDYLTDTARHDLFPVGRLDIDTEGLLLITNDGALAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ +VY + G+V ++ +NL K G+ I + G N+ + + Sbjct: 120 DLLSPAKHVSKVYYAKIDGRVTEEDVNLFKNGVDIGEEKPAKPALLEVLHSGDNSEIRLT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILRE 243 + EG+ ++K++FE KV L R+ G L LA G R ++++ L+E Sbjct: 180 ITEGRFHQVKRMFEAVGKKVTYLKRVEMGSLVLPDELAPGEYRPLTEEELQE 231 >gi|51922071|gb|AAU14148.1| rluB [Mycoplasma mobile 163K] Length = 235 Score = 108 bits (269), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 74/227 (32%), Positives = 119/227 (52%), Gaps = 12/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILL---ERAAVNVMSTDHIEVDGVPLRKAE 71 R+ K+I++AGI+SRR E +I ++RVK+NG++ ++A++ D I VD + K E Sbjct: 5 RIQKLISQAGISSRRAAEDLILKKRVKINGVIAKIGDKASL----EDVILVDEKVISKEE 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +L +KP +VTT D RS + D + ++ VGRLD +T G+++LTNDG A Sbjct: 61 KV-YYLLNKPKNVVTTLKDNFNRSIITDFIDEKKYKIFPVGRLDYDTTGIIILTNDGETA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + R+Y V ++ +++ L Q + + + K SN + Sbjct: 120 NKLLHPKYEIPRIYEVIIDKELSLEEIKYLNS----QEVFLNSKKSFQEVSKISNYKYKI 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L +G IKK+FE KV L R Y F L L G+ R+++K Sbjct: 176 KLHQGSYHHIKKLFEIVGKKVKDLNRTEYAFFNLENLSIGNYRKLNK 222 >gi|258654177|ref|YP_003203333.1| pseudouridine synthase [Nakamurella multipartita DSM 44233] gi|258557402|gb|ACV80344.1| pseudouridine synthase [Nakamurella multipartita DSM 44233] Length = 249 Score = 108 bits (269), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 80/227 (35%), Positives = 120/227 (52%), Gaps = 7/227 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 R+ KV+A AG+ASRR+ E +I RVKV+GI++ + + + VDG R RT Sbjct: 13 RLQKVLASAGVASRRKAEELIRDGRVKVDGIVVREMGTRIDPENAVVHVDGN--RITTRT 70 Query: 74 RL--WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +K G+++T SD GR + L R+ VGRLD+ +EGLLLLTNDG LA Sbjct: 71 DLVYLALNKERGVLSTMSDELGRPHIGQMLEDRSERLFHVGRLDMESEGLLLLTNDGDLA 130 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L PS + Y G + +D LK G+ ++ G D +D + A V Sbjct: 131 HRLTHPSYGVAKTYVAEVPGPIPKDLGRRLKAGVELEDGPAKVDSFDVMDLHH-NRAVVE 189 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V + EG+ ++++ E + V+RL+R GP QLG G+ R+++ Sbjct: 190 VVIHEGRKHIVRRLLEAVDRPVSRLVRTQIGPVQLGHQRPGTLRKLN 236 >gi|57504573|ref|ZP_00370685.1| RNA pseudouridine synthase, RsuA family [Campylobacter coli RM2228] gi|57019468|gb|EAL56162.1| RNA pseudouridine synthase, RsuA family [Campylobacter coli RM2228] Length = 253 Score = 108 bits (269), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 78/234 (33%), Positives = 118/234 (50%), Gaps = 17/234 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +I Q VK+N + + V + D + V G LRK + Sbjct: 2 RINKFISHNSPYSRREADELIKQGLVKINN-KIALLSDEVKTNDKVFVKGKALRKKTQFS 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A L Sbjct: 61 VIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDFASEGLLLLTDSPVIADAL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----------- 183 + R Y ++ G V + + ++ G+ I+ G T T Sbjct: 121 MHSDLE--REYYLKVKGTVGKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEIF 178 Query: 184 GSNAWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 GS+ T V + EGKNRE+++ F F+ +V L R+++G LG L AG R Sbjct: 179 GSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKYR 232 >gi|58220684|gb|AAW67949.1| putative rRNA pseudouridine synthase B [Desulfovibrio gigas] Length = 253 Score = 108 bits (269), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 86/241 (35%), Positives = 122/241 (50%), Gaps = 18/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP-----LRK 69 R++KV+A+AG+ASRR + ++ RV+VNG + E + V D IEVDG P L Sbjct: 5 RLNKVLAQAGVASRRGADELVFAGRVRVNGAVAESPGMRVTPDDRIEVDGAPMPRKDLAA 64 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTN 126 L HKP+ +V+T DP GR TV D LP +R+ VGRLD +EGLLLLT+ Sbjct: 65 GHALNYILLHKPVEVVSTVRDPQGRRTVLDLLPQALRANTRLYPVGRLDYFSEGLLLLTD 124 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ---- 182 DG LA L P + Y V G V L ++ G+ + GD Q Sbjct: 125 DGDLANRLMHPRHHVPKRYEVLVRGDVPTTALQTMRSGMTLPPQA-GDPPAGTRLQTVPA 183 Query: 183 -----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 K + + L +G NR+++++ E + RL R+ G +LGTL GS R ++ Sbjct: 184 RILGIKDGKTLLELVLHQGVNRQVRRMCEALGLTILRLTRVGLGSLELGTLEKGSWRRLT 243 Query: 238 K 238 K Sbjct: 244 K 244 >gi|331269561|ref|YP_004396053.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum BKT015925] gi|329126111|gb|AEB76056.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum BKT015925] Length = 237 Score = 108 bits (269), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 72/222 (32%), Positives = 109/222 (49%), Gaps = 2/222 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I+Q RVKVN ++ V D + VD V + E+ Sbjct: 4 ERLQKYMAACGVASRRKCEEIISQDRVKVNCEIVNELGFKVDPEIDKVYVDSVLITLEEQ 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G V+T D GR T+ D + + R+ +GRLD NT GL+LLTNDG + Sbjct: 64 KVYIALNKPEGYVSTVKDERGRKTILD-IVKVNERIFPIGRLDYNTSGLILLTNDGDVYN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY G D++ GI I G + + V + Sbjct: 123 KIIHPREEIDKVYIAVIKGIPSHDEIKNFCNGIDIGGYVTSKASFEILEKLNDKCKVKII 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + EGKNR+++++ E V L R+S G L T+ G R Sbjct: 183 IHEGKNRQVRRMCEKIGHPVIALKRVSVGKISLNTIKRGEWR 224 >gi|58583316|ref|YP_202332.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae KACC10331] gi|84625145|ref|YP_452517.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae MAFF 311018] gi|58427910|gb|AAW76947.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae KACC10331] gi|84369085|dbj|BAE70243.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae MAFF 311018] Length = 286 Score = 108 bits (269), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 76/235 (32%), Positives = 123/235 (52%), Gaps = 9/235 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R IA RV V+ ++ + + I VDG PL R Sbjct: 39 LARVLSKLGVCSRTEAARWIADGRVSVSARVVRDPEFPIRADQQFSITVDGQPLTGPARC 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP G+VTT D GR TV+ + VGRLD +EGLLL +ND A Sbjct: 99 YLML-NKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAA 157 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNA 187 + P+T + Y V+ + +L L+ G+V +G+ QV++ + NA Sbjct: 158 TVTDPATGPDKTYHVQIDCLPNVAQLAQLQAGVVDPDPEGEGMLLRAKQVSVLREGERNA 217 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 W+ + L EG+NR+I+++ + V RL+R++ GP +G L G+ R +S + +R Sbjct: 218 WLEIVLDEGRNRQIRRLLAAVDIGVLRLMRVAIGPLAMGELGKGAWRMLSAEEVR 272 >gi|254446535|ref|ZP_05060011.1| conserved hypothetical protein, putative [Verrucomicrobiae bacterium DG1235] gi|198260843|gb|EDY85151.1| conserved hypothetical protein, putative [Verrucomicrobiae bacterium DG1235] Length = 249 Score = 108 bits (269), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 69/229 (30%), Positives = 118/229 (51%), Gaps = 7/229 (3%) Query: 12 TPQ--RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +PQ R K++A AGI SRR E I V +NG E + + D + ++G ++ Sbjct: 3 SPQLIRTQKLLADAGICSRRVAEEYIKNGEVTINGKTAELGSKVDPAIDDVRLNGRRIKV 62 Query: 70 AERTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTN 126 + +L + +KP G + ++ DP TVFD LP+ ++R + GRLD ++EGLL+LTN Sbjct: 63 VKHKQLVIALNKPKGFICSNDDPHNDRTVFDLLPTDYNRERLFCAGRLDKDSEGLLILTN 122 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKG 184 DG LA L PS + Y V + K+ L +G+ ++G + D K Sbjct: 123 DGDLANRLMHPSNLVTKRYHVSLKQPFPKAKIFRLMRGVTVEGEKLKVEKAVFAGDKNKA 182 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + + + + GK REI+++F+ ++ V +L R G + + + G++ Sbjct: 183 ESTELDLAMHHGKKREIRRLFQALHYDVKKLKRYQIGRYSIKGMPKGAS 231 >gi|302875017|ref|YP_003843650.1| pseudouridine synthase [Clostridium cellulovorans 743B] gi|307690365|ref|ZP_07632811.1| pseudouridine synthase [Clostridium cellulovorans 743B] gi|302577874|gb|ADL51886.1| pseudouridine synthase [Clostridium cellulovorans 743B] Length = 235 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 72/228 (31%), Positives = 124/228 (54%), Gaps = 4/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR-KAE 71 +R+ K +A+ G+ASRR+ E +I Q +V VN ++ V D I+V+ V + +A+ Sbjct: 2 ERLQKYMAKCGVASRRKCEELILQGKVSVNNTIITELGYKVEEENDIIKVNNVIIYPEAQ 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + L +KP+ +++ D GR V D L + R+ +GRLD ++ GLLLLTNDG + Sbjct: 62 KVYIAL-NKPVKYISSVKDEKGRKNVID-LIDVKERIYPIGRLDYDSSGLLLLTNDGDIY 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS + + Y V +G +++ L+ GI I G +V ++ + A + + Sbjct: 120 NNLMHPSKEVYKTYLVTVNGIPTIEEIKKLETGIDIGGYITAPAKVKIEKLDYNKASLKI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EGKNR+I+K+ + V L RI+ G +L + G R ++K+ Sbjct: 180 QIYEGKNRQIRKMCDSIGHSVIALKRIAIGDIKLKDIPQGKYRFLTKE 227 >gi|312132030|ref|YP_003999370.1| RNA-binding s4 domain protein [Leadbetterella byssophila DSM 17132] gi|311908576|gb|ADQ19017.1| RNA-binding S4 domain protein [Leadbetterella byssophila DSM 17132] Length = 500 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 75/242 (30%), Positives = 122/242 (50%), Gaps = 7/242 (2%) Query: 2 KDKNIVQENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 K K V E P R+++ IA +GI SRRE + +I ++ VNG + V TD Sbjct: 253 KQKKKVAEKVVPSDLIRLNRYIANSGICSRREADDLIESGQITVNGKTITEMGYQVKKTD 312 Query: 59 HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDIN 117 ++ G + E+ L +KP +TT DP+GR TV + + R+ VGRLD Sbjct: 313 VVKY-GRKILNPEKLVYVLLNKPKDFITTTEDPEGRRTVMELVAKAGPERIYPVGRLDRA 371 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL TNDG LA L PS + ++Y+V + ++ L +G+ ++ QV Sbjct: 372 TTGLLLFTNDGELAEKLSHPSNEIRKIYQVEIDKPLAKEDFEKLIEGVELEDGFIKPDQV 431 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++ T + + + GKNR ++++FE ++V +L R +Y L G+ R ++ Sbjct: 432 SIVTP--DQQVIGIEIHSGKNRVVRRIFEHLGYEVTQLDRTTYAGLTKKDLPRGNWRFLT 489 Query: 238 KK 239 +K Sbjct: 490 EK 491 >gi|188578415|ref|YP_001915344.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae PXO99A] gi|188522867|gb|ACD60812.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae PXO99A] Length = 286 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 76/235 (32%), Positives = 123/235 (52%), Gaps = 9/235 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R IA RV V+ ++ + + I VDG PL R Sbjct: 39 LARVLSKLGVCSRTEAARWIADGRVSVSARVVRDPEFPIRADQQFAITVDGQPLTGPARC 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP G+VTT D GR TV+ + VGRLD +EGLLL +ND A Sbjct: 99 YLML-NKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAA 157 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNA 187 + P+T + Y V+ + +L L+ G+V +G+ QV++ + NA Sbjct: 158 TVTDPATGPDKTYHVQIDCLPNVAQLAQLQAGVVDPDPEGEGMLLRAKQVSVLREGERNA 217 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 W+ + L EG+NR+I+++ + V RL+R++ GP +G L G+ R +S + +R Sbjct: 218 WLEIVLDEGRNRQIRRLLAAVDIGVLRLMRVAIGPLAMGELGKGAWRMLSAEEVR 272 >gi|223038553|ref|ZP_03608847.1| RNA pseudouridine synthase family protein [Campylobacter rectus RM3267] gi|222880410|gb|EEF15497.1| RNA pseudouridine synthase family protein [Campylobacter rectus RM3267] Length = 257 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 71/234 (30%), Positives = 122/234 (52%), Gaps = 16/234 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +I Q +V +NG ++ A +V D ++++G +R + Sbjct: 5 RLNKFISHNTSYSRREADELIKQGKVSINGRVVSELATSVSDEDKVKINGRIVRLKKEFT 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T++D+L F++ +S+GRLD +EGLLLLT+ +A L Sbjct: 65 VIVYHKQKGELVSKKDDRGRKTIYDSLDRQFAKFVSIGRLDYASEGLLLLTDAPAIATAL 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT----------LDTQ-K 183 + R Y ++ G++ + + + +G G T LD + Sbjct: 125 MNSDVE--REYYLKVKGEITPEVITAMNEGFFAADATKGAHAKTAIKSMEFRPFLDYKIF 182 Query: 184 GSNAWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 GS+ T V + EG+NRE+++ F +F+ +V L R+S+G LG L G R Sbjct: 183 GSSGGFTKLKVVINEGQNRELRRFFGYFDLEVMDLKRVSFGRVDLGMLKPGKWR 236 >gi|299141527|ref|ZP_07034663.1| ribosomal large subunit pseudouridine synthase B [Prevotella oris C735] gi|298576863|gb|EFI48733.1| ribosomal large subunit pseudouridine synthase B [Prevotella oris C735] Length = 490 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 72/210 (34%), Positives = 108/210 (51%), Gaps = 5/210 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I+ V VNG ++ V+ +D ++ L E+ Sbjct: 254 PIRLNKYLANAGVCSRREADEFISAGVVSVNGTVVTELGTKVLRSDEVKFHDQ-LVSLEK 312 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 313 KVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDVCPERIYPVGRLDRNTTGVLLLTNDGDLA 372 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P +VY V V ++ L + GI ++ G + D D + V Sbjct: 373 SKLTHPKFLKKKVYHVHLDKNVAEEDLQKIASGIELEDGEIHADAIEYADDR--DKKQVG 430 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISY 220 + + GKNR ++++FE ++V RL R+ + Sbjct: 431 IEIHSGKNRIVRRIFESLGYRVVRLDRVQF 460 >gi|282880895|ref|ZP_06289588.1| pseudouridylate synthase [Prevotella timonensis CRIS 5C-B1] gi|281305277|gb|EFA97344.1| pseudouridylate synthase [Prevotella timonensis CRIS 5C-B1] Length = 253 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 75/228 (32%), Positives = 116/228 (50%), Gaps = 7/228 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I VKVNG ++ V+ +D + P+ E+ Sbjct: 17 PVRLNKYLANAGVCSRREADEFIQAGVVKVNGEVVTELGTKVLRSDEVVFHDQPV-SLEK 75 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LL TNDG LA Sbjct: 76 KVYVLLNKPKDYVTTSDDPQQRKTVMDLVKNACPERIYPVGRLDRNTTGVLLFTNDGDLA 135 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWV 189 L P +VY V V + + +GI ++ G + D ++ T +T+K V Sbjct: 136 SKLTHPKFLKKKVYHVFLDKNVTAHDMQQIAEGIELEDGEIHADAIEYTNETEKNQ---V 192 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + GKNR ++++FE ++V +L R+ + L G R ++ Sbjct: 193 GIEIHSGKNRIVRRIFESLGYRVIKLDRVQFAGLTKKNLRRGDWRYLT 240 >gi|110597201|ref|ZP_01385490.1| Pseudouridine synthase, Rsu [Chlorobium ferrooxidans DSM 13031] gi|110341392|gb|EAT59857.1| Pseudouridine synthase, Rsu [Chlorobium ferrooxidans DSM 13031] Length = 247 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 75/237 (31%), Positives = 122/237 (51%), Gaps = 16/237 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+++ +A GIASRR ++++ + RV VNG ++ + V D + VDG + E Sbjct: 11 RINRFLALCGIASRRAADQLVLEGRVMVNGTVITQPGTKVNPDKDEVIVDGQKYAQPESR 70 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ L++KP +++T SD R V D + + RV VGRLD T GL+LLTNDG LA Sbjct: 71 KVYILFNKPRNVISTSSDEKNREMVLDYI-DVKERVFPVGRLDRKTTGLILLTNDGTLAN 129 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI------CYGDMQVTLDTQKGSN 186 L PS+ + Y + L L G+ ++ C + LD Sbjct: 130 KLMHPSSNVKKEYIAVLGEKFPASMLPQLTGGMRLKDTGEKVRPCRAKL---LD----EG 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V + + EGKN +++++FE ++V RL R++Y +G L G R +S+ +RE Sbjct: 183 MQVLLSIHEGKNHQVRRMFETLGYEVKRLERVAYAGLTIGELRRGEWRYLSRNEVRE 239 >gi|194335646|ref|YP_002017440.1| pseudouridine synthase [Pelodictyon phaeoclathratiforme BU-1] gi|194308123|gb|ACF42823.1| pseudouridine synthase [Pelodictyon phaeoclathratiforme BU-1] Length = 247 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 73/230 (31%), Positives = 121/230 (52%), Gaps = 12/230 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+++ +A GIASRR ++++ RV VNG ++ + V T D + VDG + E Sbjct: 11 RINRYLASCGIASRRAADQLVLDGRVMVNGTVITTPGIKVSPTRDEVIVDGEKFAQPEHR 70 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ L++KP ++TT+SD R V D + + RV VGRLD T G++LLTNDG LA Sbjct: 71 KVYILFNKPRNVITTNSDEKNREMVLDFI-DVEERVFPVGRLDRKTTGVILLTNDGTLAH 129 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGSNAW 188 L PS+ + Y + + L L G+ + + + ++ D + Sbjct: 130 KLMHPSSNVKKEYIAELSEKFTPNLLPQLTGGMRLKDTGEKVSPCRAKILEDGMQ----- 184 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V V + EGKN +++++FE ++V RL R++Y G L G R +S+ Sbjct: 185 VLVSIHEGKNHQVRRMFETLGFEVKRLERVAYAGLLAGELRRGEWRYLSR 234 >gi|218459923|ref|ZP_03500014.1| RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli Kim 5] Length = 199 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 66/182 (36%), Positives = 98/182 (53%), Gaps = 2/182 (1%) Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLD 115 T +I VDG+ + AE + +KP GLVTT DP+GR TV+D L + VGRLD Sbjct: 1 TVNIRVDGLVI-AAEAKIYLMLNKPRGLVTTRHDPEGRPTVYDCLKDFEIPHLSPVGRLD 59 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 +EGLLL TND A++L P T + Y V+ +D + + + GI G Sbjct: 60 KASEGLLLFTNDTEFAQILLDPITHVTKTYHVQIDRIMDDEAIAAMTSGIRHDGELLTAT 119 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 V Q N+W+ V L EG+NR+I+++ E + RL+R++ G +LG L G+ R Sbjct: 120 AVRRLRQGDRNSWIEVELDEGRNRQIRRMLEALGTECLRLVRVAIGGLELGELPKGAVRA 179 Query: 236 VS 237 ++ Sbjct: 180 LT 181 >gi|21241779|ref|NP_641361.1| pseudouridylate synthase [Xanthomonas axonopodis pv. citri str. 306] gi|21107153|gb|AAM35897.1| pseudouridylate synthase [Xanthomonas axonopodis pv. citri str. 306] Length = 264 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 78/234 (33%), Positives = 122/234 (52%), Gaps = 13/234 (5%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R IA RV V+ ++ + I VDG PL R Sbjct: 17 LARVLSKLGVCSRTEAARWIAAGRVSVSARVVRDPEFPIRGDQQSSIAVDGQPLAGLARC 76 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV---FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L +KP G+VTT D GR TV FD+ + + VGRLD +EGLLL +ND Sbjct: 77 YLML-NKPRGVVTTVRDEQGRDTVYRCFDD--AGLPWIAPVGRLDKASEGLLLFSNDPQW 133 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGS 185 A + P+T + Y V+ + +L L G+V QG+ QV++ + Sbjct: 134 AATVTDPATGPDKTYHVQIDCRPSAAQLVQLHAGVVDPDPQGQGLLLRAKQVSVLREGER 193 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 NAW+ + L EG+NR+I+++ + V RL+R++ GP +G L G+ R +S + Sbjct: 194 NAWLEIVLDEGRNRQIRRLLAAVDIGVLRLVRVAIGPLAMGELGKGAWRMLSAE 247 >gi|313159346|gb|EFR58710.1| pseudouridylate synthase [Alistipes sp. HGB5] Length = 423 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 71/245 (28%), Positives = 129/245 (52%), Gaps = 12/245 (4%) Query: 3 DKNIVQENFTPQ------RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS 56 DK FTP+ R+++ +A++G+ SRRE + I V VNG ++ + V+ Sbjct: 172 DKPASYPKFTPEKQIGEMRLNRFLAQSGLCSRREADDFITAGLVTVNGQIVTQLGTKVLP 231 Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 TD ++ + ++ ++ L L +KP G VT+ DP TV + + + R+ VGRLD Sbjct: 232 TDEVKFNDSRVQGEKKVYLVL-NKPKGYVTSLDDPHAGKTVMELVQGACTERIYPVGRLD 290 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD 174 N+ GLLL TNDG L + L P+ + ++Y+V + + ++ + +GI ++ G + D Sbjct: 291 KNSLGLLLFTNDGDLTKQLTHPAFRKKKIYQVSLDKPLTRADMDRIAEGITLEDGEIFAD 350 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + K + V + + G+NR ++++FEF + V +L R+ Y L G+ R Sbjct: 351 ---EISYVKDNKQEVGIEIHSGRNRIVRRIFEFLGYTVTKLDRVYYAGLTKKNLKRGAWR 407 Query: 235 EVSKK 239 +S++ Sbjct: 408 FLSRE 412 >gi|253578001|ref|ZP_04855273.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA] gi|251850319|gb|EES78277.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA] Length = 323 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 82/255 (32%), Positives = 132/255 (51%), Gaps = 17/255 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ AGI SRRE +RMI + R+ VNG E + V D I D +P+ K E+ Sbjct: 15 RINKYLSEAGICSRREADRMIEEGRITVNGKKAE-SGQKVSLEDEICADNIPVHKNEKKV 73 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L++KP G+V + +TV D L RV VGRLD ++GLLLLTN+G L + Sbjct: 74 LLLFNKPRGIVCSTKQQFDETTVTDYLDYPL-RVYPVGRLDKESQGLLLLTNEGDLVNKI 132 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V + VD++ + + KG+ + +V Q G ++ + L Sbjct: 133 MRAGNYHEKEYFVTVNKPVDREFVRRMSKGVPVLDTVTRPCRV---VQTGECSFRII-LT 188 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ + ++V +L RI L + G RE++ + E+L HLLE + Sbjct: 189 QGLNRQIRRMCRYLGYEVQKLKRIRIMNLTLDGIREGEYREITAQEW-EELN-HLLESS- 245 Query: 255 VNLDAPIYSSETLVR 269 +SET++R Sbjct: 246 --------TSETVIR 252 >gi|325002515|ref|ZP_08123627.1| ribosomal large subunit pseudouridine synthase B [Pseudonocardia sp. P1] Length = 253 Score = 107 bits (267), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 80/232 (34%), Positives = 118/232 (50%), Gaps = 9/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+ARAG+ASRR E +IAQ RV+V+G + + T + VDG + + Sbjct: 11 RLQKVLARAGVASRRAAEELIAQGRVQVDGETVREMGRRIDPETAVLHVDGARVTLRDDQ 70 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD------NLPSIFSRVISVGRLDINTEGLLLLTND 127 +KP+GL +T SD GR V D L + R+ VGRLD +TEGLLLLTND Sbjct: 71 VYLALNKPVGLHSTMSDDLGRPCVGDLLADRVELMNSAQRLFHVGRLDADTEGLLLLTND 130 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G L L PS + + Y G++ +D L+ GI ++ GI D +D G Sbjct: 131 GELGHRLMHPSYEVPKTYLAEVEGKIARDLGRRLRDGIELEDGIARVDAFKLVDAVPG-R 189 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + V + L EG+ ++++ V RL+R + G +LG G R + + Sbjct: 190 STVQLILHEGRKHIVRRMLSEVGHPVQRLVRTAVGEVRLGNQKPGKLRPLDR 241 >gi|312863475|ref|ZP_07723713.1| pseudouridylate synthase [Streptococcus vestibularis F0396] gi|311101011|gb|EFQ59216.1| pseudouridylate synthase [Streptococcus vestibularis F0396] Length = 239 Score = 107 bits (267), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 81/240 (33%), Positives = 124/240 (51%), Gaps = 10/240 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ +AG SR +V+++I ++V V+GIL +R +NV S I V G L Sbjct: 2 RLDKLLGQAGYGSRNQVKKLIRSRQVYVDGILADRDNLNVDASLQTITVSGKELEHTPEV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+V+ SD + TV D + R + VGRLD NTEGL+L+TN+G L Sbjct: 62 -YYLMNKPAGVVSARSDKE-HQTVIDLIKPEDQRDGLYPVGRLDRNTEGLVLITNNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 + P + Y V + + D + G+V + G Q+ + + + Sbjct: 120 FAMLHPGYHVAKTYYVEVNDILGPDAPAFFESGVVFEDGTICKSAQLEILSSASDKSCAR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTR---EVSKKILREQLG 246 + + EGK ++KK+F + KV L RIS+G F+L +A GS R E K ILR LG Sbjct: 180 ITISEGKFHQVKKMFLAYGVKVTYLKRISFGAFKLDEGIAVGSYRVLTEAEKVILRTYLG 239 >gi|163789367|ref|ZP_02183806.1| ribosomal small subunit pseudouridine synthase A [Carnobacterium sp. AT7] gi|159875221|gb|EDP69286.1| ribosomal small subunit pseudouridine synthase A [Carnobacterium sp. AT7] Length = 239 Score = 107 bits (267), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 82/230 (35%), Positives = 121/230 (52%), Gaps = 17/230 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ G SRR V+R++ ++V+VNG + ++NV + V GVP+ Sbjct: 2 RLDKLLFETGFGSRRTVKRLLKSKQVQVNGQTIMVDSLNVDPQLQEVTVAGVPIDYQPHV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD------NLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ HKP G+V+ SD + TV D +P +F VGRLD +TEGLLLLTN+ Sbjct: 62 Y-YMLHKPAGVVSAVSDAVNQ-TVIDLIEPSQRVPGLFP----VGRLDKDTEGLLLLTNN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGS 185 G L L +P + + Y V + +V D GIV G IC Q+T+ +Q + Sbjct: 116 GQLGYQLLIPKKEVTKCYEVVVNERVTDDDQLAFTAGIVFDGGVIC-KPAQLTILSQSDT 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 + V + + EGK ++KK+F KV L R+S GP QL TL GS R Sbjct: 175 ESRVLLEISEGKFHQVKKMFLSVGKKVIYLKRLSMGPLQLDKTLSLGSYR 224 >gi|323209958|gb|EFZ94867.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] Length = 150 Score = 107 bits (267), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 68/148 (45%), Positives = 88/148 (59%), Gaps = 6/148 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E +I RV V+G I V V I +DG V Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQ 155 G LA L PS + R Y VR GQVD+ Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQVDE 150 >gi|71418278|ref|XP_810803.1| tRNA pseudouridine synthase A [Trypanosoma cruzi strain CL Brener] gi|70875392|gb|EAN88952.1| tRNA pseudouridine synthase A, putative [Trypanosoma cruzi] Length = 687 Score = 107 bits (267), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 74/227 (32%), Positives = 120/227 (52%), Gaps = 12/227 (5%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD---HIEVDGVPLRKAERTR 74 + + RAG SRRE +IA +V+V+ ++ ER ++ + H+E LR A R Sbjct: 347 RCLPRAGFCSRREALSIIASGQVRVDNVV-ERNPFRLVRAENSIHVESHSGRLRFAP-PR 404 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 LW+YHKP ++ + +D GR+ + + + ++ VG L + GLLLLTNDG L+R+ Sbjct: 405 LWMYHKPAYVIVSRNDVAGRTLITKHARILGMDHLVPVGSLPMRAHGLLLLTNDGELSRL 464 Query: 134 LELPSTQWLRVYRVRFHGQVD---QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 LE P T + Y +R +D KLN +GI++ G Y +++ ++ S + Sbjct: 465 LENPKTMIQQTYLLRVRPAIDPVLAHKLN--TEGILVNGKRYNNVEFFVNPAMKSRHSLK 522 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V +R G+ + + + V R RIS+GPF + L GS REV+ Sbjct: 523 VKVR-GETMPVAHLMQHLGRTVERGGRISFGPFSMSGLPVGSIREVT 568 >gi|118475394|ref|YP_892916.1| pseudouridine synthase, Rsu:RNA-binding S4:pseudouridine synthase [Campylobacter fetus subsp. fetus 82-40] gi|118414620|gb|ABK83040.1| pseudouridine synthase, Rsu:RNA-binding S4:Pseudouridine synthase [Campylobacter fetus subsp. fetus 82-40] Length = 254 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 122/234 (52%), Gaps = 16/234 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + ++ +V +N +++ A +V D I+++G +R + Sbjct: 2 RINKFISHNTNYSRREADELVKNGKVSINNKVIDNLATDVKEDDKIKINGRFIRLKKEFS 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +Y+K G + T D GR T++DNLP S+ IS+GRLD +EGLLLLT+ +A L Sbjct: 62 IIVYNKQKGELVTKKDDRGRKTIYDNLPRGISKFISIGRLDFASEGLLLLTDAPAIAEAL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG----DMQVTLDTQ-------- 182 + R Y ++ G++ + + +++G + G Q++++ + Sbjct: 122 MGSDIE--REYYLKIKGEITPNVIAAMQEGFFAKDATKGAHARTKQISMEFKPFLAYKII 179 Query: 183 --KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 G + V + EG+NRE+++ F +F+ +V L R+S+G L L G R Sbjct: 180 SFSGGYTRLKVIINEGQNRELRRFFGYFDLEVMDLKRVSFGRVSLDQLGEGKWR 233 >gi|218533320|ref|YP_002424135.1| pseudouridine synthase [Methylobacterium chloromethanicum CM4] gi|218525623|gb|ACK86207.1| pseudouridine synthase [Methylobacterium chloromethanicum CM4] Length = 320 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 81/228 (35%), Positives = 124/228 (54%), Gaps = 3/228 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKA 70 +P + +V+++ G SRR E +I RV+V+G ++ A V V I VDG L A Sbjct: 23 SPVSLPRVLSKFGFCSRRSAEVLIESGRVRVDGRVVRNAGVRVDPQRAAICVDGRRLVSA 82 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGG 129 + L L +KP GL+TT+ DP GR TV+D L + VGRLD +EGLLL+TND Sbjct: 83 AKVYL-LLNKPRGLLTTYGDPQGRKTVYDCLAGHDLPFLAPVGRLDCASEGLLLMTNDTR 141 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A L P++ +VY V+ + D+ L L++G+ G V NAW+ Sbjct: 142 WAHRLLDPASNVDKVYHVQIDRRPDEALLTGLREGVAHDGERLAAKSVAPLRVGERNAWL 201 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V L EG+NR+I+++ +V RL+R++ G +LG + G+ R ++ Sbjct: 202 EVVLSEGRNRQIRRMMALNGAEVLRLVRVAVGGVRLGDVRKGAFRHLT 249 >gi|294666869|ref|ZP_06732101.1| Pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] gi|292603386|gb|EFF46805.1| Pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] Length = 286 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 75/232 (32%), Positives = 119/232 (51%), Gaps = 9/232 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R IA RV V+ ++ + I VDG PL R Sbjct: 39 LARVLSKLGVCSRTEAARWIADGRVSVSARVVRDPEFPIRGDQQSSIAVDGQPLAGLARC 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP G+VTT D GR TV+ + VGRLD +EGLLL +ND A Sbjct: 99 YLML-NKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAA 157 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNA 187 + P+T + Y V+ + +L L+ G+V QG+ QV++ + NA Sbjct: 158 AVTDPATGPDKTYHVQIDCRPSAAQLAQLQAGVVDPDPQGQGVLLRAKQVSVLREGERNA 217 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 W+ + L EG+NR+I+++ + V RL+R++ GP +G L + R +S + Sbjct: 218 WLEIVLDEGRNRQIRRLVAAVDIGVLRLVRVAIGPLAMGELGKSAWRMLSAE 269 >gi|309792033|ref|ZP_07686509.1| pseudouridine synthase [Oscillochloris trichoides DG6] gi|308225926|gb|EFO79678.1| pseudouridine synthase [Oscillochloris trichoides DG6] Length = 637 Score = 107 bits (266), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 66/165 (40%), Positives = 94/165 (56%), Gaps = 3/165 (1%) Query: 55 MSTDHIEVDGVPLRKAERTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 + D IEVDG P+RK TR +L +KP+G V+T DP GR TV D L + +RV VGR Sbjct: 3 LDADVIEVDGQPVRKPT-TRTYLVLNKPVGFVSTVDDPQGRPTVVD-LVDVPARVYPVGR 60 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LD+++EGLLLLT+DG L L P + + YR +D + L ++G+++ G Sbjct: 61 LDVDSEGLLLLTDDGELTHQLTHPRFEIEKEYRALLDRPLDTEALRQWREGVLLNGEPTA 120 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 V L W V LREG+ R+I++V ++V RLIR+ Sbjct: 121 PAWVDLLETTAEGPWFRVVLREGRKRQIREVARLLGYEVLRLIRV 165 >gi|294102080|ref|YP_003553938.1| pseudouridine synthase [Aminobacterium colombiense DSM 12261] gi|293617060|gb|ADE57214.1| pseudouridine synthase [Aminobacterium colombiense DSM 12261] Length = 240 Score = 107 bits (266), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 80/226 (35%), Positives = 120/226 (53%), Gaps = 4/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ASRR+VE + RV +NG ++ + V TD + +DG + R Sbjct: 4 RLNKYLASCGLASRRKVEEFVLSGRVALNGRVVRDLSTTVEETDTVTLDGKEVSPESRVY 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP G+V D TV D LP +S R+ VGRLD +EGLL+LTNDG A Sbjct: 64 I-VMNKPQGVVCAVED-RFDMTVIDVLPPAYSKFRLFPVGRLDKESEGLLVLTNDGDFAH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS+ R Y V + ++ +K+ L KG I+G + V + WVTV Sbjct: 122 FLMHPSSNIKRDYEVLLNEELTVEKMKLWLKGFEIEGGFVRPLSVQPLCRPPYGRWVTVS 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG+ RE++ + E +KV LIR G +L L G T ++S+ Sbjct: 182 ITEGQKREVRLMAEHLGYKVMVLIRRRIGRMELRNLNKGQTVKLSQ 227 >gi|325136481|gb|EGC59087.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis M0579] Length = 200 Score = 107 bits (266), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 59/162 (36%), Positives = 100/162 (61%), Gaps = 3/162 (1%) Query: 67 LRKAERT-RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLL 124 L+ A+R R+ LY+K G + + DP GR ++FD LP + SR +++GRLDINT GLL+L Sbjct: 2 LKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLIL 61 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQK 183 T G L + PS + R Y VR G + +++ +L ++G++++ ++ + Sbjct: 62 TTSGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGE 121 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G+N W V ++EG+NRE++++FE V+RL+R+ +GP L Sbjct: 122 GANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGL 163 >gi|221194614|ref|ZP_03567671.1| ribosomal large subunit pseudouridine synthase B [Atopobium rimae ATCC 49626] gi|221185518|gb|EEE17908.1| ribosomal large subunit pseudouridine synthase B [Atopobium rimae ATCC 49626] Length = 269 Score = 107 bits (266), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 84/256 (32%), Positives = 134/256 (52%), Gaps = 20/256 (7%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 E P R+ + +ARAG+ASRR ER++ + RV+VNG+++ V T D +EVDG + Sbjct: 4 ERIVPMRLQRFLARAGVASRRGSERLMTEGRVRVNGVVVSELGSKVDPTRDTVEVDGHIV 63 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTN 126 A+ + +KP G +TT SDP GR T+ +P+ + + VGRLD++T GLLL T Sbjct: 64 GIADAPVYLMLNKPEGYLTTMSDPQGRPTIKTMVPTKRYPGLFPVGRLDMDTSGLLLFTT 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGIC-------------- 171 DG +A+ L PS + Y G + +L L++GI++ G+ Sbjct: 124 DGTMAQELLHPSRHVWKHYLALVLGVPTEAELERLRRGIMLDDGMAQPAKVELRDDLLEL 183 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +G + + K NA V + + EG+ ++KK+ +V L R ++GP +L + G Sbjct: 184 HGTSRYPQNPNKPQNAIVGIWIHEGRKHQVKKMMSAIGHRVLVLHRDAFGPLRLTNVEEG 243 Query: 232 STREVSKK---ILREQ 244 RE+ + LREQ Sbjct: 244 CWRELRDEEIAALREQ 259 >gi|315641811|ref|ZP_07896815.1| ribosomal small subunit pseudouridine synthase A [Enterococcus italicus DSM 15952] gi|315482486|gb|EFU73025.1| ribosomal small subunit pseudouridine synthase A [Enterococcus italicus DSM 15952] Length = 240 Score = 107 bits (266), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 82/240 (34%), Positives = 128/240 (53%), Gaps = 10/240 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ KVI SR+E++R+ A+ V+++G ++ + NV S H + VDG + ER Sbjct: 2 RIDKVIETQLHTSRKEMKRLFAKGLVQIDGEIMRNQSFNVDSHLHCLTVDGQVVEWYER- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 WL +KP G VT + D T+FD + + + + +VGRLD +TEGL+L+T +G L Sbjct: 61 -YWLMNKPAGYVTANHDKV-VPTIFDLFATDDLVAGLYAVGRLDRDTEGLVLVTTNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWV 189 L P+ + + Y VR + ++ + + +GIV G C Q+ L + + Sbjct: 119 YQLLHPTKKVDKKYSVRVNARLTEKDVQAFSEGIVFHGGTRCL-PAQLLLKSCHDQESEA 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 V L EGK ++KK+F KV L RIS+GP +L TL G R ++K L E L P + Sbjct: 178 EVVLSEGKFHQVKKMFLACGKKVTFLKRISFGPLELKTLPVGEYRSLTKHEL-EALRPFM 236 >gi|256372131|ref|YP_003109955.1| pseudouridine synthase [Acidimicrobium ferrooxidans DSM 10331] gi|256008715|gb|ACU54282.1| pseudouridine synthase [Acidimicrobium ferrooxidans DSM 10331] Length = 254 Score = 107 bits (266), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 77/227 (33%), Positives = 116/227 (51%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 +V ++ARAG SRR +E I RV++NG + A D +E DG+ + E+ Sbjct: 7 KVHVLLARAGCGSRRVLEDAIRDGRVRINGEVATIGARVRPGVDRVEFDGLEIATEEQRE 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 WL +KP G+V++ DP+GR TV +L + SRV VGRLD+++EGLL+LTNDG L L Sbjct: 67 YWLLNKPRGVVSSVVDPEGRPTV-RSLVATTSRVYPVGRLDVDSEGLLILTNDGPLTYQL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V + L++G+ + G V + V + L Sbjct: 126 THPRFHVPKEYLVWVDRPVPRRLGRELREGVEVDGELLRASSVGTVGPR----LVRIVLT 181 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+NR+I+++ V RL+R+ GP L G R + + L Sbjct: 182 EGRNRQIRRMVGAVGLSVERLVRVRIGPLVDPHLPPGVARRLEPREL 228 >gi|225389037|ref|ZP_03758761.1| hypothetical protein CLOSTASPAR_02782 [Clostridium asparagiforme DSM 15981] gi|225044895|gb|EEG55141.1| hypothetical protein CLOSTASPAR_02782 [Clostridium asparagiforme DSM 15981] Length = 247 Score = 107 bits (266), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 76/236 (32%), Positives = 123/236 (52%), Gaps = 10/236 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G +R +V+ M+ + R+ VNG + +A + + D I +DG + A RT Sbjct: 10 RLDKFLTEMGRGTRSQVKEMVRKGRITVNGQAVRQADLKINPEADQICLDGAAVAYA-RT 68 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ D GR L ++ + VGRLDI+TEGLLLLTNDG LA Sbjct: 69 EYYMLNKPQGVVSATED--GRYQTVTELITGALRGDIFPVGRLDIDTEGLLLLTNDGSLA 126 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P +VY R GQ+ +D + G+V++ G + + V + Sbjct: 127 HNLLSPRKHVDKVYFARIEGQLPEDAVGRAAAGLVLED---GTKTLPARLEILEPGQVRL 183 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLG 246 +REGK ++K++FE +V L R+S GP L LA G R ++++ +++ G Sbjct: 184 TIREGKFHQVKRMFEAMGCRVTYLKRLSMGPLVLDPALAPGEYRPLTEQEIQDLQG 239 >gi|294672844|ref|YP_003573460.1| ribosomal large subunit pseudouridine synthase B [Prevotella ruminicola 23] gi|294472710|gb|ADE82099.1| ribosomal large subunit pseudouridine synthase B [Prevotella ruminicola 23] Length = 449 Score = 106 bits (265), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 74/220 (33%), Positives = 111/220 (50%), Gaps = 7/220 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K I + P R++K +A AG+ SRRE + I V VNG ++ ++ TD ++ Sbjct: 204 KEINYDPNEPLRLNKFLANAGVCSRREADEFIQAGVVSVNGEIVTELGTKILRTDVVKFH 263 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLL 122 P+ E+ L +KP VTT DP R TV D + + R+ VGRLD NT G+L Sbjct: 264 DQPV-NIEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKNACPERIYPVGRLDRNTTGVL 322 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLD 180 LLTNDG LA L P ++Y V V L + +GI ++ I D+Q Sbjct: 323 LLTNDGDLASKLTHPKYLKKKIYHVYLDKNVTAHDLAQIAEGIQLEDGEIKADDVQYAHP 382 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 T K V + + GKNR ++++FE ++V +L R+ + Sbjct: 383 TDK---KQVGIEIHSGKNRIVRRIFESLGYRVQKLDRVQF 419 >gi|18310062|ref|NP_561996.1| pseudouridylate synthase [Clostridium perfringens str. 13] gi|18144741|dbj|BAB80786.1| pseudouridylate synthase [Clostridium perfringens str. 13] Length = 236 Score = 106 bits (265), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 67/225 (29%), Positives = 118/225 (52%), Gaps = 2/225 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +AR G+ASRR+ E +I +VKVN +++ V + + + + E Sbjct: 3 ERLQKYMARCGVASRRKCEEIICSGKVKVNDTVVDSLGTKVDPSVDVVSVNNKVIRPEEN 62 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ + +KP G VTT+ D R T+ D + + R+ +GRLD ++ GLLLLTNDG + Sbjct: 63 KVYIMLNKPEGYVTTNKDEKNRKTILD-IVKVNERIYPIGRLDYDSSGLLLLTNDGDVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G ++++N +KG+ I + ++ L + ++ V + Sbjct: 122 KIIHPRVNLNKEYIALVKGIFTEEEMNKFRKGVDIGDYKTAECEIELLEKYTNSCKVKII 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EGKNR+I+++ FN +V L R + G L L G R +S Sbjct: 182 IHEGKNRQIRRMCAAFNHEVVSLKREAIGSLTLKNLKKGEWRYLS 226 >gi|260655287|ref|ZP_05860775.1| RNA pseudouridine synthase [Jonquetella anthropi E3_33 E1] gi|260629735|gb|EEX47929.1| RNA pseudouridine synthase [Jonquetella anthropi E3_33 E1] Length = 241 Score = 106 bits (265), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 80/230 (34%), Positives = 116/230 (50%), Gaps = 5/230 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ SRR+VE++I RV VNG L+ V D + VD V + +T Sbjct: 4 RLNKYLASCGVGSRRKVEQLITAGRVTVNGYLVSDLGHQVEDGDAVAVDDVEVHVEAKTY 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLAR 132 + + KP G + ++PD V D LP + R+ VGRLD+ +EG+L+LTNDG A Sbjct: 64 I-VIRKPRGYICAVTNPD-YPVVLDLLPRSYDRLRLFPVGRLDLQSEGILILTNDGDFAN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNAWVTV 191 L PS + Y VR + + L L+ G V +G + V L ++ W T Sbjct: 122 DLIHPSNGVTKTYEVRMNRVLTAADLENLRGGTVFEGRRLVPLSVDLLPDRRPEGQWATF 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EG REI+ + E V L R + G +L TL +G EV+ K L Sbjct: 182 VLGEGVKREIRLMAEGCGMTVEVLFRRAIGRMELRTLKSGEFVEVTLKDL 231 >gi|145220277|ref|YP_001130986.1| ribosomal large subunit pseudouridine synthase B [Prosthecochloris vibrioformis DSM 265] gi|145206441|gb|ABP37484.1| ribosomal large subunit pseudouridine synthase B [Chlorobium phaeovibrioides DSM 265] Length = 247 Score = 106 bits (265), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 78/237 (32%), Positives = 123/237 (51%), Gaps = 16/237 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A GIASRR ++M+ + RV VNG +++E M D + VDG E Sbjct: 11 RINRYLAMCGIASRRAADQMVIEGRVMVNGQVVIEPGLQIKMGKDEVIVDGQKYALPEER 70 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ L++KP ++TT SD R V D + + RV VGRLD T G LL TNDG LA Sbjct: 71 KVYILFNKPRNVITTSSDERDREMVLDYI-KVKERVFPVGRLDRKTTGALLFTNDGILAN 129 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI------CYGDMQVTLDTQKGSN 186 L PS+ + Y Q L LL G+ ++ C + LD G Sbjct: 130 KLMHPSSNVKKEYLAVLDTAFPQSSLPLLTGGMRLKDTGEKVRPCQAKI---LDG--GMQ 184 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 W++ L EGKN +++++F ++V RL R++Y + G L G R ++++ +R+ Sbjct: 185 VWMS--LHEGKNHQVRRMFWTLGFEVTRLERVTYAGLKTGDLRRGEWRYLNREEVRQ 239 >gi|260591212|ref|ZP_05856670.1| ribosomal large subunit pseudouridine synthase B [Prevotella veroralis F0319] gi|260537077|gb|EEX19694.1| ribosomal large subunit pseudouridine synthase B [Prevotella veroralis F0319] Length = 253 Score = 106 bits (265), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 77/238 (32%), Positives = 118/238 (49%), Gaps = 10/238 (4%) Query: 8 QENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +ENF P R++K +A AG+ SRRE + I V VNG +++ V+ TD + Sbjct: 9 EENFDPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVLRTDVVLFQD 68 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLL 123 P+ E+ L +KP VTT DP R TV D + + R+ VGRLD NT G+LL Sbjct: 69 KPV-SLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDRNTTGVLL 127 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG LA L P +VY V V + L + GI ++ G+++ Sbjct: 128 LTNDGDLASKLTHPKFLKKKVYHVFLDKPVTANDLQKISDGIELED---GEIKADAIEYA 184 Query: 184 GSNAWVTVGLR--EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + VG+ GKNR ++++FE ++V +L R+ + + G R +++K Sbjct: 185 SPDDLTQVGIEIHSGKNRIVRRIFESLGYRVVKLDRVQFAGLTKKNVRRGDWRFLTEK 242 >gi|332830420|gb|EGK03048.1| hypothetical protein HMPREF9455_01298 [Dysgonomonas gadei ATCC BAA-286] Length = 444 Score = 106 bits (265), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 74/233 (31%), Positives = 120/233 (51%), Gaps = 11/233 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 TP R++K +A AG+ SRRE + I VKVNG ++++ V D + P+R Sbjct: 207 TPLRLNKYLANAGVCSRREADAYITSGVVKVNGEVVDQLGAKVTRGDLVTFQDKPVRLES 266 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 + + L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG L Sbjct: 267 KVYVLL-NKPKNCVTTSDDPQNRLTVMDLVKNACPERIYPVGRLDRNTTGVLLLTNDGDL 325 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A L P + ++Y+V V + + + G+ + D ++ D+ + + Sbjct: 326 ASKLMHPKFKKKKIYQVTLDRDVAIEDMQAIADGVELD-----DGEIHADSIAYQAEDVL 380 Query: 189 VTVGLR--EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 VG+ G+NR ++++FE ++V +L R+ + +L G R +S+K Sbjct: 381 NVVGIEIHSGRNRIVRRIFEKLGYQVMKLDRVYFAGLTKKNVLRGKWRYLSEK 433 >gi|237785455|ref|YP_002906160.1| putative pseudouridylate synthase [Corynebacterium kroppenstedtii DSM 44385] gi|237758367|gb|ACR17617.1| putative pseudouridylate synthase [Corynebacterium kroppenstedtii DSM 44385] Length = 278 Score = 106 bits (265), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 81/232 (34%), Positives = 119/232 (51%), Gaps = 6/232 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A AG+ASRR E++I + RV+VNG ++ R V V D I VDG + E Sbjct: 39 RLQKVLAAAGVASRRMSEKLIDEGRVEVNGDIVTRQGVRVDPDYDVIRVDGSRVVVDESM 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+ +T D GR V D + R+ VGRLD T+GLLLLTNDG L Sbjct: 99 QYFALNKPRGVQSTMHDDMGRPCVGDIVGEKVDAGQRLFHVGRLDAATQGLLLLTNDGEL 158 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y G+VD+ L L +GI + G D +D +G + V Sbjct: 159 ANRLIHPKYGIKKTYLATVLGEVDKKDLRRLTQGIELDDGTARADDADIIDVWQG-RSLV 217 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ ++++ + + V L+R QLG G+ R +++ L Sbjct: 218 KVVLHEGRKHIVRRMLKAAGFPVQELVRTKIHTVQLGEQTPGTLRALNRSEL 269 >gi|171742924|ref|ZP_02918731.1| hypothetical protein BIFDEN_02041 [Bifidobacterium dentium ATCC 27678] gi|283456055|ref|YP_003360619.1| RNA pseudouridylate synthase [Bifidobacterium dentium Bd1] gi|171278538|gb|EDT46199.1| hypothetical protein BIFDEN_02041 [Bifidobacterium dentium ATCC 27678] gi|283102689|gb|ADB09795.1| RNA pseudouridylate synthase [Bifidobacterium dentium Bd1] Length = 257 Score = 106 bits (265), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 71/227 (31%), Positives = 119/227 (52%), Gaps = 4/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A+AG SRR+ E +I RV+++G L+ V + VDG +R Sbjct: 20 RLQKLLAQAGFGSRRKCEEIITDGRVEIDGELITELGTRVDPKHQEVRVDGSRVRVNPNH 79 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TNDG L++ Sbjct: 80 VTLALNKPKRVLSAMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTNDGELSQH 139 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y G++ L+ G+ + G D LD+ + S V V Sbjct: 140 IMHPKYEVEKTYIATLDGRISGTVCRRLVTTGVQLDDGWIKLDRCAILDSSRDS-TLVKV 198 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L GKNR ++++F + V RL+R GP +LG L +G+ R +S+ Sbjct: 199 VLHSGKNRIVRRIFGSIGFPVRRLVRTQIGPIKLGDLKSGTYRVLSQ 245 >gi|71416087|ref|XP_810087.1| tRNA pseudouridine synthase A [Trypanosoma cruzi strain CL Brener] gi|70874568|gb|EAN88236.1| tRNA pseudouridine synthase A, putative [Trypanosoma cruzi] Length = 687 Score = 106 bits (265), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 74/227 (32%), Positives = 120/227 (52%), Gaps = 12/227 (5%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD---HIEVDGVPLRKAERTR 74 + + RAG SRRE +IA +V+V+ ++ ER ++ + H+E LR A R Sbjct: 347 RCLPRAGFCSRREALSIIASGQVRVDNVV-ERNPFRLVRAENSIHVESHSGRLRFAP-PR 404 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 LW+YHKP ++ + +D GR+ + + + ++ VG L + GLLLLTNDG L+R+ Sbjct: 405 LWMYHKPAYVIVSRNDVAGRTLMTKHARILGMDHLVPVGSLPMRAHGLLLLTNDGELSRL 464 Query: 134 LELPSTQWLRVYRVRFHGQVD---QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 LE P T + Y +R +D KLN +GI++ G Y +++ ++ S + Sbjct: 465 LENPKTMIQQTYLLRVRPAIDPVLAHKLN--TEGILVNGNRYNNVEFFVNPAMKSRYSLK 522 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V +R G+ + + + V R RIS+GPF + L GS REV+ Sbjct: 523 VKVR-GETMPVAHLMQHLGRTVERGGRISFGPFSMSGLPVGSIREVT 568 >gi|290580875|ref|YP_003485267.1| putative 16S pseudouridylate synthase [Streptococcus mutans NN2025] gi|254997774|dbj|BAH88375.1| putative 16S pseudouridylate synthase [Streptococcus mutans NN2025] Length = 238 Score = 106 bits (265), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 78/231 (33%), Positives = 121/231 (52%), Gaps = 10/231 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ +AG SR +V++ I Q+V+V+G L NV S I V G L + Sbjct: 2 RLDKLLGQAGFGSRGQVKKFIRSQQVRVDGELARTGNQNVDPSLQTITVSGKQLSYSPHV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP GLV+ D TV D + + R + VGRLD +TEGL+L+TN+G L Sbjct: 62 -YYILNKPAGLVSVVRDQH-YQTVIDLIAVVDRREGLYPVGRLDRDTEGLVLITNNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGIC-YGDMQVTLDTQKGSNAW 188 L P + Y V +G + D + GI +C +Q+ + + S A+ Sbjct: 120 FRLLHPKYHVDKTYYVEVNGDLGIDAIAFFDNGIAFLDGTVCKSAKLQIISSSSEVSRAY 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +T+ EGK ++KK+F + KV L RIS+GPF+LG L G RE++ + Sbjct: 180 ITI--TEGKFHQVKKMFLAYGVKVTYLKRISFGPFELGDLSVGEYRELTAE 228 >gi|257413346|ref|ZP_04742734.2| ribosomal small subunit pseudouridine synthase A [Roseburia intestinalis L1-82] gi|257203834|gb|EEV02119.1| ribosomal small subunit pseudouridine synthase A [Roseburia intestinalis L1-82] Length = 239 Score = 106 bits (265), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 78/232 (33%), Positives = 118/232 (50%), Gaps = 5/232 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ G SR EV++ I V VNG ++++ V D + G PL E Sbjct: 6 RLDKLLTELGTGSRSEVKKYIRSGLVTVNGEVVKKPEQRVDEKNDTVCFRGNPLTYTEY- 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 +L+HKP G VT D R TV D L + VGRLDI+TEGLLL+TNDG LA Sbjct: 65 EYYLFHKPAGCVTATEDNLHR-TVMDYLTDTARHDLFPVGRLDIDTEGLLLITNDGALAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ +VY + G+V ++ +NL + G+ I + G N+ + + Sbjct: 124 DLLSPAKHVSKVYYAKIDGRVTEEDVNLFENGVDIGEEKPAKPALLEVLHSGDNSEIRLT 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILRE 243 + EG+ ++K++FE KV L R+ G L LA G R ++++ L+E Sbjct: 184 ITEGRFHQVKRMFEAVGKKVTYLKRVEMGSLVLPDELAPGEYRPLTEEELQE 235 >gi|189499452|ref|YP_001958922.1| pseudouridine synthase [Chlorobium phaeobacteroides BS1] gi|189494893|gb|ACE03441.1| pseudouridine synthase [Chlorobium phaeobacteroides BS1] Length = 254 Score = 106 bits (265), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 81/239 (33%), Positives = 118/239 (49%), Gaps = 17/239 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +A GIASRR +R++ V VNG I++++ A D + V L E Sbjct: 18 RINKYLALCGIASRRAADRLVESGEVMVNGRIMMKKGATVRPGVDEVVVSNRLLALPEEK 77 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ L +KP +TT SD R TV D L + RV VGRLD T G+LLLTNDG LA Sbjct: 78 KVYILLNKPRNYITTSSDEKERETVLD-LVDVRERVFPVGRLDRKTTGMLLLTNDGALAH 136 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI------CYGDMQVTLDTQKGSN 186 L PS++ + Y + L L G+ ++ C G + Q G Sbjct: 137 RLMHPSSEVEKEYLAELETPFSEKDLPSLTGGMRLKDTGEKTSPCKGKIM-----QGGLR 191 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 VT+ EGKN +++++F + V RL R +Y + G L G R + K + EQL Sbjct: 192 VLVTI--HEGKNHQVRRMFRSLGYDVKRLDRTAYAGLRAGKLRRGEWRYATSKEV-EQL 247 >gi|15828808|ref|NP_326168.1| ribosomal large subunit pseudouridine synthase B (pseudouridylate synthase) (uracil hydrolyase) [Mycoplasma pulmonis UAB CTIP] gi|14089751|emb|CAC13510.1| RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE B (PSEUDOURIDYLATE SYNTHASE) (URACIL HYDROLYASE) [Mycoplasma pulmonis] Length = 232 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 75/228 (32%), Positives = 119/228 (52%), Gaps = 11/228 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-VPLRKAERT 73 ++ K IA G SRR+ E +I Q +VKVN + V D IE++G + + K Sbjct: 2 KIQKRIAHLGYCSRRQAEALILQNKVKVNSSFATIGQI-VSDQDIIEINGKILVEKENEK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L HKP +++ D R V D + S SRV VGRLD NT G+L+LTNDG L + Sbjct: 61 EYYLLHKPPKTISSTKDEKNRQVVTDLVKS-KSRVYPVGRLDYNTTGVLILTNDGDLTQK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P Q R+Y + +++ +L L + + Y D ++++ Q +++ V Sbjct: 120 LLHPKYQIKRLYHCKLDIPLEEKELIYLNEEKI-----YIDKKLSIHKVLQVEKKSYL-V 173 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L +G +KK+FE N KV +L R+++GP + L G R+++ K Sbjct: 174 ELHQGSYHHVKKIFEKVNRKVVKLKRLAFGPITIDNLPEGYFRKLTFK 221 >gi|71894334|ref|YP_278442.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma synoviae 53] gi|71851122|gb|AAZ43731.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma synoviae 53] Length = 231 Score = 106 bits (264), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 68/224 (30%), Positives = 117/224 (52%), Gaps = 11/224 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLRKAERT 73 + K++++AG+ SRRE E++I +++VKVNG + A + ++ D I V+ P+ + E Sbjct: 1 MQKILSQAGVCSRREAEKLILEKKVKVNG---QIATLGTKASFEDEILVNNKPITQREEL 57 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP V T D R V D L ++ VGRLD +T G+LLLTNDG L+ + Sbjct: 58 VYFVLNKPKNTVCTLKDNFNRVKVTD-LIDTDKKIFPVGRLDYDTTGVLLLTNDGKLSNL 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS++ R+YR R + ++ +L K ++I + + T + V L Sbjct: 117 LTHPSSEIKRIYRARISAPLTDKEMEILSKPVII-----NNQRSTQEIYPADTKSYYVVL 171 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +G +KK+FE + KV L R+ + + + G R ++ Sbjct: 172 HQGSYHHVKKLFELVDKKVLDLNRVEFANITVKNMQKGQYRRLT 215 >gi|21230406|ref|NP_636323.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66769600|ref|YP_244362.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. 8004] gi|188992811|ref|YP_001904821.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. B100] gi|21111965|gb|AAM40247.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66574932|gb|AAY50342.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. 8004] gi|167734571|emb|CAP52781.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris] Length = 285 Score = 106 bits (264), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 76/235 (32%), Positives = 118/235 (50%), Gaps = 9/235 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R +A RV V G ++ + + H I +DG PL R Sbjct: 37 LARVLSKLGVCSRTEAARWVADGRVSVAGRVVRDPEFPLRADQHDGIAIDGQPLAGPARL 96 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP G+VTT D GR TV+ + VGRLD +EGLLL +ND A Sbjct: 97 YLML-NKPRGVVTTVRDEQGRDTVYRCFDGAGLPWLAPVGRLDKASEGLLLFSNDPQWAA 155 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-----IQGICYGDMQVTLDTQKGSNA 187 + P+T + Y V+ + D +L + G+ G QV + + NA Sbjct: 156 AVTDPATGPDKTYHVQVDCRPDALQLARMHDGVADTDPESDGSLLRAKQVRVLREGERNA 215 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 W+ + L EG+NR+I+++ V RL+R++ GP +G L GS R +S +R Sbjct: 216 WLEIVLDEGRNRQIRRLLAALEIGVLRLVRVAIGPLAMGELGKGSWRLLSAAEVR 270 >gi|237741726|ref|ZP_04572207.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 4_1_13] gi|294785660|ref|ZP_06750948.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 3_1_27] gi|229429374|gb|EEO39586.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 4_1_13] gi|294487374|gb|EFG34736.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 3_1_27] Length = 234 Score = 106 bits (264), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 79/238 (33%), Positives = 131/238 (55%), Gaps = 24/238 (10%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AE 71 R++K ++ GIASRR +++ I + R+ VNG +++ D+I +DG ++ E Sbjct: 1 MRINKFLSTLGIASRRTIDKYIEEGRITVNG-NTAITGMDISENDNIFIDGEKIKTNIDE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + ++ +KP+ ++++ SD GR TV D L R+ VGRLD T GL+LLTNDG L Sbjct: 60 KKVYFMLNKPLEVLSSSSDNRGRKTVVD-LIKTDKRIFPVGRLDYMTSGLILLTNDGELF 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV----------IQGICYGDMQVTLDT 181 + P ++ + Y V+ G++ ++++ LKKG++ I GI Y D Sbjct: 119 NRIVHPKSEIYKKYYVKILGEIKKEEIEELKKGVLLDDSKTLPAKISGIKY-------DK 171 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 K S + + +REG+NR+I+++ E F +KV L R G LG L G RE++K+ Sbjct: 172 NKTS---MYISIREGRNRQIRRMIEKFGYKVLMLRREKIGELSLGDLPEGKYRELTKQ 226 >gi|154345736|ref|XP_001568805.1| tRNA pseudouridine synthase A [Leishmania braziliensis MHOM/BR/75/M2904] gi|134066147|emb|CAM43937.1| putative tRNA pseudouridine synthase A [Leishmania braziliensis MHOM/BR/75/M2904] Length = 692 Score = 106 bits (264), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 76/225 (33%), Positives = 115/225 (51%), Gaps = 8/225 (3%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAERTRLW 76 + + RAG SRRE +IA +V+VN ++ V + D + V G R + RLW Sbjct: 334 RTLPRAGFCSRREAAAIIASGQVRVNNVVERNPFRLVEAQDDVHVAGHQSRLRFAPPRLW 393 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +Y+KP ++ + +D GR+ + + + ++ VG L + G+LLLTNDG L+R LE Sbjct: 394 MYNKPANVIVSRNDVAGRTLITKHARILGMDHLVPVGSLPMRAHGILLLTNDGELSRFLE 453 Query: 136 LPSTQWLRVYRVRFH---GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P + R Y +R G V KLN +GI I G Y + + ++ S V V Sbjct: 454 SPKSMVQRTYMLRVRPAFGPVLVHKLN--TEGIQINGRRYRNTEFFVNPATKSRYSVKVK 511 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +R G++ I + + V R RIS+GPF L L GS REV+ Sbjct: 512 VR-GESMPIAHLMQHLGRTVERGGRISFGPFALSNLAVGSVREVT 555 >gi|315453388|ref|YP_004073658.1| putative ribosomal pseudouridine synthase [Helicobacter felis ATCC 49179] gi|315132440|emb|CBY83068.1| putative ribosomal pseudouridine synthase [Helicobacter felis ATCC 49179] Length = 250 Score = 106 bits (264), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 74/238 (31%), Positives = 122/238 (51%), Gaps = 16/238 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ IAR SRR+ + +IA+ +VK+N + D I ++G L+ KA R Sbjct: 2 RLNQFIARYAHCSRRQADTLIAEGKVKINH-QVASFTTPFNKEDKIFIEGRLLKIPKAPR 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + D R T+F++L F+ I VGRLD + GLLLL++ G+A Sbjct: 61 YSVVIYHKPKGELVARRDDRARPTIFESLDRKFAHFIPVGRLDFASSGLLLLSDHSGVAS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT- 190 L + + RVY ++ G + + L ++ GI +G + + +L+ ++ + Sbjct: 121 ALMHSALE--RVYLLKIQGPITPEILEGMQNGICSHKGAHPNNPKQSLELPPFAHCHIIK 178 Query: 191 ---------VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + L EGKNRE+++ F F+ V L R+SYG L L G TR ++ K Sbjct: 179 NHPHFSKLKITLTEGKNRELRRFFAHFDRAVLDLQRVSYGFTHLNALPEGKTRYLNPK 236 >gi|306822735|ref|ZP_07456113.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium dentium ATCC 27679] gi|309801018|ref|ZP_07695150.1| pseudouridylate synthase [Bifidobacterium dentium JCVIHMP022] gi|304554280|gb|EFM42189.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium dentium ATCC 27679] gi|308222554|gb|EFO78834.1| pseudouridylate synthase [Bifidobacterium dentium JCVIHMP022] Length = 257 Score = 106 bits (264), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 71/227 (31%), Positives = 119/227 (52%), Gaps = 4/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A+AG SRR+ E +I RV+++G L+ V + VDG +R Sbjct: 20 RLQKLLAQAGFGSRRKCEEIITDGRVEIDGELITELGTRVDPKHQEVRVDGSRVRVNPNH 79 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TNDG L++ Sbjct: 80 VTLALNKPKRVLSAMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTNDGELSQH 139 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y G++ L+ G+ + G D LD+ + S V V Sbjct: 140 VMHPKYEVEKTYIATLDGRISGTVCRRLVTTGVQLDDGWIKLDRCAILDSSRDS-TLVKV 198 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L GKNR ++++F + V RL+R GP +LG L +G+ R +S+ Sbjct: 199 VLHSGKNRIVRRIFGSIGFPVRRLVRTQIGPIKLGDLKSGTYRVLSQ 245 >gi|242042191|ref|XP_002468490.1| hypothetical protein SORBIDRAFT_01g046770 [Sorghum bicolor] gi|241922344|gb|EER95488.1| hypothetical protein SORBIDRAFT_01g046770 [Sorghum bicolor] Length = 407 Score = 106 bits (264), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 77/230 (33%), Positives = 123/230 (53%), Gaps = 20/230 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAE 71 PQR++KV+A AG+ASRR E +I Q +V VNG + V +S D I V+G + K Sbjct: 157 PQRLAKVLAAAGVASRRTSEELIFQGKVTVNGSVCTSPQTKVDISKDSIYVNGNRISKKL 216 Query: 72 RTRLWL-YHKPIGLVTTHSDPDGRSTV--FDN-----------LPSIFSRVISVGRLDIN 117 +L+ +KP G + + + D +S V F++ LP R+ +VGRLD+ Sbjct: 217 PPKLYFAVNKPKGYICSCGE-DSKSVVSLFNDYLKGWNKIQPGLPK--PRLFTVGRLDVA 273 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQ 176 T GL+++TNDG A+ L PS+ + Y V G V + L + +G I GI C D+ Sbjct: 274 TSGLIIVTNDGEFAQKLAHPSSNVTKEYVVTIDGAVHKKHLIAISEGTKIDGIMCIPDLV 333 Query: 177 VTLDTQKGS-NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +LD Q + + + + EG+N E++++ + +V L R+ G F+L Sbjct: 334 ESLDAQSDTRKTRLKIVVHEGRNHEVRELVQNAGLQVYALKRVRIGRFRL 383 >gi|78046600|ref|YP_362775.1| pseudouridylate synthase [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|78035030|emb|CAJ22675.1| Pseudouridylate synthase [Xanthomonas campestris pv. vesicatoria str. 85-10] Length = 286 Score = 106 bits (264), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 74/235 (31%), Positives = 120/235 (51%), Gaps = 9/235 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R IA RV V+ ++ + I VDG PL R Sbjct: 39 LARVLSKLGVCSRTEAARWIADGRVSVSARVVRDPEFPIRGDQQSSITVDGQPLAGPARC 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP G+VTT D GR TV+ + VGRLD +EGLLL +ND A Sbjct: 99 YLML-NKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAA 157 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNA 187 + P+ + Y V+ + +L L+ G+ +G+ QV++ + NA Sbjct: 158 TVTDPARGPDKTYHVQIDCRPSAAQLTQLQAGVADTDPEGEGVLLRAKQVSVLREGERNA 217 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 W+ + L EG+NR+I+++ + V RL+R++ GP +G L G+ R +S + +R Sbjct: 218 WLEIVLDEGRNRQIRRLLAAVDIGVLRLVRVAIGPLAMGELGKGAWRMLSAEEVR 272 >gi|261749610|ref|YP_003257296.1| hypothetical protein BPLAN_550 [Blattabacterium sp. (Periplaneta americana) str. BPLAN] gi|261497703|gb|ACX84153.1| conserved hypothetical protein [Blattabacterium sp. (Periplaneta americana) str. BPLAN] Length = 255 Score = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 76/241 (31%), Positives = 129/241 (53%), Gaps = 9/241 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K I +E F R++ ++ AGI SRRE +++I ++VNG ++ + V D I Sbjct: 5 MNQKKIEEEKFI--RLNHYLSNAGITSRREADKLIQSGLIEVNGKIVTKFGTVVHKNDVI 62 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 + G ++ ++ + L +KP G +T+ DP R TV + +P+ + R+ VGRLD T Sbjct: 63 KFHGSRIKNKKKIYILL-NKPKGYITSTRDPFNRKTVMNLIPNFQNYRIYPVGRLDRLTT 121 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG + L P + ++Y V + + L+ +++G I + +V + Sbjct: 122 GVLLLTNDGFITEKLTHPKYKIQKIYLVVLNKTIHYQDLDKIRQG----KIYLNEGRVKI 177 Query: 180 D-TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 D K + V +GL G NR I+++F+ ++V +L RI +G F L GS +SK Sbjct: 178 DFLHKYAKNIVKIGLHIGWNRVIRRIFKKLTYQVIKLERIHFGGFTNKNLKIGSWCFLSK 237 Query: 239 K 239 + Sbjct: 238 Q 238 >gi|218667427|ref|YP_002426740.1| RNA pseudouridine synthase family protein [Acidithiobacillus ferrooxidans ATCC 23270] gi|218519640|gb|ACK80226.1| RNA pseudouridine synthase family protein [Acidithiobacillus ferrooxidans ATCC 23270] Length = 264 Score = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 77/236 (32%), Positives = 124/236 (52%), Gaps = 6/236 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGI-LLERAAVNVMSTDHIEVDGVPLRKAERTR 74 +++++++AG+ SR I RV+V+G +L+ A +S I +DG+ + + R Sbjct: 22 LARILSKAGLCSRTVAVEWIRAGRVEVDGRRILDPEARFPLSGPGIRIDGLDITASTRQV 81 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L HKP G++TT D GR+TV+D LP + VGRLD + GLLL +ND A+ L Sbjct: 82 L-LLHKPRGVLTTRQDERGRATVYDLLPG-SPWLAPVGRLDQASSGLLLFSNDPHWAQRL 139 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V+ + D + L V+ G MQ+ G W+ L+ Sbjct: 140 LDPDQHVAKTYHVQIRPPLSTDTVVQLAADSVLDGEPCLPMQIRELRCGGKTQWLEFILQ 199 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV---SKKILREQLGP 247 EG+NR+I+++ + +V RLIR++ G LG L AG R + +++LR+ P Sbjct: 200 EGRNRQIRRLLAACDREVLRLIRVAVGNLPLGELRAGEWRWLHSGEEELLRQTPTP 255 >gi|319787863|ref|YP_004147338.1| pseudouridine synthase [Pseudoxanthomonas suwonensis 11-1] gi|317466375|gb|ADV28107.1| pseudouridine synthase [Pseudoxanthomonas suwonensis 11-1] Length = 268 Score = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 79/222 (35%), Positives = 117/222 (52%), Gaps = 5/222 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 +++V+++AG+ SR E R I RV+V+G ++ + + VDG ER Sbjct: 26 LARVLSKAGLCSRTEAARWIEAGRVQVDGRIVRDPEYPMRHGLRGVLVDGRAPAGPERIY 85 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGG-LAR 132 L L +KP GLVTT D GR TV+ L S + VGRLD +EGLLL +ND AR Sbjct: 86 LAL-NKPRGLVTTARDEQGRDTVYRCLDGSGLPWLAPVGRLDRASEGLLLFSNDPAWAAR 144 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 VL+ P + + Y V+ DQ L L+ G+ G + ++ NAW+ + Sbjct: 145 VLD-PDSGPDKTYHVQVDAIPDQTLLQALRTGVDADGEHLRAVSASVLRTGTRNAWLEIV 203 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 L EG+NR+I+++ F+ V RL+R++ G QLG L G R Sbjct: 204 LDEGRNRQIRRLLAAFDLSVLRLVRVAIGALQLGDLGKGQWR 245 >gi|303236518|ref|ZP_07323103.1| pseudouridylate synthase [Prevotella disiens FB035-09AN] gi|302483266|gb|EFL46276.1| pseudouridylate synthase [Prevotella disiens FB035-09AN] Length = 505 Score = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 74/221 (33%), Positives = 112/221 (50%), Gaps = 14/221 (6%) Query: 8 QENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +ENF P R++K +A AG+ SRRE + I V VNG ++ ++ +D I G Sbjct: 261 EENFDPNEPLRLNKYLANAGVCSRREADEFIQAGVVTVNGEVVNELGTKILRSDVITFKG 320 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLL 123 P+ E+ L +KP VTT DP R TV D + I R+ VGRLD NT G+LL Sbjct: 321 QPV-TLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGICPERIYPVGRLDRNTTGVLL 379 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG LA L P +VY V L + GI ++ D ++ D + Sbjct: 380 LTNDGDLASKLTHPKFLKKKVYHVYLDKPATPQTLQQISDGIELE-----DGEIKADAIE 434 Query: 184 GSN----AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 ++ + V + + GKNR ++++FE ++V +L R+ + Sbjct: 435 YADSLDQSQVGIEIHSGKNRIVRRIFESLGYRVIKLDRVQF 475 >gi|110803687|ref|YP_698469.1| ribosomal large subunit pseudouridine synthase B [Clostridium perfringens SM101] gi|110684188|gb|ABG87558.1| ribosomal large subunit pseudouridine synthase B [Clostridium perfringens SM101] Length = 236 Score = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 67/225 (29%), Positives = 117/225 (52%), Gaps = 2/225 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +AR G+ASRR+ E +I +VKVN +++ V + + + E Sbjct: 3 ERLQKYMARCGVASRRKCEEIICSGKVKVNDTVVDSLGTKVDPSVDVVSVNNKVISPEEN 62 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ + +KP G VTT+ D R T+ D + + R+ +GRLD ++ GLLLLTNDG + Sbjct: 63 KVYIMLNKPEGYVTTNKDEKNRKTILD-IVKVNERIYPIGRLDYDSSGLLLLTNDGDVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G ++++N +KG+ I + ++ L + ++ V + Sbjct: 122 KIIHPRVNLNKEYIALVKGIFTEEEMNKFRKGVDIGDYKTAECEIELLEKYTNSCKVKII 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EGKNR+I+++ FN +V L R + G L L G R +S Sbjct: 182 IHEGKNRQIRRMCAAFNHEVVSLKREAIGSLTLKNLKKGEWRYLS 226 >gi|313202763|ref|YP_004041420.1| RNA-binding s4 domain protein [Paludibacter propionicigenes WB4] gi|312442079|gb|ADQ78435.1| RNA-binding S4 domain protein [Paludibacter propionicigenes WB4] Length = 514 Score = 105 bits (263), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 76/232 (32%), Positives = 117/232 (50%), Gaps = 11/232 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AGI SRRE + I + VNG ++ V V+ TD + +R +ER Sbjct: 278 PIRLNKFLANAGICSRREADEYIQAGVISVNGEIVTEMGVKVLLTDKVMFHEQTVR-SER 336 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT D R TV D + + S R+ VGRLD NT G+LLLTNDG LA Sbjct: 337 KVYLLLNKPKDCVTTSEDTHDRLTVLDLVKNACSERIYPVGRLDRNTTGVLLLTNDGDLA 396 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT----QKGSNA 187 L P ++Y H +D+ L ++ G+ D+ + D ++G Sbjct: 397 SKLTHPKYDKKKIY----HATLDK-PLEKADFETILAGVPLDDVNIAADALEFVKEGDLK 451 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + + G+NR ++++FE +K+ RL R+ + L G R +S++ Sbjct: 452 QVGIEIHSGQNRVVRRIFEKLGYKIIRLDRVYFAGLTKKQLPRGKYRFLSER 503 >gi|257452584|ref|ZP_05617883.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. 3_1_5R] gi|317059124|ref|ZP_07923609.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. 3_1_5R] gi|313684800|gb|EFS21635.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. 3_1_5R] Length = 235 Score = 105 bits (263), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 71/226 (31%), Positives = 113/226 (50%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + G+ SR+EV+ ++ ++++VNG+ + N+ G + R Sbjct: 2 RIDKFLVECGVGSRKEVKELLKSRKIRVNGLFITSPKENIEEEKDEVYYGEKKLSYQEFR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ HK G VT D +TV D LP I + VGRLD +TEGLLL TNDG L Sbjct: 62 YYILHKKAGYVTALEDSR-EATVMDLLPEWVIKKDLAPVGRLDKDTEGLLLFTNDGKLNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-VTLDTQKGSNAWVTV 191 L P + + Y + ++ L L++G++I G+ + + +K + + + Sbjct: 121 RLLSPKSHVDKTYHASLECDITEEALEKLREGVMI-----GEYKTLPAKAEKLEDRKIAL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +REGK ++KK+ E KV L RIS+G LG L G +EVS Sbjct: 176 TIREGKFHQVKKMLEAVGNKVIYLKRISFGKLVLGDLELGEVKEVS 221 >gi|237744301|ref|ZP_04574782.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. 7_1] gi|256027971|ref|ZP_05441805.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. D11] gi|289765917|ref|ZP_06525295.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. D11] gi|229431530|gb|EEO41742.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. 7_1] gi|289717472|gb|EFD81484.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. D11] Length = 226 Score = 105 bits (263), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 77/226 (34%), Positives = 119/226 (52%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + GI SR+EV+++I+ + VNGI A N+ ++D IE + L + ++ Sbjct: 2 RLDKFLVECGIGSRKEVKKLISNNEITVNGISNISAKDNIDENSDIIEYNEEKL-EYKKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++ +K G +T D +TV D LP I + VGRLD +TEGLLL TNDG L Sbjct: 61 RYYIMNKKSGYITATEDF-KENTVMDLLPEWVIKKDLAPVGRLDKDTEGLLLFTNDGKLN 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P +VY V + + + L++G+ I +V +K S+ + + Sbjct: 120 HKLLSPKNHVDKVYYVEIKNNISDEDIFKLEQGVDIGNYITQPAKV----EKISDNEIYL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++EGK +IKK+ E N KV L R+S+G +L L G REV+ Sbjct: 176 TIKEGKFHQIKKMLEAINNKVCYLKRVSFGRLKLNDLALGEVREVN 221 >gi|325918949|ref|ZP_08181018.1| pseudouridine synthase family protein [Xanthomonas vesicatoria ATCC 35937] gi|325534836|gb|EGD06763.1| pseudouridine synthase family protein [Xanthomonas vesicatoria ATCC 35937] Length = 244 Score = 105 bits (263), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 74/227 (32%), Positives = 116/227 (51%), Gaps = 9/227 (3%) Query: 19 VIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERTRLW 76 ++++ G+ SR E R IA+ RV V+ ++ + + H I VDG PL R L Sbjct: 1 MLSKLGVCSRTEAARWIAEGRVSVDARVIHDPEFPIRADQHEAITVDGQPLAGPARVYLM 60 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L +KP G+VTT D GR TV+ + VGRLD +EGLLL +ND A + Sbjct: 61 L-NKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAAAVT 119 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNAWVT 190 P+ + Y V+ + ++L L+ G++ G QV L + NAW+ Sbjct: 120 DPAIGPDKTYHVQVDCRPGAEQLAQLQAGVIDPAPDGDGALLRAKQVRLLREGERNAWLE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L EG+NR+I+++ + V RL+R++ GP +G L G+ R +S Sbjct: 180 IVLDEGRNRQIRRLLAAVDIGVLRLVRVAIGPLAMGELGKGAWRMLS 226 >gi|198284085|ref|YP_002220406.1| pseudouridine synthase [Acidithiobacillus ferrooxidans ATCC 53993] gi|198248606|gb|ACH84199.1| pseudouridine synthase [Acidithiobacillus ferrooxidans ATCC 53993] Length = 268 Score = 105 bits (263), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 77/236 (32%), Positives = 124/236 (52%), Gaps = 6/236 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGI-LLERAAVNVMSTDHIEVDGVPLRKAERTR 74 +++++++AG+ SR I RV+V+G +L+ A +S I +DG+ + + R Sbjct: 26 LARILSKAGLCSRTVAVEWIRAGRVEVDGRRILDPEARFPLSGPGIRIDGLDITASTRQV 85 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L HKP G++TT D GR+TV+D LP + VGRLD + GLLL +ND A+ L Sbjct: 86 L-LLHKPRGVLTTRQDERGRATVYDLLPG-SPWLAPVGRLDQASSGLLLFSNDPHWAQRL 143 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V+ + D + L V+ G MQ+ G W+ L+ Sbjct: 144 LDPDQHVAKTYHVQIRPPLSTDTVVQLAADSVLDGEPCLPMQIRELRCGGKTQWLEFILQ 203 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV---SKKILREQLGP 247 EG+NR+I+++ + +V RLIR++ G LG L AG R + +++LR+ P Sbjct: 204 EGRNRQIRRLLAACDREVLRLIRVAVGNLPLGELRAGEWRWLHSGEEELLRQTPTP 259 >gi|302345864|ref|YP_003814217.1| pseudouridylate synthase [Prevotella melaninogenica ATCC 25845] gi|302150213|gb|ADK96475.1| pseudouridylate synthase [Prevotella melaninogenica ATCC 25845] Length = 514 Score = 105 bits (263), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 75/218 (34%), Positives = 108/218 (49%), Gaps = 8/218 (3%) Query: 8 QENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +EN+ P R++K +A AG+ SRRE + I V VNG +++ VM TD + Sbjct: 270 EENYDPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVMRTDEVYFQD 329 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLL 123 L E+ L +KP VTT DP R TV D + R+ VGRLD NT G+LL Sbjct: 330 K-LVSLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDRNTTGVLL 388 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQ 182 LTNDG LA L P +VY V + + L + GI ++ G D D Q Sbjct: 389 LTNDGDLASKLTHPKFLKKKVYHVFLDKAITANDLQKISDGIELEDGEIKADAIEYADPQ 448 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 V + + GKNR ++++FE ++V +L R+ + Sbjct: 449 --DQTQVGIEIHSGKNRIVRRIFESLGYRVVKLDRVQF 484 >gi|149926779|ref|ZP_01915039.1| propable 16S pseudouridylate synthase [Limnobacter sp. MED105] gi|149824708|gb|EDM83924.1| propable 16S pseudouridylate synthase [Limnobacter sp. MED105] Length = 342 Score = 105 bits (263), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 76/244 (31%), Positives = 120/244 (49%), Gaps = 26/244 (10%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + F PQR+SK++A G+ SRRE + +I V+VNG +++ V+ T I++D Sbjct: 99 DPFEPQRLSKIMAAKGLCSRREADYLIENGWVRVNGKVVDELGAKVLPTVTIDLDARAKN 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGR------------------STVFDNLPSIFSRVIS 110 + LYHKPIG+V+ P+GR ST F P++ + Sbjct: 159 VLGKQVTILYHKPIGVVSGQ--PEGRYKAAMECLSLENQADRKTSTPFQ--PAMLKGLAP 214 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++ L +L+ G+ + G Sbjct: 215 AGRLDIDSTGLLVLTQDGRIAKQLIDANSTVEKEYLVRVEGELTDRGLEMLRYGLSLDGE 274 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +V+ + + L EGK R+I+++ E KV L R+ G LG L Sbjct: 275 ALKPARVSWQNED----QLRFILNEGKKRQIRRMCEIVGLKVVGLKRVRIGRVMLGDLPV 330 Query: 231 GSTR 234 G R Sbjct: 331 GQWR 334 >gi|325925343|ref|ZP_08186745.1| pseudouridine synthase family protein [Xanthomonas perforans 91-118] gi|325544221|gb|EGD15602.1| pseudouridine synthase family protein [Xanthomonas perforans 91-118] Length = 264 Score = 105 bits (263), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 74/235 (31%), Positives = 120/235 (51%), Gaps = 9/235 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R IA RV V+ ++ + I VDG PL R Sbjct: 17 LARVLSKLGVCSRTEAARWIADGRVSVSARVVRDPEFPIRGDQQSSITVDGQPLAGPARC 76 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP G+VTT D GR TV+ + VGRLD +EGLLL +ND A Sbjct: 77 YLML-NKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAA 135 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNA 187 + P+ + Y V+ + +L L+ G+ +G+ QV++ + NA Sbjct: 136 TVTDPARGPDKTYHVQIDCRPSAAQLTQLQAGVADTDPEGEGVLLRAKQVSVLREGERNA 195 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 W+ + L EG+NR+I+++ + V RL+R++ GP +G L G+ R +S + +R Sbjct: 196 WLEIVLDEGRNRQIRRLLAAVDIGVLRLVRVAIGPLAMGELGKGAWRMLSAEEVR 250 >gi|256845054|ref|ZP_05550512.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 3_1_36A2] gi|256718613|gb|EEU32168.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 3_1_36A2] Length = 234 Score = 105 bits (263), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 78/236 (33%), Positives = 127/236 (53%), Gaps = 24/236 (10%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 R++K ++ GIASRR ++R I + R+ VNG +++ D+I +DG + E Sbjct: 1 MRINKFLSTLGIASRRTIDRYIEEGRITVNG-NTATTGMDISGNDNIFIDGKKIETNIDE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP+ ++++ SD GR TV D L R+ +GRLD T GL+LLTNDG L Sbjct: 60 EKIYFMLNKPLEVLSSSSDDRGRKTVVD-LIKTDKRIFPIGRLDYMTSGLILLTNDGDLF 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV----------IQGICYGDMQVTLDT 181 + P ++ + Y V+ G++ ++++ LKKG++ I GI Y D Sbjct: 119 NRIVHPKSEIYKKYYVKIFGEIKKEEIEELKKGVLLDDGKTLPAKISGIKY-------DK 171 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 K S + + +REG+NR+I+++ E F +KV L R G LG L G RE++ Sbjct: 172 NKTS---MYISIREGRNRQIRRMIEKFGYKVLMLKREKIGELSLGDLPEGKYRELT 224 >gi|68535954|ref|YP_250659.1| putative pseudouridylate synthase [Corynebacterium jeikeium K411] gi|260578661|ref|ZP_05846569.1| RNA pseudouridylate synthase [Corynebacterium jeikeium ATCC 43734] gi|68263553|emb|CAI37041.1| putative pseudouridylate synthase [Corynebacterium jeikeium K411] gi|258603158|gb|EEW16427.1| RNA pseudouridylate synthase [Corynebacterium jeikeium ATCC 43734] Length = 290 Score = 105 bits (263), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 77/233 (33%), Positives = 122/233 (52%), Gaps = 6/233 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A AG+ASRR E++IA RV+VNG ++ + + S D + VDG ++ E Sbjct: 51 RLQKVLASAGVASRRMSEKLIAAGRVEVNGEVVVKMGTRIDPSVDIVRVDGERVQVNEEM 110 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+ +T SD GR V D + + + VGRLD TEGLLLLTNDG L Sbjct: 111 VYFVLNKPRGVHSTMSDDLGRPCVGDLVGTRLKEGQGLFHVGRLDAQTEGLLLLTNDGEL 170 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + + Y G+ + + LK G+ + GI D +D +G + + Sbjct: 171 ANRLMHPKYEVKKTYMATVLGEASRKLIRELKDGVELDDGIARADSVQIVDVWQG-KSLI 229 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V L EG+ ++++ + + V L+R QLG G+ R +++ L+ Sbjct: 230 KVELHEGRKHIVRRMLKEAGFPVQALVRTKIHTVQLGEQKPGTIRALNQAELQ 282 >gi|281425341|ref|ZP_06256254.1| ribosomal large subunit pseudouridine synthase B [Prevotella oris F0302] gi|281400504|gb|EFB31335.1| ribosomal large subunit pseudouridine synthase B [Prevotella oris F0302] Length = 234 Score = 105 bits (262), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 73/226 (32%), Positives = 113/226 (50%), Gaps = 5/226 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K +A AG+ SRRE + I+ V VNG ++ V+ +D ++ L E+ Sbjct: 1 MNKYLANAGVCSRREADEFISAGVVSVNGTVVTELGTKVLRSDEVKFHD-QLVSLEKKVY 59 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA L Sbjct: 60 VLLNKPKDYVTTSDDPQQRKTVMDLVKDVCPERIYPVGRLDRNTTGVLLLTNDGDLASKL 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVGL 193 P +VY V V ++ L + GI ++ G + D D + V + + Sbjct: 120 THPKFLKKKVYHVHLDKNVAEEDLQKIASGIELEDGEIHADAIEYADDR--DKKQVGIEI 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 GKNR ++++FE ++V RL R+ + L G R ++++ Sbjct: 178 HSGKNRIVRRIFESLGYRVVRLDRVQFAGLTKKNLRRGDWRFLTEQ 223 >gi|255535111|ref|YP_003095482.1| Ribosomal large subunit pseudouridine synthase B [Flavobacteriaceae bacterium 3519-10] gi|255341307|gb|ACU07420.1| Ribosomal large subunit pseudouridine synthase B [Flavobacteriaceae bacterium 3519-10] Length = 371 Score = 105 bits (262), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 65/209 (31%), Positives = 113/209 (54%), Gaps = 5/209 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +GI SRRE + +I Q V+VNG ++ V TD + DG + E+ Sbjct: 140 RLNKYIANSGICSRREADELITQGLVQVNGAVVTEMGYQVQKTDKVIFDGQGI-TPEKPV 198 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G ++T D R TV D + + RV VGRLD +T G++LLTNDG + + Sbjct: 199 YVLLNKPKGYISTTKDEKARKTVMDLVANASPYRVFPVGRLDRSTTGVILLTNDGHMTKK 258 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L PS ++Y V ++D+ LN + +G+ + +G+ D ++ + + + + Sbjct: 259 LTHPSFNMKKIYHVTLDRKLDRADLNAIAEGVRLEEGVAEVDSISYIEGKPKNEVGIEIH 318 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYG 221 + G NR ++++F+ ++V L R+ + Sbjct: 319 I--GWNRVVRRIFQRLGYEVEALDRVMFA 345 >gi|171779572|ref|ZP_02920528.1| hypothetical protein STRINF_01409 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] gi|171281674|gb|EDT47108.1| hypothetical protein STRINF_01409 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] Length = 238 Score = 105 bits (262), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 76/240 (31%), Positives = 133/240 (55%), Gaps = 13/240 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K++ +AG SR +V+++I ++V V+G L E +NV S I V G L ++ Sbjct: 2 RLDKLLGQAGFGSRNQVKKLIRSRQVYVDGRLAEADNLNVEPSLQEIMVSGKRLEQSTE- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 + ++ +KP G+V+ SD + TV D + R+ VGRLD +TEGLLL+TN+G L Sbjct: 61 KYFILNKPAGVVSAVSDKE-HQTVIDLIAEADRVPRLYPVGRLDRDTEGLLLITNNGLLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICY-GDMQVTLDTQKGSNAW 188 + P + Y V +G + +D + G+ +C ++++ + + S+A+ Sbjct: 120 FRMLHPKYHVTKTYYVEVNGLLAEDAPAFFENGVTFDDGTVCKPANLEIIEASSEKSSAY 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS---KKILREQL 245 +++ EGK ++KK+F + KV L R+++G F+LG L G RE++ K+IL+ L Sbjct: 180 ISIA--EGKFHQVKKMFLAYGVKVIYLKRMTFGDFELGDLPRGQYRELNTKEKEILKNYL 237 >gi|261880058|ref|ZP_06006485.1| ribosomal large subunit pseudouridine synthase B [Prevotella bergensis DSM 17361] gi|270333299|gb|EFA44085.1| ribosomal large subunit pseudouridine synthase B [Prevotella bergensis DSM 17361] Length = 253 Score = 105 bits (262), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 73/232 (31%), Positives = 117/232 (50%), Gaps = 11/232 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AGI SRRE + I V VNG ++ V+ +D ++ P+ E+ Sbjct: 17 PLRLNKFLANAGICSRREADEFIQAGVVTVNGEVVTELGTKVLRSDEVKFRDQPV-TLEK 75 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + R+ VGRLD NT G+LLLTNDG +A Sbjct: 76 KVYVLLNKPKNYVTTSDDPQQRKTVMDLVKDACPERIYPVGRLDRNTTGVLLLTNDGDMA 135 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN----A 187 L P +VY V + + L + +GI ++ D ++ D + +N + Sbjct: 136 SKLTHPKFLKKKVYHVFLDKNIGVEDLQKIAEGIELE-----DGEIHADAVEYANENDKS 190 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + + G+NR ++++FE ++V RL R+ + L G R ++++ Sbjct: 191 QVGIEIHSGRNRIVRRIFEALGYRVVRLDRVLFAGLTKKNLRRGDWRFLTEQ 242 >gi|319949182|ref|ZP_08023271.1| pseudouridylate synthase [Dietzia cinnamea P4] gi|319437168|gb|EFV92199.1| pseudouridylate synthase [Dietzia cinnamea P4] Length = 252 Score = 105 bits (262), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 80/235 (34%), Positives = 122/235 (51%), Gaps = 6/235 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLR 68 + P R+ K++A+AG+ASRR E +IA+ RV+V+G ++ V V +T I VDG + Sbjct: 8 DGAPVRLQKILAQAGVASRRASEDLIARGRVEVDGKIVREMGVKVDPATAVIRVDGTRIV 67 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLT 125 + +KP G TT SD GR V D + R+ VGRLD +TEGLLL+T Sbjct: 68 LDDTLVHLALNKPRGYHTTMSDEMGRPCVGDLVADRIDAGQRLFHVGRLDADTEGLLLVT 127 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG 184 NDG LA L PS + + Y G V + L++G+ ++ G D LD G Sbjct: 128 NDGELAHRLMHPSYEVSKTYMATVTGVVGKGIGKQLREGVELEDGPAKVDQFSLLDVHDG 187 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V V L EG+ ++++ V L+R +G LG AG+ R+++++ Sbjct: 188 -RSLVKVVLHEGRKHIVRRLLAEVGHPVESLVRTRFGSVALGDQRAGTFRKLNRR 241 >gi|322517216|ref|ZP_08070098.1| ribosomal small subunit pseudouridine synthase A [Streptococcus vestibularis ATCC 49124] gi|322124203|gb|EFX95727.1| ribosomal small subunit pseudouridine synthase A [Streptococcus vestibularis ATCC 49124] Length = 239 Score = 105 bits (262), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 80/240 (33%), Positives = 124/240 (51%), Gaps = 10/240 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ +AG SR +V+++I ++V V+G+L +R +NV S I V G L A Sbjct: 2 RLDKLLGQAGYGSRNQVKKLIRSRQVYVDGVLADRDNLNVDASLQSITVSGKELEHAPEV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+V+ SD TV D + R + VGRLD +TEGL+L+TN+G L Sbjct: 62 -YYLMNKPAGVVSARSDKK-HQTVIDLIKPEDQREGLYPVGRLDRDTEGLVLITNNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 + P + Y V + + D + G+V + G Q+ + + + Sbjct: 120 FAMLHPRYHVAKTYYVEVNDILGPDTPAFFESGVVFEDGTICKSAQLEILSSASDKSCAR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTR---EVSKKILREQLG 246 + + EGK ++KK+F + KV L RIS+G F+L +A GS R E K ILR LG Sbjct: 180 ITISEGKFHQVKKMFLAYGVKVTYLKRISFGAFKLDEGIAVGSYRALTEAEKVILRTYLG 239 >gi|255021078|ref|ZP_05293131.1| pseudouridylate synthase [Acidithiobacillus caldus ATCC 51756] gi|254969492|gb|EET27001.1| pseudouridylate synthase [Acidithiobacillus caldus ATCC 51756] Length = 247 Score = 105 bits (262), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 72/224 (32%), Positives = 119/224 (53%), Gaps = 3/224 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 +++V+++ G+ SR + I RV V+G ++ D I +DG+P ++A R Sbjct: 6 LARVLSKWGLCSRTVAAQWIRAGRVAVDGRIVRDPEAPQRGLDLWISIDGIPQQRARRQV 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L + HK G+V + SD GR TVF ++P + +GRLD + GLLL +ND ++ L Sbjct: 66 L-MLHKKRGVVVSRSDERGRPTVFADIPQ-EPWLAPIGRLDRASSGLLLFSNDPIWSQRL 123 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P+ + YRV+ + + L+ + V+ G M+V G W+ L+ Sbjct: 124 LDPAGHLPKTYRVQIRPPLAAEALHHIATASVLDGRPCLPMEVRAVACGGKTQWLEFVLQ 183 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EG+NR+I+++ E +V RLIRI++G LG L GS R +S+ Sbjct: 184 EGRNRQIRRLLEAQGVEVLRLIRIAFGSVILGDLAPGSWRWLSE 227 >gi|282891010|ref|ZP_06299515.1| hypothetical protein pah_c045o010 [Parachlamydia acanthamoebae str. Hall's coccus] gi|281499003|gb|EFB41317.1| hypothetical protein pah_c045o010 [Parachlamydia acanthamoebae str. Hall's coccus] Length = 261 Score = 105 bits (262), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 75/233 (32%), Positives = 117/233 (50%), Gaps = 7/233 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T QR+SKV+A AG+ASRR E +I V VNG + V D I G + K + Sbjct: 31 TKQRLSKVMAAAGVASRRACEMLIFDGCVTVNGEVTLVPQTLVDENDVITCKGQSVGKKQ 90 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KPIG + ++ V D ++ R+ +VGRLD +T GL+++TNDG A Sbjct: 91 NKVYYILNKPIGYICSNKRNKDSKIVLDLFDTVEERLFTVGRLDKDTSGLIIVTNDGHFA 150 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + PS + Y V+ + +V+ + L+ L G +++ ++V+ K + + Sbjct: 151 NRVIHPSANIHKEYLVKTNEEVEAEHLSALSSGTLVEKTFVRPIRVS----KVRRGTLKI 206 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EGK REI+ + E V L RI G LG L G RE++ REQ Sbjct: 207 TIAEGKKREIRLLMESAKLPVLELTRIRIGGLHLGPLQPGEWREMTA---REQ 256 >gi|329737424|gb|EGG73678.1| S4 domain protein [Staphylococcus epidermidis VCU028] Length = 180 Score = 105 bits (262), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 57/155 (36%), Positives = 91/155 (58%), Gaps = 1/155 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + RVKVNG + VM +D +EVDG+ + + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAEVLITEGRVKVNGQTVTELGSKVMPSDLVEVDGIKIEQEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY KP ++T+ SD GR V D + SR+ VGRLD +T G+LLLTNDG + Sbjct: 66 YILLY-KPTQVITSVSDDRGRRVVTDYFDDLESRIYPVGRLDYDTSGVLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + P + Y + G + ++++ L+KGI ++ Sbjct: 125 MTHPRYHIKKKYVAKLKGYLMREEIKQLEKGIELE 159 >gi|315639358|ref|ZP_07894520.1| RNA pseudouridine synthase [Campylobacter upsaliensis JV21] gi|315480684|gb|EFU71326.1| RNA pseudouridine synthase [Campylobacter upsaliensis JV21] Length = 253 Score = 105 bits (262), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 73/234 (31%), Positives = 120/234 (51%), Gaps = 17/234 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ SRRE + +I Q VK+N + + + V D I + + K + Sbjct: 2 RINKFLSHNTSYSRREADELIKQGLVKINQKIAQLSD-EVKEEDKIFLKNKRIHKKTQFS 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T+++NLP FS +SVGRLD +EGLLLLT+ +A L Sbjct: 61 VIIYHKQKGELVSRKDDRGRKTIYENLPKNFSTWLSVGRLDYASEGLLLLTDSPVIADAL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT----------LDTQ-- 182 + R Y ++ GQ+ + + ++ G+ IQ G T LD + Sbjct: 121 MHSDLE--REYYLKIKGQISKKVIEAMQNGLEIQNSTKGAHAKTKINSMKFAPFLDFEIF 178 Query: 183 --KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 G + V + EG+NRE+++ F +F+ +V L R+++G +LG L AG R Sbjct: 179 GWSGGYTKLRVVINEGQNRELRRFFGYFDLEVMDLKRVAFGIVELGMLKAGKYR 232 >gi|333029320|ref|ZP_08457381.1| pseudouridine synthase Rsu [Bacteroides coprosuis DSM 18011] gi|332739917|gb|EGJ70399.1| pseudouridine synthase Rsu [Bacteroides coprosuis DSM 18011] Length = 437 Score = 105 bits (262), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 74/229 (32%), Positives = 116/229 (50%), Gaps = 5/229 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG +++ V +D ++ +G L E+ Sbjct: 201 PIRLNKYLANAGVCSRREADEFIETGAVTVNGEIVKELGTKVKRSDEVKFNG-ELVSIEK 259 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD T G+LLLTNDG LA Sbjct: 260 KVYVLLNKPKDCVTTMDDPQERQTVMDFVKNACDERIYPVGRLDRKTTGVLLLTNDGDLA 319 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P ++Y V + + L + +GI ++ G+ D D K + V Sbjct: 320 SKLTHPKYDKKKIYHVTLDRNIVKADLEKIAEGIELEDGLIKADEVGYTDEFKRNQ--VG 377 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + GKNR ++++FE ++V +L R+ + L G R +S++ Sbjct: 378 IEIHSGKNRIVRRIFESLGYRVTKLDRVYFAGLTKKGLRRGQWRYLSEQ 426 >gi|46200149|ref|YP_005816.1| ribosomal small subunit pseudouridine synthase A [Thermus thermophilus HB27] gi|55980117|ref|YP_143414.1| ribosomal large subunit pseudouridine synthase B [Thermus thermophilus HB8] gi|46197777|gb|AAS82189.1| ribosomal small subunit pseudouridine synthase A [Thermus thermophilus HB27] gi|55771530|dbj|BAD69971.1| ribosomal large subunit pseudouridine synthase B [Thermus thermophilus HB8] Length = 243 Score = 105 bits (262), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 75/226 (33%), Positives = 118/226 (52%), Gaps = 8/226 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+AR G+ SR+EV R++ Q +V+V G +++ V +EV+G PL + R Sbjct: 4 ERLDKVLARLGLGSRKEVARLVRQGKVRVLGQVVKDPGFRVPEGAALEVEGRPL-EVRRH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLAR 132 L HKP G VT+ ++ +V+ L +R +S VGRLD + EGLLL T DG L Sbjct: 63 LHVLLHKPPGFVTSRTE---GPSVYALLQGFPTRDLSPVGRLDKDAEGLLLFTTDGLLLH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y V V ++GI++ G ++ T W V Sbjct: 120 RLTHPRHKVAKRYLVHLERPVGPKDQEAFREGILLDGKKTLPAEL---TPLEDPTWAEVV 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L+EG+ +IK++F +V RL R++ GP +LG L G R +++ Sbjct: 177 LKEGRFHQIKRMFRARGNRVLRLKRLALGPLELGDLPPGKARPLTE 222 >gi|237752429|ref|ZP_04582909.1| RNA pseudouridine synthase [Helicobacter winghamensis ATCC BAA-430] gi|229375918|gb|EEO26009.1| RNA pseudouridine synthase [Helicobacter winghamensis ATCC BAA-430] Length = 262 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 68/234 (29%), Positives = 117/234 (50%), Gaps = 16/234 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ IA SRRE +R+I + +V +N ++ + V + ++G LR+ ++ Sbjct: 2 RLNQYIAHHSKFSRREADRLIKEGKVTINKEVVSDFSYQVDKNTKVYLNGKCLREQDQYS 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +Y+KP G + + D GR ++D+LP FS VGRLD +EGLLLL++ + R Sbjct: 62 VIVYNKPKGELVSKRDDRGRRVIYDSLPKRFSHFKPVGRLDFASEGLLLLSDSVKVVR-- 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD--------------MQVTLD 180 L ++ RVY ++ G + + ++ GI ++ G + T Sbjct: 120 SLMESELERVYLLKLSGLIKDSVFDAMESGITLEDASAGGHSKSKIKAMEFAPFVGYTCI 179 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + V L+EGKNRE+++ F F +V L RI+YG L L +G R Sbjct: 180 KNTPKYSKIKVILKEGKNRELRRFFAHFGLEVLDLKRIAYGFVHLNNLPSGKVR 233 >gi|34763151|ref|ZP_00144119.1| Ribosomal large subunit pseudouridine synthase B [Fusobacterium nucleatum subsp. vincentii ATCC 49256] gi|27887180|gb|EAA24283.1| Ribosomal large subunit pseudouridine synthase B [Fusobacterium nucleatum subsp. vincentii ATCC 49256] Length = 234 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 78/238 (32%), Positives = 131/238 (55%), Gaps = 24/238 (10%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AE 71 R++K ++ GIASRR +++ I + R+ VNG +++ D+I +DG ++ E Sbjct: 1 MRINKFLSTLGIASRRTIDKYIEEGRITVNG-NTAITGMDISENDNIFIDGEKIKTNIDE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + ++ +KP+ ++++ SD GR TV D L R+ VGRLD T GL+LLTNDG L Sbjct: 60 KKVYFMLNKPLEVLSSSSDNRGRKTVVD-LIKTDKRIFPVGRLDYMTSGLILLTNDGELF 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV----------IQGICYGDMQVTLDT 181 + P ++ + Y V+ G++ ++++ LKKG++ I GI Y D Sbjct: 119 NRIVHPKSEIYKKYYVKILGEIKKEEIEELKKGVLLDDSKTLPAKISGIKY-------DK 171 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 K S + + +REG+NR+I+++ E F ++V L R G LG L G RE++K+ Sbjct: 172 NKTS---MYISIREGRNRQIRRMIEKFEYRVLMLRREKIGELSLGDLPEGKYRELTKQ 226 >gi|322379744|ref|ZP_08054054.1| pseudouridine synthase [Helicobacter suis HS5] gi|321147815|gb|EFX42405.1| pseudouridine synthase [Helicobacter suis HS5] Length = 257 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 76/239 (31%), Positives = 121/239 (50%), Gaps = 17/239 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER-- 72 R+++ IA SRR+ +++I + +VK+N L A D I V+G L E+ Sbjct: 7 RLNQFIAHNLPCSRRQADKLIKEGKVKINH-QLASFATPFSPYDKIFVEGRMLNSYEKRS 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + D GR T+F++L S F +GRLD + GLLLL++ + Sbjct: 66 YTVLVYHKPKGELVSRIDHRGRKTIFESLESKFRHFTPIGRLDFASMGLLLLSDSKQVVN 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-------CYGDMQVT-LDTQKG 184 L S + RVY V+ G + Q L ++ G+ +QG+ Y M + + Q Sbjct: 126 ALMHSSLE--RVYLVKIQGNITQTMLEAMQTGLELQGLEGAHPKSKYTRMHIAPMACQIL 183 Query: 185 SN----AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 N + + + L+EG NREI++ F F +V L R+S+G L L G TR ++ K Sbjct: 184 KNHRNYSKIKITLQEGHNREIRRFFAHFKKEVLDLRRVSFGFVSLNALPVGKTRYLNPK 242 >gi|225378037|ref|ZP_03755258.1| hypothetical protein ROSEINA2194_03697 [Roseburia inulinivorans DSM 16841] gi|225210038|gb|EEG92392.1| hypothetical protein ROSEINA2194_03697 [Roseburia inulinivorans DSM 16841] Length = 261 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 73/220 (33%), Positives = 114/220 (51%), Gaps = 18/220 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K + G+ +R EV++++ +++ VNG ++ + V D I G P+ E Sbjct: 26 RLDKFLTEMGLGTRSEVKKILKTKQITVNGEIVTKPETKVAPENDQISYKGEPVTYCEY- 84 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L++KP G VT D TV D L ++ S + VGRLDI+TEGLLL+TNDG LA Sbjct: 85 EYYLFYKPAGCVTATED-QLHKTVMDYLTDTVRSDLFPVGRLDIDTEGLLLITNDGALAH 143 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------LDTQKGS 185 L P+ + Y G V + +N + G+ I G+ ++T L ++ S Sbjct: 144 DLLSPAKHVEKTYYAVIDGVVTEKDVNSFENGVDI-----GEEKLTKPGKLRILKSEPES 198 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +T+ EG+ ++K++FE KV L RIS GP QL Sbjct: 199 EIELTI--TEGRFHQVKRMFEAVGKKVLYLKRISMGPLQL 236 >gi|288803207|ref|ZP_06408641.1| ribosomal large subunit pseudouridine synthase B [Prevotella melaninogenica D18] gi|288334248|gb|EFC72689.1| ribosomal large subunit pseudouridine synthase B [Prevotella melaninogenica D18] Length = 514 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 76/218 (34%), Positives = 108/218 (49%), Gaps = 8/218 (3%) Query: 8 QENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +ENF P R++K +A AG+ SRRE + I V VNG +++ V+ TD + Sbjct: 270 EENFDPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVLRTDEVYFQ- 328 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLL 123 L E+ L +KP VTT DP R TV D + R+ VGRLD NT G+LL Sbjct: 329 DKLVSLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDRNTTGVLL 388 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQ 182 LTNDG LA L P +VY V V + L + GI ++ G D D Q Sbjct: 389 LTNDGDLASKLTHPKFLKKKVYHVFLDKAVTANDLQKISDGIELEDGEIKADAIEYADPQ 448 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 V + + GKNR ++++FE ++V +L R+ + Sbjct: 449 --DQTQVGIEIHSGKNRIVRRIFESLGYRVVKLDRVQF 484 >gi|194333285|ref|YP_002015145.1| pseudouridine synthase [Prosthecochloris aestuarii DSM 271] gi|194311103|gb|ACF45498.1| pseudouridine synthase [Prosthecochloris aestuarii DSM 271] Length = 248 Score = 105 bits (261), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 77/232 (33%), Positives = 124/232 (53%), Gaps = 6/232 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R++K +A GIASRRE +R++ V +NG + V V D + V G L E Sbjct: 12 RINKYLALCGIASRRESDRLVEAGEVMINGRIARTQGVKVHPGKDEVVVKGRILALPEEK 71 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ L +KP ++TT+ D R TV D + S+ R+ VGRLD + GLLLLTNDG LA Sbjct: 72 KVYILLNKPRNIITTNRDEKDRETVLD-IVSVPQRIFPVGRLDRKSTGLLLLTNDGDLAH 130 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW-VTV 191 L PS+ + Y + + +L L G+ ++ G+ + + S+ V V Sbjct: 131 RLMHPSSLVEKEYLAQLEKPFLEKELKNLTGGMRLKDT--GEKVSSCKAKLLSDGMQVLV 188 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EGKN +++++F + V +L R+SY ++G L G R ++KK ++E Sbjct: 189 TIHEGKNHQVRRMFWSLGYDVKKLDRVSYAGLKVGRLRRGEWRFLNKKEVKE 240 >gi|172040768|ref|YP_001800482.1| putative pseudouridylate synthase [Corynebacterium urealyticum DSM 7109] gi|171852072|emb|CAQ05048.1| putative pseudouridylate synthase [Corynebacterium urealyticum DSM 7109] Length = 291 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 75/232 (32%), Positives = 122/232 (52%), Gaps = 6/232 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-ERT 73 R+ KV+A AG+ASRR E++IA RV+VNG +++R V + + + + Sbjct: 52 RLQKVLAAAGVASRRMSEKLIAAGRVEVNGKVVDRMGVRIDPNKDVVRVDGVRVQVNDEM 111 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGGL 130 ++++KP G+ +T SD GR +V + + + + VGRLD TEGLLLLTNDG L Sbjct: 112 HYYIFNKPRGVQSTMSDDMGRPSVGNFIDERLKQGQGLFHVGRLDAQTEGLLLLTNDGEL 171 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G+ + ++ LKKGI + GI D +D +G + + Sbjct: 172 ANRLMHPSYEVSKTYMATVLGEAKKGLVHELKKGIELDDGIAKADDVQIVDVWQG-KSLI 230 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EG+ ++++ + + V L+R QLG GS R +++ L Sbjct: 231 KLELHEGRKHIVRRLLKAAGFPVQALVRTKIHTVQLGDQKPGSVRALNRSEL 282 >gi|291522211|emb|CBK80504.1| ribosomal small subunit pseudouridine synthase A [Coprococcus catus GD/7] Length = 250 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 82/235 (34%), Positives = 128/235 (54%), Gaps = 12/235 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKA 70 T R+ K +A + +R EV+ +I + V VNG ++ + V + D + G P+ A Sbjct: 3 TSFRLDKYLADMSVGTRSEVKNLIKKGLVTVNGEVIRKPEYKVDIEKDDLVCRGEPV--A 60 Query: 71 ERTRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTND 127 +T ++ + +KP G+++ +DP + TV D L + SR + VGRLD +TEGLLL+TND Sbjct: 61 YQTLVYYMLNKPAGVISATNDPK-QKTVLD-LITDKSRKDLFPVGRLDKDTEGLLLITND 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDT-QKG 184 G LA L P +VYR R GQV + L KG+ I + + M L+ G Sbjct: 119 GDLAHQLLSPKKHVDKVYRARIEGQVTAEDAALFAKGLGIDDEDGAWRAMPAKLNILSSG 178 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK 238 + + + +REGK +IK++FE + KV L R+S G +L LA G RE+++ Sbjct: 179 PESEIEITIREGKFHQIKRMFEAVDKKVVYLKRLSMGSLRLDETLALGEYRELTE 233 >gi|269218469|ref|ZP_06162323.1| ribosomal large subunit pseudouridine synthase B [Actinomyces sp. oral taxon 848 str. F0332] gi|269211580|gb|EEZ77920.1| ribosomal large subunit pseudouridine synthase B [Actinomyces sp. oral taxon 848 str. F0332] Length = 247 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 73/227 (32%), Positives = 114/227 (50%), Gaps = 1/227 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKA 70 T +R+ KV+AR G+ SRR E +IAQ RV V+G ++ V I VDG+ ++ Sbjct: 8 TGERLQKVLARNGVGSRRACEGLIAQGRVSVDGHVVRELGTRVDPVASVIHVDGIRVQTD 67 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +KP G+V+T D GR + + R+ VGRLD +TEGL+LL+NDG L Sbjct: 68 SSLLTLALYKPPGVVSTMYDDMGRPGLAQYVEDRPERLYHVGRLDQDTEGLILLSNDGEL 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + + Y R G V + +L++GI ++ + L N+ V Sbjct: 128 THRLTHPKYEVPKTYIARVEGSVTRGLGRVLERGITLEDGPARVDRFILRESAPRNSIVE 187 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L G+NR ++++ V L+R+ +G +G L G TR V+ Sbjct: 188 ITLHSGRNRIVRRMMAEVGHPVMELVRMKFGTVVVGHLKPGKTRVVA 234 >gi|312139846|ref|YP_004007182.1| pseudouridylate synthase [Rhodococcus equi 103S] gi|325674277|ref|ZP_08153966.1| ribosomal large subunit pseudouridine synthase B [Rhodococcus equi ATCC 33707] gi|311889185|emb|CBH48499.1| pseudouridylate synthase [Rhodococcus equi 103S] gi|325554957|gb|EGD24630.1| ribosomal large subunit pseudouridine synthase B [Rhodococcus equi ATCC 33707] Length = 321 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 81/225 (36%), Positives = 115/225 (51%), Gaps = 6/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E +I Q RV+V+G I+LE+ + VDG+ + + Sbjct: 82 RLQKVLAQAGVASRRAAEELIDQGRVEVDGRIVLEQGLRVDPENAIVRVDGIRVVVKKDL 141 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 +KP G +T SD GR + D + S R+ VGRLD +TEGL+LLTNDG L Sbjct: 142 VHIALNKPRGWQSTMSDDLGRPCIGDIVSERVSAGQRLFHVGRLDADTEGLILLTNDGDL 201 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G VD++ LK G+ + G D LD G + V Sbjct: 202 AHRLMHPSYEVPKTYLATVQGVVDRNVGKTLKAGVELDDGPAKVDAFTLLDVN-GGKSLV 260 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V L EG+ ++++ E V RL+R G LG G+ R Sbjct: 261 RVVLHEGRKHIVRRLLEAVGHPVVRLVRTDIGNVALGDGRPGTLR 305 >gi|71747592|ref|XP_822851.1| tRNA pseudouridine synthase A [Trypanosoma brucei TREU927] gi|70832519|gb|EAN78023.1| tRNA pseudouridine synthase A, putative [Trypanosoma brucei] Length = 688 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 80/231 (34%), Positives = 116/231 (50%), Gaps = 20/231 (8%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGIL------LERAAVNVMSTDHIEVDGVPLRKAE 71 + + RAG SRRE +IA +V+V+ ++ L RA N+ H+ LR A Sbjct: 348 RCLPRAGFCSRREALAVIASGQVRVDNVVERNPFRLVRAENNI----HVASHSGRLRFAP 403 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGG 129 RLW+YHKP ++ + +D GR+ +F I ++ VG L + GLLLLTNDG Sbjct: 404 -PRLWMYHKPAHVIVSRNDVAGRA-LFTKHARILGMDHLVPVGSLPMRAHGLLLLTNDGE 461 Query: 130 LARVLELPSTQWLRVYRVRFHGQVD---QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 L+R LE P + Y +R VD KLN +GI I G Y +M+ ++ S Sbjct: 462 LSRFLENPKCMIQQTYLLRVRPAVDPVLAHKLNF--QGITINGKQYKNMEFFVNPAMKSR 519 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + V +R G+ + + + V R RIS+GPF L L GS REV+ Sbjct: 520 FSLKVKVR-GEVMPVAHLMQHLGRTVERGGRISFGPFSLSGLPVGSLREVT 569 >gi|261332662|emb|CBH15657.1| tRNA pseudouridine synthase A, putative [Trypanosoma brucei gambiense DAL972] Length = 688 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 80/231 (34%), Positives = 116/231 (50%), Gaps = 20/231 (8%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGIL------LERAAVNVMSTDHIEVDGVPLRKAE 71 + + RAG SRRE +IA +V+V+ ++ L RA N+ H+ LR A Sbjct: 348 RCLPRAGFCSRREALAVIASGQVRVDNVVERNPFRLVRAENNI----HVASHSGRLRFAP 403 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGG 129 RLW+YHKP ++ + +D GR+ +F I ++ VG L + GLLLLTNDG Sbjct: 404 -PRLWMYHKPAHVIVSRNDVAGRA-LFTKHARILGMDHLVPVGSLPMRAHGLLLLTNDGE 461 Query: 130 LARVLELPSTQWLRVYRVRFHGQVD---QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 L+R LE P + Y +R VD KLN +GI I G Y +M+ ++ S Sbjct: 462 LSRFLENPKCMIQQTYLLRVRPAVDPVLAHKLNF--QGITINGKQYKNMEFFVNPAMKSR 519 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + V +R G+ + + + V R RIS+GPF L L GS REV+ Sbjct: 520 FSLKVKVR-GEVMPVAHLMQHLGRTVERGGRISFGPFSLSGLPVGSLREVT 569 >gi|319955817|ref|YP_004167080.1| RNA-binding s4 domain protein [Nitratifractor salsuginis DSM 16511] gi|319418221|gb|ADV45331.1| RNA-binding S4 domain protein [Nitratifractor salsuginis DSM 16511] Length = 263 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 72/249 (28%), Positives = 125/249 (50%), Gaps = 18/249 (7%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-- 64 +++N R++K I+ SRR+ +++I + V VN + ++ V D + V G Sbjct: 1 MKQNEEGMRLNKYISHNTPYSRRDADKLIEEGLVTVNRLPVKDFGYKVRPEDKVAVRGKL 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + RK + +Y+KP G++ T D GR+T++ LP F I VGRLD +EGLLLL Sbjct: 61 IHPRKRGEVTMVVYNKPRGVLVTKRDDRGRTTIYHKLPGKFRHFIPVGRLDYASEGLLLL 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD---------- 174 T++ +A VL ++ R Y ++ + + +K+G++++ G Sbjct: 121 TDNPEVADVLM--GSKLPRTYNLKIDKPLTPEMEKAMKEGLILEDAREGGHKESEITRME 178 Query: 175 ----MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 ++V Q G N + V + EGKNRE+++ F F KV L R+ +G +L L Sbjct: 179 FAPFLEVQYRGQSGKNTKLRVTIAEGKNRELRRFFGHFGAKVLDLKRVGFGWVELNNLPE 238 Query: 231 GSTREVSKK 239 TR +++ Sbjct: 239 NKTRYFTRQ 247 >gi|298373492|ref|ZP_06983481.1| ribosomal large subunit pseudouridine synthase B [Bacteroidetes oral taxon 274 str. F0058] gi|298274544|gb|EFI16096.1| ribosomal large subunit pseudouridine synthase B [Bacteroidetes oral taxon 274 str. F0058] Length = 396 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 77/234 (32%), Positives = 118/234 (50%), Gaps = 16/234 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAE 71 P R++K IA + I SRRE + I V VNG ++ E V +TD + L E Sbjct: 160 PMRLNKFIANSNICSRREADEFIQAGVVSVNGQVVTELGTKIVPATDKVHFHD-QLVSME 218 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGL 130 + L +KP ++TT DP R TV D + + S RV VGRLD NT G+LL+TNDG L Sbjct: 219 KKIYILMNKPKNIITTLDDPKERRTVLDLIKNACSERVYPVGRLDRNTTGVLLITNDGDL 278 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ------VTLDTQKG 184 L P + ++Y VR + + + ++ GIV++ GD++ V D +K Sbjct: 279 TSKLIHPKYEKKKIYHVRLDREFESQDMEAMRSGIVLED---GDIKADDISYVKEDNKK- 334 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V + + GKNR ++++FE +K+ L R+ + L G R +S+ Sbjct: 335 ---EVGIEIHSGKNRIVRRMFEHLGYKIVALDRVYFAGLTKKNLPRGKWRYLSE 385 >gi|260494116|ref|ZP_05814247.1| pseudouridylate synthase [Fusobacterium sp. 3_1_33] gi|260198262|gb|EEW95778.1| pseudouridylate synthase [Fusobacterium sp. 3_1_33] Length = 226 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 76/226 (33%), Positives = 119/226 (52%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + GI SR+EV+++I+ + VNG+ A N+ ++D IE + L + ++ Sbjct: 2 RLDKFLVECGIGSRKEVKKLISNNEITVNGMSNISAKDNIDENSDIIEYNEEKL-EYKKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++ +K G +T D +TV D LP I + VGRLD +TEGLLL TNDG L Sbjct: 61 RYYIMNKKSGYITATEDF-KENTVMDLLPEWVIKKDLAPVGRLDKDTEGLLLFTNDGKLN 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P +VY V + + + L++G+ I +V +K S+ + + Sbjct: 120 HKLLSPKNHVDKVYYVEIKNNISDEDIFKLEQGVDIGNYISQPAKV----EKISDNKIYL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++EGK +IKK+ E N KV L R+S+G +L L G REV+ Sbjct: 176 TIKEGKFHQIKKMLEAINNKVCYLKRVSFGRLKLNDLALGEVREVN 221 >gi|254518907|ref|ZP_05130963.1| pseudouridine synthase [Clostridium sp. 7_2_43FAA] gi|226912656|gb|EEH97857.1| pseudouridine synthase [Clostridium sp. 7_2_43FAA] Length = 242 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 69/232 (29%), Positives = 119/232 (51%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K +AR G+ASRR+ E +I +VK+N ++ V + D + +G + E Sbjct: 3 ERLQKYMARCGVASRRKCEEIILSSKVKINDKVVNELGVKIDPYKDKVFYNGKRILPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ D GR T+ D L + R+ +GRLD ++ GL+LLTNDG + Sbjct: 63 KLYIMLNKPEGYITSVKDEKGRKTILD-LVKVNERIYPIGRLDYDSSGLILLTNDGDIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-DTQKGS-----N 186 + P + + Y G +++ + GI I G + ++ L D +K N Sbjct: 122 KIIHPRVEVEKKYIALCKGVFSDEEIKKFENGIDIGGYITANAKIKLIDKEKDKKTNTVN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + V + + EGKNR+I+K+ +V L R++ G +LG L G R +++ Sbjct: 182 SLVEIIIHEGKNRQIRKMCSALGHEVITLKRVAVGDIKLGYLKRGEWRNLTE 233 >gi|238809688|dbj|BAH69478.1| hypothetical protein [Mycoplasma fermentans PG18] Length = 269 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 80/251 (31%), Positives = 129/251 (51%), Gaps = 19/251 (7%) Query: 1 MKDKNIVQENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLE---RAAVNV 54 M + N + E F + RV K+IA+ G SRR+ E I ++ VKVNG +++ +A+ N Sbjct: 12 MNEINFLVERFAMKELIRVQKLIAQTGYCSRRKAEEYIEKKLVKVNGKIVQLGDKASEN- 70 Query: 55 MSTDHIEVDG--VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 D I+++ + L+K +L +KP ++T DP GR TV D L + R+ VG Sbjct: 71 ---DEIKINNQLISLQKPNFV-YFLLNKPKKTISTVKDPKGRKTVVD-LINYSERIAPVG 125 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLD +T G LLLTND + L P + LR YRVR + + L+ G+++ G Sbjct: 126 RLDYDTTGALLLTNDWEMINKLTHPKYEILRTYRVRIDSPLSLKEFKLINAGLIVNGKFS 185 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + +DT+ V L G IK++F+ N +V L R+S+ + + GS Sbjct: 186 KQIVDQVDTKS-----YLVTLHVGSYHHIKELFKALNHEVINLKRVSFANLTVEKMPEGS 240 Query: 233 TREVSKKILRE 243 R ++ K +++ Sbjct: 241 YRTLTLKEIKD 251 >gi|78188520|ref|YP_378858.1| pseudouridine synthase, Rsu [Chlorobium chlorochromatii CaD3] gi|78170719|gb|ABB27815.1| ribosomal large subunit pseudouridine synthase B [Chlorobium chlorochromatii CaD3] Length = 251 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 74/237 (31%), Positives = 122/237 (51%), Gaps = 16/237 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+++ +A GIASRR ++++ + RV +NG ++ V V S D + +DG + E Sbjct: 14 RINRFLAMCGIASRRAADQLVQEGRVCINGKIVTTPGVKVNPSRDEVIIDGKRFAQPENR 73 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ L +KP ++TT SD R V D + + R+ VGRLD T G++LLTNDG LA Sbjct: 74 KVYILLNKPRNVITTSSDERQREMVLDFI-DVPERIFPVGRLDRKTTGVILLTNDGELAH 132 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI------CYGDMQVTLDTQKGSN 186 L PS+ + Y + L L G+ ++ C + LD Sbjct: 133 KLMHPSSGVKKEYIAELSERFPAAMLGKLTNGMRLKDTGEKVSPCRAKL---LD----DG 185 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V + + EGKN +++++F+ ++V RL R++Y Q G L G R +S+ +RE Sbjct: 186 MRVLLSIHEGKNHQVRRMFDTLGFEVKRLDRVAYAGLQAGELRRGEWRYLSRNEVRE 242 >gi|257466443|ref|ZP_05630754.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium gonidiaformans ATCC 25563] gi|315917599|ref|ZP_07913839.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium gonidiaformans ATCC 25563] gi|313691474|gb|EFS28309.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium gonidiaformans ATCC 25563] Length = 232 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 70/226 (30%), Positives = 113/226 (50%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + G+ SR+EV+ ++ ++++VNG+ + + G + R Sbjct: 2 RIDKFLVECGVGSRKEVKELLKSRKIRVNGLFITSPKETIEEEKDEVYYGEKKLSYQEFR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ HK G VT D +TV D LP I + VGRLD +TEGLLL TNDG L Sbjct: 62 YYILHKKAGYVTALEDSR-EATVMDLLPEWVIKKDLAPVGRLDKDTEGLLLFTNDGKLNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-VTLDTQKGSNAWVTV 191 L P + + Y + ++ L L++G++I G+ + + +K + + + Sbjct: 121 RLLSPKSHVDKTYHASLECDITEEALEKLREGVMI-----GEYKTLPAKAEKLEDRKIAL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +REGK ++KK+ E KV L RIS+G LG L G+ +EVS Sbjct: 176 TIREGKFHQVKKMLEAVGNKVIYLKRISFGKLVLGDLELGAVKEVS 221 >gi|322378546|ref|ZP_08052993.1| Pseudouridine synthase [Helicobacter suis HS1] gi|321149023|gb|EFX43476.1| Pseudouridine synthase [Helicobacter suis HS1] Length = 257 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 76/239 (31%), Positives = 121/239 (50%), Gaps = 17/239 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER-- 72 R+++ IA SRR+ +++I + +VK+N L A D I V+G L E+ Sbjct: 7 RLNQFIAHNLPCSRRQADKLIKEGKVKINR-QLASFATPFSPYDKIFVEGRMLNSYEKRS 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + D GR T+F++L S F +GRLD + GLLLL++ + Sbjct: 66 YTVLVYHKPKGELVSRIDHRGRKTIFESLESKFRHFTPIGRLDFASMGLLLLSDSKQVVN 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-------CYGDMQVT-LDTQKG 184 L S + RVY V+ G + Q L ++ G+ +QG+ Y M + + Q Sbjct: 126 ALMHSSLE--RVYLVKIQGNITQTMLEAMQTGLELQGLEGAHPKSKYTRMHIAPMACQIL 183 Query: 185 SN----AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 N + + + L+EG NREI++ F F +V L R+S+G L L G TR ++ K Sbjct: 184 KNHRNYSKIKITLQEGHNREIRRFFAHFKKEVLDLRRVSFGFVSLNALPVGKTRYLNPK 242 >gi|308189716|ref|YP_003922647.1| Pseudouridylate synthase [Mycoplasma fermentans JER] gi|319776902|ref|YP_004136553.1| pseudouridine synthase [Mycoplasma fermentans M64] gi|307624458|gb|ADN68763.1| predicted Pseudouridylate synthase [Mycoplasma fermentans JER] gi|318037977|gb|ADV34176.1| Pseudouridine synthase [Mycoplasma fermentans M64] Length = 258 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 80/251 (31%), Positives = 129/251 (51%), Gaps = 19/251 (7%) Query: 1 MKDKNIVQENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLE---RAAVNV 54 M + N + E F + RV K+IA+ G SRR+ E I ++ VKVNG +++ +A+ N Sbjct: 1 MNEINFLVERFAMKELIRVQKLIAQTGYCSRRKAEEYIEKKLVKVNGKIVQLGDKASEN- 59 Query: 55 MSTDHIEVDG--VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 D I+++ + L+K +L +KP ++T DP GR TV D L + R+ VG Sbjct: 60 ---DEIKINNQLISLQKPNFV-YFLLNKPKKTISTVKDPKGRKTVVD-LINYSERIAPVG 114 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLD +T G LLLTND + L P + LR YRVR + + L+ G+++ G Sbjct: 115 RLDYDTTGALLLTNDWEMINKLTHPKYEILRTYRVRIDSPLSLKEFKLINAGLIVNGKFS 174 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + +DT+ V L G IK++F+ N +V L R+S+ + + GS Sbjct: 175 KQIVDQVDTKS-----YLVTLHVGSYHHIKELFKALNHEVINLKRVSFANLTVEKMPEGS 229 Query: 233 TREVSKKILRE 243 R ++ K +++ Sbjct: 230 YRTLTLKEIKD 240 >gi|212550926|ref|YP_002309243.1| ribosomal large subunit pseudouridine synthase B [Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2] gi|212549164|dbj|BAG83832.1| putative ribosomal large subunit pseudouridine synthase B [Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2] Length = 290 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 76/233 (32%), Positives = 117/233 (50%), Gaps = 12/233 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+++ +A +G+ SRR+ ++ I VK NGI + V TD+I +R + Sbjct: 54 PIRLNRYLANSGLCSRRKADKYIQTGLVKKNGIPVTEFGTRVNRTDNITFCNSLVRSEHK 113 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLA 131 L L +KP VTT +DP GR TV D + + ++ VGRLD NT G+LLLTNDG L+ Sbjct: 114 VYL-LLNKPKNCVTTTNDPQGRLTVMDLIKTACKEQIFPVGRLDRNTTGVLLLTNDGKLS 172 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKGSNAWV 189 L P ++Y V + +D + L KGI ++ GI D+ D K + Sbjct: 173 AKLTHPRHMKKKIYHVWLNRGIDAADIKKLSKGIQLEDGGIWADDISYVNDKDKTQ---I 229 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG-----STREVS 237 + + G+N I+++FE + V +L R+ + L G + REVS Sbjct: 230 NIEIHSGRNHIIRRMFESLGYHVVKLDRVYFAGLTKKKLKKGQWCFLNDREVS 282 >gi|166710887|ref|ZP_02242094.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzicola BLS256] Length = 245 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 75/232 (32%), Positives = 120/232 (51%), Gaps = 9/232 (3%) Query: 19 VIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERTRLW 76 ++++ G+ SR E R IA RV V+ ++ + + I VDG PL R L Sbjct: 1 MLSKLGVCSRTEAARWIADGRVSVSTRVVRDPEFPIRADQQSSITVDGQPLTGPARCYLM 60 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L +KP G+VTT D GR TV+ + VGRLD +EGLLL +ND A + Sbjct: 61 L-NKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAATVT 119 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNAWVT 190 P+T + Y V+ + +L L+ G+V +G+ QV++ + NAW+ Sbjct: 120 DPATGPDKTYHVQIDCLPNVAQLAQLQAGVVDPDPEGEGVLLRAKQVSVLREGERNAWLE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L EG+NR+I+++ + V RL+R++ GP +G L G+ R +S + +R Sbjct: 180 IVLDEGRNRQIRRLLAAVDIGVLRLMRVAIGPLAMGELGKGAWRMLSAEEVR 231 >gi|326508874|dbj|BAJ86830.1| predicted protein [Hordeum vulgare subsp. vulgare] gi|326510163|dbj|BAJ87298.1| predicted protein [Hordeum vulgare subsp. vulgare] Length = 404 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 74/231 (32%), Positives = 121/231 (52%), Gaps = 13/231 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAE 71 PQR++KV+A AG+ASRR E +I Q +V VNG + V +S D I V+G + K Sbjct: 155 PQRLAKVLAAAGVASRRTSEELIFQGKVTVNGSVCTAPQTKVDISKDSIYVNGNRISKKL 214 Query: 72 RTRLWL-YHKPIGLVTTHSDPDGRSTVFDNL--------PSIF-SRVISVGRLDINTEGL 121 +L+ +KP G + + + ++ D+ P + R+ +VGRLD+ T GL Sbjct: 215 PPKLYFAVNKPKGYICSSGEEKSVISLLDDYLKGWNKLQPGVPKPRLFTVGRLDVATTGL 274 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLD 180 +++TNDG A+ + PS+ + Y V G V + L + G VI G+ D+ LD Sbjct: 275 IIVTNDGEFAQKVSHPSSNITKEYVVTIDGAVHKKHLVAISGGTVIDGVKVVPDLVEPLD 334 Query: 181 TQKGSNAW-VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 TQ + + + + EG+N E++++ + KV L R+ G F+L + L Sbjct: 335 TQADTKRMRLKIVVHEGRNHEVRELVQNAGLKVYALKRVRIGRFRLPSDLG 385 >gi|282934173|ref|ZP_06339451.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 208-1] gi|297205793|ref|ZP_06923188.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii JV-V16] gi|281301787|gb|EFA94053.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 208-1] gi|297148919|gb|EFH29217.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii JV-V16] Length = 234 Score = 104 bits (259), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 75/228 (32%), Positives = 117/228 (51%), Gaps = 8/228 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV +I ++V VNG L+++A V TD ++V + E+ Sbjct: 2 RIDKYLANMKVGSRKEVHDLIKAKKVTVNGQLVKQAKQQVADTDIVKVADETIA-YEQFH 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G++T DP + TV D + + + VGRLD +T GLLLLTNDG L Sbjct: 61 YFMLNKPAGVITATEDPQ-QKTVLDLIEHKDRYQGLSPVGRLDKDTTGLLLLTNDGQLNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +V + + KG+ + G Q+ +D ++T+ Sbjct: 120 NLLSPKKHVAKTYFVELDYEVSDELIVNFAKGVTLADGTKVSPSQLKIDKSNKKQGFITI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 EGK +IK++F F+ V RL RIS G L LL G R+++K Sbjct: 180 --HEGKFHQIKRMFGLFDLGVVRLKRISMGNLSLDENLLLGKYRKLTK 225 >gi|225572683|ref|ZP_03781438.1| hypothetical protein RUMHYD_00872 [Blautia hydrogenotrophica DSM 10507] gi|225039919|gb|EEG50165.1| hypothetical protein RUMHYD_00872 [Blautia hydrogenotrophica DSM 10507] Length = 262 Score = 104 bits (259), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 77/232 (33%), Positives = 119/232 (51%), Gaps = 14/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN---VMSTDHIEVDGVPLRKAE 71 R++K ++ AG+ SRRE + +I Q RV V+G R AV V I VD +R+ + Sbjct: 7 RLNKYLSDAGVCSRREADSLILQGRVTVDG----RKAVTGEKVSVDQQIRVDNREIRQGQ 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L +KP G++ T + F N P RV VGRLD++++GL+LLTN G L Sbjct: 63 PKVLLLLNKPRGIICTAKNQKDNIVDFVNYPI---RVYPVGRLDVDSQGLILLTNQGELV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y+V V ++ L+ + KG+ I G Q+ +K +T Sbjct: 120 NKIMRAGNYHEKEYQVTVDHPVTKEFLSKMAKGVPILGTVTRPCQIKRTGEKSFQIILTQ 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 GL NR+I+++ E+F ++V RL R +LG L G+ REV+ + RE Sbjct: 180 GL----NRQIRRMCEYFGYRVVRLNRTRIMNLKLGKLPVGAYREVTSEEWRE 227 >gi|323705231|ref|ZP_08116807.1| pseudouridine synthase [Thermoanaerobacterium xylanolyticum LX-11] gi|323535657|gb|EGB25432.1| pseudouridine synthase [Thermoanaerobacterium xylanolyticum LX-11] Length = 240 Score = 104 bits (259), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 77/237 (32%), Positives = 126/237 (53%), Gaps = 14/237 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R+ K+++ G SR+E++ I + V +N ++++ V + D + R Sbjct: 1 MSKMRIDKLLSNMGYGSRKEIKNFIKECLVAINDVIIDDPGFTVQP----DKDVITFRNE 56 Query: 71 ERT-RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPS-IFSR-VISVGRLDINTEGLLLL 124 + + + ++Y +KP G++ DP R TV D LP I SR V GRLD +TEGLLL+ Sbjct: 57 KVSYKEYIYIMMNKPKGVICATYDPSER-TVVDLLPHHIKSRKVFPAGRLDKDTEGLLLI 115 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-TQK 183 TNDG L+ L P + Y G +D+D +L +GI++ Y M TL+ Sbjct: 116 TNDGELSHKLLSPKKHVFKKYYAEVLGFIDEDDASLFSEGILLDD-GYKTMPATLEIISS 174 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 G+ + V + +REGK +IK++FE + KV L R+S G +L L G RE++++ Sbjct: 175 GNISKVYISIREGKYHQIKRMFEAIDSKVIYLKRLSIGKLKLDENLKEGEWRELNEE 231 >gi|240047413|ref|YP_002960801.1| Pseudouridine synthase [Mycoplasma conjunctivae HRC/581] gi|239984985|emb|CAT04978.1| Pseudouridine synthase [Mycoplasma conjunctivae] Length = 233 Score = 104 bits (259), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 77/230 (33%), Positives = 118/230 (51%), Gaps = 18/230 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLRKAE 71 QR+ K+IA+ G+ SRR+ E+MI +V +NG E+A + ++ D IE+DG + K Sbjct: 5 QRLQKLIAQVGLCSRRQAEQMIKDGKVYLNG---EKANLGDRASWEDKIEIDGEQIAKKV 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV---FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + +L +KP G +TT D R TV FDN +F VGRLD NT GLLL+TNDG Sbjct: 62 KIVWYLLNKPAGYITTVRDQFNRPTVMDFFDNKTHLFP----VGRLDYNTTGLLLITNDG 117 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK-KGIVIQGICYGDMQVTLDTQKGSNA 187 LA L P + R+Y + + +L+ L + + G+ +K S+ Sbjct: 118 ELANKLLHPRNKIERIYLAKLDYSLADWELDFLNTTSLNLDGVISKQ-----KIEKVSSR 172 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +G N +KK+F +V L RI + +L L G R++S Sbjct: 173 KYKITIWQGSNHHVKKIFAIAKKQVIELKRIGFANLELANLPEGQFRKLS 222 >gi|225028080|ref|ZP_03717272.1| hypothetical protein EUBHAL_02350 [Eubacterium hallii DSM 3353] gi|224954550|gb|EEG35759.1| hypothetical protein EUBHAL_02350 [Eubacterium hallii DSM 3353] Length = 242 Score = 104 bits (259), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 75/222 (33%), Positives = 114/222 (51%), Gaps = 14/222 (6%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E R+ K + +A +R E ++ I + V V+G ++++A + V S D I +DG + Sbjct: 3 ETLKKMRLDKFLTQAAELTRSEAKQKIKKGSVTVDGEVVKKAEMKVSSEDAICLDG-EVV 61 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E+ R + HKP G+V+ D + TV D + + VGRLD +TEGLLLLTNDG Sbjct: 62 TYEKYRYIMLHKPAGVVSATEDAQCQ-TVLDLITEGRKGLFPVGRLDKDTEGLLLLTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-----TQK 183 LA L P + Y G+V + + L +QG+ GD + TL T K Sbjct: 121 ALAHNLLSPRKHVDKTYFAILDGEVGEKEQELF-----LQGLDIGDEKKTLPAKLEITDK 175 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + ++TV +EG+ ++K++ E KV L RIS GP L Sbjct: 176 ANEVFITV--QEGRFHQVKRMAEAVGRKVEYLKRISMGPLVL 215 >gi|282860273|ref|ZP_06269343.1| pseudouridylate synthase [Prevotella bivia JCVIHMP010] gi|282586947|gb|EFB92182.1| pseudouridylate synthase [Prevotella bivia JCVIHMP010] Length = 555 Score = 104 bits (259), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 70/213 (32%), Positives = 109/213 (51%), Gaps = 11/213 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I +V VNG ++ ++ TD ++ L E+ Sbjct: 319 PLRLNKFLANAGVCSRREADDFILAGQVTVNGEVINELGTKILRTDEVKFQD-KLVSLEK 377 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + R+ VGRLD NT G+LL TNDG LA Sbjct: 378 KVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDACPERIYPVGRLDRNTTGVLLFTNDGDLA 437 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN----A 187 L P +VY V + ++L + GI ++ D ++ D + +N A Sbjct: 438 SKLTHPKFLKKKVYHVFLDKPITANELQKISDGIELE-----DGEIKADAIEYANPEDQA 492 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 V + + GKNR ++++FE ++V +L R+ + Sbjct: 493 QVGIEIHSGKNRIVRRIFESLGYRVVKLDRVMF 525 >gi|269956363|ref|YP_003326152.1| pseudouridine synthase [Xylanimonas cellulosilytica DSM 15894] gi|269305044|gb|ACZ30594.1| pseudouridine synthase [Xylanimonas cellulosilytica DSM 15894] Length = 243 Score = 103 bits (258), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 76/230 (33%), Positives = 120/230 (52%), Gaps = 10/230 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A AG SRR+ E++I RV V+G ++ V V + + I VDG+ L+ Sbjct: 6 RLQKVLADAGYGSRRKAEQLIEDGRVSVDGQIIIELGVRVDPAKNVIHVDGLRLQLDTNK 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+++ SD GR T+ D + + R+ VGRLD+++EGL+LLTNDG L Sbjct: 66 VTLAVNKPAGVISAMSDEKGRPTLADLVRNREERLFHVGRLDLDSEGLILLTNDGELGNR 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA-----W 188 L P + + Y V G D + + + + G+ D +D K A Sbjct: 126 LAHPKYEVPKTYLVTVSG---GDVFPRIVRAL-LDGVDLEDGPARMDRVKIVQALEGMTM 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V V L +G+NR ++++F+ + V RL+R GP LG G+ R +S+ Sbjct: 182 VEVVLHDGRNRVVRRMFDAVDRPVERLVRTKIGPIALGDQRPGTHRVLSR 231 >gi|116072478|ref|ZP_01469745.1| Pseudouridine synthase, Rsu [Synechococcus sp. BL107] gi|116065000|gb|EAU70759.1| Pseudouridine synthase, Rsu [Synechococcus sp. BL107] Length = 238 Score = 103 bits (258), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 72/221 (32%), Positives = 108/221 (48%), Gaps = 1/221 (0%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 +A AG+ SRR E + RV V+G + I VDG+PL R++L + Sbjct: 1 MAAAGLCSRRRGEDWLQAGRVTVDGRVASLGDQADPDCQLIAVDGIPLISVREPRVFLLN 60 Query: 80 KPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-SVGRLDINTEGLLLLTNDGGLARVLELPS 138 KP+G++ + DP GRSTV D LP + VGRLD ++ G LLLT+ G L L P Sbjct: 61 KPVGVICSCRDPQGRSTVLDCLPHQERPGLHPVGRLDADSRGALLLTDQGELTLRLTHPR 120 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKN 198 + YRV G + L ++G+ + G V +G+++ + V LREG+N Sbjct: 121 YSHAKTYRVLVKGIPNALVLRRWREGLQLDGRLTRPALVRCLRSRGTSSLLEVELREGRN 180 Query: 199 REIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 R+I++V E V L R++ L L G R + + Sbjct: 181 RQIRRVAELLGHPVIDLQRVAIDGIHLDDLAEGCWRRLDAR 221 >gi|237740792|ref|ZP_04571273.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. 2_1_31] gi|229422809|gb|EEO37856.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. 2_1_31] Length = 226 Score = 103 bits (258), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 75/226 (33%), Positives = 117/226 (51%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ + + GI SR+EV+++I+ + +KVNG A N+ +D IE +G L E Sbjct: 2 RLDRFLVECGIGSRKEVKKIISAKEIKVNGSYDISAKDNIDEYSDVIEYNGERLEYKE-F 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++ +K G +T D +TV D LP I + VGRLD +TEGLLLLTNDG L Sbjct: 61 RYYIMNKKAGYITATEDI-REATVMDLLPEWVIRKDLAPVGRLDKDTEGLLLLTNDGKLN 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V + Q+ + L++G+ I + + +K S+ + + Sbjct: 120 HKLLSPKNHVDKTYYVEIENNISQEDILKLEEGVDIGNY----ITLPAKVEKISDTKIYL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++EGK ++KK+ E N KVN L R ++ L L G +EV+ Sbjct: 176 TIKEGKFHQVKKMLEAVNNKVNYLQRTTFAKLSLDGLALGEVKEVN 221 >gi|331697591|ref|YP_004333830.1| pseudouridine synthase Rsu [Pseudonocardia dioxanivorans CB1190] gi|326952280|gb|AEA25977.1| pseudouridine synthase Rsu [Pseudonocardia dioxanivorans CB1190] Length = 252 Score = 103 bits (258), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 77/240 (32%), Positives = 119/240 (49%), Gaps = 7/240 (2%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDG 64 + +N R+ KV+A+AG+ASRR E +IA RV V+G ++ V T + VDG Sbjct: 1 MTTQNSDGVRLQKVLAQAGVASRRAAEELIAAGRVSVDGEIVREMGRRVDPDTAVVHVDG 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD------NLPSIFSRVISVGRLDINT 118 + + +KP G+++T SD GR V D L + R+ VGRLD +T Sbjct: 61 SRIVLRDDLVYLALNKPRGMLSTMSDDRGRECVGDLVADRAELLNQAGRLFHVGRLDADT 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLLLLTNDG L L PS + + Y GQV +D L+ G+ ++ Sbjct: 121 EGLLLLTNDGELGHRLMHPSFEVQKTYVAEVAGQVARDVGKRLRTGVELEDGPVVVHSFR 180 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L G + V + L EG+ ++++ + + V RL+R + G +LG G R +++ Sbjct: 181 LVDSSGGRSMVEIVLHEGRKHVVRRLMDEVGYPVLRLVRTAIGDVRLGDQRPGKLRPLNQ 240 >gi|332878090|ref|ZP_08445820.1| pseudouridylate synthase [Capnocytophaga sp. oral taxon 329 str. F0087] gi|332684052|gb|EGJ56919.1| pseudouridylate synthase [Capnocytophaga sp. oral taxon 329 str. F0087] Length = 253 Score = 103 bits (258), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 69/212 (32%), Positives = 109/212 (51%), Gaps = 7/212 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ V TD ++ P+ ER Sbjct: 17 PIRLNKFLANAGVCSRREADEFITAGVVSVNGTVVTELGTKVKRTDEVKFHEQPV-SIER 75 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + ++ R+ VGRLD NT G+LL TNDG LA Sbjct: 76 KVYVLLNKPKDYVTTSDDPQNRKTVMDLVKNVCRERIYPVGRLDRNTTGVLLFTNDGELA 135 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSN-AWV 189 L P ++Y V V + + +GI ++ G+++ +D ++ V Sbjct: 136 SKLTHPKFLKKKIYHVTTDKNVTAADMRQIAEGITLED---GEIRADAIDYASPTDKKQV 192 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + + GKNR ++++FE ++V +L R+ + Sbjct: 193 GIEIHSGKNRIVRRIFEALGYRVVKLDRVLFA 224 >gi|269792389|ref|YP_003317293.1| pseudouridine synthase [Thermanaerovibrio acidaminovorans DSM 6589] gi|269100024|gb|ACZ19011.1| pseudouridine synthase [Thermanaerovibrio acidaminovorans DSM 6589] Length = 234 Score = 103 bits (258), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 74/221 (33%), Positives = 114/221 (51%), Gaps = 8/221 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +AR G+ SRR+VE +I RVK+NG+++ V DH+EVDG + ++ Sbjct: 1 MRLNQYLARCGLGSRRKVEALIVTGRVKLNGLVVSDLGCRVEEGDHVEVDGCSVHPLDKI 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 + + +KP G+V D R TV D LP R VGRLD ++GLL+LTNDG Sbjct: 61 YI-VMNKPRGVVCAVEDRRYR-TVLDLLPPQIRALRPFPVGRLDKESQGLLILTNDGDFC 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P ++ Y V V + L+ LK G+ G + V+L + V V Sbjct: 119 DAILHPRRGIIKTYEVTVDRDVPSESLDRLKGGVWSDGEILEPLMVSLMGPR----TVRV 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 ++EGK RE++++ +KV L+R G +L L AG Sbjct: 175 DIQEGKKREVRRMMAALGFKVLSLLRRRIGKMELRRLRAGG 215 >gi|329851025|ref|ZP_08265782.1| ribosomal large subunit pseudouridine synthase F [Asticcacaulis biprosthecum C19] gi|328839871|gb|EGF89443.1| ribosomal large subunit pseudouridine synthase F [Asticcacaulis biprosthecum C19] Length = 253 Score = 103 bits (257), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 70/233 (30%), Positives = 121/233 (51%), Gaps = 19/233 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A++G+ SRRE + +I + V + G + A ++ + +D R Sbjct: 12 PVRLNKWLAQSGVCSRREADTLIEEGCVAIAGETVRDAGRKILPGQTVTLD----RGETL 67 Query: 73 TRLWLYHKPIGLVTTHSDPDG--------RSTVF---DNLPSIFSRVISVGRLDINTEGL 121 +Y+KPIG+V+ +P R+ VF D P S++ +GRLD ++ GL Sbjct: 68 PMTVIYNKPIGIVSGQPEPGETPAVRMIRRANVFGPADVYPDQTSKLAPIGRLDKDSHGL 127 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 L+L+ DG LA+ + P ++ + Y V+ GQ+ + KL L+ G+ + G ++ T Sbjct: 128 LVLSEDGVLAKAVIGPDSELDKAYHVQVRGQIIEAKLAWLRHGLELDGRKLKPAEI---T 184 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 Q G + +T L+EG+ R+I+++ + +V L R GP QLG L G R Sbjct: 185 QTGPQS-LTFVLKEGRKRQIRRMCDMVELRVTDLYRDRIGPLQLGDLPEGQWR 236 >gi|262091731|gb|ACY25320.1| ribosomal large subunit pseudouridine synthase B [uncultured actinobacterium] Length = 240 Score = 103 bits (257), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 78/231 (33%), Positives = 121/231 (52%), Gaps = 14/231 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ KV+A+ G SRR E +IA RV VNG +L R V+V D +E+DG P+ Sbjct: 6 ERLQKVLAQRGWGSRRACEEIIADGRVTVNGEVAVLGRRVNVDV---DRVEIDGAPVGVR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +L +KP+ +++T D R TV D +P+ RV VGRLD ++EGLLL+TNDG L Sbjct: 63 PDLVYYLLNKPVDVISTAIDTHDRETVVDFVPA-DPRVYPVGRLDGDSEGLLLITNDGEL 121 Query: 131 ARVLELPSTQWLRVYRVRFH---GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 + P + Y V+ V ++ L+ GI ++ +V+ Q+G Sbjct: 122 TNRITHPKYGLEKEYLVQVDVSSADVSDVAIHRLRNGIELEDGVTAPAEVS-RLQEGVLR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V + EGKNR+I+++ + + V RL+R GP L G R +++ Sbjct: 181 MV---IHEGKNRQIRRMCDAVGYPVIRLVRTRIGPIMDKKLAPGQWRNLTQ 228 >gi|254303709|ref|ZP_04971067.1| pseudouridylate synthase [Fusobacterium nucleatum subsp. polymorphum ATCC 10953] gi|148323901|gb|EDK89151.1| pseudouridylate synthase [Fusobacterium nucleatum subsp. polymorphum ATCC 10953] Length = 226 Score = 103 bits (257), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 78/228 (34%), Positives = 118/228 (51%), Gaps = 13/228 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + GI SR+EV+++I+ + VNG A N+ ++D IE +G L E Sbjct: 2 RLDKFLVECGIGSRKEVKKLISNDEITVNGFNDISAKDNIDENSDIIEYNGEKLEYKE-F 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++ +K G +T D +TV D LP I + VGRLD +TEGLLL TNDG L Sbjct: 61 RYYIMNKKAGYITATEDF-KENTVMDLLPEWVIRKDLAPVGRLDKDTEGLLLFTNDGKLN 119 Query: 132 RVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGD-MQVTLDTQKGSNAWV 189 L P +VY + + D+D L L QG+ G+ + +K S+ + Sbjct: 120 HRLLSPKNHIDKVYYIEIENNILDKDILKLE------QGVDIGNYITQPAKVEKISDNKI 173 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + ++EGK ++KK+ E N KV L R+S+G +L L G +EV+ Sbjct: 174 YLTIKEGKFHQVKKMLEAVNNKVCYLKRVSFGKLKLDDLALGEVKEVN 221 >gi|154504970|ref|ZP_02041708.1| hypothetical protein RUMGNA_02480 [Ruminococcus gnavus ATCC 29149] gi|153794853|gb|EDN77273.1| hypothetical protein RUMGNA_02480 [Ruminococcus gnavus ATCC 29149] Length = 241 Score = 103 bits (257), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 73/230 (31%), Positives = 119/230 (51%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A G+ +R EV+R I++ RV V+G +++ + + + V + + + Sbjct: 4 RLDKYLADMGVGTRTEVKRAISKGRVSVDGACVKKPETKIDTEETTVVFDGQIVEYTKKE 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTNDGGL 130 ++ HKP G+++ D + TV D I SR + VGRLD +TEGLLL+TNDG L Sbjct: 64 YYMLHKPAGVISATEDAREK-TVID---LIVSRKRKDLFPVGRLDKDTEGLLLITNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y + G V Q+ + +G+ I V + G + + Sbjct: 120 AHRLLSPKKHVDKTYYAKVQGIVTQEDVRKFAEGVDIHEKKLTAPAVLEVVKSGEVSEIL 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + + EGK ++K++FE KV L R+S GP QL TL+ G RE+++K Sbjct: 180 LTICEGKFHQVKRMFEAVGKKVIYLKRLSMGPLQLDETLMPGEYRELTEK 229 >gi|307565246|ref|ZP_07627740.1| pseudouridylate synthase [Prevotella amnii CRIS 21A-A] gi|307346059|gb|EFN91402.1| pseudouridylate synthase [Prevotella amnii CRIS 21A-A] Length = 528 Score = 103 bits (257), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 68/211 (32%), Positives = 111/211 (52%), Gaps = 11/211 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I+ ++ VNG ++ ++ TD I+ G + ++ Sbjct: 292 PLRLNKYLANAGVCSRREADNYISSGQITVNGEVVTELGTKILRTDEIKFKGQTVSLEKK 351 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLA 131 L L +KP VTT DP R V D + R+ VGRLD NT G+LL TNDG LA Sbjct: 352 VYLLL-NKPKDYVTTSDDPQQRKKVVDLVKDACPERIYPVGRLDRNTTGVLLFTNDGDLA 410 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN----A 187 L P +VY V V + L + +GI+++ D ++ D + ++ + Sbjct: 411 SKLTHPKFLKKKVYHVFLDKPVAANDLQKIAEGIMLE-----DGEIKADAIEYASPDDLS 465 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 V + + GKNR ++++FE ++V +L R+ Sbjct: 466 QVGIEIHSGKNRIVRRIFESLGYRVVKLDRV 496 >gi|332652688|ref|ZP_08418433.1| ribosomal small subunit pseudouridine synthase A [Ruminococcaceae bacterium D16] gi|332517834|gb|EGJ47437.1| ribosomal small subunit pseudouridine synthase A [Ruminococcaceae bacterium D16] Length = 239 Score = 103 bits (257), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 79/218 (36%), Positives = 114/218 (52%), Gaps = 13/218 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K++A G SR+EV+ +IA+ RV V+G R + I+VDG + A Sbjct: 4 ERLDKLLASTGRWSRKEVKELIARGRVLVDGRPAGRPEDKCEPQSACIQVDGEIVDCAPC 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 + L HKP GL++ D +STV D LP R + VGRLD +TEGLLLLT+DG L Sbjct: 64 VYIML-HKPAGLLSATQDKK-QSTVLDLLPEHLRRRGLFPVGRLDKDTEGLLLLTDDGPL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT---QKGSNA 187 L P +VY R GQ+D++ + +L +G+ + GD V L G + Sbjct: 122 GHDLLSPRKHVDKVYYARVDGQIDKEDVQVLAQGMTL-----GDGLVCLPAGLEPLGDGS 176 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V LREGK ++K++ V L R+S GP +L Sbjct: 177 ECLVTLREGKYHQVKRMLAARGKPVLYLKRLSMGPLKL 214 >gi|256850915|ref|ZP_05556304.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 27-2-CHN] gi|260661129|ref|ZP_05862043.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 115-3-CHN] gi|256615977|gb|EEU21165.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 27-2-CHN] gi|260548066|gb|EEX24042.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 115-3-CHN] Length = 234 Score = 103 bits (257), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 75/228 (32%), Positives = 117/228 (51%), Gaps = 8/228 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV +I ++V VNG L+++A V TD ++V + E+ Sbjct: 2 RIDKYLANMKVGSRKEVHDLIKAKKVTVNGQLVKQAKQQVADTDIVKVADETI-AYEQFY 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G++T DP + TV D + + + VGRLD +T GLLLLTNDG L Sbjct: 61 YFMLNKPAGVITATEDPQ-QKTVLDLIEHKDRYQGLSPVGRLDKDTTGLLLLTNDGQLNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +V + + KG+ + G Q+ +D ++T+ Sbjct: 120 NLLSPKKHVAKTYFVELDYEVSDELIVNFAKGVTLADGTKVSPSQLKIDKSNKKQGFITI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 EGK +IK++F F+ V RL RIS G L LL G R+++K Sbjct: 180 --HEGKFHQIKRMFGLFDLGVVRLKRISMGNLSLDENLLLGKYRKLTK 225 >gi|294806727|ref|ZP_06765554.1| pseudouridylate synthase [Bacteroides xylanisolvens SD CC 1b] gi|294446009|gb|EFG14649.1| pseudouridylate synthase [Bacteroides xylanisolvens SD CC 1b] Length = 319 Score = 103 bits (257), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 75/229 (32%), Positives = 115/229 (50%), Gaps = 7/229 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ + +D ++ P+ ER Sbjct: 83 PIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVVKFHDEPV-SIER 141 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 142 KVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTGVLLLTNDGDLA 201 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWV 189 L P ++Y V + + + + GI ++ G + D + T D +K V Sbjct: 202 SKLTHPKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIHADAISYTDDFKKDQ---V 258 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 259 GIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSE 307 >gi|195952397|ref|YP_002120687.1| pseudouridine synthase [Hydrogenobaculum sp. Y04AAS1] gi|195932009|gb|ACG56709.1| pseudouridine synthase [Hydrogenobaculum sp. Y04AAS1] Length = 239 Score = 103 bits (257), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 73/238 (30%), Positives = 124/238 (52%), Gaps = 9/238 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+++ ++ AG+ SRR+ + I + VKVN +++ + D +E G + KA++ Sbjct: 1 MRLNRFLSLAGVCSRRKADEYIEKGYVKVNNNIVKELGTTINPDEDIVEFRG-RIVKAQK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP +T+ + + + T+ + + + RV GRLD N EGLL+LTNDG LA Sbjct: 60 PVYIILNKPCCYLTSLGEKEEKPTIRELIKDVGVRVYPAGRLDYNVEGLLILTNDGELAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWVT 190 + P + +VY G++D + L +K+G+ ++ G D +++ + G+N +T Sbjct: 120 RIIHPRYKLPKVYIATIKGEIDDETLEKMKRGVRLEDGFVKPDSLKLLKRFKNGANIEIT 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQL 245 EGKN +K+ F F V LIR + GP LG L G R + K+L E L Sbjct: 180 --FHEGKNHLVKRFFLAFKKPVKHLIRTAIGPISLGNLPKGKWRHLKPAEIKLLFEAL 235 >gi|240173130|ref|ZP_04751788.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium kansasii ATCC 12478] Length = 250 Score = 103 bits (257), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 79/229 (34%), Positives = 113/229 (49%), Gaps = 6/229 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+++AGIASRR E+MI RV+V+G L+ V I VDG + E Sbjct: 11 RLQKVLSQAGIASRRAAEKMIIDGRVEVDGKLVTELGTRVDPDVSVIRVDGARVVLDESL 70 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 +KP G+ +T +D GR + D + + VGRLD +TEGL+LLTNDG L Sbjct: 71 VYLALNKPRGMHSTMADDRGRPCIGDLIERKVRGNKNLFHVGRLDADTEGLILLTNDGEL 130 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G V + L+ GI + G+ D +D G V Sbjct: 131 AHRLMHPSHEVPKTYLATVAGTVPRGLGKKLRTGIELDDGLARVDGFAVVDAIPGKT-LV 189 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V L EG+NR ++++ + V L+R GP LG GS R + + Sbjct: 190 RVTLHEGRNRIVRRLLAAAGFPVEALVRTDIGPVTLGKQRPGSVRALGR 238 >gi|291301885|ref|YP_003513163.1| pseudouridine synthase [Stackebrandtia nassauensis DSM 44728] gi|290571105|gb|ADD44070.1| pseudouridine synthase [Stackebrandtia nassauensis DSM 44728] Length = 244 Score = 103 bits (257), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 79/230 (34%), Positives = 114/230 (49%), Gaps = 16/230 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV-NVMSTDH--IEVDGVPLRKAE 71 R+ KV+A AGI SRR E +IA RV VNG ++A + N + H I VDG + Sbjct: 9 RLQKVMAAAGIGSRRACENLIAAGRVTVNG---KKAQLGNRVDPQHAVIHVDGERVITDT 65 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +KP G V+T D R + + I RV VGRLD +EGLLLLTNDG L Sbjct: 66 KLVHFALNKPRGYVSTMDDELKRPDLNEFTAGISERVFHVGRLDTESEGLLLLTNDGELG 125 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-----GSN 186 L PS + + YR + G L G+V++ D VT+D K Sbjct: 126 NRLTHPSYEIAKTYRCQVTGYAGPAIARRLAAGVVLE-----DGPVTVDDFKVIDEHADQ 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 A V + + EG+ ++++ VNRL+R + G +L L G+ R++ Sbjct: 181 ALVEIVVHEGRKHVVRRLLAEVGLPVNRLVRTAIGDIRLANLKPGTLRKL 230 >gi|320451356|ref|YP_004203452.1| ribosomal small subunit pseudouridine synthase A [Thermus scotoductus SA-01] gi|320151525|gb|ADW22903.1| ribosomal small subunit pseudouridine synthase A [Thermus scotoductus SA-01] Length = 238 Score = 103 bits (257), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 71/226 (31%), Positives = 117/226 (51%), Gaps = 6/226 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++AR G+ SR+EV R++ +V+V G ++ A +V +EVDG PL Sbjct: 4 ERLDKLLARLGLGSRKEVARLVRSGQVQVEGQVVRDPAFHVPPGARLEVDGEPLVLRCHH 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L HKP G VT+ + + + P+ + VGRLD +TEGLLL T DG L Sbjct: 64 HILL-HKPAGYVTSRREGPSVYALLEGFPT--RDLSPVGRLDKDTEGLLLFTTDGELLHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + + Y V ++ ++G+V++G +++ D V + L Sbjct: 121 LTHPRHKVEKRYLVHLERPATREDQEAFREGLVLEGTRLLPAELSWDQ---DPTRVELVL 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 REG+ ++K++F+ +V L R+S GP LG L G R +S++ Sbjct: 178 REGRFHQVKRMFQARGNRVLYLKRLSLGPLTLGDLPVGQARYLSQE 223 >gi|149280291|ref|ZP_01886413.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Pedobacter sp. BAL39] gi|149228980|gb|EDM34377.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Pedobacter sp. BAL39] Length = 463 Score = 103 bits (257), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 72/221 (32%), Positives = 116/221 (52%), Gaps = 6/221 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEV 62 KN+ ++ R+++ IA +GI SRR+ + +IA V VNG ++ + + D + Sbjct: 218 KNVAVKDDGLIRLNRYIANSGICSRRKADELIAAGVVSVNGEVVSELGHKIDPAKDQVRY 277 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGL 121 +G L++ ++ + L +KP +TT DP R TV + R+ VGRLD NT GL Sbjct: 278 NGELLKREKKVYVLL-NKPKDYITTTDDPQERRTVMQLVEKASRERIYPVGRLDRNTTGL 336 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLD 180 LL+TNDG LA L P ++Y V + Q LN ++ G+ ++ GI D + Sbjct: 337 LLMTNDGELADKLSHPKNGITKIYHVELSRSLSQGDLNKIQFGLELEDGIIKPDSVSYV- 395 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 GS V + + GKNR ++++FE + V +L R+ YG Sbjct: 396 -AGGSKREVGIQIHSGKNRIVRRIFEHLGYDVVKLDRVVYG 435 >gi|289522957|ref|ZP_06439811.1| RNA pseudouridine synthase [Anaerobaculum hydrogeniformans ATCC BAA-1850] gi|289503500|gb|EFD24664.1| RNA pseudouridine synthase [Anaerobaculum hydrogeniformans ATCC BAA-1850] Length = 249 Score = 103 bits (257), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 80/232 (34%), Positives = 120/232 (51%), Gaps = 20/232 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKAE 71 R++K +A G+ SRR+ E +I RVKV+G + + V ++ ++EVDG PL+ Sbjct: 17 RLNKYLAMCGLGSRRKTEALIVSGRVKVDGEIAAGPWIMVNTSYNVEVDGKIVAPLKN-- 74 Query: 72 RTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDG 128 L+L +KP V D +TV D LP I R+ VGRLD N+ GLL+LTNDG Sbjct: 75 ---LYLVMNKPRNCVCAVVDSR-YTTVIDLLPKDLIGHRLFPVGRLDKNSSGLLILTNDG 130 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGSN 186 A+ + P + YRV + + L +KG+ Y D ++ D + S+ Sbjct: 131 DFAQDIIHPRNGITKTYRVMLNKPMTSGDLEKWRKGV------YLDDRLIKPKDVKILSD 184 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 W + + EGK REI+++ E +KV L+RI G +L TL G + SK Sbjct: 185 KWCVIEIYEGKKREIRRMAECLGYKVVELVRIKIGRLELKTLDEGCFLKFSK 236 >gi|262382422|ref|ZP_06075559.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_1_33B] gi|262295300|gb|EEY83231.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_1_33B] Length = 334 Score = 103 bits (257), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 69/244 (28%), Positives = 123/244 (50%), Gaps = 11/244 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K ++ + P R++K ++ AG+ SRRE + I + VKVN +++ + D + Sbjct: 86 IKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQKGAVKVNDVVVTELGTKITRQDVV 145 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 + P++ + + L +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 146 TFNEKPVQIESKVYIVL-NKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTT 204 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L PS + ++Y V V + + + G+ ++ D ++ Sbjct: 205 GVLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVAIEDMEKIANGLELE-----DGEIHA 259 Query: 180 D----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 D + + V + + G+NR ++++FE + V +L R+ + L G R Sbjct: 260 DAISYASEDDKSQVGIEIHSGRNRIVRRIFESLGYHVTKLDRVYFAGLTKKNLGRGKWRY 319 Query: 236 VSKK 239 ++++ Sbjct: 320 LNER 323 >gi|294645459|ref|ZP_06723160.1| pseudouridylate synthase [Bacteroides ovatus SD CC 2a] gi|292639160|gb|EFF57477.1| pseudouridylate synthase [Bacteroides ovatus SD CC 2a] Length = 320 Score = 103 bits (257), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 75/229 (32%), Positives = 115/229 (50%), Gaps = 7/229 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ + +D ++ P+ ER Sbjct: 84 PIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVVKFHDEPV-SIER 142 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 143 KVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTGVLLLTNDGDLA 202 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWV 189 L P ++Y V + + + + GI ++ G + D + T D +K V Sbjct: 203 SKLTHPKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIHADAISYTDDFKKDQ---V 259 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 260 GIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSE 308 >gi|315185613|gb|EFU19381.1| pseudouridine synthase [Spirochaeta thermophila DSM 6578] Length = 214 Score = 103 bits (256), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 76/212 (35%), Positives = 110/212 (51%), Gaps = 9/212 (4%) Query: 40 VKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVF 98 ++VNG ++ A V D + +DG + + +HKP G + T SDP GR V+ Sbjct: 1 MRVNGRVITNPAHRVDPQEDRVTLDGRDVHLVGKFLYLAFHKPPGYLCTRSDPQGRPLVY 60 Query: 99 DNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 D + P + +V S+GRLD + GLLLLTNDG A ++ P + + Y V + + Sbjct: 61 DLIDPVLPYKVFSIGRLDFLSSGLLLLTNDGEFADIVMHPKHRVEKEYLVETKRPIPRAL 120 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 L KGI I+G Y V + S V + L EGKNREI+KVF + + R+ R Sbjct: 121 LESYLKGIRIEGERY----VLKAYKSKSPHKVHLILEEGKNREIRKVFYSSHLPIVRIHR 176 Query: 218 ISYGPFQLGTLLAGSTREVSK---KILREQLG 246 I GP +LG L G R ++K ++LRE G Sbjct: 177 IRIGPVRLGRLRPGHFRNLTKEEIRLLREGRG 208 >gi|325268750|ref|ZP_08135378.1| ribosomal large subunit pseudouridine synthase B [Prevotella multiformis DSM 16608] gi|324988918|gb|EGC20873.1| ribosomal large subunit pseudouridine synthase B [Prevotella multiformis DSM 16608] Length = 509 Score = 103 bits (256), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 75/218 (34%), Positives = 109/218 (50%), Gaps = 8/218 (3%) Query: 8 QENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +ENF P R++K +A AG+ SRRE + I V VNG +++ V+ +D + Sbjct: 265 EENFDPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVLRSDVVLFQE 324 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLL 123 P+ E+ L +KP VTT DP R TV D + R+ VGRLD NT G+LL Sbjct: 325 KPV-SLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDRNTTGVLL 383 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQ 182 LTNDG LA L P +VY V V + L + GI ++ G D D Q Sbjct: 384 LTNDGDLASKLTHPKFLKKKVYHVFLDKPVTANDLQKISDGIELEDGEIKADAIEYADPQ 443 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 V + + GKNR ++++FE ++V +L R+ + Sbjct: 444 --DQTQVGIEIHSGKNRIVRRIFESLGYRVVKLDRVQF 479 >gi|260664647|ref|ZP_05865499.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii SJ-7A-US] gi|260561712|gb|EEX27684.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii SJ-7A-US] Length = 234 Score = 103 bits (256), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 70/228 (30%), Positives = 116/228 (50%), Gaps = 8/228 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV +I ++V +N L+++A V D ++VD + ++ Sbjct: 2 RIDKYLANMNVGSRKEVHNLIKAKKVTINEKLVKQAKQQVTENDMVKVDNQTIT-YQQFH 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G++T DP + TV D + S +S + VGRLD +T GLLL+TNDG L Sbjct: 61 YFMLNKPTGVITATEDPQ-QKTVLDLIASKDRYSDLAPVGRLDKDTTGLLLITNDGQLNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V ++ + + KG+ + G G Q+ +D +T+ Sbjct: 120 NLLSPKKHVAKTYFVELDQEIANEVDSAFAKGVALADGTQVGSAQLIIDKSNKKQGLITI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 EGK +IK++F F+ V +L RI G L L G RE+++ Sbjct: 180 --HEGKFHQIKRMFGLFDLGVVKLKRIKMGNLSLDENLPQGKYRELTE 225 >gi|260641988|ref|ZP_05859178.1| ribosomal large subunit pseudouridine synthase B [Bacteroides finegoldii DSM 17565] gi|260624005|gb|EEX46876.1| ribosomal large subunit pseudouridine synthase B [Bacteroides finegoldii DSM 17565] Length = 253 Score = 103 bits (256), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 74/229 (32%), Positives = 116/229 (50%), Gaps = 7/229 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ + +D ++ P+ ER Sbjct: 17 PIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVVKFHEEPV-SIER 75 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 76 KVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTGVLLLTNDGDLA 135 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWV 189 L P ++Y V + + ++ + GI ++ G + D + T D +K V Sbjct: 136 SKLTHPKFLKKKIYHVHLDKNLTKADMDQIAAGIQLEDGEIHADAISYTDDFKKDQ---V 192 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + GKNR ++++FE +KV +L R+ + L G R +++ Sbjct: 193 GIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLTE 241 >gi|270719470|ref|ZP_06223316.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae HK1212] gi|270315432|gb|EFA27691.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae HK1212] Length = 161 Score = 103 bits (256), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 65/141 (46%), Positives = 86/141 (60%), Gaps = 6/141 (4%) Query: 34 MIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKAER--TRLWLYHKPIGLVTTH 88 MIA RV V G + ++V S + +DG + L A++ R+ +Y+KP G + T Sbjct: 1 MIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQIINLSHAQKEICRVLMYYKPEGELCTR 60 Query: 89 SDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRV 147 SDP+GR+TVFD LP + SR I+VGRLDINT GLLL T DG LA L PS + R Y V Sbjct: 61 SDPEGRATVFDRLPRLTGSRWIAVGRLDINTSGLLLFTTDGELANRLMHPSREVEREYSV 120 Query: 148 RFHGQVDQDKLNLLKKGIVIQ 168 R GQVD L L+KG+ ++ Sbjct: 121 RVFGQVDDAMLARLRKGVQLE 141 >gi|332883058|gb|EGK03342.1| hypothetical protein HMPREF9456_01979 [Dysgonomonas mossii DSM 22836] Length = 482 Score = 103 bits (256), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 68/212 (32%), Positives = 110/212 (51%), Gaps = 7/212 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 TP R++K +A AG+ SRRE + I VKVNG ++++ V D + P+R Sbjct: 245 TPLRLNKYLANAGVCSRREADAFITSGVVKVNGEVVDQLGAKVTRGDLVTFHDQPVRLES 304 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 + + L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG L Sbjct: 305 KVYVLL-NKPKNCVTTSDDPQNRLTVMDLVKNACPERIYPVGRLDRNTTGVLLLTNDGDL 363 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + ++Y+V V + + + G+ + G++ + + Sbjct: 364 ASKLMHPKFKKKKIYQVTLDRDVAIEDMQAIADGVELDD---GEIHADSIAYQAEDVLNV 420 Query: 191 VGLR--EGKNREIKKVFEFFNWKVNRLIRISY 220 VG+ G+NR ++++FE ++V +L R+ + Sbjct: 421 VGIEIHSGRNRIVRRIFEKLGYQVVKLDRVYF 452 >gi|297623666|ref|YP_003705100.1| RNA-binding S4 domain-containing protein [Truepera radiovictrix DSM 17093] gi|297164846|gb|ADI14557.1| RNA-binding S4 domain protein [Truepera radiovictrix DSM 17093] Length = 241 Score = 103 bits (256), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 76/236 (32%), Positives = 116/236 (49%), Gaps = 11/236 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +ARAG+ASRR+ E +I V VNG+ E V + D + V G + Sbjct: 3 ERLQKFLARAGVASRRKAEALILSGAVTVNGVRAE-LGQRVAAGDEVRVRGERVAPPAAH 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---VGRLDINTEGLLLLTNDGGL 130 + +KP G+++ +D GR TV +P +RV VGRLD ++EGLLLLT DG L Sbjct: 62 VTYALYKPKGVISAVTDDRGRVTVLQLVPP-SARVPGLHPVGRLDADSEGLLLLTTDGEL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + YRV + L L++G+ ++ D + + T Sbjct: 121 TLTLTHPRYGHEKTYRVWCEPVPGPEALRRLERGVALE-----DGPARARRARAAPGGCT 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L EG+NR+++++ +V RL+R G LG + G R +S L QLG Sbjct: 176 LVLSEGRNRQVRRMLAALGCEVTRLLRTRIGGLSLGAMRPGELRRLSDAEL-AQLG 230 >gi|323697859|ref|ZP_08109771.1| pseudouridine synthase [Desulfovibrio sp. ND132] gi|323457791|gb|EGB13656.1| pseudouridine synthase [Desulfovibrio desulfuricans ND132] Length = 251 Score = 103 bits (256), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 86/231 (37%), Positives = 121/231 (52%), Gaps = 6/231 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDG-VPLRKAER 72 R++K IA+ G+ASRR + M+ RV VNG + + V + D + VDG V +KA Sbjct: 10 RLNKFIAQCGVASRRGADEMVFAGRVTVNGATADSPGLQVDPARDEVAVDGKVIGQKASA 69 Query: 73 TRL-WLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGG 129 L L HKP+ VTT SDP GR TV D LP R VGRLD +EGLLLLT DG Sbjct: 70 GDLTLLLHKPVETVTTASDPQGRKTVLDLLPPEIRKKRPFPVGRLDFFSEGLLLLTTDGD 129 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAW 188 L L P +VY V G V Q + +++G+ + +G +V L Sbjct: 130 LCYRLTHPKYHLPKVYVVTIRGSVPQKAVQTMRQGMTLREGDRLAPAKVRLLKPIAGTQQ 189 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + L +G NR+I+++ E + RL R+ GP LG L G+ RE++ + Sbjct: 190 LEITLIQGVNRQIRRMCEELGLTILRLRRVRQGPVALGDLKPGAWRELTSE 240 >gi|193212142|ref|YP_001998095.1| pseudouridine synthase [Chlorobaculum parvum NCIB 8327] gi|193085619|gb|ACF10895.1| pseudouridine synthase [Chlorobaculum parvum NCIB 8327] Length = 247 Score = 103 bits (256), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 120/233 (51%), Gaps = 16/233 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K +A GIASRR ++++ + RV VNG + ++ + + D + VDG + + E Sbjct: 11 RINKYLAMCGIASRRAADQLVLEGRVMVNGHVADQPGLQIDPKHDEVIVDGRHMAQPEHK 70 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ L++KP ++TT D R + D + + RV VGRLD + GLL+LTNDG LA Sbjct: 71 KVYILFNKPRNVITTSHDERDRQQILDFV-DVPERVFPVGRLDRKSTGLLILTNDGTLAH 129 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI------CYGDMQVTLDTQKGSN 186 L PS+ + Y + L+ L G+ ++ C + LD Sbjct: 130 RLMHPSSLVQKEYLAELDAKFPGSMLSKLTSGMRLKDTGEKVSPCRAKI---LD----DG 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V V + EGKN +++++F ++V RL R++Y G L G R +S+K Sbjct: 183 MSVLVSIHEGKNHQVRRMFSTLGFEVKRLDRVAYAGLTPGELRRGEWRYLSRK 235 >gi|255505461|ref|ZP_05346261.3| ribosomal large subunit pseudouridine synthase F [Bryantella formatexigens DSM 14469] gi|255267773|gb|EET60978.1| ribosomal large subunit pseudouridine synthase F [Bryantella formatexigens DSM 14469] Length = 267 Score = 103 bits (256), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 80/248 (32%), Positives = 128/248 (51%), Gaps = 26/248 (10%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVD 63 + + P R++K +A+AGI SRRE +R+IA+ +V V+G AAV V+ + I V+ Sbjct: 22 ITDTAEPVRINKYLAQAGICSRREADRLIAEGKVLVDGA----AAVAGQKVLPSQDIRVE 77 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G +++ L + +KP G+V T +D T + L SRV GRLD ++EGL+L Sbjct: 78 GEQAVRSQERILLVVNKPRGVVCT-TDKTWGDTTLEELVDYPSRVFYAGRLDKDSEGLIL 136 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-- 181 +TNDG L + + + + Y V+ VD L + KG+ ++ LDT Sbjct: 137 MTNDGELQDKIMRAANRHEKEYLVKVDRTVDDTFLKKMAKGVYLR---------ELDTVT 187 Query: 182 ------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + G A+ V L +G NR+I+++ ++V L R+ +LG L AG RE Sbjct: 188 RPCRVEKTGRRAFRIV-LTQGLNRQIRRMCAALGYQVQELRRVRIMNIRLGGLPAGQYRE 246 Query: 236 VSKKILRE 243 + + LRE Sbjct: 247 ATDEELRE 254 >gi|154147941|ref|YP_001407262.1| RNA pseudouridine synthase [Campylobacter hominis ATCC BAA-381] gi|153803950|gb|ABS50957.1| hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) (RNA pseudouridylate synthase) [Campylobacter hominis ATCC BAA-381] Length = 253 Score = 103 bits (256), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 66/228 (28%), Positives = 118/228 (51%), Gaps = 17/228 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +I +V VNG ++ + + +D I ++ ++ + Sbjct: 2 RLNKFISHNTGYSRREADELIKNGKVSVNGRIIS-DFIEINESDKIRINKHLIKLKKDFT 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +Y+KP G + + D GR T++D+LP FS+ +S+GRLD +EGLLLLT+ +A L Sbjct: 61 MIIYNKPKGELVSKKDDRGRKTIYDSLPKGFSKFVSIGRLDYASEGLLLLTDAPAIATAL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ------------VTLDTQ 182 + + R Y ++ G++ + +K G + G V D Sbjct: 121 MQSNIE--REYYLKVKGEITDEIKTAMKDGFFAKDATKGAHPKTEIKSMNFAPFVAFDIF 178 Query: 183 KGSNAW--VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 S + + V ++EG+NRE+++ F +F+ +V L R+S+G LG L Sbjct: 179 GSSGGYTKLRVLIKEGQNRELRRFFGYFDLEVMDLKRVSFGIIDLGML 226 >gi|228478281|ref|ZP_04062889.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus salivarius SK126] gi|228249960|gb|EEK09230.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus salivarius SK126] Length = 239 Score = 102 bits (255), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 81/241 (33%), Positives = 126/241 (52%), Gaps = 14/241 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ +AG SR +V+R+I ++V V+GIL +R +NV S I V G L Sbjct: 2 RLDKLLGQAGYGSRNQVKRLIRSRQVYVDGILADRDNLNVDASLQTITVSGKELEHTPEV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+V+ D + TV D + R + VGRLD +TEGL+L+TN+G L Sbjct: 62 -YYLMNKPAGVVSARKDKE-HQTVIDLITPEDQRDGLYPVGRLDRDTEGLVLITNNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--IC-YGDMQVTLDTQKGSNAW 188 + P + Y V + + D + G+V + +C +++ + S+A Sbjct: 120 FAMLHPRYHVAKTYYVEVNDVLGPDAPAFFESGVVFEDGTVCKSAQLEILSSARDKSSAH 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTR---EVSKKILREQ 244 +T+ EGK ++KK+F + KV L RIS+G F+L +A GS R E K ILR Sbjct: 180 ITIS--EGKFHQVKKMFLAYGVKVTYLKRISFGAFKLDEGIAVGSYRTLTETEKTILRTY 237 Query: 245 L 245 L Sbjct: 238 L 238 >gi|300778150|ref|ZP_07088008.1| ribosomal large subunit pseudouridine synthase B [Chryseobacterium gleum ATCC 35910] gi|300503660|gb|EFK34800.1| ribosomal large subunit pseudouridine synthase B [Chryseobacterium gleum ATCC 35910] Length = 393 Score = 102 bits (255), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 69/208 (33%), Positives = 113/208 (54%), Gaps = 5/208 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +GI SRRE + +I Q V+VNG ++ V TD + DG + E+ Sbjct: 162 RLNKYIANSGICSRREADELITQGLVEVNGKVVTEMGYQVQKTDRVVFDGQSI-TPEKPV 220 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G ++T D R TV D + + R+ VGRLD +T G++LLTNDG + + Sbjct: 221 YVLLNKPKGYISTTKDDKARKTVMDLVANASPYRLFPVGRLDRSTTGVILLTNDGHMTKK 280 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L PS ++Y V ++ + L L+ +GI + +G+ D Q++ K N V + Sbjct: 281 LTHPSFDAKKIYHVTLDKKLTGEDLRLIAEGIRLDEGVAVVD-QISYIEGKPKNE-VGIE 338 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISY 220 + G NR I+++F+ ++V L R+ + Sbjct: 339 IHIGWNRVIRRIFQRLGYEVEALDRVMF 366 >gi|110636569|ref|YP_676776.1| ribosomal large subunit pseudouridine synthase B [Cytophaga hutchinsonii ATCC 33406] gi|110279250|gb|ABG57436.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Cytophaga hutchinsonii ATCC 33406] Length = 562 Score = 102 bits (255), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 72/224 (32%), Positives = 113/224 (50%), Gaps = 9/224 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +GI SRRE +++I + VKVNGI++ V D ++ + L E++ Sbjct: 330 RLNKYISNSGICSRREADQLIIEGTVKVNGIVVTELGYKVKPGDSVKYNNKVL-NPEKSV 388 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP +TT D + R TV + + R+ VGRLD NT GLLL TNDG LA+ Sbjct: 389 YVLLNKPKDFITTMEDENDRKTVMQLVANATKERIYPVGRLDRNTTGLLLFTNDGELAQK 448 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ---KGSNAWVT 190 L PS + ++Y V + + + IV I D V +D S + Sbjct: 449 LTHPSNKVKKIYEVELDKPITAEDFDK----IVDGKIHLFDGPVKVDEAAIISPSKKIIG 504 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + EG+NR ++++FE + V +L R+ Y + GS R Sbjct: 505 IEIHEGRNRIVRRIFESLGYDVLKLDRVMYAGLTKKNIPRGSWR 548 >gi|57506142|ref|ZP_00372063.1| RNA pseudouridylate synthase family protein [Campylobacter upsaliensis RM3195] gi|57015537|gb|EAL52330.1| RNA pseudouridylate synthase family protein [Campylobacter upsaliensis RM3195] Length = 253 Score = 102 bits (255), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 72/234 (30%), Positives = 119/234 (50%), Gaps = 17/234 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ SRRE + +I Q VK+N + + + V D I + + K + Sbjct: 2 RINKFLSHNTSYSRREADELIKQGLVKINQKIAQLSD-EVKDEDKIFLKNKRIYKKTQFS 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T+++NLP FS +SVGRLD +EGLLLLT+ +A L Sbjct: 61 VIIYHKQKGELVSRKDDRGRKTIYENLPKNFSTWLSVGRLDYASEGLLLLTDSPVIADAL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT----------LDTQ-- 182 + R Y ++ GQ+ + + ++ G+ IQ G T LD + Sbjct: 121 MHSDLE--REYYLKIKGQISKKVIEAMQNGLEIQNSTKGAHAKTKINSMKFAPFLDFEIF 178 Query: 183 --KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 G + V + EG+NRE+++ F +F+ +V L R+++G +LG L G R Sbjct: 179 GWSGGYTKLRVVINEGQNRELRRFFGYFDLEVMDLKRVAFGIVELGMLKVGKYR 232 >gi|262068119|ref|ZP_06027731.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium periodonticum ATCC 33693] gi|291378207|gb|EFE85725.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium periodonticum ATCC 33693] Length = 226 Score = 102 bits (255), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 78/228 (34%), Positives = 117/228 (51%), Gaps = 13/228 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ + + GI SR+EV+++I+ + VKVNG A N+ +D IE +G L E Sbjct: 2 RLDRFLVECGIGSRKEVKKIISTKEVKVNGSYDISAKDNIDEYSDIIEYNGKKLEYKE-F 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++ +K G +T D +TV D LP I + VGRLD +TEGLLL TNDG L Sbjct: 61 RYYIMNKKAGYITATEDT-REATVMDLLPEWVIKKDLAPVGRLDKDTEGLLLFTNDGKLN 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWV 189 L P + Y V + Q+ + L++G+ I VTL +K S+ + Sbjct: 120 HRLLSPKNHVDKTYYVEIENNISQEDILKLEEGVDIGS------YVTLPAKVKKISDTKI 173 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + ++EGK ++KK+ E N KV L R S+ +L L G +EV+ Sbjct: 174 FLTIKEGKFHQVKKMLEAVNNKVIYLQRTSFAKLKLADLALGEVKEVN 221 >gi|330996052|ref|ZP_08319946.1| pseudouridylate synthase [Paraprevotella xylaniphila YIT 11841] gi|329574049|gb|EGG55627.1| pseudouridylate synthase [Paraprevotella xylaniphila YIT 11841] Length = 253 Score = 102 bits (255), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 67/214 (31%), Positives = 108/214 (50%), Gaps = 11/214 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ V +D ++ P+ ER Sbjct: 17 PIRLNKFLANAGVCSRREADEFITAGVVSVNGTVVTELGTKVKRSDEVKFHEQPV-SIER 75 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + ++ R+ VGRLD NT G+LL TNDG LA Sbjct: 76 KVYVLLNKPKDYVTTSDDPQNRKTVMDLVKNVCRERIYPVGRLDRNTTGVLLFTNDGELA 135 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN----A 187 L P ++Y V V + + +GI ++ D ++ D + ++ Sbjct: 136 SKLTHPKFLKKKIYHVTTDKNVTAADMRQIAEGITLE-----DGEIKADAIEYASPTDKK 190 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + + + GKNR ++++FE ++V +L R+ + Sbjct: 191 QIGIEIHSGKNRIVRRIFEALGYRVVKLDRVLFA 224 >gi|325299016|ref|YP_004258933.1| pseudouridine synthase Rsu [Bacteroides salanitronis DSM 18170] gi|324318569|gb|ADY36460.1| pseudouridine synthase Rsu [Bacteroides salanitronis DSM 18170] Length = 431 Score = 102 bits (255), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 79/242 (32%), Positives = 124/242 (51%), Gaps = 7/242 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ K ++ + P R++K +A AG+ SRRE + I V VNG+++ V +D + Sbjct: 183 MEYKEVLADPNEPIRLNKFLANAGLCSRREADEFITAGVVSVNGVVVTELGTKVKRSDEV 242 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTE 119 + P+ K ER L +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 243 KFHDQPV-KIERKVYVLLNKPKDCVTTSDDPQERKTVLDLVKDACTERIYPVGRLDRNTT 301 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGD-MQV 177 G+LLLTNDG LA L P ++Y V V + L+ + GI + G + D + Sbjct: 302 GVLLLTNDGDLASKLTHPKYLKKKIYHVFLDKNVTKADLDQIASGITLDDGEIHADAISY 361 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 DT K + V + + GKNR ++++FE ++V +L R+ + L G R ++ Sbjct: 362 ASDTDK---SQVGIEIHSGKNRIVRRIFESLGYRVIKLDRVYFAGLTKKGLRRGDWRYLT 418 Query: 238 KK 239 ++ Sbjct: 419 ER 420 >gi|21673314|ref|NP_661379.1| ribosomal small subunit pseudouridine synthase A [Chlorobium tepidum TLS] gi|21646406|gb|AAM71721.1| ribosomal small subunit pseudouridine synthase A [Chlorobium tepidum TLS] Length = 247 Score = 102 bits (255), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 73/232 (31%), Positives = 118/232 (50%), Gaps = 16/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R++K +A G+ASRR ++++ + +V VNG + + V D + VDG + E Sbjct: 11 RINKYLAMCGVASRRAADQLVLEGKVSVNGHIADEPGFKVDPRNDEVIVDGRLMATPEAR 70 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ L++KP ++TT+ D R + D + + RV VGRLD + GLLLLTNDG LA Sbjct: 71 KVYILFNKPRNVITTNHDERDRQQILDFI-DVPERVFPVGRLDRKSTGLLLLTNDGTLAH 129 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI------CYGDMQVTLDTQKGSN 186 L PS+Q + Y + L L G+ ++ C + LD Sbjct: 130 RLMHPSSQVQKEYLAALDAKFPPAMLQKLTGGMRLKDTGEKVSPCRAKI---LD----DG 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V V + EGKN +++++F ++V RL R++Y LG L G R +S+ Sbjct: 183 MSVLVSIHEGKNHQVRRMFSTLGFEVKRLDRVAYAGLTLGELRRGEWRFLSR 234 >gi|223933287|ref|ZP_03625276.1| pseudouridine synthase [Streptococcus suis 89/1591] gi|223898017|gb|EEF64389.1| pseudouridine synthase [Streptococcus suis 89/1591] Length = 238 Score = 102 bits (255), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 122/229 (53%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV---MSTDHIEVDGVPLRKAE 71 R+ K + +A + SR++V+++ Q++K+NG + + V + T + V L E Sbjct: 2 RLDKCLEKAKVGSRKQVKKLFKAQQIKINGHAAQSLSQIVDPELQTIQVSGKKVAL---E 58 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGG 129 + +L HKP G+V+ +D + TV D + SR + VGRLD +TEGL+L+TN+G Sbjct: 59 GSAYYLLHKPAGVVSAVTDQE-HQTVIDLISPQDSREGLYPVGRLDRDTEGLVLITNNGP 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAW 188 L + PS +VY V +G + +D G+ + G +T+ ++ Sbjct: 118 LGYRMLHPSHHVDKVYYVEVNGCLAEDASKFFASGVTFLDGTRCQPADLTVLEASLDHSR 177 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 T+ L EGK ++KK+F + KV L RIS+G F+LG L G+ R+++ Sbjct: 178 ATIKLAEGKFHQVKKMFLAYGVKVTYLKRISFGGFELGDLERGAYRQLT 226 >gi|146318298|ref|YP_001198010.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis 05ZYH33] gi|146320492|ref|YP_001200203.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis 98HAH33] gi|253751463|ref|YP_003024604.1| ribosomal small subunit pseudouridine synthase A [Streptococcus suis SC84] gi|253753364|ref|YP_003026505.1| ribosomal small subunit pseudouridine synthase A [Streptococcus suis P1/7] gi|253755807|ref|YP_003028947.1| ribosomal small subunit pseudouridine synthase A [Streptococcus suis BM407] gi|145689104|gb|ABP89610.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Streptococcus suis 05ZYH33] gi|145691298|gb|ABP91803.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Streptococcus suis 98HAH33] gi|251815752|emb|CAZ51353.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus suis SC84] gi|251818271|emb|CAZ56080.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus suis BM407] gi|251819610|emb|CAR45331.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus suis P1/7] gi|292558093|gb|ADE31094.1| Pseudouridine synthase, Rsu [Streptococcus suis GZ1] gi|319757880|gb|ADV69822.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis JS14] Length = 238 Score = 102 bits (255), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 72/227 (31%), Positives = 122/227 (53%), Gaps = 6/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + +A + SR++V+++ Q++K+NG + + V I+V G + E + Sbjct: 2 RLDKCLEKAKVGSRKQVKKLFKAQQIKINGQAAQSLSQIVDPELQTIQVSGKKV-ALEGS 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L HKP G+V+ +D + TV D + SR + VGRLD +TEGL+L+TN+G L Sbjct: 61 AYYLLHKPAGVVSAVTDQE-HQTVIDLISPQDSREGLYPVGRLDRDTEGLVLITNNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 + PS +VY V +G + +D G+ + G +T+ ++ T Sbjct: 120 YRMLHPSHHVDKVYYVEVNGCLAEDASKFFASGVTFLDGTRCQPADLTVLEASLDHSRAT 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L EGK ++KK+F + KV L RIS+G F+LG L G+ R+++ Sbjct: 180 IKLAEGKFHQVKKMFLAYGVKVTYLKRISFGGFELGDLERGTYRQLT 226 >gi|303242956|ref|ZP_07329414.1| pseudouridine synthase [Acetivibrio cellulolyticus CD2] gi|302589505|gb|EFL59295.1| pseudouridine synthase [Acetivibrio cellulolyticus CD2] Length = 250 Score = 102 bits (255), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 77/236 (32%), Positives = 127/236 (53%), Gaps = 14/236 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 QRV ++++ G +RRE+++++ VKV+G +++ + ++V T IE+ G L Sbjct: 5 QRVDRILSNFGFGTRREIKQLVKNGEVKVDGEVIKDSGMHVDPKTSKIEISGQVLN---- 60 Query: 73 TRLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTND 127 R ++Y +KP G+++ D + TV D LP + VGRLDI+TEGLLL+TND Sbjct: 61 YRQFIYVMMNKPAGVISATFD-NRHETVVDILPEEYKCFDPFPVGRLDIDTEGLLLMTND 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSN 186 G LA L P + Y G+V + + ++GI++ Y + L ++G + Sbjct: 120 GQLAHELLSPRKHVPKKYFAYIEGEVSAGDVKMFEEGILLDD-GYKTLPAELHILEQGES 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 + V V + EGK ++K++FE KV L RI+ G L LA G RE+++ L Sbjct: 179 SSVEVIIFEGKFHQVKRMFEAVGKKVKYLKRITMGNLVLDEALATGECRELTENEL 234 >gi|260171988|ref|ZP_05758400.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D2] gi|315920300|ref|ZP_07916540.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D2] gi|313694175|gb|EFS31010.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D2] Length = 482 Score = 102 bits (254), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 75/229 (32%), Positives = 116/229 (50%), Gaps = 7/229 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ + +D ++ P+ ER Sbjct: 246 PIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVVKFHDEPV-SIER 304 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 305 KVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTGVLLLTNDGDLA 364 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWV 189 L P ++Y V + + ++ + GI ++ G + D + T D +K V Sbjct: 365 SKLTHPKFLKKKIYHVHLDKNLTKADMDQIAAGIQLEDGEIHADAISYTDDFKK---DQV 421 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 422 GIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSE 470 >gi|34762584|ref|ZP_00143579.1| Ribosomal small subunit pseudouridine synthase A [Fusobacterium nucleatum subsp. vincentii ATCC 49256] gi|237741688|ref|ZP_04572169.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. 4_1_13] gi|256845012|ref|ZP_05550470.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. 3_1_36A2] gi|294785701|ref|ZP_06750989.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. 3_1_27] gi|27887750|gb|EAA24824.1| Ribosomal small subunit pseudouridine synthase A [Fusobacterium nucleatum subsp. vincentii ATCC 49256] gi|229429336|gb|EEO39548.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. 4_1_13] gi|256718571|gb|EEU32126.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. 3_1_36A2] gi|294487415|gb|EFG34777.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. 3_1_27] Length = 226 Score = 102 bits (254), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 78/229 (34%), Positives = 120/229 (52%), Gaps = 15/229 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGI--LLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ K + GI SR+EV+++I+ + VNG+ +L + ++ ++D IE +G L E Sbjct: 2 RLDKFLVECGIGSRKEVKKLISNDEITVNGMSDILPKDNID-ENSDIIEYNGERLEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 R ++ +K G +T D +TV D LP I + VGRLD +TEGLLL TNDG L Sbjct: 60 FRYYIMNKKAGYITATEDF-KENTVMDLLPEWVIRKDLAPVGRLDKDTEGLLLFTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGD-MQVTLDTQKGSNAW 188 L P +VY V + D+D L L QG+ G+ + +K S+ Sbjct: 119 NHRLLSPKNHIDKVYYVEIENNILDEDILKLE------QGVNIGNYITQPAKVEKISDNK 172 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + ++EGK ++KK+ E N KV L R+S+G L L G +EV+ Sbjct: 173 IYLTIKEGKFHQVKKMLEAVNNKVCYLKRVSFGKLTLNDLTLGEVKEVN 221 >gi|312277957|gb|ADQ62614.1| Pseudouridine synthase [Streptococcus thermophilus ND03] Length = 239 Score = 102 bits (254), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 79/240 (32%), Positives = 124/240 (51%), Gaps = 10/240 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ ++G SR +V+++I ++V V+G+L +R +NV S I V G L A Sbjct: 2 RLDKLLGQSGYGSRNQVKKLIRSRQVYVDGVLADRDNLNVDASLQTIMVSGKELEHAPEV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+V+ D + TV D + R + VGRLD +TEGL+L+TN+G L Sbjct: 62 -YYLMNKPSGVVSARKDKE-HQTVIDLIRPEDQREGLYPVGRLDRDTEGLVLITNNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 + P + Y V + + D + G+V + G Q+ + + + Sbjct: 120 FAMLHPRYHVAKTYYVEVNDILGPDAPAFFESGVVFEDGTVCQSAQLEVLSSASDKSCAR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTR---EVSKKILREQLG 246 V + EGK ++KK+F + KV L RIS+G F+L +A GS R E K ILR LG Sbjct: 180 VTISEGKFHQVKKMFLAYGVKVTYLKRISFGEFKLDEGMAVGSYRTLTEAEKTILRTYLG 239 >gi|227485055|ref|ZP_03915371.1| pseudouridylate synthase [Anaerococcus lactolyticus ATCC 51172] gi|227236888|gb|EEI86903.1| pseudouridylate synthase [Anaerococcus lactolyticus ATCC 51172] Length = 231 Score = 102 bits (254), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 71/216 (32%), Positives = 116/216 (53%), Gaps = 9/216 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG SRR+ + +I + +VK+N ++ ++V D +EV+G L ++ Sbjct: 2 RINKFIAHAGYTSRRKADELILKGKVKINDEVILEPGIDVCDDDRVEVEGKVLSIEKKFY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + LY KP+G +T++ DP + + L I R + GRLD ++EGLL++TNDG L Sbjct: 62 IKLY-KPVGFITSNFDPYNEKDL-NELVDIDKRFFAAGRLDKDSEGLLIITNDGEFTNNL 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTVG 192 P + + Y V+ VD+ KL ++ QG+ G+ + T D + N V Sbjct: 120 IHPKYKLDKEYIVK----VDK-KLKDYQEKQFAQGLDIGNGEKTSDAKIEYLENNTYRVI 174 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + +G NR+I+++F+ F KV L RI G L L Sbjct: 175 IHQGYNRQIRRMFKVFGIKVVSLKRIRIGKISLSNL 210 >gi|256752686|ref|ZP_05493537.1| pseudouridine synthase [Thermoanaerobacter ethanolicus CCSD1] gi|256748448|gb|EEU61501.1| pseudouridine synthase [Thermoanaerobacter ethanolicus CCSD1] Length = 240 Score = 102 bits (254), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 78/231 (33%), Positives = 123/231 (53%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K+++ GI +R+EV++ I + V VNG ++ A + + TD I DG + E Sbjct: 4 MRIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIINTETDEILFDGKKIYYKEF 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+++ DP + TV D LP VGRLD +TEGLLL+TNDG L Sbjct: 64 IYIMM-NKPKGVISATYDPIEK-TVIDLLPQELKARNPFPVGRLDKDTEGLLLITNDGDL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 A L P ++ Y + G V++ + +GIV++ Y + L+ S+ + V Sbjct: 122 AHKLLSPKKNVIKKYYAKILGFVNESDIKAFNEGIVLED-GYKTLPANLEILSSSDVSKV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 V +REGK +IK++FE KV L R++ G L L G RE+S++ Sbjct: 181 YVYIREGKYHQIKRMFESVGKKVIYLKRLAMGNLTLDENLKPGEWRELSEE 231 >gi|296327880|ref|ZP_06870416.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium nucleatum subsp. nucleatum ATCC 23726] gi|296155014|gb|EFG95795.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium nucleatum subsp. nucleatum ATCC 23726] Length = 226 Score = 102 bits (254), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 80/227 (35%), Positives = 117/227 (51%), Gaps = 11/227 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + GI SR+EV+++I+ + VNG+ A N+ ++D IE +G L E Sbjct: 2 RLDKFLVECGIGSRKEVKKLISNGEITVNGMSYILAKDNIDENSDTIEYNGERLEYKE-F 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++ +K G +T D TV D LP I + VGRLD +TEGLLL TNDG L Sbjct: 61 RYYIMNKKAGYITATEDF-KEDTVMDLLPEWVIKKDLAPVGRLDKDTEGLLLFTNDGKLN 119 Query: 132 RVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P +VY V + D+D L L++G+ I +V +K S+ + Sbjct: 120 HKLLSPKNHIDKVYYVEIEKNILDEDILK-LEQGVDIGNYITQPAKV----EKISDNKIY 174 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + ++EGK ++KK+ E N KV L R S+G L L G +EVS Sbjct: 175 LTIKEGKFHQVKKMLEAVNNKVCYLRRESFGKLTLNDLTLGEVKEVS 221 >gi|167040440|ref|YP_001663425.1| pseudouridine synthase [Thermoanaerobacter sp. X514] gi|300913725|ref|ZP_07131042.1| pseudouridine synthase [Thermoanaerobacter sp. X561] gi|307723259|ref|YP_003903010.1| pseudouridine synthase [Thermoanaerobacter sp. X513] gi|166854680|gb|ABY93089.1| pseudouridine synthase [Thermoanaerobacter sp. X514] gi|300890410|gb|EFK85555.1| pseudouridine synthase [Thermoanaerobacter sp. X561] gi|307580320|gb|ADN53719.1| pseudouridine synthase [Thermoanaerobacter sp. X513] Length = 240 Score = 102 bits (254), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 79/233 (33%), Positives = 124/233 (53%), Gaps = 8/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K+++ GI +R+EV++ I + V VNG ++ A + + TD I DG + E Sbjct: 4 MRIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIINTETDEILFDGKKIYYKEF 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+++ DP + TV D LP VGRLD +TEGLLL+TNDG L Sbjct: 64 IYIMM-NKPEGVISATYDPIEK-TVIDLLPQELKARNPFPVGRLDKDTEGLLLITNDGDL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 A L P ++ Y + G V++ + +GIV++ Y + L+ S+ + V Sbjct: 122 AHKLLSPKKNVIKKYYAKILGFVNESDIKAFNEGIVLED-GYKTLPANLEILSSSDVSKV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V +REGK +IK++FE KV L R++ G L L G RE+S++ L Sbjct: 181 YVYIREGKYHQIKRMFESVGKKVIYLKRLAMGNLTLDENLKPGEWRELSEEEL 233 >gi|289810570|ref|ZP_06541199.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 147 Score = 102 bits (254), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 65/145 (44%), Positives = 85/145 (58%), Gaps = 6/145 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG----VPLR 68 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG V Sbjct: 3 EKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKES 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T +DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 63 AEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQ 152 G LA L PS + R Y VR GQ Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQ 147 >gi|119477210|ref|ZP_01617446.1| Hypothetical pseudouridylate synthase [marine gamma proteobacterium HTCC2143] gi|119449573|gb|EAW30811.1| Hypothetical pseudouridylate synthase [marine gamma proteobacterium HTCC2143] Length = 233 Score = 102 bits (254), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 70/231 (30%), Positives = 116/231 (50%), Gaps = 5/231 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + I++ + S + R++AQQR+ V+G L V H+ +DG L + Sbjct: 7 RLDRFISQNSVYSLSDTRRLLAQQRIFVDGHLAYSIQQQVTQFTHVVLDGNCLNDSTAVY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 + L +KP G V+ +DP TV D + + VGRLD NT GL+LLTNDG +R Sbjct: 67 MML-NKPKGFVSATTDPK-HPTVLDLIQHPQKNELHIVGRLDFNTTGLVLLTNDGAWSRK 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + LP T+ ++Y V ++ + + + +KGI L+ A ++ L Sbjct: 125 ISLPETKLAKIYEVTLSKPLNDEYIEVFRKGIYFSYENITTQPAYLEILSEYQARLS--L 182 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 EGK ++K++F FF +V L R + GP L L G ++ ++K+ + Q Sbjct: 183 IEGKYHQVKRMFGFFQNEVLALHRTAVGPISLDGLTVGHSKLLTKQTIEGQ 233 >gi|240145658|ref|ZP_04744259.1| ribosomal large subunit pseudouridine synthase B [Roseburia intestinalis L1-82] gi|257202246|gb|EEV00531.1| ribosomal large subunit pseudouridine synthase B [Roseburia intestinalis L1-82] Length = 251 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 69/240 (28%), Positives = 122/240 (50%), Gaps = 19/240 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K ++ AG+ SRRE +R + V ++G++ A V+ + G P++K E Sbjct: 4 PVRINKYLSEAGVCSRREADRQVEAGNVTIDGVVASMGA-KVLPDQTVLFCGKPVKKEEE 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +HKP G+V T + + V + N P R+ +GRLD ++EGLLL+TN+G + Sbjct: 63 MILLAFHKPTGIVCTAEKREKNNVVDYINYPK---RIYPIGRLDKDSEGLLLMTNNGDIV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--- 188 + + Y V + V L L G+ + +++ T+K W Sbjct: 120 NRIMRAGNMHEKEYIVTVNKPVTDSFLRGLAGGVPL-------VELNATTRK-CKVWRIG 171 Query: 189 ---VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E+F ++V +L+R +LG L AG+ REV+ + +E + Sbjct: 172 KRQFGIILTQGLNRQIRRMCEYFGYRVEKLVRTRIMNIELGDLKAGTYREVTPQEYKELM 231 >gi|304315594|ref|YP_003850739.1| RNA-binding S4 domain protein [Thermoanaerobacterium thermosaccharolyticum DSM 571] gi|302777096|gb|ADL67655.1| RNA-binding S4 domain protein [Thermoanaerobacterium thermosaccharolyticum DSM 571] Length = 241 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 78/234 (33%), Positives = 119/234 (50%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K+++ G +R+EV+ I + V VNG + + ++ TD ++ + R Sbjct: 4 MRIDKLLSNTGFGTRKEVKGFIKEGLVTVNGRTVNDPGL-IIETDKDDIIFNDEKIFYRK 62 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 ++ + +KP G+++ DP TV D LP +V GRLD +TEGLLLLTNDG L Sbjct: 63 YIYIMMNKPRGVISATYDP-SEKTVLDLLPDDIKARKVFPAGRLDKDTEGLLLLTNDGIL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-TQKGSNAWV 189 A L P + Y G +D+D ++L GIV+ Y M L+ GS + V Sbjct: 122 AHKLLSPKKHVYKKYYAEISGFIDEDDISLFSNGIVLDD-GYKTMPAYLEIISSGSISKV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V ++EGK +IK++FE KV L R+S G L L G RE++ L+ Sbjct: 181 YVSIKEGKYHQIKRMFESLGSKVIYLKRLSMGYLNLDENLKEGEWRELTDNELK 234 >gi|327312548|ref|YP_004327985.1| pseudouridylate synthase [Prevotella denticola F0289] gi|326945115|gb|AEA21000.1| pseudouridylate synthase [Prevotella denticola F0289] Length = 507 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 75/218 (34%), Positives = 109/218 (50%), Gaps = 8/218 (3%) Query: 8 QENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +ENF P R++K +A AG+ SRRE + I V VNG +++ V+ +D + Sbjct: 263 EENFDPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVLRSDVVLFQE 322 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLL 123 P+ E+ L +KP VTT DP R TV D + R+ VGRLD NT G+LL Sbjct: 323 KPV-SLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDRNTTGVLL 381 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQ 182 LTNDG LA L P +VY V V + L + GI ++ G D D Q Sbjct: 382 LTNDGDLASKLTHPKFLKKKVYHVFLDKPVTANDLQKISDGIELEDGEIKADAIEYADPQ 441 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 V + + GKNR ++++FE ++V +L R+ + Sbjct: 442 --DQTQVGIEIHSGKNRIVRRIFESLGYRVIKLDRVQF 477 >gi|269114930|ref|YP_003302693.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma hominis] gi|268322555|emb|CAX37290.1| Ribosomal large subunit pseudouridine synthaseB (rRNA-uridine isomerase B, rRNA pseudouridylatesynthase B) [Mycoplasma hominis ATCC 23114] Length = 240 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 68/229 (29%), Positives = 115/229 (50%), Gaps = 10/229 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--- 69 +R+ K+++ GI SRR+ E +I ++ +N + + V D I+++ ++ Sbjct: 5 AKRIQKILSEQGICSRRKAEELILSGKILINNKIAKLGEC-VTINDEIKINNRIIKLNNN 63 Query: 70 -AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 A + + +KP+ + T SDP R T+++ L + R+ S+GRLD NT G++L+TNDG Sbjct: 64 IANNFKYIVLNKPMNTICTASDPQNRKTIYEYLKA-KERLFSIGRLDFNTTGIILITNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 A +L PS++ R+Y ++ +LNLL V+ +VT K S Sbjct: 123 EFANLLSHPSSEIPRIYIATLEREMLDGELNLLNSNHVLLNGKISKQKVT----KLSAFK 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V L EG+N +K +F N V +L R S+G L G R ++ Sbjct: 179 YEVLLYEGRNHHVKNLFLLVNNYVKKLHRKSFGCIDDSNLKIGQYRNLT 227 >gi|300771415|ref|ZP_07081291.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Sphingobacterium spiritivorum ATCC 33861] gi|300762085|gb|EFK58905.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Sphingobacterium spiritivorum ATCC 33861] Length = 441 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 75/230 (32%), Positives = 117/230 (50%), Gaps = 6/230 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ I+ AGI SRR+ + +I + VNG ++ E + + D I+ +G L++ E+ Sbjct: 208 RLNRYISNAGICSRRKADELITAGVISVNGEVVTELGSKVDPAKDEIKYNGERLKR-EKM 266 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP +TT DP R TV + + R+ VGRLD NT GLLLLTNDG LA Sbjct: 267 VYVLLNKPKDYITTTDDPQERRTVMQLVANATKERIYPVGRLDRNTTGLLLLTNDGNLAE 326 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P ++Y V ++Q N + G+ ++ G D + Q GS V + Sbjct: 327 KLSHPRNNISKIYNVELDKSLNQGDFNKIVFGLELEDGFVKPDDLSYV--QGGSKREVGI 384 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + GKNR ++++FE + V +L R+ Y L G R + +K L Sbjct: 385 QIHSGKNRIVRRIFESLGYDVVKLDRVVYANLTKKDLPRGRWRYLEEKEL 434 >gi|55822523|ref|YP_140964.1| ribosomal small subunit pseudouridine synthase A [Streptococcus thermophilus CNRZ1066] gi|55738508|gb|AAV62149.1| ribosomal small subunit pseudouridine synthase A [Streptococcus thermophilus CNRZ1066] Length = 239 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 79/240 (32%), Positives = 124/240 (51%), Gaps = 10/240 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ ++G SR +V+++I ++V V+G+L +R +NV S I V G L A Sbjct: 2 RLDKLLGQSGYGSRNQVKKLIRSRQVYVDGVLADRDNLNVDASLQTIMVSGKELEHAPEV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+V+ D + TV D + R + VGRLD +TEGL+L+TN+G L Sbjct: 62 -YYLMNKPSGVVSARKDKE-HQTVIDLIRPEDRREGLYPVGRLDRDTEGLVLITNNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 + P + Y V + + D + G+V + G Q+ + + + Sbjct: 120 FAMLHPRYHVAKTYYVEVNDILGPDAPAFFESGVVFEDGTVCKSAQLEVLSSASDKSCAR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTR---EVSKKILREQLG 246 V + EGK ++KK+F + KV L RIS+G F+L +A GS R E K ILR LG Sbjct: 180 VTISEGKFHQVKKMFLAYGVKVTYLKRISFGEFKLDEGMAVGSYRTLTEAEKTILRTYLG 239 >gi|320535214|ref|ZP_08035340.1| hypothetical protein HMPREF9554_00054 [Treponema phagedenis F0421] gi|320147952|gb|EFW39442.1| hypothetical protein HMPREF9554_00054 [Treponema phagedenis F0421] Length = 259 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 69/237 (29%), Positives = 127/237 (53%), Gaps = 15/237 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 RV K++A G SR++V + + +NG+ A ++ T D + V+G+ ++ RT Sbjct: 2 RVDKILASNGYGSRKDVRVFLKKNNCCINGVRCINPAQHIDPTKDTVTVNGISVQL--RT 59 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ + HKP G V++ DP + TV D LP+ F+ + +GRLDI+TEGLL++TNDG L Sbjct: 60 SVYIMLHKPAGCVSSTKDPIHK-TVMDFLPAPFNAMDLFPIGRLDIDTEGLLIITNDGNL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLN----LLKKGIVIQG--ICY-GDMQVTLDTQK 183 + P + ++ Y + + + +++ L +GI++ C +++T + Sbjct: 119 THSITAPKSNCVKTYYLELERPLTETEIHNFTEKLAQGILLHTGYTCLPAALELTENIHT 178 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + + + EGK +IKK+ F K+ L R+S +L +L AG+ RE++ + Sbjct: 179 KNAQAFLIHITEGKYHQIKKMCTAFGVKLTYLKRVSMAGLELDPSLAAGNCRELTSE 235 >gi|325851841|ref|ZP_08171006.1| pseudouridylate synthase [Prevotella denticola CRIS 18C-A] gi|325484683|gb|EGC87596.1| pseudouridylate synthase [Prevotella denticola CRIS 18C-A] Length = 507 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 75/218 (34%), Positives = 109/218 (50%), Gaps = 8/218 (3%) Query: 8 QENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +ENF P R++K +A AG+ SRRE + I V VNG +++ V+ +D + Sbjct: 263 EENFDPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVLRSDVVLFQE 322 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLL 123 P+ E+ L +KP VTT DP R TV D + R+ VGRLD NT G+LL Sbjct: 323 KPV-SLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDRNTTGVLL 381 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQ 182 LTNDG LA L P +VY V V + L + GI ++ G D D Q Sbjct: 382 LTNDGDLASKLTHPKFLKKKVYHVFLDKPVTANDLQKISDGIELEDGEIKADAIEYADPQ 441 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 V + + GKNR ++++FE ++V +L R+ + Sbjct: 442 --DQTQVGIEIHSGKNRIVRRIFESLGYRVVKLDRVQF 477 >gi|291536368|emb|CBL09480.1| ribosomal large subunit pseudouridine synthase F [Roseburia intestinalis M50/1] gi|291538762|emb|CBL11873.1| ribosomal large subunit pseudouridine synthase F [Roseburia intestinalis XB6B4] Length = 251 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 69/240 (28%), Positives = 122/240 (50%), Gaps = 19/240 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K ++ AG+ SRRE +R + V ++G++ A V+ + G P++K E Sbjct: 4 PVRINKYLSEAGVCSRREADRQVEAGNVTIDGVVASMGA-KVLPDQTVLFCGKPVKKEEE 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +HKP G+V T + + V + N P R+ +GRLD ++EGLLL+TN+G + Sbjct: 63 MILLAFHKPTGIVCTAEKREKNNVVDYINYPK---RIYPIGRLDKDSEGLLLMTNNGDIV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--- 188 + + Y V + V L L G+ + +++ T+K W Sbjct: 120 NRIMRAGNMHEKEYIVTVNKPVTDSFLRGLAGGVPL-------VELNATTRK-CKVWGIG 171 Query: 189 ---VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E+F ++V +L+R +LG L AG+ REV+ + +E + Sbjct: 172 KRQFGIILTQGLNRQIRRMCEYFGYRVEKLVRTRIMNIELGDLKAGTYREVTPQEYKELM 231 >gi|302335698|ref|YP_003800905.1| ribosomal large subunit pseudouridine synthase B [Olsenella uli DSM 7084] gi|301319538|gb|ADK68025.1| ribosomal large subunit pseudouridine synthase B [Olsenella uli DSM 7084] Length = 267 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 69/226 (30%), Positives = 112/226 (49%), Gaps = 15/226 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ + +ARAG+ASRR E +++ RV+VNG ++ V D + VDGV R ++ Sbjct: 13 RLQRFLARAGVASRRGSENLMSAGRVRVNGRVVSELGSKVTPGIDVVTVDGVECRLSDEH 72 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +TT SDP GR V + +P+ + + VGRLD +T GLLL + DG +A Sbjct: 73 AYLMLNKPAGYLTTMSDPQGRPCVAELVPTARYPGLFPVGRLDADTTGLLLFSTDGEVAN 132 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---------ICYGDMQVTLDTQK 183 L PS + Y G +L +L+ G+ + + D ++ Sbjct: 133 ALLHPSRHVWKRYVALVRGTPTTRQLAMLRAGVPLDDGVARPADAHLLGADDPLSASVVT 192 Query: 184 G----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G A V++ + EGK ++K++ + +V L R +GP L Sbjct: 193 GGADPGCAVVSIRIHEGKKHQVKRMLKAVGHEVVHLHRSEFGPLVL 238 >gi|229825370|ref|ZP_04451439.1| hypothetical protein GCWU000182_00724 [Abiotrophia defectiva ATCC 49176] gi|229790374|gb|EEP26488.1| hypothetical protein GCWU000182_00724 [Abiotrophia defectiva ATCC 49176] Length = 234 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 69/225 (30%), Positives = 115/225 (51%), Gaps = 5/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ AG+ SRR +R+I + RV VNG +V V ++D + VDG + + Sbjct: 5 RINKYLSEAGVCSRRGADRLIEEGRVSVNGNHAFLGSV-VKNSDEVRVDGNLVTPVIKKI 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP G+V T +DP + + R+ VGRLD +EGL+LL+NDG L+ + Sbjct: 64 LIAFNKPRGIVCTTADPKSKDVNIIEYINYPERIFPVGRLDKESEGLILLSNDGDLSNKI 123 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V D + L + +G+ I + + N +T GL Sbjct: 124 MKARNFHEKEYEVEVDKPFDDEFLKKMSEGVPILDTITRKCTLKRTGKTSFNIILTQGL- 182 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 NR+I+++ E+F +KV +L RI +LG L +G+ R ++ K Sbjct: 183 ---NRQIRRMCEYFGYKVLKLKRIRIMNIKLGNLKSGTYRNITDK 224 >gi|237719081|ref|ZP_04549562.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_2_4] gi|229451460|gb|EEO57251.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_2_4] Length = 493 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 75/229 (32%), Positives = 116/229 (50%), Gaps = 7/229 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ + +D ++ P+ ER Sbjct: 257 PIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVVKFHDEPV-SIER 315 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 316 KVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTGVLLLTNDGDLA 375 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWV 189 L P ++Y V + + ++ + GI ++ G + D + T D +K V Sbjct: 376 SKLTHPKFLKKKIYHVHLDKNLTKADMDQIAAGIQLEDGEIHADAISYTDDFKK---DQV 432 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 433 GIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSE 481 >gi|283956165|ref|ZP_06373650.1| putative ribosomal pseudouridine synthase [Campylobacter jejuni subsp. jejuni 1336] gi|283792319|gb|EFC31103.1| putative ribosomal pseudouridine synthase [Campylobacter jejuni subsp. jejuni 1336] Length = 253 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 75/234 (32%), Positives = 117/234 (50%), Gaps = 17/234 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +I Q +K+N + + V D + V G ++K + Sbjct: 2 RINKFISHNTCYSRREADELIKQGLIKINN-KIALLSDEVKFDDKVFVKGKRVQKRTQFS 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A L Sbjct: 61 VIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIADAL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----------- 183 + R Y ++ G V + + ++ G+ I+ G T T Sbjct: 121 MHSDLE--REYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEIF 178 Query: 184 GSNAWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 GS+ T V + EGKNRE+++ F F+ +V L R+++G LG L AG R Sbjct: 179 GSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKHR 232 >gi|317505008|ref|ZP_07962956.1| ribosomal large subunit pseudouridine synthase B [Prevotella salivae DSM 15606] gi|315663890|gb|EFV03609.1| ribosomal large subunit pseudouridine synthase B [Prevotella salivae DSM 15606] Length = 490 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 73/210 (34%), Positives = 107/210 (50%), Gaps = 5/210 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ V+ D ++ P+ E+ Sbjct: 254 PIRLNKYLANAGVCSRREADEFILAGVVTVNGNVVTELGTKVLRADEVKFHDQPV-SLEK 312 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 313 KVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDVCPERIYPVGRLDRNTTGVLLLTNDGDLA 372 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P +VY V V +D L + GI ++ G + D D + V Sbjct: 373 SKLTHPKFLKKKVYHVHLDKNVTEDDLQKIASGIELEDGEIHADAIEYADER--DKKQVG 430 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISY 220 + + GKNR ++++FE ++V RL R+ + Sbjct: 431 IEIHSGKNRIVRRIFESLGYRVLRLDRVQF 460 >gi|254775517|ref|ZP_05217033.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium avium subsp. avium ATCC 25291] Length = 247 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 77/229 (33%), Positives = 112/229 (48%), Gaps = 6/229 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+++AGIASRR E++I RV+V+G ++ V I VDG + E Sbjct: 8 RLQKVLSQAGIASRRAAEKLIVDGRVEVDGQVVTELGTRVDPDAAVIRVDGARVVLDESQ 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 +KP G+ +T SD GR + D + + VGRLD TEGL+LLTNDG L Sbjct: 68 VYLALNKPRGVHSTMSDDRGRPCIGDLIERRVRGNKNLFHVGRLDAETEGLILLTNDGEL 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G + + L+ GI + G+ D +D G V Sbjct: 128 AHRLMHPSHEVPKTYLATVTGSIPRGLGKTLRAGIELDDGMARVDEFAVVDATPGKT-LV 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V L EG+NR ++++ + V L+R GP LG GS R + + Sbjct: 187 RVTLHEGRNRIVRRLLAAAGFPVESLVRTDIGPISLGKQRPGSIRALGR 235 >gi|291336628|gb|ADD96174.1| hypothetical protein [uncultured organism MedDCM-OCT-S05-C185] Length = 109 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 47/93 (50%), Positives = 68/93 (73%) Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RV+SVGRLD+++EGL+LLTN+G LA +LE PST WLR Y+VR +G+ + L+ G Sbjct: 1 MPRVVSVGRLDLDSEGLILLTNNGELANLLEAPSTNWLRQYKVRVYGRPQISGFDKLRLG 60 Query: 165 IVIQGICYGDMQVTLDTQKGSNAWVTVGLREGK 197 + ++GI Y +++ L+ Q GSNAW+ + LREGK Sbjct: 61 VTLEGIKYKPIRIELERQTGSNAWLNIALREGK 93 >gi|154491797|ref|ZP_02031423.1| hypothetical protein PARMER_01414 [Parabacteroides merdae ATCC 43184] gi|154088038|gb|EDN87083.1| hypothetical protein PARMER_01414 [Parabacteroides merdae ATCC 43184] Length = 249 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 122/244 (50%), Gaps = 11/244 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 MK K ++ + P R++K ++ AG+ SRRE + I + V+VNG ++ + D + Sbjct: 1 MKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQEGVVQVNGQIVTELGTKITRQDTV 60 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 P++ + + L +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 61 LFKDQPVQIESKVYIVL-NKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTT 119 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L PS + ++Y V V + + + G+ ++ D ++ Sbjct: 120 GVLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVSIEDMEKIANGLELE-----DGEIHA 174 Query: 180 D----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 D + + V + + G+NR ++++FE + V +L R+ + L G R Sbjct: 175 DAISYASEDDKSQVGIEIHSGRNRIVRRIFESLGYHVVKLDRVYFAGLTKKNLGRGKWRY 234 Query: 236 VSKK 239 ++++ Sbjct: 235 LNER 238 >gi|55820632|ref|YP_139074.1| ribosomal small subunit pseudouridine synthase A [Streptococcus thermophilus LMG 18311] gi|55736617|gb|AAV60259.1| ribosomal small subunit pseudouridine synthase A [Streptococcus thermophilus LMG 18311] Length = 239 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 78/240 (32%), Positives = 124/240 (51%), Gaps = 10/240 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ ++G SR +V+++I ++V V+G+L +R +NV S I V G L A Sbjct: 2 RLDKLLGQSGYGSRNQVKKLIRSRQVYVDGVLADRDNLNVDASLQTIMVSGKELEHAPEV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+V+ D + TV D + R + VGRLD +TEGL+L+TN+G L Sbjct: 62 -YYLMNKPSGVVSARKDKE-HQTVIDLIRPEDRREGLYPVGRLDRDTEGLVLITNNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 + P + Y V + + D + G+V + G Q+ + + + Sbjct: 120 FAMLHPRYHVAKTYYVEVNDILGPDAPAFFESGVVFEDGTVCQSAQLEILSSASDKSCAR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTR---EVSKKILREQLG 246 + + EGK ++KK+F + KV L RIS+G F+L +A GS R E K ILR LG Sbjct: 180 ITISEGKFHQVKKMFLAYGVKVTYLKRISFGEFKLDEGMAVGSYRTLTEAEKTILRTYLG 239 >gi|227540649|ref|ZP_03970698.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Sphingobacterium spiritivorum ATCC 33300] gi|227239511|gb|EEI89526.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Sphingobacterium spiritivorum ATCC 33300] Length = 441 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 75/230 (32%), Positives = 117/230 (50%), Gaps = 6/230 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ I+ AGI SRR+ + +I + VNG ++ E + + D I+ +G L++ E+ Sbjct: 208 RLNRYISNAGICSRRKADELITAGVISVNGEVVTELGSKVDPAKDEIKYNGERLKR-EKM 266 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP +TT DP R TV + + R+ VGRLD NT GLLLLTNDG LA Sbjct: 267 VYVLLNKPKDYITTTDDPQERRTVMQLVANATKERIYPVGRLDRNTTGLLLLTNDGNLAE 326 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P ++Y V ++Q N + G+ ++ G D + Q GS V + Sbjct: 327 KLSHPRNNISKIYNVELDKSLNQGDFNKIVFGLELEDGFVKPDDLSYV--QGGSKREVGI 384 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + GKNR ++++FE + V +L R+ Y L G R + +K L Sbjct: 385 QIHSGKNRIVRRIFESLGYDVVKLDRVVYANLTKKDLPRGRWRYLEEKEL 434 >gi|255012441|ref|ZP_05284567.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_1_7] Length = 495 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 69/244 (28%), Positives = 123/244 (50%), Gaps = 11/244 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K ++ + P R++K ++ AG+ SRRE + I + VKVN +++ + D + Sbjct: 247 IKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQKGAVKVNDVVVTELGTKITRQDVV 306 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 + P++ + + L +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 307 TFNEKPVQIESKVYIVL-NKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTT 365 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L PS + ++Y V V + + + G+ ++ D ++ Sbjct: 366 GVLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVAIEDMEKIANGLELE-----DGEIHA 420 Query: 180 D----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 D + + V + + G+NR ++++FE + V +L R+ + L G R Sbjct: 421 DAISYASEDDKSQVGIEIHSGRNRIVRRIFESLGYHVTKLDRVYFAGLTKKNLGRGKWRY 480 Query: 236 VSKK 239 ++++ Sbjct: 481 LNER 484 >gi|293369516|ref|ZP_06616095.1| pseudouridylate synthase [Bacteroides ovatus SD CMC 3f] gi|292635401|gb|EFF53914.1| pseudouridylate synthase [Bacteroides ovatus SD CMC 3f] Length = 485 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 75/229 (32%), Positives = 115/229 (50%), Gaps = 7/229 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ + +D ++ P+ ER Sbjct: 249 PIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVVKFHDEPV-SIER 307 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 308 KVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTGVLLLTNDGDLA 367 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWV 189 L P ++Y V + + + + GI ++ G + D + T D +K V Sbjct: 368 SKLTHPKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIHADAISYTDDFKK---DQV 424 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 425 GIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSE 473 >gi|170288482|ref|YP_001738720.1| pseudouridine synthase [Thermotoga sp. RQ2] gi|170175985|gb|ACB09037.1| pseudouridine synthase [Thermotoga sp. RQ2] Length = 239 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 71/246 (28%), Positives = 124/246 (50%), Gaps = 10/246 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +G+ +R+EV+++I Q RV VNG ++ V+ D + +DG +R ++ Sbjct: 2 RLDRYLSNSGVGTRKEVKKLIKQGRVTVNGRVVLDPGHPVLENDAVALDGEVVRFHKKVY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L++KP G VT+ DP T+ + LP + + VGRLD + EGLL++TNDG A + Sbjct: 62 I-LFYKPSGYVTSTKDPHS-ETIMEFLPPL-KGIFPVGRLDKDAEGLLIITNDGDFAHRV 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V+ G+V +DK+ LK G+ ++ + + +K SN + + + Sbjct: 119 ISPKWSVEKEYIVKVEGEVTEDKIEKLKNGVTLRDGFFAKAKC---VEKLSNDTLKIVIT 175 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGK +IK++ K L R G G +L + + L E+ + E Sbjct: 176 EGKYHQIKRMTAAVGLKTVHLKRTRIG----GLVLPDDMKPGEYRFLSEEEVKKVFERED 231 Query: 255 VNLDAP 260 D P Sbjct: 232 QKEDTP 237 >gi|121533339|ref|ZP_01665167.1| pseudouridine synthase [Thermosinus carboxydivorans Nor1] gi|121307898|gb|EAX48812.1| pseudouridine synthase [Thermosinus carboxydivorans Nor1] Length = 245 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 84/234 (35%), Positives = 118/234 (50%), Gaps = 18/234 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 QR+ KV+A G SRRE+++M+ +RV VNG ++ ++V D IEVDG P+ E Sbjct: 7 QRLDKVLAHLGYGSRREIKKMVKAERVIVNGAVVRDPELHVFPWQDRIEVDGEPIHYREY 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 L + +KP G+++ D G+ V P F+ VGRLD +TEGLLLLTNDG L Sbjct: 67 IYLMM-NKPQGVLSATEDAAGKVVVDLLRPEHKAFAP-FPVGRLDKDTEGLLLLTNDGQL 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGDMQVTLDTQ-----KG 184 A L P + Y R G V D+D KG GI D TL + G Sbjct: 125 AHRLLAPKKHVPKRYYARVKGVVTDED------KGAFQAGITLDDGYRTLPAELTILHAG 178 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + V + + EGK ++K++F V L R++ G L LA G RE++ Sbjct: 179 PVSEVELVIYEGKFHQVKRMFAARGKTVTYLKRLAMGALVLDEKLAPGEYRELT 232 >gi|153809092|ref|ZP_01961760.1| hypothetical protein BACCAC_03402 [Bacteroides caccae ATCC 43185] gi|149128425|gb|EDM19644.1| hypothetical protein BACCAC_03402 [Bacteroides caccae ATCC 43185] Length = 494 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 82/248 (33%), Positives = 123/248 (49%), Gaps = 21/248 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ + +D ++ P+ ER Sbjct: 258 PIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVVKFHDEPV-SIER 316 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 317 KVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTGVLLLTNDGDLA 376 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWV 189 L P ++Y V + + ++ + GI ++ G + D + T D +K V Sbjct: 377 SKLTHPKFLKKKIYHVHLDKNLTKADMDQIAAGIQLEDGEIHADAISYTDDFKK---DQV 433 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + + GKNR ++++FE +KV +L R+ AG ++KK LR Sbjct: 434 GIEIHSGKNRIVRRIFESLGYKVVKLDRV---------FFAG----LTKKGLRRGDW-RY 479 Query: 250 LEEAQVNL 257 L EA+VN Sbjct: 480 LSEAEVNY 487 >gi|29349280|ref|NP_812783.1| ribosomal large subunit pseudouridine synthase B [Bacteroides thetaiotaomicron VPI-5482] gi|253570374|ref|ZP_04847783.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 1_1_6] gi|298384818|ref|ZP_06994377.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 1_1_14] gi|29341188|gb|AAO78977.1| ribosomal large subunit pseudouridine synthase B [Bacteroides thetaiotaomicron VPI-5482] gi|251840755|gb|EES68837.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 1_1_6] gi|298261962|gb|EFI04827.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 1_1_14] Length = 496 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 74/229 (32%), Positives = 116/229 (50%), Gaps = 7/229 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ + +D ++ P+ ER Sbjct: 260 PIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVVKFHDEPV-SIER 318 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 319 KVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTGVLLLTNDGDLA 378 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWV 189 L P ++Y V + + ++ + G+ ++ G + D + T D +K V Sbjct: 379 SKLTHPKFLKKKIYHVHLDKNLTKADMDQIAAGVQLEDGEIHADAISYTDDFKK---DQV 435 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 436 GIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSE 484 >gi|225850577|ref|YP_002730811.1| ribosomal large subunit pseudouridine synthase B [Persephonella marina EX-H1] gi|225645869|gb|ACO04055.1| ribosomal large subunit pseudouridine synthase B [Persephonella marina EX-H1] Length = 241 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 79/234 (33%), Positives = 130/234 (55%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+++ IAR+G SRR+ +++I +VKVNG +++ V D +E+DG L K E Sbjct: 4 RLNRFIARSGYCSRRKADQLIEMGKVKVNGKVVKDFGYRVDTEKDRVEIDG-KLIKLELK 62 Query: 74 RLWL-YHKPIGLVTT-HSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGG 129 ++++ +KP G +T D GR T+ D I V GRLD +EGLLLLTNDG Sbjct: 63 KVYIKLYKPRGYLTQLGKDKFGRKTLTDLFKEVGIKDNVFPAGRLDYESEGLLLLTNDGD 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN-A 187 A ++ P ++ + Y V+ G+V+ + N ++KG +++ G D L +KG N Sbjct: 123 FANMIMHPKSKIKKTYVVKVKGRVNLESFNRMRKGALLEDGFIKPDEIKIL--KKGKNYT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 W+ + + GK R I++ ++F + V RLIR G +LG+L + + +KI+ Sbjct: 181 WLEITIHSGKKRIIRRFTKYFGYPVERLIRTRIGSIELGSLKEKEWKYIDEKII 234 >gi|189461543|ref|ZP_03010328.1| hypothetical protein BACCOP_02202 [Bacteroides coprocola DSM 17136] gi|189431749|gb|EDV00734.1| hypothetical protein BACCOP_02202 [Bacteroides coprocola DSM 17136] Length = 253 Score = 101 bits (252), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 77/241 (31%), Positives = 120/241 (49%), Gaps = 11/241 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K+++ + P R++K +A AGI SRRE + I V VNG+++ V TD I+ Sbjct: 8 KDVLTDPDEPIRLNKFLANAGICSRREADEFITAGVVSVNGVVVTELGTKVKRTDEIKFH 67 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLL 122 P+ ER L +KP VTT DP R TV D + + R+ VGRLD NT G+L Sbjct: 68 DQPV-NIERKVYVLLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTGVL 126 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-- 180 LLTNDG LA L P ++Y V V + L+ ++ GI D ++ D Sbjct: 127 LLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQ-----IVSGITLDDGEIHADAV 181 Query: 181 --TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + V + + GKNR ++++FE ++V +L R+ + L G R +++ Sbjct: 182 SYASETDKSQVGIEIHSGKNRIVRRIFEALGYRVIKLDRVYFAGLTKKGLRRGDWRYLTE 241 Query: 239 K 239 + Sbjct: 242 Q 242 >gi|325279694|ref|YP_004252236.1| pseudouridine synthase Rsu [Odoribacter splanchnicus DSM 20712] gi|324311503|gb|ADY32056.1| pseudouridine synthase Rsu [Odoribacter splanchnicus DSM 20712] Length = 407 Score = 101 bits (252), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 68/227 (29%), Positives = 119/227 (52%), Gaps = 6/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ I+ G+ SRR+ + +I RVKVNG +++ + V D +EVD V + ++ Sbjct: 177 RLNRYISMGGVCSRRDADELIVAGRVKVNGEVVQTVGLKVRKKDKVEVDDVQIFPEKKVY 236 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L +KP VTT DP R TV + + R+ VGRLD T G+LL TNDG LA+ Sbjct: 237 LVL-NKPKDYVTTVEDPLERKTVMALVEGACKERIYPVGRLDRQTTGVLLFTNDGDLAKK 295 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L P ++Y V + ++ + G+ ++ G D +++ + + V + Sbjct: 296 LTHPKYDHKKIYHVFLDRVLTEEDFQAIANGVQLEDGFIKAD-EISYTSPDCTE--VGIE 352 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + GKNR ++++FE F +++ +L R+ + L G+ R ++ K Sbjct: 353 IHSGKNRIVRRIFEHFGYQIIKLDRVYFAGITKKNLPRGTWRFLTPK 399 >gi|150010293|ref|YP_001305036.1| ribosomal large subunit pseudouridine synthase B [Parabacteroides distasonis ATCC 8503] gi|256839144|ref|ZP_05544654.1| ribosomal large subunit pseudouridine synthase B [Parabacteroides sp. D13] gi|149938717|gb|ABR45414.1| ribosomal large subunit pseudouridine synthase B [Parabacteroides distasonis ATCC 8503] gi|256740063|gb|EEU53387.1| ribosomal large subunit pseudouridine synthase B [Parabacteroides sp. D13] Length = 495 Score = 101 bits (252), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 69/244 (28%), Positives = 123/244 (50%), Gaps = 11/244 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K ++ + P R++K ++ AG+ SRRE + I + VKVN +++ + D + Sbjct: 247 IKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQKGAVKVNDVVVTELGTKITRQDVV 306 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 + P++ + + L +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 307 TFNEKPVQIESKVYIVL-NKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTT 365 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L PS + ++Y V V + + + G+ ++ D ++ Sbjct: 366 GVLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVAIEDMEKIANGLELE-----DGEIHA 420 Query: 180 D----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 D + + V + + G+NR ++++FE + V +L R+ + L G R Sbjct: 421 DAISYASEDDKSQVGIEIHSGRNRIVRRIFESLGYHVTKLDRVYFAGLTKKNLGRGKWRY 480 Query: 236 VSKK 239 ++++ Sbjct: 481 LNER 484 >gi|89890360|ref|ZP_01201870.1| RNA pseudouridine synthase, Rsu [Flavobacteria bacterium BBFL7] gi|89517275|gb|EAS19932.1| RNA pseudouridine synthase, Rsu [Flavobacteria bacterium BBFL7] Length = 253 Score = 101 bits (252), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 121/233 (51%), Gaps = 14/233 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRR +R+I QQRV +NG + E V D++ VDG P+ K + Sbjct: 8 RINKYLSEQGFCSRRAADRLIEQQRVTINGTVPE-MGTKVQPNDNVAVDGEPISKKKEKP 66 Query: 75 LWL-YHKPIGLVTTHS---DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +++ +HKP G+V T +PD + N P +R+ +GRLD +EGL+ LTNDG + Sbjct: 67 VYIAFHKPTGIVCTTDTRVEPDN-IIEYINYP---TRIFPIGRLDKMSEGLIFLTNDGDI 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V +D ++ + GI I +V Q G + Sbjct: 123 VNKILRSRNNHGKEYIVTVDHSIDDRFISRMASGIPILDTVTKKCEV---EQIGRKTFRI 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V L +G NR+I+++ E+ N++V +L RI +L + G+ R+++K+ L E Sbjct: 180 V-LTQGLNRQIRRMCEYLNYRVTKLKRIRIMNVELD-IPKGTYRDLTKEELDE 230 >gi|148926800|ref|ZP_01810479.1| putative ribosomal pseudouridine synthase [Campylobacter jejuni subsp. jejuni CG8486] gi|145844525|gb|EDK21632.1| putative ribosomal pseudouridine synthase [Campylobacter jejuni subsp. jejuni CG8486] Length = 253 Score = 101 bits (252), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 76/234 (32%), Positives = 117/234 (50%), Gaps = 17/234 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +I Q VK+N + + V D + V G ++K + Sbjct: 2 RINKFISHNTRYSRREADELIKQGLVKINN-KIALLSDEVQFDDKVFVKGKRVQKRTQFS 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A L Sbjct: 61 VIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIADAL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----------- 183 + R Y ++ G V + + ++ G+ I+ G T T Sbjct: 121 MHSDLE--REYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEIF 178 Query: 184 GSNAWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 GS+ T V + EGKNRE+++ F F+ +V L R+++G LG L AG R Sbjct: 179 GSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKHR 232 >gi|297823807|ref|XP_002879786.1| pseudouridine synthase family protein [Arabidopsis lyrata subsp. lyrata] gi|297325625|gb|EFH56045.1| pseudouridine synthase family protein [Arabidopsis lyrata subsp. lyrata] Length = 412 Score = 101 bits (252), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 125/239 (52%), Gaps = 17/239 (7%) Query: 9 ENF--TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGV 65 ENF PQR+SKV+A AG+ASRR E +I +V VNGIL V S D I V+G Sbjct: 155 ENFKEPPQRLSKVLAAAGVASRRTSEELIFDGKVTVNGILCNTPQTRVDPSRDIIYVNGN 214 Query: 66 PLRKAERTRLWL-YHKPIGLVTTHSDPDGRSTV--FDNLPSIF---------SRVISVGR 113 + K +++ +KP G + + + + +S + FD S + R+ +VGR Sbjct: 215 RIPKKLPPKVYFALNKPKGYICSSGEKEIKSVISLFDEYLSSWDKRNPGTPKPRLFTVGR 274 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CY 172 LD+ T GL+++TNDG A+ L PS+ + Y G + + L + +G +++G+ C Sbjct: 275 LDVATTGLIVVTNDGDFAQKLSHPSSSLPKEYITTVVGDIHKRHLMAISEGTIVEGVHCV 334 Query: 173 GDMQVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 D + Q A + + + EG+N E++++ + +V+ L R+ G F+L + L Sbjct: 335 PDSVELMPKQHDIPRARLRIVVHEGRNHEVRELVKNAGLEVHSLKRVRIGGFRLPSDLG 393 >gi|46445794|ref|YP_007159.1| putative ribosomal large chain pseudouridine synthase B [Candidatus Protochlamydia amoebophila UWE25] gi|46399435|emb|CAF22884.1| putative ribosomal large chain pseudouridine synthase B [Candidatus Protochlamydia amoebophila UWE25] Length = 234 Score = 101 bits (252), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 70/225 (31%), Positives = 112/225 (49%), Gaps = 5/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+SKV+A AGIASRR E +I Q VKVNG +++ V D I V + + E Sbjct: 5 RLSKVLAAAGIASRRACEELIFQGLVKVNGEVIKVPQTKVNPEIDTITVRDEVINRKEDK 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G + + + D R+ +VGRLD +T+GLL++TNDG A Sbjct: 65 VYYLLNKPPGYICSARKSGQTKIILDLFQDEDHRLFTVGRLDKDTQGLLIVTNDGHFANQ 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + PS + Y + ++ + L + G +++G+ ++V QK + + + Sbjct: 125 IIHPSANIQKEYLAKTDQEISHEHLIAIANGTLVEGVFVKPIRV----QKVRKGTIKIII 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EGK RE++ + KV L RI G LG L G+ R +++ Sbjct: 181 GEGKKREVRMLLSAAGLKVQELTRIRLGGLHLGRLPIGNWRPLTE 225 >gi|301308375|ref|ZP_07214329.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 20_3] gi|300833845|gb|EFK64461.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 20_3] Length = 495 Score = 101 bits (252), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 69/244 (28%), Positives = 123/244 (50%), Gaps = 11/244 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K ++ + P R++K ++ AG+ SRRE + I + VKVN +++ + D + Sbjct: 247 IKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQKGAVKVNDVVVTELGTKITRQDVV 306 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 + P++ + + L +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 307 TFNEKPVQIESKVYIVL-NKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTT 365 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L PS + ++Y V V + + + G+ ++ D ++ Sbjct: 366 GVLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVAIEDMEKIANGLELE-----DGEIHA 420 Query: 180 D----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 D + + V + + G+NR ++++FE + V +L R+ + L G R Sbjct: 421 DAISYASEDDKSQVGIEIHSGRNRIVRRIFESLGYHVTKLDRVYFAGLTKKNLGRGKWRY 480 Query: 236 VSKK 239 ++++ Sbjct: 481 LNER 484 >gi|298374690|ref|ZP_06984648.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 3_1_19] gi|298269058|gb|EFI10713.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 3_1_19] Length = 495 Score = 101 bits (252), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 69/244 (28%), Positives = 123/244 (50%), Gaps = 11/244 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K ++ + P R++K ++ AG+ SRRE + I + VKVN +++ + D + Sbjct: 247 IKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQKGAVKVNDVVVTELGTKITRQDVV 306 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 + P++ + + L +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 307 TFNEKPVQIESKVYIVL-NKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTT 365 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L PS + ++Y V V + + + G+ ++ D ++ Sbjct: 366 GVLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVAIEDMEKIANGLELE-----DGEIHA 420 Query: 180 D----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 D + + V + + G+NR ++++FE + V +L R+ + L G R Sbjct: 421 DAISYASEDDKSQVGIEIHSGRNRIVRRIFESLGYHVTKLDRVYFAGLTKKNLGRGKWRY 480 Query: 236 VSKK 239 ++++ Sbjct: 481 LNER 484 >gi|121612851|ref|YP_001001353.1| RNA pseudouridine synthase family protein [Campylobacter jejuni subsp. jejuni 81-176] gi|167006242|ref|ZP_02272000.1| RNA pseudouridine synthase family protein [Campylobacter jejuni subsp. jejuni 81-176] gi|87248974|gb|EAQ71936.1| RNA pseudouridine synthase family protein [Campylobacter jejuni subsp. jejuni 81-176] Length = 253 Score = 101 bits (252), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 76/234 (32%), Positives = 117/234 (50%), Gaps = 17/234 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +I Q VK+N + + V D + V G ++K + Sbjct: 2 RINKFISHNTRYSRREADELIKQGLVKINN-KIALLSDEVKFDDKVFVKGKRVQKRTQFS 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A L Sbjct: 61 VIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIANAL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----------- 183 + R Y ++ G V + + ++ G+ I+ G T T Sbjct: 121 MHSDLE--REYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEIF 178 Query: 184 GSNAWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 GS+ T V + EGKNRE+++ F F+ +V L R+++G LG L AG R Sbjct: 179 GSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKHR 232 >gi|158337477|ref|YP_001518652.1| pseudouridine synthase family 1 protein [Acaryochloris marina MBIC11017] gi|158307718|gb|ABW29335.1| pseudouridine synthase family [Acaryochloris marina MBIC11017] Length = 269 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 71/219 (32%), Positives = 115/219 (52%), Gaps = 8/219 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K++++ G+ASRR+ E++I +V++NG E D I ++G L +R + Sbjct: 4 RLQKLLSQWGVASRRQAEQLILAGQVQLNGHTAELGQKADPDQDQITLNGQILNPTDRPQ 63 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGG 129 L +KP G+V+T DP R TV + LP + + + VGRLD+ + G LLLTNDG Sbjct: 64 PLYLLVNKPKGVVSTCQDPQHRRTVLELLPKTYQQGQGLHPVGRLDVASTGALLLTNDGQ 123 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNA 187 L L P + Y+V G + L+ ++GI + G QV + Q +N+ Sbjct: 124 LTFALTHPRFHIAKTYQVWIEGCPPPEILDRWRQGIHLDGRTTLPAQVEILKPYQSHTNS 183 Query: 188 -WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V L+EG+NR+I+++ E + V +L R G L Sbjct: 184 ICLEVILQEGRNRQIRRIAEQLGYPVRKLHRTQIGSISL 222 >gi|94987310|ref|YP_595243.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Lawsonia intracellularis PHE/MN1-00] gi|94731559|emb|CAJ54922.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Lawsonia intracellularis PHE/MN1-00] Length = 270 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 119/235 (50%), Gaps = 11/235 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDG----VP 66 T R++K +A AG+ SRR V++ I V +NG + + + + D I + G + Sbjct: 22 TSIRINKALANAGVCSRRNVDKYILNGEVTINGKSVTQPGIYIHPDKDIIALHGRRVDIQ 81 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLL 124 L+ + L +Y KPI ++++ DP R TV D +P + R+ VGRLD +EGLLL+ Sbjct: 82 LKNKKYYYLSMY-KPIKVISSVKDPQNRLTVLDFIPFPWKNYRLYPVGRLDFFSEGLLLI 140 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDT 181 TNDG L + L P +VY V ++ L + KGI + + ++V Sbjct: 141 TNDGELTQRLTHPRYHISKVYHVLIRERILNTTLKNISKGITLSDGTKLPPAKVRVLSSI 200 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + W+ + L++G NR+I+++ + + +LIR+ G L L G R + Sbjct: 201 TETNTTWLEITLQQGINRQIRRMCKELGLTILKLIRVKQGNINLSNLQPGEVRPL 255 >gi|329667573|gb|AEB93521.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus johnsonii DPC 6026] Length = 233 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 121/233 (51%), Gaps = 6/233 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV +I ++ V VNG +++ V D + VDG + ++ Sbjct: 2 RIDKYLANMNVGSRKEVHNLIKKKIVTVNGEVVKTPKEQVKEEDQVAVDGEKV-AYQQYH 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D ++ + P + + VGRLD +T GLLLLTNDG LA Sbjct: 61 YFLLNKPKGVISATEDRSQKTVLSLLKPKDRYKGIAPVGRLDKDTTGLLLLTNDGALAHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWVT 190 L P+ + YR + G D++ + + G+ + + ++++ + ++ + + Sbjct: 121 LLAPNKHVTKKYRAKIAGVADEETVEIFASGMTLGDGTKLKPAELKILIQDKEADRSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + ++EGK +IK++F KV L RIS G L T L G +E+S K ++ Sbjct: 181 IEIQEGKYHQIKRMFGAVGMKVIELDRISMGKLVLPTSLKRGEYKEISLKEIK 233 >gi|238855289|ref|ZP_04645608.1| putative ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 269-3] gi|282932418|ref|ZP_06337843.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 208-1] gi|313471899|ref|ZP_07812391.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 1153] gi|238832181|gb|EEQ24499.1| putative ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 269-3] gi|239529181|gb|EEQ68182.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 1153] gi|281303367|gb|EFA95544.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 208-1] Length = 234 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 69/228 (30%), Positives = 115/228 (50%), Gaps = 8/228 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV +I ++V +N L+++A V D ++VD + ++ Sbjct: 2 RIDKYLANMNVGSRKEVHNLIKAKKVTINEKLVKQAKQQVTENDMVKVDNQTIT-YQQFH 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G++T DP + TV D + S + + VGRLD +T GLLL+TNDG L Sbjct: 61 YFMLNKPTGVITATEDPQ-QKTVLDLIASKDRYPDLAPVGRLDKDTTGLLLITNDGQLNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V ++ + + KG+ + G G Q+ +D +T+ Sbjct: 120 NLLSPKKHVAKTYFVELDQEIANEVDSAFAKGVALADGTQVGSAQLIIDKSNKKQGLITI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 EGK +IK++F F+ V +L RI G L L G RE+++ Sbjct: 180 --HEGKFHQIKRMFGLFDLGVVKLKRIKMGNLSLDENLPQGKYRELTE 225 >gi|118618582|ref|YP_906914.1| pseudouridylate synthase [Mycobacterium ulcerans Agy99] gi|183982541|ref|YP_001850832.1| pseudouridylate synthase [Mycobacterium marinum M] gi|118570692|gb|ABL05443.1| pseudouridylate synthase [Mycobacterium ulcerans Agy99] gi|183175867|gb|ACC40977.1| pseudouridylate synthase [Mycobacterium marinum M] Length = 253 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 81/238 (34%), Positives = 119/238 (50%), Gaps = 9/238 (3%) Query: 9 ENFTPQR---VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDG 64 E+F +R + KV+++AGIASRR E++I RV+V+G ++ V T I VDG Sbjct: 5 EDFEQERGIRLQKVLSQAGIASRRAAEKLIIDGRVEVDGQVVTELGTRVDPDTSLIRVDG 64 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGL 121 V + + +KP G+ +T SD GR + D + + VGRLD +TEGL Sbjct: 65 VRVILDDSLVYLALNKPRGMHSTMSDDRGRPCIGDLIERKVRGNKNLFHVGRLDADTEGL 124 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLD 180 +LLTNDG LA L PS + + Y G V + L+ GI ++ G D +D Sbjct: 125 ILLTNDGELAHRLMHPSHEVPKTYLATVAGTVPRGLGKKLRAGIELEDGPVRVDGFAVVD 184 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 G V V L EG+NR ++++ + V L+RI G LG GS R + + Sbjct: 185 AIPGKT-LVRVTLHEGRNRIVRRMLAAVGFPVQALVRIDIGGVSLGEQRPGSVRALRR 241 >gi|116627439|ref|YP_820058.1| ribosomal small subunit pseudouridine synthase A [Streptococcus thermophilus LMD-9] gi|116100716|gb|ABJ65862.1| 16S rRNA uridine-516 pseudouridylate synthase or related pseudouridylate synthase [Streptococcus thermophilus LMD-9] Length = 239 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 78/240 (32%), Positives = 123/240 (51%), Gaps = 10/240 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ ++G SR +V+ +I ++V V+G+L +R +NV S I V G L A Sbjct: 2 RLDKLLGQSGYGSRNQVKNLIRSRQVYVDGVLADRDNLNVDASLQTIMVSGKELEHAPEV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+V+ D + TV D + R + VGRLD +TEGL+L+TN+G L Sbjct: 62 -YYLMNKPSGVVSARKDKE-HQTVIDLIRPEDQREGLYPVGRLDRDTEGLVLITNNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 + P + Y V + + D + G+V + G Q+ + + + Sbjct: 120 FAMLHPRYHVAKTYYVEVNDILGPDAPAFFESGVVFEDGTVCQSAQLEILSSASDKSCAR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTR---EVSKKILREQLG 246 + + EGK ++KK+F + KV L RIS+G F+L +A GS R E K ILR LG Sbjct: 180 ITISEGKFHQVKKMFLAYGVKVTYLKRISFGEFKLDEGMAVGSYRTLTEAEKTILRTYLG 239 >gi|19704052|ref|NP_603614.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium nucleatum subsp. nucleatum ATCC 25586] gi|19714248|gb|AAL94913.1| Ribosomal small subunit pseudouridine synthase A [Fusobacterium nucleatum subsp. nucleatum ATCC 25586] Length = 226 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 80/228 (35%), Positives = 116/228 (50%), Gaps = 13/228 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + GI SR+EV+++I+ + VNG+ A N+ ++D IE +G L E Sbjct: 2 RLDKFLVECGIGSRKEVKKLISNGEIAVNGMSDILAKDNIDENSDTIEYNGERLEYKE-F 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++ +K G +T D TV D LP I + VGRLD +TEGLLL TNDG L Sbjct: 61 RYYIMNKKAGYITATEDF-KEDTVMDLLPEWVIKKDLAPVGRLDKDTEGLLLFTNDGKLN 119 Query: 132 RVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGD-MQVTLDTQKGSNAWV 189 L P +VY V + D+D L L QG+ G+ + +K S+ + Sbjct: 120 HKLLSPKNHIDKVYYVEIEKNILDEDILKLE------QGVDIGNYITQPAKVEKISDNKI 173 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + ++EGK ++KK+ E N KV L R S+G L L G +EVS Sbjct: 174 YLTIKEGKFHQVKKMLEAVNNKVCYLRRESFGKLTLNDLTLGEVKEVS 221 >gi|118465035|ref|YP_882249.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium avium 104] gi|118166322|gb|ABK67219.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium avium 104] Length = 248 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 77/229 (33%), Positives = 112/229 (48%), Gaps = 6/229 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+++AGIASRR E++I RV+V+G ++ V I VDG + E Sbjct: 9 RLQKVLSQAGIASRRAAEKLIVDGRVEVDGQVVTELGTRVDPDAAVIRVDGARVVLDESQ 68 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 +KP G+ +T SD GR + D + + VGRLD TEGL+LLTNDG L Sbjct: 69 VYLALNKPRGVHSTMSDDRGRPCIGDLIERRVRGNKNLFHVGRLDAETEGLILLTNDGEL 128 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G + + L+ GI + G+ D +D G V Sbjct: 129 AHRLMHPSHEVPKTYLATVTGSIPRGLGKTLRAGIELDDGMARVDEFAVVDAIPGKT-LV 187 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V L EG+NR ++++ + V L+R GP LG GS R + + Sbjct: 188 RVTLHEGRNRIVRRLLAAAGFPVESLVRTDIGPISLGKQRPGSIRALGR 236 >gi|313681268|ref|YP_004059006.1| RNA-binding s4 domain protein [Sulfuricurvum kujiense DSM 16994] gi|313154128|gb|ADR32806.1| RNA-binding S4 domain protein [Sulfuricurvum kujiense DSM 16994] Length = 315 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 116/235 (49%), Gaps = 17/235 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERT 73 R++K IA SRRE ++ I V+++G + A V ++ + G + ++ Sbjct: 3 RLNKFIAHYSTYSRREADQAILDGYVRIDGEIETNPATQVDERHANVMISGNKITPTDQF 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +Y+KP G + T DP GR T++D+L + I +GRLD +EGLLLLT+ +A Sbjct: 63 TVIVYNKPRGELVTKKDPQGRKTIYDSLAKQYRHYIPIGRLDFASEGLLLLTDASRVATA 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------VTL 179 L +++ RVY+++ G V + + +G+ ++ G + + Sbjct: 123 LM--TSKMERVYKIKIKGPVTEAMKVAMGEGLELEDASAGAHEHAEAGPMSFAPFYAYQV 180 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +G + + V + EG+NRE+++ F F +V L R+S+G L L G R Sbjct: 181 QKDQGDYSVLKVAIGEGQNRELRRFFAHFGAEVVDLKRLSFGGIDLNNLPTGKVR 235 >gi|294782058|ref|ZP_06747384.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. 1_1_41FAA] gi|294480699|gb|EFG28474.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. 1_1_41FAA] Length = 226 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 73/226 (32%), Positives = 117/226 (51%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ + + GI SR+EV+++I+ +KVNG A N+ +D IE +G L + ++ Sbjct: 2 RLDRFLVECGIGSRKEVKKIISANEIKVNGSYDISAKDNINEYSDVIEYNGERL-EYKKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++ +K G +T D +TV D LP I + VGRLD +TEGLLLLTNDG L Sbjct: 61 RYYIMNKKAGYITATEDI-REATVMDLLPEWVIRKDLAPVGRLDKDTEGLLLLTNDGKLN 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V + Q+ + L++G+ I + + +K S+ + + Sbjct: 120 HRLLSPKNHVDKTYYVEIENNISQEDVLKLEEGVDIGNY----ITLPAKVEKISDTKIYL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++EGK ++KK+ E N KV L R ++ L L G +EV+ Sbjct: 176 TIKEGKFHQVKKMLEAVNNKVTYLQRTTFAKLSLADLALGEVKEVN 221 >gi|283770564|ref|ZP_06343456.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus H19] gi|283460711|gb|EFC07801.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus H19] Length = 156 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 53/138 (38%), Positives = 81/138 (58%), Gaps = 1/138 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I++ +VKVNG + V +D IEV+G+ + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIELEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 YI-LFHKPTQVITSVSDDRGRTVVTDYFKDIEARIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHG 151 + P Q + Y + G Sbjct: 125 MTHPRYQIKKKYVAKLKG 142 >gi|304382274|ref|ZP_07364781.1| ribosomal large subunit pseudouridine synthase B [Prevotella marshii DSM 16973] gi|304336631|gb|EFM02860.1| ribosomal large subunit pseudouridine synthase B [Prevotella marshii DSM 16973] Length = 481 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 73/230 (31%), Positives = 114/230 (49%), Gaps = 7/230 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ ++ TD ++ P+ E+ Sbjct: 245 PIRLNKYLANAGVCSRREADEFIQAGVVTVNGQVITELGTKIVRTDEVKFHDQPV-TLEK 303 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV + + + R+ VGRLD NT G+LL TNDG LA Sbjct: 304 KVYVLLNKPRDYVTTSDDPQQRKTVMELVKGACPERIYPVGRLDRNTTGVLLFTNDGDLA 363 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGD-MQVTLDTQKGSNAWV 189 L P +VY V +V + + GI + G + D ++ D K V Sbjct: 364 SKLTHPKFLKKKVYHVFLDKEVTMHDMQQIATGITLDDGEIHADAIEYAKDNDK---KQV 420 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + G+NR ++++FE ++V RL R+ + L G R +++K Sbjct: 421 GIEIHSGRNRIVRRIFESLGYRVVRLDRVQFAGLTKKYLRRGDWRFLTEK 470 >gi|86150527|ref|ZP_01068751.1| RNA pseudouridine synthase family protein [Campylobacter jejuni subsp. jejuni CF93-6] gi|86152349|ref|ZP_01070559.1| RNA pseudouridine synthase family protein [Campylobacter jejuni subsp. jejuni 260.94] gi|86154122|ref|ZP_01072321.1| ribosomal large subunit pseudouridine synthase B [Campylobacter jejuni subsp. jejuni HB93-13] gi|88597657|ref|ZP_01100890.1| RNA pseudouridine synthase family protein [Campylobacter jejuni subsp. jejuni 84-25] gi|157415931|ref|YP_001483187.1| putative ribosomal pseudouridine synthase [Campylobacter jejuni subsp. jejuni 81116] gi|205355723|ref|ZP_03222493.1| putative ribosomal pseudouridine synthase [Campylobacter jejuni subsp. jejuni CG8421] gi|218563295|ref|YP_002345075.1| putative ribosomal pseudouridine synthase [Campylobacter jejuni subsp. jejuni NCTC 11168] gi|85838979|gb|EAQ56244.1| RNA pseudouridine synthase family protein [Campylobacter jejuni subsp. jejuni CF93-6] gi|85840646|gb|EAQ57898.1| RNA pseudouridine synthase family protein [Campylobacter jejuni subsp. jejuni 260.94] gi|85842362|gb|EAQ59578.1| ribosomal large subunit pseudouridine synthase B [Campylobacter jejuni subsp. jejuni HB93-13] gi|88189961|gb|EAQ93937.1| RNA pseudouridine synthase family protein [Campylobacter jejuni subsp. jejuni 84-25] gi|112361002|emb|CAL35803.1| putative ribosomal pseudouridine synthase [Campylobacter jejuni subsp. jejuni NCTC 11168] gi|157386895|gb|ABV53210.1| putative ribosomal pseudouridine synthase [Campylobacter jejuni subsp. jejuni 81116] gi|205346500|gb|EDZ33133.1| putative ribosomal pseudouridine synthase [Campylobacter jejuni subsp. jejuni CG8421] gi|284926900|gb|ADC29252.1| putative ribosomal pseudouridine synthase [Campylobacter jejuni subsp. jejuni IA3902] gi|307748569|gb|ADN91839.1| Pseudouridine synthase [Campylobacter jejuni subsp. jejuni M1] gi|315926636|gb|EFV06016.1| putative ribosomal pseudouridine synthase [Campylobacter jejuni subsp. jejuni DFVF1099] gi|315931323|gb|EFV10292.1| conserved hypothetical protein [Campylobacter jejuni subsp. jejuni 327] Length = 253 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 76/234 (32%), Positives = 117/234 (50%), Gaps = 17/234 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +I Q VK+N + + V D + V G ++K + Sbjct: 2 RINKFISHNTRYSRREADELIKQGLVKINN-KIALLSDEVKFDDKVFVKGKRVQKRTQFS 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A L Sbjct: 61 VIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIADAL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----------- 183 + R Y ++ G V + + ++ G+ I+ G T T Sbjct: 121 MHSDLE--REYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEIF 178 Query: 184 GSNAWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 GS+ T V + EGKNRE+++ F F+ +V L R+++G LG L AG R Sbjct: 179 GSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKHR 232 >gi|218281417|ref|ZP_03487881.1| hypothetical protein EUBIFOR_00446 [Eubacterium biforme DSM 3989] gi|218217429|gb|EEC90967.1| hypothetical protein EUBIFOR_00446 [Eubacterium biforme DSM 3989] Length = 227 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 68/228 (29%), Positives = 118/228 (51%), Gaps = 8/228 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K ++ G +R +V+++I V +N +++A NV D + VD P+ E Sbjct: 2 RLDKYLSHMGFGTRNDVKKLIKNGWVTINDETIKKADYNVKEDDKVFVDDEPVSYVE-FE 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V+ D TV + + S + VGRLD++TEGLLL++NDG L + Sbjct: 61 YYILNKPQGYVSATEDM-LYPTVMELIQSQRHDLYPVGRLDVDTEGLLLISNDGKLTHEV 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNAWVTVGL 193 P + Y V F G + ++ ++ + + + ++ LDT K A++T+ Sbjct: 120 LSPKKHVDKKYYVEFDGTLPENAVDFFNQPMEFEEFTSAPSKLEILDTNK---AYLTI-- 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EGK ++K++FE N V L RI +GP +L L G R ++++ L Sbjct: 175 HEGKFHQVKRMFEKANCTVTYLQRIEFGPLKLNDLPLGEFRALTQEEL 222 >gi|302036786|ref|YP_003797108.1| 23S rRNA pseudouridylate synthase E [Candidatus Nitrospira defluvii] gi|190343202|gb|ACE75590.1| ribosomal large subunit pseudouridine synthase E [Candidatus Nitrospira defluvii] gi|300604850|emb|CBK41183.1| 23S rRNA pseudouridylate synthase E [Candidatus Nitrospira defluvii] Length = 195 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 62/191 (32%), Positives = 98/191 (51%), Gaps = 21/191 (10%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 TR ++HKP ++ +DPDGR T+ D ++P +++ GRLD ++EGLLLLT+DG L Sbjct: 7 TRTLVFHKPYDVLPCFTDPDGRPTLGDYIDVPGVYA----AGRLDRDSEGLLLLTSDGAL 62 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS----- 185 A + P ++Y V+ D + L++G+V+ G Q L + S Sbjct: 63 AHRITDPEHHLPKIYFVQVERIPDAAAVERLQQGVVVGGRRTKPAQARLLLEAPSIPERP 122 Query: 186 ----------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 AW+ + LREG NR+++++ RL+R++ GP LG LL G RE Sbjct: 123 VPIRFRKHVPTAWLELTLREGMNRQVRRMTAAVGHPTLRLVRVAIGPITLGALLPGQWRE 182 Query: 236 VSKKILREQLG 246 ++K E G Sbjct: 183 LTKAETAEIYG 193 >gi|57236895|ref|YP_179848.1| RNA pseudouridylate synthase family protein [Campylobacter jejuni RM1221] gi|57165699|gb|AAW34478.1| RNA pseudouridylate synthase family protein [Campylobacter jejuni RM1221] Length = 253 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 76/234 (32%), Positives = 117/234 (50%), Gaps = 17/234 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +I Q VK+N + + V D + V G ++K + Sbjct: 2 RINKFISHNTRYSRREADELIKQGLVKINN-KIALLSDEVKFDDKVFVKGKRVQKRTQFS 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A L Sbjct: 61 VIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIADAL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----------- 183 + R Y ++ G V + + ++ G+ I+ G T T Sbjct: 121 MHSDLE--REYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEIF 178 Query: 184 GSNAWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 GS+ T V + EGKNRE+++ F F+ +V L R+++G LG L AG R Sbjct: 179 GSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKHR 232 >gi|218289710|ref|ZP_03493918.1| pseudouridine synthase [Alicyclobacillus acidocaldarius LAA1] gi|218240167|gb|EED07351.1| pseudouridine synthase [Alicyclobacillus acidocaldarius LAA1] Length = 242 Score = 100 bits (250), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 77/222 (34%), Positives = 113/222 (50%), Gaps = 13/222 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDG--VPLRKAE 71 RV K + AG +R E +++ RV++NG ++ AA + + D +EVDG VP E Sbjct: 5 RVDKWLTTAGYGTRSEAKKLCRAGRVRLNGETVKDAAKHADPAVDVLEVDGEIVPY---E 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ +KP G V++ DP R V L I+ V VGRLD + EGLLLLTNDG Sbjct: 62 PLVYFMMYKPPGYVSSTEDP--RDPVVIELLDEEDIWRDVFPVGRLDKDAEGLLLLTNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSNA 187 LA L P + Y VR G + +D L +G+V+ Y M L+ + G+ + Sbjct: 120 PLAHRLLAPKRHVPKRYFVRVRGALGEDDARALAEGVVLDD-GYKAMPAELEILRSGAES 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + EGK ++K++F +V L RIS GP L L Sbjct: 179 EAIIQVYEGKYHQVKRMFASLGKRVTFLKRISMGPLSLDPAL 220 >gi|302670774|ref|YP_003830734.1| RNA pseudouridylate synthase [Butyrivibrio proteoclasticus B316] gi|302395247|gb|ADL34152.1| RNA pseudouridylate synthase [Butyrivibrio proteoclasticus B316] Length = 237 Score = 100 bits (250), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 69/227 (30%), Positives = 117/227 (51%), Gaps = 6/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ IA GI SRRE ++++A RVKVNGI + A + V +D + VD + + Sbjct: 2 RLNQYIAACGICSRREADKLVAAGRVKVNGISAQ-AGIQVEDSDEVFVDNKKISLVKENV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + Y+KP+G+V T D TV + +RV GRLD ++EGLL+L+NDG L + Sbjct: 61 VLAYYKPVGVVCTEKDTHAERTVTSEVK-YPTRVTYAGRLDKDSEGLLILSNDGNLINAM 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 S + + Y V ++ D LN + G+ ++ + + T+ G ++ + L Sbjct: 120 MKSSNKHEKEYEVSVDREISGDFLNRMSNGVYLEELDRTTRGCKV-TRTGKKSFRII-LT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKK 239 +G NR+I+++ + V L RI +L ++ G E+ KK Sbjct: 178 QGLNRQIRRMCNALGYNVESLKRIRVMTVKLSDYDIMPGQYVELDKK 224 >gi|160890592|ref|ZP_02071595.1| hypothetical protein BACUNI_03037 [Bacteroides uniformis ATCC 8492] gi|156859591|gb|EDO53022.1| hypothetical protein BACUNI_03037 [Bacteroides uniformis ATCC 8492] Length = 242 Score = 100 bits (250), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 111/229 (48%), Gaps = 5/229 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ + D ++ + ER Sbjct: 6 PIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEVKFHDQTV-SIER 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 65 KIYVLLNKPKDTVTTSDDPQARRTVMDLVKGACDERIYPVGRLDRNTTGVLLLTNDGDLA 124 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P ++Y V + + + + GI + G + D D K + V Sbjct: 125 SKLTHPKYLKKKIYHVHLDKNLTKADMEQIAAGIQLDDGEIHADAISYTDDFKKDD--VG 182 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 183 IEIHSGKNRIVRRIFESLGYKVMKLDRVYFAGLTKKGLRRGEWRYLTEQ 231 >gi|189463704|ref|ZP_03012489.1| hypothetical protein BACINT_00037 [Bacteroides intestinalis DSM 17393] gi|189438654|gb|EDV07639.1| hypothetical protein BACINT_00037 [Bacteroides intestinalis DSM 17393] Length = 234 Score = 100 bits (250), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 73/227 (32%), Positives = 113/227 (49%), Gaps = 7/227 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K +A AG+ SRRE + I V VNG ++ + D ++ P+ ER Sbjct: 1 MNKFLANAGVCSRREADEFITAGVVSVNGAVVTELGTKIKRGDEVKFHDQPV-SIERKIY 59 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA L Sbjct: 60 ILLNKPKDTVTTSDDPQARRTVMDLVKGACDERIYPVGRLDRNTTGVLLLTNDGDLASKL 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGD-MQVTLDTQKGSNAWVTVG 192 P ++Y V V + ++ + GI + G + D + T D ++ V + Sbjct: 120 THPKFLKKKIYHVHTDKNVTKADMDQIAAGIQLDDGEIHADAISYTDDVRRDE---VGIE 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + GKNR ++++FE +KV +L R+ + L G R +S++ Sbjct: 177 IHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLSEQ 223 >gi|227542008|ref|ZP_03972057.1| pseudouridine synthase B [Corynebacterium glucuronolyticum ATCC 51866] gi|227182223|gb|EEI63195.1| pseudouridine synthase B [Corynebacterium glucuronolyticum ATCC 51866] Length = 225 Score = 100 bits (250), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 74/216 (34%), Positives = 112/216 (51%), Gaps = 6/216 (2%) Query: 32 ERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSD 90 E +IAQ RV+VNG ++ R V V T I VDGV ++ E +KP+G+ +T D Sbjct: 3 EELIAQGRVEVNGEIVMRQGVRVDPDTAVIRVDGVRVKVNEDLVYIALNKPLGVQSTMKD 62 Query: 91 PDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRV 147 GR V D + + VGRLD TEGLLLLTNDG LA L P + Y Sbjct: 63 DMGRPCVGDIVGEKVDAGLHLFHVGRLDAKTEGLLLLTNDGELANRLMHPKYHVSKTYLA 122 Query: 148 RFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 G+ D++ + L++G+ ++ GI D +DT +G + + V L EG+ ++++ + Sbjct: 123 TVLGEADRELVKKLREGVDLEDGIAKADYVQIVDTYEG-RSLIRVELHEGRKHIVRRMLK 181 Query: 207 FFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + V +L+R QLG L G+ R ++ LR Sbjct: 182 ELGFPVQQLVRTKIHTVQLGELTPGAIRHLNDSELR 217 >gi|30687794|ref|NP_181447.2| SVR1 (SUPPRESSOR OF VARIEGATION 1); RNA binding / pseudouridine synthase [Arabidopsis thaliana] gi|21617894|gb|AAM66944.1| unknown [Arabidopsis thaliana] gi|26450440|dbj|BAC42334.1| unknown protein [Arabidopsis thaliana] gi|330254545|gb|AEC09639.1| suppressor of variegation1 causing pseudouridine synthase-like protein [Arabidopsis thaliana] Length = 410 Score = 100 bits (250), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 125/239 (52%), Gaps = 17/239 (7%) Query: 9 ENF--TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGV 65 ENF PQR+SKV+A AG+ASRR E +I +V VNGIL V S D I V+G Sbjct: 153 ENFKEQPQRLSKVLAAAGVASRRTSEELIFDGKVTVNGILCNTPQTRVDPSRDIIYVNGN 212 Query: 66 PLRKAERTRLWL-YHKPIGLVTTHSDPDGRSTV--FDNLPSIF---------SRVISVGR 113 + K +++ +KP G + + + + +S + FD S + R+ +VGR Sbjct: 213 RIPKKLPPKVYFALNKPKGYICSSGEKEIKSAISLFDEYLSSWDKRNPGTPKPRLFTVGR 272 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CY 172 LD+ T GL+++TNDG A+ L PS+ + Y G + + L + +G +++G+ C Sbjct: 273 LDVATTGLIVVTNDGDFAQKLSHPSSSLPKEYITTVVGDIHKRHLMAISEGTMVEGVHCV 332 Query: 173 GDMQVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 D + Q A + + + EG+N E++++ + +V+ L R+ G F+L + L Sbjct: 333 PDSVELMPKQHDIPRARLRIVVHEGRNHEVRELVKNAGLEVHSLKRVRIGGFRLPSDLG 391 >gi|41407511|ref|NP_960347.1| hypothetical protein MAP1413 [Mycobacterium avium subsp. paratuberculosis K-10] gi|41395864|gb|AAS03730.1| hypothetical protein MAP_1413 [Mycobacterium avium subsp. paratuberculosis K-10] Length = 247 Score = 100 bits (250), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 77/229 (33%), Positives = 112/229 (48%), Gaps = 6/229 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+++AGIASRR E++I RV+V+G ++ V I VDG + E Sbjct: 8 RLQKVLSQAGIASRRAAEKLIVDGRVEVDGQVVTELGTRVDPDAAVIRVDGARVVLDESQ 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 +KP G+ +T SD GR + D + + VGRLD TEGL+LLTNDG L Sbjct: 68 VYLALNKPRGVHSTMSDDRGRPCIGDLIERRVRGNKNLFHVGRLDAETEGLILLTNDGEL 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G + + L+ GI + G+ D +D G V Sbjct: 128 AHRLMHPSHEVPKTYLATVTGSIPRGLGKTLRAGIELDDGMARVDEFAVVDPIPGKT-LV 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V L EG+NR ++++ + V L+R GP LG GS R + + Sbjct: 187 RVTLHEGRNRIVRRLLAAAGFPVESLVRTDIGPISLGKQRPGSIRALGR 235 >gi|317475710|ref|ZP_07934970.1| S4 domain-containing protein [Bacteroides eggerthii 1_2_48FAA] gi|316908166|gb|EFV29860.1| S4 domain-containing protein [Bacteroides eggerthii 1_2_48FAA] Length = 331 Score = 100 bits (250), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 71/232 (30%), Positives = 112/232 (48%), Gaps = 11/232 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ + D ++ + ER Sbjct: 95 PIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEVKFHDQAV-SIER 153 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + S R+ VGRLD NT G+LLLTNDG LA Sbjct: 154 KIYVLLNKPKDTVTTSDDPQARRTVMDLVKGACSERIYPVGRLDRNTTGVLLLTNDGDLA 213 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--- 188 L P ++Y V + + + + GI + D ++ D ++ + Sbjct: 214 SKLTHPKYLKKKIYHVHLDKNLTKADMEQIAAGIQLD-----DGEIQADAISYTDDFKKD 268 Query: 189 -VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 269 EVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQ 320 >gi|295110375|emb|CBL24328.1| ribosomal large subunit pseudouridine synthase F [Ruminococcus obeum A2-162] Length = 310 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 72/239 (30%), Positives = 123/239 (51%), Gaps = 12/239 (5%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILL---ERAAVNVMSTDH 59 DK + E+ R++K ++ AG+ SRR+ +R+ RV VNG + ER V+ + Sbjct: 2 DKKMKSEDQNTIRINKYLSSAGVCSRRDADRLTEAGRVTVNGKKIGTGERIPVDAV---- 57 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I +DG P+ K ER L L++KP G+V + + R T +R+ VGRLD ++E Sbjct: 58 ICLDGKPVEKEEREVLLLFYKPRGIVCS-TKKQRRETTVTEYIDYPTRIYPVGRLDKDSE 116 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL+TN G L + + Y+V +V + + ++ G+ I G + + Sbjct: 117 GLLLMTNQGELVNRIMRAGNYHEKEYQVTVDHEVTDEFVRHMQTGVPILGTV---TRPCI 173 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + G N++ T+ L +G NR+I+++ E+ + V L R+ L L G+ RE+ + Sbjct: 174 VRKTGRNSF-TIVLTQGLNRQIRRMCEYHGYHVRTLKRVRIMNLTLDGLKCGAYREIRR 231 >gi|298480189|ref|ZP_06998387.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D22] gi|298273470|gb|EFI15033.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D22] Length = 495 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 82/248 (33%), Positives = 122/248 (49%), Gaps = 21/248 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ + +D ++ P+ ER Sbjct: 259 PIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVVKFHDEPV-SIER 317 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 318 KVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTGVLLLTNDGDLA 377 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWV 189 L P ++Y V + + + + GI ++ G + D + T D +K V Sbjct: 378 SKLTHPKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIHADAISYTDDFKK---DQV 434 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + + GKNR ++++FE +KV +L R+ AG ++KK LR Sbjct: 435 GIEIHSGKNRIVRRIFESLGYKVVKLDRV---------FFAG----LTKKGLRRGDW-RY 480 Query: 250 LEEAQVNL 257 L EA+VN Sbjct: 481 LSEAEVNY 488 >gi|260890551|ref|ZP_05901814.1| RNA pseudouridine synthase [Leptotrichia hofstadii F0254] gi|260859793|gb|EEX74293.1| RNA pseudouridine synthase [Leptotrichia hofstadii F0254] Length = 228 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 117/227 (51%), Gaps = 12/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVN---GILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K IA G SRR+ + +I + RV VN I+ ++V D + +DG ++ Sbjct: 2 RLNKFIAETGFCSRRKADELINEGRVTVNKHEAII----GMDVKPEDVVRIDGERVKLNT 57 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP ++ ++ D GR D + S +R+ + GRLD TEGL++++NDG + Sbjct: 58 RYEYYILNKPKRVICSNEDKFGRRLAVDFIKS-RARLFTYGRLDFMTEGLIIISNDGEVY 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y + +++ + L+ G+VI G +V +K + + Sbjct: 117 NHVMHPRKKLYKSYIAKVSREIEDKDIEALQHGVVIDGKRTAPAKV----KKIDKKELRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG+NR+I+K+ E + VN L RI G LG L G R +++ Sbjct: 173 AIFEGRNRQIRKMLETLGYNVNSLKRIKVGELTLGNLQVGEYRALNE 219 >gi|262408169|ref|ZP_06084716.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_1_22] gi|262353721|gb|EEZ02814.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_1_22] Length = 495 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 82/248 (33%), Positives = 122/248 (49%), Gaps = 21/248 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ + +D ++ P+ ER Sbjct: 259 PIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVVKFHDEPV-SIER 317 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 318 KVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTGVLLLTNDGDLA 377 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWV 189 L P ++Y V + + + + GI ++ G + D + T D +K V Sbjct: 378 SKLTHPKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIHADAISYTDDFKK---DQV 434 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + + GKNR ++++FE +KV +L R+ AG ++KK LR Sbjct: 435 GIEIHSGKNRIVRRIFESLGYKVVKLDRV---------FFAG----LTKKGLRRGDW-RY 480 Query: 250 LEEAQVNL 257 L EA+VN Sbjct: 481 LSEAEVNY 488 >gi|319900039|ref|YP_004159767.1| RNA-binding S4 domain protein [Bacteroides helcogenes P 36-108] gi|319415070|gb|ADV42181.1| RNA-binding S4 domain protein [Bacteroides helcogenes P 36-108] Length = 501 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 81/248 (32%), Positives = 119/248 (47%), Gaps = 21/248 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ + D ++ + ER Sbjct: 265 PIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEVKFHDQAV-SIER 323 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 324 KIYVLLNKPKDTVTTSDDPQARRTVMDLVKGACEERIYPVGRLDRNTTGVLLLTNDGDLA 383 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGD-MQVTLDTQKGSNAWV 189 L P ++Y V + + + + GI + G + D + T D +K V Sbjct: 384 SKLTHPKFLKKKIYHVHLDKNLTKSDMEQIAAGIQLDDGEIHADAISYTDDFKKDD---V 440 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + + GKNR ++++FE +KV +L R+ AG ++KK LR Sbjct: 441 GIEIHSGKNRIVRRIFESLGYKVVKLDRV---------YFAG----LTKKGLRRGEW-RY 486 Query: 250 LEEAQVNL 257 L EA+VN Sbjct: 487 LSEAEVNF 494 >gi|330832619|ref|YP_004401444.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis ST3] gi|329306842|gb|AEB81258.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis ST3] Length = 238 Score = 100 bits (249), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 72/234 (30%), Positives = 122/234 (52%), Gaps = 20/234 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV---MSTDHIEVDGVPLRKAE 71 R+ K + +A + SR++V+++ Q++K+NG + + V + T + V L E Sbjct: 2 RLDKCLEKAKVGSRKQVKKLFKAQQIKINGQAAQSLSQIVDPELQTIQVSGKKVAL---E 58 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGG 129 + +L HKP G+V+ +D + TV D + SR + VGRLD +TEGL+L+TN+G Sbjct: 59 GSAYYLLHKPAGVVSAVTDQE-HQTVIDLISPQDSREGLYPVGRLDRDTEGLVLITNNGP 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI------QGICYGDMQVTLDTQK 183 L + PS + Y V +G + +D G+ Q ++ +LD Sbjct: 118 LGYRMLHPSHHVDKFYYVEVNGCLAEDASKFFASGVTFLDGTRCQPAVLTVLEASLD--- 174 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++ T+ L EGK ++KK+F + KV L RIS+G F+LG L G+ R+++ Sbjct: 175 --HSRATIKLAEGKFHQVKKMFLAYGVKVTYLKRISFGGFELGDLERGAYRQLT 226 >gi|153951436|ref|YP_001398988.1| RNA pseudouridine synthase family protein [Campylobacter jejuni subsp. doylei 269.97] gi|152938882|gb|ABS43623.1| RNA pseudouridine synthase family protein [Campylobacter jejuni subsp. doylei 269.97] Length = 253 Score = 100 bits (249), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 76/234 (32%), Positives = 117/234 (50%), Gaps = 17/234 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +I Q VK+N + + V D + V G ++K + Sbjct: 2 RINKFISHNTRYSRRESDELIKQGLVKINN-KIALLSDEVKFDDKVFVKGKRVQKRTQFS 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A VL Sbjct: 61 VLIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIADVL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----------- 183 + R Y ++ G V + + ++ G+ I+ G T T Sbjct: 121 MHSDLE--REYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEIF 178 Query: 184 GSNAWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 GS+ T V + EGKNRE+++ F F+ +V L R+++G LG L G R Sbjct: 179 GSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKVGKHR 232 >gi|254231907|ref|ZP_04925234.1| conserved hypothetical protein [Mycobacterium tuberculosis C] gi|254364550|ref|ZP_04980596.1| conserved hypothetical protein [Mycobacterium tuberculosis str. Haarlem] gi|289554516|ref|ZP_06443726.1| conserved hypothetical protein [Mycobacterium tuberculosis KZN 605] gi|298525209|ref|ZP_07012618.1| conserved hypothetical protein [Mycobacterium tuberculosis 94_M4241A] gi|308231906|ref|ZP_07414234.2| hypothetical protein TMAG_01544 [Mycobacterium tuberculosis SUMu001] gi|308369503|ref|ZP_07418052.2| hypothetical protein TMBG_00254 [Mycobacterium tuberculosis SUMu002] gi|308370796|ref|ZP_07422771.2| hypothetical protein TMCG_03412 [Mycobacterium tuberculosis SUMu003] gi|308372033|ref|ZP_07427137.2| hypothetical protein TMDG_03429 [Mycobacterium tuberculosis SUMu004] gi|308373217|ref|ZP_07431453.2| hypothetical protein TMEG_01610 [Mycobacterium tuberculosis SUMu005] gi|308374378|ref|ZP_07435832.2| hypothetical protein TMFG_00797 [Mycobacterium tuberculosis SUMu006] gi|308375655|ref|ZP_07444660.2| hypothetical protein TMGG_00259 [Mycobacterium tuberculosis SUMu007] gi|308376799|ref|ZP_07440079.2| hypothetical protein TMHG_00891 [Mycobacterium tuberculosis SUMu008] gi|308377802|ref|ZP_07480471.2| hypothetical protein TMIG_01963 [Mycobacterium tuberculosis SUMu009] gi|308380151|ref|ZP_07488888.2| hypothetical protein TMKG_02217 [Mycobacterium tuberculosis SUMu011] gi|308401397|ref|ZP_07493409.2| hypothetical protein TMLG_00694 [Mycobacterium tuberculosis SUMu012] gi|124600966|gb|EAY59976.1| conserved hypothetical protein [Mycobacterium tuberculosis C] gi|134150064|gb|EBA42109.1| conserved hypothetical protein [Mycobacterium tuberculosis str. Haarlem] gi|289439148|gb|EFD21641.1| conserved hypothetical protein [Mycobacterium tuberculosis KZN 605] gi|298495003|gb|EFI30297.1| conserved hypothetical protein [Mycobacterium tuberculosis 94_M4241A] gi|308215647|gb|EFO75046.1| hypothetical protein TMAG_01544 [Mycobacterium tuberculosis SUMu001] gi|308327365|gb|EFP16216.1| hypothetical protein TMBG_00254 [Mycobacterium tuberculosis SUMu002] gi|308330808|gb|EFP19659.1| hypothetical protein TMCG_03412 [Mycobacterium tuberculosis SUMu003] gi|308334631|gb|EFP23482.1| hypothetical protein TMDG_03429 [Mycobacterium tuberculosis SUMu004] gi|308338418|gb|EFP27269.1| hypothetical protein TMEG_01610 [Mycobacterium tuberculosis SUMu005] gi|308342141|gb|EFP30992.1| hypothetical protein TMFG_00797 [Mycobacterium tuberculosis SUMu006] gi|308345612|gb|EFP34463.1| hypothetical protein TMGG_00259 [Mycobacterium tuberculosis SUMu007] gi|308349928|gb|EFP38779.1| hypothetical protein TMHG_00891 [Mycobacterium tuberculosis SUMu008] gi|308354549|gb|EFP43400.1| hypothetical protein TMIG_01963 [Mycobacterium tuberculosis SUMu009] gi|308362465|gb|EFP51316.1| hypothetical protein TMKG_02217 [Mycobacterium tuberculosis SUMu011] gi|308366085|gb|EFP54936.1| hypothetical protein TMLG_00694 [Mycobacterium tuberculosis SUMu012] gi|328459002|gb|AEB04425.1| conserved hypothetical protein [Mycobacterium tuberculosis KZN 4207] Length = 253 Score = 100 bits (249), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 76/225 (33%), Positives = 111/225 (49%), Gaps = 6/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+++AGIASRR E+MI RV+V+G ++ V + VDG + + Sbjct: 14 RLQKVLSQAGIASRRAAEKMIVDGRVEVDGHVVTELGTRVDPQVAVVRVDGARVVLDDSL 73 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 +KP G+ +T SD GR + D + ++ VGRLD +TEGL+LLTNDG L Sbjct: 74 VYLALNKPRGMHSTMSDDRGRPCIGDLIERKVRGTKKLFHVGRLDADTEGLMLLTNDGEL 133 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G V + L+ GI + G + D +D G V Sbjct: 134 AHRLMHPSHEVPKTYLATVTGSVPRGLGRTLRAGIELDDGPAFVDDFAVVDAIPGKT-LV 192 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V L EG+NR ++++ + V L+R G LG GS R Sbjct: 193 RVTLHEGRNRIVRRLLAAAGFPVEALVRTDIGAVSLGKQRPGSVR 237 >gi|260186664|ref|ZP_05764138.1| hypothetical protein MtubCP_11646 [Mycobacterium tuberculosis CPHL_A] gi|289447326|ref|ZP_06437070.1| conserved hypothetical protein [Mycobacterium tuberculosis CPHL_A] gi|289420284|gb|EFD17485.1| conserved hypothetical protein [Mycobacterium tuberculosis CPHL_A] Length = 254 Score = 100 bits (249), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 76/225 (33%), Positives = 111/225 (49%), Gaps = 6/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+++AGIASRR E+MI RV+V+G ++ V + VDG + + Sbjct: 15 RLQKVLSQAGIASRRAAEKMIVDGRVEVDGHVVTELGTRVDPPVAVVRVDGARVVLDDSL 74 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 +KP G+ +T SD GR + D + ++ VGRLD +TEGL+LLTNDG L Sbjct: 75 VYLALNKPRGMHSTMSDDRGRPCIGDLIERKVRGTKKLFHVGRLDADTEGLMLLTNDGEL 134 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G V + L+ GI + G + D +D G V Sbjct: 135 AHRLMHPSHEVPKTYLATVTGSVPRGLGRTLRAGIELDDGPAFVDDFAVVDAIPGKT-LV 193 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V L EG+NR ++++ + V L+R G LG GS R Sbjct: 194 RVTLHEGRNRIVRRLLAAAGFPVEALVRTDIGAVSLGKQRPGSVR 238 >gi|15643034|ref|NP_228077.1| 16S pseudouridylate synthase [Thermotoga maritima MSB8] gi|4980760|gb|AAD35352.1|AE001708_20 16S pseudouridylate synthase [Thermotoga maritima MSB8] Length = 239 Score = 100 bits (249), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 71/246 (28%), Positives = 124/246 (50%), Gaps = 10/246 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +G+ +R+EV+++I Q RV VNG ++ V+ D + +DG +R ++ Sbjct: 2 RLDRYLSNSGVGTRKEVKKLIKQGRVTVNGRVVLDPGHPVLENDAVALDGEVVRFHKKVY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L++KP G VT+ DP T+ + LP + + VGRLD + EGLL++TNDG A + Sbjct: 62 I-LFYKPSGYVTSTKDPHS-ETIMEFLPPL-KGIFPVGRLDKDAEGLLIITNDGDFAHRV 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V+ G+V +DK+ LK G+ ++ + + +K SN + + + Sbjct: 119 ISPKWSVEKEYIVKVEGEVTEDKIEKLKNGVTLRDGFFAKAK---RVEKLSNDTLKIVIT 175 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGK +IK++ K L R G G +L + + L E+ + E Sbjct: 176 EGKYHQIKRMTAAVGLKTVHLKRTRIG----GLVLPDDMKPGEYRFLSEEEVKKVFERED 231 Query: 255 VNLDAP 260 D P Sbjct: 232 QKEDTP 237 >gi|15608849|ref|NP_216227.1| hypothetical protein Rv1711 [Mycobacterium tuberculosis H37Rv] gi|15841171|ref|NP_336208.1| RNA pseudouridylate synthase [Mycobacterium tuberculosis CDC1551] gi|31792898|ref|NP_855391.1| hypothetical protein Mb1738 [Mycobacterium bovis AF2122/97] gi|121637619|ref|YP_977842.1| hypothetical protein BCG_1750 [Mycobacterium bovis BCG str. Pasteur 1173P2] gi|148661509|ref|YP_001283032.1| RNA pseudouridylate synthase [Mycobacterium tuberculosis H37Ra] gi|148822917|ref|YP_001287671.1| hypothetical protein TBFG_11726 [Mycobacterium tuberculosis F11] gi|167967185|ref|ZP_02549462.1| hypothetical protein MtubH3_03737 [Mycobacterium tuberculosis H37Ra] gi|215403985|ref|ZP_03416166.1| hypothetical protein Mtub0_09916 [Mycobacterium tuberculosis 02_1987] gi|215411359|ref|ZP_03420167.1| hypothetical protein Mtub9_08567 [Mycobacterium tuberculosis 94_M4241A] gi|215427035|ref|ZP_03424954.1| hypothetical protein MtubT9_11867 [Mycobacterium tuberculosis T92] gi|215430604|ref|ZP_03428523.1| hypothetical protein MtubE_08018 [Mycobacterium tuberculosis EAS054] gi|215445897|ref|ZP_03432649.1| hypothetical protein MtubT_08146 [Mycobacterium tuberculosis T85] gi|218753419|ref|ZP_03532215.1| hypothetical protein MtubG1_08264 [Mycobacterium tuberculosis GM 1503] gi|219557635|ref|ZP_03536711.1| hypothetical protein MtubT1_10192 [Mycobacterium tuberculosis T17] gi|224990094|ref|YP_002644781.1| hypothetical protein JTY_1725 [Mycobacterium bovis BCG str. Tokyo 172] gi|253799250|ref|YP_003032251.1| hypothetical protein TBMG_02284 [Mycobacterium tuberculosis KZN 1435] gi|254550722|ref|ZP_05141169.1| hypothetical protein Mtube_09734 [Mycobacterium tuberculosis '98-R604 INH-RIF-EM'] gi|260200774|ref|ZP_05768265.1| hypothetical protein MtubT4_11812 [Mycobacterium tuberculosis T46] gi|260204981|ref|ZP_05772472.1| hypothetical protein MtubK8_11835 [Mycobacterium tuberculosis K85] gi|289443169|ref|ZP_06432913.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium tuberculosis T46] gi|289569762|ref|ZP_06449989.1| conserved hypothetical protein [Mycobacterium tuberculosis T17] gi|289574379|ref|ZP_06454606.1| RNA pseudouridine synthase [Mycobacterium tuberculosis K85] gi|289745851|ref|ZP_06505229.1| RNA pseudouridylate synthase [Mycobacterium tuberculosis 02_1987] gi|289750268|ref|ZP_06509646.1| conserved hypothetical protein [Mycobacterium tuberculosis T92] gi|289753802|ref|ZP_06513180.1| RNA pseudouridylate synthase [Mycobacterium tuberculosis EAS054] gi|289757820|ref|ZP_06517198.1| RNA pseudouridylate synthase [Mycobacterium tuberculosis T85] gi|289761867|ref|ZP_06521245.1| RNA pseudouridylate synthase [Mycobacterium tuberculosis GM 1503] gi|294993179|ref|ZP_06798870.1| hypothetical protein Mtub2_01388 [Mycobacterium tuberculosis 210] gi|297634264|ref|ZP_06952044.1| hypothetical protein MtubK4_09092 [Mycobacterium tuberculosis KZN 4207] gi|297731251|ref|ZP_06960369.1| hypothetical protein MtubKR_09182 [Mycobacterium tuberculosis KZN R506] gi|306972006|ref|ZP_07484667.1| hypothetical protein TMJG_03142 [Mycobacterium tuberculosis SUMu010] gi|313658583|ref|ZP_07815463.1| hypothetical protein MtubKV_09197 [Mycobacterium tuberculosis KZN V2475] gi|54040263|sp|P65843|Y1738_MYCBO RecName: Full=Uncharacterized RNA pseudouridine synthase Mb1738; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|54042595|sp|P65842|Y1711_MYCTU RecName: Full=Uncharacterized RNA pseudouridine synthase Rv1711/MT1751.1; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|2326754|emb|CAB10968.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv] gi|13881392|gb|AAK46022.1| RNA pseudouridylate synthase [Mycobacterium tuberculosis CDC1551] gi|31618489|emb|CAD94441.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium bovis AF2122/97] gi|121493266|emb|CAL71737.1| Conserved hypothetical protein [Mycobacterium bovis BCG str. Pasteur 1173P2] gi|148505661|gb|ABQ73470.1| RNA pseudouridylate synthase [Mycobacterium tuberculosis H37Ra] gi|148721444|gb|ABR06069.1| conserved hypothetical protein [Mycobacterium tuberculosis F11] gi|224773207|dbj|BAH26013.1| hypothetical protein JTY_1725 [Mycobacterium bovis BCG str. Tokyo 172] gi|253320753|gb|ACT25356.1| conserved hypothetical protein [Mycobacterium tuberculosis KZN 1435] gi|289416088|gb|EFD13328.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium tuberculosis T46] gi|289538810|gb|EFD43388.1| RNA pseudouridine synthase [Mycobacterium tuberculosis K85] gi|289543516|gb|EFD47164.1| conserved hypothetical protein [Mycobacterium tuberculosis T17] gi|289686379|gb|EFD53867.1| RNA pseudouridylate synthase [Mycobacterium tuberculosis 02_1987] gi|289690855|gb|EFD58284.1| conserved hypothetical protein [Mycobacterium tuberculosis T92] gi|289694389|gb|EFD61818.1| RNA pseudouridylate synthase [Mycobacterium tuberculosis EAS054] gi|289709373|gb|EFD73389.1| RNA pseudouridylate synthase [Mycobacterium tuberculosis GM 1503] gi|289713384|gb|EFD77396.1| RNA pseudouridylate synthase [Mycobacterium tuberculosis T85] gi|308358526|gb|EFP47377.1| hypothetical protein TMJG_03142 [Mycobacterium tuberculosis SUMu010] gi|323719802|gb|EGB28916.1| hypothetical protein TMMG_00962 [Mycobacterium tuberculosis CDC1551A] gi|326903326|gb|EGE50259.1| hypothetical protein TBPG_01194 [Mycobacterium tuberculosis W-148] Length = 254 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 76/225 (33%), Positives = 111/225 (49%), Gaps = 6/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+++AGIASRR E+MI RV+V+G ++ V + VDG + + Sbjct: 15 RLQKVLSQAGIASRRAAEKMIVDGRVEVDGHVVTELGTRVDPQVAVVRVDGARVVLDDSL 74 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 +KP G+ +T SD GR + D + ++ VGRLD +TEGL+LLTNDG L Sbjct: 75 VYLALNKPRGMHSTMSDDRGRPCIGDLIERKVRGTKKLFHVGRLDADTEGLMLLTNDGEL 134 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G V + L+ GI + G + D +D G V Sbjct: 135 AHRLMHPSHEVPKTYLATVTGSVPRGLGRTLRAGIELDDGPAFVDDFAVVDAIPGKT-LV 193 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V L EG+NR ++++ + V L+R G LG GS R Sbjct: 194 RVTLHEGRNRIVRRLLAAAGFPVEALVRTDIGAVSLGKQRPGSVR 238 >gi|315059155|gb|ADT73484.1| Putative ribosomal pseudouridine synthase [Campylobacter jejuni subsp. jejuni S3] Length = 253 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 75/234 (32%), Positives = 117/234 (50%), Gaps = 17/234 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +I Q VK+N + + V D + V G ++K + Sbjct: 2 RINKFISHNTRYSRREADELIKQGLVKINN-KIALLSDEVKFDDKVFVKGKRVQKRTQFS 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A L Sbjct: 61 VIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIADAL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----------- 183 + R Y ++ G V + + ++ G+ ++ G T T Sbjct: 121 MHSDLE--REYYLKVKGTVSKQVIEAMQNGLEVKNEKKGAHAKTKITSMSFAPFIDFEIF 178 Query: 184 GSNAWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 GS+ T V + EGKNRE+++ F F+ +V L R+++G LG L AG R Sbjct: 179 GSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKHR 232 >gi|313205697|ref|YP_004044874.1| ribosomal large subunit pseudouridine synthase b [Riemerella anatipestifer DSM 15868] gi|312445013|gb|ADQ81368.1| ribosomal large subunit pseudouridine synthase B [Riemerella anatipestifer DSM 15868] gi|325336858|gb|ADZ13132.1| 16S rRNA uridine-516 pseudouridylate synthase related pseudouridylate synthase [Riemerella anatipestifer RA-GD] Length = 311 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 69/219 (31%), Positives = 116/219 (52%), Gaps = 7/219 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 +VQ+ R++K IA +GI SRRE + +I Q V++NG ++ V TD + DG Sbjct: 71 LVQQPKDTIRLNKYIANSGICSRREADELIQQGLVEINGKVVTELGYQVQKTDKVVFDGQ 130 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLL 123 + E+ L +KP G ++T D R TV D L + S R+ VGRLD T G++L Sbjct: 131 SI-TPEKPVYVLLNKPKGYISTTKDEKARKTVMD-LTANASPYRIFPVGRLDRQTTGVIL 188 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQ 182 LTNDG L + L PS ++Y V ++ + + ++ KGI + +G+ D +D + Sbjct: 189 LTNDGHLTKKLTHPSFNIKKIYHVTLDRKLTGEDMAIIAKGIRLEEGVAEVDSISYIDGK 248 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + + + + G NR I+++F+ ++V L R+ + Sbjct: 249 PKNEIGIEIHI--GWNRVIRRIFQRLGYEVEALDRVMFA 285 >gi|315022583|gb|EFT35609.1| Ribosomal large subunit pseudouridine synthase B [Riemerella anatipestifer RA-YM] Length = 311 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 69/219 (31%), Positives = 116/219 (52%), Gaps = 7/219 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 +VQ+ R++K IA +GI SRRE + +I Q V++NG ++ V TD + DG Sbjct: 71 LVQQPKDTIRLNKYIANSGICSRREADELIQQGLVEINGKVVTELGYQVQKTDKVVFDGQ 130 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLL 123 + E+ L +KP G ++T D R TV D L + S R+ VGRLD T G++L Sbjct: 131 SI-TPEKPVYVLLNKPKGYISTTKDEKARKTVMD-LTANASPYRIFPVGRLDRQTTGVIL 188 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQ 182 LTNDG L + L PS ++Y V ++ + + ++ KGI + +G+ D +D + Sbjct: 189 LTNDGHLTKKLTHPSFNIKKIYHVTLDRKLTGEDMAIIAKGIRLEEGVAEVDSISYIDGK 248 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + + + + G NR I+++F+ ++V L R+ + Sbjct: 249 PKNEIGIEIHI--GWNRVIRRIFQRLGYEVEALDRVMFA 285 >gi|226310436|ref|YP_002770330.1| pseudouridine synthase [Brevibacillus brevis NBRC 100599] gi|226093384|dbj|BAH41826.1| pseudouridine synthase [Brevibacillus brevis NBRC 100599] Length = 228 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 72/230 (31%), Positives = 117/230 (50%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ GI SRRE +++I +RV +NG L E + V S D + +DG PL ++ Sbjct: 2 RINKFISETGICSRREADKLIESKRVTINGQLAELGST-VASGDDVRIDGQPLGVKKKDV 60 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ TT G F N P R+ +GRLD +++GL+LLTNDG + Sbjct: 61 YIALNKPVGITCTTELHVKGNIIDFVNHPE---RIFPIGRLDKDSQGLILLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + L+ + G+ I G +VT K S+ + L Sbjct: 118 ILRAENNHDKEYIVTVDKPITANFLHGMANGVRILGTTTKPCKVT----KVSDRVFNIVL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +G NR+I+++ + F ++V +L RI LG L G R ++ K L + Sbjct: 174 TQGLNRQIRRMCQAFGYQVRKLERIRIMNIALGNLKLGQWRNLTAKELTD 223 >gi|311748732|ref|ZP_07722517.1| ribosomal large subunit pseudouridine synthase B [Algoriphagus sp. PR1] gi|311302834|gb|EFQ79272.1| ribosomal large subunit pseudouridine synthase B [Algoriphagus sp. PR1] Length = 434 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 118/229 (51%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +GI SRRE + +IA+ V VNG ++ + V D + G + E+ Sbjct: 203 RLNKYIANSGICSRREADDLIAKGLVSVNGKVVTELGLKVSKFDRVVYQGKKIN-PEKPV 261 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP +TT DP R TV + + R+ VGRLD NT GLLL TNDG LA Sbjct: 262 YVLLNKPKDFITTTDDPLERKTVMALVGNACEERIFPVGRLDRNTTGLLLFTNDGELAAK 321 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQV-TLDTQKGSNAWVT 190 L PS Q ++Y+V + + + +G+ ++ + DMQV ++D + + Sbjct: 322 LSHPSNQIKKIYQVTLDKPLTHNDEKDILEGLTLEDGEVEVDDMQVLSVDRK-----ILG 376 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + GKNR ++++F ++V L R+ Y L G+ R +S++ Sbjct: 377 LEIHVGKNRIVRRIFAHLGYEVTALDRVMYAGLDKKDLKRGNYRFLSEQ 425 >gi|331085062|ref|ZP_08334149.1| hypothetical protein HMPREF0987_00452 [Lachnospiraceae bacterium 9_1_43BFAA] gi|330408762|gb|EGG88227.1| hypothetical protein HMPREF0987_00452 [Lachnospiraceae bacterium 9_1_43BFAA] Length = 241 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 73/234 (31%), Positives = 121/234 (51%), Gaps = 13/234 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + +R EV++MI + V V+G+++++ V + V + + Sbjct: 7 RLDKYLADMQVGTRSEVKQMIRKGLVTVDGLIVKKPEEKVDCEKQVVVCSGAIVSYHQYE 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G+V+ DP + TV D + + + GRLD +TEGLLL+TNDG LA Sbjct: 67 YYMLNKPAGVVSATEDPRDK-TVIDLIEDRRRKDLFPAGRLDKDTEGLLLITNDGALAHD 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-----QKGSNAW 188 L P + Y + G V ++ + L KGI I G+ +VTL G + Sbjct: 126 LLSPKKHVDKKYYAKIEGTVTEEDVELFGKGIDI-----GEKRVTLPAVLTILSSGEESE 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 +T+ +REGK ++K++FE KV L R+S G L LL G R+++++ L Sbjct: 181 ITLTIREGKFHQVKRMFEAVGKKVTYLKRLSMGSLVLDEKLLPGEYRKLTEQEL 234 >gi|198283940|ref|YP_002220261.1| pseudouridine synthase [Acidithiobacillus ferrooxidans ATCC 53993] gi|198248461|gb|ACH84054.1| pseudouridine synthase [Acidithiobacillus ferrooxidans ATCC 53993] Length = 237 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 74/232 (31%), Positives = 114/232 (49%), Gaps = 18/232 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ +++R G SR EV ++ + RV+V G LL +A+ V + + + VD P+ Sbjct: 6 ERMDHLLSRLGYCSRSEVRDLLREGRVRVAGELLRKASAKVNAAE-VWVDEEPIDHPHAF 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINTEGLLLLTNDGG 129 L LYHKP+G V H DP ++ + P + + SVGRLD T G+LLLT+DG Sbjct: 65 YL-LYHKPLGKVCAHDDP---RAIYQDFPLRWRYRRPALSSVGRLDRETSGVLLLTDDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGS 185 P RVYRV + D ++L G ++ C L ++ Sbjct: 121 WLHHWTSPRRAIPRVYRVTLQEPLRSDAADILAAGTLMLDGEDTPCRPAALHCLTERE-- 178 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V + L EG+ E++++F + V L R +YGPF L L AG RE++ Sbjct: 179 ---VRLTLTEGRYHEVRRMFAALDNLVLTLHREAYGPFLLDDLPAGQWRELT 227 >gi|218665791|ref|YP_002426574.1| ribosomal small subunit pseudouridine synthase A [Acidithiobacillus ferrooxidans ATCC 23270] gi|218518004|gb|ACK78590.1| ribosomal small subunit pseudouridine synthase A [Acidithiobacillus ferrooxidans ATCC 23270] Length = 251 Score = 100 bits (248), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 74/232 (31%), Positives = 114/232 (49%), Gaps = 18/232 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ +++R G SR EV ++ + RV+V G LL +A+ V + + + VD P+ Sbjct: 20 ERMDHLLSRLGYCSRSEVRDLLREGRVRVAGELLRKASAKVNAAE-VWVDEEPIDHPHAF 78 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINTEGLLLLTNDGG 129 L LYHKP+G V H DP ++ + P + + SVGRLD T G+LLLT+DG Sbjct: 79 YL-LYHKPLGKVCAHDDP---RAIYQDFPLRWRYRRPALSSVGRLDRETSGVLLLTDDGD 134 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGS 185 P RVYRV + D ++L G ++ C L ++ Sbjct: 135 WLHHWTSPRRAIPRVYRVTLQEPLRSDAADILAAGTLMLDGEDTPCRPAALHCLTERE-- 192 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V + L EG+ E++++F + V L R +YGPF L L AG RE++ Sbjct: 193 ---VRLTLTEGRYHEVRRMFAALDNLVLTLHREAYGPFLLDDLPAGQWRELT 241 >gi|154499812|ref|ZP_02037850.1| hypothetical protein BACCAP_03469 [Bacteroides capillosus ATCC 29799] gi|150271410|gb|EDM98667.1| hypothetical protein BACCAP_03469 [Bacteroides capillosus ATCC 29799] Length = 238 Score = 100 bits (248), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 78/225 (34%), Positives = 110/225 (48%), Gaps = 27/225 (12%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ K++A G SRREV+ ++ RV NG AV + + +G+ LR Sbjct: 2 ERLDKILASTGRWSRREVKELVRAGRVTANG------AVVRSPEEKYQREGLDLRVDGQS 55 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLT 125 ER + HKP GLV+ DP ++TV + LP ++ GRLD +TEGLLLLT Sbjct: 56 VLCERYTYLMLHKPAGLVSATEDPR-QATVLELLPEHLRKIGLFPAGRLDRDTEGLLLLT 114 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT---- 181 NDG LA L P + Y V+ GQ+DQ + + G+ + GD V L Sbjct: 115 NDGALAHDLLSPRKHVDKTYFVQVEGQLDQSDVEAFQGGMTL-----GDGLVCLPAGLKL 169 Query: 182 -QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + A VT LREGK +IK++ V L R++ GP L Sbjct: 170 LEAPDEALVT--LREGKYHQIKRMLAARGKPVRYLKRLTMGPLVL 212 >gi|183220850|ref|YP_001838846.1| putative ribosomal subunit pseudouridine synthase [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] gi|189910947|ref|YP_001962502.1| pseudouridylate synthase [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|167775623|gb|ABZ93924.1| Pseudouridylate synthase [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|167779272|gb|ABZ97570.1| Putative ribosomal subunit pseudouridine synthase [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] Length = 247 Score = 100 bits (248), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 70/246 (28%), Positives = 124/246 (50%), Gaps = 13/246 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE--- 71 R++ +A+ G+ SRR+VE ++ RVK+NG + + V D I DG P+ K E Sbjct: 2 RINAFLAKLGLGSRRKVEELVLAGRVKINGSTITDLSFQVNEEDSILFDGKPVTKEEGSD 61 Query: 72 -RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R ++ ++KP G +T+H D +T+F LP F + GRLD+++ GL+LL+ DG Sbjct: 62 SRPKIIAFNKPPGFLTSHEDKHHENTIFTLLPESFQKYNYAGRLDLDSRGLILLSIDGNF 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDK------LNLLKKGIVIQGICYGDMQVTLD-TQK 183 + + P + + Y + V K L + + G ++ + V + T Sbjct: 122 IQKVTHPKNKIDKEYIISLKQPVSWKKIAEEFMLGVREGGETLRALAVKPANVFPEKTPP 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTREVSKKIL 241 G +++++ L+EGK R+I+++ + + V L RI G L LL G + V+++ + Sbjct: 182 GFTSYLSIVLKEGKKRQIRRMCKTKDLVVLDLYRIRIGKLDLRNFDLLEGKYKVVTEEQV 241 Query: 242 REQLGP 247 L P Sbjct: 242 LGNLNP 247 >gi|295093016|emb|CBK82107.1| ribosomal small subunit pseudouridine synthase A [Coprococcus sp. ART55/1] Length = 241 Score = 100 bits (248), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 73/231 (31%), Positives = 122/231 (52%), Gaps = 8/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + GI SR +V++ + + V VNG ++ + V + + D I+ +G L + R Sbjct: 2 RLDKFLVEMGIGSRSQVKQYVKKGTVTVNGAPVKSSDVKIDENNDTIKYNGRILNYS-RY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLAR 132 R +L +KP G V+ D + TV D L ++ +S VGRLDI+TEGLLLLTNDG L Sbjct: 61 RYFLLNKPAGCVSATKD-NVHQTVIDLLKGENTKDLSPVGRLDIDTEGLLLLTNDGALTH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWV 189 L P+ + Y G V D +NL G+ I + D+++ + + + Sbjct: 120 HLLSPAHHIPKTYYAEIDGYVTDDTINLFATGVDIGDEKPTLPADLRILSSDSTAARSEI 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + + EG+ ++K++FE KV L RI+ G ++ +L G+ R +S++ Sbjct: 180 ELIITEGRFHQVKRMFEAVGMKVTFLRRIAMGELKIDESLPTGAYRSLSEE 230 >gi|152988322|ref|YP_001350132.1| putative pseudouridylate synthase [Pseudomonas aeruginosa PA7] gi|150963480|gb|ABR85505.1| probable pseudouridylate synthase [Pseudomonas aeruginosa PA7] Length = 230 Score = 100 bits (248), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 72/227 (31%), Positives = 119/227 (52%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A SRR+ +R+IA R++V+G ++ V +E+D L+ + R Sbjct: 2 RLDRFLANLPELSRRDAQRLIAGGRLRVDGQVVRDGTHEVRVFSRVELDERLLQAGKPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG-RLDINTEGLLLLTNDGGLARV 133 ++ HKP+G V+ DP+ TV + LP + +G RLD NT GL+LLTNDG +R Sbjct: 62 YYMLHKPMGCVSATRDPE-HPTVLELLPPDHRDDLHIGGRLDYNTTGLMLLTNDGRWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L LP ++ +VY V +DQ ++ GI + + L+ +A +T L Sbjct: 121 LTLPGSRRDKVYYVETEEPIDQRYVDAFAAGIHFRFEDLVTLPAQLEPLGPRSARLT--L 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EG+ ++K++F F+ +V RL R G QL TL G+ R ++ + Sbjct: 179 HEGRYHQVKRMFGHFDNRVLRLHRERMGDIQLDPTLPPGAWRPLNAE 225 >gi|325662260|ref|ZP_08150875.1| hypothetical protein HMPREF0490_01613 [Lachnospiraceae bacterium 4_1_37FAA] gi|331086071|ref|ZP_08335154.1| hypothetical protein HMPREF0987_01457 [Lachnospiraceae bacterium 9_1_43BFAA] gi|325471512|gb|EGC74733.1| hypothetical protein HMPREF0490_01613 [Lachnospiraceae bacterium 4_1_37FAA] gi|330406994|gb|EGG86499.1| hypothetical protein HMPREF0987_01457 [Lachnospiraceae bacterium 9_1_43BFAA] Length = 255 Score = 100 bits (248), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 68/230 (29%), Positives = 122/230 (53%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ AG+ SRRE +R+I RV V+G E + V + V ++K +R Sbjct: 17 RLNKFLSEAGVCSRREADRLIESGRVTVDGRRAE-MGMRVTKDQEVCVGKKVIQKKDRMV 75 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+V T + ++ + F N P+ R+ +GRLD ++EGLLL+TN+G + Sbjct: 76 LLAVNKPTGIVCTEEKREKKNIIRFLNYPT---RITYIGRLDKDSEGLLLMTNNGDIINK 132 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y+V + +V ++ + + +G+ I +V +K + L Sbjct: 133 MMRAGNCHEKEYKVTVNKEVTKEFVRKMSEGVPILDTVTRPCKV----EKTGKYKFRIIL 188 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +G NR+I+++ E+F ++V RL R+ +LG L +G REV+ + L E Sbjct: 189 TQGLNRQIRRMCEYFGYQVTRLERVRVMNIELGNLKSGEYREVTGRELDE 238 >gi|325661183|ref|ZP_08149810.1| hypothetical protein HMPREF0490_00543 [Lachnospiraceae bacterium 4_1_37FAA] gi|325472690|gb|EGC75901.1| hypothetical protein HMPREF0490_00543 [Lachnospiraceae bacterium 4_1_37FAA] Length = 237 Score = 100 bits (248), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 72/234 (30%), Positives = 121/234 (51%), Gaps = 13/234 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + +R EV++MI + V V+G+++++ V + V + + Sbjct: 3 RLDKYLADMQVGTRSEVKQMIRKGLVTVDGLIVKKPEEKVDCEKQVVVCSGAIVSYHQYE 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G+V+ DP + TV D + + + GRLD +TEGLLL+TNDG LA Sbjct: 63 YYMLNKPAGVVSATEDPRDK-TVIDLIEDRRRKDLFPAGRLDKDTEGLLLITNDGALAHD 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-----QKGSNAW 188 L P + Y + G V ++ + L KG+ I G+ +VTL G + Sbjct: 122 LLSPKKHVDKKYYAKIEGTVTEEDVELFGKGVDI-----GEKRVTLPAVLTILSSGEESE 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 +T+ +REGK ++K++FE KV L R+S G L LL G R+++++ L Sbjct: 177 ITLTIREGKFHQVKRMFEAVGKKVTYLKRLSMGSLVLDEKLLPGEYRKLTEQEL 230 >gi|167464456|ref|ZP_02329545.1| pseudouridine synthase [Paenibacillus larvae subsp. larvae BRL-230010] Length = 250 Score = 100 bits (248), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 79/242 (32%), Positives = 130/242 (53%), Gaps = 13/242 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+++ G +R E++++ V VNG +++ + V D+IEV+G + E Sbjct: 6 RLDKMLSHLGYGTRSELKKLAKNGGVTVNGKVVKDSGWKVYPDEDYIEVNGEQVIFREHV 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L +KP G+++ D R+ V D+ +F V VGRLD +TEGLLLLTNDG LA Sbjct: 66 YVLL-NKPAGVISATEDMRDRTVVDLLDDHIRVFG-VFPVGRLDKDTEGLLLLTNDGKLA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDT---QKGS 185 L P + Y R +G V ++ + + +G+V+ Y M V LD+ ++ Sbjct: 124 HNLLSPRKHVPKTYYARVNGDVTEEDVRIFSEGVVLDD-GYMTMPAQLVVLDSGNPEEEK 182 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 A + + + EGK ++K++FE + KV L RIS G +L +L G++RE++ K L Sbjct: 183 PAEIELTIHEGKFHQVKRMFEAVHKKVVYLKRISMGSLKLDPSLSPGASRELTAKELEAL 242 Query: 245 LG 246 G Sbjct: 243 QG 244 >gi|319442276|ref|ZP_07991432.1| putative pseudouridylate synthase [Corynebacterium variabile DSM 44702] Length = 282 Score = 100 bits (248), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 77/232 (33%), Positives = 116/232 (50%), Gaps = 6/232 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A AG+ASRR E++I RV+VNG ++ + V D I VDGV + E Sbjct: 43 RLQKVLAAAGVASRRMSEKLIEAGRVEVNGSIVTEQGMRVDPENDVIRVDGVRVIADEEI 102 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+ +T D GR + D + R+ VGRLD TEGLLLLTNDG L Sbjct: 103 VTFALNKPRGIHSTMHDEFGRPCLSDLVGERVEAGQRLFHVGRLDAQTEGLLLLTNDGEL 162 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y G+ D+ + L GI + GI D +D +G + + Sbjct: 163 ANRLMHPRYGIKKTYLATVLGEADRRLVRQLLDGIELDDGIVIADEVQIIDAWQG-KSLI 221 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + EG+ ++++ + + V L+R QLG G+ R +++ L Sbjct: 222 KVVIHEGRKHVVRRMLKEAGFPVQALVRTKVHTVQLGEQKPGTLRALNRSEL 273 >gi|167745885|ref|ZP_02418012.1| hypothetical protein ANACAC_00579 [Anaerostipes caccae DSM 14662] gi|317470613|ref|ZP_07929999.1| RNA pseudouridylate synthase [Anaerostipes sp. 3_2_56FAA] gi|167654749|gb|EDR98878.1| hypothetical protein ANACAC_00579 [Anaerostipes caccae DSM 14662] gi|316901904|gb|EFV23832.1| RNA pseudouridylate synthase [Anaerostipes sp. 3_2_56FAA] Length = 242 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 128/234 (54%), Gaps = 8/234 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +++AG+ SRR+ + + Q +V V+G E V + +G P+R +T Sbjct: 10 RINKFLSQAGLCSRRQADFYVEQGKVTVDGKTAE-PGTKVCEGQEVCFNGKPVRMDTQTV 68 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 Y+KP G+V T S + + + + SR+ VGRLD +++GL+LLTNDG A + Sbjct: 69 YLAYNKPKGIVCTSSKEEANNII--DAVGYPSRIYPVGRLDKDSQGLILLTNDGEAANEI 126 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V + ++ D + ++ G+ + + + T+ ++G +++ + L Sbjct: 127 MKARNYHEKEYEVTVNKRITNDFIQGMRNGVPLSELDTVTRKCTVK-KEGPDSFRII-LT 184 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQL 245 +G NR+I+++ E+F ++V +L R+ +LG L GS R+++ K+L+E+L Sbjct: 185 QGLNRQIRRMCEYFGYRVTKLRRVRVMNIRLGNLKEGSYRKLTPEEIKMLKEEL 238 >gi|257126979|ref|YP_003165093.1| RNA-binding S4 domain protein [Leptotrichia buccalis C-1013-b] gi|257050918|gb|ACV40102.1| RNA-binding S4 domain protein [Leptotrichia buccalis C-1013-b] Length = 228 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 117/227 (51%), Gaps = 12/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVN---GILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K IA G SRR+ + +I + RV VN I+ ++V D + +DG ++ Sbjct: 2 RLNKFIAETGFCSRRKADELINEGRVTVNKHEAII----GMDVKPEDVVRIDGERVKLNT 57 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP ++ ++ D GR D + S +R+ + GRLD TEGL++++NDG + Sbjct: 58 RYEYYILNKPKRVLCSNEDKFGRRLAVDFIKS-RARLFTYGRLDFMTEGLIIISNDGEVY 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y + +++ + L+ G+VI G +V +K + + Sbjct: 117 NHVMHPRKKLYKSYIAKVSREIEDKDIEALQHGVVIDGKRTAPAKV----KKIDKKELRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG+NR+I+K+ E + VN L RI G LG L G R +++ Sbjct: 173 AIFEGRNRQIRKMLETLGYNVNSLKRIKVGELTLGNLQVGEYRALNE 219 >gi|226360073|ref|YP_002777851.1| pseudouridine synthase [Rhodococcus opacus B4] gi|226238558|dbj|BAH48906.1| pseudouridine synthase [Rhodococcus opacus B4] Length = 350 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 75/225 (33%), Positives = 116/225 (51%), Gaps = 6/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KV+A+AG+ASRR E +I+Q RV+V+G ++ + + + + ++ Sbjct: 111 RLQKVLAQAGVASRRAAEELISQGRVEVDGRIVIEQGLRIDPENAVVRVDGVRVVVQKDL 170 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP G +T SD GR V D + + R+ VGRLD +TEGLLLLTNDG L Sbjct: 171 VHLALNKPRGWQSTMSDDLGRPCVGDIVSERVAAGQRLFHVGRLDADTEGLLLLTNDGDL 230 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G +++ LK+G+ + G D LD +G + V Sbjct: 231 AHRLMHPSFEVSKTYLATVSGALERGVGKKLKEGVELDDGPAKVDTFTLLDINEG-KSLV 289 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V L EG+ ++++F+ V RL+R G LG G+ R Sbjct: 290 RVTLHEGRKHIVRRLFDAVGHPVIRLVRTDIGAVALGDQRPGTLR 334 >gi|320546398|ref|ZP_08040713.1| ribosomal small subunit pseudouridine synthase A [Streptococcus equinus ATCC 9812] gi|320448783|gb|EFW89511.1| ribosomal small subunit pseudouridine synthase A [Streptococcus equinus ATCC 9812] Length = 238 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 73/243 (30%), Positives = 132/243 (54%), Gaps = 19/243 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K++ +AG SR +V+++I ++V V+G L E +NV S I V G + + Sbjct: 2 RLDKLLGQAGFGSRNQVKKLIRSRQVYVDGRLAEADNLNVEPSLQEITVSGKQVTLSTE- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ++ +KP G+V+ SD + ++ + D +P ++ VGRLD +TEG LL+TN+G Sbjct: 61 KYFILNKPAGVVSAVSDKEHQTVIDLIVESDRVPKLYP----VGRLDRDTEGFLLITNNG 116 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICY-GDMQVTLDTQKGS 185 L + P + Y V +G++ D + G+ +C +++ + + S Sbjct: 117 PLGYRMLHPKYHVTKTYYVEVNGRLADDTPAFFENGVTFDDGTVCKPAKLEIIESSSEKS 176 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS---KKILR 242 +A++T+ EGK ++KK+F + KV L R+++G F+LG L G RE++ K+IL+ Sbjct: 177 SAYITIA--EGKFHQVKKMFLAYGVKVTYLKRMTFGEFELGDLPTGHYRELTINEKEILK 234 Query: 243 EQL 245 L Sbjct: 235 NYL 237 >gi|312601099|gb|ADQ90354.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma hyopneumoniae 168] Length = 236 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 71/237 (29%), Positives = 118/237 (49%), Gaps = 30/237 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K ++ G+ SRR+ E++I Q R+K+N E A + V D IE+D + K Sbjct: 5 RINKFLSEMGVCSRRQSEKLILQGRIKINN---ETAKIGQIVSQNDVIELDQQKITKKPP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGG 129 + +KP +T+ DP+ R T+ + FS+ + VGRLD T GL+L+TNDG Sbjct: 62 IFWYALNKPKNYITSRFDPENRPTIME----FFSKNEYLFPVGRLDFQTSGLILITNDGK 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-------Q 182 L PS++ R Y V+ + ++ L D ++ LD+ + Sbjct: 118 TTNKLLHPSSKIERTYLVKTDFSLSDKEIRFL-----------NDNKIQLDSVKSIQKIK 166 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 K S+ V + +G N IKK+F N KV +L R+S+ +L + G R+++K+ Sbjct: 167 KCSSRTYLVTVWQGSNHHIKKLFLSINKKVLKLKRVSFANIKLNNISEGKYRKLTKQ 223 >gi|262038781|ref|ZP_06012135.1| ribosomal large subunit pseudouridine synthase B [Leptotrichia goodfellowii F0264] gi|261747192|gb|EEY34677.1| ribosomal large subunit pseudouridine synthase B [Leptotrichia goodfellowii F0264] Length = 228 Score = 99.8 bits (247), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 66/228 (28%), Positives = 118/228 (51%), Gaps = 12/228 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R++K +A AG+ SRR+ + MI + RV VN ++ AV + S D + VDG ++ Sbjct: 2 RLNKYMADAGVCSRRKADEMIKEGRVTVN----KKEAVLGMEISSGDIVRVDGEKIKLNT 57 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP ++ ++ D GR D + S R+ + GRLD TEGL++++NDG + Sbjct: 58 VYEYYMLNKPKRVICSNEDRFGRRLAIDYIKS-KKRLFTYGRLDYMTEGLIIISNDGEVY 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y + +V++ + K G+VI G +V +K + + Sbjct: 117 NHVMHPRKKLYKSYIAKLSREVEEKDMEAWKHGVVIDGKRTAPAKV----KKIDKKEIRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+NR+I+K+ E + V L R+ G LG L G R ++++ Sbjct: 173 AIFEGRNRQIRKMVEILGYTVESLKRVKVGELTLGYLQPGDYRALTEE 220 >gi|254818897|ref|ZP_05223898.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium intracellulare ATCC 13950] Length = 247 Score = 99.8 bits (247), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 77/229 (33%), Positives = 113/229 (49%), Gaps = 6/229 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+++AGIASRR E++I + RV+V+G ++ V I VDG + + Sbjct: 8 RLQKVLSQAGIASRRAAEKLIIEGRVEVDGQVVTELGTRVDPDVSVIRVDGARIVLDDSQ 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 +KP G+ +T SD GR + D + + VGRLD +TEGL+LLTNDG L Sbjct: 68 VYLALNKPRGVHSTMSDDRGRPCIGDLIERRVRGNKNLFHVGRLDADTEGLILLTNDGEL 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G V + L+ GI + G D +D G V Sbjct: 128 AHRLMHPSHEVPKTYLATVTGSVPRGVGKALRAGIELDDGPARVDEFAVVDAIPGKT-LV 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V L EG+NR ++++ + V L+R GP LG GS R + + Sbjct: 187 RVTLHEGRNRIVRRLLAAAGFPVEALVRTDIGPVSLGKQRPGSFRALGR 235 >gi|145298479|ref|YP_001141320.1| 16S rRNA uridine-516 pseudouridylate synthase [Aeromonas salmonicida subsp. salmonicida A449] gi|142851251|gb|ABO89572.1| 16S rRNA uridine-516 pseudouridylate synthase [Aeromonas salmonicida subsp. salmonicida A449] Length = 230 Score = 99.8 bits (247), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 65/226 (28%), Positives = 110/226 (48%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + +R ++I Q V V+GI++++ A ++ +E DGV L +R R Sbjct: 2 RLDKFLCDCSDLTRSLAGKLIRQGEVTVDGIVVKQPAFHINEQSQVEFDGVMLTLDQRNR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ HKP G V ++ DPD + F ++ VGRLD++T GL+L+T+DG + + Sbjct: 62 YFMLHKPEGYVCSNEDPDHPTVFFLMDEPAMGKLHVVGRLDLDTTGLVLVTDDGKWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y V V QD ++L G+ ++ L+ A +T+ Sbjct: 122 TSPRHECAKTYHVWLADPVHQDAISLFADGVFLRNETEKTRPAQLEILAECEARLTI--H 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EGK ++K++F KV L R G L LA G RE++ + Sbjct: 180 EGKYHQVKRMFASIGNKVVGLHREQIGTLALDEALAPGEYRELTAE 225 >gi|322384180|ref|ZP_08057890.1| 16S pseudouridylate synthase-like protein [Paenibacillus larvae subsp. larvae B-3650] gi|321151072|gb|EFX44389.1| 16S pseudouridylate synthase-like protein [Paenibacillus larvae subsp. larvae B-3650] Length = 256 Score = 99.4 bits (246), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 79/242 (32%), Positives = 130/242 (53%), Gaps = 13/242 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+++ G +R E++++ V VNG +++ + V D+IEV+G + E Sbjct: 12 RLDKMLSHLGYGTRSELKKLAKNGGVTVNGKVVKDSGWKVYPDEDYIEVNGEQVIFREHV 71 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L +KP G+++ D R+ V D+ +F V VGRLD +TEGLLLLTNDG LA Sbjct: 72 YVLL-NKPAGVISATEDMRDRTVVDLLDDHIRVFG-VFPVGRLDKDTEGLLLLTNDGKLA 129 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDT---QKGS 185 L P + Y R +G V ++ + + +G+V+ Y M V LD+ ++ Sbjct: 130 HNLLSPRKHVPKTYYARVNGDVTEEDVRIFSEGVVLDD-GYMTMPAQLVVLDSGNPEEEK 188 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 A + + + EGK ++K++FE + KV L RIS G +L +L G++RE++ K L Sbjct: 189 PAEIELTIHEGKFHQVKRMFEAVHKKVVYLKRISMGSLKLDPSLSPGASRELTAKELEAL 248 Query: 245 LG 246 G Sbjct: 249 QG 250 >gi|295100099|emb|CBK89188.1| ribosomal small subunit pseudouridine synthase A [Eubacterium cylindroides T2-87] Length = 230 Score = 99.4 bits (246), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 67/224 (29%), Positives = 114/224 (50%), Gaps = 8/224 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K ++ G +R +V+ +I V + G +++A V + VD P+ + Sbjct: 2 RLDKFLSHMGYGTRNKVKNIIKNGWVTIEGKTIKKADHQVKEDQIVYVDDTPVSYIQY-E 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V+ D + T+ + +PSI + VGRLDI+TEGLLL+ NDG L L Sbjct: 61 YYILNKPSGYVSATED-NVHPTIMELIPSIRKDLYPVGRLDIDTEGLLLVCNDGQLTHDL 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWVTVGL 193 P + Y V F G + ++ + + + + + I LDT K A++T+ Sbjct: 120 LSPKKHVQKKYYVEFEGTLPENAVEIFNQPMDLDDFIAKPSTLEILDTNK---AYLTIS- 175 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 EGK ++K++F+ +V L R+S+GP +L L G R +S Sbjct: 176 -EGKFHQVKRMFQKIGCEVTYLQRVSFGPLELKNLEIGQARALS 218 >gi|255535081|ref|YP_003095452.1| pseudouridine synthase, Rsu [Flavobacteriaceae bacterium 3519-10] gi|255341277|gb|ACU07390.1| pseudouridine synthase, Rsu [Flavobacteriaceae bacterium 3519-10] Length = 239 Score = 99.4 bits (246), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 75/233 (32%), Positives = 120/233 (51%), Gaps = 14/233 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRRE +RM+ Q R+ VNG + E V D I VDGV +RK E Sbjct: 4 RINKYLSEVGFCSRREADRMLEQGRITVNGNIPE-MGTKVSGEDEILVDGVSIRKVEEEH 62 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +++ +KP+G+V T R + F N P R+ +GRLD +EGL+LLT+DG + Sbjct: 63 VYIALNKPVGIVCTTDTKRERDNIVEFVNHPK---RIFPIGRLDKPSEGLILLTSDGDIV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKGSNAWVT 190 + + Y VR + L+ ++ G+ I GI +V +DT Sbjct: 120 NKILRARNNHEKEYIVRVDKPISPQFLHKMRNGVPILGIITNKCEVEQIDT-----LSFR 174 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E+ ++V +L RI +L L G R++S + L E Sbjct: 175 IILTQGLNRQIRRMCEYLGYEVKKLKRIRIMNIKL-DLPIGKWRDLSAQELAE 226 >gi|296164607|ref|ZP_06847174.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium parascrofulaceum ATCC BAA-614] gi|295900026|gb|EFG79465.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium parascrofulaceum ATCC BAA-614] Length = 247 Score = 99.4 bits (246), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 79/229 (34%), Positives = 113/229 (49%), Gaps = 6/229 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+++AGIASRR E++I RV+V+G ++ V I VDG + E Sbjct: 8 RLQKVLSQAGIASRRAAEKLIIDGRVEVDGRVVTELGTRVDPDASVIRVDGARVVLDESL 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 +KP G+ +T SD GR + D + + VGRLD +TEGL+LLTNDG L Sbjct: 68 VYLALNKPRGMHSTMSDDRGRPCIGDLVERKVRGNKNLFHVGRLDADTEGLILLTNDGEL 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G V + LK GI + G D +D G V Sbjct: 128 AHRLMHPSHEVPKTYLATVTGSVPRGIGKKLKAGIELDDGPARVDDFAVVDAIPGKT-LV 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V L EG+NR ++++ + V L+R GP LG GS R +++ Sbjct: 187 RVVLHEGRNRIVRRLLGAAGFPVEALVRTDIGPVSLGKQRPGSIRALNQ 235 >gi|109946748|ref|YP_663976.1| pseudouridylate synthase [Helicobacter acinonychis str. Sheeba] gi|109713969|emb|CAJ98977.1| pseudouridylate synthase [Helicobacter acinonychis str. Sheeba] Length = 254 Score = 99.4 bits (246), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 65/241 (26%), Positives = 125/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ + VGRLD +EG+LLL++ + Sbjct: 61 FSVLVYHKPKGELVSKNDPLKRRMIYESLERKYAHFVPVGRLDFASEGVLLLSDSKAVVS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y ++ G V ++ N +++G+ ++ G Q T Sbjct: 121 ALMHANLE--KEYLIKIQGFVTKEMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN +V L R+ YG L L G R +++ Sbjct: 179 IIKNHAKYSKIRVVINEGKNRELRRFFAFFNARVLDLRRVRYGFVNLNALPVGKMRFLNR 238 Query: 239 K 239 + Sbjct: 239 Q 239 >gi|160939069|ref|ZP_02086420.1| hypothetical protein CLOBOL_03963 [Clostridium bolteae ATCC BAA-613] gi|158438032|gb|EDP15792.1| hypothetical protein CLOBOL_03963 [Clostridium bolteae ATCC BAA-613] Length = 262 Score = 99.4 bits (246), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 74/223 (33%), Positives = 116/223 (52%), Gaps = 16/223 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAE 71 P R+ + +A G +R +V+ M+ + RV++NG ++ A V +D +EVD + A Sbjct: 16 PMRLDRFLAEMGYGTRTQVKDMVKKGRVRMNGEAVKDADRKVNPESDIVEVDRSRVAYA- 74 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP G+V+ D + V ++ + VGRLDI+TEGLLL+TNDG LA Sbjct: 75 RMEYYMLNKPQGVVSATEDRKYPTVVGLIREALRKDLFPVGRLDIDTEGLLLITNDGELA 134 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----KGSNA 187 L P +VY G + +D + ++GI ++ D +TL + KG+ Sbjct: 135 HNLLSPKKHVDKVYLAHVSGGLPEDAVKRFEEGIKLE-----DGTMTLPAELKILKGAGP 189 Query: 188 -----WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V V +REGK +IK++FE +V L RIS GP L Sbjct: 190 EEDAQEVLVTIREGKFHQIKRMFEALGCRVEYLKRISMGPLIL 232 >gi|310778731|ref|YP_003967064.1| ribosomal small subunit pseudouridine synthase A [Ilyobacter polytropus DSM 2926] gi|309748054|gb|ADO82716.1| ribosomal small subunit pseudouridine synthase A [Ilyobacter polytropus DSM 2926] Length = 226 Score = 99.4 bits (246), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 70/229 (30%), Positives = 120/229 (52%), Gaps = 9/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K + G+ +RR+V+ +I++ + +N + + + D I++ G + K ++ Sbjct: 1 MRLDKFLTECGVGTRRDVKNIISKNEITINDKKVNSPKEKIDLENDVIKI-GERVLKYKK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 R ++ +K G +T D + TV + LP I + VGRLD +TEGLLL TN+G + Sbjct: 60 DRFYIMNKTSGFITATEDTREK-TVMELLPEWVIKKDLFPVGRLDKDTEGLLLFTNNGKI 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y V+ ++D+ +NLL++G+ I G +V Q +N + Sbjct: 119 AHELLSPKKHVDKTYLVKLLKEIDKKSVNLLEEGVDIGGYITKPSKV----QIINNTEIL 174 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EGK ++KK+ E KV L R+S+G +LG L G +EV K Sbjct: 175 LTICEGKFHQVKKMLEAVGNKVIYLKRLSFGNLELGDLPLGEVKEVDLK 223 >gi|294155697|ref|YP_003560081.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma crocodyli MP145] gi|291600028|gb|ADE19524.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma crocodyli MP145] Length = 237 Score = 99.4 bits (246), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 75/229 (32%), Positives = 116/229 (50%), Gaps = 14/229 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN---GILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ K++++AGIASRR E +I + VK+N ++ ++A+ N D I V+G + + Sbjct: 2 ERIQKLLSQAGIASRRSSEELIKKGLVKINDKVALVGQKASFN----DKITVNGKEILQ- 56 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E+ ++ +KP V T+ D R V D LP+ R+ VGRLD +T G+LLLTNDG L Sbjct: 57 EKKVYYILNKPAKYVCTNKDNFDRKKVIDLLPNDV-RIFPVGRLDYDTTGVLLLTNDGEL 115 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + L PS + LR YR R + + LN L K +I G LD N Sbjct: 116 SNKLIHPSFKILRKYRARLDEPLSRQDLNELNKDQIINGKLSSQSVEQLD-----NKTYL 170 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V L +G +K++F V L R+ + + + G R ++ K Sbjct: 171 VSLHQGTYHHVKELFSKVGRLVINLKRVEFAGLGVEKIPVGEFRSLTMK 219 >gi|157165467|ref|YP_001467825.1| putative peptide ABC transporter, permease protein [Campylobacter concisus 13826] gi|112801794|gb|EAT99138.1| hypothetical RNA pseudouridine synthase jhp_1352 (RNA-uridine isomerase) (RNA pseudouridylate synthase) [Campylobacter concisus 13826] Length = 257 Score = 99.4 bits (246), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 120/234 (51%), Gaps = 16/234 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +I +V + G ++ A +V D + ++G ++ + Sbjct: 5 RLNKFISHNTNYSRREADELIKAGKVSIAGRVVSDLATSVDEDDKVRINGRLIKLKKEFT 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T++D L F++ +SVGRLD +EGLLLLT+ +A Sbjct: 65 VIVYHKQKGELVSKKDDRGRKTIYDTLDKKFAKFVSVGRLDYASEGLLLLTDAPAIATA- 123 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG-DMQVTLDTQK---------- 183 L ++ R Y ++ G++ ++ + + G + G + T+ + + Sbjct: 124 -LMNSDLEREYYLKVKGEISKEVIEAMTNGFFAKDATKGAHAKTTIKSMEFKPFLAYKVF 182 Query: 184 GSNAWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 GS+ T V + EG+NRE+++ F +F+ +V L R+S+G L L G R Sbjct: 183 GSSGGYTKLKVIINEGQNRELRRFFGYFDLEVMDLKRVSFGRVSLDMLKPGKWR 236 >gi|237714337|ref|ZP_04544818.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D1] gi|229445501|gb|EEO51292.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D1] Length = 234 Score = 99.4 bits (246), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 73/226 (32%), Positives = 113/226 (50%), Gaps = 7/226 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K +A AG+ SRRE + I V VNG ++ + +D ++ P+ ER Sbjct: 1 MNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVVKFHDEPV-SIERKVY 59 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA L Sbjct: 60 VLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTGVLLLTNDGDLASKL 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWVTVG 192 P ++Y V + + + + GI ++ G + D + T D +K V + Sbjct: 120 THPKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIHADAISYTDDFKKDQ---VGIE 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 177 IHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSE 222 >gi|42518880|ref|NP_964810.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus johnsonii NCC 533] gi|41583166|gb|AAS08776.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus johnsonii NCC 533] Length = 233 Score = 99.4 bits (246), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 64/228 (28%), Positives = 117/228 (51%), Gaps = 6/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV +I ++ V VNG +++ V D + VDG + ++ Sbjct: 2 RIDKYLANMNVGSRKEVHNLIKKKIVTVNGEVVKTPKEQVKEEDQVAVDGEKVA-YQQYH 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D ++ + P + + VGRLD +T GLLLLTNDG LA Sbjct: 61 YFLLNKPKGVISATEDKSQKTVLSLLKPKDRYKDIAPVGRLDKDTTGLLLLTNDGALAHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWVT 190 L P+ + YR + G D++ + + G+ + + ++++ + ++ + + Sbjct: 121 LLAPNKHVTKKYRAKIAGVADEETVKVFASGMTLGDGTKLKPAELKILMQDKESDQSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 + ++EGK +IK++F KV L RIS G L L G +E++ Sbjct: 181 IEIQEGKYHQIKRMFGAVGMKVIELDRISMGKLVLPANLKRGQYQEIT 228 >gi|270295727|ref|ZP_06201927.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D20] gi|317479868|ref|ZP_07938986.1| S4 domain-containing protein [Bacteroides sp. 4_1_36] gi|270273131|gb|EFA18993.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D20] gi|316903977|gb|EFV25813.1| S4 domain-containing protein [Bacteroides sp. 4_1_36] Length = 494 Score = 99.0 bits (245), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 73/230 (31%), Positives = 113/230 (49%), Gaps = 7/230 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ + D ++ + ER Sbjct: 258 PIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEVKFHDQTV-SIER 316 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 317 KIYVLLNKPKDTVTTSDDPQARRTVMDLVKGACDERIYPVGRLDRNTTGVLLLTNDGDLA 376 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGD-MQVTLDTQKGSNAWV 189 L P ++Y V + + + + GI + G + D + T D +K V Sbjct: 377 SKLTHPKYLKKKIYHVHLDKNLTKADMEQIAAGIQLDDGEIHADAISYTDDFKKDD---V 433 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 434 GIEIHSGKNRIVRRIFESLGYKVMKLDRVYFAGLTKKGLRRGEWRYLTEQ 483 >gi|254562844|ref|YP_003069939.1| pseudouridine synthase, 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Methylobacterium extorquens DM4] gi|254270122|emb|CAX26112.1| Putative pseudouridine synthase, putative 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Methylobacterium extorquens DM4] Length = 256 Score = 99.0 bits (245), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 67/179 (37%), Positives = 97/179 (54%), Gaps = 2/179 (1%) Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINT 118 I VDG L A + L L +KP GL+TT+ DP GR TV+D L + VGRLD + Sbjct: 8 ICVDGRRLVSAAKVYL-LLNKPRGLLTTYGDPQGRKTVYDCLAGHDLPFLAPVGRLDCAS 66 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLLL+TND A L P++ +VY V+ D+ L L++G V G V Sbjct: 67 EGLLLMTNDTRWAHRLLDPASNVDKVYHVQIDRTPDEALLTGLREGAVHDGERLAAKSVA 126 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 NAW+ V L EG+NR+I+++ +V RL+R++ G +LG + G+ R ++ Sbjct: 127 PLRVGERNAWLEVVLSEGRNRQIRRMMALNGAEVLRLVRVAVGGLRLGDVRKGAFRHLT 185 >gi|24379111|ref|NP_721066.1| putative 16S pseudouridylate synthase [Streptococcus mutans UA159] gi|24377013|gb|AAN58372.1|AE014907_9 putative 16S pseudouridylate synthase [Streptococcus mutans UA159] Length = 238 Score = 99.0 bits (245), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 75/231 (32%), Positives = 119/231 (51%), Gaps = 10/231 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ +AG SR +V++ I Q+V+V+ L NV + I V G L + Sbjct: 2 RLGKLLGQAGFGSRGQVKKFIRSQQVRVDDELARTGNQNVDPNLQTITVSGKQLSYSPHV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP GLV+ D TV D + + R + VG LD +TEGL+L+TN+G L Sbjct: 62 -YYILNKPAGLVSVVRDQH-YQTVIDLIAVVDRREGLYPVGCLDRDTEGLVLITNNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICY-GDMQVTLDTQKGSNAW 188 L P + Y V +G + D + GI +C +Q+ + + S A+ Sbjct: 120 FRLLHPKYHVDKTYYVEVNGDLGIDAIAFFDNGIAFLDGTVCKPAKLQIISSSSEVSRAY 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +T+ EGK ++KK+F + KV L RIS+GPF+LG L G RE++ + Sbjct: 180 ITI--TEGKFHQVKKMFLAYGVKVTYLKRISFGPFELGDLPVGEYRELTAE 228 >gi|253584230|ref|ZP_04861428.1| pseudouridylate synthase [Fusobacterium varium ATCC 27725] gi|251834802|gb|EES63365.1| pseudouridylate synthase [Fusobacterium varium ATCC 27725] Length = 226 Score = 99.0 bits (245), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 74/226 (32%), Positives = 117/226 (51%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K + G+ SRREV+ ++ + VNGI+ +N+ ++D I L + ++ Sbjct: 2 RLDKFLTECGLGSRREVKEILNTGEITVNGIIANNPQMNIKENSDEIFYQERKL-EYKKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++ +K G +T D + TV + LP I + VGRLD +TEGLLLLTNDG L Sbjct: 61 RYYILNKKAGYITAVEDSRDQ-TVMELLPDWVIKKDLAPVGRLDKDTEGLLLLTNDGALN 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y + +D+L L+ G+ I G Y M D + +A + + Sbjct: 120 HKLLSPKNHVEKTYYAELEKDISEDELVKLRNGVDIGG--YITMPAKAD--RIDSAKIHL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++EGK ++KK+ E KV L RIS+G +L L G+ +EV+ Sbjct: 176 TIKEGKFHQVKKMLEAVGNKVIFLKRISFGKLKLDNLELGAVKEVN 221 >gi|331092461|ref|ZP_08341285.1| hypothetical protein HMPREF9477_01928 [Lachnospiraceae bacterium 2_1_46FAA] gi|330401201|gb|EGG80793.1| hypothetical protein HMPREF9477_01928 [Lachnospiraceae bacterium 2_1_46FAA] Length = 243 Score = 99.0 bits (245), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 70/230 (30%), Positives = 119/230 (51%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ AG+ SRRE +R+I +V V+G E + V I+V + K Sbjct: 7 RLNKFLSEAGVCSRREADRLIEAGKVFVDGRRAE-TGMRVSPAQEIKVGKKVIHKGNEMV 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+V T + + + F N P+ R+ +GRLD ++EGLLL+TN+G + Sbjct: 66 LLAVNKPAGIVCTEEKKEKHNIIRFLNYPT---RITYIGRLDKDSEGLLLMTNNGDIINK 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y+V + V ++ + + +G+ I +V + N +T GL Sbjct: 123 MMRAGNRHEKEYKVTVNKPVTREFIEKMGQGVPILDTVTRPCKVKAIGKYKFNIVLTQGL 182 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 NR+I+++ E+F +KV RL R+ QLG+L G REV+ +RE Sbjct: 183 ----NRQIRRMCEYFGYKVTRLERVRVMNIQLGSLKPGEYREVTDDEIRE 228 >gi|317181142|dbj|BAJ58928.1| hypothetical protein HPF32_1346 [Helicobacter pylori F32] Length = 257 Score = 99.0 bits (245), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 66/236 (27%), Positives = 120/236 (50%), Gaps = 19/236 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ + VGRLD +EG+LLL++ + Sbjct: 61 FSVLVYHKPKGELVSKADPLKRCVIYESLEKKYTHFVPVGRLDFASEGVLLLSDSKAVVS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ G V ++ N +++G+ ++ G Q T Sbjct: 121 ALMHANLE--KEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R Sbjct: 179 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLKRVRYGFVNLNALPVGKMR 234 >gi|260885631|ref|ZP_05897074.1| ribosomal large subunit pseudouridine synthase B [Prevotella tannerae ATCC 51259] gi|260851764|gb|EEX71633.1| ribosomal large subunit pseudouridine synthase B [Prevotella tannerae ATCC 51259] Length = 230 Score = 99.0 bits (245), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 71/222 (31%), Positives = 109/222 (49%), Gaps = 7/222 (3%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 +A AGI SRR+ ++ I + VNG ++ V+ +D I P+R E+ L + Sbjct: 1 MANAGICSRRDADKYIQAGVITVNGKVVTELGTKVLRSDDILFHESPVR-LEKKVYVLLN 59 Query: 80 KPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS 138 KP G +TT DP R TV + + + R+ VGRLD NT G+LLLTNDG LA L P Sbjct: 60 KPKGCITTSEDPQERKTVMNLVKGACQERIYPVGRLDRNTTGVLLLTNDGELAAKLTHPQ 119 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVGLREG 196 ++Y V V L + GI + I D+Q +T K + + + G Sbjct: 120 FMKKKIYHVYLDKNVSGVDLQKIADGITLDDGEIKADDIQYASETDK---KQIGIEIHSG 176 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 KNR ++++FE + V +L R+ + L G R +++ Sbjct: 177 KNRIVRRIFESLGYHVVKLDRVYFAGLTKKHLRRGDWRYLTQ 218 >gi|118444164|ref|YP_878165.1| ribosomal large subunit pseudouridine synthase B [Clostridium novyi NT] gi|118134620|gb|ABK61664.1| ribosomal large subunit pseudouridine synthase B [Clostridium novyi NT] Length = 236 Score = 99.0 bits (245), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 67/216 (31%), Positives = 105/216 (48%), Gaps = 2/216 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I RVKVNG ++ V S D + VD + E+ Sbjct: 3 ERLQKYMASCGVASRRKCEEIIISNRVKVNGTIVNELGFKVDPSKDKVYVDSKLIFLEEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G V+T D R T+ D L + R+ +GRLD NT GLLL+TNDG + Sbjct: 63 KVYIALNKPEGYVSTVKDERNRKTIMD-LVEVEERIFPIGRLDYNTSGLLLMTNDGDIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY G ++++ G+ I + + + V + Sbjct: 122 KIIHPRKEIDKVYIAIIKGVPSDEEIHKFCNGLDIGDYITSKANFEVIDKLEDKSKVRIT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + EGKNR+++++ + V L RIS G L L Sbjct: 182 IHEGKNRQVRRMCDKIGHPVIALKRISVGKISLNNL 217 >gi|315648476|ref|ZP_07901575.1| pseudouridine synthase [Paenibacillus vortex V453] gi|315276170|gb|EFU39516.1| pseudouridine synthase [Paenibacillus vortex V453] Length = 253 Score = 99.0 bits (245), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 79/241 (32%), Positives = 121/241 (50%), Gaps = 14/241 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKA 70 T QR+ KV++ G SR E+++M Q + VNG +++ +V TD IE +G ++ Sbjct: 7 TTQRLDKVLSNLGFGSRAELKKMAKQGSIVVNGTVMKDPGKHVDPYTDIIEFEGETIQYR 66 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDG 128 E + L HKP G+V+ D R TV D L + VGRLD +TEGLLLLTNDG Sbjct: 67 EYVYIML-HKPPGVVSATEDLRDR-TVLDLLDKDYLVFEPFPVGRLDKDTEGLLLLTNDG 124 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-- 186 LA L P + Y G+V ++ L G+ + Y M L Sbjct: 125 KLAHELLSPRKHIPKTYEAIVEGRVGEEDARLFAAGVTLDD-GYATMPAELVIHSHEERD 183 Query: 187 -----AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + +++ + EGK ++K++FE KV L R+S G +L +L G+ RE++++ Sbjct: 184 DGVILSRISLTIHEGKFHQVKRMFEAVGKKVVYLKRVSMGELRLDKSLEIGTYRELTEEE 243 Query: 241 L 241 L Sbjct: 244 L 244 >gi|282855434|ref|ZP_06264755.1| ribosomal large subunit pseudouridine synthase B [Pyramidobacter piscolens W5455] gi|282586730|gb|EFB91977.1| ribosomal large subunit pseudouridine synthase B [Pyramidobacter piscolens W5455] Length = 238 Score = 99.0 bits (245), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 73/233 (31%), Positives = 111/233 (47%), Gaps = 4/233 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ SRR+VE I RV G + +V + + VD V +R ER Sbjct: 2 RLNKYLALCGVGSRRKVEEFIFAGRVVCGGYQVTEPGYDVPDGEIVTVDDVEVR-PERKI 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP G + SD + + D LP + R+ VGRLD+ +EGLL+LTNDG ++ Sbjct: 61 YMVLHKPRGYICAVSDRN-YPVILDLLPREYDYYRLFPVGRLDLQSEGLLMLTNDGDFSQ 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V ++ ++ L+ G V +G + V ++ W+ Sbjct: 120 EMIHPRAGITKEYEVLLDRMPNEREMRQLRDGTVFEGKRLHPVGVDFLQREPEGRWLRFV 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L EG REI+ + E KV L R G +L L +G RE S LR + Sbjct: 180 LNEGVKREIRLIAEGAGLKVQVLFRRRIGRMELRHLKSGCAREYSADQLRRMI 232 >gi|297620540|ref|YP_003708677.1| RNA pseudouridylate synthase family protein [Waddlia chondrophila WSU 86-1044] gi|297375841|gb|ADI37671.1| RNA pseudouridylate synthase family protein [Waddlia chondrophila WSU 86-1044] Length = 232 Score = 99.0 bits (245), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 64/226 (28%), Positives = 115/226 (50%), Gaps = 4/226 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +A GIASRR+ E +I +V VNG ++ + + V ++ I V G + + E+ Sbjct: 4 KRIAKHLASCGIASRRKCEDLIFAGKVSVNGEVVRQPQLLVDGSEKITVSGKKVNRQEKK 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP+ + + + G V D + R+ +VGRLD T GLL++TNDG Sbjct: 64 VYFMLNKPLNTLCSPNGKKGSKLVTDLFEGVKERLFTVGRLDKETTGLLIVTNDGEFTNQ 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + PS+ + Y + ++ D L + G ++G+ + V +K A + V + Sbjct: 124 VIHPSSNIQKEYIAKTDCEISNDHLKAIAAGTSVEGVFVQPLSV----KKVRKATLKVVV 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 EGK RE++ + +V L R G LG+L G R ++++ Sbjct: 180 GEGKKREVRLLIAAAGLEVRALKRTRIGSLTLGSLPIGHWRSLTER 225 >gi|302874254|ref|YP_003842887.1| pseudouridine synthase [Clostridium cellulovorans 743B] gi|307689482|ref|ZP_07631928.1| pseudouridine synthase [Clostridium cellulovorans 743B] gi|302577111|gb|ADL51123.1| pseudouridine synthase [Clostridium cellulovorans 743B] Length = 241 Score = 99.0 bits (245), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 80/233 (34%), Positives = 123/233 (52%), Gaps = 13/233 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV+A G +R+EV+ ++ + V++NG+ + + V V + D I+V+G + + Sbjct: 2 ERLDKVLANLGYGTRKEVKVLVKKGAVEINGVQAKNSDVKVDTNEDIIKVNGETINYRKF 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + +KP G+V+ D + TV D L IF VGRLD +T GLLLLTNDG Sbjct: 62 IYLMM-NKPAGVVSATFD-NYDETVIDLLDPEEQIFEP-FPVGRLDKDTVGLLLLTNDGE 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSN 186 L L P +VY VD + +KGIV+ G +++ T+ GS Sbjct: 119 LNHKLISPKYHVDKVYYAEIDKPVDDKDVKCFEKGIVLDDGYKTMPGKLEILKATEHGSE 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +VT+ +EGK ++K++FE KV L RIS+G L L G RE+S+ Sbjct: 179 VYVTI--QEGKFHQVKRMFESLGKKVVFLKRISFGGIILDEDLEEGQYREISE 229 >gi|108804279|ref|YP_644216.1| ribosomal large subunit pseudouridine synthase B [Rubrobacter xylanophilus DSM 9941] gi|108765522|gb|ABG04404.1| ribosomal large subunit pseudouridine synthase B [Rubrobacter xylanophilus DSM 9941] Length = 236 Score = 99.0 bits (245), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 81/237 (34%), Positives = 121/237 (51%), Gaps = 11/237 (4%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ +AR+G A SRR+ E MI RV+VNG + S+D + +DG R+ E Sbjct: 5 RLQAFLARSGAAPSRRKAEEMIRAGRVRVNGRVASLGERVDPSSDRVSLDG---RRVEPP 61 Query: 74 RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + Y HKP G +TT D GR TV +P I ++ VGRLD +T GLLLLTNDG L Sbjct: 62 SGYAYYALHKPRGYLTTMRDDFGRRTVASLMPRIPG-LVPVGRLDRDTSGLLLLTNDGRL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV- 189 A + PS++ + Y + G Q+ L L G ++ +++ ++G A Sbjct: 121 AHRIAHPSSRVEKEYELVVRGDPPQEALRRLAAGPTLEDGPMLPPRLS-HLRRGPRATTF 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + + EG+ R I++ ++ L R+ GP LG L G R +S++ L E LG Sbjct: 180 HLTIHEGRKRIIRRACAATGLELLSLRRVRVGPVLLGDLAPGRYRPLSEEEL-EGLG 235 >gi|255530412|ref|YP_003090784.1| RNA-binding S4 domain-containing protein [Pedobacter heparinus DSM 2366] gi|255343396|gb|ACU02722.1| RNA-binding S4 domain protein [Pedobacter heparinus DSM 2366] Length = 472 Score = 99.0 bits (245), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 72/210 (34%), Positives = 109/210 (51%), Gaps = 6/210 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+++ I+ +GI SRR+ + +I V VNG ++ + D + +G L K E+ Sbjct: 238 RLNRYISNSGICSRRKADELIEAGVVSVNGEVVSELGHKIDPVKDQVRYNGE-LLKREKK 296 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP +TT DP R TV + R+ VGRLD NT GLLL+TNDG LA Sbjct: 297 IYVLLNKPKDYITTTDDPQERRTVMQLVEKASRERIYPVGRLDRNTTGLLLMTNDGDLAD 356 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P ++Y V + Q LN ++ G+ ++ GI D V+ T GS V + Sbjct: 357 KLSHPKNGITKIYHVELSRSLSQGDLNKIQFGLELEDGIIKPD-SVSYVTG-GSKREVGI 414 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + GKNR ++++FE + V +L R+ YG Sbjct: 415 QIHSGKNRIVRRIFEHLGYDVVKLDRVVYG 444 >gi|291563383|emb|CBL42199.1| ribosomal small subunit pseudouridine synthase A [butyrate-producing bacterium SS3/4] Length = 265 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 72/237 (30%), Positives = 121/237 (51%), Gaps = 14/237 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G +R E++ MI + R+ VNG+++++ + D I +D P+ E Sbjct: 23 RLDKYLADMGKGTRTELKEMIRRGRITVNGVIVKKPETKIKKGEDTICLDNAPVEYVE-L 81 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G+++ D R TV D + + + VGRLDI+TEGLLL+TNDG LA Sbjct: 82 EYYLLNKPQGVISATEDRR-RETVVDLIDEKSRKDLFPVGRLDIDTEGLLLITNDGALAH 140 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTL--------DTQK 183 L P +VY R G V + + ++G+ + G+ ++ + +T Sbjct: 141 RLLAPGHHVDKVYEARCKGFVPDEAVQRFREGMTLADGLSCMPSELEILERKPEDPETGT 200 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVSKK 239 + + V + L EGK ++K++ E V L R+S GP +L L G R+++ K Sbjct: 201 AAESLVRLTLHEGKFHQVKRMMEETGCPVLHLKRLSMGPLKLDDALKTGEYRKLTDK 257 >gi|32266216|ref|NP_860248.1| hypothetical protein HH0717 [Helicobacter hepaticus ATCC 51449] gi|32262266|gb|AAP77314.1| conserved hypothetical protein [Helicobacter hepaticus ATCC 51449] Length = 258 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 67/245 (27%), Positives = 123/245 (50%), Gaps = 21/245 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM--STDHIEVDGVPLRKAER 72 R+++ IA SRRE +++I+Q RV + +A ++ + + + +DG + E Sbjct: 2 RLNQYIAHHTKYSRREADKLISQGRVNIEKT---KATLHSLLGANQRVFIDGKKIIPKEH 58 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +YHKP G + + D GR ++++L + F + VGRLD +EGLL+LT+ +AR Sbjct: 59 FTCIVYHKPKGEIVSKRDERGRRVIYESLEAKFKHFVYVGRLDFASEGLLILTDSTPVAR 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI---CYGDMQVTLDTQKGSNAW- 188 L + LR Y ++ +G + Q+ ++ ++ G++ + + +T N++ Sbjct: 119 A--LMESDLLRTYILKINGFITQEIISAMENGLISEDTRVGAHSKSHITSMEFAPFNSYK 176 Query: 189 ----------VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + V + +GKNRE+++ F F +V L RISYG L L G R + Sbjct: 177 ILKNDRRYSKIKVSIAQGKNRELRRFFGAFGREVLDLRRISYGFVHLNALPCGKKRFFTH 236 Query: 239 KILRE 243 + R+ Sbjct: 237 EEYRD 241 >gi|257461220|ref|ZP_05626318.1| S4 domain protein [Campylobacter gracilis RM3268] gi|257441594|gb|EEV16739.1| S4 domain protein [Campylobacter gracilis RM3268] Length = 256 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 114/234 (48%), Gaps = 17/234 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +I Q +V +NG ++ + V + I + ++ Sbjct: 5 RLNKFISHNTAYSRREADELIKQGKVSINGRVVS-DFIEVSGEEKIRIGSRLIKPKTEFT 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +Y+K G + T D GR T++D+LP FSR +SVGRLD +EGLLLLT+ +A Sbjct: 64 MIVYNKRKGELVTKKDDRGRRTIYDSLPEGFSRFVSVGRLDFASEGLLLLTDAPAIATA- 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD--------------MQVTLD 180 L ++ R Y ++ G+V ++ + +++G G + + Sbjct: 123 -LMNSDIEREYYLKVKGEVKEEVVTAIREGFFAADASKGAHAKSKIKSMEFKPFLGYRIM 181 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 G + + EG+NRE+++ F +F+ V L R ++G LG L G R Sbjct: 182 PSSGGYTKIKAIINEGQNRELRRFFGYFDLDVVELKRTAFGRMTLGMLKPGKWR 235 >gi|253573324|ref|ZP_04850667.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14] gi|251846852|gb|EES74857.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14] Length = 257 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 79/245 (32%), Positives = 124/245 (50%), Gaps = 24/245 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 QR+ K++ G +R E+++ + Q RV +NG++++ + + D +E+DG + E Sbjct: 8 QRLDKILGHLGYGTRSEIKKYVKQGRVTINGVVVKDSGIQCNPDVDVVELDGEQIFYREF 67 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---VGRLDINTEGLLLLTNDGG 129 L L HKP G+++ D TV D LP F +V S VGRLD +TEGLLLLTNDG Sbjct: 68 VYLML-HKPPGVISATEDMR-EKTVIDLLPVDF-QVFSPFPVGRLDKDTEGLLLLTNDGQ 124 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---------- 179 LA L P + Y G V ++ ++G+ + D VTL Sbjct: 125 LAHDLLSPRKHVPKTYEAVVLGHVGDEEAARFREGVELD-----DGYVTLPAELKVLEHG 179 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 D + V + + EGK ++K++FE +V L R+S GP L +L G+ RE++ Sbjct: 180 IDADGTRISRVQLTISEGKFHQVKRMFEAVGSRVIYLKRLSMGPLVLDESLPLGAFRELT 239 Query: 238 KKILR 242 + L+ Sbjct: 240 ESELQ 244 >gi|308068498|ref|YP_003870103.1| RNA pseudouridine synthase (RNA-uridine isomerase) [Paenibacillus polymyxa E681] gi|305857777|gb|ADM69565.1| Hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Paenibacillus polymyxa E681] Length = 260 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 79/245 (32%), Positives = 120/245 (48%), Gaps = 24/245 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 QR+ KV+ G SR +++R + Q + VNG + + + + V D IEV+G + E Sbjct: 9 QRLDKVLTHMGYGSRSDIKRQMKQGMITVNGKITKDSGLQVHPYQDQIEVNGERVVFREY 68 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 + L HKP G+++ D R TV D L + VGRLD +TEGLLLLTNDG L Sbjct: 69 IYIML-HKPPGVISATEDSRER-TVLDLLSAEERHFEPFPVGRLDKDTEGLLLLTNDGKL 126 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-------- 182 A L P + Y G V ++ ++ G+ + D VTL Q Sbjct: 127 AHELLSPRRHVPKTYEATVSGHVTEEDIHQFTAGVELD-----DGYVTLPAQLTILRHEH 181 Query: 183 -----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREV 236 G +++++ + EGK ++K++FE KV L R + GP +L L GS RE+ Sbjct: 182 PYQADGGVISYISLVIHEGKFHQVKRMFEAVGKKVTYLKRTAMGPLKLDEQLPMGSYREL 241 Query: 237 SKKIL 241 + + L Sbjct: 242 TNEEL 246 >gi|332884211|gb|EGK04479.1| hypothetical protein HMPREF9456_00806 [Dysgonomonas mossii DSM 22836] Length = 289 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 68/244 (27%), Positives = 134/244 (54%), Gaps = 14/244 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K I+ +G SRRE +++I Q V +NG +RA++ V++ ++V G + + Sbjct: 2 RINKYISDSGYCSRREADKLIEQGSVTING---KRASIGSQVLAGQEVKVYGETVTCNTQ 58 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 Y+KP+G+V+T +D D + + D + R+ +GRLD +++GL++LTN+G + Sbjct: 59 PVFIAYNKPVGIVST-TDLDEPNNIIDAVGH-DERIFPIGRLDKDSQGLIILTNEGDMVN 116 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V +++D + ++ G+ I G+ +V + G++++ V Sbjct: 117 KMLRADNNHEKEYHVTVDKLINEDFVKKMQGGVPILGVVTRKCEV---VKTGTHSFNIV- 172 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQLGPHL 249 LR+G NR+I+++ E+ + V RL RI +LG + G R ++K +ILR++ + Sbjct: 173 LRQGLNRQIRRMCEYLGYNVVRLERIRIMHIKLGNIKVGQWRNITKEELEILRKKTASSV 232 Query: 250 LEEA 253 E+ Sbjct: 233 KTES 236 >gi|51244672|ref|YP_064556.1| ribosomal large subunit pseudouridine synthase B [Desulfotalea psychrophila LSv54] gi|50875709|emb|CAG35549.1| related to ribosomal large subunit pseudouridine synthase B [Desulfotalea psychrophila LSv54] Length = 229 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 58/126 (46%), Positives = 77/126 (61%), Gaps = 7/126 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNG----ILLERAAVNVMSTDHIEVDGVP 66 +P R+ K +A +GI SRR+ E++I RV +NG IL + ++ D I VDG Sbjct: 97 MSPVRLQKFLAASGICSRRKAEQLILDGRVTLNGETVLILGTKITPDI---DKITVDGKL 153 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +++ E+ +L +KP G VTT SDP GR V D L I RV VGRLD +TEG LLLTN Sbjct: 154 VKEEEQKVYYLLNKPKGYVTTLSDPQGRPVVTDLLHGINERVFPVGRLDFDTEGALLLTN 213 Query: 127 DGGLAR 132 DG LA+ Sbjct: 214 DGDLAQ 219 >gi|257452524|ref|ZP_05617823.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 3_1_5R] gi|317059065|ref|ZP_07923550.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 3_1_5R] gi|313684741|gb|EFS21576.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 3_1_5R] Length = 238 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 70/221 (31%), Positives = 119/221 (53%), Gaps = 3/221 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RKAERT 73 R++K +A G+ASRR+++ I + ++ VNGIL + V + D I V+G + K E+ Sbjct: 7 RINKFLASKGVASRRQIDLWIEEGKILVNGILAT-SGQKVSAEDKILVNGKMISEKEEKK 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +K +++ D GR TV D +P+ +R+ VGRLD T GL+LLTNDG L Sbjct: 66 VYYILYKEEEVLSAVKDERGRKTVVDCIPTK-ARIFPVGRLDYRTSGLILLTNDGELFNR 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y V G + +++L L++G+ ++ + V + N + + + Sbjct: 125 VMHPRAEIFKTYEVLAKGHLTREQLKTLEEGVELEEGKTLEALVAKVKYEKGNTFFEISI 184 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 REG+NR+I+++ E +V RL R G L L G R Sbjct: 185 REGRNRQIRRMVEAVGSRVYRLRRTKIGRLSLEGLKLGQYR 225 >gi|317013226|gb|ADU83834.1| ribosomal large subunit pseudouridinesynthase B [Helicobacter pylori Lithuania75] Length = 257 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 67/241 (27%), Positives = 123/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ + VGRLD +EG+LLL++ + Sbjct: 61 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFVPVGRLDFASEGVLLLSDSKAV-- 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 V L + Y V+ G V ++ N +++G+ ++ G Q T Sbjct: 119 VSALMHADLEKEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 179 IIKNHAKYSKIRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 238 Query: 239 K 239 + Sbjct: 239 Q 239 >gi|312892173|ref|ZP_07751670.1| RNA-binding S4 domain protein [Mucilaginibacter paludis DSM 18603] gi|311295303|gb|EFQ72475.1| RNA-binding S4 domain protein [Mucilaginibacter paludis DSM 18603] Length = 517 Score = 98.2 bits (243), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 69/208 (33%), Positives = 104/208 (50%), Gaps = 4/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+++ I+ AGI SRR+ + +I V VNG ++ V D I +G L++ E+ Sbjct: 283 RLNRYISNAGICSRRKADELIVAGVVSVNGQVISELGFKVDPYKDEIRYNGETLKR-EKM 341 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP +TT DP R TV + R+ +GRLD NT GLLL+TNDG LA Sbjct: 342 VYVLLNKPKDYITTTEDPQERRTVMHLVDKASKERIYPIGRLDRNTTGLLLMTNDGDLAD 401 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + ++Y V + Q LN + GI ++ V+ Q S V + Sbjct: 402 KLSHPKSNISKLYHVELDKSLSQGDLNKIAYGIELEDGLIKPDSVSY-VQGASKREVGIQ 460 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISY 220 + GKNR ++++FE + V +L R Y Sbjct: 461 IHSGKNRVVRRIFESLGYDVVKLDRAIY 488 >gi|120404251|ref|YP_954080.1| pseudouridine synthase [Mycobacterium vanbaalenii PYR-1] gi|119957069|gb|ABM14074.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium vanbaalenii PYR-1] Length = 247 Score = 98.2 bits (243), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 79/234 (33%), Positives = 118/234 (50%), Gaps = 6/234 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+++AGIASRR E+MI RV+V+G ++ V + I VDG + + Sbjct: 8 RLQKVLSQAGIASRRVAEKMIRDGRVEVDGRIVTELGTRVDPAASVIRVDGARITVDDTL 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 +KP G+ +T SD GR V D + ++ VGRLD +TEGLLLLTNDG L Sbjct: 68 VYLAINKPRGMHSTMSDDRGRPCVGDLVEHRVRGNKKLFHVGRLDADTEGLLLLTNDGEL 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G V + L++G+ ++ G D +DT G V Sbjct: 128 AHRLMHPSFEVPKSYVATVLGSVPKGLGRKLREGVELEDGPVQVDDFAVVDTTPG-RTLV 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V L EG+ ++++ + V L+R G LG GS R +++K + E Sbjct: 187 RVTLHEGRKHIVRRLLAEVGFPVQELVRTDIGTVSLGDQRPGSIRVLTQKEIGE 240 >gi|159897316|ref|YP_001543563.1| pseudouridine synthase [Herpetosiphon aurantiacus ATCC 23779] gi|159890355|gb|ABX03435.1| pseudouridine synthase [Herpetosiphon aurantiacus ATCC 23779] Length = 728 Score = 98.2 bits (243), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 80/225 (35%), Positives = 117/225 (52%), Gaps = 2/225 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +ARAG+ SRR E ++ RV VNG + + D I VDG + Sbjct: 2 ERLHKFLARAGVDSRRACEELMLAGRVSVNGRVQRELGTQIDPDKDDIRVDGEQITPPTE 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L HKP ++TT DP+GR TV D L +R+ VGRLD ++EGLLLLT+DG L Sbjct: 62 LHYVLLHKPSSVMTTLHDPEGRQTVAD-LVKSHNRLFPVGRLDYDSEGLLLLTDDGDLTF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y+ + ++L + G+ + + L + WV V Sbjct: 121 RLTHPSFEVEKEYQALLNQTPSVEQLREWRNGVELDDGKTAPAWIELLNETADGTWVRVV 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+I++V E +V RLIR+ GP LG L AG R ++ Sbjct: 181 IHEGRNRQIRRVAEALGLEVRRLIRLREGPLTLGELQAGQWRALT 225 >gi|302528005|ref|ZP_07280347.1| pseudouridylate synthase ribosomal large subunit [Streptomyces sp. AA4] gi|302436900|gb|EFL08716.1| pseudouridylate synthase ribosomal large subunit [Streptomyces sp. AA4] Length = 250 Score = 98.2 bits (243), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 76/229 (33%), Positives = 116/229 (50%), Gaps = 6/229 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ KV+++AG+ASRR E +IA RV+V+G ++ V + I VDG + + Sbjct: 11 RLQKVLSQAGVASRRAAEDLIAAGRVEVDGEVVTELGRRVHPDEAVIHVDGTRVNLRDDL 70 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGGL 130 ++KP G+ +T SD GR V D L + V+ VGRLD NTEGLLLLTNDG L Sbjct: 71 VYLAFNKPKGVHSTMSDDRGRPCVGDYLRGRWEETPGVVHVGRLDENTEGLLLLTNDGDL 130 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L PS + L+ Y G V + L+ G + GI D D G + + Sbjct: 131 GHRLMHPSYRVLKTYFAEVEGLVPRGLGKELRAGWELPDGIVKVDQFRVKDMHSG-RSMI 189 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + EG+ ++++ V +L+R + G QLG G+ R +++ Sbjct: 190 ELVIHEGRKHIVRRLMAATGHPVRKLVRTAVGDVQLGNQRQGTIRRLNR 238 >gi|258512547|ref|YP_003185981.1| pseudouridine synthase [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] gi|257479273|gb|ACV59592.1| pseudouridine synthase [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] Length = 245 Score = 98.2 bits (243), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 75/220 (34%), Positives = 111/220 (50%), Gaps = 9/220 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 RV K + AG +R E +++ RV++NG ++ AA + + D +EVDG L E Sbjct: 5 RVDKWLTTAGYGTRSEAKKLCRAGRVRLNGETVKDAAKHADPAVDVLEVDG-ELVPYEPL 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G V++ DP R V L I+ V VGRLD + EGLLLLTNDG L Sbjct: 64 VYFMMYKPPGYVSSTEDP--RDPVVIELLDEEDIWRDVFPVGRLDKDAEGLLLLTNDGPL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSNAWV 189 A L P + Y VR G + + L +G+V+ Y M L+ + G+ + Sbjct: 122 AHRLLAPKRHVPKRYFVRVRGALGEGDARALAEGVVLDD-GYKAMPAELEILRSGAESEA 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + EGK ++K++F +V L RIS GP L L Sbjct: 181 IIQVYEGKYHQVKRMFASLGKRVTFLKRISMGPLSLDPAL 220 >gi|257870927|ref|ZP_05650580.1| pseudouridine synthase [Enterococcus gallinarum EG2] gi|257805091|gb|EEV33913.1| pseudouridine synthase [Enterococcus gallinarum EG2] Length = 237 Score = 98.2 bits (243), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 77/229 (33%), Positives = 126/229 (55%), Gaps = 9/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ K+I SR+E++R+ Q +V V+ + + NV S H I+V GV L+ R Sbjct: 2 RIDKLIEERLATSRKEMKRLFQQGKVLVDQQIERNPSRNVDSRLHEIKVAGVLLQT--RD 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+VT + D +TV D L + + +VGRLD +TEGL+LLT +G L Sbjct: 60 VYYLLNKPAGVVTANIDHQ-HATVIDLLQPEDRQATLYAVGRLDRDTEGLVLLTTNGQLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWV 189 L P+ + + Y V +G V + + +GIV G +C ++T++ G ++V Sbjct: 119 YELLHPNKKVPKRYDVIVNGPVTAEDVAAFAQGIVFHGGVVCQ-PAKLTIEMTSGRRSFV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + EGK ++KK+F KV L R++ GP +LG LL+G R +++ Sbjct: 178 HLEIAEGKFHQVKKMFLARGKKVIALKRVAIGPLELGDLLSGEYRNLTQ 226 >gi|77359062|ref|YP_338637.1| ribosomal RNA pseudouridylate synthase [Pseudoalteromonas haloplanktis TAC125] gi|76873973|emb|CAI85194.1| putative ribosomal RNA pseudouridylate synthase [Pseudoalteromonas haloplanktis TAC125] Length = 229 Score = 98.2 bits (243), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 69/222 (31%), Positives = 115/222 (51%), Gaps = 17/222 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA---VNVMSTDHIEVDGVPLR 68 T R++K IA AG+ SR++ R+I + V VN R A +V D I V+G ++ Sbjct: 3 TKIRLAKYIAHAGVCSRKQASRLIDEGAVIVNN----RPANHIDHVDEQDQITVNGQIIK 58 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + YHKP+G + D + ++++ +LP+I +RV +GRLD ++ GLL+LTNDG Sbjct: 59 GTAELIYFAYHKPVG-IDCKLDQNDPASLYHHLPTI-TRVYPIGRLDKDSRGLLILTNDG 116 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSN 186 L L P + Y V + +D + + G+ + D Q+TL +K ++ Sbjct: 117 ELCNQLIHPDFHQPKRYLVSVNKSIDAEFCTKMAAGVPV------DKQITLPCSVEKIAD 170 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 ++ L++G NR+I+K+ + +KV L R L TL Sbjct: 171 KQFSIILKQGLNRQIRKMAHYCGYKVIDLYREQISELTLQTL 212 >gi|269124110|ref|YP_003306687.1| pseudouridine synthase [Streptobacillus moniliformis DSM 12112] gi|268315436|gb|ACZ01810.1| pseudouridine synthase [Streptobacillus moniliformis DSM 12112] Length = 228 Score = 98.2 bits (243), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 65/226 (28%), Positives = 114/226 (50%), Gaps = 12/226 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R++K IA +G SRR+ + +I RV +N + AV V D + +DG + + Sbjct: 2 RINKYIAESGFCSRRKADELIIDGRVTIN----KNIAVIGSEVEDGDIVRIDGEKVTVKK 57 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP ++ ++ D GR+ + S R+ + GRLD TEGL++++NDG + Sbjct: 58 EYEYYILNKPKRVLCSNEDRQGRTLAVSLIKS-KKRLFTYGRLDYMTEGLIIISNDGDIY 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y + + D + LK G+VI G+ +V T++ V V Sbjct: 117 NNVMHPKKKLYKSYIAKIDSDITDDHIEALKYGVVIDGVRTLPAKVKTITKR----EVRV 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+I+K+FE + V L R+ G L L G R+++ Sbjct: 173 AIHEGRNRQIRKMFEVLGYTVKTLRRVKVGELSLKGLEVGKYRKMT 218 >gi|45657519|ref|YP_001605.1| pseudouridylate synthase [Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130] gi|45600758|gb|AAS70242.1| pseudouridylate synthase [Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130] Length = 246 Score = 98.2 bits (243), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 70/221 (31%), Positives = 114/221 (51%), Gaps = 19/221 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV--------P 66 R+++ +A G+ SRR+ E +I + +++NG + N+ + E+D V P Sbjct: 16 RLNRFLADCGLGSRRKTEELIQKGHIEING----KRVTNLGTRIDPEIDVVSYLGDVVKP 71 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + E ++ +++KPIG + +H+D T+F LPS + GRLD+N+ GLL+LTN Sbjct: 72 I--VESKKILIFNKPIGYLCSHADRFHEKTIFSLLPSDYKNFKIAGRLDLNSRGLLILTN 129 Query: 127 DGGLARVLELPSTQWLRVYRVRF-HGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLDTQKG 184 DG LA+ + PS + Y V H ++ +KGI+ G I + M + G Sbjct: 130 DGALAQKITHPSNGSEKEYLVTLKHDPGEKLIQAAFQKGILDAGEILHAKM---VKLVPG 186 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EGK R+I+++F +F V L RI GP +L Sbjct: 187 KKCVYRVILEEGKKRQIRRMFRWFGVSVVDLQRIRIGPLKL 227 >gi|24214991|ref|NP_712472.1| pseudouridylate synthase [Leptospira interrogans serovar Lai str. 56601] gi|24196034|gb|AAN49490.1| pseudouridylate synthase [Leptospira interrogans serovar Lai str. 56601] Length = 246 Score = 98.2 bits (243), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 70/221 (31%), Positives = 114/221 (51%), Gaps = 19/221 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV--------P 66 R+++ +A G+ SRR+ E +I + +++NG + N+ + E+D V P Sbjct: 16 RLNRFLADCGLGSRRKTEELIQKGHIEING----KRVTNLGTRIDPEIDVVSYLGDVVKP 71 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + E ++ +++KPIG + +H+D T+F LPS + GRLD+N+ GLL+LTN Sbjct: 72 I--VESKKILIFNKPIGYLCSHADRFHEKTIFSLLPSDYKNFKIAGRLDLNSRGLLILTN 129 Query: 127 DGGLARVLELPSTQWLRVYRVRF-HGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLDTQKG 184 DG LA+ + PS + Y V H ++ +KGI+ G I + M + G Sbjct: 130 DGALAQKITHPSNGSEKEYLVTLKHDPGEKLIQAAFQKGILDAGEILHAKM---VKLVPG 186 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EGK R+I+++F +F V L RI GP +L Sbjct: 187 KKCVYRVILEEGKKRQIRRMFRWFGVSVVDLQRIRIGPLKL 227 >gi|114046458|ref|YP_737008.1| pseudouridine synthase, Rsu [Shewanella sp. MR-7] gi|113887900|gb|ABI41951.1| Pseudouridine synthase, Rsu [Shewanella sp. MR-7] Length = 236 Score = 98.2 bits (243), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 71/228 (31%), Positives = 118/228 (51%), Gaps = 11/228 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERA-AVNVMSTDH----IEVDGVPLRK 69 R++K +A+ GI+SRRE R+I R+ +NG + + AV+V + H + +D P+ Sbjct: 2 RLAKYLAQCGISSRREACRLIEAGRISLNGKIAKHTDAVHVDADGHCLDSLCLDEKPISG 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 AE W+++K +G D D +S++ LP+ R+ VGRLD ++ GLLLLTNDG Sbjct: 62 AEALSYWIFNKAVGTDCRLLDAD-KSSLLHLLPTT-PRLYPVGRLDKDSRGLLLLTNDGE 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + Y V+ + + + G+ + + QVT + S+ Sbjct: 120 LTHKLMHPSFAHSKTYHVQLDRPFNDAFIEQMASGVQYKEVRTLPCQVT----RLSDVSF 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ +KV L R++ LG+L G R +S Sbjct: 176 EIVLTQGLNRQIRRMSNALGYKVVDLQRVALMTLTLGSLAEGEMRPLS 223 >gi|261840134|gb|ACX99899.1| pseudouridylate synthase [Helicobacter pylori 52] Length = 257 Score = 98.2 bits (243), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 66/241 (27%), Positives = 124/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ + VGRLD +EG+LLL++ + Sbjct: 61 FSVLVYHKPKGELVSKNDPLKRHVIYESLEKKYAHFVPVGRLDFASEGVLLLSDSKAVVS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ G V ++ N +++G+ ++ G Q T Sbjct: 121 ALMHANLE--KEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 179 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 238 Query: 239 K 239 + Sbjct: 239 Q 239 >gi|225574967|ref|ZP_03783577.1| hypothetical protein RUMHYD_03046 [Blautia hydrogenotrophica DSM 10507] gi|225037814|gb|EEG48060.1| hypothetical protein RUMHYD_03046 [Blautia hydrogenotrophica DSM 10507] Length = 246 Score = 98.2 bits (243), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 75/237 (31%), Positives = 120/237 (50%), Gaps = 19/237 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV-PLRKAERT 73 R+ K +A AG +R EV++ I++ +V+VNG + A + + +EV + + +R Sbjct: 5 RLDKYLADAGAGTRSEVKKYISKAQVQVNGKTVLNPAEKI-EPEEVEVCCLGQVVHVDRY 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L HKP G V+ D R TV + +PS + VGRLD +TEGLLL+TNDG LA Sbjct: 64 EYYLLHKPAGCVSATEDVRER-TVMEFVPSRRKDLFPVGRLDKDTEGLLLITNDGELAHR 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------LDTQKGSN 186 L P + Y + G++ Q+ ++G+ I G+ T L + G Sbjct: 123 LLAPRRHVPKQYFAQIKGKMTQEDAQKFRQGVEI-----GEKNPTLPAKLEILSVENGEE 177 Query: 187 AWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 W++ + + EGK +IK++ + +V L RIS GP L L G R +++K Sbjct: 178 GWISCINLTIEEGKFHQIKRMVQAVGKEVIYLKRISMGPLYLDENLERGQCRPLTEK 234 >gi|224436886|ref|ZP_03657875.1| hypothetical protein HcinC1_02926 [Helicobacter cinaedi CCUG 18818] gi|313143364|ref|ZP_07805557.1| conserved hypothetical protein [Helicobacter cinaedi CCUG 18818] gi|313128395|gb|EFR46012.1| conserved hypothetical protein [Helicobacter cinaedi CCUG 18818] Length = 269 Score = 98.2 bits (243), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 69/245 (28%), Positives = 124/245 (50%), Gaps = 29/245 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST----DHIEVDGVPLRKA 70 R+++ IA SRRE +++I RV + E++ ++ S + +DG + Sbjct: 2 RLNQYIAHHTKYSRREADKLIESGRVNI-----EKSKASLQSVLREGMSVFIDGKRIVPK 56 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E+ +YHK G + + SD GR ++D+L S F + VGRLD +EGLL+LT+ + Sbjct: 57 EQFTCIVYHKQKGELVSKSDERGRKVIYDSLESRFKHFMYVGRLDFASEGLLILTDSTPV 116 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV----------------IQGICYGD 174 A+ L + RVY V+ +G++ ++ + ++KG+V ++ + Sbjct: 117 AKA--LMESHLERVYLVKINGEITKEIIEAMEKGLVSEDARAGGHIKSNIVAMEFAPFAH 174 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 ++ + ++ S + V + EGKNRE+++ F F +V L RI+YG L L G R Sbjct: 175 YEILKNDKRHSK--LKVSITEGKNRELRRFFGVFGREVLDLRRIAYGFVNLNALPCGKKR 232 Query: 235 EVSKK 239 +K+ Sbjct: 233 YFTKE 237 >gi|210135626|ref|YP_002302065.1| ribosomal large subunit pseudouridine synthase B [Helicobacter pylori P12] gi|210133594|gb|ACJ08585.1| ribosomal large subunit pseudouridine synthase B [Helicobacter pylori P12] Length = 262 Score = 98.2 bits (243), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 65/241 (26%), Positives = 124/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAQLASV-VKENDKVFLDKRLIKPLKNKK 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ + VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFVPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y ++ G V ++ N +++G+ ++ G Q T Sbjct: 126 ALMHANLE--KEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 K 239 + Sbjct: 244 Q 244 >gi|326384757|ref|ZP_08206434.1| pseudouridine synthase [Gordonia neofelifaecis NRRL B-59395] gi|326196565|gb|EGD53762.1| pseudouridine synthase [Gordonia neofelifaecis NRRL B-59395] Length = 362 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 79/230 (34%), Positives = 120/230 (52%), Gaps = 6/230 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A AG+ASRR E +IA RV+V+G ++ + + T I+VDG + E Sbjct: 123 RLQKVLAAAGVASRRGAEELIAAGRVEVDGEVVVEQGLRIDPDTAIIKVDGARVVIDESK 182 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G +T SD GR + D + R+ VGRLD +TEGLLLLTNDG L Sbjct: 183 QYLALNKPKGWHSTMSDDQGRPCIGDIIAERVMAGQRLFHVGRLDADTEGLLLLTNDGEL 242 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G+V++ L++G+ ++ G D L+ +G + V Sbjct: 243 AHRLMHPSYEVPKTYLATVRGEVNRGLGRELRQGVELEDGPVAVDSFALLEVNQG-KSLV 301 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + L EG+ R ++++ + V L+R GP LG GS R + K Sbjct: 302 RLTLHEGRKRVVRRLLAEVGFPVVGLVRTDIGPVTLGKQRPGSLRVLDNK 351 >gi|297543604|ref|YP_003675906.1| RNA-binding S4 domain-containing protein [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|296841379|gb|ADH59895.1| RNA-binding S4 domain protein [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 240 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 73/218 (33%), Positives = 114/218 (52%), Gaps = 11/218 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K+++ GI +R+EV++ I + V VNG ++ A + V D I DG + E Sbjct: 4 MRIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIVDTEFDEILFDGEKINYKEF 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+++ DP + TV D LP VGRLD +TEGLLL+TNDG L Sbjct: 64 IYIMM-NKPKGVISATYDPIEK-TVIDLLPQELKARNPFPVGRLDKDTEGLLLITNDGNL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNA 187 A L P ++ Y G V++ + K+GIV++ D+++ L ++ Sbjct: 122 AHKLLSPKKNVIKKYYAEILGFVNERDIKAFKEGIVLEDGYKTLPADLEILLSSEVSK-- 179 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V V +REGK +IK++FE KV L R++ G L Sbjct: 180 -VYVYIREGKYHQIKRMFESVGKKVVYLKRLAMGSLTL 216 >gi|300787858|ref|YP_003768149.1| ribosomal large subunit pseudouridine synthase B [Amycolatopsis mediterranei U32] gi|299797372|gb|ADJ47747.1| ribosomal large subunit pseudouridine synthase B [Amycolatopsis mediterranei U32] Length = 250 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 79/229 (34%), Positives = 114/229 (49%), Gaps = 6/229 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+++AG+ASRR E +I RV+V+G ++ V I VDG + + Sbjct: 11 RLQKVLSQAGVASRRAAEDLIVAGRVEVDGEVVTELGRRVDPDAAIIHVDGTRVNLRDDL 70 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGGL 130 +KP G+ +T SD GR V D L + V+ VGRLD NTEGLLLLTNDG L Sbjct: 71 IYLALNKPKGVHSTMSDDRGRPCVGDYLRGRYEETPGVVHVGRLDENTEGLLLLTNDGDL 130 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L PS + L+ Y G V + L+ G + GI D D G + V Sbjct: 131 GHRLMHPSYRVLKTYLAEVDGLVPRGLGKELRNGWELPDGIVKVDQFRVKDMHSG-KSLV 189 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + EGK ++++ + V +L+R + G QLG GS R ++K Sbjct: 190 ELVIHEGKKHIVRRLLKDTGHPVLKLVRTAVGDVQLGNQRVGSIRRLTK 238 >gi|160901833|ref|YP_001567414.1| pseudouridine synthase [Petrotoga mobilis SJ95] gi|160359477|gb|ABX31091.1| pseudouridine synthase [Petrotoga mobilis SJ95] Length = 220 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 71/219 (32%), Positives = 114/219 (52%), Gaps = 15/219 (6%) Query: 40 VKVNGILLERAAVNVMSTDHIEVDGVPL------RKAERTRLWLYHKPIGLVTTHSDPDG 93 +KVNG L++ + + IE + +KAE +L +KP G++ T D G Sbjct: 1 MKVNGKLVKEPWYELKENNFIEFNNKKYGLSDLQKKAENKVYYLLNKPKGILCTFKDDFG 60 Query: 94 RSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 R T+ D + I RV VGRLD ++ GLLLLTNDG LA L P + +VY V G Sbjct: 61 RKTINDLIKGKIEERVFYVGRLDYDSSGLLLLTNDGDLANYLLRPENKVTKVYEVLVKGS 120 Query: 153 VDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + +L +L++GI ++ G +V + ++ + + + L EGK R+IK + + +K Sbjct: 121 PSKKELQMLEEGITLETGYKTMKSKVKILKKQKDLSLLQISLNEGKKRQIKLMIKALGYK 180 Query: 212 VNRLIRISYGPFQL------GTLLA-GSTREVSKKILRE 243 V L RI +GP+ + G + + GS EV ++L + Sbjct: 181 VIELKRIKFGPWSIKEVPKPGNIKSLGSMEEVKNRLLSD 219 >gi|226503651|ref|NP_001152020.1| LOC100285657 [Zea mays] gi|195651911|gb|ACG45423.1| ribosomal large subunit pseudouridine synthase B [Zea mays] Length = 406 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 73/230 (31%), Positives = 120/230 (52%), Gaps = 20/230 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAE 71 PQR++KV+A AG+ASRR E +I Q + VNG + V +S D I V+G + K Sbjct: 156 PQRLAKVLAAAGVASRRTSEELIFQGKXTVNGSVCTSPQTKVDISKDSIYVNGNRISKKL 215 Query: 72 RTRLWL-YHKPIGLVTTHSDPDGRSTV--FDN-----------LPSIFSRVISVGRLDIN 117 +L+ +KP G + + + + +S V F++ LP R+ +VGRLD+ Sbjct: 216 PPKLYFAVNKPKGYICSCGE-ESKSVVSLFNDYLKGWNKIQPGLPK--PRLFTVGRLDVA 272 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQ 176 T GL+++TNDG A+ L PS+ + Y V G V + L + +G I G+ C D+ Sbjct: 273 TAGLIIVTNDGEFAQKLAHPSSNVTKEYVVTIDGAVHKKHLIAISEGTKIDGVMCIPDLV 332 Query: 177 VTLDTQKGS-NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 L Q + + + + EG+N E++++ + +V L R+ G F+L Sbjct: 333 EPLAAQSDTRKTRLRIVVHEGRNHEVRELVQNAGLQVYALKRVRIGRFRL 382 >gi|207091745|ref|ZP_03239532.1| hypothetical protein HpylHP_01046 [Helicobacter pylori HPKX_438_AG0C1] Length = 257 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 66/236 (27%), Positives = 119/236 (50%), Gaps = 19/236 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKCSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 61 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ G V ++ N +++G+ ++ G Q T Sbjct: 121 ALMHANLE--KEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R Sbjct: 179 IIKNHAKYSKLRVVINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMR 234 >gi|54020392|ref|YP_115728.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma hyopneumoniae 232] gi|53987565|gb|AAV27766.1| conserved hypothetical protein [Mycoplasma hyopneumoniae 232] gi|144575306|gb|AAZ53540.2| ribosomal large subunit pseudouridine synthase B [Mycoplasma hyopneumoniae 7448] Length = 240 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 116/235 (49%), Gaps = 30/235 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K ++ G+ SRR+ E++I Q R+K+N E A + V D IE+D + K Sbjct: 5 RINKFLSEMGVCSRRQSEKLILQGRIKINN---ETAKIGQIVSQNDVIELDQQKITKKPP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGG 129 + +KP +T+ DP+ R T+ + FS+ + VGRLD T GL+L+TNDG Sbjct: 62 IFWYALNKPKNYITSRFDPENRPTIME----FFSKNEYLFPVGRLDFQTTGLILITNDGK 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-------Q 182 L PS++ R Y V+ + ++ L D ++ LD+ + Sbjct: 118 TTNKLLHPSSKIERTYLVKTDFSLSDKEIRFL-----------NDNKIQLDSVKSIQKIK 166 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 K S+ V + +G N IKK+F N KV +L R+S+ +L + G R+++ Sbjct: 167 KCSSRTYLVTVWQGSNHHIKKLFLSINKKVLKLKRVSFANIKLNNISEGKYRKLT 221 >gi|53715301|ref|YP_101293.1| ribosomal large subunit pseudouridine synthase B [Bacteroides fragilis YCH46] gi|253567192|ref|ZP_04844642.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 3_2_5] gi|265767788|ref|ZP_06095320.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_1_16] gi|52218166|dbj|BAD50759.1| ribosomal large subunit pseudouridine synthase B [Bacteroides fragilis YCH46] gi|251944023|gb|EES84542.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 3_2_5] gi|263252460|gb|EEZ23988.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_1_16] gi|301164755|emb|CBW24314.1| putative ribosomal large subunit pseudouridine synthase [Bacteroides fragilis 638R] Length = 466 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 112/229 (48%), Gaps = 5/229 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ + D ++ + ER Sbjct: 230 PIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRADVVKFHDETV-SIER 288 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 289 KVYVLLNKPKDCVTTSDDPQARLTVMDLVKGACAERIYPVGRLDRNTTGVLLLTNDGDLA 348 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P ++Y V + + ++ + GI ++ G + D D K V Sbjct: 349 SKLTHPKYLKKKIYHVYLDKNLTKADMDQIAAGIQLEDGEIHADAISYSDEVK--RDQVG 406 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 407 IEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQ 455 >gi|72080505|ref|YP_287563.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma hyopneumoniae 7448] Length = 237 Score = 97.4 bits (241), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 116/235 (49%), Gaps = 30/235 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K ++ G+ SRR+ E++I Q R+K+N E A + V D IE+D + K Sbjct: 2 RINKFLSEMGVCSRRQSEKLILQGRIKINN---ETAKIGQIVSQNDVIELDQQKITKKPP 58 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGG 129 + +KP +T+ DP+ R T+ + FS+ + VGRLD T GL+L+TNDG Sbjct: 59 IFWYALNKPKNYITSRFDPENRPTIME----FFSKNEYLFPVGRLDFQTTGLILITNDGK 114 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-------Q 182 L PS++ R Y V+ + ++ L D ++ LD+ + Sbjct: 115 TTNKLLHPSSKIERTYLVKTDFSLSDKEIRFL-----------NDNKIQLDSVKSIQKIK 163 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 K S+ V + +G N IKK+F N KV +L R+S+ +L + G R+++ Sbjct: 164 KCSSRTYLVTVWQGSNHHIKKLFLSINKKVLKLKRVSFANIKLNNISEGKYRKLT 218 >gi|303228803|ref|ZP_07315617.1| putative 16S pseudouridylate 516 synthase [Veillonella atypica ACS-134-V-Col7a] gi|303232129|ref|ZP_07318832.1| putative 16S pseudouridylate 516 synthase [Veillonella atypica ACS-049-V-Sch6] gi|302513235|gb|EFL55274.1| putative 16S pseudouridylate 516 synthase [Veillonella atypica ACS-049-V-Sch6] gi|302516515|gb|EFL58443.1| putative 16S pseudouridylate 516 synthase [Veillonella atypica ACS-134-V-Col7a] Length = 232 Score = 97.4 bits (241), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 75/222 (33%), Positives = 115/222 (51%), Gaps = 8/222 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K++A SR+EV ++I RV VNG ++L++ + D I VDGV + ++ Sbjct: 2 RLDKLLANKAFGSRKEVHQIIRDGRVTVNGAVILKKDQSIHIDDDIIAVDGVQISTKQQY 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 + +HKP G +T DP V D LP F + V VGRLD +TEGLLLLTNDG A Sbjct: 62 YIK-FHKPAGYITAVEDPT-HPVVMDLLPPEFKKMGVFPVGRLDKDTEGLLLLTNDGIWA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + +VY V F+G++ +D L ++ GIV+ G +D + +T+ Sbjct: 120 HSIINGHKHVPKVYYVEFNGKLTKDGLERIETGIVL-GDGTQCKPANIDVLSEQSLHITI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 EGK ++K++ +V L R+S G L + A +T Sbjct: 179 --EEGKYHQVKRMIGAAGGEVTYLKRLSIGHITLNGIEAINT 218 >gi|114561758|ref|YP_749271.1| pseudouridine synthase, Rsu [Shewanella frigidimarina NCIMB 400] gi|114333051|gb|ABI70433.1| Pseudouridine synthase, Rsu [Shewanella frigidimarina NCIMB 400] Length = 238 Score = 97.4 bits (241), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 76/248 (30%), Positives = 116/248 (46%), Gaps = 25/248 (10%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRK 69 T R+S +A G+ASRR+ R+I RV +N L + VN + I VD P+ Sbjct: 1 MTSMRLSHYLAVCGVASRRQAARLIDTGRVSINHQLAKHTDRVNFCEIETILVDDKPILA 60 Query: 70 AERTRLWLYHKPIGLVT--THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + WLYHKP+G+ DP V LP R+ GRLD ++ GLLLLTND Sbjct: 61 VQDKQYWLYHKPVGIDCRLLVDDPHSLLHVLPELP----RLYPAGRLDKDSRGLLLLTND 116 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGS- 185 G L + L P + Y V+ + L+++ G+ YGD+Q + D + S Sbjct: 117 GQLTQALMHPDYYHPKTYVVQVDKPISTSFLSMMAN-----GVSYGDVQTRSCDIRPLSL 171 Query: 186 ---NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+++ + +KV L+R LL E+++K +R Sbjct: 172 TAEEDRFEIVLTQGLNRQIRRMCQTLGYKVIDLMRTQ--------LLDIRIDELAEKTMR 223 Query: 243 EQLGPHLL 250 LL Sbjct: 224 PLTAAELL 231 >gi|255011767|ref|ZP_05283893.1| ribosomal large subunit pseudouridine synthase B [Bacteroides fragilis 3_1_12] gi|313149605|ref|ZP_07811798.1| ribosomal large subunit pseudouridine synthase B [Bacteroides fragilis 3_1_12] gi|313138372|gb|EFR55732.1| ribosomal large subunit pseudouridine synthase B [Bacteroides fragilis 3_1_12] Length = 466 Score = 97.4 bits (241), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 112/229 (48%), Gaps = 5/229 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ + D ++ + ER Sbjct: 230 PIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRADVVKFHDETV-SIER 288 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 289 KVYVLLNKPKDCVTTSDDPQARLTVMDLVKGACAERIYPVGRLDRNTTGVLLLTNDGDLA 348 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P ++Y V + + ++ + GI ++ G + D D K V Sbjct: 349 SKLTHPKYLKKKIYHVYLDKNLTKADMDQIAAGIQLEDGEIHADAISYSDEVK--RDQVG 406 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 407 IEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQ 455 >gi|222099396|ref|YP_002533964.1| Pseudouridine synthase [Thermotoga neapolitana DSM 4359] gi|221571786|gb|ACM22598.1| Pseudouridine synthase [Thermotoga neapolitana DSM 4359] Length = 240 Score = 97.4 bits (241), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 66/211 (31%), Positives = 111/211 (52%), Gaps = 6/211 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ GI +R+EV +I RV VN + A + D ++VDG + E+ Sbjct: 2 RLDRYLSNRGIGTRKEVRALIKHGRVTVNDRTVLDPAYKLSDKDVVKVDGKVIDLPEKVY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L++KP G VT+ DP T+ + LP I + VGRLD + EGLLL+TNDG A + Sbjct: 62 I-LFYKPAGYVTSTRDPHS-ETIMEFLPDI-KGIFPVGRLDKDAEGLLLVTNDGEFAHRV 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y V+ G++ +DKL L++G+ ++ + + +K SN V + + Sbjct: 119 ISPRWKVEKEYVVKVEGEITEDKLEKLRRGVSLRDGFFAKAK---HVEKISNDTVKIVIT 175 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EGK ++K++ K L R+ G +L Sbjct: 176 EGKYHQVKRMMAAVGLKTIHLKRVRIGGLRL 206 >gi|310658498|ref|YP_003936219.1| ribosomal small subunit pseudouridine synthase a [Clostridium sticklandii DSM 519] gi|308825276|emb|CBH21314.1| Ribosomal small subunit pseudouridine synthase A [Clostridium sticklandii] Length = 243 Score = 97.4 bits (241), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 73/230 (31%), Positives = 117/230 (50%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A G+ SR E++R I +RV VNG+ + + + D I D + + Sbjct: 9 RIDKYLANMGVGSRSEIKRYIKNKRVMVNGVYITDNGLIINLDDDIIFDEEKISYRKFVY 68 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP G+++ D ++TV D L PS + GRLD +TEG LLLTNDG LA Sbjct: 69 IMM-NKPQGVISATEDK-YQNTVLDLLDPSYLHFDLFPAGRLDKDTEGFLLLTNDGKLAH 126 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVT 190 + P + Y V G + + ++ I+I C LD+ S A+VT Sbjct: 127 NMLSPKKHVEKKYYVEVIGHLVNEDIDAFSGNIIIDDGYECMPAKLEILDSNDISKAYVT 186 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + +EGK +IK++FE +V L R++ GP +L L G RE++++ Sbjct: 187 I--KEGKFHQIKRMFEAIGKEVTYLKRLTMGPLKLDENLELGEYRELTEQ 234 >gi|60683236|ref|YP_213380.1| putative ribosomal large subunit pseudouridine synthase [Bacteroides fragilis NCTC 9343] gi|60494670|emb|CAH09471.1| putative ribosomal large subunit pseudouridine synthase [Bacteroides fragilis NCTC 9343] Length = 466 Score = 97.4 bits (241), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 112/229 (48%), Gaps = 5/229 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ + D ++ + ER Sbjct: 230 PIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRADVVKFHDETV-SIER 288 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 289 KVYVLLNKPKDCVTTSDDPQARLTVMDLVKGACAERIYPVGRLDRNTTGVLLLTNDGDLA 348 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P ++Y V + + ++ + GI ++ G + D D K V Sbjct: 349 SKLTHPKYLKKKIYHVYLDKNLTKADMDQIAAGIQLEDGEIHADAISYSDEVK--RDQVG 406 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 407 IEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQ 455 >gi|208435327|ref|YP_002266993.1| ribosomal large subunit pseudouridinesynthase B [Helicobacter pylori G27] gi|208433256|gb|ACI28127.1| ribosomal large subunit pseudouridinesynthase B [Helicobacter pylori G27] Length = 257 Score = 97.4 bits (241), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 66/241 (27%), Positives = 123/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ + VGRLD +EG+LLL++ + Sbjct: 61 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFVPVGRLDFASEGVLLLSDSKAV-- 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 V L + Y ++ G V ++ N +++G+ ++ G Q T Sbjct: 119 VSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 179 IIKNHAKYSKLRVVINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 238 Query: 239 K 239 + Sbjct: 239 Q 239 >gi|328957900|ref|YP_004375286.1| uncharacterized RNA pseudouridine synthase YtzG [Carnobacterium sp. 17-4] gi|328674224|gb|AEB30270.1| uncharacterized RNA pseudouridine synthase YtzG [Carnobacterium sp. 17-4] Length = 239 Score = 97.4 bits (241), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 77/232 (33%), Positives = 122/232 (52%), Gaps = 21/232 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD----HIEVDGVPLRKA 70 R+ K++ G SRR V+R+I ++V+VNG++ A V+ ++ D + V G +R Sbjct: 2 RLDKLLFETGFGSRRTVKRLIKSKQVQVNGLI---ALVDNLNVDPQLQEVIVSGELIRFQ 58 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFD------NLPSIFSRVISVGRLDINTEGLLLL 124 ++ HKP G+V+ SD + TV D +P +F VGRLD +TEGLLLL Sbjct: 59 PHVY-YMLHKPAGVVSAVSDVLNQ-TVIDLIEPSQRVPGLFP----VGRLDKDTEGLLLL 112 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQK 183 TN+G L L +P + ++ Y + +V + GIV G+ ++T+ ++ Sbjct: 113 TNNGQLGYQLLIPKKEVIKCYEAVVNERVTSEDQFAFASGIVFNGGVKCKPAKLTILSES 172 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 + + V + + EGK ++KK+F KV L R+S GP QL TL GS R Sbjct: 173 DAESKVLLEISEGKFHQVKKMFLSVGKKVIYLKRLSMGPLQLDKTLPLGSYR 224 >gi|329962610|ref|ZP_08300558.1| pseudouridylate synthase [Bacteroides fluxus YIT 12057] gi|328529641|gb|EGF56539.1| pseudouridylate synthase [Bacteroides fluxus YIT 12057] Length = 234 Score = 97.4 bits (241), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/226 (31%), Positives = 109/226 (48%), Gaps = 5/226 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K +A AG+ SRRE + I V VNG ++ + D ++ + ER Sbjct: 1 MNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEVKFHDQAV-SIERKIY 59 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP VTT DP R TV D + S R+ VGRLD NT G+LLLTNDG LA L Sbjct: 60 VLLNKPKDTVTTSDDPQARRTVMDLVKGACSERIYPVGRLDRNTTGVLLLTNDGDLASKL 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVGL 193 P ++Y V + + + + GI + G + D D K + V + + Sbjct: 120 THPKYLKKKIYHVHLDKNLTKADMEQIAAGIQLDDGEIHADAISYTDDFKKDD--VGIEI 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 178 HSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQ 223 >gi|119776069|ref|YP_928809.1| pseudouridine synthase, Rsu [Shewanella amazonensis SB2B] gi|119768569|gb|ABM01140.1| pseudouridine synthase, Rsu [Shewanella amazonensis SB2B] Length = 254 Score = 97.4 bits (241), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 116/240 (48%), Gaps = 19/240 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A AG+ASRR R+I RV ++G + V ++ + VDG PL A+ Sbjct: 11 RLCKYLAEAGVASRRGASRLIETGRVCIDGQQASHSD-RVFDSNRVTVDGAPLCPAQAKA 69 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +LYHKP+G+ D S + LP R+ GRLD ++ GLLLLTNDG L + L Sbjct: 70 YFLYHKPVGIDCRLRAEDPHSLIH-CLPGDL-RLFPAGRLDKDSRGLLLLTNDGELTQRL 127 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD-------MQVTLD----TQK 183 P + Y + + D + + G YG+ ++ +D T+ Sbjct: 128 MHPDFHHQKGYLITLNKAPQPDDI-----AAIAAGFDYGEGPTRPCVVEAAIDCGYATED 182 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 G+ + + L EGK R+I++++ ++V L+R S +G L G R ++ LR+ Sbjct: 183 GNPRKLRMRLTEGKKRQIRRLWRARGYRVLDLLRESIQQLNIGKLEQGEIRSLTASELRQ 242 >gi|110800779|ref|YP_697003.1| RNA pseudouridine synthase family protein [Clostridium perfringens ATCC 13124] gi|168213224|ref|ZP_02638849.1| RNA pseudouridine synthase family protein [Clostridium perfringens CPE str. F4969] gi|110675426|gb|ABG84413.1| RNA pseudouridine synthase family protein [Clostridium perfringens ATCC 13124] gi|170715223|gb|EDT27405.1| RNA pseudouridine synthase family protein [Clostridium perfringens CPE str. F4969] Length = 298 Score = 97.4 bits (241), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 69/230 (30%), Positives = 113/230 (49%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RVK++G L + V + +DG PL+ Sbjct: 61 RLNKYISETGFCSRREADKLIEQGRVKIDG-LKATTGMKVSKGQSVSIDGKPLKVENELV 119 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ TT S G F N R+ +GRLD +++GL+ +TNDG + Sbjct: 120 YIALNKPVGITCTTESKIKGNIVDFINHEK---RIFPIGRLDKDSQGLIFMTNDGDIVNK 176 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + + + + G+ I G V +K S + L Sbjct: 177 ILRAGNNHEKEYIVTVNKSITDEFIKGMSNGVPILGTVTKKCLV----KKESKNSFRIIL 232 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +G NR+I+++ E+F ++V +L RI LG L GS R ++KK L E Sbjct: 233 TQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKIGSWRYLTKKELAE 282 >gi|332981538|ref|YP_004462979.1| pseudouridine synthase [Mahella australiensis 50-1 BON] gi|332699216|gb|AEE96157.1| pseudouridine synthase [Mahella australiensis 50-1 BON] Length = 244 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 73/227 (32%), Positives = 112/227 (49%), Gaps = 2/227 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A+ G+ASRR+ E +I V VNG +++ + + D + V G +R Sbjct: 9 RLHKYMAQCGVASRRKSEELIKSGAVSVNGHVVKDMGILIDPQKDEVRVYGRIIRLKSDM 68 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G V+T D GR TV D +P + R+ VGRLD +T GL+LLTNDG L Sbjct: 69 IYIAVNKPRGYVSTVKDQFGRPTVLDLVPVADEYRLYPVGRLDYDTTGLILLTNDGDLTY 128 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + ++Y G D + + G+V++G L + V + Sbjct: 129 RLTHPKHEIEKIYVAGLRGIPDNQDIFRFEHGLVLEGRLTAPAGFELIKADQRLSVVKIT 188 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 LREG+NR+I+K+ + V L R + G +L L G R ++ K Sbjct: 189 LREGRNRQIRKMCDMIGHPVIWLRREAIGEVELCGLQPGQWRYLTPK 235 >gi|167752034|ref|ZP_02424161.1| hypothetical protein ALIPUT_00276 [Alistipes putredinis DSM 17216] gi|167660275|gb|EDS04405.1| hypothetical protein ALIPUT_00276 [Alistipes putredinis DSM 17216] Length = 451 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 70/222 (31%), Positives = 113/222 (50%), Gaps = 6/222 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ IA++GI SRRE + I V VNG+++ V TD ++ + + ++ Sbjct: 218 RLNRFIAQSGICSRREADDFIQAGLVTVNGVVVTTLGTKVQPTDEVKFNDSRVEGEKKVY 277 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARV 133 L L +KP G VT+ DP TV + + + R+ VGRLD N+ GLLL TNDG L R Sbjct: 278 LVL-NKPKGYVTSLDDPHADKTVMELVKDACTERIYPVGRLDKNSVGLLLFTNDGDLTRQ 336 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L PS Q ++Y+V + + + + +GI ++ G Y D + K V + Sbjct: 337 LTHPSFQKKKIYQVSLDKPLTKADMEQIAQGITLEDGEIYADEIAYVKEDK---TEVGIE 393 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + G+NR ++++FE + V +L R+ Y L G R Sbjct: 394 IHSGRNRIVRRIFEHLGYAVKKLDRVYYAGLSKKNLKRGQWR 435 >gi|315125093|ref|YP_004067097.1| putative ribosomal pseudouridine synthase [Campylobacter jejuni subsp. jejuni ICDCCJ07001] gi|315018815|gb|ADT66908.1| putative ribosomal pseudouridine synthase [Campylobacter jejuni subsp. jejuni ICDCCJ07001] Length = 233 Score = 97.1 bits (240), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 74/230 (32%), Positives = 115/230 (50%), Gaps = 17/230 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +I Q VK+N + + V D + V G ++K + Sbjct: 2 RINKFISHNTRYSRREADELIKQGLVKINN-KIALLSDEVKFDDKVFVKGKRVQKRTQFS 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A L Sbjct: 61 VIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIADAL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----------- 183 + R Y ++ G V + + ++ G+ I+ G T T Sbjct: 121 MHSDLE--REYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEIF 178 Query: 184 GSNAWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 GS+ T V + EGKNRE+++ F F+ +V L R+++G LG L A Sbjct: 179 GSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKA 228 >gi|168216722|ref|ZP_02642347.1| RNA pseudouridine synthase family protein [Clostridium perfringens NCTC 8239] gi|182381245|gb|EDT78724.1| RNA pseudouridine synthase family protein [Clostridium perfringens NCTC 8239] Length = 298 Score = 97.1 bits (240), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 68/230 (29%), Positives = 113/230 (49%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RVK++G L + V + +DG PL+ Sbjct: 61 RLNKYISETGFCSRREADKLIEQGRVKIDG-LKATTGMKVSKGQSVSIDGKPLKVENELV 119 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ TT S G F N R+ +GRLD +++GL+ +TNDG + Sbjct: 120 YIALNKPVGITCTTESKIKGNIVDFINHEK---RIFPIGRLDKDSQGLIFMTNDGDIVNK 176 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + + + + G+ I G V +++ +T GL Sbjct: 177 ILRAGNNHEKEYIVTVNKPITHEFIKGMSNGVPILGTVTKKCLVKKESKNSFRIILTQGL 236 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 NR+I+++ E+F ++V +L RI LG L GS R ++KK L E Sbjct: 237 ----NRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKIGSWRYLTKKELAE 282 >gi|168210383|ref|ZP_02636008.1| RNA pseudouridine synthase family protein [Clostridium perfringens B str. ATCC 3626] gi|170711586|gb|EDT23768.1| RNA pseudouridine synthase family protein [Clostridium perfringens B str. ATCC 3626] Length = 298 Score = 97.1 bits (240), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 68/230 (29%), Positives = 113/230 (49%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RVK++G L + V + +DG PL+ Sbjct: 61 RLNKYISETGFCSRREADKLIEQGRVKIDG-LKATTGMKVSKGQSVSIDGKPLKVENELV 119 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ TT S G F N R+ +GRLD +++GL+ +TNDG + Sbjct: 120 YIALNKPVGITCTTESKIKGNIVDFINHEK---RIFPIGRLDKDSQGLIFMTNDGDIVNK 176 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + + + + G+ I G V +++ +T GL Sbjct: 177 ILRAGNNHEKEYIVTVNKPITHEFIKGMSNGVPILGTVTKKCLVKKESKNSFRIILTQGL 236 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 NR+I+++ E+F ++V +L RI LG L GS R ++KK L E Sbjct: 237 ----NRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKMGSWRYLTKKELAE 282 >gi|229494843|ref|ZP_04388596.1| pseudouridine synthase, Rsu [Rhodococcus erythropolis SK121] gi|229318201|gb|EEN84069.1| pseudouridine synthase, Rsu [Rhodococcus erythropolis SK121] Length = 354 Score = 97.1 bits (240), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 73/225 (32%), Positives = 112/225 (49%), Gaps = 6/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KV+A+AG+ASRR E +I Q RV+V+G ++ + V + + ++ Sbjct: 115 RLQKVLAQAGVASRRAAEELIDQGRVEVDGRIVVEQGLRVDPENAVVRVDGVRVVVQKDL 174 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGL 130 ++L +KP G T SD GR V D + R+ VGRLD +TEGLLL TNDG L Sbjct: 175 VYLAMNKPRGWQCTMSDDLGRPCVGDIVSERVQSGQRLFHVGRLDADTEGLLLFTNDGDL 234 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y HG V++ L+ G+ + G D L+ +G V Sbjct: 235 AHRLMHPSFEVPKTYLATVHGVVERSTGKQLRDGVTLDDGPAKVDAFTVLEINEGKT-LV 293 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EG+ ++++ + V RL+R + G LG G+ R Sbjct: 294 KLVLHEGRKHIVRRLLDAVGHPVVRLVRTNVGVVALGDQRPGTQR 338 >gi|15612417|ref|NP_224070.1| hypothetical protein jhp1352 [Helicobacter pylori J99] gi|11136000|sp|Q9ZJG0|YE59_HELPJ RecName: Full=Uncharacterized RNA pseudouridine synthase jhp_1352; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|4155973|gb|AAD06937.1| putative [Helicobacter pylori J99] Length = 262 Score = 97.1 bits (240), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 66/241 (27%), Positives = 123/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKADPLKRHVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ G V ++ N +++G+ ++ G Q T Sbjct: 126 ALMHANLE--KEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKARFLNR 243 Query: 239 K 239 + Sbjct: 244 Q 244 >gi|308272550|emb|CBX29154.1| Ribosomal large subunit pseudouridine synthase F [uncultured Desulfobacterium sp.] Length = 235 Score = 97.1 bits (240), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 72/226 (31%), Positives = 116/226 (51%), Gaps = 7/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K ++ AG SRR+ E+ I VKVNG+++ V + D +EVDG + + Sbjct: 6 RLQKYLSAAGFCSRRKGEKFILSGLVKVNGVVISELGTKVDPAKDVVEVDGNKIEAKDDL 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G +TT S R + +L +I R+ VGRLD ++ GLLLLTNDG L V Sbjct: 66 IYIALNKPKGYITTCSRQ--RDRIVLDLVNIPQRIYPVGRLDKDSTGLLLLTNDGRLHNV 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + Y V + + L+ +K+G + G +++ + S + L Sbjct: 124 LSHPSFDHEKEYEVSLKWPIADEALDKMKEGFFLMGSKTRPAEIS----RISPEKFHITL 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +EG+NR+I+++ + +V L RI +LG L G+ R ++ K Sbjct: 180 KEGRNRQIRRMVDKVGNRVLELKRIRISDVKLGNLKEGAWRYLTDK 225 >gi|88857390|ref|ZP_01132033.1| putative ribosomal RNA pseudouridine synthase [Pseudoalteromonas tunicata D2] gi|88820587|gb|EAR30399.1| putative ribosomal RNA pseudouridine synthase [Pseudoalteromonas tunicata D2] Length = 285 Score = 97.1 bits (240), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 69/227 (30%), Positives = 112/227 (49%), Gaps = 11/227 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE ++ IA RV +NG + E V +D +E+DG PL+ + Sbjct: 6 RLNKYISDTGFCSRREADKYIADGRVTLNGKIPE-VGTKVTDSDVVEIDGKPLKAKPKAV 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 Y+KP+G VT ++ + RS + N P R+ +GRLD +EGL+ LTN+G + Sbjct: 65 FIAYNKPVG-VTCTTELNIRSNIISAINHPE---RIFPIGRLDRPSEGLIFLTNEGDIVN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + + + G+ I G +VT + G N +T G Sbjct: 121 KILRAGNNHEKEYLVTVDKAISPQFIKKMGAGVPILGTVTKQCKVTQVSSHGFNIVLTQG 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L NR+I+++ EF ++V L R+ L L +G R ++ K Sbjct: 181 L----NRQIRRMCEFLGYEVVTLKRVRIMNIDLTGLRSGQWRNLTDK 223 >gi|257462423|ref|ZP_05626837.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. D12] Length = 231 Score = 97.1 bits (240), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 77/233 (33%), Positives = 120/233 (51%), Gaps = 23/233 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI---EVDGVPLRKAE 71 R+ K + G+ SR+EV+ ++ +++++VN A V S I E D V K + Sbjct: 2 RMDKFLVECGLGSRKEVKELLKKRKIQVN-------ASIVTSGQQIIDEEKDEVFYEKEK 54 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLT 125 + R ++ +K G VT D R TV + LP I ++ VGRLD +TEGLLL T Sbjct: 55 LVYKKFRYYILYKKAGYVTALEDSKER-TVMELLPEWVIRKDLVPVGRLDKDTEGLLLFT 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKG 184 NDG L L P + + Y V + ++ + L++G+ I QV L+ QK Sbjct: 114 NDGKLNHQLLSPKSHVDKTYHVCLEKIITEEAIEQLRQGVRIGDYTTLPAQVEQLEEQK- 172 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +++ ++EGK ++KK+ E + KV+ L R+S+G LG L G REVS Sbjct: 173 ----ISLTIQEGKFHQVKKMLEAVDNKVSYLKRVSFGRLVLGDLKPGEVREVS 221 >gi|126173147|ref|YP_001049296.1| pseudouridine synthase [Shewanella baltica OS155] gi|125996352|gb|ABN60427.1| pseudouridine synthase [Shewanella baltica OS155] Length = 236 Score = 97.1 bits (240), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 73/232 (31%), Positives = 117/232 (50%), Gaps = 15/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLE-----RAAVNVMSTDHIEVDGVPLRK 69 R++K +A+ GI SRRE R+I R+ +NG + R ++ D IE+DG P+ K Sbjct: 2 RLAKYLAQCGIGSRREACRLIEAGRITLNGHIARHTDPIRLDESLNCLDSIELDGAPITK 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E W+ +K +G + D +++ LP R+ VGRLD ++ GLLLLTNDG Sbjct: 62 TETLAYWILNKAVGTDCRLLEQD-ETSLIRLLPKA-PRLYPVGRLDKDSRGLLLLTNDGE 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNA 187 L L PS + Y VR + + + + G+ Y D+Q TL Q + S+ Sbjct: 120 LTHKLMHPSFAHSKTYHVRLNRPFTDEFVEQMASGVR-----YKDLQ-TLPCQVRRLSSD 173 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + L +G NR+I+++ +KV L R++ L +L G+ R ++ K Sbjct: 174 SFEIVLTQGLNRQIRRMSSALGYKVIDLQRVALMTLTLKSLAEGAMRPLTPK 225 >gi|187734754|ref|YP_001876866.1| pseudouridine synthase [Akkermansia muciniphila ATCC BAA-835] gi|187424806|gb|ACD04085.1| pseudouridine synthase [Akkermansia muciniphila ATCC BAA-835] Length = 467 Score = 97.1 bits (240), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 66/218 (30%), Positives = 109/218 (50%), Gaps = 5/218 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A GI SRR +R+I + RV+VNG +++ + V D ++VDG + E Sbjct: 15 RINKFLASCGIDSRRVADRLIGEGRVEVNGKVIDTPGMRVTEKDFVKVDGRHMTPMEEV- 73 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L +KP G V + TV+D LP + VGRLD ++EGLL++TN G L +VL Sbjct: 74 VVLLNKPRGYVCSREAQGAIGTVYDLLPPRLRHLNYVGRLDADSEGLLIMTNKGELTQVL 133 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P+ + Y V D L +G+ I G+ + + S + L Sbjct: 134 SHPTGGIEKEYWVTVDQNFDNSVLMQFLRGVRIP---EGNAKAKY-VCRASARRACIVLE 189 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 +G R+++++F+ +V +L+R+ G G L G Sbjct: 190 QGLKRQVRQMFQCLGLRVRKLVRVRIGSLWGGDLEPGG 227 >gi|317014873|gb|ADU82309.1| hypothetical protein HPGAM_07680 [Helicobacter pylori Gambia94/24] Length = 257 Score = 97.1 bits (240), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 66/241 (27%), Positives = 123/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 61 FSVLIYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ G V ++ N +++G+ ++ G Q T Sbjct: 121 ALMHANLE--KEYLVKIQGFVTREMENAMQEGLKLKNATKGAHQKTPIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 179 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKARFLNR 238 Query: 239 K 239 + Sbjct: 239 Q 239 >gi|281412320|ref|YP_003346399.1| pseudouridine synthase [Thermotoga naphthophila RKU-10] gi|281373423|gb|ADA66985.1| pseudouridine synthase [Thermotoga naphthophila RKU-10] Length = 239 Score = 97.1 bits (240), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 62/211 (29%), Positives = 110/211 (52%), Gaps = 6/211 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +G+ +R+EV+++I Q RV VNG ++ +V D + +DG + R Sbjct: 2 RLDRYLSNSGVGTRKEVKKLIKQGRVTVNGRVVLDPGHSVSENDVVVLDGETVN-FHRKV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L+HKP G VT+ DP T+ + LP + + VGRLD + EGLL++TNDG A + Sbjct: 61 YILFHKPSGYVTSTKDPHS-ETIMEFLPPL-KGIFPVGRLDKDAEGLLIITNDGDFAHRV 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V+ G++ +DK+ LK G+ ++ + + +K SN + + + Sbjct: 119 TSPKWSVEKEYIVKVEGEITEDKIEKLKNGVTLRDGFFAKAKC---VEKLSNDTLKIVIT 175 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EG+ ++K++ + L R G L Sbjct: 176 EGRYHQVKRMTAAVGLRTVHLKRTRIGELVL 206 >gi|108799895|ref|YP_640092.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium sp. MCS] gi|119869005|ref|YP_938957.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium sp. KMS] gi|126435523|ref|YP_001071214.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium sp. JLS] gi|108770314|gb|ABG09036.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium sp. MCS] gi|119695094|gb|ABL92167.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium sp. KMS] gi|126235323|gb|ABN98723.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium sp. JLS] Length = 247 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 78/234 (33%), Positives = 116/234 (49%), Gaps = 6/234 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERT 73 R+ KV+++AGIASRR E+MI RV+V+G ++ V T I VDG + + Sbjct: 8 RLQKVLSQAGIASRRVAEKMILDGRVEVDGHIVTELGTRVDPTAADIRVDGTRVLLDDTL 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 +KP G+ +T SD GR + D + + VGRLD +TEGL+LLTNDG L Sbjct: 68 VHLAINKPRGMHSTMSDDRGRPCIGDLVEHRVRGNKGLFHVGRLDADTEGLMLLTNDGEL 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G V + L+ G+ + G D +D G + V Sbjct: 128 AHRLMHPSYEVPKTYVATVLGTVPRGLGKKLRAGVELDDGPARVDDFAVVDAMPG-RSMV 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V L EG+ R ++++ + V L+R G LG GS R +++K + E Sbjct: 187 RVTLHEGRKRIVRRLLAAVGFPVQELVRTDIGAVSLGEQRPGSIRVLTRKEIGE 240 >gi|168205142|ref|ZP_02631147.1| RNA pseudouridine synthase family protein [Clostridium perfringens E str. JGS1987] gi|169347063|ref|ZP_02866005.1| RNA pseudouridine synthase family protein [Clostridium perfringens C str. JGS1495] gi|169296746|gb|EDS78875.1| RNA pseudouridine synthase family protein [Clostridium perfringens C str. JGS1495] gi|170663342|gb|EDT16025.1| RNA pseudouridine synthase family protein [Clostridium perfringens E str. JGS1987] Length = 301 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 67/230 (29%), Positives = 114/230 (49%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RVK++G+ + V + + +DG PL+ Sbjct: 64 RLNKYISETGFCSRREADKLIEQGRVKIDGVKAT-TGMKVSNGQSVSIDGKPLKVENELV 122 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ TT S G F N R+ +GRLD +++GL+ +TNDG + Sbjct: 123 YIALNKPVGITCTTESKIKGNIVDFINHEK---RIFPIGRLDKDSQGLIFMTNDGDIVNK 179 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + + + + G+ I G V +++ +T GL Sbjct: 180 ILRAGNNHEKEYIVTVNKPITDEFIKGMSNGVPILGTVTKKCLVKKESKNSFRIILTQGL 239 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 NR+I+++ E+F ++V +L RI LG L GS R ++KK L E Sbjct: 240 ----NRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKMGSWRYLTKKELAE 285 >gi|308062723|gb|ADO04611.1| hypothetical protein HPCU_07355 [Helicobacter pylori Cuz20] Length = 257 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 66/241 (27%), Positives = 123/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 61 FSVLVYHKPKGELVSKNDPLKRCVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ G V ++ N +++G+ ++ G Q T Sbjct: 121 ALMHANLE--KEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 179 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 238 Query: 239 K 239 + Sbjct: 239 Q 239 >gi|33240564|ref|NP_875506.1| 16S rRNA pseudouridylate synthase [Prochlorococcus marinus subsp. marinus str. CCMP1375] gi|33238092|gb|AAQ00159.1| 16S rRNA pseudouridylate synthase [Prochlorococcus marinus subsp. marinus str. CCMP1375] Length = 237 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 71/228 (31%), Positives = 122/228 (53%), Gaps = 4/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGIL--LERAAVNVMSTDHIEVDGVPLRKAE 71 +R+ K+I+ +GI SR++ E +I Q+RV +N + L A ++ I+ +P + + Sbjct: 3 ERLQKIISNSGICSRKKAEALIDQKRVFINNEIASLGEKADILIDIIRIDDYIIP-KNIK 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGL 130 +++ L +KP G+++T D GR TV D LP + + VGRLD ++ G L+++N+G L Sbjct: 62 SSKVILLNKPTGVISTCRDTHGRKTVLDLLPDNLQKGMHPVGRLDKDSRGALIISNNGLL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V G ++ L + GI I V + ++G+N + Sbjct: 122 TLHLTHPRFNHKKRYSVLITGVPSKNTLKKWRNGIEIDKKTTRKALVNIVKRQGNNTLLE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + L EG+NR+I+KV + V LIRI G +L L G+ RE+++ Sbjct: 182 IVLFEGRNRQIRKVADKLGHPVIDLIRIEIGNIKLNGLKEGAWREINE 229 >gi|160932777|ref|ZP_02080166.1| hypothetical protein CLOLEP_01618 [Clostridium leptum DSM 753] gi|156867851|gb|EDO61223.1| hypothetical protein CLOLEP_01618 [Clostridium leptum DSM 753] Length = 256 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 78/235 (33%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K+++ G+ SR+E +I + V VNGIL R D I ++G PLR +R Sbjct: 6 ERLDKILSSQGVGSRKEAGILIRRGLVHVNGILATRPETKTDPERDQITIEGKPLR-FQR 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 + +KP G+V+ D TV D +P + SR + GRLD +T GLL+LT+DG L Sbjct: 65 HVYLMMNKPAGVVSASRDSR-EKTVVDLVPPVLSRRDLFPAGRLDRDTTGLLILTDDGEL 123 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAW 188 A + P ++Y G V +++ G+ ++ +C + L K AW Sbjct: 124 AHRMLSPKKHVYKLYEASVDGPVGAEEIEKFAAGVALEDGTVC---LPAGLTVVKQGTAW 180 Query: 189 VT-VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 T V +REGK ++KK+F +V RL R+ G +L TL G RE++K+ L Sbjct: 181 ETLVEIREGKFHQVKKMFLAVGRRVLRLKRVRIGGLELDKTLKEGECRELTKEEL 235 >gi|182625540|ref|ZP_02953311.1| RNA pseudouridine synthase family protein [Clostridium perfringens D str. JGS1721] gi|177909228|gb|EDT71693.1| RNA pseudouridine synthase family protein [Clostridium perfringens D str. JGS1721] Length = 298 Score = 96.7 bits (239), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 69/230 (30%), Positives = 113/230 (49%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RVK++G L + V + +DG PL+ Sbjct: 61 RLNKYISETGFCSRREADKLIEQGRVKIDG-LKATTGMKVSKGQSVSIDGKPLKVENELV 119 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ TT S G F N R+ +GRLD +++GL+ +TNDG + Sbjct: 120 YIALNKPVGITCTTESKIKGNIVDFINHEK---RIFPIGRLDKDSQGLIFMTNDGDIVNK 176 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + + + + G+ I G V +K S + L Sbjct: 177 ILRAGNNHEKEYIVTVNKPITDEFIKGMSNGVPILGTVTKKCLV----KKESKNSFRIIL 232 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +G NR+I+++ E+F ++V +L RI LG L GS R ++KK L E Sbjct: 233 TQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKMGSWRYLTKKELAE 282 >gi|332674227|gb|AEE71044.1| RNA pseudouridine synthase [Helicobacter pylori 83] Length = 262 Score = 96.7 bits (239), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 66/241 (27%), Positives = 123/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKSLKNKK 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ G V ++ N +++G+ ++ G Q T Sbjct: 126 ALMHANLE--KEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKIRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 K 239 + Sbjct: 244 Q 244 >gi|257469859|ref|ZP_05633951.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium ulcerans ATCC 49185] gi|317064088|ref|ZP_07928573.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium ulcerans ATCC 49185] gi|313689764|gb|EFS26599.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium ulcerans ATCC 49185] Length = 226 Score = 96.7 bits (239), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 75/230 (32%), Positives = 115/230 (50%), Gaps = 17/230 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--RKAE- 71 R+ K + G+ SRREV+ ++ + VNG + + +N+ D D V RK E Sbjct: 2 RLDKFLTECGLGSRREVKELLNTGEITVNGAVADNPQMNIKEND----DEVFYQERKLEY 57 Query: 72 -RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDG 128 + R ++ +K G +T D + TV D LP I + VGRLD +TEGLLLLT+DG Sbjct: 58 KKFRYYILNKKAGYITAVGDARDQ-TVMDLLPDWVIKKDLAPVGRLDKDTEGLLLLTSDG 116 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLDTQKGSNA 187 L L P + Y ++ + L L+ G+ I G I V +D+ K Sbjct: 117 ALNHKLLSPKNHVEKTYYAELEKEISEADLERLRNGVDIGGYITMPGKAVKIDSCK---- 172 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + ++EGK ++KK+ E KV L R+S+G +L L G+ +EVS Sbjct: 173 -IHLTIKEGKFHQVKKMLEAVGNKVTFLRRVSFGKLKLEDLELGAVKEVS 221 >gi|257466391|ref|ZP_05630702.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium gonidiaformans ATCC 25563] gi|315917547|ref|ZP_07913787.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium gonidiaformans ATCC 25563] gi|313691422|gb|EFS28257.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium gonidiaformans ATCC 25563] Length = 238 Score = 96.7 bits (239), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 69/221 (31%), Positives = 119/221 (53%), Gaps = 3/221 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RKAERT 73 R++K +A G+ASRR+++ I + ++ VNGIL + V + D I V+G + K E+ Sbjct: 7 RINKFLASKGVASRRQIDLWIEEGKILVNGILAT-SGQKVSAEDKILVNGKMISEKEEKK 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +K +++ D GR TV D +P+ +R+ VGRLD T GL+LLTNDG L Sbjct: 66 VYYILYKEEEVLSAVKDERGRKTVVDCIPTK-ARIFPVGRLDYRTSGLILLTNDGELFNR 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y V G + +++L L++G+ ++ + V + N + + + Sbjct: 125 VMHPRAEIFKTYEVLAKGHLTREQLKTLEEGVELEEGKTLEALVAKVKYEKGNTFFEISI 184 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 REG+NR+I+++ E +V +L R G L L G R Sbjct: 185 REGRNRQIRRMVEAVGSRVYQLRRTKIGRLSLEGLKLGQYR 225 >gi|149192366|ref|ZP_01870569.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio shilonii AK1] gi|148833805|gb|EDL50839.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio shilonii AK1] Length = 342 Score = 96.7 bits (239), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 65/206 (31%), Positives = 105/206 (50%), Gaps = 9/206 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +++I QQRV +NG + E V+S D++E+DG P+R E+ Sbjct: 8 KRLNKYISETGFCSRREADKLIEQQRVTINGKIPE-MGTKVLSGDNVEIDGKPVRSKEKP 66 Query: 74 RLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 67 VYIALNKPTGITCTTERDVPGNIVDF---VGHHKRIFPIGRLDKPSDGLIFLTNDGDIVN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y VR V +D L + G+ I +V +T+ +T G Sbjct: 124 KILRAGNNHEKEYVVRVDKPVTRDFLKKMGSGVAILDTVTLPCRVEQETKFSFRITLTQG 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRI 218 L NR+I+++ E ++V +L R+ Sbjct: 184 L----NRQIRRMCEALGFEVLKLRRV 205 >gi|91200876|emb|CAJ73931.1| conserved hypothetical protein [Candidatus Kuenenia stuttgartiensis] Length = 260 Score = 96.7 bits (239), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 73/233 (31%), Positives = 117/233 (50%), Gaps = 14/233 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH----IEVDGVPLRK 69 +R+ KV+A AGI SRRE E +I RV V+G ER + D I DG+P+R Sbjct: 3 ERLQKVLASAGIGSRRECENVILAGRVTVDG---ERVTALGATVDAGKSVIYCDGMPIR- 58 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E +L +KP + T+ D R D + ++ R+ ++GRLD +EGL+++TNDG Sbjct: 59 PEAKIYYLLNKPKDCLCTNYDELNRLRAIDIIKNVKQRLYTIGRLDKQSEGLIIITNDGE 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-VTLDTQKGS--N 186 L+ L P + + Y + G + + + L+ G+ + +G Q V + S Sbjct: 119 LSNKLSHPKYEVNKTYFIEIDGYLSNETITALQSGV---WLAFGKTQPVRIKKMHRSFKK 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + L EGKNREI+++ KV L RI G L G R+++++ Sbjct: 176 SRFEMILCEGKNREIRRMLADHGHKVRTLRRIKIGSLCDPDLKVGKYRKLTEQ 228 >gi|291276387|ref|YP_003516159.1| putative ribosomal pseudouridine synthase [Helicobacter mustelae 12198] gi|290963581|emb|CBG39413.1| putative ribosomal pseudouridine synthase [Helicobacter mustelae 12198] Length = 273 Score = 96.7 bits (239), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 75/244 (30%), Positives = 120/244 (49%), Gaps = 25/244 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+++ IA SRRE + +IAQ RV V ++ AV + + VDG LR+ + Sbjct: 2 RLNQYIAHHSKYSRREADGLIAQGRVNVE----KKKAVLGQELKEGQRVFVDGKQLREKK 57 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + +YHKP G + T SD GR ++FD+L ++ VGRLD +EGLLLL++D Sbjct: 58 DGPSTVIVYHKPKGELVTRSDDRGRRSIFDSLGRRYAHFTPVGRLDFASEGLLLLSDDKK 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT----------- 178 +A L + R Y ++ G V + ++ G+ ++ G + + Sbjct: 118 IAHF--LMQSDLEREYILKISGAVTEKMKEAMENGLELEDARAGGHEKSKIQKMSFKPFA 175 Query: 179 -LDTQKGSNAWVTVGLR--EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 QK + + +R EGKNRE+++ F F +V L R+ YG L L G R Sbjct: 176 FYQIQKNDRNFSKLKVRITEGKNRELRRFFAHFKAEVLDLRRVGYGFVTLSALPVGKVRF 235 Query: 236 VSKK 239 +SK+ Sbjct: 236 LSKE 239 >gi|163791560|ref|ZP_02185963.1| hypothetical protein CAT7_05483 [Carnobacterium sp. AT7] gi|159873165|gb|EDP67266.1| hypothetical protein CAT7_05483 [Carnobacterium sp. AT7] Length = 239 Score = 96.7 bits (239), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 76/236 (32%), Positives = 125/236 (52%), Gaps = 13/236 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K++A G +R+ V+ ++ + V VNG++ + +V TD IEV G ++ E Sbjct: 2 RLDKLLANMGFGTRKTVKNVLKAKEVTVNGLVEKDGKTHVNPETDKIEVSGEVIQYQEFM 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---VGRLDINTEGLLLLTNDGGL 130 L HKP G+V+ +D ++ + +L +V+ VGRLD +TEGLL+LTNDG L Sbjct: 62 YFML-HKPQGVVSATTDHVHKTVI--DLLQPQDQVMDPFPVGRLDKDTEGLLILTNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQ---VTLDTQKGSN 186 A L P + Y G VD+ + + GI + G + +++D +K S+ Sbjct: 119 AHNLLSPKKHVDKCYEAIIEGVVDEQDVQAFENGITLDDGFNCQSAKLEILSVDFEKESS 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + V + EGK ++K++FE + V L R+S G QL TL G R+++K+ L Sbjct: 179 V-IQVTIHEGKFHQVKRMFEAVDKSVIYLKRLSMGSLQLDETLELGEYRQLTKEEL 233 >gi|111017942|ref|YP_700914.1| pseudouridylate synthase ribosomal large subunit [Rhodococcus jostii RHA1] gi|110817472|gb|ABG92756.1| pseudouridylate synthase ribosomal large subunit [Rhodococcus jostii RHA1] Length = 241 Score = 96.7 bits (239), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 75/229 (32%), Positives = 118/229 (51%), Gaps = 6/229 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KV+A+AG+ASRR E +I+Q RV+V+G ++ + + + + ++ Sbjct: 2 RLQKVLAQAGVASRRAAEELISQGRVEVDGRIVIEQGLRIDPENAVVRVDGVRVVVQKDL 61 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP G +T SD GR V D + + R+ VGRLD +TEGLLLLTNDG L Sbjct: 62 VHLALNKPRGWQSTMSDDLGRPCVGDIVSERVAAGQRLFHVGRLDADTEGLLLLTNDGDL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G +++ LK+G+ + G D LD +G + V Sbjct: 122 AHRLMHPSFEVSKTYLATVSGALERGVGKKLKEGVELDDGPAKVDTFTLLDINEG-KSLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V L EG+ ++++F+ V RL+R G LG G+ R + + Sbjct: 181 RVTLHEGRKHIVRRLFDAVGHPVIRLVRTDIGAVALGDQRPGTLRVLGR 229 >gi|283953680|ref|ZP_06371211.1| RNA pseudouridine synthase family protein [Campylobacter jejuni subsp. jejuni 414] gi|283794721|gb|EFC33459.1| RNA pseudouridine synthase family protein [Campylobacter jejuni subsp. jejuni 414] Length = 253 Score = 96.7 bits (239), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 74/234 (31%), Positives = 116/234 (49%), Gaps = 17/234 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ SRRE + +I Q VK+N + + V D I + G ++K + Sbjct: 2 RINKFVSHNTRYSRREADELIKQGLVKINN-KIALLSDEVKFDDKIFIKGKRVQKKTQFS 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A L Sbjct: 61 VIIYHKQKGEIVSKKDDRGRKTIYDTLPKQFSTWLSVGRLDYASEGLLLLTDSPVIADAL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----------- 183 + R Y ++ G V + + ++ G+ I+ G T T Sbjct: 121 MHSDLE--REYYLKVKGIVTKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIGFEIF 178 Query: 184 GSNAWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 GS+ T V + EGKNRE+++ F F+ +V L R+++G LG L G R Sbjct: 179 GSSGGYTKLRVIINEGKNRELRRFFGHFDVEVMDLKRVAFGVLDLGMLKPGKHR 232 >gi|295688343|ref|YP_003592036.1| RNA-binding S4 domain-containing protein [Caulobacter segnis ATCC 21756] gi|295430246|gb|ADG09418.1| RNA-binding S4 domain protein [Caulobacter segnis ATCC 21756] Length = 256 Score = 96.7 bits (239), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 71/240 (29%), Positives = 130/240 (54%), Gaps = 21/240 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 PQRV+K +A++G+ SRRE E++I+ V ++G ++E + + + K + Sbjct: 12 PQRVNKWLAQSGVCSRREAEQLISDGLVSIDGEVVEDVGRKIQPGQTLVLADRATAKLDG 71 Query: 73 TRLWLYHKPIGLVTTHSDPD--------GRSTVFDN-----LPSIFSRVISVGRLDINTE 119 T +L HKP G+V++ DP R+ ++ + +P + VGRLD ++ Sbjct: 72 TPTYLIHKPRGVVSSQPDPGQVPAARLLTRANLWGDARGVAIPQSGDLIPPVGRLDKDSR 131 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQV 177 GLLLL+ DG +A+ + P + + YRV G++ ++KL LL+ G+ + G + +++V Sbjct: 132 GLLLLSQDGVVAKAVIGPQSDLEKEYRVAVMGELTEEKLELLRFGLELDGRELRPAEVEV 191 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 D + ++ LREG+NR+I+++ + + KV L R+ GP LG + G R ++ Sbjct: 192 ISDQR------LSFVLREGRNRQIRRMCDLVDLKVVDLFRVRIGPLDLGDMPEGRWRPLT 245 >gi|209695446|ref|YP_002263375.1| ribosomal large subunit pseudouridine synthase F [Aliivibrio salmonicida LFI1238] gi|208009398|emb|CAQ79672.1| ribosomal large subunit pseudouridine synthase F [Aliivibrio salmonicida LFI1238] Length = 314 Score = 96.7 bits (239), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 69/226 (30%), Positives = 120/226 (53%), Gaps = 13/226 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I QQR+ +NG + E V D + VDG PL KA++ R Sbjct: 10 RLNKYISDTGYCSRREADKLIDQQRITINGNVPE-MGTKVAEGDDVLVDGKPL-KAKQER 67 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +++ ++KP+G+ T S+ + D + + R+ +GRLD ++GL+ LT+DG + Sbjct: 68 IYIAFNKPVGITCT-SERHVEGNIIDYI-NHEQRIFPIGRLDKPSDGLIFLTSDGDIVNK 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + + Y VR + D L + G+ I VTL Q + S + Sbjct: 126 ILRAGNAHEKEYVVRVDKPITDDFLAQMAAGVPILDT------VTLPCQVKQESRFVFRI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L +G NR+I+++ E+ +++V +L R+ LGTL +G R ++ Sbjct: 180 TLTQGLNRQIRRMCEYLDYEVFKLKRVRIMNIDLGTLASGEWRYLT 225 >gi|170728200|ref|YP_001762226.1| pseudouridine synthase [Shewanella woodyi ATCC 51908] gi|169813547|gb|ACA88131.1| pseudouridine synthase [Shewanella woodyi ATCC 51908] Length = 245 Score = 96.7 bits (239), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 68/240 (28%), Positives = 113/240 (47%), Gaps = 16/240 (6%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG--------ILLERAAVNVMSTD 58 ++ N T R++K +A+ G+ SRR R I + + G + L + S++ Sbjct: 1 MEHNPTQMRLAKYLAQTGLCSRRAATRYIRDGLITIEGRIANHIDTVTLIETPQGIESSE 60 Query: 59 HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + DG P+ E W +HK +G + D S++ LP+ R+ VGRLD ++ Sbjct: 61 QLTFDGAPISAVEEKEYWAFHKAVG-TDSRLLIDDSSSLLHLLPAT-PRLYPVGRLDKDS 118 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLLLTNDG L + L P ++Y VR D + L + QG+ Y D+ Sbjct: 119 RGLLLLTNDGELTQTLMHPDFGHSKIYHVRVDRDFDDNFLQAMA-----QGVSYRDVTTL 173 Query: 179 LDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 T + + + L +G NR+I+++ + +KV L R+ LG L G R+++ Sbjct: 174 PCTLTRLAKDQFEITLTQGLNRQIRRMSQALGFKVIDLKRVKIQSLALGDLKEGEMRQLT 233 >gi|113969261|ref|YP_733054.1| pseudouridine synthase, Rsu [Shewanella sp. MR-4] gi|113883945|gb|ABI37997.1| Pseudouridine synthase, Rsu [Shewanella sp. MR-4] Length = 241 Score = 96.7 bits (239), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 71/230 (30%), Positives = 120/230 (52%), Gaps = 10/230 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERA-AVNV----MSTDHIEVDGVPLRK 69 R++K +A+ GI+SRRE R+I R+ +NG + + AV+V + D + +D P+ Sbjct: 2 RLAKYLAQCGISSRREACRLIEAGRISLNGKIAKHTDAVHVDADGLCLDSLCLDEKPISG 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E WL++K +G D D +S++ LP+ R+ VGRLD ++ GLLLLTNDG Sbjct: 62 VEALSYWLFNKAVGTDCRLLDAD-KSSLLHLLPAT-PRLYPVGRLDKDSRGLLLLTNDGE 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNA 187 L L PS + Y V+ + + + G+ + + +++ TL Q + S+ Sbjct: 120 LTHKLMHPSFAHSKTYHVQLDSPFNDAFIEQMACGVQYKEVRNKEVR-TLPCQVTRLSDV 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ +KV L R++ LG+L G R +S Sbjct: 179 SFEIVLTQGLNRQIRRMSNALGYKVIDLQRVALMTLTLGSLAEGEMRPLS 228 >gi|188995083|ref|YP_001929335.1| ribosomal large subunit pseudouridine synthase B [Porphyromonas gingivalis ATCC 33277] gi|188594763|dbj|BAG33738.1| ribosomal large subunit pseudouridine synthase B [Porphyromonas gingivalis ATCC 33277] Length = 439 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 67/249 (26%), Positives = 126/249 (50%), Gaps = 21/249 (8%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K + ++ + P R++K ++ AG+ SRRE + +I + + VNG ++ + D + Sbjct: 191 VKYREVLADPNEPIRLNKFLSNAGVCSRREADLLIEKGEITVNGEVVTELGRRITRQDEV 250 Query: 61 EVDGVPLRKAERTRLW-----LYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRL 114 + K +R + L +KP VTT DP+ R+TV D + + R+ VGRL Sbjct: 251 ------IYKDKRVEIESKVYVLLNKPKNCVTTSDDPECRTTVMDIVRYACPERIYPVGRL 304 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D NT G+LL+TNDG LA L PS + ++Y V + V + + + G+ + D Sbjct: 305 DRNTTGVLLITNDGDLASKLTHPSFKKKKIYHVWLNKDVSIEDMQKIADGVELD-----D 359 Query: 175 MQVTLDT----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 ++ D ++ + V + + G+NR ++++FE ++V +L R+ + L Sbjct: 360 GEIHADAISYVKEDDLSQVGIEIHSGRNRIVRRLFEHLGYRVVKLDRVYFAGLTKKNLPR 419 Query: 231 GSTREVSKK 239 G R ++++ Sbjct: 420 GKWRYLNEQ 428 >gi|261408369|ref|YP_003244610.1| pseudouridine synthase [Paenibacillus sp. Y412MC10] gi|261284832|gb|ACX66803.1| pseudouridine synthase [Paenibacillus sp. Y412MC10] Length = 253 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 82/246 (33%), Positives = 124/246 (50%), Gaps = 24/246 (9%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKA 70 T QR+ KV++ G SR E+++ Q + VNG + + +V D IE +G ++ Sbjct: 7 TTQRLDKVLSNLGFGSRAELKKKAKQGSIVVNGTVTKDPGKHVDPYADIIEFEGETIQYR 66 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---VGRLDINTEGLLLLTND 127 E L L HKP G+V+ D R TV D L + + RV VGRLD +TEGLLLLTND Sbjct: 67 EYVYLML-HKPPGVVSATEDLRDR-TVLDLLDAEY-RVFEPFPVGRLDKDTEGLLLLTND 123 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P + Y G+VD++ + G+ + D VTL + ++ Sbjct: 124 GKLAHELLSPRKHIPKTYEATVEGRVDEEDVRRFAAGVTLD-----DGYVTLPGELAIHS 178 Query: 188 W-----------VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTRE 235 +++ + EGK ++K++FE KV L RIS G +L L G+ RE Sbjct: 179 HEEREDGVQLSRISLTIHEGKFHQVKRMFEAVGKKVVYLKRISMGELRLDENLEIGTYRE 238 Query: 236 VSKKIL 241 ++++ L Sbjct: 239 LTEQEL 244 >gi|168186328|ref|ZP_02620963.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum C str. Eklund] gi|169295670|gb|EDS77803.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum C str. Eklund] Length = 236 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 66/216 (30%), Positives = 103/216 (47%), Gaps = 2/216 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I RV+VNG ++ V S D + VD + E+ Sbjct: 3 ERLQKYMASCGVASRRKCEEIITSNRVQVNGTVVNELGFKVDPSKDKVYVDSKLIFLEEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G V+T D R T+ D L + R+ +GRLD NT GLLL+TNDG + Sbjct: 63 NVYIALNKPEGYVSTVKDERDRKTIMD-LVEVEERIFPIGRLDYNTSGLLLMTNDGDVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY G + + G+ I + + + V + Sbjct: 122 KIIHPRKEIDKVYIAIIKGIPSNEAIRKFCNGLDIGDYITSKANFEVIDTSENKSKVKIT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + EGKNR+++++ + V L RIS G L L Sbjct: 182 IHEGKNRQVRRMCDKIGHPVIALKRISVGKISLNYL 217 >gi|166030628|ref|ZP_02233457.1| hypothetical protein DORFOR_00294 [Dorea formicigenerans ATCC 27755] gi|166029630|gb|EDR48387.1| hypothetical protein DORFOR_00294 [Dorea formicigenerans ATCC 27755] Length = 246 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 77/250 (30%), Positives = 126/250 (50%), Gaps = 30/250 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERA--AVNVMSTDHIEVDGVPLRKAER 72 R++K ++ AG+ SRRE +R+I RV V+G+ RA + V I V ++ AE+ Sbjct: 3 RLNKYLSEAGVCSRREADRLIEAGRVTVDGV---RAVPGMKVSEEQKICVGKKVIQGAEQ 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGG 129 + +KP G+V T G V +N+ RV GRLD ++EGLL++TNDG Sbjct: 60 KVVLAVNKPAGIVCT-----GDMKVKNNIIRFLHYPVRVTYAGRLDKDSEGLLIMTNDGE 114 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-------- 181 L + + Y VR ++ + + + +G+ IQ D++ LD Sbjct: 115 LINSMMRARYHHEKEYHVRVDKEITSEFVRQMSEGVHIQ-----DVEKNLDAVTRPCEVK 169 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK--- 238 Q G + + L +G NR+I+++ E +KV +L+RI +LG+L +G+ R++ Sbjct: 170 QIGKYTFSII-LTQGLNRQIRRMCEALGYKVTKLVRIRIMNVELGSLKSGAVRKIEGQEL 228 Query: 239 KILREQLGPH 248 K L EQ G H Sbjct: 229 KKLYEQAGTH 238 >gi|16125108|ref|NP_419672.1| RNA pseudouridylate synthase [Caulobacter crescentus CB15] gi|221233835|ref|YP_002516271.1| ribosomal large subunit pseudouridine synthase F [Caulobacter crescentus NA1000] gi|13422112|gb|AAK22840.1| RNA pseudouridylate synthase, putative [Caulobacter crescentus CB15] gi|220963007|gb|ACL94363.1| ribosomal large subunit pseudouridine synthase F [Caulobacter crescentus NA1000] Length = 255 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 128/237 (54%), Gaps = 21/237 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 PQRV+K +A++G+ SRRE E++I+ V ++G ++E + + + K + Sbjct: 12 PQRVNKWLAQSGVCSRREAEQLISDGLVSIDGEVVEDVGRKIQPGQTLTLADRATAKLDA 71 Query: 73 TRLWLYHKPIGLVTTHSDPD--------GRSTVFDN-----LPSIFSRVISVGRLDINTE 119 +L HKP G+V++ DP R+ ++ + +P + +GRLD ++ Sbjct: 72 VPTYLVHKPRGVVSSQPDPGQVPAARLLTRANLWGDARGVAIPQSGDLIPPIGRLDKDSR 131 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQV 177 GLLLL+ DG +A+ + P ++ + YRV G++ ++KL LL+ G+ + G + +++V Sbjct: 132 GLLLLSQDGVVAKAVIGPQSELEKEYRVAVMGELTEEKLELLRFGLELDGRELRPAEVEV 191 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 D + ++ LREG+NR+I+++ E + KV L R+ GP LG + G R Sbjct: 192 ISDQR------LSFVLREGRNRQIRRMCELVDLKVVDLFRVRVGPLDLGDMPEGHWR 242 >gi|311110505|ref|ZP_07711902.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus gasseri MV-22] gi|311065659|gb|EFQ45999.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus gasseri MV-22] Length = 240 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 69/229 (30%), Positives = 115/229 (50%), Gaps = 8/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV +I ++ V VNG L+ V TD + VDG + ++ Sbjct: 9 RIDKYLANMNVGSRKEVHSLIKKKVVTVNGELVTIPKQQVKETDLVAVDGNKIA-YQQYH 67 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G+++ D + TV L + + + VGRLD +T GLLLLTNDG LA Sbjct: 68 YFLLNKPKGVISATED-RSQQTVISLLKTKDRYQGIAPVGRLDKDTTGLLLLTNDGALAH 126 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWV 189 L P+ +VYR + G D + +G+++ + +++ Q + + + Sbjct: 127 ELLAPNKHVAKVYRAKIAGVPDPETAKKFAQGLILGDGTKLKPAKLKILKQDQDNNLSQI 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 + ++EGK +IK++F KV L R+S G L L G +E+ Sbjct: 187 EIQIQEGKYHQIKRMFGAVGMKVLELDRVSMGKLHLPADLKRGEYKEID 235 >gi|108563881|ref|YP_628197.1| hypothetical protein HPAG1_1456 [Helicobacter pylori HPAG1] gi|107837654|gb|ABF85523.1| ribosomal large subunit pseudouridine synthase B [Helicobacter pylori HPAG1] Length = 262 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 66/241 (27%), Positives = 123/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ G V ++ N +++G+ ++ G Q T Sbjct: 126 TLMHANLE--KEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 K 239 + Sbjct: 244 Q 244 >gi|288575064|ref|ZP_06393421.1| pseudouridine synthase [Dethiosulfovibrio peptidovorans DSM 11002] gi|288570805|gb|EFC92362.1| pseudouridine synthase [Dethiosulfovibrio peptidovorans DSM 11002] Length = 238 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 68/218 (31%), Positives = 111/218 (50%), Gaps = 2/218 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ +A G+ASRR E +I RVKV + A+++ D + VDG + +++ Sbjct: 2 RLNRYLALCGVASRRRSEDIIRTGRVKVENVTATDPAMDISEEDQVSVDGKSV-CFQKSV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G V D + V P + + R+ VGRLD +EGLL+LTNDG Sbjct: 61 YIVMNKPKGYVCAVEDRFYPTVVGLLSPDLRAKRIYPVGRLDRQSEGLLVLTNDGDFCNS 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + + Y V + ++ L +KG+ I G + + + +K + WV++ L Sbjct: 121 LIHPSAGYQKTYEVLLGEALTEENLFSWRKGVPINGKVVSPVSIRVMDRKPARRWVSIVL 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +EG REI+ + F+ VN L R G +L L +G Sbjct: 181 QEGLKREIRIMASHFSLSVNVLFRRKVGRMELRKLKSG 218 >gi|188528230|ref|YP_001910917.1| hypothetical protein HPSH_07470 [Helicobacter pylori Shi470] gi|188144470|gb|ACD48887.1| hypothetical protein HPSH_07470 [Helicobacter pylori Shi470] Length = 257 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 66/236 (27%), Positives = 119/236 (50%), Gaps = 19/236 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 61 FSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ G V ++ N +++G+ ++ G Q T Sbjct: 121 ALMHANLE--KEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R Sbjct: 179 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMR 234 >gi|167038569|ref|YP_001666147.1| pseudouridine synthase [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|307266602|ref|ZP_07548133.1| pseudouridine synthase [Thermoanaerobacter wiegelii Rt8.B1] gi|320116965|ref|YP_004187124.1| pseudouridine synthase [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|166857403|gb|ABY95811.1| pseudouridine synthase [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|306918399|gb|EFN48642.1| pseudouridine synthase [Thermoanaerobacter wiegelii Rt8.B1] gi|319930056|gb|ADV80741.1| pseudouridine synthase [Thermoanaerobacter brockii subsp. finnii Ako-1] Length = 241 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 77/233 (33%), Positives = 122/233 (52%), Gaps = 9/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K+++ GI +R+EV++ I + V VNG ++ A + V +D I DG + E Sbjct: 5 RIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIVDTESDEILFDGEKINYKEFI 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 + + +KP G+++ D + TV D LP VGRLD +TEGLLL+TNDG LA Sbjct: 65 YIMI-NKPKGVISATYD-EVEKTVIDLLPQELKARNPFPVGRLDKDTEGLLLITNDGDLA 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWV 189 L P ++ Y G V++ + +GI+++ Y + L+ S+ + V Sbjct: 123 HQLLSPKKNVIKKYYAEILGFVNESDIKAFNEGIILED-GYKTLPANLEILFSSSDVSKV 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V +REGK +IK++FE KV L R++ G L L G RE+S++ L Sbjct: 182 YVYIREGKYHQIKRMFESVGKKVIYLKRLAMGSLTLDENLKPGEWRELSEEEL 234 >gi|225377123|ref|ZP_03754344.1| hypothetical protein ROSEINA2194_02768 [Roseburia inulinivorans DSM 16841] gi|225211028|gb|EEG93382.1| hypothetical protein ROSEINA2194_02768 [Roseburia inulinivorans DSM 16841] Length = 260 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 63/232 (27%), Positives = 118/232 (50%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ AG+ SRRE +R + + ++G + E A V+ + G + K E Sbjct: 7 RINKFLSEAGVCSRREADRQVELGNITIDGKVAETGA-RVLPGQTVLFQGKKVSKEEEMI 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +HKP+G+V T + + + + N P R+ +GRLD ++EGLLLLTN+G + Sbjct: 66 LIAFHKPVGIVCTAEKREKNNVIDYINYPK---RIYPIGRLDKDSEGLLLLTNNGDIVNK 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + V + ++ L G+ + + M ++ + L Sbjct: 123 MMRSGNMHEKEYIVTVNRPVTESFIHGLANGVPLAEL--NTMTRKCHVKQIGKKQFKIIL 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +G NR+I+++ E+F ++V +L+R +LG L G+ R+V+ + R+ L Sbjct: 181 TQGLNRQIRRMCEYFGYRVEKLVRTRIMNIELGDLPVGTYRDVTTEEYRQLL 232 >gi|52081501|ref|YP_080292.1| putative pseudouridine synthase YtzF [Bacillus licheniformis ATCC 14580] gi|52786879|ref|YP_092708.1| hypothetical protein BLi03154 [Bacillus licheniformis ATCC 14580] gi|319647410|ref|ZP_08001631.1| pseudouridine synthase [Bacillus sp. BT1B_CT2] gi|52004712|gb|AAU24654.1| putative Pseudouridine synthase YtzF [Bacillus licheniformis ATCC 14580] gi|52349381|gb|AAU42015.1| putative protein [Bacillus licheniformis ATCC 14580] gi|317390456|gb|EFV71262.1| pseudouridine synthase [Bacillus sp. BT1B_CT2] Length = 240 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 76/229 (33%), Positives = 119/229 (51%), Gaps = 7/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K+++ +G SR+EV++M+ V+VN L++ A +V +D I V G P+ E Sbjct: 2 RLDKLLSNSGYGSRKEVKKMLKNGAVRVNDQLVKDAKKHVDPESDDITVYGAPVMYREFI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 L + +KP G+++ D + TV D L R VGRLD +TEGLLLLTNDG LA Sbjct: 62 YLMM-NKPQGVLSATED-SRQETVVDLLDPELLRFEPFPVGRLDKDTEGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V + +DQ L+ L+KG+ I +G + +L + + Sbjct: 120 HQLLSPKKHVPKTYEVHVNKPIDQAALDQLEKGVDIGEGYVTKPAEASLLASENGVERLL 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + + EGK ++K++ + V L R+ G L LL G RE+S+ Sbjct: 180 LTITEGKFHQVKRMLKAVGHDVIYLKRLKMGDVDLDEELLPGEYRELSE 228 >gi|238853950|ref|ZP_04644307.1| RNA pseudouridine synthase family protein [Lactobacillus gasseri 202-4] gi|282851629|ref|ZP_06260994.1| pseudouridylate synthase [Lactobacillus gasseri 224-1] gi|238833395|gb|EEQ25675.1| RNA pseudouridine synthase family protein [Lactobacillus gasseri 202-4] gi|282557597|gb|EFB63194.1| pseudouridylate synthase [Lactobacillus gasseri 224-1] Length = 233 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 69/229 (30%), Positives = 115/229 (50%), Gaps = 8/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV +I ++ V VNG L+ V TD + VDG + ++ Sbjct: 2 RIDKYLANMNVGSRKEVHSLIKKKVVTVNGELVTIPKQQVKETDLVAVDGNKI-AYQQYH 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G+++ D + TV L + + + VGRLD +T GLLLLTNDG LA Sbjct: 61 YFLLNKPKGVISATED-RSQQTVISLLKTKDRYQGIAPVGRLDKDTTGLLLLTNDGALAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWV 189 L P+ +VYR + G D + +G+++ + +++ Q + + + Sbjct: 120 ELLAPNKHVAKVYRAKIAGVPDPETAKKFAQGLILGDGTKLKPAKLKILKQDQDNNLSQI 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 + ++EGK +IK++F KV L R+S G L L G +E+ Sbjct: 180 EIQIQEGKYHQIKRMFGAVGMKVLELDRVSMGKLHLPADLKRGEYKEID 228 >gi|88860840|ref|ZP_01135476.1| putative ribosomal RNA pseudouridylate synthase [Pseudoalteromonas tunicata D2] gi|88817053|gb|EAR26872.1| putative ribosomal RNA pseudouridylate synthase [Pseudoalteromonas tunicata D2] Length = 229 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 72/227 (31%), Positives = 116/227 (51%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ SRR+ R+I Q V VNG + + V + D I V+ L Sbjct: 6 RLAKYIANAGLCSRRQASRLIDQGLVTVNGGIADHICF-VGTDDVITVNDELLVYQTEQV 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L++KP+G + + P+ +++ LPS R+ +GRLD ++ GL++LTNDG L + Sbjct: 65 YYLFNKPVG-IDSRLLPNDSASLIHLLPSEI-RIYPIGRLDKDSYGLMILTNDGELYHQM 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT---QKGSNAWVTV 191 P + YRV +D + N + +GI + G Q+T Q N + V Sbjct: 123 NHPDHHQEKEYRVSVERPIDANFCNKMAQGIPVDG------QLTQPCSVWQTAENEFHIV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L +G NR+I+K+ + +KV L RI +G L AG + ++K Sbjct: 177 -LTQGLNRQIRKMAKHCGYKVVDLERIRIANLAIGDLSAGEFKTLTK 222 >gi|319946247|ref|ZP_08020487.1| ribosomal small subunit pseudouridine synthase A [Streptococcus australis ATCC 700641] gi|319747629|gb|EFV99882.1| ribosomal small subunit pseudouridine synthase A [Streptococcus australis ATCC 700641] Length = 247 Score = 96.3 bits (238), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 66/220 (30%), Positives = 114/220 (51%), Gaps = 7/220 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ SR EV++++ +++++VNG + +++ D + G L E Sbjct: 7 RLDKYLVDCGVGSRTEVKQVLKKKKIQVNGKVETSPKIHIDPDKDQVTYLGESLFHEEFV 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 67 -YYLLNKPKGVISATED-DHHQTVLDLLDDTARHKEVFPVGRLDIDTHGLLLLTNNGKLA 124 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNAWV 189 + P +VYR + G + Q+ ++ K+GI ++ ++++ Q+ ++ V Sbjct: 125 HAMLSPKKHVDKVYRAQVAGIMTQEDIDRFKEGIELKDFTTLPAELEMLEVDQEANSCLV 184 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + EGK ++K++ +V L RIS GP L L Sbjct: 185 QIRIAEGKFHQVKRMVAACGKEVTDLERISMGPLSLDPAL 224 >gi|161507296|ref|YP_001577250.1| 16S pseudouridylate synthase [Lactobacillus helveticus DPC 4571] gi|160348285|gb|ABX26959.1| 16S Pseudouridylate synthase [Lactobacillus helveticus DPC 4571] gi|328468687|gb|EGF39674.1| 16S pseudouridylate synthase [Lactobacillus helveticus MTCC 5463] Length = 236 Score = 96.3 bits (238), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 118/234 (50%), Gaps = 11/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV +I + V VNG +++ V +D + VDG + ++ Sbjct: 2 RIDKYLANMNVGSRKEVHVLIKKGIVTVNGDVVKTPKQQVKESDEVLVDGQEVN-YQKYH 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D R+ + P + + VGRLD +T GLLLLTNDG L Sbjct: 61 YFLMNKPKGVLSATEDRSQRTVISLLKPQDQYQGITPVGRLDKDTTGLLLLTNDGQLNHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWVT 190 L P+ ++YR + G D + + G+ + + ++++ + ++ ++ + Sbjct: 121 LLAPNKHVDKIYRAKIAGVADDETVKTFASGMTLGDGTKLKPAELKILVQDEEHDSSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL------GTLLAGSTREVSK 238 + +REGK +IK++F KV L RIS G +L G + S +VSK Sbjct: 181 IKIREGKYHQIKRMFGAVGMKVVELERISMGKLKLPKDLKRGNYIELSLDDVSK 234 >gi|317010168|gb|ADU80748.1| ribosomal large subunit pseudouridinesynthase B [Helicobacter pylori India7] Length = 257 Score = 96.3 bits (238), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 65/241 (26%), Positives = 124/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDRVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ + VGRLD +EG+L+L++ + Sbjct: 61 FSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFVPVGRLDFASEGVLILSDSKAVVS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ G V ++ N +++G+ ++ G Q T Sbjct: 121 ALMHANLE--KEYLVKIQGFVTREIENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 179 IIKNHAKYSKLRVVINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 238 Query: 239 K 239 + Sbjct: 239 Q 239 >gi|218133030|ref|ZP_03461834.1| hypothetical protein BACPEC_00891 [Bacteroides pectinophilus ATCC 43243] gi|217991903|gb|EEC57907.1| hypothetical protein BACPEC_00891 [Bacteroides pectinophilus ATCC 43243] Length = 238 Score = 95.9 bits (237), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 67/227 (29%), Positives = 115/227 (50%), Gaps = 10/227 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKA 70 +R++K ++ AG SRRE +R++ RV ++G+ AAV V + VDG + Sbjct: 4 ERINKYLSEAGYCSRREADRLVEAGRVTIDGV----AAVCGSKVADGQKVCVDGKEVSGR 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R L ++KP G+V T +D G + + D R+ VGRLD ++EGL+L+TNDG + Sbjct: 60 SRHILLAFNKPAGIVCTTTDKQGSNNIVD-FIGYPERIYPVGRLDKDSEGLILMTNDGAM 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + Y VR + V + + + G+ ++ + +K + Sbjct: 119 MDRILRSTNGHEKEYIVRVNKPVTDEFVKGMSDGVYLKEL--DRTTKVCVVEKVTKFCFR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F +KV +L RI LG L G R+V+ Sbjct: 177 IVLTQGLNRQIRRMCENFGYKVMKLKRIRIMNIMLGDLKQGCYRDVT 223 >gi|254284223|ref|ZP_04959191.1| ribosomal small subunit pseudouridine synthase A [gamma proteobacterium NOR51-B] gi|219680426|gb|EED36775.1| ribosomal small subunit pseudouridine synthase A [gamma proteobacterium NOR51-B] Length = 311 Score = 95.9 bits (237), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 72/226 (31%), Positives = 114/226 (50%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ R+ V M+AQ RV ++G+L AA + I VDGV L Sbjct: 91 RLDKHLSKQTGVPRKAVRLMLAQARVTIDGVLARDAAEVINPFSRIAVDGVGL-PTNTPH 149 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 + +KP G+V D R TV D L F + VGRLDI + GL+LLTNDG +R Sbjct: 150 YIMLNKPSGVVCATRDARHR-TVIDILDLPFQHTLHIVGRLDIQSTGLVLLTNDGQWSRR 208 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 L LP +++ + YRV + +++ + GI +G+ ++ L +N V Sbjct: 209 LSLPQSKFAKHYRVTTEQAITSEQIAGFEAGIFFAYEGLTTRPARLHLINSHEAN----V 264 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L EG+ +I+++F + +V + R + GP+ L L G RE+S Sbjct: 265 TLTEGRYHQIRRMFGRYGNRVLSIHRYATGPYVLSNLRPGQYREIS 310 >gi|54023979|ref|YP_118221.1| putative pseudouridine synthase [Nocardia farcinica IFM 10152] gi|54015487|dbj|BAD56857.1| putative pseudouridine synthase [Nocardia farcinica IFM 10152] Length = 237 Score = 95.9 bits (237), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 72/226 (31%), Positives = 115/226 (50%), Gaps = 7/226 (3%) Query: 19 VIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWL- 77 ++A+AG+ASRR E MI Q RV+V+G+++ + + + ++++ Sbjct: 1 MLAKAGVASRRAAEEMIDQGRVEVDGVIVREQGLRIDPQTAVVRVDGVRVVVRDEQVYVA 60 Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G +T SD GR V D + + R+ VGRLD +TEGLLLLTNDG LA L Sbjct: 61 LNKPKGWQSTMSDDLGRPCVGDIVAERIAAGQRLFHVGRLDADTEGLLLLTNDGDLAHRL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLN-LLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 PS + + Y HG+V + L+ GI ++ G D L+ +G + V + Sbjct: 121 MHPSFEVSKTYLATVHGEVHHKVIGKRLRDGIELEDGPAKVDRFQVLELGEG-RSLVKIV 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L EG+ ++++ + V RL+R GP LG G+ R + + Sbjct: 180 LHEGRKHIVRRLLDAVGHPVTRLVRTHIGPVALGDQRPGTLRVLGR 225 >gi|315585848|gb|ADU40229.1| RNA pseudouridine synthase [Helicobacter pylori 35A] Length = 262 Score = 95.9 bits (237), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 64/241 (26%), Positives = 123/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + +V V D + +D ++ K ++ Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLVSV-VKENDKVFLDKRLIKPLKNKK 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ + VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFVPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y ++ G V ++ N +++G+ ++ G Q T Sbjct: 126 ALMHANLE--KEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKIRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 K 239 + Sbjct: 244 Q 244 >gi|268319723|ref|YP_003293379.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus johnsonii FI9785] gi|262398098|emb|CAX67112.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus johnsonii FI9785] Length = 233 Score = 95.9 bits (237), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 64/233 (27%), Positives = 120/233 (51%), Gaps = 6/233 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV +I ++ V VNG +++ V D + V+G + ++ Sbjct: 2 RIDKYLANMNVGSRKEVHNLIKKKIVTVNGEVVKTPKEQVKEEDQVAVNGEKVA-YQQYH 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D ++ + P + + VGRLD +T GLLLLTNDG LA Sbjct: 61 YFLLNKPKGVISATEDRSQKTVLSLLKPKDRYKDIAPVGRLDKDTTGLLLLTNDGALAHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWVT 190 L P+ + YR + G D++ + + G+ + + ++++ + ++ + + Sbjct: 121 LLAPNKHVTKKYRAKIAGVADEETVKIFAIGMTLGDGTKLKPAELKILMQDKESDQSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + ++EGK +IK++F KV L RIS G L L G +E++ K ++ Sbjct: 181 IEIQEGKYHQIKRMFGAVGMKVIELDRISMGKLVLPANLKRGQYQEITLKEIK 233 >gi|116629857|ref|YP_815029.1| 16S rRNA uridine-516 pseudouridylate synthase related pseudouridylate synthase [Lactobacillus gasseri ATCC 33323] gi|116095439|gb|ABJ60591.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus gasseri ATCC 33323] Length = 245 Score = 95.9 bits (237), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 69/229 (30%), Positives = 115/229 (50%), Gaps = 8/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV +I ++ V VNG L+ V TD + VDG + ++ Sbjct: 14 RIDKYLANMNVGSRKEVHSLIKKKVVTVNGELVTIPKQQVKETDLVAVDGNKI-AYQQYH 72 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G+++ D + TV L + + + VGRLD +T GLLLLTNDG LA Sbjct: 73 YFLLNKPKGVISATED-RSQQTVISLLKTKDRYQGIAPVGRLDKDTTGLLLLTNDGALAH 131 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWV 189 L P+ +VYR + G D + +G+++ + +++ Q + + + Sbjct: 132 ELLAPNKHVAKVYRAKIAGVPDPETAKKFAQGLILGDGTKLKPAKLKILKQDQDNNLSQI 191 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 + ++EGK +IK++F KV L R+S G L L G +E+ Sbjct: 192 EIQIQEGKYHQIKRMFGAVGMKVLELDRVSMGKLHLPADLKRGEYKEID 240 >gi|299822093|ref|ZP_07053979.1| ribosomal small subunit pseudouridine synthase A [Listeria grayi DSM 20601] gi|299815622|gb|EFI82860.1| ribosomal small subunit pseudouridine synthase A [Listeria grayi DSM 20601] Length = 242 Score = 95.9 bits (237), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 85/243 (34%), Positives = 122/243 (50%), Gaps = 11/243 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A G SR+EV++ + + V VNG ++ ++ T D + V + E Sbjct: 2 RLDKFLAHHGYGSRKEVKQFLKKTEVTVNGKRVQDGKQAIVPTSDIVRVQDEVILYQEYV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 W+ HKP G ++ + D TV D L P R V VGRLD +TEGLLLLT+DG LA Sbjct: 62 -YWMLHKPSGYIS--ATEDQAKTVLDLLKPKDAGRAVFPVGRLDKDTEGLLLLTDDGQLA 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWV 189 L P +VY G V D ++ KKGIV++ Y L+ + G + Sbjct: 119 HELLSPKKHVNKVYEATIEGVVTGDDVHAFKKGIVLED-DYQCKPAKLEILQVNGVKTDI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPH 248 + ++EGK +IK++F + KV L RI G QL LA G R ++ + L EQL Sbjct: 178 RITIQEGKYHQIKRMFLAVDKKVIYLKRIQMGSLQLDENLARGEYRPLTVEEL-EQLSKK 236 Query: 249 LLE 251 LE Sbjct: 237 RLE 239 >gi|300361439|ref|ZP_07057616.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus gasseri JV-V03] gi|300354058|gb|EFJ69929.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus gasseri JV-V03] Length = 248 Score = 95.9 bits (237), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 70/230 (30%), Positives = 115/230 (50%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV +I ++ V VNG L+ V D + VDG + ++ Sbjct: 17 RIDKYLANMNVGSRKEVHSLIKKKVVTVNGELVTAPKQQVKEDDLVVVDGNEI-AYQQYH 75 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G+++ D + TV L + + + VGRLD NT GLLLLTNDG LA Sbjct: 76 YFLLNKPKGVISATEDR-SQQTVISLLKTKDRYQGIAPVGRLDKNTTGLLLLTNDGALAH 134 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWV 189 L P+ +VYR + G ++ + GI + + +++ + + + Sbjct: 135 ELLAPNKHVTKVYRAKISGVASEETIKTFASGITLGDGTKLKPAKLEILAQDKVHDLSQI 194 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK 238 + ++EGK +IK++F KV L RIS G L T L G +E+++ Sbjct: 195 EIQIQEGKYHQIKRMFGAVGMKVLELDRISMGKLSLPTDLKRGQYQEITR 244 >gi|308064218|gb|ADO06105.1| hypothetical protein HPSAT_07015 [Helicobacter pylori Sat464] Length = 257 Score = 95.9 bits (237), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 65/241 (26%), Positives = 123/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 61 FSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y ++ G V ++ N +++G+ ++ G Q T Sbjct: 121 ALMHANLE--KEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 179 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 238 Query: 239 K 239 + Sbjct: 239 Q 239 >gi|308185223|ref|YP_003929356.1| ribosomal large subunit pseudouridine synthase B [Helicobacter pylori SJM180] gi|308061143|gb|ADO03039.1| ribosomal large subunit pseudouridine synthase B [Helicobacter pylori SJM180] Length = 257 Score = 95.9 bits (237), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 64/241 (26%), Positives = 123/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAQLASV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 61 FSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y ++ G + ++ N +++G+ ++ G Q T Sbjct: 121 ALMHANLE--KEYLIKIQGFITREMENAMQEGLKLKNATKGAHQKTPIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 179 IIKNHAKYSKLRVVINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 238 Query: 239 K 239 + Sbjct: 239 Q 239 >gi|322386947|ref|ZP_08060571.1| ribosomal small subunit pseudouridine synthase A [Streptococcus cristatus ATCC 51100] gi|321269229|gb|EFX52165.1| ribosomal small subunit pseudouridine synthase A [Streptococcus cristatus ATCC 51100] Length = 242 Score = 95.9 bits (237), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 69/216 (31%), Positives = 115/216 (53%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K + +G+ SR +V++++ + +V VNG + A + +D I VDG L E+ Sbjct: 2 RLDKFLVESGLGSRSQVKQLLKKGQVWVNGAAVTSAKTQINERSDQIVVDGQTL-VYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L + V VGRLD++T GLLLLTN+G L+ Sbjct: 61 VYYLLNKPKGVISATED-DRHKTVLDLLDDTARQKEVFPVGRLDVDTHGLLLLTNNGQLS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGS-NAWV 189 + P +VY+ + G +DQ + +GI ++ Q+ L+ +G+ + V Sbjct: 120 HAMLSPKRHVAKVYQAQVAGLMDQADVERFAQGIELKDFTCQPAQLEILERDEGAKTSLV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + L EGK ++K++ +V L R+S GP QL Sbjct: 180 RITLSEGKFHQVKRMVLACGKEVTDLQRLSMGPLQL 215 >gi|320161627|ref|YP_004174852.1| pseudouridine synthase [Anaerolinea thermophila UNI-1] gi|319995481|dbj|BAJ64252.1| pseudouridine synthase [Anaerolinea thermophila UNI-1] Length = 239 Score = 95.9 bits (237), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 57/180 (31%), Positives = 92/180 (51%), Gaps = 14/180 (7%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R L++KP G++T +DP+GR T+ D +P V GRLD+++EGLL L+NDG L Sbjct: 12 RYILFYKPYGVLTAFTDPEGRPTLKDWIP--VPDVYPAGRLDMDSEGLLFLSNDGDLMHR 69 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------------T 181 + P Q + Y V+ G V + L L++G+ ++G QV + T Sbjct: 70 ITDPRYQHPKTYLVQVEGVVSGEALAKLRRGVEVKGRQTQRCQVMVIPEPDLPPRAKPVT 129 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G W+ + L EGK R+++ + RL+R++ GP L L G R+++ + L Sbjct: 130 PHGPTTWLRMVLTEGKKRQVRHMTAAVGHPTLRLVRVAIGPLSLEGLTPGEWRDLTPQEL 189 >gi|218128464|ref|ZP_03457268.1| hypothetical protein BACEGG_00034 [Bacteroides eggerthii DSM 20697] gi|217989355|gb|EEC55668.1| hypothetical protein BACEGG_00034 [Bacteroides eggerthii DSM 20697] Length = 234 Score = 95.9 bits (237), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 74/231 (32%), Positives = 112/231 (48%), Gaps = 15/231 (6%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K +A AG+ SRRE + I V VNG ++ + D ++ + ER Sbjct: 1 MNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEVKFHDQAV-SIERKIY 59 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP VTT DP R TV D + S R+ VGRLD NT G+LLLTNDG LA L Sbjct: 60 VLLNKPKDTVTTSDDPQARRTVMDLVKGACSERIYPVGRLDRNTTGVLLLTNDGDLASKL 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--VIQGICYGDMQVTLDTQKGSNAW---- 188 P ++Y V DK NL K + + GI D ++ D ++ + Sbjct: 120 THPKYLKKKIYHVHL------DK-NLTKADMEQIAAGIQLDDGEIQADAISYTDDFKKDE 172 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 173 VGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQ 223 >gi|317011592|gb|ADU85339.1| hypothetical protein HPSA_06915 [Helicobacter pylori SouthAfrica7] Length = 254 Score = 95.9 bits (237), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 66/241 (27%), Positives = 122/241 (50%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L + VGRLD +EG+LLL++ + Sbjct: 61 FSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYVHFAPVGRLDFASEGVLLLSDSKAVVS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + R Y ++ G V ++ N +++G+ ++ G Q T Sbjct: 121 ALMHANLE--REYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFVGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 179 ILKNHAKYSKLKVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 238 Query: 239 K 239 + Sbjct: 239 Q 239 >gi|323343342|ref|ZP_08083569.1| ribosomal large subunit pseudouridine synthase B [Prevotella oralis ATCC 33269] gi|323095161|gb|EFZ37735.1| ribosomal large subunit pseudouridine synthase B [Prevotella oralis ATCC 33269] Length = 479 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 116/229 (50%), Gaps = 5/229 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AGI SRRE + I V VNG ++ V+ +D ++ P+ E+ Sbjct: 243 PIRLNKYLANAGICSRREADEFIQAGVVTVNGNVVTELGTKVLRSDEVKFHEQPV-SLEK 301 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV + + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 302 KVYVLLNKPKDYVTTSDDPQQRKTVMELVKGACEERIYPVGRLDRNTTGVLLLTNDGDLA 361 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P +VY V V ++ + + +GI ++ G + D D + V Sbjct: 362 SKLTHPKFLKKKVYHVFLDKAVTEEDMQKIAEGIELEDGEIHADAIEYADER--DKKQVG 419 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + GKNR ++++FE ++V +L R+ + + G R +++K Sbjct: 420 IEIHSGKNRIVRRIFESLGYRVIKLDRVQFAGLTKKNVRRGDWRYLTEK 468 >gi|298735573|ref|YP_003728094.1| ribosomal large subunit pseudouridine synthase B [Helicobacter pylori B8] gi|298354758|emb|CBI65630.1| ribosomal large subunit pseudouridine synthase B [Helicobacter pylori B8] Length = 262 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 65/241 (26%), Positives = 123/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+L+L++ + Sbjct: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLILSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ G V ++ N +++G+ ++ G Q T Sbjct: 126 ALMHANLE--KEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKLRVVINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 K 239 + Sbjct: 244 Q 244 >gi|117618383|ref|YP_857355.1| ribosomal small subunit pseudouridine synthase A [Aeromonas hydrophila subsp. hydrophila ATCC 7966] gi|117559790|gb|ABK36738.1| ribosomal small subunit pseudouridine synthase A [Aeromonas hydrophila subsp. hydrophila ATCC 7966] Length = 230 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 64/224 (28%), Positives = 109/224 (48%), Gaps = 3/224 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + +R ++I Q V V+GI++++ A ++ +E DGV L +R R Sbjct: 2 RLDKFLCDCSDLTRSLAGKLIRQGEVMVDGIVVKQPAFHINEQSQVEFDGVTLTLDQRNR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ HKP G V ++ DPD + F ++ VGRLD++T GL+L+T+DG + + Sbjct: 62 YFMLHKPEGYVCSNEDPDHPTVFFLMDEPAMGKLHVVGRLDLDTTGLVLVTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y V V D + L +G++++ L+ A +T+ Sbjct: 122 TSPRHECAKTYHVWLADPVSPDAIALFAEGVLLRSETEKTRPAQLEILGECEARLTI--H 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 EGK ++K++F KV L R G L LA G RE++ Sbjct: 180 EGKYHQVKRMFAAIGNKVVGLHRERVGGLTLDEELAPGEYRELT 223 >gi|15646068|ref|NP_208250.1| hypothetical protein HP1459 [Helicobacter pylori 26695] gi|2501526|sp|P55986|Y1459_HELPY RecName: Full=Uncharacterized RNA pseudouridine synthase HP_1459; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|2314637|gb|AAD08501.1| conserved hypothetical protein [Helicobacter pylori 26695] Length = 262 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 66/241 (27%), Positives = 122/241 (50%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDRVFLDKRLIKPLKNKK 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAV-- 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 V L + Y ++ G V ++ N +++G+ ++ G Q T Sbjct: 124 VSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 K 239 + Sbjct: 244 Q 244 >gi|317179635|dbj|BAJ57423.1| hypothetical protein HPF30_1326 [Helicobacter pylori F30] Length = 262 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 66/241 (27%), Positives = 123/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ G V ++ N +++G+ ++ G Q T Sbjct: 126 ALMHANLE--KEYLVKIQGFVTREMENAIQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 K 239 + Sbjct: 244 Q 244 >gi|226306743|ref|YP_002766703.1| pseudouridine synthase [Rhodococcus erythropolis PR4] gi|226185860|dbj|BAH33964.1| putative pseudouridine synthase [Rhodococcus erythropolis PR4] Length = 267 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/225 (32%), Positives = 112/225 (49%), Gaps = 6/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KV+A+AG+ASRR E +I Q RV+V+G ++ + V + + ++ Sbjct: 28 RLQKVLAQAGVASRRAAEELIDQGRVEVDGRIVVEQGLRVDPENAVVRVDGVRVVVQKDL 87 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGL 130 ++L +KP G T SD GR V D + R+ VGRLD +TEGLLL TNDG L Sbjct: 88 VYLAMNKPRGWQCTMSDDLGRPCVGDIVSERVQSGQRLFHVGRLDADTEGLLLFTNDGDL 147 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y HG V++ L+ G+ + G D L+ +G V Sbjct: 148 AHRLMHPSFEVPKTYLATVHGVVERSTGKQLRDGVTLDDGPAKVDAFTVLEINEGKT-LV 206 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EG+ ++++ + V RL+R + G LG G+ R Sbjct: 207 KLVLHEGRKHIVRRLLDAVGHPVVRLVRTNVGVVALGDQRPGTQR 251 >gi|144575100|gb|AAZ43829.2| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Mycoplasma synoviae 53] Length = 234 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 63/214 (29%), Positives = 113/214 (52%), Gaps = 8/214 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA + + +R E++++I++ VKVN ++++++ D I ++G+ L E Sbjct: 4 RIEKFIADSTLYTRNEIKKLISKGLVKVNDLIIKKSQSIDPKLDKIYLEGILLEAREEFS 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G + + D + + VF+ L + ++GRLDI+TEGLL++TNDG L+ Sbjct: 64 YIMMNKPAGYICANFDWN-KQVVFELLLDLEMNLKDFFTIGRLDIDTEGLLIITNDGKLS 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V ++++ LL+K ++I I Y + ++ +N W + Sbjct: 123 HNLLSPKKHIPKTYYVELDKPLEKNIKELLEKELLIDEIKY---KKSILNNISNNKW-EI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + EGK +IK +F F +KV L RI L Sbjct: 179 TIFEGKFHQIKIIFAHFGYKVTYLKRIKMNNLSL 212 >gi|71894432|ref|YP_278540.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Mycoplasma synoviae 53] Length = 232 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 63/215 (29%), Positives = 113/215 (52%), Gaps = 8/215 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA + + +R E++++I++ VKVN ++++++ D I ++G+ L E Sbjct: 1 MRIEKFIADSTLYTRNEIKKLISKGLVKVNDLIIKKSQSIDPKLDKIYLEGILLEAREEF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G + + D + + VF+ L + ++GRLDI+TEGLL++TNDG L Sbjct: 61 SYIMMNKPAGYICANFDWN-KQVVFELLLDLEMNLKDFFTIGRLDIDTEGLLIITNDGKL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + L P + Y V ++++ LL+K ++I I Y + ++ +N W Sbjct: 120 SHNLLSPKKHIPKTYYVELDKPLEKNIKELLEKELLIDEIKY---KKSILNNISNNKW-E 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK +IK +F F +KV L RI L Sbjct: 176 ITIFEGKFHQIKIIFAHFGYKVTYLKRIKMNNLSL 210 >gi|28211988|ref|NP_782932.1| putative ribosomal small subunit pseudouridine synthase A [Clostridium tetani E88] gi|28204431|gb|AAO36869.1| putative ribosomal small subunit pseudouridine synthase A [Clostridium tetani E88] Length = 238 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 77/242 (31%), Positives = 127/242 (52%), Gaps = 17/242 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K++A G SR+EV+++I V+VNG ++ ++N+ D I V K Sbjct: 2 ERIDKILANMGYGSRKEVKKLIKNNLVEVNGEKVKDPSINIDPEKDKILVGD----KVVN 57 Query: 73 TRLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTND 127 R ++Y +KP G+V+ D + TV D L + VGRLD +T GLLL+TND Sbjct: 58 YRKFIYIMMNKPEGVVSATFD-NYDETVIDLLEEEYQVFNPFPVGRLDKDTVGLLLITND 116 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICY-GDMQVTLDTQKG 184 G L L P + +VY + +V++ + + GIVI C G +++ + G Sbjct: 117 GELNHKLISPKWKVDKVYYAEINKEVNEKDIEAFQNGIVISDGYKCMPGKLEIIKSDENG 176 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + +VT+ +EGK ++K++FE + KV L R+ +G L TL G RE++++ L Sbjct: 177 AEVYVTI--QEGKFHQVKRMFEALDKKVVYLKRVKFGNINLDETLEEGEYRELTEEELEN 234 Query: 244 QL 245 L Sbjct: 235 IL 236 >gi|238019314|ref|ZP_04599740.1| hypothetical protein VEIDISOL_01178 [Veillonella dispar ATCC 17748] gi|237864013|gb|EEP65303.1| hypothetical protein VEIDISOL_01178 [Veillonella dispar ATCC 17748] Length = 234 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/227 (32%), Positives = 118/227 (51%), Gaps = 9/227 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A SR+EV ++I QRV +NG + + ++V + +D I VDG + + Sbjct: 2 RLDKLLANKAYGSRKEVHQLIKDQRVTINGEVARKKDIHVDIESDVIAVDGQIVNTKQHY 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 + +HKP G VT D V D LP + + V+ VGRLD +TEGLLLLTNDG + Sbjct: 62 YIK-FHKPKGYVTAVEDA-SHPVVMDLLPPEYIKMGVVPVGRLDKDTEGLLLLTNDGVWS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + +VY V F G++ +D + +K+GIV+ G +D + +T+ Sbjct: 120 HSIINGNKHVEKVYYVEFEGELTEDGIQRIKEGIVL-GDGTHCKPALIDILSSKSVHITI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 EGK ++K++ V L R++ G L G GS +++S Sbjct: 179 --EEGKYHQVKRMIGAAGGTVTYLKRLTIGHIDLTGIEEVGSAQDLS 223 >gi|295135656|ref|YP_003586332.1| ribosomal large subunit pseudouridine synthase F [Zunongwangia profunda SM-A87] gi|294983671|gb|ADF54136.1| ribosomal large subunit pseudouridine synthase F [Zunongwangia profunda SM-A87] Length = 278 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 71/245 (28%), Positives = 126/245 (51%), Gaps = 20/245 (8%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG- 64 + +EN T R++K ++ AG SRR +++I Q RV +NG++ E + D ++VDG Sbjct: 1 MAEENLT--RINKFLSEAGYCSRRAADKLIDQGRVTINGVVPE-MGTKIAPGDEVKVDGE 57 Query: 65 -VPLRKAERTRLWL-YHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEG 120 + + E+ +++ ++KPIG+V T ++ + D N P R+ +GRLD +EG Sbjct: 58 LIATEEKEKPNVYIAFNKPIGIVCTTDTKREKNNIIDYINYPE---RIFPIGRLDKPSEG 114 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+ LT+DG + + + Y V+ + + D + + KGI I + V Sbjct: 115 LIFLTSDGDIVNKILRARNNHEKEYIVKVNKPLQPDFVKKMSKGIPILDTVTRECFV--- 171 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRL--IRISYGPFQLGTLLAGSTREVSK 238 Q G N + + L +G NR+I+++ E+ + V +L IRI P + G R ++K Sbjct: 172 EQTGENEFRII-LTQGLNRQIRRMCEYLGYAVTKLKRIRIMNVPLDIP---VGKWRHLTK 227 Query: 239 KILRE 243 L+E Sbjct: 228 AELKE 232 >gi|110803415|ref|YP_699574.1| ribosomal large subunit pseudouridine synthase f [Clostridium perfringens SM101] gi|110683916|gb|ABG87286.1| RNA pseudouridine synthase family protein [Clostridium perfringens SM101] Length = 298 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 68/230 (29%), Positives = 114/230 (49%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RVK++G+ + V + +DG PL+ Sbjct: 61 RLNKYISETGFCSRREADKLIEQGRVKIDGVKAT-TGMKVSKGQSVFIDGKPLKVENELV 119 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP+G+ TT S G F N R+ +GRLD +++GL+ +TNDG + Sbjct: 120 YIVLNKPVGITCTTESKIKGNIVDFINHEK---RIFPIGRLDKDSQGLIFMTNDGDIVNK 176 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + + + + G+ I G V +K S + L Sbjct: 177 ILRAGNNHEKEYIVTVNKPITDEFIKGMSNGVPILGTVTKKCLV----KKESKNSFRIIL 232 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +G NR+I+++ E+F ++V +L RI LG L GS R ++KK L E Sbjct: 233 TQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKIGSWRYLTKKELAE 282 >gi|259046491|ref|ZP_05736892.1| ribosomal small subunit pseudouridine synthase A [Granulicatella adiacens ATCC 49175] gi|259036656|gb|EEW37911.1| ribosomal small subunit pseudouridine synthase A [Granulicatella adiacens ATCC 49175] Length = 238 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 71/230 (30%), Positives = 122/230 (53%), Gaps = 7/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV+ ++ +++ VNG ++ V V TD I DG ++ E Sbjct: 2 RIDKCLADCGLGTRSEVKSLLKSKKITVNGKVVTNGKVQVNPETDEILFDGEKIQYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 + + +KP G+V+ D + TV D + P F + V VGRLDI+T GLLLLTNDG LA Sbjct: 62 YIMM-NKPKGVVSATED-NLHKTVLDLINPLYFKKGVFPVGRLDIDTHGLLLLTNDGELA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P ++Y+ R G + + ++GIV+ G ++ + + + V Sbjct: 120 HRLLSPKKHVTKIYQARVEGVMTPEDAAAFERGIVLSDGTECMPARLDILSTTQDESIVQ 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 + L+EGK ++K++ + V L R++ G +L LA G +R ++++ Sbjct: 180 IHLKEGKFHQVKRMVKACGKNVVDLQRLTMGTLKLDERLALGESRPLTEE 229 >gi|308183557|ref|YP_003927684.1| hypothetical protein HPPC_07130 [Helicobacter pylori PeCan4] gi|308065742|gb|ADO07634.1| hypothetical protein HPPC_07130 [Helicobacter pylori PeCan4] Length = 257 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 65/241 (26%), Positives = 123/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 61 FSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y ++ G V ++ N +++G+ ++ G Q T Sbjct: 121 ALMHANLE--KEYLIKIQGFVTREMENAMQEGLKLKNATKGAHQKTPIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 179 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 238 Query: 239 K 239 + Sbjct: 239 Q 239 >gi|315038031|ref|YP_004031599.1| 16S pseudouridylate synthase [Lactobacillus amylovorus GRL 1112] gi|325956483|ref|YP_004291895.1| 16S pseudouridylate synthase [Lactobacillus acidophilus 30SC] gi|312276164|gb|ADQ58804.1| 16S pseudouridylate synthase [Lactobacillus amylovorus GRL 1112] gi|325333048|gb|ADZ06956.1| 16S pseudouridylate synthase [Lactobacillus acidophilus 30SC] gi|327183311|gb|AEA31758.1| 16S pseudouridylate synthase [Lactobacillus amylovorus GRL 1118] Length = 236 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 62/215 (28%), Positives = 111/215 (51%), Gaps = 5/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV +I + V VNG +++ V +D + VDG + ++ Sbjct: 2 RIDKYLANMNVGSRKEVHVLIKKGIVTVNGDVVKTPKQQVKESDEVLVDGQEIN-YQKYH 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D R+ + P + + VGRLD +T GLLLLTNDG L Sbjct: 61 YFLMNKPKGVLSATEDRSQRTVISLLKPQDQYQGITPVGRLDKDTTGLLLLTNDGQLNHK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWVT 190 L P+ ++YR + G D + + + G+ + + ++++ ++ ++ + Sbjct: 121 LLAPNKHVDKIYRAKIAGVADDETVKIFASGMTLGDSTKLKPAELKILSQDEEHDSSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +REGK +IK++F KV L RIS G +L Sbjct: 181 IRIREGKYHQIKRMFGAVGMKVVELERISMGKLKL 215 >gi|172056824|ref|YP_001813284.1| pseudouridine synthase [Exiguobacterium sibiricum 255-15] gi|171989345|gb|ACB60267.1| pseudouridine synthase [Exiguobacterium sibiricum 255-15] Length = 231 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 67/225 (29%), Positives = 116/225 (51%), Gaps = 9/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRR +++I RV +NG + E + V TD +E+DG PL+ Sbjct: 2 RINKFISETGYCSRRAADKLIDAGRVTINGNVAELGS-QVEKTDAVEIDGQPLQPKPDLE 60 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP+G+ TT D +G F N P+ R+ +GRLD +++GL++LTNDG + Sbjct: 61 YLILNKPVGITCTTERDIEGNIIDFVNHPN---RIFPIGRLDKDSDGLIILTNDGDIVNR 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + + + G+ I G + V Q S + V L Sbjct: 118 ILRAENNHDKEYIVTVDAPITETFIEGMAGGVDILGTTTKECVV---EQLESRTFRIV-L 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +G NR+I+++ + F ++V RL R+ +LG L G R++++ Sbjct: 174 TQGLNRQIRRMCKEFGYRVKRLQRVRIMNIELGDLPIGEWRDLTE 218 >gi|302039244|ref|YP_003799566.1| putative pseudouridine synthase [Candidatus Nitrospira defluvii] gi|300607308|emb|CBK43641.1| putative Pseudouridine synthase [Candidatus Nitrospira defluvii] Length = 236 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 68/217 (31%), Positives = 112/217 (51%), Gaps = 7/217 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K G+ SRRE +R+IA+ RV +NG + + V D + DGV L++ R Sbjct: 2 RINKFFTEQGLCSRREADRLIAEGRVTING-RVAKLGDQVSPQDAVARDGVVLQRGNRAV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 YHKP+G VTT ++P R + + +R+ +GRLD ++ GL+LLTNDG + + Sbjct: 61 YLKYHKPVG-VTTTTEPHVRRNIIAEIGHT-ARIFPIGRLDKDSSGLILLTNDGDIVNEI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 R YRV + D+ L + +G+ I G+ TL + G + + L Sbjct: 119 LRVEHGHEREYRVEVDREFDETFLARMARGVTILGV--PTRPCTL-ARLGPRRFRII-LT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 EG+NR+I+++ + ++V L R+ + L AG Sbjct: 175 EGRNRQIRRMCQALGYRVVSLHRVRIMHITIDGLHAG 211 >gi|260102596|ref|ZP_05752833.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus helveticus DSM 20075] gi|260083623|gb|EEW67743.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus helveticus DSM 20075] Length = 236 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 117/234 (50%), Gaps = 11/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV +I + V VNG +++ V +D + VDG + ++ Sbjct: 2 RIDKYLANMNVGSRKEVHVLIKKGIVTVNGDVVKTPKQQVKESDEVLVDGQEVN-YQKYH 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D R+ + P + + VGRLD +T GLLLLTNDG L Sbjct: 61 YFLMNKPKGVLSATEDRSQRTVISLLKPQDQYQGITPVGRLDKDTTGLLLLTNDGQLNHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWVT 190 L P+ ++YR + G D + + G+ + + ++++ ++ ++ + Sbjct: 121 LLAPNKHVDKIYRAKIAGVADDETVKTFASGMTLGDGTKLKPAELKILAQDEEHDSSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL------GTLLAGSTREVSK 238 + +REGK +IK++F KV L RIS G +L G + S +VSK Sbjct: 181 IKIREGKYHQIKRMFGAVGMKVVELERISMGKLKLPKDLKRGNYIELSLDDVSK 234 >gi|254779971|ref|YP_003058078.1| Ribosomal large subunit pseudouridine synthase B [Helicobacter pylori B38] gi|254001884|emb|CAX30134.1| Ribosomal large subunit pseudouridine synthase B [Helicobacter pylori B38] Length = 257 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 65/241 (26%), Positives = 123/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 61 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y ++ G V ++ N +++G+ ++ G Q T Sbjct: 121 ALMHANLE--KEYLIKIQGFVTREIENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 179 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 238 Query: 239 K 239 + Sbjct: 239 Q 239 >gi|90020429|ref|YP_526256.1| ribosomal large subunit pseudouridine synthase F [Saccharophagus degradans 2-40] gi|89950029|gb|ABD80044.1| ribosomal large subunit pseudouridine synthase F [Saccharophagus degradans 2-40] Length = 324 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 71/228 (31%), Positives = 123/228 (53%), Gaps = 11/228 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R++K I+ +G SRRE +++IA RVK+NG+L E AV V S D + VD PLR A++ Sbjct: 8 RLNKFISDSGHCSRREADKLIASDRVKINGLLPELGAV-VESGDVVTVDDQPLRASAADK 66 Query: 73 T-RLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 T R+++ Y+KP G+ T +D + + D + R+ +GRLD +EGL+LLT+DG + Sbjct: 67 TDRIYIAYNKPFGITCT-TDQTVKGNIVDAIDH-DERIFPIGRLDKPSEGLILLTSDGDI 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + +G+ I G +V + G + Sbjct: 125 VNKILRAENAHDKEYIVTVNKNLAPNFAEKMSRGLPILGTITKPCKVRV---IGKTTFKI 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + L +G NR+I+++ ++ + V +L+R +LG L G R ++K Sbjct: 182 I-LTQGLNRQIRRMCDYLGYDVKQLVRTRIMNIELGKLKPGQWRRLTK 228 >gi|153954187|ref|YP_001394952.1| RNA pseudouridine synthase-related protein [Clostridium kluyveri DSM 555] gi|146347068|gb|EDK33604.1| RNA pseudouridine synthase-related protein [Clostridium kluyveri DSM 555] Length = 239 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 72/238 (30%), Positives = 127/238 (53%), Gaps = 2/238 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I++ RVKVNG+++ + + D I VD ++K + Sbjct: 3 ERLHKYMAACGVASRRKCEHIISEGRVKVNGVVVNKLGTTIDDERDEILVDNKIIKKENK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G +++ D GR T+ D + + RV +GRLD NT G ++LTNDG + Sbjct: 63 KVYILLNKPRGYISSVKDDRGRKTLLD-IVKVNERVYPIGRLDYNTSGAIILTNDGEVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++Y G +++ + GI I G + + ++ V + Sbjct: 122 NIAHPGSNKSKIYIAAIKGIPSSEEIKRFENGIDIGGYITAKAKFDFISSNKESSKVKIE 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + EGKNR+++K+ + V L+RI+ G +LG L G+ R +++K ++ G LL Sbjct: 182 IHEGKNRQVRKMCDAIGHPVITLMRIAIGDIKLGNLKEGAWRYLTEKEIQYIKGGKLL 239 >gi|219854796|ref|YP_002471918.1| hypothetical protein CKR_1453 [Clostridium kluyveri NBRC 12016] gi|219568520|dbj|BAH06504.1| hypothetical protein [Clostridium kluyveri NBRC 12016] Length = 245 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 72/238 (30%), Positives = 127/238 (53%), Gaps = 2/238 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I++ RVKVNG+++ + + D I VD ++K + Sbjct: 9 ERLHKYMAACGVASRRKCEHIISEGRVKVNGVVVNKLGTTIDDERDEILVDNKIIKKENK 68 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G +++ D GR T+ D + + RV +GRLD NT G ++LTNDG + Sbjct: 69 KVYILLNKPRGYISSVKDDRGRKTLLD-IVKVNERVYPIGRLDYNTSGAIILTNDGEVYN 127 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++Y G +++ + GI I G + + ++ V + Sbjct: 128 NIAHPGSNKSKIYIAAIKGIPSSEEIKRFENGIDIGGYITAKAKFDFISSNKESSKVKIE 187 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + EGKNR+++K+ + V L+RI+ G +LG L G+ R +++K ++ G LL Sbjct: 188 IHEGKNRQVRKMCDAIGHPVITLMRIAIGDIKLGNLKEGAWRYLTEKEIQYIKGGKLL 245 >gi|148269796|ref|YP_001244256.1| pseudouridine synthase [Thermotoga petrophila RKU-1] gi|147735340|gb|ABQ46680.1| ribosomal small subunit pseudouridine synthase A [Thermotoga petrophila RKU-1] Length = 239 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 60/190 (31%), Positives = 105/190 (55%), Gaps = 6/190 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +G+ +R+EV+++I Q RV VNG ++ +V D + +DG + R Sbjct: 2 RLDRYLSNSGVGTRKEVKKLIKQGRVTVNGRVVLDPGHSVSENDVVVLDGETV-NFHRKV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L+HKP G VT+ DP T+ + LP + + VGRLD + EGLL++T+DG A + Sbjct: 61 YILFHKPSGYVTSTKDPHS-ETIMEFLPPL-KGIFPVGRLDKDAEGLLIITSDGDFAHRV 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V+ G+V +DK+ LK G+ ++ + + +K SN + + + Sbjct: 119 ISPKWSVEKEYIVKVEGEVTEDKIEKLKNGVTLRDGFFAKAKC---VEKLSNDTLKIVIT 175 Query: 195 EGKNREIKKV 204 EGK +IK++ Sbjct: 176 EGKYHQIKRM 185 >gi|157363887|ref|YP_001470654.1| RNA-binding S4 domain-containing protein [Thermotoga lettingae TMO] gi|157314491|gb|ABV33590.1| RNA-binding S4 domain protein [Thermotoga lettingae TMO] Length = 234 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 68/236 (28%), Positives = 122/236 (51%), Gaps = 14/236 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKA 70 R+ + +A A I +R EV ++I + + VNG +++ + ++ TD +E G VP RK Sbjct: 1 MRLDRFLANAKIGTRSEVRKIIKKGEISVNGEIVKNISFHINETDIVEYMGKTVVPYRKI 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGG 129 +++KP G V+ ++ + +VFD + F + V GRLD + EGLL+LTNDG Sbjct: 61 ----YLIFNKPAGFVSDKTN--AQPSVFDLIDHPFIDQMHVAGRLDRDVEGLLILTNDGL 114 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L P + Y + F G + +K+ +++ GIV+ + ++ L S+ + Sbjct: 115 FTHRLISPKFHVEKEYMIWFEGNLTAEKIQIVENGIVLAQNRFKPAKIKL----LSSNIM 170 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 T+ + EGK ++KK+ + ++ RI G LG + G+ RE+ + L E + Sbjct: 171 TLTITEGKYHQVKKMIKIMGLTYRKIKRIRIGNINLGNMSTGNYRELDENELNELM 226 >gi|163816856|ref|ZP_02208219.1| hypothetical protein COPEUT_03047 [Coprococcus eutactus ATCC 27759] gi|158448113|gb|EDP25108.1| hypothetical protein COPEUT_03047 [Coprococcus eutactus ATCC 27759] Length = 234 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 68/221 (30%), Positives = 118/221 (53%), Gaps = 15/221 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K ++ AG+ SRR + I +V +NG E A + VM D + G +++ +R Sbjct: 6 RLNKYLSEAGVCSRRAADTHIENGKVTING---ETAVMGQKVMPGDVVTFMGRKVQQKDR 62 Query: 73 TRLWLYHKPIGLVTTHS--DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 T + Y+KPIGL T S DPD +FD++ R+ VGRLD +++GLLLLTNDG L Sbjct: 63 TVILAYNKPIGLTCTASKADPD---NIFDHIDYPI-RLQYVGRLDKDSQGLLLLTNDGDL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + ++ + YRVR + ++ +D + + +G+ I +V +K + Sbjct: 119 SNAIQKSVNNHEKEYRVRVNREITEDFIRKMSEGVPILDTVTKKCKV----RKIDDRSFM 174 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + L +G NR+I+++ + ++V L R+ +LG + G Sbjct: 175 IVLTQGLNRQIRRMCDALGYRVVNLKRVRVCNVKLGNMRPG 215 >gi|317499032|ref|ZP_07957313.1| RNA pseudouridylate synthase [Lachnospiraceae bacterium 5_1_63FAA] gi|291560717|emb|CBL39517.1| ribosomal large subunit pseudouridine synthase F [butyrate-producing bacterium SSC/2] gi|316893682|gb|EFV15883.1| RNA pseudouridylate synthase [Lachnospiraceae bacterium 5_1_63FAA] Length = 244 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 64/230 (27%), Positives = 124/230 (53%), Gaps = 7/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +++AGI SRR+ + + + RV+V+G + + V+ + DG P++ E Sbjct: 13 RINKYLSQAGICSRRQADTYVEEGRVEVDG-EVAVSGTKVLPGQSVTFDGKPVKIQEDLI 71 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +HKP G+V T S + + + + N P+ R+ VGRLD +++GL+LLTNDG A Sbjct: 72 FLAFHKPRGIVCTASKEEKDNIIDYINYPT---RIYPVGRLDKDSQGLILLTNDGEAANQ 128 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + ++ + ++ ++ + + I + + ++G N + + L Sbjct: 129 IMKARNYHEKEYEVTVNKRITNEFIHDMRNPVPLDEINAVTRRCKV-IKEGPNEFRII-L 186 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +G NR+I+++ E F ++V +L R+ +LG L G R+++ LRE Sbjct: 187 TQGLNRQIRRMCEHFGYRVTKLKRVRVMNIKLGDLKEGRYRKLTPDELRE 236 >gi|255281792|ref|ZP_05346347.1| ribosomal small subunit pseudouridine synthase A [Bryantella formatexigens DSM 14469] gi|255267859|gb|EET61064.1| ribosomal small subunit pseudouridine synthase A [Bryantella formatexigens DSM 14469] Length = 250 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 76/233 (32%), Positives = 116/233 (49%), Gaps = 15/233 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G +R EV+ I + RV VNG + + A V D I +DG P+ R Sbjct: 5 RLDKLLAATGAGTRSEVKNAIRKGRVTVNGAVCKSADSKVDADKDVICLDGAPVVYT-RY 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G VT D TV D + S + + VGRLD++TEGLLL+TNDG LA Sbjct: 64 EYHMLYKPAGCVTAVRDAR-YPTVMDYISSARKKDLFPVGRLDLDTEGLLLITNDGELAH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-----KGSNA 187 L P + Y R G+V + + ++GI I G+ + T+ + G + Sbjct: 123 RLLAPGWHVDKTYYARVQGEVTAEDIRRFQEGIDI-----GEKRPTMPAELEILAAGQES 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 V V + EGK ++K++F V L R+ G L L AG +R ++++ Sbjct: 178 EVRVTIHEGKYHQVKRMFAAIGKPVLYLKRLRMGSLTLDENLQAGGSRLLTQE 230 >gi|289577308|ref|YP_003475935.1| RNA-binding S4 domain protein [Thermoanaerobacter italicus Ab9] gi|289527021|gb|ADD01373.1| RNA-binding S4 domain protein [Thermoanaerobacter italicus Ab9] Length = 240 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 71/218 (32%), Positives = 112/218 (51%), Gaps = 11/218 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K+++ GI +R+EV++ I + V VNG ++ A + V D I DG + E Sbjct: 4 MRIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIVDTEFDEILFDGEKINYKEF 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+++ DP + TV D LP GRLD +TEGLL +TNDG L Sbjct: 64 IYIMM-NKPKGVISATYDPIEK-TVIDLLPQELKARNPFPAGRLDKDTEGLLFITNDGNL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNA 187 A L P ++ Y G V++ + K+GIV++ D+++ L ++ Sbjct: 122 AHKLLSPKKNVIKKYYAEILGFVNERDIKAFKEGIVLEDGYKTLPADLEILLSSEVSK-- 179 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V V +REGK +IK++FE KV L R++ G L Sbjct: 180 -VYVYIREGKYHQIKRMFESVGKKVVYLKRLAMGSLTL 216 >gi|317060087|ref|ZP_07924572.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. D12] gi|313685763|gb|EFS22598.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. D12] Length = 229 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 76/232 (32%), Positives = 119/232 (51%), Gaps = 23/232 (9%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI---EVDGVPLRKAE- 71 + K + G+ SR+EV+ ++ +++++VN A V S I E D V K + Sbjct: 1 MDKFLVECGLGSRKEVKELLKKRKIQVN-------ASIVTSGQQIIDEEKDEVFYEKEKL 53 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTN 126 + R ++ +K G VT D R TV + LP I ++ VGRLD +TEGLLL TN Sbjct: 54 VYKKFRYYILYKKAGYVTALEDSKER-TVMELLPEWVIRKDLVPVGRLDKDTEGLLLFTN 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKGS 185 DG L L P + + Y V + ++ + L++G+ I QV L+ QK Sbjct: 113 DGKLNHQLLSPKSHVDKTYHVCLEKIITEEAIEQLRQGVRIGDYTTLPAQVEQLEEQK-- 170 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +++ ++EGK ++KK+ E + KV+ L R+S+G LG L G REVS Sbjct: 171 ---ISLTIQEGKFHQVKKMLEAVDNKVSYLKRVSFGRLVLGDLKPGEVREVS 219 >gi|254426889|ref|ZP_05040596.1| conserved hypothetical protein, putative [Alcanivorax sp. DG881] gi|196193058|gb|EDX88017.1| conserved hypothetical protein, putative [Alcanivorax sp. DG881] Length = 241 Score = 95.1 bits (235), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 69/227 (30%), Positives = 122/227 (53%), Gaps = 10/227 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + +++ SR + ++A RV+VNG+ + + D +E+DG PL ++E Sbjct: 6 HRLDRFLSQVLQVSRSGLRPVLAAGRVRVNGVPVRDRQQRIGPFDRVELDGQPL-QSEAP 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLAR 132 R + +KP G+V+ SD D +TV D LP+ + + + GRLD N+ GL+LLTNDG +R Sbjct: 65 RYLMVNKPAGVVSATSD-DQHTTVMDLLPASQRQGLHLAGRLDFNSTGLVLLTNDGAWSR 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--VIQGICYGDMQVTLDTQKGSNAWVT 190 L P +Q + YRV + + + +G+ +GI ++ + + ++ W+ Sbjct: 124 QLSQPQSQVRKHYRVTVEQPLTEAYVAAFSEGMWFAFEGIKTRPAEIKIRSAYEADVWLC 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREV 236 EG+ +IK++F F+ KV L R++ G L LA G +R++ Sbjct: 184 ----EGRYHQIKRMFGRFDNKVLTLHRLAIGHLVLDESLAPGESRDL 226 >gi|295136030|ref|YP_003586706.1| ribosomal large subunit pseudouridine synthase [Zunongwangia profunda SM-A87] gi|294984045|gb|ADF54510.1| putative ribosomal large subunit pseudouridine synthase [Zunongwangia profunda SM-A87] Length = 284 Score = 95.1 bits (235), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 68/228 (29%), Positives = 114/228 (50%), Gaps = 7/228 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGI SRR+ + IA V VNG ++ V TD ++ DG + ++ Sbjct: 53 RLNKYIANAGICSRRDADIYIASGNVSVNGEVVTEMGYKVQLTDEVKFDGRSI-TPDKPE 111 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +K G+ T S G TV D + S++ +G+LD T GLL+ TNDG LA+ Sbjct: 112 YFVLNKSKGVFVTGSVHKGGLTVMDIMAKASKSKLDPIGKLDTQTTGLLVFTNDGALAKK 171 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 L P ++Y ++ + QD L +++G+ I+ I D+ D K V + Sbjct: 172 LANPKNGIRQIYHIKLDHALSQDDLEKIREGVYIESKKINVTDVSYVKDRPK---TEVGM 228 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L K ++K+F+ ++++ L R+ YG L G R ++K+ Sbjct: 229 ELTSTKPHIVQKIFKSLSYEILNLDRVVYGGLTKKDLPRGRFRTLTKQ 276 >gi|167766754|ref|ZP_02438807.1| hypothetical protein CLOSS21_01260 [Clostridium sp. SS2/1] gi|167711508|gb|EDS22087.1| hypothetical protein CLOSS21_01260 [Clostridium sp. SS2/1] Length = 249 Score = 95.1 bits (235), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 64/230 (27%), Positives = 124/230 (53%), Gaps = 7/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +++AGI SRR+ + + + RV+V+G + + V+ + DG P++ E Sbjct: 18 RINKYLSQAGICSRRQADTYVEEGRVEVDG-EVAVSGTKVLPGQSVTFDGKPVKIQEDLI 76 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +HKP G+V T S + + + + N P+ R+ VGRLD +++GL+LLTNDG A Sbjct: 77 FLAFHKPRGIVCTASKEEKDNIIDYINYPT---RIYPVGRLDKDSQGLILLTNDGEAANQ 133 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + ++ + ++ ++ + + I + + ++G N + + L Sbjct: 134 IMKARNYHEKEYEVTVNKRITNEFIHDMRNPVPLDEINAVTRRCKV-IKEGPNEFRII-L 191 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +G NR+I+++ E F ++V +L R+ +LG L G R+++ LRE Sbjct: 192 TQGLNRQIRRMCEHFGYRVTKLKRVRVMNIKLGDLKEGRYRKLTPDELRE 241 >gi|324328601|gb|ADY23861.1| RNA pseudouridine synthase family protein [Bacillus thuringiensis serovar finitimus YBT-020] Length = 242 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 74/229 (32%), Positives = 118/229 (51%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + + G + E Sbjct: 2 RLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF+ VGRLDI+TEG LL+TNDG L Sbjct: 62 YLMM-HKPQGVISATED-DNHETVIDLLELEDAIFNP-FPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + L P + Y G V ++ + KG+++ Y L K + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGALTILKSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L RI GP L L G RE++ Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRIEMGPLVLDEELELGQYRELT 226 >gi|295696969|ref|YP_003590207.1| pseudouridine synthase [Bacillus tusciae DSM 2912] gi|295412571|gb|ADG07063.1| pseudouridine synthase [Bacillus tusciae DSM 2912] Length = 250 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 76/254 (29%), Positives = 127/254 (50%), Gaps = 24/254 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAER 72 QR+ +++A G+ SRR++++M ++V+G ++ A+++V + V G P+ + Sbjct: 4 QRLDRILAEMGVGSRRDIKKMARSGLIEVDGRVVRDASLHVDPGQQVLCVAGHPVHY-QP 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTND 127 W+ +KP G+V+ DP R+ + D P +F GRLDI+TEG +L+T+D Sbjct: 63 FHYWMMNKPPGVVSAVIDPRHRTVIDLLDESDRTPRLFP----AGRLDIDTEGFVLITDD 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KGSN 186 G LA + P + YR G+V + +G+V+ G Y + L + G Sbjct: 119 GQLAHAILSPKRHVSKTYRATVQGRVSDADVAAFARGLVL-GDGYRALPAHLQIRDAGER 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL------GTLLAGSTREVSKKI 240 + V + LREGK +IK++F V L R++ G L G A + EV++ Sbjct: 178 SEVEIVLREGKFHQIKRMFAALGKPVLYLKRVAIGGVPLDPALPPGGYRALADDEVAR-- 235 Query: 241 LRE---QLGPHLLE 251 LRE +L PH E Sbjct: 236 LRETDPRLPPHPAE 249 >gi|330830315|ref|YP_004393267.1| Pseudouridine synthase [Aeromonas veronii B565] gi|328805451|gb|AEB50650.1| Pseudouridine synthase [Aeromonas veronii B565] Length = 230 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 65/226 (28%), Positives = 109/226 (48%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + +R ++I Q V V+GI++++ A ++ IE DGV L +R R Sbjct: 2 RLDKFLCDCSDLTRSLAGKLIRQGEVMVDGIVVKQPAFHINEQSQIEFDGVLLTLEQRNR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ HKP G V ++ DPD + F ++ VGRLD++T GL+L+T+DG + + Sbjct: 62 YFMLHKPEGYVCSNEDPDHPTVFFLMDEPAMGKLHVVGRLDLDTTGLVLVTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y V V D + L +G+ ++ L+ A +T+ Sbjct: 122 TSPRHECAKTYHVWLADPVSPDAIALFAEGVYLRNETDKTRPAQLEILGECEARLTI--H 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EGK ++K++F KV L R G L LA G RE++ + Sbjct: 180 EGKYHQVKRMFASIGNKVVGLHRERVGGLTLDDELAPGEYRELTAE 225 >gi|302389211|ref|YP_003825032.1| ribosomal small subunit pseudouridine synthase A [Thermosediminibacter oceani DSM 16646] gi|302199839|gb|ADL07409.1| ribosomal small subunit pseudouridine synthase A [Thermosediminibacter oceani DSM 16646] Length = 243 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 79/239 (33%), Positives = 129/239 (53%), Gaps = 19/239 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ KV++ AG SR++V+++I + V+VNG ++ A V + D I V G L E Sbjct: 6 ERLDKVLSMAGYGSRKDVKKIIKRGEVEVNGRVVTDAGTPVAPAVDSISVSGELLIFKEH 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+++ D +TV D L FS + VGRLD + EGLLLLT+DG L Sbjct: 66 IYIMM-NKPQGVISATHDRR-ETTVIDLLEDEFSHRNLFPVGRLDKDAEGLLLLTDDGQL 123 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV------TLDTQKG 184 A L P + +VY V G++ ++ + K+G+ + GD + L+ + Sbjct: 124 AHRLLSPRKKVEKVYYVEVKGRLVEEDVKAFKEGVFL-----GDYRALPAKLEILEAGEV 178 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 S+A VT+ EGK +IK++ + +V L R+S GP +L L G RE++ + +R Sbjct: 179 SSALVTI--YEGKFHQIKRMMKARGKEVTYLKRLSMGPLKLDENLEPGEWRELTDEEIR 235 >gi|225868275|ref|YP_002744223.1| ribosomal small subunit pseudouridine synthase B [Streptococcus equi subsp. zooepidemicus] gi|225701551|emb|CAW98765.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus equi subsp. zooepidemicus] Length = 237 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 73/232 (31%), Positives = 119/232 (51%), Gaps = 14/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGI--LLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ K + AG+ SR +V+ ++ +++V VNG+ + VN + TD++ G L E Sbjct: 2 RLDKFLVDAGLGSRSQVKLLLKKKQVSVNGVSQTSPKYQVNEL-TDNVTYQGQRLN-YET 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP + TV D L + V VGRLD +T GLLLLTNDG L Sbjct: 60 FVYYMLNKPKGVISATEDPSHK-TVLDLLDDTARQKAVFPVGRLDKDTHGLLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----TQKGSN 186 A L P + Y + G + Q+ + +GI ++ + M LD + Sbjct: 119 AHALLSPKKHVAKQYLAKVDGTMTQEDVKHFAQGITLKD--HQCMPAYLDILEINESLKT 176 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + V + + EGK ++K++ V+ L RIS GP QL + LA G+ R ++ Sbjct: 177 SLVKITIEEGKFHQVKRMVAACGKTVSDLQRISMGPLQLDSALAPGAYRRLT 228 >gi|322383949|ref|ZP_08057679.1| pseudouridylate synthase B-like large subunit [Paenibacillus larvae subsp. larvae B-3650] gi|321151426|gb|EFX44613.1| pseudouridylate synthase B-like large subunit [Paenibacillus larvae subsp. larvae B-3650] Length = 250 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/234 (30%), Positives = 120/234 (51%), Gaps = 11/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G+ SRRE ++ IA RV +NG+ E + V D I VDG PL + ++ Sbjct: 2 RINKFISETGVCSRREADKWIAANRVTINGVPAELGS-TVEEGDEIRVDGKPLGEKKKGV 60 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ TT G F N P R+ +GRLD +++GL+LLTNDG + Sbjct: 61 YIALNKPVGITCTTEKHVKGNIIDFVNHPE---RIFPIGRLDKDSQGLILLTNDGDIVNQ 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + V + + + G+ I G +VT + ++ + L Sbjct: 118 ILRAENNHEKEYVVRVNKPVTDEFVKGMAGGVRILGTKTKPCKVT----RINDHVFRIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKILREQL 245 +G NR+I+++ E F ++V +L R+ L L G R+++++ LRE L Sbjct: 174 TQGLNRQIRRMCEVFGYQVVQLERVRIMNIHLDKPKLRLGEWRDLAREELRELL 227 >gi|300856844|ref|YP_003781828.1| ribosomal small subunit pseudouridine synthase A [Clostridium ljungdahlii DSM 13528] gi|300436959|gb|ADK16726.1| ribosomal small subunit pseudouridine synthase A [Clostridium ljungdahlii DSM 13528] Length = 244 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 73/231 (31%), Positives = 119/231 (51%), Gaps = 11/231 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G +R+E++ ++ VK+NG +++ +++ + IEV G + + Sbjct: 9 RIDKILANLGFGTRKEIKAVVKNGEVKINGTVIKDSSMKIDPDKSTIEVGGNVVEYKKNI 68 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 L L +KP G+V+ D + TV D L + + VGRLD +TEGLLL+TNDG L Sbjct: 69 YL-LMNKPQGVVSATFD-NYDETVIDILEPEYQAFKPFPVGRLDKDTEGLLLITNDGELN 126 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICY-GDMQVTLDTQKGSNAW 188 + P +VY +D+ +N KKGI ++ C G + + + G+ Sbjct: 127 HRMISPKNHVDKVYYAEIDKYLDERDVNRFKKGIQLKDGYKCLPGKLHIIESDEDGAKVE 186 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 VT+ +EGK ++K++F V L RI +GP L L G RE+SK Sbjct: 187 VTI--QEGKFHQVKRMFNALGKNVVYLKRIKFGPIDLDKDLNLGQYRELSK 235 >gi|288905607|ref|YP_003430829.1| ribosomal small subunit pseudouridine synthase [Streptococcus gallolyticus UCN34] gi|288732333|emb|CBI13903.1| ribosomal small subunit pseudouridine synthase [Streptococcus gallolyticus UCN34] Length = 242 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 70/221 (31%), Positives = 110/221 (49%), Gaps = 7/221 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + AGI SR EV++++ +++V VNG + + D I G L E+ Sbjct: 2 RLDKFLVEAGIGSRTEVKQLLKKKQVLVNGKVEISPKTQIDEKADRISCQGQTL-SYEKY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ D + TV D L I VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYMLNKPKGVISATED-NHHKTVLDLLDKIAWDKEAFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGS-NAWV 189 + P + YR + G + + GI ++ C V L+T + + V Sbjct: 120 HAMLSPKKHVDKTYRAKVAGLMTTADVAAFANGIDLKDFTCQPAQLVILETNEAERTSVV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + ++EGK ++K++ + KV L R+S GP QL LA Sbjct: 180 EITIKEGKFHQVKRMVQACGKKVTDLQRLSMGPLQLDKQLA 220 >gi|291532977|emb|CBL06090.1| ribosomal large subunit pseudouridine synthase B [Megamonas hypermegale ART12/1] Length = 173 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 56/166 (33%), Positives = 89/166 (53%), Gaps = 6/166 (3%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 + +KP G +++ D GR TV D L + R+ +GRLD NTEGLLLLTNDG L Sbjct: 1 MLNKPKGYISSVKDEKGRKTVVDILSDVEERIFPIGRLDYNTEGLLLLTNDGEFMNKLLH 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----TQKGSNAWVTVG 192 P + + Y R G ++ + L+ L G+ ++ V LD T K S +T+ Sbjct: 61 PKYEIGKTYVARIDGIINMEDLDKLANGVKLEDGKTAPADVYLDSINKTLKESRVEITI- 119 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EGKNR+++++F+ ++V L RI++ L L G R++++ Sbjct: 120 -YEGKNRQVRRMFKALGYEVKALKRIAFAGLTLSKLKRGEYRKLTE 164 >gi|59712175|ref|YP_204951.1| 23S rRNA pseudouridine synthase [Vibrio fischeri ES114] gi|197334855|ref|YP_002156383.1| ribosomal large subunit pseudouridine synthase F [Vibrio fischeri MJ11] gi|59480276|gb|AAW86063.1| 23S rRNA pseudouridine synthase [Vibrio fischeri ES114] gi|197316345|gb|ACH65792.1| ribosomal large subunit pseudouridine synthase F [Vibrio fischeri MJ11] Length = 314 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 65/226 (28%), Positives = 117/226 (51%), Gaps = 11/226 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I QQR+ +NG + E V D + VDG PL K ++ R Sbjct: 10 RLNKFISDTGYCSRREADKLIDQQRITINGKIPE-MGTKVADGDEVLVDGKPL-KEKQDR 67 Query: 75 LWL-YHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ ++KP+G+ TT +G + N R+ +GRLD ++GL+ LTNDG + Sbjct: 68 IYIAFNKPVGITCTTERHVEGNIVDYINHE---QRIFPIGRLDKPSDGLIFLTNDGDIVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y VR + + L + G+ I + + ++ S + Sbjct: 125 KILRAGNAHEKEYVVRVDKPITDEFLQKMAAGVPI----LDTVTLPCKIKQESRFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L +G NR+I+++ E+ +++V +L R+ LG L +G R +S+ Sbjct: 181 LTQGLNRQIRRMCEYLDYEVFKLKRVRIMNIDLGKLASGEWRYLSQ 226 >gi|323466841|gb|ADX70528.1| Pseudouridine synthase [Lactobacillus helveticus H10] Length = 246 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 117/234 (50%), Gaps = 11/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV +I + V VNG +++ V +D + VDG + ++ Sbjct: 12 RIDKYLANMNVGSRKEVHVLIKKGIVTVNGDVVKTPKQQVKESDEVLVDGQEVN-YQKYH 70 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D R+ + P + + VGRLD +T GLLLLTNDG L Sbjct: 71 YFLMNKPKGVLSATEDRSQRTVISLLKPQDQYQGITPVGRLDKDTTGLLLLTNDGQLNHE 130 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWVT 190 L P+ ++YR + G D + + G+ + + ++++ ++ ++ + Sbjct: 131 LLAPNKHVDKIYRAKIAGVADDETVKTFASGMTLGDGTKLKPAELKILAQDEEHDSSEIE 190 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL------GTLLAGSTREVSK 238 + +REGK +IK++F KV L RIS G +L G + S +VSK Sbjct: 191 IKIREGKYHQIKRMFGAVGMKVVELERISMGKLKLPKDLKRGNYIELSLDDVSK 244 >gi|295093348|emb|CBK82439.1| ribosomal large subunit pseudouridine synthase F [Coprococcus sp. ART55/1] Length = 234 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 68/221 (30%), Positives = 117/221 (52%), Gaps = 15/221 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K ++ AG+ SRR + I +V +NG E A + VM D + G +++ +R Sbjct: 6 RLNKYLSEAGVCSRRAADTHIENGKVTING---ETAVMGQKVMPGDVVTFMGRKVQQKDR 62 Query: 73 TRLWLYHKPIGLVTTHS--DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 T + Y+KPIGL T S DPD +FD++ R+ VGRLD +++GLLLLTNDG L Sbjct: 63 TVILAYNKPIGLTCTASKADPD---NIFDHIDYPI-RLQYVGRLDKDSQGLLLLTNDGDL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + ++ + YRVR + ++ +D + + G+ I +V +K + Sbjct: 119 SNAIQKSVNNHEKEYRVRVNREITEDFIRKMSDGVPILDTVTKKCKV----RKIDDRSFM 174 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + L +G NR+I+++ + ++V L R+ +LG + G Sbjct: 175 IVLTQGLNRQIRRMCDALGYRVVNLKRVRVCNVKLGNMRPG 215 >gi|210617504|ref|ZP_03291607.1| hypothetical protein CLONEX_03829 [Clostridium nexile DSM 1787] gi|210149291|gb|EEA80300.1| hypothetical protein CLONEX_03829 [Clostridium nexile DSM 1787] Length = 253 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 68/232 (29%), Positives = 118/232 (50%), Gaps = 9/232 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 Q T R++K ++ AG+ SRRE +R+I +V V+G E + V + + V + Sbjct: 5 QTTETTVRLNKFLSEAGVCSRREADRLIENGKVTVDGKRAE-MGMRVSPSQRVCVGKKEV 63 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTN 126 R+ L +KP+G+V T + + + F N P+ RV +GRLD ++EGLLL+TN Sbjct: 64 RQKNEMVLLAVNKPVGIVCTEEKKEKNNIIRFLNYPT---RVTYIGRLDKDSEGLLLMTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + Q + Y+V + V ++ + + +G+ I +V + + Sbjct: 121 NGDIINKMMRAGNQHEKEYKVTVNKPVTKEFIEKMAEGVPILDTVTRKCKVEMLGKYKFR 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +T GL NR+I+++ E+ +KV RL RI LG L G R+V++ Sbjct: 181 IILTQGL----NRQIRRMCEYLGYKVTRLERIRVMNITLGELKPGEYRKVTE 228 >gi|163816624|ref|ZP_02207987.1| hypothetical protein COPEUT_02814 [Coprococcus eutactus ATCC 27759] gi|158447881|gb|EDP24876.1| hypothetical protein COPEUT_02814 [Coprococcus eutactus ATCC 27759] Length = 239 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 77/235 (32%), Positives = 119/235 (50%), Gaps = 20/235 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + I SR +V++ I + V VNG + + + TD I+ +G L + + Sbjct: 2 RLDKFLVEMNIGSRSQVKQYIKKGMVSVNGTNAASSDMKINEDTDTIKYNGKQLCYS-KY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 R +L +KP G V+ D + TV D L ++ + VGRLD++TEGLL++TNDG LA Sbjct: 61 RYFLLNKPAGCVSATKD-NVHQTVIDLLNGENTKDLFPVGRLDLDTEGLLIITNDGRLAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---------DTQK 183 L P+ + Y G VD ++L K+GI I GD TL D Sbjct: 120 HLLSPAHHIAKTYYADIDGYVDDQTISLFKQGIDI-----GDDTPTLPASLKIIEADRST 174 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 GS + + + + EG+ ++K++F+ N V L RIS G + L GS RE++ Sbjct: 175 GS-SRIELTITEGRFHQVKRMFQAVNMSVTFLKRISMGNLHIADDLPTGSYRELT 228 >gi|218893324|ref|YP_002442193.1| putative pseudouridylate synthase [Pseudomonas aeruginosa LESB58] gi|218773552|emb|CAW29366.1| probable pseudouridylate synthase [Pseudomonas aeruginosa LESB58] Length = 230 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 67/210 (31%), Positives = 107/210 (50%), Gaps = 8/210 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A SRR+ + +IA R++V+G ++ V +E+D L+ + R Sbjct: 2 RLDRFLANLPELSRRDAQMLIAGGRLRVDGQVVRDGTHEVRVFSRVELDEQLLQAGKPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG-RLDINTEGLLLLTNDGGLARV 133 ++ HKP+G V+ DP TV D P + +G RLD NT GL+LLTNDG +R Sbjct: 62 YYMLHKPMGCVSATRDPQ-HPTVLDLFPEDLRDDLHIGGRLDYNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA--WVTV 191 L LP ++ +VY V +DQ ++ G+ + + D+ VTL Q + Sbjct: 121 LTLPGSRRDKVYYVETEAPIDQRYVDAFAAGLHFR---FEDL-VTLPAQLEPIGPRCARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYG 221 L EG+ ++K++F F+ KV RL R G Sbjct: 177 TLHEGRYHQVKRMFGHFDNKVLRLHRERMG 206 >gi|144227495|gb|AAZ44253.2| ribosomal large subunit pseudouridine synthase B [Mycoplasma hyopneumoniae J] Length = 240 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 116/235 (49%), Gaps = 30/235 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K ++ G+ SRR+ E++I Q R+K+N E A + + D IE+D + K Sbjct: 5 RINKFLSEMGVCSRRQSEKLILQGRIKINN---ETAKIGQIISQNDVIELDQQKITKKPP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGG 129 + +KP +T+ DP+ R T+ + FS+ + VGRLD T GL+L+TNDG Sbjct: 62 IFWYALNKPKNYITSRFDPENRPTIME----FFSKNEYLFPVGRLDFQTTGLILITNDGK 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-------Q 182 L PS++ R Y V+ + ++ L D ++ LD+ + Sbjct: 118 TTNKLLHPSSKIERTYLVKTDFSLSDKEIRFL-----------NDNKIQLDSVKSIQKIK 166 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 K S+ V + +G N IKK+F + KV +L R+S+ +L + G R+++ Sbjct: 167 KCSSRTYLVTVWQGSNHHIKKLFLSISKKVLKLKRVSFANIKLDNISEGKYRKLT 221 >gi|223933741|ref|ZP_03625714.1| pseudouridine synthase [Streptococcus suis 89/1591] gi|302024514|ref|ZP_07249725.1| ribosomal small subunit pseudouridine synthase B [Streptococcus suis 05HAS68] gi|330833556|ref|YP_004402381.1| pseudouridine synthase [Streptococcus suis ST3] gi|223897583|gb|EEF63971.1| pseudouridine synthase [Streptococcus suis 89/1591] gi|329307779|gb|AEB82195.1| pseudouridine synthase [Streptococcus suis ST3] Length = 242 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 8/235 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ SR EV++++ ++V VNG + + +D I V G L E Sbjct: 2 RLDKFLVDCGVGSRTEVKKLLKNKQVTVNGQVETSPKQQIDEKSDQIAVAGQVLSH-ETF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ D D TV D L + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYVLNKPKGVISATED-DRHRTVLDLLDNTARQKEVFPVGRLDIDTHGLLLLTNNGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWV 189 V+ P ++YR + G + Q+ + GI ++ + Q+T+ + + V Sbjct: 120 HVMLSPKKHVDKLYRAQVDGIMTQEDVERFAAGIELKDLTCQPAQLTILSTDEAKQTSLV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILRE 243 + +REGK ++K++ + V L R++ GP +L LA G R ++ L++ Sbjct: 180 DITIREGKFHQVKRMVQACGKTVTDLQRLTMGPLRLDPKLALGEYRRLTAAELKQ 234 >gi|125975639|ref|YP_001039549.1| ribosomal small subunit pseudouridine synthase A [Clostridium thermocellum ATCC 27405] gi|281416647|ref|ZP_06247667.1| pseudouridine synthase [Clostridium thermocellum JW20] gi|125715864|gb|ABN54356.1| ribosomal small subunit pseudouridine synthase A [Clostridium thermocellum ATCC 27405] gi|281408049|gb|EFB38307.1| pseudouridine synthase [Clostridium thermocellum JW20] gi|316939756|gb|ADU73790.1| pseudouridine synthase [Clostridium thermocellum DSM 1313] Length = 244 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 79/229 (34%), Positives = 126/229 (55%), Gaps = 8/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 QR+ K+++ +G +R+E++++I VKV+G++++ +A+ V + IEV G L+ E Sbjct: 5 QRIDKILSNSGFGTRKEIKKLIKNGEVKVDGVVVKDSAMQVNPKESVIEVAGEILKYREY 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+++ D R TV D LP F + VGRLDI+TEGLLLLTNDG L Sbjct: 65 IYIMM-NKPQGVISATYDNRHR-TVIDILPDEYKFFNLFPVGRLDIDTEGLLLLTNDGQL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-GSNAWV 189 A L P + Y G V +++ ++G+V+ Y + L K G + V Sbjct: 123 AHELLSPRKHVPKKYYALIDGIVTTKDVDVFREGVVLDD-GYKTLPSELFILKSGPYSEV 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 + + EGK ++K++FE KV L RI G +L TL G RE++ Sbjct: 182 EIVIYEGKFHQVKRMFEAVGKKVKYLRRIGMGKLKLDETLEPGDVRELT 230 >gi|326390305|ref|ZP_08211864.1| pseudouridine synthase [Thermoanaerobacter ethanolicus JW 200] gi|325993582|gb|EGD52015.1| pseudouridine synthase [Thermoanaerobacter ethanolicus JW 200] Length = 241 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 77/233 (33%), Positives = 121/233 (51%), Gaps = 9/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K+++ GI +R+EV++ I + V VNG ++ A + V +D I DG + E Sbjct: 5 RIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIVDTESDEILFDGEKINYKEFI 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 + + +KP G+++ D + TV D LP VGRLD +TEGLLL+TNDG LA Sbjct: 65 YIMI-NKPKGVISATYD-EVEKTVIDLLPQELKARNPFPVGRLDKDTEGLLLITNDGDLA 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWV 189 L P ++ Y G V++ + +GI+++ Y + L+ S+ + V Sbjct: 123 HQLLSPKKNVIKKYYAEILGFVNESDIKAFNEGIILED-GYKTLPANLEILFSSSDVSKV 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V +REGK +IK++FE KV L R++ L L G RE+S+K L Sbjct: 182 YVYIREGKYHQIKRMFESVGKKVIYLKRLAMDNLTLDENLKPGEWRELSEKEL 234 >gi|313682886|ref|YP_004060624.1| ribosomal small subunit pseudouridine synthase a [Sulfuricurvum kujiense DSM 16994] gi|313155746|gb|ADR34424.1| ribosomal small subunit pseudouridine synthase A [Sulfuricurvum kujiense DSM 16994] Length = 234 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 115/235 (48%), Gaps = 16/235 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K+++ G SRREV +I + + L ++ V S D I +G PL + Sbjct: 6 RLDKLLSSLGYCSRREVALLIREGIITHAHNLPLKSDTKV-SHDEILCEGEPLDPPQGI- 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINTEGLLLLTNDGGL 130 + L HKP GLV +H D +G+ V+D LP + ++ +VGRLD +T GLLLLT+DG L Sbjct: 64 VILMHKPAGLVCSHDDGEGK-LVYDLLPERWRLRDPKISTVGRLDKDTSGLLLLTDDGAL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGSN 186 L P + +VY R + D+ + G ++ + C +D + Sbjct: 123 LHRLTSPKHKVPKVYEARLDRALKGDEAEIFASGTLMLNGEKTPCLPAKLTVID-----D 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 VT+ + EG+ +++++F V L R S+G LG L AG R + + L Sbjct: 178 THVTLEIVEGRYHQVRRMFAAVGNHVTALHRCSFGTLTLGDLKAGEYRLIDAQSL 232 >gi|71893518|ref|YP_278964.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma hyopneumoniae J] Length = 237 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 116/235 (49%), Gaps = 30/235 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K ++ G+ SRR+ E++I Q R+K+N E A + + D IE+D + K Sbjct: 2 RINKFLSEMGVCSRRQSEKLILQGRIKINN---ETAKIGQIISQNDVIELDQQKITKKPP 58 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGG 129 + +KP +T+ DP+ R T+ + FS+ + VGRLD T GL+L+TNDG Sbjct: 59 IFWYALNKPKNYITSRFDPENRPTIME----FFSKNEYLFPVGRLDFQTTGLILITNDGK 114 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-------Q 182 L PS++ R Y V+ + ++ L D ++ LD+ + Sbjct: 115 TTNKLLHPSSKIERTYLVKTDFSLSDKEIRFL-----------NDNKIQLDSVKSIQKIK 163 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 K S+ V + +G N IKK+F + KV +L R+S+ +L + G R+++ Sbjct: 164 KCSSRTYLVTVWQGSNHHIKKLFLSISKKVLKLKRVSFANIKLDNISEGKYRKLT 218 >gi|308234451|ref|ZP_07665188.1| ribosomal large subunit pseudouridine synthase B [Atopobium vaginae DSM 15829] gi|328944298|ref|ZP_08241762.1| RNA pseudouridine synthase [Atopobium vaginae DSM 15829] gi|327491217|gb|EGF22992.1| RNA pseudouridine synthase [Atopobium vaginae DSM 15829] Length = 285 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 76/261 (29%), Positives = 126/261 (48%), Gaps = 31/261 (11%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPL 67 ++FT R+ + +ARAG+ASRR E++I+ RV VNG + VM DH+ VDG Sbjct: 21 DHFT-MRLQRFLARAGVASRRGSEKLISAGRVCVNGKQVRVLGTKVMPQYDHVTVDGKEY 79 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLL 122 L +KP ++TT SDP G V D+ P +F VGRLD +T G+L Sbjct: 80 VLGNDHVYLLLNKPSQVLTTMSDPFGFPCVASLVPCDDYPGLFP----VGRLDSDTTGVL 135 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GI---CY-----G 173 L T +G + L PS + Y G++ ++ L +GI+++ G+ C+ Sbjct: 136 LFTTNGNMGNRLLHPSHHVWKTYVALIEGKLTSSQMQKLSQGIMLEDGMTSPCFIRTITQ 195 Query: 174 DMQVT-LDTQ---------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 D T LD +++ + + EG+N ++K++ + V +L R +GP Sbjct: 196 DEPCTHLDKNHSLFDDMRLNAASSLCELKIHEGRNHQVKRMLQEIGHPVIKLHRFQFGPL 255 Query: 224 QLGTLLA-GSTREVSKKILRE 243 L + GS R +++ + + Sbjct: 256 CLNAQIPLGSWRMCTQQEIHD 276 >gi|145224079|ref|YP_001134757.1| pseudouridine synthase [Mycobacterium gilvum PYR-GCK] gi|315444416|ref|YP_004077295.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium sp. Spyr1] gi|145216565|gb|ABP45969.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium gilvum PYR-GCK] gi|315262719|gb|ADT99460.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium sp. Spyr1] Length = 247 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 78/234 (33%), Positives = 116/234 (49%), Gaps = 6/234 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ KV+++AGIASRR E+MI RV+V+ ++ V + I VDG + + Sbjct: 8 RLQKVLSQAGIASRRVAEKMIRDGRVEVDDRIVTELGTRVDPAESVIRVDGARITVDDTL 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 +KP G+ +T SD GR V D + ++ VGRLD +TEGLLLLTNDG L Sbjct: 68 VHLAINKPRGMHSTMSDDRGRPCVGDLVEHRVRGNKKLFHVGRLDADTEGLLLLTNDGEL 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G V + L++G+ + G D +DT G V Sbjct: 128 AHRLMHPSYEVPKSYVATVLGSVPRGLGRKLREGVELDDGPVQVDDFALVDTTPG-RTLV 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V L EG+ ++++ + V L+R G LG GS R +++K + E Sbjct: 187 RVTLHEGRKHIVRRLLAEVGFPVQNLVRTDIGGVSLGDQRPGSIRALTQKEIGE 240 >gi|326204454|ref|ZP_08194312.1| pseudouridine synthase [Clostridium papyrosolvens DSM 2782] gi|325985486|gb|EGD46324.1| pseudouridine synthase [Clostridium papyrosolvens DSM 2782] Length = 247 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 70/233 (30%), Positives = 124/233 (53%), Gaps = 14/233 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 QR+ KVI+ G SR +++ + + V V+G +++ + ++V IE++G L Sbjct: 5 QRLDKVISNFGFGSRNDIKSAVKKGLVTVDGAIVKDSGIHVDPEASIIEINGERLN---- 60 Query: 73 TRLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTND 127 R ++Y +KP G+++ SD R TVFD LP + + GRLDI+TEGL+L+TND Sbjct: 61 YRKFIYIMMNKPQGVISATSDRKQR-TVFDILPEEYKCFELFPAGRLDIDTEGLVLMTND 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN- 186 G L+ + P + Y + G+V+Q+ + ++G+ + Y + L+ K Sbjct: 120 GQLSHEILSPKKHVPKQYYAKVLGRVNQEDADAFRQGVTLDD-GYSTLPAVLEVLKSDEL 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + + + + EGK ++K++FE KV L R+S G +L L G +E+ + Sbjct: 179 SEIKLTIVEGKFHQVKRMFEAVGKKVIYLKRLSMGNLRLDENLKLGECKELGE 231 >gi|218264461|ref|ZP_03478294.1| hypothetical protein PRABACTJOHN_03990 [Parabacteroides johnsonii DSM 18315] gi|218221954|gb|EEC94604.1| hypothetical protein PRABACTJOHN_03990 [Parabacteroides johnsonii DSM 18315] Length = 249 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 68/244 (27%), Positives = 119/244 (48%), Gaps = 11/244 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 MK K ++ + P R++K ++ AG+ SRRE + I V+VN ++ + D + Sbjct: 1 MKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQAGVVQVNDQVVTELGTKITRQDKV 60 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 ++ + + L +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 61 LFKDQQVQIESKVYIVL-NKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTT 119 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L PS + ++Y V V + + + G+ ++ D ++ Sbjct: 120 GVLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVSIEDMEKIANGLELE-----DGEIHA 174 Query: 180 D----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 D + + V + + G+NR ++++FE + V +L R+ + L G R Sbjct: 175 DAISYASEDDKSQVGIEIHSGRNRIVRRIFESLGYHVVKLDRVYFAGLTKKNLGRGKWRY 234 Query: 236 VSKK 239 ++++ Sbjct: 235 LNER 238 >gi|322372477|ref|ZP_08047013.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. C150] gi|321277519|gb|EFX54588.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. C150] Length = 239 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 79/241 (32%), Positives = 123/241 (51%), Gaps = 14/241 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ +AG SR +V+++I ++V V+G+L +R +NV S I V G L A Sbjct: 2 RLDKLLGQAGYGSRNQVKKLIRSRQVYVDGVLADRDNLNVDASLQTITVSGKELEHAPEV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+V+ D + TV D + R + VGRLD +TEGL+L+TN+G L Sbjct: 62 -YYLMNKPSGVVSARRDKE-HQTVIDLIKPEDQREGLYPVGRLDRDTEGLVLITNNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICY-GDMQVTLDTQKGSNAW 188 L P + Y V + + + + G+V + +C +++ S A Sbjct: 120 FALLHPRYHVAKRYYVEVNDVLGPEAPAFFESGVVFEDGTVCKPAHLKILSSASDKSCAH 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTR---EVSKKILREQ 244 +T+ EGK ++KK+F + KV L RIS+G F L L GS R E K IL+ Sbjct: 180 ITIS--EGKFHQVKKMFLAYGVKVTYLKRISFGDFVLDEKLPRGSYRPLTEEEKSILKRY 237 Query: 245 L 245 L Sbjct: 238 L 238 >gi|107100191|ref|ZP_01364109.1| hypothetical protein PaerPA_01001214 [Pseudomonas aeruginosa PACS2] gi|254239095|ref|ZP_04932418.1| hypothetical protein PACG_05277 [Pseudomonas aeruginosa C3719] gi|254244988|ref|ZP_04938310.1| hypothetical protein PA2G_05867 [Pseudomonas aeruginosa 2192] gi|126171026|gb|EAZ56537.1| hypothetical protein PACG_05277 [Pseudomonas aeruginosa C3719] gi|126198366|gb|EAZ62429.1| hypothetical protein PA2G_05867 [Pseudomonas aeruginosa 2192] Length = 230 Score = 94.4 bits (233), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 67/210 (31%), Positives = 107/210 (50%), Gaps = 8/210 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A SRR+ + +IA R++V+G ++ V +E+D L+ + R Sbjct: 2 RLDRFLANLPELSRRDAQMLIAGGRLRVDGQVVRDGTHEVRVFSRVELDERLLQAGKPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG-RLDINTEGLLLLTNDGGLARV 133 ++ HKP+G V+ DP TV D P + +G RLD NT GL+LLTNDG +R Sbjct: 62 YYMLHKPMGCVSATRDPQ-HPTVLDLFPEDLRDDLHIGGRLDYNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA--WVTV 191 L LP ++ +VY V +DQ ++ G+ + + D+ VTL Q + Sbjct: 121 LTLPGSRRDKVYYVETEAPIDQRYVDAFAAGLHFR---FEDL-VTLPAQLEPIGPRCARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYG 221 L EG+ ++K++F F+ KV RL R G Sbjct: 177 TLHEGRYHQVKRMFGHFDNKVLRLHRERMG 206 >gi|317182664|dbj|BAJ60448.1| hypothetical protein HPF57_1374 [Helicobacter pylori F57] Length = 257 Score = 94.4 bits (233), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 65/236 (27%), Positives = 119/236 (50%), Gaps = 19/236 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 61 FSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ G V ++ + +++G+ ++ G Q T Sbjct: 121 ALMHANLE--KEYLVKIQGFVTKEMESAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R Sbjct: 179 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMR 234 >gi|217033910|ref|ZP_03439334.1| hypothetical protein HP9810_870g42 [Helicobacter pylori 98-10] gi|216943673|gb|EEC23118.1| hypothetical protein HP9810_870g42 [Helicobacter pylori 98-10] Length = 257 Score = 94.4 bits (233), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 65/236 (27%), Positives = 118/236 (50%), Gaps = 19/236 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + +V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLVSV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 61 FSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ G V ++ N +++G+ ++ G Q T Sbjct: 121 TLMHANLE--KEYLVKIQGFVTKEMENAMQEGLKLENATKGAHQKTSIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R Sbjct: 179 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMR 234 >gi|197105098|ref|YP_002130475.1| RNA pseudouridylate synthase [Phenylobacterium zucineum HLK1] gi|196478518|gb|ACG78046.1| RNA pseudouridylate synthase [Phenylobacterium zucineum HLK1] Length = 272 Score = 94.4 bits (233), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 74/243 (30%), Positives = 124/243 (51%), Gaps = 27/243 (11%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 PQRV+K +A++G+ SRRE E +IA V ++G + A ++ G L A+R Sbjct: 17 PQRVNKWLAQSGVCSRREAEALIADGLVSIDGETIADAGRKILP-------GQTLTLADR 69 Query: 73 TRLWL------YHKPIGLVTTHSDPDG----RSTVFDNL------PSIFSRVISVGRLDI 116 L +KP+G V+ +P R NL P + + +GRLD Sbjct: 70 AAASLGGFTAVLNKPVGYVSGQPEPGHVPAVRLLTAANLSGEGAAPDARASLPPLGRLDE 129 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 ++ GLL+L++DG LA+ + P + + Y VR GQVD+ KL L+ G+ + G Sbjct: 130 DSRGLLILSDDGVLAKAVIGPQSDLDKEYVVRVAGQVDERKLARLRHGLELDGRKLKPAT 189 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V++ Q + +V L+EG+ R+I+++ + +V L+R+ GP +LG L G R + Sbjct: 190 VSV-IQGNTLRFV---LKEGRKRQIRRMCDLVGLRVVDLLRVRIGPLKLGDLPEGRWRVL 245 Query: 237 SKK 239 + + Sbjct: 246 TPQ 248 >gi|160915077|ref|ZP_02077290.1| hypothetical protein EUBDOL_01085 [Eubacterium dolichum DSM 3991] gi|158432876|gb|EDP11165.1| hypothetical protein EUBDOL_01085 [Eubacterium dolichum DSM 3991] Length = 230 Score = 94.4 bits (233), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 75/234 (32%), Positives = 119/234 (50%), Gaps = 15/234 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A A + +R+EV+++I +RV+VN + + + D + VD L E Sbjct: 2 RLDKYLAHAQLGTRKEVKKLIRSKRVRVNDEICTKEDRQLQKEDCVYVDDELLVYDELVY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLARV 133 L LY KP G+++ D +TV D + + VGRLDI++EGLLL+TNDG LA Sbjct: 62 LMLY-KPQGVISATEDR-VHTTVMDIFDAPLPKNCFPVGRLDIDSEGLLLITNDGQLAHQ 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----KGSNAWV 189 L P + Y V + + L LL+ G + D + L Q ++ ++ Sbjct: 120 LLSPKKHVDKTYYVECEKTLSSEDLQLLESGTI-----QLDKEHVLPAQAKRISANSLYL 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 T+ +EGK ++K++ + KV L RIS G QL LA G R +S++ +R Sbjct: 175 TI--QEGKFHQVKRMLQACGNKVCYLKRISMGSLQLDKSLAPGEWRYLSEEEIR 226 >gi|320527331|ref|ZP_08028516.1| hypothetical protein HMPREF9430_00622 [Solobacterium moorei F0204] gi|320132355|gb|EFW24900.1| hypothetical protein HMPREF9430_00622 [Solobacterium moorei F0204] Length = 233 Score = 94.4 bits (233), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 68/231 (29%), Positives = 121/231 (52%), Gaps = 8/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A A + SR EV++++ ++RV+VNG + + + + V +T I VD +P+ E+ Sbjct: 3 RLDRILANARVGSRSEVKKLVKEKRVRVNGEIAKSSDMRVDENTAEIFVDDIPV-TYEKY 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G ++ ++ TV D + + + GRLD +TEGLL++TNDG LA Sbjct: 62 VYYMLNKPAGYISA-TEGKNCPTVLDLITEDYKGMFPCGRLDKDTEGLLMITNDGPLAHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y V + ++ + ++ G+ G+ Y +K S+ T+ + Sbjct: 121 LLSPKKHVEKEYYVEHTLPLTEEDIAKIESGVTYNGVSYKPAVY----KKISDTSCTLTI 176 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 +EGK EIK +F KV L R+ L TL G R ++K+ L + Sbjct: 177 QEGKYHEIKFIFNSVGDKVVYLKRLRMKNLVLDETLKPGEYRPLTKEELED 227 >gi|268316878|ref|YP_003290597.1| RNA-binding S4 domain-containing protein [Rhodothermus marinus DSM 4252] gi|262334412|gb|ACY48209.1| RNA-binding S4 domain protein [Rhodothermus marinus DSM 4252] Length = 268 Score = 94.4 bits (233), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 69/211 (32%), Positives = 114/211 (54%), Gaps = 7/211 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +ARAG+ SRR+ + +IA +V+VNG + + + V D +EV+GV + + Sbjct: 11 RLNRYLARAGVCPSRRKADELIASGQVRVNGQVAQ-LGMRVGPDDIVEVNGVRVVPQTQA 69 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSR-VISVGRLDINTEGLLLLTNDGGL 130 L +KP +TT D GR TV D NLP + VGRLD NT G+LLLTNDG L Sbjct: 70 LYILMNKPHDTITTCDDERGRRTVLDLINLPPEQKNGLFPVGRLDRNTTGVLLLTNDGEL 129 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + ++Y R V ++ L++G+ ++ +QV ++ + Sbjct: 130 ANRLMHPRYRVEKIYVARTARPVKPEEAEQLRRGVQLEDGPARAVQVAVNPADPHE--IA 187 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + + EG+NR+++++ E +V +L R Y Sbjct: 188 LMIYEGRNRQVRRMLEAIGHEVVQLKRTHYA 218 >gi|307638112|gb|ADN80562.1| Ribosomal large subunit pseudo uridine synthase B [Helicobacter pylori 908] Length = 257 Score = 94.4 bits (233), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 65/241 (26%), Positives = 123/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 61 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ G V ++ + +++G+ ++ G Q T Sbjct: 121 ALMHANLE--KEYLVKIQGFVTREMESAMQEGLKLKNATKGAHQKTPIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 179 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 238 Query: 239 K 239 + Sbjct: 239 Q 239 >gi|327390694|gb|EGE89034.1| hypothetical protein SPAR5_0271 [Streptococcus pneumoniae GA04375] Length = 240 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 73/234 (31%), Positives = 118/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDQIHFDGQKLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L + V VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 L P + Y+ + G + ++ + +GI ++ + V++DT+K + + Sbjct: 120 HTLLSPKRHVDKTYQAQVKGMMTREDVETFAEGIPLKDFTCQPAKLELVSIDTEK-NQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 + V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 179 IRVTIAEGKFHQIKRMVAYCGKEVMDLQRLTMGTLVLDENLGRGEWRRLTKEEL 232 >gi|167957384|ref|ZP_02544458.1| pseudouridine synthase [candidate division TM7 single-cell isolate TM7c] gi|169835712|ref|ZP_02868900.1| ribosomal large subunit pseudouridine synthase B [candidate division TM7 single-cell isolate TM7a] Length = 237 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 68/222 (30%), Positives = 111/222 (50%), Gaps = 10/222 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +A SRR+ + +IA+Q+V +N + A + +D I ++ + Sbjct: 15 ERLNKFLAFQLGVSRRQADNLIAKQKVYINNQPAQLGA-RIGESDTITINNHIVGGRSSY 73 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KPI V + T++ LP F + VGRLD N+ GLLLLTNDG A Sbjct: 74 TYLMLNKPINYVCSRKQQGKTPTIYSLLPDKFHNLKPVGRLDANSSGLLLLTNDGDFAFR 133 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA----WV 189 + P + + Y V +D++ L ++ I GI D L + SN W+ Sbjct: 134 MTHPKFKKNKQYNV----TLDKELAPLHQQMIADFGIQLNDGLSKLGLSRQSNQDRHNWI 189 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 V + EG+NR+I++ F + V +L R +G ++LGTL AG Sbjct: 190 -VTMSEGRNRQIRRTFAALGYTVIKLHRTHFGTYKLGTLGAG 230 >gi|167765418|ref|ZP_02437531.1| hypothetical protein BACSTE_03806 [Bacteroides stercoris ATCC 43183] gi|167697046|gb|EDS13625.1| hypothetical protein BACSTE_03806 [Bacteroides stercoris ATCC 43183] Length = 234 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 73/231 (31%), Positives = 112/231 (48%), Gaps = 15/231 (6%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K +A AG+ SRRE + I V VNG ++ + D ++ + ER Sbjct: 1 MNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEVKFHDQTV-SIERKIY 59 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA L Sbjct: 60 VLLNKPKDTVTTSDDPQARRTVMDLVKGACDERIYPVGRLDRNTTGVLLLTNDGDLASKL 119 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--VIQGICYGDMQVTLDTQKGSNAW---- 188 P ++Y V DK NL K + + GI D ++ D ++ + Sbjct: 120 THPKYLKKKIYHVHL------DK-NLTKADMEQIAAGIQLDDGEIQADAISYTDDFKKDE 172 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 173 VGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQ 223 >gi|315222342|ref|ZP_07864248.1| conserved hypothetical protein [Streptococcus anginosus F0211] gi|315188675|gb|EFU22384.1| conserved hypothetical protein [Streptococcus anginosus F0211] Length = 246 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 67/216 (31%), Positives = 112/216 (51%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ SR EV+R++ +++V VNG + A + + + D I V+ L ER Sbjct: 6 RLDKFLVEMGLGSRTEVKRLLKKKQVLVNGKIETSAKIQIDENQDEISVNNQVLI-YERF 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D N + V VGRLDI+T GLLLLTN+G LA Sbjct: 65 VYYLLNKPKGVISATED-DKHRTVLDLLNENARQKEVFPVGRLDIDTHGLLLLTNNGALA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWV 189 + P +VYR + G + + + + GI ++ ++T+ ++ + V Sbjct: 124 HAMLSPKKHVAKVYRAKVDGIITEKDVEHFEAGIELKDFTCQPAKLTILEVNEEQQTSLV 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK ++K++ + V L R+S GP L Sbjct: 184 EIIISEGKFHQVKRMVQACGKTVTDLERLSMGPLML 219 >gi|325996712|gb|ADZ52117.1| Ribosomal large subunit pseudouridine synthase B [Helicobacter pylori 2018] gi|325998306|gb|ADZ50514.1| Ribosomal large subunit pseudouridine synthase B [Helicobacter pylori 2017] Length = 262 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 65/241 (26%), Positives = 123/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ G V ++ + +++G+ ++ G Q T Sbjct: 126 ALMHANLE--KEYLVKIQGFVTREMESAMQEGLKLKNATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 K 239 + Sbjct: 244 Q 244 >gi|291059845|gb|ADD72580.1| RNA pseudouridine synthase superfamily [Treponema pallidum subsp. pallidum str. Chicago] Length = 284 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 73/243 (30%), Positives = 115/243 (47%), Gaps = 21/243 (8%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + F R+ +AR+G ASRR E +IA RV V+G + V + + + VDG ++ Sbjct: 28 QPFFRLRLQVYLARSGCASRRACEALIASGRVTVDGQTVTTQGRTVCAQNVVCVDGTVVQ 87 Query: 69 KAERTRLWLYHKPIGLVTTHSD--PDGRS--------------TVFDNL-PSIFSRVISV 111 R L +KP+G + + + P G + D + P+ R+ + Sbjct: 88 LERVQRYVLLYKPVGYICSLAPQFPAGYAHTQVRAGPSKQEYARAIDLVQPAYQERLYHI 147 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD+ +EG LL TNDG A+ L P + + Y V V L+ +G+ ++G Sbjct: 148 GRLDVRSEGALLFTNDGSFAQALGHPRSGIEKEYIVETREPVPAALLSSFVRGVWVEGCR 207 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 Y + + + V + L EGK REI+ VFE + V RL+R+ G +LG L G Sbjct: 208 YR----CVRARHLAAQCVQLVLVEGKKREIRVVFEAWGQDVVRLVRVRIGRVRLGPLRPG 263 Query: 232 STR 234 + R Sbjct: 264 AFR 266 >gi|257462340|ref|ZP_05626755.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. D12] gi|317060006|ref|ZP_07924491.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. D12] gi|313685682|gb|EFS22517.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. D12] Length = 239 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 73/227 (32%), Positives = 123/227 (54%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ASRR+V+ I + R+ VNG L + V D I V+G + + ++ + Sbjct: 7 RINKFLASKGLASRRQVDLWIEEGRISVNGSL-ATSGQKVSEEDDIVVNGKSISQKKQKK 65 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ L +K +++ D GR TV D + S + R+ VGRLD T GL+LLTNDG L Sbjct: 66 VYYLLYKEEEVLSAVKDDRGRRTVVDCVLSPY-RIFPVGRLDYRTSGLILLTNDGDLFNR 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y V G + +++L L++G+ ++ + + +KG N + + Sbjct: 125 MMHPRAEIFKSYEVLAKGHLTKEQLKTLEEGVELEEGKTLAALIAKVKYEKG-NTFFEIS 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +REGKNR+I+++ E +V RL R G L L G R + +K Sbjct: 184 IREGKNRQIRRMVEAVGSRVYRLRRTKIGKLSLDGLSLGEYRALEEK 230 >gi|296140073|ref|YP_003647316.1| pseudouridine synthase [Tsukamurella paurometabola DSM 20162] gi|296028207|gb|ADG78977.1| pseudouridine synthase [Tsukamurella paurometabola DSM 20162] Length = 319 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 75/225 (33%), Positives = 112/225 (49%), Gaps = 6/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KV+A+AG+ASRR E MIA RV+V+G ++ + V + + Sbjct: 80 RLQKVLAQAGVASRRVAEEMIADGRVEVDGEIVTEQGLRVDPSVAVVRVDGVRVVVNENL 139 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP G +T SD GR V D + + R+ VGRLD +TEGLLL+TNDG L Sbjct: 140 VHLALNKPRGWHSTMSDDMGRPCVGDIVAERVAAGQRLFHVGRLDADTEGLLLVTNDGEL 199 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G+V ++ L+ G+ ++ G D L+ +G + V Sbjct: 200 AHRLMHPSYEVPKTYLAWVAGEVPRNLGKKLRDGVELEDGPVTVDRFSVLEAAEGKST-V 258 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V L EG+ ++++ V RL+R G LG GS R Sbjct: 259 RVVLHEGRKHIVRRLLAEVGHPVQRLVRTHVGTVALGDQRPGSLR 303 >gi|116048646|ref|YP_792554.1| putative pseudouridylate synthase [Pseudomonas aeruginosa UCBPP-PA14] gi|115583867|gb|ABJ09882.1| putative pseudouridylate synthase [Pseudomonas aeruginosa UCBPP-PA14] Length = 230 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 67/210 (31%), Positives = 108/210 (51%), Gaps = 8/210 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A SRR+ + +IA R++V+G ++ V +E+D L+ + R Sbjct: 2 RLDRFLANLPELSRRDAQMLIAGGRLRVDGQVVRDGTHEVRVFSRVELDEQLLQAGKPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG-RLDINTEGLLLLTNDGGLARV 133 ++ HKP+G V+ DP TV D LP + +G RLD NT GL+LLTNDG +R Sbjct: 62 YYMLHKPMGCVSATRDPQ-HPTVLDLLPEDQRDDLHIGGRLDYNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA--WVTV 191 L LP ++ +VY V +DQ ++ G+ + + D+ +TL Q + Sbjct: 121 LTLPGSRRDKVYYVETEAPIDQRYVDAFAAGLHFR---FEDL-ITLPAQLEPIGPRCARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYG 221 L EG+ ++K++F F+ KV RL R G Sbjct: 177 TLHEGRYHQVKRMFGHFDNKVLRLHRERMG 206 >gi|256379430|ref|YP_003103090.1| pseudouridine synthase [Actinosynnema mirum DSM 43827] gi|255923733|gb|ACU39244.1| pseudouridine synthase [Actinosynnema mirum DSM 43827] Length = 246 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 74/231 (32%), Positives = 115/231 (49%), Gaps = 11/231 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KV+A+AGIASRR E +I RV+V+G ++ + + + Sbjct: 10 RLQKVLAKAGIASRRVAEELIELGRVQVDGEVVREQGRRIDPDKAVVHVDGVRVVLQEDV 69 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP G+++T D R V D L + R+ VGRLD +TEGLLL+TNDG LA Sbjct: 70 VTLVLNKPRGMLSTMHDDAHRPCVGDLLVNRKERLFHVGRLDADTEGLLLVTNDGDLAHR 129 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-----GSNAW 188 L PS + + Y G + +D L+ GI ++ D V +D+ K A Sbjct: 130 LMHPSYEVPKTYLAEVPGPIPRDLGKRLRSGIELE-----DGPVKVDSFKLISSLPGRAL 184 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V V L EG+ ++++ E V L+R + G +LG GS R ++++ Sbjct: 185 VEVVLHEGRKHIVRRLLEAVGHPVQTLVRTAVGEVRLGNQRPGSLRVLNRQ 235 >gi|218905935|ref|YP_002453769.1| RNA pseudouridine synthase family protein [Bacillus cereus AH820] gi|218539238|gb|ACK91636.1| RNA pseudouridine synthase family protein [Bacillus cereus AH820] Length = 242 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 117/229 (51%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + + G + E Sbjct: 2 RLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF+ VGRLDI+TEG LL+TNDG L Sbjct: 62 YLMM-HKPQGVISATED-DNHETVIDLLELEDAIFNP-FPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + L P + Y G V ++ + KG+++ Y L K + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGALTISKSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELT 226 >gi|326802612|ref|YP_004320431.1| pseudouridine synthase Rsu [Sphingobacterium sp. 21] gi|326553376|gb|ADZ81761.1| pseudouridine synthase Rsu [Sphingobacterium sp. 21] Length = 421 Score = 93.6 bits (231), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 71/227 (31%), Positives = 113/227 (49%), Gaps = 4/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+++ IA +G+ SRR+ + +I V VNG+++ V + D I +G L K E+ Sbjct: 187 RLNRYIANSGVCSRRKADELIQAGVVTVNGVVVTELGTKVDAAKDEIRYNGEKL-KREKM 245 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP +TT DP R TV + R+ VGRLD NT GLLLLTNDG LA Sbjct: 246 VYVLLNKPKDYITTTDDPQERKTVMHLVEKASRERIYPVGRLDRNTTGLLLLTNDGNLAE 305 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +++Y V + + Q N + G+ ++ +V+ Q S + + Sbjct: 306 KLSHPRNNIMKIYHVELNKSLTQGDFNKIGYGVELEDGFIKPDEVSY-IQGASKREIGIQ 364 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + G+NR ++++FE + V +L R+ Y L G R + +K Sbjct: 365 IHSGRNRIVRRIFESLGYDVIKLDRVIYANLTKKDLPRGRWRYLEEK 411 >gi|297380685|gb|ADI35572.1| conserved hypothetical protein [Helicobacter pylori v225d] Length = 262 Score = 93.6 bits (231), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 64/241 (26%), Positives = 122/241 (50%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + +V V D + +D ++ K ++ Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLVSV-VKENDKVFLDKRLIKPLKNKK 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y ++ G V ++ N +++G+ ++ G Q T Sbjct: 126 ALMHANLE--KEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 K 239 + Sbjct: 244 Q 244 >gi|332666758|ref|YP_004449546.1| pseudouridine synthase Rsu [Haliscomenobacter hydrossis DSM 1100] gi|332335572|gb|AEE52673.1| pseudouridine synthase Rsu [Haliscomenobacter hydrossis DSM 1100] Length = 239 Score = 93.6 bits (231), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 71/225 (31%), Positives = 111/225 (49%), Gaps = 11/225 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K I+ GI SRRE ++ I RV +NG++ + V S D + +DG PLR + Sbjct: 6 LNKYISETGICSRREADKFIEAGRVSLNGVVATKGN-RVASGDTVLLDGKPLRSNPKRIY 64 Query: 76 WLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +HKP GL T +D R+ V + N P R+ +GRLD ++EGL+ LTNDG + Sbjct: 65 LAFHKPKGLTCT-TDLRDRTNVIAYINHPQ---RIFPIGRLDKDSEGLIFLTNDGDIVNK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V D + + GI I G V QKG + + + L Sbjct: 121 ILRSRNGHEKEYIVVVDKPFAPDFIRRMSNGIPILGTTTKKCVV---EQKGQSTFRII-L 176 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +G NR+I+++ E+ ++V +L RI +L L G R S+ Sbjct: 177 TQGLNRQIRRMCEYMGYEVKKLKRIRIMSIKLDDLAPGKWRYFSE 221 >gi|253578262|ref|ZP_04855534.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA] gi|251850580|gb|EES78538.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA] Length = 255 Score = 93.6 bits (231), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 72/242 (29%), Positives = 119/242 (49%), Gaps = 25/242 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A AG +R EV++ I + +V+VNG+ +++ + V D + +DG + +A Sbjct: 6 RLDKFLADAGAGTRSEVKKFIQKGKVQVNGVPAKKSEIKVSEEDEVVLDGNRISQAPEFV 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L HKP G V+ D + TV + + S + VGRLD +TEGLLL+T+DG LA L Sbjct: 66 YYLLHKPAGYVSATEDKRDK-TVMELVASDRKDLFPVGRLDKDTEGLLLITDDGALAHEL 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------LDTQK---- 183 P + Y G + ++ + G+ I G+ T L T+K Sbjct: 125 LSPKKHVDKTYYAVTDGCMTKEDVQRFADGLEI-----GEKNPTMPAKLKILSTRKVEET 179 Query: 184 -------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE 235 G ++ + + ++EGK ++K++ E KV L RIS G L L G R+ Sbjct: 180 ELEQYPSGWSSEIQLTIKEGKFHQVKRMTEAVGKKVVYLKRISMGVLTLPDDLKKGECRQ 239 Query: 236 VS 237 ++ Sbjct: 240 LT 241 >gi|119469659|ref|ZP_01612528.1| putative ribosomal RNA pseudouridylate synthase [Alteromonadales bacterium TW-7] gi|119446906|gb|EAW28177.1| putative ribosomal RNA pseudouridylate synthase [Alteromonadales bacterium TW-7] Length = 230 Score = 93.6 bits (231), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 67/222 (30%), Positives = 113/222 (50%), Gaps = 17/222 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH---IEVDGVPLR 68 T R++K IA AG+ SR++ R+I + V VN R A ++ D I V+G ++ Sbjct: 3 TKIRLAKYIAHAGVCSRKQASRLIDEGVVTVNN----RPANHIDHVDEQDDIIVNGQVVK 58 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 A + YHKP+G+ ++ D S + +LP++ +RV +GRLD ++ GLL+LTNDG Sbjct: 59 GAADLVYFAYHKPVGIDCKLNENDPASLIH-HLPTL-TRVYPIGRLDKDSRGLLILTNDG 116 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSN 186 L P + Y V ++ + GI + D Q+TL + K ++ Sbjct: 117 DFCNQLIHPDFHQPKRYLVTVDKPINNAFCEKMAAGIPV------DKQITLPCEVTKIAD 170 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 ++ L++G NR+I+K+ + +KV L R+ + L L Sbjct: 171 NQFSIILKQGLNRQIRKMAHYCGFKVIDLFRVQFSELALSNL 212 >gi|257081068|ref|ZP_05575429.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis E1Sol] gi|256989098|gb|EEU76400.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis E1Sol] Length = 260 Score = 93.6 bits (231), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 78/252 (30%), Positives = 134/252 (53%), Gaps = 9/252 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ SR+ V+R+I ++V V+GI+ + NV I+V G + + +T Sbjct: 2 RLDKLLEELQFGSRKTVKRLIKGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLI--SHKT 59 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ + +KP G+V+ SD + TV D + R + VGRLD +TEGLLLLT++G L Sbjct: 60 HVYYMLNKPKGVVSAVSDAS-KKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLTDNGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 L P+ + + Y V+ +G V + K GIV+Q GI ++T+ + + V Sbjct: 119 GYQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITILAATETESHV 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPH 248 + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L Sbjct: 179 FLTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLLPYF 238 Query: 249 LLEEAQVNLDAP 260 +E+ Q + P Sbjct: 239 FIEKQQTSKALP 250 >gi|317178163|dbj|BAJ55952.1| hypothetical protein HPF16_1355 [Helicobacter pylori F16] Length = 262 Score = 93.6 bits (231), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 64/236 (27%), Positives = 118/236 (50%), Gaps = 19/236 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + +V V D + +D ++ K ++ Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLVSV-VKENDKVFLDKRLIKPLKNKK 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y ++ G V ++ N +++G+ ++ G Q T Sbjct: 126 ALMHANLE--KEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R Sbjct: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMR 239 >gi|42523444|ref|NP_968824.1| pseudouridylate synthase [Bdellovibrio bacteriovorus HD100] gi|39575650|emb|CAE79817.1| pseudouridylate synthase [Bdellovibrio bacteriovorus HD100] Length = 245 Score = 93.6 bits (231), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 71/238 (29%), Positives = 114/238 (47%), Gaps = 27/238 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK++A GI SRRE + I++ V VNG ++ + V I ++ L++ +R Sbjct: 8 RLSKLMAEKGICSRREADDYISRGLVMVNGEVVSQLGTKVSPDVKITLEAQALKQQKRLA 67 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV--------FDNLPS-----IFSRVISVGRLDINTEGL 121 L +KP+G V+ +P + + F N + F + GRLDI+++GL Sbjct: 68 TILLNKPVGYVSAQPEPPYQPAIKLITPQNQFGNSKTRLKEEHFKGLAVAGRLDIDSQGL 127 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG +A+ + ++ + Y VR G + DKL LL G+ + G +V Sbjct: 128 LLFTQDGRIAKKIIGEESKVEKEYIVRVQGTLPPDKLKLLNFGLSLDGKKLKPAKVE--- 184 Query: 182 QKGSNAWVTVG-----LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 W+ L+EGK R+I+++ E KV L R+ G +LG L G R Sbjct: 185 ------WLNEDQLRFILQEGKKRQIRRMCELVGLKVTGLKRVRIGKIRLGQLPEGQWR 236 >gi|148549519|ref|YP_001269621.1| pseudouridine synthase [Pseudomonas putida F1] gi|148513577|gb|ABQ80437.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas putida F1] Length = 232 Score = 93.6 bits (231), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 69/225 (30%), Positives = 112/225 (49%), Gaps = 5/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A +R++V M+AQ+RV+V+G + +V +E+D L+ R Sbjct: 2 RLDRFLANLPSYNRQQVRLMLAQRRVRVDGKVASDPLTDVREFSRVELDEQLLQAGRPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 + +KP G V+ DP R TV D LP+ + + GRLD NT GL++LTNDG +R Sbjct: 62 YLMLYKPTGCVSATHDPQHR-TVLDLLPTALRDDLHIAGRLDFNTTGLMILTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+T+ + Y V ++ + + ++G LD A + + Sbjct: 121 LTQPATKLPKHYLVDTEDEIGEHYVAKFREGFYFAFEDLTTQPAQLDILGPHRARLAI-- 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 EG+ ++K++F FN KV L R S G +L LA G RE++ Sbjct: 179 VEGRYHQVKRMFGHFNNKVVGLHRESMGAIRLDPGLAPGEYRELT 223 >gi|313500364|gb|ADR61730.1| Pseudouridine synthase [Pseudomonas putida BIRD-1] Length = 230 Score = 93.6 bits (231), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 69/225 (30%), Positives = 112/225 (49%), Gaps = 5/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A +R+ V M+AQ+RV+V+G ++ +V +E+D L+ R Sbjct: 2 RLDRFLANLPSYNRQHVRLMLAQRRVRVDGQVVSDPLTDVREFSRVELDEQLLQAGRPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 + +KP G V+ DP R TV D LP+ + + GRLD NT GL++LTNDG +R Sbjct: 62 YLMLYKPTGCVSATHDPQHR-TVLDLLPAALRDDLHIAGRLDFNTTGLMILTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+T+ + Y V ++ + + ++G LD A + + Sbjct: 121 LTQPATKLPKHYLVDTEDEIGEHYVAKFREGFYFAFEDLTTQPAQLDILGPHRARLAI-- 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 EG+ ++K++F FN KV L R S G +L LA G RE++ Sbjct: 179 VEGRYHQVKRMFGHFNNKVIGLHRESMGAIRLDPGLAPGEYRELT 223 >gi|237751152|ref|ZP_04581632.1| ribosomal large subunit pseudouridine synthase B [Helicobacter bilis ATCC 43879] gi|229373597|gb|EEO23988.1| ribosomal large subunit pseudouridine synthase B [Helicobacter bilis ATCC 43879] Length = 267 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 69/249 (27%), Positives = 120/249 (48%), Gaps = 26/249 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV----------NVMSTDHIEVDG 64 R++ IA SRRE +R+I + VK+N L + M I + G Sbjct: 2 RLNHFIALHSKYSRREADRLIIEGAVKINHALATTKTLVPQIALQNPHAAMKEFKIFIHG 61 Query: 65 VPLRKAERTRL--WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 L A++ +YHKP G + + D GR ++D+L + ++ + VGRLD +EGLL Sbjct: 62 KMLHYAKKQNYTAIVYHKPKGELVSKKDSYGRKLIYDSLNARYAHFMPVGRLDFASEGLL 121 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV----T 178 +L++ + V +L + R Y ++ + + + +++G+ +Q G ++ T Sbjct: 122 ILSDSKEV--VSKLMHSNLPRTYILKIDSHITKQMIKAMEEGLTLQNAKAGGHRLSKIKT 179 Query: 179 LD--------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 ++ + S + + V + EGKNRE+++ F FN V L R+SYG L L Sbjct: 180 MEFMPMEYEIIKSASISKLKVRISEGKNRELRRFFAHFNANVLDLRRVSYGFINLNALPV 239 Query: 231 GSTREVSKK 239 G TR +K+ Sbjct: 240 GKTRFFTKQ 248 >gi|310641380|ref|YP_003946138.1| ribosomal small subunit pseudouridine synthase a [Paenibacillus polymyxa SC2] gi|309246330|gb|ADO55897.1| Ribosomal small subunit pseudouridine synthase A [Paenibacillus polymyxa SC2] Length = 260 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 77/245 (31%), Positives = 119/245 (48%), Gaps = 24/245 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 QR+ K++ G SR ++++ + Q + VNG ++ + + V D IEV+G + E Sbjct: 9 QRLDKILTHMGYGSRSDIKKQVKQGMITVNGRTIKDSGLQVHPYQDQIEVNGELVVFREF 68 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 + L HKP G+++ D R TV D L + VGRLD +TEGLLLLTNDG L Sbjct: 69 IYIML-HKPPGVISATEDTRER-TVLDLLSAEERHFEPFPVGRLDKDTEGLLLLTNDGKL 126 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-------- 182 A L P + Y G V ++ + G+ + D VTL Q Sbjct: 127 AHELLSPRRHVPKTYEATVSGHVTEEDILQFTAGVELD-----DGYVTLPAQLTILRHEQ 181 Query: 183 ----KGS-NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREV 236 G +++++ + EGK ++K++FE KV L R + GP +L L GS RE+ Sbjct: 182 PHQADGEVTSYISLVIHEGKFHQVKRMFEAIGKKVTYLKRTAMGPLKLDDQLPLGSYREL 241 Query: 237 SKKIL 241 + + L Sbjct: 242 TSEEL 246 >gi|15639450|ref|NP_218900.1| hypothetical protein TP0459 [Treponema pallidum subsp. pallidum str. Nichols] gi|189025691|ref|YP_001933463.1| hypothetical protein TPASS_0459 [Treponema pallidum subsp. pallidum SS14] gi|3322747|gb|AAC65447.1| conserved hypothetical protein [Treponema pallidum subsp. pallidum str. Nichols] gi|189018266|gb|ACD70884.1| hypothetical protein TPASS_0459 [Treponema pallidum subsp. pallidum SS14] Length = 261 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 73/243 (30%), Positives = 115/243 (47%), Gaps = 21/243 (8%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + F R+ +AR+G ASRR E +IA RV V+G + V + + + VDG ++ Sbjct: 5 QPFFRLRLQVYLARSGCASRRACEALIASGRVTVDGQTVTTQGRTVCAQNVVCVDGTVVQ 64 Query: 69 KAERTRLWLYHKPIGLVTTHSD--PDGRS--------------TVFDNL-PSIFSRVISV 111 R L +KP+G + + + P G + D + P+ R+ + Sbjct: 65 LERVQRYVLLYKPVGYICSLAPQFPAGYAHTQVRAGPSKQEYARAIDLVQPAYQERLYHI 124 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD+ +EG LL TNDG A+ L P + + Y V V L+ +G+ ++G Sbjct: 125 GRLDVRSEGALLFTNDGSFAQALGHPRSGIEKEYIVETREPVPAALLSSFVRGVWVEGCR 184 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 Y + + + V + L EGK REI+ VFE + V RL+R+ G +LG L G Sbjct: 185 YR----CVRARHLAAQCVQLVLVEGKKREIRVVFEAWGQDVVRLVRVRIGRVRLGPLRPG 240 Query: 232 STR 234 + R Sbjct: 241 AFR 243 >gi|120602463|ref|YP_966863.1| pseudouridine synthase [Desulfovibrio vulgaris DP4] gi|120562692|gb|ABM28436.1| ribosomal large subunit pseudouridine synthase B [Desulfovibrio vulgaris DP4] Length = 292 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 81/244 (33%), Positives = 126/244 (51%), Gaps = 12/244 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAE-- 71 R++K ++ AG+ SRR+ + IA +V+VNG ++ V +TD IEV+G L E Sbjct: 47 RLNKALSGAGVCSRRQADTFIAGGKVRVNGEVVTEMGRRVFPATDRIEVEGRLLACGEAL 106 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTN 126 R + +KP+ +V+T DP GR+T+ D LP R+ VGRLD +EGLLLLT+ Sbjct: 107 NRHRHTYVMLNKPVQVVSTVRDPQGRTTILDILPDDLKTVRLYPVGRLDFFSEGLLLLTD 166 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS 185 DG L L P + YRV + L ++ G+ + +G ++ + + Sbjct: 167 DGDLTHRLTHPKWHLPKYYRVLVREDIPPAALTAMRSGMTLAEGDRVAPVEAYIIDRSEY 226 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILR 242 + + L +G NR+I+++ V RL+RI GP +LG L GS R + K LR Sbjct: 227 GVELEMVLHQGINRQIRRMCRDLGLTVLRLLRIQQGPVELGNLSRGSCRRLEDHEVKALR 286 Query: 243 EQLG 246 + G Sbjct: 287 KAAG 290 >gi|146321792|ref|YP_001201503.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis 98HAH33] gi|253752593|ref|YP_003025734.1| ribosomal small subunit pseudouridine synthase B [Streptococcus suis SC84] gi|253754419|ref|YP_003027560.1| ribosomal small subunit pseudouridine synthase B [Streptococcus suis P1/7] gi|253756353|ref|YP_003029493.1| ribosomal small subunit pseudouridine synthase B [Streptococcus suis BM407] gi|145692598|gb|ABP93103.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Streptococcus suis 98HAH33] gi|251816882|emb|CAZ52530.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus suis SC84] gi|251818817|emb|CAZ56658.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus suis BM407] gi|251820665|emb|CAR47426.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus suis P1/7] gi|319759007|gb|ADV70949.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis JS14] Length = 242 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 116/235 (49%), Gaps = 8/235 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ SR EV++++ ++V VNG + + D I V G L E Sbjct: 2 RLDKFLVDCGVGSRTEVKKLLKNKQVTVNGQVETSPKQQINEKKDQIAVAGQVLSH-ETF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L + V VGRLDI+T GLLLLTN G LA Sbjct: 61 VYYLLNKPKGVISATED-DHHRTVLDLLDNTARQKEVFPVGRLDIDTHGLLLLTNKGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWV 189 + P ++YR + G + Q+ + GI ++ Q+T+ + + V Sbjct: 120 HAMLSPKKHVDKLYRAQVDGIMTQEDVERFAAGIELKDFTCQPAQLTILSTDEAKQTSLV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILRE 243 + +REGK +IK++ + V L R++ GP +L LA G R ++ L++ Sbjct: 180 DITIREGKFHQIKRMVQACGKTVTDLQRLTMGPLRLDPKLALGEYRRLTAAELKQ 234 >gi|227554937|ref|ZP_03984984.1| pseudouridylate synthase [Enterococcus faecalis HH22] gi|256761582|ref|ZP_05502162.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis T3] gi|256957315|ref|ZP_05561486.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis DS5] gi|257083740|ref|ZP_05578101.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis Fly1] gi|257086165|ref|ZP_05580526.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis D6] gi|294779203|ref|ZP_06744610.1| pseudouridylate synthase [Enterococcus faecalis PC1.1] gi|307270119|ref|ZP_07551437.1| hypothetical protein HMPREF9498_02235 [Enterococcus faecalis TX4248] gi|312901640|ref|ZP_07760910.1| conserved hypothetical protein [Enterococcus faecalis TX0470] gi|227175933|gb|EEI56905.1| pseudouridylate synthase [Enterococcus faecalis HH22] gi|256682833|gb|EEU22528.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis T3] gi|256947811|gb|EEU64443.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis DS5] gi|256991770|gb|EEU79072.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis Fly1] gi|256994195|gb|EEU81497.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis D6] gi|294453714|gb|EFG22109.1| pseudouridylate synthase [Enterococcus faecalis PC1.1] gi|306513554|gb|EFM82168.1| hypothetical protein HMPREF9498_02235 [Enterococcus faecalis TX4248] gi|311291251|gb|EFQ69807.1| conserved hypothetical protein [Enterococcus faecalis TX0470] gi|315027592|gb|EFT39524.1| conserved hypothetical protein [Enterococcus faecalis TX2137] gi|315031324|gb|EFT43256.1| conserved hypothetical protein [Enterococcus faecalis TX0017] gi|315035355|gb|EFT47287.1| conserved hypothetical protein [Enterococcus faecalis TX0027] gi|315166970|gb|EFU10987.1| conserved hypothetical protein [Enterococcus faecalis TX1341] gi|315172714|gb|EFU16731.1| conserved hypothetical protein [Enterococcus faecalis TX1346] gi|315575276|gb|EFU87467.1| conserved hypothetical protein [Enterococcus faecalis TX0309B] gi|315581359|gb|EFU93550.1| conserved hypothetical protein [Enterococcus faecalis TX0309A] gi|327534406|gb|AEA93240.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis OG1RF] Length = 260 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 78/252 (30%), Positives = 134/252 (53%), Gaps = 9/252 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ SR+ V+R+I ++V V+GI+ + NV I+V G + + +T Sbjct: 2 RLDKLLEELQFGSRKTVKRLIKGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLI--SHKT 59 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ + +KP G+V+ SD + TV D + R + VGRLD +TEGLLLLT++G L Sbjct: 60 HVYYMLNKPKGVVSAVSDAS-KKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLTDNGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 L P+ + + Y V+ +G V + K GIV+Q GI ++T+ + + V Sbjct: 119 GYQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETESHV 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPH 248 + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L Sbjct: 179 FLTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLLPYF 238 Query: 249 LLEEAQVNLDAP 260 +E+ Q + P Sbjct: 239 FIEKQQTSKALP 250 >gi|149017975|ref|ZP_01834434.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP23-BS72] gi|147931539|gb|EDK82517.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP23-BS72] Length = 240 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 72/217 (33%), Positives = 111/217 (51%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L + V VGRLDINT GLLLLTNDG LA Sbjct: 62 -YYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDINTHGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDM--QVTLDTQKGSNAW 188 VL P + Y + G + Q+ + +GI ++ C + V++DT+K + + Sbjct: 120 HVLLSPKRHVGKTYLAQVKGIMTQEDVETFAEGIPLKDFTCKPAILELVSIDTEK-NQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V + EGK +IK++ + +V L R++ G L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVL 215 >gi|18311295|ref|NP_563229.1| hypothetical protein CPE2313 [Clostridium perfringens str. 13] gi|18145978|dbj|BAB82019.1| conserved hypothetical protein [Clostridium perfringens str. 13] Length = 301 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 67/230 (29%), Positives = 113/230 (49%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RVK++G+ + V + + +DG L+ Sbjct: 64 RLNKYISETGFCSRREADKLIEQGRVKIDGVKAT-TGMKVSNGQSVSIDGKSLKVENELV 122 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ TT S G F N R+ +GRLD +++GL+ +TNDG + Sbjct: 123 YIALNKPVGITCTTESKIKGNIVDFINHEK---RIFPIGRLDKDSQGLIFMTNDGDIVNK 179 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + + + + G+ I G V +K S + L Sbjct: 180 ILRAGNNHEKEYIVTVNKPITDEFIKGMSNGVPILGTVTKKCLV----KKESKNSFRIIL 235 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +G NR+I+++ E+F ++V +L RI LG L GS R ++KK L E Sbjct: 236 TQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKMGSWRYLTKKELAE 285 >gi|304569705|ref|YP_010887.2| ribosomal large subunit pseudouridine synthase B [Desulfovibrio vulgaris str. Hildenborough] gi|311233922|gb|ADP86776.1| RNA-binding S4 domain protein [Desulfovibrio vulgaris RCH1] Length = 292 Score = 93.2 bits (230), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 80/244 (32%), Positives = 127/244 (52%), Gaps = 12/244 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAE-- 71 R++K ++ AG+ SRR+ + +IA +V+VNG ++ V +TD IEV+G L E Sbjct: 47 RLNKALSGAGVCSRRQADTLIAGGKVRVNGEVVTEMGRRVFPATDRIEVEGRLLACGEAL 106 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTN 126 R + +KP+ +V+T DP GR+T+ D LP R+ VGRLD +EGLLLLT+ Sbjct: 107 NRHRHTYVMLNKPVQVVSTVRDPQGRTTILDILPDDLKTVRLYPVGRLDFFSEGLLLLTD 166 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS 185 DG L L P + YRV + L ++ G+ + +G ++ + + Sbjct: 167 DGDLTHRLTHPKWHLPKYYRVLVREDIPPAALTAMRSGMTLAEGDRVAPVEAYIIDRSEY 226 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILR 242 + + L +G NR+I+++ V RL+RI GP +LG L G+ R + K LR Sbjct: 227 GVELEMVLHQGINRQIRRMCRDLGLTVLRLLRIQQGPVELGNLSRGACRRLEDHEVKALR 286 Query: 243 EQLG 246 + G Sbjct: 287 KAAG 290 >gi|157150331|ref|YP_001449642.1| pseudouridine synthase rRNA-specific [Streptococcus gordonii str. Challis substr. CH1] gi|157075125|gb|ABV09808.1| pseudouridine synthase rRNA-specific [Streptococcus gordonii str. Challis substr. CH1] Length = 242 Score = 93.2 bits (230), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 79/250 (31%), Positives = 124/250 (49%), Gaps = 16/250 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + G+ SR +V+ ++ + V VNG + ++ T D I V G L E+ Sbjct: 2 RLDKFLVENGLGSRSQVKEVLKKGLVLVNGRAEKSPKTHINETADEIVVSGQKL-TYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G ++ D + TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPKGYISATED-ERHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P ++YR + G ++Q + +GI ++ Q V LD +K + Sbjct: 120 HAMLSPKKHVEKIYRAQVAGLMNQSDVEQFARGIELKDFTCQPAQLKIVELDEEK-ETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGP 247 V + L EGK ++K++ +V L R++ GP QL + LA G R ++K+ ++ Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDSGLALGEWRRLTKEEMKS---- 234 Query: 248 HLLEEAQVNL 257 LE QV L Sbjct: 235 --LERFQVEL 242 >gi|331002924|ref|ZP_08326437.1| hypothetical protein HMPREF0491_01299 [Lachnospiraceae oral taxon 107 str. F0167] gi|330413217|gb|EGG92591.1| hypothetical protein HMPREF0491_01299 [Lachnospiraceae oral taxon 107 str. F0167] Length = 242 Score = 93.2 bits (230), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 72/238 (30%), Positives = 124/238 (52%), Gaps = 13/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL---RKAE 71 R++K +A G+ SRRE ++ I RV +NG + E A+ V D + +DG + + E Sbjct: 2 RLNKFLASIGVCSRREADKAIEAGRVMINGEVAELGAM-VGEEDLVSLDGRYIATGKDVE 60 Query: 72 RTR--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + + ++KP G+V T SD DG + V D + + R+ VGRLD ++ GLLLLTN G Sbjct: 61 KVKPIIIAFNKPEGIVCTTSDNDGATNVVDYI-GMKERIYPVGRLDKDSSGLLLLTNQGS 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L + + Y V+ + +D D +N + GI + + + + +K + Sbjct: 120 LTNSLLRAANYHEKEYIVKVNKDIDDDFINKMSNGIYLYELKTKTRKCKV--KKLNKNTF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS----KKILRE 243 ++ L +G NR+I+++ KV +L R+ +L L G+ R +S KK+ +E Sbjct: 178 SIVLTQGLNRQIRRMCLACGMKVQKLNRVRIVNIKLDGLALGAYRNLSDEEIKKLYKE 235 >gi|315500451|ref|YP_004089254.1| pseudouridine synthase [Asticcacaulis excentricus CB 48] gi|315418463|gb|ADU15103.1| pseudouridine synthase [Asticcacaulis excentricus CB 48] Length = 255 Score = 93.2 bits (230), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 66/239 (27%), Positives = 117/239 (48%), Gaps = 15/239 (6%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + P R++K +A++G+ SRRE + IA V V G ++ A V + + + Sbjct: 8 IYDGAEPIRLNKWLAQSGVCSRREADAFIADGLVSVEGEVVRDAGRKVEAGQSVSFNPQA 67 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTV-----------FDNLPSIFSRVISVGRLD 115 + +YHKP+G+V+ + V P+ S++ VGRLD Sbjct: 68 QASLDAKLTVVYHKPVGIVSGQPEAGETPAVRMIRRPNHWGQLTQWPNQDSKLAPVGRLD 127 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 ++ GLL+L+ DG LA+ + P ++ + Y VR G + + KL L++G+ + G + Sbjct: 128 KDSRGLLILSEDGVLAKAIIGPDSELEKDYTVRVRGPIFEAKLKWLRQGLELDG---RKL 184 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + Q G V L+EG+NR+I+++ + +V L R GP ++G L G R Sbjct: 185 KPAVVQQVGEQTLRFV-LKEGRNRQIRRMCDMCELRVLDLYRSRIGPVEIGDLPEGQWR 242 >gi|20806585|ref|NP_621756.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Thermoanaerobacter tengcongensis MB4] gi|254478969|ref|ZP_05092328.1| conserved hypothetical protein, putative [Carboxydibrachium pacificum DSM 12653] gi|20515028|gb|AAM23360.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Thermoanaerobacter tengcongensis MB4] gi|214035085|gb|EEB75800.1| conserved hypothetical protein, putative [Carboxydibrachium pacificum DSM 12653] Length = 240 Score = 93.2 bits (230), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 74/230 (32%), Positives = 123/230 (53%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K+++ GI +R+EV++ I V+VNG I+L+ + D + DG + E Sbjct: 5 RLDKLLSNMGIGTRKEVKKYIKDGLVEVNGEIVLDPSKTVDTEKDEVLFDGEKVEYKEFI 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 + + +KP G+++ D TV D LP + +V VGRLD +TEGLL++TNDG LA Sbjct: 65 YVMM-NKPQGVISATHDK-SEETVIDLLPEEIALRKVFPVGRLDKDTEGLLIITNDGELA 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVT 190 L P + ++ Y G++ + K+G++++ Y M L+ + S+ + V Sbjct: 123 HKLLSPKKKVVKKYYAEVLGKITEKDAEKFKEGVILED-GYRTMPSQLEIIESSDISKVY 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 V L EGK ++K++FE KV L R+ G QL L G RE++++ Sbjct: 182 VYLTEGKYHQVKRMFEAIGKKVLYLKRLCMGKLQLDENLEPGEWRELTEE 231 >gi|165869849|ref|ZP_02214507.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0488] gi|167633985|ref|ZP_02392308.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0442] gi|167637988|ref|ZP_02396266.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0193] gi|170685858|ref|ZP_02877081.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0465] gi|170705568|ref|ZP_02896032.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0389] gi|177651245|ref|ZP_02934076.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0174] gi|190568332|ref|ZP_03021240.1| RNA pseudouridine synthase family protein [Bacillus anthracis Tsiankovskii-I] gi|196033247|ref|ZP_03100660.1| RNA pseudouridine synthase family protein [Bacillus cereus W] gi|196040819|ref|ZP_03108117.1| RNA pseudouridine synthase family protein [Bacillus cereus NVH0597-99] gi|196043991|ref|ZP_03111228.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB108] gi|225866694|ref|YP_002752072.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB102] gi|228917358|ref|ZP_04080911.1| Pseudouridine synthase [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228929759|ref|ZP_04092776.1| Pseudouridine synthase [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228936016|ref|ZP_04098826.1| Pseudouridine synthase [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228948455|ref|ZP_04110737.1| Pseudouridine synthase [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|229186962|ref|ZP_04314116.1| Pseudouridine synthase [Bacillus cereus BGSC 6E1] gi|229600897|ref|YP_002868983.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0248] gi|254687515|ref|ZP_05151371.1| ribosomal small subunit pseudouridine synthase A [Bacillus anthracis str. CNEVA-9066] gi|254725079|ref|ZP_05186862.1| ribosomal small subunit pseudouridine synthase A [Bacillus anthracis str. A1055] gi|254736817|ref|ZP_05194523.1| ribosomal small subunit pseudouridine synthase A [Bacillus anthracis str. Western North America USA6153] gi|254741853|ref|ZP_05199540.1| ribosomal small subunit pseudouridine synthase A [Bacillus anthracis str. Kruger B] gi|254754548|ref|ZP_05206583.1| ribosomal small subunit pseudouridine synthase A [Bacillus anthracis str. Vollum] gi|254757380|ref|ZP_05209407.1| ribosomal small subunit pseudouridine synthase A [Bacillus anthracis str. Australia 94] gi|270000608|ref|YP_003329047.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Ames] gi|291612224|ref|YP_003541038.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. 'Ames Ancestor'] gi|301056214|ref|YP_003794425.1| RNA pseudouridylate synthase [Bacillus anthracis CI] gi|164714678|gb|EDR20197.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0488] gi|167513805|gb|EDR89173.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0193] gi|167530786|gb|EDR93488.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0442] gi|170129693|gb|EDS98556.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0389] gi|170670322|gb|EDT21062.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0465] gi|172083071|gb|EDT68133.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0174] gi|190560588|gb|EDV14565.1| RNA pseudouridine synthase family protein [Bacillus anthracis Tsiankovskii-I] gi|195994676|gb|EDX58631.1| RNA pseudouridine synthase family protein [Bacillus cereus W] gi|196025327|gb|EDX63997.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB108] gi|196028273|gb|EDX66882.1| RNA pseudouridine synthase family protein [Bacillus cereus NVH0597-99] gi|224552861|gb|ACN55070.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. 'Ames Ancestor'] gi|225786978|gb|ACO27195.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB102] gi|228596516|gb|EEK54182.1| Pseudouridine synthase [Bacillus cereus BGSC 6E1] gi|228811214|gb|EEM57553.1| Pseudouridine synthase [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228823784|gb|EEM69606.1| Pseudouridine synthase [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228829938|gb|EEM75558.1| Pseudouridine synthase [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228842285|gb|EEM87380.1| Pseudouridine synthase [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|229265305|gb|ACQ46942.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0248] gi|269850291|gb|ACZ49996.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Ames] gi|300378383|gb|ADK07287.1| RNA pseudouridylate synthase [Bacillus cereus biovar anthracis str. CI] Length = 242 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 117/229 (51%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + + G + E Sbjct: 2 RLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF+ VGRLDI+TEG LL+TNDG L Sbjct: 62 YLMM-HKPQGVISATED-DNHETVIDLLELEDAIFNP-FPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + L P + Y G V ++ + KG+++ Y L K + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGALTILKSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELT 226 >gi|164687721|ref|ZP_02211749.1| hypothetical protein CLOBAR_01363 [Clostridium bartlettii DSM 16795] gi|164603495|gb|EDQ96960.1| hypothetical protein CLOBAR_01363 [Clostridium bartlettii DSM 16795] Length = 258 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 74/236 (31%), Positives = 112/236 (47%), Gaps = 22/236 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 QR+ K+++ G SR E+++ VKVNG ++ V V + D I DG + E Sbjct: 22 QRIDKILSNLGYGSRSELKKFCKNGLVKVNGKVINNPGVQVDVENDEIIFDGEKVTYKEF 81 Query: 73 TRLWLYHKPIGLVTTHSDP---------DGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 L L +KP G ++ D D VF+ P VGRLD +TEGLL+ Sbjct: 82 IYLML-NKPDGYISATFDKRDPIVLDLIDKEDLVFEPFP--------VGRLDKDTEGLLV 132 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG LA + P + Y + G V ++ + KG+ + Y M L K Sbjct: 133 LTNDGQLAHRVLSPKKHVPKTYYAKIEGIVTEEDIKAFAKGVTLDD-GYETMPAELIILK 191 Query: 184 GSN-AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + + + EGK ++K++FE + KV L R+S G +L LA G RE++ Sbjct: 192 SDEISEIELTIHEGKFHQVKRMFESVDKKVIYLKRLSMGKLKLDENLALGEYRELT 247 >gi|332365597|gb|EGJ43357.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1059] Length = 242 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 72/222 (32%), Positives = 109/222 (49%), Gaps = 9/222 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A G+ SR +V++ + + V VNG + + T D I V G L E+ Sbjct: 2 RLDKFLAENGLGSRAQVKQFLKKGLVLVNGRAEKSPKTQIDETADEIAVSGQRL-TYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATED-DRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P ++YR + G ++Q + GI ++ Q + LD K + Sbjct: 120 HAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKAFTCQPAQLKILELDEAK-ETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + L EGK ++K++ +V L R++ GP QL LA Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTNLQRLTMGPLQLDPALA 220 >gi|300870412|ref|YP_003785283.1| RNA pseudouridine synthase family protein [Brachyspira pilosicoli 95/1000] gi|300688111|gb|ADK30782.1| RNA pseudouridine synthase family protein [Brachyspira pilosicoli 95/1000] Length = 225 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 69/226 (30%), Positives = 118/226 (52%), Gaps = 11/226 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA IASRRE + +I +VKVNG ++ A V TD +E D K E+ + Sbjct: 2 RLNKYIASLNIASRREADNLIKDGKVKVNGEIILNPATQVSETDKVECD-----KDEKNK 56 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +++ +KP G V + + +G+ T+++ L + V VGRLD ++ GL+LLTNDG A+ Sbjct: 57 IYIKLNKPRGYVVSTNKDEGK-TIYELLNNKLKGVYPVGRLDKDSNGLILLTNDGVFAKK 115 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + ++ + Y V+ + + L L+ GI + G + T+ N +T Sbjct: 116 IIGENSNCEKEYYVKVNDNIPDGALKKLEYGISLDGKKLKPAKTKRITKNSFNIILT--- 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 EG+NR+I+++ E ++V L R+ L L G ++K+ Sbjct: 173 -EGRNRQIRRMCEKVGFEVIILKRLRINNIFLNELKEGKFEYLTKE 217 >gi|52140796|ref|YP_086033.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus cereus E33L] gi|229198871|ref|ZP_04325562.1| Pseudouridine synthase [Bacillus cereus m1293] gi|51974265|gb|AAU15815.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus cereus E33L] gi|228584574|gb|EEK42701.1| Pseudouridine synthase [Bacillus cereus m1293] Length = 242 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 117/229 (51%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + + G + E Sbjct: 2 RLDKLLANMGYGSRKEVKKLLKDGVVKIDGIPVKDAKVHVNVEEQEVMIHGEVVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF+ VGRLDI+TEG LL+TNDG L Sbjct: 62 YLMM-HKPQGVISATED-DNHETVIDLLELEDAIFNP-FPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + L P + Y G V ++ + KG+++ Y L K + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGALTILKSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELT 226 >gi|315151609|gb|EFT95625.1| conserved hypothetical protein [Enterococcus faecalis TX0012] Length = 320 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 77/260 (29%), Positives = 137/260 (52%), Gaps = 15/260 (5%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDG 64 ++QE R+ K++ SR+ V+R+I ++V V+GI+ + NV I+V G Sbjct: 53 LIQEWSGTMRLDKLLEELQFGSRKTVKRLIKGKQVTVDGIVTLNESQNVDAQLQMIKVKG 112 Query: 65 VPLRKAERTRLW-LYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINT 118 + + +T ++ + +KP G+V+ SD ++ + D P ++ VGRLD +T Sbjct: 113 QLI--SHKTHVYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYP----VGRLDGDT 166 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQV 177 EGLLLLT++G L L P+ + + Y V+ +G V + K GIV+Q GI ++ Sbjct: 167 EGLLLLTDNGQLGYQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKI 226 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREV 236 T+ + + V + ++EGK ++KK+F KV L R + GP +L L G+ R + Sbjct: 227 TVLAATETESHVFLTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSL 286 Query: 237 SKKILREQLGPHLLEEAQVN 256 +++ L+ L +E+ Q + Sbjct: 287 TREELQLLLPYFFIEKQQTS 306 >gi|307707699|ref|ZP_07644178.1| RNA pseudouridine synthase family protein [Streptococcus mitis NCTC 12261] gi|307616197|gb|EFN95391.1| RNA pseudouridine synthase family protein [Streptococcus mitis NCTC 12261] Length = 240 Score = 92.8 bits (229), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 76/239 (31%), Positives = 120/239 (50%), Gaps = 10/239 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEERDEIRFDGKVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L I V VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYMMNKPQGVISATEDPKHR-TVLDLLDDIARSKEVFPVGRLDIDTHGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 L P + Y V+ G + Q +++ +GI ++ + V++DT+K + + Sbjct: 120 HALLSPKRHVNKTYLVQVKGIMTQGDVDIFAEGIPLKDFTCQPARLELVSIDTEK-NQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + V + EGK ++K++ + +V L R++ G L L G R ++K+ L L Sbjct: 179 IRVTIAEGKFHQVKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELENLLA 237 >gi|295105192|emb|CBL02736.1| ribosomal small subunit pseudouridine synthase A [Faecalibacterium prausnitzii SL3/3] Length = 233 Score = 92.8 bits (229), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 71/229 (31%), Positives = 111/229 (48%), Gaps = 8/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A +R E + M+A+ RV+VNG + ++ + D + VDG PLR + Sbjct: 2 RLDKYLAETAQCTRSEAKTMLAKGRVQVNGAVCKKGDTQLKDNDTVTVDGAPLRYQKFVY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP G+V+ +D +TV D + + R + GRLD + G +LLT+DGG A Sbjct: 62 LML-NKPEGVVSASTDKR-DTTVVDLVGDAYPRRELFPAGRLDKTSTGFVLLTDDGGFAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V + Q+ G+ + G +VT + G V V Sbjct: 120 DILSPRHHVSKTYTVTIDTPLTQEMRTGFAAGVTLADGTALSPAEVTALSPDGCT--VRV 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 LR+G +IK++F + VN L R + G L LA G RE+S + Sbjct: 178 VLRQGVYHQIKRMFGVYGAGVNALHREAIGGLALDAQLAPGQWRELSDE 226 >gi|330443912|ref|YP_004376898.1| RNA pseudouridylate synthase [Chlamydophila pecorum E58] gi|328807022|gb|AEB41195.1| RNA pseudouridylate synthase [Chlamydophila pecorum E58] Length = 234 Score = 92.8 bits (229), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 112/229 (48%), Gaps = 7/229 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 T R++K ++ AGIASRR+ + +I V +NG + + V V D + V G P+ Sbjct: 1 MTKVRLNKFLSAAGIASRRKCDEIIFAGEVTINGRVAQGPFVQVDDQHDRVLVRGKPIAS 60 Query: 70 AERTRLWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ ++ HKP+G V T G V D + RV +VGRLD T GL+L+TNDG Sbjct: 61 TKKV-YFMVHKPLGFVCTSERKFPGTKLVIDLFSHLPYRVFTVGRLDKETSGLILVTNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 A + PS + Y ++ + V + LN L +G +I G + V+ K Sbjct: 120 DFANKIIHPSYGITKEYLLKVNRDVIEKDLNSLMQGTMIDGKRVRPVAVS----KVRRGT 175 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + EGK EI+ E ++ L RI G LG L G RE++ Sbjct: 176 IKIVVNEGKKHEIRLFAEAAGLQILELKRIRIGSLVLGGLRYGEYRELT 224 >gi|65322075|ref|ZP_00395034.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Bacillus anthracis str. A2012] gi|118479842|ref|YP_896993.1| ribosomal small subunit pseudouridine synthase A [Bacillus thuringiensis str. Al Hakam] gi|118419067|gb|ABK87486.1| ribosomal small subunit pseudouridine synthase A [Bacillus thuringiensis str. Al Hakam] Length = 245 Score = 92.8 bits (229), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 117/229 (51%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + + G + E Sbjct: 5 RLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKEFV 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF+ VGRLDI+TEG LL+TNDG L Sbjct: 65 YLMM-HKPQGVISATED-DNHETVIDLLELEDAIFNP-FPVGRLDIDTEGFLLITNDGKL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + L P + Y G V ++ + KG+++ Y L K + + + Sbjct: 122 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGALTILKSDDISEI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 181 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELT 229 >gi|296390923|ref|ZP_06880398.1| putative pseudouridylate synthase [Pseudomonas aeruginosa PAb1] Length = 230 Score = 92.8 bits (229), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 65/208 (31%), Positives = 105/208 (50%), Gaps = 4/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A SRR+ + +IA R++V+G ++ V +E+D L+ + R Sbjct: 2 RLDRFLANLPELSRRDAQMLIAGGRLRVDGQVVRDGTHEVRVFSRVELDERLLQAGKPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG-RLDINTEGLLLLTNDGGLARV 133 ++ HKP+G V+ DP TV D P + +G RLD NT GL+LLTNDG +R Sbjct: 62 YYMLHKPMGCVSATRDPQ-HPTVLDLFPEDQRDDLHIGGRLDYNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L LP ++ +VY V +DQ ++ G+ + + L+ A +T L Sbjct: 121 LTLPGSRRDKVYYVETEAPIDQRYVDAFAAGLHFRFEDLTTLPAQLEPIGPRCARLT--L 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 EG+ ++K++F F+ KV RL R G Sbjct: 179 HEGRYHQVKRMFGHFDNKVLRLHRERMG 206 >gi|295399574|ref|ZP_06809556.1| pseudouridine synthase [Geobacillus thermoglucosidasius C56-YS93] gi|312109871|ref|YP_003988187.1| pseudouridine synthase [Geobacillus sp. Y4.1MC1] gi|294979040|gb|EFG54636.1| pseudouridine synthase [Geobacillus thermoglucosidasius C56-YS93] gi|311214972|gb|ADP73576.1| pseudouridine synthase [Geobacillus sp. Y4.1MC1] Length = 240 Score = 92.8 bits (229), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 71/230 (30%), Positives = 117/230 (50%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VK++G++++ V ++ + V G + E Sbjct: 4 RIDKMLANMGFGTRKEVKKLLKSGVVKIDGMIVKDPKTQVNPSEQVVTVRGEEVEYKEFI 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGGL 130 L + +KP G+++ D TV D L +F+ VGRLD +TEGLLLLTNDG L Sbjct: 64 YLMM-NKPPGVISATEDM-AEETVIDLLEEEDRVFAP-FPVGRLDKDTEGLLLLTNDGQL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y G+V ++ + + GIV+ + + G + V Sbjct: 121 AHQLLSPKKHVPKTYFAVIDGEVTEEDIESFRHGIVLDDGYKTKPAELIILKSGLRSDVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 V + EGK +IK++F +V L RI GP L +L G RE+++K Sbjct: 181 VTITEGKFHQIKRMFRALGKRVVYLKRIQMGPLALDPSLEVGEYRELTEK 230 >gi|42783894|ref|NP_981141.1| RNA pseudouridylate synthase family protein [Bacillus cereus ATCC 10987] gi|49478734|ref|YP_038752.1| pseudouridylate synthase (ribosomal small subunit pseudouridine synthase A) [Bacillus thuringiensis serovar konkukian str. 97-27] gi|206977314|ref|ZP_03238211.1| RNA pseudouridine synthase family protein [Bacillus cereus H3081.97] gi|217962194|ref|YP_002340764.1| RNA pseudouridine synthase family protein [Bacillus cereus AH187] gi|228987961|ref|ZP_04148067.1| Pseudouridine synthase [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|229141441|ref|ZP_04269978.1| Pseudouridine synthase [Bacillus cereus BDRD-ST26] gi|229158317|ref|ZP_04286384.1| Pseudouridine synthase [Bacillus cereus ATCC 4342] gi|42739824|gb|AAS43749.1| RNA pseudouridylate synthase family protein [Bacillus cereus ATCC 10987] gi|49330290|gb|AAT60936.1| pseudouridylate synthase (ribosomal small subunit pseudouridine synthase A) [Bacillus thuringiensis serovar konkukian str. 97-27] gi|206744465|gb|EDZ55875.1| RNA pseudouridine synthase family protein [Bacillus cereus H3081.97] gi|217065826|gb|ACJ80076.1| RNA pseudouridine synthase family protein [Bacillus cereus AH187] gi|228625275|gb|EEK82035.1| Pseudouridine synthase [Bacillus cereus ATCC 4342] gi|228642004|gb|EEK98298.1| Pseudouridine synthase [Bacillus cereus BDRD-ST26] gi|228771765|gb|EEM20225.1| Pseudouridine synthase [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] Length = 242 Score = 92.8 bits (229), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 117/229 (51%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + + G + E Sbjct: 2 RLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF+ VGRLDI+TEG LL+TNDG L Sbjct: 62 YLMM-HKPQGVISATED-DNHETVIDLLELEDAIFNP-FPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + L P + Y G V ++ + KG+++ Y L K + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGALTILKSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELT 226 >gi|255971278|ref|ZP_05421864.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis T1] gi|255962296|gb|EET94772.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis T1] Length = 260 Score = 92.8 bits (229), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 76/255 (29%), Positives = 134/255 (52%), Gaps = 15/255 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ SR+ V+R+I ++V V+GI+ + NV I+V G + + +T Sbjct: 2 RLDKLLEELQFGSRKTVKRLIKGKQVTVDGIVTLNESRNVDAQLQMIKVKGQLI--SHKT 59 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + +KP G+V+ SD ++ + D P ++ VGRLD +TEGLLLLT++ Sbjct: 60 HVYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYP----VGRLDGDTEGLLLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G L L P+ + + Y V+ +G V + K GIV+Q GI ++T+ + Sbjct: 116 GQLGYQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETE 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQL 245 + V + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L Sbjct: 176 SHVFLTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLL 235 Query: 246 GPHLLEEAQVNLDAP 260 +E+ Q + P Sbjct: 236 PYFFIEKQQTSKALP 250 >gi|221231179|ref|YP_002510331.1| ribosomal small subunit pseudouridine synthase B [Streptococcus pneumoniae ATCC 700669] gi|220673639|emb|CAR68127.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus pneumoniae ATCC 700669] Length = 240 Score = 92.8 bits (229), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 76/234 (32%), Positives = 116/234 (49%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ M+ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNMLKSGRVTVNGKKEKSAKLQIDEERDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L I V VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYMMNKPKGVISATEDPKHR-TVLDLLDDIARSKEVFPVGRLDIDTHGLLLLTNDGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 L P + Y + G + Q+ KGI ++ + V++DT+K + + Sbjct: 120 HALLSPKRHVDKTYLAQVKGIMTQEDAETFAKGIPLKDFTCQPARLELVSVDTKK-NQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + V + EGK ++K++ + +V L R++ G L L G R ++K+ L Sbjct: 179 IRVTIAEGKFHQVKRMVGYCGKEVVDLQRLTMGTLVLDENLQRGEWRRLTKEEL 232 >gi|256617696|ref|ZP_05474542.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis ATCC 4200] gi|256854328|ref|ZP_05559692.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis T8] gi|257089238|ref|ZP_05583599.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis CH188] gi|256597223|gb|EEU16399.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis ATCC 4200] gi|256709888|gb|EEU24932.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis T8] gi|256998050|gb|EEU84570.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis CH188] gi|315030512|gb|EFT42444.1| conserved hypothetical protein [Enterococcus faecalis TX4000] gi|323480003|gb|ADX79442.1| conserved hypothetical protein [Enterococcus faecalis 62] Length = 260 Score = 92.4 bits (228), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 76/255 (29%), Positives = 134/255 (52%), Gaps = 15/255 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ SR+ V+R+I ++V V+GI+ + NV I+V G + + +T Sbjct: 2 RLDKLLEELQFGSRKTVKRLIRGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLI--SHKT 59 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + +KP G+V+ SD ++ + D P ++ VGRLD +TEGLLLLT++ Sbjct: 60 HVYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYP----VGRLDGDTEGLLLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G L L P+ + + Y V+ +G V + K GIV+Q GI ++T+ + Sbjct: 116 GQLGYQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETE 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQL 245 + V + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L Sbjct: 176 SHVFLTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLL 235 Query: 246 GPHLLEEAQVNLDAP 260 +E+ Q + P Sbjct: 236 PYFFIEKQQTSKALP 250 >gi|322516330|ref|ZP_08069256.1| ribosomal small subunit pseudouridine synthase A [Streptococcus vestibularis ATCC 49124] gi|322125168|gb|EFX96557.1| ribosomal small subunit pseudouridine synthase A [Streptococcus vestibularis ATCC 49124] Length = 243 Score = 92.4 bits (228), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 64/219 (29%), Positives = 109/219 (49%), Gaps = 13/219 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + G+ SR +V+ + +++V VNG + + D + E T Sbjct: 2 RLDKFLVDCGVGSRSQVKNFLKKKQVIVNGQVETSPKTQIDENK----DRITYLDQELTH 57 Query: 75 ----LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDG 128 +L +KP G+++ DP + TV D L RV VGRLDI+T GLLLLTN+G Sbjct: 58 ETFVYYLLNKPQGVISATEDPRHK-TVLDLLDDTARHKRVFPVGRLDIDTHGLLLLTNNG 116 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICY-GDMQVTLDTQKGSN 186 LA + P ++Y+ + G +D++ + +KGI ++ C +++ + S Sbjct: 117 DLAHAMLSPKKHVDKIYQAKVAGVMDEEDILAFEKGIKLKDHTCQPAKLEIVSVDRNEST 176 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +WV + + EGK ++K++ +V L R+S GP L Sbjct: 177 SWVQITIAEGKFHQVKRMVAACGKEVTELQRLSMGPLSL 215 >gi|149006033|ref|ZP_01829762.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP18-BS74] gi|307126496|ref|YP_003878527.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae 670-6B] gi|147762389|gb|EDK69350.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP18-BS74] gi|306483558|gb|ADM90427.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae 670-6B] gi|332076726|gb|EGI87188.1| hypothetical protein SPAR148_0259 [Streptococcus pneumoniae GA17545] Length = 240 Score = 92.4 bits (228), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 70/217 (32%), Positives = 112/217 (51%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L + + VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEIFPVGRLDIDTHGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDM--QVTLDTQKGSNAW 188 VL P + Y + G + Q+ + + +GI ++ C + V++DT+K + + Sbjct: 120 HVLLSPKRHVDKTYLAQVKGIMTQEDVEIFAEGIPLKDFTCQPAILELVSIDTEK-NQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V + EGK +IK++ + +V L R++ G L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVL 215 >gi|313105549|ref|ZP_07791817.1| putative pseudouridylate synthase [Pseudomonas aeruginosa 39016] gi|310878319|gb|EFQ36913.1| putative pseudouridylate synthase [Pseudomonas aeruginosa 39016] Length = 230 Score = 92.4 bits (228), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 66/210 (31%), Positives = 107/210 (50%), Gaps = 8/210 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A SRR+ + +IA R++V+G ++ V +E+D L+ + R Sbjct: 2 RLDRFLANLPELSRRDAQMLIAGGRLRVDGQVVRDGTHEVRVFSRVELDEQLLQAGKPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG-RLDINTEGLLLLTNDGGLARV 133 ++ HKP+G V+ DP TV D P + +G RLD NT GL+LLTNDG +R Sbjct: 62 YYMLHKPMGCVSATRDPQ-HPTVLDLFPEDQRDDLHIGGRLDYNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA--WVTV 191 L LP ++ +VY V +DQ ++ G+ + + D+ +TL Q + Sbjct: 121 LTLPGSRRDKVYYVETEAPIDQRYVDAFAAGLHFR---FEDL-ITLPAQLEPIGPRCARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYG 221 L EG+ ++K++F F+ KV RL R G Sbjct: 177 TLHEGRYHQVKRMFGHFDNKVLRLHRERMG 206 >gi|315652469|ref|ZP_07905454.1| pseudouridine synthase RluB [Eubacterium saburreum DSM 3986] gi|315485258|gb|EFU75655.1| pseudouridine synthase RluB [Eubacterium saburreum DSM 3986] Length = 242 Score = 92.4 bits (228), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 73/240 (30%), Positives = 123/240 (51%), Gaps = 12/240 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL---RKAE 71 R++K +A G+ SRRE +R I RV +NG E A+ V D + +DG + + E Sbjct: 2 RLNKFLASIGVCSRREADRAIEANRVMINGETAELGAI-VGEEDLVSLDGRYIATGKDVE 60 Query: 72 RTR--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + + ++KP G+V T SD DG + V D + + R+ VGRLD ++ GLLLLTN G Sbjct: 61 KVKPIIIAFNKPEGVVCTTSDNDGATNVVDYI-GMKERIYPVGRLDKDSSGLLLLTNQGS 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L + + Y V+ + +D + +N + GI + + + + +K + Sbjct: 120 LTNSLLRAANYHEKEYIVKVNKDIDDEFINKISNGIYLYELKTKTRKCKV--RKLNKNTF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQLG 246 ++ L +G NR+I+++ KV +L R+ +L L G R +S K L ++LG Sbjct: 178 SIVLTQGLNRQIRRMCAACGRKVQKLNRVRIVNIKLDGLAVGDYRNLSDEEIKKLYKELG 237 >gi|148994694|ref|ZP_01823798.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP9-BS68] gi|168489757|ref|ZP_02713956.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae SP195] gi|147927094|gb|EDK78134.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP9-BS68] gi|183571795|gb|EDT92323.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae SP195] gi|332075138|gb|EGI85608.1| hypothetical protein SPAR50_0282 [Streptococcus pneumoniae GA17570] Length = 240 Score = 92.4 bits (228), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 70/217 (32%), Positives = 112/217 (51%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L + + VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEIFPVGRLDIDTHGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDM--QVTLDTQKGSNAW 188 VL P + Y + G + Q+ + + +GI ++ C + V++DT+K + + Sbjct: 120 HVLLSPKRHVDKTYLAQVKGIMTQEDVEIFAEGIPLKDFTCQPAILELVSIDTEK-NQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V + EGK +IK++ + +V L R++ G L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVL 215 >gi|162447734|ref|YP_001620866.1| rRNA pseudouridylate synthase [Acholeplasma laidlawii PG-8A] gi|161985841|gb|ABX81490.1| rRNA pseudouridylate synthase [Acholeplasma laidlawii PG-8A] Length = 238 Score = 92.4 bits (228), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 68/227 (29%), Positives = 119/227 (52%), Gaps = 5/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+SKVIA+AG ASRR+ E +I + +VKVN ++ V D I V+G PL K E Sbjct: 2 ERLSKVIAQAGCASRRKAENLITEGKVKVNDEVINVLGYKVSPKDIITVEGKPLVK-EPL 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G ++T +D R + D + R+ + +L+ +T GLLL+TNDG L Sbjct: 61 VYYLLNKPTGYLSTTADIHKRRNILDLILKEDQNVRLFPIHKLEYDTSGLLLVTNDGELT 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWV 189 + L S + Y +R G + ++++ +K+GI ++ I D+ + + + V Sbjct: 121 KKLTSQSESIQKEYVIRTKGIMIKERIREIKRGIKVENKIIKPVDIAIVELDKAHQSTLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + +E+K +F+ +V + RI + L + GS R++ Sbjct: 181 KMIITNESAKELKTMFKQLGHEVKNMTRIRFDSLTLEGVNRGSYRKL 227 >gi|296877269|ref|ZP_06901309.1| ribosomal small subunit pseudouridine synthase A [Streptococcus parasanguinis ATCC 15912] gi|296431789|gb|EFH17596.1| ribosomal small subunit pseudouridine synthase A [Streptococcus parasanguinis ATCC 15912] Length = 242 Score = 92.4 bits (228), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 64/216 (29%), Positives = 108/216 (50%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ SR EV++++ Q+++ VNG + + D + G L E Sbjct: 2 RLDKFLVDCGVGSRTEVKQLLKQKKIAVNGKKETAGKLQIDPGKDRVTFMGEDLVH-ETF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPAGVISATED-DHHQTVLDLLDETARHKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNAWV 189 + P ++YR + G +D+ + + GI ++ +Q+ + ++++V Sbjct: 120 HAMLSPKKHVSKIYRAQVAGIMDEADVARFEAGIALKDFTTLPARLQILEVNEANASSYV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK ++K++ +V L RIS GP L Sbjct: 180 EIEIAEGKFHQVKRMVAACGKEVADLERISMGPLTL 215 >gi|229548762|ref|ZP_04437487.1| pseudouridylate synthase [Enterococcus faecalis ATCC 29200] gi|255973897|ref|ZP_05424483.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis T2] gi|256964355|ref|ZP_05568526.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis HIP11704] gi|257418422|ref|ZP_05595416.1| ribosomal small subunit pseudouridine synthase [Enterococcus faecalis T11] gi|257421072|ref|ZP_05598062.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis X98] gi|293388465|ref|ZP_06632971.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis S613] gi|300859808|ref|ZP_07105896.1| pseudouridylate synthase [Enterococcus faecalis TUSoD Ef11] gi|307271422|ref|ZP_07552695.1| hypothetical protein HMPREF9514_00174 [Enterococcus faecalis TX0855] gi|312979317|ref|ZP_07791015.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 516] gi|229306102|gb|EEN72098.1| pseudouridylate synthase [Enterococcus faecalis ATCC 29200] gi|255966769|gb|EET97391.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis T2] gi|256954851|gb|EEU71483.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis HIP11704] gi|257160250|gb|EEU90210.1| ribosomal small subunit pseudouridine synthase [Enterococcus faecalis T11] gi|257162896|gb|EEU92856.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis X98] gi|291082155|gb|EFE19118.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis S613] gi|300850626|gb|EFK78375.1| pseudouridylate synthase [Enterococcus faecalis TUSoD Ef11] gi|306511886|gb|EFM80883.1| hypothetical protein HMPREF9514_00174 [Enterococcus faecalis TX0855] gi|311287911|gb|EFQ66467.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 516] gi|315145203|gb|EFT89219.1| conserved hypothetical protein [Enterococcus faecalis TX2141] gi|315161890|gb|EFU05907.1| conserved hypothetical protein [Enterococcus faecalis TX0645] Length = 260 Score = 92.4 bits (228), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 76/255 (29%), Positives = 134/255 (52%), Gaps = 15/255 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ SR+ V+R+I ++V V+GI+ + NV I+V G + + +T Sbjct: 2 RLDKLLEELQFGSRKTVKRIIRGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLI--SHKT 59 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + +KP G+V+ SD ++ + D P ++ VGRLD +TEGLLLLT++ Sbjct: 60 HVYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYP----VGRLDGDTEGLLLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G L L P+ + + Y V+ +G V + K GIV+Q GI ++T+ + Sbjct: 116 GQLGYQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETE 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQL 245 + V + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L Sbjct: 176 SHVFLTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLL 235 Query: 246 GPHLLEEAQVNLDAP 260 +E+ Q + P Sbjct: 236 PYFFIEKQQTSKALP 250 >gi|238917131|ref|YP_002930648.1| ribosomal large subunit pseudouridine synthase F [Eubacterium eligens ATCC 27750] gi|238872491|gb|ACR72201.1| ribosomal large subunit pseudouridine synthase F [Eubacterium eligens ATCC 27750] Length = 244 Score = 92.4 bits (228), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 70/234 (29%), Positives = 123/234 (52%), Gaps = 15/234 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAE 71 +R++K ++ GI SRRE +RMI + R+ ++G + AA+ M D+ I VDG RK + Sbjct: 11 ERINKYLSAHGICSRREADRMIQEGRITIDGRI---AAMGEMVDDNTIICVDG---RKVD 64 Query: 72 RTR----LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + ++KP+G+V T +D G++ + D R+ VGRLD ++GL+LLTND Sbjct: 65 NSTPPQVVIAFNKPVGIVCTTTDKQGKNNIVD-FIGYKERIYPVGRLDKESDGLILLTND 123 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + L + Y V + +++D + + GI ++ + + + +K S+ Sbjct: 124 GDMMDRLLRSVNGHEKEYIVSVNKPINKDFIKRMSGGIYLKELDRTTRKCVV--EKISDR 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +G NR+I+++ + V +L RI +LG L G RE+ K L Sbjct: 182 TFRIILTQGLNRQIRRMCAECGYSVTKLTRIRIMNVELGDLKTGEYRELDGKEL 235 >gi|15618773|ref|NP_225059.1| pseudouridine synthase [Chlamydophila pneumoniae CWL029] gi|4377181|gb|AAD19002.1| predicted pseudouridine synthase [Chlamydophila pneumoniae CWL029] Length = 235 Score = 92.4 bits (228), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 73/227 (32%), Positives = 109/227 (48%), Gaps = 6/227 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T R++K +A AG+ASRR+ + +I V VNG + E V V D ++V G + + Sbjct: 2 TKVRLNKFLASAGVASRRKCDEIIFSGSVTVNGRVAEGPFVLVDPEDKVQVGGTSVHLTK 61 Query: 72 RTRLWLYHKPIG-LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + ++ HK IG L ++ G V D + RV +VGRLD T GL+L+TNDG Sbjct: 62 KV-YFMVHKAIGYLCSSEKKFPGTKLVIDLFAHLPYRVFTVGRLDKETSGLILVTNDGEF 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + PS+ + Y ++ V L L +G I G + VT K V Sbjct: 121 ANKIIHPSSGITKEYLLKVSRDVSAKDLGKLMEGTFIDGKHVRPVSVT----KIRRGTVK 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EGK EI+ + + + L RI G LG L G RE++ Sbjct: 177 IVVSEGKKHEIRLFADAAGFPILELKRIRIGSLVLGGLRYGEYRELT 223 >gi|104783290|ref|YP_609788.1| 16S rRNA pseudouridylate 516 synthase [Pseudomonas entomophila L48] gi|95112277|emb|CAK17004.1| 16S rRNA pseudouridylate 516 synthase [Pseudomonas entomophila L48] Length = 249 Score = 92.4 bits (228), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 68/227 (29%), Positives = 110/227 (48%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + + +R++V ++A +RV+V+G++ V +EVD ++ R Sbjct: 2 RLDRFLGNLPCYNRQQVRLLLASKRVRVDGVVASDPLHEVREFSRVEVDDQVVQAGYPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 + HKP G V+ SDP TV D LP+ + + GRLD NT GL++LTNDG +R Sbjct: 62 YLMLHKPTGCVSATSDP-LHPTVLDLLPAELRDGLHIAGRLDYNTTGLMILTNDGQWSRH 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T+ +VY V ++ ++ ++G LD A +T+ Sbjct: 121 LTQPRTKLPKVYLVHTEDEIGAHYVDKFREGFYFAFEDLTTQPAQLDILGPREARLTI-- 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F +F KV L R G L LA G RE+S + Sbjct: 179 VEGRYHQVKRMFGYFQNKVVGLHRERMGAIALDPGLAPGEYRELSAE 225 >gi|228903228|ref|ZP_04067361.1| Pseudouridine synthase [Bacillus thuringiensis IBL 4222] gi|228967810|ref|ZP_04128824.1| Pseudouridine synthase [Bacillus thuringiensis serovar sotto str. T04001] gi|228791860|gb|EEM39448.1| Pseudouridine synthase [Bacillus thuringiensis serovar sotto str. T04001] gi|228856402|gb|EEN00929.1| Pseudouridine synthase [Bacillus thuringiensis IBL 4222] Length = 242 Score = 92.4 bits (228), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 116/229 (50%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++G ++ A V+V + + + G + E Sbjct: 2 RLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF VGRLDI+TEG LL+TNDG L Sbjct: 62 YLMM-HKPQGVISATED-DNHETVIDLLELEDAIFDP-FPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + L P + Y G V ++ + KG+++ Y TL K + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGTLTILKSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELT 226 >gi|315170843|gb|EFU14860.1| conserved hypothetical protein [Enterococcus faecalis TX1342] Length = 320 Score = 92.4 bits (228), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 76/255 (29%), Positives = 134/255 (52%), Gaps = 15/255 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ SR+ V+R+I ++V V+GI+ + NV I+V G + + +T Sbjct: 62 RLDKLLEELQFGSRKTVKRLIKGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLI--SHKT 119 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + +KP G+V+ SD ++ + D P ++ VGRLD +TEGLLLLT++ Sbjct: 120 HVYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYP----VGRLDGDTEGLLLLTDN 175 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G L L P+ + + Y V+ +G V + K GIV+Q GI ++T+ + Sbjct: 176 GQLGYQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETE 235 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQL 245 + V + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L Sbjct: 236 SHVFLTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLL 295 Query: 246 GPHLLEEAQVNLDAP 260 +E+ Q + P Sbjct: 296 PYFFIEKQQTSKALP 310 >gi|315159966|gb|EFU03983.1| conserved hypothetical protein [Enterococcus faecalis TX0312] Length = 260 Score = 92.4 bits (228), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 76/255 (29%), Positives = 134/255 (52%), Gaps = 15/255 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ SR+ V+R+I ++V V+GI+ + NV I+V G + + +T Sbjct: 2 RLDKLLEELQFGSRKTVKRLIRGKQVTVDGIVTLNESHNVDAQLQMIKVKGQLI--SHKT 59 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + +KP G+V+ SD ++ + D P ++ VGRLD +TEGLLLLT++ Sbjct: 60 HVYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYP----VGRLDGDTEGLLLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G L L P+ + + Y V+ +G V + K GIV+Q GI ++T+ + Sbjct: 116 GQLGYQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETE 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQL 245 + V + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L Sbjct: 176 SHVFLTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLL 235 Query: 246 GPHLLEEAQVNLDAP 260 +E+ Q + P Sbjct: 236 PYFFIEKQQTSKALP 250 >gi|325681054|ref|ZP_08160586.1| putative 16S pseudouridylate 516 synthase [Ruminococcus albus 8] gi|324107283|gb|EGC01567.1| putative 16S pseudouridylate 516 synthase [Ruminococcus albus 8] Length = 246 Score = 92.4 bits (228), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 120/233 (51%), Gaps = 10/233 (4%) Query: 15 RVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K++A + SR +V+++ ++++ VNG L+ R+ V + D I V+G L + Sbjct: 6 RLDKLVASQFSDVSRADVKKLCLKKKISVNGKLMARSDAKVDTDDEIFVNGERLVYKKHV 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 + L +KP G+V + + D TV D +P R + GRLD +TEG +LLT+DG L+ Sbjct: 66 YIML-NKPAGVVCSTKEGDSM-TVLDLVPPELMRNGLFPAGRLDKDTEGFVLLTDDGELS 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KGS---NA 187 + P T + Y VR + +++ G+ I+G+ G+ + L Q GS + Sbjct: 124 HRMLSPKTHVPKTYFVRLEKPYQPEYADIMAAGMTIKGLDGGEDEKCLPAQFSGSDENDC 183 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 T+ L EGK ++K++F KV L R + G L G L +G E+ K Sbjct: 184 ECTLILHEGKFHQVKRMFAELGNKVVYLKRTAIGEMPLNGELASGKCLEILHK 236 >gi|15595930|ref|NP_249424.1| pseudouridylate synthase [Pseudomonas aeruginosa PAO1] gi|34098724|sp|Q9I5J6|RSUA_PSEAE RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|9946618|gb|AAG04122.1|AE004508_7 probable pseudouridylate synthase [Pseudomonas aeruginosa PAO1] Length = 230 Score = 92.4 bits (228), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 66/210 (31%), Positives = 106/210 (50%), Gaps = 8/210 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A SRR+ + +IA ++V+G ++ V +E+D L+ + R Sbjct: 2 RLDRFLANLPELSRRDAQMLIAGGHLRVDGQVVRDGTHEVRVFSRVELDERLLQAGKPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG-RLDINTEGLLLLTNDGGLARV 133 ++ HKP+G V+ DP TV D P + +G RLD NT GL+LLTNDG +R Sbjct: 62 YYMLHKPMGCVSATRDPQ-HPTVLDLFPEDLRDDLHIGGRLDYNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA--WVTV 191 L LP ++ +VY V +DQ ++ G+ + + D+ VTL Q + Sbjct: 121 LTLPGSRRDKVYYVETEAPIDQRYVDAFAAGLHFR---FEDL-VTLPAQLEPIGPRCARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYG 221 L EG+ ++K++F F+ KV RL R G Sbjct: 177 TLHEGRYHQVKRMFGHFDNKVLRLHRERMG 206 >gi|225569254|ref|ZP_03778279.1| hypothetical protein CLOHYLEM_05336 [Clostridium hylemonae DSM 15053] gi|225162053|gb|EEG74672.1| hypothetical protein CLOHYLEM_05336 [Clostridium hylemonae DSM 15053] Length = 247 Score = 92.4 bits (228), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 69/235 (29%), Positives = 121/235 (51%), Gaps = 13/235 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD---HIEVDGVPLRKAE 71 R++K ++ AG+ SRRE +R+I + RV V+G + AV M D + V +R + Sbjct: 2 RLNKFLSEAGVCSRREADRLIEEGRVTVDG----KKAVPGMQVDPSSEVRVGKKRIRSKD 57 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + HKP G+V T + + F P R+ GRLD +EGLL++T+DG L Sbjct: 58 KKTVLAVHKPAGIVCTEDKRVKNNIIRFLKYPE---RITYAGRLDKESEGLLIMTDDGEL 114 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGSNAW 188 + + Y+V + V ++ +N + G+ + G +VT + ++ Sbjct: 115 INGMMRSRYGHEKEYKVWVNKPVTEEFVNRMSSGVRLVDKEKGLDEVTRPCEVRQCGTYI 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 T+ L +G NR+I+++ E +KV RL+RI +LG L G+ R+++++ L E Sbjct: 175 FTIILTQGLNRQIRRMCEALGYKVKRLVRIRIMNIELGNLKPGAYRKLTEQELNE 229 >gi|296188747|ref|ZP_06857134.1| S4 domain protein [Clostridium carboxidivorans P7] gi|296046674|gb|EFG86121.1| S4 domain protein [Clostridium carboxidivorans P7] Length = 179 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 57/158 (36%), Positives = 89/158 (56%), Gaps = 4/158 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K +A GIASRR+ E +I Q RVKVNG ++ V + D + +DG L K E+ Sbjct: 3 ERLQKYMAACGIASRRKCEEIILQARVKVNGKIVNELGVKIDEEKDLVTLDG-KLIKKEK 61 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++++ +KP G V+T D GR T+ D L + R+ +GRLD +T GL+LLTNDG + Sbjct: 62 NKVYIALNKPKGYVSTVKDERGRKTILD-LVDVTERIYPIGRLDYDTSGLILLTNDGDIY 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 + P + ++Y G ++ + + GI I G Sbjct: 121 NKIIHPKQEKNKIYIALIKGIPTENDIKKFEIGINIDG 158 >gi|262170804|ref|ZP_06038482.1| ribosomal large subunit pseudouridine synthase F [Vibrio mimicus MB-451] gi|261891880|gb|EEY37866.1| ribosomal large subunit pseudouridine synthase F [Vibrio mimicus MB-451] Length = 332 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 68/233 (29%), Positives = 112/233 (48%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +++I Q RV +NG E V D + +DG PLR ER Sbjct: 7 KRLNKFISETGFCSRREADKLIEQGRVTLNGAQPE-VGSKVTEQDEVCIDGKPLRSKERP 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ T ++ D + D + S R+ +GRLD ++GL+ LTNDG + Sbjct: 66 IYIALNKPTGITCT-TERDVPGNIVDFI-SHHKRIFPIGRLDKPSDGLIFLTNDGDIVNK 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + + + + G+ I +VT +TQ +T GL Sbjct: 124 ILRAGNNHEKEYVVRVDKPITPEFIRQMASGVNILDTVTLPCKVTQETQYSFRIVLTQGL 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 184 ----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVNEILA 232 >gi|261838734|gb|ACX98500.1| pseudouridine synthase B [Helicobacter pylori 51] Length = 262 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 63/241 (26%), Positives = 123/241 (51%), Gaps = 19/241 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A + SRRE E+++ + RVK+N + ++V V D + +D ++ K ++ Sbjct: 7 RINQFLAHYTMHSRREAEKLVLEGRVKINHEHAKLSSV-VKENDKVFLDKRLIKPLKNKK 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ V ++ + +++G+ ++ G Q T Sbjct: 126 ALMHANLE--KEYLVKIQSFVTKEMESAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 K 239 + Sbjct: 244 Q 244 >gi|49081896|gb|AAT50348.1| PA0733 [synthetic construct] Length = 231 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 67/214 (31%), Positives = 107/214 (50%), Gaps = 8/214 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A SRR+ + +IA ++V+G ++ V +E+D L+ + R Sbjct: 2 RLDRFLANLPELSRRDAQMLIAGGHLRVDGQVVRDGTHEVRVFSRVELDERLLQAGKPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG-RLDINTEGLLLLTNDGGLARV 133 ++ HKP+G V+ DP TV D P + +G RLD NT GL+LLTNDG +R Sbjct: 62 YYMLHKPMGCVSATRDPQ-HPTVLDLFPEDLRDDLHIGGRLDYNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA--WVTV 191 L LP ++ +VY V +DQ ++ G+ + + D+ VTL Q + Sbjct: 121 LTLPGSRRDKVYYVETEAPIDQRYVDAFAAGLHFR---FEDL-VTLPAQLEPIGPRCARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 L EG+ ++K++F F+ KV RL R G L Sbjct: 177 TLHEGRYHQVKRMFGHFDNKVLRLHRERMGDICL 210 >gi|332687173|ref|YP_004456947.1| ribosomal small subunit pseudouridine synthaseA [Melissococcus plutonius ATCC 35311] gi|332371182|dbj|BAK22138.1| ribosomal small subunit pseudouridine synthaseA [Melissococcus plutonius ATCC 35311] Length = 243 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 67/220 (30%), Positives = 108/220 (49%), Gaps = 6/220 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K ++ +G+ SR+EV++++ Q+ +KVNG L + + D ++ Sbjct: 2 RLDKFLSDSGLGSRKEVKQLLKQKCIKVNGTLAKDGKQQISQIDDYVTHAGEKIVYQKYF 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP ++++ DP R TV D L R + VGRLD +TEGLLLLTNDG LA Sbjct: 62 YYVLNKPKNVISSTKDPIER-TVVDLLAKKHYRKDIFPVGRLDKDTEGLLLLTNDGDLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V + + L KG ++ G ++ +D + V Sbjct: 121 QLLSPKKHVDKEYLAEIDGIVTEQDIKLFAKGFTLKNGEAVKPARLIIDQMDEGHQMTIV 180 Query: 192 GL--REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 L +EGK ++K+VFE +V L R+ G L + L Sbjct: 181 HLTIQEGKFHQVKRVFETIGKRVTYLKRLKMGSLSLDSDL 220 >gi|332295067|ref|YP_004436990.1| pseudouridine synthase Rsu [Thermodesulfobium narugense DSM 14796] gi|332178170|gb|AEE13859.1| pseudouridine synthase Rsu [Thermodesulfobium narugense DSM 14796] Length = 248 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 66/229 (28%), Positives = 122/229 (53%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R++K ++ +G+ SRR+ E +I +V+VN ++ + V + D ++V+G ++ ++ Sbjct: 1 MRINKFLSFSGLTSRRKAEDLILSGKVEVNDKVISDLSYKVDPNKDVVKVNGRLVKIRKK 60 Query: 73 TRLWLYHKPIGLVTT-HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L++KP ++T DP G T+ + + + R+ GRLD ++EGLLLLT+DG A Sbjct: 61 RHYLLFYKPRWVLTALGKDPGGLKTLDEYIKDLKIRLFPAGRLDFDSEGLLLLTDDGDFA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVD-QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + PS + ++ Y+V + D DK +L G V+ G + +W+ Sbjct: 121 HKIHHPSFEVVKKYQVLVNPIFDIVDKEKVL-SGCVLMGKYVKPDSFKILKDLSDASWLE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG +K+ + + V RLIR++ G F+L T + GS R +S++ Sbjct: 180 IAFHEGMKHLVKEYLKKMGYSVKRLIRVAIGDFRL-TGVPGSYRWLSEE 227 >gi|222153366|ref|YP_002562543.1| ribosomal small subunit pseudouridine synthase A [Streptococcus uberis 0140J] gi|222114179|emb|CAR42705.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus uberis 0140J] Length = 236 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 72/225 (32%), Positives = 116/225 (51%), Gaps = 10/225 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 + K++ +A I SR EV++MI Q+V ++G + + + NV + VDG + + Sbjct: 1 MDKLLEKARIGSRTEVKKMIKNQKVVLDGKIAQSISQNVDTGFQELIVDGKKI-EGYSHH 59 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L HKP G VT D + T+FD L + VGRLD +TEGL+L+T++G L Sbjct: 60 YFLIHKPAGYVTARLDQN-HPTLFDLLKPEDRVEGLYPVGRLDRDTEGLVLVTDNGPLGF 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKG-SNAWV 189 + PS + Y V +G + +D + GIV +C + ++ Q+ S A++ Sbjct: 119 RMLHPSHHVEKTYYVEVNGFLGEDAPLFFRSGIVFLDGTVCKPAVLEVINCQQNLSKAYL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 T+ EGK ++KK+F + KV L R+S+ LG L G R Sbjct: 179 TIS--EGKFHQVKKMFLSYGLKVTYLRRVSFAGLSLGNLPLGKYR 221 >gi|46449495|gb|AAS96146.1| ribosomal large subunit pseudouridine synthase B [Desulfovibrio vulgaris str. Hildenborough] Length = 267 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 80/244 (32%), Positives = 127/244 (52%), Gaps = 12/244 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAE-- 71 R++K ++ AG+ SRR+ + +IA +V+VNG ++ V +TD IEV+G L E Sbjct: 22 RLNKALSGAGVCSRRQADTLIAGGKVRVNGEVVTEMGRRVFPATDRIEVEGRLLACGEAL 81 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTN 126 R + +KP+ +V+T DP GR+T+ D LP R+ VGRLD +EGLLLLT+ Sbjct: 82 NRHRHTYVMLNKPVQVVSTVRDPQGRTTILDILPDDLKTVRLYPVGRLDFFSEGLLLLTD 141 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS 185 DG L L P + YRV + L ++ G+ + +G ++ + + Sbjct: 142 DGDLTHRLTHPKWHLPKYYRVLVREDIPPAALTAMRSGMTLAEGDRVAPVEAYIIDRSEY 201 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILR 242 + + L +G NR+I+++ V RL+RI GP +LG L G+ R + K LR Sbjct: 202 GVELEMVLHQGINRQIRRMCRDLGLTVLRLLRIQQGPVELGNLSRGACRRLEDHEVKALR 261 Query: 243 EQLG 246 + G Sbjct: 262 KAAG 265 >gi|224100741|ref|XP_002311995.1| predicted protein [Populus trichocarpa] gi|222851815|gb|EEE89362.1| predicted protein [Populus trichocarpa] Length = 397 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 73/241 (30%), Positives = 123/241 (51%), Gaps = 21/241 (8%) Query: 9 ENF--TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGV 65 ENF QR+SKV+A AG+ASRR E +I + +V VNG + V D I V+G Sbjct: 140 ENFRDQAQRLSKVLAAAGVASRRSSEALIFEGKVTVNGSVCNTPQTRVDPGRDSIYVNGN 199 Query: 66 PLRKAERTRLWL-YHKPIGLVTTHSDPDGRS--TVFDN-----------LPSIFSRVISV 111 L K ++++ +KP G + + + + +S + D+ LP R+ +V Sbjct: 200 RLPKKLPPKIYIALNKPKGYICSLGEKESKSVMCLLDDYFQSWDKRNPGLPK--PRLFTV 257 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI- 170 GRLD+ T GL+++TNDG A+ + PS+ + Y G V + L + +G VI+G+ Sbjct: 258 GRLDVATTGLIIVTNDGDFAQQIAHPSSNLSKEYIATVDGVVSKRHLFAVSEGTVIEGVR 317 Query: 171 CYGDMQVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 C D L Q + + + EG+N E++++ + +++ L R+ G F+L + L Sbjct: 318 CVPDSVELLPQQPDRPRPRLRIVVHEGRNHEVRELVKNAGLEIHSLKRVRIGGFRLPSDL 377 Query: 230 A 230 Sbjct: 378 G 378 >gi|163786127|ref|ZP_02180575.1| pseudouridine synthase, Rsu [Flavobacteriales bacterium ALC-1] gi|159877987|gb|EDP72043.1| pseudouridine synthase, Rsu [Flavobacteriales bacterium ALC-1] Length = 255 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 124/236 (52%), Gaps = 12/236 (5%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + +N T R++K ++ AG SRRE +R+I RV +N ++ E V S D ++VDG Sbjct: 1 MSDNLT--RLNKYLSEAGYCSRREADRLIDAGRVTINDVVPE-MGTKVASGDIVKVDGEI 57 Query: 67 LRKAERTRLWL-YHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLL 123 + + ++ ++L ++KP+G+V T + + D N P R+ +GRLD +EGL+L Sbjct: 58 IGERKQGFVYLAFNKPVGIVCTTDTRVEKDNIIDYINYPK---RIFPIGRLDKPSEGLIL 114 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LT+DG + + S + Y V + Q + + GI I+ + G + +K Sbjct: 115 LTDDGDIVNKILRASNNHEKEYIVTVDKPISQTFVARMAGGIYIEEL--GKRTKKCEVKK 172 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ L +G NR+I+++ E+ N++V L R+ +L L G RE++K+ Sbjct: 173 IDKFTFSIILTQGLNRQIRRMCEYLNYEVQTLKRVRIMNIKLDMPL-GKYRELTKE 227 >gi|283769551|ref|ZP_06342447.1| pseudouridylate synthase [Bulleidia extructa W1219] gi|283103819|gb|EFC05205.1| pseudouridylate synthase [Bulleidia extructa W1219] Length = 231 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 79/231 (34%), Positives = 119/231 (51%), Gaps = 17/231 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ +V+A A + SR +V+ M+ RV VNG I L + + + D I +D L+ A+ Sbjct: 2 RLDRVLANASVGSRTQVKNMVKNGRVSVNGKIALASSMMVDPNQDVIRIDDEILQYAKYQ 61 Query: 74 RLWLYHKPIGLVTTHSDPDGR--STVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L LY KP G + S +GR TV + +P+ + + GRLD +TEGLLL+TNDG LA Sbjct: 62 YLMLY-KPAGYI---SATEGRYDPTVLELVPN-YKGLFPCGRLDKDTEGLLLMTNDGRLA 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNAWV 189 L P + Y V + Q+ + +++GI + I Y +++ D Q Sbjct: 117 HNLLSPKKHVEKEYYVEHQLPLSQEDVLCIERGIRYKNITYKGAKLKILDDLQ------C 170 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 T+ L+EGK EIK +F + KV L RI L TL G R +S++ Sbjct: 171 TIILQEGKYHEIKNIFLAIDNKVTYLKRIRMKNLILDETLKKGEYRPLSEE 221 >gi|167035395|ref|YP_001670626.1| pseudouridine synthase [Pseudomonas putida GB-1] gi|166861883|gb|ABZ00291.1| pseudouridine synthase [Pseudomonas putida GB-1] Length = 230 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 68/225 (30%), Positives = 109/225 (48%), Gaps = 5/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A +R++ M+AQ+RV+V+G ++ V +E+D L+ R Sbjct: 2 RLDRFLANLPSHNRQQARLMLAQRRVRVDGQVVSDPLAEVREFSRVELDEQLLQAGRPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 + HKP G V+ DP TV D LP+ + + GRLD NT GL++LTNDG +R Sbjct: 62 YLMLHKPTGCVSATQDPQ-HPTVLDLLPAALRDDLHIAGRLDFNTTGLMILTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+T+ + Y V ++ + + ++G LD A + + Sbjct: 121 LTQPATKLPKHYLVDTEDEIGEHYVARFREGFYFAFENLTTQPALLDILGPRQARLAI-- 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 EG+ ++K++F FN KV L R S G L LA G RE++ Sbjct: 179 VEGRYHQVKRMFGHFNNKVVGLHRESMGAICLDPGLAPGEFRELT 223 >gi|312868136|ref|ZP_07728340.1| pseudouridylate synthase [Streptococcus parasanguinis F0405] gi|311096540|gb|EFQ54780.1| pseudouridylate synthase [Streptococcus parasanguinis F0405] Length = 242 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 65/224 (29%), Positives = 109/224 (48%), Gaps = 23/224 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG---------ILLERAAVNVMSTDHIEVDGV 65 R+ K + G+ SR EV++++ Q+++ VNG I ++ V M D + Sbjct: 2 RLDKFLVDCGVGSRTEVKQLLKQKKIAVNGKKETAGKLQIDPDKDQVTFMGEDLVH---- 57 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLL 123 E +L +KP G+++ D D TV D L V VGRLDI+T GLLL Sbjct: 58 -----ETFVYYLLNKPAGVISATED-DHHQTVLDLLDETARHKEVFPVGRLDIDTHGLLL 111 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDT 181 LTN+G LA + P + YR + G +D+ + ++GI ++ +Q+ Sbjct: 112 LTNNGKLAHAMLSPKKHVSKNYRAQVAGIMDEADVARFEEGIALKDFTTLPARLQILEVN 171 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + ++++V + + EGK ++K++ +V L RIS GP L Sbjct: 172 EASASSYVEIEIAEGKFHQVKRMVAACGKEVVDLERISMGPLTL 215 >gi|169832770|ref|YP_001693807.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae Hungary19A-6] gi|168995272|gb|ACA35884.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae Hungary19A-6] Length = 240 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 71/217 (32%), Positives = 111/217 (51%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L + V VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDM--QVTLDTQKGSNAW 188 VL P + Y + G + Q+ + +GI ++ C + V++DT+K + + Sbjct: 120 HVLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPAILELVSIDTEK-NQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V + EGK +IK++ + +V L R++ G L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVL 215 >gi|331265615|ref|YP_004325245.1| ribosomal small subunit pseudouridine synthase A [Streptococcus oralis Uo5] gi|326682287|emb|CBY99904.1| ribosomal small subunit pseudouridine synthase A [Streptococcus oralis Uo5] Length = 240 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 76/235 (32%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEERDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L ++R V VGRLDI+T GLLLLTNDG L Sbjct: 62 -YYMMNKPQGVISATEDPKHR-TVLDLLDD-YARAKEVFPVGRLDIDTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNA 187 A L P + Y + G + Q+ + KGI ++ + V++D +K + + Sbjct: 119 AHALLSPKRHVDKTYLAQVEGIMSQEDVETFAKGIPLKDFTCQPAKLEFVSVDPEK-NQS 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V V + EGK ++K++ F +V L R++ G L L G R ++K+ L Sbjct: 178 LVRVTIAEGKFHQVKRMVAFCGKEVVDLQRLTMGTLVLDENLEQGEWRRLTKEEL 232 >gi|229032362|ref|ZP_04188334.1| Pseudouridine synthase [Bacillus cereus AH1271] gi|228728970|gb|EEL79974.1| Pseudouridine synthase [Bacillus cereus AH1271] Length = 242 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 114/229 (49%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++G ++ A V+V + + + G + E Sbjct: 2 RLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF VGRLDI+TEG LL+TNDG L Sbjct: 62 YLMM-HKPQGVISATED-DNHETVIDLLELEDAIFDP-FPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + L P + Y G V ++ + KG+++ Y L K + + Sbjct: 119 SHQLLSPKKHVPKKYYAHIAGVVTEEDVKEFAKGVILDD-GYETKPGALTILKSDEISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE+S Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDAELELGEYRELS 226 >gi|332359298|gb|EGJ37119.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK49] Length = 242 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 72/222 (32%), Positives = 111/222 (50%), Gaps = 9/222 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K +A G+ SR +V++++ + V VNG + + D I V G L E+ Sbjct: 2 RLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDERADEIVVSGQRL-TYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATED-DRHQTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P ++YR + G ++Q + GI ++ Q + LD +K S + Sbjct: 120 HAMLSPKKHVEKIYRAQVAGLMEQADVERFAAGIELKDFTCQPAQLKILELDEEKES-SL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + L EGK ++K++ +V L R++ GP QL LA Sbjct: 179 VEITLAEGKFHQVKRMVAACRKEVTDLQRLTMGPLQLDPTLA 220 >gi|328956893|ref|YP_004374279.1| 16S pseudouridylate synthase [Carnobacterium sp. 17-4] gi|328673217|gb|AEB29263.1| 16S pseudouridylate synthase [Carnobacterium sp. 17-4] Length = 239 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 76/236 (32%), Positives = 114/236 (48%), Gaps = 11/236 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G +R+ V+ ++ + V VNG + + V D I V G + E Sbjct: 2 RLDKLLANMGFGTRKTVKNVLKAKEVTVNGTMEKDGKTQVDPDKDVIVVSGEAVHYQEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP G+V+ D + TV D L +F VGRLD +TEGLLLLTNDG L Sbjct: 62 Y-FMMHKPQGVVSATID-NLHETVIDLLQPQDQVFDP-FPVGRLDKDTEGLLLLTNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQ-KGSNA 187 A L P + Y G V++ + K GI + IC L T + Sbjct: 119 AHNLLSPKKHVDKCYEAIIEGLVNEQDIQAFKDGITLNDGFICQSAKLEILSTDLEKEQT 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V + EGK ++K++FE + VN L R+S G QL T+ G+ R ++ + L Sbjct: 179 LIHVTIHEGKFHQVKRMFEAVDKSVNYLKRLSMGKLQLDETVEIGNYRPLTNEELE 234 >gi|294911634|ref|XP_002778026.1| pseudouridine synthase, putative [Perkinsus marinus ATCC 50983] gi|239886147|gb|EER09821.1| pseudouridine synthase, putative [Perkinsus marinus ATCC 50983] Length = 267 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 74/217 (34%), Positives = 106/217 (48%), Gaps = 17/217 (7%) Query: 24 GIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPI 82 GI S E R+I + R+ +NG +++ V+V D I V+G PL R L L HKP Sbjct: 2 GIPSGTEAGRLIERGRISINGRPIVQNRWVDV-RKDSILVNGTPLEATCRLTL-LMHKPA 59 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL 142 G V + DP R TVF LP + + GRLD +T GLLLLTND L L P + Sbjct: 60 GYVVSRDDPLNRDTVFQLLPDPSVYIGASGRLDKDTTGLLLLTNDTYLQSSLVDPVYKVP 119 Query: 143 RVYRVRFHG-QVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT------------QKGSNAW 188 +VYRV G ++ +L L+ G+ ++ G + LD + Sbjct: 120 KVYRVVVKGAALNGAQLMALRSGVSLEDGPTLPALVEPLDVNGDPLPLEMSEYDRYKCKQ 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + L EG+NR+++++ E V L RI GPF L Sbjct: 180 LNITLWEGRNRQVRRMVEAVGSTVRDLCRIQLGPFSL 216 >gi|295113966|emb|CBL32603.1| pseudouridine synthase family [Enterococcus sp. 7L76] Length = 260 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 75/255 (29%), Positives = 134/255 (52%), Gaps = 15/255 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ SR+ V+R+I ++V V+GI+ + NV I++ G + + +T Sbjct: 2 RLDKLLEELQFGSRKTVKRLIKGKQVTVDGIVTLNESQNVDAQLQMIKLKGQLI--SHKT 59 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + +KP G+V+ SD ++ + D P ++ VGRLD +TEGLLLLT++ Sbjct: 60 HVYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYP----VGRLDGDTEGLLLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G L L P+ + + Y V+ +G V + K GIV+Q GI ++T+ + Sbjct: 116 GQLGYQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETK 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQL 245 + V + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L Sbjct: 176 SHVFLTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLL 235 Query: 246 GPHLLEEAQVNLDAP 260 +E+ Q + P Sbjct: 236 PYFFIEKQQTSKALP 250 >gi|327484742|gb|AEA79149.1| Ribosomal large subunit pseudouridine synthase F LSU Psi2604 [Vibrio cholerae LMA3894-4] Length = 328 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 112/235 (47%), Gaps = 7/235 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR E Sbjct: 5 TEKRLNKFISETGYCSRREADKLIEQGRVTINGLQPE-VGSKVTEQDEVCIDGKPLRSKE 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 64 RPIYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + + + + G+ I +VT +TQ +T Sbjct: 122 NKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYSFRIVLTQ 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 GL NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 182 GL----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSDAEVSEILA 232 >gi|158520075|ref|YP_001527945.1| pseudouridine synthase [Desulfococcus oleovorans Hxd3] gi|158508901|gb|ABW65868.1| pseudouridine synthase [Desulfococcus oleovorans Hxd3] Length = 241 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 79/234 (33%), Positives = 115/234 (49%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K ++ AG+ SRR E IA+ RV VNG ++ V +D + DG + AE Sbjct: 11 RLQKFLSGAGVCSRRRAEVYIAEGRVAVNGQVVTELGTKVDPESDDVMFDGHRVTLAESH 70 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G VT S + T L ++ RV VGRLD + GLLL+T+DGGL + Sbjct: 71 VYIALNKPPGYVT--SCLQKQETTVMELVAVDQRVFPVGRLDKPSCGLLLMTSDGGLHQR 128 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + Y V V L+ +++G+VI G +V ++ S+ + L Sbjct: 129 LSHPSFDHEKEYDVACDRPVSDADLDAMRRGMVITGRKTRPAKV----KRLSDRRFLIIL 184 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR---EVSKKILREQ 244 +EG+NR+I+++ E +V L RI LG L G R E KK L Q Sbjct: 185 QEGRNRQIRRMAEMLGNRVVLLRRIRIAHIHLGDLAEGRWRYLTEEEKKALLHQ 238 >gi|15900214|ref|NP_344818.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae TIGR4] gi|111656756|ref|ZP_01407636.1| hypothetical protein SpneT_02001953 [Streptococcus pneumoniae TIGR4] gi|148988021|ref|ZP_01819484.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP6-BS73] gi|149011151|ref|ZP_01832456.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP19-BS75] gi|168493975|ref|ZP_02718118.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CDC3059-06] gi|225856037|ref|YP_002737548.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae P1031] gi|225858129|ref|YP_002739639.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae 70585] gi|225860315|ref|YP_002741824.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae Taiwan19F-14] gi|298229569|ref|ZP_06963250.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae str. Canada MDR_19F] gi|298254034|ref|ZP_06977620.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae str. Canada MDR_19A] gi|298502097|ref|YP_003724037.1| pseudouridylate synthase [Streptococcus pneumoniae TCH8431/19A] gi|14971752|gb|AAK74458.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae TIGR4] gi|147764787|gb|EDK71717.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP19-BS75] gi|147926485|gb|EDK77558.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP6-BS73] gi|183576148|gb|EDT96676.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CDC3059-06] gi|225721053|gb|ACO16907.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae 70585] gi|225725053|gb|ACO20905.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae P1031] gi|225728111|gb|ACO23962.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae Taiwan19F-14] gi|298237692|gb|ADI68823.1| pseudouridylate synthase [Streptococcus pneumoniae TCH8431/19A] Length = 240 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 71/217 (32%), Positives = 111/217 (51%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L + V VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDM--QVTLDTQKGSNAW 188 VL P + Y + G + Q+ + +GI ++ C + V++DT+K + + Sbjct: 120 HVLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPAILELVSIDTEK-NQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V + EGK +IK++ + +V L R++ G L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVL 215 >gi|325697447|gb|EGD39333.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK160] Length = 242 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 73/222 (32%), Positives = 109/222 (49%), Gaps = 9/222 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A G+ SR +V++ + + V VNG + + T D I V G L E+ Sbjct: 2 RLDKFLAENGLGSRAQVKQFLKKGLVLVNGRAEKSPKTQIDETADEIVVSGQRL-TYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATED-DRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P ++YR + G ++Q + GI ++ Q V LD K + Sbjct: 120 HAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAQLKIVELDEAK-ETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + L EGK ++K++ +V L R++ GP QL LA Sbjct: 179 VEITLAEGKFHQVKRMVASCGKEVTDLQRLTMGPLQLDPALA 220 >gi|229513867|ref|ZP_04403329.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae TMA 21] gi|229349048|gb|EEO14005.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae TMA 21] Length = 328 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 111/236 (47%), Gaps = 9/236 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR E Sbjct: 5 TEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPE-VGSKVTDQDEVCIDGKPLRSKE 63 Query: 72 RTRLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 64 RPIYIALNKPTGITCTTERDVPGNIVDFIGH---HKRIFPIGRLDKPSDGLIFLTNDGDI 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y VR + + + + G+ I +VT +TQ +T Sbjct: 121 VNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYSFRIVLT 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 GL NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 181 QGL----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILA 232 >gi|229546666|ref|ZP_04435391.1| pseudouridylate synthase [Enterococcus faecalis TX1322] gi|307296165|ref|ZP_07575995.1| hypothetical protein HMPREF9509_03087 [Enterococcus faecalis TX0411] gi|312905054|ref|ZP_07764179.1| conserved hypothetical protein [Enterococcus faecalis TX0635] gi|229308233|gb|EEN74220.1| pseudouridylate synthase [Enterococcus faecalis TX1322] gi|306496139|gb|EFM65719.1| hypothetical protein HMPREF9509_03087 [Enterococcus faecalis TX0411] gi|310631633|gb|EFQ14916.1| conserved hypothetical protein [Enterococcus faecalis TX0635] gi|315148327|gb|EFT92343.1| conserved hypothetical protein [Enterococcus faecalis TX4244] gi|315576566|gb|EFU88757.1| conserved hypothetical protein [Enterococcus faecalis TX0630] Length = 320 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 76/255 (29%), Positives = 134/255 (52%), Gaps = 15/255 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ SR+ V+R+I ++V V+GI+ + NV I+V G + + +T Sbjct: 62 RLDKLLEELQFGSRKTVKRLIRGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLI--SHKT 119 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + +KP G+V+ SD ++ + D P ++ VGRLD +TEGLLLLT++ Sbjct: 120 HVYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYP----VGRLDGDTEGLLLLTDN 175 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G L L P+ + + Y V+ +G V + K GIV+Q GI ++T+ + Sbjct: 176 GQLGYQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETE 235 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQL 245 + V + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L Sbjct: 236 SHVFLTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLL 295 Query: 246 GPHLLEEAQVNLDAP 260 +E+ Q + P Sbjct: 296 PYFFIEKQQTSKALP 310 >gi|289167140|ref|YP_003445407.1| ribosomal small subunit pseudouridine synthase A [Streptococcus mitis B6] gi|288906705|emb|CBJ21539.1| ribosomal small subunit pseudouridine synthase A [Streptococcus mitis B6] Length = 240 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 75/236 (31%), Positives = 117/236 (49%), Gaps = 10/236 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKSGRVTVNGKKEKSAKLQIDEERDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L I V VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYMMNKPKGVISATEDPKHR-TVLDLLDDIARSKEVFPVGRLDIDTHGLLLLTNDGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 L P + Y + G + Q+ KGI ++ + V++DT+K + + Sbjct: 120 HALLSPKRHVDKTYLAQVKGIMTQEDAETFAKGIPLKDFTCQPARLELVSVDTKK-NQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + V + EGK ++K++ + +V L R++ G L L G R ++K+ L + Sbjct: 179 IRVTIAEGKFHQVKRMVGYCGKEVVDLQRLTMGTLVLDENLQRGEWRRLTKEELED 234 >gi|301793545|emb|CBW35921.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus pneumoniae INV104] Length = 240 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 71/217 (32%), Positives = 111/217 (51%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L + V VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYMMNKPKGVISATEDPKHR-TVMDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDM--QVTLDTQKGSNAW 188 VL P + Y + G + Q+ + +GI ++ C + V++DT+K + + Sbjct: 120 HVLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPAILELVSIDTEK-NQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V + EGK +IK++ + +V L R++ G L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVL 215 >gi|229507701|ref|ZP_04397206.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae BX 330286] gi|229512104|ref|ZP_04401583.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae B33] gi|229519239|ref|ZP_04408682.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae RC9] gi|229528772|ref|ZP_04418162.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae 12129(1)] gi|229607205|ref|YP_002877853.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae MJ-1236] gi|255747078|ref|ZP_05421023.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholera CIRS 101] gi|262161377|ref|ZP_06030487.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae INDRE 91/1] gi|262167753|ref|ZP_06035455.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae RC27] gi|229332546|gb|EEN98032.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae 12129(1)] gi|229343928|gb|EEO08903.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae RC9] gi|229352069|gb|EEO17010.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae B33] gi|229355206|gb|EEO20127.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae BX 330286] gi|229369860|gb|ACQ60283.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae MJ-1236] gi|255735480|gb|EET90880.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholera CIRS 101] gi|262023818|gb|EEY42517.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae RC27] gi|262028688|gb|EEY47342.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae INDRE 91/1] Length = 328 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 111/236 (47%), Gaps = 9/236 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR E Sbjct: 5 TEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPE-VGSKVTEQDEVCIDGKPLRSKE 63 Query: 72 RTRLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 64 RPIYIALNKPTGITCTTERDVPGNIVDFIGH---HKRIFPIGRLDKPSDGLIFLTNDGDI 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y VR + + + + G+ I +VT +TQ +T Sbjct: 121 VNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYSFRIVLT 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 GL NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 181 QGL----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILA 232 >gi|297580866|ref|ZP_06942791.1| pseudouridine synthase family 1 protein [Vibrio cholerae RC385] gi|297534692|gb|EFH73528.1| pseudouridine synthase family 1 protein [Vibrio cholerae RC385] Length = 340 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 111/236 (47%), Gaps = 9/236 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR E Sbjct: 17 TEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPE-VGSKVTEQDEVCIDGKPLRSKE 75 Query: 72 RTRLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 76 RPIYIALNKPTGITCTTERDVPGNIVDFIGH---HKRIFPIGRLDKPSDGLIFLTNDGDI 132 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y VR + + + + G+ I +VT +TQ +T Sbjct: 133 VNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYSFRIVLT 192 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 GL NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 193 QGL----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILA 244 >gi|89099642|ref|ZP_01172516.1| 16S pseudouridylate synthase [Bacillus sp. NRRL B-14911] gi|89085585|gb|EAR64712.1| 16S pseudouridylate synthase [Bacillus sp. NRRL B-14911] Length = 239 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 74/233 (31%), Positives = 122/233 (52%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A G SR+EV++++ V VN ++ A +V D I ++G + E Sbjct: 2 RIDKVLANLGYGSRKEVKKLLKDGSVTVNDEKIKDAKQHVDPEKDLIRINGETVEYREFI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + +KP G+++ D + TV D L + + VGRLD +TEGLLL+TNDG LA Sbjct: 62 YLMM-NKPPGVISATED-NRDETVIDLLEAEDLIFEPFPVGRLDKDTEGLLLITNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-GSNAWVT 190 L P + Y +V ++ + +KG+++ Y L+ K G + + Sbjct: 120 HRLLSPKKHVPKTYFAVIDQEVTEEDVTAFRKGVILDD-GYATKPGELNILKSGERSDIE 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R+S GP +L TL G RE++++ L+ Sbjct: 179 LTITEGKFHQVKRMFEAVGKKVVYLQRLSMGPLRLDETLELGEYRELTEEELQ 231 >gi|239997156|ref|ZP_04717680.1| RNA pseudouridine synthase family protein [Alteromonas macleodii ATCC 27126] Length = 252 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/234 (29%), Positives = 121/234 (51%), Gaps = 13/234 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-----VPL 67 P+R++K I+ G+ SRRE +++I Q RV VN E V D ++VDG V Sbjct: 6 PKRLNKYISDTGLCSRREADKLIEQNRVTVNNQPPE-LGTKVGPGDTVKVDGKVVGAVAS 64 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 K++R + +Y+KPIG+ T ++ + + D + R+ VGRLD +EGL++LT+D Sbjct: 65 DKSDRVYI-VYNKPIGITCT-TERHVKGNIIDAIGH-KERIFPVGRLDKPSEGLIILTSD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y V + + + +N + +G+ I G V G N Sbjct: 122 GDIVNKILRAENAHDKEYEVTVNQPISERFVNRMSRGVPILGTVTKPCVV---KPTGKNT 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + T+ L +G NR+I+++ EF ++V +L R +LG+L G R ++ + L Sbjct: 179 F-TIILTQGLNRQIRRMCEFLGYEVTKLKRTRIMHLELGSLKPGQWRNLTSREL 231 >gi|117919365|ref|YP_868557.1| pseudouridine synthase, Rsu [Shewanella sp. ANA-3] gi|117611697|gb|ABK47151.1| Pseudouridine synthase, Rsu [Shewanella sp. ANA-3] Length = 236 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 69/228 (30%), Positives = 114/228 (50%), Gaps = 11/228 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERA-AVNV----MSTDHIEVDGVPLRK 69 R++K +A+ GI+SRRE R+I R+ +NG + + AV+ D + +D P+ Sbjct: 2 RLAKYLAQCGISSRREACRLIEAGRISLNGKIAKHTDAVHFDADGQCLDSLCLDEKPISG 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 AE W+++K +G D D +S++ LP+ R+ VGRLD ++ GLLLLTNDG Sbjct: 62 AEALSYWIFNKAVGTDCRLLDAD-KSSLLHLLPTT-PRLYPVGRLDKDSRGLLLLTNDGE 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + Y V+ + + + G+ + + QVT + S Sbjct: 120 LTHKLMHPSFAHSKTYHVQLDRPFNDAFIAQMASGVQYKEVRTLPCQVT----RLSADRF 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ +KV L R++ L +L G R +S Sbjct: 176 EIVLTQGLNRQIRRMSNALGYKVIDLQRVALMTLTLASLAEGEMRPLS 223 >gi|293384299|ref|ZP_06630185.1| putative ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis R712] gi|307284346|ref|ZP_07564511.1| hypothetical protein HMPREF9515_02349 [Enterococcus faecalis TX0860] gi|307289480|ref|ZP_07569428.1| hypothetical protein HMPREF9505_02844 [Enterococcus faecalis TX0109] gi|312907104|ref|ZP_07766097.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 512] gi|312951808|ref|ZP_07770699.1| conserved hypothetical protein [Enterococcus faecalis TX0102] gi|291078372|gb|EFE15736.1| putative ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis R712] gi|306499576|gb|EFM68945.1| hypothetical protein HMPREF9505_02844 [Enterococcus faecalis TX0109] gi|306503286|gb|EFM72538.1| hypothetical protein HMPREF9515_02349 [Enterococcus faecalis TX0860] gi|310626881|gb|EFQ10164.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 512] gi|310630211|gb|EFQ13494.1| conserved hypothetical protein [Enterococcus faecalis TX0102] gi|315154235|gb|EFT98251.1| conserved hypothetical protein [Enterococcus faecalis TX0031] gi|315156367|gb|EFU00384.1| conserved hypothetical protein [Enterococcus faecalis TX0043] gi|315164679|gb|EFU08696.1| conserved hypothetical protein [Enterococcus faecalis TX1302] Length = 320 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 76/254 (29%), Positives = 131/254 (51%), Gaps = 13/254 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ SR+ V+R+I ++V V+GI+ + NV I+V G L + Sbjct: 62 RLDKLLEELQFGSRKTVKRIIRGKQVTVDGIVTLNESQNVDAQLQMIKVKG-QLISHKTH 120 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ +KP G+V+ SD ++ + D P ++ VGRLD +TEGLLLLT++G Sbjct: 121 VYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYP----VGRLDGDTEGLLLLTDNG 176 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNA 187 L L P+ + + Y V+ +G V + K GIV+Q GI ++T+ + + Sbjct: 177 QLGYQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETES 236 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLG 246 V + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L Sbjct: 237 HVFLTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLLP 296 Query: 247 PHLLEEAQVNLDAP 260 +E+ Q + P Sbjct: 297 YFFIEKQQTSKALP 310 >gi|167761342|ref|ZP_02433469.1| hypothetical protein CLOSCI_03750 [Clostridium scindens ATCC 35704] gi|167661008|gb|EDS05138.1| hypothetical protein CLOSCI_03750 [Clostridium scindens ATCC 35704] Length = 247 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/239 (29%), Positives = 125/239 (52%), Gaps = 21/239 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERA--AVNVMSTDHIEVDGVPLRKAER 72 R++K ++ AG+ SRRE +R+I +V V+G +RA + V ++V +R Sbjct: 3 RLNKYLSDAGVCSRREADRLIESGQVSVDG---QRAVPGMKVADGQEVKVGKKVIRSNTE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+V T + ++ + + P RV GRLD ++EGLL++TNDG L Sbjct: 60 KIVLAVNKPAGIVCTEDVREKKNIIRYLKYPI---RVTYAGRLDKDSEGLLIMTNDGDLI 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------TQKG 184 + + Y+V + V QD ++ +K+GI I D + LD +K Sbjct: 117 NGMMRARHGHEKEYKVTVNKPVTQDFISKMKEGIRIV-----DKEKRLDVATRPCKAEKL 171 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 ++ L +G NR+I+++ E +KV RL+R+ +LG+L G+ R+++++ L+E Sbjct: 172 GKYTFSITLTQGLNRQIRRMCEALGYKVERLVRVRIMNIELGSLKPGAYRKLTEQELKE 230 >gi|325688986|gb|EGD30994.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK115] Length = 242 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 76/232 (32%), Positives = 116/232 (50%), Gaps = 10/232 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L E+ Sbjct: 2 RLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIIVSGQRL-TYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATED-DRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 V+ P ++YR + G ++Q GI ++ Q + LD K + Sbjct: 120 HVMLSPKKHVEKIYRAQVAGLMNQADEERFAAGIELKDFTCQPAQLKILELDEAK-ETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 V + L EGK ++K++ +V L R++ GP QL LA G R +++K Sbjct: 179 VEITLAEGKFHQVKRMVASCGKEVTDLQRLTMGPLQLDPALALGEWRRLTEK 230 >gi|153810142|ref|ZP_01962810.1| hypothetical protein RUMOBE_00523 [Ruminococcus obeum ATCC 29174] gi|149833321|gb|EDM88402.1| hypothetical protein RUMOBE_00523 [Ruminococcus obeum ATCC 29174] Length = 257 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 76/254 (29%), Positives = 121/254 (47%), Gaps = 32/254 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A AG +R EV++ I + +V+VNG ++ + V D + + G + A Sbjct: 6 RLDKFLADAGKGTRSEVKKFIQKGQVQVNGAPAKKPELKVDPEKDTVILSGETVGVAPEF 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G V+ D + R TV + +PS + VGRLD +TEGLLL+T+DG LA Sbjct: 66 VYYLLNKPAGCVSATEDRNDR-TVMEYVPSDRKGIFPVGRLDKDTEGLLLITDDGMLAHE 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 L P + Y VR G++ +K+ L+ G+ I G+ ++T+ + +W Sbjct: 125 LLAPGKHVDKTYFVRVEGKLTVEKIEKLENGVDI-----GEKKLTMPAKVEIVGGSWEGA 179 Query: 192 G----------------------LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTL 228 G + EGK ++K++ E V L RIS GP L L Sbjct: 180 GEPEPGRVRRENLPEVYTELHLTIHEGKFHQVKRMMEAVGTPVIYLKRISMGPLILPDDL 239 Query: 229 LAGSTREVSKKILR 242 G R ++ + LR Sbjct: 240 KKGECRSLTDEELR 253 >gi|258627383|ref|ZP_05722167.1| Ribosomal large subunit pseudouridine synthase F [Vibrio mimicus VM603] gi|258580421|gb|EEW05386.1| Ribosomal large subunit pseudouridine synthase F [Vibrio mimicus VM603] Length = 332 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 112/233 (48%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR ER Sbjct: 7 KRLNKFISETGFCSRREADKLIEQGRVTLNGVQPE-VGSKVTEQDEVCIDGKPLRSKERP 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 66 IYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIVNK 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + + + + G+ I +VT +TQ +T GL Sbjct: 124 ILRAGNNHEKEYVVRVDKPITPEFIRQMASGVNILDTVTLPCKVTQETQYSFRIVLTQGL 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 184 ----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVNEILA 232 >gi|254225784|ref|ZP_04919389.1| pseudouridine synthase family 1 protein [Vibrio cholerae V51] gi|125621690|gb|EAZ50019.1| pseudouridine synthase family 1 protein [Vibrio cholerae V51] Length = 340 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 111/236 (47%), Gaps = 9/236 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR E Sbjct: 17 TEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPE-VGSKVTDQDEVCIDGKPLRSKE 75 Query: 72 RTRLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 76 RPIYIALNKPTGITCTTERDVPGNIVDFIGH---HKRIFPIGRLDKPSDGLIFLTNDGDI 132 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y VR + + + + G+ I +VT +TQ +T Sbjct: 133 VNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYSFRIVLT 192 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 GL NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 193 QGL----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILA 244 >gi|266622691|ref|ZP_06115626.1| ribosomal large subunit pseudouridine synthase B [Clostridium hathewayi DSM 13479] gi|288865556|gb|EFC97854.1| ribosomal large subunit pseudouridine synthase B [Clostridium hathewayi DSM 13479] Length = 266 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 74/239 (30%), Positives = 117/239 (48%), Gaps = 25/239 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPL---- 67 R++K ++ AGI SRRE +R+I + +V V G R AV + + + +G + Sbjct: 7 RLNKFLSGAGICSRREADRLIEEGKVTVGG----RTAVPGQKIKKGETVVCNGRTIAAGS 62 Query: 68 ----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 +K ER L HKP G+V T SD D + D + R+ GRLD +EGL+L Sbjct: 63 RGAEKKPERV-LLAVHKPCGIVCTTSDKDRAPNIVDMVDCPV-RIYPAGRLDKESEGLIL 120 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--- 180 +TN G L + S+ + Y V V + + ++KG+ + ++ VT Sbjct: 121 MTNQGDLVNRMMRGSSGHEKEYLVWIDRPVKPEFIQKMRKGVFLP-----ELDVTTKPCF 175 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +K + L +G NR+I+++ E KV +L R+ +LG L AG +R VSKK Sbjct: 176 AEKTGEKSFRIVLTQGLNRQIRRMCEQLGCKVRKLKRVRIMNIELGDLKAGESRPVSKK 234 >gi|304410498|ref|ZP_07392116.1| pseudouridine synthase [Shewanella baltica OS183] gi|307304591|ref|ZP_07584341.1| pseudouridine synthase [Shewanella baltica BA175] gi|304350982|gb|EFM15382.1| pseudouridine synthase [Shewanella baltica OS183] gi|306911993|gb|EFN42417.1| pseudouridine synthase [Shewanella baltica BA175] Length = 242 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/228 (31%), Positives = 114/228 (50%), Gaps = 15/228 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLE-----RAAVNVMSTDHIEVDGVPLRK 69 R++K +A+ GI SRRE R+I R+ +NG + R ++ D IE+DG P+ K Sbjct: 2 RLAKYLAQCGIGSRREACRLIEAGRITLNGHIARHTDPIRLDESLNCLDRIELDGAPITK 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E W+ +K +G + D +++ LP R+ VGRLD ++ GLLLLTNDG Sbjct: 62 TETLAYWILNKAVGTDCRLLEQD-ETSLIHLLPKA-PRLYPVGRLDKDSRGLLLLTNDGE 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNA 187 L L PS + Y VR + D + + G+ Y ++Q TL Q + S+ Sbjct: 120 LTHKLMHPSFVHSKTYHVRLNRPFTDDFVEQMASGVR-----YKNLQ-TLPCQVRRLSSD 173 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + L +G NR+I+++ + ++V L R++ L L G +E Sbjct: 174 SFEIVLTQGLNRQIRRMSKALGYRVIDLERVAIMTLNLRELALGELQE 221 >gi|307276207|ref|ZP_07557337.1| hypothetical protein HMPREF9521_01835 [Enterococcus faecalis TX2134] gi|306507119|gb|EFM76259.1| hypothetical protein HMPREF9521_01835 [Enterococcus faecalis TX2134] Length = 320 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 76/255 (29%), Positives = 134/255 (52%), Gaps = 15/255 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ SR+ V+R+I ++V V+GI+ + NV I+V G + + +T Sbjct: 62 RLDKLLEELQFGSRKTVKRLIRGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLI--SHKT 119 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + +KP G+V+ SD ++ + D P ++ VGRLD +TEGLLLLT++ Sbjct: 120 HVYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYR----VGRLDGDTEGLLLLTDN 175 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G L L P+ + + Y V+ +G V + K GIV+Q GI ++T+ + Sbjct: 176 GQLGYQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETE 235 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQL 245 + V + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L Sbjct: 236 SHVFLTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLL 295 Query: 246 GPHLLEEAQVNLDAP 260 +E+ Q + P Sbjct: 296 PYFFIEKQQTSKALP 310 >gi|76787803|ref|YP_329548.1| RNA pseudouridine synthase family protein [Streptococcus agalactiae A909] gi|77406572|ref|ZP_00783621.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae H36B] gi|77411336|ref|ZP_00787684.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae CJB111] gi|76562860|gb|ABA45444.1| RNA pseudouridine synthase family protein [Streptococcus agalactiae A909] gi|77162596|gb|EAO73559.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae CJB111] gi|77174825|gb|EAO77645.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae H36B] Length = 239 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 62/215 (28%), Positives = 115/215 (53%), Gaps = 6/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K++ +AG SR +V+++I ++V V+G ++ + V V S G + + Sbjct: 2 RLDKLLGQAGFGSRNQVKKLICSRQVSVDGQIVTKDNVIVDSGLQSIFVGKERVCLKESS 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+V+ D + ++ + +L S +V +GRLD +TEGLL++TN+G L Sbjct: 62 YYLLYKPSGVVSAVRDSEHKTVI--DLISEKDKVEGLYPIGRLDRDTEGLLIITNNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + P + Y V +G +++D + ++G+V G ++T+DT + Sbjct: 120 YRMLHPKHHVAKTYYVEVNGFLERDAITFFEEGVVFDDGTKCKPAELTIDTANNDKSTAR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK ++KK+F + KV L RIS+G +L Sbjct: 180 ITITEGKFHQVKKMFLAYGVKVIYLRRISFGDLRL 214 >gi|15642221|ref|NP_231854.1| pseudouridine synthase family 1 protein [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121586284|ref|ZP_01676074.1| pseudouridine synthase family 1 protein [Vibrio cholerae 2740-80] gi|121726558|ref|ZP_01679807.1| pseudouridine synthase family 1 protein [Vibrio cholerae V52] gi|147674574|ref|YP_001217740.1| pseudouridine synthase family 1 protein [Vibrio cholerae O395] gi|153817102|ref|ZP_01969769.1| pseudouridine synthase family 1 protein [Vibrio cholerae NCTC 8457] gi|153820868|ref|ZP_01973535.1| pseudouridine synthase family 1 protein [Vibrio cholerae B33] gi|153825357|ref|ZP_01978024.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-2] gi|227082347|ref|YP_002810898.1| pseudouridine synthase family 1 protein [Vibrio cholerae M66-2] gi|254849353|ref|ZP_05238703.1| pseudouridine synthase family 1 protein [Vibrio cholerae MO10] gi|298500401|ref|ZP_07010206.1| pseudouridine synthase family 1 protein [Vibrio cholerae MAK 757] gi|9656781|gb|AAF95367.1| pseudouridine synthase family 1 protein [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121549550|gb|EAX59576.1| pseudouridine synthase family 1 protein [Vibrio cholerae 2740-80] gi|121631011|gb|EAX63390.1| pseudouridine synthase family 1 protein [Vibrio cholerae V52] gi|126512370|gb|EAZ74964.1| pseudouridine synthase family 1 protein [Vibrio cholerae NCTC 8457] gi|126521660|gb|EAZ78883.1| pseudouridine synthase family 1 protein [Vibrio cholerae B33] gi|146316457|gb|ABQ20996.1| pseudouridine synthase family 1 protein [Vibrio cholerae O395] gi|149741041|gb|EDM55110.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-2] gi|227010235|gb|ACP06447.1| pseudouridine synthase family 1 protein [Vibrio cholerae M66-2] gi|227014119|gb|ACP10329.1| pseudouridine synthase family 1 protein [Vibrio cholerae O395] gi|254845058|gb|EET23472.1| pseudouridine synthase family 1 protein [Vibrio cholerae MO10] gi|297541094|gb|EFH77148.1| pseudouridine synthase family 1 protein [Vibrio cholerae MAK 757] Length = 340 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 111/236 (47%), Gaps = 9/236 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR E Sbjct: 17 TEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPE-VGSKVTEQDEVCIDGKPLRSKE 75 Query: 72 RTRLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 76 RPIYIALNKPTGITCTTERDVPGNIVDFIGH---HKRIFPIGRLDKPSDGLIFLTNDGDI 132 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y VR + + + + G+ I +VT +TQ +T Sbjct: 133 VNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYSFRIVLT 192 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 GL NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 193 QGL----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILA 244 >gi|313678967|ref|YP_004056706.1| ribosomal small subunit pseudouridine synthase a [Oceanithermus profundus DSM 14977] gi|313151682|gb|ADR35533.1| ribosomal small subunit pseudouridine synthase A [Oceanithermus profundus DSM 14977] Length = 233 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/221 (33%), Positives = 111/221 (50%), Gaps = 13/221 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ +V+A G+ +R+EV ++I V+V+G ++ +R IEV G P+R A R Sbjct: 3 ERLDRVLAHLGLGTRKEVGKLIRAGAVRVDGAVVRDRGYKLDPEAARIEVRGEPVRYA-R 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L HKP G++T + + +TV D LP R + VGRLD +TEGLLLLTN G L Sbjct: 62 HFYVLLHKPAGVLTA-TRSERETTVLDLLPDALWRDDLRPVGRLDRDTEGLLLLTNHGEL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + +VY ++ +D +G++ D G A Sbjct: 121 LHRLTHPRWKVAKVYFAELASELPEDAARRFAEGVL-------DFAPAELEALGPRA-AR 172 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 V L EGK+R+++++F V L R +GP +LG L G Sbjct: 173 VTLYEGKHRQVRRMFAALGAPVAYLRRERFGPLELGGLEPG 213 >gi|227517791|ref|ZP_03947840.1| pseudouridylate synthase [Enterococcus faecalis TX0104] gi|227074752|gb|EEI12715.1| pseudouridylate synthase [Enterococcus faecalis TX0104] Length = 260 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 76/255 (29%), Positives = 134/255 (52%), Gaps = 15/255 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ SR+ V+R+I ++V V+GI+ + NV I+V G + + +T Sbjct: 2 RLDKLLEELQFGSRKTVKRIIRGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLI--SHKT 59 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + +KP G+V+ SD ++ + D P ++ VGRLD +TEGLLLLT++ Sbjct: 60 HVYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYP----VGRLDGDTEGLLLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G L L P+ + + Y V+ +G V + K GIV+Q GI ++T+ + Sbjct: 116 GQLGYQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETE 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQL 245 + V + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L Sbjct: 176 SHVFLTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPVRLDPQLPLGAYRSLTREELQLLL 235 Query: 246 GPHLLEEAQVNLDAP 260 +E+ Q + P Sbjct: 236 PYFFIEKQQTSKALP 250 >gi|325695507|gb|EGD37407.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK150] Length = 242 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 72/222 (32%), Positives = 110/222 (49%), Gaps = 9/222 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A G+ SR +V++++ ++ V VNG + + T D I V G L E+ Sbjct: 2 RLDKFLAENGLGSRAQVKQLLKKELVLVNGRAEKSPKTQIDETADEIIVSGQRL-TYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATED-DRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P ++YR + G ++Q GI ++ Q + LD K + Sbjct: 120 HAMLSPKKHVEKIYRAQVAGLMNQADEERFAAGIELKDFTCQPAQLKILELDAAK-ETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + L EGK ++K++ +V L R++ GP QL LA Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDFALA 220 >gi|291612934|ref|YP_003523091.1| RNA-binding S4 domain protein [Sideroxydans lithotrophicus ES-1] gi|291583046|gb|ADE10704.1| RNA-binding S4 domain protein [Sideroxydans lithotrophicus ES-1] Length = 243 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/235 (29%), Positives = 113/235 (48%), Gaps = 19/235 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ G+ SRRE + IA+ VKV+G ++ V+ T I ++ K + Sbjct: 5 RLSKLMSEQGLCSRREADDFIAKGWVKVDGEIVSELGTKVLPTQKITLEKAAQAKQQGRV 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF----------DNLPSIFSR-----VISVGRLDINTE 119 L +KP+G V+ ++ + + D P F R + GRLDI++ Sbjct: 65 TILLNKPVGYVSGQAEEGHKPAILLLDAATRWEQDTAPHRFHRSQLLGLAPAGRLDIDST 124 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT DG +A+ L + + Y VR G++ + LNLL G+ + G +V+ Sbjct: 125 GLLVLTQDGRIAKQLIGEDSPIEKEYLVRVQGKLVGNGLNLLNHGLSLDGKKLKPAKVSW 184 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + L EGK R+I+++ E KV L R+ G +LG L G R Sbjct: 185 QNED----QLRFILNEGKKRQIRRMCEMVGLKVTALKRVRIGKVRLGDLPQGQWR 235 >gi|229524219|ref|ZP_04413624.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae bv. albensis VL426] gi|229337800|gb|EEO02817.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae bv. albensis VL426] Length = 328 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 113/235 (48%), Gaps = 7/235 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR E Sbjct: 5 TEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPE-VGSKVTDQDEVCIDGKPLRSKE 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 64 RPIYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + + + + G+ I +VT +TQ +T Sbjct: 122 NKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYSFRIVLTQ 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 GL NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 182 GL----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILA 232 >gi|167645656|ref|YP_001683319.1| pseudouridine synthase [Caulobacter sp. K31] gi|167348086|gb|ABZ70821.1| pseudouridine synthase [Caulobacter sp. K31] Length = 255 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 66/236 (27%), Positives = 119/236 (50%), Gaps = 15/236 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 PQRV++ +A+ G+ SRRE E +I Q V ++G+ ++ + + + + E Sbjct: 12 PQRVNRWLAQNGVCSRREAEALILQGLVSIDGLRVDDVGRKIEPGQTLVLSDRAQAQLEG 71 Query: 73 TRLWLYHKPIGLVTTHSDPD--------GRSTVFDN---LPSIFSRVISVGRLDINTEGL 121 + HKPIG+V+ D R ++ +P +++ VGRLD+++ GL Sbjct: 72 ALTVMIHKPIGIVSAQPDTGQVPAVRLLTREALYGQSPVIPGFENKLAPVGRLDMDSRGL 131 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 L+L+ DG +A+ + P+++ + Y V G + +KL LL+ G+ + QV + Sbjct: 132 LILSEDGVVAKAVIGPASEMEKEYLVWVDGWITDEKLVLLRHGLELDERALRPAQVEVVG 191 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++ + L+EG+NR+I+++ E V L+RI G LG L G R +S Sbjct: 192 RQQ----LKFILQEGRNRQIRRMCELVELTVVDLLRIRIGNVMLGDLPEGRWRPLS 243 >gi|23099754|ref|NP_693220.1| 16S pseudouridine synthase [Oceanobacillus iheyensis HTE831] gi|22777984|dbj|BAC14255.1| 16S pseudouridine synthase [Oceanobacillus iheyensis HTE831] Length = 237 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/232 (30%), Positives = 120/232 (51%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K+++ G+ SR+EV++++ +R+ VN ++++ + ++V D I VD + + Sbjct: 3 RLDKLLSNMGVGSRKEVKQLLKSKRITVNEVIVKDSGMHVDPEYDQIFVDDQLISYQKHI 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 L + HKP G+V+ D R TV D L + + VGRLD +TEGLLL+TNDG LA Sbjct: 63 YLMM-HKPPGVVSATVDNRDR-TVIDLLSADEKKFEPFPVGRLDKDTEGLLLITNDGELA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P +VY G+ ++ + ++G+ ++ Y L+ + V V Sbjct: 121 HRLTSPKKHVEKVYIAHISGEFPENIVEQFQEGLTLED-GYQTKPAKLEILNKQSKEVKV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + EGK +IK++F KV L R+ QL +L G R +++ L+ Sbjct: 180 TITEGKYHQIKRMFIAVGCKVTYLKRVQMANLQLDDSLPIGDFRPLTEDELQ 231 >gi|229175424|ref|ZP_04302937.1| Pseudouridine synthase [Bacillus cereus MM3] gi|228608032|gb|EEK65341.1| Pseudouridine synthase [Bacillus cereus MM3] Length = 242 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 74/229 (32%), Positives = 114/229 (49%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++G ++ A V+V + + + G + E Sbjct: 2 RLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEFI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L HKP G+++ D D TV D L +IF VGRLDI+TEG LL+TNDG L Sbjct: 62 YLML-HKPQGVISATED-DNHETVIDLLELEDAIFDP-FPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + L P + Y G V ++ + KG+++ Y L K + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGALTILKSDEISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE+S Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELS 226 >gi|322390862|ref|ZP_08064371.1| ribosomal small subunit pseudouridine synthase A [Streptococcus parasanguinis ATCC 903] gi|321142447|gb|EFX37916.1| ribosomal small subunit pseudouridine synthase A [Streptococcus parasanguinis ATCC 903] Length = 242 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 64/216 (29%), Positives = 108/216 (50%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ SR EV++++ Q+++ VNG + + D + G L E Sbjct: 2 RLDKFLVDCGMGSRTEVKQLLKQKKIAVNGKKETAGKLQIDPGKDRVTFMGEDLVH-ETF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPAGVISATED-DHHQTVLDLLDETARHKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNAWV 189 + P ++YR + G +D+ + + GI ++ +Q+ + ++++V Sbjct: 120 HAMLSPKKHVSKIYRAQVAGIMDEADVARFEAGIALKDFTTLPARLQILEVNEANASSYV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK ++K++ +V L RIS GP L Sbjct: 180 EIEIAEGKFHQVKRMVAACGKEVVDLERISMGPLML 215 >gi|25010876|ref|NP_735271.1| hypothetical protein gbs0821 [Streptococcus agalactiae NEM316] gi|77414995|ref|ZP_00791079.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae 515] gi|23095255|emb|CAD46465.1| Unknown [Streptococcus agalactiae NEM316] gi|77158953|gb|EAO70180.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae 515] Length = 239 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 63/215 (29%), Positives = 115/215 (53%), Gaps = 6/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K++ +AG SR +V+++I ++V V+G ++ + V V S G + + Sbjct: 2 RLDKLLGQAGFGSRNQVKKLIRSRQVSVDGQIVTKDNVIVDSGLQSIFVGKERVCLKESS 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+V+ D + ++ + +L S RV +GRLD +TEGLL++TN+G L Sbjct: 62 YYLLYKPSGVVSAVRDSEHKTVI--DLISEKDRVEGLYPIGRLDRDTEGLLIITNNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + P + Y V +G +++D + ++G+V G ++T+DT + Sbjct: 120 YRMLHPKHHVAKTYYVEVNGFLERDAITFFEEGVVFDDGTKCKPAELTIDTANNDKSTAR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK ++KK+F + KV L RIS+G +L Sbjct: 180 ITITEGKFHQVKKMFLAYGVKVIYLRRISFGDLRL 214 >gi|329929427|ref|ZP_08283175.1| pseudouridylate synthase [Paenibacillus sp. HGF5] gi|328936514|gb|EGG32959.1| pseudouridylate synthase [Paenibacillus sp. HGF5] Length = 243 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/242 (32%), Positives = 121/242 (50%), Gaps = 24/242 (9%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 + KV++ G SR E+++ Q + VNG + + +V D IE +G ++ E Sbjct: 1 MDKVLSNLGFGSRAELKKKAKQGSIVVNGTITKDPGKHVDPYADIIEFEGETIQYREYVY 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---VGRLDINTEGLLLLTNDGGLA 131 L L HKP G+V+ D R TV D L + + RV VGRLD +TEGLLLLTNDG LA Sbjct: 61 LML-HKPPGVVSATEDLRDR-TVLDLLDAEY-RVFEPFPVGRLDKDTEGLLLLTNDGKLA 117 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--- 188 L P + Y G+VD++ + G+ + D VTL + ++ Sbjct: 118 HELLSPRKHIPKTYEATVEGRVDEEDVRRFAAGVTLD-----DGYVTLPGELAIHSHEER 172 Query: 189 --------VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 +++ + EGK ++K++FE KV L RIS G +L L G+ RE++++ Sbjct: 173 EDGDQLSRISLTIHEGKFHQVKRMFEAVGKKVVYLKRISMGELRLDENLEIGTYRELTEQ 232 Query: 240 IL 241 L Sbjct: 233 EL 234 >gi|306833833|ref|ZP_07466958.1| ribosomal small subunit pseudouridine synthase A [Streptococcus bovis ATCC 700338] gi|304424027|gb|EFM27168.1| ribosomal small subunit pseudouridine synthase A [Streptococcus bovis ATCC 700338] Length = 242 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/221 (31%), Positives = 108/221 (48%), Gaps = 7/221 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + AGI SR EV++++ +++V VNG + + D I G L E+ Sbjct: 2 RLDKFLVEAGIGSRTEVKQLLKKKQVLVNGKVEISPKTQIDEKADQIRCQGQTL-SYEKY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ D + TV D L VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYMLNKPKGVISATED-NHHKTVLDLLDKTAWDKETFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGS-NAWV 189 + P + YR + G + + GI ++ C V L+ + + V Sbjct: 120 HAMLSPKKHVDKTYRAKVAGLMTTTDVAAFANGIDLKDFTCQPAQLVILEINEAERTSVV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + ++EGK +IK++ + KV L R+S GP QL LA Sbjct: 180 EITIKEGKFHQIKRMVQACGKKVTDLQRLSMGPLQLDKQLA 220 >gi|146284031|ref|YP_001174184.1| pseudouridine synthase [Pseudomonas stutzeri A1501] gi|145572236|gb|ABP81342.1| probable pseudouridine synthase [Pseudomonas stutzeri A1501] Length = 209 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 58/181 (32%), Positives = 95/181 (52%), Gaps = 16/181 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL L +KP ++T +D DGR+T+ D +P V GRLD ++EGLLLLTNDG L Sbjct: 31 RLLLLNKPFDVLTQFADADGRATLKDFVP--VPGVYPAGRLDRDSEGLLLLTNDGRLQAR 88 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT----------- 181 + P + + Y V+ G+VD+ +L L++G+ + G+ LD Sbjct: 89 IADPKHKLPKTYWVQVEGEVDETQLERLRQGVELNDGMTLPAEARQLDEPELWPRNPPVR 148 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + +W+ + +REG+NR+++++ RL+R+ GP+ L L G REV + Sbjct: 149 FRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGPWALDGLQPGEWREVPAQ 208 Query: 240 I 240 + Sbjct: 209 L 209 >gi|325273368|ref|ZP_08139630.1| pseudouridine synthase [Pseudomonas sp. TJI-51] gi|324101491|gb|EGB99075.1| pseudouridine synthase [Pseudomonas sp. TJI-51] Length = 230 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 113/227 (49%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A +R++ M+AQ+RV+++G ++ V +++D L+ R Sbjct: 2 RLDRFLANLPHCNRQQARLMLAQRRVRLDGQVISDPLAEVREFSRVQLDEQLLQAGRPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 + HKP G V+ DP TV + LP+ + + GRLD NT GL++LTNDG +R Sbjct: 62 YLMLHKPAGCVSATHDPQ-HPTVLELLPAALRADLHIAGRLDFNTTGLMILTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+T+ + Y V ++ + + ++G LD A + + Sbjct: 121 LTQPATKLPKQYLVETEDEIAEHYVAKFREGFYFAFENLTTQPAQLDILGPRQARLAI-- 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F FF+ KV L R S G +L LA G+ R+++ + Sbjct: 179 VEGRYHQVKRMFGFFDNKVVGLHRESMGAIRLDPGLAPGAFRQLTPE 225 >gi|217076810|ref|YP_002334526.1| ribosomal large subunit pseudouridine synthase B [Thermosipho africanus TCF52B] gi|217036663|gb|ACJ75185.1| ribosomal large subunit pseudouridine synthase B [Thermosipho africanus TCF52B] Length = 247 Score = 91.7 bits (226), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 68/216 (31%), Positives = 112/216 (51%), Gaps = 11/216 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++ K + G A RR+ ++ I RV VNG ++++ +V D + +D L+ ++ Sbjct: 9 KLQKYLQMCGFA-RRKADQYIIAGRVTVNGKVVDKPWFDVKDDDIVMLDNKKLKINQKFE 67 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ HKP G TT DP + T+ + + I + V GRLD + G+L+LTNDG L +L Sbjct: 68 YYVLHKPKGYATTLYDPKQKKTIKELIKHIKTPVKPAGRLDKDATGVLILTNDGKLIDIL 127 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ----GICYGDMQVTLDTQKGSN-AWV 189 + Y V+ G V + L LKKGI + + Y D+ +KG + + + Sbjct: 128 TNAKYGVKKEYIVKVSGSVSFNDLLKLKKGIYDERDFLKLEYFDI-----LEKGFDYSII 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L +GK EIK++F+ KV L RI++GP + Sbjct: 183 KVVLIKGKKHEIKRLFKSIGHKVLELKRIAHGPISI 218 >gi|229076216|ref|ZP_04209183.1| Pseudouridine synthase [Bacillus cereus Rock4-18] gi|229099186|ref|ZP_04230119.1| Pseudouridine synthase [Bacillus cereus Rock3-29] gi|229118198|ref|ZP_04247556.1| Pseudouridine synthase [Bacillus cereus Rock1-3] gi|228665245|gb|EEL20729.1| Pseudouridine synthase [Bacillus cereus Rock1-3] gi|228684239|gb|EEL38184.1| Pseudouridine synthase [Bacillus cereus Rock3-29] gi|228706865|gb|EEL59071.1| Pseudouridine synthase [Bacillus cereus Rock4-18] Length = 242 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 115/229 (50%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++G ++ A V+V + + + G + E Sbjct: 2 RLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L HKP G+++ D D TV D L +IF VGRLDI+TEG LL+TNDG L Sbjct: 62 YLML-HKPQGVISATED-DNHETVIDLLELEDAIFDP-FPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + L P + Y G V ++ + KG+++ Y L K + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGALTILKSDDVSEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGEYRELT 226 >gi|262192131|ref|ZP_06050292.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae CT 5369-93] gi|262031980|gb|EEY50557.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae CT 5369-93] Length = 328 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 110/236 (46%), Gaps = 9/236 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR E Sbjct: 5 TEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPE-VGSKVTEQDEVCIDGKPLRSKE 63 Query: 72 RTRLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 64 RPIYIALNKPTGITCTTERDVPGNIVDFIGH---HKRIFPIGRLDKPSDGLIFLTNDGDI 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y VR + + + + G+ I +VT +TQ +T Sbjct: 121 VNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYSFRIVLT 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 GL NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 181 QGL----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSDAEVSEILA 232 >gi|229823225|ref|ZP_04449294.1| hypothetical protein GCWU000282_00523 [Catonella morbi ATCC 51271] gi|229787391|gb|EEP23505.1| hypothetical protein GCWU000282_00523 [Catonella morbi ATCC 51271] Length = 243 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/232 (29%), Positives = 123/232 (53%), Gaps = 10/232 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G SR+++++++AQ+ V +N + + V +D + V G L +R Sbjct: 2 RIEKYLADTGWGSRKDIKQLLAQKIVTINDQVCSKGGTQVTPGSDCVAVGG-QLVPYQRY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D TV D L + + VGRLDI+T GLLLLTN+G LA Sbjct: 61 HYYLLNKPEGILSATEDRH-HQTVIDWLGEGYQHLDLFPVGRLDIDTTGLLLLTNNGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQKGSNAW 188 L P + + Y G VDQ + + G+ + ++T+ D +G++ Sbjct: 120 HQLLSPKKKVDKTYTATIRGLVDQADIAAFEAGLDLGDFTSLPAELTVLSQDVDQGTSQ- 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 + V ++EGK ++K++F+ +V L R++ GP +L + LA G R ++++ Sbjct: 179 IQVIIQEGKFHQVKRMFQAVGKEVLSLHRLAMGPLRLESDLAHGQWRSLTEQ 230 >gi|153829940|ref|ZP_01982607.1| pseudouridine synthase family 1 protein [Vibrio cholerae 623-39] gi|148874575|gb|EDL72710.1| pseudouridine synthase family 1 protein [Vibrio cholerae 623-39] Length = 340 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 111/236 (47%), Gaps = 9/236 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR E Sbjct: 17 TEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPE-VGSKVTEQDEVCIDGKPLRSKE 75 Query: 72 RTRLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 76 RPIYIALNKPTGITCTTERDVPGNIVDFIGH---HKRIFPIGRLDKPSDGLIFLTNDGDI 132 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y VR + + + + G+ I +VT +TQ +T Sbjct: 133 VNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYSFRIVLT 192 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 GL NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 193 QGL----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILA 244 >gi|328944867|gb|EGG39027.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1087] Length = 242 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/222 (31%), Positives = 111/222 (50%), Gaps = 9/222 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L E+ Sbjct: 2 RLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIAVSGQRL-TYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPRGVISATED-DRHQTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P ++YR + G ++Q + GI ++ + LD +K ++ Sbjct: 120 HAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAHLKILELDEEK-EDSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + L EGK ++K++ +V L R++ GP QL LA Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDFALA 220 >gi|327462777|gb|EGF09099.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1057] Length = 242 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/222 (31%), Positives = 112/222 (50%), Gaps = 9/222 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L E+ Sbjct: 2 RLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIIVSGQRL-TYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATED-DHHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P ++YR + G ++Q + GI ++ + LD +K ++ Sbjct: 120 HAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAHLKILELDEEKEAS-L 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + L EGK ++K++ +V L R++ GP QL + LA Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDSALA 220 >gi|160876688|ref|YP_001556004.1| pseudouridine synthase [Shewanella baltica OS195] gi|160862210|gb|ABX50744.1| pseudouridine synthase [Shewanella baltica OS195] gi|315268888|gb|ADT95741.1| pseudouridine synthase [Shewanella baltica OS678] Length = 236 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/234 (30%), Positives = 115/234 (49%), Gaps = 19/234 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERA-------AVNVMSTDHIEVDGVPL 67 R++K +A+ GI SRRE R+I R+ +NG + +N + D IE+DG P+ Sbjct: 2 RLAKYLAQCGIGSRREACRLIEAGRITLNGHIARHTDPIRLDELLNCL--DRIELDGAPI 59 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + E W+++K +G + D S V +L R+ VGRLD ++ GLLLLTND Sbjct: 60 TQTETLAYWVFNKAVGTDCRLLEQDETSLV--HLLPKAPRLYPVGRLDKDSRGLLLLTND 117 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGS 185 G L L P + Y VR + + + G+ Y D+Q TL Q + S Sbjct: 118 GELTHKLMHPCFAHSKTYHVRLDRPFTDEFVEQMASGVR-----YKDVQ-TLPCQVRRLS 171 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + L +G NR+I+++ +KV L R++ L +L G+ R ++ + Sbjct: 172 SDSFEIVLTQGLNRQIRRMAIALGYKVIDLQRVALMTLTLESLAEGAMRPLTPQ 225 >gi|312959535|ref|ZP_07774052.1| ribosomal small subunit pseudouridine synthase [Pseudomonas fluorescens WH6] gi|311286252|gb|EFQ64816.1| ribosomal small subunit pseudouridine synthase [Pseudomonas fluorescens WH6] Length = 230 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 116/235 (49%), Gaps = 15/235 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +RR+V ++ ++RV V+G+ + +V + VD ++ + R Sbjct: 2 RIDRFLSNLPRLNRRQVRLLLVERRVSVDGVAVSDPHHDVRDFSCVCVDDEVIQAGKPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ SDP TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPQGCVSATSDPQ-HPTVLDLLDEPDKDELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT--- 190 L P+T+ +VYRV + + G+ + D L TQ A + Sbjct: 121 LTQPTTKLPKVYRVHTEDTIGPEYAPTFAAGLY---FAFED----LTTQPAELALLGPTT 173 Query: 191 --VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EG+ ++K++F FN KV L R GP +L + LA G R +S + +R Sbjct: 174 ARLSIIEGRYHQVKRMFGHFNNKVIGLHRERMGPLELDSALAPGEYRALSLEEIR 228 >gi|228471718|ref|ZP_04056491.1| ribosomal large subunit pseudouridine synthase B [Capnocytophaga gingivalis ATCC 33624] gi|228276871|gb|EEK15566.1| ribosomal large subunit pseudouridine synthase B [Capnocytophaga gingivalis ATCC 33624] Length = 329 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 76/227 (33%), Positives = 114/227 (50%), Gaps = 15/227 (6%) Query: 4 KNIVQENFTPQ----RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 +N + N T Q R++K IA AGI +RRE +R IA V+VNG + V TD Sbjct: 81 RNTPKPNATDQSKGIRLNKYIANAGICARREADRYIAAGNVEVNGKPMTELGYRVQPTDV 140 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINT 118 ++ DG + AE+ L +KP G +TT D GR TV D + + + VGRLD T Sbjct: 141 VKFDGKNI-SAEKKEYILLNKPKGFITTTQDEKGRKTVMDLVAGAAEGNIKPVGRLDRLT 199 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLLLTNDG L + L PS ++Y V + KL L + +G+ D + Sbjct: 200 TGLLLLTNDGDLMKKLTHPSHGVRKIYHV-----ILDKKLALADFHKIQEGLTLEDGFIQ 254 Query: 179 LD----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 +D + + V + G+NR ++++FE + V +L R+ + Sbjct: 255 VDDINFVDGAPHNEIGVKIHSGRNRIVRRIFESLGYVVEKLDRVVFA 301 >gi|183179476|ref|ZP_02957687.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-3] gi|183012887|gb|EDT88187.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-3] Length = 340 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 111/236 (47%), Gaps = 9/236 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR E Sbjct: 17 TEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPE-VGSKVTEQDEVCIDGKPLRSKE 75 Query: 72 RTRLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 76 RPIYIALNKPTGITCTTERDVPGNIVDFIGH---HKRIFPIGRLDKPSDGLIFLTNDGDI 132 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y VR + + + + G+ I +VT +TQ +T Sbjct: 133 VNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYSFRIVLT 192 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 GL NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 193 QGL----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILA 244 >gi|262404561|ref|ZP_06081116.1| ribosomal large subunit pseudouridine synthase F [Vibrio sp. RC586] gi|262349593|gb|EEY98731.1| ribosomal large subunit pseudouridine synthase F [Vibrio sp. RC586] Length = 332 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 112/233 (48%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +++I Q RV +NG E V D + +DG PLR ER Sbjct: 7 KRLNKFISETGFCSRREADKLIEQGRVTLNGAQPE-VGSKVTEQDEVCIDGKPLRSKERP 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ T ++ D + + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 66 IYIALNKPTGITCT-TERDVQGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIVNK 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + + + + G+ I +VT +TQ +T GL Sbjct: 124 ILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYSFRIVLTQGL 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 184 ----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVNEILA 232 >gi|254286468|ref|ZP_04961425.1| pseudouridine synthase family 1 protein [Vibrio cholerae AM-19226] gi|150423417|gb|EDN15361.1| pseudouridine synthase family 1 protein [Vibrio cholerae AM-19226] Length = 340 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 111/236 (47%), Gaps = 9/236 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR E Sbjct: 17 TEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPE-VGSKVTEQDEVCIDGKPLRSKE 75 Query: 72 RTRLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 76 RPIYIALNKPTGITCTTERDVPGNIVDFIGH---HKRIFPIGRLDKPSDGLIFLTNDGDI 132 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y VR + + + + G+ I +VT +TQ +T Sbjct: 133 VNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYSFRIVLT 192 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 GL NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 193 QGL----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILA 244 >gi|171910347|ref|ZP_02925817.1| Pseudouridine synthase, Rsu [Verrucomicrobium spinosum DSM 4136] Length = 229 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 67/225 (29%), Positives = 118/225 (52%), Gaps = 10/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ +++A G +RREV M+ + VKV G++ E V T + V G PL A Sbjct: 6 RLDQLLASLGYGTRREVRNMVDRGLVKVGGVVAEDFDARVDPTT-VTVKGEPL-DAPFGL 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----RVISVGRLDINTEGLLLLTNDGGL 130 + ++HKP+G V +H+ +G T++D LP + V SVGRLD +T G+LLLT+ G L Sbjct: 64 VAVFHKPVGYVCSHASDEG-PTIYDLLPKRWPFRNPTVTSVGRLDKDTSGILLLTDQGKL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAWV 189 + P ++ +VY V +++ + + +G ++++ + L+ +A + Sbjct: 123 VQKWTSPKSEMDKVYEVTVDRPLEERLIGVFAEGTLLLESENKPCLPAKLEIVDALHARL 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 T L+EG+ +++++F W V L R +G ++L L G R Sbjct: 183 T--LQEGRYHQVRRMFASQGWHVEALHRSRFGEYELEGLEVGQWR 225 >gi|229522171|ref|ZP_04411588.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae TM 11079-80] gi|229341096|gb|EEO06101.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae TM 11079-80] Length = 328 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 110/236 (46%), Gaps = 9/236 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR E Sbjct: 5 TEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPE-VGSKVTEQDEVCIDGKPLRSKE 63 Query: 72 RTRLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 64 RPIYIALNKPTGITCTTERDVPGNIVDFIGH---HKRIFPIGRLDKPSDGLIFLTNDGDI 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y VR + + + + G+ I +VT +TQ +T Sbjct: 121 VNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYSFRIVLT 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 GL NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 181 QGL----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSDAEVSEILA 232 >gi|229105336|ref|ZP_04235984.1| Pseudouridine synthase [Bacillus cereus Rock3-28] gi|228678093|gb|EEL32322.1| Pseudouridine synthase [Bacillus cereus Rock3-28] Length = 242 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 115/229 (50%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++G ++ A V+V + + + G + E Sbjct: 2 RLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L HKP G+++ D D TV D L +IF VGRLDI+TEG LL+TNDG L Sbjct: 62 YLML-HKPQGVISATED-DNHETVIDLLELEDAIFDP-FPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + L P + Y G V ++ + KG+++ Y L K + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGALTILKSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGEYRELT 226 >gi|325686573|gb|EGD28599.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK72] Length = 242 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/222 (31%), Positives = 111/222 (50%), Gaps = 9/222 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L E+ Sbjct: 2 RLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIIVSGQRL-TYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATED-DHHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P ++YR + G ++Q + GI ++ + LD +K ++ Sbjct: 120 HAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAHLKILELDEEK-EDSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + L EGK ++K++ +V L R++ GP QL LA Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDFALA 220 >gi|302386350|ref|YP_003822172.1| pseudouridine synthase [Clostridium saccharolyticum WM1] gi|302196978|gb|ADL04549.1| pseudouridine synthase [Clostridium saccharolyticum WM1] Length = 241 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 119/235 (50%), Gaps = 16/235 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K + G +R +++ M + R+ V+G ++ + + + VDG P+ R Sbjct: 5 RLDKYLTEMGEGTRSQIKEMARKGRIFVDGQPEKKTERKIHPEQNQVSVDGRPVSYV-RY 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-----VISVGRLDINTEGLLLLTNDG 128 ++ +KP G+V+ D + +D + S+ + VGRLDI+TEGLLL+TNDG Sbjct: 64 EYYMLNKPQGVVSATED-----SRYDTVISLIKSRKRDDLFPVGRLDIDTEGLLLITNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGS 185 LA L P +VY R G++ D +++G+V+ ++V ++ S Sbjct: 119 DLAHQLLSPKKHVDKVYFARIQGELPPDAKEQMEEGLVLSDGTPTMPAHLEVLKQGREES 178 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 + + + +REGK ++K++FE +V L R++ G L LA G R +S++ Sbjct: 179 SLEILLTIREGKFHQVKRMFETLGCRVIYLKRMTMGSLTLDEALAPGEYRPLSEE 233 >gi|22536965|ref|NP_687816.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae 2603V/R] gi|22533819|gb|AAM99688.1|AE014228_9 ribosomal small subunit pseudouridine synthase A, putative [Streptococcus agalactiae 2603V/R] Length = 239 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 62/215 (28%), Positives = 115/215 (53%), Gaps = 6/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K++ +AG SR +V+++I ++V V+G ++ + V V S G + + Sbjct: 2 RLDKLLGQAGFGSRNQVKKLICSRQVSVDGQIVTKDNVIVDSGLQSIFVGKERVCLKESS 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+V+ D + ++ + +L S +V +GRLD +TEGLL++TN+G L Sbjct: 62 YYLLYKPSGVVSAVRDSEHKTVI--DLISEKDKVEGLYPIGRLDRDTEGLLIVTNNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + P + Y V +G +++D + ++G+V G ++T+DT + Sbjct: 120 YRMLHPKHHVAKTYYVEVNGFLERDAITFFEEGVVFDDGTKCKPAELTIDTANNDKSTAR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK ++KK+F + KV L RIS+G +L Sbjct: 180 ITITEGKFHQVKKMFLAYGVKVIYLRRISFGDLRL 214 >gi|329889172|ref|ZP_08267515.1| ribosomal large subunit pseudouridine synthase F [Brevundimonas diminuta ATCC 11568] gi|328844473|gb|EGF94037.1| ribosomal large subunit pseudouridine synthase F [Brevundimonas diminuta ATCC 11568] Length = 252 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 68/236 (28%), Positives = 117/236 (49%), Gaps = 16/236 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K + ++G+ SRRE E +IA V ++G ++ A + + ++ Sbjct: 12 PVRINKWLGQSGVCSRREAEGLIADGLVSIDGEVVRDAGRKIEPGQTLTLNDTGEAALAA 71 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVF----------DNLPSIFSRVISVGRLDINTEGLL 122 L HKP+G V+ +P V P+ + + VGRLD ++ GLL Sbjct: 72 GVAILLHKPVGYVSGQPEPGKIPAVRLLTTANRVGDGETPARDASLPPVGRLDEDSRGLL 131 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDT 181 +L++DG +A+ + P + + Y VR G V + KL L+ G+ + G +VT ++ Sbjct: 132 MLSSDGVVAKAVIGPQSDLDKEYLVRVAGTVTEAKLTKLRHGLELDGRQLKPARVTQMEP 191 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 Q+ + LREG+NR+I+++ E +V L RI GP +LG L G R ++ Sbjct: 192 QR-----LRFILREGRNRQIRRMCELVGLEVVDLYRIRIGPVKLGDLPEGRWRMLT 242 >gi|331004267|ref|ZP_08327745.1| hypothetical protein HMPREF0491_02607 [Lachnospiraceae oral taxon 107 str. F0167] gi|330411432|gb|EGG90844.1| hypothetical protein HMPREF0491_02607 [Lachnospiraceae oral taxon 107 str. F0167] Length = 239 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 61/226 (26%), Positives = 119/226 (52%), Gaps = 8/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 RV K+++ G SR+E+++ + ++K+N +++ + S D I DG + + E Sbjct: 4 RVDKILSELGFGSRQEIKKYVKAGKIKINDRTVKKPEEKINSKNDIIYFDGKEI-EVEEF 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V D R TV + + S ++ VGRLD++TEG+L+LTNDG L Sbjct: 63 ETYILYKPAGYVCATKDNVHR-TVMELIDSKRKNIVPVGRLDLDTEGILILTNDGDLNHR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P++ + Y F G++D + + + + G+ I G+ + + S + + + Sbjct: 122 LVSPASHVDKSYYAVFDGKLDSNAIEMTQAGL---DIGEGEFSKPAELKILSENEILLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL--AGSTREVS 237 EGK ++K++ + +V L R+++G +L L G +R+++ Sbjct: 179 HEGKFHQVKRMVKALGGEVTYLKRVAFGGLKLDDLKLEKGESRKIT 224 >gi|307297964|ref|ZP_07577768.1| pseudouridine synthase [Thermotogales bacterium mesG1.Ag.4.2] gi|306916050|gb|EFN46433.1| pseudouridine synthase [Thermotogales bacterium mesG1.Ag.4.2] Length = 228 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 54/173 (31%), Positives = 95/173 (54%), Gaps = 3/173 (1%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDG 128 +E ++L +KPIG ++ SD GR T+ D + I RV VGRLD ++ GL+L+TNDG Sbjct: 31 SEEKVVYLVNKPIGYLSAMSDDRGRKTLSDLVSDRIKERVFHVGRLDQDSCGLILMTNDG 90 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNA 187 L+ ++ P+++ + Y V G++ L +K G+ + G ++ L G + Sbjct: 91 DLSNLVSHPASEIEKTYVVGIKGKLTDRDLEAVKGGLTLGDGFKTSPAKIRLVRSDGDFS 150 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 + + EG REI+++F N V+ L+R+S GP + + + G + +S+K Sbjct: 151 KYAITIHEGHKREIREIFRVLNKSVSSLVRVSIGPLSISLVPSPGDIKRLSRK 203 >gi|153956083|ref|YP_001396848.1| hypothetical protein CKL_3486 [Clostridium kluyveri DSM 555] gi|219856417|ref|YP_002473539.1| hypothetical protein CKR_3074 [Clostridium kluyveri NBRC 12016] gi|146348941|gb|EDK35477.1| RsuA [Clostridium kluyveri DSM 555] gi|219570141|dbj|BAH08125.1| hypothetical protein [Clostridium kluyveri NBRC 12016] Length = 238 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 119/229 (51%), Gaps = 11/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERT 73 R+ KV+A G +R+EV+ ++ VK++G++++ ++ + + IEV+ + + Sbjct: 3 RLDKVLANLGYGTRKEVKAIVKSGAVKIDGLVVKDNSMKIDPDECKIEVEETVVEYKKNI 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 + L +KP G+V D + + TV D L + + VGRLD +T+GLLL+TNDG L Sbjct: 63 YI-LMNKPEGVVCATFD-NYQETVIDILEPKYQAFKPFPVGRLDKDTKGLLLITNDGELN 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICY-GDMQVTLDTQKGSNAW 188 L P +VY +VD D + K GIV++ C ++++ + G+ Sbjct: 121 HRLISPKNHVDKVYYAEIDKKVDMDDIRKFKMGIVLKDEYTCMPAELKIIESDENGARVE 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 VTV +EGK +IK++F V L RI +GP L L G RE+ Sbjct: 181 VTV--QEGKFHQIKRMFNSLGKNVIYLERIKFGPLSLDDNLQEGEYREL 227 >gi|78485288|ref|YP_391213.1| pseudouridine synthase, Rsu [Thiomicrospira crunogena XCL-2] gi|78363574|gb|ABB41539.1| pseudouridine synthase homolog [Thiomicrospira crunogena XCL-2] Length = 261 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 66/238 (27%), Positives = 119/238 (50%), Gaps = 15/238 (6%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIE 61 + I+ +F+ R++K+I++AG+ S+++ + I Q RV VNG + A+V V D + Sbjct: 22 QKIIATDFSSMRLNKLISQAGLGSKKQADAWIMQNRVTVNG---QVASVGQKVNQHDQVL 78 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 +DG P+ + L YHKP+G+V TH + V + ++GRLD +EGL Sbjct: 79 LDGRPVAWSSEVLLMAYHKPVGVVCTHDLSVANNLVVST--GLMQHFSAMGRLDKASEGL 136 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--L 179 ++LTN G L + P + Y V + + L +++G+ I G QVT Sbjct: 137 MILTNQGDLTNHILQPGFAHEKEYWVEVDQPLTEYFLTNMQQGVEIMG------QVTRPC 190 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + L +G N++I+++ + ++V RL R+ L L + RE++ Sbjct: 191 EIEATGEHCFRIVLTQGLNKQIRRMCKSLGYRVLRLQRVRIAQVWLDDLPVNTLRELN 248 >gi|332534428|ref|ZP_08410268.1| putative ribosomal RNA pseudouridylate synthase [Pseudoalteromonas haloplanktis ANT/505] gi|332036162|gb|EGI72637.1| putative ribosomal RNA pseudouridylate synthase [Pseudoalteromonas haloplanktis ANT/505] Length = 230 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 65/222 (29%), Positives = 112/222 (50%), Gaps = 17/222 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH---IEVDGVPLR 68 T R++K IA AGI SR++ R+I + V VN R A ++ D I V+ ++ Sbjct: 3 TKIRLAKYIAHAGICSRKQASRLIDEGVVTVNN----RPANHIDHVDEQDTIIVNEKEIK 58 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 A + YHKP+G + + D +++ +LP++ +RV +GRLD ++ GLL+LTNDG Sbjct: 59 GAADLVYFAYHKPVG-IDCKLNIDDPASLIHHLPTL-TRVYPIGRLDKDSRGLLILTNDG 116 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSN 186 L P + Y V + +D + G+ + D +TL + K ++ Sbjct: 117 DFCNQLIHPDFHQPKHYLVTVNKPLDDAFCKKMAAGVPV------DKHITLPCEVNKIAS 170 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 ++ L++G NR+I+K+ + +KV L R+ + L L Sbjct: 171 NQFSIVLKQGLNRQIRKMAHYCGYKVIDLFRVQFSDLTLSKL 212 >gi|312863597|ref|ZP_07723835.1| pseudouridylate synthase [Streptococcus vestibularis F0396] gi|311101133|gb|EFQ59338.1| pseudouridylate synthase [Streptococcus vestibularis F0396] Length = 243 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 63/219 (28%), Positives = 109/219 (49%), Gaps = 13/219 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + G+ SR +V+ + +++V VNG L + D + E T Sbjct: 2 RLDKFLVDCGVGSRSQVKNFLKKKQVTVNGQLETSPKTQIDENK----DRIAYLDQELTH 57 Query: 75 ----LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDG 128 +L +KP G+++ +P + TV D L +V VGRLDI+T GLLLLTN+G Sbjct: 58 ETFVYYLLNKPQGVISATENPRHK-TVLDLLDDTARHKQVFPVGRLDIDTHGLLLLTNNG 116 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICY-GDMQVTLDTQKGSN 186 LA + P ++Y+ + G +D++ + +KGI ++ C +++ + S Sbjct: 117 DLAHAMLSPKKHVDKIYQAKVAGVMDEEDILAFEKGIKLKDHTCQPAKLEIVSVDRNEST 176 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +WV + + EGK ++K++ +V L R+S GP L Sbjct: 177 SWVQITIAEGKFHQVKRMVAACGKEVTELQRLSMGPLSL 215 >gi|296126048|ref|YP_003633300.1| RNA-binding S4 domain protein [Brachyspira murdochii DSM 12563] gi|296017864|gb|ADG71101.1| RNA-binding S4 domain protein [Brachyspira murdochii DSM 12563] Length = 227 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 64/225 (28%), Positives = 122/225 (54%), Gaps = 9/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA IASRRE +++I VK+NGI+ A V + D +E D + + ++ + Sbjct: 2 RLNKYIASLNIASRREADKLIQNGNVKINGIVNTNPAYQVSNDDKVECD---INEYKKDK 58 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +++ +KP G V + + +G+ ++ + + F+ + VGRLD ++ GL++LTNDG +R Sbjct: 59 IYIKLNKPRGYVVSSNKKEGKP-IYSLIKNDFNNIYPVGRLDKDSSGLIILTNDGVFSRK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + +T + Y V+ + + L L+ GI + G +V + N++ + L Sbjct: 118 IIGENTNCKKEYFVKVNDNIPDGALKKLEYGISLDGQKLKPAEV---KRINKNSFHII-L 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EGKNR+I+++ + ++V L R+ L L G+ + ++K Sbjct: 174 TEGKNRQIRRMCQKIGFEVIILKRLRIADILLDDLKEGTFKHLTK 218 >gi|319744819|gb|EFV97158.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae ATCC 13813] Length = 239 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 62/215 (28%), Positives = 115/215 (53%), Gaps = 6/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K++ +AG SR V+++I ++V V+G ++ + V V S+ G + + Sbjct: 2 RLDKLLGQAGFGSRNHVKKLIRSRQVSVDGQIVTKDNVIVDSSLQSIFVGKERVCLKESS 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+V+ D + ++ + +L S +V +GRLD +TEGLL++TN+G L Sbjct: 62 YYLLYKPSGVVSAVRDSEHKTVI--DLISEKDKVEGLYPIGRLDRDTEGLLIITNNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + P + Y V +G +++D + ++G+V G ++T+DT + Sbjct: 120 YRMLHPKHHVAKTYYVEVNGFLERDAITFFEEGVVFDDGTKCKPAELTIDTANNDKSTAR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK ++KK+F + KV L RIS+G +L Sbjct: 180 ITITEGKFHQVKKMFLAYGVKVIYLRRISFGDLRL 214 >gi|150020316|ref|YP_001305670.1| pseudouridine synthase [Thermosipho melanesiensis BI429] gi|149792837|gb|ABR30285.1| pseudouridine synthase [Thermosipho melanesiensis BI429] Length = 243 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/220 (31%), Positives = 110/220 (50%), Gaps = 13/220 (5%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 +N QR+ ++ A RR+ + +I ++VKVNG ++ + +V D I V+G Sbjct: 5 DNIKLQRILQICGFA----RRKADELIFSKKVKVNGKIVTKPWFDVKVDDEITVEGKKFT 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTV---FDNLPSIFSRVISVGRLDINTEGLLLLT 125 + ++ HKP G VT+ DP ++T+ F + P + GRLD + G+L+LT Sbjct: 61 -LPKFEYYVLHKPKGYVTSLYDPKEKNTIKEFFKDKP-----LKPAGRLDKDVSGVLILT 114 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG L VL +VY + G+V + L LKKGI +G + Q + Sbjct: 115 NDGDLIDVLTNAKYGVKKVYIAKITGRVKFEDLLSLKKGIYDKGDFLKLEHFDILEQGFN 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V V + +GK E+K++FE KV L RI +GP + Sbjct: 175 YSTVKVEMIKGKKHEVKRLFEKIGHKVLELRRIKHGPVSI 214 >gi|197301684|ref|ZP_03166754.1| hypothetical protein RUMLAC_00410 [Ruminococcus lactaris ATCC 29176] gi|197299124|gb|EDY33654.1| hypothetical protein RUMLAC_00410 [Ruminococcus lactaris ATCC 29176] Length = 246 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/222 (31%), Positives = 117/222 (52%), Gaps = 14/222 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A G+ +R ++++ I++ +V VNG + + A + D + G + AE Sbjct: 4 RLDKYLADMGLGTRSQIKKDISKGQVLVNGTVSKDAGTRIDTEKDQVSYLGQTVTYAEY- 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G+V+ D R TV D + + + + VGRLD +TEGLLL+TNDG LA Sbjct: 63 EYYMLNKPAGVVSATEDRHDR-TVLDLIDTKQRKDLFPVGRLDKDTEGLLLITNDGALAH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-----KGSNA 187 L P + +VY R G+V + + L +KG+ I G+ +TL + + + Sbjct: 122 RLLSPKSHVDKVYFARIEGKVTAEDVFLFQKGVDI-----GEQALTLPARLEILSSDTVS 176 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + + EGK ++K++FE KV L R+S G L LL Sbjct: 177 EIRLTICEGKFHQVKRMFESVGKKVLYLKRLSMGTLILDDLL 218 >gi|295839696|ref|ZP_06826629.1| RNA pseudouridylate synthase [Streptomyces sp. SPB74] gi|295827612|gb|EFG65503.1| RNA pseudouridylate synthase [Streptomyces sp. SPB74] Length = 196 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 60/182 (32%), Positives = 96/182 (52%), Gaps = 3/182 (1%) Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 +D I+VDG+ + + + + +KP G+V T DP+GR + D + + +R+ VGRLD Sbjct: 4 SDEIKVDGLTV-ATQSYQFFSLNKPAGVVATMEDPEGRQNLGDYVNNRETRLFHVGRLDT 62 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDM 175 TEG++LLTN G LA L P + Y G + +D LK GI ++ G D Sbjct: 63 ETEGVILLTNHGELAHRLTHPRYGVRKTYLAHIVGPIPRDLGKRLKDGIELEDGWARAD- 121 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + Q G N V V L EG+ ++++ + V++L+R ++GP LG +G R Sbjct: 122 HFRVVEQTGKNYLVEVTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRR 181 Query: 236 VS 237 +S Sbjct: 182 LS 183 >gi|269302650|gb|ACZ32750.1| RNA pseudouridine synthase [Chlamydophila pneumoniae LPCoLN] Length = 235 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/227 (32%), Positives = 108/227 (47%), Gaps = 6/227 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T R++K +A AG+ASRR+ + +I V VNG + E V V D ++V G + + Sbjct: 2 TKVRLNKFLASAGVASRRKCDEIIFSGSVTVNGRVAEGPFVLVDPEDKVQVGGTSVHLTK 61 Query: 72 RTRLWLYHKPIG-LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + ++ HK IG L ++ G V D + RV +VGRLD T GL+L+TNDG Sbjct: 62 KV-YFMVHKAIGYLCSSEKKFPGTKLVIDLFAHLPYRVFTVGRLDKETSGLILVTNDGEF 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + PS+ + Y ++ V L L +G I G + VT K V Sbjct: 121 ANKIIHPSSGITKEYLLKVSRDVSAKDLEKLMEGTFIDGKHVRPVSVT----KIRRGTVK 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EGK EI+ + + L RI G LG L G RE++ Sbjct: 177 IVVSEGKKHEIRLFADAAGLPILELKRIRIGSLVLGGLRYGEYRELT 223 >gi|120437946|ref|YP_863632.1| ribosomal large subunit pseudouridine synthase F [Gramella forsetii KT0803] gi|117580096|emb|CAL68565.1| ribosomal large subunit pseudouridine synthase F [Gramella forsetii KT0803] Length = 295 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 67/226 (29%), Positives = 109/226 (48%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +G+ SRR+ + IA V VNG + V D + DG L E+ Sbjct: 64 RLNKYIANSGVCSRRDADMYIAAGNVTVNGKSITEMGYRVKLEDDVRFDGRRL-NPEKPE 122 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 L +KP G T + G TV + + S +S VG+LD +GLLL TNDG LA+ Sbjct: 123 YILLNKPAGFFVTGNPEKGGKTVMELVARTTSAKVSPVGKLDNQAKGLLLFTNDGTLAKK 182 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P ++Y+V + + ++ L ++KG+ I+G ++ K N V + L Sbjct: 183 LAKPKNGIRQIYQVTLNKNLTKEDLEGIEKGVYIEGSKVLITSISFIEDKPHNE-VGIEL 241 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 K + ++F+ ++V L R+ +G L G R ++K+ Sbjct: 242 YSIKEHIVTRIFKSLGYEVESLDRVVFGGLTKKDLPRGRHRNLTKQ 287 >gi|15836397|ref|NP_300921.1| pseudouridine synthase [Chlamydophila pneumoniae J138] gi|16752175|ref|NP_445542.1| ribosomal large subunit pseudouridine synthase B [Chlamydophila pneumoniae AR39] gi|33242224|ref|NP_877165.1| putative pseudouridine synthase [Chlamydophila pneumoniae TW-183] gi|7189918|gb|AAF38783.1| ribosomal large subunit pseudouridine synthase B [Chlamydophila pneumoniae AR39] gi|8979238|dbj|BAA99072.1| pseudouridine synthase [Chlamydophila pneumoniae J138] gi|33236735|gb|AAP98822.1| putative pseudouridine synthase [Chlamydophila pneumoniae TW-183] Length = 235 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/227 (32%), Positives = 108/227 (47%), Gaps = 6/227 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T R++K +A AG+ASRR+ + +I V VNG + E V V D ++V G + + Sbjct: 2 TKVRLNKFLASAGVASRRKCDEIIFSGSVTVNGRVAEGPFVLVDPEDKVQVGGTSVHLTK 61 Query: 72 RTRLWLYHKPIG-LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + ++ HK IG L ++ G V D + RV +VGRLD T GL+L+TNDG Sbjct: 62 KV-YFMVHKAIGYLCSSEKKFPGTKLVIDLFAHLPYRVFTVGRLDKETSGLILVTNDGEF 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + PS+ + Y ++ V L L +G I G + VT K V Sbjct: 121 ANKIIHPSSGITKEYLLKVSRDVSAKDLGKLMEGTFIDGKHVRPVSVT----KIRRGTVK 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EGK EI+ + + L RI G LG L G RE++ Sbjct: 177 IVVSEGKKHEIRLFADAAGLPILELKRIRIGSLVLGGLRYGEYRELT 223 >gi|295692663|ref|YP_003601273.1| pseudouridine synthase [Lactobacillus crispatus ST1] gi|295030769|emb|CBL50248.1| Pseudouridine synthase [Lactobacillus crispatus ST1] Length = 234 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 60/215 (27%), Positives = 108/215 (50%), Gaps = 5/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV +I + V VNG+ ++ V +D + V+G + ++ Sbjct: 2 RIDKYLANMNVGSRKEVHLLIKKGIVAVNGVTVKTPKQQVKESDQVTVNGDAV-AYQKYH 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D + + P + ++ VGRLD +T GLLLLTNDG L Sbjct: 61 YFLLNKPKGVLSATEDRSQPTVISLLAPQDRYQGIVPVGRLDKDTTGLLLLTNDGQLNHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWVT 190 L P+ ++YR + G D + + G+ + + ++++ ++ + + Sbjct: 121 LLAPNKHVDKIYRAKIAGVADDETVKTFAAGMTLGDGTKLQPAELKILSQDEEHNRSTTE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +REGK +IK++F KV L RIS G L Sbjct: 181 IKIREGKYHQIKRMFGAVGMKVVELERISMGDLTL 215 >gi|206603683|gb|EDZ40163.1| Protein of unknown function [Leptospirillum sp. Group II '5-way CG'] Length = 298 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/241 (30%), Positives = 123/241 (51%), Gaps = 17/241 (7%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKV-NGILLERAAVNVMSTDHIE----VDGVPLRKA 70 V + I++ G+ +R + R+ + +G L++ V T E +D L A Sbjct: 22 VDRWISKLGLGTRGMAREWVRDGRLSLGDGTLVQHVDQFVQGTPGSEPVFRLDQKIL-SA 80 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--------FSRVISVGRLDINTEGLL 122 + ++ ++KP G++ T +DP GR T+ +++ SR++ VGRLD + GL+ Sbjct: 81 DPPAVFAFNKPRGVLVTRTDPGGRETICESIGRSSGQRTGMDMSRLMPVGRLDQASSGLI 140 Query: 123 LLTNDGG-LARVLELPSTQWLRVYRVRFHGQVDQDKLNL-LKKGIVIQGICYGDMQVTLD 180 LLTN L R+L P+ ++ R YRV+ + + + L G + + + V + Sbjct: 141 LLTNRSSELTRLLN-PALEFPREYRVQVRPSLKKRDWEMGLFGGKWARELGLKPVDVRYE 199 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + W+ VGL+EGKNREI+++FE ++V LIR+ +GPF L L G EVS Sbjct: 200 KENLRTTWLRVGLKEGKNREIRRLFESGGYEVLHLIRVGFGPFCLKNLPPGGIVEVSSFF 259 Query: 241 L 241 L Sbjct: 260 L 260 >gi|325287412|ref|YP_004263202.1| pseudouridine synthase Rsu [Cellulophaga lytica DSM 7489] gi|324322866|gb|ADY30331.1| pseudouridine synthase Rsu [Cellulophaga lytica DSM 7489] Length = 245 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 65/232 (28%), Positives = 118/232 (50%), Gaps = 12/232 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRR +++I Q RV +NG + E ++ TD + VDG + +++ Sbjct: 8 RINKYLSEVGYCSRRAADKLIDQGRVTINGKIPE-MGTKIIPTDEVRVDGELISESKEDF 66 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++L ++KP+G+V T + + D N P R+ +GRLD +EGL+ LTNDG + Sbjct: 67 VYLAFNKPVGIVCTTDTRVEKDNIIDYINYPK---RIFPIGRLDKPSEGLIFLTNDGDIV 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V+ + D ++ + GI I +V +K S + Sbjct: 124 NKILRARNHHEKEYIVKVDNIITDDFVHQMSNGIPILDTITRKCKV----EKLSKYEFRI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 L +G NR+I+++ E+ + V +L R+ L + G+ RE +K+ L+E Sbjct: 180 ILTQGLNRQIRRMTEYLGYNVVKLKRVRIMNISLD-MPVGTYREFTKEELKE 230 >gi|255035028|ref|YP_003085649.1| pseudouridine synthase [Dyadobacter fermentans DSM 18053] gi|254947784|gb|ACT92484.1| pseudouridine synthase [Dyadobacter fermentans DSM 18053] Length = 248 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 65/239 (27%), Positives = 125/239 (52%), Gaps = 23/239 (9%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRK 69 P R++K I+ G SRRE ++++ Q RV +NG +L ++A ++D + VDG PL K Sbjct: 3 PVRINKFISETGFCSRREADKLVEQGRVMLNGRKAVLGDKAT----TSDDVRVDGKPL-K 57 Query: 70 AERTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 A++ +++ ++KP+G+ T ++ + + D + R+ +GRLD +EGL+ LT+DG Sbjct: 58 AKKAGVYIAFNKPVGITCT-TERHIKGNIIDYIRHK-ERIFPIGRLDKPSEGLIFLTSDG 115 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----CYGDMQVTLDTQKG 184 + + + Y V + + + + + G+ I G+ C+ +K Sbjct: 116 DIVNKILRAGNNHEKEYVVTVNKPITPEFIQKMSSGVPILGVVTKKCF--------VRKD 167 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 S+ T+ L +G NR+I+++ EF + V +L R+ L L G R+++ ++E Sbjct: 168 SSYVFTIILTQGLNRQIRRMCEFLGYNVTKLKRVRIMNVTLKDLPVGKWRDLTAAEMQE 226 >gi|220929584|ref|YP_002506493.1| pseudouridine synthase [Clostridium cellulolyticum H10] gi|219999912|gb|ACL76513.1| pseudouridine synthase [Clostridium cellulolyticum H10] Length = 245 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 68/230 (29%), Positives = 122/230 (53%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 QR+ KV++ G SR ++ + + V V+G +++ + ++V IE+DG L + Sbjct: 5 QRLDKVLSNFGFGSRNYIKGAVKKGLVTVDGRIIKDSGIHVDPEVSIIEIDGERLNYRKY 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + L +KP G+++ SD + TVFD LP + + GRLDI+TEGL+L+TNDG L Sbjct: 65 IYIML-NKPQGVISATSDRK-QKTVFDILPEEYKCFDLFPAGRLDIDTEGLVLMTNDGQL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + + P + Y + G+V+Q+ +G+ + Y + L+ K + + + Sbjct: 123 SHEILSPKKHVPKQYYAKVMGRVNQEDAEAFSRGVTLDD-GYQTLPAVLEILKSDDLSEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + + EGK ++K++FE KV L R+S G +L +L G +E+ + Sbjct: 182 KLTIVEGKFHQVKRMFEAVGKKVIYLKRLSMGNLRLDESLQLGECKELGE 231 >gi|153213785|ref|ZP_01948993.1| pseudouridine synthase family 1 protein [Vibrio cholerae 1587] gi|124115709|gb|EAY34529.1| pseudouridine synthase family 1 protein [Vibrio cholerae 1587] Length = 340 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 110/236 (46%), Gaps = 9/236 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR E Sbjct: 17 TEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPE-VGSKVTEQDEVCIDGKPLRSKE 75 Query: 72 RTRLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 76 RPIYIALNKPTGITCTTERDVPGNIVDFIGH---HKRIFPIGRLDKPSDGLIFLTNDGDI 132 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y VR + + + + G+ I +VT +TQ +T Sbjct: 133 VNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYSFRIVLT 192 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 GL NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 193 QGL----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSDTEVSEILA 244 >gi|229505265|ref|ZP_04394775.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae BX 330286] gi|229511065|ref|ZP_04400544.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae B33] gi|229518185|ref|ZP_04407629.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae RC9] gi|229608284|ref|YP_002878932.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae MJ-1236] gi|34098711|sp|Q9F855|RLUE_VIBCH RecName: Full=Ribosomal large subunit pseudouridine synthase E; AltName: Full=rRNA pseudouridylate synthase E; AltName: Full=rRNA-uridine isomerase E gi|229344900|gb|EEO09874.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae RC9] gi|229351030|gb|EEO15971.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae B33] gi|229357488|gb|EEO22405.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae BX 330286] gi|229370939|gb|ACQ61362.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae MJ-1236] Length = 241 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 58/186 (31%), Positives = 94/186 (50%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL AER ++ L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LT Sbjct: 58 PLSPAER-KVILFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILT 114 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 115 NDGILQARLTQPQSKAPKTYWVQVEGSPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTL 174 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + L EG+NR+++++ + RLIR S G + LG L G Sbjct: 175 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 234 Query: 232 STREVS 237 REV+ Sbjct: 235 EWREVT 240 >gi|109897967|ref|YP_661222.1| pseudouridine synthase, Rsu [Pseudoalteromonas atlantica T6c] gi|109700248|gb|ABG40168.1| ribosomal large subunit pseudouridine synthase F [Pseudoalteromonas atlantica T6c] Length = 317 Score = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 88/348 (25%), Positives = 156/348 (44%), Gaps = 41/348 (11%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M N + R++K I+ +G SRRE +++I QRV +NG++ E V+S D + Sbjct: 1 MNTSNTSNTTVSSIRLNKFISDSGFCSRREADKLIDSQRVTINGVIPE-LGTKVLSGDEV 59 Query: 61 EVDGVPLRKAERT---RLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 VDG ++ + R++L YHKP+G+ T ++ + + D + R+ +GRLD Sbjct: 60 RVDGNLIKASAENKSDRVYLAYHKPVGITCT-TERHVKGNIIDAIGHP-ERIFPIGRLDK 117 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +EGL+ LT+DG + + + Y V + + ++ + G+ I Sbjct: 118 PSEGLIFLTSDGDIVNKILRAENAHDKEYIVTVDRPLTERFIHAMGAGVPILDTVTKPCT 177 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 VT+ S + L +G NR+I+++ E+ + V +L R +L L G R + Sbjct: 178 VTMQ----SKFVFRIILTQGLNRQIRRMCEYLGYGVTKLKRSRIMSIRLAGLKVGQWRNL 233 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 + +RE DA S++T ++ I + V D KN+ + Sbjct: 234 TPDEMREI------------SDAVEGSTKTALKTDQKIAANVTD------KNAPKTEPTR 275 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 K+ H R + S V AK H S +R+ + +P+ PS+ Sbjct: 276 SSKR----SHHRGIKSQVGEAK--HGS------RRQATNNTAPATPSR 311 >gi|153828665|ref|ZP_01981332.1| pseudouridine synthase family 1 protein [Vibrio cholerae 623-39] gi|148875818|gb|EDL73953.1| pseudouridine synthase family 1 protein [Vibrio cholerae 623-39] Length = 241 Score = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 58/186 (31%), Positives = 94/186 (50%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL AER ++ L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LT Sbjct: 58 PLSPAER-KVILFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILT 114 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 115 NDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTL 174 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + L EG+NR+++++ + RLIR S G + LG L G Sbjct: 175 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 234 Query: 232 STREVS 237 REV+ Sbjct: 235 EWREVT 240 >gi|332830030|gb|EGK02658.1| hypothetical protein HMPREF9455_00908 [Dysgonomonas gadei ATCC BAA-286] Length = 342 Score = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 65/226 (28%), Positives = 120/226 (53%), Gaps = 13/226 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K I+ +G SRRE +R I + RV +NG +RA V V+ ++V+G + Sbjct: 4 RLNKYISNSGFCSRREADRFIEEGRVTING---KRAQVGMRVLPGQKVKVNGELIVNKIE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++KP+G+V+T +DP R + N R+ +GRLD +++GL+LLTNDG + Sbjct: 61 PVYIAFNKPVGIVST-TDPQERDNII-NFIRHEQRIFPIGRLDKDSQGLILLTNDGDIVN 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV-TV 191 + + Y V+ + + +D L + +G+ I ++ N ++ + Sbjct: 119 KILRAGNNHKKDYLVKVNRPITKDFLTRMAQGVPILDRVTRRCEIV-----EINPYMFRI 173 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L +G NR+I+++ E+F+++V +L RI +LG L G+ R ++ Sbjct: 174 SLIQGLNRQIRRMCEYFDYEVLKLERIQIMNIKLGDLGQGNWRNLT 219 >gi|295692648|ref|YP_003601258.1| pseudouridine synthase [Lactobacillus crispatus ST1] gi|295030754|emb|CBL50233.1| Pseudouridine synthase [Lactobacillus crispatus ST1] Length = 236 Score = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 62/215 (28%), Positives = 109/215 (50%), Gaps = 5/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV ++I + V VNG ++ + D + V+G + ++ Sbjct: 2 RIDKYLANMNVGSRKEVHQLIKKGVVAVNGKTVKTLKEKINENDVVTVNGEEI-AYQKYH 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D + ++ + +L + ++ VGRLD +T GLLLLTNDG L Sbjct: 61 YFLVNKPKGVLSATEDRNQKTVISLLDLQDQYQGIVPVGRLDKDTTGLLLLTNDGQLNHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAW--VT 190 L P+ +VYR + G D++ G+++ G ++ + Q NA + Sbjct: 121 LLAPNKHVAKVYRAQIAGVADEETAKAFASGMMLGDGTKLKPAKLKILKQDRENATSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK +IK++F KV L R+S G L Sbjct: 181 IEISEGKYYQIKRMFGAVGMKVTALDRLSMGNLHL 215 >gi|261339436|ref|ZP_05967294.1| ribosomal large subunit pseudouridine synthase E [Enterobacter cancerogenus ATCC 35316] gi|288318242|gb|EFC57180.1| ribosomal large subunit pseudouridine synthase E [Enterobacter cancerogenus ATCC 35316] Length = 217 Score = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 55/185 (29%), Positives = 97/185 (52%), Gaps = 17/185 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 +K + TR+ L++KP ++ +D GRST+ D +P V + GRLD ++EGLL+LTND Sbjct: 34 KKTQPTRVILFNKPYDVLPQFTDEAGRSTLKDYIP--VQGVYAAGRLDRDSEGLLVLTND 91 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--- 184 G L L P + ++Y V+ G+ D+D L L+ G+ + V L ++ Sbjct: 92 GALQATLTQPGKRTGKIYFVQVEGEPDEDALAKLRTGVTLNDGPTLSAGVELVSEPEWLW 151 Query: 185 ------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 +W+ + L EG+NR+++++ + RLIR + G + L +L G+ Sbjct: 152 PRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGRYTLDSLANGA 211 Query: 233 TREVS 237 R+++ Sbjct: 212 WRDIA 216 >gi|255020930|ref|ZP_05292986.1| ribosomal small subunit pseudouridine synthase [Acidithiobacillus caldus ATCC 51756] gi|254969721|gb|EET27227.1| ribosomal small subunit pseudouridine synthase [Acidithiobacillus caldus ATCC 51756] Length = 234 Score = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 67/227 (29%), Positives = 113/227 (49%), Gaps = 14/227 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ ++ +R G SR E+ + RV V + ++ V +++DG PL E Sbjct: 6 ERLDRLFSRLGYGSRSELREWLRAGRVSVGSRPVGSPSLRV-DPKLVQIDGQPLDHPEGL 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----RVISVGRLDINTEGLLLLTNDGG 129 L LYHKP G V H +P +V+ + P+ +S + +VGRLD +T G+LL+T+DGG Sbjct: 65 YL-LYHKPRGKVCAHGEP---RSVYGDFPAAWSVRRPAINTVGRLDADTSGVLLVTDDGG 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNA 187 P R YRV + L L+ G ++ G+ L D + + Sbjct: 121 WLHRWTHPRRAVPRTYRVGLAEPITDGALAQLRSGKLLLA---GETSPCLPADVEVLAPR 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + LREG+ E++++ +V+ L R ++GPF++ L +GS R Sbjct: 178 HLRLTLREGRYHEVRRMLAALGNRVDTLHREAFGPFRVDDLPSGSWR 224 >gi|229520430|ref|ZP_04409855.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae TM 11079-80] gi|229342528|gb|EEO07521.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae TM 11079-80] Length = 244 Score = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 58/186 (31%), Positives = 94/186 (50%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL AER ++ L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LT Sbjct: 61 PLSPAER-KVILFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 118 NDGILQARLTQPQSKAPKTYWVQVEGSPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTL 177 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + L EG+NR+++++ + RLIR S G + LG L G Sbjct: 178 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 237 Query: 232 STREVS 237 REV+ Sbjct: 238 EWREVT 243 >gi|270308102|ref|YP_003330160.1| pseudouridine synthase, RsuA family [Dehalococcoides sp. VS] gi|270153994|gb|ACZ61832.1| pseudouridine synthase, RsuA family [Dehalococcoides sp. VS] Length = 249 Score = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 70/224 (31%), Positives = 112/224 (50%), Gaps = 5/224 (2%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLW 76 KV+ A + SRR++ I Q V +NG E + V D + +G P+ + R++ Sbjct: 13 KVLVEARLGSRRKMAEAIKQGLVTLNGQKAESYSQPVNTQQDKVTFEGKPVELSRIRRIY 72 Query: 77 LY-HKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP +V+T SD GR TV D L + + + VGRLD T GLLLLTNDG L Sbjct: 73 LMLNKPPEIVSTTSDELGRKTVMDLLHRRYEGAGLFPVGRLDEATTGLLLLTNDGELTNR 132 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS Q + Y + + Q L+KG+++ +++ T + + + + Sbjct: 133 LTHPSYQIEKEYLISIDAALTQADKESLEKGMLLDDGLTSPARLSRVTDEPPYNYKLI-I 191 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 EGK R ++++F +++ L R +LG L G TRE++ Sbjct: 192 HEGKKRIVRRMFAHLGYQIKALKRSRIATLRLGKLEEGKTRELT 235 >gi|153826036|ref|ZP_01978703.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-2] gi|149740256|gb|EDM54403.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-2] Length = 241 Score = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 58/186 (31%), Positives = 94/186 (50%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL AER ++ L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LT Sbjct: 58 PLSPAER-KVILFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILT 114 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 115 NDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTL 174 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + L EG+NR+++++ + RLIR S G + LG L G Sbjct: 175 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 234 Query: 232 STREVS 237 REV+ Sbjct: 235 EWREVT 240 >gi|153214245|ref|ZP_01949280.1| pseudouridine synthase family 1 protein [Vibrio cholerae 1587] gi|124115494|gb|EAY34314.1| pseudouridine synthase family 1 protein [Vibrio cholerae 1587] Length = 241 Score = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 58/186 (31%), Positives = 94/186 (50%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL AER ++ L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LT Sbjct: 58 PLSPAER-KVILFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILT 114 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 115 NDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTL 174 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + L EG+NR+++++ + RLIR S G + LG L G Sbjct: 175 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 234 Query: 232 STREVS 237 REV+ Sbjct: 235 EWREVT 240 >gi|150024420|ref|YP_001295246.1| pseudouridylate synthase [Flavobacterium psychrophilum JIP02/86] gi|149770961|emb|CAL42428.1| Pseudouridylate synthase [Flavobacterium psychrophilum JIP02/86] Length = 302 Score = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 65/221 (29%), Positives = 108/221 (48%), Gaps = 3/221 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G SRR+ + I VKVNGI + V D + DG L E+ Sbjct: 71 RLNKYISNSGACSRRDADIYIQSGNVKVNGIPVIEMGYMVKPGDVVNFDGSVLT-PEKKE 129 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP T + V + + S S++ +VGR+D NT GLLL TND + R Sbjct: 130 YILLNKPKNFTTAFDEGQENRNVLELVRGSTNSKIAAVGRMDKNTTGLLLFTNDTDMIRR 189 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LPS + ++Y+V + + L + KG+VI G +++ +K + + V + L Sbjct: 190 FSLPSQKSSKIYQVSLDKNLKFEDLEKISKGLVIDGHRVFVEEISY-IEKEAKSEVGLKL 248 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + ++ +FE F + V R+ R+S+ L G+ R Sbjct: 249 KTANVKVVRAIFESFKYDVLRIDRVSFAGLTKKNLPRGNWR 289 >gi|71281709|ref|YP_267665.1| RNA pseudouridine synthase family protein [Colwellia psychrerythraea 34H] gi|71147449|gb|AAZ27922.1| RNA pseudouridine synthase family protein [Colwellia psychrerythraea 34H] Length = 314 Score = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 65/229 (28%), Positives = 117/229 (51%), Gaps = 11/229 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRK 69 P+R++K I+ +G SRR ++MI RV +N + E V++ D ++VDG P+ Sbjct: 12 PKRLNKYISDSGFCSRRSADKMIEANRVTINDKVPE-LGTKVLAGDVVKVDGYDIAPISD 70 Query: 70 AERTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + R+++ Y+KPIG+ T ++ R + D + R+ +GRLD +EGL+ LT+DG Sbjct: 71 DKSDRIYIAYNKPIGITCT-TEKHVRGNIIDAIGH-KKRIFPIGRLDKPSEGLIFLTSDG 128 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y V + + + + +G+ I G V Q S Sbjct: 129 DIVNKILRAENAHDKEYIVTVDKPISERFIERMSRGVPILGTITKPCIV----QVKSRFE 184 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 T+ L +G NR+I+++ E+ +++V +L R +LG L G RE++ Sbjct: 185 FTIILTQGLNRQIRRMCEYLDYEVLKLKRSRIMKVELGDLTPGQWRELT 233 >gi|254291565|ref|ZP_04962355.1| pseudouridine synthase family 1 protein [Vibrio cholerae AM-19226] gi|150422517|gb|EDN14474.1| pseudouridine synthase family 1 protein [Vibrio cholerae AM-19226] Length = 241 Score = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 58/186 (31%), Positives = 94/186 (50%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL AER ++ L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LT Sbjct: 58 PLSPAER-KVILFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILT 114 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 115 NDGILQARLTRPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTL 174 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + L EG+NR+++++ + RLIR S G + LG L G Sbjct: 175 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 234 Query: 232 STREVS 237 REV+ Sbjct: 235 EWREVT 240 >gi|229515523|ref|ZP_04404982.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae TMA 21] gi|229347292|gb|EEO12252.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae TMA 21] Length = 244 Score = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 58/186 (31%), Positives = 94/186 (50%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL AER ++ L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LT Sbjct: 61 PLSPAER-KVVLFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 118 NDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTL 177 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + L EG+NR+++++ + RLIR S G + LG L G Sbjct: 178 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 237 Query: 232 STREVS 237 REV+ Sbjct: 238 EWREVT 243 >gi|170719828|ref|YP_001747516.1| pseudouridine synthase [Pseudomonas putida W619] gi|169757831|gb|ACA71147.1| pseudouridine synthase [Pseudomonas putida W619] Length = 209 Score = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 59/184 (32%), Positives = 97/184 (52%), Gaps = 20/184 (10%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 RL L++KP ++T SD DGR+T+ D ++PSI+ GRLD ++EGLLLLTNDGGL Sbjct: 30 PRLILFNKPFDVLTQFSDSDGRATLKDYIDIPSIYP----AGRLDRDSEGLLLLTNDGGL 85 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT-------- 181 + P + + Y V+ G+ + ++L L++G+ + G LD Sbjct: 86 QARIADPRHKLAKTYWVQVEGEPNDEQLKRLREGVELNDGPTLPAEARRLDEPELWPRNP 145 Query: 182 -----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + +W+ + +REG+NR+++++ RL+R+ G + L L G REV Sbjct: 146 PVRFRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWALDGLEQGCWREV 205 Query: 237 SKKI 240 K+ Sbjct: 206 PAKL 209 >gi|146299144|ref|YP_001193735.1| RNA-binding S4 domain-containing protein [Flavobacterium johnsoniae UW101] gi|146153562|gb|ABQ04416.1| ribosomal large subunit pseudouridine synthase B [Flavobacterium johnsoniae UW101] Length = 302 Score = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 61/221 (27%), Positives = 109/221 (49%), Gaps = 3/221 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G+ SRR+ + I VKVNG+ + V D + DGV L E+ Sbjct: 71 RLNKYISNSGVCSRRDADLYIQSGNVKVNGVPVTEMGYLVKLNDVVNFDGVTL-TPEKKE 129 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP T + V + + + +++ +GR+D NT GLLL TND + R Sbjct: 130 YILLNKPKNFTTALDEGQEYRNVLELVRAATNAKIAPIGRMDKNTTGLLLFTNDTDMIRK 189 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LP+ + ++Y+V + + L + KG+V+ G +++ +K + V + L Sbjct: 190 FSLPNQKSPKIYQVSLDKNLKFEDLEKISKGLVLDGHRVSVEEISY-IEKEPKSEVGLKL 248 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 R + ++ +FE F++ V R+ R+S+ L G+ R Sbjct: 249 RSSNVKVVRAIFENFDYNVLRIDRVSFAGLTKKNLPRGNWR 289 >gi|153001970|ref|YP_001367651.1| pseudouridine synthase [Shewanella baltica OS185] gi|151366588|gb|ABS09588.1| pseudouridine synthase [Shewanella baltica OS185] Length = 242 Score = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/236 (30%), Positives = 117/236 (49%), Gaps = 15/236 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLE-----RAAVNVMSTDHIEVDGVPLRK 69 R++K +A+ GI SRRE R+I R+ +NG + R ++ D+IE+DG P+ K Sbjct: 2 RLAKYLAQCGIGSRREACRLIEAGRITLNGHIARHTDPVRLGESLNCLDNIELDGAPITK 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E W+ +K +G + D +++ LP R+ VGRLD ++ GLLLLTNDG Sbjct: 62 TETLAYWVLNKAVGTDCRLLEQD-ETSLIHLLPKA-PRLYPVGRLDKDSRGLLLLTNDGE 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNA 187 L L PS + Y V + + + + G+ Y D+Q TL Q + S+ Sbjct: 120 LTHKLMHPSFAHSKTYHVHLNRPFTDEFVEQMASGVR-----YKDVQ-TLPCQVRRLSSD 173 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ + ++V L R++ L L G +E + L E Sbjct: 174 SFEIVLTQGLNRQIRRMSKALGYRVIDLERVAIMTLNLRELALGELQEGQMRRLTE 229 >gi|322388650|ref|ZP_08062250.1| ribosomal small subunit pseudouridine synthase A [Streptococcus infantis ATCC 700779] gi|321140570|gb|EFX36075.1| ribosomal small subunit pseudouridine synthase A [Streptococcus infantis ATCC 700779] Length = 240 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 76/235 (32%), Positives = 116/235 (49%), Gaps = 12/235 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ + RV VNG + A + + TD I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNFLKSGRVTVNGKKEKSAKLQIDEETDEICFDGQKLDYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP + TV D L ++R V VGRLDI+T GLLLLTNDG L Sbjct: 62 -YYMMNKPQGVISATEDPKHK-TVLDLLDD-YARAKEVFPVGRLDIDTHGLLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNA 187 A L P + Y + G + + KGI ++ + V++DT+K + Sbjct: 119 AHALLSPKRHVDKTYLAQVKGIMTDTDVETFAKGIPLKDFTCQPAKLELVSIDTEK-DQS 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 V V + EGK ++K++ + +V L R++ G L L G R +SK+ L Sbjct: 178 LVRVTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTLTLDEDLKRGEWRRLSKEEL 232 >gi|293400568|ref|ZP_06644713.1| ribosomal small subunit pseudouridine synthase A [Erysipelotrichaceae bacterium 5_2_54FAA] gi|291305594|gb|EFE46838.1| ribosomal small subunit pseudouridine synthase A [Erysipelotrichaceae bacterium 5_2_54FAA] Length = 232 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 62/215 (28%), Positives = 112/215 (52%), Gaps = 12/215 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K ++ AG+ +R+EV+++I ++ V+VNG L+ + ++V D +++DG + Sbjct: 2 RLDKYLSHAGVGTRKEVKQLIRKKHVRVNGELVVKDDMHVEEDDLVQLDGEHIYYEPFVY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLARV 133 L L +KP G++ D + TV D + + VGRLD++TEGL+L++NDG LA Sbjct: 62 LML-NKPSGVICATQDSE-HETVLDCFDVMLPKGCFPVGRLDMDTEGLVLISNDGKLAHH 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V +D+ + L G +I + + ++V +T Sbjct: 120 LLSPKHHVRKTYYVEHQLCLDETAIKTLCNGSIILDEKTVLCAALEVINETS------CF 173 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + EG+ +IK++F +V L R++ GP +L Sbjct: 174 FHIEEGRYHQIKRMFSAVGNEVLYLKRVAMGPLRL 208 >gi|118479700|ref|YP_896851.1| pseudouridylate synthase [Bacillus thuringiensis str. Al Hakam] gi|196044919|ref|ZP_03112153.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB108] gi|225866524|ref|YP_002751902.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB102] gi|229186804|ref|ZP_04313959.1| RNA pseudouridine synthase [Bacillus cereus BGSC 6E1] gi|118418925|gb|ABK87344.1| pseudouridylate synthase [Bacillus thuringiensis str. Al Hakam] gi|196024407|gb|EDX63080.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB108] gi|225789275|gb|ACO29492.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB102] gi|228596541|gb|EEK54206.1| RNA pseudouridine synthase [Bacillus cereus BGSC 6E1] Length = 229 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 118/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEANSCSRRETDRLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D D + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAADHIDDNIIEYINYPE---RIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFMNEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|254418210|ref|ZP_05031934.1| conserved hypothetical protein, putative [Brevundimonas sp. BAL3] gi|196184387|gb|EDX79363.1| conserved hypothetical protein, putative [Brevundimonas sp. BAL3] Length = 259 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 65/238 (27%), Positives = 118/238 (49%), Gaps = 16/238 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P RV+K + + G+ SRRE E +IA+ V ++G + A + + ++ + Sbjct: 12 PVRVNKWLGQTGVCSRREAESLIAEGLVSIDGETISDAGRKIEPGQTLTLNDTAQQALAS 71 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV----------FDNLPSIFSRVISVGRLDINTEGLL 122 + HKP+G V+ DP V P+ + + +GRLD ++ GLL Sbjct: 72 GMTLVLHKPVGYVSGQPDPGKIPAVRLLKIPNRIGEGETPARDASLPPIGRLDEDSRGLL 131 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDT 181 LL++DG +A+ + P+++ + Y V G + + KL+ L+ G+V+ +VT ++ Sbjct: 132 LLSSDGVVAKAVIGPASELDKEYLVVVDGVITEAKLSRLRHGLVLNDKPLKPARVTQIEP 191 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 Q+ + L EGK R+I+++ E +V L RI GP ++G L G R ++ + Sbjct: 192 QR-----LRFVLTEGKYRQIRRMCELVGLEVVDLYRIRIGPLEIGDLPEGRWRHLTDQ 244 >gi|30022777|ref|NP_834408.1| ribosomal small subunit pseudouridine synthase A [Bacillus cereus ATCC 14579] gi|206969480|ref|ZP_03230434.1| RNA pseudouridine synthase family protein [Bacillus cereus AH1134] gi|218233459|ref|YP_002369504.1| RNA pseudouridine synthase family protein [Bacillus cereus B4264] gi|228923463|ref|ZP_04086748.1| Pseudouridine synthase [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228954985|ref|ZP_04117002.1| Pseudouridine synthase [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228960980|ref|ZP_04122610.1| Pseudouridine synthase [Bacillus thuringiensis serovar pakistani str. T13001] gi|229048415|ref|ZP_04193982.1| Pseudouridine synthase [Bacillus cereus AH676] gi|229072210|ref|ZP_04205418.1| Pseudouridine synthase [Bacillus cereus F65185] gi|229081964|ref|ZP_04214455.1| Pseudouridine synthase [Bacillus cereus Rock4-2] gi|229129987|ref|ZP_04258951.1| Pseudouridine synthase [Bacillus cereus BDRD-Cer4] gi|229147277|ref|ZP_04275628.1| Pseudouridine synthase [Bacillus cereus BDRD-ST24] gi|229152907|ref|ZP_04281089.1| Pseudouridine synthase [Bacillus cereus m1550] gi|229181024|ref|ZP_04308359.1| Pseudouridine synthase [Bacillus cereus 172560W] gi|229192993|ref|ZP_04319949.1| Pseudouridine synthase [Bacillus cereus ATCC 10876] gi|296505173|ref|YP_003666873.1| ribosomal small subunit pseudouridine synthase A [Bacillus thuringiensis BMB171] gi|29898336|gb|AAP11609.1| Ribosomal small subunit pseudouridine synthase A [Bacillus cereus ATCC 14579] gi|206735168|gb|EDZ52336.1| RNA pseudouridine synthase family protein [Bacillus cereus AH1134] gi|218161416|gb|ACK61408.1| RNA pseudouridine synthase family protein [Bacillus cereus B4264] gi|228590440|gb|EEK48303.1| Pseudouridine synthase [Bacillus cereus ATCC 10876] gi|228602581|gb|EEK60067.1| Pseudouridine synthase [Bacillus cereus 172560W] gi|228630520|gb|EEK87167.1| Pseudouridine synthase [Bacillus cereus m1550] gi|228636178|gb|EEK92657.1| Pseudouridine synthase [Bacillus cereus BDRD-ST24] gi|228653431|gb|EEL09305.1| Pseudouridine synthase [Bacillus cereus BDRD-Cer4] gi|228701341|gb|EEL53836.1| Pseudouridine synthase [Bacillus cereus Rock4-2] gi|228710948|gb|EEL62915.1| Pseudouridine synthase [Bacillus cereus F65185] gi|228722930|gb|EEL74308.1| Pseudouridine synthase [Bacillus cereus AH676] gi|228798697|gb|EEM45680.1| Pseudouridine synthase [Bacillus thuringiensis serovar pakistani str. T13001] gi|228804712|gb|EEM51314.1| Pseudouridine synthase [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228836189|gb|EEM81545.1| Pseudouridine synthase [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|296326225|gb|ADH09153.1| ribosomal small subunit pseudouridine synthase A [Bacillus thuringiensis BMB171] Length = 242 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 115/229 (50%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++G ++ A V+V + + + G + E Sbjct: 2 RLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF VGRLDI+TEG LL+TNDG L Sbjct: 62 YLMM-HKPQGVISATED-DNHETVIDLLELEDAIFDP-FPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + L P + Y G V ++ + KG+++ Y L K + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGALTILKSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELT 226 >gi|254494897|ref|ZP_01052309.2| ribosomal large subunit pseudouridine synthase B [Polaribacter sp. MED152] gi|213690479|gb|EAQ41737.2| ribosomal large subunit pseudouridine synthase B [Polaribacter sp. MED152] Length = 302 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 67/232 (28%), Positives = 117/232 (50%), Gaps = 15/232 (6%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K I+ +GI SRRE E+ I + RV +NG + V D +++DG ++ + T Sbjct: 17 LNKYISSSGICSRREAEKFIKEGRVTLNGKATQLGN-RVTKKDVVKLDGRVVKPKDVTIY 75 Query: 76 WLYHKPIGLVTTHSDPDGRS----TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP+G+V+T DGR N P R+ +GRLD +EGL+ LTNDG + Sbjct: 76 IALNKPVGIVST---TDGREPNNIVKHINYPE---RLFPIGRLDKPSEGLIFLTNDGDIV 129 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + + +D + + GI I G V +K ++ + Sbjct: 130 NKILRAGNNHEKEYFVTVNKSITEDFIEKMGNGIPILGTVTQKCLV----EKVNDKIFKI 185 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 L +G NR+I+++ E+ +++V +L R +LG L G RE++++ + E Sbjct: 186 ILTQGLNRQIRRMCEYLDYEVTKLKRTRIMNVELGYLQTGDWRELTEEEMNE 237 >gi|294942120|ref|XP_002783386.1| pseudouridine synthase, putative [Perkinsus marinus ATCC 50983] gi|239895841|gb|EER15182.1| pseudouridine synthase, putative [Perkinsus marinus ATCC 50983] Length = 267 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 73/216 (33%), Positives = 105/216 (48%), Gaps = 17/216 (7%) Query: 25 IASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIG 83 I + E R+I + R+ +NG +++ VNV D I V+G PL R L L HKP G Sbjct: 3 IPTGTEAGRLIERGRISINGRPIVQNRWVNV-HKDSILVNGTPLEATCRLTL-LMHKPAG 60 Query: 84 LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 V + DP R TVF LP + + GRLD +T GLLLLTND L L P + + Sbjct: 61 YVVSRDDPLNRDTVFQLLPDPSVYIGASGRLDKDTTGLLLLTNDTYLQSSLVDPVYKVPK 120 Query: 144 VYRVRFHG-QVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT------------QKGSNAWV 189 VYRV G ++ +L L+ G+ ++ G + LD + + Sbjct: 121 VYRVVVKGAALNGAQLMALRSGVSLEDGPTLPALVEPLDVNGDPLPLEMSEYDRYKCKQL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + L EG+NR+++++ E V L RI GPF L Sbjct: 181 NITLWEGRNRQVRRMVEAVGSTVRDLCRIQLGPFSL 216 >gi|218899863|ref|YP_002448274.1| RNA pseudouridine synthase family protein [Bacillus cereus G9842] gi|228910563|ref|ZP_04074377.1| Pseudouridine synthase [Bacillus thuringiensis IBL 200] gi|228941890|ref|ZP_04104435.1| Pseudouridine synthase [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228974817|ref|ZP_04135381.1| Pseudouridine synthase [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228981409|ref|ZP_04141709.1| Pseudouridine synthase [Bacillus thuringiensis Bt407] gi|218544778|gb|ACK97172.1| RNA pseudouridine synthase family protein [Bacillus cereus G9842] gi|228778609|gb|EEM26876.1| Pseudouridine synthase [Bacillus thuringiensis Bt407] gi|228784915|gb|EEM32930.1| Pseudouridine synthase [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228817795|gb|EEM63875.1| Pseudouridine synthase [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228849127|gb|EEM93967.1| Pseudouridine synthase [Bacillus thuringiensis IBL 200] gi|326942491|gb|AEA18387.1| ribosomal small subunit pseudouridine synthase A [Bacillus thuringiensis serovar chinensis CT-43] Length = 242 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 115/229 (50%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++G ++ A V+V + + + G + E Sbjct: 2 RLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF VGRLDI+TEG LL+TNDG L Sbjct: 62 YLMM-HKPQGVISATED-DNHETVIDLLELEDAIFDP-FPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + L P + Y G V ++ + KG+++ Y L K + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGALTILKSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELT 226 >gi|229163701|ref|ZP_04291648.1| Pseudouridine synthase [Bacillus cereus R309803] gi|228619763|gb|EEK76642.1| Pseudouridine synthase [Bacillus cereus R309803] Length = 242 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 115/229 (50%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++G ++ A V+V + + + G + E Sbjct: 2 RLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF VGRLDI+TEG LL+TNDG L Sbjct: 62 YLMM-HKPQGVISATED-DNHETVIDLLELEDAIFDP-FPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + L P + Y G V ++ + KG+++ Y L K + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGVLTILKSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELT 226 >gi|77408873|ref|ZP_00785599.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae COH1] gi|77172512|gb|EAO75655.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae COH1] Length = 239 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 62/215 (28%), Positives = 115/215 (53%), Gaps = 6/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K++ +AG SR +V+++I ++V V+G ++ + V V S G + + Sbjct: 2 RLDKLLGQAGFGSRNQVKKLIRSRQVSVDGQIVTKDNVIVDSGLQSIFVGKERVCLKESS 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+V+ D + ++ + +L S +V +GRLD +TEGLL++TN+G L Sbjct: 62 YYLLYKPSGVVSAVRDSEHKTVI--DLISEKDKVEGLYPIGRLDRDTEGLLIITNNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + P + Y V +G +++D + ++G+V G ++T+DT + Sbjct: 120 YRMLHPKHHVAKTYYVEVNGFLERDAITFFEEGVVFDDGTKCKPAELTIDTANNDKSTAR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK ++KK+F + KV L RIS+G +L Sbjct: 180 ITITEGKFHQVKKMFLAYGVKVIYLRRISFGDLRL 214 >gi|327483844|gb|AEA78251.1| Ribosomal large subunit pseudouridine synthase E LSU Psi2457 [Vibrio cholerae LMA3894-4] Length = 241 Score = 90.5 bits (223), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 57/186 (30%), Positives = 95/186 (51%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL AER ++ L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LT Sbjct: 58 PLSPAER-KVILFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILT 114 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G + L L+ G++++ +V + + Sbjct: 115 NDGILQARLTQPQSKAPKTYWVQVEGSPQESDLEALRHGVILKDGPTLPAKVDIMPEPTL 174 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + L EG+NR+++++ + RLIR S G + LG L G Sbjct: 175 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 234 Query: 232 STREVS 237 +EV+ Sbjct: 235 EWQEVT 240 >gi|323350518|ref|ZP_08086180.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis VMC66] gi|322123200|gb|EFX94885.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis VMC66] Length = 242 Score = 90.5 bits (223), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 71/222 (31%), Positives = 111/222 (50%), Gaps = 9/222 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A G+ SR +V++++ + V VNG + + + T D I V G L E+ Sbjct: 2 RLDKFLAENGLGSRAQVKQLLKKGLVLVNGRVEKSPKTQIDETADEIIVSGQRL-TYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATED-DRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P ++YR + G + Q ++ GI ++ Q + LD K + Sbjct: 120 HAMLSPKKHVEKIYRAQVAGLMKQADVDRFAAGIELKDFTCQPAQLKVLELDEAK-ETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + L EGK ++K++ +V L R++ GP QL +A Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDPAVA 220 >gi|306831693|ref|ZP_07464850.1| ribosomal small subunit pseudouridine synthase A [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|304426118|gb|EFM29233.1| ribosomal small subunit pseudouridine synthase A [Streptococcus gallolyticus subsp. gallolyticus TX20005] Length = 253 Score = 90.5 bits (223), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/221 (31%), Positives = 109/221 (49%), Gaps = 7/221 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + AGI SR EV++++ +++V VNG + + D I G L E+ Sbjct: 13 RLDKFLVEAGIGSRTEVKQLLKKKQVLVNGKVEISPKTQIDEKADRISCQGQTL-SYEKY 71 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ D + TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 72 VYYMLNKPKGVISATED-NHHKTVLDLLDKTAWDKEVFPVGRLDIDTHGLLLLTNNGKLA 130 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGS-NAWV 189 + P + YR + G + + GI ++ C V L+T + + V Sbjct: 131 HAMLSPKKHVDKTYRAKVAGLMTTADVAAFANGIDLKDFTCQPAQLVILETNEAERTSVV 190 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + ++EGK ++K++ + KV L R+S P QL LA Sbjct: 191 EITIKEGKFHQVKRMVQACGKKVTDLQRLSMVPLQLDKQLA 231 >gi|325978633|ref|YP_004288349.1| ribosomal small subunit pseudouridine synthase A [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] gi|325178561|emb|CBZ48605.1| ribosomal small subunit pseudouridine synthase A [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] Length = 242 Score = 90.5 bits (223), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/221 (31%), Positives = 109/221 (49%), Gaps = 7/221 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + AGI SR EV++++ +++V VNG + + D I G L E+ Sbjct: 2 RLDKFLVEAGIGSRTEVKQLLKKKQVLVNGKVEISPKTQIDEKADRISCQGQTL-SYEKY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ D + TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYMLNKPKGVISATED-NHHKTVLDLLDKTAWDKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGS-NAWV 189 + P + YR + G + + GI ++ C V L+T + + V Sbjct: 120 HAMLSPKKHVDKTYRAKVAGLMTTADVAAFANGIDLKDFTCQPAQLVILETNEAERTSVV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + ++EGK ++K++ + KV L R+S P QL LA Sbjct: 180 EITIKEGKFHQVKRMVQACGKKVTDLQRLSMVPLQLDKQLA 220 >gi|262275813|ref|ZP_06053622.1| ribosomal small subunit pseudouridine synthase A [Grimontia hollisae CIP 101886] gi|262219621|gb|EEY70937.1| ribosomal small subunit pseudouridine synthase A [Grimontia hollisae CIP 101886] Length = 234 Score = 90.5 bits (223), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/229 (30%), Positives = 115/229 (50%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + +R++ +++ ++RV V+G +++ A+ + +E DG+ LR A R Sbjct: 3 RLDKFLCETVGVTRKQAAKILKEERVTVDGNIIKNGAIKIAEEADVEFDGMSLRLA-GPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V +H DP TVF L I + + + GRLD +T GLLLLT+DG + Sbjct: 62 YYMMNKPAGYVCSHDDP-YNPTVFVLLDEIGAEKLHIAGRLDCDTTGLLLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTV 191 + P + +VYRV V + +GI ++ G+ TL Q+ V + Sbjct: 121 VTSPKHKCDKVYRVWLDDPVSPETEQCFAEGIKLR----GERTETLPAQMQRVGEKEVLL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVSKK 239 + EGK ++K++F KV L R S G L L G RE++ + Sbjct: 177 TIHEGKYHQVKRMFAAVGNKVVGLHRESVGGLVLDEALEPGEYRELTDE 225 >gi|304384543|ref|ZP_07366889.1| ribosomal small subunit pseudouridine synthase A [Pediococcus acidilactici DSM 20284] gi|304328737|gb|EFL95957.1| ribosomal small subunit pseudouridine synthase A [Pediococcus acidilactici DSM 20284] Length = 239 Score = 90.5 bits (223), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/230 (30%), Positives = 116/230 (50%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 RV K + + +R ++ ++I ++ V VN ++ + V V D + + G + ++ Sbjct: 2 RVDKFLHDMNVGTRSQIRKLIKEKAVFVNDVVAKSGRVKVDPVVDQVRL-GEQVITYQQY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP+G+VT D + TV D + R + VGRLD +TEGLLL+TN+G LA Sbjct: 61 FYFMMNKPLGVVTATEDRK-QKTVMDLFNKVDFRKDLFPVGRLDKDTEGLLLITNNGPLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAW 188 L P + Y GQ+ + GIV++ + D+ + + Sbjct: 120 HQLLAPERHVQKTYEAVVTGQITDPAVKQFADGIVLKDGTQLKPADLTILNYSALDEQTL 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 V V L+EGK +++++F +V L RIS+GP QL LL G+ RE+S Sbjct: 180 VHVTLKEGKYHQVRRMFGSLGERVVSLKRISFGPLQLEEGLLPGTYRELS 229 >gi|325983703|ref|YP_004296105.1| pseudouridine synthase Rsu [Nitrosomonas sp. AL212] gi|325533222|gb|ADZ27943.1| pseudouridine synthase Rsu [Nitrosomonas sp. AL212] Length = 246 Score = 90.5 bits (223), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 111/238 (46%), Gaps = 22/238 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ G+ SRRE +R I V V+G + + T I+++ + Sbjct: 5 RLSKLMSEQGLCSRREADRYIELGWVFVDGEQISELGTKIYPTQKIKLNKAAQAQQISLV 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF----DNL--------------PSIFSRVISVGRLDI 116 L +KP+G V+ +P R + +N PS + GRLDI Sbjct: 65 TILLNKPVGYVSGQPEPGYRPAIVLIKPENQFIPKQPAQPNKRFQPSHLKNLAPAGRLDI 124 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +++GLL+LT DG +A+ + + + Y VR G + ++KL LL G+ + G Sbjct: 125 DSQGLLVLTQDGRIAKQMIGEDSNIEKEYLVRVEGVLPREKLALLNHGLSLDGQPLKPAN 184 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 VT Q + L+EGK R+I+++ E N KV L R+ G +LG L G R Sbjct: 185 VTWQNQD----QLRFILQEGKKRQIRRMCELVNLKVTGLKRVRIGKVKLGNLPEGQWR 238 >gi|293364698|ref|ZP_06611415.1| ribosomal small subunit pseudouridine synthase A [Streptococcus oralis ATCC 35037] gi|307702946|ref|ZP_07639893.1| putative ribosomal large subunit pseudouridine synthase B [Streptococcus oralis ATCC 35037] gi|291316148|gb|EFE56584.1| ribosomal small subunit pseudouridine synthase A [Streptococcus oralis ATCC 35037] gi|307623339|gb|EFO02329.1| putative ribosomal large subunit pseudouridine synthase B [Streptococcus oralis ATCC 35037] Length = 240 Score = 90.5 bits (223), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 73/234 (31%), Positives = 117/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ D R TV D L + V VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYMMNKPQGVISATEDSKHR-TVLDLLDDVARSKGVFPVGRLDIDTHGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 L P + Y + G + Q+ + KGI ++ + +++DT+K + + Sbjct: 120 HALLSPKRHVDKTYLAQVKGIMSQEDVETFAKGIPLKDFTCQPARLEIISIDTEK-NQSK 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + V + EGK ++K++ + +V L R++ G LG L G R ++K+ L Sbjct: 179 IRVTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTLALGENLERGEWRRLTKEEL 232 >gi|251773013|gb|EES53569.1| pseudouridine synthase [Leptospirillum ferrodiazotrophum] Length = 237 Score = 90.5 bits (223), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 56/167 (33%), Positives = 87/167 (52%), Gaps = 6/167 (3%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G++ T SDP+GR V D L F R+ +GRLD + GLLLLTN Sbjct: 54 NKPRGVLVTLSDPEGRPVVGDFLRRTPWSDGSFGRIRPLGRLDAASAGLLLLTNYQEPWS 113 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P R YRV+ + + L G +G Y ++V ++ + ++W+ + Sbjct: 114 HFLSPEGGVRRRYRVKIRPGLRAEDRKLFLSGKAGEGAGYRRVEVEIEREGPKSSWLLIS 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L EG+NREI+ V + ++V LIR+++GPF LG L G V+++ Sbjct: 174 LVEGRNREIRNVLTYHGYEVLHLIRLAFGPFLLGDLKPGEVSSVTEE 220 >gi|302382584|ref|YP_003818407.1| RNA-binding S4 domain protein [Brevundimonas subvibrioides ATCC 15264] gi|302193212|gb|ADL00784.1| RNA-binding S4 domain protein [Brevundimonas subvibrioides ATCC 15264] Length = 251 Score = 90.5 bits (223), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 64/237 (27%), Positives = 116/237 (48%), Gaps = 14/237 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K + ++G+ SRRE + +IA V ++G ++ A + + + Sbjct: 12 PSRINKWLGQSGVCSRREADALIADGLVSIDGEVVTDAGRKIEPGQTLTLSDRAETALAA 71 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV----------FDNLPSIFSRVISVGRLDINTEGLL 122 + HKP+G V+ +PD V P+ + + +GRLD ++ GLL Sbjct: 72 GITIVMHKPLGYVSGQPEPDKVPAVRLLTEANRIGPGTAPAADASLPPIGRLDEDSRGLL 131 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LL+ DG +A+ + P + + Y VR G V + KL +L+ GI++ G V+ Sbjct: 132 LLSADGVVAKAVIGPDSDLDKEYLVRVVGDVTEKKLKILRHGIMLDGRQLRPAYVS---- 187 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + + LREG+NR+I+++ + +V LIR+ GP +L L G R ++ + Sbjct: 188 RMESFRLKFILREGRNRQIRRMCAMVDLEVVDLIRVRIGPLKLDNLPEGHWRMLTAE 244 >gi|258621029|ref|ZP_05716063.1| Ribosomal large subunit pseudouridine synthase F [Vibrio mimicus VM573] gi|258586417|gb|EEW11132.1| Ribosomal large subunit pseudouridine synthase F [Vibrio mimicus VM573] Length = 332 Score = 90.5 bits (223), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 111/233 (47%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +++I Q RV +NG E V D + +DG PLR ER Sbjct: 7 KRLNKFISETGFCSRREADKLIEQGRVTLNGAQPE-VGSKVTEQDEVCIDGKPLRSKERP 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 66 IYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIVNK 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + + + + G+ I +VT +TQ +T GL Sbjct: 124 ILRAGNNHEKEYVVRVDKPITPEFIRQMASGVNILDTVTLPCKVTQETQYSFRIVLTQGL 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 184 ----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVNEILA 232 >gi|312865980|ref|ZP_07726201.1| putative 16S pseudouridylate 516 synthase [Streptococcus downei F0415] gi|311098384|gb|EFQ56607.1| putative 16S pseudouridylate 516 synthase [Streptococcus downei F0415] Length = 242 Score = 90.5 bits (223), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 73/241 (30%), Positives = 120/241 (49%), Gaps = 8/241 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR +V+ ++ ++ V+VNG + + D + + G L K E Sbjct: 2 RLDKFLVDCTVGSRSQVKAILKKKEVQVNGQIESSPKRQIDEKKDRVTLAG-QLLKHETF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+V+ D TV D L P+ +V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVVSATEDSQ-HQTVLDLLDEPAHQKQVFPVGRLDIDTTGLLLLTNNGPLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICY-GDMQVTLDTQKGSNAWV 189 + P +VY+ + G + + + +GI ++ +C +Q+ Q + V Sbjct: 120 HAMLSPKKHVAKVYQAKVEGLMTDEDVVAFGQGIRLKDFVCRPAQLQILESDQAQGSCLV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPH 248 + + EGK ++K++ KV L RIS GP L L+ G R +S + L + G H Sbjct: 180 QIEIAEGKFHQVKRMVASRGKKVLELKRISMGPLHLPHDLSEGHYRRLSAQELADLSGFH 239 Query: 249 L 249 + Sbjct: 240 V 240 >gi|299535393|ref|ZP_07048715.1| putative RNA pseudouridine synthase ytzF [Lysinibacillus fusiformis ZC1] gi|298729154|gb|EFI69707.1| putative RNA pseudouridine synthase ytzF [Lysinibacillus fusiformis ZC1] Length = 237 Score = 90.5 bits (223), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 76/235 (32%), Positives = 120/235 (51%), Gaps = 10/235 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 R+ K++A G SR+EV++++ Q+ V V+G ++ AA++V I V G + E Sbjct: 2 RLDKLLANMGYGSRKEVKQLLKQKAVTVDGAYVKDAALHVDPEQQIVSVFGERVVYTEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ D TV D L + VGRLD +TEGLLLLTNDG LA Sbjct: 62 -YFIMNKPPGVISATEDLRDE-TVIDLLEPLHQHFQPFPVGRLDKDTEGLLLLTNDGHLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWV 189 L P +VY + G V ++ GI + + V L + + S + Sbjct: 120 HNLLSPKKHVPKVYYAQIEGVVTEEDAEKFANGIELDDGYVTKPGKLVILKSAQQSEIEL 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILRE 243 T+ +EGK ++K++FE +V L RIS G +L LA G RE++ + L + Sbjct: 180 TI--QEGKFHQVKRMFEAVGKRVTYLKRISMGSLKLDENLALGEYRELTAEELND 232 >gi|255528344|ref|ZP_05395151.1| pseudouridine synthase [Clostridium carboxidivorans P7] gi|296188339|ref|ZP_06856731.1| pseudouridine synthase [Clostridium carboxidivorans P7] gi|255507968|gb|EET84401.1| pseudouridine synthase [Clostridium carboxidivorans P7] gi|296047465|gb|EFG86907.1| pseudouridine synthase [Clostridium carboxidivorans P7] Length = 258 Score = 90.5 bits (223), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/233 (29%), Positives = 118/233 (50%), Gaps = 11/233 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 EN R++K I+ GI SRRE + +I ++RV +NGI E + V STD +++DG L Sbjct: 9 NENSDSMRINKFISEKGICSRREADTLIQEKRVTINGITAELGS-RVKSTDEVKLDGKLL 67 Query: 68 RKAER-TRLWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLL 124 + E+ ++++ +KP+G++ T + V F N P R+ +GRLD ++EGL+ L Sbjct: 68 TEKEKDDKVYIALNKPVGIICTTEKKIKNNIVDFVNYP---KRIFHIGRLDKDSEGLIFL 124 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG + + + Y V + L + G+ I +V ++G Sbjct: 125 TNDGDIVNKILRAGNNHEKEYIVTVDKCITNSFLKEMASGVSILNTVTKPCKV---YKEG 181 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 S+ + + L +G NR+I+++ E + V +L RI L + G R +S Sbjct: 182 SHIFRII-LTQGLNRQIRRMCEALGYNVLKLKRIRIMNVTLKDIPVGKWRYLS 233 >gi|229529771|ref|ZP_04419161.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae 12129(1)] gi|229333545|gb|EEN99031.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae 12129(1)] Length = 244 Score = 90.5 bits (223), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 57/186 (30%), Positives = 95/186 (51%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL AER ++ L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LT Sbjct: 61 PLSPAER-KVILFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G + L L+ G++++ +V + + Sbjct: 118 NDGILQARLTQPQSKAPKTYWVQVEGSPQESDLEALRHGVILKDGPTLPAKVDIMPEPTL 177 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + L EG+NR+++++ + RLIR S G + LG L G Sbjct: 178 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 237 Query: 232 STREVS 237 +EV+ Sbjct: 238 EWQEVT 243 >gi|222153299|ref|YP_002562476.1| ribosomal small subunit pseudouridine synthase B [Streptococcus uberis 0140J] gi|222114112|emb|CAR42564.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus uberis 0140J] Length = 239 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 78/238 (32%), Positives = 117/238 (49%), Gaps = 8/238 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K + AGI SR +V+ ++ ++ V VNG +A + + + D + G L E Sbjct: 2 RLDKFLVEAGIGSRTQVKSILKKKEVFVNGKPESQAKLQIKPNQDQVSFGGQVLV-YEEF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+V+ D TV D L R V VGRLD +T GLLLLTNDG LA Sbjct: 61 LYYLLNKPQGVVSATEDK-VHQTVLDLLDDTARRKSVFPVGRLDKDTHGLLLLTNDGELA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICY-GDMQVTLDTQKGSNAWV 189 L P +VY R G + + + KGI + C +Q+ + + V Sbjct: 120 HRLLSPKKHVDKVYMARVDGIMTEQDVEAFAKGITLSDHQCLPAQLQIEEVDVERTCCKV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLG 246 + +REGK +IK++ +V L RIS GP QL LA G+ R +++ ++ L Sbjct: 180 RITIREGKFHQIKRMVLACGKEVTDLQRISMGPIQLDDSLALGAFRRLNETEMKALLA 237 >gi|332993044|gb|AEF03099.1| RNA pseudouridine synthase family protein [Alteromonas sp. SN2] Length = 246 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/235 (29%), Positives = 122/235 (51%), Gaps = 13/235 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-----VPLR 68 +R++K I+ G+ SRRE +++I Q RV +N L E V D ++VDG V Sbjct: 7 KRLNKYISDTGLCSRREADKLIEQNRVTINDKLPE-LGTKVAQGDKVKVDGKLVKAVAED 65 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 K++R L +Y+KPIG+ T ++ + + D + R+ VGRLD +EGL++LT+DG Sbjct: 66 KSDRIYL-VYNKPIGITCT-TERHVKGNIIDAIKH-KQRIFPVGRLDKPSEGLIILTSDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y V + + + + + KG+ I G +V +G + Sbjct: 123 DIVNKILRAENSHDKEYEVTVNQPISERFVQKMAKGVPILGTVTKPCKV---NARGKFQF 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 ++ L +G NR+I+++ EF ++V +L R +LG L G R +++K L + Sbjct: 180 -SIILTQGLNRQIRRMCEFLGYEVTKLKRTRIMHLELGNLKPGQWRNLTEKELNQ 233 >gi|187918008|ref|YP_001883571.1| ribosomal large subunit pseudouridine synthase B [Borrelia hermsii DAH] gi|119860856|gb|AAX16651.1| ribosomal large subunit pseudouridine synthase B [Borrelia hermsii DAH] Length = 253 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 75/228 (32%), Positives = 111/228 (48%), Gaps = 10/228 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLR--KA 70 R +A G+ SRR E +I + VK+NG L + V D +E LR K Sbjct: 10 RAHVFLAEKGMGSRRFCEELIRKNLVKINGTL-AKLGDKVFLGDRVEYRRQVFVLRDLKI 68 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGG 129 E HKP + ++ DP+GR + +F R+ S+GRLD + GLLL TNDG Sbjct: 69 ESKIYIALHKPKNYLCSNFDPEGRKLAISLVQPLFKERLFSIGRLDFKSSGLLLFTNDGQ 128 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P ++ + Y V V++D L K GI I+ + ++ G+N+ V Sbjct: 129 FANSIVHPRSEVEKEYIVESKKDVNEDLLINFKHGIKIEREIF---KLKSYEMLGNNS-V 184 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L EGKNREI+KVF N + ++ RI G +L L G + +S Sbjct: 185 KLVLTEGKNREIRKVFLSKNIFLKKVHRIRIGNIKLDNLKEGQIKVLS 232 >gi|262166303|ref|ZP_06034040.1| ribosomal large subunit pseudouridine synthase F [Vibrio mimicus VM223] gi|262026019|gb|EEY44687.1| ribosomal large subunit pseudouridine synthase F [Vibrio mimicus VM223] Length = 332 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 111/233 (47%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +++I Q RV +NG E V D + +DG PLR ER Sbjct: 7 KRLNKFISETGFCSRREADKLIEQGRVTLNGAQPE-VGSKVTEQDEVCIDGKPLRSKERP 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 66 IYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIVNK 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + + + + G+ I +VT +TQ +T GL Sbjct: 124 ILRAGNNHEKEYVVRVDKPITPEFIRQMASGVNILDTVTLPCKVTQETQYSFRIVLTQGL 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 184 ----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVNEILA 232 >gi|30022627|ref|NP_834258.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 14579] gi|229112015|ref|ZP_04241558.1| RNA pseudouridine synthase [Bacillus cereus Rock1-15] gi|229129835|ref|ZP_04258801.1| RNA pseudouridine synthase [Bacillus cereus BDRD-Cer4] gi|229147110|ref|ZP_04275469.1| RNA pseudouridine synthase [Bacillus cereus BDRD-ST24] gi|29898185|gb|AAP11459.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 14579] gi|228636359|gb|EEK92830.1| RNA pseudouridine synthase [Bacillus cereus BDRD-ST24] gi|228653526|gb|EEL09398.1| RNA pseudouridine synthase [Bacillus cereus BDRD-Cer4] gi|228671338|gb|EEL26639.1| RNA pseudouridine synthase [Bacillus cereus Rock1-15] Length = 229 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 121/234 (51%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A + SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKLCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDRVTIDGQVIVKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + +G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSRGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|15641153|ref|NP_230785.1| pseudouridine synthase family 1 protein [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121587413|ref|ZP_01677182.1| pseudouridine synthase family 1 protein [Vibrio cholerae 2740-80] gi|121726313|ref|ZP_01679603.1| pseudouridine synthase family 1 protein [Vibrio cholerae V52] gi|147674615|ref|YP_001216660.1| pseudouridine synthase family 1 protein [Vibrio cholerae O395] gi|153816936|ref|ZP_01969603.1| pseudouridine synthase family 1 protein [Vibrio cholerae NCTC 8457] gi|153821998|ref|ZP_01974665.1| pseudouridine synthase family 1 protein [Vibrio cholerae B33] gi|227081313|ref|YP_002809864.1| pseudouridine synthase family 1 protein [Vibrio cholerae M66-2] gi|254848268|ref|ZP_05237618.1| pseudouridine synthase family 1 protein [Vibrio cholerae MO10] gi|298498755|ref|ZP_07008562.1| pseudouridine synthase family 1 protein [Vibrio cholerae MAK 757] gi|9655613|gb|AAF94299.1| pseudouridine synthase family 1 protein [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121548333|gb|EAX58397.1| pseudouridine synthase family 1 protein [Vibrio cholerae 2740-80] gi|121631259|gb|EAX63632.1| pseudouridine synthase family 1 protein [Vibrio cholerae V52] gi|126512523|gb|EAZ75117.1| pseudouridine synthase family 1 protein [Vibrio cholerae NCTC 8457] gi|126520463|gb|EAZ77686.1| pseudouridine synthase family 1 protein [Vibrio cholerae B33] gi|146316498|gb|ABQ21037.1| pseudouridine synthase family 1 protein [Vibrio cholerae O395] gi|227009201|gb|ACP05413.1| pseudouridine synthase family 1 protein [Vibrio cholerae M66-2] gi|227013007|gb|ACP09217.1| pseudouridine synthase family 1 protein [Vibrio cholerae O395] gi|254843973|gb|EET22387.1| pseudouridine synthase family 1 protein [Vibrio cholerae MO10] gi|297543088|gb|EFH79138.1| pseudouridine synthase family 1 protein [Vibrio cholerae MAK 757] Length = 290 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 58/186 (31%), Positives = 94/186 (50%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL AER ++ L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LT Sbjct: 107 PLSPAER-KVILFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILT 163 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 164 NDGILQARLTQPQSKAPKTYWVQVEGSPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTL 223 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + L EG+NR+++++ + RLIR S G + LG L G Sbjct: 224 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 283 Query: 232 STREVS 237 REV+ Sbjct: 284 EWREVT 289 >gi|325261871|ref|ZP_08128609.1| ribosomal large subunit pseudouridine synthase F [Clostridium sp. D5] gi|324033325|gb|EGB94602.1| ribosomal large subunit pseudouridine synthase F [Clostridium sp. D5] Length = 256 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 71/240 (29%), Positives = 120/240 (50%), Gaps = 18/240 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA---VNVMSTDHIEVDGVPLRK 69 P R++K ++ AG+ SRRE +R+I +VKV+G +AA + V + + + + Sbjct: 15 PVRLNKYLSEAGVCSRREADRLIESGKVKVDG----KAAGMGMKVSPGQEVRIGRKIVSR 70 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +E + +KP G+V T + +S V F N P RV VGRLD ++ GLLL+TN+G Sbjct: 71 SEEMIVLAVNKPAGIVCTEETRERKSIVRFLNYPV---RVTYVGRLDKDSRGLLLMTNNG 127 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + + Y+V + + L + G+ I G +V QK Sbjct: 128 DIINKMMRAGNRHEKEYKVTVDKALTPEFLEKMSSGVAILGTVTRPCRV----QKIGKYT 183 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK---ILREQL 245 T+ L +G NR+I+++ E ++V L+R +LG L G R+++ K L EQ+ Sbjct: 184 FTIILTQGLNRQIRRMCEVLGYEVKDLVRTRIMNIELGKLKEGEYRKLTDKELDCLYEQI 243 >gi|260909948|ref|ZP_05916635.1| ribosomal large subunit pseudouridine synthase B [Prevotella sp. oral taxon 472 str. F0295] gi|260635898|gb|EEX53901.1| ribosomal large subunit pseudouridine synthase B [Prevotella sp. oral taxon 472 str. F0295] Length = 211 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 67/205 (32%), Positives = 100/205 (48%), Gaps = 11/205 (5%) Query: 40 VKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 VKVNG ++ V+ TD + P+ E+ L +KP VTT DP R TV D Sbjct: 2 VKVNGNVVTELGTKVLRTDEVIFHEQPV-TLEKKVYVLINKPKDYVTTSDDPQQRKTVMD 60 Query: 100 NLPSIF-SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 + + R+ VGRLD NT G+LLLTNDG LA L P +VY V +V + L Sbjct: 61 LVKGVCPERIYPVGRLDRNTTGVLLLTNDGDLASKLAHPKFLKKKVYHVFLDKEVTEHDL 120 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSN----AWVTVGLREGKNREIKKVFEFFNWKVNR 214 + G+ + D +V D + +N V + + GKNR ++++FE ++V R Sbjct: 121 QQIATGVTLD-----DGEVHADAIEYANDKDKTQVGIEIHSGKNRIVRRIFESLGYRVVR 175 Query: 215 LIRISYGPFQLGTLLAGSTREVSKK 239 L R+ + L G R +++K Sbjct: 176 LDRVQFAGLTKKNLKRGDWRFLTEK 200 >gi|217974541|ref|YP_002359292.1| pseudouridine synthase [Shewanella baltica OS223] gi|217499676|gb|ACK47869.1| pseudouridine synthase [Shewanella baltica OS223] Length = 242 Score = 90.1 bits (222), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/236 (30%), Positives = 116/236 (49%), Gaps = 15/236 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLE-----RAAVNVMSTDHIEVDGVPLRK 69 R++K +A+ GI SRRE R+I R+ +NG + R ++ D+IE+D P+ K Sbjct: 2 RLAKYLAQCGIGSRREACRLIEAGRITLNGHIARHTDPIRLGESLNCLDNIELDSAPITK 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E W+ +K +G + D +++ LP R+ VGRLD ++ GLLLLTNDG Sbjct: 62 TETLSYWILNKAVGTDCRLLEQD-ETSLIHLLPKA-PRLYPVGRLDKDSRGLLLLTNDGE 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNA 187 L L PS + Y VR + D + + G+ Y ++Q TL Q + S+ Sbjct: 120 LTHKLMHPSFAHSKTYHVRLNRPFTDDFVEQMASGVR-----YKNLQ-TLPCQVRRLSSD 173 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ + + V L R++ L L G +E + L E Sbjct: 174 SFEIVLIQGLNRQIRRMSKALGYHVIDLERVAIMTLNLRELALGELQEGQMRRLTE 229 >gi|259047770|ref|ZP_05738171.1| ribosomal small subunit pseudouridine synthase A [Granulicatella adiacens ATCC 49175] gi|259035447|gb|EEW36702.1| ribosomal small subunit pseudouridine synthase A [Granulicatella adiacens ATCC 49175] Length = 230 Score = 90.1 bits (222), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 71/227 (31%), Positives = 119/227 (52%), Gaps = 16/227 (7%) Query: 25 IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERTRLWLYHKPIG 83 + SRRE++++I + V ++GI + NV +T I V+G + + + ++ +KP G Sbjct: 5 VLSRREMKKLIKNEAVLIDGIPATHVSNNVDATLQVITVNGTRIHD-DSQKYYMLNKPQG 63 Query: 84 LVTTHSDPDGRSTVFD-----NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS 138 L++ +D + +TV D N+ ++ +GRLD +TEGLLL+TN+G L + P Sbjct: 64 LISATTDKE-HTTVIDLFANENVEGLYP----LGRLDGDTEGLLLVTNNGPLGYRMLNPD 118 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVGLREG 196 + Y V +G +D D + K+G+ G C M +T+ + TV + EG Sbjct: 119 QHIEKEYYVEVNGPLDNDAVETFKRGVTFHGGYQCKPSM-LTIIESSDNLGRATVTISEG 177 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 K ++KK+F KV L RI +G F L LA G RE+++ L+ Sbjct: 178 KFHQVKKMFLCVGVKVTYLKRIRFGEFVLDESLAPGEYRELNEAELQ 224 >gi|229169439|ref|ZP_04297147.1| Pseudouridine synthase [Bacillus cereus AH621] gi|228614044|gb|EEK71161.1| Pseudouridine synthase [Bacillus cereus AH621] Length = 248 Score = 90.1 bits (222), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 71/229 (31%), Positives = 115/229 (50%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++G+ ++ A +V + + + G + E Sbjct: 8 RLDKLLANMGHGSRKEVKKLLKDGVVKIDGVPVKDAKFHVNVEEQEVMIHGEVVEYKEFV 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF VGRLDI+TEG LL+TNDG L Sbjct: 68 YLMM-HKPQGVISATED-DNHETVIDLLELEDAIFDP-FPVGRLDIDTEGFLLITNDGKL 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 L P + Y G V ++ + KG++++ Y L K + + + Sbjct: 125 THQLLSPKKHVPKKYYAHISGVVTEEDVIEFAKGVILED-GYETKPGELTILKSDDISEI 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 184 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLMLDEELELGQYRELT 232 >gi|322392605|ref|ZP_08066065.1| ribosomal small subunit pseudouridine synthase A [Streptococcus peroris ATCC 700780] gi|321144597|gb|EFX39998.1| ribosomal small subunit pseudouridine synthase A [Streptococcus peroris ATCC 700780] Length = 240 Score = 90.1 bits (222), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/234 (30%), Positives = 116/234 (49%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ + RV VNG + A + + TD I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNFLKAGRVTVNGKKEKSAKLQIDEETDEICFDGKKLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ +P + TV D + + V VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYMMNKPQGVISATENPKHK-TVLDLMDDYACAKEVFPVGRLDIDTHGLLLLTNDGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 L P + Y + G + + + KGI ++ + V++DT++ + + Sbjct: 120 HALLSPKRHVDKTYMAQVKGIMTDEDIETFAKGIPLKDFTCQPAKLELVSIDTEE-NKSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 V V + EGK ++K++ + +V L R++ G L L G R +SK+ L Sbjct: 179 VRVTIAEGKFHQVKRMVAYCGKEVVDLQRVTMGTLTLDEELKRGEWRRLSKEEL 232 >gi|302387646|ref|YP_003823468.1| pseudouridine synthase [Clostridium saccharolyticum WM1] gi|302198274|gb|ADL05845.1| pseudouridine synthase [Clostridium saccharolyticum WM1] Length = 262 Score = 90.1 bits (222), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 117/239 (48%), Gaps = 25/239 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN---VMSTDHIEVDGVPLRKA- 70 R++K ++ AGI SRRE +R I +V +NG +AA V+ + ++G ++ Sbjct: 7 RLNKFLSEAGICSRREADRFIEAGKVSING----KAAATGQKVLPGQSVTINGRTVQAGK 62 Query: 71 ------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 E HKP G+V T S D + D + R+ VGRLD ++EGL+L+ Sbjct: 63 GDQSHKEEPVFLAVHKPRGIVCTTSHKDRAPNIVD-MVDYPVRIYPVGRLDKDSEGLILM 121 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---- 180 TN G L + + Y V+ + V D + +KKG+ + ++ VT Sbjct: 122 TNQGSLVNKMMRSGNAHEKEYLVKVNRPVTDDFIRTMKKGVFLP-----ELNVTTKPCFV 176 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 T+ G A+ V L +G NR+I+++ ++V L R+ +LG L G+ RE+SK+ Sbjct: 177 TKAGEKAFRIV-LTQGLNRQIRRMCSQLGFEVRMLKRMRIMNIELGDLKPGAYRELSKR 234 >gi|228993454|ref|ZP_04153364.1| Pseudouridine synthase [Bacillus pseudomycoides DSM 12442] gi|228999492|ref|ZP_04159070.1| Pseudouridine synthase [Bacillus mycoides Rock3-17] gi|229007048|ref|ZP_04164675.1| Pseudouridine synthase [Bacillus mycoides Rock1-4] gi|228754197|gb|EEM03615.1| Pseudouridine synthase [Bacillus mycoides Rock1-4] gi|228760203|gb|EEM09171.1| Pseudouridine synthase [Bacillus mycoides Rock3-17] gi|228766276|gb|EEM14920.1| Pseudouridine synthase [Bacillus pseudomycoides DSM 12442] Length = 244 Score = 90.1 bits (222), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 113/229 (49%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++GI ++ A +V + + + G + E Sbjct: 2 RLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKFHVNVEEQEVTIHGEIVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF VGRLDI+TEG LLLTNDG L Sbjct: 62 YLMM-HKPQGVISATED-DNHETVVDLLELEDAIFDP-FPVGRLDIDTEGFLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 L P + Y G V + + KG+++ Y L K + + + Sbjct: 119 THQLLSPKKHVPKKYYAHVAGVVTEKDVEEFAKGVILDD-GYETKPGELTILKSDDVSEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELT 226 >gi|322377564|ref|ZP_08052054.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. M334] gi|321281329|gb|EFX58339.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. M334] Length = 240 Score = 90.1 bits (222), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 74/234 (31%), Positives = 118/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEERDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L + V VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYMMNKPQGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDM--QVTLDTQKGSNAW 188 L P + Y + G + Q+ + KGI ++ C + V++D +K + + Sbjct: 120 HALLSPKRHVDKTYLAQVKGIMTQEDVETFAKGISLKDFTCQPAILELVSIDPEK-NQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + V + EGK ++K++ + +V L R++ G L +L G R ++K+ L Sbjct: 179 IRVTIAEGKFHQVKRMVTYCGKEVVDLQRLTMGTLVLDESLQRGEWRRLTKEEL 232 >gi|282850202|ref|ZP_06259581.1| pseudouridylate synthase [Veillonella parvula ATCC 17745] gi|282579695|gb|EFB85099.1| pseudouridylate synthase [Veillonella parvula ATCC 17745] Length = 232 Score = 90.1 bits (222), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 115/229 (50%), Gaps = 13/229 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A SR+EV ++I +RV +NG + + ++ + D + VDG + T Sbjct: 2 RLDKLLANKAYGSRKEVHQIIKDRRVTINGSITTKKDTHIDIDVDIVAVDG---KVVSTT 58 Query: 74 RLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGG 129 +L+ +HKP G VT D + V D LP F + V+ VGRLD +TEGLLLLTNDG Sbjct: 59 QLYYVKFHKPKGYVTAVEDSN-HPVVMDLLPPEFIKMGVVPVGRLDKDTEGLLLLTNDGV 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + +VY V F G + + + +K+GI++ G + + S V Sbjct: 118 WGHSIINGNKHVPKVYYVEFEGTLSDEGIQRIKEGILLGD---GTQCKPAEIESVSLHSV 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 V + EGK ++K++ V L R++ G L G GS E++ Sbjct: 175 HVTIEEGKYHQVKRMIGAAGGTVTYLKRLTIGHIDLSGIEEVGSAMELT 223 >gi|15827715|ref|NP_301978.1| pseudouridine synthase [Mycobacterium leprae TN] gi|221230192|ref|YP_002503608.1| putative pseudouridine synthase [Mycobacterium leprae Br4923] gi|13093266|emb|CAC31751.1| possible pseudouridine synthase [Mycobacterium leprae] gi|219933299|emb|CAR71465.1| possible pseudouridine synthase [Mycobacterium leprae Br4923] Length = 257 Score = 90.1 bits (222), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/234 (30%), Positives = 114/234 (48%), Gaps = 6/234 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K+++RAGIASRR E++I + RV+V+G L+ V + + + Sbjct: 18 RLQKILSRAGIASRRAAEKLIIEGRVEVDGQLVRELGTRVDPDVSVVRVDGVKVVVDDSL 77 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 ++L +KP G+ +T SD GR V D + ++ VGRLD +TEGL+LLTNDG L Sbjct: 78 VYLALNKPRGMYSTMSDDRGRPCVGDLIERRVRGNKKLFHVGRLDADTEGLILLTNDGEL 137 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G V + L G+ + G + D +D G V Sbjct: 138 AHRLMHPSHEVSKTYLATVKGAVPRGLGKKLSVGLELDDGPAHVDDFAVVDAIPGKT-LV 196 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L EG+ R ++++ + V L+R G LG G R + + +R+ Sbjct: 197 RLTLHEGRKRIVRRLLTAAGFPVEMLVRTDIGAVSLGDQRPGCLRALLRDEIRQ 250 >gi|88802487|ref|ZP_01118014.1| putative pseudouridine synthase [Polaribacter irgensii 23-P] gi|88781345|gb|EAR12523.1| putative pseudouridine synthase [Polaribacter irgensii 23-P] Length = 296 Score = 90.1 bits (222), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 66/232 (28%), Positives = 117/232 (50%), Gaps = 15/232 (6%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K I+ +G+ SRRE E+ I + R+ +NG + V D ++ DG R E + Sbjct: 11 LNKYISSSGVCSRREAEKFIKEGRITINGKATQLGN-RVGKKDVVKFDG---RLVEPKNV 66 Query: 76 WLY---HKPIGLVTTHSDPDGRSTVFD-NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 LY +KP+G+V+T + + + V N P R+ +GRLD +EGL+ LTNDG + Sbjct: 67 TLYIALNKPVGIVSTTDEREPHNIVKHVNYPE---RLFPIGRLDKPSEGLIFLTNDGDIV 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + D + + GI I G M +K S+ + Sbjct: 124 NKILRAGNNHEKEYFVSVDKSITNDFITSMGNGIPI----LGTMTKRCKVEKVSDKIFKI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 L +G NR+I+++ E+ +++V +L R LG L +G RE++++ +++ Sbjct: 180 VLTQGLNRQIRRMCEYLDYEVTKLKRTRIMNVDLGYLQSGDWRELTEEEMKD 231 >gi|91776879|ref|YP_546635.1| pseudouridine synthase, Rsu [Methylobacillus flagellatus KT] gi|91710866|gb|ABE50794.1| Pseudouridine synthase, Rsu [Methylobacillus flagellatus KT] Length = 380 Score = 90.1 bits (222), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 71/233 (30%), Positives = 108/233 (46%), Gaps = 21/233 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK +A G+ SRRE + IA VKVNG +++ V IEV + T Sbjct: 142 RLSKRMAELGLCSRREADEFIANGWVKVNGEVVDVLGTRVAPDAKIEVSKEAHQHQAETV 201 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFSR-----VISVGRLDINT 118 L HKP+G V+ ++ DG D ++F R + GRLDI++ Sbjct: 202 TILLHKPVGYVSGQAE-DGYEPAVVLVHPDNQWKEDPSQTVFKRGHLRGLAPAGRLDIDS 260 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLL+LT DG +AR L + + Y VR G + ++ L L G+ + G+ +V+ Sbjct: 261 TGLLVLTQDGRVARRLIGEDSTVEKEYLVRVTGTLSEEGLRKLNHGLSLDGVKLKPAKVS 320 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + LREG+ R+I+++ E V L R+ G LG L G Sbjct: 321 WQNED----QLRFVLREGRKRQIRRMCELVGLTVVGLKRVRIGSVTLGKLPVG 369 >gi|327438231|dbj|BAK14596.1| 16S rRNA uridine-516 pseudouridylate synthase [Solibacillus silvestris StLB046] Length = 234 Score = 90.1 bits (222), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 65/226 (28%), Positives = 112/226 (49%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A GI SRR ++ + RVK+NG++ + V + D + VDG P+++ E Sbjct: 2 RINKFLAETGIVSRRGADKWVEDGRVKINGVVATNGS-QVETGDEVLVDGKPVKRQEELV 60 Query: 75 LWLYHKPIGLV-TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP+G+ TT +G F N R+ +GRLD ++EGLLLLTNDG + Sbjct: 61 YIVLNKPVGITSTTEKQIEGNVVDFVNHRL---RIFHIGRLDKDSEGLLLLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V+ + ++ + G+ I +V +K S+ + L Sbjct: 118 ILRAENHHEKEYVVQVDKPITDQFIHDMSSGVEILDTTTLPCRV----EKVSSKVFKIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ + V RL RI +G L G R+++ K Sbjct: 174 EQGLNRQIRRMCSALGYSVQRLQRIRIMNIHIGNLKVGQWRDLTDK 219 >gi|291550320|emb|CBL26582.1| ribosomal small subunit pseudouridine synthase A [Ruminococcus torques L2-14] Length = 241 Score = 90.1 bits (222), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/231 (31%), Positives = 120/231 (51%), Gaps = 15/231 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A GI +R EV++ I + +V+VN ++R + + DH+ G + AE Sbjct: 4 RLDKYLADMGIGTRTEVKKAITKGQVRVNEETVKRPEIKIDTEKDHVFYQGQMVAYAE-Y 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G+V+ D + STV D + + + VGRLD +TEGLLL+TNDG LA Sbjct: 63 EYYMLNKPAGVVSATEDKND-STVLDLIDEKQRKDLFPVGRLDKDTEGLLLITNDGELAH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-----QKGSNA 187 L P +VY R G+V ++ + +G+ I G+ + TL ++ + Sbjct: 122 QLLSPKKHVDKVYFARIDGKVTEEDVRRFAEGLEI-----GEEKPTLPAHLEILKREEIS 176 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + +REGK ++K++F +V L R+ G L LA G RE++ Sbjct: 177 EIRLTIREGKFHQVKRMFHAVGKEVIYLKRLQMGSLVLDPRLALGEYRELT 227 >gi|270291591|ref|ZP_06197811.1| ribosomal small subunit pseudouridine synthase A [Pediococcus acidilactici 7_4] gi|270279910|gb|EFA25748.1| ribosomal small subunit pseudouridine synthase A [Pediococcus acidilactici 7_4] Length = 239 Score = 90.1 bits (222), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 69/230 (30%), Positives = 116/230 (50%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 RV K + + +R ++ ++I ++ V VN ++ + V V D + + G + ++ Sbjct: 2 RVDKFLHDMNVGTRSQIRKLIKEKVVFVNDVVAKSGRVKVDPVVDQVRL-GEQVITYQQY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP+G+VT D + TV D + R + VGRLD +TEGLLL+TN+G LA Sbjct: 61 FYFMMNKPLGVVTATEDRK-QKTVMDLFNKVDFRKDLFPVGRLDKDTEGLLLITNNGPLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAW 188 L P + Y GQ+ + GIV++ + D+ + + Sbjct: 120 HQLLAPERHVQKTYEAVVTGQITDPAVKQFADGIVLKDGTQLKPADLTILNYSALDEQTL 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 V V L+EGK +++++F +V L RIS+GP QL LL G+ RE+S Sbjct: 180 VHVTLKEGKYHQVRRMFGSLGERVVSLKRISFGPLQLEEGLLPGTYRELS 229 >gi|229062392|ref|ZP_04199708.1| Pseudouridine synthase [Bacillus cereus AH603] gi|228716863|gb|EEL68550.1| Pseudouridine synthase [Bacillus cereus AH603] Length = 242 Score = 90.1 bits (222), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 71/229 (31%), Positives = 114/229 (49%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++G ++ A +V + + + G + E Sbjct: 2 RLDKLLANMGHGSRKEVKKLLKDGVVKIDGTPVKDAKFHVNIEEQEVMIHGEVVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF VGRLDI+TEG LL+TNDG L Sbjct: 62 YLMM-HKPQGVISATED-DNHETVIDLLELEDAIFDP-FPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 L P + Y G V ++ + KG++++ Y L K + + + Sbjct: 119 THQLLSPKKHVPKKYYAHISGVVTEEDVKEFSKGVILED-GYETKPGELTILKSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLMLDQELELGQYRELT 226 >gi|15902300|ref|NP_357850.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae R6] gi|116516048|ref|YP_815778.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae D39] gi|15457806|gb|AAK99060.1| Ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae R6] gi|116076624|gb|ABJ54344.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae D39] Length = 240 Score = 90.1 bits (222), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 71/216 (32%), Positives = 104/216 (48%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKFQIDEKIDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L + V VGRLDINT GLLLLTNDG LA Sbjct: 62 -YYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDINTHGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSN-AWV 189 VL P + Y + G + Q+ + +GI ++ C L T N + + Sbjct: 120 HVLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPARLEILSTDAEKNQSQI 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EGK +IK++ + +V L R++ G L Sbjct: 180 RVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVL 215 >gi|149180996|ref|ZP_01859497.1| tRNA pseudouridine synthase A [Bacillus sp. SG-1] gi|148851280|gb|EDL65429.1| tRNA pseudouridine synthase A [Bacillus sp. SG-1] Length = 238 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 70/228 (30%), Positives = 114/228 (50%), Gaps = 13/228 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV--NVMSTDHIEVDGVPLRKAER 72 R++K I+ AG ASRR +R+I + RV +NG ++A + V D I V G +R A Sbjct: 5 RINKFISEAGKASRRGADRLIEEGRVTING---KKAKIGDQVEPGDDIRVSGQQIRVARN 61 Query: 73 TRLWLYHKPIGLV-TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP+G+ TT + G N P RV ++GRLD +++GL+LLTNDG + Sbjct: 62 NVYLALNKPVGITSTTEKNVKGNIVDLVNHPL---RVFNIGRLDKDSDGLILLTNDGDIV 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + Q + Y V + + L + +G+ I G + ++ S + Sbjct: 119 NEILRAENQHEKEYIVSVDKPITPEFLTQMSEGVKI----LGTKTLPCKVEQLSKFDFKI 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L +G NR+I+++ E ++V RL R+ LG L G R+++KK Sbjct: 175 ILTQGLNRQIRRMCEALGYEVFRLQRVRIMNIHLGNLPVGQWRDLTKK 222 >gi|3915542|sp|O05668|Y1370_MYCLE RecName: Full=Uncharacterized RNA pseudouridine synthase ML1370; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|2065214|emb|CAB08276.1| unnamed protein product [Mycobacterium leprae] Length = 256 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/234 (30%), Positives = 114/234 (48%), Gaps = 6/234 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K+++RAGIASRR E++I + RV+V+G L+ V + + + Sbjct: 17 RLQKILSRAGIASRRAAEKLIIEGRVEVDGQLVRELGTRVDPDVSVVRVDGVKVVVDDSL 76 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 ++L +KP G+ +T SD GR V D + ++ VGRLD +TEGL+LLTNDG L Sbjct: 77 VYLALNKPRGMYSTMSDDRGRPCVGDLIERRVRGNKKLFHVGRLDADTEGLILLTNDGEL 136 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L PS + + Y G V + L G+ + G + D +D G V Sbjct: 137 AHRLMHPSHEVSKTYLATVKGAVPRGLGKKLSVGLELDDGPAHVDDFAVVDAIPGKT-LV 195 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L EG+ R ++++ + V L+R G LG G R + + +R+ Sbjct: 196 RLTLHEGRKRIVRRLLTAAGFPVEMLVRTDIGAVSLGDQRPGCLRALLRDEIRQ 249 >gi|292559208|gb|ADE32209.1| Pseudouridine synthase, Rsu [Streptococcus suis GZ1] Length = 235 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 70/227 (30%), Positives = 112/227 (49%), Gaps = 8/227 (3%) Query: 23 AGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLWLYHKP 81 G+ SR EV++++ ++V VNG + + D I V G L E +L +KP Sbjct: 3 CGVGSRTEVKKLLKNKQVTVNGQVETSPKQQINEKKDQIAVAGQVLSH-ETFVYYLLNKP 61 Query: 82 IGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLARVLELPST 139 G+++ D D TV D L + V VGRLDI+T GLLLLTN G LA + P Sbjct: 62 KGVISATED-DHHRTVLDLLDNTARQKEVFPVGRLDIDTHGLLLLTNKGQLAHAMLSPKK 120 Query: 140 QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTVGLREGK 197 ++YR + G + Q+ + GI ++ Q+T+ + + V + +REGK Sbjct: 121 HVDKLYRAQVDGIMTQEDVERFAAGIELKDFTCQPAQLTILSTDEAKQTSLVDITIREGK 180 Query: 198 NREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILRE 243 +IK++ + V L R++ GP +L LA G R ++ L++ Sbjct: 181 FHQIKRMVQACGKTVTDLQRLTMGPLRLDPKLALGEYRRLTAAELKQ 227 >gi|166154940|ref|YP_001653195.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis L2b/UCH-1/proctitis] gi|165930928|emb|CAP06490.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis L2b/UCH-1/proctitis] Length = 241 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 76/229 (33%), Positives = 109/229 (47%), Gaps = 15/229 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-----DHIEVDGVPLRK 69 R++K +A AG+ASRR+ + +I V VNG RAA T D +EV G + Sbjct: 5 RLNKFLASAGVASRRKCDEIIFAGSVTVNG----RAATGPFVTVDEEFDSVEVGGQRI-G 59 Query: 70 AERTRLWLYHKPIG-LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 AE+ ++ HKP+G L ++ G V D L R+ +VGRLD T GL+L+TNDG Sbjct: 60 AEKKVYFMVHKPLGYLCSSERKFPGSKLVIDLLSHCPYRLFTVGRLDKETSGLILVTNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 A + PS + Y ++ V L L G VI G + V +K Sbjct: 120 EFANRVIHPSFGITKEYLLKVSRDVTARDLETLMAGTVIDGKVVRPVSV----KKVRRGT 175 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + EGK EI+ E ++ L RI G LG L G RE++ Sbjct: 176 IKIIVNEGKKHEIRLFAEAAGLQLLELKRIRIGSLVLGGLPYGKYRELT 224 >gi|332876893|ref|ZP_08444647.1| pseudouridylate synthase [Capnocytophaga sp. oral taxon 329 str. F0087] gi|332685176|gb|EGJ58019.1| pseudouridylate synthase [Capnocytophaga sp. oral taxon 329 str. F0087] Length = 215 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 60/206 (29%), Positives = 108/206 (52%), Gaps = 3/206 (1%) Query: 35 IAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGR 94 I+ V VNG ++ V TD + DG L +E+ L +KP G +TT +D GR Sbjct: 3 ISAGNVTVNGEVMTTLGYRVKPTDEVRFDG-KLLSSEKKEYILLNKPKGFITTTNDEKGR 61 Query: 95 STVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 TV D + + +R++ VGRLD T GLLLLTNDG L + L P+ ++Y V ++ Sbjct: 62 KTVMDLVANATNARILPVGRLDRATTGLLLLTNDGELTKKLTHPTHGVRKIYHVILDRKL 121 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + +++G+ ++ +++ QK N + + + G+NR ++++FE ++V+ Sbjct: 122 EYKDFIAIEQGLELEDGFIQVDEISYVDQKPKNE-IGIKIHSGRNRIVRRIFEHLGYQVD 180 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKK 239 +L R+ + L G R ++++ Sbjct: 181 KLDRVVFAGLTKKDLPRGHWRRLTQQ 206 >gi|149001603|ref|ZP_01826576.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP14-BS69] gi|237649412|ref|ZP_04523664.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae CCRI 1974] gi|237821288|ref|ZP_04597133.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae CCRI 1974M2] gi|147760061|gb|EDK67050.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP14-BS69] Length = 240 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 70/217 (32%), Positives = 110/217 (50%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L + V VGRLDI+T GLLLL NDG LA Sbjct: 62 -YYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLANDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDM--QVTLDTQKGSNAW 188 VL P + Y + G + Q+ + +GI ++ C + V++DT+K + + Sbjct: 120 HVLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPAILELVSIDTEK-NQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V + EGK +IK++ + +V L R++ G L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVL 215 >gi|327439180|dbj|BAK15545.1| 16S rRNA uridine-516 pseudouridylate synthase [Solibacillus silvestris StLB046] Length = 240 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 66/222 (29%), Positives = 118/222 (53%), Gaps = 11/222 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV+ ++ Q+ V V+G+ ++ +A++V ++ V G + E Sbjct: 6 RLDKLLANMGYGSRKEVKLLLKQKAVTVDGVTVKDSAMHVNPEKQNVSVFGERVEYVEFI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 L + +KP G+++ D + TV D L + VGRLD +TEGLLL+TNDG LA Sbjct: 66 YLMM-NKPPGVISATEDRYDQ-TVIDLLDPEYQHFEPFPVGRLDKDTEGLLLITNDGNLA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY---GDMQVTLDTQKGSNAW 188 L P + Y + G V + + +G+ ++ + G++++ + G + Sbjct: 124 HNLLSPKKHVPKWYYAKIDGVVTEADIEAFAQGVTLEDGYHTKPGELKILV---SGEQSE 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + ++EGK ++K++FE KV L R+S G +L LA Sbjct: 181 IELMIQEGKFHQVKRMFEAVGKKVTYLKRLSMGTLKLDEELA 222 >gi|269797973|ref|YP_003311873.1| pseudouridine synthase [Veillonella parvula DSM 2008] gi|269094602|gb|ACZ24593.1| pseudouridine synthase [Veillonella parvula DSM 2008] Length = 232 Score = 89.7 bits (221), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 115/229 (50%), Gaps = 13/229 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A SR+EV ++I +RV +NG + + ++ + D + VDG + T Sbjct: 2 RLDKLLANKAYGSRKEVHQIIKDRRVTINGSITTKKDTHIDIDVDIVAVDG---KVVSTT 58 Query: 74 RLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGG 129 +L+ +HKP G VT D + V D LP F + V+ VGRLD +TEGLLLLTNDG Sbjct: 59 QLYYVKFHKPKGYVTAVEDSN-HPVVMDLLPPEFIKMGVVPVGRLDKDTEGLLLLTNDGV 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + ++Y V F G + + + +KKGI++ G + + S V Sbjct: 118 WGHSIINGNKHVPKIYYVEFEGTLSDEGIQRIKKGILLGD---GTQCKPAEIEFVSLHSV 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 V + EGK ++K++ V L R++ G L G GS E++ Sbjct: 175 HVTIEEGKYHQVKRMIGAAGGTVTYLKRLTIGHIDLSGIEEVGSAMELT 223 >gi|261403960|ref|YP_003240201.1| pseudouridine synthase [Paenibacillus sp. Y412MC10] gi|261280423|gb|ACX62394.1| pseudouridine synthase [Paenibacillus sp. Y412MC10] Length = 233 Score = 89.7 bits (221), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 64/232 (27%), Positives = 121/232 (52%), Gaps = 8/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE ++++ +V +NG++ + D + + G PL+ ++ Sbjct: 2 RINKFISETGYCSRREADKLVESGKVTINGVVAVLGS-QAEEGDDVRIQGKPLQDKKKHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ +T ++ + + D + R+ +GRLD ++EGL+LLTNDG + + Sbjct: 61 YIALNKPVGITST-TESHIKGNIVDFVGH-NERIFPIGRLDKDSEGLILLTNDGDIVNKI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V V + L + G+ I G+M + + + S + L Sbjct: 119 LRSEGKHEKEYIVTVDRPVTESFLRGMAGGVKI----LGEMTLPCEVTRMSERVFRIILT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNR+I+++ F ++V +L RI +LG+ GS R+++ K +E+LG Sbjct: 175 EGKNRQIRRMCSAFGYEVRKLQRIRIMNIRLGSQRIGSWRDLNDK-EKEELG 225 >gi|90410657|ref|ZP_01218672.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Photobacterium profundum 3TCK] gi|90328288|gb|EAS44586.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Photobacterium profundum 3TCK] Length = 367 Score = 89.7 bits (221), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 62/209 (29%), Positives = 99/209 (47%), Gaps = 13/209 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K I+ G SRRE +++I Q RV +NG E VM D + VD PLR ER Sbjct: 18 PVRLNKFISDTGYCSRREADKLIDQGRVTINGTQPE-MGTKVMPDDEVLVDDKPLRAKER 76 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGG 129 +KP G+ T V DN+ R+ +GRLD ++GL+ LTNDG Sbjct: 77 PIYIALNKPTGVTCTTE-----RHVKDNIVDFIGHRKRIFPIGRLDKPSDGLIFLTNDGD 131 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y VR Q+ + L + G+ I + + +K ++ Sbjct: 132 IVNKILRAGNSHEKEYVVRVDHQITPEFLEKMASGVEI----LDTVTLPCTVKKETDYSF 187 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRI 218 + L +G NR+I+++ E + V +L R+ Sbjct: 188 RITLTQGLNRQIRRMCEALGYDVYKLRRV 216 >gi|229087263|ref|ZP_04219407.1| Pseudouridine synthase [Bacillus cereus Rock3-44] gi|228696053|gb|EEL48894.1| Pseudouridine synthase [Bacillus cereus Rock3-44] Length = 242 Score = 89.7 bits (221), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 113/229 (49%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++G ++ A +V + + + G + E Sbjct: 2 RLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKFHVNVEEQEVMIHGEIVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF VGRLDI+TEG LLLTNDG L Sbjct: 62 YLMM-HKPQGVISATED-DNHETVVDLLELEDAIFDP-FPVGRLDIDTEGFLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 A L P + Y G V + + KG+++ Y L K + + + Sbjct: 119 AHQLLSPKKHVPKKYYAHVAGIVTEKDVEEFAKGVILDD-GYETKPGALTILKSDDVSEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 178 ELVITEGKFHQVKRMFEAVEKKVVYLKRTEMGPLVLDEELELGQYRELT 226 >gi|125718847|ref|YP_001035980.1| 16S rRNA uridine-516 pseudouridylate synthase [Streptococcus sanguinis SK36] gi|125498764|gb|ABN45430.1| 16S rRNA uridine-516 pseudouridylate synthase, putative [Streptococcus sanguinis SK36] Length = 242 Score = 89.7 bits (221), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/222 (32%), Positives = 108/222 (48%), Gaps = 9/222 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L E+ Sbjct: 2 RLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIIVSGQRL-TYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATED-DQHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P + YR + G + Q + GI ++ Q + LD K + Sbjct: 120 HAMLSPKKHVEKTYRAQVAGLMKQADVERFAAGIELKDFTCQPAQLKILELDEAK-ETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + L EGK ++K++ +V L R++ GP QL LA Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLAMGPLQLDPALA 220 >gi|225870791|ref|YP_002746738.1| ribosomal small subunit pseudouridine synthase B [Streptococcus equi subsp. equi 4047] gi|225700195|emb|CAW94370.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus equi subsp. equi 4047] Length = 237 Score = 89.7 bits (221), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/232 (31%), Positives = 116/232 (50%), Gaps = 14/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGI--LLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ K + AG+ SR +V+ ++ +++V VNG+ + VN M TD + G L E Sbjct: 2 RLDKFLVDAGLGSRSQVKLLLKKKQVSVNGVSQTSPKYQVNEM-TDEVSYQGQRLN-YEA 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D + TV D L + V VGRLD +T GLLL+TNDG L Sbjct: 60 FVYYMLNKPKGVISATEDSSHK-TVLDLLDDTARQKAVFPVGRLDKDTHGLLLVTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----TQKGSN 186 A L P + Y G + Q+ + +GI ++ + M LD + Sbjct: 119 AHALLSPKKHVAKQYLAVVDGMMTQEDVKHFAQGITLKD--HQCMPAHLDILEINESLKT 176 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + V + + EGK ++K++ V+ L RIS GP QL + LA G+ R ++ Sbjct: 177 SLVKITIEEGKFHQVKRMVAACGKTVSDLQRISMGPLQLDSALAPGAYRRLT 228 >gi|206977746|ref|ZP_03238637.1| RNA pseudouridine synthase family protein [Bacillus cereus H3081.97] gi|217962032|ref|YP_002340602.1| RNA pseudouridine synthase family protein [Bacillus cereus AH187] gi|222098014|ref|YP_002532071.1| tRNA pseudouridine synthase a [Bacillus cereus Q1] gi|229141278|ref|ZP_04269816.1| RNA pseudouridine synthase [Bacillus cereus BDRD-ST26] gi|206744047|gb|EDZ55463.1| RNA pseudouridine synthase family protein [Bacillus cereus H3081.97] gi|217063968|gb|ACJ78218.1| RNA pseudouridine synthase family protein [Bacillus cereus AH187] gi|221242072|gb|ACM14782.1| tRNA pseudouridine synthase A [Bacillus cereus Q1] gi|228642059|gb|EEK98352.1| RNA pseudouridine synthase [Bacillus cereus BDRD-ST26] Length = 229 Score = 89.7 bits (221), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 119/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDRVTIDGQVIVKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRVFGFTVTKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|167635583|ref|ZP_02393895.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0442] gi|170688259|ref|ZP_02879469.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0465] gi|254686959|ref|ZP_05150817.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. CNEVA-9066] gi|254741694|ref|ZP_05199381.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Kruger B] gi|167529003|gb|EDR91758.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0442] gi|170667765|gb|EDT18518.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0465] Length = 229 Score = 89.7 bits (221), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 119/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEANSCSRRETDRLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKSFTDWFINEMSSGVKIKDGITKPCKVT----RVDKSTCRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|308801140|ref|XP_003075351.1| propable 16S pseudouridylate synthase (ISS) [Ostreococcus tauri] gi|116061905|emb|CAL52623.1| propable 16S pseudouridylate synthase (ISS) [Ostreococcus tauri] Length = 337 Score = 89.7 bits (221), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 79/248 (31%), Positives = 123/248 (49%), Gaps = 28/248 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEV--DGVPLRKA 70 +RVSK++AR G SRRE E++IA RV+VNG ++ E+ +++D +E+ DG + Sbjct: 84 ERVSKILARRGACSRREAEQLIADGRVRVNGTVITEQGHKCDVNSDRVEITSDGSAWLSS 143 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV-----------------FDNL---PSIFSRVIS 110 + T +KP GLV+ D + D+L S SR Sbjct: 144 KLT--LAVNKPPGLVSNLPSADEVAACSIVEPSNAWMRSMKWVAMDDLRRATSDPSRFNV 201 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 GRLD ++ GLL+LT DG LAR + + ++ Y V V + + L +++ G+ Sbjct: 202 CGRLDKDSRGLLILTEDGALARSV-IGGNGVVKRYVVTTDADVRESHMQSLNGTVMLDGV 260 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 M V +GS + LREGKNR+I++V E F +V L R+ G +G L Sbjct: 261 ELLPMNVK-RLGRGSRT-LEFNLREGKNRQIRRVCEKFGLRVVDLHRVQIGEIDIGDLPE 318 Query: 231 GSTREVSK 238 G+ R +S+ Sbjct: 319 GAWRILSE 326 >gi|154248736|ref|YP_001409561.1| pseudouridine synthase [Fervidobacterium nodosum Rt17-B1] gi|154152672|gb|ABS59904.1| pseudouridine synthase [Fervidobacterium nodosum Rt17-B1] Length = 265 Score = 89.7 bits (221), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 67/211 (31%), Positives = 104/211 (49%), Gaps = 2/211 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++ K + G A RR+ + I +RV VNG ++ V D++ VDG L K + Sbjct: 27 KLQKYLQLCGFA-RRKADEYITSKRVIVNGKTVDEPWFEVNEDDNVLVDGKIL-KPNQFE 84 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ HKP VTT DP + T+ + + I + + GRLD + G+L+LTNDG L +L Sbjct: 85 YYVLHKPKDYVTTLFDPKQKKTIGELIKHIKTPLKPAGRLDKDATGVLILTNDGELIDIL 144 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V+ V ++L LKKGI +G + + + V V L Sbjct: 145 TNAKYRVKKEYIVKVKSVVSAEELVKLKKGIYDKGEFLKLEHFKIIEKSSEYSIVRVELI 204 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +GK EIK++F V L RIS+GP + Sbjct: 205 KGKKHEIKRLFSSIGHNVLELKRISHGPISI 235 >gi|257415389|ref|ZP_05592383.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis AR01/DG] gi|257157217|gb|EEU87177.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis ARO1/DG] Length = 252 Score = 89.7 bits (221), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 71/234 (30%), Positives = 125/234 (53%), Gaps = 15/234 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ SR+ V+R+I ++V V+GI+ + NV I+V G + + +T Sbjct: 2 RLDKLLEELQFGSRKTVKRLIKGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLI--SHKT 59 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + +KP G+V+ SD ++ + D P ++ VGRLD +TEGLLLLT++ Sbjct: 60 HVYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYP----VGRLDGDTEGLLLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G L L P+ + + Y V+ +G V + K GIV+Q GI ++T+ + Sbjct: 116 GQLGYQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETE 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 + V + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ Sbjct: 176 SHVFLTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTRE 229 >gi|325923678|ref|ZP_08185302.1| pseudouridine synthase family protein [Xanthomonas gardneri ATCC 19865] gi|325545844|gb|EGD17074.1| pseudouridine synthase family protein [Xanthomonas gardneri ATCC 19865] Length = 217 Score = 89.7 bits (221), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 63/189 (33%), Positives = 95/189 (50%), Gaps = 7/189 (3%) Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINT 118 I VDG PL R L L +KP G+VTT D GR TV+ + VGRLD + Sbjct: 17 ITVDGQPLAGPARCYLML-NKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKAS 75 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYG 173 EGLLL +ND A + P+T + Y V+ + ++L L+ G+V G Sbjct: 76 EGLLLFSNDPQWAAAVTDPATGPDKTYHVQIDCRPSAEQLAQLRAGVVDPDPEGDGALLR 135 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 V + + NAW+ + L EG+NR+I+++ V RL+R++ G +G L G+ Sbjct: 136 AKHVGVLREGERNAWLEIVLDEGRNRQIRRLLAALEIGVLRLVRVAIGALAMGELGKGAW 195 Query: 234 REVSKKILR 242 R +S + +R Sbjct: 196 RMLSAEEVR 204 >gi|56477738|ref|YP_159327.1| propable 16S pseudouridylate synthase [Aromatoleum aromaticum EbN1] gi|56313781|emb|CAI08426.1| propable 16S pseudouridylate synthase [Aromatoleum aromaticum EbN1] Length = 314 Score = 89.7 bits (221), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 69/234 (29%), Positives = 109/234 (46%), Gaps = 18/234 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ G+ SRRE + +I + V V+G + + + I + R+ Sbjct: 77 RLSKIMSERGLCSRREADEIIERGWVFVDGQRVSELGIRIDPNAEITLAAQAKRRQMEQV 136 Query: 75 LWLYHKPIGLVTTHSDPD--------GRSTVFDNL------PSIFSRVISVGRLDINTEG 120 L HKP+G V+ +P G FD PS + GRLDI++ G Sbjct: 137 TILLHKPVGYVSGQPEPGFEPAVSLIGPDNQFDRADAQRFHPSHLKGIAPAGRLDIDSTG 196 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LL+LT DG +AR L ++ + Y VR G++D+ L LL G+ + G +V Sbjct: 197 LLVLTQDGRIARQLIGDDSKVEKEYLVRVEGRLDERGLALLNHGLELDGRTLRPAKVEWL 256 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + LREG+ R+I+++ E KV L R+ G +LG L G R Sbjct: 257 NED----QLRFVLREGRKRQIRRMCELVGLKVVGLKRVRIGRVKLGDLPLGQWR 306 >gi|145355350|ref|XP_001421926.1| predicted protein [Ostreococcus lucimarinus CCE9901] gi|144582165|gb|ABP00220.1| predicted protein [Ostreococcus lucimarinus CCE9901] Length = 287 Score = 89.7 bits (221), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 69/223 (30%), Positives = 112/223 (50%), Gaps = 17/223 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGI-LLERAAVNVMST--DHIEVDGVPLRKA 70 +R+ +++R G+ SR + R IA++ V +G ERA + + VDG L Sbjct: 48 ERLDALLSRLGLTSRADAARFIAERVVTTDGARATERATSGKLKARAADVRVDGETLEDV 107 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTN 126 + L + HK G+V +H +G ++V+D LP + R + SVGRLD +T GLLLLT+ Sbjct: 108 DGL-LIVMHKARGVVCSHDVREG-TSVYDALPERWRRRKPSIESVGRLDKDTSGLLLLTD 165 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQG---ICYGDMQVTLDTQ 182 DG L L P + + YRV+ + +D + + G + + G C + +D + Sbjct: 166 DGALVHALTTPKKEIGKWYRVKTDRPIPRDAVEVFASGELTLDGETRACKPAVCELMDDE 225 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +T EGK ++K++F FF V L R S+G L Sbjct: 226 TEARLRLT----EGKFHQVKRMFAFFGCTVIGLHRESFGSLTL 264 >gi|315644423|ref|ZP_07897556.1| pseudouridine synthase [Paenibacillus vortex V453] gi|315280173|gb|EFU43466.1| pseudouridine synthase [Paenibacillus vortex V453] Length = 233 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 64/232 (27%), Positives = 121/232 (52%), Gaps = 8/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE ++++ +V +NG++ + D + + G PL+ ++ Sbjct: 2 RINKFISETGYCSRREADKLVESGKVTINGVVAVLGS-QAEEGDDVRIQGRPLQDKKKHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ +T ++ + + D + R+ +GRLD ++EGL+LLTNDG + + Sbjct: 61 YIALYKPVGITST-TELHIKGNIVDFVGH-KERIFPIGRLDKDSEGLILLTNDGDIVNKI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + L + G+ I G+M + + + S + L Sbjct: 119 LRSEGKHEKEYIVTVDRPLTDTFLRGMSSGVKI----LGEMTLPCEVTRMSERVFRIILT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNR+I+++ F ++V +L RI +LG+ GS R++++K RE+LG Sbjct: 175 EGKNRQIRRMCSAFGYEVRKLQRIRIMNIRLGSQRVGSWRDLNEK-EREELG 225 >gi|269123516|ref|YP_003306093.1| pseudouridine synthase [Streptobacillus moniliformis DSM 12112] gi|268314842|gb|ACZ01216.1| pseudouridine synthase [Streptobacillus moniliformis DSM 12112] Length = 230 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/234 (30%), Positives = 123/234 (52%), Gaps = 8/234 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A +GI +R+EV+ +I +++ VN ++ + + + T I + + R Sbjct: 2 RLDKFLANSGIGTRKEVKEIIKNRKIFVNDKIVMSSDLKIDETKDIIKYENNVINYTKFR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G ++ +D + + TV D + + ++ VGRLDI+TEGLLLLTNDG LA Sbjct: 62 YIMLNKPKGYISATND-NKQKTVLDLITDFKTYKLFPVGRLDIDTEGLLLLTNDGDLAHN 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V + D ++ ++KGI I +GI ++ K + + + Sbjct: 121 LLSPKKHVEKKYYVELSQDISSDDISNIEKGIDIGEGIITRLSKII----KVDDNKLYII 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVSKKILREQL 245 + EGK ++K++F+ N +V L RIS G L L G RE++ + LR L Sbjct: 177 ITEGKFHQVKRMFKAVNNEVKYLKRISMGSLILDEKLNLGEYRELTYEELRSLL 230 >gi|169629456|ref|YP_001703105.1| l RNA pseudouridine synthase [Mycobacterium abscessus ATCC 19977] gi|169241423|emb|CAM62451.1| Probablel RNA pseudouridine synthase [Mycobacterium abscessus] Length = 263 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 80/234 (34%), Positives = 117/234 (50%), Gaps = 16/234 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERA-----AVNVMSTDHIEVDGVPLR 68 R+ KV+++AGIASRR ERMI RV+V+G I+ E+ AVNV+ D V + Sbjct: 24 RLQKVLSQAGIASRRVAERMIYDGRVEVDGEIVTEQGRRIDPAVNVVRVDGARV----IM 79 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLT 125 + L L +KP G+++T SD GR V + V +VGRLD +T GL+LLT Sbjct: 80 NTDLVYLAL-NKPFGMLSTMSDDRGRPCVGKLIEERVRGNQGVRNVGRLDADTVGLILLT 138 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKG 184 NDG L L PS + + Y G + + L+ G+ + G D L T G Sbjct: 139 NDGELTHRLMHPSYEVPKTYIATVAGTIPRGLGRQLRDGVELADGPAKVDEFKFLGTTDG 198 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + V + L EG+NR ++++ + V L+R G LG GS R + + Sbjct: 199 -QSMVQLTLHEGRNRIVRRMMDAAGHPVVELVRTKIGDVTLGNQRPGSLRALGR 251 >gi|168485953|ref|ZP_02710461.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae CDC1087-00] gi|183570820|gb|EDT91348.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae CDC1087-00] Length = 240 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 70/217 (32%), Positives = 111/217 (51%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L + V VGRLDI+T GLLLLTN+G LA Sbjct: 62 -YYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNNGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDM--QVTLDTQKGSNAW 188 VL P + Y + G + Q+ + +GI ++ C + V++DT+K + + Sbjct: 120 HVLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPAILELVSIDTEK-NQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V + EGK +IK++ + +V L R++ G L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVL 215 >gi|257077689|ref|ZP_05572050.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis JH1] gi|256985719|gb|EEU73021.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis JH1] Length = 238 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 74/238 (31%), Positives = 128/238 (53%), Gaps = 17/238 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ SR+ V+R+I ++V V+GI+ + NV I+V G + + +T Sbjct: 2 RLDKLLEELQFGSRKTVKRLIKGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLI--SHKT 59 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLLLTN 126 ++ + +KP G+V+ SD + TV D + P ++ VGRLD +TEGLLLLT+ Sbjct: 60 HVYYMLNKPKGVVSAVSDAS-KKTVIDLIAPQDRRPGLYP----VGRLDGDTEGLLLLTD 114 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGS 185 +G L L P+ + + Y V+ +G V + K GIV+Q GI ++T+ + Sbjct: 115 NGQLGYQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATET 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + V + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ Sbjct: 175 ESHVFLTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQ 232 >gi|22537618|ref|NP_688469.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae 2603V/R] gi|76787384|ref|YP_330112.1| RNA pseudouridine synthase family protein [Streptococcus agalactiae A909] gi|76797639|ref|ZP_00779909.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae 18RS21] gi|22534503|gb|AAN00342.1|AE014259_13 ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae 2603V/R] gi|76562441|gb|ABA45025.1| RNA pseudouridine synthase family protein [Streptococcus agalactiae A909] gi|76587000|gb|EAO63488.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae 18RS21] Length = 240 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 65/216 (30%), Positives = 109/216 (50%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + G+ SR +V+ ++ ++++ VNG V V D I+ +G L E+ Sbjct: 2 RLDKFLVECGLGSRTQVKLILKKKQISVNGNSETSPKVQVDEYRDEIKYNGT-LVSYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ HKP G+++ DP + TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYMLHKPKGVISATDDPSHK-TVLDLLDKTARDKAVFPVGRLDIDTTGLLLLTNNGELA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CY-GDMQVTLDTQKGSNAWV 189 + P + Y V+ G + +D + KGI+++ C +++ Q + V Sbjct: 120 HKMLSPKKHVDKCYEVKISGIMTEDDILAFDKGIILKDFTCLPALLEIVEVNQVKKQSLV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + ++EGK ++K++ +V L R+ G QL Sbjct: 180 KITIKEGKFHQVKRMVAACGKEVLELKRLRMGNLQL 215 >gi|49187441|ref|YP_030693.1| RNA pseudouridylate synthase [Bacillus anthracis str. Sterne] gi|65321917|ref|ZP_00394876.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Bacillus anthracis str. A2012] gi|165871506|ref|ZP_02216153.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0488] gi|167641580|ref|ZP_02399827.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0193] gi|170708716|ref|ZP_02899154.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0389] gi|177653142|ref|ZP_02935429.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0174] gi|190566866|ref|ZP_03019782.1| RNA pseudouridine synthase family protein [Bacillus anthracis Tsiankovskii-I] gi|227817333|ref|YP_002817342.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. CDC 684] gi|229602926|ref|YP_002868829.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0248] gi|254736656|ref|ZP_05194362.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Western North America USA6153] gi|254754709|ref|ZP_05206744.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Vollum] gi|254757541|ref|ZP_05209568.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Australia 94] gi|270000607|ref|YP_003329046.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Ames] gi|291612223|ref|YP_003541037.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. 'Ames Ancestor'] gi|49181368|gb|AAT56744.1| RNA pseudouridylate synthase [Bacillus anthracis str. Sterne] gi|164712803|gb|EDR18333.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0488] gi|167510465|gb|EDR85864.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0193] gi|170126396|gb|EDS95285.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0389] gi|172081666|gb|EDT66737.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0174] gi|190561857|gb|EDV15826.1| RNA pseudouridine synthase family protein [Bacillus anthracis Tsiankovskii-I] gi|224552862|gb|ACN55071.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. 'Ames Ancestor'] gi|227003424|gb|ACP13167.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. CDC 684] gi|229267334|gb|ACQ48971.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0248] gi|269850265|gb|ACZ49990.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Ames] Length = 229 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 119/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEANSCSRRETDRLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGITKPCKVT----RVDKSTCRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|307705665|ref|ZP_07642514.1| conserved hypothetical protein [Streptococcus mitis SK597] gi|307620791|gb|EFN99878.1| conserved hypothetical protein [Streptococcus mitis SK597] Length = 240 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 69/217 (31%), Positives = 108/217 (49%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L I V VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYMMNKPKGVISATEDPKHR-TVLDLLDDIARSKEVFPVGRLDIDTHGLLLLTNDGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 L P + Y + G + Q+ + KGI ++ + V++D +K + + Sbjct: 120 HDLLSPKRHVDKTYLAQVKGIMTQEDVETFAKGIPLKDFTCKPARLELVSIDAEK-NQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V + EGK ++K++ + +V L R++ G L Sbjct: 179 IRVTIAEGKFHQVKRMVGYCGKEVVDLQRLTMGTLVL 215 >gi|300811357|ref|ZP_07091854.1| pseudouridylate synthase [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] gi|300497721|gb|EFK32746.1| pseudouridylate synthase [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] Length = 241 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 115/233 (49%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR +V +I +V VNG + A V + V+G + ++ Sbjct: 3 RLDKFLANMKVGSRSQVHEIIKAGQVTVNGKVCRSAKQKVKEDAEVLVNGQAVV-YQQYH 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G+++ D + TV D L + ++ VGRLD +T GLLLLTNDG LA Sbjct: 62 YFLLNKPAGVLSATEDSR-QKTVLDLLKDQDRYQKIAPVGRLDKDTTGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWV 189 L P + Y G D++ + G+ ++ + G +++ + + + Sbjct: 121 QLLAPEYHVPKTYYALLAGVADEETAKAIAAGLTLKDGTELKPGQLKILRQDKDQEQSEI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 + + EGK ++K++F KV +L R+S GP L LA GS R ++++ L Sbjct: 181 EITITEGKYHQVKRMFASQGMKVLKLKRLSMGPLTLPADLAPGSYRPLTEEEL 233 >gi|297565186|ref|YP_003684158.1| pseudouridine synthase [Meiothermus silvanus DSM 9946] gi|296849635|gb|ADH62650.1| pseudouridine synthase [Meiothermus silvanus DSM 9946] Length = 245 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 67/217 (30%), Positives = 110/217 (50%), Gaps = 7/217 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 + T +R+ KV+A G+ SR+E+ ++ R+ V+G ++ A + + I VDG + Sbjct: 5 HLTKERLDKVLAHLGLGSRKEIHKLARAGRITVDGEVITDAGFKLDPRSARIAVDGEEVF 64 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E + L +KP G VT+ D DG S V L + + VGRLD +TEGLLL+T DG Sbjct: 65 YREFFHVLL-NKPAGYVTSTQDRDGPS-VTHLLEMVRDDWMPVGRLDKDTEGLLLITTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + + Y Q + G ++G ++TL G + Sbjct: 123 ELAHRLTHPRWKVPKRYYAELAEPATQADVEAFAAGFELEGEPLQPAELTL----GKDRR 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + +REG+ ++K++F +V L R+++GP +L Sbjct: 179 VELVIREGRYHQVKRMFAARGNRVVYLKRVAFGPLEL 215 >gi|74316453|ref|YP_314193.1| ribosomal large subunit pseudouridine synthase F [Thiobacillus denitrificans ATCC 25259] gi|74055948|gb|AAZ96388.1| pseudouridine synthase, Rsu [Thiobacillus denitrificans ATCC 25259] Length = 245 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 71/246 (28%), Positives = 113/246 (45%), Gaps = 30/246 (12%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK+++ G+ SRRE + I + V V+G + V I +D R+ ++ Sbjct: 4 PVRLSKLMSERGLCSRREADAFIERGLVFVDGKRVSELGTKVDPACAIRLDNAASRQQQQ 63 Query: 73 TRLWLYHKPIGLVTTHSDP----------------DGRSTVFDNLPSIFSRVISVGRLDI 116 L HKP+G V+ +P D R LP+ + GRLDI Sbjct: 64 RVTILLHKPVGYVSGQPEPGYQPAVALIRGETQWRDERRPGPAFLPAHLKGLAPAGRLDI 123 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 ++ GLL+LT DG +AR L + + Y VR G++D L LL G+ + G+ + Sbjct: 124 DSTGLLVLTQDGRVARQLIGDHSDVEKEYLVRVEGRLDARGLALLNHGLSLDGVRLRPAK 183 Query: 177 VTLDTQKGSNAW-----VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 V AW + L+EG+ R+I+++ E +V L R+ G +LG L G Sbjct: 184 V---------AWQNADQLRFSLKEGRKRQIRRMCELVGLRVVGLKRVRIGAVRLGDLPLG 234 Query: 232 STREVS 237 R ++ Sbjct: 235 RWRYLA 240 >gi|54309880|ref|YP_130900.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Photobacterium profundum SS9] gi|46914319|emb|CAG21098.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Photobacterium profundum SS9] Length = 372 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 65/211 (30%), Positives = 100/211 (47%), Gaps = 17/211 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K I+ G SRRE +++I Q RV +NG E VM D + VD PLR ER Sbjct: 18 PVRLNKFISDTGYCSRREADKLIDQGRVTINGTQPE-MGTKVMPDDEVLVDDKPLRAKER 76 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGG 129 +KP G+ T V DN+ R+ +GRLD ++GL+ LTNDG Sbjct: 77 PIYIALNKPTGVTCTTE-----RHVKDNIVDFIGHRKRIFPIGRLDKPSDGLIFLTNDGD 131 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNA 187 + + + Y VR Q+ + L + G+ I VTL +K ++ Sbjct: 132 IVNKILRAGNSHEKEYVVRVSHQITPEFLEKMASGVEILDT------VTLPCIVKKETDY 185 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 + L +G NR+I+++ E + V +L R+ Sbjct: 186 SFRITLTQGLNRQIRRMCEALGYDVYKLRRV 216 >gi|295090937|emb|CBK77044.1| ribosomal large subunit pseudouridine synthase F [Clostridium cf. saccharolyticum K10] Length = 271 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 66/224 (29%), Positives = 110/224 (49%), Gaps = 6/224 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ +G SRRE +R+I +V V+G + + + IE DG + +R Sbjct: 14 RLNKFLSESGFCSRREADRLIEAGKVLVDGAVAS-MGMKIREGQQIEADGTLISGKDRPV 72 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L +KP G+V T SD D + D + RV VGRLD ++EGL+L+TN G L + Sbjct: 73 VLLVNKPRGIVCTTSDRDRAENIVDFIGYPL-RVYPVGRLDKDSEGLILMTNQGELVNRI 131 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V ++ + LN ++KG+ I V +K +T GL Sbjct: 132 LKGRYGHEKEYLVSVDREITEQFLNRMRKGVKILDTVTRPCTVEKTGEKSFRIILTQGL- 190 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 NR+I+++ E ++V L R+ +L L G RE+++ Sbjct: 191 ---NRQIRRMCEALGYRVRTLKRVRIMNLRLDGLKTGEYREITR 231 >gi|229169278|ref|ZP_04296989.1| RNA pseudouridine synthase [Bacillus cereus AH621] gi|228614173|gb|EEK71287.1| RNA pseudouridine synthase [Bacillus cereus AH621] Length = 229 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 64/229 (27%), Positives = 118/229 (51%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I R +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRACINGEVCTHGAL-VNEGDIVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDG +A Sbjct: 61 VYIAFHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++++ G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKSFTDWFIDMMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L +G NR+I+++ F + V +L R+ +L L AG R+++ K L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEAGKWRDITPKEL 222 >gi|223985762|ref|ZP_03635806.1| hypothetical protein HOLDEFILI_03112 [Holdemania filiformis DSM 12042] gi|223962272|gb|EEF66740.1| hypothetical protein HOLDEFILI_03112 [Holdemania filiformis DSM 12042] Length = 237 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 68/218 (31%), Positives = 111/218 (50%), Gaps = 10/218 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K +A AG +R+ V+ ++ + RV+VNG +++ + D I+VDG + Sbjct: 3 RLDKFLAHAGFGTRKAVKELVRKGRVEVNGQRVKKDDQKIDERQDQIQVDGRIVTYETEV 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP G+V+ D TV D L + S + VGRLDI+TEGLLL+TNDG LA Sbjct: 63 YIML-NKPQGVVSATED-SRYETVLDCLETNRSDLFPVGRLDIDTEGLLLITNDGALAHD 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + Y V D ++ GI I D +V L ++ + + + Sbjct: 121 LLSPKKHVDKTYEVHLERPWDPQYEAAIQMGIRI-----SDEEVCLPATLRQTAEHIILL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 ++EGK ++K++ + +V L R++ GP +L L Sbjct: 176 TIQEGKFHQVKRMMHACDNEVVYLKRLTMGPLKLDAAL 213 >gi|224369318|ref|YP_002603482.1| RluB [Desulfobacterium autotrophicum HRM2] gi|223692035|gb|ACN15318.1| RluB [Desulfobacterium autotrophicum HRM2] Length = 230 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 73/226 (32%), Positives = 117/226 (51%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKA-ER 72 R+ K +A AG+ SRR E I + RV VN ++ + D +EVD P+ A E+ Sbjct: 2 RLQKFLAHAGVCSRRRGEVYILEGRVSVNHKVVISLGTKIDPEIDLVEVDKKPIVLASEK 61 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++++ +KP G+V++ S P G V D L I RV +GRLD ++ GLLLLT+DG L Sbjct: 62 AKIYIALNKPAGVVSSCSHP-GEKVVVD-LIDIKDRVYPIGRLDKDSVGLLLLTDDGNLH 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS + Y V ++ + L + GIV+ G +V ++ S+ + Sbjct: 120 NRLSHPSFDHEKEYVVETTAPINDEALAQMAAGIVLDGKITRKARV----RRLSDNRFNI 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L++G NR+I+++ +V L R+ G +LG L G R ++ Sbjct: 176 VLKQGINRQIRRMVTAVGNRVKLLKRVRMGSVRLGNLGTGKWRYLT 221 >gi|239617259|ref|YP_002940581.1| pseudouridine synthase [Kosmotoga olearia TBF 19.5.1] gi|239506090|gb|ACR79577.1| pseudouridine synthase [Kosmotoga olearia TBF 19.5.1] Length = 205 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 56/171 (32%), Positives = 97/171 (56%), Gaps = 3/171 (1%) Query: 58 DHIEVDGVPLRKAERTRL-WLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLD 115 D I +DG +R ++ R+ + +KP G +++ SD GR T+ D + I +V VGRLD Sbjct: 13 DSITLDGKKVRPRKQQRVVYALNKPRGYLSSMSDDRGRKTIADLIKGKIPEKVFHVGRLD 72 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD 174 ++TEGL++LTNDG LAR L PS++ + Y R G++ ++ L+ G+V++ G Sbjct: 73 MDTEGLIILTNDGELARKLSHPSSKIRKTYVARVTGKLSHHEIKRLENGVVLRDGFKTSG 132 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + + V + + EG REI+++F+ F+ V L R + G ++ Sbjct: 133 ASIRVIRASLRDTLVEIIIHEGHKREIREMFKVFDKHVLYLKRTAIGSLKV 183 >gi|332799735|ref|YP_004461234.1| pseudouridine synthase Rsu [Tepidanaerobacter sp. Re1] gi|332697470|gb|AEE91927.1| pseudouridine synthase Rsu [Tepidanaerobacter sp. Re1] Length = 242 Score = 89.4 bits (220), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 66/233 (28%), Positives = 123/233 (52%), Gaps = 10/233 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAE 71 P R+ K++A G SR++V+++I +V +NG+++ A V S D I V G + + Sbjct: 6 PARIDKILASCGYGSRKDVKKLIKSGQVSINGVIINDAGTLVNPSLDEIIVAGECIFYED 65 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGG 129 + + +KP +V++ D D +TV D L + ++ VGRLD + EGL+ LT+DG Sbjct: 66 NVYIMM-NKPQDVVSSTYD-DFETTVIDLLEGEYFHRKLFPVGRLDKDAEGLIFLTDDGK 123 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNA 187 +A L P + + Y V +G++++ + G+ ++ ++ + S+A Sbjct: 124 MAHRLLSPKNRVPKTYYVEVYGRLNESDVKAFAAGMELEDFTALPAELDILEKNNNISSA 183 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 +VT+ EGK +IK++ + +V L R+ GP +L L G R+++K+ Sbjct: 184 YVTI--YEGKFHQIKRMMKARGKEVTYLKRLFLGPLRLDEELEPGMWRKLTKE 234 >gi|261211343|ref|ZP_05925631.1| ribosomal large subunit pseudouridine synthase F [Vibrio sp. RC341] gi|260839298|gb|EEX65924.1| ribosomal large subunit pseudouridine synthase F [Vibrio sp. RC341] Length = 332 Score = 89.4 bits (220), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 67/226 (29%), Positives = 106/226 (46%), Gaps = 9/226 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +++I Q RV +NG E V D + +DG PLR ER Sbjct: 7 KRLNKFISETGFCSRREADKLIEQGRVTLNGAQPE-VGSKVTEQDEVCIDGKPLRSKERP 65 Query: 74 RLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 66 IYIALNKPTGITCTTERDVPGNIVDFIGH---HKRIFPIGRLDKPSDGLIFLTNDGDIVN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y VR + + + + G+ I +VT +TQ +T G Sbjct: 123 KILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYSFRIVLTQG 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L NR+I+++ E ++V +L R+ L + G R +S+ Sbjct: 183 L----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSE 224 >gi|332532521|ref|ZP_08408398.1| putative ribosomal RNA pseudouridine synthase [Pseudoalteromonas haloplanktis ANT/505] gi|332037942|gb|EGI74390.1| putative ribosomal RNA pseudouridine synthase [Pseudoalteromonas haloplanktis ANT/505] Length = 358 Score = 89.4 bits (220), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 68/225 (30%), Positives = 106/225 (47%), Gaps = 9/225 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE ++ I Q RV VNG E V V +TD + VDG PL+ + Sbjct: 22 KRLNKFISETGFCSRREADKYIEQGRVSVNGYSPE-MGVKVAATDVVLVDGKPLKATPKR 80 Query: 74 RLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 Y+KP+G+ TT S N P+ R+ +GRLD +EGL+ LTN+G + Sbjct: 81 VYIAYNKPVGITCTTESKIQSNIIRAVNYPT---RIFPIGRLDRPSEGLIFLTNEGDIVN 137 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V +++ + + G+ I +VT K +T G Sbjct: 138 KILRAGNNHEKEYVVTVDKPLNRQFVTKMANGVPILDTVTKKCKVTQTAPKEFKIVLTQG 197 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L NR+I+++ E+ ++V L R L L G R +S Sbjct: 198 L----NRQIRRMCEYLGYEVVTLKRTRIMNVTLKGLKVGQWRHLS 238 >gi|77405184|ref|ZP_00782282.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae H36B] gi|77411049|ref|ZP_00787403.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae CJB111] gi|77162872|gb|EAO73829.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae CJB111] gi|77176186|gb|EAO78957.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae H36B] Length = 240 Score = 89.4 bits (220), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 64/216 (29%), Positives = 109/216 (50%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + G+ SR +V+ ++ ++++ VNG V V D I+ +G L E+ Sbjct: 2 RLDKFLVECGLGSRTQVKLILKKKQISVNGNSETSPKVQVDEYRDEIKYNGT-LVSYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ HKP G+++ DP + TV D L V VGRLDI+T GLLL+TN+G LA Sbjct: 61 VYYMLHKPKGVISATDDPSHK-TVLDLLDKTARDKAVFPVGRLDIDTTGLLLITNNGELA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CY-GDMQVTLDTQKGSNAWV 189 + P + Y + G + +D + KGI+++ C +++ Q + V Sbjct: 120 HKMLSPKKHVDKCYEAKISGIMTEDDILAFDKGIILKDFTCLPALLEIVEVNQVKKQSLV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + ++EGK ++K++ +V L R+S G QL Sbjct: 180 KITIKEGKFHQVKRMVAACGKEVLELKRLSMGNLQL 215 >gi|293376750|ref|ZP_06622972.1| pseudouridylate synthase [Turicibacter sanguinis PC909] gi|325845685|ref|ZP_08168968.1| ribosomal large subunit pseudouridine synthase F [Turicibacter sp. HGF1] gi|292644616|gb|EFF62704.1| pseudouridylate synthase [Turicibacter sanguinis PC909] gi|325488286|gb|EGC90712.1| ribosomal large subunit pseudouridine synthase F [Turicibacter sp. HGF1] Length = 235 Score = 89.4 bits (220), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 71/226 (31%), Positives = 115/226 (50%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G ASRR +++IA+ RVKVNG + + V D + V+G +R A Sbjct: 2 RLNKFISDSGKASRRGADKLIAEGRVKVNG-RIAKIGDQVKPGDEVMVNGNIIRLARNHV 60 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ TT G N P RV ++GRLD +++GL+LLTNDG + Sbjct: 61 YLALNKPVGITCTTEKGVKGNIVDLVNHPL---RVFNIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + + + KG+ I G +VT ++ N +T GL Sbjct: 118 ILRAENNHEKEYIVSVDKPITPEFIEKMSKGVRILGQKTLPCKVTQISKYEFNIILTQGL 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 NR+I+++ E ++V RL R+ LG L G R+++KK Sbjct: 178 ----NRQIRRMCEVLGYEVYRLQRVRIMNITLGNLPVGQWRDLTKK 219 >gi|332365802|gb|EGJ43559.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK355] Length = 242 Score = 89.4 bits (220), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 72/222 (32%), Positives = 110/222 (49%), Gaps = 9/222 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L E+ Sbjct: 2 RLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIIVSGQRL-IYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISVTED-DRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P ++YR + G ++Q + GI ++ Q V LD K + Sbjct: 120 HAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFICQPAQLKIVELDEAK-ETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + L EGK ++K++ +V L R+ GP QL + L+ Sbjct: 179 VEITLAEGKFHQVKRMVASCGKEVTDLQRLRMGPLQLDSALS 220 >gi|327468371|gb|EGF13856.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK330] Length = 242 Score = 89.4 bits (220), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 70/222 (31%), Positives = 111/222 (50%), Gaps = 9/222 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A G+ SR +V++++ + V VNG + + + D I V G L E+ Sbjct: 2 RLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDEAADDIVVSGQRL-IYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATED-DHHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P ++YR + G ++Q + GI ++ + LD +K ++ Sbjct: 120 HAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAHLKILELDEEKEAS-L 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + L EGK ++K++ +V L R++ GP QL LA Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDPALA 220 >gi|320547064|ref|ZP_08041362.1| ribosomal small subunit pseudouridine synthase A [Streptococcus equinus ATCC 9812] gi|320448301|gb|EFW89046.1| ribosomal small subunit pseudouridine synthase A [Streptococcus equinus ATCC 9812] Length = 242 Score = 89.4 bits (220), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 69/229 (30%), Positives = 114/229 (49%), Gaps = 8/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + AG+ SR EV++++ +++V VNG L + D I G L E+ Sbjct: 2 RLDKFLVEAGVGSRTEVKQLLKKKQVLVNGKLETSPKTQIDEKLDKIVCQGQNLS-YEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYMLNKPKGVISATED-DHHKTVLDLLDKTAWDKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWV 189 + P ++Y + G + + + GI ++ Q+ + +K + + V Sbjct: 120 HAMLSPKKHVDKLYCAKVAGIMTDEDVKAFADGIELKDFTCQPAQLNIINADEKSNTSLV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + ++EGK ++K++ +V L R+S GP +L LA G R +S Sbjct: 180 EIVIKEGKFHQVKRMVLACGKEVTDLQRLSMGPLRLDDELALGEWRRLS 228 >gi|260767790|ref|ZP_05876725.1| ribosomal large subunit pseudouridine synthase F [Vibrio furnissii CIP 102972] gi|260617299|gb|EEX42483.1| ribosomal large subunit pseudouridine synthase F [Vibrio furnissii CIP 102972] Length = 347 Score = 89.4 bits (220), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 61/207 (29%), Positives = 102/207 (49%), Gaps = 7/207 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG L E V D + +D PLR E Sbjct: 5 TEKRLNKYISETGFCSRREADKLIEQGRVTINGQLPE-MGTKVSDDDEVCIDDKPLRSKE 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 64 KPVYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + D + + G+ I +VT +T+ +T Sbjct: 122 NKILRAGNNHEKEYVVRVDKAITADFIKQMSSGVRILDTVTLPCKVTQETKFSFRIVLTQ 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRI 218 GL NR+I+++ E ++V +L R+ Sbjct: 182 GL----NRQIRRMCEALGYEVFKLRRV 204 >gi|168484154|ref|ZP_02709106.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC1873-00] gi|172042547|gb|EDT50593.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC1873-00] gi|332203445|gb|EGJ17512.1| hypothetical protein SPAR93_0315 [Streptococcus pneumoniae GA47368] Length = 240 Score = 89.4 bits (220), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 71/216 (32%), Positives = 105/216 (48%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L + V VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSN-AWV 189 VL P + Y + G + Q+ + KGI ++ C L T N + + Sbjct: 120 HVLLSPKRHVDKTYLAQVKGIMTQEDVETFIKGIPLKDFTCQPARLEILSTDAEKNQSQI 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EGK +IK++ + +V L R++ G L Sbjct: 180 RVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVL 215 >gi|315179378|gb|ADT86292.1| pseudouridine synthase family 1 protein [Vibrio furnissii NCTC 11218] Length = 347 Score = 89.4 bits (220), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 61/207 (29%), Positives = 102/207 (49%), Gaps = 7/207 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG L E V D + +D PLR E Sbjct: 5 TEKRLNKYISETGFCSRREADKLIEQGRVTINGQLPE-MGTKVSDDDEVCIDDKPLRSKE 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 64 KPVYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + D + + G+ I +VT +T+ +T Sbjct: 122 NKILRAGNNHEKEYVVRVDKAITADFIKQMSSGVRILDTVTLPCKVTQETKFSFRIVLTQ 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRI 218 GL NR+I+++ E ++V +L R+ Sbjct: 182 GL----NRQIRRMCEALGYEVFKLRRV 204 >gi|239828089|ref|YP_002950713.1| pseudouridine synthase [Geobacillus sp. WCH70] gi|239808382|gb|ACS25447.1| pseudouridine synthase [Geobacillus sp. WCH70] Length = 240 Score = 89.4 bits (220), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 72/228 (31%), Positives = 116/228 (50%), Gaps = 8/228 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VK++G++++ V T+ + V G + E Sbjct: 4 RIDKMLANMGYGTRKEVKKLLKSGVVKIDGVVVKDPKTQVNPTEQVVTVRGKEVEYKEFI 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGGL 130 L + +KP G+V+ D TV D L +FS VGRLD +TEGLLLLTNDG L Sbjct: 64 YLMM-NKPPGVVSATEDV-VEETVVDLLEEEDRVFSP-FPVGRLDKDTEGLLLLTNDGQL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y G+V ++ + ++GIV+ + + G + V Sbjct: 121 AHQLLSPKKHVPKTYFAVIDGEVTEEDIASFRRGIVLDDGYETKPAELVVLKSGLRSDVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 V + EGK ++K++F +V L RI GP L +L G RE++ Sbjct: 181 VTITEGKFHQVKRMFRAIGKRVIYLKRIQMGPLVLDPSLDLGEYRELT 228 >gi|319937384|ref|ZP_08011791.1| pseudouridine synthase [Coprobacillus sp. 29_1] gi|319807750|gb|EFW04343.1| pseudouridine synthase [Coprobacillus sp. 29_1] Length = 234 Score = 89.4 bits (220), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 63/206 (30%), Positives = 105/206 (50%), Gaps = 4/206 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K++A +G +R+EV+ I + V VNG + E+ + V TD + V+G + E Sbjct: 2 RLDKLLAHSGFGTRKEVKDFIKKGIVTVNGEIAEKDKMQVDPQTDEVCVNG-EVITYEEF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G V+ D + TV D + + + VGRLD++TEGLLL++NDG LA Sbjct: 61 VYYMLNKPAGYVSATED-NLYPTVVDLIDDYYRDDLFPVGRLDVDTEGLLLISNDGVLAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY + +G V + GI I ++ + + + + + V Sbjct: 120 QLLSPKKHCPKVYYAKINGIVTNQDVEAFFNGITIDDYQCQSAELKILSTSATTSEIEVT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRI 218 + EGK ++KK+F +V L RI Sbjct: 180 IYEGKFHQVKKMFIAVGKEVTYLKRI 205 >gi|319745443|gb|EFV97749.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae ATCC 13813] Length = 240 Score = 89.4 bits (220), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 64/216 (29%), Positives = 109/216 (50%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + G+ SR +V+ ++ ++++ VNG V V D I+ +G L E+ Sbjct: 2 RLDKFLVECGLGSRTQVKLILKKKQISVNGNSETSPKVQVDEYRDEIKYNGT-LVSYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ HKP G+++ DP + TV D L V VGRLDI+T G LLLTN+G LA Sbjct: 61 VYYMLHKPKGVISATDDPSHK-TVLDLLDKTARDKAVFPVGRLDIDTTGFLLLTNNGELA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CY-GDMQVTLDTQKGSNAWV 189 + P + Y + G + +D + KGI+++ C +++ Q + + V Sbjct: 120 HKILSPKKHVDKCYEAKISGIMTEDDILAFDKGIILKDFTCLPALLEIVEVNQVKNQSLV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + ++EGK ++K++ +V L R+S G QL Sbjct: 180 KITIKEGKFHQVKRMVAACGKEVLELKRLSMGNLQL 215 >gi|255745552|ref|ZP_05419500.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholera CIRS 101] gi|262158374|ref|ZP_06029490.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae INDRE 91/1] gi|262170186|ref|ZP_06037874.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae RC27] gi|255736627|gb|EET92024.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholera CIRS 101] gi|262021355|gb|EEY40068.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae RC27] gi|262029815|gb|EEY48463.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae INDRE 91/1] Length = 189 Score = 89.4 bits (220), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 58/186 (31%), Positives = 94/186 (50%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL AER ++ L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LT Sbjct: 6 PLSPAER-KVILFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILT 62 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 63 NDGILQARLTQPQSKAPKTYWVQVEGSPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTL 122 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + L EG+NR+++++ + RLIR S G + LG L G Sbjct: 123 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 182 Query: 232 STREVS 237 REV+ Sbjct: 183 EWREVT 188 >gi|22298188|ref|NP_681435.1| putative pseudouridylate synthase [Thermosynechococcus elongatus BP-1] gi|22294367|dbj|BAC08197.1| tll0646 [Thermosynechococcus elongatus BP-1] Length = 195 Score = 89.0 bits (219), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 60/188 (31%), Positives = 93/188 (49%), Gaps = 20/188 (10%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L +KP ++ D GRST+ D +P V GRLD ++EGL+LLTNDG L L Sbjct: 7 LLYKPYRVLCQFQDQKGRSTLKDYVP--IPDVYPAGRLDYDSEGLVLLTNDGWLQHRLTD 64 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P R Y V+ G+ D L+ L G+VIQG +V + Q Sbjct: 65 PRYGHPRTYWVQVEGKPDTAALSQLAAGVVIQGYRTRPARVEVLDQDPPLPPRYPPIRYR 124 Query: 185 ---SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV---SK 238 + W+++ LREG+NR+++++ + RL+R++ QLG L G RE+ + Sbjct: 125 RHIPSQWLSLTLREGRNRQVRRMTAAVGFPTLRLVRVAIANLQLGNLAPGQWREILPLER 184 Query: 239 KILREQLG 246 ++L + G Sbjct: 185 QVLWQSCG 192 >gi|295108497|emb|CBL22450.1| ribosomal small subunit pseudouridine synthase A [Ruminococcus obeum A2-162] Length = 257 Score = 89.0 bits (219), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 70/231 (30%), Positives = 113/231 (48%), Gaps = 21/231 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A AG +R EV+++I + +V+VNG+ ++ + V+ D + + G + A Sbjct: 6 RLDKFLADAGKGTRSEVKKIIQKGQVQVNGVPAKKPEMKVVPENDVVVLSGETVGAAPEF 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G V+ D + R TV + +PS + VGRLD +TEGLLL+T+DG LA Sbjct: 66 VYYLLNKPAGCVSATEDRNDR-TVMEYVPSDRKGLFPVGRLDKDTEGLLLITDDGMLAHE 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ----------GICYGDMQVTLDTQK 183 L P + Y VR G++ + + L+ G+ I I G + D+Q Sbjct: 125 LLAPGKHVDKTYFVRVEGKLTVENIRNLENGVDIGEEKMTMPAKVEIVGGSWEGAGDSQS 184 Query: 184 GS---------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G + + + EGK ++K++ V L RIS GP L Sbjct: 185 GRVRIENLPEVYTELHLTIHEGKFHQVKRMMAAVGNPVIYLKRISMGPLTL 235 >gi|238749634|ref|ZP_04611139.1| Ribosomal large subunit pseudouridine synthase E [Yersinia rohdei ATCC 43380] gi|238712289|gb|EEQ04502.1| Ribosomal large subunit pseudouridine synthase E [Yersinia rohdei ATCC 43380] Length = 208 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 63/211 (29%), Positives = 105/211 (49%), Gaps = 20/211 (9%) Query: 42 VNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL 101 +N ++ VN ST + G P A R+ L++KP ++ +D GR+T+ + Sbjct: 1 MNKFSVKNHKVNRFSTKALASQGKP---ASPRRVLLFNKPFDVLPQFTDESGRTTLKGFI 57 Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 P F+ V + GRLD ++EGLL+LTNDG L L P+ + +VY V+ G D L+ L Sbjct: 58 P--FTDVYAAGRLDRDSEGLLVLTNDGKLQAKLTQPAQKTGKVYFVQVEGTPGDDALSQL 115 Query: 162 KKGIVIQ-GICYGDMQVTLDTQKG--------------SNAWVTVGLREGKNREIKKVFE 206 ++G+V++ G +D + W+ + L EG+NR+++++ Sbjct: 116 RQGMVLKDGPTLPAGAELVDEPEWLWPRNPPIRERKTIPTCWMKITLFEGRNRQVRRMTA 175 Query: 207 FFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + RLIR S G LG L G +E++ Sbjct: 176 HIGFPTLRLIRFSMGNLSLGDLKPGEWKEIN 206 >gi|332359960|gb|EGJ37774.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1056] Length = 242 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 72/222 (32%), Positives = 109/222 (49%), Gaps = 9/222 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A G+ SR +V++ + + V VNG + + T D I V G L E+ Sbjct: 2 RLDKFLAENGLGSRAQVKQFLKKGLVLVNGRAEKSPKTQIDETADEIVVSGQRL-TYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATED-DRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P ++YR + G ++Q + GI ++ Q V LD K + Sbjct: 120 HAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAQLKIVELDEAK-ETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + L EGK ++K++ +V L R++ G QL + LA Sbjct: 179 VEITLAEGKFHQVKRMVASCGKEVTDLQRLTMGSLQLDSALA 220 >gi|196034318|ref|ZP_03101727.1| RNA pseudouridine synthase family protein [Bacillus cereus W] gi|218905776|ref|YP_002453610.1| RNA pseudouridine synthase family protein [Bacillus cereus AH820] gi|228917189|ref|ZP_04080746.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228929598|ref|ZP_04092616.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|229124116|ref|ZP_04253308.1| RNA pseudouridine synthase [Bacillus cereus 95/8201] gi|254724523|ref|ZP_05186306.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A1055] gi|195992860|gb|EDX56819.1| RNA pseudouridine synthase family protein [Bacillus cereus W] gi|218539434|gb|ACK91832.1| RNA pseudouridine synthase family protein [Bacillus cereus AH820] gi|228659418|gb|EEL15066.1| RNA pseudouridine synthase [Bacillus cereus 95/8201] gi|228829985|gb|EEM75604.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228842390|gb|EEM87481.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] Length = 229 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 119/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEANSCSRRETDRLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGITKPCKVT----RVDKSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|160893004|ref|ZP_02073792.1| hypothetical protein CLOL250_00542 [Clostridium sp. L2-50] gi|156865087|gb|EDO58518.1| hypothetical protein CLOL250_00542 [Clostridium sp. L2-50] Length = 239 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 72/238 (30%), Positives = 118/238 (49%), Gaps = 25/238 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A I SR +V++ I + + VNGI+ + + + D I +G + ++ Sbjct: 2 RIDKFLANQDIGSRSQVKQYIKKGMISVNGIVCKSPEQKIDENADQISYNG-KVIGYQKH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G V+ +D + TV D L + + VGRLDI+TEGLLL+T+DG L+ Sbjct: 61 HYYMLNKPSGCVSATND-NLHITVLDLLKASVPVKNLFPVGRLDIDTEGLLLITDDGELS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-----------LD 180 L PS + Y R G ++ + K+G+ I GD + T L+ Sbjct: 120 HNLLSPSKHVAKTYFARIDGLATEEHIKAFKEGLDI-----GDDKPTKPGTLVIKNTDLN 174 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 TQ + + + + EG+ ++K+ FE KV L R+S G L LA G RE++ Sbjct: 175 TQ---TSEILLTITEGRYHQVKRSFEALGMKVTYLKRLSMGSLTLDEALAPGEFRELT 229 >gi|319787503|ref|YP_004146978.1| pseudouridine synthase [Pseudoxanthomonas suwonensis 11-1] gi|317466015|gb|ADV27747.1| pseudouridine synthase [Pseudoxanthomonas suwonensis 11-1] Length = 242 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 71/237 (29%), Positives = 121/237 (51%), Gaps = 19/237 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-----RK 69 R++K IA G SRRE +R+IA++RV VNG AV V D + VDG PL R Sbjct: 7 RLNKHIAGTGFCSRREADRLIAERRVTVNGQPAGVGAV-VGEGDEVRVDGQPLKLRAARP 65 Query: 70 AERTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLT 125 +R +++ +KP+G+ T S+V N+ R+ +GRLD ++EGL+LLT Sbjct: 66 GKRRHVYIALNKPVGITCTTE-----SSVKGNIVDFVGHEQRIFPIGRLDKDSEGLILLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 ++G + + + Y V + V + L + +G+ I + M + + + Sbjct: 121 SNGDIVNEILRAENGHQKEYLVAVNKPVTDEFLRGMSRGVRI----HNQMTLPCRASRIA 176 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L++G NR+I+ + F+++V +L R+ +LGTL G R ++ + LR Sbjct: 177 KFGFRIVLQQGLNRQIRLMAAAFDYRVTQLRRVRIDNIRLGTLKPGQWRNLTPEELR 233 >gi|315651232|ref|ZP_07904262.1| ribosomal small subunit pseudouridine synthase A [Eubacterium saburreum DSM 3986] gi|315486528|gb|EFU76880.1| ribosomal small subunit pseudouridine synthase A [Eubacterium saburreum DSM 3986] Length = 235 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 68/234 (29%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 RV K+++ G SR E++R + +V++N +++ + D + DG + E Sbjct: 7 RVDKILSELGFGSRTEIKRYVKAGKVRINENPVKKPEEKINTEIDRLYFDGKDVV-IEEF 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V D + TV + + S ++ VGRLD++TEGLL+LTNDG L Sbjct: 66 ETYVLYKPAGYVCATFD-NVHKTVMELIDSNRKNIVPVGRLDLDTEGLLILTNDGNLNHR 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGSNAWVTV 191 L PS+ +VY +F G + D + + KG+ I GD +V+ + S V + Sbjct: 125 LVSPSSHVDKVYYAKFDGVLADDAIEMTAKGLDI-----GDGEVSKPAKLEIVSKNEVLL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKILRE 243 + EGK ++K++ + +V L R ++G L L G +R++S + +R+ Sbjct: 180 TIHEGKFHQVKRMIKALGGEVTYLKRTAFGGLGLDDLNLKRGESRKISMEEMRK 233 >gi|152977062|ref|YP_001376579.1| pseudouridine synthase [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|152025814|gb|ABS23584.1| pseudouridine synthase [Bacillus cytotoxicus NVH 391-98] Length = 242 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 116/229 (50%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ V+++G ++ A +V + + + G + E Sbjct: 2 RLDKLLANMGYGSRKEVKKLLKDGVVRIDGKPVKDAKFHVNIEKQEVTIYGEVVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF+ VGRLDI+TEGLLLLTNDG L Sbjct: 62 YLMM-HKPQGVISATED-DHHETVVDLLEFEDAIFNP-FPVGRLDIDTEGLLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P + Y G V + + KG+V+ G ++T+ + + Sbjct: 119 THQLLSPKKHVPKKYYAHIEGVVTEKDVEDFAKGVVLDDGYETKPGELTI-LNSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R+ GP L L G RE++ Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRVEMGPLTLDEELELGQYRELT 226 >gi|224543302|ref|ZP_03683841.1| hypothetical protein CATMIT_02502 [Catenibacterium mitsuokai DSM 15897] gi|224523835|gb|EEF92940.1| hypothetical protein CATMIT_02502 [Catenibacterium mitsuokai DSM 15897] Length = 231 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 65/213 (30%), Positives = 108/213 (50%), Gaps = 6/213 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR++V++++ V NG + + +V D I V + ++ Sbjct: 2 RIDKLLAHCGYGSRKDVKQLLKDGLVTSNGKKIRSSGAHVDPEKDEIYVGDEKINYSKYV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V+ D + TV D + + VGRLD++TEGLLL+TNDG LA Sbjct: 62 -YYMLNKPDGYVSATED-NVYPTVIDLIKEYHPGLFPVGRLDVDTEGLLLITNDGQLAHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVG 192 L P T + Y V+ G++ +N KGI ++ C + + + S VT+ Sbjct: 120 LLSPRTHVPKTYYVKVKGRLGIGDINAFTKGIPLEDFTCMPSYLKIIKSDEISECEVTI- 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EGK ++K++F+ +V L RIS G +L Sbjct: 179 -YEGKFHQVKRMFQACGKEVVYLKRISMGELKL 210 >gi|120612927|ref|YP_972605.1| RNA-binding S4 domain-containing protein [Acidovorax citrulli AAC00-1] gi|120591391|gb|ABM34831.1| RNA-binding S4 domain protein [Acidovorax citrulli AAC00-1] Length = 264 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 79/245 (32%), Positives = 116/245 (47%), Gaps = 31/245 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ SRRE + IA V+VNG + + V TD IEVD + ER Sbjct: 18 RLNKRMAELGLCSRREADDWIASGWVRVNGQVAA-MGLQVAPTDRIEVDPAARGQQERQA 76 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL----------------PSIFSRVISVGRLDINT 118 L HKP+G V+ ++ DG + + P + GRLDI++ Sbjct: 77 TILLHKPMGYVSGQAE-DGHTPAVALINPRTHWREDPSRQRFSPPQLRGLAPCGRLDIDS 135 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFH-GQVDQDKLNLLKKGIVIQGICYGDMQV 177 GLL+LT DG +AR L ++ + Y VR H G + D + G + + +C+G + Sbjct: 136 VGLLVLTQDGRVARHLIGEDSEVEKEYLVRVHYGDIATDVQSAFPAGQLAR-LCHG---L 191 Query: 178 TLDTQKGSNA---W-----VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 +LD Q A W + L+EGK R+I+++ E KV L RI G LG L Sbjct: 192 SLDGQALKPAKVEWQNPEQLRFVLKEGKKRQIRRMCELVGLKVVGLKRIRIGRVVLGNLP 251 Query: 230 AGSTR 234 G R Sbjct: 252 VGQWR 256 >gi|318606116|emb|CBY27614.1| ribosomal large subunit pseudouridine synthase E; LSU Psi2457 [Yersinia enterocolitica subsp. palearctica Y11] Length = 208 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 56/179 (31%), Positives = 94/179 (52%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GRST+ + +P F+ V + GRLD ++EGLL+LTNDG L Sbjct: 30 RVLLFNKPFDVLPQFTDEAGRSTLKEFIP--FNDVYAAGRLDRDSEGLLVLTNDGKLQAR 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------- 184 L P+ + +VY V+ G D+D L+ L+ GI ++ L ++ Sbjct: 88 LTQPAQKTGKVYFVQVEGLPDEDALSQLRTGITLKDGPTLPAGAELVSEPAWLWPRHPPI 147 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR S G LG L G +E++ Sbjct: 148 RERKAIPTSWLKITLFEGRNRQVRRMTAHIGFPTLRLIRFSIGNLSLGDLQPGEWKEIN 206 >gi|294791854|ref|ZP_06757002.1| ribosomal small subunit pseudouridine synthase A [Veillonella sp. 6_1_27] gi|294457084|gb|EFG25446.1| ribosomal small subunit pseudouridine synthase A [Veillonella sp. 6_1_27] Length = 232 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 115/229 (50%), Gaps = 13/229 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A SR+EV ++I +RV +NG + + ++ + D + VDG + T Sbjct: 2 RLDKLLANKAYGSRKEVHQLIKDRRVTINGSITTKKDTHIDIDVDIVAVDG---KVVSTT 58 Query: 74 RLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGG 129 +L+ +HKP G VT D + V D LP F + V+ VGRLD +TEGLLLLTNDG Sbjct: 59 QLYYVKFHKPKGYVTAVEDSN-HPVVMDLLPLEFIKMGVVPVGRLDKDTEGLLLLTNDGV 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + +VY V F G + + + +K+GI++ G + + S V Sbjct: 118 WGHSIINGNKHVPKVYYVEFEGTLSDEGIQRIKEGILLGD---GTQCKPAEIEFVSLHSV 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 V + EGK ++K++ V L R++ G L G GS E++ Sbjct: 175 HVTIEEGKYHQVKRMISAAGGTVTYLKRLTIGHIDLSGIEEVGSAMELT 223 >gi|104773810|ref|YP_618790.1| pseudouridylate synthase [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] gi|116513816|ref|YP_812722.1| 16S rRNA uridine-516 pseudouridylate synthase related pseudouridylate synthase [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] gi|103422891|emb|CAI97553.1| Pseudouridylate synthase [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] gi|116093131|gb|ABJ58284.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] gi|325125474|gb|ADY84804.1| Ribosomal large subunit pseudouridine synthase B [Lactobacillus delbrueckii subsp. bulgaricus 2038] Length = 241 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 114/233 (48%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR +V +I +V VNG + A V + V+G + ++ Sbjct: 3 RLDKFLANMKVGSRSQVHEIIKAGQVTVNGKVCRSAKQKVKEDAEVLVNGQAVV-YQQYH 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G+++ D + TV D L + ++ VGRLD +T GLLLLTNDG LA Sbjct: 62 YFLLNKPAGVLSATEDSR-QKTVLDLLKDQDRYQKIAPVGRLDKDTTGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWV 189 L P + Y G D++ + G+ ++ + G + + + + + Sbjct: 121 QLLAPEYHVPKTYYALLAGVADEETAKAIAAGLTLKDGTELKPGQLNILRQDKDQEQSEI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 + + EGK ++K++F KV +L R+S GP L LA GS R ++++ L Sbjct: 181 EITITEGKYHQVKRMFASQGMKVLKLKRLSMGPLTLPADLAPGSYRPLTEEEL 233 >gi|225621236|ref|YP_002722494.1| pseudouridylate synthase [Brachyspira hyodysenteriae WA1] gi|225216056|gb|ACN84790.1| pseudouridylate synthase [Brachyspira hyodysenteriae WA1] Length = 229 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 73/244 (29%), Positives = 120/244 (49%), Gaps = 29/244 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +ASRRE +R+I VKVNGI+ A V D IE + + + + Sbjct: 2 RLNKYIASLNLASRREADRLIQNGNVKVNGIINTNPATQVDENDKIEC---SIEQYKENK 58 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +++ +KP G V + + +G+ +++ + F + VGRLD ++ GL+L TNDG A+ Sbjct: 59 IYIKLNKPRGYVVSSNKNEGKP-IYNLIKKDFDNIYPVGRLDKDSSGLILFTNDGVFAKQ 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT--- 190 + +T + Y VR + L L+ GI +LD QK A V Sbjct: 118 IIGENTNCEKEYYVRVDDNIPDGALQKLEYGI------------SLDGQKLKPAKVKRVN 165 Query: 191 -----VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS----TREVSKKIL 241 + L EGKNR+I+++ + ++V L R+ L L G+ T+E + IL Sbjct: 166 KNSFHIILTEGKNRQIRRMCQKVGFEVIILKRLRISGILLEDLKEGTFKSLTKEEIESIL 225 Query: 242 REQL 245 + +L Sbjct: 226 KNEL 229 >gi|313123424|ref|YP_004033683.1| pseudouridine synthase [Lactobacillus delbrueckii subsp. bulgaricus ND02] gi|312279987|gb|ADQ60706.1| Pseudouridine synthase [Lactobacillus delbrueckii subsp. bulgaricus ND02] Length = 241 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 115/233 (49%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR +V +I +V VNG + A V + V+G + ++ Sbjct: 3 RLDKFLANMKVGSRSQVHEIIKAGQVTVNGKVCRSAKQKVKEDAEVLVNGQAVI-YQQYH 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G+++ D + TV D L + ++ VGRLD +T GLLLLTNDG LA Sbjct: 62 YFLLNKPAGVLSATED-SRQKTVLDLLKDQDSYQKIAPVGRLDKDTTGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWV 189 L P + Y G D++ + G+ ++ + G +++ + + + Sbjct: 121 QLLAPEYHVPKPYYALLAGVADEETAKAIAAGLTLKDGTELKPGQLKILRQDKDQEQSEI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 + + EGK ++K++F KV +L R+S GP L LA GS R ++++ L Sbjct: 181 EITITEGKYHQVKRMFASQGMKVLKLKRLSMGPLTLPADLAPGSYRPLTEEEL 233 >gi|293115329|ref|ZP_05790945.2| ribosomal small subunit pseudouridine synthase A [Butyrivibrio crossotus DSM 2876] gi|292810441|gb|EFF69646.1| ribosomal small subunit pseudouridine synthase A [Butyrivibrio crossotus DSM 2876] Length = 241 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 71/215 (33%), Positives = 105/215 (48%), Gaps = 8/215 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K +A G SR E++ I + V +NG ++ A + D + ++ E Sbjct: 7 RIDKYLADMGAGSRTEIKDDIRKGLVYINGNKVKSAGEKADTLNDEVAYKENIIKYIEFE 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP G+V+ D + TV D + S + VGRLD +TEGLLLLTNDG LA Sbjct: 67 YILL-NKPAGVVSATEDRKEK-TVLDIIDSKRKDLFPVGRLDKDTEGLLLLTNDGMLAHE 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWVT 190 L P + Y V G + + L K GI + ++Q+ KGS A++T Sbjct: 125 LLSPKKHVDKKYYVETDGLLTDEHRKLFKNGIKVDDEFTAKEAELQILSSGDKGSKAYLT 184 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + REGK ++K++ E V L RIS GP L Sbjct: 185 I--REGKYHQVKRMMEAVGNTVTYLKRISMGPLTL 217 >gi|256959950|ref|ZP_05564121.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis Merz96] gi|256950446|gb|EEU67078.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis Merz96] Length = 260 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 75/255 (29%), Positives = 133/255 (52%), Gaps = 15/255 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ SR+ V+R+I ++V V+GI+ + NV I+V G + + +T Sbjct: 2 RLDKLLEELQFGSRKTVKRIIRGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLI--SHKT 59 Query: 74 RLW-LYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + +KP G+V+ SD ++ + D P ++ VGRLD +TE LLLLT++ Sbjct: 60 HVYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYP----VGRLDGDTERLLLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G L L P+ + + Y V+ +G V + K GIV+Q GI ++T+ + Sbjct: 116 GQLGYQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETE 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQL 245 + V + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L Sbjct: 176 SHVFLTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLL 235 Query: 246 GPHLLEEAQVNLDAP 260 +E+ Q + P Sbjct: 236 PYFFIEKQQTSKALP 250 >gi|332162068|ref|YP_004298645.1| putative pseudouridine synthase [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|325666298|gb|ADZ42942.1| putative pseudouridine synthase [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|330860065|emb|CBX70391.1| ribosomal large subunit pseudouridine synthase E [Yersinia enterocolitica W22703] Length = 208 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 56/179 (31%), Positives = 94/179 (52%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GRST+ + +P F+ V + GRLD ++EGLL+LTNDG L Sbjct: 30 RVLLFNKPFDVLPQFTDEAGRSTLKEFIP--FNDVYAAGRLDRDSEGLLVLTNDGKLQAR 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------- 184 L P+ + +VY V+ G D+D L+ L+ GI ++ L ++ Sbjct: 88 LTQPAQKTGKVYFVQVEGLPDEDALSQLRTGITLKDGPTLPAGAELVSEPAWLWPRQSPI 147 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR S G LG L G +E++ Sbjct: 148 RERKAIPTSWLKITLFEGRNRQVRRMTAHIGFPTLRLIRFSIGNLSLGDLQPGEWKEIN 206 >gi|311031252|ref|ZP_07709342.1| ribosomal small subunit pseudouridine synthase A [Bacillus sp. m3-13] Length = 236 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 70/219 (31%), Positives = 113/219 (51%), Gaps = 15/219 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-AERT 73 R+ K++A +G +R+EV++++ VKV+G +++ A V+V EV V + Sbjct: 2 RLDKMLANSGFGTRKEVKKLLKTGVVKVDGNVVKDAKVHVDP----EVQEVTVHDDIVEY 57 Query: 74 RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTND 127 R ++Y HKP GL++ D + TV D L +F VGRLD +TEGLLLLTND Sbjct: 58 REFIYLMMHKPPGLLSATED-HRQETVVDILQEEDKMFEP-FPVGRLDKDTEGLLLLTND 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSN 186 G LA L P + Y + G+V + + KKG+ + Y + L + G Sbjct: 116 GQLAHQLLSPKKHVPKTYYAKIDGEVTTEDMEAFKKGVTLDD-GYETLPAELVILEAGPE 174 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + + + EGK ++K++F+ V L R+S G +L Sbjct: 175 SQIEITIVEGKFHQVKRMFQAVGKTVTYLKRLSMGELKL 213 >gi|170720236|ref|YP_001747924.1| pseudouridine synthase [Pseudomonas putida W619] gi|169758239|gb|ACA71555.1| pseudouridine synthase [Pseudomonas putida W619] Length = 233 Score = 89.0 bits (219), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 65/217 (29%), Positives = 104/217 (47%), Gaps = 4/217 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A +R++V ++ Q+RV+V+G + V IEVD L+ R Sbjct: 2 RLDRFLANLPSYNRQQVRLLLVQRRVRVDGETVADPRAEVREFSRIEVDDQLLQAGRPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 + HKP+G V+ D R TV D LP + + GRLD NT GL++LTNDG +R Sbjct: 62 YLMLHKPVGCVSATHDSQHR-TVLDLLPEPLRADLHIAGRLDYNTTGLMILTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+T+ + Y V ++ + + G + LD A + + Sbjct: 121 LTQPATKLPKHYLVETEDEIGAHYIEKFRAGFYFAFEDLTTLPAQLDILGPRTARLAI-- 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EG+ ++K++F +F+ KV L R + G QL LA Sbjct: 179 IEGRYHQVKRMFGYFDNKVVGLHRETMGAIQLDPGLA 215 >gi|300778899|ref|ZP_07088757.1| ribosomal large subunit pseudouridine synthase F [Chryseobacterium gleum ATCC 35910] gi|300504409|gb|EFK35549.1| ribosomal large subunit pseudouridine synthase F [Chryseobacterium gleum ATCC 35910] Length = 240 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 58/207 (28%), Positives = 108/207 (52%), Gaps = 11/207 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRR ++++ + R+K+NG + E V D +EVDG P+R+ + Sbjct: 5 RINKYLSEVGYCSRRAADKLLEEGRIKINGKIPE-LGTKVSDEDLVEVDGKPIREPQEKP 63 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +++ ++KP+G+V T ++ + D N P R+ +GRLD +EGL+LLT+DG + Sbjct: 64 VYIVFNKPVGIVCTTDTKREKNNIVDYINHPK---RIFPIGRLDKPSEGLILLTSDGDIV 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + L ++ G+ I +V +K + Sbjct: 121 NKILRARNNHEKEYLVRVDKPITPKFLEKMRNGVPILDTITRKCKV----EKIDEMNFRI 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRI 218 L +G NR+I+++ E+ ++V +L RI Sbjct: 177 ILTQGLNRQIRRMCEYLGYEVKKLKRI 203 >gi|312899113|ref|ZP_07758491.1| conserved hypothetical protein [Megasphaera micronuciformis F0359] gi|310619780|gb|EFQ03362.1| conserved hypothetical protein [Megasphaera micronuciformis F0359] Length = 237 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 70/228 (30%), Positives = 112/228 (49%), Gaps = 8/228 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K++ +G +R+E++ + V VNG ++ ++V V + V G + + E Sbjct: 3 RLDKLLGHSGYGTRKEIKSLCKSGDVTVNGEIVRDSSVKVDEGATVIVAGEKV-EYEAVS 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP G+V+ D R TV D LPS + SRV VGRLDI+T GLLLL+NDG A Sbjct: 62 YLMLHKPAGVVSATQDSRVR-TVLDILPSRYAASRVAPVGRLDIDTTGLLLLSNDGTWAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P +VY + G + D GIV++ G + +K + + + Sbjct: 121 KVISPKKHVPKVYEAQVEGVIPADVGERFAAGIVLED---GVECLPARAEKTAEGRLQIT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++ V L R G L L AG R+++K+ Sbjct: 178 VCEGKFHQVKRMCSVVGLTVTSLHRSRIGGLALDKNLQAGEYRKLTKE 225 >gi|262365460|gb|ACY62017.1| RNA pseudouridylate synthase-family protein [Yersinia pestis D182038] Length = 152 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 51/117 (43%), Positives = 77/117 (65%), Gaps = 6/117 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG--VPLRKA 70 +++ K++ARAG SRRE+E +I Q RV V+G + + V V + I +DG + ++++ Sbjct: 29 EKLQKILARAGHGSRREIEAIIQQGRVSVDGKVSKLGDRVEVTQSTKIRLDGHLLSIKES 88 Query: 71 ER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLL 124 E R+ Y+KP G + T +DP+GR TVFD LP + SR ++VGRLD+NT GLLL Sbjct: 89 EENVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLF 145 >gi|257870825|ref|ZP_05650478.1| pseudouridine synthase [Enterococcus gallinarum EG2] gi|257804989|gb|EEV33811.1| pseudouridine synthase [Enterococcus gallinarum EG2] Length = 241 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 117/233 (50%), Gaps = 9/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K +A G SR+EV++ I + V VNG ++ V D + G L + ++ Sbjct: 2 RLDKFLADMGYGSRKEVKQAIKKGVVAVNGQQVKSDKFQVAEQEDQVSFAG-ELVRYQKD 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ +DP+ TV D + R + VGRLD +TEGLLL+TNDG LA Sbjct: 61 FYYLLNKPAGVISATTDPE--KTVLDLFAAEDYRRDLFPVGRLDKDTEGLLLITNDGQLA 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWV 189 L P + Y G + ++ + +GI + G Q+T+ ++ + + Sbjct: 119 HRLLSPKKHVEKEYYAEVRGIMTEEDRHQFLQGIELDGETLMPAQLTILKVDEQAETSTI 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 T+ L EGK ++K++ + +V L R G QL LA G R V++K L Sbjct: 179 TLILHEGKFHQVKRMVQAVGKEVTYLKRTRMGGLQLPKDLALGEYRSVTEKEL 231 >gi|297578742|ref|ZP_06940670.1| pseudouridine synthase family 1 protein [Vibrio cholerae RC385] gi|297536336|gb|EFH75169.1| pseudouridine synthase family 1 protein [Vibrio cholerae RC385] Length = 275 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 57/186 (30%), Positives = 94/186 (50%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL AER ++ L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LT Sbjct: 92 PLSPAER-KVILFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILT 148 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 149 NDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTL 208 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + L EG+NR+++++ + RLIR S G + LG L G Sbjct: 209 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 268 Query: 232 STREVS 237 +EV+ Sbjct: 269 EWQEVT 274 >gi|325684334|gb|EGD26503.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus delbrueckii subsp. lactis DSM 20072] Length = 241 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 66/231 (28%), Positives = 114/231 (49%), Gaps = 8/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR +V +I +V VNG + A V + V+G + ++ Sbjct: 3 RLDKFLANMKVGSRSQVHEIIKAGQVTVNGKVCRSAKQKVKEDAEVLVNGQAVI-YQQYH 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G+++ D + TV D L + ++ VGRLD +T GLLLLTNDG LA Sbjct: 62 YFLLNKPAGVLSATEDSR-QKTVLDLLKDQDRYQKIAPVGRLDKDTTGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWV 189 L P + Y G D++ + G+ ++ + G +++ + + + Sbjct: 121 QLLAPEYHVPKTYYALLAGVADEETAKAIAAGLTLKDGTELKPGQLKILRQDKDQEQSEI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 + + EGK ++K++F KV +L R+S GP L LA GS R ++++ Sbjct: 181 EITITEGKYHQVKRMFASQGMKVLKLKRLSMGPLTLPADLALGSYRPLTEE 231 >gi|168576293|ref|ZP_02722176.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae MLV-016] gi|183577841|gb|EDT98369.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae MLV-016] Length = 240 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 70/216 (32%), Positives = 106/216 (49%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L + V VGRLDI+T GLLLLTN+G LA Sbjct: 62 -YYMMNKPKGVISATEDPKHR-TVLDLLDDLAQSKEVFPVGRLDIDTHGLLLLTNNGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSN-AWV 189 VL P + Y+ + G + Q+ + KGI ++ C L T N + + Sbjct: 120 HVLLSPKRHVDKTYQAQVKGIMTQEDVETFIKGIPLKDFTCQPARLEILSTDAEKNQSQI 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EGK +IK++ + +V L R++ G L Sbjct: 180 RVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVL 215 >gi|148983686|ref|ZP_01817005.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP3-BS71] gi|148996705|ref|ZP_01824423.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP11-BS70] gi|168490791|ref|ZP_02714934.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae CDC0288-04] gi|182683261|ref|YP_001835008.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CGSP14] gi|194398298|ref|YP_002036978.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae G54] gi|225853878|ref|YP_002735390.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae JJA] gi|303255185|ref|ZP_07341259.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS455] gi|303259389|ref|ZP_07345366.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP-BS293] gi|303261144|ref|ZP_07347093.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP14-BS292] gi|303263472|ref|ZP_07349395.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS397] gi|303265764|ref|ZP_07351662.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS457] gi|303267805|ref|ZP_07353607.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS458] gi|307066956|ref|YP_003875922.1| 16S rRNA uridine-516 pseudouridylate synthase-like pseudouridylate synthase [Streptococcus pneumoniae AP200] gi|147757280|gb|EDK64319.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP11-BS70] gi|147923833|gb|EDK74945.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP3-BS71] gi|182628595|gb|ACB89543.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CGSP14] gi|183574853|gb|EDT95381.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae CDC0288-04] gi|194357965|gb|ACF56413.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae G54] gi|225722369|gb|ACO18222.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae JJA] gi|301799421|emb|CBW31958.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus pneumoniae OXC141] gi|301801222|emb|CBW33896.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus pneumoniae INV200] gi|302597818|gb|EFL64890.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS455] gi|302637981|gb|EFL68467.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP14-BS292] gi|302639323|gb|EFL69781.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP-BS293] gi|302642501|gb|EFL72846.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS458] gi|302644672|gb|EFL74921.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS457] gi|302647245|gb|EFL77469.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS397] gi|306408493|gb|ADM83920.1| 16S rRNA uridine-516 pseudouridylate synthase-like pseudouridylate synthase [Streptococcus pneumoniae AP200] gi|332077581|gb|EGI88042.1| hypothetical protein SPAR68_0323 [Streptococcus pneumoniae GA41301] gi|332202193|gb|EGJ16262.1| hypothetical protein SPAR69_0304 [Streptococcus pneumoniae GA41317] gi|332204287|gb|EGJ18352.1| hypothetical protein SPAR120_0252 [Streptococcus pneumoniae GA47901] Length = 240 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 70/216 (32%), Positives = 106/216 (49%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ DP R TV D L + V VGRLDI+T GLLLLTN+G LA Sbjct: 62 -YYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNNGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSN-AWV 189 VL P + Y+ + G + Q+ + KGI ++ C L T N + + Sbjct: 120 HVLLSPKRHVDKTYQAQVKGIMTQEDVETFIKGIPLKDFTCQPARLEILSTDAEKNQSQI 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EGK +IK++ + +V L R++ G L Sbjct: 180 RVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVL 215 >gi|123442027|ref|YP_001006010.1| putative pseudouridine synthase [Yersinia enterocolitica subsp. enterocolitica 8081] gi|122088988|emb|CAL11799.1| putative pseudouridine synthase [Yersinia enterocolitica subsp. enterocolitica 8081] Length = 208 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 56/179 (31%), Positives = 94/179 (52%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GRST+ + +P F+ V + GRLD ++EGLL+LTNDG L Sbjct: 30 RVLLFNKPFDVLPQFTDEAGRSTLKEFIP--FNDVYAAGRLDRDSEGLLVLTNDGKLQAR 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------- 184 L P+ + +VY V+ G D+D L+ L+ GI ++ L ++ Sbjct: 88 LTQPAQKTGKVYFVQVEGLPDEDALSQLRIGITLKDGPTLPAGAELVSEPAWLWPRHPPI 147 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR S G LG L G +E++ Sbjct: 148 RERKAIPTSWLKITLFEGRNRQVRRMTAHIGFPTLRLIRFSMGNLSLGDLQPGEWKEIN 206 >gi|322385908|ref|ZP_08059550.1| ribosomal small subunit pseudouridine synthase A [Streptococcus cristatus ATCC 51100] gi|321270087|gb|EFX53005.1| ribosomal small subunit pseudouridine synthase A [Streptococcus cristatus ATCC 51100] Length = 257 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 71/227 (31%), Positives = 118/227 (51%), Gaps = 6/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K +A A I SR+E+++ + +++ ++G + NV S I + G L Sbjct: 18 RLDKFLALAKI-SRKEMKQKLRLRQIVIDGQAARSLSQNVDSGLQSISLAGKTLNHLAH- 75 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 R +L +KP G VT +SD D + + P F+ ++ ++GRLD +T GLLL+T++G L Sbjct: 76 RYFLMNKPAGAVTANSDADKLTVLELIAPEDFNDQLYAIGRLDRDTRGLLLITDNGPLGF 135 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +G +DQ+ ++GIV + G Q+ + T ++ +V Sbjct: 136 QLLHPQYHIAKTYYVEVNGPLDQEATIAFQQGIVFLDGTRCKPAQLQIHTTSPEHSTASV 195 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 + EGK ++KK+F KV L R +G FQL L GS R ++ Sbjct: 196 TISEGKFHQVKKMFLAVGVKVTYLKRTHFGDFQLDPNLTEGSYRPLN 242 >gi|212633763|ref|YP_002310288.1| pseudouridine synthase Rsu [Shewanella piezotolerans WP3] gi|212555247|gb|ACJ27701.1| Pseudouridine synthase, Rsu [Shewanella piezotolerans WP3] Length = 233 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 75/225 (33%), Positives = 112/225 (49%), Gaps = 6/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + I+ SR+ V ++A+ VKV+G + V HI ++G L+ Sbjct: 7 RLDRFISATKRVSRKHVRVLLAKGLVKVDGEIARDIDQIVDEFSHITLEGEVLQANTPIY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 L L HKP+G+V+ D D TV D L + + VGRLD+NT GLLLLTNDG ++ Sbjct: 67 LML-HKPVGVVSATVD-DKHKTVIDLLSHPDKQQLHIVGRLDLNTSGLLLLTNDGRWSKR 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + ++YRV +D + +G+ + + L+ A VT L Sbjct: 125 LMSPEHKVAKLYRVSLENPIDASYIQAFHEGMYFEFEDITTLPAKLEIVDPHTALVT--L 182 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 EG+ +IK++F F V L RIS G L + LLAG +R +S Sbjct: 183 MEGRYHQIKRMFGRFRNPVIGLHRISVGEIVLDSQLLAGQSRVLS 227 >gi|210623378|ref|ZP_03293775.1| hypothetical protein CLOHIR_01725 [Clostridium hiranonis DSM 13275] gi|210153639|gb|EEA84645.1| hypothetical protein CLOHIR_01725 [Clostridium hiranonis DSM 13275] Length = 241 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 74/236 (31%), Positives = 113/236 (47%), Gaps = 22/236 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 QRV KV++ G SR E+++ Q V VNG + + V D I +G + E Sbjct: 5 QRVDKVLSNLGYGSRAELKKFCKQGLVFVNGKAVSNPGLQVDTDIDEIVFNGEKINYREF 64 Query: 73 TRLWLYHKPIGLVTT---HSDP------DGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 L + +KP G ++ DP D VF+ P VGRLD +TEGLL+ Sbjct: 65 IYLMM-NKPDGYISATFDKHDPIVLDLIDDEYLVFEPFP--------VGRLDKDTEGLLV 115 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG LA + P + Y + G+V ++ + K+G+V+ Y M L K Sbjct: 116 LTNDGQLAHRVLSPKKHVPKTYYAKIDGKVTEEDIEAFKQGVVLDD-GYETMPSELVILK 174 Query: 184 GSN-AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 + + + + + EGK ++K++FE V L R+S G +L TL G RE++ Sbjct: 175 SDDISEIELTIHEGKFHQVKRMFESVGKTVVYLKRLSMGALKLDETLELGEYRELT 230 >gi|212638279|ref|YP_002314799.1| RNA pseudouridine synthase [Anoxybacillus flavithermus WK1] gi|212559759|gb|ACJ32814.1| RNA pseudouridine synthase [Anoxybacillus flavithermus WK1] Length = 240 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 115/233 (49%), Gaps = 18/233 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI------EVDGVPLR 68 R+ K++A G +R+EV++++ VKV+G +++ A +V + EV+ P Sbjct: 3 RIDKLLANMGYGTRKEVKKLLKAGVVKVDGTIIKDAKTHVDPKAQVVTVWGEEVEYKPFI 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLT 125 + +KP G+++ D TV D L IF VGRLD +TEGLLLLT Sbjct: 63 ------YLMMNKPKGVISATEDA-VEETVVDLLEEEDRIFDP-FPVGRLDKDTEGLLLLT 114 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L P ++Y G+V +D + ++G+V+ + + G Sbjct: 115 NDGQLAHQLLSPKKHVPKIYEAIIDGEVTEDDVVAFQRGVVLDDGYETKPAELVVIRTGL 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 + V + + EGK +IK++F+ +V L RI GP L TL G RE++ Sbjct: 175 RSDVRITITEGKFHQIKRMFQAVGKRVIYLKRIQMGPIPLDETLELGEYRELT 227 >gi|42526372|ref|NP_971470.1| ribosomal small subunit pseudouridine synthase A [Treponema denticola ATCC 35405] gi|41816484|gb|AAS11351.1| ribosomal small subunit pseudouridine synthase A [Treponema denticola ATCC 35405] Length = 245 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 73/236 (30%), Positives = 129/236 (54%), Gaps = 17/236 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKAER 72 R+ +++A +G+ SR +V++MI ++ V+G+ + + ++ TD I +DG PL R Sbjct: 4 RLDRILALSGLGSRSDVKKMIRKKNCCVDGVRIVSPSF-ILDTDLNKITIDGEPL--VLR 60 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGG 129 T ++L ++KP G VT+ SDP + TV D + + F R + +GRLDI+TEGLL++T+DG Sbjct: 61 TNVYLMFNKPQGCVTSTSDPVHK-TVMDYIKAPFDRMTLFPIGRLDIDTEGLLIITDDGE 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQ-VDQDKLNL---LKKGIVIQG--ICYGDMQVTLDTQK 183 + + P + ++ Y + + D++ N +KGIV++ C + + Sbjct: 120 ITHKITSPKSGTVKTYYLELSREPSDEEFKNYCEEFEKGIVLKNGYKCLPAKFEKCENKT 179 Query: 184 GS-NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 GS + + + EGK ++KK+ ++ L RI+ G L TL G RE+S Sbjct: 180 GSFRSGFLMHITEGKFHQVKKMCLSAGNELCYLRRIAVGSIVLDETLKTGEYRELS 235 >gi|323695091|ref|ZP_08109233.1| pseudouridine synthase [Clostridium symbiosum WAL-14673] gi|323500846|gb|EGB16766.1| pseudouridine synthase [Clostridium symbiosum WAL-14673] Length = 241 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 67/223 (30%), Positives = 111/223 (49%), Gaps = 6/223 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ AGI SRRE +R+I +V V+G + V ++ I V+G + ER Sbjct: 12 RLNKYLSEAGICSRREADRLIEDGKVTVDG-RTASMGMKVFTSQEITVNGKRVEGKERPV 70 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G+V T SD D + + L R+ VGRLD ++EGLLL+TN G L + Sbjct: 71 LLAVNKPRGIVCTTSDKDRAENIVEFLKYPV-RIYPVGRLDKDSEGLLLMTNQGDLVNRI 129 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V V + + ++ G+ I G + + ++ + +T GL Sbjct: 130 LRGRYGHEKEYLVTVDRPVTEAFIRQMRNGVEILGTRTKPCEAEITGKRSFSIILTQGL- 188 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 NR+I+++ E ++V L R+ +LG L G RE++ Sbjct: 189 ---NRQIRRMCEALGYQVKTLKRVRIMNVKLGNLKTGQYRELT 228 >gi|290475825|ref|YP_003468717.1| Ribosomal large subunit pseudouridine synthase E [Xenorhabdus bovienii SS-2004] gi|289175150|emb|CBJ81953.1| Ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Xenorhabdus bovienii SS-2004] Length = 227 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 59/178 (33%), Positives = 95/178 (53%), Gaps = 17/178 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ +++KP ++ +D GR+T+ D +P F V + GRLD ++EGLL+LTNDG L Sbjct: 49 RVLIFNKPYDVLPQFTDEMGRTTLKDFIP--FPDVYAAGRLDRDSEGLLILTNDGKLQAK 106 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQV---------TLDT 181 L P + +VY V+ G D+ LN L+ G+ ++ + G V T Sbjct: 107 LTQPHKKTAKVYYVQVEGIPDESTLNKLRNGVTLKDGPTLSAGAELVEEPEWLWERTPPI 166 Query: 182 QKGSN---AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 ++ N +W+ + L EG+NR+++++ + RLIR S G QLG L G RE+ Sbjct: 167 RERKNIPVSWLKITLFEGRNRQVRRMTAHVGFPTLRLIRFSIGSLQLGQLSPGEWREI 224 >gi|254225530|ref|ZP_04919140.1| pseudouridine synthase family 1 protein [Vibrio cholerae V51] gi|125622000|gb|EAZ50324.1| pseudouridine synthase family 1 protein [Vibrio cholerae V51] Length = 275 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 57/186 (30%), Positives = 94/186 (50%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL AER ++ L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LT Sbjct: 92 PLSPAER-KVILFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILT 148 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 149 NDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTL 208 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + L EG+NR+++++ + RLIR S G + LG L G Sbjct: 209 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 268 Query: 232 STREVS 237 +EV+ Sbjct: 269 EWQEVT 274 >gi|323485703|ref|ZP_08091040.1| pseudouridine synthase [Clostridium symbiosum WAL-14163] gi|323400966|gb|EGA93327.1| pseudouridine synthase [Clostridium symbiosum WAL-14163] Length = 244 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 69/226 (30%), Positives = 114/226 (50%), Gaps = 12/226 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ AGI SRRE +R+I +V V+G + V ++ I V+G + ER Sbjct: 15 RLNKYLSEAGICSRREADRLIEDGKVTVDG-RTASMGMKVFTSQEITVNGKRVEGKERPV 73 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGLA 131 L +KP G+V T SD D R+ +N+ F R+ VGRLD ++EGLLL+TN G L Sbjct: 74 LLAVNKPRGIVCTTSDKD-RA---ENIVEFFKYPVRIYPVGRLDKDSEGLLLMTNQGDLV 129 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V V + + ++ G+ I G + + ++ + +T Sbjct: 130 NRILRGRYGHEKEYLVTVDRPVTEAFIRQMRNGVEILGTRTKPCEAEITGERSFSIILTQ 189 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 GL NR+I+++ E ++V L R+ +LG L G RE++ Sbjct: 190 GL----NRQIRRMCEALGYQVKTLKRVRIMNVKLGNLKTGQYRELT 231 >gi|153802567|ref|ZP_01957153.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-3] gi|124121881|gb|EAY40624.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-3] Length = 241 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 57/186 (30%), Positives = 93/186 (50%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL AER ++ L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LT Sbjct: 58 PLSPAER-KVILFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILT 114 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 115 NDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTL 174 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + L EG+NR+++++ + RLIR S G + LG L G Sbjct: 175 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 234 Query: 232 STREVS 237 EV+ Sbjct: 235 EWSEVT 240 >gi|15605456|ref|NP_220242.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis D/UW-3/CX] gi|76789463|ref|YP_328549.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis A/HAR-13] gi|237803153|ref|YP_002888347.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis B/Jali20/OT] gi|237805074|ref|YP_002889228.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis B/TZ1A828/OT] gi|255311554|ref|ZP_05354124.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis 6276] gi|255317855|ref|ZP_05359101.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis 6276s] gi|255349118|ref|ZP_05381125.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis 70] gi|255503655|ref|ZP_05382045.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis 70s] gi|255507334|ref|ZP_05382973.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis D(s)2923] gi|3329180|gb|AAC68318.1| predicted pseudouridine synthase [Chlamydia trachomatis D/UW-3/CX] gi|76167993|gb|AAX51001.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis A/HAR-13] gi|231273374|emb|CAX10289.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis B/TZ1A828/OT] gi|231274387|emb|CAX11182.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis B/Jali20/OT] gi|289525767|emb|CBJ15248.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis Sweden2] gi|296435342|gb|ADH17520.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis E/150] gi|296436269|gb|ADH18443.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis G/9768] gi|296437198|gb|ADH19368.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis G/11222] gi|296438129|gb|ADH20290.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis G/11074] gi|296439059|gb|ADH21212.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis E/11023] gi|297140630|gb|ADH97388.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis G/9301] gi|297748854|gb|ADI51400.1| Ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis D-EC] gi|297749734|gb|ADI52412.1| Ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis D-LC] Length = 241 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 74/225 (32%), Positives = 108/225 (48%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K +A AG+ASRR+ + +I V VNG + V V D +EV G + AE+ Sbjct: 5 RLNKFLASAGVASRRKCDEIIFAGSVTVNGRVAAGPFVTVDEEFDSVEVGGQRI-GAEKK 63 Query: 74 RLWLYHKPIG-LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ HKP+G L ++ G V D L R+ +VGRLD T GL+L+TNDG A Sbjct: 64 VYFMVHKPLGYLCSSERKFPGSKLVIDLLSHCPYRLFTVGRLDKETSGLILVTNDGEFAN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + PS + Y ++ V L L G VI G + V +K + + Sbjct: 124 RVIHPSFGITKEYLLKVSRDVTARDLETLMAGTVIDGKVVRPVSV----KKVRRGTIKII 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EGK EI+ E ++ L RI G LG L G RE++ Sbjct: 180 VNEGKKHEIRLFAEAAGLQLLELKRIRIGSLVLGGLPYGKYRELT 224 >gi|229013752|ref|ZP_04170880.1| RNA pseudouridine synthase [Bacillus mycoides DSM 2048] gi|228747421|gb|EEL97296.1| RNA pseudouridine synthase [Bacillus mycoides DSM 2048] Length = 229 Score = 88.6 bits (218), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/236 (27%), Positives = 120/236 (50%), Gaps = 14/236 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVTINGEICTHGAI-VSDGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGL 130 +++ +HKP+G+ T ++ + DN+ R+ VGRLD +EGL+LLTNDG + Sbjct: 61 VYIAFHKPVGITCTAAEH-----IEDNIIDYIDYPERIFPVGRLDKASEGLILLTNDGAI 115 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + + + Y V ++ + G+ I+ +VT + + + Sbjct: 116 ANQILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVNQSTFR 171 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ F + V +L R+ +L L AG R+++ K L +G Sbjct: 172 IVLTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEAGKWRDITPKELEILIG 227 >gi|291087005|ref|ZP_06345121.2| ribosomal large subunit pseudouridine synthase B [Clostridium sp. M62/1] gi|291076613|gb|EFE13977.1| ribosomal large subunit pseudouridine synthase B [Clostridium sp. M62/1] Length = 283 Score = 88.6 bits (218), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 66/224 (29%), Positives = 109/224 (48%), Gaps = 6/224 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ +G SRRE +R+I V V+G + + + IE DG + +R Sbjct: 26 RLNKFLSESGFCSRREADRLIEAGEVLVDGAVAS-MGMKIREGQQIEADGTLISGKDRPV 84 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L +KP G+V T SD D + D + RV VGRLD ++EGL+L+TN G L + Sbjct: 85 VLLVNKPRGIVCTTSDRDRAENIVDFIGYPL-RVYPVGRLDKDSEGLILMTNQGELVNRI 143 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V ++ + LN ++KG+ I V +K +T GL Sbjct: 144 LKGRYGHEKEYLVSVDREITEQFLNRMRKGVKILDTVTRPCTVEKTGEKSFRIILTQGL- 202 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 NR+I+++ E ++V L R+ +L L G RE+++ Sbjct: 203 ---NRQIRRMCEALGYRVRTLKRVRIMNLRLDGLKTGEYREITR 243 >gi|154484655|ref|ZP_02027103.1| hypothetical protein EUBVEN_02372 [Eubacterium ventriosum ATCC 27560] gi|149734503|gb|EDM50420.1| hypothetical protein EUBVEN_02372 [Eubacterium ventriosum ATCC 27560] Length = 245 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 71/232 (30%), Positives = 115/232 (49%), Gaps = 13/232 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K ++ AG SRRE +R++ Q VKVNG ++ ++ +N D I V G + + E Sbjct: 18 RLNKFLSDAGYCSRREADRLVEQGVVKVNGKTAVMGQKVTIN----DSIMVKGKNISREE 73 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP+G+ T +D + + D + RV +GRLD N++GL+LLTNDG + Sbjct: 74 EQILIALNKPVGIECT-TDLNNPDNIVD-FINFDKRVYPIGRLDKNSQGLILLTNDGSIV 131 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + S + Y V V D + + G+ I +VT + N +T Sbjct: 132 NNILKGSNYHEKEYVVTVDKPVTDDFIKKMSTGVRILDQVTRPCKVTKVKKHVFNIVLTQ 191 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 GL NR+I+++ + V +L RI +LG L G R+V+ L+E Sbjct: 192 GL----NRQIRRMCGELGYNVQKLKRIRIMNIELGNLPVGQYRKVTDSELKE 239 >gi|10304093|gb|AAG16128.1|AF261151_1 pseudouridylate synthase-like protein [Vibrio cholerae] Length = 241 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 57/186 (30%), Positives = 93/186 (50%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL AER ++ L++KP ++ +D DGR T+ D +P + GRLD ++EGLL+LT Sbjct: 58 PLSPAER-KVILFNKPYDTLSQFTDGDGRKTLADYIP--IKDGYAAGRLDRDSEGLLILT 114 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 115 NDGILQARLTQPQSKAPKTYWVQVEGSPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTL 174 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + L EG+NR+++++ + RLIR S G + LG L G Sbjct: 175 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 234 Query: 232 STREVS 237 REV+ Sbjct: 235 EWREVT 240 >gi|149192131|ref|ZP_01870353.1| pseudouridine synthase family 1 protein [Vibrio shilonii AK1] gi|148834034|gb|EDL51049.1| pseudouridine synthase family 1 protein [Vibrio shilonii AK1] Length = 240 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 55/180 (30%), Positives = 96/180 (53%), Gaps = 16/180 (8%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E ++ L++KP ++ +D DGR T+ D +P V + GRLD ++EGL++LTNDG L Sbjct: 54 EERKVILFNKPYDTLSQFTDGDGRKTLADYIP--VKDVYAAGRLDRDSEGLMVLTNDGIL 111 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-DTQKG----- 184 L P ++ + Y V+ G +D L+ L++G+V++ +V+L DT Sbjct: 112 QARLTQPKSKSEKTYWVQVDGAPSEDDLDKLRRGVVLKDGPTLPAKVSLMDTPDVWERHP 171 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+++ + EG+NR+++++ + RLIR S F++G LL G E+ Sbjct: 172 PVRFRANIPTTWLSITIIEGRNRQVRRMTANIGFPTLRLIRASMAGFEIGGLLPGDWLEI 231 >gi|324328441|gb|ADY23701.1| RNA pseudouridine synthase family protein [Bacillus thuringiensis serovar finitimus YBT-020] Length = 229 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 118/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE + +I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDSLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D +G + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAADHIEGNIIDYINYPG---RIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT Q + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVTRVDQ----STFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRVFGFTVKKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|166154065|ref|YP_001654183.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis 434/Bu] gi|301335269|ref|ZP_07223513.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis L2tet1] gi|165930053|emb|CAP03536.1| ribosomal large subunit pseudouridine synthase B [Chlamydia trachomatis 434/Bu] Length = 241 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 74/225 (32%), Positives = 108/225 (48%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K +A AG+ASRR+ + +I V VNG + V V D +EV G + AE+ Sbjct: 5 RLNKFLASAGVASRRKCDEIIFAGSVTVNGRVATGPFVTVDEEFDSVEVGGQRI-GAEKK 63 Query: 74 RLWLYHKPIG-LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ HKP+G L ++ G V D L R+ +VGRLD T GL+L+TNDG A Sbjct: 64 VYFMVHKPLGYLCSSERKFPGSKLVIDLLSHCPYRLFTVGRLDKETSGLILVTNDGEFAN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + PS + Y ++ V L L G VI G + V +K + + Sbjct: 124 RVIHPSFGITKEYLLKVSRDVTARDLETLMAGTVIDGKVVRPVSV----KKVRRGTIKII 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EGK EI+ E ++ L RI G LG L G RE++ Sbjct: 180 VNEGKKHEIRLFAEAAGLQLLELKRIRIGSLVLGGLPYGKYRELT 224 >gi|115375833|ref|ZP_01463084.1| ribosomal large subunit pseudouridine synthase B [Stigmatella aurantiaca DW4/3-1] gi|310820267|ref|YP_003952625.1| pseudouridine synthase [Stigmatella aurantiaca DW4/3-1] gi|115367143|gb|EAU66127.1| ribosomal large subunit pseudouridine synthase B [Stigmatella aurantiaca DW4/3-1] gi|309393339|gb|ADO70798.1| Pseudouridine synthase [Stigmatella aurantiaca DW4/3-1] Length = 270 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 71/240 (29%), Positives = 112/240 (46%), Gaps = 11/240 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P +S+ +ARAG +E E I + RV VNG ++ + V + VDG +R+ Sbjct: 29 PDWLSRALARAGALPLQEAEDAIQEGRVTVNGRVVRQPLAPVPEGAVLRVDGTEVRREVE 88 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFD----NLPSIFSRVI--SVGRLDINTEGLLLLTN 126 TR+ +HKP L+T+ TV++ LPS +R +VGRLD T GLLL TN Sbjct: 89 TRVLAFHKPADLLTSTVSQHRTGTVYEVLLPQLPSELARYTWHAVGRLDRGTTGLLLFTN 148 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 D L P T + Y G D+ ++ L++G+ ++ QV + Sbjct: 149 DEKLVAHATSPETHLAKRYVATVQGTADEARVAPLRQGVQLEDGPTRPAQVRIRDAHTVE 208 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 VT EG+N ++K++ V L R + G L + G+ R ++ + + E LG Sbjct: 209 VIVT----EGRNHQVKRMLGAVGLPVRALHREAIGGVAL-DVPVGTFRLLTPEEVTEGLG 263 >gi|163942437|ref|YP_001647321.1| pseudouridine synthase [Bacillus weihenstephanensis KBAB4] gi|229013913|ref|ZP_04171040.1| Pseudouridine synthase [Bacillus mycoides DSM 2048] gi|229135547|ref|ZP_04264331.1| Pseudouridine synthase [Bacillus cereus BDRD-ST196] gi|163864634|gb|ABY45693.1| pseudouridine synthase [Bacillus weihenstephanensis KBAB4] gi|228647927|gb|EEL03978.1| Pseudouridine synthase [Bacillus cereus BDRD-ST196] gi|228747383|gb|EEL97259.1| Pseudouridine synthase [Bacillus mycoides DSM 2048] Length = 242 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 71/229 (31%), Positives = 114/229 (49%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++G ++ A +V + + + G + E Sbjct: 2 RLDKLLANMGHGSRKEVKKLLKDGVVKIDGTPVKDAKFHVNVEEQEVMIHGEVVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF VGRLDI+TEG LL+TNDG L Sbjct: 62 YLMM-HKPQGVISATED-DNHETVIDLLELEDAIFDP-FPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 L P + Y G V ++ + KG++++ Y L K + + + Sbjct: 119 THQLLSPKKHVPKKYYAHISGVVTEEDVIEFAKGVILED-GYETKPGELTILKSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLMLDEELELGQYRELT 226 >gi|332305273|ref|YP_004433124.1| pseudouridine synthase [Glaciecola agarilytica 4H-3-7+YE-5] gi|332172602|gb|AEE21856.1| pseudouridine synthase [Glaciecola agarilytica 4H-3-7+YE-5] Length = 269 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 113/225 (50%), Gaps = 11/225 (4%) Query: 10 NFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 +F P +R+ ++++ G SR+E ++ RV V G + A V + + VDG PL Sbjct: 34 SFMPVLKRLDQLLSNLGYCSRKEARYLLKDNRVTVAGEYAKSPAQKVDAAT-VRVDGEPL 92 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----RVISVGRLDINTEGLLL 123 E L + +KP+G V +H +G ++D LP + +++SVGRLD +T GL+L Sbjct: 93 DFPEGI-LVMLNKPLGYVCSHDSGEGMR-IYDLLPERWEFRNPKIVSVGRLDKDTTGLIL 150 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 +T+D L L P ++Y+V + + D + KG+V+ + ++ Sbjct: 151 VTDDTKLVHQLTSPKHHVDKLYKVTVNSPLQPDIIEAFAKGVVLGDGAEQCLPAKVEIIS 210 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + A VT L EGK +++++F + V L R +GP+ L L Sbjct: 211 ENMANVT--LNEGKYHQVRRMFAACGYHVEALHRSQFGPYSLHDL 253 >gi|169830079|ref|YP_001700237.1| ribosomal large subunit pseudouridine synthase F [Lysinibacillus sphaericus C3-41] gi|168994567|gb|ACA42107.1| Ribosomal large subunit pseudouridine synthase F [Lysinibacillus sphaericus C3-41] Length = 233 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 69/232 (29%), Positives = 112/232 (48%), Gaps = 21/232 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV--NVMSTDHIEVDGVPLRKAER 72 R++K ++ GI SRR ++ IA+ +V +NG E A V V D + +DG ++K ++ Sbjct: 2 RINKYLSETGIISRRGADKWIAEGKVTING---EPATVGSQVQDGDIVCIDGKEVKKEQQ 58 Query: 73 TRLWLYHKPIGLV-TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP+G+ TT G F N P R+ +GRLD +EGLLLLTNDG + Sbjct: 59 LVYIALNKPVGITSTTERHIKGNVVDFVNHPL---RIFHIGRLDKESEGLLLLTNDGDIV 115 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----CYGDMQVTLDTQKGSNA 187 + + Y V+ + + +N + G+ I CY +K S+ Sbjct: 116 NKILRAENHHEKEYIVQVDKPITEQFINKMSAGVDILDTTTLPCY--------VEKISDK 167 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + L +G NR+I+++ + V RL RI +LG L G R+++ K Sbjct: 168 VFKIILEQGLNRQIRRMCSALGYSVKRLQRIRIMNIKLGNLKVGQWRDLTDK 219 >gi|86141186|ref|ZP_01059732.1| pseudouridine synthase, Rsu [Leeuwenhoekiella blandensis MED217] gi|85831745|gb|EAQ50200.1| pseudouridine synthase, Rsu [Leeuwenhoekiella blandensis MED217] Length = 265 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 62/207 (29%), Positives = 104/207 (50%), Gaps = 11/207 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRRE +++I R+ VNG + E V S D I VDG + + + Sbjct: 8 RINKFLSEVGYCSRREADKLIDAGRITVNGNIPE-MGTKVSSEDEIRVDGKIVGEQKDPP 66 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++L +HKP+G+V T + + D N P+ R+ +GRLD +EGL+ LTNDG + Sbjct: 67 VYLIFHKPVGIVCTTDTRVEKDNIIDYINYPT---RIFPIGRLDKASEGLIFLTNDGDIV 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V +D + + GI I +V Q G + + Sbjct: 124 NKILRARNNHDKEYIVDVDKPIDASFVKRMSDGIPILDTITRKCEV---EQLGKKRFKII 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRI 218 L +G NR+I+++ E+ ++ V RL R+ Sbjct: 181 -LTQGLNRQIRRMCEYLDYNVTRLKRV 206 >gi|167769669|ref|ZP_02441722.1| hypothetical protein ANACOL_01003 [Anaerotruncus colihominis DSM 17241] gi|167668030|gb|EDS12160.1| hypothetical protein ANACOL_01003 [Anaerotruncus colihominis DSM 17241] Length = 242 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 70/229 (30%), Positives = 109/229 (47%), Gaps = 11/229 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KVIA SRR+V+R++ + ++ VNG +++A + + TD + V G L +R Sbjct: 8 ERLDKVIAAQTKLSRRDVQRLVGRGQISVNGTPVKKADLKIDPDTDVVMVSGKTL-ALKR 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 + +KP G+V SD TV D +P R + GRLD +TEG +L+T+DG Sbjct: 67 HVYIMLNKPRGVVCATSDA-ALPTVLDLVPDSLMRRGLFPAGRLDKDTEGFVLITDDGAF 125 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWV 189 A + P + + Y R V Q + G+ + G +C LDT + Sbjct: 126 AHRILAPKSHVPKTYTARLDAPVTQQMIEAFAAGVQLDGAVCMPAELCVLDTPDTAR--- 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 V +R+G +IK++F V L R G L L G RE+S Sbjct: 183 -VVIRQGMYHQIKRMFAACGAHVLALRRDRIGGLSLDIALGPGECRELS 230 >gi|326791990|ref|YP_004309811.1| pseudouridine synthase Rsu [Clostridium lentocellum DSM 5427] gi|326542754|gb|ADZ84613.1| pseudouridine synthase Rsu [Clostridium lentocellum DSM 5427] Length = 240 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 72/226 (31%), Positives = 119/226 (52%), Gaps = 13/226 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+++ GI SR + ++I RVKVNG L V TD I +D P+++ ER Sbjct: 2 RINKLLSNKGICSRSQAHQLIVAGRVKVNGQLCIPGQW-VEETDEILLDDRPVKEKERLY 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP+G+V T ++ + + + N P+ VGRLD +++GL+LLTNDG LA Sbjct: 61 IIL-NKPVGIVCTAAEGVKDNIIRYMNYPAYL---FPVGRLDKDSQGLILLTNDGDLASD 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT--V 191 + + Y V+ ++D L+ + QG+ GD +T Q + T + Sbjct: 117 ILEAEKGHEKEYMVQVDRPYEEDFLHKMS-----QGVNLGDGVITRICQVSAINEDTFRI 171 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L +G NR+I+++ + F + V RL RI LG L G R+++ Sbjct: 172 ILTQGMNRQIRRMTKAFGYNVVRLERIRLLNIALGPLAYGEWRKLT 217 >gi|257887896|ref|ZP_05667549.1| pseudouridine synthase [Enterococcus faecium 1,141,733] gi|257823950|gb|EEV50882.1| pseudouridine synthase [Enterococcus faecium 1,141,733] Length = 238 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 79/229 (34%), Positives = 117/229 (51%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ K+I +R+E++R+ A ++V V+G + R NV S H IEV G L E Sbjct: 2 RLDKLIEEKLETTRKEMKRLFALKQVMVDGTVEFRQNRNVDSLLHRIEVAGEHLETKES- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP VT SDP+ ++TV D + S F + VGRLD +T GLLL+T++G L Sbjct: 61 -YYLLNKPKKAVTAVSDPE-KTTVIDLIASADRFQPLYPVGRLDRDTTGLLLITSNGQLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + LP + + Y+ + +V + +KGIV Y L K TV Sbjct: 119 YEMLLPEKKVSKTYQAVVNERVTSADVAAFEKGIVFAD-GYQCQPANLKILKADKHQSTV 177 Query: 192 GL--REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 L +EGK ++KK+F KV L R+S GP +L LA G R ++ Sbjct: 178 LLTIQEGKFHQVKKMFLAQGKKVIALKRLSMGPLELDEQLAVGEYRSLT 226 >gi|315221963|ref|ZP_07863874.1| conserved hypothetical protein [Streptococcus anginosus F0211] gi|315188929|gb|EFU22633.1| conserved hypothetical protein [Streptococcus anginosus F0211] Length = 250 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 69/220 (31%), Positives = 121/220 (55%), Gaps = 7/220 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+A I SR+++++ + ++++ V+ + + NV I ++ P+ + Sbjct: 11 RLDILLAQAHI-SRKKMKQALLKKKILVDDCPARKLSQNVDTGLQTITLEEQPVL-GKPH 68 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 + ++ +KP+G+VT +SD + TV D + P FS + SVGRLD +T GLLL+T++G L Sbjct: 69 QYFMMNKPLGVVTANSDAKFQ-TVLDLIRPEDFSEDLYSVGRLDRDTSGLLLITDNGPLG 127 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 +L P + Y V +G +D + +KGIV + G +T+ + + + T Sbjct: 128 FLLLHPQYHVTKTYEVEVNGLLDDQAVQSFQKGIVFLDGTICKPATLTIRSSSSNKSRAT 187 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + EGK +IKK+F KV L RI +G F+L LA Sbjct: 188 VTISEGKFHQIKKMFLTVGVKVTSLKRIHFGDFELEPNLA 227 >gi|227890506|ref|ZP_04008311.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus salivarius ATCC 11741] gi|227867444|gb|EEJ74865.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus salivarius ATCC 11741] Length = 238 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/237 (27%), Positives = 122/237 (51%), Gaps = 14/237 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +++ G +R E +++I +RV++NG +++ + + +D I +DG L + Sbjct: 2 RLDKFLSQTGKFTRAEAKKVIKAKRVRLNGEVVKDGKIKINEDSDKIFLDGELLALNNKE 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ D D TV D N P + VGRLD +T GLL++TNDG A Sbjct: 62 VYYMLNKPAGVVSATRD-DKDKTVIDLINFPGRKEDLFPVGRLDKDTTGLLIITNDGKFA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD------MQVTLDTQKGS 185 + P + Y G++ + ++ + +G+ + GD + + ++K Sbjct: 121 HNIISPKKHVSKTYEAVVTGKISEKEVKIFSQGM---ELANGDKLQPAQLDIISYSEKDD 177 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + V V + EGK +++++F + +V L R+ G +L TL G RE+++K L Sbjct: 178 TSKVRVIIHEGKYHQVRRMFGAVSQRVLELDRVKIGLLELDDTLERGEYRELTEKEL 234 >gi|300214283|gb|ADJ78699.1| Pseudouridine synthase [Lactobacillus salivarius CECT 5713] Length = 240 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/237 (27%), Positives = 122/237 (51%), Gaps = 14/237 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +++ G +R E +++I +RV++NG +++ + + +D I +DG L + Sbjct: 4 RLDKFLSQTGKFTRAEAKKVIKAKRVRLNGEVVKDGKIKINEDSDKIFLDGELLALNNKE 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KPIG+V+ D D TV D N P + VGRLD T GLL++TNDG A Sbjct: 64 VYYMLNKPIGVVSATRD-DKDKTVIDLINFPGRKEDLFPVGRLDKETTGLLIITNDGKFA 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD------MQVTLDTQKGS 185 + P + Y G++ + ++ + +G+ + GD + + ++K Sbjct: 123 HDIISPKKHVSKTYEAVVTGKISEKEVKIFSQGM---ELANGDKLQPAQLDIISYSEKDD 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + V V + EGK +++++F + +V L R+ G +L TL G RE++++ L Sbjct: 180 TSKVRVIIHEGKYHQVRRMFGAVSQRVLELDRVKIGLLELDDTLERGEYRELTEEEL 236 >gi|294793715|ref|ZP_06758852.1| ribosomal small subunit pseudouridine synthase A [Veillonella sp. 3_1_44] gi|294455285|gb|EFG23657.1| ribosomal small subunit pseudouridine synthase A [Veillonella sp. 3_1_44] Length = 232 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 114/229 (49%), Gaps = 13/229 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A SR+EV ++I +RV +NG + + ++ + D + VDG + T Sbjct: 2 RLDKLLANKAYGSRKEVHQIIKDRRVTINGSITTKKDTHIDIDVDIVAVDG---KIVSTT 58 Query: 74 RLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGG 129 +L+ +HKP G VT D V D LP F + V+ VGRLD +TEGLLLLTNDG Sbjct: 59 QLYYVKFHKPKGYVTAVEDSS-HPVVMDLLPPEFIKMGVVPVGRLDKDTEGLLLLTNDGV 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + +VY V F G + + + +K+GI++ G + + S V Sbjct: 118 WGHSIINGNKHVPKVYYVEFEGTLSDEGIQRIKEGILLGD---GTQCKPAEIEFVSLHSV 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 V + EGK ++K++ V L R++ G L G GS E++ Sbjct: 175 HVTIEEGKYHQVKRMIGAAGGTVTYLKRLTIGHIDLSGIEEVGSAMELT 223 >gi|257866937|ref|ZP_05646590.1| pseudouridine synthase [Enterococcus casseliflavus EC30] gi|257873270|ref|ZP_05652923.1| pseudouridine synthase [Enterococcus casseliflavus EC10] gi|257800993|gb|EEV29923.1| pseudouridine synthase [Enterococcus casseliflavus EC30] gi|257807434|gb|EEV36256.1| pseudouridine synthase [Enterococcus casseliflavus EC10] Length = 257 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 71/238 (29%), Positives = 116/238 (48%), Gaps = 8/238 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDG 64 ++ E P R+ K +A G SR+EV+++I + V VNG +++ V T D + +G Sbjct: 11 VLYERKKPMRLDKFLADMGYGSRKEVKQLIKKGLVTVNGQVIKSDKAQVQETQDTVCFEG 70 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLL 122 P+ + +L +KP G+++ D TV D R + VGRLD +TEG L Sbjct: 71 EPI-AYQSQFYYLLNKPAGVISATVDS-YEETVLDLFSEEAFREDLFPVGRLDKDTEGFL 128 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLD 180 L+TNDGGLA L P + Y + G + + + KGI + G ++Q+ Sbjct: 129 LITNDGGLAHQLLSPKKHVEKEYYAQVEGIMTAEDQKIFAKGIKLDGEWTLPAELQILNV 188 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 ++ + + + L EGK ++K++ +V L RI G L LA G RE++ Sbjct: 189 DEEEMRSEIKLILHEGKFHQVKRMVHAVGKEVVYLKRIRMGGLSLPDDLALGEYRELT 246 >gi|324992460|gb|EGC24381.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK405] gi|327460692|gb|EGF07027.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1] gi|327472413|gb|EGF17844.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK408] gi|327488766|gb|EGF20565.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1058] Length = 242 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 71/222 (31%), Positives = 109/222 (49%), Gaps = 9/222 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A G+ SR +V++++ + V VNG + + + T D I V G L E+ Sbjct: 2 RLDKFLAENGLGSRAQVKQLLKKGLVLVNGRVEKSPKTQIDETADEIVVSGQRL-TYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATED-DRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P ++YR + G ++Q GI ++ Q + LD K + Sbjct: 120 HAMLSPKKHVEKIYRAQVAGLMNQTDEERFAAGIELKDFTCQPAQLKILELDEAK-ETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + L EGK ++K++ +V L R++ GP Q LA Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQSDPALA 220 >gi|229087098|ref|ZP_04219248.1| RNA pseudouridine synthase [Bacillus cereus Rock3-44] gi|228696166|gb|EEL49001.1| RNA pseudouridine synthase [Bacillus cereus Rock3-44] Length = 229 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 120/233 (51%), Gaps = 10/233 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I++A SRRE +R+I RV +NG + A+ V + D + +DG + K + + Sbjct: 2 KINQFISKALSCSRRETDRLIKANRVAINGEICTHGAL-VAADDIVSIDGKTIEKEAKEK 60 Query: 75 LWL-YHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+LLTNDG +A Sbjct: 61 IYIAFHKPVGITCTAAEHIEGNIIEYINHPE---RIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + +G+ I+ +VT ++ + Sbjct: 118 QILHGDHEHEKEYIVTVDKPFTDWFIDSMSRGVKIKDGMTKPCKVT----GVDHSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L +G NR+I+++ F + V +L R+ L L G R VS++ L E + Sbjct: 174 LTQGMNRQIRRMSRAFGYTVTKLKRVRIMNITLDGLEVGEWRNVSEQELIELM 226 >gi|70728809|ref|YP_258558.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas fluorescens Pf-5] gi|68343108|gb|AAY90714.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas fluorescens Pf-5] Length = 230 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 62/230 (26%), Positives = 115/230 (50%), Gaps = 5/230 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R++V ++ Q+R++++G + V +E+D L+ + R Sbjct: 2 RIDRFLSNLPRFNRQQVRVLLVQRRIRIDGQPVSDPKAEVREFSRVELDDEVLQAGKPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP+G V+ DP+ + TV + + + + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPMGCVSATRDPEHK-TVLELIHEPDPQDLHIAGRLDYNTTGLMLITNDGNWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T+ ++Y V ++ + + G+ + L +A +++ Sbjct: 121 LTQPQTKLPKLYYVETEQEIGPEYVETFAHGLYFAFEDLTTLPAQLQILGPRSARLSIV- 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 EG+ ++K++F FN KV RL R GP L LA G R +S +R Sbjct: 180 -EGRYHQVKRMFGHFNNKVLRLHRERMGPLLLDERLAPGEYRALSDAEIR 228 >gi|218132204|ref|ZP_03461008.1| hypothetical protein BACPEC_00061 [Bacteroides pectinophilus ATCC 43243] gi|217992897|gb|EEC58897.1| hypothetical protein BACPEC_00061 [Bacteroides pectinophilus ATCC 43243] Length = 500 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 69/225 (30%), Positives = 108/225 (48%), Gaps = 17/225 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A + +R +V+ I ++ V VNG+ + + V V + D I V G + + Sbjct: 5 RLDKYLADMQVGTRSQVKEQIRKKLVSVNGVTVTKPDVKVDTDRDKIMV-GSDIIGYTQF 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G+++ +DP ++ V +I + VGRLD +TEGL+L+TNDG LA Sbjct: 64 EYFMLNKPKGVLSAANDPKAQTVVDLITDNICRDLFPVGRLDKDTEGLMLITNDGELAHK 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------LD 180 L P + Y VRF G + + + KGI I D +V L Sbjct: 124 LLSPRKHVDKSYYVRFEGIIADNTVESFAKGIDINIAKCADDEVDNNPKEIYHTKPAKLR 183 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 A +T+ EGK +IK++F +V L RIS G QL Sbjct: 184 LMSADEAVITIS--EGKFHQIKRMFMAAGCRVTYLKRISMGTLQL 226 >gi|195978395|ref|YP_002123639.1| ribosomal small subunit pseudouridine synthase A RsuA [Streptococcus equi subsp. zooepidemicus MGCS10565] gi|195975100|gb|ACG62626.1| ribosomal small subunit pseudouridine synthase A RsuA [Streptococcus equi subsp. zooepidemicus MGCS10565] Length = 237 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 71/232 (30%), Positives = 116/232 (50%), Gaps = 14/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGI--LLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ K + AG+ SR +V+ ++ +++V VNG+ + VN M+ D + G L E Sbjct: 2 RLDKFLVDAGLGSRSQVKLLLKKKQVSVNGVSQTSPKYQVNEMA-DEVSYQGQRLN-YEA 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D + TV D L + V VGRLD +T GLLL+TNDG L Sbjct: 60 FVYYMLNKPKGVISATEDSSHK-TVLDLLDDTARQKAVFPVGRLDKDTHGLLLVTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----TQKGSN 186 A L P + Y G + Q+ + +GI ++ + M LD + Sbjct: 119 AHALLSPKKHVAKQYLAVVDGMMTQEDVKHFAQGITLKD--HQCMPAYLDILEINESLKT 176 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + V + + EGK ++K++ V+ L RIS GP QL + LA G+ R ++ Sbjct: 177 SLVKITIEEGKFHQVKRMVAACGKTVSDLQRISMGPLQLDSALAPGAYRRLT 228 >gi|28209926|ref|NP_780870.1| tRNA pseudouridine synthase A [Clostridium tetani E88] gi|28202361|gb|AAO34807.1| tRNA pseudouridine synthase A [Clostridium tetani E88] Length = 235 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 70/231 (30%), Positives = 115/231 (49%), Gaps = 7/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++ I+ GI SRRE + +I Q++VKVNG + + V S D IEV+G L+K + Sbjct: 2 RLNNFISSTGICSRREADELIKQKKVKVNGEIAPLGYI-VNSKDKIEVNGKLLQKKKNDI 60 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ TT G F N R+ +GRLD ++EGL+LLTNDG + Sbjct: 61 YIALNKPVGITCTTERHIKGNIIDFINHTE---RIFPIGRLDKDSEGLILLTNDGSIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + + Y V + + +N + KG+ I +T + K ++ + Sbjct: 118 ILREENNHEKDYIVTVNKPITPAFINGMSKGVKIYNPVKNQYTITNKCKVVKINSNTFKI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F++KV +L RI L L G R ++ + +R Sbjct: 178 TLSQGLNRQIRRMCSSFSYKVVKLKRIRIINITLKGLNVGKWRNLTDEEVR 228 >gi|146292026|ref|YP_001182450.1| pseudouridine synthase [Shewanella putrefaciens CN-32] gi|145563716|gb|ABP74651.1| pseudouridine synthase [Shewanella putrefaciens CN-32] Length = 242 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 73/238 (30%), Positives = 116/238 (48%), Gaps = 17/238 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGI------LLERAAVNVMSTDHIEVDGVPLR 68 R++K +A+ GI SRRE R+I R+ +NG L++R A + D I +D P+ Sbjct: 2 RLAKYLAQCGIGSRREACRLINAGRITLNGKIAKHTNLVQRDAQG-LCLDSICLDAEPIV 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + E W+++K +G + D ++++ LP R+ VGRLD ++ GLLLLTNDG Sbjct: 61 ETEALAYWIFNKAVGTDCRLLEQD-KTSLLHLLPKA-PRLYPVGRLDKDSRGLLLLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSN 186 L L PS + Y VR D + + G+ Y D+Q TL Q + S Sbjct: 119 ELTHKLMHPSFAHSKTYHVRLDKPFTDDFVEQMASGVR-----YKDLQ-TLPCQVRRLSL 172 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+ + + ++V L R++ L L +G E + L Q Sbjct: 173 DSFEIVLTQGLNRQIRHMSKALGYRVIDLERVAIMALNLRELASGELPEGQMRPLTPQ 230 >gi|325568269|ref|ZP_08144636.1| ribosomal small subunit pseudouridine synthase A [Enterococcus casseliflavus ATCC 12755] gi|325158038|gb|EGC70191.1| ribosomal small subunit pseudouridine synthase A [Enterococcus casseliflavus ATCC 12755] Length = 250 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 71/238 (29%), Positives = 116/238 (48%), Gaps = 8/238 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDG 64 ++ E P R+ K +A G SR+EV+++I + V VNG +++ V+ T D + +G Sbjct: 4 VLYERKKPMRLDKFLADMGYGSRKEVKQLIKKGLVTVNGQVIKSDKAQVLETQDTVCFEG 63 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLL 122 P+ + +L +KP G+++ D TV D R + VGRLD +TEG L Sbjct: 64 EPIV-YQSQFYYLLNKPAGVISATVDS-YEETVLDLFSEEAFREDLFPVGRLDKDTEGFL 121 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLD 180 L+TNDGGLA L P + Y + G + + KGI + G ++Q+ Sbjct: 122 LITNDGGLAHQLLSPKKHVEKEYYAQVEGIMTAEDQKTFAKGIKLDGEWTLPAELQILNV 181 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + + + + L EGK ++K++ +V L RI G L LA G RE++ Sbjct: 182 DEDETRSEIKLILHEGKFHQVKRMVHAVGKEVVYLKRIRMGGLSLPDDLALGEYRELT 239 >gi|218231008|ref|YP_002369348.1| RNA pseudouridine synthase family protein [Bacillus cereus B4264] gi|218158965|gb|ACK58957.1| RNA pseudouridine synthase family protein [Bacillus cereus B4264] Length = 229 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 120/234 (51%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + +G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSRGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|163857342|ref|YP_001631640.1| pseudouridylate synthase [Bordetella petrii DSM 12804] gi|163261070|emb|CAP43372.1| pseudouridylate synthase [Bordetella petrii] Length = 243 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 76/237 (32%), Positives = 116/237 (48%), Gaps = 23/237 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVPLRKAERT 73 R+SK++A G+ SRRE + I + VKV+G+++ I ++ R+ R Sbjct: 5 RISKLMAERGLCSRREADSYIERGWVKVDGVVVAELGARAFPDQVITLERAAQARQTARV 64 Query: 74 RLWLYHKPIGLVTTHSDP---------DGRSTVF-DNLPSIFSR-----VISVGRLDINT 118 + L +KP+G V+ ++ D RS D P F+R + GRLDI++ Sbjct: 65 TI-LINKPVGYVSGQAEKGYTPASALVDARSRYARDRSPLRFTRAHLQGLAVAGRLDIDS 123 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 +GLL+LT DG +AR L + + Y VR G++D L LL G+ + G QV Sbjct: 124 QGLLVLTQDGRIARQLIGEDSSVDKEYLVRVQGRLDAGGLALLNHGLSLDGKPLRPAQV- 182 Query: 179 LDTQKGSNA-WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + NA + LREGK R+I+++ E KV L R+ G +LG L G R Sbjct: 183 ----RWQNADQLCFVLREGKKRQIRRMCELVGLKVVGLKRVRIGRVKLGDLPPGQWR 235 >gi|326803925|ref|YP_004321743.1| pseudouridylate synthase [Aerococcus urinae ACS-120-V-Col10a] gi|326650643|gb|AEA00826.1| pseudouridylate synthase [Aerococcus urinae ACS-120-V-Col10a] Length = 243 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 83/251 (33%), Positives = 124/251 (49%), Gaps = 22/251 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K IA + SR+EV+++I +R+ VN + R + + TD I +DG + E Sbjct: 2 RLDKFIANFTLYSRKEVKKLIKAKRITVNDSIASRPEMQIDEETDTISLDGQWI-GYEPY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS----IFSRVISVGRLDINTEGLLLLTNDGG 129 +L +KP ++T + P S V D LP+ I+ + VGRLD +TEGLLLLTNDG Sbjct: 61 IYYLLNKPQNCLST-TRPGPTSIVTDFLPANEVEIY-QPFPVGRLDKDTEGLLLLTNDGD 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGI-CYGDMQVTLDTQKGSN- 186 A L P + Y G V ++ + KG+ I QG C L T N Sbjct: 119 FAHDLLSPKKLVSKEYYAEIEGIVTEEDVKAFAKGLTIDQGDHCAPSQLDILATDPAKNR 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + +TV L EGK ++K++F+ +V L R F++G+L E+ +L Sbjct: 179 SEITVTLTEGKYHQVKRMFQAVGKEVIYLQR-----FRIGSLYLPEELELGTAF---KLL 230 Query: 247 PHLLEEAQVNL 257 P EEAQ+ L Sbjct: 231 P---EEAQLAL 238 >gi|312796240|ref|YP_004029162.1| ribosomal large subunit pseudouridine synthase F [Burkholderia rhizoxinica HKI 454] gi|312168015|emb|CBW75018.1| Ribosomal large subunit pseudouridine synthase F (EC 4.2.1.70) [Burkholderia rhizoxinica HKI 454] Length = 522 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 121/246 (49%), Gaps = 32/246 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V+V+G +++ V + HI+V +P +A + R Sbjct: 275 RLSKRMSELGLCSRREADEWIEKGWVRVDGQIVDTLGAKVTAAQHIDV--LPNARAAQAR 332 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVF----------DNLPSIFS-----RVISVGRLDIN 117 + +KP+G V+ + D V D P+ FS + GRLDI+ Sbjct: 333 QVTIVLNKPVGYVSGQPEGDYPPAVALITPANRWSDDPAPTRFSATHLRSLAPAGRLDID 392 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQ-------DKLNLLKKGIVIQ 168 + GLL+LT DG +A+ L ++ + Y RVR+ Q DKL L++G+ + Sbjct: 393 STGLLVLTQDGRIAKQLIGEQSEVEKEYLVRVRYGTHTQQVERYFPIDKLAQLREGLSLD 452 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G+ QV D Q G + LREG+ R+I+++ E +V L R+ G LG L Sbjct: 453 GVRLKPAQV--DWQNGEQ--LRFVLREGRKRQIRRMCELVGLEVVGLKRVRIGQLVLGAL 508 Query: 229 LAGSTR 234 +G R Sbjct: 509 PSGKWR 514 >gi|329930177|ref|ZP_08283790.1| ribosomal large subunit pseudouridine synthase F [Paenibacillus sp. HGF5] gi|328935199|gb|EGG31680.1| ribosomal large subunit pseudouridine synthase F [Paenibacillus sp. HGF5] Length = 233 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 63/232 (27%), Positives = 121/232 (52%), Gaps = 8/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE ++++ +V +NG++ + D + + G PL+ ++ Sbjct: 2 RINKFISETGYCSRREADKLVESGKVTINGVVAVLGS-QAEEGDDVRIQGKPLQDKKKHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ +T ++ + + D + R+ +GRLD ++EGL+LLTNDG + + Sbjct: 61 YIALNKPVGITST-TESHIKGNIVDFVGH-NERIFPIGRLDKDSEGLILLTNDGDIVNKI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V V + L + G+ I G++ + + + S + L Sbjct: 119 LRSEGKHEKEYIVTVDRPVTESFLRGMAGGVKI----LGEITLPCEVTRMSERVFRIILT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNR+I+++ F ++V +L RI +LG+ GS R+++ K +E+LG Sbjct: 175 EGKNRQIRRMCSAFGYEVRKLQRIRIMNIRLGSQRIGSWRDLNDK-EKEELG 225 >gi|257893304|ref|ZP_05672957.1| pseudouridine synthase [Enterococcus faecium 1,231,408] gi|257829683|gb|EEV56290.1| pseudouridine synthase [Enterococcus faecium 1,231,408] Length = 238 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 79/229 (34%), Positives = 117/229 (51%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ K+I +R+E++R+ A ++V V+G + R NV S H IEV G L E Sbjct: 2 RLDKLIEEKLETTRKEMKRLFALKQVMVDGTVEFRQNRNVDSLLHRIEVAGEHLETNES- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP VT SDP+ ++TV D + S F + VGRLD +T GLLL+T++G L Sbjct: 61 -YYLLNKPKKAVTAVSDPE-KTTVIDLIASADRFQPLYPVGRLDRDTTGLLLITSNGQLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + LP + + Y+ + +V + +KGIV Y L K TV Sbjct: 119 YEMLLPEKKVSKTYQAVVNERVTSADVAAFEKGIVFAD-GYQCQPANLKILKADKHQSTV 177 Query: 192 GL--REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 L +EGK ++KK+F KV L R+S GP +L LA G R ++ Sbjct: 178 LLTIQEGKFHQVKKMFLAQGKKVIALKRLSMGPLELDEQLAVGEYRSLT 226 >gi|257885740|ref|ZP_05665393.1| pseudouridine synthase [Enterococcus faecium 1,231,501] gi|257821596|gb|EEV48726.1| pseudouridine synthase [Enterococcus faecium 1,231,501] Length = 238 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 72/217 (33%), Positives = 115/217 (52%), Gaps = 11/217 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ K+I +R+E++R+ A ++V ++G + R NV S H IEV G L E Sbjct: 2 RLDKLIEEKLETTRKEMKRLFALKQVMIDGTVELRQNRNVDSLLHQIEVAGEHLETNES- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP VT SDP+ ++TV D + S F + VGRLD +T GLLL+T++G L Sbjct: 61 -YYLLNKPEKAVTAVSDPE-KTTVIDLIASADRFQPLYPVGRLDRDTTGLLLITSNGQLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICY-GDMQVTLDTQKGSNAW 188 + LP + + Y+V + +V + + GIV C D+++ + S Sbjct: 119 YEMLLPEKKVSKTYQVVVNERVTSADVTAFENGIVFADGYQCKPADLKILKADKHQSTVL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +T+ +EGK ++KK+F KV L R+S GP +L Sbjct: 179 LTI--QEGKFHQVKKMFLAQGKKVTALKRLSMGPLEL 213 >gi|160943235|ref|ZP_02090471.1| hypothetical protein FAEPRAM212_00721 [Faecalibacterium prausnitzii M21/2] gi|158445474|gb|EDP22477.1| hypothetical protein FAEPRAM212_00721 [Faecalibacterium prausnitzii M21/2] Length = 233 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 70/229 (30%), Positives = 110/229 (48%), Gaps = 8/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A +R E + M+A+ RV+VNG + ++ + TD + VDG L + Sbjct: 2 RLDKYLAETAQCTRSEAKTMLAKGRVQVNGAVCKKGDTQLKDTDTVAVDGALLTYQKFVY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP G+V+ +D +TV D + + R + GRLD + G +LLT+DGG A Sbjct: 62 LML-NKPEGVVSASTDKR-DTTVVDLVGDAYPRRELFPAGRLDKTSTGFVLLTDDGGFAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V + Q+ G+ + G +VT + G V V Sbjct: 120 DILSPRHHVSKTYTVTIDTPLTQEMCTGFAAGVTLADGTALSPAEVTALSPDGLT--VRV 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 LR+G +IK++F + VN L R + G L LA G RE+S + Sbjct: 178 VLRQGVYHQIKRMFGVYGAGVNALHREAIGGLALDAQLAPGQWRELSDE 226 >gi|126662471|ref|ZP_01733470.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Flavobacteria bacterium BAL38] gi|126625850|gb|EAZ96539.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Flavobacteria bacterium BAL38] Length = 297 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 56/208 (26%), Positives = 106/208 (50%), Gaps = 3/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ I+ +G+ SRR+ + I VKVNG ++ V TD ++ DGV + E+ Sbjct: 65 RLNRYISNSGMCSRRDADIYIQSGNVKVNGEVITEMGYRVKLTDSVQFDGVNIT-PEKKE 123 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP T D G + V D + + + ++ VGR+D T GLLL TND + + Sbjct: 124 YILLNKPKNFSTAGDDSAGSANVLDLVRNATKANLMPVGRMDKTTTGLLLFTNDTEIVQK 183 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 +P+ + +VY+V + + L ++KG+ I +VT Q + + + + Sbjct: 184 FTVPNQRSSKVYQVTLDKNLKFEDLEKIQKGLTIDDHKVFVEEVTY-IQDQPKSEIGIKM 242 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 + + ++K+FE F + V ++ R+++ Sbjct: 243 KTSNVKVVRKIFEHFKYDVLKVDRVTFA 270 >gi|309798788|ref|ZP_07693052.1| RNA pseudouridine synthase family protein [Streptococcus infantis SK1302] gi|308117605|gb|EFO55017.1| RNA pseudouridine synthase family protein [Streptococcus infantis SK1302] Length = 241 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 120/233 (51%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A+ I SR+ +++ + ++ + V+G+ A N + G+ ++ E T Sbjct: 2 RLDKLLAQEKI-SRKAMKQALLKKEILVDGLPASSLAQNTDTGLQELMFQGIRIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT D TV D LP ++ ++GRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPNGVVTASKDKK-LPTVMDLLPQHLQSDQLYAIGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + K GI+ + G Q+ + + S + T Sbjct: 119 FQLLHPQYHVDKTYQVEVNGPLTPDHIQEFKDGIIFLDGTICKPAQLEILSSSPSLSKAT 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK ++KK+F KV L R+ +G F L LA G R ++K+ L+ Sbjct: 179 ITISEGKFHQVKKMFLSVGVKVTALKRVQFGNFILNPDLAEGDFRLLNKEELQ 231 >gi|229917541|ref|YP_002886187.1| RNA-binding S4 domain protein [Exiguobacterium sp. AT1b] gi|229468970|gb|ACQ70742.1| RNA-binding S4 domain protein [Exiguobacterium sp. AT1b] Length = 236 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 70/234 (29%), Positives = 117/234 (50%), Gaps = 14/234 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV--NVMSTDHIEVDGVPLRKAER 72 R++K I+ +G ASRR+ +R++ + RV +NG ++A + V D + V+G R A Sbjct: 2 RINKFISESGKASRRQADRLVEEGRVTING---KKAKIGDQVKPGDEVLVNGSVARVARN 58 Query: 73 TRLWLYHKPIGLV-TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 HKP+G+ TT G N P R+ ++GRLD ++EGL+L+TNDG + Sbjct: 59 NVYIAVHKPVGITSTTEKKVKGNLVDMVNHPL---RIFNIGRLDKDSEGLILMTNDGDIV 115 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V + + + ++ G+ I G + + S + Sbjct: 116 NEILRAEGEHEKEYIVSVDKPITPEFVEQMEAGVKI----LGQKTLPCKVRPLSKFDFNI 171 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L +G NR+I+++ E ++V RL R+ LG L G R++SKK REQL Sbjct: 172 TLTQGLNRQIRRMCEALGYEVFRLQRVRVMNITLGKLPPGQWRDLSKK-EREQL 224 >gi|256848777|ref|ZP_05554211.1| 16s pseudouridylate synthase [Lactobacillus crispatus MV-1A-US] gi|256714316|gb|EEU29303.1| 16s pseudouridylate synthase [Lactobacillus crispatus MV-1A-US] Length = 236 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 62/215 (28%), Positives = 106/215 (49%), Gaps = 5/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV ++I + V VNG ++ + D + V+G + ++ Sbjct: 2 RIDKYLANMNVGSRKEVHQLIKKGVVAVNGKTVKTLKEKINENDVVTVNGEEI-AYQKYH 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D ++ + P + ++ VGRLD +T GLLLLTNDG L Sbjct: 61 YFLLNKPKGVLSATEDRSQKTVISLLDPQDRYQGIVPVGRLDKDTTGLLLLTNDGQLNHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAW--VT 190 L P+ +VYR G D++ G+++ G ++ + Q NA + Sbjct: 121 LVAPNKHVAKVYRAEIAGVADEETAKAFASGMMLGDGTKLKPAKLKILKQDRENATSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK +IK++F KV L R+S G L Sbjct: 181 IEISEGKYHQIKRMFGAVGMKVTALDRLSMGNLHL 215 >gi|330808044|ref|YP_004352506.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas brassicacearum subsp. brassicacearum NFM421] gi|327376152|gb|AEA67502.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas brassicacearum subsp. brassicacearum NFM421] Length = 230 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/229 (28%), Positives = 111/229 (48%), Gaps = 9/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 RV + ++ +R++V ++ ++RV+++G + V +EVD L+ R Sbjct: 2 RVDRFLSNLPRFNRQQVRLLLVERRVRIDGQTVSDPHAQVREFSRVEVDDDVLQAGRPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ DP TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPPGCVSATRDPQ-HPTVLDWLDEPDKNDLHIAGRLDFNTTGLMLITNDGSWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V + + + +G+ + + ++TL + + + Sbjct: 121 LTQPQTKLPKVYYVETEQIITAEYADTFARGLYFAFEDLTTQPAELTLLGPRSAR----L 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVSKK 239 + EG+ ++K++F FN KV RL R GP L L G R +S + Sbjct: 177 SIVEGRYHQVKRMFGHFNNKVLRLHRERMGPLTLDAHLEPGQYRALSPE 225 >gi|319951787|ref|YP_004163054.1| ribosomal large subunit pseudouridine synthase f [Cellulophaga algicola DSM 14237] gi|319420447|gb|ADV47556.1| ribosomal large subunit pseudouridine synthase F [Cellulophaga algicola DSM 14237] Length = 243 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 64/235 (27%), Positives = 116/235 (49%), Gaps = 12/235 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 TP R++K ++ G SRR +++I Q RV +NG + E + + D I VDG + K + Sbjct: 5 TPTRINKYLSEVGYCSRRAADKLIDQGRVTINGKVPE-MGTKITAADEIRVDGELIGKPK 63 Query: 72 RTRLWL-YHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L ++KP+G+V T + + D N P R+ +GRLD +EGL+ LT+DG Sbjct: 64 GKHTYLAFNKPVGIVCTTDTGVEKDNIIDFINYPK---RIFPIGRLDKPSEGLIFLTDDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y V + ++ D L + G+ I +V ++ Sbjct: 121 DIVNKILRARNNHEKEYIVSVNKPINSDFLRQMSSGVPILDTVTRPCKV----ERIDKYT 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 ++ L +G NR+I+++ + ++V RL R+ +L L G R++++ L E Sbjct: 177 FSIILTQGLNRQIRRMCDHLEYRVKRLQRVRIMNVELD-LEVGKYRDLTEAELSE 230 >gi|294665479|ref|ZP_06730763.1| pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] gi|292604733|gb|EFF48100.1| pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] Length = 240 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 71/236 (30%), Positives = 116/236 (49%), Gaps = 16/236 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA G SRRE +R+I ++RV VNG+ AV V D + VDG PLR+ E R Sbjct: 4 RLNKYIAETGSCSRREADRLIGERRVTVNGMPAGTGAV-VGEEDTVLVDGQPLRRREAKR 62 Query: 75 LW-------LYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L +KP+G+ TT S G F R+ +GRLD ++EGL+L+T+ Sbjct: 63 LGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHE---QRIFPIGRLDKDSEGLILMTS 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + + + Y V + V + L + +G+ I + + + T + + Sbjct: 120 NGNIVNEILRAENRHQKEYLVAVNKPVTDEFLRRMARGVRI----HNETTLPCRTARIAK 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR Sbjct: 176 FGFRIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELR 231 >gi|81429040|ref|YP_396040.1| pseudouridylate synthase, 16S-rRNA-specific [Lactobacillus sakei subsp. sakei 23K] gi|78610682|emb|CAI55733.1| Pseudouridylate synthase, 16S-rRNA-specific [Lactobacillus sakei subsp. sakei 23K] Length = 239 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 62/216 (28%), Positives = 105/216 (48%), Gaps = 9/216 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ + +R+ ++ ++ RV+V +++ A V + VD P+R + Sbjct: 2 RIDRFLSHMNVGTRKTLKPLLKAGRVRVADKVIKEAKYQVTPETVVYVDDEPIR-YQTNF 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 WL +KP G+++ +DP + TV D R + VGRLD +T GLLL+TNDG LA Sbjct: 61 YWLLNKPAGVISATTDP--QKTVMDLFAPADYREDLFPVGRLDKDTTGLLLITNDGDLAH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQKGSNAWV 189 L P + YR + G V G+ ++ Q+T+ DT + + + Sbjct: 119 DLLSPKKHVAKTYRAKIAGVVTAADQAQFAAGLKLRDFDAQPAQLTILRTDTAR-QESLI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EGK ++K++F +V L RI GP L Sbjct: 178 EVEIHEGKFHQVKRMFHAVGKEVLTLERIKMGPLSL 213 >gi|120600049|ref|YP_964623.1| pseudouridine synthase [Shewanella sp. W3-18-1] gi|120560142|gb|ABM26069.1| pseudouridine synthase [Shewanella sp. W3-18-1] gi|319425319|gb|ADV53393.1| pseudouridine synthase [Shewanella putrefaciens 200] Length = 242 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 71/229 (31%), Positives = 113/229 (49%), Gaps = 17/229 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGI------LLERAAVNVMSTDHIEVDGVPLR 68 R++K +A+ GI SRRE R+I R+ +NG L++R A + D I +D P+ Sbjct: 2 RLAKYLAQCGIGSRREACRLINAGRITLNGKIAKHTNLVQRDAQG-LCLDSICLDAEPIV 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + E W+++K +G + D ++++ LP R+ VGRLD ++ GLLLLTNDG Sbjct: 61 ETEALAYWIFNKAVGTDCRLLEQD-KTSLLHLLPKA-PRLYPVGRLDKDSRGLLLLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSN 186 L L PS + Y VR D + + G+ Y D+Q TL Q + S Sbjct: 119 ELTHKLMHPSFAHSKTYHVRLDKPFTDDFVEQMASGVR-----YKDLQ-TLPCQVRRLSL 172 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + L +G NR+I+ + + ++V L R++ L L +G E Sbjct: 173 DSFEIVLTQGLNRQIRHMSKALGYRVIDLERVTIMALNLRELASGELPE 221 >gi|257899452|ref|ZP_05679105.1| pseudouridine synthase [Enterococcus faecium Com15] gi|257837364|gb|EEV62438.1| pseudouridine synthase [Enterococcus faecium Com15] Length = 238 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 78/229 (34%), Positives = 117/229 (51%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ K+I +R+E++R+ A ++V ++G + R NV S H IEV G L E Sbjct: 2 RLDKLIEEKLETTRKEMKRLFALKQVMIDGTVEFRQNRNVDSLLHRIEVAGEHLETNES- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP VT SDP+ ++TV D + S F + VGRLD +T GLLL+T++G L Sbjct: 61 -YYLLNKPKKAVTAVSDPE-KTTVIDLIASADRFQPLYPVGRLDRDTTGLLLITSNGQLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + LP + + Y+ + +V + +KGIV Y L K TV Sbjct: 119 YEMLLPEKKVSKTYQAVVNERVTSADVAAFEKGIVFAD-GYQCQSANLKILKADKHQSTV 177 Query: 192 GL--REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 L +EGK ++KK+F KV L R+S GP +L LA G R ++ Sbjct: 178 LLTIQEGKFHQVKKMFLAQGKKVIALKRLSMGPLELDEQLAVGEYRSLT 226 >gi|227892643|ref|ZP_04010448.1| pseudouridylate synthase [Lactobacillus ultunensis DSM 16047] gi|227865514|gb|EEJ72935.1| pseudouridylate synthase [Lactobacillus ultunensis DSM 16047] Length = 233 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 63/215 (29%), Positives = 109/215 (50%), Gaps = 5/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV ++I + V VNG ++ V TD + V+G + ++ Sbjct: 2 RIDKYLANMNVGSRKEVHQLIKKGIVSVNGQTVKTPKEKVAETDEVTVNGEKIV-YQKYH 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D R+ + +L + ++ VGRLD +T GLLLLTNDG L Sbjct: 61 YFLMNKPKGVLSATEDRSQRTVISLLDLKDQYQGIVPVGRLDKDTTGLLLLTNDGQLNHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWVT 190 L P+ +VYR + G D++ + G+ + + + V + ++ + Sbjct: 121 LLAPNKHVAKVYRAKIAGVADENTVKTFASGMTLGDETKLKPAKLTVLKQDLEHDSSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK +IK++F KV L RIS G +L Sbjct: 181 IEISEGKYHQIKRMFGAVGMKVVELERISMGKLKL 215 >gi|226325127|ref|ZP_03800645.1| hypothetical protein COPCOM_02919 [Coprococcus comes ATCC 27758] gi|225206475|gb|EEG88829.1| hypothetical protein COPCOM_02919 [Coprococcus comes ATCC 27758] Length = 234 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 121/234 (51%), Gaps = 11/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A G +R E++++I RV V+G +++ + + +T + ++G + A++ Sbjct: 3 RIDKYLAEMGQGTRSEIKKLIRSGRVMVDGETVKKPELKIDETTQKVSLEGKQIGYAKKE 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 LY KP G+++ D D TV D + + + VGRLD +TEGLLL+TNDG LA Sbjct: 63 YYMLY-KPAGVISATKD-DRDKTVLDLITDKKRNDLFPVGRLDKDTEGLLLITNDGELAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC---YGDMQVTLDTQKGSNAWV 189 L P +VY + G+VD+ + G+ I D+++ + G + + Sbjct: 121 RLLSPKKHVDKVYYAKVQGKVDESDVKAFADGVDIGDDTPAKSADLRI---LKSGEESEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EG+ ++K++F +V L R+S G L TL G R ++++ ++ Sbjct: 178 ELTITEGRFHQVKRMFHAVGKEVIYLKRLSMGSLALDKTLTKGEYRSLTEEEIK 231 >gi|116328224|ref|YP_797944.1| pseudouridylate synthase [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116330948|ref|YP_800666.1| pseudouridylate synthase [Leptospira borgpetersenii serovar Hardjo-bovis JB197] gi|116120968|gb|ABJ79011.1| Pseudouridylate synthase [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116124637|gb|ABJ75908.1| Pseudouridylate synthase [Leptospira borgpetersenii serovar Hardjo-bovis JB197] Length = 244 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 70/219 (31%), Positives = 107/219 (48%), Gaps = 9/219 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDG---VPLRKA 70 R+++ +A G+ SRR+ E +I + ++ +NG + + +D + G P RK Sbjct: 14 RLNRFLADCGLGSRRKTEELILRGQITINGKRVTDLGTKIKPGSDVVSYLGNVVEPTRKP 73 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +R + + +KP+G + +H D TVF LP + GRLD+N+ GLL+LTNDG L Sbjct: 74 KR--ILILNKPVGYLCSHGDRFHEKTVFSLLPLTYKNFKIAGRLDLNSRGLLILTNDGEL 131 Query: 131 ARVLELPSTQWLRVYRVRF-HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A+ + PS + Y V H ++ +KGI+ G V L G N Sbjct: 132 AQKISHPSNGSEKEYLVTLNHDPGEKWIQAAFQKGILDAGEILRAKMVKL--VPGKNCVY 189 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 V L EGK R+I+++F V L RI G QL L Sbjct: 190 RVILAEGKKRQIRRMFHASGASVIDLQRIRIGSIQLEKL 228 >gi|257896486|ref|ZP_05676139.1| pseudouridine synthase [Enterococcus faecium Com12] gi|293379264|ref|ZP_06625410.1| pseudouridylate synthase [Enterococcus faecium PC4.1] gi|257833051|gb|EEV59472.1| pseudouridine synthase [Enterococcus faecium Com12] gi|292642060|gb|EFF60224.1| pseudouridylate synthase [Enterococcus faecium PC4.1] Length = 238 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 79/229 (34%), Positives = 117/229 (51%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ K+I +R+E++R+ A ++V V+G + R NV S H IEV G L E Sbjct: 2 RLDKLIEEKLETTRKEMKRLFALKQVMVDGTVEFRQNRNVDSLLHRIEVAGEHLETNES- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP VT SDP+ ++TV D + S F + VGRLD +T GLLL+T++G L Sbjct: 61 -YYLLNKPKKAVTAVSDPE-KTTVIDLIASADRFQPLYPVGRLDRDTTGLLLITSNGQLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + LP + + Y+ + +V + +KGIV Y L K TV Sbjct: 119 YEMLLPEKKVSKTYQAVVNERVTSADVAAFEKGIVFAD-GYQCQPANLKILKADKHQSTV 177 Query: 192 GL--REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 L +EGK ++KK+F KV L R+S GP +L LA G R ++ Sbjct: 178 LLTIQEGKFHQVKKMFLAQGKKVIALKRLSMGPLELDERLAVGEYRSLT 226 >gi|257877013|ref|ZP_05656666.1| pseudouridine synthase [Enterococcus casseliflavus EC20] gi|257811179|gb|EEV39999.1| pseudouridine synthase [Enterococcus casseliflavus EC20] Length = 257 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 72/242 (29%), Positives = 117/242 (48%), Gaps = 8/242 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDG 64 ++ E P R+ K +A G SR+EV+++I + V VNG +++ V T D + +G Sbjct: 11 VLYERKKPMRLDKFLADMGYGSRKEVKQLIKKGLVTVNGQVIKSDKAQVQETQDTVCFEG 70 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLL 122 P+ + +L +KP G+++ D TV D R + VGRLD +TEG L Sbjct: 71 EPI-AYQSQFYYLLNKPAGVISATVDS-YEETVLDLFSEEAFREDLFPVGRLDKDTEGFL 128 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLD 180 L+TNDGGLA L P + Y + G + + + KGI + G ++Q+ Sbjct: 129 LITNDGGLAHQLLSPKKHVEKEYYAQVEGIMTAEDQKIFAKGIKLDGEWTLPAELQILNV 188 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 + + + + L EGK ++K++ +V L RI G L LA G RE++ + Sbjct: 189 DEDEMRSEIKLILHEGKFHQVKRMVHAVGKEVVYLKRIRMGGLSLPDDLALGEYRELTSE 248 Query: 240 IL 241 L Sbjct: 249 EL 250 >gi|228948275|ref|ZP_04110558.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228811262|gb|EEM57600.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] Length = 229 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 119/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ ++ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYLSEANSCSRRETDRLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGITKPCKVT----RVDKSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|326318971|ref|YP_004236643.1| pseudouridine synthase Rsu [Acidovorax avenae subsp. avenae ATCC 19860] gi|323375807|gb|ADX48076.1| pseudouridine synthase Rsu [Acidovorax avenae subsp. avenae ATCC 19860] Length = 347 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 79/245 (32%), Positives = 116/245 (47%), Gaps = 31/245 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ SRRE + IA V+VNG + + V TD IEVD + ER Sbjct: 101 RLNKRMAELGLCSRREADDWIASGWVRVNGQVAA-MGLQVAPTDRIEVDPAARGQQERQV 159 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL----------------PSIFSRVISVGRLDINT 118 L HKP+G V+ ++ DG + + P + GRLDI++ Sbjct: 160 TILLHKPMGYVSGQAE-DGHTPAVALINPRTHWREDPSRQRFSPPQLRGLAPCGRLDIDS 218 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFH-GQVDQDKLNLLKKGIVIQGICYGDMQV 177 GLL+LT DG +AR L ++ + Y VR H G V D ++ + + +C+G + Sbjct: 219 VGLLVLTQDGRVARHLIGEDSEVEKEYLVRVHYGDVATDVQSVFPAAQLAR-LCHG---L 274 Query: 178 TLDTQKGSNA---W-----VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 +LD Q A W + L+EGK R+I+++ E KV L RI G LG L Sbjct: 275 SLDGQALKPAKVDWQNPEQLRFVLQEGKKRQIRRMCELVGLKVVGLKRIRIGRVVLGNLP 334 Query: 230 AGSTR 234 G R Sbjct: 335 VGQWR 339 >gi|306830208|ref|ZP_07463392.1| ribosomal small subunit pseudouridine synthase A [Streptococcus mitis ATCC 6249] gi|304427734|gb|EFM30830.1| ribosomal small subunit pseudouridine synthase A [Streptococcus mitis ATCC 6249] Length = 240 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 69/218 (31%), Positives = 110/218 (50%), Gaps = 11/218 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEERDQIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D R TV D L ++R V VGRLDI+T GLLLLTNDG L Sbjct: 62 -YYMMNKPQGVISATEDNKHR-TVLDLLDD-YARAKEVFPVGRLDIDTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNA 187 A L P + Y + G + Q+ ++ KGI ++ + V++D +K + + Sbjct: 119 AHALLSPKRHVDKTYLAQVEGIMSQEDVDTFAKGIPLKDFTCQPAKLELVSVDPEK-NQS 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V V + EGK ++K++ + +V L R++ G L Sbjct: 178 LVRVTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTLAL 215 >gi|301056058|ref|YP_003794269.1| pseudouridylate synthase [Bacillus anthracis CI] gi|300378227|gb|ADK07131.1| pseudouridylate synthase [Bacillus cereus biovar anthracis str. CI] Length = 229 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 119/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEANSCSRRETDRLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT Q + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVTRVDQ----STFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|77409420|ref|ZP_00786117.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae COH1] gi|77171978|gb|EAO75150.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae COH1] Length = 240 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 70/241 (29%), Positives = 121/241 (50%), Gaps = 9/241 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + G+ SR +V+ ++ ++++ VN V V D I+ +G L E+ Sbjct: 2 RLDKFLVECGLGSRTQVKLILKKKQISVNSNSETSPKVQVDEYRDEIKYNGT-LVSYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ HKP G+++ DP + TV D L V VGRLDI+T GLLL+TN+G LA Sbjct: 61 VYYMLHKPKGVISATDDPSHK-TVLDLLDKTARDKAVFPVGRLDIDTTGLLLITNNGELA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CY-GDMQVTLDTQKGSNAWV 189 + P + Y + G + +D + KGI+++ C +++ Q + V Sbjct: 120 HKMLSPKKHVDKCYEAKISGIMTEDDILAFDKGIILKDFTCLPALLEIVEVNQVKKQSLV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVSKKILREQLGPH 248 + ++EGK ++K++ +V L R+S G QL L +G R ++ K + E+L H Sbjct: 180 KITIKEGKFHQVKRMVAACGKEVLELKRLSMGNLQLDKQLESGQWRRLTIKEI-EKLEKH 238 Query: 249 L 249 + Sbjct: 239 M 239 >gi|153947226|ref|YP_001400591.1| ribosomal large subunit pseudouridine synthase E [Yersinia pseudotuberculosis IP 31758] gi|152958721|gb|ABS46182.1| ribosomal large subunit pseudouridine synthase E [Yersinia pseudotuberculosis IP 31758] Length = 208 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 55/179 (30%), Positives = 91/179 (50%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR+T+ +P F V + GRLD ++EGLL+LTNDG L Sbjct: 30 RVLLFNKPFDVLPQFTDESGRTTLQGFIP--FKDVYAAGRLDRDSEGLLVLTNDGKLQAR 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------------- 179 L P+ + +VY V+ G D D L LK+G+ ++ L Sbjct: 88 LTQPAQKTGKVYFVQVEGVPDNDALTQLKRGVTLKDGLTLPAGAELVAEPEWLWPRHPPI 147 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR S G LG L G +E++ Sbjct: 148 RERKTIPTSWLKITLYEGRNRQVRRITAHVGFPTLRLIRFSIGNLSLGNLQPGEWKEIT 206 >gi|310639571|ref|YP_003944329.1| tRNA pseudouridine synthase a [Paenibacillus polymyxa SC2] gi|309244521|gb|ADO54088.1| tRNA pseudouridine synthase A [Paenibacillus polymyxa SC2] Length = 233 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 118/238 (49%), Gaps = 14/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLRKAER 72 R++K I+ G SRRE ++++ RV +NG E A + + D + V+G PLR Sbjct: 2 RINKFISETGFCSRREADKLVESGRVTING---EVAVLGSQAEEGDDVRVNGKPLRDKSD 58 Query: 73 TRLWLYHKPIGLV-TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP+G+ TT S G F P R+ +GRLD ++EGL+LLTNDG + Sbjct: 59 HVYIALNKPVGITSTTESHIRGNIVDFVGHPQ---RIFPIGRLDKDSEGLILLTNDGDIV 115 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V V + + G+ I G + + + S + Sbjct: 116 NKILRAEGKHEKEYIVTVDRPVTPSFVQGMSSGVKI----LGHRTLPCEVTRVSEYVFRI 171 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 L EGKNR+I+++ F ++V +L R+ +LG+L G+ R++++ +++LG L Sbjct: 172 ILTEGKNRQIRRMCAAFGYEVKKLQRLRIMNIRLGSLQKGAWRDLTEA-EKQELGQML 228 >gi|302813266|ref|XP_002988319.1| hypothetical protein SELMODRAFT_45172 [Selaginella moellendorffii] gi|300144051|gb|EFJ10738.1| hypothetical protein SELMODRAFT_45172 [Selaginella moellendorffii] Length = 251 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 119/233 (51%), Gaps = 18/233 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPL-RKAE 71 +R+SKV+A AG+ASRR E +I +V VNG + +V D I +DG P+ R+ Sbjct: 20 ERLSKVMAAAGVASRRACEEIIFAGKVVVNGKVCRTPETHVDPLKDLIYIDGKPIPRRLP 79 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS-RVISVGRLDINTE 119 ++ +KP G + + + D + TV+ N P + R +VGRLD+ T Sbjct: 80 PKMVFALYKPKGYICSDAK-DDKKTVYLLLEKYLKTWEKNNPGLTKPRFFTVGRLDVATT 138 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-VDQDKLNLLKKGIVIQGICYGDMQVT 178 GL+ +TNDG A+ + PS+ + Y V + V + +L + G I G+ + V Sbjct: 139 GLIFVTNDGEFAQKVSHPSSGITKEYLVTVDSESVTKRQLKRIASGTEIDGVMCVPISVE 198 Query: 179 L-DTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 L ++ G S + V + EG+N E++++ E KV+ L R+ G +L + L Sbjct: 199 LVKSEPGDSRHRIRVVVTEGRNHEVRQLVESAFLKVHALKRVRVGGLRLPSKL 251 >gi|168025695|ref|XP_001765369.1| predicted protein [Physcomitrella patens subsp. patens] gi|162683422|gb|EDQ69832.1| predicted protein [Physcomitrella patens subsp. patens] Length = 560 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 72/239 (30%), Positives = 120/239 (50%), Gaps = 17/239 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG--ILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R+SKV+A AG+ASRR E +I RVKVNG + + VN + D I +DG L K Sbjct: 242 ERLSKVLAAAGVASRRGSEDIIFAGRVKVNGKVCTVPQTPVNPLK-DTIFLDGRSLPKKP 300 Query: 72 RTRLWL-YHKPIGLVTTHSD--PDGRSTVFDNLPSIF---------SRVISVGRLDINTE 119 + + +KP G + + + P ++ ++ I+ R+ +VGRLD+ T Sbjct: 301 PPKFYFALNKPKGYICSSAKDAPKPALSLLEDYWKIWDKKNPGVSRPRLFTVGRLDVATS 360 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL+TNDG A+ + PS+ + Y +V + +L L+ G +Q + +V L Sbjct: 361 GLLLITNDGDFAQRVSHPSSGLTKEYIATVTERVTKRQLQLIAGGTKVQDVHCVPTEVEL 420 Query: 180 DTQKGSNA--WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + +A + + + EG+NRE++++ +V L R+ G L L+ EV Sbjct: 421 LPPEPGDARNRIRIVVCEGRNREVRELVANAGLEVLALKRVRIGGLSLSRKLSPGKFEV 479 >gi|37520948|ref|NP_924325.1| pseudouridylate synthase [Gloeobacter violaceus PCC 7421] gi|35211943|dbj|BAC89320.1| gll1379 [Gloeobacter violaceus PCC 7421] Length = 185 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 59/175 (33%), Positives = 92/175 (52%), Gaps = 20/175 (11%) Query: 84 LVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQW 141 ++T S +GR T+ D ++P ++ VGRLD ++EGLLLLT+DG LA L P Sbjct: 1 MLTQFSGGEGRHTLKDYIDIPGVYP----VGRLDRDSEGLLLLTDDGALAHRLTDPRFAH 56 Query: 142 LRVYRVRFHGQVDQDKLNLLKKGIVIQG----------ICYGDM---QVTLDTQKG-SNA 187 R Y V+ G D + L L G+ IQG I D+ V + +K + Sbjct: 57 PRTYWVQVEGTPDGEALGRLAAGVEIQGIRTRPATAVAIAEPDLPERPVPIRVRKSIPTS 116 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 W+ + L EG+NR+++++ + RL+R++ G LG L G RE+S++ LR Sbjct: 117 WIALTLTEGRNRQVRRMTAAVGYATLRLVRVAIGALSLGDLAPGRWRELSERELR 171 >gi|315123457|ref|YP_004065463.1| putative ribosomal RNA pseudouridine synthase [Pseudoalteromonas sp. SM9913] gi|315017217|gb|ADT70554.1| putative ribosomal RNA pseudouridine synthase [Pseudoalteromonas sp. SM9913] Length = 329 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 71/227 (31%), Positives = 116/227 (51%), Gaps = 13/227 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE ++ I Q RV VNG L E V V +D + VDG L KA Sbjct: 5 KRLNKFISETGFCSRREADKYIEQGRVTVNGELPE-MGVKVAQSDVVLVDGKQL-KAPPK 62 Query: 74 RLWL-YHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R+++ Y+KP+G+ T ++ +S + N P R+ +GRLD +EGL+ LTN+G + Sbjct: 63 RVYIAYNKPVGITCT-TERKIQSNIVKAVNYP---ERIFPIGRLDRPSEGLIFLTNEGDI 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V +++ +N + GI I +V TQ G+ + Sbjct: 119 VNKILRAGNNHEKEYVVTVDKPLNRQFVNKMANGIPILDTVTKKCKV---TQTGAQQFSI 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+ ++V L R+ L L G R +S Sbjct: 176 I-LTQGLNRQIRRMCEYLGYEVVTLKRVRIMNVTLKGLKVGQWRHLS 221 >gi|315125198|ref|YP_004067201.1| ribosomal RNA pseudouridylate synthase [Pseudoalteromonas sp. SM9913] gi|315013711|gb|ADT67049.1| putative ribosomal RNA pseudouridylate synthase [Pseudoalteromonas sp. SM9913] Length = 230 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 66/224 (29%), Positives = 110/224 (49%), Gaps = 21/224 (9%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN---VMSTDHIEVDGVPLR 68 T R++K IA AGI SR++ R+I + V VN R A + V D + V+G ++ Sbjct: 3 TKIRLAKYIAHAGICSRKQASRLIDEGVVIVNN----RPANHIDHVDENDRVIVNGHAIK 58 Query: 69 KAERTRLWLYHKPIGLVT--THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + YHKP+G+ H DP S++ +LP + +RV +GRLD ++ GL++LTN Sbjct: 59 GPADLVYFAYHKPVGIDCKLNHHDP---SSLIHHLPQL-TRVYPIGRLDKDSRGLIILTN 114 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKG 184 DG L P + Y V + +D + G+ + D Q+T + K Sbjct: 115 DGDFCNQLIHPDFHQPKRYLVTVNKPLDAHFCEKMAAGVPV------DKQITRPCEVVKI 168 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 ++ ++ L++G NR+I+K+ + + V L R+ L L Sbjct: 169 ASNQFSIVLKQGLNRQIRKMAHYCGYTVIDLYRVQISELLLDNL 212 >gi|229099009|ref|ZP_04229944.1| RNA pseudouridine synthase [Bacillus cereus Rock3-29] gi|229118040|ref|ZP_04247400.1| RNA pseudouridine synthase [Bacillus cereus Rock1-3] gi|228665489|gb|EEL20971.1| RNA pseudouridine synthase [Bacillus cereus Rock1-3] gi|228684507|gb|EEL38450.1| RNA pseudouridine synthase [Bacillus cereus Rock3-29] Length = 240 Score = 87.8 bits (216), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 68/243 (27%), Positives = 123/243 (50%), Gaps = 10/243 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 ++ E ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG Sbjct: 4 LIYEKEQNMKINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDDDVVTIDGQ 62 Query: 66 PLRKAERTRLWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLL 123 + K E+ ++++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+L Sbjct: 63 VIAKEEKEKVYIAFHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLDKASEGLIL 119 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG +A + + + Y V ++ + G+ I+ G + T+ Sbjct: 120 LTNDGAIANQILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKD---GMTKPCKVTRV 176 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 G + + V L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 177 GQSTFRIV-LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELHELEVGKWRSVTAEELEI 235 Query: 244 QLG 246 +G Sbjct: 236 LIG 238 >gi|218192109|gb|EEC74536.1| hypothetical protein OsI_10056 [Oryza sativa Indica Group] Length = 279 Score = 87.8 bits (216), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 62/210 (29%), Positives = 107/210 (50%), Gaps = 13/210 (6%) Query: 29 REVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLWL-YHKPIGLVT 86 R E +I Q +V VNG + V +S D I V+G + K +L+ +KP G + Sbjct: 46 RTCEELIFQGKVTVNGSVCTAPQTKVDISKDSIYVNGNRISKKLPPKLYFAVNKPKGYIC 105 Query: 87 THSDPDGRSTVFDNL--------PSIF-SRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 + + ++FD+ P + R+ +VGRLD+ T GL+++TNDG A+ L P Sbjct: 106 SCGERKSIISLFDDYLKGWNKIQPGVPKPRLFTVGRLDVATSGLIIITNDGEFAQKLSHP 165 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSN-AWVTVGLRE 195 S+ ++ Y V G V ++ L + +G I G+ C D+ LD Q + + + + E Sbjct: 166 SSNIMKEYVVTIDGPVHRNHLIAISEGTKIDGVKCIPDLVEPLDVQSNTKRTRIRIAVHE 225 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G+N E++++ + +V L R+ G F+L Sbjct: 226 GRNHEVRELVQNAGLEVYALKRVRIGRFRL 255 >gi|182419423|ref|ZP_02950675.1| RNA pseudouridine synthase family protein [Clostridium butyricum 5521] gi|237666914|ref|ZP_04526899.1| RNA pseudouridine synthase family protein [Clostridium butyricum E4 str. BoNT E BL5262] gi|182376754|gb|EDT74326.1| RNA pseudouridine synthase family protein [Clostridium butyricum 5521] gi|237658113|gb|EEP55668.1| RNA pseudouridine synthase family protein [Clostridium butyricum E4 str. BoNT E BL5262] Length = 238 Score = 87.8 bits (216), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 76/238 (31%), Positives = 126/238 (52%), Gaps = 17/238 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 +R+ KVI+ G SR++V+ + + ++V+G++++ ++V I+++G + + Sbjct: 2 ERLDKVISNLGYGSRKDVKAFVKKGLIEVDGVIVKDNGLSVDPEKSVIKINGEEVFYRKY 61 Query: 73 TRLWLYHKPIGLVT-THSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDG 128 L + +KP G+++ TH + D TV D L +F VGRLD +T GLLLLTNDG Sbjct: 62 IYLMM-NKPAGVISATHDNRD--ETVIDLLYVDHQVFEP-FPVGRLDKDTVGLLLLTNDG 117 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----TQKG 184 L L P +VY + +VD+ + K GI + Y M+ L+ +++G Sbjct: 118 ELNHRLISPKWHVDKVYYAKIDKKVDEKDIQAFKSGITLDD-GYKCMEAKLEIISASEEG 176 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 S VT+ +EGK ++K++FE KV L R +G L T L G RE+S + L Sbjct: 177 SEIRVTI--QEGKFHQVKRMFEAVGKKVEYLKREEFGGLSLDTDLEEGEYRELSDEEL 232 >gi|89897918|ref|YP_515028.1| ribosomal large subunit pseudouridine synthase B [Chlamydophila felis Fe/C-56] gi|89331290|dbj|BAE80883.1| ribosomal large subunit pseudouridine synthase B [Chlamydophila felis Fe/C-56] Length = 239 Score = 87.8 bits (216), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 74/230 (32%), Positives = 111/230 (48%), Gaps = 11/230 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKA 70 T R++K +A +G+ASRR+ + +I V VNG + V V TD ++VDG R+ Sbjct: 9 TKVRLNKFLASSGVASRRKCDEIIFSGHVTVNGRVAPGPFVLVDEETDTVKVDG---RRV 65 Query: 71 ERTR--LWLYHKPIG-LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 T+ ++ HKP+G L ++ G V D + RV +VGRLD T GL+L+TND Sbjct: 66 GMTKKVYFMVHKPLGYLCSSERKFPGDKLVIDLFSHLPYRVFTVGRLDKETSGLILVTND 125 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + PS + Y ++ V L L G +I G + V +K Sbjct: 126 GEFSNKIIHPSFGITKEYLLKVSRDVTAKNLEDLMGGTIIDGKRVRPVSV----EKIRRG 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + EGK EI+ E + L RI G F LG L G RE++ Sbjct: 182 TIKIIVNEGKKHEIRLFAEAAGLPILELSRIRIGSFVLGGLRYGEYRELT 231 >gi|150391402|ref|YP_001321451.1| pseudouridine synthase [Alkaliphilus metalliredigens QYMF] gi|149951264|gb|ABR49792.1| pseudouridine synthase [Alkaliphilus metalliredigens QYMF] Length = 243 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 78/239 (32%), Positives = 119/239 (49%), Gaps = 18/239 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ K++A G SR ++ R+ Q V VNG AV S+ H+E + + E Sbjct: 5 QRLDKILANLGHGSRSDIRRLCRQGVVTVNG------AVVKSSSQHVEPENDKITVGEEE 58 Query: 74 ---RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLT 125 R ++Y +KP +++ D + TV D L S + V VGRLD +TEGLL+LT Sbjct: 59 IYYREFVYIMMNKPQDVISATEDFKEK-TVVDLLESKYQAFDVFPVGRLDKDTEGLLMLT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L P + Y + G V + +KGI I+ M L K Sbjct: 118 NDGKLAHQLLSPKKHVPKTYYAKIEGVVTDADVEAFEKGIFIEE-NLQTMPSQLKILKAD 176 Query: 186 N-AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + V V + EGK ++K++F+ + +V L R+S G L +L G+ RE+S++ L+ Sbjct: 177 EISEVEVTIYEGKYHQVKRMFQATDKEVVYLKRLSMGSLMLDNSLDLGTYRELSEEELQ 235 >gi|291522303|emb|CBK80596.1| ribosomal large subunit pseudouridine synthase F [Coprococcus catus GD/7] Length = 261 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 73/262 (27%), Positives = 131/262 (50%), Gaps = 23/262 (8%) Query: 4 KNIVQENF--TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K+I+ EN + R+++ ++ AG SRRE +R+I RV V+G E V ++ Sbjct: 6 KDILHENEDKSDVRLNRFLSDAGFCSRREADRLIEAGRVTVDGTKAE-LGTRVRPGQVVK 64 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 V +R+ +R L ++KP G+V T ++ + D + R+ +GRLD ++EGL Sbjct: 65 VGSKVVRQNDRMVLIAFNKPRGIVCTTDRVREKNNIIDYI-HYPERIYPIGRLDKDSEGL 123 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 +LLTNDG + + S + Y VR + ++ + + + KG+ I LDT Sbjct: 124 ILLTNDGTIVNHILKASQYHEKEYIVRVNKKITDEFIQGMSKGVPI-----------LDT 172 Query: 182 -------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 ++ + ++ L +G NR+I+ + F++ V +L R+ +LG+L G R Sbjct: 173 VTRPCTLRRIDDYTFSIILTQGLNRQIRYMCRHFDYHVTKLKRVRIMNIRLGSLPVGKWR 232 Query: 235 EVSKKILREQLGPHLLEEAQVN 256 +V+ + L EQL + + N Sbjct: 233 DVTAEEL-EQLKRQFIANDRRN 253 >gi|254480346|ref|ZP_05093594.1| conserved hypothetical protein, putative [marine gamma proteobacterium HTCC2148] gi|214039908|gb|EEB80567.1| conserved hypothetical protein, putative [marine gamma proteobacterium HTCC2148] Length = 313 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 73/268 (27%), Positives = 133/268 (49%), Gaps = 29/268 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA---E 71 R++K I+ +G SRRE +++IA RVK+NG E V S D + VDG + + + Sbjct: 8 RLNKFISESGHCSRREADKLIASNRVKINGTRPE-LGTKVESGDVVTVDGQEIMGSAPGK 66 Query: 72 RTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R+++ Y+KP+G+ T ++ + + D + R+ +GRLD +EGL+LLT+DG + Sbjct: 67 SDRVYIAYNKPVGITCT-TERSVQGNIVDAIDH-HQRIFPIGRLDKPSEGLILLTSDGDI 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + GI I +V++ + N + Sbjct: 125 VNKILRAENAHEKEYLVTVNKSIGKGFSEKMAGGIPILNTVTKPCKVSVVRR---NVFKI 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L EG NR+I+++ EF +++V +L+R+ LG L G R ++++ Sbjct: 182 I-LTEGLNRQIRRMCEFLDYEVTQLVRLRIMNVHLGKLKVGQWRNLTEQ----------- 229 Query: 251 EEAQVNL-------DAPIYSSETLVRDR 271 E AQ+N+ P SS++ + R Sbjct: 230 EMAQLNIAISGSTGSPPKKSSQSAAKKR 257 >gi|69249938|ref|ZP_00605064.1| Pseudouridine synthase, Rsu [Enterococcus faecium DO] gi|257878831|ref|ZP_05658484.1| pseudouridine synthase [Enterococcus faecium 1,230,933] gi|257881468|ref|ZP_05661121.1| pseudouridine synthase [Enterococcus faecium 1,231,502] gi|257890690|ref|ZP_05670343.1| pseudouridine synthase [Enterococcus faecium 1,231,410] gi|258615098|ref|ZP_05712868.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecium DO] gi|260558396|ref|ZP_05830592.1| pseudouridine synthase [Enterococcus faecium C68] gi|261207103|ref|ZP_05921792.1| pseudouridine synthase [Enterococcus faecium TC 6] gi|289565895|ref|ZP_06446335.1| pseudouridine synthase [Enterococcus faecium D344SRF] gi|293556881|ref|ZP_06675442.1| ribosomal small subunit pseudouridine synthase A, putative [Enterococcus faecium E1039] gi|293563628|ref|ZP_06678072.1| ribosomal small subunit pseudouridine synthase A, putative [Enterococcus faecium E1162] gi|293567817|ref|ZP_06679158.1| ribosomal small subunit pseudouridine synthase A, putative [Enterococcus faecium E1071] gi|294616086|ref|ZP_06695897.1| ribosomal small subunit pseudouridine synthase A, putative [Enterococcus faecium E1636] gi|294619421|ref|ZP_06698876.1| ribosomal small subunit pseudouridine synthase A, putative [Enterococcus faecium E1679] gi|294621229|ref|ZP_06700414.1| ribosomal small subunit pseudouridine synthase A, putative [Enterococcus faecium U0317] gi|314938858|ref|ZP_07846129.1| conserved hypothetical protein [Enterococcus faecium TX0133a04] gi|314943663|ref|ZP_07850417.1| conserved hypothetical protein [Enterococcus faecium TX0133C] gi|314949098|ref|ZP_07852458.1| conserved hypothetical protein [Enterococcus faecium TX0082] gi|314952191|ref|ZP_07855209.1| conserved hypothetical protein [Enterococcus faecium TX0133A] gi|314994547|ref|ZP_07859813.1| conserved hypothetical protein [Enterococcus faecium TX0133B] gi|314996546|ref|ZP_07861583.1| conserved hypothetical protein [Enterococcus faecium TX0133a01] gi|68194054|gb|EAN08603.1| Pseudouridine synthase, Rsu [Enterococcus faecium DO] gi|257813059|gb|EEV41817.1| pseudouridine synthase [Enterococcus faecium 1,230,933] gi|257817126|gb|EEV44454.1| pseudouridine synthase [Enterococcus faecium 1,231,502] gi|257827050|gb|EEV53676.1| pseudouridine synthase [Enterococcus faecium 1,231,410] gi|260075570|gb|EEW63876.1| pseudouridine synthase [Enterococcus faecium C68] gi|260078731|gb|EEW66433.1| pseudouridine synthase [Enterococcus faecium TC 6] gi|289162268|gb|EFD10128.1| pseudouridine synthase [Enterococcus faecium D344SRF] gi|291589402|gb|EFF21209.1| ribosomal small subunit pseudouridine synthase A, putative [Enterococcus faecium E1071] gi|291591049|gb|EFF22747.1| ribosomal small subunit pseudouridine synthase A, putative [Enterococcus faecium E1636] gi|291594333|gb|EFF25755.1| ribosomal small subunit pseudouridine synthase A, putative [Enterococcus faecium E1679] gi|291599225|gb|EFF30257.1| ribosomal small subunit pseudouridine synthase A, putative [Enterococcus faecium U0317] gi|291600965|gb|EFF31256.1| ribosomal small subunit pseudouridine synthase A, putative [Enterococcus faecium E1039] gi|291604428|gb|EFF33918.1| ribosomal small subunit pseudouridine synthase A, putative [Enterococcus faecium E1162] gi|313589287|gb|EFR68132.1| conserved hypothetical protein [Enterococcus faecium TX0133a01] gi|313591069|gb|EFR69914.1| conserved hypothetical protein [Enterococcus faecium TX0133B] gi|313595723|gb|EFR74568.1| conserved hypothetical protein [Enterococcus faecium TX0133A] gi|313597700|gb|EFR76545.1| conserved hypothetical protein [Enterococcus faecium TX0133C] gi|313641869|gb|EFS06449.1| conserved hypothetical protein [Enterococcus faecium TX0133a04] gi|313644514|gb|EFS09094.1| conserved hypothetical protein [Enterococcus faecium TX0082] Length = 238 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 72/217 (33%), Positives = 115/217 (52%), Gaps = 11/217 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ K+I +R+E++R+ A ++V ++G + R NV S H IEV G L E Sbjct: 2 RLDKLIEEKLETTRKEMKRLFALKQVMIDGTVEFRQNRNVDSLLHQIEVAGEHLETNES- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP VT SDP+ ++TV D + S F + VGRLD +T GLLL+T++G L Sbjct: 61 -YYLLNKPEKAVTAVSDPE-KTTVIDLIASADRFQPLYPVGRLDRDTTGLLLITSNGQLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICY-GDMQVTLDTQKGSNAW 188 + LP + + Y+V + +V + + GIV C D+++ + S Sbjct: 119 YEMLLPEKKVSKTYQVVVNERVTPADVTAFENGIVFADGYQCKPADLKILKADKHQSTVL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +T+ +EGK ++KK+F KV L R+S GP +L Sbjct: 179 LTI--QEGKFHQVKKMFLAQGKKVTALKRLSMGPLEL 213 >gi|229019771|ref|ZP_04176574.1| RNA pseudouridine synthase [Bacillus cereus AH1273] gi|229025998|ref|ZP_04182382.1| RNA pseudouridine synthase [Bacillus cereus AH1272] gi|228735279|gb|EEL85890.1| RNA pseudouridine synthase [Bacillus cereus AH1272] gi|228741496|gb|EEL91693.1| RNA pseudouridine synthase [Bacillus cereus AH1273] Length = 229 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 65/236 (27%), Positives = 119/236 (50%), Gaps = 14/236 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + + V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVCINGEMCTHGVL-VSDGDVVMIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 +++ +HKP+G+ T +D + DN+ R+ VGRLD +EGL+LLTNDGG+ Sbjct: 61 VYIAFHKPVGITCTAADH-----IEDNIIDYIHYPERIFPVGRLDKASEGLILLTNDGGI 115 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + + + Y V +N + G+ I+ +VT + + Sbjct: 116 AHQILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVT----RVDQSTFR 171 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ F + V +L R+ +L L +G R+++ + L +G Sbjct: 172 IVLTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNGLESGKWRDITAEELEILIG 227 >gi|302819504|ref|XP_002991422.1| hypothetical protein SELMODRAFT_45109 [Selaginella moellendorffii] gi|300140815|gb|EFJ07534.1| hypothetical protein SELMODRAFT_45109 [Selaginella moellendorffii] Length = 251 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 119/233 (51%), Gaps = 18/233 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPL-RKAE 71 +R+SKV+A AG+ASRR E +I +V VNG + +V D I +DG P+ R+ Sbjct: 20 ERLSKVMAAAGVASRRACEEIIFAGKVVVNGKVCRTPETHVDPLKDLIYIDGKPIPRRLP 79 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS-RVISVGRLDINTE 119 ++ +KP G + + + D + TV+ N P + R +VGRLD+ T Sbjct: 80 PKMVFALYKPKGYICSDAK-DDKKTVYLLLEKYLKTWEKNNPGLTKPRFFTVGRLDVATT 138 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-VDQDKLNLLKKGIVIQGICYGDMQVT 178 GL+ +TNDG A+ + PS+ + Y V + V + +L + G I G+ + V Sbjct: 139 GLIFVTNDGEFAQKVSHPSSGITKEYLVTVDNESVTKRQLKRIASGTEIDGVMCVPISVE 198 Query: 179 L-DTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 L ++ G S + V + EG+N E++++ E KV+ L R+ G +L + L Sbjct: 199 LVKSEPGDSRHRIRVVVTEGRNHEVRQLVESAFLKVHALKRVRVGGLRLPSKL 251 >gi|254000317|ref|YP_003052380.1| RNA-binding S4 domain-containing protein [Methylovorus sp. SIP3-4] gi|253986996|gb|ACT51853.1| RNA-binding S4 domain protein [Methylovorus sp. SIP3-4] Length = 455 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 73/249 (29%), Positives = 111/249 (44%), Gaps = 30/249 (12%) Query: 11 FTPQ---------RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 FTP+ R+SK +A G+ SRRE + I V+VNG +++ V +IE Sbjct: 204 FTPKPVASQPDLPRLSKRMAELGLCSRREADEWIVNGWVRVNGQVVDELGSRVEPDANIE 263 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFSR--- 107 V + L HKP+G V+ ++ DG D + F R Sbjct: 264 VSKEAEKHQSEIVTILLHKPVGYVSGQAE-DGYEPAVVLVHPDNHWAEDPVQKEFRRGFL 322 Query: 108 --VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +AR L +Q + Y VR G + + L L G+ Sbjct: 323 KGLAPAGRLDIDSTGLLVLTQDGRVARQLIGEDSQTEKEYLVRVEGTLSDEGLRKLNHGL 382 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G+ +V+ + + LREG+ R+I+++ E V L R+ G L Sbjct: 383 SLDGVQLKPAKVSWQNED----QLRFVLREGRKRQIRRMCELVGLHVVGLKRVRIGSVAL 438 Query: 226 GTLLAGSTR 234 G L G R Sbjct: 439 GKLPPGQWR 447 >gi|328947715|ref|YP_004365052.1| pseudouridine synthase Rsu [Treponema succinifaciens DSM 2489] gi|328448039|gb|AEB13755.1| pseudouridine synthase Rsu [Treponema succinifaciens DSM 2489] Length = 269 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 78/255 (30%), Positives = 129/255 (50%), Gaps = 28/255 (10%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K+++ GI +RR+V+R+I ++ VN I++ +V S+D I VDG PL E+ Sbjct: 8 ERLDKILSNNGIGTRRDVKRLIRSGKISVNRIIVREPEFHVDGSSDEILVDGKPL-TVEQ 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR------VISVGRLDINTEGLLLLTN 126 ++ +K G V + + D R TVF+ + S +R + +VGRLD +TEGLL++T+ Sbjct: 67 NAYFMMNKASGAVCS-TKSDRRKTVFEYIFSEDNRKYPGGNLSTVGRLDADTEGLLIITS 125 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQ-DKLNLLKK---GIVI-------QGICYGDM 175 DG L + P + + Y V VD +KL+ KK G+ I + C + Sbjct: 126 DGNLIHRVTFPKYEVPKTYLVYLRDSVDDSEKLSYEKKLAAGVHIEAEGKDGEADCRPAV 185 Query: 176 -------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-T 227 Q T + + + + EGK E+K++F+ +V L RI L T Sbjct: 186 IEWKEKNQYHTKTSECPSEVCCLTVTEGKFHEVKRIFKALGNEVVYLKRIRINNLFLDET 245 Query: 228 LLAGSTREVSKKILR 242 L GS R ++K+ +R Sbjct: 246 LKEGSYRPLTKEEIR 260 >gi|329943240|ref|ZP_08292014.1| hypothetical protein G5Q_0929 [Chlamydophila psittaci Cal10] gi|332287819|ref|YP_004422720.1| putative 16S pseudouridine synthase [Chlamydophila psittaci 6BC] gi|313848391|emb|CBY17395.1| putative 16S pseudouridine synthase [Chlamydophila psittaci RD1] gi|325507299|gb|ADZ18937.1| putative 16S pseudouridine synthase [Chlamydophila psittaci 6BC] gi|328814787|gb|EGF84777.1| hypothetical protein G5Q_0929 [Chlamydophila psittaci Cal10] gi|328915079|gb|AEB55912.1| ribosomal large subunit pseudouridine synthase B [Chlamydophila psittaci 6BC] Length = 232 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 74/227 (32%), Positives = 111/227 (48%), Gaps = 11/227 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K +A +G+ASRR+ + +I V VNG + V V TD ++VDG R+ T Sbjct: 5 RLNKFLASSGVASRRKCDEIIFSGHVTVNGRVAPGPFVLVDEETDTVKVDG---RRVGMT 61 Query: 74 R--LWLYHKPIG-LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + ++ HKP+G L ++ G V D + RV +VGRLD T GL+L+TNDG Sbjct: 62 KKVYFMVHKPLGYLCSSERKFPGDKLVIDLFSHLPYRVFTVGRLDKETSGLILVTNDGEF 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + PS + Y ++ V L L +G VI G + V +K + Sbjct: 122 SNKIIHPSFGITKEYLLKVSRDVTAKNLEDLMEGTVIDGKRVRPVSV----EKIRRGTLK 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EGK EI+ E + L RI G F LG L G RE++ Sbjct: 178 IIVNEGKKHEIRLFAEAAGLSILELSRIRIGSFVLGGLRYGEYRELT 224 >gi|220906656|ref|YP_002481967.1| pseudouridine synthase [Cyanothece sp. PCC 7425] gi|219863267|gb|ACL43606.1| pseudouridine synthase [Cyanothece sp. PCC 7425] Length = 195 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 58/191 (30%), Positives = 93/191 (48%), Gaps = 20/191 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R L+HKP G+++ S +G T+ D + + V VGRLD ++EGL+LLTN G L Sbjct: 4 RYLLFHKPYGVLSQFSGGEGPPTLKDYI--TVADVYPVGRLDRDSEGLMLLTNHGELQHR 61 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------- 184 L P R Y V+ G + L L G+++QG C QV + + Sbjct: 62 LSDPRFAHPRTYWVQVEGCPTPEALEQLATGVMVQGKCTRPAQVEVLAAEPDLPPRDPPI 121 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE--- 235 W+++ LREG+NR+++++ + RL+R++ LG+L G R+ Sbjct: 122 RFRLSIPTTWLSLTLREGRNRQVRRMTAAVGFPTLRLVRVAIAHLNLGSLAPGQWRDLTP 181 Query: 236 VSKKILREQLG 246 V ++ L Q G Sbjct: 182 VEQQTLLRQTG 192 >gi|294625115|ref|ZP_06703760.1| pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] gi|292600579|gb|EFF44671.1| pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] Length = 240 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 71/236 (30%), Positives = 116/236 (49%), Gaps = 16/236 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA G SRRE +R+I ++RV VNG+ AV V D + VDG PLR+ E R Sbjct: 4 RLNKYIAETGSCSRREADRLIGERRVTVNGMPAGTGAV-VGEEDTVLVDGQPLRRREAKR 62 Query: 75 LW-------LYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L +KP+G+ TT S G F R+ +GRLD ++EGL+L+T+ Sbjct: 63 LGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHE---QRIFPIGRLDKDSEGLILMTS 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + + + Y V + V + L + +G+ I + + + T + + Sbjct: 120 NGNIVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRI----HNETTLPCRTARIAK 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR Sbjct: 176 FGFRIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELR 231 >gi|313202274|ref|YP_004040932.1| RNA-binding s4 domain-containing protein [Methylovorus sp. MP688] gi|312441590|gb|ADQ85696.1| RNA-binding S4 domain protein [Methylovorus sp. MP688] Length = 425 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 73/249 (29%), Positives = 111/249 (44%), Gaps = 30/249 (12%) Query: 11 FTPQ---------RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 FTP+ R+SK +A G+ SRRE + I V+VNG +++ V +IE Sbjct: 174 FTPKPVASQPDLPRLSKRMAELGLCSRREADEWIVNGWVRVNGQVVDELGSRVEPDANIE 233 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFSR--- 107 V + L HKP+G V+ ++ DG D + F R Sbjct: 234 VSKEAEKHQSEIVTILLHKPVGYVSGQAE-DGYEPAVVLVHPDNHWAEDPVQKEFRRGFL 292 Query: 108 --VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +AR L +Q + Y VR G + + L L G+ Sbjct: 293 KGLAPAGRLDIDSTGLLVLTQDGRVARQLIGEDSQTEKEYLVRVEGTLSDEGLRKLNHGL 352 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G+ +V+ + + LREG+ R+I+++ E V L R+ G L Sbjct: 353 SLDGVQLKPAKVSWQNED----QLRFVLREGRKRQIRRMCELVGLHVVGLKRVRIGSVAL 408 Query: 226 GTLLAGSTR 234 G L G R Sbjct: 409 GKLPPGQWR 417 >gi|294139593|ref|YP_003555571.1| ribosomal small subunit pseudouridine synthase A [Shewanella violacea DSS12] gi|293326062|dbj|BAJ00793.1| ribosomal small subunit pseudouridine synthase A [Shewanella violacea DSS12] Length = 236 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 75/222 (33%), Positives = 111/222 (50%), Gaps = 8/222 (3%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTT 87 R+++ M+AQ RV+V+GI+ + V H+ VD L K R + +KP+G+V+ Sbjct: 20 RKDIRLMLAQNRVRVDGIVAKDIQQLVDEFSHVSVDDAVL-KNNRPSYVMLNKPVGVVSA 78 Query: 88 HSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY 145 D D TV D L P+ S + VGRLD+NT GL+LLTNDG +R L P ++ + Y Sbjct: 79 TKD-DKHKTVIDLLDHPAK-SELHIVGRLDLNTSGLMLLTNDGRWSRKLMSPESKVEKRY 136 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 RV + + ++ KG + L+ A VT L EGK +IK++F Sbjct: 137 RVTLQNPLSTEYIDAFAKGFYFEFEDITTQAAKLEIISEHIAEVT--LTEGKYHQIKRMF 194 Query: 206 EFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 F V L R S G L L G +RE+S + + + G Sbjct: 195 GRFRNPVIGLHRYSVGELLLDPDLDEGGSRELSVEEVNDIFG 236 >gi|227872023|ref|ZP_03990406.1| pseudouridylate synthase [Oribacterium sinus F0268] gi|227842134|gb|EEJ52381.1| pseudouridylate synthase [Oribacterium sinus F0268] Length = 239 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 125/242 (51%), Gaps = 30/242 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K ++ G+ SR ++R I + VK+NG +++ ++ V I P+ E + Sbjct: 2 RLDKYLSDMGVESRSVLKREIRKGLVKINGEIVKDPSMEVQPGNSEIVYKDEPIHYEEFS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-----VISVGRLDINTEGLLLLTNDG 128 ++ +KP+G++++ D + TV D +FS + VGRLD ++EGLLL+ NDG Sbjct: 62 -YYMMNKPVGVLSSTED-RKQKTVLD----LFSDKHRKDLFPVGRLDKDSEGLLLIMNDG 115 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--------D 180 LA L P + Y V G++ +++L+ L+ QGI Y + + Sbjct: 116 ALAHKLLSPKMHIEKKYLVEIPGKISEEELDRLR-----QGIQYDTDLIAMPAKARCLSS 170 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFF--NWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 T++GS V + EGK +IKK+F ++ V +L R+S GP L LA G R++S Sbjct: 171 TEEGSRVEVII--MEGKFHQIKKMFLALSTDYVVTKLQRLSMGPLHLDPALAPGEYRKLS 228 Query: 238 KK 239 ++ Sbjct: 229 EE 230 >gi|134301050|ref|YP_001114546.1| pseudouridine synthase [Desulfotomaculum reducens MI-1] gi|134053750|gb|ABO51721.1| ribosomal small subunit pseudouridine synthase A [Desulfotomaculum reducens MI-1] Length = 249 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 66/230 (28%), Positives = 114/230 (49%), Gaps = 12/230 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ +++ G+ +R+E++++I ++V VNG L +++ DHIEV G + E Sbjct: 8 RLDRLLNHMGLGTRKEIKKLIKAKQVMVNGELAMDPGLHIFPQRDHIEVQGEVIEYREYI 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 L L +KP +++ D + V D L + VGRLD +TEGLLLLTN+G LA Sbjct: 68 YLML-NKPQDVLSATEDASDK-VVIDLLDPTYHSFNPFPVGRLDKDTEGLLLLTNNGKLA 125 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAW 188 L P + Y G V ++ + +G+ + G +++ + + Sbjct: 126 HQLLSPKKHVPKTYYALVQGLVTEEDVAAFARGVELDDGYRTLPGQLKI---IRSAPQSE 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 + + + EGK ++K++FE +V L R+S GP L L G RE++ Sbjct: 183 IELTIYEGKYHQVKRMFEAVGKRVIYLKRLSMGPLVLDNNLKPGEYRELT 232 >gi|152996949|ref|YP_001341784.1| 23S rRNA pseudouridine synthase F [Marinomonas sp. MWYL1] gi|150837873|gb|ABR71849.1| pseudouridine synthase [Marinomonas sp. MWYL1] Length = 355 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 74/264 (28%), Positives = 129/264 (48%), Gaps = 15/264 (5%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--V 65 N + R++K I+ +GI SRR+ +R I Q V +NG +RA+V V++ D + V+G + Sbjct: 3 NASSTRLNKYISESGICSRRDADRFIEQGNVFING---KRASVGDQVVAGDTVRVNGQII 59 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + A+ + +KP+G+V+T + + V + S R+ +GRLD +++GL+ LT Sbjct: 60 EPQDADDFVFIVLNKPVGIVSTTESSEKNNIV--DFVSHGVRIFPIGRLDKDSQGLIFLT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N+G L + + Y V + + D + L G+ I G VT K S Sbjct: 118 NNGDLVNKVLRAGNNHEKEYLVTVNKPITDDFIAGLAGGVPILGTMTKKCPVT----KVS 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E+F ++V +L R L + G R+++ K L L Sbjct: 174 PTVFNITLVQGLNRQIRRMCEYFGYEVVKLERTRIMNVSLKGIPVGEWRDLTPKELSVLL 233 Query: 246 GPHLLEEAQVNLDAPIYSSETLVR 269 +E++ AP S R Sbjct: 234 --KSIEDSSSEASAPAKKSRNAPR 255 >gi|293573040|ref|ZP_06683982.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecium E980] gi|291606942|gb|EFF36322.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecium E980] Length = 238 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 78/229 (34%), Positives = 117/229 (51%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ K+I +R+E++R+ A ++V ++G + R NV S H IEV G L E Sbjct: 2 RLDKLIEEKLETTRKEMKRLFALKQVMIDGTVEFRQNRNVDSLLHRIEVAGEHLETNES- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP VT SDP+ ++TV D + S F + VGRLD +T GLLL+T++G L Sbjct: 61 -YYLLNKPKKAVTAVSDPE-KTTVIDLIASADRFQPLYPVGRLDRDTTGLLLITSNGQLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + LP + + Y+ + +V + +KGIV Y L K TV Sbjct: 119 YEMLLPEKKVSKTYQAVVNERVTSADVAAFEKGIVFAD-GYQCQPANLKILKADKHQSTV 177 Query: 192 GL--REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 L +EGK ++KK+F KV L R+S GP +L LA G R ++ Sbjct: 178 LLTIQEGKFHQVKKMFLAQGKKVIALKRLSMGPLELDEHLAVGEYRSLT 226 >gi|324989740|gb|EGC21683.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK353] Length = 242 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 69/222 (31%), Positives = 110/222 (49%), Gaps = 9/222 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ SR +V++++ + V VNG + + + D I V G L E+ Sbjct: 2 RLDKFLTENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDEAADDIVVSGQRL-IYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATED-DHHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P ++YR + G ++Q + GI ++ + LD +K ++ Sbjct: 120 HAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAHLKILELDEEKEAS-L 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + L EGK ++K++ +V L R++ GP QL LA Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDPALA 220 >gi|229019939|ref|ZP_04176733.1| Pseudouridine synthase [Bacillus cereus AH1273] gi|229026174|ref|ZP_04182538.1| Pseudouridine synthase [Bacillus cereus AH1272] gi|228735102|gb|EEL85733.1| Pseudouridine synthase [Bacillus cereus AH1272] gi|228741357|gb|EEL91563.1| Pseudouridine synthase [Bacillus cereus AH1273] Length = 242 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 70/232 (30%), Positives = 115/232 (49%), Gaps = 16/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++G ++ +V + + + G + E Sbjct: 2 RLDKLLANMGHGSRKEVKKLLKDGVVKIDGTPVKDPKFHVNVEEQEVMIHGEVVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF VGRLDI+TEG LL+TNDG L Sbjct: 62 YLMM-HKPQGVISATED-DNHETVIDLLELEDAIFDP-FPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY----GDMQVTLDTQKGSN 186 L P + Y G V ++ + KG++++ Y GD+ + + Sbjct: 119 THQLLSPKKHVPKKYYAHVSGVVTEEDVKEFAKGVILED-GYETKPGDLTI---LKSDDI 174 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + + + + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 175 SEIELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELT 226 >gi|31747805|gb|AAO38400.1| Lfe193p2 [Leptospirillum ferrooxidans] Length = 164 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 52/132 (39%), Positives = 78/132 (59%), Gaps = 2/132 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A GI SRR E +IA V VNG + V D + V+G L + + T Sbjct: 29 RLQKLLAHRGITSRRNAEELIAGGLVTVNGKVETTPGTKVDPQRDVVVVEGRMLPREKET 88 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L+L++KP G+++ DPDG+ T+ D P+I S ++ +GRLD TEG+LLLTN+G L++ Sbjct: 89 FLFLFYKPKGVISAVFDPDGKPTLKDFFPNI-SPLLHIGRLDFQTEGVLLLTNNGDLSQR 147 Query: 134 LELPSTQWLRVY 145 + P R Y Sbjct: 148 ILHPRFAIPRTY 159 >gi|171779942|ref|ZP_02920846.1| hypothetical protein STRINF_01729 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] gi|171281290|gb|EDT46725.1| hypothetical protein STRINF_01729 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] Length = 242 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 63/216 (29%), Positives = 108/216 (50%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + AGI SR +V++++ +++V VNG + + D I G L E+ Sbjct: 2 RLDKFLVGAGIGSRNDVKQLLKKKQVTVNGEIETSPKTQIDEKIDKIVCQGENLS-YEKY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ D + TV D L V VGRLDI+T GLL LTN+G LA Sbjct: 61 VYYMLNKPKGVISATED-NHHKTVLDLLDKTAWDKEVFPVGRLDIDTHGLLFLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CY-GDMQVTLDTQKGSNAWV 189 + P ++YR + G + + + KGI ++ C +++ + + V Sbjct: 120 HAMLSPKKHVDKLYRAKVAGIMTAEDVEHFAKGIELKDFTCQPAQLEILEIDEAAKTSLV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + ++EGK ++K++ +V L R+S GP QL Sbjct: 180 AITIKEGKFHQVKRMVLACGKEVTDLERLSMGPLQL 215 >gi|62185473|ref|YP_220258.1| putative 16S pseudouridine synthase [Chlamydophila abortus S26/3] gi|62148540|emb|CAH64311.1| putative 16S pseudouridine synthase [Chlamydophila abortus S26/3] Length = 232 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 74/227 (32%), Positives = 111/227 (48%), Gaps = 11/227 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K +A +G+ASRR+ + +I V VNG + V V TD ++VDG R+ T Sbjct: 5 RLNKFLASSGVASRRKCDEIIFSGHVTVNGRVAPGPFVLVDEETDTVKVDG---RRVGMT 61 Query: 74 R--LWLYHKPIG-LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + ++ HKP+G L ++ G V D + RV +VGRLD T GL+L+TNDG Sbjct: 62 KKVYFMVHKPLGYLCSSERTFPGDKLVIDLFSHLPYRVFTVGRLDKETSGLILVTNDGEF 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + PS + Y ++ V L L +G VI G + V +K + Sbjct: 122 SNKIIHPSFGITKEYLLKVSRDVTAKNLEDLMEGTVIDGKRVRPVSV----EKIRRGTLK 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EGK EI+ E + L RI G F LG L G RE++ Sbjct: 178 IIVNEGKKHEIRLFAEAAGLPILELSRIRIGSFVLGGLRYGEYRELT 224 >gi|313894552|ref|ZP_07828116.1| putative 16S pseudouridylate 516 synthase [Veillonella sp. oral taxon 158 str. F0412] gi|313440948|gb|EFR59376.1| putative 16S pseudouridylate 516 synthase [Veillonella sp. oral taxon 158 str. F0412] Length = 232 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 69/216 (31%), Positives = 108/216 (50%), Gaps = 12/216 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K++A SR+EV ++I +RV +NG I ++ + D + VDG + T Sbjct: 2 RLDKLLANKAFGSRKEVHQIIKDRRVTINGEITTKKDIHIDIDIDTVAVDG---QTVNTT 58 Query: 74 RLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGG 129 +L+ +HKP G VT D V D LP + + V+ VGRLD +TEGLLLLTNDG Sbjct: 59 QLYYVKFHKPKGYVTAVEDST-HPVVMDLLPPEYLKMGVVPVGRLDKDTEGLLLLTNDGV 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + +VY V F G++ ++ + +K+GIV+ G + SN Sbjct: 118 WGHSIINGHKHVPKVYYVEFEGELSEEGIQRIKEGIVLGD---GTQCKPALIELLSNQSA 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 T+ + EGK ++K++ V L R++ G L Sbjct: 175 TITIEEGKYHQVKRMIGAAGGTVTYLKRLTIGHVDL 210 >gi|22125695|ref|NP_669118.1| hypothetical protein y1801 [Yersinia pestis KIM 10] gi|45441581|ref|NP_993120.1| putative pseudouridine synthase [Yersinia pestis biovar Microtus str. 91001] gi|51596750|ref|YP_070941.1| pseudouridine synthase [Yersinia pseudotuberculosis IP 32953] gi|108812153|ref|YP_647920.1| pseudouridine synthase [Yersinia pestis Nepal516] gi|145599090|ref|YP_001163166.1| pseudouridine synthase [Yersinia pestis Pestoides F] gi|149366396|ref|ZP_01888430.1| putative pseudouridine synthase [Yersinia pestis CA88-4125] gi|162418698|ref|YP_001607231.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis Angola] gi|165925507|ref|ZP_02221339.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis biovar Orientalis str. F1991016] gi|166008516|ref|ZP_02229414.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis biovar Antiqua str. E1979001] gi|166210805|ref|ZP_02236840.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis biovar Antiqua str. B42003004] gi|167421894|ref|ZP_02313647.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167426327|ref|ZP_02318080.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis biovar Mediaevalis str. K1973002] gi|167470790|ref|ZP_02335494.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis FV-1] gi|186895817|ref|YP_001872929.1| pseudouridine synthase [Yersinia pseudotuberculosis PB1/+] gi|218928776|ref|YP_002346651.1| putative pseudouridine synthase [Yersinia pestis CO92] gi|229841627|ref|ZP_04461785.1| 23S rRNA pseudouridine synthase [Yersinia pestis biovar Orientalis str. PEXU2] gi|229843744|ref|ZP_04463887.1| 23S rRNA pseudouridine synthase [Yersinia pestis biovar Orientalis str. India 195] gi|229894488|ref|ZP_04509670.1| 23S rRNA pseudouridine synthase [Yersinia pestis Pestoides A] gi|229902474|ref|ZP_04517593.1| 23S rRNA pseudouridine synthase [Yersinia pestis Nepal516] gi|294504162|ref|YP_003568224.1| putative pseudouridine synthase [Yersinia pestis Z176003] gi|34098646|sp|Q8ZFQ3|RLUE_YERPE RecName: Full=Ribosomal large subunit pseudouridine synthase E; AltName: Full=rRNA pseudouridylate synthase E; AltName: Full=rRNA-uridine isomerase E gi|21958610|gb|AAM85369.1|AE013782_10 hypothetical protein y1801 [Yersinia pestis KIM 10] gi|45436442|gb|AAS61997.1| putative pseudouridine synthase [Yersinia pestis biovar Microtus str. 91001] gi|51590032|emb|CAH21666.1| putative pseudouridine synthase [Yersinia pseudotuberculosis IP 32953] gi|108775801|gb|ABG18320.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis Nepal516] gi|115347387|emb|CAL20285.1| putative pseudouridine synthase [Yersinia pestis CO92] gi|145210786|gb|ABP40193.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis Pestoides F] gi|149290770|gb|EDM40845.1| putative pseudouridine synthase [Yersinia pestis CA88-4125] gi|162351513|gb|ABX85461.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis Angola] gi|165922616|gb|EDR39767.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis biovar Orientalis str. F1991016] gi|165992898|gb|EDR45199.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis biovar Antiqua str. E1979001] gi|166207985|gb|EDR52465.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis biovar Antiqua str. B42003004] gi|166960379|gb|EDR56400.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167054682|gb|EDR64486.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis biovar Mediaevalis str. K1973002] gi|186698843|gb|ACC89472.1| pseudouridine synthase [Yersinia pseudotuberculosis PB1/+] gi|229680520|gb|EEO76617.1| 23S rRNA pseudouridine synthase [Yersinia pestis Nepal516] gi|229689352|gb|EEO81415.1| 23S rRNA pseudouridine synthase [Yersinia pestis biovar Orientalis str. India 195] gi|229694090|gb|EEO84138.1| 23S rRNA pseudouridine synthase [Yersinia pestis biovar Orientalis str. PEXU2] gi|229703507|gb|EEO90524.1| 23S rRNA pseudouridine synthase [Yersinia pestis Pestoides A] gi|262362279|gb|ACY59000.1| putative pseudouridine synthase [Yersinia pestis D106004] gi|262366212|gb|ACY62769.1| putative pseudouridine synthase [Yersinia pestis D182038] gi|294354621|gb|ADE64962.1| putative pseudouridine synthase [Yersinia pestis Z176003] gi|320014783|gb|ADV98354.1| 23S rRNA pseudouridine synthase [Yersinia pestis biovar Medievalis str. Harbin 35] Length = 208 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 55/179 (30%), Positives = 91/179 (50%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR+T+ +P F V + GRLD ++EGLL+LTNDG L Sbjct: 30 RVLLFNKPFDVLPQFTDESGRTTLQGFIP--FKDVYAAGRLDRDSEGLLVLTNDGKLQAR 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------------- 179 L P+ + +VY V+ G D D L LK+G+ ++ L Sbjct: 88 LTQPAQKTGKVYFVQVEGVPDNDALTQLKRGVTLKDGLTLPAGAELVAEPEWLWPRHPPI 147 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR S G LG L G +E++ Sbjct: 148 RERKTIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRFSMGNLSLGNLQPGEWKEIT 206 >gi|170023963|ref|YP_001720468.1| pseudouridine synthase [Yersinia pseudotuberculosis YPIII] gi|169750497|gb|ACA68015.1| pseudouridine synthase [Yersinia pseudotuberculosis YPIII] Length = 208 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 55/179 (30%), Positives = 91/179 (50%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR+T+ +P F V + GRLD ++EGLL+LTNDG L Sbjct: 30 RVLLFNKPFDVLPQFTDESGRTTLQGFIP--FKDVYAAGRLDRDSEGLLVLTNDGKLQAR 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------------- 179 L P+ + +VY V+ G D D L LK+G+ ++ L Sbjct: 88 LTQPAQKTGKVYFVQVEGVPDNDALTQLKRGVTLKDGLTLPAGAELVAEPEWLWPRHPPI 147 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR S G LG L G +E++ Sbjct: 148 RERKTIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRFSMGNLSLGNLQPGEWKEIT 206 >gi|49478685|ref|YP_038599.1| pseudouridylate synthase [Bacillus thuringiensis serovar konkukian str. 97-27] gi|228935861|ref|ZP_04098671.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|49330241|gb|AAT60887.1| pseudouridylate synthase [Bacillus thuringiensis serovar konkukian str. 97-27] gi|228823629|gb|EEM69451.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] Length = 229 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 119/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT Q + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFMNEMSSGVKIKDGMTKPCKVTRVDQ----STFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRERIMNIELNDLEVGKWRDITTEELELLIG 227 >gi|305666250|ref|YP_003862537.1| ribosomal large subunit pseudouridine synthase B [Maribacter sp. HTCC2170] gi|88708241|gb|EAR00478.1| ribosomal large subunit pseudouridine synthase B [Maribacter sp. HTCC2170] Length = 278 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 59/208 (28%), Positives = 103/208 (49%), Gaps = 3/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A +G+ SRR+ + I+ V VNG + V TD ++ DG L E+ Sbjct: 46 RLNKYVANSGVCSRRDADIYISAGNVTVNGKPITEMGYKVRKTDEVKFDGR-LLNPEKKE 104 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP TT D G+ V + S S+++ V ++D N GLLL TNDG L R Sbjct: 105 YVLLNKPKDFSTTIRDERGKRNVNGLISSASNSKLLPVDKMDKNATGLLLFTNDGDLTRR 164 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L+ P ++Y V + + L +++G+V+ +V+ V + + Sbjct: 165 LKSPKNGLRKIYHVVLNRDLRSADLKKIQEGVVLDEKPVRVQEVSF-IDNAPKREVGIEI 223 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 KN+ ++++FE ++V ++ R+SY Sbjct: 224 YSSKNKVVERIFEELEYEVAKIDRVSYA 251 >gi|262165413|ref|ZP_06033150.1| ribosomal large subunit pseudouridine synthase E [Vibrio mimicus VM223] gi|262025129|gb|EEY43797.1| ribosomal large subunit pseudouridine synthase E [Vibrio mimicus VM223] Length = 246 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 54/177 (30%), Positives = 89/177 (50%), Gaps = 16/177 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LTNDG L L Sbjct: 68 LFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILTNDGILQARLTQ 125 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P ++ + Y V+ G + L L+ G+ ++ +V + ++ Sbjct: 126 PQSKAPKTYWVQVEGVPQESDLEALRHGVTLKDGPTLPAKVEIMSEPELWPRNPPVRFRA 185 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 W+ + L EG+NR+++++ + RLIR S G + LG L G REV+ K Sbjct: 186 AIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPGEWREVTLK 242 >gi|168482908|ref|ZP_02707860.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CDC1873-00] gi|172043870|gb|EDT51916.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CDC1873-00] gi|332203838|gb|EGJ17905.1| hypothetical protein SPAR93_0709 [Streptococcus pneumoniae GA47368] Length = 241 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 73/233 (31%), Positives = 122/233 (52%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ I SR+ +++ + + ++ V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKI-SRKAMKQALLRGKILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSISQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK +IKK+F KV L RI +G F L LA G+ R +++K L+ Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >gi|228987800|ref|ZP_04147909.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|228771848|gb|EEM20305.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] Length = 229 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 118/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDRVTIDGQVIVKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDG +A Sbjct: 61 VYIAFHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|313207477|ref|YP_004046654.1| ribosomal large subunit pseudouridine synthase f [Riemerella anatipestifer DSM 15868] gi|312446793|gb|ADQ83148.1| ribosomal large subunit pseudouridine synthase F [Riemerella anatipestifer DSM 15868] gi|315023377|gb|EFT36387.1| pseudouridine synthase, Rsu [Riemerella anatipestifer RA-YM] gi|325335063|gb|ADZ11337.1| 16S rRNA uridine-516 pseudouridylate synthase related pseudouridylate synthase [Riemerella anatipestifer RA-GD] Length = 241 Score = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 60/224 (26%), Positives = 114/224 (50%), Gaps = 8/224 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRRE ++++ Q R+ +NG + E V + D I+VDG + + + Sbjct: 6 RINKYLSEVGFCSRREADKILEQGRITINGKIPE-LGTKVSAEDEIKVDGKLITEPKEEN 64 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +++ ++KP+G+V T ++ + D + R+ +GRLD +EGL+LLT+DG + Sbjct: 65 VYIAFNKPVGIVCTTDTKREKNNIIDYI-KYPKRIFPIGRLDKPSEGLILLTSDGDIVNK 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + L ++ G+ I G +V ++ + L Sbjct: 124 ILRARNNHEKEYIVRVDKPITNKFLEQMRAGVPILGTVTRKCEV----EQLDKMQFRIVL 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +G NR+I+++ E+ ++V +L RI L L G RE++ Sbjct: 180 TQGLNRQIRRMCEYLGYEVKKLKRIRIMNIHLD-LPIGKWRELT 222 >gi|300072082|gb|ADJ61482.1| ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. cremoris NZ9000] Length = 242 Score = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 72/238 (30%), Positives = 114/238 (47%), Gaps = 21/238 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A +G+ SR EV+ ++ + RV V G + V ++ + DG L E Sbjct: 2 RLDKFLAESGLGSRSEVKVLLKKGRVTVAGEIQRDGRFQVDKNSRQVAFDGQILDYQEYY 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR------VISVGRLDINTEGLLLLTND 127 +L +KP G+V+ D VF + + S + VGRLD NTEGLL+LTND Sbjct: 62 -YYLLNKPQGVVSATKD-----NVFKTVVQLLSEKDFRKDIFPVGRLDKNTEGLLILTND 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTLD 180 G L L P + Y R G+V + +N +G+ ++ G + + D Sbjct: 116 GALGHDLTQPKKHVEKEYFARIDGKVTDEIINKFAEGLTLKNGEKARPGELFVEKTYKGD 175 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 +Q G + + V + EGK ++K++FE V L RI G L + LA G+ R ++ Sbjct: 176 SQSGWVSEIRVIIHEGKFHQVKRMFEAVEMYVLYLKRIRMGNLALDSDLALGAYRPLT 233 >gi|327482354|gb|AEA85664.1| pseudouridine synthase [Pseudomonas stutzeri DSM 4166] Length = 177 Score = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 55/180 (30%), Positives = 95/180 (52%), Gaps = 20/180 (11%) Query: 77 LYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP ++T +D DGR+T+ F ++P ++ GRLD ++EGLLLLTNDG L + Sbjct: 2 LLNKPFDVLTQFADADGRATLKDFVSVPGVYP----AGRLDRDSEGLLLLTNDGRLQARI 57 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT------------ 181 P + + Y V+ G+VD+ +L L++G+ + G+ LD Sbjct: 58 ADPKHKLPKTYWVQVEGEVDETQLERLRQGVELNDGMTLPAEARQLDEPELWPRNPPVRF 117 Query: 182 -QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + +W+ + +REG+NR+++++ RL+R+ GP+ L L G REV ++ Sbjct: 118 RKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGPWALDGLQPGEWREVPAQL 177 >gi|317048876|ref|YP_004116524.1| pseudouridine synthase [Pantoea sp. At-9b] gi|316950493|gb|ADU69968.1| pseudouridine synthase [Pantoea sp. At-9b] Length = 240 Score = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 64/226 (28%), Positives = 107/226 (47%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I++ SR R I +++ +NG ++ A V+ D + DG PL + R Sbjct: 2 RLDKFISQQLEISRAISAREIRAKKITINGEVVRDTAYKVLPDDDVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + +F + ++ + GRLDI+T GL+LLT+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTILFFIEEPMVGKLHAAGRLDIDTTGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VYRV +D + GI + TL+ A +T+ Sbjct: 122 TSPRHHCEKVYRVGVESPIDPSLVEKFAAGIQLHNEKDLTKPATLEIVGPQEALLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G RE++++ Sbjct: 180 EGRYHQVKRMFAASGNHVVTLHRERIGDIVLDADLAEGEYRELTEE 225 >gi|228923295|ref|ZP_04086583.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228836249|gb|EEM81602.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] Length = 229 Score = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 119/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + + V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGTL-VSDGDRVTIDGKVIVKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G++ T +D + + + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 61 VYIAFHKPVGIICTAADHIEDNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|229823649|ref|ZP_04449718.1| hypothetical protein GCWU000282_00950 [Catonella morbi ATCC 51271] gi|229786886|gb|EEP23000.1| hypothetical protein GCWU000282_00950 [Catonella morbi ATCC 51271] Length = 238 Score = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 73/236 (30%), Positives = 119/236 (50%), Gaps = 15/236 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +V+ +AG+ SR +V+R++ +V+V+G + R NV I+V G L + T Sbjct: 2 RLDQVMNQAGLGSRNQVKRLLKSCQVQVDGQVERRPNRNVDPGLQEIKVQGRILTQPAET 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLLLTND 127 WL HKP G++T +D D +TV D L P ++ VGRLD +T GL+ LT + Sbjct: 62 -YWLLHKPQGVLTAVTD-DRFTTVIDCLAPQDQAPGLYP----VGRLDRSTTGLVFLTTN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G L + P + Y+V +G + QD + +GI+I Q + ++ Sbjct: 116 GPLGYRMLHPQYHVEKEYQVVVNGPLTQDHVASFAQGILIDQNRPCAPAHLVIEASGPQE 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 + + +REGK ++KK+F KV +L R+ G L LA G+ R + + L Sbjct: 176 SRARLTIREGKFHQVKKMFLSVGVKVTQLHRLRMGHLVLDQDLAPGAYRPLKPEEL 231 >gi|325473314|gb|EGC76509.1| pseudouridine synthase [Treponema denticola F0402] Length = 245 Score = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 72/239 (30%), Positives = 129/239 (53%), Gaps = 23/239 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKAER 72 R+ +++A +G+ SR +V++MI ++ V+G+ + + ++ TD I +DG PL R Sbjct: 4 RLDRILALSGLGSRSDVKKMIRKKNCCVDGVRIVSPSF-ILDTDLNKITIDGEPL--VLR 60 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGG 129 T ++L ++KP G VT+ SDP + TV D + + F R + +GRLDI+TEGLL++T+DG Sbjct: 61 TNVYLMFNKPQGCVTSTSDPVHK-TVMDYIKAPFDRMTLFPIGRLDIDTEGLLIITDDGE 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQ-VDQDKLNL---LKKGIVIQGICYGDMQVTLDTQKGS 185 + + P + ++ Y + + D++ N +KGI+++ G + +K Sbjct: 120 ITHKITSPKSGTVKTYYLELSREPSDEEFTNYCEEFEKGIMLKN---GYKCLPAKFEKCG 176 Query: 186 N------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 N + + + EGK ++KK+ ++ L RI+ G L TL G RE+S Sbjct: 177 NKTGSFRSGFLMHITEGKFHQVKKMCLSAGNELCYLRRIAVGSIVLDETLKTGEYRELS 235 >gi|25011583|ref|NP_735978.1| hypothetical protein gbs1541 [Streptococcus agalactiae NEM316] gi|77414111|ref|ZP_00790278.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae 515] gi|24413122|emb|CAD47200.1| unknown [Streptococcus agalactiae NEM316] gi|77159822|gb|EAO70966.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae 515] Length = 240 Score = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 63/216 (29%), Positives = 108/216 (50%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + G+ SR +V+ ++ ++++ VNG V V D I+ +G L E+ Sbjct: 2 RLDKFLVECGLGSRTQVKLILKKKQISVNGNSETSPKVQVDEYRDEIKYNGT-LVSYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ HKP G+++ DP + TV D L V VGRLDI+T GLLL+TN+G LA Sbjct: 61 VYYMLHKPKGVISATDDPSHK-TVLDLLDKTARDKAVFPVGRLDIDTTGLLLITNNGELA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CY-GDMQVTLDTQKGSNAWV 189 + P + Y + G + +D + KGI+++ C +++ Q + V Sbjct: 120 HKMLSPKKHVDKCYEAKISGIMTEDDILAFDKGIILKDFTCLPALLEIVEVNQVKKQSLV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + ++EGK ++K++ +V L R+ G QL Sbjct: 180 KITIKEGKFHQVKRMVAACGKEVLELKRLRMGNLQL 215 >gi|294788618|ref|ZP_06753860.1| ribosomal large subunit pseudouridine synthase F [Simonsiella muelleri ATCC 29453] gi|294483495|gb|EFG31180.1| ribosomal large subunit pseudouridine synthase F [Simonsiella muelleri ATCC 29453] Length = 245 Score = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 114/239 (47%), Gaps = 20/239 (8%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK +A + SRRE + I Q VKVNG++ V+ TD I++D + ++ Sbjct: 4 IQPIRLSKRMAELKMCSRREADHYIEQGWVKVNGVVAVLGQ-KVVPTDRIDLDKIAHQQQ 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV----FDNL-----------PSIFSRVISVGRLD 115 + L +KP+G V+ + D R+ + DN P + GRLD Sbjct: 63 AQRVTILLNKPVGFVSGQPEKDYRAAIELIAADNHWNGDTSKIPFHPKQLKGLAPAGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 I++ GLL+LT DG +A+ L + + Y VR G + ++ L LL G+ + G Sbjct: 123 IDSVGLLVLTQDGRIAKQLIGEHSDSEKEYLVRVKGNLIENGLALLNHGLSLDGEKLRPA 182 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +V + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 183 KVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRIGKVKLGALPVGQWR 237 >gi|229525751|ref|ZP_04415156.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae bv. albensis VL426] gi|229339332|gb|EEO04349.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae bv. albensis VL426] Length = 244 Score = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 57/186 (30%), Positives = 93/186 (50%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL AER ++ L++KP ++ +D DGR T+ D + V + GRLD ++EGLL+LT Sbjct: 61 PLSPAER-KVVLFNKPYDTLSQFTDGDGRKTLADYI--QIKDVYAAGRLDRDSEGLLILT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 118 NDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTL 177 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + L EG+NR+++++ + RLIR S G + LG L G Sbjct: 178 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 237 Query: 232 STREVS 237 REV+ Sbjct: 238 EWREVT 243 >gi|163753337|ref|ZP_02160461.1| pseudouridine synthase, Rsu [Kordia algicida OT-1] gi|161327069|gb|EDP98394.1| pseudouridine synthase, Rsu [Kordia algicida OT-1] Length = 244 Score = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 61/210 (29%), Positives = 107/210 (50%), Gaps = 13/210 (6%) Query: 13 PQ--RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 PQ R++K ++ AG SRR +++I Q+RV +NG++ + D + VDG + Sbjct: 4 PQLTRINKFLSEAGYCSRRAADKLIEQRRVTINGVV-PAMGTKIAPGDEVRVDGELISDP 62 Query: 71 ERTRLWL-YHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTND 127 + ++L ++KPIG+V T + + D N PS R+ +GRLD +EGL+ LT+D Sbjct: 63 KEKPVYLAFNKPIGIVCTTDTKVEKDNIIDYINYPS---RIFPIGRLDKPSEGLIFLTSD 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y V + + D + + GI I G +V T+ Sbjct: 120 GDIVNKILRARNNHEKEYEVTVNRPITSDFIQKMGNGIPILGTLTRKCKVEQLTKYTFKI 179 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 +T GL NR+I+++ E+ +++V +L R Sbjct: 180 ILTQGL----NRQIRRMCEYLDYRVVKLKR 205 >gi|125625272|ref|YP_001033755.1| ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. cremoris MG1363] gi|124494080|emb|CAL99081.1| ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. cremoris MG1363] Length = 328 Score = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 72/238 (30%), Positives = 114/238 (47%), Gaps = 21/238 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A +G+ SR EV+ ++ + RV V G + V ++ + DG L E Sbjct: 88 RLDKFLAESGLGSRSEVKVLLKKGRVTVAGEIQRDGRFQVDKNSRQVAFDGQILDYQEYY 147 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR------VISVGRLDINTEGLLLLTND 127 +L +KP G+V+ D VF + + S + VGRLD NTEGLL+LTND Sbjct: 148 -YYLLNKPQGVVSATKD-----NVFKTVVQLLSEKDFRKDIFPVGRLDKNTEGLLILTND 201 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTLD 180 G L L P + Y R G+V + +N +G+ ++ G + + D Sbjct: 202 GALGHDLTQPKKHVEKEYFARIDGKVTDEIINKFAEGLTLKNGEKARPGELFVEKTYKGD 261 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 +Q G + + V + EGK ++K++FE V L RI G L + LA G+ R ++ Sbjct: 262 SQSGWVSEIRVIIHEGKFHQVKRMFEAVEMYVLYLKRIRMGNLALDSDLALGAYRPLT 319 >gi|324996011|gb|EGC27922.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK678] Length = 242 Score = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 70/222 (31%), Positives = 108/222 (48%), Gaps = 9/222 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K +A G+ SR +V++++ + V VNG + + D I V G L E+ Sbjct: 2 RLDKFLAENGLGSRAQVKQILKKGLVLVNGRAEKSPKTQIDERADEIVVSGQRL-TYEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATED-DRHQTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P ++YR + G ++Q + GI ++ Q + LD K + Sbjct: 120 HAMLSPKKHVEKIYRAQVAGLMEQADVERFAAGIELKDFTCQPAQLKILELDEAK-ETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + L EGK ++K++ +V L R++ GP Q LA Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQSDPALA 220 >gi|261400141|ref|ZP_05986266.1| ribosomal large subunit pseudouridine synthase F [Neisseria lactamica ATCC 23970] gi|269210136|gb|EEZ76591.1| ribosomal large subunit pseudouridine synthase F [Neisseria lactamica ATCC 23970] Length = 252 Score = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 75/243 (30%), Positives = 116/243 (47%), Gaps = 30/243 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q RV VNG + AV V+ D IE+D + Sbjct: 15 RLSKRMAQLGLCSRREADGYIEQGRVTVNG----KTAVLGQKVLPADRIELDKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-----------------FDNLPSIFSRVISVGRL 114 L +KP+G V+ ++ +S FD P + S GRL Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITPENRWEGDTGRIRFD--PKHKIGLASAGRL 128 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +AR L ++ + Y VR G++D+ L LL G+ + G Sbjct: 129 DIDSVGLLVLTQDGRIARQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRP 188 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +V + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 189 AKVEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWR 244 Query: 235 EVS 237 ++ Sbjct: 245 YLA 247 >gi|315611910|ref|ZP_07886829.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis ATCC 49296] gi|315316088|gb|EFU64121.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis ATCC 49296] Length = 240 Score = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 74/235 (31%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D R TV D L ++R V VGRLDI+T GLLLLTNDG L Sbjct: 62 -YYMMNKPQGVISATEDTKHR-TVLDLLDD-YARAKEVFPVGRLDIDTHGLLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNA 187 A L P + Y + G + Q+ ++ KGI ++ + V++D +K + + Sbjct: 119 AHALLSPKRHVDKTYLAQVKGIMTQEDVDAFAKGIPLKDFTCQPARLELVSVDPEK-NQS 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V V + EGK ++K++ + +V L R++ G L L G R ++K+ L Sbjct: 178 LVRVTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTLVLDENLEQGEWRRLTKEEL 232 >gi|326791171|ref|YP_004308992.1| pseudouridine synthase Rsu [Clostridium lentocellum DSM 5427] gi|326541935|gb|ADZ83794.1| pseudouridine synthase Rsu [Clostridium lentocellum DSM 5427] Length = 242 Score = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 77/236 (32%), Positives = 126/236 (53%), Gaps = 16/236 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG--ILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ K + G +R V+++I ++VKV+G I+ AVN + T +EV+G + E Sbjct: 7 RLDKYLVHVGYGTRSTVQKIIRGKKVKVDGQVIIKPETAVNSL-TSVVEVNGERMDYQEF 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRS-TVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGG 129 L +KP G +T + DGR TV D L V VGRLD +TEGLL+LTNDG Sbjct: 66 YHFIL-NKPRGYIT--ATEDGRDQTVLDLLEERDQNKEVFPVGRLDKDTEGLLILTNDGK 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICY--GDMQVTLDTQKGSN 186 +A L P +VY R G++ ++ + + +GI + G Y G +++ + + + S Sbjct: 123 MAHGLLSPKRHVDKVYYARVAGKMTEEDIKMFAEGIALTDGTKYAPGKLEI-IRSDEESE 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 +VT+ EGK ++K++ + +V L RI G +L L+ G+ R ++K+ L Sbjct: 182 IYVTI--HEGKFHQVKRMVQAVGKEVVYLKRIKMGGLELPEDLSLGTYRTLTKEEL 235 >gi|78048528|ref|YP_364703.1| pseudouridylate synthase [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|78036958|emb|CAJ24658.1| Pseudouridylate synthase [Xanthomonas campestris pv. vesicatoria str. 85-10] Length = 253 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 118/239 (49%), Gaps = 16/239 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +G SRRE +R+I ++RV VNG+ AV V + D + VDG PLR E + Sbjct: 17 RLNKYIAESGFCSRREADRLIGERRVTVNGVPAGTGAV-VGAEDTVLVDGQPLRIREAKK 75 Query: 75 LW-------LYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L +KP+G+ TT S G F R+ +GRLD ++EGL+L+T+ Sbjct: 76 LGGRKHVYIALNKPVGITCTTESSVKGNIVKFVGHE---QRIFPIGRLDKDSEGLILMTS 132 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + + + Y V + V + L + +G+ I + + + T + + Sbjct: 133 NGNIVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRI----HNETTLPCRTARIAK 188 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR L Sbjct: 189 FGFRIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELRGLL 247 >gi|313673524|ref|YP_004051635.1| RNA-binding s4 domain protein [Calditerrivibrio nitroreducens DSM 19672] gi|312940280|gb|ADR19472.1| RNA-binding S4 domain protein [Calditerrivibrio nitroreducens DSM 19672] Length = 233 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 66/225 (29%), Positives = 112/225 (49%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ IA SRRE + +I V VNG + V D + V G + ++ Sbjct: 2 RLNRFIAFNSNYSRREADELIFNGHVTVNGKPVLVPGYEVKDDDKVSVLGKVISRSNFLY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + Y KP G +T++ DP GR + D +++ GRLD ++EGL+ +NDG + + Sbjct: 62 VKFY-KPRGFLTSYGDPYGRKNLDDFEFFKKTKLAYSGRLDNDSEGLIFFSNDGSIIHRM 120 Query: 135 ELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D++KL ++ G+ I G + V + G N + + + Sbjct: 121 QTPKYDVEKEYIVYTKRPLGDEEKL-AMENGLEIDGYKFKKCSVE---KIGRNKYRVI-I 175 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 EGK R+I+ +F+ FN +V RL+RI LG L G + ++K Sbjct: 176 TEGKKRQIRNMFKHFNIEVERLVRIRIANITLGELKPGDFKFLTK 220 >gi|77457562|ref|YP_347067.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas fluorescens Pf0-1] gi|77381565|gb|ABA73078.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas fluorescens Pf0-1] Length = 230 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 62/216 (28%), Positives = 106/216 (49%), Gaps = 4/216 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 RV + ++ +R++V ++ ++RV+++G ++ V+ +EVD L+ + R Sbjct: 2 RVDRFLSNLPRYNRKQVRLLLVEKRVRIDGKVVSDPHSEVLEFSRVEVDDEVLQPGKPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V+ DP+ TV D + + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLNKPQGCVSATRDPE-HPTVLDLIHEPDKDDLHIAGRLDFNTTGLMLITNDGSWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T+ +VY V ++ + +GI L A +++ Sbjct: 121 LTQPQTKLPKVYYVETEQEIGPEYAIKFAEGIYFAFEDLTTQPAQLQVLGPRTARLSIV- 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 EG+ ++K++F FN KV RL R S GP L L Sbjct: 180 -EGRYHQVKRMFGHFNNKVLRLHRESMGPLALDHAL 214 >gi|306824439|ref|ZP_07457785.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. oral taxon 071 str. 73H25AP] gi|304433226|gb|EFM36196.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. oral taxon 071 str. 73H25AP] Length = 240 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 68/216 (31%), Positives = 103/216 (47%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ D R TV D L + V VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYIMNKPKGVISATEDSKHR-TVLDLLDDLARTKEVFPVGRLDIDTHGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSN-AWV 189 L P + Y + G + Q+ + KGI ++ C L G + + V Sbjct: 120 HALLSPKRHVDKTYLAQVKGIMSQEDVETFAKGISLKDFTCQPAKLEILSVDSGKDESQV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EGK ++K++ + +V L R++ G L Sbjct: 180 RVTIAEGKFHQVKRMVSYCGKEVVDLQRLTMGTLAL 215 >gi|229093645|ref|ZP_04224745.1| RNA pseudouridine synthase [Bacillus cereus Rock3-42] gi|228689732|gb|EEL43539.1| RNA pseudouridine synthase [Bacillus cereus Rock3-42] Length = 229 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 118/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEANSCSRRETDRLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+ LTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLIFLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT Q + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFMNEMSSGVKIKDGMTKPCKVTRVDQ----STFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|119468781|ref|ZP_01611833.1| putative ribosomal RNA pseudouridine synthase [Alteromonadales bacterium TW-7] gi|119447837|gb|EAW29103.1| putative ribosomal RNA pseudouridine synthase [Alteromonadales bacterium TW-7] Length = 338 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 68/226 (30%), Positives = 109/226 (48%), Gaps = 11/226 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE ++ I Q RV VNG E V V +TD + VDG PL+ + Sbjct: 22 KRLNKFISETGFCSRREADKYIEQGRVSVNGNAPE-MGVKVAATDVVLVDGKPLKTPPKR 80 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 Y+KP+G+ T ++ +S + N P R+ +GRLD +EGL+ LTN+G + Sbjct: 81 VYIAYNKPVGITCT-TERKIQSNIVKAVNYPD---RIFPIGRLDRPSEGLIFLTNEGDIV 136 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V +++ ++ + GI I +VT K +T Sbjct: 137 NKILRAGNNHEKEYVVTVDKPLNRQFVSKMANGIPILDTVTKKCKVTQTAPKEFKIILTQ 196 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 GL NR+I+++ E+ ++V L R L L G R +S Sbjct: 197 GL----NRQIRRMCEYLGYEVVTLKRTRIMNVTLKGLKVGQWRHLS 238 >gi|229152747|ref|ZP_04280931.1| RNA pseudouridine synthase [Bacillus cereus m1550] gi|228630725|gb|EEK87370.1| RNA pseudouridine synthase [Bacillus cereus m1550] Length = 229 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 119/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLQVGKWRDITGEELELLIG 227 >gi|33592133|ref|NP_879777.1| putative RNA pseudouridylate synthase [Bordetella pertussis Tohama I] gi|33571777|emb|CAE41283.1| putative RNA pseudouridylate synthase [Bordetella pertussis Tohama I] gi|332381549|gb|AEE66396.1| putative RNA pseudouridylate synthase [Bordetella pertussis CS] Length = 243 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 71/236 (30%), Positives = 114/236 (48%), Gaps = 21/236 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ G+ SRRE + I + V+V+G+++ + I ++ + Sbjct: 5 RISKLMSERGLCSRREADSYIERGWVRVDGVVVSELGARALPDQVITLERAAAARQTARV 64 Query: 75 LWLYHKPIGLVTTHSDP---------DGRS-TVFDNLPSIFSR-----VISVGRLDINTE 119 L HKP+G V+ ++ D RS D P F R + GRLDI+++ Sbjct: 65 TILLHKPVGYVSGQAEKGYTPAVALIDARSRYAGDRAPQRFERGQLQGLAVAGRLDIDSQ 124 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT DG +A+ L ++ + Y VR G++ + L LL G+ + G QV Sbjct: 125 GLLVLTQDGRIAKKLIGEDSEVDKEYLVRVQGRLSEAGLALLNHGLSLDGKPLRPAQV-- 182 Query: 180 DTQKGSNA-WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + NA + LREGK R+I+++ E +V L R+ G LG L AG R Sbjct: 183 ---RWQNADQLRFVLREGKKRQIRRMCELVGLRVVGLKRVRIGRVSLGDLPAGQWR 235 >gi|315645600|ref|ZP_07898724.1| RNA pseudouridine synthase family protein [Paenibacillus vortex V453] gi|315279078|gb|EFU42388.1| RNA pseudouridine synthase family protein [Paenibacillus vortex V453] Length = 230 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 69/234 (29%), Positives = 119/234 (50%), Gaps = 12/234 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAER 72 R++K I++ G SRRE R+IA R+ +NG + E+ A V D + +DG +P +E Sbjct: 2 RINKYISQTGFCSRRETNRLIASGRITINGKVCEKGA-EVEPEDIVLIDGQEIPHNDSEP 60 Query: 73 TRLWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L +KP+G+V T ++ +G + N PS R+ ++GRLD +EGL+LLTNDG + Sbjct: 61 VYLAL-NKPMGIVCTAAEEVEGNIIRYVNYPS---RIFAIGRLDKASEGLILLTNDGDIV 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V V + + + +G+ I + +V + S A + Sbjct: 117 NKMMRSEHDHEKEYVVTVDRPVTDEFMRRMSQGVEILDVVTKPCEVF----RQSEAVFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L +G N +I+++ + ++V +L RI L L G R + ++ L + L Sbjct: 173 ILTQGLNLQIRRMCKALGYRVLKLERIRIMNITLDQLERGKWRHLEERELHKLL 226 >gi|194397181|ref|YP_002037336.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae G54] gi|194356848|gb|ACF55296.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae G54] Length = 241 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 73/233 (31%), Positives = 121/233 (51%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ I SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKI-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSISQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK +IKK+F KV L RI +G F L LA G+ R +++K L+ Sbjct: 179 ITISEGKFHQIKKMFLSVGIKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >gi|304403869|ref|ZP_07385531.1| pseudouridine synthase [Paenibacillus curdlanolyticus YK9] gi|304346847|gb|EFM12679.1| pseudouridine synthase [Paenibacillus curdlanolyticus YK9] Length = 260 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 118/243 (48%), Gaps = 29/243 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K++A G +R E+++ + Q +V V+G +++ + + + + L Sbjct: 16 RLDKLLANMGYGTRSEIKKAVKQGKVTVDGRVVKDSGLQIKPNEQQVAFSGELVVYRDVV 75 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---VGRLDINTEGLLLLTNDGGLA 131 + HKP G+V+ D R +L R++ VGRLD +TEGLLLLTNDG LA Sbjct: 76 YLMLHKPPGVVSATED--SRDETVIDLLDADDRILQPFPVGRLDKDTEGLLLLTNDGQLA 133 Query: 132 RVL-----ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------- 179 L +P T + RV GQ D+++ G+ D VT+ Sbjct: 134 HDLLSPRKHVPKTYFARVLGEEPVGQADRERFA--------AGVELDDGYVTMPAELEVE 185 Query: 180 DTQKGSNAWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTRE 235 ++ + WV+ + ++EGK +IK++F+ +V L R+S GP L TL G+ RE Sbjct: 186 QAEQSDDGWVSLIRITIQEGKFHQIKRMFQAVGKQVIYLKRLSMGPLHLDETLPIGAYRE 245 Query: 236 VSK 238 +++ Sbjct: 246 LTE 248 >gi|332141187|ref|YP_004426925.1| RNA pseudouridine synthase family protein [Alteromonas macleodii str. 'Deep ecotype'] gi|327551209|gb|AEA97927.1| RNA pseudouridine synthase family protein [Alteromonas macleodii str. 'Deep ecotype'] Length = 248 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 66/231 (28%), Positives = 119/231 (51%), Gaps = 13/231 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-----VPL 67 P+R++K I+ G+ SRRE +++I Q+RV VN E + D ++VDG V Sbjct: 6 PKRLNKYISDTGLCSRREADKLIEQKRVSVNNHPPE-LGTKIGPNDIVKVDGKIVGAVAK 64 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 K++R + +Y+KPIG+ T ++ + + D + +R+ VGRLD +EGL++LT+D Sbjct: 65 DKSDRVYI-VYNKPIGITCT-TERHVKGNIIDAIGH-KARIFPVGRLDKPSEGLIILTSD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y V + + + + + +G+ I G V G N Sbjct: 122 GDIVNKILRAENAHDKEYEVTVNQPISERFVKRMARGVPILGTVTKPCVV---KPTGKNT 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + T+ L +G NR+I+++ EF ++V +L R +L L G R +++ Sbjct: 179 F-TIILTQGLNRQIRRMCEFLGYEVTKLKRTRIMHLELKALKPGQWRNLTQ 228 >gi|332522544|ref|ZP_08398796.1| putative 16S pseudouridylate 516 synthase [Streptococcus porcinus str. Jelinkova 176] gi|332313808|gb|EGJ26793.1| putative 16S pseudouridylate 516 synthase [Streptococcus porcinus str. Jelinkova 176] Length = 238 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 75/242 (30%), Positives = 124/242 (51%), Gaps = 17/242 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV----NV-MSTDHIEVDGVPLRK 69 R+ K++ I SR +V+++I+ +++ V+ +R A+ NV I VDG LR Sbjct: 2 RLDKLLETCQIGSRGQVKKLISAKKIIVD----DRVAIGGQQNVDPGLQTIIVDGKVLR- 56 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTND 127 A+ + +KP G+V+ D + TV D L F + VGRLD +TEGL+LLT++ Sbjct: 57 AKGHHYFFLNKPRGVVSALKDRE-HPTVIDCLTEADRFPSLYPVGRLDRDTEGLVLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSN 186 G L + P + Y V +G + D L+ + G+V + G V + + + Sbjct: 116 GPLGFRMLHPKHHVDKSYYVVVNGFLGDDLLSFFRSGVVFLDGTVCKAAAVEILSAREKQ 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS---KKILRE 243 + V L EGK +IKK+F + KV L R+++ F +G L AG R ++ K I+++ Sbjct: 176 SVAKVTLSEGKFHQIKKMFLAYGVKVIYLKRLTFAEFSVGNLAAGEYRTLTAHEKTIVKQ 235 Query: 244 QL 245 L Sbjct: 236 YL 237 >gi|153939754|ref|YP_001392619.1| RNA pseudouridine synthase family protein [Clostridium botulinum F str. Langeland] gi|170754583|ref|YP_001782897.1| RNA pseudouridine synthase family protein [Clostridium botulinum B1 str. Okra] gi|152935650|gb|ABS41148.1| RNA pseudouridine synthase family protein [Clostridium botulinum F str. Langeland] gi|169119795|gb|ACA43631.1| RNA pseudouridine synthase family protein [Clostridium botulinum B1 str. Okra] gi|295320605|gb|ADG00983.1| RNA pseudouridine synthase family protein [Clostridium botulinum F str. 230613] Length = 238 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 75/231 (32%), Positives = 120/231 (51%), Gaps = 11/231 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L + Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGG 129 L + +KP G+V+ D + TV D L IF VGRLD NT GLLLLTNDG Sbjct: 62 IYLMM-NKPQGVVSATFD-NYDETVIDLLEDEDRIFEP-FPVGRLDKNTVGLLLLTNDGE 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--A 187 L L P ++Y + + +V + + KKGI++ Y L+ K N + Sbjct: 119 LNHRLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDD-GYECFPAKLEIIKSFNEES 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 V V + EGK ++K++FE + KV L R +GP +L +L G RE++ Sbjct: 178 EVRVTIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGEYRELT 228 >gi|227889739|ref|ZP_04007544.1| pseudouridylate synthase [Lactobacillus johnsonii ATCC 33200] gi|227849603|gb|EEJ59689.1| pseudouridylate synthase [Lactobacillus johnsonii ATCC 33200] Length = 233 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 67/232 (28%), Positives = 115/232 (49%), Gaps = 16/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV +I ++ V VNG +++ V D + VDG + ++ Sbjct: 2 RIDKYLANMNVGSRKEVHNLIKKKIVTVNGEVVKTPKEQVKEEDQVAVDGEKV-AYQQYH 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D ++ + P + + VGRLD +T GLLLLTNDG LA Sbjct: 61 YFLLNKPKGVISATEDRSQKTVLSLLKPKDRYKDIAPVGRLDKDTTGLLLLTNDGALAHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD--------MQVTLDTQKGS 185 L P+ + YR + G D++ + I G+ GD +++ + ++ Sbjct: 121 LLAPNKHVTKKYRAKIAGVADEETVK-----IFASGMTLGDGTKLKPARLKILMQDKESD 175 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREV 236 + + + ++EGK +IK++F KV L RIS L T L G +E+ Sbjct: 176 ESEIEIEIQEGKYHQIKRMFGAVGMKVIELDRISMEKLVLPTSLKRGEYKEI 227 >gi|228967648|ref|ZP_04128669.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar sotto str. T04001] gi|228792024|gb|EEM39605.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar sotto str. T04001] Length = 229 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 68/236 (28%), Positives = 120/236 (50%), Gaps = 13/236 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDG +A Sbjct: 61 VYIAFHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGTIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVT----RVDQSTFRII 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK---ILREQL 245 L +G NR+I+++ F + V +L R+ +L L G R V+ + IL +QL Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTSEELDILIDQL 229 >gi|224476843|ref|YP_002634449.1| RNA pseudouridine synthase [Staphylococcus carnosus subsp. carnosus TM300] gi|222421450|emb|CAL28264.1| RNA pseudouridine synthase [Staphylococcus carnosus subsp. carnosus TM300] Length = 231 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 62/229 (27%), Positives = 121/229 (52%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + +V+VNG +++ ++ TD I VDG + ++ Sbjct: 2 RLDKYLANMGVGTRSEVKQLLKKNKVQVNGKNEKQSKAHINPDTDEITVDGNLIEYVDKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G ++ D + +ST+ + ++ VGR+ +TEGL+LLTNDG Sbjct: 62 YIML-NKPAGYISATEDEE-QSTIVSLIKDFQHMKIFPVGRVGKDTEGLILLTNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT-V 191 + P+ ++YRV + D + +G+ + Q+ ++ N V V Sbjct: 120 DIMSPNKHVSKIYRVEAKNPITDDDIKQFAEGVELSDGKTKPAQL----ERTENEKVAFV 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 +REG+ ++K++F + +V L R+ G +L + L GS RE++++ Sbjct: 176 SIREGRYHQVKRMFHAIDNEVLNLKRVQIGKLKLDSNLPKGSYRELTQE 224 >gi|255099545|ref|ZP_05328522.1| putative RNA pseudouridine synthase [Clostridium difficile QCD-63q42] Length = 240 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 69/229 (30%), Positives = 113/229 (49%), Gaps = 8/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 QR+ K+++ G SR E+++ Q V VNG + V D I +G + E Sbjct: 5 QRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYREY 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + +KP G ++ +D TV D +L + VGRLD +TEGLL+LTNDG L Sbjct: 65 IYLMM-NKPAGYISATTDK-YDPTVLDLIDLSYLVFEPFPVGRLDKDTEGLLVLTNDGKL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + + P + Y + G V ++ + +G+V+ Y M L+ K + + + Sbjct: 123 SHRVLSPKKHVPKTYYAKIDGVVTEEDVEAFLEGVVLDD-GYKTMPSQLNILKSDDESEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 + + EGK ++K++FE KV L R+S G +L +L G RE++ Sbjct: 182 ELTIHEGKFHQVKRMFESVGKKVVYLKRLSMGNLKLDESLELGEYRELT 230 >gi|49187595|ref|YP_030848.1| RNA pseudouridylate synthase [Bacillus anthracis str. Sterne] gi|229093808|ref|ZP_04224907.1| Pseudouridine synthase [Bacillus cereus Rock3-42] gi|229124274|ref|ZP_04253465.1| Pseudouridine synthase [Bacillus cereus 95/8201] gi|49181522|gb|AAT56898.1| RNA pseudouridylate synthase [Bacillus anthracis str. Sterne] gi|228659175|gb|EEL14824.1| Pseudouridine synthase [Bacillus cereus 95/8201] gi|228689693|gb|EEL43501.1| Pseudouridine synthase [Bacillus cereus Rock3-42] Length = 233 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 70/220 (31%), Positives = 111/220 (50%), Gaps = 10/220 (4%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLWLYHKPI 82 G SR+EV++++ VK++GI ++ A V+V + + + G + E L + HKP Sbjct: 2 GYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKEFVYLMM-HKPQ 60 Query: 83 GLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPST 139 G+++ D D TV D L +IF+ VGRLDI+TEG LL+TNDG L+ L P Sbjct: 61 GVISATED-DNHETVIDLLELEDAIFNP-FPVGRLDIDTEGFLLITNDGKLSHQLLSPKK 118 Query: 140 QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTVGLREGKN 198 + Y G V ++ + KG+++ Y L K + + + + + EGK Sbjct: 119 HVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGALTILKSDDISEIELVITEGKF 177 Query: 199 REIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 ++K++FE KV L R GP L L G RE++ Sbjct: 178 HQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELT 217 >gi|15895934|ref|NP_349283.1| pseudouridylate synthase [Clostridium acetobutylicum ATCC 824] gi|15025707|gb|AAK80623.1|AE007765_5 Predicted pseudouridylate synthase [Clostridium acetobutylicum ATCC 824] gi|325510086|gb|ADZ21722.1| pseudouridylate synthase [Clostridium acetobutylicum EA 2018] Length = 242 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 77/236 (32%), Positives = 120/236 (50%), Gaps = 19/236 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD----HIEVDGVPLRK 69 +R+ K+I+ G SR++V+++I RVKV+G E N D I V+G + Sbjct: 2 ERLDKIISNMGYGSRKDVKKIIKDGRVKVDG---EVVKDNNKQLDPQKSKIIVNGEEISY 58 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---VGRLDINTEGLLLLTN 126 + L + +KP G+++ SD D TV D L + +V +GRLD +T GLL LTN Sbjct: 59 KKYIYLMM-NKPDGVISATSD-DYDKTVID-LLEVEDQVFEPFPIGRLDKDTVGLLFLTN 115 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQK 183 DG L P +VY + V + + K+GIV+ ++V ++++ Sbjct: 116 DGDFNHRLISPKWHVDKVYYAKIDKDVTSEDVVAFKEGIVLDDGYKCMSAKLEVLNNSKE 175 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 GS VTV REGK ++K++FE KV L RIS+ +L L G RE+++ Sbjct: 176 GSEVKVTV--REGKYHQVKRMFEAQGKKVVYLKRISFAGIKLDENLEEGEYRELTE 229 >gi|285018816|ref|YP_003376527.1| rrna pseudouridine synthase [Xanthomonas albilineans GPE PC73] gi|283474034|emb|CBA16535.1| probable rrna pseudouridine synthase protein [Xanthomonas albilineans] Length = 252 Score = 86.7 bits (213), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 121/234 (51%), Gaps = 13/234 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +G SRRE +R+IA +RV VN L V D ++VDG PLR + + Sbjct: 17 RLNKHIAESGFCSRREADRLIAARRVTVND-LPGGVGSVVGEGDEVKVDGQPLRARAKHK 75 Query: 75 LWLYH------KPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +H KP+G VT ++ + + + D + R+ +GRLD ++EGL+L+T++G Sbjct: 76 GGRHHVYIALNKPVG-VTCTTEREVKGNIVDFVGH-EQRIFPIGRLDKDSEGLILMTSNG 133 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + + Y V + V + L + +G+ + + M + T + + Sbjct: 134 DIVNEILRAENRHQKEYLVAVNKPVTDEFLRGIARGVRV----HDQMTLPCRTARIAKFG 189 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+ + F+++V +L R+ +LG L G R ++++ LR Sbjct: 190 FRIVLEQGLNRQIRLMAAAFDYRVTQLRRVRIDNIKLGALKPGQWRNLTEQELR 243 >gi|308066931|ref|YP_003868536.1| ribosomal large subunit pseudouridine synthase F [Paenibacillus polymyxa E681] gi|305856210|gb|ADM67998.1| Ribosomal large subunit pseudouridine synthase F [Paenibacillus polymyxa E681] Length = 233 Score = 86.7 bits (213), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 66/227 (29%), Positives = 112/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLRKAER 72 R++K I+ G SRRE ++++ RV +NG E A + + D + V+G PLR+ Sbjct: 2 RINKFISETGFCSRREADKLVESGRVTING---EVAVLGSQAEEGDDVRVNGKPLREKSD 58 Query: 73 TRLWLYHKPIGLV-TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP+G+ TT S G F P R+ +GRLD ++EGL+LLTNDG + Sbjct: 59 HVYIALNKPVGITSTTESHIRGNVVDFVGHPQ---RIFPIGRLDKDSEGLILLTNDGDIV 115 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V V + + G+ I G + + + S + Sbjct: 116 NKILRAEGKHEKEYIVTVDRPVIPSFVQGMSSGVKI----LGQRTLPCEVTRVSEYVFRI 171 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L EGKNR+I+++ F ++V +L R+ +LG+L G+ R +++ Sbjct: 172 ILTEGKNRQIRRMCAAFGYEVKKLQRLRIMNIRLGSLQKGAWRNLTE 218 >gi|212637124|ref|YP_002313649.1| pseudouridine synthase Rsu [Shewanella piezotolerans WP3] gi|212558608|gb|ACJ31062.1| Pseudouridine synthase, Rsu [Shewanella piezotolerans WP3] Length = 240 Score = 86.7 bits (213), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 116/247 (46%), Gaps = 28/247 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERA-AVNVMST-------DHIEVDGVP 66 R++K +A G SRR R+I +V N L +V ++ T +H+ V+G Sbjct: 2 RLAKYLAITGCCSRRAATRLIRDGQVIFNDRLANHVDSVTLIDTPEGQRCQEHVIVNGEL 61 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGR------STVFDNLPSIFSRVISVGRLDINTEG 120 ++ E WL++K +G D R +++ LP + R+ VGRLD ++ G Sbjct: 62 IQAVEAKAYWLFNKAVG-------TDSRLLAELPNSLIHLLP-VSPRLYPVGRLDKDSHG 113 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-L 179 LLLLTNDG L L P + Y V+ D+ L + G+ +G+ +T L Sbjct: 114 LLLLTNDGELTHQLMHPDFGHSKTYHVQVDRPFDEVFLANMAAGVSYKGVTTLPCTITRL 173 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 D + + L +G NR+I+++ +KV L RIS QLG LL GS R +S Sbjct: 174 DVDR-----YEIILTQGLNRQIRRMSHALGFKVIDLKRISIQSLQLGNLLEGSMRPLSST 228 Query: 240 ILREQLG 246 L + L Sbjct: 229 ELADLLA 235 >gi|327479891|gb|AEA83201.1| pseudouridylate synthase [Pseudomonas stutzeri DSM 4166] Length = 230 Score = 86.7 bits (213), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 68/225 (30%), Positives = 108/225 (48%), Gaps = 5/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + + SR++V R+++ R +VNG + V D +E+DG L+ + R Sbjct: 2 RLDRYLGSRAQLSRQDVRRLVSDGRARVNGEVTRTLDREVRIFDCVELDGQVLQPGKVAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 + HKP G V+ D R TV D + + + GRLD NT GL+LLTNDG +R Sbjct: 62 YLMLHKPPGCVSATRDAAHR-TVIDLIDEPDKDDLHIAGRLDFNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P++ +VY V ++D + +G+ + + L A +T L Sbjct: 121 LTQPTSLQGKVYLVETEDEIDPGCVEAFARGLYFRFEDLTTLPAELVLLGPRRARLT--L 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 EG+ ++K++F F KV L R S GP L +L G R ++ Sbjct: 179 HEGRYHQVKRMFGHFGNKVTALHRESMGPLLLDASLSPGCYRPLT 223 >gi|226942108|ref|YP_002797182.1| Pseudouridine synthase family protein [Laribacter hongkongensis HLHK9] gi|226717035|gb|ACO76173.1| Pseudouridine synthase family protein [Laribacter hongkongensis HLHK9] Length = 247 Score = 86.7 bits (213), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 74/241 (30%), Positives = 115/241 (47%), Gaps = 25/241 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK +A G+ SRRE + IA+ V V+G ++ V I +D R+A+ TR Sbjct: 9 RLSKRMAELGLCSRREADDYIARGWVSVDGQIISELGSKVSPDQRITLDARA-REAQNTR 67 Query: 75 L-WLYHKPIGLVTT-----------------HSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 + L HKPIG V+ H D TV+ P+ + GRLDI Sbjct: 68 VTILLHKPIGYVSGQAEKGYQPAATLIVPERHWQQDPSRTVWK--PAQLQGLAPAGRLDI 125 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 ++ GLL+LT DG +A+ L ++ + Y VR G++ ++ L LL G+ + G+ + Sbjct: 126 DSTGLLVLTQDGRIAKQLIGENSPVDKEYLVRVEGRLSEEGLRLLNHGLALDGVPLKPAR 185 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + L EGK R+I+++ E +V L RI G LG L G R + Sbjct: 186 VWWQNRDQ----LRFVLVEGKKRQIRRMCELVGLRVVGLKRIRIGRIMLGDLPQGQWRYL 241 Query: 237 S 237 + Sbjct: 242 A 242 >gi|222098177|ref|YP_002532234.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus cereus Q1] gi|221242235|gb|ACM14945.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus cereus Q1] Length = 233 Score = 86.7 bits (213), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 70/220 (31%), Positives = 111/220 (50%), Gaps = 10/220 (4%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLWLYHKPI 82 G SR+EV++++ VK++GI ++ A V+V + + + G + E L + HKP Sbjct: 2 GYGSRKEVKKLLKDGVVKIDGIPVKDAKVHVNVEEQEVMIHGEVVEYKEFVYLMM-HKPQ 60 Query: 83 GLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPST 139 G+++ D D TV D L +IF+ VGRLDI+TEG LL+TNDG L+ L P Sbjct: 61 GVISATED-DNHETVIDLLELEDAIFNP-FPVGRLDIDTEGFLLITNDGKLSHQLLSPKK 118 Query: 140 QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTVGLREGKN 198 + Y G V ++ + KG+++ Y L K + + + + + EGK Sbjct: 119 HVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGALTILKSDDISEIELVITEGKF 177 Query: 199 REIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 ++K++FE KV L R GP L L G RE++ Sbjct: 178 HQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELT 217 >gi|239623801|ref|ZP_04666832.1| pseudouridine synthase [Clostridiales bacterium 1_7_47_FAA] gi|239521832|gb|EEQ61698.1| pseudouridine synthase [Clostridiales bacterium 1_7_47FAA] Length = 243 Score = 86.7 bits (213), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 67/236 (28%), Positives = 119/236 (50%), Gaps = 11/236 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K + G +R +++ M+ + RV+VNG +++ + TD + VD + A R Sbjct: 2 RLDKFLGEMGYGTRTQIKEMVRKGRVQVNGQVIKAPESKLAPETDQVMVDQSVVGYA-RM 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP +V+ +D + V ++ + VGRLD++TEGLL++TNDG +A Sbjct: 61 EYYMLNKPKDVVSATTDSRYPTVVGLIGDALRKDLFPVGRLDVDTEGLLIITNDGEMAHN 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAW---- 188 L P +VY R G++ + +GIV+ G+ + L+ + N Sbjct: 121 LLSPKKHVDKVYMARLSGRLPVNAKERFSEGIVLDDGV--KTLPALLEYEGCGNGTEGLT 178 Query: 189 -VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + +REGK ++K++FE V L R+S GP L L G R ++++ +R Sbjct: 179 EVLLTIREGKFHQVKRMFEALGCHVEYLKRMSMGPLGLDPELEPGQYRPLTEEEIR 234 >gi|148381218|ref|YP_001255759.1| RNA pseudouridine synthase family protein [Clostridium botulinum A str. ATCC 3502] gi|153932230|ref|YP_001385593.1| RNA pseudouridine synthase family protein [Clostridium botulinum A str. ATCC 19397] gi|153934698|ref|YP_001388999.1| RNA pseudouridine synthase family protein [Clostridium botulinum A str. Hall] gi|148290702|emb|CAL84832.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A str. ATCC 3502] gi|152928274|gb|ABS33774.1| RNA pseudouridine synthase family protein [Clostridium botulinum A str. ATCC 19397] gi|152930612|gb|ABS36111.1| RNA pseudouridine synthase family protein [Clostridium botulinum A str. Hall] Length = 238 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 75/231 (32%), Positives = 120/231 (51%), Gaps = 11/231 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L + Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGG 129 L + +KP G+V+ D + TV D L IF VGRLD NT GLLLLTNDG Sbjct: 62 IYLMM-NKPQGVVSATFD-NYDETVIDLLEDEDRIFEP-FPVGRLDKNTVGLLLLTNDGE 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--A 187 L L P ++Y + + +V + + KKGI++ Y L+ K N + Sbjct: 119 LNHRLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDD-GYECFPAKLEIIKSFNEES 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 V V + EGK ++K++FE + KV L R +GP +L +L G RE++ Sbjct: 178 EVRVTIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQYRELT 228 >gi|149010697|ref|ZP_01832068.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP19-BS75] gi|147765178|gb|EDK72107.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP19-BS75] Length = 241 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 73/233 (31%), Positives = 121/233 (51%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ I SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKI-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSISQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK +IKK+F KV L RI +G F L LA G+ R +++K L+ Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >gi|332202557|gb|EGJ16626.1| hypothetical protein SPAR69_0668 [Streptococcus pneumoniae GA41317] Length = 241 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 73/233 (31%), Positives = 121/233 (51%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ I SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKI-SRKAMKQALLKGDILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSISQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK +IKK+F KV L RI +G F L LA G+ R +++K L+ Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >gi|222640395|gb|EEE68527.1| hypothetical protein OsJ_26969 [Oryza sativa Japonica Group] Length = 1502 Score = 86.3 bits (212), Expect = 6e-15, Method: Composition-based stats. Identities = 70/242 (28%), Positives = 120/242 (49%), Gaps = 14/242 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK----- 69 R++K IA G SRRE +R+IA +RV VNG AV V D + VDG PLR Sbjct: 1266 RLNKHIADTGFCSRREADRLIAARRVTVNGHPAGTGAV-VGEEDQVLVDGQPLRARVARK 1324 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 A R +KP+G VT ++ + + D + R+ +GRLD ++EGL+L+T++ Sbjct: 1325 PGARRHVYIALNKPVG-VTCTTETSVKGNIVDFVGH-EQRIFPIGRLDKDSEGLILMTSN 1382 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y V + V + L + +G+ I + M + T + + Sbjct: 1383 GDIVNQILRAENGHQKEYLVAVNKPVTDEFLRGMARGVRI----HDQMTLPCKTSRIAKF 1438 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L++G NR+I+ + F ++V +L R+ ++G L G R ++++ L+ L Sbjct: 1439 GFRITLQQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKIGALKPGQWRNLTEQELQGLLPK 1498 Query: 248 HL 249 L Sbjct: 1499 QL 1500 >gi|238924577|ref|YP_002938093.1| pseudouridylate synthase [Eubacterium rectale ATCC 33656] gi|238876252|gb|ACR75959.1| pseudouridylate synthase [Eubacterium rectale ATCC 33656] gi|291525250|emb|CBK90837.1| ribosomal large subunit pseudouridine synthase F [Eubacterium rectale DSM 17629] gi|291529291|emb|CBK94877.1| ribosomal large subunit pseudouridine synthase F [Eubacterium rectale M104/1] Length = 272 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 63/225 (28%), Positives = 114/225 (50%), Gaps = 9/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ AG+ SRRE +R I +V ++G+ + V+ + +G + K E Sbjct: 7 RINKFLSEAGVCSRREADRQIEAGKVGIDGVT-AKTGDRVLKGQTVTYNGQVVSKEEEMI 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G+V T ++ ++ V D N P R+ +GRLD ++EGLLLLTN+G + Sbjct: 66 LIALNKPAGIVCT-AEKREKNNVIDYLNYPK---RIYPIGRLDKDSEGLLLLTNNGEIVN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V + + + L G+ + + G +K S+ + Sbjct: 122 KMMRSGNRHEKEYIVTVNKTISDSFIRGLAGGVPL--VELGVTTRKCHVKKLSSKQFKII 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L +G NR+I+++ E+F ++V +L R+ +LG L G R V+ Sbjct: 180 LTQGYNRQIRRMCEYFGYRVVKLERVRIMNIELGDLPRGKYRAVT 224 >gi|47565132|ref|ZP_00236175.1| ribosomal small subunit pseudouridine synthase A [Bacillus cereus G9241] gi|47557918|gb|EAL16243.1| ribosomal small subunit pseudouridine synthase A [Bacillus cereus G9241] Length = 233 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 70/220 (31%), Positives = 111/220 (50%), Gaps = 10/220 (4%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLWLYHKPI 82 G SR+EV++++ VK++GI ++ A V+V + + + G + E L + HKP Sbjct: 2 GYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKEFVYLMM-HKPQ 60 Query: 83 GLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPST 139 G+++ D D TV D L +IF+ VGRLDI+TEG LL+TNDG L+ L P Sbjct: 61 GVISATED-DNHETVIDLLELEDAIFNP-FPVGRLDIDTEGFLLITNDGKLSHQLLSPKK 118 Query: 140 QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTVGLREGKN 198 + Y G V ++ + KG+++ Y L K + + + + + EGK Sbjct: 119 HVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGALTILKSDDISEIELVITEGKF 177 Query: 199 REIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 ++K++FE KV L R GP L L G RE++ Sbjct: 178 HQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELT 217 >gi|325954781|ref|YP_004238441.1| pseudouridine synthase Rsu [Weeksella virosa DSM 16922] gi|323437399|gb|ADX67863.1| pseudouridine synthase Rsu [Weeksella virosa DSM 16922] Length = 297 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 62/232 (26%), Positives = 123/232 (53%), Gaps = 12/232 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G SRRE ++ I ++V VNG + + +V D + V+ + ++ ++ Sbjct: 8 RLNKFISDSGYCSRREADQYIENRQVYVNG-RIAKVGQHVQLHDQVVVNNIEIKPRDK-E 65 Query: 75 LWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +Y +KP+G+ T +DP+ + + D L S R+ +GRLD +++GL+LLT+DG + Sbjct: 66 MAIYIALNKPVGITCT-TDPNDPTNIIDFL-SFGERIFPIGRLDKDSQGLILLTSDGDIV 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V + D ++ G+ I G+ V +K + + Sbjct: 124 NKILRAGNKHEKEYIVTVDKPITDDFCTKMENGVPILGVNTKKCTV----EKLNTNTFKI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 L +G NR+I+++ E+F+++V +L R L + G R+++K+ L E Sbjct: 180 ILIQGLNRQIRRMCEYFDYRVTKLERTRIMNIDLNVPI-GQYRDLTKEELME 230 >gi|148989054|ref|ZP_01820454.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP6-BS73] gi|147925551|gb|EDK76628.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP6-BS73] Length = 241 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 72/230 (31%), Positives = 120/230 (52%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ I SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKI-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V+ +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVQVNGLLTPDHIQTFQKGIVFLDGTICKPARLEILSASPSLSQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 + + EGK +IKK+F KV L RI +G F L LA G+ R +++K Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQK 228 >gi|238789078|ref|ZP_04632867.1| Ribosomal large subunit pseudouridine synthase E [Yersinia frederiksenii ATCC 33641] gi|238722842|gb|EEQ14493.1| Ribosomal large subunit pseudouridine synthase E [Yersinia frederiksenii ATCC 33641] Length = 208 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 65/211 (30%), Positives = 106/211 (50%), Gaps = 20/211 (9%) Query: 42 VNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL 101 +N ++ VN ST+ G PL R+ L++KP ++ +D GR+T+ + + Sbjct: 1 MNKFSVKNHKVNRFSTNAPAKLGKPLSP---RRVLLFNKPFDVLPQFTDESGRATLKEFI 57 Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 P F+ V + GRLD ++EGLL+LTNDG L L P+ + +VY V+ G D L L Sbjct: 58 P--FNDVYAAGRLDRDSEGLLVLTNDGKLQAKLTQPAQKTGKVYFVQVEGVPGDDALMQL 115 Query: 162 KKGIVIQ-------GICYGDMQVTL--------DTQKGSNAWVTVGLREGKNREIKKVFE 206 ++GI ++ G D L + + +WV + L EG+NR+++++ Sbjct: 116 RRGISLKDGPTLPAGAELVDEPEWLWPRNPPIRERKNIPTSWVKITLFEGRNRQVRRMTA 175 Query: 207 FFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + RLIR S G LG L G +E++ Sbjct: 176 HVGFPTLRLIRFSMGNLSLGNLQPGEWKEIN 206 >gi|254293522|ref|YP_003059545.1| RNA-binding S4 domain protein [Hirschia baltica ATCC 49814] gi|254042053|gb|ACT58848.1| RNA-binding S4 domain protein [Hirschia baltica ATCC 49814] Length = 315 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 62/236 (26%), Positives = 112/236 (47%), Gaps = 15/236 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 PQR++K + ++G+ SRRE E ++ Q + ++G+ + + + + + K Sbjct: 12 PQRINKWLGQSGVCSRREAEGLVEQGLISIDGVKVTEPGRKIEKGETLTLADAATDKLAS 71 Query: 73 TRLWLYHKPIGLVTTHSD----PDGR-------STVFDNLPSIFSRVISVGRLDINTEGL 121 + +KPI V+ H + P R S + +P +R+ VGRLD ++ GL Sbjct: 72 AMSVILNKPIDYVSAHPNEGEVPAVRLLTKANLSGQSETIPDRDTRLAPVGRLDKDSRGL 131 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 L+LT DG L + + P + Y V +G + +K+ L G+ + G ++ + T Sbjct: 132 LILTEDGVLTKAVIGPDADSEKEYLVTVNGTITHEKIRRLCHGLRMDGRA---LKPAIVT 188 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +G + L EG+NR+I+++ E V L RI G +G L G R ++ Sbjct: 189 HEGGQVLRFI-LTEGRNRQIRRMAELVQLHVVDLFRIRIGHVHIGELPEGKWRTMT 243 >gi|146281644|ref|YP_001171797.1| pseudouridylate synthase [Pseudomonas stutzeri A1501] gi|145569849|gb|ABP78955.1| probable pseudouridylate synthase [Pseudomonas stutzeri A1501] Length = 230 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 68/225 (30%), Positives = 108/225 (48%), Gaps = 5/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + + SR++V R+++ R +VNG + V D +E+DG L+ + R Sbjct: 2 RLDRYLGSRAQLSRQDVRRLVSDGRARVNGEVTRTLDREVRIFDCVELDGQVLQPGKVAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 + HKP G V+ D R TV D + + + GRLD NT GL+LLTNDG +R Sbjct: 62 YVMLHKPPGCVSATRDAAHR-TVIDLIDEPDKDDLHIAGRLDFNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P++ +VY V ++D + +G+ + + L A +T L Sbjct: 121 LTQPTSLQGKVYLVETEDEIDPGCVGAFARGLYFRFEDLTTLPAELVLLGPRRARLT--L 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 EG+ ++K++F F KV L R S GP L +L G R ++ Sbjct: 179 HEGRYHQVKRMFGHFGNKVTALHRESMGPLLLDASLTPGCYRPLT 223 >gi|116873710|ref|YP_850491.1| ribosomal small subunit pseudouridine synthase A [Listeria welshimeri serovar 6b str. SLCC5334] gi|116742588|emb|CAK21712.1| ribosomal small subunit pseudouridine synthase A [Listeria welshimeri serovar 6b str. SLCC5334] Length = 233 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 68/216 (31%), Positives = 106/216 (49%), Gaps = 12/216 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+++ G SR+EV+ ++ V VNG + + + + V D I V G P+ E Sbjct: 2 RLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKMQVNPDKDEITVHGTPVVYQEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG LA Sbjct: 62 YFML-HKPQNVVSATED-NVSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWV 189 L P + Y + G+V + + +GIV+ IC ++ + + Sbjct: 120 HNLLSPKKHIDKTYYAKIDGEVLLEDVKAFAEGIVLDDGYICKPARLEIINPNE-----I 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V ++EGK ++K++F V+ L RIS G QL Sbjct: 175 KVTIQEGKFHQVKRMFAARGKTVSYLKRISMGQLQL 210 >gi|322375796|ref|ZP_08050307.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. C300] gi|321279064|gb|EFX56106.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. C300] Length = 240 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 74/234 (31%), Positives = 114/234 (48%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ D R TV D L I V VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYMMNKPQGVISATEDSKHR-TVLDLLDDIARTKEVFPVGRLDIDTHGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 L P + Y G + Q+ + KGI ++ + V++D+ K + + Sbjct: 120 HALLSPKRHVDKTYLAHVEGIMTQEDVETFVKGIPLKDFTCQPAKLEIVSVDSVK-NQSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V V + EGK ++K++ + +V L R++ G L L G R ++K+ L Sbjct: 179 VRVTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTLVLDENLEQGEWRRLTKEEL 232 >gi|221052937|ref|XP_002257843.1| pseudouridine synthetase [Plasmodium knowlesi strain H] gi|193807675|emb|CAQ38379.1| pseudouridine synthetase, putative [Plasmodium knowlesi strain H] Length = 328 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 68/262 (25%), Positives = 121/262 (46%), Gaps = 37/262 (14%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDG--VPLRKAE 71 R++K+I+ SRR+ + I VK+N +++ ++ +S D I++ G V + + + Sbjct: 57 RLNKIISMEKKISRRKSDEFIKDGNVKLNNKVVKNPGTHIDVSKDKIKISGKLVNIVRTQ 116 Query: 72 RT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTE 119 + + ++ HKP G + T +D R++++ P R++SVGRLD NT Sbjct: 117 KMINRNDNNFYKWFVLHKPKGFLCTSNDEKDRASIYSLFPQDIMDNYRLVSVGRLDRNTS 176 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG------ 173 G+LLLTN+ L P Q +R YRV G L L GI +Q G Sbjct: 177 GVLLLTNEYAWVNKLTHPKYQRIRTYRVHIEGPAQMKVLKQLATGIYLQDDNRGKENKKI 236 Query: 174 ---------------DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 + + + Q + + + +REG+NR+I+K+FE N V ++ R Sbjct: 237 VKKKRTQPAFIEILREETIKVKDQVKKVSVLNISVREGRNRQIRKMFEQINQPVIKIKRT 296 Query: 219 SYGPFQL-GTLLAGSTREVSKK 239 ++ L RE++++ Sbjct: 297 AFENITLKDVFFPKQYRELTQR 318 >gi|126651298|ref|ZP_01723505.1| pseudouridylate synthase (ribosomal small subunit pseudouridine synthase A) [Bacillus sp. B14905] gi|126591827|gb|EAZ85910.1| pseudouridylate synthase (ribosomal small subunit pseudouridine synthase A) [Bacillus sp. B14905] Length = 237 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 69/231 (29%), Positives = 118/231 (51%), Gaps = 6/231 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ Q+ V V+G ++ AA++V ++ V G + E Sbjct: 2 RLDKLLANMGYGSRKEVKQLLKQKAVTVDGASVKDAAMHVDPEQQNVSVYGERVVYTEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ D TV D L + VGRLD +TEGLL+LTNDG LA Sbjct: 62 -YFMMNKPPGVISATEDLRDE-TVIDLLEPLDQHFQPFPVGRLDKDTEGLLVLTNDGILA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P +VY G V ++ + +G+ + + + + + + Sbjct: 120 HKLLSPKKHVPKVYYAHIEGVVTEEDVEKFAEGVELDDGYMTKPGKLVILKSAPQSEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 ++EGK ++K++FE +V L RIS G +L LA G RE++ + L Sbjct: 180 TIQEGKFHQVKRMFESVGKRVTYLKRISMGNLKLDDHLALGEYRELTAEEL 230 >gi|332075974|gb|EGI86440.1| hypothetical protein SPAR68_0695 [Streptococcus pneumoniae GA41301] Length = 241 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 122/233 (52%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ + SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKV-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V+ +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVQVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSLSQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK +IKK+F KV L RI +G F L LA G+ R +++K L+ Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >gi|325926524|ref|ZP_08187841.1| pseudouridine synthase family protein [Xanthomonas perforans 91-118] gi|325543096|gb|EGD14542.1| pseudouridine synthase family protein [Xanthomonas perforans 91-118] Length = 253 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 116/236 (49%), Gaps = 16/236 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA G SRRE +R+I ++RV VNG+ AV V + D + VDG PLR E + Sbjct: 17 RLNKYIAETGFCSRREADRLIGERRVTVNGVPAGTGAV-VGAEDTVLVDGQPLRIREAKK 75 Query: 75 LW-------LYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L +KP+G+ TT S G F R+ +GRLD ++EGL+L+T+ Sbjct: 76 LGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHE---QRIFPIGRLDKDSEGLILMTS 132 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + + + Y V + V + L + +G+ I + + + T + + Sbjct: 133 NGNIVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRI----HNETTLPCRTARIAK 188 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR Sbjct: 189 FGFRIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELR 244 >gi|289668229|ref|ZP_06489304.1| pseudouridylate synthase [Xanthomonas campestris pv. musacearum NCPPB4381] Length = 240 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 115/236 (48%), Gaps = 16/236 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA G SRRE +R+I ++RV VNG+ AV V D + VDG PLR E + Sbjct: 4 RLNKYIAETGFCSRREADRLIGERRVTVNGVSAGTGAV-VGEEDTVLVDGQPLRVREAKK 62 Query: 75 LW-------LYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L +KP+G+ TT S G F R+ +GRLD ++EGL+L+T+ Sbjct: 63 LGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHE---QRIFPIGRLDKDSEGLILMTS 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + + + Y V + V + L + +G+ I + + + T + + Sbjct: 120 NGNIVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRI----HNETTLPCRTARIAK 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR Sbjct: 176 FGFRIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELR 231 >gi|296449151|ref|ZP_06890938.1| ribosomal small subunit pseudouridine synthase A [Clostridium difficile NAP08] gi|296880870|ref|ZP_06904818.1| ribosomal small subunit pseudouridine synthase A [Clostridium difficile NAP07] gi|296261970|gb|EFH08778.1| ribosomal small subunit pseudouridine synthase A [Clostridium difficile NAP08] gi|296428157|gb|EFH14056.1| ribosomal small subunit pseudouridine synthase A [Clostridium difficile NAP07] Length = 240 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 70/234 (29%), Positives = 116/234 (49%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 QR+ K+++ G SR E+++ Q V VNG + V D I +G + E Sbjct: 5 QRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYREY 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + +KP G V+ +D TV D +L + VGRLD +TEGLL+LTNDG L Sbjct: 65 IYLMM-NKPDGYVSATTDK-YDPTVLDLIDLSYLAFEPFPVGRLDKDTEGLLVLTNDGKL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + + P + Y + G V ++ + +G+V+ Y M L+ K + + + Sbjct: 123 SHRVLSPKKHVPKTYYAKIDGVVTEEDVEAFLEGVVLDD-GYKTMPSQLNILKSDDESEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R+S G +L +L G RE++ + ++ Sbjct: 182 ELTIHEGKFHQVKRMFESVGKKVVYLKRLSMGNLKLDESLELGEYRELTDEEIK 235 >gi|290475237|ref|YP_003468123.1| Ribosomal large subunit pseudouridine synthase F [Xenorhabdus bovienii SS-2004] gi|289174556|emb|CBJ81350.1| Ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Xenorhabdus bovienii SS-2004] Length = 290 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 70/233 (30%), Positives = 118/233 (50%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +RAAV V + D ++V+G + R Sbjct: 8 RLNKYISESGICSRRDADRYIEQGNVFING---KRAAVGDQVFAGDIVKVNGQLIEPRDE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G++TT D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIITTMEDSE-RDNISD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + + G+ + G +V QK ++ Sbjct: 123 VNKILRAGNNHEKEYVVTVNKPVTDEFIQGMSAGVPMLGTVTKKCKV----QKEASFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ + F ++V RL R L L G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCKHFGYEVTRLERTRIMNVNLKGLPQGEWRDLTDDELIE 231 >gi|258621694|ref|ZP_05716725.1| pseudouridine synthase family 1 protein [Vibrio mimicus VM573] gi|258585925|gb|EEW10643.1| pseudouridine synthase family 1 protein [Vibrio mimicus VM573] Length = 280 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 54/177 (30%), Positives = 88/177 (49%), Gaps = 16/177 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LTNDG L L Sbjct: 102 LFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILTNDGILQARLTQ 159 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 160 PQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVEIIPEPELWPRNPPVRFRA 219 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 W+ + L EG+NR+++++ + RLIR S G + LG L G REV+ K Sbjct: 220 AIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPGEWREVTLK 276 >gi|187776810|ref|ZP_02993283.1| hypothetical protein CLOSPO_00326 [Clostridium sporogenes ATCC 15579] gi|187775469|gb|EDU39271.1| hypothetical protein CLOSPO_00326 [Clostridium sporogenes ATCC 15579] Length = 238 Score = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 75/231 (32%), Positives = 120/231 (51%), Gaps = 11/231 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L + Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGG 129 L + +KP G+V+ D + T+ D L IF VGRLD NT GLLLLTNDG Sbjct: 62 IYLMM-NKPQGVVSATFD-NYDETIVDLLEDEDRIFEP-FPVGRLDKNTVGLLLLTNDGE 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--A 187 L L P ++Y + + +V + + KKGIV+ Y L+ K N + Sbjct: 119 LNHRLISPKWHVDKIYYAKINKKVTDEDIEKFKKGIVLDD-GYECFPAKLEIIKSFNEES 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 V V + EGK ++K++FE + KV L R +GP +L +L G RE++ Sbjct: 178 EVRVTIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQYRELT 228 >gi|328951538|ref|YP_004368873.1| pseudouridine synthase Rsu [Marinithermus hydrothermalis DSM 14884] gi|328451862|gb|AEB12763.1| pseudouridine synthase Rsu [Marinithermus hydrothermalis DSM 14884] Length = 243 Score = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 65/217 (29%), Positives = 114/217 (52%), Gaps = 12/217 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+R++ V+V+G ++ + + + +EV G + Sbjct: 6 ERIDKILAHLGFGTRKEVKRLLRAGGVRVDGRVVRDPGMKLDPARARLEVAGEVVVWQRH 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 + LY KP G+VT D +TV D LP+ +R ++ VGRLD +TEGLLLLT DG L Sbjct: 66 HHVMLY-KPAGVVTATRDAR-HATVLDCLPASLARKDLLPVGRLDRDTEGLLLLTTDGAL 123 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICY-GDMQVTLDTQKGSNAW 188 L P + +VY + +G+V+ +G C ++++ D ++ Sbjct: 124 LHRLTHPRWKVPKVYYAELEQPARPEDAQAFAEGLVLSEGRCLPAELELLEDPRR----- 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + L EG+ ++K++F +V L R++ GP +L Sbjct: 179 VRLVLWEGRYHQVKRMFAARGNRVTYLKRLAVGPLEL 215 >gi|153813747|ref|ZP_01966415.1| hypothetical protein RUMOBE_04181 [Ruminococcus obeum ATCC 29174] gi|149830167|gb|EDM85260.1| hypothetical protein RUMOBE_04181 [Ruminococcus obeum ATCC 29174] Length = 315 Score = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 68/239 (28%), Positives = 113/239 (47%), Gaps = 11/239 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M +K I + T R++K ++ AG+ SRRE +++ RV V G + + + + Sbjct: 1 MDEKRITTDQTTI-RINKYLSAAGVCSRREADQLTDAGRVTVAGKEIG-TGERIPADAEV 58 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINT 118 +DG P++ R L L++KP G+V + +TV F + P RV VGRLD ++ Sbjct: 59 FLDGRPVKAETRQVLLLFYKPRGIVCSTKKQRQETTVTEFLDYPV---RVYPVGRLDKDS 115 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLLLLTN G L + + Y V ++ + + + G+ I G + Sbjct: 116 EGLLLLTNQGDLVNRIMRAGNYHEKEYEVTVDKKITETFIRKMSSGVPI----LGTVTRP 171 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 K + ++ L +G NR+I+++ E+ + V L RI L L G RE+ Sbjct: 172 CTVYKTGDKSFSIILTQGLNRQIRRMCEYLGYHVCTLKRIRIMNLTLDGLKCGEYREIC 230 >gi|228960820|ref|ZP_04122455.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar pakistani str. T13001] gi|228798842|gb|EEM45821.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar pakistani str. T13001] Length = 229 Score = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 119/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +N + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINSEICTHGAL-VSDGDRVTIDGQVIVKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAADHIEDNIINYINYPE---RIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + +G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSRGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|301336267|ref|ZP_07224469.1| ribosomal large subunit pseudouridine synthase B [Chlamydia muridarum MopnTet14] Length = 241 Score = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 70/225 (31%), Positives = 109/225 (48%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K +A AG+ASRR+ + ++ V VNG + V V D +EV+G + E+ Sbjct: 5 RLNKFLASAGVASRRKCDEIVFAGAVTVNGKVAAGPFVIVDEELDSVEVEGQRI-GTEKK 63 Query: 74 RLWLYHKPIG-LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ HKP+G L ++ G V D L R+ +VGRLD T GL+L+TNDG + Sbjct: 64 VYFMVHKPLGYLCSSERKFPGSKLVIDLLSHCPYRLFTVGRLDKETSGLILVTNDGEFSN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + PS + Y ++ V L L G+VI G + + +K + + Sbjct: 124 RVIHPSFGITKEYLLKVSRDVSARDLETLMAGVVID----GRIVRPVSVKKVRRGTIKII 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EGK EI+ E ++ L RI G LG L G RE++ Sbjct: 180 VNEGKKHEIRLFAEAAGLQLLELKRIRIGSLVLGGLPYGQYRELT 224 >gi|229032197|ref|ZP_04188170.1| RNA pseudouridine synthase [Bacillus cereus AH1271] gi|228728977|gb|EEL79980.1| RNA pseudouridine synthase [Bacillus cereus AH1271] Length = 229 Score = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 117/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE + +I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDCLIKAGRVAINGEICTHGAL-VSDGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDG +A Sbjct: 61 VYIAFHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGAIAH 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELDNLEVGKWRSVTSEELEILIG 227 >gi|109899770|ref|YP_663025.1| pseudouridine synthase, Rsu [Pseudoalteromonas atlantica T6c] gi|109702051|gb|ABG41971.1| ribosomal small subunit pseudouridine synthase A [Pseudoalteromonas atlantica T6c] Length = 241 Score = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 64/228 (28%), Positives = 115/228 (50%), Gaps = 9/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ ++++ G SR+E ++ +RV V G + A+ V + VDG L A Sbjct: 14 KRLDQLLSNLGYCSRKEARYLLKGKRVTVKGEFAKSPALKVDPAT-VRVDGEAL-DAPDG 71 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----RVISVGRLDINTEGLLLLTNDGG 129 L + +KP+G V +H + +G ++D LP + +++SVGRLD +T GL+L+T+D Sbjct: 72 ILVMLNKPLGYVCSHDNNEGMR-IYDLLPERWEFRNPKIVSVGRLDKDTSGLILVTDDTK 130 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P +VY+V + D ++ KG+V+ + ++ + A V Sbjct: 131 LVHQLTSPKHHVDKVYQVSVDCPLQSDIIDSFAKGVVLGEGAEQCLPAKIEIVSENVANV 190 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 T L EGK +++++F + V L R +G ++L L G + V+ Sbjct: 191 T--LNEGKYHQVRRMFAACGYHVEALHRSQFGQYRLQDLAQGEWQTVA 236 >gi|322833615|ref|YP_004213642.1| pseudouridine synthase [Rahnella sp. Y9602] gi|321168816|gb|ADW74515.1| pseudouridine synthase [Rahnella sp. Y9602] Length = 208 Score = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 51/175 (29%), Positives = 89/175 (50%), Gaps = 17/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR+T+ D +P + + + GRLD ++EGLL+LTNDG L L Sbjct: 33 LFNKPFDVLPQFTDEAGRATLKDYIP--LTDIYAAGRLDRDSEGLLVLTNDGKLQAALTQ 90 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---------------ICYGDMQVTLDT 181 P + ++Y V+ G+ D + L++GI ++ + + Sbjct: 91 PGKRTGKIYYVQVEGEPDDAAVKSLREGITLKDGPTLPAGAAIVPEPEWLWARNPPIRER 150 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + AW+ + L EG+NR+++++ + RLIR S G F LG L G +E+ Sbjct: 151 KSIPTAWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYSMGEFTLGDLQPGQWKEI 205 >gi|148981998|ref|ZP_01816586.1| pseudouridine synthase family 1 protein [Vibrionales bacterium SWAT-3] gi|145960686|gb|EDK26030.1| pseudouridine synthase family 1 protein [Vibrionales bacterium SWAT-3] Length = 381 Score = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 64/233 (27%), Positives = 110/233 (47%), Gaps = 9/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +++I RV +NG + E VM D +E+D P+R E+ Sbjct: 8 KRLNKYISETGFCSRREADKLIDAGRVTINGKIPE-MGTKVMPGDDVEIDNKPVRSKEKP 66 Query: 74 RLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 67 IYIALNKPTGITCTTERDIPGNIVDF---IGHHKRIFPIGRLDKPSDGLIFLTNDGDIVN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y VR + + L + G+ I + + +K + + Sbjct: 124 KILRAGNNHEKEYVVRVDKPITGEFLQKMAAGVPI----LDTVTLPCKVEKETKFSFRIT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L +G NR+I+++ E ++V +L R+ L + G R +S++ + E L Sbjct: 180 LTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSEEEIAEIL 232 >gi|319939632|ref|ZP_08013991.1| pseudouridine synthase [Streptococcus anginosus 1_2_62CV] gi|319811221|gb|EFW07527.1| pseudouridine synthase [Streptococcus anginosus 1_2_62CV] Length = 241 Score = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 65/215 (30%), Positives = 118/215 (54%), Gaps = 7/215 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+A I SR+++++ + ++++ V+ + + NV I ++ P+ + Sbjct: 2 RLDVLLAQAHI-SRKKMKQALLKKKILVDDCPARKLSQNVDTGLQTITLEEQPVL-GKPH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 + ++ +KP+G+VT +SD + TV D + P F+ ++ SVGRLD +T GLLL+T++G L Sbjct: 60 QYFMMNKPLGVVTANSDAKSQ-TVLDLIKPEDFNDKLYSVGRLDRDTSGLLLITDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V +G +D + +KGIV + G +T+ + + + T Sbjct: 119 FQLLHPQYHVTKTYEVEVNGLLDDRAVQSFQKGIVFLDGTSCKPAILTIHSSSSNKSCAT 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EGK +IKK+F KV L R +G F+L Sbjct: 179 VTISEGKFHQIKKMFLTVGVKVTSLKRTHFGDFEL 213 >gi|188990917|ref|YP_001902927.1| Pseudouridylate synthase [Xanthomonas campestris pv. campestris str. B100] gi|167732677|emb|CAP50871.1| Pseudouridylate synthase [Xanthomonas campestris pv. campestris] Length = 260 Score = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 69/241 (28%), Positives = 122/241 (50%), Gaps = 20/241 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----KA 70 R++K IA G SRRE +R+I ++RV VNG++ AV V D + VDG PLR K Sbjct: 24 RLNKHIAETGFCSRREADRLIGERRVTVNGVIAGTGAV-VGEDDTVLVDGQPLRVREAKK 82 Query: 71 ERTRLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLL 124 TR +Y +KP+G+ +T S+V N+ R+ +GRLD ++EGL+L+ Sbjct: 83 PGTRRHVYIALNKPVGITSTTE-----SSVKGNIVEFVGHEQRIFPIGRLDKDSEGLILM 137 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T++G + + + + Y V + V + L + +G+ + + + + T + Sbjct: 138 TSNGNIVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRL----HDETTLPCRTARI 193 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + L +G NR+I+ + F ++V +L R+ +L L G R ++ + L+ Sbjct: 194 AKFGFRIVLEQGLNRQIRLMAAAFGFRVTQLRRVRIDNIKLAALKPGQWRNLTDQELQGL 253 Query: 245 L 245 L Sbjct: 254 L 254 >gi|167756918|ref|ZP_02429045.1| hypothetical protein CLORAM_02467 [Clostridium ramosum DSM 1402] gi|167703093|gb|EDS17672.1| hypothetical protein CLORAM_02467 [Clostridium ramosum DSM 1402] Length = 239 Score = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 69/233 (29%), Positives = 121/233 (51%), Gaps = 12/233 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAER 72 R+ K++A GI +R+EV+ +I + VKVNG+++++ V DH E+D + + Sbjct: 3 MRLDKLLANYGIGTRKEVKSLIRKGFVKVNGMIIKKDDFKV---DH-EIDEIVFDDELIE 58 Query: 73 TRLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDG 128 R ++Y +KP G ++ D + TV + + + + VGRLD++TEGLLL+TNDG Sbjct: 59 YRPYVYIMLNKPAGYISATKD-NLHPTVLELIEGYENYDLFPVGRLDLDTEGLLLITNDG 117 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNA 187 + L PS ++Y G +D+ + K GI++ G + + + + Sbjct: 118 DFSHKLLAPSRNHSKIYFANIAGVMDEQDIQAFKDGIILNTGYHCKPANLEIINKNNDSC 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 V + + EGK ++KK+ E +V L R+S +L +L G RE+S + Sbjct: 178 DVRIEIFEGKFHQVKKMVEVCGKEVIYLKRLSIRNLELDRSLSLGDFRELSNE 230 >gi|322807584|emb|CBZ05159.1| ribosomal small subunit pseudouridine synthase A [Clostridium botulinum H04402 065] Length = 238 Score = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 75/231 (32%), Positives = 120/231 (51%), Gaps = 11/231 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L + Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGG 129 L + +KP G+V+ D + TV D L IF VGRLD NT GLLLLTNDG Sbjct: 62 IYLMM-NKPQGVVSATFD-NYDETVVDLLEDEDRIFEP-FPVGRLDKNTVGLLLLTNDGE 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--A 187 L L P ++Y + + +V + + KKGI++ Y L+ K N + Sbjct: 119 LNHRLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDD-GYECFPAKLEIIKSFNEES 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 V V + EGK ++K++FE + KV L R +GP +L +L G RE++ Sbjct: 178 EVRVTIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQYRELT 228 >gi|52140956|ref|YP_085874.1| tRNA pseudouridine synthase A [Bacillus cereus E33L] gi|51974425|gb|AAU15975.1| tRNA pseudouridine synthase A [Bacillus cereus E33L] Length = 229 Score = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 119/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINGKICTHGAL-VNEGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT Q + + Sbjct: 118 QILHGDHEHEKEYIVTVDKPFTDWFIDEMSGGVKIKDGMTKPCKVTRVDQ----STFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVKKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|312884985|ref|ZP_07744674.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio caribbenthicus ATCC BAA-2122] gi|309367317|gb|EFP94880.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio caribbenthicus ATCC BAA-2122] Length = 342 Score = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 108/225 (48%), Gaps = 9/225 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +++I Q RV +N + E VM D + +DG PL + E+T Sbjct: 7 KRLNKYISETGFCSRREADKLIEQGRVSINDSVPE-MGTKVMPDDKVCIDGKPLSQKEKT 65 Query: 74 RLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+ TT D G F R+ +GRLD ++GL+LLTNDG + Sbjct: 66 IYIALNKPTGITCTTERDVPGNIVDFIGHKK---RIFPIGRLDKPSDGLILLTNDGDIVN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y VR + + ++ + G+ I +V +T+ +T G Sbjct: 123 KILRAGNNHEKEYVVRVDKPITKKFVDQMSSGVEILDTKTLPCKVIQETKFSFRITLTQG 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L NR+I+++ E ++V +L R+ L + G R +S Sbjct: 183 L----NRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGQWRYLS 223 >gi|37526692|ref|NP_930036.1| hypothetical protein plu2802 [Photorhabdus luminescens subsp. laumondii TTO1] gi|36786124|emb|CAE15176.1| unnamed protein product [Photorhabdus luminescens subsp. laumondii TTO1] Length = 210 Score = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 55/185 (29%), Positives = 95/185 (51%), Gaps = 17/185 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + E R+ +++KP ++ +D GR+T+ D +P F V + GRLD ++EGLL+LTND Sbjct: 26 KPIEPRRVLIFNKPYDVLPQFTDEMGRTTLKDFIP--FPNVYAAGRLDRDSEGLLILTND 83 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------- 179 G L L P + +VY V+ G D+ L+ L+ GI+++ V L Sbjct: 84 GKLQAQLTQPHKKTAKVYYVQVEGVPDEISLDKLRNGIILKDGPTLPAGVELVHEPTWLW 143 Query: 180 -------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ + L EG+NR+++++ + RLIR S G LG + G Sbjct: 144 SRHPPIRERKNIPVSWLKITLYEGRNRQVRRMTAHIGFPTLRLIRFSMGNLPLGKMKPGE 203 Query: 233 TREVS 237 +E++ Sbjct: 204 WKEIN 208 >gi|296332020|ref|ZP_06874484.1| putative 16S pseudouridylate synthase [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305675585|ref|YP_003867257.1| putative 16S pseudouridylate synthase [Bacillus subtilis subsp. spizizenii str. W23] gi|296150791|gb|EFG91676.1| putative 16S pseudouridylate synthase [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305413829|gb|ADM38948.1| putative 16S pseudouridylate synthase [Bacillus subtilis subsp. spizizenii str. W23] Length = 239 Score = 86.3 bits (212), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 70/233 (30%), Positives = 115/233 (49%), Gaps = 7/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A +G SR+EV+ ++ V V+G + +V T + V G P+ + Sbjct: 2 RLDKLLANSGYGSRKEVKAVVKAGAVMVDGKPAKDVKAHVDPDTQEVTVYGEPVDYRKFI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 L + +KP G+++ D + TV D L R GRLD +TEG LLLTNDG LA Sbjct: 62 YLMM-NKPQGVLSATED-SRQQTVIDLLTPEEMRFEPFPAGRLDKDTEGFLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P + Y V Q+ + ++ L+ G+ I+ G + + N V Sbjct: 120 HRLLSPKKHVPKTYEVHLKSQISPEDISDLETGVYIEGGYKTKPAKAEIKANDNGNTVVY 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK ++K++ + +V L R+S GP L LA G RE++++ L+ Sbjct: 180 LTITEGKFHQVKQMAKAVGNEVIYLKRLSMGPVSLDPALAPGEYRELTEEELK 232 >gi|332521591|ref|ZP_08398044.1| pseudouridine synthase [Lacinutrix algicola 5H-3-7-4] gi|332042680|gb|EGI78880.1| pseudouridine synthase [Lacinutrix algicola 5H-3-7-4] Length = 261 Score = 85.9 bits (211), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 66/243 (27%), Positives = 123/243 (50%), Gaps = 8/243 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ AG SRRE +R+I RV +NG + E V D +EVDG + + + Sbjct: 7 RLNKYLSEAGYCSRREADRLIDAGRVTINGTVPE-LGTKVGENDVVEVDGKSITERKTDF 65 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++L ++KP+G+V T + + D + R+ +GRLD +EGL+ LT+DG + Sbjct: 66 VYLAFNKPVGIVCTTDTRVEKDNIIDFI-KYPKRIFPIGRLDKPSEGLIFLTDDGDIVNK 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + S + Y V + Q + + GI ++ + + T+ +K + ++ L Sbjct: 125 ILRASNNHEKEYIVTVDKPISQTFIKRMAGGIYLEDLDKTTKKCTV--RKIDSQTFSIIL 182 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +G NR+I+++ E+ ++V L R+ +L + G RE + + L+ LLE++ Sbjct: 183 TQGLNRQIRRMCEYLTYEVTSLKRVRIMNIKLDVPI-GEYREFTAEELKTL--NMLLEDS 239 Query: 254 QVN 256 N Sbjct: 240 DKN 242 >gi|237653664|ref|YP_002889978.1| pseudouridine synthase [Thauera sp. MZ1T] gi|237624911|gb|ACR01601.1| pseudouridine synthase [Thauera sp. MZ1T] Length = 229 Score = 85.9 bits (211), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 54/188 (28%), Positives = 94/188 (50%), Gaps = 21/188 (11%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 TRL L +KP G++ +D GR T+ D +P +++ GRLD ++EGL+LLT DG L Sbjct: 29 TRLLLLNKPFGVLCQFTDEAGRRTLKDYVEVPGVYA----AGRLDADSEGLVLLTGDGAL 84 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----CYGDMQVTLD------ 180 + P + + Y V+ G++D+ L +L+ G+ + C D Sbjct: 85 QHRIADPRHKLAKTYLVQVEGEIDEAALAILRAGVDLGDFRSLPCAARRMPAPDWLWPRD 144 Query: 181 -----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + +W+ + L EGKNR+++++ + RL+R++ GP+ L L G RE Sbjct: 145 PPVRFRKSVPTSWIEIVLCEGKNRQVRRMTAKVDHPTLRLVRVAIGPWTLAGLGVGEWRE 204 Query: 236 VSKKILRE 243 ++ + E Sbjct: 205 LAGAEIAE 212 >gi|110004423|emb|CAK98761.1| probable ribosomal large subunit pseudouridine synthase b protein [Spiroplasma citri] Length = 267 Score = 85.9 bits (211), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 77/230 (33%), Positives = 112/230 (48%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA G SRR+ E +I Q RVKVN +++ V D I + + + Sbjct: 2 ERLQKVIAAKGYCSRRKAEELIIQGRVKVNNVVVTTLGTKVGKNDQINNQILMNENSNKI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L +K V+T DP R TV + I R+ VGRLD +T GLLLLTNDG + Sbjct: 62 YLML-NKRRNCVSTMYDPQHRKTVLTYVKGISERIYPVGRLDYDTSGLLLLTNDGEFTNI 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL-DTQKGSNAWV-T 190 + PS + Y V G + + +L L GI I+ GI Q L ++ N + Sbjct: 121 ITHPSHIINKTYHVLLSGYLSKQQLQQLATGIEIEPGIIRSQAQAKLVKYEEVKNVSILL 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + + E ++KK+ + +V +L RI+ G QL TL G R + K Sbjct: 181 LTIHEVTKHQVKKMIQSLGHEVIKLKRIAIGFLQLDETLKPGEWRYLKPK 230 >gi|15902641|ref|NP_358191.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae R6] gi|116516226|ref|YP_816091.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae D39] gi|15458178|gb|AAK99401.1| Ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae R6] gi|116076802|gb|ABJ54522.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae D39] Length = 241 Score = 85.9 bits (211), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 70/222 (31%), Positives = 114/222 (51%), Gaps = 7/222 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ I SR+ +++ + + ++ V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKI-SRKAMKQALLRGKILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSISQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + EGK +IKK+F KV L RI +G F L LA S Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAES 220 >gi|170760151|ref|YP_001788590.1| RNA pseudouridine synthase family protein [Clostridium botulinum A3 str. Loch Maree] gi|169407140|gb|ACA55551.1| RNA pseudouridine synthase family protein [Clostridium botulinum A3 str. Loch Maree] Length = 238 Score = 85.9 bits (211), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 75/231 (32%), Positives = 120/231 (51%), Gaps = 11/231 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L + Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGG 129 L + +KP G+V+ D + TV D L IF VGRLD NT GLLLLTNDG Sbjct: 62 IYLIM-NKPQGVVSATFD-NYDETVVDLLEDEDRIFEP-FPVGRLDKNTVGLLLLTNDGE 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--A 187 L L P ++Y + + +V + + KKGI++ Y L+ K N + Sbjct: 119 LNHRLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDD-GYECFPAKLEIIKSFNEES 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 V V + EGK ++K++FE + KV L R +GP +L +L G RE++ Sbjct: 178 EVRVTIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQCRELT 228 >gi|119775195|ref|YP_927935.1| pseudouridylate synthase [Shewanella amazonensis SB2B] gi|119767695|gb|ABM00266.1| ribosomal large subunit pseudouridine synthase E [Shewanella amazonensis SB2B] Length = 212 Score = 85.9 bits (211), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 54/185 (29%), Positives = 96/185 (51%), Gaps = 16/185 (8%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 RK T+L L++KP ++ +D GR T+ D +P V + GRLD ++EGLLLLTND Sbjct: 16 RKPAVTQLVLFNKPFDVLCQFTDEAGRQTLKDFIP--LPGVYAAGRLDRDSEGLLLLTND 73 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV---------- 177 G L L P Q + Y V+ G D+ L+ L++G+ ++ +V Sbjct: 74 GQLQSRLTEPKKQTYKTYWVQVEGIPDESALDKLREGVELKDGPTLPARVRRIDAPQIWP 133 Query: 178 ----TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + + + W+ + + EG+NR+++++ + RL+R + G +LG L +G Sbjct: 134 RNPPVRERKSIPDCWLEIQICEGRNRQVRRMTAHIGYPTLRLVRAAIGEIRLGHLGSGEY 193 Query: 234 REVSK 238 R++++ Sbjct: 194 RKLNR 198 >gi|301156469|emb|CBW15940.1| 16S rRNA pseudouridylate 516 synthase [Haemophilus parainfluenzae T3T1] Length = 232 Score = 85.9 bits (211), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 110/227 (48%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + I Q VK+NG +++ A V D I + L E + Sbjct: 2 RLDKFIAENTGLTRSQATKAIRQSAVKINGEIVKNGATKVSLEDEIYFEDELLPWVEEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V +H D D T++ P + ++ S GRLD++T GL+LLT+DG + Sbjct: 62 YFMLHKPQGYVCSHDDGD-YPTIYQFFEPPLSGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P Q + Y V V+ + ++GI+++G L+ N V + + Sbjct: 121 ITSPKHQCEKTYLVTLADPVENHYASACEEGILLRGEKEPTKPAKLEVLDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EG+ ++K++F KV L R G +L +L G R ++++ Sbjct: 179 SEGRYHQVKRMFAALGNKVVALHRWRIGNVELDESLEEGEFRPLTQE 225 >gi|288553832|ref|YP_003425767.1| pseudouridine synthase [Bacillus pseudofirmus OF4] gi|288544992|gb|ADC48875.1| pseudouridine synthase [Bacillus pseudofirmus OF4] Length = 233 Score = 85.9 bits (211), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 67/226 (29%), Positives = 115/226 (50%), Gaps = 8/226 (3%) Query: 19 VIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLWL 77 +++ G SR+EV++++ V++N +++ + V + V G + L L Sbjct: 1 MLSNMGYGSRKEVKKVLKSGSVRINEKVIKDGSYKVDPDQSDVTVHGELVEYKPYVYLML 60 Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +KP G+++ D + TV D L + VGRLD +TEG+LLLTNDG + L Sbjct: 61 -NKPQGVISATED-NHHKTVIDLLDESYLLYDPFPVGRLDKDTEGMLLLTNDGKFSHSLM 118 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y + G V ++ + L KKG+ + G +T+ T G + V + + Sbjct: 119 SPKKHVKKTYYAKVKGTVTEEDIGLFKKGVTLDDGYVTKPADLTIITA-GEQSEVELTIT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EGK ++K++FE + KV L RIS G +L +L G RE++++ Sbjct: 178 EGKFHQVKRMFEAVDKKVTFLKRISIGGLKLDPSLEKGMVRELTEE 223 >gi|148994427|ref|ZP_01823650.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP9-BS68] gi|168488362|ref|ZP_02712561.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP195] gi|182683607|ref|YP_001835354.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CGSP14] gi|303254738|ref|ZP_07340839.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS455] gi|303259951|ref|ZP_07345925.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP-BS293] gi|303261357|ref|ZP_07347305.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP14-BS292] gi|303264023|ref|ZP_07349944.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS397] gi|303266337|ref|ZP_07352227.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS457] gi|303268804|ref|ZP_07354592.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS458] gi|147927263|gb|EDK78297.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP9-BS68] gi|182628941|gb|ACB89889.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CGSP14] gi|183573107|gb|EDT93635.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP195] gi|301801543|emb|CBW34235.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae INV200] gi|302598278|gb|EFL65323.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS455] gi|302637491|gb|EFL67978.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP14-BS292] gi|302638870|gb|EFL69331.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP-BS293] gi|302641669|gb|EFL72028.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS458] gi|302644148|gb|EFL74405.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS457] gi|302646428|gb|EFL76654.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS397] gi|332074486|gb|EGI84962.1| hypothetical protein SPAR50_0667 [Streptococcus pneumoniae GA17570] Length = 241 Score = 85.9 bits (211), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 121/233 (51%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ + SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKV-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSLSQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK +IKK+F KV L RI +G F L LA G+ R +++K L+ Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >gi|225010107|ref|ZP_03700579.1| RNA-binding S4 domain protein [Flavobacteria bacterium MS024-3C] gi|225005586|gb|EEG43536.1| RNA-binding S4 domain protein [Flavobacteria bacterium MS024-3C] Length = 334 Score = 85.9 bits (211), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 62/209 (29%), Positives = 107/209 (51%), Gaps = 7/209 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ I+ +G+ SRRE + IA +KVNG + V +D + DGV L +R Sbjct: 102 RLNRYISNSGVCSRREADIFIAAGSIKVNGKAVVEMGYKVALSDVVSFDGVVLNPEKRAY 161 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP ++ +D + + + S++ VGRLD + GLLL TNDG L Sbjct: 162 ILL-NKPKDFDSSATDASQPKSALGLVANATKSKIKPVGRLDKSASGLLLFTNDGELQTK 220 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNAW-VTV 191 L P + ++Y + D L ++KGIV++ G ++V + +GS A V + Sbjct: 221 LTKPKNGFRKIYHATLSKSLKADDLEKVRKGIVLED---GPVRVHEISNIEGSPATEVGI 277 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISY 220 + KN IK++F+ +++ +L R+ Y Sbjct: 278 EILSAKNNIIKRLFDHLGYELIKLDRVVY 306 >gi|291294585|ref|YP_003505983.1| pseudouridine synthase [Meiothermus ruber DSM 1279] gi|290469544|gb|ADD26963.1| pseudouridine synthase [Meiothermus ruber DSM 1279] Length = 257 Score = 85.9 bits (211), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 68/218 (31%), Positives = 110/218 (50%), Gaps = 13/218 (5%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLR 68 N +R+ KV+ G+ SR+E+ R+ + +NG ++ A S HIEV G PL Sbjct: 15 NMAYERLDKVLGHLGVGSRKEIHRLARAGLITINGKIVADAGFKFDPSQAHIEVAGEPLV 74 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTN 126 + L L +KP G +T+ DP G + + LP F R + VGRLD +TEGLLLLT Sbjct: 75 YQKFFYL-LLNKPAGYITSTKDPSG-TPITALLPEEFWRNDWMPVGRLDKDTEGLLLLTT 132 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQG--ICYGDMQVTLDTQK 183 DG L L P + + Y V + + + G + ++G + ++ + D +K Sbjct: 133 DGELLHRLTHPRWKVTKRYYVELASPATPEDVAVFAAGTLELEGEPLQPAELYLGPDPRK 192 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V + LREG+ ++K++F +V L R+++G Sbjct: 193 -----VELVLREGRFHQVKRMFAARGNQVTYLKRLAFG 225 >gi|183221647|ref|YP_001839643.1| ribosomal small subunit pseudouridine synthase A [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] gi|189911725|ref|YP_001963280.1| pseudouridylate synthase [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|167776401|gb|ABZ94702.1| Pseudouridylate synthase [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|167780069|gb|ABZ98367.1| Ribosomal small subunit pseudouridine synthase A (rRNA pseudouridylate synthase A) [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] Length = 243 Score = 85.9 bits (211), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 72/239 (30%), Positives = 112/239 (46%), Gaps = 10/239 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+ G +R +V++ I Q VKVNG++++ + TD + L + E Sbjct: 4 ERLDKVLGNYGFGTRSDVKKEIYQGNVKVNGLVVKDPGYKITLTDIVVYYDETLNRKEFY 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 + P +T DP + TV D L + +GRLD TEGLLL T DG LA Sbjct: 64 YFMMNKAP-DCITATEDPREK-TVMDYLSERHRNMNLFPIGRLDKETEGLLLFTTDGTLA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV-T 190 P + Y V ++ + GI + Y + L SN + T Sbjct: 122 HYYTSPKHFVEKEYYAEISAPVTAFDISQFESGITLDD-GYKTLPARLAIPDPSNPHIAT 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS---KKILREQL 245 V LREGK R+I+++F+ +V L R+ G +L L GS RE++ +KIL+ ++ Sbjct: 181 VWLREGKYRQIRRMFQSLGKEVQYLKRVKMGNLELDRDLEVGSYRELTEAEEKILKTKI 239 >gi|228477053|ref|ZP_04061691.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus salivarius SK126] gi|228251072|gb|EEK10243.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus salivarius SK126] Length = 243 Score = 85.9 bits (211), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 63/217 (29%), Positives = 110/217 (50%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ SR +V+ + +++V VNG + + + D I G L E Sbjct: 2 RLDKFLVDCGVGSRSQVKTFLKKKQVAVNGQVETSPKTQIDENQDQIAFQGQVLTH-ETF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D + TV D L +V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDARHK-TVLDLLDDTARHKQVFPVGRLDIDTHGLLLLTNNGDLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + P ++Y+ + G ++Q+ + +KGI ++ + +++D G+ + Sbjct: 120 HAMLSPKKHVDKIYQAKVDGIMNQEDILAFEKGIELKDYTCQPAKLEIISVDRATGT-SL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + + EGK ++K++ +V L R+S GP L Sbjct: 179 VQITIAEGKFHQVKRMVAACGKEVTELQRLSMGPLSL 215 >gi|116513179|ref|YP_812086.1| ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. cremoris SK11] gi|116108833|gb|ABJ73973.1| ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. cremoris SK11] Length = 242 Score = 85.9 bits (211), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 71/238 (29%), Positives = 114/238 (47%), Gaps = 21/238 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A +G+ SR EV+ ++ + RV V G + V ++ + DG L E Sbjct: 2 RLDKFLAESGLGSRSEVKVLLKKGRVTVAGEIQRDGRFQVDKNSRQVAFDGQILDYQEYY 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR------VISVGRLDINTEGLLLLTND 127 +L +KP G+V+ D VF + + S + VGRLD NTEGLL+L+ND Sbjct: 62 -YYLLNKPQGVVSATKD-----NVFKTVVQLLSEKDFRKDIFPVGRLDKNTEGLLILSND 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTLD 180 G L L P + Y R G+V + +N +G+ ++ G + + D Sbjct: 116 GALGHDLTQPKKHVEKEYFARIDGKVTDEIINKFAEGLTLKNGEKARPGELFVEKTYKGD 175 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 +Q G + + V + EGK ++K++FE V L RI G L + LA G+ R ++ Sbjct: 176 SQSGWVSEIRVIIHEGKFHQVKRMFEAVEMYVLYLKRIRMGNLALDSDLALGAYRPLT 233 >gi|309799641|ref|ZP_07693863.1| RNA pseudouridine synthase family protein [Streptococcus infantis SK1302] gi|308116732|gb|EFO54186.1| RNA pseudouridine synthase family protein [Streptococcus infantis SK1302] Length = 240 Score = 85.9 bits (211), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 73/237 (30%), Positives = 118/237 (49%), Gaps = 12/237 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + SR EV+ + RV VNG + A + + TD I DG L E Sbjct: 2 RLDKYLVACAVGSRTEVKNFLKAGRVMVNGKKEKSAKLQINEETDEICFDGQKLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ D + TV D L + V VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYMMNKPQGVISATEDSKHK-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDM--QVTLDTQKGSNAW 188 L P + Y + G + Q+ + +GI ++ C + V++D +K + + Sbjct: 120 HALLSPKRHVDKTYLAQVGGIMTQEDVETFAQGIPLKDFTCQPAILELVSIDREK-NQSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 V V + EGK ++K++ + +V L R++ G TL G R +++ +E+L Sbjct: 179 VRVTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTL---TLDEGLKRGEWRRLTKEEL 232 >gi|229105177|ref|ZP_04235826.1| RNA pseudouridine synthase [Bacillus cereus Rock3-28] gi|228678103|gb|EEL32331.1| RNA pseudouridine synthase [Bacillus cereus Rock3-28] Length = 229 Score = 85.9 bits (211), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 120/234 (51%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV ++G + A+ V D I +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAIDGEICTHGAL-VSDGDVITIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDG +A Sbjct: 61 VYIAFHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ G + T+ G + + V Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKD---GMTKPCKVTRVGQSTFRIV- 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELHELEVGKWRSVTAEELEILIG 227 >gi|270292060|ref|ZP_06198275.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. M143] gi|270279588|gb|EFA25430.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. M143] Length = 240 Score = 85.9 bits (211), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 67/217 (30%), Positives = 107/217 (49%), Gaps = 9/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 2 RLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDEIRFDGQVLEYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ D R TV D L + V VGRLDI+T GLLLLTNDG LA Sbjct: 62 -YYMMNKPQGVISATEDSKHR-TVLDLLDDVARSKEVFPVGRLDIDTHGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 L P + Y + G + Q+ + +GI ++ + V++D +K + + Sbjct: 120 HALLSPKRHVDKTYLAQVEGIMTQEDVETFAEGIPLKDFTCQPARLELVSVDPEK-NQSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V V + EGK ++K++ + +V L R++ G L Sbjct: 179 VRVTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGALIL 215 >gi|168487228|ref|ZP_02711736.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CDC1087-00] gi|183569856|gb|EDT90384.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CDC1087-00] Length = 241 Score = 85.9 bits (211), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 73/233 (31%), Positives = 121/233 (51%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ I SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKI-SRKAMKQALLKGDILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQTFQKGIVFLDGTICKPARLEILSASPSLSQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK +IKK+F KV L RI +G F L LA G+ R +++K L+ Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >gi|270284888|ref|ZP_06194282.1| ribosomal large subunit pseudouridine synthase B [Chlamydia muridarum Nigg] gi|270288916|ref|ZP_06195218.1| ribosomal large subunit pseudouridine synthase B [Chlamydia muridarum Weiss] gi|11279963|pir||E81741 ribosomal large chain pseudouridine synthase B TC0096 [imported] - Chlamydia muridarum (strain Nigg) Length = 241 Score = 85.9 bits (211), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 71/225 (31%), Positives = 109/225 (48%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++K +A AG+ASRR+ + +I V +NG + V V D+IEV G + AE+ Sbjct: 5 RLNKFLASAGVASRRKCDEIIFAGSVTINGKVAAGPFVTVDEEFDYIEVGGQRI-GAEKK 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRS-TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ HKP+G + + +S V D L R+ +VGRLD T GL+L+TNDG A Sbjct: 64 VYFMVHKPLGYLCSSERKFPQSKLVIDLLSHCPYRLFTVGRLDKETSGLILVTNDGEFAN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + PS + Y ++ V L L G +I G + + +K + + Sbjct: 124 RVIHPSFGITKEYLLKVSRDVTAKDLESLMSGTMID----GRIVRPVSVKKVRRGTIKII 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EGK EI+ E ++ L RI G LG L G RE++ Sbjct: 180 VNEGKKHEIRLFAEAAGLQLLELKRIRIGSLVLGGLPYGKYRELT 224 >gi|124267222|ref|YP_001021226.1| putative arginine/proline rich protein [Methylibium petroleiphilum PM1] gi|124259997|gb|ABM94991.1| putative arginine/proline rich protein [Methylibium petroleiphilum PM1] Length = 421 Score = 85.9 bits (211), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 75/251 (29%), Positives = 119/251 (47%), Gaps = 29/251 (11%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-VPL 67 E P R+SK ++ G+ASRRE + I Q V+V+G ++++ V I +D L Sbjct: 166 EELNP-RLSKRMSELGLASRREADEWIEQGYVRVDGEVVDQLGARVRPEQQITIDPQARL 224 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL----------------PSIFSRVISV 111 +A+R + L HKP+G V+ ++ DG + F + S ++ Sbjct: 225 EQAQRVTI-LLHKPLGYVSGQAE-DGHAPAFTLVTAANRWATDGSKQRFNASQLKHLVPA 282 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD+++ GLL+LT DG +A++L + + Y VR + +L LK+ + + Sbjct: 283 GRLDLDSTGLLVLTQDGRVAKLLIGEDSPVEKEYVVRVQWTA-RPELTDLKQHFPPEALA 341 Query: 172 YGDMQVTLDTQKGSNAWVT--------VGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 + LD +K A V+ LREGK R+I+++ E KV L RI G Sbjct: 342 RLRHGLALDGEKLKPAKVSWQNEQHLRFVLREGKKRQIRRMCELVGLKVESLKRIRIGRV 401 Query: 224 QLGTLLAGSTR 234 LG L G R Sbjct: 402 GLGELPPGQWR 412 >gi|205374821|ref|ZP_03227614.1| tRNA pseudouridine synthase A [Bacillus coahuilensis m4-4] Length = 235 Score = 85.9 bits (211), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 67/227 (29%), Positives = 116/227 (51%), Gaps = 11/227 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K I+ AG ASRR +++I + RV +NG RA + V D + V+G +R A Sbjct: 2 RINKYISDAGKASRRGADKLIEEGRVYING---RRAKIGDQVNPGDDVLVNGNHVRLARN 58 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP+G+ +T ++ + + D L + R+ ++GRLD ++GL+LLTNDG + Sbjct: 59 NVYIALNKPVGITST-TEKGVKGNIID-LVNHPLRIFNIGRLDKESDGLILLTNDGDIVN 116 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V + Q+ L+ + G+ I G + ++ S + Sbjct: 117 EILRAENKHEKEYFVSVDKPITQEFLDNMASGVKI----LGTKTLPCKIEQISKYDFQIT 172 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L +G NR+I+++ E ++V RL R LG L G R++SKK Sbjct: 173 LTQGLNRQIRRMCEALGYEVYRLQRTRIMNIHLGNLPVGQWRDLSKK 219 >gi|257080911|ref|ZP_05575272.1| pseudouridine synthase [Enterococcus faecalis E1Sol] gi|257415240|ref|ZP_05592234.1| pseudouridine synthase [Enterococcus faecalis AR01/DG] gi|256988941|gb|EEU76243.1| pseudouridine synthase [Enterococcus faecalis E1Sol] gi|257157068|gb|EEU87028.1| pseudouridine synthase [Enterococcus faecalis ARO1/DG] Length = 244 Score = 85.9 bits (211), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 77/244 (31%), Positives = 123/244 (50%), Gaps = 18/244 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L ++ Sbjct: 2 RLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEIL-TYQKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 ++ HKP G+++ D TV D L RV VGRLD +TEGLLLLTNDG LA Sbjct: 61 FYYMLHKPQGVISATEDQRD-ETVIDLLTDQDYRVDLFPVGRLDKDTEGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------VTLDTQKG 184 L P + Y G V + L +G ++ G+M T++ ++G Sbjct: 120 HQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKD---GEMVKPSRLVIETINEEEG 176 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 ++ V + ++EGK ++K++ V L R+ G L TL G R +++ L + Sbjct: 177 TSV-VRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRPLTEAEL-Q 234 Query: 244 QLGP 247 QL P Sbjct: 235 QLQP 238 >gi|228910375|ref|ZP_04074190.1| RNA pseudouridine synthase [Bacillus thuringiensis IBL 200] gi|228849141|gb|EEM93980.1| RNA pseudouridine synthase [Bacillus thuringiensis IBL 200] Length = 229 Score = 85.9 bits (211), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 68/236 (28%), Positives = 120/236 (50%), Gaps = 13/236 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDRVTIDGQVIVKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDG +A Sbjct: 61 VYIAFHKPVGITCTAADHIENNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGTIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT Q + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRIDQ----STFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK---ILREQL 245 L +G NR+I+++ F + V +L R+ +L L G R V+ + IL +QL Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTSEELDILIDQL 229 >gi|229198700|ref|ZP_04325399.1| RNA pseudouridine synthase [Bacillus cereus m1293] gi|228584776|gb|EEK42895.1| RNA pseudouridine synthase [Bacillus cereus m1293] Length = 229 Score = 85.9 bits (211), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 64/234 (27%), Positives = 118/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + ++G + K E+ + Sbjct: 2 KINQYISEANSCSRRETDRLIKAGRVAINGEICTHGAI-VSDDDVVTINGRVIVKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDG +A Sbjct: 61 VYIAFHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|313904334|ref|ZP_07837712.1| RNA-binding S4 domain protein [Eubacterium cellulosolvens 6] gi|313470884|gb|EFR66208.1| RNA-binding S4 domain protein [Eubacterium cellulosolvens 6] Length = 239 Score = 85.9 bits (211), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 70/247 (28%), Positives = 129/247 (52%), Gaps = 13/247 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLE---RAAVNVMSTDHIEVDGVPLRKAE 71 R++K ++ +G SRRE +R++ V +NG + E +A N + T V G + E Sbjct: 2 RINKYLSASGHCSRREADRLVEAGHVSINGKIAEPGSQADENSIVT----VKGKRVTLEE 57 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP+G+V T + + + + N P RV GRLD N+EGLL+LTNDG L Sbjct: 58 KKIYLKMYKPVGIVCTAEKRERDNLIEYLNYPV---RVTYAGRLDRNSEGLLILTNDGDL 114 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + Y V + + ++ L+ +++G+ ++ + T+ Q G + Sbjct: 115 IQSMMAARNAHEKEYEVTVNKDLRKEDLDSMREGVYLRELEVRTRPCTI-VQTGERTFRI 173 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ + F++ V +L RI L L G TRE+S++ +R+ + Sbjct: 174 I-LTQGLNRQIRRMCKEFSYGVKKLKRIRVVNITLDGLKYGQTRELSEQEVRDLKKNLGI 232 Query: 251 EEAQVNL 257 EE++ +L Sbjct: 233 EESKNDL 239 >gi|210615570|ref|ZP_03290668.1| hypothetical protein CLONEX_02886 [Clostridium nexile DSM 1787] gi|210150237|gb|EEA81246.1| hypothetical protein CLONEX_02886 [Clostridium nexile DSM 1787] Length = 240 Score = 85.9 bits (211), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 72/236 (30%), Positives = 124/236 (52%), Gaps = 15/236 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV-PLRKAERT 73 R+ K +A G+ +R EV+++I Q +V V+G + E++ + H +V + E Sbjct: 9 RLDKYLADMGVGTRTEVKKLIRQGKVTVDGSI-EKSPERKIDISHQKVCCMGEAVSYETH 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G+V+ +D + TV + + S R + VGRLD +TEGLLL+TNDG LA Sbjct: 68 EYYMLNKPAGVVSATTDRQDK-TVVELISSKKRRDLFPVGRLDKDTEGLLLITNDGELAH 126 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-----KGSNA 187 L P +VY + G VD+ + + I G+ G+ + L ++ G + Sbjct: 127 RLLSPKKHVDKVYYAKVQGIVDE-----VDQEIFAVGMSIGNGETALPSKLEILYSGEIS 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V ++EGK ++K++F +V L R+S G L TL +G R ++K+ L+ Sbjct: 182 EIRVTIQEGKFHQVKRMFHAVGKEVIYLKRLSMGTLLLDETLKSGEYRALTKEELK 237 >gi|227325901|ref|ZP_03829925.1| 16S rRNA pseudouridylate synthase A [Pectobacterium carotovorum subsp. carotovorum WPP14] Length = 231 Score = 85.9 bits (211), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 114/227 (50%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + QRV V+G +++ A + ++E DG PL++ R Sbjct: 2 RLDKFLSQQLEISRSLVARELHAQRVTVDGEVVKSGAFKLSPEHNVEFDGEPLKQQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V + DPD + + F ++P + ++ + GRLDI+T GL+LLT+DG + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTILYFMDVPVAY-KLHAAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P Q + Y V + +D G+ + TL +K ++ V + + Sbjct: 121 ITSPKHQCEKTYLVTLEQPLAEDTAAQFTAGVQLHNEKNLTKPATL--EKITDYVVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 EG+ ++K++F +V L R G L + L G RE+S + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGGIYLDSELEPGEYRELSAE 225 >gi|319651915|ref|ZP_08006038.1| pseudouridine synthase [Bacillus sp. 2_A_57_CT2] gi|317396407|gb|EFV77122.1| pseudouridine synthase [Bacillus sp. 2_A_57_CT2] Length = 239 Score = 85.9 bits (211), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 74/236 (31%), Positives = 120/236 (50%), Gaps = 16/236 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR++V++++ V VN ++ V D + ++G + E Sbjct: 2 RIDKMLANLGYGSRKDVKKLLKDGAVTVNDEKVKDPKHQVDPEQDAVIINGEKVEYKEFI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGGL 130 L + +KP G+++ D TV D L +FS VGRLD +TEGLLLLTNDG L Sbjct: 62 YLMM-NKPPGVISATEDSQ-FETVVDLLEMRDLVFSP-FPVGRLDKDTEGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY----GDMQVTLDTQKGSN 186 A L P + Y +V D + KKG+++ Y G++++ + G Sbjct: 119 AHRLLSPKKHVPKTYFAVIDREVTADDVAAFKKGVILDD-GYETKPGELEI---LKSGIT 174 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + + + EGK ++K++FE +V L RIS GP +L TL G RE++ + L Sbjct: 175 SDIELTITEGKFHQVKRMFEAVGKRVIYLKRISMGPLELDKTLELGEYRELTDEEL 230 >gi|149197232|ref|ZP_01874284.1| hypothetical protein LNTAR_12521 [Lentisphaera araneosa HTCC2155] gi|149139778|gb|EDM28179.1| hypothetical protein LNTAR_12521 [Lentisphaera araneosa HTCC2155] Length = 297 Score = 85.9 bits (211), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 69/232 (29%), Positives = 112/232 (48%), Gaps = 11/232 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAERT 73 R++K I+ +G SRRE +R+I + RV +NG + V D +EVDG ++ K ++ Sbjct: 2 RLNKFISDSGFCSRREADRLIEEGRVLINGRRC-KTGQQVEDKDFVEVDGQRIKAKRQKE 60 Query: 74 RLWL-YHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R++L ++KP G+ TT G F N P ++ +GRLD + GL+ +TNDG + Sbjct: 61 RVYLAFNKPEGITCTTEGSVKGNIVDFINYP---EKIFPIGRLDKFSNGLIFMTNDGDIV 117 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V V + L + GI I +VT K S + Sbjct: 118 NKILRAGNAHEKEYVVTIDRPVTDEFLRKMSNGIPILDTVTKKCKVT----KVSKNTFRI 173 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 L +G NR+I+++ E+ +V L R LG L G+ R ++ K + E Sbjct: 174 ILTQGLNRQIRRMCEYLACRVLSLQRTRIMKVDLGKLKPGTWRHLNPKEMAE 225 >gi|293363190|ref|ZP_06610074.1| pseudouridylate synthase [Mycoplasma alligatoris A21JP2] gi|292553049|gb|EFF41798.1| pseudouridylate synthase [Mycoplasma alligatoris A21JP2] Length = 237 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 69/229 (30%), Positives = 113/229 (49%), Gaps = 14/229 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ K++A+AGIASRR+ E +I + VK+NG + ++A N D I V+G + + Sbjct: 2 ERIQKLLAQAGIASRRKAEELITKGLVKINGDVATIGQKATFN----DKISVNGKEIVQ- 56 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E+ ++ +KP V T D R V D + + R+ VGRLD +T G+L+LTNDG L Sbjct: 57 EKKVYFVLNKPSKTVCTLKDNFNRRKVVDLIETNL-RIFPVGRLDYDTTGVLILTNDGEL 115 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + L P +R YR R + +D + L +I G + +DT+ Sbjct: 116 SNKLIHPKYNIIRKYRARLDEPLSKDDIKELNNEQLINGKPSKQVVEQIDTK-----SYL 170 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V L +G +K++F V L R+ + + + G R ++ K Sbjct: 171 VTLTQGTYHHVKELFSKVGRLVINLKRVEFAGIGVDKIPMGEYRSLNMK 219 >gi|225012273|ref|ZP_03702710.1| pseudouridine synthase [Flavobacteria bacterium MS024-2A] gi|225003828|gb|EEG41801.1| pseudouridine synthase [Flavobacteria bacterium MS024-2A] Length = 244 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 72/248 (29%), Positives = 124/248 (50%), Gaps = 28/248 (11%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +QE R++K ++ G SRR +R+I + RV++NG+ + V D IEVDGV Sbjct: 1 MQEQTEGIRLNKYLSEIGHCSRRAADRLIEEGRVQINGVQVIMGQ-KVTPLDRIEVDGVL 59 Query: 67 LRKAERTRLWL-YHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLL 123 + + +++ ++KPIG+V T + + D N P+ R+ +GRLD +EGL+L Sbjct: 60 VEDLQERNVYIAFNKPIGIVCTTDTRVEKDNIIDYINYPT---RIFPIGRLDKPSEGLIL 116 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-- 181 LTNDG + + + Y V + V + + + GI I LDT Sbjct: 117 LTNDGDIVNKILRARNNHEKEYIVTVNKPVTTEFVEKMANGIPI-----------LDTIT 165 Query: 182 ------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 Q N + + L +G NR+I+++ E+ +++V +L RI +L + G R+ Sbjct: 166 RKCVVEQIHKNQFRII-LTQGLNRQIRRMCEYLDYRVVKLKRIRIMNIELN-VGVGKYRD 223 Query: 236 VSKKILRE 243 ++KK + E Sbjct: 224 LTKKEMVE 231 >gi|311032169|ref|ZP_07710259.1| pseudouridine synthase F (ribosomal large subunit) [Bacillus sp. m3-13] Length = 235 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 67/226 (29%), Positives = 113/226 (50%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G+ASRR +++I + +VK+NG + + V D + V+G +R A Sbjct: 2 RINKFISDSGVASRRGADKLIEEGKVKINGKVAQIGG-QVNPGDEVLVNGQIIRIARDNV 60 Query: 75 LWLYHKPIGLV-TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KPIG+ TT G N P R+ +GRLD +EGL+LLTNDG + Sbjct: 61 YIALNKPIGITSTTEKKVKGNIIDLVNHPL---RLSHIGRLDKESEGLILLTNDGDIINE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y V + D + + +G+ I G + + ++ S + L Sbjct: 118 ILRPENKHEKEYIVSVDKPITPDFVKQMSEGVKI----LGTKTLPCEVEQLSKFDFKIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ ++V RL R +LG L G R++SKK Sbjct: 174 TQGLNRQIRRMCAELGYEVLRLQRTRIMNIELGNLPMGQWRDLSKK 219 >gi|307128557|ref|YP_003880587.1| putative ribosomal large subunit pseudouridine synthase [Candidatus Sulcia muelleri CARI] gi|306483019|gb|ADM89889.1| putative ribosomal large subunit pseudouridine synthase [Candidatus Sulcia muelleri CARI] Length = 237 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 65/231 (28%), Positives = 117/231 (50%), Gaps = 17/231 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 +++ ++++GI+SRR + +I +KVNG ++++ + + D ++ L ++ Sbjct: 8 KLNSYLSKSGISSRRNADNLIKSGNIKVNGKIIKKLGYIISNNDIVKYKDKRLYPEKKIY 67 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP G V++ D + V D L I ++ S+GRLDI T G+LL TNDG L+ L Sbjct: 68 LIL-NKPKGYVSSMKKQDNNNIVLD-LIKINYKIFSIGRLDIETSGVLLFTNDGYLSNKL 125 Query: 135 ELPSTQWLRVYRVRFHGQV-DQDKLNL-----LKKG-IVIQGICYGDMQVTLDTQKGSNA 187 P ++Y V + ++ ++D L + K+G + I I Y +K Sbjct: 126 THPKFNIKKIYHVVLNKKINNKDLLKIKNSFSFKEGKLKIYNISY--------IKKLPKN 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + L G N+ +K++F +KV L RI++G + L G R + K Sbjct: 178 NIKLELHIGWNKIVKRIFNKIKYKVLYLKRINFGGITIKGLKIGEYRYLKK 228 >gi|319944612|ref|ZP_08018880.1| ribosomal large subunit pseudouridine synthase F [Lautropia mirabilis ATCC 51599] gi|319742149|gb|EFV94568.1| ribosomal large subunit pseudouridine synthase F [Lautropia mirabilis ATCC 51599] Length = 275 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 82/251 (32%), Positives = 123/251 (49%), Gaps = 41/251 (16%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +AR G+ SRRE + I+Q V++NG +E VM D +EV R+A R Sbjct: 28 ERLNKHLARTGVCSRREADDWISQGWVRINGRPVEMGQ-KVMPGDVVEV-----RQAARA 81 Query: 74 R-----LWLYHKPIGLVTTHSDPDGRSTVF----------DNLPSIFSR-----VISVGR 113 R L +KP+G V+ ++ R V D P F R + GR Sbjct: 82 RQQDKVTILLNKPVGYVSGQAEDGYRPAVTLIDAQSRWAGDTNPRRFERNQLRGLAVAGR 141 Query: 114 LDINTEGLLLLTNDGGLARVL--ELPSTQWLRVYRVRFHGQVDQ--------DKLNLLKK 163 LDI++ GLL+LT DG +AR L E ST + RVR+ G+V++ D+L LL+ Sbjct: 142 LDIDSVGLLVLTQDGRVARQLIGEDSSTTKEYLVRVRY-GEVERNVQAAFPPDRLKLLRH 200 Query: 164 GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 G+ + G QV + + + L+EG++R+I+++ E V L RI G Sbjct: 201 GLSLDGHKLKPAQVDWENPEQ----LRFVLQEGRHRQIRRMCELVGLAVTGLKRIRVGNV 256 Query: 224 QLGTLLAGSTR 234 LG L G R Sbjct: 257 LLGRLPPGQWR 267 >gi|260598642|ref|YP_003211213.1| 16S rRNA pseudouridylate synthase A [Cronobacter turicensis z3032] gi|260217819|emb|CBA32307.1| Ribosomal small subunit pseudouridine synthase A [Cronobacter turicensis z3032] Length = 235 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 63/225 (28%), Positives = 105/225 (46%), Gaps = 3/225 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV VNG +++ A ++ IE DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRASRVTVNGDIVKDTAFKLLPDHEIEYDGNPLTQQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D L KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAALFAKGVQLNN--EKDLTKPAQLEVITPTEVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK 238 EG+ ++K++F V L R G +L LA G R +++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVGLHRERIGAIELDPELAPGEYRPLTE 224 >gi|188587870|ref|YP_001919826.1| RNA pseudouridine synthase family protein [Clostridium botulinum E3 str. Alaska E43] gi|188498151|gb|ACD51287.1| RNA pseudouridine synthase family protein [Clostridium botulinum E3 str. Alaska E43] Length = 238 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 73/236 (30%), Positives = 123/236 (52%), Gaps = 13/236 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAER 72 +R+ K+I+ G SR+E + + + ++V+G +++ ++VN+ I +++G + + Sbjct: 2 ERLDKIISNLGYGSRKEAKLLAKKGLIEVDGKIIKDSSVNIDPEKSIVKINGEEIFYRKY 61 Query: 73 TRLWLYHKPIGLVT-THSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDG 128 L + +KP G+++ TH D TV D L IF VGRLD +T GLLLLTNDG Sbjct: 62 IYLMM-NKPTGVISATHDSKD--ETVIDLLELDHQIFDP-FPVGRLDKDTVGLLLLTNDG 117 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--N 186 + P +VY + +V++ KKG+V+ Y ++ LD S Sbjct: 118 DFNHRMISPKWHVDKVYYAKIDKEVNEKDQEAFKKGVVLDD-GYKCLEAKLDIISASPEG 176 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + V + ++EGK ++K++FE + KV L R +G L TL G RE+S + L Sbjct: 177 SEVRITIQEGKYHQVKRMFEARDKKVVYLKREEFGGLILDETLEEGEYRELSDEEL 232 >gi|228954820|ref|ZP_04116840.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228804809|gb|EEM51408.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar kurstaki str. T03a001] Length = 229 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 118/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + + V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGEL-VSDGDVVTIDGQVIVKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLDKVSEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + + Sbjct: 118 RILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|227112086|ref|ZP_03825742.1| 16S rRNA pseudouridylate synthase A [Pectobacterium carotovorum subsp. brasiliensis PBR1692] Length = 231 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 114/227 (50%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + QRV V+G +++ A + ++E DG PL++ R Sbjct: 2 RLDKFLSQQLEISRSLVARELHAQRVTVDGEVVKSGAFKLSPEHNVEFDGNPLKQQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V + DPD + + F ++P + ++ + GRLDI+T GL+LLT+DG + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTILYFMDVPVAY-KLHAAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P Q + Y V + +D G+ + TL +K ++ V + + Sbjct: 121 ITSPKHQCEKTYLVTLEQPLAEDTAAQFTAGVQLHNEKNLTKPATL--EKITDYVVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 EG+ ++K++F +V L R G L + L G RE+S + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGGIYLDSELEPGEYRELSAE 225 >gi|255305403|ref|ZP_05349575.1| putative RNA pseudouridine synthase [Clostridium difficile ATCC 43255] Length = 240 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 69/229 (30%), Positives = 113/229 (49%), Gaps = 8/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 QR+ K+++ G SR E+++ Q V VNG + V D I +G + E Sbjct: 5 QRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYREY 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + +KP G ++ +D TV D +L + VGRLD +TEGLL+LTNDG L Sbjct: 65 IYLMM-NKPDGYISATTDK-YDPTVLDLIDLSYLAFEPFPVGRLDKDTEGLLVLTNDGKL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + + P + Y + G V ++ + +G+V+ Y M L+ K + + + Sbjct: 123 SHRVLSPKKHVSKTYYAKIDGVVTEEDVEAFLEGVVLDD-GYKTMPSQLNILKSDDESEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 + + EGK ++K++FE KV L R+S G +L +L G RE++ Sbjct: 182 ELTIHEGKFHQVKRMFESVGKKVVYLKRLSMGNLKLDESLELGEYRELT 230 >gi|78044539|ref|YP_360363.1| ribosomal small subunit pseudouridine synthase A [Carboxydothermus hydrogenoformans Z-2901] gi|77996654|gb|ABB15553.1| ribosomal small subunit pseudouridine synthase A [Carboxydothermus hydrogenoformans Z-2901] Length = 231 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 68/229 (29%), Positives = 120/229 (52%), Gaps = 13/229 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K +A G +R+EV +++ ++V+VNG++++ N+ + TD + V G + K + Sbjct: 1 MRIDKFLAHMGFGTRKEVRKLLKARKVEVNGVVVKDPGYNLNVDTDKVIVKGEEV-KYKP 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G V+ D TV D +P + ++ VGRLDI+TEGLL+LT+DG LA Sbjct: 60 FVYFMLNKPKGYVSATVD-RRYPTVVDLVP-VHRKIFPVGRLDIDTEGLLILTDDGQLAH 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ---KGSNAWV 189 L P + + Y ++++ + +K GI ++ D +T + K + Sbjct: 118 HLTSPKKEVEKEYYFELDKPLEEEDFSKIKTGIRLE-----DNYLTKPARLLGKVGDKHG 172 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 T+ + EGK ++K++F V L RI G L L+ G RE++ Sbjct: 173 TIVITEGKYHQVKRMFLALGKTVVYLKRIRIGGLILDNKLSPGEYRELT 221 >gi|145299656|ref|YP_001142497.1| 23S rRNA pseudouridine synthase F [Aeromonas salmonicida subsp. salmonicida A449] gi|142852428|gb|ABO90749.1| ribosomal large subunit pseudouridine synthase F [Aeromonas salmonicida subsp. salmonicida A449] Length = 344 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 68/233 (29%), Positives = 119/233 (51%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q +V +NG +RA + V + D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRFIEQGQVFING---KRAGIGDQVFAGDLVKVNGQVIEAREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + +KP+G+V+T + + V + + +RV +GRLD +++GL+ LTN G L Sbjct: 65 DSLVFIVLNKPVGIVSTTEAGEKDNIV--DFVNHSTRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V D + + G+ I G +V +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDDFIKGMGAGVPILGAVTKKCKV----KKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E F ++V +L RI L L G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCEHFGFEVTKLERIRIMNVSLKGLPVGEWRDLTDDELIE 231 >gi|116628203|ref|YP_820822.1| ribosomal small subunit pseudouridine synthase A [Streptococcus thermophilus LMD-9] gi|116101480|gb|ABJ66626.1| ribosomal small subunit pseudouridine synthase A [Streptococcus thermophilus LMD-9] Length = 243 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 63/216 (29%), Positives = 107/216 (49%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ SR +V+ + +++V VNG + + D I G L E Sbjct: 2 RLDKFLVDCGVGSRSQVKTFLKKKQVTVNGQVETSPKTQIDEDKDQIAYLGQELTH-ETF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D + TV D L +V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDSRHK-TVLDLLDETARHKQVFPVGRLDIDTHGLLLLTNNGDLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICY-GDMQVTLDTQKGSNAWV 189 + P ++Y+ + G +D++ + +KGI ++ C +++ + S + V Sbjct: 120 HAMLSPKKHVDKIYQAKVAGIMDEEDILAFEKGIKLKDHTCQPAKLEIVSVDRNASTSLV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK ++K++ KV L R+ GP L Sbjct: 180 QITVAEGKFHQVKRMVAACGKKVADLQRLKMGPLSL 215 >gi|317129994|ref|YP_004096276.1| pseudouridine synthase [Bacillus cellulosilyticus DSM 2522] gi|315474942|gb|ADU31545.1| pseudouridine synthase [Bacillus cellulosilyticus DSM 2522] Length = 237 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 75/240 (31%), Positives = 117/240 (48%), Gaps = 17/240 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K+++ G SR+EV+ ++ + V VN L++ + S DHIEV G + Sbjct: 2 RIDKLLSNTGFGSRKEVKGLLKKGGVTVNSELIKDGKRQIDPSEDHIEVFGEVIEYKPFI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + +KP G+++ D + TV D L + VGRLD +T G +LLTNDG LA Sbjct: 62 YLMM-NKPKGVISATEDVTDK-TVVDLLATEHALYDPFPVGRLDKDTTGFMLLTNDGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---TQKGSNAW 188 L P + + YRV L + +I G+ D +T T N Sbjct: 120 HQLTSPKKKVDKTYRVHIDAP-----LTSADEASLIAGVELDDGYITKPAKLTYGNDNTV 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LREQ 244 + + + EGK ++K++F+ KV L R + GP +L +LL G RE++ + LREQ Sbjct: 175 IFLTITEGKFHQVKRMFQALGRKVINLKRETIGPLKLDPSLLLGEYRELTDEEVAGLREQ 234 >gi|217966542|ref|YP_002352048.1| RNA-binding S4 domain protein [Dictyoglomus turgidum DSM 6724] gi|217335641|gb|ACK41434.1| RNA-binding S4 domain protein [Dictyoglomus turgidum DSM 6724] Length = 243 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 71/232 (30%), Positives = 113/232 (48%), Gaps = 9/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K + G SR+EV+++I V VN +E + ++ D +E++G + E Sbjct: 2 RLDKFLVNQGFGSRKEVQKLIKAGIVYVNNFPVEDPSFHINPEKDVVEIEGQEIEYKENY 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP G +T D + TV D S I S++ VGRLD++TEGLL++T+DG LA Sbjct: 62 YFML-NKPKGYITATYD-ENYPTVMDLFASEPIVSKLFPVGRLDVDTEGLLIITSDGVLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAW 188 L P + Y V G + D D K+G+ ++ Y + K S + Sbjct: 120 HRLSHPKWNVEKEYFVIVEGDISDIDFSKYEKEGMYLKKEKYKTKPFKVKVLKTSFEESE 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 + + + EGK +KK+ +V L R+ GP L L G RE++K+ Sbjct: 180 LLITITEGKYHIVKKIMYAVGHEVKYLKRVRIGPLILDEDLEVGEYRELTKE 231 >gi|158320760|ref|YP_001513267.1| pseudouridine synthase [Alkaliphilus oremlandii OhILAs] gi|158140959|gb|ABW19271.1| pseudouridine synthase [Alkaliphilus oremlandii OhILAs] Length = 228 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 118/227 (51%), Gaps = 7/227 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ GI SRRE ++ I +RV +NGI+ E + +V D + VD P+ + + Sbjct: 2 RINKYISETGICSRREADQWIIDKRVTINGIVAELGS-DVSPGDAVFVDHKPIGQKRKPV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T ++ + + D + R+ +GRLD +++GL+LLTNDG + + Sbjct: 61 YIALNKPVGITCT-TEKHVKGNIVDFVHH-KERIFPIGRLDKDSQGLILLTNDGDIVNKI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V + + + + + G+ I G +VT K ++ + L Sbjct: 119 LRAENNHEKEYIVTVNKPITPEFIKGMSSGVKILGTKTKPCKVT----KINDTVFRIILT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +G NR+I+++ + F +KV +L RI +L L G R+++K+ L Sbjct: 175 QGLNRQIRRMCQVFGYKVVKLQRIRIMNVKLKGLEIGQWRDLTKEEL 221 >gi|168179079|ref|ZP_02613743.1| RNA pseudouridine synthase family protein [Clostridium botulinum NCTC 2916] gi|226950699|ref|YP_002805790.1| RNA pseudouridine synthase family protein [Clostridium botulinum A2 str. Kyoto] gi|182669965|gb|EDT81941.1| RNA pseudouridine synthase family protein [Clostridium botulinum NCTC 2916] gi|226843144|gb|ACO85810.1| RNA pseudouridine synthase family protein [Clostridium botulinum A2 str. Kyoto] Length = 238 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 74/231 (32%), Positives = 119/231 (51%), Gaps = 11/231 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L + Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGG 129 L + +KP G+V+ D + TV D L IF VGRLD NT GLLL TNDG Sbjct: 62 IYLMM-NKPQGVVSATFD-NYDETVIDLLEDEDRIFEP-FPVGRLDKNTVGLLLFTNDGE 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--A 187 L L P ++Y + + +V + + KKGI++ Y L+ K N + Sbjct: 119 LNHRLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDD-GYECFPAKLEIIKSFNEES 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 V V + EGK ++K++FE + KV L R +GP +L +L G RE++ Sbjct: 178 EVRVTIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQYRELT 228 >gi|138896374|ref|YP_001126827.1| ribosomal small subunit pseudouridine synthase A [Geobacillus thermodenitrificans NG80-2] gi|196250000|ref|ZP_03148695.1| pseudouridine synthase [Geobacillus sp. G11MC16] gi|134267887|gb|ABO68082.1| Ribosomal small subunit pseudouridine synthase A [Geobacillus thermodenitrificans NG80-2] gi|196210514|gb|EDY05278.1| pseudouridine synthase [Geobacillus sp. G11MC16] Length = 248 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 68/234 (29%), Positives = 111/234 (47%), Gaps = 20/234 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VKV+G + V + + V G + + Sbjct: 4 RIDKLLAHMGYGTRKEVKKLLKSGLVKVDGAAVYDPKTKVRPDEQTVTVWGETVEYKQFI 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV---------FDNLPSIFSRVISVGRLDINTEGLLLL 124 L + +KP G+++ D + V FD P VGRLD +TEGLLLL Sbjct: 64 YLMM-NKPPGVISATEDAVEETVVDLLEEEDRLFDPFP--------VGRLDKDTEGLLLL 114 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LA L P + Y G+V +D + ++G+V+ + + G Sbjct: 115 TNDGQLAHQLLAPKKHVPKTYFAVIDGEVTEDDVEAFRRGVVLDDGYETKPAELVVLKSG 174 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + V V + EGK ++K++F+ +V L R+ GP L LA G RE++ Sbjct: 175 LRSDVEVTITEGKFHQVKRMFQAVGKRVVYLKRVQMGPLSLDPNLAVGEYRELT 228 >gi|326334734|ref|ZP_08200941.1| ribosomal large subunit pseudouridine synthase B [Capnocytophaga sp. oral taxon 338 str. F0234] gi|325693184|gb|EGD35116.1| ribosomal large subunit pseudouridine synthase B [Capnocytophaga sp. oral taxon 338 str. F0234] Length = 294 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 72/230 (31%), Positives = 114/230 (49%), Gaps = 11/230 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGI +RRE +R I V+VNG + V D ++ DG + AE+ Sbjct: 61 RLNKYIANAGICARREADRYITAGNVEVNGKPMTELGYRVQPNDIVKFDGKNI-SAEKKE 119 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD-NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G +TT D GR TV + + + + VGRLD T GLLLLTNDG L + Sbjct: 120 YILLNKPKGFITTTQDEKGRKTVMELVVGAAQGNIKPVGRLDRLTTGLLLLTNDGDLIKK 179 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----TQKGSNAWV 189 L PS ++Y V + KL L + +G+ D + +D + + + Sbjct: 180 LTHPSHGVRKIYHV-----ILDKKLALPDFHKIQEGLTLEDGFIQVDDISFVEGAPHNEI 234 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + G+NR ++++FE + V +L R+ + L G R ++++ Sbjct: 235 GVKIHSGRNRIVRRIFESLGYTVEKLDRVVFAGLTKKDLPRGHWRPLTQQ 284 >gi|251779159|ref|ZP_04822079.1| RNA pseudouridine synthase family protein [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|243083474|gb|EES49364.1| RNA pseudouridine synthase family protein [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 238 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 74/238 (31%), Positives = 125/238 (52%), Gaps = 17/238 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAER 72 +R+ K+I+ G SR+E + + + ++V+G +++ ++VN+ I +++G + + Sbjct: 2 ERLDKIISNLGYGSRKEAKLLAKKGLIEVDGKIIKDSSVNIDPEKSIVKINGEEIFYRKY 61 Query: 73 TRLWLYHKPIGLVT-THSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDG 128 L + +KP G+++ TH D TV D L IF VGRLD +T GLLLLTNDG Sbjct: 62 IYLMM-NKPTGVISATHDSKD--ETVIDLLELDHQIFDP-FPVGRLDKDTVGLLLLTNDG 117 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----TQKG 184 + P +VY + +V++ KKG+V+ Y ++ LD + +G Sbjct: 118 DFNHRMISPKWHVDKVYYAKIDKEVNEKDQEAFKKGVVLDD-GYKCLEAKLDIISASTEG 176 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 S +T+ +EGK ++K++FE + KV L R +G L TL G RE+S + L Sbjct: 177 SEVRITI--QEGKYHQVKRMFEARDKKVVYLKREEFGGLILDETLEEGEYRELSDEEL 232 >gi|322388325|ref|ZP_08061929.1| ribosomal small subunit pseudouridine synthase A [Streptococcus infantis ATCC 700779] gi|321140997|gb|EFX36498.1| ribosomal small subunit pseudouridine synthase A [Streptococcus infantis ATCC 700779] Length = 241 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 73/233 (31%), Positives = 119/233 (51%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ I SR+ +++ + ++ + V+G + A N+ + G ++ E T Sbjct: 2 RLDNLLAQEKI-SRKAMKQALLKKEILVDGQVAISLAQNIDTGLQELIFQGRKIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT D TV D LP +V ++GRLD +T GLLLLTN+G L Sbjct: 61 YLML-HKPNGVVTASKDKK-LPTVMDLLPQHLQSDQVYAIGRLDRDTTGLLLLTNNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + K GIV + G Q+ + + S + T Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQQFKNGIVFLDGTICKPAQLEILSSSPSISRAT 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK ++KK+F KV L R+ +G F L LA G R ++++ L+ Sbjct: 179 ITISEGKFHQVKKMFLSVGVKVTALKRVQFGDFLLDPDLAEGQYRLLNQEELK 231 >gi|329297161|ref|ZP_08254497.1| 23S rRNA pseudouridine synthase E [Plautia stali symbiont] Length = 222 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 52/181 (28%), Positives = 90/181 (49%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ SD GR T+ D +P S V + GRLD ++EGL++LTNDG L Sbjct: 43 RVILFNKPFDVLPQFSDEAGRRTLKDFVP--VSEVYAAGRLDRDSEGLMILTNDGALQAQ 100 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---------------GICYGDMQVT 178 L P + ++Y V+ G + L+ L++GI + + Sbjct: 101 LTQPGKRTGKIYYVQVEGVPQESDLSRLRRGIPLNDGPTLPAGAEVVPEPAWLWPRTPPI 160 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + W+ + L EG+NR+++++ + RLIR + G +QL L G R++S Sbjct: 161 RERKAIPTCWLKITLYEGRNRQVRRMTAHIGFPTLRLIRFAMGDYQLQDLAPGEWRDISD 220 Query: 239 K 239 + Sbjct: 221 Q 221 >gi|253688026|ref|YP_003017216.1| pseudouridine synthase [Pectobacterium carotovorum subsp. carotovorum PC1] gi|251754604|gb|ACT12680.1| pseudouridine synthase [Pectobacterium carotovorum subsp. carotovorum PC1] Length = 231 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 114/227 (50%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + QRV V+G +++ A + ++E DG PL++ R Sbjct: 2 RLDKFLSQQLEISRSLVARELHAQRVTVDGEVVKSGAFKLSPEHNVEFDGNPLKQQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V + DPD + + F ++P + ++ + GRLDI+T GL+LLT+DG + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTILYFMDVPVAY-KLHAAGRLDIDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P Q + Y V + +D G+ + TL +K ++ V + + Sbjct: 121 ITSPKHQCEKTYLVTLEQPLAEDTAAQFTAGVQLHNEKNLTKPATL--EKITDHVVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 EG+ ++K++F +V L R G L + L G RE+S + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGDIWLDSELEPGEFRELSDE 225 >gi|152989625|ref|YP_001346527.1| putative pseudouridine synthase [Pseudomonas aeruginosa PA7] gi|150964783|gb|ABR86808.1| probable pseudouridine synthase [Pseudomonas aeruginosa PA7] Length = 189 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 58/190 (30%), Positives = 94/190 (49%), Gaps = 16/190 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 +P RL L++KP ++T +D GRST+ D +P V GRLD ++EGLLLL Sbjct: 1 MPKAPPSEPRLLLFNKPFDVLTQFNDERGRSTLKDFIP--VPGVYPAGRLDRDSEGLLLL 58 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT-- 181 TNDG L + P + + Y V+ G ++D+L L++G+ + G LD Sbjct: 59 TNDGRLQARIADPRHKLPKTYWVQVEGTPEEDQLRRLREGVTLNDGPSLPAEARLLDEPA 118 Query: 182 -----------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + W+ + +REG+NR+++++ RL+R+ GP+ L L Sbjct: 119 LWERVPPVRFRKSVPTHWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGPWSLDGLGL 178 Query: 231 GSTREVSKKI 240 G REV ++ Sbjct: 179 GEWREVPARL 188 >gi|168183575|ref|ZP_02618239.1| RNA pseudouridine synthase family protein [Clostridium botulinum Bf] gi|237796714|ref|YP_002864266.1| RNA pseudouridine synthase family protein [Clostridium botulinum Ba4 str. 657] gi|182673348|gb|EDT85309.1| RNA pseudouridine synthase family protein [Clostridium botulinum Bf] gi|229261203|gb|ACQ52236.1| RNA pseudouridine synthase family protein [Clostridium botulinum Ba4 str. 657] Length = 238 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 75/231 (32%), Positives = 120/231 (51%), Gaps = 11/231 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L + Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGG 129 L + +KP G+V+ D + TV D L IF VGRLD NT GLLLLTNDG Sbjct: 62 IYLIM-NKPQGVVSATFD-NYDETVVDLLEDEDRIFEP-FPVGRLDKNTVGLLLLTNDGE 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--A 187 L L P ++Y + + +V + + KKGI++ Y L+ K N + Sbjct: 119 LNHRLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDD-GYECFPAKLEIIKSFNEES 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 V V + EGK ++K++FE + KV L R +GP +L +L G RE++ Sbjct: 178 EVRVTIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQYRELT 228 >gi|228903068|ref|ZP_04067205.1| RNA pseudouridine synthase [Bacillus thuringiensis IBL 4222] gi|228856554|gb|EEN01077.1| RNA pseudouridine synthase [Bacillus thuringiensis IBL 4222] Length = 229 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 68/238 (28%), Positives = 119/238 (50%), Gaps = 17/238 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 +++ +HKP+G+ T +D + DN+ R+ VGRLD +EGL+LLTNDG + Sbjct: 61 VYIAFHKPVGITCTAADH-----IEDNIIDYIHYPERIFPVGRLDKASEGLILLTNDGTI 115 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + + + Y V +N + G+ I+ +VT + + Sbjct: 116 ANQILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVT----RVDQSTFR 171 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK---ILREQL 245 + L +G NR+I+++ F + V +L R+ +L L G R V+ + IL +QL Sbjct: 172 IILTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTSEELDILIDQL 229 >gi|315166874|gb|EFU10891.1| conserved hypothetical protein [Enterococcus faecalis TX1341] Length = 257 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 78/258 (30%), Positives = 127/258 (49%), Gaps = 18/258 (6%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEIL-TYQKFFYYMLHKPQGVISATEDQRN-ETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ- 176 TEGLLLLTNDG LA L P + Y G V + L +G ++ G+M Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKD---GEMVK 175 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLL 229 T++ ++G++ V + ++EGK ++K++ V L R+ G L TL Sbjct: 176 PSRLVIETINEEEGTSV-VRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLE 234 Query: 230 AGSTREVSKKILREQLGP 247 G R +++ L +QL P Sbjct: 235 LGEYRPLTEAEL-QQLQP 251 >gi|329957324|ref|ZP_08297844.1| pseudouridylate synthase [Bacteroides clarus YIT 12056] gi|328523037|gb|EGF50140.1| pseudouridylate synthase [Bacteroides clarus YIT 12056] Length = 225 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 66/204 (32%), Positives = 98/204 (48%), Gaps = 15/204 (7%) Query: 25 IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGL 84 + SRRE + I V VNG ++ + D ++ + ER L +KP Sbjct: 1 MCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEVKFHDQTV-SIERKIYVLLNKPKDT 59 Query: 85 VTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA L P + Sbjct: 60 VTTSDDPQARRTVMDLVKGACDERIYPVGRLDRNTTGVLLLTNDGDLASKLTHPKYLKKK 119 Query: 144 VYRVRFHGQVDQDKLNLLKKGI--VIQGICYGDMQVTLDTQKGSNAW----VTVGLREGK 197 +Y V DK NL K + + GI D ++ D ++ + V + + GK Sbjct: 120 IYHVHL------DK-NLTKADMEQIAAGIQLDDGEIQADAISYTDEFKKDEVGIEIHSGK 172 Query: 198 NREIKKVFEFFNWKVNRLIRISYG 221 NR ++++FE +KV +L R+ + Sbjct: 173 NRIVRRIFESLGYKVVKLDRVFFA 196 >gi|149002375|ref|ZP_01827317.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP14-BS69] gi|149005797|ref|ZP_01829536.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP18-BS74] gi|237650299|ref|ZP_04524551.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae CCRI 1974] gi|237821983|ref|ZP_04597828.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae CCRI 1974M2] gi|307126876|ref|YP_003878907.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae 670-6B] gi|147759690|gb|EDK66681.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP14-BS69] gi|147762737|gb|EDK69697.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP18-BS74] gi|306483938|gb|ADM90807.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae 670-6B] gi|332077107|gb|EGI87569.1| hypothetical protein SPAR148_0640 [Streptococcus pneumoniae GA17545] Length = 241 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 73/233 (31%), Positives = 121/233 (51%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ I SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKI-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V+ +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVQVNGLLTPDHIQTFQKGIVFLDGTICKPARLEILSASPSFSQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST-REVSKKILR 242 + + EGK +IKK+F KV L RI +G F L LA S R +++K L+ Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAESNYRPLNQKELQ 231 >gi|114799825|ref|YP_760545.1| ribosomal large subunit pseudouridine synthase F [Hyphomonas neptunium ATCC 15444] gi|114739999|gb|ABI78124.1| Ribosomal large subunit pseudouridine synthase F [Hyphomonas neptunium ATCC 15444] Length = 372 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 62/238 (26%), Positives = 115/238 (48%), Gaps = 15/238 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A+ G+ SRRE + +I + ++++G + A V + + R+ + Sbjct: 12 PLRINKWLAQEGVCSRREADALIEKGLIQLDGKPVTVAGERVTKGQTLSLTDAASRRLDN 71 Query: 73 TRLWLYHKPIGLVTTHSDP-----------DGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + +KP+G V+ +P + S +P +++ +GRLD ++ GL Sbjct: 72 QLSVILNKPVGYVSGTPEPGEIPAIRLISEENLSGSAHAIPQRSNKMAPLGRLDKDSHGL 131 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 L+L+ DG LA+ + P + + Y V+ G + K+ LL+ G+ + G +VT + Sbjct: 132 LILSEDGVLAKAIIGPLSDMDKEYLVKVRGDITTAKVALLRHGLELDGRQLRPAEVTQE- 190 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + L+EG+NR+I+++ E +V L RI GP L L G R + K Sbjct: 191 ---RGQVLRFVLKEGRNRQIRRMCELVELRVLDLQRIRVGPILLAGLPQGKWRPLGAK 245 >gi|317055194|ref|YP_004103661.1| pseudouridine synthase [Ruminococcus albus 7] gi|315447463|gb|ADU21027.1| pseudouridine synthase [Ruminococcus albus 7] Length = 246 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 67/243 (27%), Positives = 120/243 (49%), Gaps = 16/243 (6%) Query: 15 RVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K++A + SR +V+++ ++++ VNG L+ R+ V + D I +DG L + Sbjct: 6 RLDKLVASQFADISRADVKKLCLKKKIMVNGKLMARSDAKVDTDDEIIIDGRKLTYKKHI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 + L +KP G+V + + +TV D +P R + GRLD +TEG +L+T+DG L+ Sbjct: 66 YIML-NKPAGVVCS-TKEGASTTVLDLVPDELRRDGLFPAGRLDKDTEGFVLITDDGELS 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-----VTLDTQKGSN 186 + P T + Y VR + +++ G+ I G+ GD + + Sbjct: 124 HRVLSPKTHVPKTYFVRLEKPWEDSYKDIMAAGMTIDGLHEGDSEEKCQPAQFLASDENV 183 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP------FQLGTLLAGSTREVSKKI 240 T+ + EGK ++K++FE KV L R++ G +LG L ++V K + Sbjct: 184 CECTLIIHEGKFHQVKRMFEKLGNKVVYLKRVAIGEMPLDRGLELGECLEIMHKDVEKLL 243 Query: 241 LRE 243 R+ Sbjct: 244 ARK 246 >gi|302380106|ref|ZP_07268580.1| pseudouridylate synthase [Finegoldia magna ACS-171-V-Col3] gi|302312092|gb|EFK94099.1| pseudouridylate synthase [Finegoldia magna ACS-171-V-Col3] Length = 235 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 67/236 (28%), Positives = 126/236 (53%), Gaps = 17/236 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 R+ ++++ IA+R+E+++M+ + + VN + +++ S++HI+ + ++ + Sbjct: 2 RLDRMLSEMKIATRKEIKQMVKKGIITVNDVTVKK------SSEHIDENNDVVKIYDEVI 55 Query: 74 --RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTND 127 R +LY +K G VT+HS TV D++ + ++ VGRLD++T GLL++TND Sbjct: 56 EYRKYLYFVMNKRKG-VTSHSKDPMYKTVIDDMGELCVFDLNPVGRLDLDTTGLLIITND 114 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G A L P + Y+V +VD+ + +KGI + T++ N Sbjct: 115 GKFAHNLISPKKDVSKKYKVTLRDKVDEKYNDTFEKGIKLMPEDIVTKPATMEIIDDYNC 174 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 ++T+ +EGK ++K++FE +V L R+ G F+L L G RE++ + LR Sbjct: 175 YLTI--KEGKYHQVKRMFEKVGNEVVELQRVQIGDFKLPEDLEEGDFRELTDEELR 228 >gi|225860671|ref|YP_002742180.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae Taiwan19F-14] gi|298229808|ref|ZP_06963489.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae str. Canada MDR_19F] gi|298254812|ref|ZP_06978398.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae str. Canada MDR_19A] gi|298502474|ref|YP_003724414.1| pseudouridylate synthase [Streptococcus pneumoniae TCH8431/19A] gi|225728241|gb|ACO24092.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae Taiwan19F-14] gi|298238069|gb|ADI69200.1| pseudouridylate synthase [Streptococcus pneumoniae TCH8431/19A] gi|327390410|gb|EGE88751.1| hypothetical protein SPAR5_0652 [Streptococcus pneumoniae GA04375] Length = 241 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 70/222 (31%), Positives = 113/222 (50%), Gaps = 7/222 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ I SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKI-SRKAMKQALLKGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT+ G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDSGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V+ +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVQVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSLSQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + EGK +IKK+F KV L RI +G F L LA S Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAES 220 >gi|206901970|ref|YP_002251612.1| ribosomal small subunit pseudouridine synthase A [Dictyoglomus thermophilum H-6-12] gi|206741073|gb|ACI20131.1| ribosomal small subunit pseudouridine synthase A [Dictyoglomus thermophilum H-6-12] Length = 242 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 67/217 (30%), Positives = 110/217 (50%), Gaps = 8/217 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G SR+EV+++I V VN + ++ + ++ +TD +E++G + E Sbjct: 2 RLDKFLVNQGFGSRKEVQKLIKAGIVYVNDVPVKDPSFHIDPNTDVVEIEGQEVEYKENY 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP G +T D + TV D + I +++ +GRLDI+TEGLL++T+DG LA Sbjct: 62 YFML-NKPKGYITATYD-ENYPTVMDLFSAEPIVNKLFPIGRLDIDTEGLLIITSDGVLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAW 188 L P + Y V G V D D K+GI ++ Y ++ K S + Sbjct: 120 HRLSHPKWNVEKEYFVIVEGDVSDIDFSKYEKEGIYLKKDKYKTKPFKVNVLKTSFEESE 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + + EGK IKK+ + +V L R+ GP L Sbjct: 180 LLITITEGKYHIIKKIMYALDHEVKYLKRVRIGPLTL 216 >gi|323498587|ref|ZP_08103579.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio sinaloensis DSM 21326] gi|323316285|gb|EGA69304.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio sinaloensis DSM 21326] Length = 344 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 63/209 (30%), Positives = 102/209 (48%), Gaps = 10/209 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 + +R++K I+ G SRRE +R+I Q RV +NG + E V+ D + VD P+ A Sbjct: 5 SAKRLNKFISETGFCSRREADRLIEQGRVTINGRVPE-MGTKVLPGDDVRVDDKPISAAT 63 Query: 72 RTRLWL-YHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +++ +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG Sbjct: 64 DKPVYIALNKPTGITCTTERDIPGNIVDFVGHKK---RIFPIGRLDKPSDGLIFLTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y VR V D +N + G+ I VT +T+ + Sbjct: 121 IVNKILRAGNNHEKEYVVRVDKPVSDDFINKMSSGVNILDTVTLPCTVTRETKFSFRIVL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRI 218 T GL NR+I+++ E ++V +L R+ Sbjct: 181 TQGL----NRQIRRMCEALGYEVFKLRRV 205 >gi|126667221|ref|ZP_01738195.1| 23S rRNA pseudouridine synthase [Marinobacter sp. ELB17] gi|126628377|gb|EAZ99000.1| 23S rRNA pseudouridine synthase [Marinobacter sp. ELB17] Length = 317 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 68/234 (29%), Positives = 121/234 (51%), Gaps = 19/234 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR-KAE 71 R++K I+ +GI SRRE +R I Q V++NG +RA+V V+ TD + V+G + +AE Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVRING---KRASVGDQVLPTDTVMVNGQIIEPRAE 64 Query: 72 RTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTND 127 ++++ +KP+G+V+T S DN+ R+ +GRLD +++GL+ +T++ Sbjct: 65 EDQVFIALNKPVGIVSTTD-----SAERDNIQRFVGHTVRIFPIGRLDKDSQGLIFMTSN 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + ++ + G+ I G +V+ + S Sbjct: 120 GDLVNKILRAGNNHEKEYLVTVDKPITKTFIDGMAGGVPILGTVTKKCRVSQE----SRF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +G NR+I+++ E F + V RL R LG L G R+++ K L Sbjct: 176 VFRIVLVQGLNRQIRRMAEHFGFDVTRLERQRIMNISLGNLPVGQWRDLTSKEL 229 >gi|91215957|ref|ZP_01252926.1| pseudouridine synthase, Rsu [Psychroflexus torquis ATCC 700755] gi|91185934|gb|EAS72308.1| pseudouridine synthase, Rsu [Psychroflexus torquis ATCC 700755] Length = 235 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 59/206 (28%), Positives = 109/206 (52%), Gaps = 11/206 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +++AG SRRE ++++ Q RV +NG +E V S D + VDG + K + Sbjct: 7 RINKYLSQAGFCSRREADKLMEQGRVTINGEYIE-MGTKVNSGDKVYVDGKLVEKETEEK 65 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++L +KP G+V T + ++ + D + P +R+ +GRLD +EGL+L+TNDG + Sbjct: 66 VYLAVYKPKGVVCTTNSKVEKNNIVDFVDYP---TRIFPIGRLDKMSEGLILMTNDGEIV 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + + D + ++KG+ I M + +K + + Sbjct: 123 NHILRARHFHDKEYLVTVNKTITDDFIEKMRKGVPI----LDTMSRRCEVEKLGDRSFKI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIR 217 L +G NR+I+++ E +++V L R Sbjct: 179 VLTQGLNRQIRRMCEALDYRVRTLKR 204 >gi|325917090|ref|ZP_08179323.1| pseudouridine synthase family protein [Xanthomonas vesicatoria ATCC 35937] gi|325536666|gb|EGD08429.1| pseudouridine synthase family protein [Xanthomonas vesicatoria ATCC 35937] Length = 240 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 68/231 (29%), Positives = 116/231 (50%), Gaps = 16/231 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE--- 71 R++K IA G SRRE +R+I ++RV VNG++ AV V D + VDG PLR E Sbjct: 4 RLNKHIADTGFCSRREADRLIGERRVTVNGVVAGTGAV-VGEEDTVLVDGQPLRAREAKK 62 Query: 72 ---RTRLWL-YHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 R +++ +KP+G+ TT S G F R+ +GRLD +EGL+L+T+ Sbjct: 63 PGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHE---QRIFPIGRLDKESEGLILMTS 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + + + Y V + V + L + +G+ I + + + T + + Sbjct: 120 NGNIVNEILRAENRHQKEYLVAVNKAVTDEFLRGMARGVRI----HNETTLPCRTARIAK 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+ + F+++V +L R+ +L L G R +S Sbjct: 176 FGFRIVLEQGLNRQIRLMAAEFDYRVTQLRRVRIDNIKLAALKPGQWRNLS 226 >gi|153853074|ref|ZP_01994483.1| hypothetical protein DORLON_00468 [Dorea longicatena DSM 13814] gi|149753860|gb|EDM63791.1| hypothetical protein DORLON_00468 [Dorea longicatena DSM 13814] Length = 237 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 68/217 (31%), Positives = 109/217 (50%), Gaps = 10/217 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A G+ +R+EV++ I Q +V VNG +++ A + T D + + G + Sbjct: 3 RLDKYLAEMGVGTRQEVKKQIRQGKVTVNGTVVKAADTKIDETCDEVTIGGRNISYVS-Y 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ D R T +L R + VGRLD +TEGLLL+TNDG LA Sbjct: 62 EYYMLNKPGGVVSATEDR--RDTTVIDLIKDKKRKDLFPVGRLDKDTEGLLLITNDGDLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGS-NAW 188 L P +VY + G V ++ + +GI I G +M LD K + + Sbjct: 120 HRLLAPKKHVDKVYYAKIDGMVTEEDVKRFAEGIDI-GAEEEEMTRPAKLDIMKSAEESE 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + + EGK ++K++F +V L R GP L Sbjct: 179 IRLTIHEGKFHQVKRMFLAVGKEVTYLKRERMGPLCL 215 >gi|227517632|ref|ZP_03947681.1| pseudouridylate synthase [Enterococcus faecalis TX0104] gi|227554784|ref|ZP_03984831.1| pseudouridylate synthase [Enterococcus faecalis HH22] gi|293384990|ref|ZP_06630824.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis R712] gi|293389260|ref|ZP_06633722.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis S613] gi|307270257|ref|ZP_07551569.1| hypothetical protein HMPREF9498_02370 [Enterococcus faecalis TX4248] gi|307272482|ref|ZP_07553735.1| hypothetical protein HMPREF9514_01246 [Enterococcus faecalis TX0855] gi|307278240|ref|ZP_07559319.1| hypothetical protein HMPREF9515_00573 [Enterococcus faecalis TX0860] gi|307289637|ref|ZP_07569581.1| hypothetical protein HMPREF9505_02998 [Enterococcus faecalis TX0109] gi|312900258|ref|ZP_07759570.1| conserved hypothetical protein [Enterococcus faecalis TX0470] gi|312905979|ref|ZP_07764992.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 512] gi|312909325|ref|ZP_07768181.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 516] gi|227074938|gb|EEI12901.1| pseudouridylate synthase [Enterococcus faecalis TX0104] gi|227176083|gb|EEI57055.1| pseudouridylate synthase [Enterococcus faecalis HH22] gi|291077668|gb|EFE15032.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis R712] gi|291081424|gb|EFE18387.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis S613] gi|306499451|gb|EFM68824.1| hypothetical protein HMPREF9505_02998 [Enterococcus faecalis TX0109] gi|306504991|gb|EFM74182.1| hypothetical protein HMPREF9515_00573 [Enterococcus faecalis TX0860] gi|306510767|gb|EFM79784.1| hypothetical protein HMPREF9514_01246 [Enterococcus faecalis TX0855] gi|306513400|gb|EFM82020.1| hypothetical protein HMPREF9498_02370 [Enterococcus faecalis TX4248] gi|310627974|gb|EFQ11257.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 512] gi|311290349|gb|EFQ68905.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 516] gi|311292619|gb|EFQ71175.1| conserved hypothetical protein [Enterococcus faecalis TX0470] gi|315031424|gb|EFT43356.1| conserved hypothetical protein [Enterococcus faecalis TX0017] gi|315034401|gb|EFT46333.1| conserved hypothetical protein [Enterococcus faecalis TX0027] gi|315164553|gb|EFU08570.1| conserved hypothetical protein [Enterococcus faecalis TX1302] gi|315575298|gb|EFU87489.1| conserved hypothetical protein [Enterococcus faecalis TX0309B] gi|315581464|gb|EFU93655.1| conserved hypothetical protein [Enterococcus faecalis TX0309A] Length = 257 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 78/258 (30%), Positives = 127/258 (49%), Gaps = 18/258 (6%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEIL-TYQKFFYYMLHKPQGVISATEDQRD-ETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ- 176 TEGLLLLTNDG LA L P + Y G V + L +G ++ G+M Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKD---GEMVK 175 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLL 229 T++ ++G++ V + ++EGK ++K++ V L R+ G L TL Sbjct: 176 PSRLVIETINEEEGTSV-VRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLE 234 Query: 230 AGSTREVSKKILREQLGP 247 G R +++ L +QL P Sbjct: 235 LGEYRPLTEAEL-QQLQP 251 >gi|158319769|ref|YP_001512276.1| pseudouridine synthase [Alkaliphilus oremlandii OhILAs] gi|158139968|gb|ABW18280.1| pseudouridine synthase [Alkaliphilus oremlandii OhILAs] Length = 242 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 64/219 (29%), Positives = 109/219 (49%), Gaps = 5/219 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ K+++ G SR+++ ++ VKV+G +++ ++ +V + + G + Sbjct: 5 QRIDKILSNLGYGSRKDIRQICKNGLVKVDGKVVKDSSAHVDPENSQIIIGNEVVNYREF 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 + HKP G+++ D + TV D L + V VGRLD +TEGLLLLTNDG LA Sbjct: 65 VYLMMHKPQGVISATED-NRDQTVVDLLDEEYLPFSVFPVGRLDKDTEGLLLLTNDGKLA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVT 190 L P + Y + G V + + K+G+ I+ Y + L+ K + + Sbjct: 124 HNLLSPKKNVPKTYYAKVLGTVTRSDIESFKEGVFIEE-DYKTLPAELNILKSDEISEIE 182 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + EGK ++K++FE + V L R+S G L L Sbjct: 183 LTIYEGKFHQVKRMFEAVDKTVVYLKRLSMGTLNLDPTL 221 >gi|269965448|ref|ZP_06179567.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 40B] gi|269829927|gb|EEZ84157.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 40B] Length = 385 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 66/232 (28%), Positives = 111/232 (47%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +R+I Q RV +NG E V+ D + VDG P+ E+ Sbjct: 7 KRLNKFISETGFCSRREADRLIEQGRVTINGNKPE-MGTKVLPGDDVCVDGKPVAAKEKP 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 66 IYIALNKPTGITCT-TERDVPGNIVDFI-GHQKRIFPIGRLDKPSDGLIFLTNDGDIVNK 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + + L + G+ I +VT +T+ +T GL Sbjct: 124 ILRAGNSHEKEYVVRVDKPITGEFLKQMSSGVKILDTVTLPCKVTKETKFSFRIVLTQGL 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 NR+I+++ E ++V +L R+ L + G R +S + + E L Sbjct: 184 ----NRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDEEVAEIL 231 >gi|228941730|ref|ZP_04104277.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228974654|ref|ZP_04135220.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228981248|ref|ZP_04141548.1| RNA pseudouridine synthase [Bacillus thuringiensis Bt407] gi|228778448|gb|EEM26715.1| RNA pseudouridine synthase [Bacillus thuringiensis Bt407] gi|228785057|gb|EEM33070.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228817942|gb|EEM64020.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar berliner ATCC 10792] gi|326942335|gb|AEA18231.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar chinensis CT-43] Length = 229 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 66/236 (27%), Positives = 120/236 (50%), Gaps = 13/236 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDG +A Sbjct: 61 VYIAFHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQL 245 L +G NR+I+++ F + V +L R+ +L L G R ++ +IL+ QL Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELGVGKWRNIATEELEILKGQL 229 >gi|326797290|ref|YP_004315110.1| pseudouridine synthase Rsu [Marinomonas mediterranea MMB-1] gi|326548054|gb|ADZ93274.1| pseudouridine synthase Rsu [Marinomonas mediterranea MMB-1] Length = 355 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 71/237 (29%), Positives = 122/237 (51%), Gaps = 23/237 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +G+ SRRE +R I Q V +NG +RA V D ++V+G + ++A Sbjct: 8 RINKYISESGLCSRREADRFIDQGSVFING---KRAGTGDQVSPGDLVKVNGQIIEPQEA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTND 127 E +KP+G+V+T S+ N+ S +R+ +GRLD +++GL+ LTN+ Sbjct: 65 EDLIFIALNKPVGIVSTTE-----SSEPANIVSFVKHGARIFPIGRLDKDSQGLIFLTNN 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGS 185 G L + + + Y V + + Q ++ + G+ I G QVT + K S Sbjct: 120 GDLVNKILRAANNHEKEYLVTVNKPITQAFIDGMSGGVPILG------QVTKKCKVVKES 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+++ E F ++V RL RI L L G R++++K L+ Sbjct: 174 TYVFNITLVQGLNRQIRRMAEHFGYEVTRLERIRIMNVSLKGLALGDWRDLTQKELQ 230 >gi|315149408|gb|EFT93424.1| conserved hypothetical protein [Enterococcus faecalis TX0012] Length = 257 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 78/258 (30%), Positives = 127/258 (49%), Gaps = 18/258 (6%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEIL-TYQKFFYYMLHKPQGVISATEDQRD-ETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ- 176 TEGLLLLTNDG LA L P + Y G V + L +G ++ G+M Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKD---GEMVK 175 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLL 229 T++ ++G++ V + ++EGK ++K++ V L R+ G L TL Sbjct: 176 PSRLVIETINEEEGTSV-VRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLE 234 Query: 230 AGSTREVSKKILREQLGP 247 G R +++ L +QL P Sbjct: 235 LGEYRPLTEDEL-QQLQP 251 >gi|297539905|ref|YP_003675674.1| RNA-binding S4 domain-containing protein [Methylotenera sp. 301] gi|297259252|gb|ADI31097.1| RNA-binding S4 domain protein [Methylotenera sp. 301] Length = 412 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 68/240 (28%), Positives = 104/240 (43%), Gaps = 24/240 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SKV+A GI SRRE + I V V+G++++ + I + T Sbjct: 169 RLSKVMAERGICSRREADEWIMNSWVMVDGVIIDTLGTRINPDAEIVISSYAHEVQAETV 228 Query: 75 LWLYHKPIGLVTTHSD-----------PDGRSTVFDNLPSIFSR---------VISVGRL 114 + HKP+G V+ ++ PD L + R + GRL Sbjct: 229 TIILHKPVGYVSGQAEDGYQPAIVLVHPDNEWLDDPELNQLHEREFQRRYLNGLAPAGRL 288 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ G+L+LT DG +AR L + + Y VR G +D D L L G+ + G Sbjct: 289 DIDSTGMLVLTQDGRVARHLIGEDSTVEKEYLVRVEGSLDDDGLKRLNHGLSLDGEKLKP 348 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +V+ + + LREGK R+I+++ E V L R+ G LG L G R Sbjct: 349 AKVSWQNED----QLRFVLREGKKRQIRRMCEMVGLHVVGLKRVRIGSVNLGKLPVGQWR 404 >gi|238754415|ref|ZP_04615771.1| Ribosomal large subunit pseudouridine synthase E [Yersinia ruckeri ATCC 29473] gi|238707448|gb|EEP99809.1| Ribosomal large subunit pseudouridine synthase E [Yersinia ruckeri ATCC 29473] Length = 208 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 55/183 (30%), Positives = 93/183 (50%), Gaps = 25/183 (13%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L +KP ++ +D GR+T+ +P F+ V + GRLD ++EGLL+LTNDG L Sbjct: 30 RIVLLNKPFDVLPQFTDEAGRATLKGLVP--FNDVYAAGRLDRDSEGLLVLTNDGKLQAR 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA------ 187 L P + +VY V+ G+ D++ L L++G++++ + D +K Sbjct: 88 LTQPGQKTAKVYYVQVEGEPDEEALRHLRQGVILKD----GPTLPADAEKVEQPEWLWPR 143 Query: 188 -------------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 W+ + L EG+NR+++++ + RLIR S G LG L G + Sbjct: 144 NPPIRERKSIPTHWLKMTLYEGRNRQVRRMTAHIGFPTLRLIRFSMGNLTLGNLQPGEWK 203 Query: 235 EVS 237 E+S Sbjct: 204 EIS 206 >gi|126697974|ref|YP_001086871.1| putative RNA pseudouridine synthase [Clostridium difficile 630] gi|115249411|emb|CAJ67226.1| Ribosomal small subunit pseudouridine synthase A [Clostridium difficile] Length = 240 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 69/229 (30%), Positives = 113/229 (49%), Gaps = 8/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 QR+ K+++ G SR E+++ Q V VNG + V D I +G + E Sbjct: 5 QRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYREY 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + +KP G ++ +D TV D +L + VGRLD +TEGLL+LTNDG L Sbjct: 65 IYLMM-NKPDGYISATTDK-YDPTVLDLIDLSYLAFEPFPVGRLDKDTEGLLVLTNDGKL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + + P + Y + G V ++ + +G+V+ Y M L+ K + + + Sbjct: 123 SHRVLSPKKHVPKTYYAKIDGVVTEEDVEAFLEGVVLDD-RYKTMPSQLNILKSDDESEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 + + EGK ++K++FE KV L R+S G +L +L G RE++ Sbjct: 182 ELTIHEGKFHQVKRMFESVGKKVVYLKRLSMGNLKLDESLELGEYRELT 230 >gi|16804380|ref|NP_465865.1| hypothetical protein lmo2342 [Listeria monocytogenes EGD-e] gi|224503528|ref|ZP_03671835.1| hypothetical protein LmonFR_13647 [Listeria monocytogenes FSL R2-561] gi|16411830|emb|CAD00420.1| lmo2342 [Listeria monocytogenes EGD-e] Length = 233 Score = 85.1 bits (209), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 69/220 (31%), Positives = 104/220 (47%), Gaps = 10/220 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+++ G SR+EV+ ++ V VNG + + + V D I V G P+ E Sbjct: 2 RLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQITVHGTPVVYQEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG LA Sbjct: 62 YFML-HKPQNVVSATED-NVSETVIDLLAQEDTLTDPFPVGRLDKDTEGLLIITNDGTLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y + G V + + GI + G ++ + T + Sbjct: 120 HNLLSPKKHIDKTYYAKIDGDVTAEDVEAFAAGIELDDGYTCKPARLEIITPN----EIK 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V ++EGK ++K++F V+ L RIS G QL LA Sbjct: 176 VTIQEGKFHQVKRMFAARGKSVSYLKRISMGNLQLDESLA 215 >gi|148985263|ref|ZP_01818486.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP3-BS71] gi|147922461|gb|EDK73580.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP3-BS71] gi|301799717|emb|CBW32282.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae OXC141] Length = 241 Score = 85.1 bits (209), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 64/176 (36%), Positives = 96/176 (54%), Gaps = 6/176 (3%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDG 128 E T L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G Sbjct: 58 EHTYLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNG 115 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNA 187 L L P + Y+V +G + D + +KGIV + G ++ + + S + Sbjct: 116 PLGFQLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTICKPARLEILSASPSLS 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 ++ + EGK +IKK+F KV L RI +G F L LA G+ R +++K L+ Sbjct: 176 QASITISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >gi|83311576|ref|YP_421840.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Magnetospirillum magneticum AMB-1] gi|82946417|dbj|BAE51281.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Magnetospirillum magneticum AMB-1] Length = 247 Score = 85.1 bits (209), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 73/237 (30%), Positives = 112/237 (47%), Gaps = 17/237 (7%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKV-NGILLERAAVNVMSTDHIEVDGVPL 67 E T R+ ++IA G S+R+V+ MI RV + +G +L+ + D I VDG PL Sbjct: 10 EGHTDMRLIRLIANLGYGSQRDVKAMIKAGRVTLADGTVLDDG--TKAAHDDIRVDGEPL 67 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLL 123 L L HKP G + SDP GR V++ LP F V VGRLD ++ GLLL Sbjct: 68 DPPPGLVLML-HKPEGYTCSTSDP-GR-IVYELLPERFMHRNPIVAPVGRLDRDSTGLLL 124 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLD 180 LT+DG LA + P + Y V + ++ + G ++ + ++ + Sbjct: 125 LTDDGPLAHRITSPKRHVPKTYEVTLARPLSGEEGAVFASGTLMLRSESTPLAPAELVVS 184 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +T EG+ ++K++F V RL R + G LG L G R +S Sbjct: 185 GPQTARITIT----EGRYHQVKRMFAAVGNHVERLHRAAIGGLDLGDLAEGQWRPLS 237 >gi|221231495|ref|YP_002510647.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae ATCC 700669] gi|225854205|ref|YP_002735717.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae JJA] gi|220673955|emb|CAR68464.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae ATCC 700669] gi|225723188|gb|ACO19041.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae JJA] Length = 241 Score = 85.1 bits (209), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 70/222 (31%), Positives = 114/222 (51%), Gaps = 7/222 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ I SR+ +++ + + ++ V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKI-SRKAMKQALLRGKILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSISQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + EGK +IKK+F KV L RI +G F L LA S Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTILKRIQFGDFTLNPDLAES 220 >gi|315304474|ref|ZP_07874754.1| ribosomal small subunit pseudouridine synthase A [Listeria ivanovii FSL F6-596] gi|313627161|gb|EFR96014.1| ribosomal small subunit pseudouridine synthase A [Listeria ivanovii FSL F6-596] Length = 233 Score = 85.1 bits (209), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 69/214 (32%), Positives = 101/214 (47%), Gaps = 8/214 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+++ G SRREV+ ++ V VNG + + + + V D I V G P+ E Sbjct: 2 RLDKLLSHTGYGSRREVKPLLKSGSVTVNGTIQKDSKLQVNPEKDQITVHGNPVVYQEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG LA Sbjct: 62 YFML-HKPQNVVSATED-NLSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + + GI + Y L+ S VT+ Sbjct: 120 HNLLSPKKHIDKTYYAKIEGNVTVADIEAFQTGITLDD-GYTCKPAHLEIITPSEINVTI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +EGK ++K++F V L RIS G +L Sbjct: 179 --QEGKFHQVKRMFAATGKTVTYLKRISMGKLKL 210 >gi|325578607|ref|ZP_08148707.1| ribosomal small subunit pseudouridine synthase A [Haemophilus parainfluenzae ATCC 33392] gi|325159843|gb|EGC71973.1| ribosomal small subunit pseudouridine synthase A [Haemophilus parainfluenzae ATCC 33392] Length = 232 Score = 85.1 bits (209), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 63/227 (27%), Positives = 109/227 (48%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + I Q VK+N +++ A V D I + L E + Sbjct: 2 RLDKFIAENTGLTRSQATKAIRQSAVKINDEIVKNGATKVSQEDEIYFEDELLSWVEEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V +H D D T++ P + ++ S GRLD++T GL+LLT+DG + Sbjct: 62 YFMLHKPQGYVCSHDD-DDYPTIYQFFEPPLSGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P Q + Y V V+ + ++GI+++G L+ N V + + Sbjct: 121 ITSPKHQCEKTYLVTLADPVENHYASACEEGILLRGEKEPTKPAKLEVLDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EG+ ++K++F KV L R G +L +L G R ++++ Sbjct: 179 SEGRYHQVKRMFAALGNKVVALHRWRIGNVELDESLEEGEFRPLTQE 225 >gi|289663281|ref|ZP_06484862.1| pseudouridylate synthase [Xanthomonas campestris pv. vasculorum NCPPB702] Length = 240 Score = 85.1 bits (209), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 71/236 (30%), Positives = 115/236 (48%), Gaps = 16/236 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA G SRRE +R+I ++RV VNG+ AV V D + VDG PLR E + Sbjct: 4 RLNKYIAETGFCSRREADRLIGERRVTVNGVSAGTGAV-VGEEDTVLVDGQPLRVREAKK 62 Query: 75 LW----LY---HKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L +Y +KP+G+ TT S G F R+ +GRLD +EGL+L+T+ Sbjct: 63 LGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHE---QRIFPIGRLDKESEGLILMTS 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + + + Y V + V L + +G+ I + + + T + + Sbjct: 120 NGNIVNEILRAENRHQKEYLVAVNKPVTDQFLRGMARGVRI----HNETTLPCRTARIAK 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR Sbjct: 176 FGFRIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELR 231 >gi|325920712|ref|ZP_08182618.1| pseudouridine synthase family protein [Xanthomonas gardneri ATCC 19865] gi|325548764|gb|EGD19712.1| pseudouridine synthase family protein [Xanthomonas gardneri ATCC 19865] Length = 240 Score = 85.1 bits (209), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 115/236 (48%), Gaps = 16/236 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK----- 69 R++K IA G SRRE +R+I ++RV VNG+ AV V D + VDG PLR Sbjct: 4 RLNKYIAETGFCSRREADRLIGERRVTVNGVPAGTGAV-VGEEDTVLVDGQPLRTRAASK 62 Query: 70 -AERTRLWL-YHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 R +++ +KP+G+ TT S G F R+ VGRLD +EGL+L+T+ Sbjct: 63 PGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHE---QRIFPVGRLDKESEGLILMTS 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + + + Y V + V + L + +G+ I + + + T + + Sbjct: 120 NGNIVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRI----HNETTLPCRTARIAK 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR Sbjct: 176 FGFRIVLEQGLNRQIRLMASEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELR 231 >gi|168492245|ref|ZP_02716388.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CDC0288-04] gi|183573539|gb|EDT94067.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CDC0288-04] Length = 241 Score = 85.1 bits (209), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 121/233 (51%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ + SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKV-SRKAMKQALLRGDILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQTFQKGIVFLDGTICKPARLEILSASPSLSQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK +IKK+F KV L RI +G F L LA G+ R +++K L+ Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >gi|303233542|ref|ZP_07320201.1| pseudouridylate synthase [Finegoldia magna BVS033A4] gi|302495346|gb|EFL55093.1| pseudouridylate synthase [Finegoldia magna BVS033A4] Length = 235 Score = 85.1 bits (209), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 67/236 (28%), Positives = 126/236 (53%), Gaps = 17/236 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 R+ K+++ IA+R+E+++M+ + + VN + +++ S++HI+ + ++ + Sbjct: 2 RLDKMLSEMKIATRKEIKQMVKKGIITVNDVTVKK------SSEHIDENNDVVKIYDEVI 55 Query: 74 --RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTND 127 R +LY +K G VT+HS TV D++ + ++ VGRLD++T GLL++TND Sbjct: 56 EYRKFLYFVMNKRKG-VTSHSKDPMHKTVIDDMGELCVFDLNPVGRLDLDTTGLLIITND 114 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G A L P + + Y+V +VD+ + +KGI + ++ N Sbjct: 115 GKFAHNLISPKKEVSKKYKVTLRDKVDEKYNDTFEKGIKLMPEDIITKPAKMEIIDDYNC 174 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 ++T+ +EGK ++K++FE +V L R+ G F+L L G RE++ + LR Sbjct: 175 YLTI--KEGKYHQVKRMFEKVGNEVVELQRVQIGDFKLPEDLEEGDFRELTDEELR 228 >gi|294501579|ref|YP_003565279.1| RNA pseudouridylate synthase [Bacillus megaterium QM B1551] gi|294351516|gb|ADE71845.1| RNA pseudouridylate synthase [Bacillus megaterium QM B1551] Length = 238 Score = 85.1 bits (209), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 67/215 (31%), Positives = 106/215 (49%), Gaps = 7/215 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ K+++ G SR+EV+ ++ VKV+G ++ A V+V + I V G + E Sbjct: 2 RLDKLLSTIGYGSRKEVKGLLKTGAVKVDGTAVKDAKVHVNPDEQEITVHGEAVSYREFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP G+++ D TV D L VGRLD +TEGLLLLTNDG LA Sbjct: 62 YFML-HKPQGVISATEDS-LHETVLDLLELDDAVYDPFPVGRLDKDTEGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y + + V ++ ++G+ + G ++ + T G + + Sbjct: 120 HQLLSPKKHVPKTYFAKINAPVTEEDAEAFRQGVTLDDGYVTKSAELKILTS-GVESEIE 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK ++K++FE KV L R+S G L Sbjct: 179 LTIVEGKFHQVKRMFEARGKKVTYLKRLSMGALLL 213 >gi|148997238|ref|ZP_01824892.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP11-BS70] gi|168575350|ref|ZP_02721286.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae MLV-016] gi|307067298|ref|YP_003876264.1| 16S rRNA uridine-516 pseudouridylate synthase-like pseudouridylate synthase [Streptococcus pneumoniae AP200] gi|147756938|gb|EDK63978.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP11-BS70] gi|183578472|gb|EDT99000.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae MLV-016] gi|306408835|gb|ADM84262.1| 16S rRNA uridine-516 pseudouridylate synthase-like pseudouridylate synthase [Streptococcus pneumoniae AP200] Length = 241 Score = 85.1 bits (209), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 73/233 (31%), Positives = 121/233 (51%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ I SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKI-SRKAMKQALLKGDILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQTFQKGIVFLDGTICKPARLEILSASPSLSQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK +IKK+F KV L RI +G F L LA G+ R +++K L+ Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTILKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >gi|289450385|ref|YP_003475159.1| pseudouridylate synthase [Clostridiales genomosp. BVAB3 str. UPII9-5] gi|289184932|gb|ADC91357.1| pseudouridylate synthase [Clostridiales genomosp. BVAB3 str. UPII9-5] Length = 317 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 76/256 (29%), Positives = 120/256 (46%), Gaps = 43/256 (16%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM---STDHIEVDGVPLR--- 68 R++K IA GIASRR + ++A R+ +NG E A + M +D IE+DG PL+ Sbjct: 32 RINKYIAGLGIASRRAADELLADGRITING---ETAGLGEMVDPQSDRIELDGRPLKVEC 88 Query: 69 ---------KAERTRLW--------------LY---HKPIGLV-TTHSDPDGRSTVFDNL 101 KA RL +Y +KP G+V TT S T + N Sbjct: 89 APLPYAPYGKASPPRLTSKDDNQATSNYPQRVYIALNKPKGIVCTTDSREPENITEYMNF 148 Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 P R+ +GRLD + GLLLLTNDG + + + YRV + + L + Sbjct: 149 PI---RIFPIGRLDKASSGLLLLTNDGSIVNRILRAHNHHEKEYRVEVDKPLTEAALQTM 205 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + G+ I G+ ++ L + +T+ L +G NR+I+++ E+ +KV +L R Sbjct: 206 RTGVPILGVVTLPCRIKLL----NPTTMTIILTQGLNRQIRRMCEYCGYKVVKLERRRIM 261 Query: 222 PFQLGTLLAGSTREVS 237 LG + G+ R ++ Sbjct: 262 NITLGKMPVGAWRYLT 277 >gi|226943128|ref|YP_002798201.1| Pseudouridine synthase, RluE [Azotobacter vinelandii DJ] gi|226718055|gb|ACO77226.1| Pseudouridine synthase, RluE [Azotobacter vinelandii DJ] Length = 210 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 56/191 (29%), Positives = 94/191 (49%), Gaps = 16/191 (8%) Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G P RL L++KP ++T DGR+T+ D +P V GRLD ++EGLLL Sbjct: 22 GPPEAPQAAPRLILFNKPFDVLTQFRGGDGRATLKDFIP--VPGVYPAGRLDRDSEGLLL 79 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDT- 181 LT+DG L + P + + Y V+ G+ D+ +L L++G+ + +V LD Sbjct: 80 LTDDGRLQARIADPRHKLAKTYWVQVEGEPDEAQLQRLREGVTLNDGPTRPAEVRRLDAP 139 Query: 182 ------------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + AW+ + +REG+NR+++++ RL+R+ GP+ + L Sbjct: 140 ELWPRDPPVRFRKSVPTAWLELTIREGRNRQVRRMTAAVGLPTLRLVRVRIGPWSVDGLA 199 Query: 230 AGSTREVSKKI 240 G RE ++ Sbjct: 200 PGEWREAPARL 210 >gi|91228934|ref|ZP_01262832.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 12G01] gi|91187517|gb|EAS73851.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 12G01] Length = 385 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 66/233 (28%), Positives = 111/233 (47%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +R+I Q RV +NG E V+ D + VDG P+ E+ Sbjct: 7 KRLNKFISETGFCSRREADRLIEQGRVTINGNKPE-MGTKVLPGDDVCVDGKPVAAKEKP 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 66 IYIALNKPTGITCT-TERDVPGNIVDFI-GHQKRIFPIGRLDKPSDGLIFLTNDGDIVNK 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + + L + G+ I +VT +T+ +T GL Sbjct: 124 ILRAGNSHEKEYVVRVDKPITVEFLKQMSSGVKILDTVTLPCKVTKETKFSFRIVLTQGL 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 NR+I+++ E ++V +L R+ L + G R +S + + E L Sbjct: 184 ----NRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDEEVAEILA 232 >gi|313901058|ref|ZP_07834546.1| 16S pseudouridylate 516 synthase [Clostridium sp. HGF2] gi|312954016|gb|EFR35696.1| 16S pseudouridylate 516 synthase [Clostridium sp. HGF2] Length = 233 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 117/236 (49%), Gaps = 24/236 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLER------AAVNVMSTDHIEVDGVPLR 68 R+ K +A AG+ +R+EV+ I + RV VNG + + V+V+ D E+ Sbjct: 2 RLDKYLAHAGLGTRKEVKLAIRKGRVSVNGEVCRKDDRKIQEGVDVVCLDKEEI------ 55 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTND 127 E + +KP +V+ SDP TV D + + + VGRLD++TEGLLL+TND Sbjct: 56 YYEAVVYIMLNKPQDVVSATSDP-TYETVLDCIDAFLPKDCFPVGRLDMDTEGLLLITND 114 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKG 184 G LA L P + Y V + + L+ G ++ + + +++ DTQ Sbjct: 115 GKLAHRLLSPKHHVEKTYLVDLAQPLQEGDQKKLENGSIVLDEEPVLPARVEILEDTQ-- 172 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 + + ++EG+ ++K++ +V L RI+ GP +L LA G R +S++ Sbjct: 173 ----ILLHIQEGRFHQVKRMLHAIGNEVVHLKRIAMGPLRLDEALASGEWRYLSEE 224 >gi|254230555|ref|ZP_04923923.1| conserved hypothetical protein, putative [Vibrio sp. Ex25] gi|262394965|ref|YP_003286819.1| ribosomal large subunit pseudouridine synthase F [Vibrio sp. Ex25] gi|151936927|gb|EDN55817.1| conserved hypothetical protein, putative [Vibrio sp. Ex25] gi|262338559|gb|ACY52354.1| ribosomal large subunit pseudouridine synthase F [Vibrio sp. Ex25] Length = 385 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 60/205 (29%), Positives = 101/205 (49%), Gaps = 7/205 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +R+I Q RV +NG E V+ D + VDG P+ E+ Sbjct: 7 KRLNKFISETGFCSRREADRLIEQGRVTINGNKPE-MGTKVLPGDDVCVDGKPVAAKEKP 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 66 IYIALNKPTGITCT-TERDVPGNIVDFI-GHKKRIFPIGRLDKPSDGLIFLTNDGDIVNK 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + + L + G+ I +VT +T+ +T GL Sbjct: 124 ILRAGNSHEKEYVVRVDKPITGEFLKQMSSGVKILDTVTLPCKVTKETKFSFRIVLTQGL 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRI 218 NR+I+++ E ++V +L R+ Sbjct: 184 ----NRQIRRMCEALGYEVFKLRRV 204 >gi|169350449|ref|ZP_02867387.1| hypothetical protein CLOSPI_01217 [Clostridium spiroforme DSM 1552] gi|169292769|gb|EDS74902.1| hypothetical protein CLOSPI_01217 [Clostridium spiroforme DSM 1552] Length = 239 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 72/230 (31%), Positives = 116/230 (50%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K++A GI +R+EV+ I + V+VNG ++++ V D I DG + Sbjct: 3 MRLDKLLANYGIGTRKEVKSYIRKGFVEVNGEIIKKDDYKVDYQKDEIIFDGELIEYRPY 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 L L +KP G V+ D + TV D + + + VGRLDI+TEGLLL++NDG A Sbjct: 63 VYLML-NKPKGYVSATKD-NVHPTVIDLIVGYENYDLFPVGRLDIDTEGLLLISNDGDFA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P+ +VY R G +++ + K G+++ G + + + V Sbjct: 121 HRLMSPNRNHAKVYVARIAGIMNEFDILAFKDGVILDNGYKCKPANLKILEVFDDSCEVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + + EGK ++KK+ E N KV L RIS + +L G RE++K+ Sbjct: 181 IEIFEGKFHQVKKMVEACNKKVTYLKRISIKGLTIDRSLQLGDFRELTKE 230 >gi|229135383|ref|ZP_04264172.1| RNA pseudouridine synthase [Bacillus cereus BDRD-ST196] gi|228648079|gb|EEL04125.1| RNA pseudouridine synthase [Bacillus cereus BDRD-ST196] Length = 229 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 65/236 (27%), Positives = 118/236 (50%), Gaps = 14/236 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I R +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRACINGEVCTHGAL-VNEGDIVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGL 130 +++ +HKP+G+ T ++ + DN+ R+ VGRLD +EGL+LLTNDG + Sbjct: 61 VYIAFHKPVGITCTAAEH-----IEDNIIDYIDYPERIFPVGRLDKASEGLILLTNDGAI 115 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + + + Y V ++ + G+ I+ +VT Q + Sbjct: 116 ANQILHGDHEHEKEYVVAVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRVNQ----STFR 171 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ F + V +L R+ +L L AG R+++ K L +G Sbjct: 172 IVLTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEAGKWRDITPKELEILIG 227 >gi|323488402|ref|ZP_08093649.1| pseudouridine synthase [Planococcus donghaensis MPA1U2] gi|323397909|gb|EGA90708.1| pseudouridine synthase [Planococcus donghaensis MPA1U2] Length = 237 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 67/222 (30%), Positives = 108/222 (48%), Gaps = 21/222 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K ++ G SR+EV+ ++ + V+VNG ++ V+V TD + V G + E Sbjct: 2 RLDKYLSNMGHGSRKEVKVLLKSKAVEVNGEIVRDPKVHVNEHTDLVSVGGEAVTYTEFI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV---------FDNLPSIFSRVISVGRLDINTEGLLLL 124 L L +KP G+++ D ++ + F+ P VGRLD +TEG LLL Sbjct: 62 YL-LMNKPQGVISATEDKYDKTVIDLLGKDEQHFEPFP--------VGRLDKDTEGFLLL 112 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LA L P + Y G V ++ KKG+V+ Y +L+ Sbjct: 113 TNDGKLAHELLSPKKHVDKTYFAHVEGVVTEEDTEAFKKGVVLDD-GYETKPASLNILDS 171 Query: 185 S-NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + + + + EGK ++K++FE +V L R+S GP L Sbjct: 172 AVVSKIELTITEGKFHQVKRMFESVGKRVVYLKRLSMGPLSL 213 >gi|21232071|ref|NP_637988.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66767803|ref|YP_242565.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. 8004] gi|21113814|gb|AAM41912.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66573135|gb|AAY48545.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. 8004] Length = 240 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 68/238 (28%), Positives = 121/238 (50%), Gaps = 20/238 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----KA 70 R++K IA G SRRE +R+I ++RV VNG++ AV V D + VDG PLR K Sbjct: 4 RLNKHIAETGFCSRREADRLIGERRVTVNGVIAGTGAV-VGEDDTVLVDGQPLRVREAKK 62 Query: 71 ERTRLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLL 124 TR +Y +KP+G+ +T S+V N+ R+ +GRLD ++EGL+L+ Sbjct: 63 PGTRRHVYIALNKPVGITSTTE-----SSVKGNIVEFVGHEQRIFPIGRLDKDSEGLILM 117 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T++G + + + + Y V + V + L + +G+ + + + + T + Sbjct: 118 TSNGNIVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRL----HDETTLPCRTARI 173 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + L +G NR+I+ + F ++V +L R+ +L L G R ++ + L+ Sbjct: 174 AKFGFRIVLEQGLNRQIRLMAAAFGFRVTQLRRVRIDNIKLAALKPGQWRNLTDQELQ 231 >gi|315025675|gb|EFT37607.1| conserved hypothetical protein [Enterococcus faecalis TX2137] gi|315173996|gb|EFU18013.1| conserved hypothetical protein [Enterococcus faecalis TX1346] Length = 257 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 78/258 (30%), Positives = 127/258 (49%), Gaps = 18/258 (6%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEIL-TYQKFFYYMLHKPQGVISATEDQRD-ETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ- 176 TEGLLLLTNDG LA L P + Y G V + L +G ++ G+M Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKD---GEMVK 175 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLL 229 T++ ++G++ V + ++EGK ++K++ V L R+ G L TL Sbjct: 176 PSRLVIETINEEEGTSV-VRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLE 234 Query: 230 AGSTREVSKKILREQLGP 247 G R +++ L +QL P Sbjct: 235 LGGYRPLTEAEL-QQLQP 251 >gi|218899705|ref|YP_002448116.1| RNA pseudouridine synthase family protein [Bacillus cereus G9842] gi|218542895|gb|ACK95289.1| RNA pseudouridine synthase family protein [Bacillus cereus G9842] Length = 229 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 67/236 (28%), Positives = 120/236 (50%), Gaps = 13/236 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T ++ + + + N P R+ VGRLD +EGL+LLTNDG +A Sbjct: 61 VYIAFHKPVGITCTAAEHIEDNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGTIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVT----RVDQSTFRII 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK---ILREQL 245 L +G NR+I+++ F + V +L R+ +L L G R V+ + IL +QL Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTSEELDILIDQL 229 >gi|300723599|ref|YP_003712904.1| Ribosomal large subunit pseudouridine synthase E [Xenorhabdus nematophila ATCC 19061] gi|297630121|emb|CBJ90758.1| Ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Xenorhabdus nematophila ATCC 19061] Length = 209 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 57/179 (31%), Positives = 96/179 (53%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ +++KP ++ +D GR+T+ D +P + V + GRLD ++EGLL+LTNDG L Sbjct: 31 RVLVFNKPYDVLPQFTDEMGRTTLKDFIP--LTDVYTAGRLDRDSEGLLVLTNDGKLQAR 88 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQV---------TLDT 181 L P + ++Y V+ G D+ LN L+ GI ++ + G V T Sbjct: 89 LTQPHKKTAKIYYVQVEGIPDESALNKLRNGITLKDGPTLPAGAELVKEPEWLWERTPPI 148 Query: 182 QKGSN---AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++ N +W+ + L EG+NR+++++ + RLIR S G QL TL G +E++ Sbjct: 149 RERKNIPVSWLKITLYEGRNRQVRRMTAHIGFPTLRLIRFSLGSIQLETLSPGEWKEIN 207 >gi|261821191|ref|YP_003259297.1| 16S rRNA pseudouridylate synthase A [Pectobacterium wasabiae WPP163] gi|261605204|gb|ACX87690.1| pseudouridine synthase [Pectobacterium wasabiae WPP163] Length = 231 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 61/227 (26%), Positives = 114/227 (50%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + QRV V+G +++ A + ++E DG PL++ R Sbjct: 2 RLDKFLSQQLEISRSLVARELHAQRVTVDGEVVKSGAFKLSPEHNVEFDGNPLKQQSGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V + DPD + + F ++P + ++ + GRLDI+T GL+LLT+DG + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTILYFMDVPVAY-KLHAAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y V + +D G+ + ++ +K ++ V + + Sbjct: 121 ITSPKHECEKTYLVTLEQPLAEDTAAQFTAGVQLHS--EKNLTKPASLEKVTDYVVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 EG+ ++K++F +V L R G L + L G RE+S + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGGISLDSELEPGEYRELSAE 225 >gi|255971130|ref|ZP_05421716.1| pseudouridine synthase [Enterococcus faecalis T1] gi|255973742|ref|ZP_05424328.1| pseudouridine synthase [Enterococcus faecalis T2] gi|256761441|ref|ZP_05502021.1| pseudouridine synthase [Enterococcus faecalis T3] gi|256957465|ref|ZP_05561636.1| pseudouridine synthase [Enterococcus faecalis DS5] gi|256959802|ref|ZP_05563973.1| pseudouridine synthase [Enterococcus faecalis Merz96] gi|256964546|ref|ZP_05568717.1| pseudouridine synthase [Enterococcus faecalis HIP11704] gi|257077544|ref|ZP_05571905.1| pseudouridine synthase [Enterococcus faecalis JH1] gi|257418285|ref|ZP_05595279.1| pseudouridine synthase [Enterococcus faecalis T11] gi|294780454|ref|ZP_06745819.1| pseudouridylate synthase [Enterococcus faecalis PC1.1] gi|255962148|gb|EET94624.1| pseudouridine synthase [Enterococcus faecalis T1] gi|255966614|gb|EET97236.1| pseudouridine synthase [Enterococcus faecalis T2] gi|256682692|gb|EEU22387.1| pseudouridine synthase [Enterococcus faecalis T3] gi|256947961|gb|EEU64593.1| pseudouridine synthase [Enterococcus faecalis DS5] gi|256950298|gb|EEU66930.1| pseudouridine synthase [Enterococcus faecalis Merz96] gi|256955042|gb|EEU71674.1| pseudouridine synthase [Enterococcus faecalis HIP11704] gi|256985574|gb|EEU72876.1| pseudouridine synthase [Enterococcus faecalis JH1] gi|257160113|gb|EEU90073.1| pseudouridine synthase [Enterococcus faecalis T11] gi|294452453|gb|EFG20890.1| pseudouridylate synthase [Enterococcus faecalis PC1.1] gi|295114108|emb|CBL32745.1| ribosomal small subunit pseudouridine synthase A [Enterococcus sp. 7L76] Length = 244 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 76/244 (31%), Positives = 123/244 (50%), Gaps = 18/244 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L ++ Sbjct: 2 RLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEIL-TYQKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ HKP G+++ D TV D L R + VGRLD +TEGLLLLTNDG LA Sbjct: 61 FYYMLHKPQGVISATEDQRD-ETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------VTLDTQKG 184 L P + Y G V + L +G ++ G+M T++ ++G Sbjct: 120 HQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKD---GEMVKPSRLVIETINEEEG 176 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 ++ V + ++EGK ++K++ V L R+ G L TL G R +++ L + Sbjct: 177 TSV-VRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRPLTEAEL-Q 234 Query: 244 QLGP 247 QL P Sbjct: 235 QLQP 238 >gi|194365006|ref|YP_002027616.1| pseudouridine synthase [Stenotrophomonas maltophilia R551-3] gi|194347810|gb|ACF50933.1| pseudouridine synthase [Stenotrophomonas maltophilia R551-3] Length = 240 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 71/242 (29%), Positives = 122/242 (50%), Gaps = 14/242 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----KA 70 R++K IA G SRRE +R+IA +RV VNG AV V D + VDG PLR + Sbjct: 4 RLNKHIADTGFCSRREADRLIAARRVTVNGHPAGTGAV-VGEEDQVLVDGQPLRARVARK 62 Query: 71 ERTRLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 TR +Y +KP+G VT ++ + + D + R+ +GRLD +EGL+L+T++ Sbjct: 63 PGTRRHVYIALNKPVG-VTCTTETSVKGNIVDFVGH-EQRIFPIGRLDKESEGLILMTSN 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y V + V + L + +G+ I + M + T + + Sbjct: 121 GDIVNQILRAENGHQKEYLVAVNKPVTDEFLRGMARGVRI----HDQMTLPCKTSRIAKF 176 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L++G NR+I+ + F ++V +L R+ ++G L G R ++++ L+ L Sbjct: 177 GFRITLQQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKIGALKPGQWRNLTEQELQGLLPK 236 Query: 248 HL 249 L Sbjct: 237 QL 238 >gi|77362345|ref|YP_341919.1| putative ribosomal RNA pseudouridine synthase [Pseudoalteromonas haloplanktis TAC125] gi|76877256|emb|CAI89473.1| putative ribosomal RNA pseudouridine synthase [Pseudoalteromonas haloplanktis TAC125] Length = 327 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 90/338 (26%), Positives = 149/338 (44%), Gaps = 46/338 (13%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE ++ I RV VNGI E V V STD + VDG L+ + Sbjct: 5 KRLNKFISDTGFCSRREADKYIEDGRVTVNGIRPE-MGVKVSSTDVVLVDGKTLKAIPKR 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 Y+KP+G+ T ++ +S + N P R+ +GRLD +EGL+ LTN+G + Sbjct: 64 VYIAYNKPVGITCT-TERKIQSNIVKAVNYP---DRIFPIGRLDRPSEGLIFLTNEGDIV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V +++ + + G+ I +V TQ G+ + T+ Sbjct: 120 NKILRAGNNHEKEYVVTVDKPLNRQFVAKMGNGVPILDTITKKCKV---TQTGAQQF-TI 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E+ ++V L R+ L L G R HL E Sbjct: 176 ILTQGLNRQIRRMCEYLGYEVVTLKRVRIMNVTLKGLKVGQWR-------------HLTE 222 Query: 252 EAQVNLDAPIYSS----ETLVRDRPNII-SEVPDDFTRMKKNSSQKNGLS---------- 296 + ++ I S E V D N + + P + +K S +K Sbjct: 223 QEMAIINNSISDSGKTQEHSVYDEANALQQQSPQAVAKPQKTSDKKRDFQGENPKRFNQG 282 Query: 297 ------KQKKLATPVHRRNLASNVWMAKGIHSSFLSDS 328 K+++ TP +R+ + V K I ++ SDS Sbjct: 283 ERTEERKKERSKTPYQKRS-TTYVGKPKSIKANKSSDS 319 >gi|297529009|ref|YP_003670284.1| pseudouridine synthase [Geobacillus sp. C56-T3] gi|297252261|gb|ADI25707.1| pseudouridine synthase [Geobacillus sp. C56-T3] Length = 248 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 73/228 (32%), Positives = 111/228 (48%), Gaps = 8/228 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VKV+G + A V + I V G + Sbjct: 4 RIDKLLAHMGYGTRKEVKKLLKSGAVKVDGAPVRDAKTKVRPDEQIVTVWGETVEYKPFI 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGGL 130 L + +KP G+V+ D TV D L FS VGRLD +TEGLLLLTNDG L Sbjct: 64 YLMM-NKPSGVVSATEDA-VEETVVDFLEEEDRAFSP-FPVGRLDKDTEGLLLLTNDGQL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y G+V + + ++G+V+ + + G + V Sbjct: 121 AHQLLSPKKHVPKTYFAVVDGEVTEADVAAFQRGVVLDDGYETKPAKLVVLKSGLRSDVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 V + EGK ++K++F+ +V L RI GP L LA G RE++ Sbjct: 181 VTITEGKFHQVKRMFQAVGKRVVYLKRIQMGPLALDPDLAVGEYRELT 228 >gi|82701397|ref|YP_410963.1| pseudouridine synthase, Rsu [Nitrosospira multiformis ATCC 25196] gi|82409462|gb|ABB73571.1| ribosomal large subunit pseudouridine synthase F [Nitrosospira multiformis ATCC 25196] Length = 243 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 113/235 (48%), Gaps = 19/235 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK++++ G+ SRRE + I + V V+G + + + V T I++ + + Sbjct: 5 RLSKLMSQKGLCSRREADDYIERGWVFVDGERISQLGIKVFPTQEIKLARMAQAQQCDQI 64 Query: 75 LWLYHKPIGLVTTHSDPD--------GRSTVFDN--LPSIFS-----RVISVGRLDINTE 119 L HKP+G V+ + R + F + S FS + GRLDI++ Sbjct: 65 TVLLHKPVGYVSGQPERGYKPAISLINRESEFQDSKASSSFSPLNLKGMAPAGRLDIDSS 124 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+ T DG +AR L ++ + Y VR G+V Q LNLL G+ + G V + Sbjct: 125 GLLVFTQDGRIARKLIGAESEIEKEYLVRAEGEVSQRTLNLLSHGLSLDGQAL-KRAVVV 183 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 K ++ L+EG+ R+I+++ E KV L R+ G +LG L G R Sbjct: 184 QQNKDQLRFI---LKEGRKRQIRRMCELVGLKVTGLKRVRIGKVRLGELPLGKWR 235 >gi|323491918|ref|ZP_08097088.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio brasiliensis LMG 20546] gi|323313839|gb|EGA66933.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio brasiliensis LMG 20546] Length = 342 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 62/209 (29%), Positives = 101/209 (48%), Gaps = 10/209 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +R+I Q RV +NG + E V S D + VD P+ A Sbjct: 5 TGKRLNKFISETGFCSRREADRLIEQGRVTINGKIPE-MGTKVQSGDDVRVDDKPIAAAS 63 Query: 72 RTRLWL-YHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +++ +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG Sbjct: 64 DKPIYIALNKPTGITCTTERDIPGNIVDFVGHKK---RIFPIGRLDKPSDGLIFLTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y VR + D + + G+ I +V +T+ + Sbjct: 121 IVNKILRAGNNHEKEYVVRVDKPISDDFIKKMSSGVNILDTVTLPCKVEKETKYSFRIVL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRI 218 T GL NR+I+++ E ++V +L R+ Sbjct: 181 TQGL----NRQIRRMCEALGYEVFKLRRV 205 >gi|229163541|ref|ZP_04291491.1| RNA pseudouridine synthase [Bacillus cereus R309803] gi|228619923|gb|EEK76799.1| RNA pseudouridine synthase [Bacillus cereus R309803] Length = 229 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 117/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDVVTIDGQIIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDG +A Sbjct: 61 VYIAFHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + + I+ QVT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSGVVKIKDGMTKQCQVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELDNLEVGKWRNVTSEELEILIG 227 >gi|196042136|ref|ZP_03109420.1| RNA pseudouridine synthase family protein [Bacillus cereus NVH0597-99] gi|196027072|gb|EDX65695.1| RNA pseudouridine synthase family protein [Bacillus cereus NVH0597-99] Length = 229 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 117/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE + +I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEANSCSRRETDHLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+ LTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLIFLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT Q + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVTRVDQ----STFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|218296286|ref|ZP_03497042.1| pseudouridine synthase [Thermus aquaticus Y51MC23] gi|218243358|gb|EED09888.1| pseudouridine synthase [Thermus aquaticus Y51MC23] Length = 245 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 68/226 (30%), Positives = 112/226 (49%), Gaps = 6/226 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++AR G+ SR+EV R+I +V+V G ++ +V +EV+G PL R Sbjct: 13 ERLDKLLARLGLGSRKEVGRLIRSGKVRVGGGVVLDPGFHVPEGAALEVEGRPL-AVRRH 71 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L HKP G VT+ + + + P+ + VGRLD +TEGLLL T DG L Sbjct: 72 LHLLLHKPAGYVTSRKEGPSVYALLEGFPT--RDLSPVGRLDKDTEGLLLFTTDGELLHR 129 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + + Y V + ++GI++ G ++ L WV + L Sbjct: 130 LTHPRHKVEKRYLVHLLHPATAADVRAFQEGILLSGEKTLPARLHLGE---DPTWVELTL 186 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 EG+ ++K++F+ +V L R++ GP L L G+ R ++ + Sbjct: 187 LEGRFHQVKRMFQARGNQVLYLKRLALGPLTLEDLPLGAARPLTPE 232 >gi|58581175|ref|YP_200191.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae KACC10331] gi|188575692|ref|YP_001912621.1| ribosomal large subunit pseudouridine synthase F [Xanthomonas oryzae pv. oryzae PXO99A] gi|58425769|gb|AAW74806.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae KACC10331] gi|188520144|gb|ACD58089.1| ribosomal large subunit pseudouridine synthase F [Xanthomonas oryzae pv. oryzae PXO99A] Length = 240 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 114/236 (48%), Gaps = 16/236 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA G SRR+ +R+I ++RV VNG+ AV V D + VDG PLR E + Sbjct: 4 RLNKYIAETGFCSRRQADRLIGERRVTVNGVPAGTGAV-VGEEDTVLVDGQPLRVREAKK 62 Query: 75 LW-------LYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L +KP+G+ TT S G F R+ +GRLD +EGL+L+T+ Sbjct: 63 LGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHE---QRIFPIGRLDKESEGLILMTS 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + + + Y V + V + L + +G+ I + + + T + + Sbjct: 120 NGNIVNEILRAENRHKKEYLVAVNKPVTDEFLRGMARGVRI----HNETTLPCHTARIAK 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR Sbjct: 176 FGFRIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELR 231 >gi|313622662|gb|EFR93029.1| RNA pseudouridine synthase family protein [Listeria innocua FSL J1-023] Length = 233 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 66/215 (30%), Positives = 101/215 (46%), Gaps = 10/215 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+++ G SR+EV+ ++ V VNG + + + V D + V G P+ E Sbjct: 2 RLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPEKDQVTVHGTPVVYQEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG LA Sbjct: 62 YFML-HKPQNVVSATED-NVSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y + G V + + G+ + G + + T + Sbjct: 120 HNLLSPKKHIDKTYYAKIDGDVTAEDVEAFSAGVTLDDGYTCKPAHLEIITPN----EIK 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V ++EGK +IK++F V+ L RIS G QL Sbjct: 176 VTIQEGKFHQIKRMFAARGKTVSYLKRISMGNLQL 210 >gi|307706267|ref|ZP_07643081.1| conserved hypothetical protein [Streptococcus mitis SK321] gi|307618358|gb|EFN97511.1| conserved hypothetical protein [Streptococcus mitis SK321] Length = 241 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 124/239 (51%), Gaps = 20/239 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-------MSTDHIEVDGVPL 67 R+ ++A+ + SR+ +++ + + + V+G A N+ + D I + Sbjct: 2 RLDNLLAQEKV-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDQI------I 54 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLT 125 + E T L L HKP G+VT + D + TV D LP ++ ++GRLD +T GLLLLT Sbjct: 55 QGYEHTYLML-HKPAGVVTANKDKE-LPTVMDLLPPDIQSDKLYALGRLDRDTTGLLLLT 112 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKG 184 ++G L L P + Y+V+ +G + D + + +KGIV + G ++ + Sbjct: 113 DNGPLGFQLLHPQYHVDKTYQVQVNGLLTPDHIQVFQKGIVFLDGTVCKPARLKILAASP 172 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 S++ ++ + EGK ++KK+F KV L RI +G F L LA G+ R +++K L+ Sbjct: 173 SHSQASITISEGKFHQVKKMFLSVGVKVTSLKRIQFGDFTLKPDLAEGNYRPLNQKELQ 231 >gi|295111666|emb|CBL28416.1| pseudouridine synthase family [Synergistetes bacterium SGP1] Length = 244 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 70/226 (30%), Positives = 108/226 (47%), Gaps = 5/226 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R++ +A G+ASRR E +I RV+V ++ V D + DG L+ E Sbjct: 7 RLNAFLAACGVASRRRAEEVIRAGRVRVGDRIVLAPFFQVDPEVDEVTCDGRTLKATEPV 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 + + +KP G+V SD V D LP RV GRLD +EGLL+LTNDG L Sbjct: 67 YV-VMNKPGGVVCAVSDKYD-PVVVDLLPEAVKSRRVYPAGRLDRESEGLLILTNDGALT 124 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + PS + Y + +++ +L + G I+G + VTL ++ WV+V Sbjct: 125 QEVMHPSKGLHKEYEALLNVPINERQLARWRGGFEIEGRRAVPISVTLMDREPEGRWVSV 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG RE++ + + V RL+R G L L G ++S Sbjct: 185 VIGEGLKREVRVMANLAGFSVERLVRRRLGKMVLEKLRPGEFVDLS 230 >gi|127511849|ref|YP_001093046.1| pseudouridine synthase [Shewanella loihica PV-4] gi|126637144|gb|ABO22787.1| pseudouridine synthase [Shewanella loihica PV-4] Length = 236 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 69/227 (30%), Positives = 111/227 (48%), Gaps = 6/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + I++ R++V ++A+ RV V+G ++ A + + +DG LR+ + Sbjct: 7 RLDRFISQHCQIPRKQVRLILAKGRVSVDGQVVRDADCQIDQFSQVMLDGQALRQEQPIY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 L L HKP+G+V+ D D TV D LP + + VGRLD+NT GLLLLTND ++ Sbjct: 67 LML-HKPVGVVSATKD-DEHKTVMDLLPDYQDKGLHIVGRLDLNTSGLLLLTNDSRWSKR 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y V + Q + +G L+ + A VT L Sbjct: 125 IMSPEHKVAKQYLVTLKAPLTQAYVKAFAEGFYFAFENITTQPAQLEILEPHLARVT--L 182 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EG+ +IK++F F +V L R+S G L TL G R ++ + Sbjct: 183 HEGRYHQIKRMFGRFRNQVMALHRLSVGNLILDETLAVGQYRPLTPQ 229 >gi|206969528|ref|ZP_03230482.1| RNA pseudouridine synthase family protein [Bacillus cereus AH1134] gi|229072053|ref|ZP_04205262.1| RNA pseudouridine synthase [Bacillus cereus F65185] gi|229081804|ref|ZP_04214296.1| RNA pseudouridine synthase [Bacillus cereus Rock4-2] gi|229180870|ref|ZP_04308205.1| RNA pseudouridine synthase [Bacillus cereus 172560W] gi|229192751|ref|ZP_04319709.1| RNA pseudouridine synthase [Bacillus cereus ATCC 10876] gi|206735216|gb|EDZ52384.1| RNA pseudouridine synthase family protein [Bacillus cereus AH1134] gi|228590590|gb|EEK48451.1| RNA pseudouridine synthase [Bacillus cereus ATCC 10876] gi|228602427|gb|EEK59913.1| RNA pseudouridine synthase [Bacillus cereus 172560W] gi|228701392|gb|EEL53886.1| RNA pseudouridine synthase [Bacillus cereus Rock4-2] gi|228710987|gb|EEL62953.1| RNA pseudouridine synthase [Bacillus cereus F65185] Length = 229 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 118/234 (50%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + + V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGEL-VSDGDVVTIDGQVIVKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 61 VYIAFHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 118 RILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|54309135|ref|YP_130155.1| putative pseudouridylate synthase [Photobacterium profundum SS9] gi|46913567|emb|CAG20353.1| Hypothetical pseudouridylate synthase [Photobacterium profundum SS9] Length = 240 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 64/214 (29%), Positives = 106/214 (49%), Gaps = 7/214 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T R+ + I++ S + +IAQ+R+ V+G + V ++E+DG L+ Sbjct: 31 TTNRLDRFISQNSTFSISDTRLLIAQKRILVDGHVAHSNQQKVTKFTYVELDGNCLQDNN 90 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP G+V+ D STV D + S + + VGRLD NT GL+LLTNDG Sbjct: 91 PVYIVL-NKPKGVVSATKDIK-HSTVLDLIQHSQKNELHIVGRLDFNTTGLVLLTNDGAW 148 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 +R + LP T+ +VY V + + + + ++GI Y D+ + + + Sbjct: 149 SRKISLPETKLAKVYEVTLSKPLSDEYITVFREGIYFG---YEDITTKPACLEILSEYTA 205 Query: 191 -VGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 + L EGK ++K++F FF K I +G F Sbjct: 206 RLSLVEGKYHQVKRMFGFFKTKCWNFIEFLWGIF 239 >gi|58337102|ref|YP_193687.1| 16s pseudouridylate synthase [Lactobacillus acidophilus NCFM] gi|227903674|ref|ZP_04021479.1| 16S pseudouridylate synthase [Lactobacillus acidophilus ATCC 4796] gi|58254419|gb|AAV42656.1| 16s pseudouridylate synthase [Lactobacillus acidophilus NCFM] gi|227868561|gb|EEJ75982.1| 16S pseudouridylate synthase [Lactobacillus acidophilus ATCC 4796] Length = 236 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 61/215 (28%), Positives = 105/215 (48%), Gaps = 5/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV ++I + V VNG ++ + D + V+G + ++ Sbjct: 2 RIDKYLANMNVGSRKEVHQLIKKGLVDVNGKTVKTPKEKINEDDVVTVNGEKV-AYQKYH 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D ++ + P + + VGRLD +T GLLLLTNDG L Sbjct: 61 YFLLNKPTGVLSATEDRSQKTVISLLKPEDRYQGIAPVGRLDKDTTGLLLLTNDGQLNHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAW--VT 190 L P+ +VYR + G D + + G+ + G ++ + Q NA + Sbjct: 121 LLAPNKHVAKVYRAQIAGVADDETVKTFASGMTLGDGTKLKPAKLRILKQDRENATSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK +IK++F KV L R++ G L Sbjct: 181 IEISEGKYHQIKRMFGAVGMKVMALDRLAMGKLCL 215 >gi|225858508|ref|YP_002740018.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae 70585] gi|225721992|gb|ACO17846.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae 70585] Length = 241 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 64/176 (36%), Positives = 96/176 (54%), Gaps = 6/176 (3%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDG 128 E T L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G Sbjct: 58 EHTYLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNG 115 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNA 187 L L P + Y+V+ +G + D + +KGIV + G ++ + + S + Sbjct: 116 PLGFQLLHPQYHVDKTYQVQVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSLS 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST-REVSKKILR 242 ++ + EGK +IKK+F KV L RI +G F L LA S R +++K L+ Sbjct: 176 QASITISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAESNYRPLNQKELQ 231 >gi|55821481|ref|YP_139923.1| ribosomal small subunit pseudouridine synthase A [Streptococcus thermophilus LMG 18311] gi|55737466|gb|AAV61108.1| ribosomal small subunit pseudouridine synthase A [Streptococcus thermophilus LMG 18311] gi|312278820|gb|ADQ63477.1| Pseudouridine synthase [Streptococcus thermophilus ND03] Length = 243 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 62/216 (28%), Positives = 107/216 (49%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ SR +V+ + +++V VNG + + D I G L E Sbjct: 2 RLDKFLVDCGVGSRSQVKTFLKKKQVTVNGQVETSPKTQIDEDKDQIAYLGQELTH-ETF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D + TV D L +V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDSRHK-TVLDLLDETARHKQVFPVGRLDIDTHGLLLLTNNGDLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICY-GDMQVTLDTQKGSNAWV 189 + P ++Y+ + G +D++ + +KGI ++ C +++ + S + V Sbjct: 120 HAMLSPKKHVDKIYQAKVAGIMDEEDILAFEKGIKLKDHTCQPAKLEIVSVDRNASTSLV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK ++K++ +V L R+ GP L Sbjct: 180 QITIAEGKFHQVKRMVAACGKEVADLQRLKMGPLSL 215 >gi|257086025|ref|ZP_05580386.1| pseudouridine synthase [Enterococcus faecalis D6] gi|256994055|gb|EEU81357.1| pseudouridine synthase [Enterococcus faecalis D6] Length = 244 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 76/244 (31%), Positives = 123/244 (50%), Gaps = 18/244 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L ++ Sbjct: 2 RLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEIL-TYQKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ HKP G+++ D TV D L R + VGRLD +TEGLLLLTNDG LA Sbjct: 61 FYYMLHKPQGVISATEDQRD-ETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------VTLDTQKG 184 L P + Y G V + L +G ++ G+M T++ ++G Sbjct: 120 HQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKD---GEMVKPSRLVIETINEEEG 176 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 ++ V + ++EGK ++K++ V L R+ G L TL G R +++ L + Sbjct: 177 TSV-VRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGGYRPLTEAEL-Q 234 Query: 244 QLGP 247 QL P Sbjct: 235 QLQP 238 >gi|15900581|ref|NP_345185.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae TIGR4] gi|111658681|ref|ZP_01409324.1| hypothetical protein SpneT_02000187 [Streptococcus pneumoniae TIGR4] gi|14972155|gb|AAK74825.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae TIGR4] Length = 241 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 75/235 (31%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ I SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKI-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGAVTANKDKE-LPTVMDLLPSNIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICY-GDMQVTLDTQKGSNAW 188 L P + Y+V +G + D + +KGIV +C +++ + S A Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQTFQKGIVFLDDTVCKPAKLEILSASPSLSQAS 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 +T+ EGK +IKK+F KV L RI +G F L LA G+ R +++K L+ Sbjct: 179 ITIS--EGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >gi|313890704|ref|ZP_07824329.1| putative 16S pseudouridylate 516 synthase [Streptococcus pseudoporcinus SPIN 20026] gi|313120805|gb|EFR43919.1| putative 16S pseudouridylate 516 synthase [Streptococcus pseudoporcinus SPIN 20026] Length = 238 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 75/240 (31%), Positives = 124/240 (51%), Gaps = 13/240 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ I SR +V+++I +R+ ++ + NV I VDG L +A+ Sbjct: 2 RLDKLLETCQIGSRGQVKKLINAKRITIDDKVAIDGRQNVDPGLQRIGVDGNIL-QAKGH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ D + TV D L F + VGRLD +TEGL+LLT++G L Sbjct: 61 HYFILNKPRGVVSALKDKE-HPTVIDCLIEADRFPNLYPVGRLDRDTEGLVLLTDNGPLG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGIC-YGDMQVTLDTQKGSNAW 188 + P+ + Y V +G +D D + + G+V +C +++ +K S A Sbjct: 120 FRMLHPNHHVDKSYYVVVNGFLDDDLPSFFRAGVVFFDGTVCKAAAVEILSAGEKQSVAK 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS---KKILREQL 245 VT L EGK +IKK+F + KV L R+++ F LG L G R ++ K I+++ L Sbjct: 180 VT--LSEGKFHQIKKMFLAYGVKVIYLKRMTFAEFTLGNLAEGEYRTLTDQEKTIVKQYL 237 >gi|82541066|ref|XP_724803.1| hypothetical protein [Plasmodium yoelii yoelii str. 17XNL] gi|23479575|gb|EAA16368.1| 1st euk. member [Plasmodium yoelii yoelii] Length = 318 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 66/259 (25%), Positives = 117/259 (45%), Gaps = 34/259 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLR----- 68 R++K I+ SRR+ ++ I +K+N + +V ++ D I+V+ + Sbjct: 47 RLNKFISINNNISRRKSDKFIQNGNIKINNKTIINPGTHVDITKDQIKVNDKKINIQNIK 106 Query: 69 -------KAERTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDIN 117 + W+ HKP GL+ T+ D R +VF P R++SVGRLD N Sbjct: 107 NILNNYNINNNSYKWIVLHKPKGLICTNQDEKDRKSVFSIFPEDLLQKYRIVSVGRLDRN 166 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI------- 170 T G+LL TN+ L P + +R Y + G V D L +L G+ ++ Sbjct: 167 TSGILLFTNEYAWVNKLTHPKYERVRKYMIHIEGPVRMDALKMLANGVYLKDEDNDKKKN 226 Query: 171 ---------CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + V + Q + + + ++EG+NR+I+K+F+ N + ++ R ++ Sbjct: 227 KKTQPALIEVLREENVKIQNQIKKISVLNISIKEGRNRQIRKMFQQINQPIIKIKRTAFE 286 Query: 222 PFQLGTL-LAGSTREVSKK 239 L + L RE++KK Sbjct: 287 NITLKNIHLPKQYRELTKK 305 >gi|291087689|ref|ZP_06572058.1| ribosomal small subunit pseudouridine synthase A [Clostridium sp. M62/1] gi|291074338|gb|EFE11702.1| ribosomal small subunit pseudouridine synthase A [Clostridium sp. M62/1] Length = 477 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 68/240 (28%), Positives = 117/240 (48%), Gaps = 18/240 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ + + SR EV++MI RV V+G + A + S + +DG + A Sbjct: 11 RLDRYLVEMKKGSRSEVKKMIKSGRVSVDGEICREAERKIQPSASEVSLDGTQVGYAA-Y 69 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ D GR +L R + VGRLDI+TEGLLL+TNDG LA Sbjct: 70 EYFMLNKPAGVVSATED--GRHKTVVSLIEDAKRRDLFPVGRLDIDTEGLLLITNDGKLA 127 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---------ICYGDMQVTLDTQ 182 L P + Y R G++ ++ + K+G+ ++ + + D Sbjct: 128 HRLLSPKKHVDKTYFARVEGRLPENAIEQFKEGLTLEDGTRTLPARLVIQKASETAEDDG 187 Query: 183 KGSNAW--VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 K ++ + + + EGK ++K++FE +V L R+S G +L LA G+ R ++++ Sbjct: 188 KADSSLSEIELTIHEGKFHQVKRMFEAVGCRVVYLKRLSMGSLRLDESLAPGAYRRLTEE 247 >gi|168492837|ref|ZP_02716980.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CDC3059-06] gi|183576842|gb|EDT97370.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CDC3059-06] Length = 241 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 69/222 (31%), Positives = 114/222 (51%), Gaps = 7/222 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ + SR+ +++ + + ++ V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKV-SRKAMKQALLRGKILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSISQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + EGK +IKK+F KV L RI +G F L LA S Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTILKRIQFGDFTLNPDLAES 220 >gi|284802783|ref|YP_003414648.1| hypothetical protein LM5578_2540 [Listeria monocytogenes 08-5578] gi|284995925|ref|YP_003417693.1| hypothetical protein LM5923_2490 [Listeria monocytogenes 08-5923] gi|284058345|gb|ADB69286.1| hypothetical protein LM5578_2540 [Listeria monocytogenes 08-5578] gi|284061392|gb|ADB72331.1| hypothetical protein LM5923_2490 [Listeria monocytogenes 08-5923] Length = 233 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 68/214 (31%), Positives = 102/214 (47%), Gaps = 8/214 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+++ G SR+EV+ ++ V VNG + + + V D I V G P+ E Sbjct: 2 RLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQITVHGTPVVYQEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP +V+ D + TV D L + + VGRLD +TEGLL++TNDG LA Sbjct: 62 YFML-HKPQNVVSATED-NVSETVIDLLAQEDTLTDLFPVGRLDKDTEGLLIITNDGTLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + GI + Y +L+ + VT+ Sbjct: 120 HNLLSPKKHIDKTYYAKIDGDVTAADVEAFAAGIELDD-GYTCKPASLEIITPNEINVTI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +EGK ++K++F V+ L RIS G QL Sbjct: 179 --QEGKFHQVKRMFAARGKTVSYLKRISMGNLQL 210 >gi|195977793|ref|YP_002123037.1| ribosomal small subunit pseudouridine synthase A RsuA [Streptococcus equi subsp. zooepidemicus MGCS10565] gi|225868904|ref|YP_002744852.1| ribosomal small subunit pseudouridine synthase A [Streptococcus equi subsp. zooepidemicus] gi|225870089|ref|YP_002746036.1| ribosomal small subunit pseudouridine synthase A [Streptococcus equi subsp. equi 4047] gi|195974498|gb|ACG62024.1| ribosomal small subunit pseudouridine synthase A RsuA [Streptococcus equi subsp. zooepidemicus MGCS10565] gi|225699493|emb|CAW93033.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus equi subsp. equi 4047] gi|225702180|emb|CAW99890.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus equi subsp. zooepidemicus] Length = 238 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 75/243 (30%), Positives = 122/243 (50%), Gaps = 19/243 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH----IEVDGVPLRKA 70 R+ K++ G SR +V+++I + V ++G + A S D I V+G + KA Sbjct: 2 RLDKLLEVTGFGSRNQVKQLIKGRSVLIDG---QPARAGCQSVDSGLQVIMVNGRQI-KA 57 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDG 128 R +L HKP G+V+ SD TV D + + + +GRLD +T GL+LLT++G Sbjct: 58 FAHRYYLLHKPAGVVSACSDRK-HQTVIDLIRKEDRVANLYPIGRLDRDTTGLVLLTDNG 116 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGI-C-YGDMQVTLDTQKGS 185 L + P + Y V +G + D + + G+ + G C +++ Q S Sbjct: 117 PLGFRMLHPKHHVNKTYLVTVNGSLAADAVPFFENGVTFLDGTRCKSAALRIIKADQMES 176 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS---KKILR 242 A VT L EGK +IKK+F + KV +L RI + LG L G+ R+++ KK+++ Sbjct: 177 QAEVT--LSEGKYHQIKKMFLSYGLKVTQLKRIGFAEIALGDLAEGAYRQLTVKEKKLIK 234 Query: 243 EQL 245 L Sbjct: 235 TYL 237 >gi|313636574|gb|EFS02285.1| ribosomal small subunit pseudouridine synthase A [Listeria seeligeri FSL S4-171] Length = 233 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 67/214 (31%), Positives = 101/214 (47%), Gaps = 8/214 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+++ G SRREV+ ++ V VNG++ + + + V D I V G P+ E Sbjct: 2 RLDKLLSHTGFGSRREVKPLLKSGSVVVNGVIQKDSKLQVNPEKDQITVHGNPVIYQEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG LA Sbjct: 62 YFML-HKPQNVVSATED-NLSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + + GI + Y L+ + VT+ Sbjct: 120 HNLLSPKKHIDKTYYAKIEGDVTATDVEAFRTGITLDD-GYTCKPAHLEIMAPNEIRVTI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +EGK ++K++F V L R+S G L Sbjct: 179 --QEGKFHQVKRMFAATGKTVTYLKRLSMGKLML 210 >gi|238762227|ref|ZP_04623199.1| Ribosomal large subunit pseudouridine synthase E [Yersinia kristensenii ATCC 33638] gi|238699574|gb|EEP92319.1| Ribosomal large subunit pseudouridine synthase E [Yersinia kristensenii ATCC 33638] Length = 208 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 56/179 (31%), Positives = 95/179 (53%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GRST+ + +P FS V + GRLD ++EGLL+LTNDG L Sbjct: 30 RVLLFNKPFDVLPQFTDESGRSTLKEFIP--FSDVYAAGRLDRDSEGLLVLTNDGKLQAR 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVT------------ 178 L P+ + +VY V+ G D L+ L+ G+ ++ + G V+ Sbjct: 88 LTQPAQKTGKVYFVQVEGVPGDDTLSQLRTGMTLKDGPTLPAGAELVSEPEWLWPRNPPI 147 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR S G LG L G +E++ Sbjct: 148 RERKTIPTSWLKITLFEGRNRQVRRMTAHVGFPTLRLIRFSMGNLSLGDLQPGEWKEIN 206 >gi|148549856|ref|YP_001269958.1| pseudouridine synthase [Pseudomonas putida F1] gi|148513914|gb|ABQ80774.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas putida F1] Length = 210 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 55/183 (30%), Positives = 94/183 (51%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL L++KP ++T SD +GR+T+ F ++P ++ GRLD ++EGLLLLTNDGGL Sbjct: 32 RLILFNKPFDVLTQFSDGEGRATLKDFIDIPGVYP----AGRLDRDSEGLLLLTNDGGLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ ++L L+ G+ + G L+ Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPSDEQLQRLRDGVALNDGPTLPAEARRLEEPELWPRNPP 147 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + +REG+NR+++++ RL+R+ G + L L G REV Sbjct: 148 VRFRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWALDGLGQGCWREVP 207 Query: 238 KKI 240 K+ Sbjct: 208 AKL 210 >gi|227877298|ref|ZP_03995371.1| pseudouridylate synthase [Lactobacillus crispatus JV-V01] gi|256842860|ref|ZP_05548348.1| 16S pseudouridylate synthase [Lactobacillus crispatus 125-2-CHN] gi|256848766|ref|ZP_05554200.1| 16S pseudouridylate synthase [Lactobacillus crispatus MV-1A-US] gi|262045826|ref|ZP_06018790.1| 16S pseudouridylate synthase [Lactobacillus crispatus MV-3A-US] gi|293381695|ref|ZP_06627676.1| pseudouridine synthase [Lactobacillus crispatus 214-1] gi|312977621|ref|ZP_07789368.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus crispatus CTV-05] gi|227863154|gb|EEJ70600.1| pseudouridylate synthase [Lactobacillus crispatus JV-V01] gi|256614280|gb|EEU19481.1| 16S pseudouridylate synthase [Lactobacillus crispatus 125-2-CHN] gi|256714305|gb|EEU29292.1| 16S pseudouridylate synthase [Lactobacillus crispatus MV-1A-US] gi|260573785|gb|EEX30341.1| 16S pseudouridylate synthase [Lactobacillus crispatus MV-3A-US] gi|290921742|gb|EFD98763.1| pseudouridine synthase [Lactobacillus crispatus 214-1] gi|310895360|gb|EFQ44427.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus crispatus CTV-05] Length = 234 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 58/215 (26%), Positives = 105/215 (48%), Gaps = 5/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR+EV ++I + V VN ++++ V +D + V+G + ++ Sbjct: 2 RIDKYLANMNVGSRKEVHQLIKKGIVAVNDVIVKTPKQQVKESDQVTVNGDAV-AYQKYH 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D + + + P + ++ VGRLD +T GLLLLTNDG L Sbjct: 61 YFLLNKPKGVLSATEDRNQPTVISLLAPQDRYQGIVPVGRLDKDTTGLLLLTNDGQLNHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWVT 190 L P +VYR G + + G+ + + ++++ ++ + Sbjct: 121 LLAPGKHVDKVYRAEIAGVANDATVKTFASGMTLGDGTKLQPAELKILSQDEEHDRSTTE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK +IK++F KV L RIS G L Sbjct: 181 IKICEGKYHQIKRMFGAVGMKVVELERISMGKLSL 215 >gi|262402501|ref|ZP_06079062.1| ribosomal large subunit pseudouridine synthase E [Vibrio sp. RC586] gi|262351283|gb|EEZ00416.1| ribosomal large subunit pseudouridine synthase E [Vibrio sp. RC586] Length = 241 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 52/175 (29%), Positives = 88/175 (50%), Gaps = 16/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LTNDG L L Sbjct: 68 LFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILTNDGILQARLTQ 125 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P ++ + Y V+ G + L L+ G+ ++ +V + ++ Sbjct: 126 PQSKAPKTYWVQVEGVPQESDLEALRHGVTLKDGPTLPAKVKIMSEPELWPRNPPVRFRA 185 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ + L EG+NR+++++ + RLIR S G + LG L G RE++ Sbjct: 186 AIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRHSMGDWNLGDLQPGEWREMT 240 >gi|145590213|ref|YP_001156810.1| pseudouridine synthase [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] gi|145048619|gb|ABP35246.1| ribosomal large subunit pseudouridine synthase F [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] Length = 245 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 70/239 (29%), Positives = 116/239 (48%), Gaps = 22/239 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKAERT 73 RVSK+++ G+ SRRE + I Q V V+G ++ V IE+ G ++A R Sbjct: 6 RVSKLLSELGLCSRREADSYIEQGLVTVDGEVVNELGVRAYRHQKIELQSGAKAQQASRI 65 Query: 74 RLWLYHKPIGLVTTHSD-----PDGRSTVFDNL----------PSIFSRVIS-VGRLDIN 117 + L +KP+G ++ D P DN P ++ ++ GRLDI+ Sbjct: 66 TVIL-NKPVGYISHFDDEQEYQPAASLITPDNYFASPLDKGRNPRFNTKGLAPAGRLDID 124 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + GLL+LT DG +A++L ++ + Y VR G++ + L+ L+ G+ + + QV Sbjct: 125 STGLLVLTQDGRIAKLLIGENSPIEKEYLVRVEGKLSFEDLDKLRHGLTLDDVVLKPAQV 184 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + + LREG+ R+I+++ E KV L R+ G LG L G R V Sbjct: 185 SWQNED----QLRFVLREGRKRQIRRMCEMVGLKVIGLKRVRIGRISLGPLPPGQWRFV 239 >gi|229112170|ref|ZP_04241712.1| Pseudouridine synthase [Bacillus cereus Rock1-15] gi|228671286|gb|EEL26588.1| Pseudouridine synthase [Bacillus cereus Rock1-15] Length = 233 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 69/220 (31%), Positives = 109/220 (49%), Gaps = 10/220 (4%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLWLYHKPI 82 G SR+EV++++ VK++G ++ A V+V + + + G + E L + HKP Sbjct: 2 GYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEFVYLMM-HKPQ 60 Query: 83 GLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPST 139 G+++ D D TV D L +IF VGRLDI+TEG LL+TNDG L+ L P Sbjct: 61 GVISATED-DNHETVIDLLELEDAIFDP-FPVGRLDIDTEGFLLITNDGKLSHQLLSPKK 118 Query: 140 QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTVGLREGKN 198 + Y G V ++ + KG+++ Y L K + + + + + EGK Sbjct: 119 HVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGALTILKSDDISEIELVITEGKF 177 Query: 199 REIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 ++K++FE KV L R GP L L G RE++ Sbjct: 178 HQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELT 217 >gi|190573465|ref|YP_001971310.1| putative pseudouridine synthase [Stenotrophomonas maltophilia K279a] gi|254521293|ref|ZP_05133348.1| ribosomal large subunit pseudouridine synthase F [Stenotrophomonas sp. SKA14] gi|190011387|emb|CAQ45002.1| putative pseudouridine synthase [Stenotrophomonas maltophilia K279a] gi|219718884|gb|EED37409.1| ribosomal large subunit pseudouridine synthase F [Stenotrophomonas sp. SKA14] Length = 240 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 70/242 (28%), Positives = 119/242 (49%), Gaps = 14/242 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK----- 69 R++K IA G SRRE +R+IA +RV VNG AV V D + VDG PLR Sbjct: 4 RLNKHIADTGFCSRREADRLIAARRVTVNGHPAGTGAV-VGEEDQVLVDGQPLRARVARK 62 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 A R +KP+G VT ++ + + D + R+ +GRLD +EGL+L+T++ Sbjct: 63 PGARRHVYIALNKPVG-VTCTTETSVKGNIVDFVGH-EQRIFPIGRLDKESEGLILMTSN 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y V + V + L + +G+ I + M + T + + Sbjct: 121 GDIVNQILRAENGHQKEYLVAVNKPVTDEFLRGMARGVRI----HDQMTLPCKTSRIAKF 176 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L++G NR+I+ + F ++V +L R+ ++G L G R ++++ L+ L Sbjct: 177 GFRITLQQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKIGALKPGQWRNLTEQELQGLLPK 236 Query: 248 HL 249 L Sbjct: 237 QL 238 >gi|227874423|ref|ZP_03992604.1| RluF protein [Oribacterium sinus F0268] gi|227839739|gb|EEJ50188.1| RluF protein [Oribacterium sinus F0268] Length = 240 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 123/243 (50%), Gaps = 23/243 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPL----R 68 R++K ++ GI SRRE +R I++ ++ VNG E+A++ ++ + I +DG + Sbjct: 2 RINKWLSAMGICSRREADRYISEGKLLVNG---EKASLGMEILGKEEILLDGKLISGKGH 58 Query: 69 KAERTR--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 K E+ + L Y+KP G++ T + D V + + R+ +GRLD ++EGLLLLTN Sbjct: 59 KKEKPKPVLLKYYKPRGIICTTGEKDRGKNVIEAI-GYKERIYPIGRLDKDSEGLLLLTN 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--------QGICYGDMQVT 178 G L + S + Y V V ++ L + G+ + + + + D ++ Sbjct: 118 QGDLVNQINKASGYKEKEYIVSVDKPVTKEFLQEMSSGVYLPELERTTRRAVLWQDPKLP 177 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + Q+ V L EG NR+I+++ E ++V RL RI +LG + G E+ + Sbjct: 178 KEIQRRQFHIV---LTEGLNRQIRRMCEALGYEVTRLKRIRVMNIELGKMKPGEYFEIKR 234 Query: 239 KIL 241 + L Sbjct: 235 EEL 237 >gi|295706927|ref|YP_003600002.1| RNA pseudouridylate synthase [Bacillus megaterium DSM 319] gi|294804586|gb|ADF41652.1| RNA pseudouridylate synthase [Bacillus megaterium DSM 319] Length = 238 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 67/215 (31%), Positives = 106/215 (49%), Gaps = 7/215 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ K+++ G SR+EV+ ++ VKV+G ++ A V+V + I V G + E Sbjct: 2 RLDKLLSTIGYGSRKEVKGLLKTGAVKVDGSAVKDAKVHVNPDEQEITVHGEAVSYREFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP G+++ D TV D L VGRLD +TEGLLLLTNDG LA Sbjct: 62 YFML-HKPQGVISATEDS-LHETVLDLLELDDAVYDPFPVGRLDKDTEGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y + + V ++ ++G+ + G ++ + T G + + Sbjct: 120 HQLLSPKKHVPKTYFAKINAPVTEEDAEAFRQGVTLDDGYVTKSAELKILTS-GVESEIE 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK ++K++FE KV L R+S G L Sbjct: 179 LTIVEGKFHQVKRMFEARGKKVTYLKRLSMGALLL 213 >gi|42783720|ref|NP_980967.1| RNA pseudouridylate synthase family protein [Bacillus cereus ATCC 10987] gi|42739650|gb|AAS43575.1| RNA pseudouridylate synthase family protein [Bacillus cereus ATCC 10987] Length = 229 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 116/234 (49%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG L K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAI-VNDGDVVTIDGQVLAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDG +A Sbjct: 61 VYIAFHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R ++ L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELDDLEVGKWRNITDGELEILIG 227 >gi|34497861|ref|NP_902076.1| pseudouridylate synthase [Chromobacterium violaceum ATCC 12472] gi|34103717|gb|AAQ60078.1| probable pseudouridylate synthase [Chromobacterium violaceum ATCC 12472] Length = 242 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 77/244 (31%), Positives = 116/244 (47%), Gaps = 30/244 (12%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR 68 P R+SK +A G+ SRRE + I Q VKV+G E A + V+ + IE+D + Sbjct: 1 MEPVRLSKRMAELGLCSRREADSYIEQGWVKVDG---EVAVLGQKVLPHNQIEIDK-KAQ 56 Query: 69 KAERTRL-WLYHKPIGLVTTHSD-----------------PDGRSTVFDNLPSIFSRVIS 110 A+ R+ L +KP+G V+ ++ DG F PS + Sbjct: 57 DAQSARVTILLNKPVGYVSGQAEDGYLPAAALIKPENRWAEDGSRKRFQ--PSHLRGLAP 114 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++ L LL G+ + G Sbjct: 115 AGRLDIDSVGLLVLTQDGRIAKQLIGEHSEVEKEYLVRVEGELTPSGLALLNHGLELDGK 174 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +V + + LREGK R+I+++ E +V L RIS G +LG L Sbjct: 175 KLLPAKVGWQNED----QLRFVLREGKKRQIRRMCELVGLRVVGLKRISIGKVKLGNLPT 230 Query: 231 GSTR 234 G R Sbjct: 231 GQWR 234 >gi|238021066|ref|ZP_04601492.1| hypothetical protein GCWU000324_00963 [Kingella oralis ATCC 51147] gi|237868046|gb|EEP69052.1| hypothetical protein GCWU000324_00963 [Kingella oralis ATCC 51147] Length = 243 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 74/240 (30%), Positives = 111/240 (46%), Gaps = 26/240 (10%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRK 69 P R+SK +A GI SRRE + I + V+VNGI AV V D I+++ + Sbjct: 4 PVRLSKRMAELGICSRREADSYIEKGWVRVNGI----PAVLGQKVSPADRIDLNKQAHEQ 59 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTV---------------FDNLPSIFSRVISVGRL 114 L +KP+G V+ + D R+ V PS + GRL Sbjct: 60 QANRVTILLNKPVGFVSGQPEKDYRAAVELITAENQWEGDTSRIAFHPSHTRNLAPAGRL 119 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +A+ L + + Y VR G + ++ L LL G+ + G Sbjct: 120 DIDSVGLLVLTQDGRIAKQLIGDNGNSEKEYLVRVKGSLKENGLALLNHGLSLDGEKLRP 179 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 QV+ Q + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 180 AQVSWQNQD----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRVGRIKLGALPQGKWR 235 >gi|323490333|ref|ZP_08095548.1| ribosomal large subunit pseudouridine synthase F [Planococcus donghaensis MPA1U2] gi|323396003|gb|EGA88834.1| ribosomal large subunit pseudouridine synthase F [Planococcus donghaensis MPA1U2] Length = 235 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 66/232 (28%), Positives = 118/232 (50%), Gaps = 24/232 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ GI SRR ++ I RV +NG L E + + S+D ++VDG + + + Sbjct: 2 RINKFLSETGITSRRGADKFIEAGRVTINGNLAELGS-KIESSDEVKVDGKVIEQPNQQY 60 Query: 75 LWL-YHKPIGLV-TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++L +KP+G+ TT +G F N R+ +GRLD ++EGL+LLTNDG + Sbjct: 61 VYLALNKPVGITSTTERHIEGNIVDFVNHAE---RIFHIGRLDKDSEGLILLTNDGDIVN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-------QKGS 185 + + + Y V+ + + L+ +++G+ I LDT +K S Sbjct: 118 EILRVENEHEKEYVVKVDMPITESFLSKMEEGVEI-----------LDTKTLPAKAEKLS 166 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + LR+G NR+I+++ ++V L R+ LG L G R+++ Sbjct: 167 SYTFKLTLRQGLNRQIRRMCTALGYEVRSLKRVRIINIFLGDLPVGEWRDLT 218 >gi|296387506|ref|ZP_06876981.1| putative pseudouridine synthase [Pseudomonas aeruginosa PAb1] gi|313109406|ref|ZP_07795366.1| putative pseudouridylate synthase [Pseudomonas aeruginosa 39016] gi|310881868|gb|EFQ40462.1| putative pseudouridylate synthase [Pseudomonas aeruginosa 39016] Length = 189 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 56/181 (30%), Positives = 92/181 (50%), Gaps = 16/181 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L L++KP ++T +D GRST+ D +P V GRLD ++EGLLLLTNDG L Sbjct: 10 KLLLFNKPFDVLTQFNDEQGRSTLKDFIP--VPGVYPAGRLDRDSEGLLLLTNDGRLQAR 67 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT----------- 181 + P + + Y V+ G D+++L L++G+ + G LD Sbjct: 68 IADPRHKLPKTYWVQVEGTPDEEQLRRLREGVTLNDGPTLPAEARLLDEPTLWERVPPVR 127 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + W+ + +REG+NR+++++ RL+R+ GP+ L L G REV + Sbjct: 128 FRKSVPTQWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGPWSLDGLGLGEWREVPAR 187 Query: 240 I 240 + Sbjct: 188 L 188 >gi|309775612|ref|ZP_07670612.1| ribosomal small subunit pseudouridine synthase A [Erysipelotrichaceae bacterium 3_1_53] gi|308916706|gb|EFP62446.1| ribosomal small subunit pseudouridine synthase A [Erysipelotrichaceae bacterium 3_1_53] Length = 233 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 69/221 (31%), Positives = 114/221 (51%), Gaps = 13/221 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K +A AG SR+EV++ I + V++N + + + D + V+G + E Sbjct: 2 RLDKYLAHAGYGSRKEVKQAIRKGLVRINEVECRKDDTRIQEGIDVVCVNGEEV-VYEAV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 + +KP +V+ SDP TV D + +I R VGRLDI+TEGLLL+TNDG LA Sbjct: 61 VYIMLNKPQDVVSATSDP-THETVLDCIDAILPRDCFPVGRLDIDTEGLLLITNDGKLAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQ-DKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWV 189 L P ++ Y V+ + + DK L IV+ + + +++ +TQ + Sbjct: 120 RLLSPKNHVVKTYFVQLAKPLQEADKKRLEDGSIVLDEEPVQCARVELLEETQ------I 173 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + ++EG+ ++K++ +V L RI+ GP QL LA Sbjct: 174 LLHIQEGRFHQVKRMLHAVGNEVVYLRRIAMGPLQLDEQLA 214 >gi|33151571|ref|NP_872924.1| pseudouridylate synthase [Haemophilus ducreyi 35000HP] gi|33147791|gb|AAP95313.1| probable pseudouridylate synthase [Haemophilus ducreyi 35000HP] Length = 229 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 57/191 (29%), Positives = 95/191 (49%), Gaps = 20/191 (10%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T + L++KP +++ SD GR+T+ D +P V VGRLD ++EGLLLLTN+G + Sbjct: 37 TIVLLFNKPYNVLSQFSDQQGRATLKDFIP--IENVYPVGRLDRDSEGLLLLTNNGEIQH 94 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN------ 186 L P + ++ Y + GQ L L G+ ++ +V++ N Sbjct: 95 RLAHPKFEKVKTYLAQLEGQPQAVDLAKLTCGVELKDGLTRPAKVSVIAPPNYNWHTAPN 154 Query: 187 ---------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR--- 234 +W+ + + EGKNR+++++ + RLIR++ F+LG L G R Sbjct: 155 IRERKTIPTSWLELKIYEGKNRQVRRMTAHIGFPTLRLIRVALSGFELGNLATGEYRLLT 214 Query: 235 EVSKKILREQL 245 E+ K+ L QL Sbjct: 215 EIEKRQLFAQL 225 >gi|315146884|gb|EFT90900.1| conserved hypothetical protein [Enterococcus faecalis TX4244] Length = 257 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 76/254 (29%), Positives = 125/254 (49%), Gaps = 10/254 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEIL-TYQKFFYYMLHKPQGVISATEDQRD-ETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQ 176 TEGLLLLTNDG LA L P + Y G V + L +G ++ G + Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEIVKPSR 178 Query: 177 VTLDT--QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + ++T ++ + V + ++EGK ++K++ V L R+ G L TL G Sbjct: 179 LVIETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEY 238 Query: 234 REVSKKILREQLGP 247 R +++ L +QL P Sbjct: 239 RPLTEAEL-QQLQP 251 >gi|296102845|ref|YP_003612991.1| ribosomal large subunit pseudouridine synthase E [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295057304|gb|ADF62042.1| ribosomal large subunit pseudouridine synthase E [Enterobacter cloacae subsp. cloacae ATCC 13047] Length = 217 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 53/185 (28%), Positives = 97/185 (52%), Gaps = 17/185 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++++ R+ L++KP ++ +D GRST+ D +P V + GRLD ++EGLL+LTND Sbjct: 34 QESQPKRVILFNKPYDVLPQFTDEAGRSTLKDYIP--VQGVYAAGRLDRDSEGLLVLTND 91 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CY 172 G L L P + ++Y V+ G+ D++ L L+ G+ + GI + Sbjct: 92 GALQAKLTQPGKRTGKIYFVQVEGEPDEEALAALRNGVTLNDGPTLPAGIERVNEPEWLW 151 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ + L EG+NR+++++ + RLIR + G + L +L G Sbjct: 152 PRNPPIRERKSIPTSWLKITLFEGRNRQVRRMTAHVGFPTLRLIRYAMGSYTLDSLANGE 211 Query: 233 TREVS 237 R+V+ Sbjct: 212 WRDVA 216 >gi|257083600|ref|ZP_05577961.1| pseudouridine synthase [Enterococcus faecalis Fly1] gi|256991630|gb|EEU78932.1| pseudouridine synthase [Enterococcus faecalis Fly1] Length = 244 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 74/240 (30%), Positives = 121/240 (50%), Gaps = 10/240 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L ++ Sbjct: 2 RLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEIL-TYQKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ HKP G+++ D TV D L R + VGRLD +TEGLLLLTNDG LA Sbjct: 61 FYYMLHKPQGVISATEDQRD-ETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT--QKGSNAW 188 L P + Y G V + L +G ++ G ++ ++T ++ + Sbjct: 120 HQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEVVKPSRLVIETINEEEGTSV 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGP 247 V + ++EGK ++K++ V L R+ G L TL G R +++ L +QL P Sbjct: 180 VRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRPLTEAEL-QQLQP 238 >gi|90021328|ref|YP_527155.1| ribosomal large subunit pseudouridine synthase E [Saccharophagus degradans 2-40] gi|89950928|gb|ABD80943.1| ribosomal large subunit pseudouridine synthase E [Saccharophagus degradans 2-40] Length = 213 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 52/178 (29%), Positives = 92/178 (51%), Gaps = 18/178 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L +KP + +D +GR+T+ + LP + GRLD+++EGLL+LTN+G L Sbjct: 4 LLLINKPYNTLCQFTDGEGRNTLANLLPDGKYKDYYPAGRLDLDSEGLLILTNNGSLQHR 63 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----------------QGICYGDMQV 177 + PS + + Y V+ G + Q+ + L+ G+ + Q + + V Sbjct: 64 ISHPSQKLEKTYWVQVEGDITQEAIAQLEAGVELKDGKTKPAKAKKIAPPQNLWERNPPV 123 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + +W+ + + EGKNR+++++ N+ RLIR + GP+QL L GS +E Sbjct: 124 R-ERKNIPTSWLRLTISEGKNRQVRRMTAAVNYPTLRLIRAAIGPWQLDNLAPGSYKE 180 >gi|295098123|emb|CBK87213.1| ribosomal small subunit pseudouridine synthase A [Enterobacter cloacae subsp. cloacae NCTC 9394] Length = 235 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 61/226 (26%), Positives = 106/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ +A + +E DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRASRVTVDGDIVKDSAFKLQPEHQVEYDGNPLTQQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPEGYVCSTDDPDHPTVLYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + YRV V D KG+ + L+ ++ +T+ Sbjct: 122 TSPRHHCDKTYRVMLESPVSDDTAEQFAKGVQLHNEKDLTKPAVLEILTPTDVRLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G +L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVGLHRERIGAIELDPDLAPGEYRPLTEE 225 >gi|281491905|ref|YP_003353885.1| ribosomal large subunit pseudouridine synthase E [Lactococcus lactis subsp. lactis KF147] gi|281375614|gb|ADA65118.1| Ribosomal large subunit pseudouridine synthase E [Lactococcus lactis subsp. lactis KF147] Length = 185 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 53/179 (29%), Positives = 96/179 (53%), Gaps = 21/179 (11%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L++KP ++T +D +GR T+ D +P++++ GRLD ++EGLLLLT+DG L +L Sbjct: 11 LFNKPYDVLTKFTDGEGRKTLKDYIKIPNVYA----AGRLDKDSEGLLLLTDDGKLNHLL 66 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--------------- 179 P ++ + Y V+ G+ + L+KG++++ +V L Sbjct: 67 TDPKSKSYKTYLVQVEGEFSSEAAQKLQKGLLLKDGKTLPAKVKLIDEPDWLWERTPPIR 126 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +WV + ++EGKNR+I+++ + RLIR S G + LG L +G + + K Sbjct: 127 ERKAIPTSWVEISIKEGKNRQIRRMTAAVGFPTLRLIRWSIGQYSLGNLKSGEYKIIQK 185 >gi|330504976|ref|YP_004381845.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas mendocina NK-01] gi|328919262|gb|AEB60093.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas mendocina NK-01] Length = 189 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 53/183 (28%), Positives = 97/183 (53%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL L +KP ++T +D GR+T+ F ++P ++ GRLD ++EGLLLLTNDG L Sbjct: 10 RLLLLNKPFDVLTQFNDEQGRATLKDFVDVPGVYP----AGRLDRDSEGLLLLTNDGRLQ 65 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ +++L L+ G+++ G LD Sbjct: 66 ARIADPKHKLAKTYWVQVEGEPSEEQLQQLRTGVMLNDGPTLPAEARRLDEPELWERNPP 125 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + +REG+NR+++++ RL+R++ GP++L L G RE++ Sbjct: 126 VRFRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVAIGPWRLDGLQPGQWRELA 185 Query: 238 KKI 240 ++ Sbjct: 186 ARL 188 >gi|323499463|ref|ZP_08104434.1| ribosomal large subunit pseudouridine synthase E [Vibrio sinaloensis DSM 21326] gi|323315450|gb|EGA68490.1| ribosomal large subunit pseudouridine synthase E [Vibrio sinaloensis DSM 21326] Length = 230 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 52/186 (27%), Positives = 96/186 (51%), Gaps = 16/186 (8%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P E ++ +++KP ++ +D +GR T+ D +P V + GRLD ++EGL++LT Sbjct: 46 PKVAPEDRKVIVFNKPFDTLSQFTDGEGRKTLADFIP--VKDVYAAGRLDRDSEGLMVLT 103 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G ++ L+ L+KG+ ++ +V + + Sbjct: 104 NDGVLQAKLTQPQSKSPKTYWVQVDGAPSEEDLDKLRKGVELKDGMTLPAKVEVMDEPSV 163 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+++ + EG+NR+++++ + RLIR S G +LG L G Sbjct: 164 WERNPPVRFRANIPTTWLSITIIEGRNRQVRRMTANIGFPTLRLIRYSMGDIKLGDLQPG 223 Query: 232 STREVS 237 + +EVS Sbjct: 224 AWKEVS 229 >gi|283787307|ref|YP_003367172.1| ribosomal large subunit pseudouridine synthase F [Citrobacter rodentium ICC168] gi|282950761|emb|CBG90437.1| ribosomal large subunit pseudouridine synthase F [Citrobacter rodentium ICC168] Length = 291 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 67/227 (29%), Positives = 116/227 (51%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RAA+ VM D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVMPGDVVKVNGRLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +KP+G+V+T D + R + D + + RV +GRLD +++GL+ LTN G L Sbjct: 65 EELVFIALNKPVGIVSTTEDSE-RDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L L G R+++ Sbjct: 179 ITLIQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLAGLPPGEWRDLT 225 >gi|229546498|ref|ZP_04435223.1| pseudouridylate synthase [Enterococcus faecalis TX1322] gi|307277044|ref|ZP_07558150.1| hypothetical protein HMPREF9521_02651 [Enterococcus faecalis TX2134] gi|307289941|ref|ZP_07569870.1| hypothetical protein HMPREF9509_00254 [Enterococcus faecalis TX0411] gi|312904312|ref|ZP_07763474.1| conserved hypothetical protein [Enterococcus faecalis TX0635] gi|229308398|gb|EEN74385.1| pseudouridylate synthase [Enterococcus faecalis TX1322] gi|306499007|gb|EFM68496.1| hypothetical protein HMPREF9509_00254 [Enterococcus faecalis TX0411] gi|306506288|gb|EFM75452.1| hypothetical protein HMPREF9521_02651 [Enterococcus faecalis TX2134] gi|310632408|gb|EFQ15691.1| conserved hypothetical protein [Enterococcus faecalis TX0635] gi|315030592|gb|EFT42524.1| conserved hypothetical protein [Enterococcus faecalis TX4000] gi|315159713|gb|EFU03730.1| conserved hypothetical protein [Enterococcus faecalis TX0312] gi|315162686|gb|EFU06703.1| conserved hypothetical protein [Enterococcus faecalis TX0645] gi|315578753|gb|EFU90944.1| conserved hypothetical protein [Enterococcus faecalis TX0630] Length = 257 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 78/258 (30%), Positives = 127/258 (49%), Gaps = 18/258 (6%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEIL-TYQKFFYYMLHKPQGVISATEDQRD-ETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ- 176 TEGLLLLTNDG LA L P + Y G V + L +G ++ G+M Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTVEDCQLFAQGFALKD---GEMVK 175 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLL 229 T++ ++G++ V + ++EGK ++K++ V L R+ G L TL Sbjct: 176 PSRLVIETINEEEGTSV-VRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLE 234 Query: 230 AGSTREVSKKILREQLGP 247 G R +++ L +QL P Sbjct: 235 LGEYRPLTEAEL-QQLQP 251 >gi|120556720|ref|YP_961071.1| 23S rRNA pseudouridine synthase F [Marinobacter aquaeolei VT8] gi|120326569|gb|ABM20884.1| ribosomal large subunit pseudouridine synthase F [Marinobacter aquaeolei VT8] Length = 332 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 70/239 (29%), Positives = 118/239 (49%), Gaps = 19/239 (7%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--V 65 N T R++K I+ +G+ SRR+ +R I Q V +NG RA V V+ D ++V+G V Sbjct: 3 NRTSTRLNKYISESGMCSRRDADRFIEQGNVHING---RRAQVGDQVLPGDVVKVNGQVV 59 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLL 122 R E +KP+G+V+T S DN+ R+ +GRLD +++GL+ Sbjct: 60 EPRDEEDLVFIALNKPVGIVSTTD-----SAEKDNIQRFVGHSERIFPIGRLDKDSQGLI 114 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LT++G L + + Y V V ++ + + G+ I G M + Sbjct: 115 FLTSNGDLVNKILRAGNNHEKEYLVTVDKPVTREFVEGMSNGVPI----LGTMTKRCKVE 170 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 K S + L +G NR+I+++ E+F ++V RL R+ L L G+ R++++K L Sbjct: 171 KVSRFVFRITLVQGLNRQIRRMAEYFGYEVARLERVRIMNVSLQGLPVGAWRDLTEKEL 229 >gi|188534084|ref|YP_001907881.1| Ribosomal large subunit pseudouridine synthase E [Erwinia tasmaniensis Et1/99] gi|188029126|emb|CAO96996.1| Ribosomal large subunit pseudouridine synthase E [Erwinia tasmaniensis Et1/99] Length = 238 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 57/179 (31%), Positives = 90/179 (50%), Gaps = 17/179 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ SD GR T+ D +P S + + GRLD ++EGL++LTNDG L L Sbjct: 62 LFNKPFDVLPQFSDEAGRRTLKDFIPQ--SGIYAAGRLDRDSEGLMILTNDGTLQARLTQ 119 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKG--------------IVIQGICYGDMQVTLDTQ 182 P + +VY V+ G ++ L L+ G IV D + + Sbjct: 120 PGKRTGKVYFVQVEGCPHENDLVPLRAGVDLKDGPTLPAEVEIVAAPDWLWDRHPPVRER 179 Query: 183 KG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 K +W+ + L EG+NR+++++ + RLIR S G QL TL G R++S +I Sbjct: 180 KAIPTSWLKITLYEGRNRQVRRMTAHIGFPTLRLIRFSMGTLQLQTLAPGEWRDISSEI 238 >gi|166711386|ref|ZP_02242593.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzicola BLS256] Length = 240 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 114/236 (48%), Gaps = 16/236 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA G SRR+ +R+I ++RV VNG+ AV V D + VDG PLR E + Sbjct: 4 RLNKYIAETGFCSRRQADRLIGERRVTVNGVSAGTGAV-VGEEDTVLVDGQPLRVREAKK 62 Query: 75 LW-------LYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L +KP+G+ TT S G F R+ +GRLD +EGL+L+T+ Sbjct: 63 LGGRRHVYIALNKPVGITCTTESSVKGNIVEFVGHE---QRIFPIGRLDKESEGLILMTS 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + + + Y V + V + L + +G+ I + + + T + + Sbjct: 120 NGNIVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRI----HNETTLPCRTARIAK 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR Sbjct: 176 FGFRIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELR 231 >gi|163942282|ref|YP_001647166.1| pseudouridine synthase [Bacillus weihenstephanensis KBAB4] gi|163864479|gb|ABY45538.1| pseudouridine synthase [Bacillus weihenstephanensis KBAB4] Length = 229 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 65/236 (27%), Positives = 118/236 (50%), Gaps = 14/236 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I R +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRACINGEVCTHGAL-VNEGDIVTIDGQVIVKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGL 130 +++ +HKP+G+ T ++ + DN+ R+ VGRLD +EGL+LLTNDG + Sbjct: 61 VYIAFHKPVGITCTAAEH-----IEDNIIDYIDYPERIFPVGRLDKASEGLILLTNDGAI 115 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + + + Y V ++ + G+ I+ +VT Q + Sbjct: 116 ANQILHGDHEHEKEYVVAVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRVNQ----STFR 171 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ F + V +L R+ +L L AG R+++ K L +G Sbjct: 172 IVLTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEAGKWRDITPKELEILIG 227 >gi|229588965|ref|YP_002871084.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas fluorescens SBW25] gi|229360831|emb|CAY47689.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas fluorescens SBW25] Length = 230 Score = 84.3 bits (207), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 63/231 (27%), Positives = 110/231 (47%), Gaps = 5/231 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 RV + ++ +R++V ++ ++RV ++G+ + V + + VD L+ + R Sbjct: 2 RVDRFLSNLPRFNRKQVRLLLVERRVSIDGVAVSDPHHEVRTFSRVCVDDEVLQAGKPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ +DP TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPQGCVSATADPQ-HPTVLDLLDEPDKDELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T+ +VY V + + G+ L+ + A +++ Sbjct: 121 LTQPQTKLPKVYHVETEQDIGPEYATTFAGGLYFAFEDLTTQPAELELLGPTTARLSI-- 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 EG+ ++K++F F+ KV L R GP L TL G R ++ +R+ Sbjct: 179 IEGRYHQVKRMFGHFDNKVIGLHRERMGPLVLDATLAPGQYRALTDDEIRQ 229 >gi|119897392|ref|YP_932605.1| pseudouridylate synthase [Azoarcus sp. BH72] gi|119669805|emb|CAL93718.1| pseudouridylate synthase [Azoarcus sp. BH72] Length = 201 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 58/183 (31%), Positives = 94/183 (51%), Gaps = 17/183 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +RL L +KP G++ S GR+T+ D++P V GRLD ++EGLLLLT+DG L Sbjct: 2 SRLILLNKPYGVLCQFSGEPGRATLKDHVP--IPEVYPAGRLDTDSEGLLLLTDDGALQA 59 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----CYGDMQVTLD-------- 180 + P + + Y V+ G+ D L L+ G+ + C V D Sbjct: 60 RIADPRHKLPKTYLVQVEGEPDDAALAALRAGVDLGDFRTRPCSARRVVEPDWLWPRDPP 119 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +WV + LREGKNR+++++ + RL+R++ GP++L L G+ REV Sbjct: 120 VRYRKSVPTSWVEIVLREGKNRQVRRMTAKVGFPTLRLLRVAIGPWRLDGLAPGAWREVE 179 Query: 238 KKI 240 ++ Sbjct: 180 PRL 182 >gi|307708437|ref|ZP_07644903.1| RNA pseudouridine synthase family protein [Streptococcus mitis NCTC 12261] gi|307615536|gb|EFN94743.1| RNA pseudouridine synthase family protein [Streptococcus mitis NCTC 12261] Length = 241 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 73/233 (31%), Positives = 122/233 (52%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ I SR+ +++ + + + V+G A N+ + G ++ E T Sbjct: 2 RLDNLLAQEKI-SRKAMKQALLKGEILVDGCPARSLAQNIDTGLQELLFQGRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVI-SVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LP I S ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPTGVVTANKDRE-LPTVMDLLPPDIQSDMLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPARLEILSASPSLSQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK ++KK+F KV L RI +G F L LA G R ++++ L+ Sbjct: 179 ITISEGKFHQVKKMFLSVGVKVTSLKRIQFGEFTLDPELAEGQYRPLNQEELK 231 >gi|256617552|ref|ZP_05474398.1| pseudouridine synthase [Enterococcus faecalis ATCC 4200] gi|256597079|gb|EEU16255.1| pseudouridine synthase [Enterococcus faecalis ATCC 4200] Length = 244 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 76/244 (31%), Positives = 122/244 (50%), Gaps = 18/244 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I G L ++ Sbjct: 2 RLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIAFMGEIL-TYQKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ HKP G+++ D TV D L R + VGRLD +TEGLLLLTNDG LA Sbjct: 61 FYYMLHKPQGVISATEDQRD-ETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------VTLDTQKG 184 L P + Y G V + L +G ++ G+M T++ ++G Sbjct: 120 HQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKD---GEMVKPSRLVIETINEEEG 176 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 ++ V + ++EGK ++K++ V L R+ G L TL G R +++ L + Sbjct: 177 TSV-VRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGGYRPLTEAEL-Q 234 Query: 244 QLGP 247 QL P Sbjct: 235 QLQP 238 >gi|90415084|ref|ZP_01223042.1| Hypothetical pseudouridylate synthase [Photobacterium profundum 3TCK] gi|90323819|gb|EAS40432.1| Hypothetical pseudouridylate synthase [Photobacterium profundum 3TCK] Length = 223 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 67/225 (29%), Positives = 111/225 (49%), Gaps = 7/225 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T R+ + I++ S + +IAQ+R+ ++G + V ++E+DG L+ Sbjct: 4 TTNRLDRFISQNSPFSISDTRLLIAQKRILLDGHVAHSNQQKVTKFTYVELDGNCLQDNN 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGL 130 + L +KP G+V+ D STV D + + VGRLD NT GL+LLTNDG Sbjct: 64 PLYIML-NKPKGVVSATKDIK-HSTVLDLIQHPQKNELHIVGRLDFNTTGLVLLTNDGAW 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 +R + LP T+ +VY V + ++ + + ++GI Y D+ + + + Sbjct: 122 SRKISLPETKLAKVYEVTLSKPLTEEYVAVFREGIYFG---YEDITTKPACLEILSEYTA 178 Query: 191 -VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGK ++K++F FF +V L R S G L L G +R Sbjct: 179 RLSLVEGKYHQVKRMFGFFQNEVLELHRASVGNISLEGLEEGHSR 223 >gi|293572005|ref|ZP_06683018.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E980] gi|291607929|gb|EFF37238.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E980] Length = 239 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 121/237 (51%), Gaps = 11/237 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILL--ERAAVNVMSTDHIEVDGVPLRKAER 72 R+ K +A G+ SR+EV+ +I + ++VNG ++ ++A VN D + G + ++ Sbjct: 2 RLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKAQVNEFE-DTVTYLG-EIIAYQK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ HKP G+++ D + TV D L R + VGRLD +TEGLL+LTNDG Sbjct: 60 DFYYILHKPAGVISATQD-NHDQTVIDLLEDQDYREDLFPVGRLDKDTEGLLILTNDGVF 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNA 187 A L P + Y +G + ++ + L +G++I G +Q+ Q+ + Sbjct: 119 AHQLLSPKKHVEKEYLAEVNGIMTEEDIRLFAEGLIIDGDEQTLPAKLQIDQVDQESETS 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + L EGK ++K++ + +V L RI G F L L G R ++K+ L + Sbjct: 179 IIRLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGNFCLPKDLNRGQYRPMTKEELEQ 235 >gi|108807879|ref|YP_651795.1| putative pseudouridine synthase [Yersinia pestis Antiqua] gi|165938447|ref|ZP_02227004.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis biovar Orientalis str. IP275] gi|270490347|ref|ZP_06207421.1| pseudouridylate synthase [Yersinia pestis KIM D27] gi|108779792|gb|ABG13850.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis Antiqua] gi|165913562|gb|EDR32182.1| ribosomal large subunit pseudouridine synthase E [Yersinia pestis biovar Orientalis str. IP275] gi|270338851|gb|EFA49628.1| pseudouridylate synthase [Yersinia pestis KIM D27] Length = 177 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 54/176 (30%), Positives = 89/176 (50%), Gaps = 17/176 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR+T+ +P F V + GRLD ++EGLL+LTNDG L L Sbjct: 2 LFNKPFDVLPQFTDESGRTTLQGFIP--FKDVYAAGRLDRDSEGLLVLTNDGKLQARLTQ 59 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---------------DT 181 P+ + +VY V+ G D D L LK+G+ ++ L + Sbjct: 60 PAQKTGKVYFVQVEGVPDNDALTQLKRGVTLKDGLTLPAGAELVAEPEWLWPRHPPIRER 119 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + L EG+NR+++++ + RLIR S G LG L G +E++ Sbjct: 120 KTIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRFSMGNLSLGNLQPGEWKEIT 175 >gi|150025290|ref|YP_001296116.1| pseudouridylate synthase [Flavobacterium psychrophilum JIP02/86] gi|149771831|emb|CAL43305.1| Pseudouridylate synthase [Flavobacterium psychrophilum JIP02/86] Length = 266 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 61/214 (28%), Positives = 107/214 (50%), Gaps = 12/214 (5%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++EN T R++K ++ G SRRE ++++ + R+ +NGI+ E V D + VDG Sbjct: 1 MEENLT--RINKFLSETGHCSRREADKLLDEGRITINGIVPE-MGTKVSHHDEVRVDGKL 57 Query: 67 LR-KAERTRLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 +R K E+ ++KP+G+ TT+ D F N P R+ +GRLD +EGL+ + Sbjct: 58 VREKTEKPVYLAFNKPVGIECTTNLDVRYNIVDFINYPK---RIFPIGRLDKASEGLIFM 114 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG + + + Y V + + + + GI I +V ++ Sbjct: 115 TNDGDIVNKILRARNNHEKEYTVTVNKLITDRFIQKMSNGIPILDTVTKKCKV----EQI 170 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 S + L +G NR+I+++ E+ ++V L RI Sbjct: 171 SKTTFKIVLTQGLNRQIRRMCEYLGYEVTSLKRI 204 >gi|56421368|ref|YP_148686.1| 16S pseudouridylate synthase [Geobacillus kaustophilus HTA426] gi|56381210|dbj|BAD77118.1| 16S pseudouridylate synthase [Geobacillus kaustophilus HTA426] Length = 248 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 73/228 (32%), Positives = 111/228 (48%), Gaps = 8/228 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VKV+G + A V + I V G + Sbjct: 4 RIDKLLAHMGYGTRKEVKKLLKSGAVKVDGAPVRDAKTKVRPDEQIVTVWGETVEYKPFI 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGGL 130 L + +KP G+V+ D TV D L FS VGRLD +TEGLLLLTNDG L Sbjct: 64 YLMM-NKPSGVVSATEDA-VEETVVDLLEEEDRAFSP-FPVGRLDKDTEGLLLLTNDGQL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y G+V + + ++G+V+ + + G + V Sbjct: 121 AHQLLSPKKHVPKTYFAVVDGEVTEADVAAFQRGVVLDDGYETKPAKLVVLKSGLRSDVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 V + EGK ++K++F+ +V L RI GP L LA G RE++ Sbjct: 181 VTITEGKFHQVKRMFQAVGKRVVYLKRIQMGPLPLDPDLAVGEYRELT 228 >gi|254468136|ref|ZP_05081542.1| ribosomal large subunit pseudouridine synthase F [beta proteobacterium KB13] gi|207086946|gb|EDZ64229.1| ribosomal large subunit pseudouridine synthase F [beta proteobacterium KB13] Length = 239 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 69/241 (28%), Positives = 113/241 (46%), Gaps = 27/241 (11%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T R+SK+++ G+ SRRE + I V V+GI + IE+ G R Sbjct: 1 MTLVRISKLLSNQGVCSRREADHFIELGFVYVDGIKVTELGAKANPEQKIELRGEGHRLQ 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGR-----STVF-------DNLPSIFSRVISVGRLDINT 118 + + L +KPIG V+ H+D +G+ S + + L + ++ GRLDI++ Sbjct: 61 KSKKTILLNKPIGFVS-HADDEGKYKSSLSLILKENFFGDEKLDKLSFKLAPAGRLDIDS 119 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLL+LT DG +A+ + ++ + Y VR G + + L LLK G+ + Sbjct: 120 TGLLVLTEDGVIAKKIIQEDSEIEKEYLVRVSGNLIPNGLKLLKHGLFLD---------N 170 Query: 179 LDTQKGSNAWVT-----VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +K +W+ L+EGK R+I+++ E KV L R+ G +L L G Sbjct: 171 KPLKKAIVSWINEDQLKFILKEGKKRQIRRMCELVGLKVVGLKRVRIGKIRLSNLPIGKW 230 Query: 234 R 234 R Sbjct: 231 R 231 >gi|84623097|ref|YP_450469.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae MAFF 311018] gi|84367037|dbj|BAE68195.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae MAFF 311018] Length = 240 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 114/236 (48%), Gaps = 16/236 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA G SRR+ +R+I ++RV VNG+ AV V D + VDG PLR E + Sbjct: 4 RLNKYIAETGFCSRRQADRLIGERRVTVNGVPAGTGAV-VGEEDTVLVDGQPLRVREAKK 62 Query: 75 LW-------LYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L +KP+G+ TT S G F R+ +GRLD +EGL+L+T+ Sbjct: 63 LGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHE---QRIFPIGRLDKESEGLILMTS 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + + + Y V + V + L + +G+ I + + + T + + Sbjct: 120 NGNIVNEILRAENRHKKEYLVAVNKPVTDEFLRGMARGVRI----HNETTLPCRTARIAK 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR Sbjct: 176 FGFRIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELR 231 >gi|257438815|ref|ZP_05614570.1| ribosomal small subunit pseudouridine synthase A [Faecalibacterium prausnitzii A2-165] gi|257198724|gb|EEU97008.1| ribosomal small subunit pseudouridine synthase A [Faecalibacterium prausnitzii A2-165] Length = 235 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 68/229 (29%), Positives = 109/229 (47%), Gaps = 8/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A +R E + ++ + RV VNG + ++ + D + VDG PL + Sbjct: 2 RLDKYLAETAQCTRSEAKTLLNRGRVTVNGAVCKKGDTQLREGDSVAVDGAPLAYRQFVY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP G+V+ +D +TV D + + R + VGRLD + G +LLT+DGG A Sbjct: 62 LML-NKPEGVVSASTDKR-DTTVVDLIGDAYPRRELFPVGRLDKTSTGFVLLTDDGGFAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V + ++ +G+ + G +V T G V V Sbjct: 120 EILAPKRHVSKTYTVVIDTPLTEEMRRGFAEGVTLADGTALSPAEVEALTPDGLT--VKV 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 LR+G +IK++F + VN L R + G L LA G RE+S + Sbjct: 178 RLRQGVYHQIKRMFGVYGAGVNALHRDAIGGLALDPALAPGQWRELSAE 226 >gi|229548610|ref|ZP_04437335.1| pseudouridylate synthase [Enterococcus faecalis ATCC 29200] gi|312953045|ref|ZP_07771898.1| conserved hypothetical protein [Enterococcus faecalis TX0102] gi|229306241|gb|EEN72237.1| pseudouridylate synthase [Enterococcus faecalis ATCC 29200] gi|310629074|gb|EFQ12357.1| conserved hypothetical protein [Enterococcus faecalis TX0102] gi|315144498|gb|EFT88514.1| conserved hypothetical protein [Enterococcus faecalis TX2141] gi|315153886|gb|EFT97902.1| conserved hypothetical protein [Enterococcus faecalis TX0031] gi|315156684|gb|EFU00701.1| conserved hypothetical protein [Enterococcus faecalis TX0043] gi|327534254|gb|AEA93088.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis OG1RF] Length = 257 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 76/254 (29%), Positives = 125/254 (49%), Gaps = 10/254 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEIL-TYQKFFYYMLHKPQGVISATEDQRD-ETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQ 176 TEGLLLLTNDG LA L P + Y G V + L +G ++ G + Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEIVKPSR 178 Query: 177 VTLDT--QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + ++T ++ + V + ++EGK ++K++ V L R+ G L TL G Sbjct: 179 LVIETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGGY 238 Query: 234 REVSKKILREQLGP 247 R +++ L +QL P Sbjct: 239 RPLTEAEL-QQLQP 251 >gi|91792047|ref|YP_561698.1| pseudouridine synthase, Rsu [Shewanella denitrificans OS217] gi|91714049|gb|ABE53975.1| Pseudouridine synthase, Rsu [Shewanella denitrificans OS217] Length = 238 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 62/220 (28%), Positives = 108/220 (49%), Gaps = 12/220 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERA-AVNVMSTDHIEVDGVPLRK 69 T R++ +A+ G+ASRR+ R+I RV +NG ++ + + VDG + Sbjct: 1 MTSIRLAHYLAQCGVASRRQASRLIEAGRVLLNGNQASHTDYIDEHNASSLRVDGKAI-A 59 Query: 70 AERTRLWLYHKPIGLVT--THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E WLY+KPIG+ DP +++ LPS R+ GRLD ++ GLLLLTND Sbjct: 60 PEAKAYWLYNKPIGIDCRLLAQDP---ASLIHQLPSA-PRLYPAGRLDKDSRGLLLLTND 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + Y V+ + + + + L G+ G+ + + ++ ++ Sbjct: 116 GDLTHKLMHPDFYHPKTYHVQVNQPLKDEDIMALSTGVAYPGV----LTRRCEVRRLADD 171 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 + L +G NR+I+++ + +KV L R + +L + Sbjct: 172 KFEMILTQGLNRQIRRMCKALGYKVIDLQRTAIMKLELNS 211 >gi|313678357|ref|YP_004056097.1| RNA pseudouridine synthase family protein [Mycoplasma bovis PG45] gi|312950302|gb|ADR24897.1| RNA pseudouridine synthase family protein [Mycoplasma bovis PG45] Length = 236 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 74/230 (32%), Positives = 125/230 (54%), Gaps = 17/230 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA SR EV+ + ++ +KVNGI+L + +D++EVD V + K E+ + Sbjct: 5 RIEKFIADLTGLSRNEVKAKLKKKAIKVNGIVLSKLIKIDPESDYVEVDNV-VVKYEKFQ 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++++KP V +SDP+ +T+FD LP+ + S GRLD +TEGLL+L+NDG + Sbjct: 64 YYMFNKPANFVCANSDPN-EATIFDIVGLPN--KKFFSFGRLDKDTEGLLILSNDGEMCH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT---LDTQKGSNAWV 189 L P + Y V+ +++ D L L + I I D V+ L+ + ++ Sbjct: 121 KLLSPKNHIPKKYYVKVDKKINSDVL-LNNRPIKIS----DDFIVSKYELEPIDEKSCFL 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 T+ EGK ++K++F F V L R+ +G +L +L G R++S+ Sbjct: 176 TI--YEGKFHQVKRMFGAFGISVLYLKRVQFGNLKLDNSLKLGEIRKLSE 223 >gi|33596106|ref|NP_883749.1| putative RNA pseudouridylate synthase [Bordetella parapertussis 12822] gi|33573109|emb|CAE36753.1| putative RNA pseudouridylate synthase [Bordetella parapertussis] Length = 243 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 112/236 (47%), Gaps = 21/236 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ G+ SRRE + I + V+V+G+++ I ++ + Sbjct: 5 RISKLMSERGLCSRREADSYIERGWVRVDGVVVSELGARAFPDQAITLERAAAARQTARV 64 Query: 75 LWLYHKPIGLVTTHSDP---------DGRST-VFDNLPSIFSR-----VISVGRLDINTE 119 L HKP+G V+ ++ D RS D P F R + GRLDI+++ Sbjct: 65 TILLHKPVGYVSGQAEKGYTPAVALIDARSRHAGDRAPLRFERGQLQGLAVAGRLDIDSQ 124 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT DG +A+ L ++ + Y VR G++ + L LL G+ + G QV Sbjct: 125 GLLVLTQDGRIAKKLIGEDSEVDKEYLVRVQGRLSEAGLALLNHGLSLDGKPLRPAQV-- 182 Query: 180 DTQKGSNA-WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + NA + LREGK R+I+++ E +V L R+ G LG L G R Sbjct: 183 ---RWQNADQLRFVLREGKKRQIRRMCELVGLRVVGLKRVRIGRVSLGDLPVGQWR 235 >gi|301301292|ref|ZP_07207445.1| putative 16S pseudouridylate 516 synthase [Lactobacillus salivarius ACS-116-V-Col5a] gi|300851107|gb|EFK78838.1| putative 16S pseudouridylate 516 synthase [Lactobacillus salivarius ACS-116-V-Col5a] Length = 238 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 63/237 (26%), Positives = 121/237 (51%), Gaps = 14/237 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +++ G +R E +++I +RV++NG +++ + + +D I +DG L + Sbjct: 2 RLDKFLSQTGKFTRAEAKKVIKAKRVRLNGEVVKDGKIKINEDSDKIFLDGELLALNNKE 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KPIG+++ D D TV D N P + VGRLD T GLL++TNDG A Sbjct: 62 VYYMLNKPIGVLSATRD-DKDKTVIDLINFPGRKEDLFPVGRLDKETTGLLIITNDGKFA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD------MQVTLDTQKGS 185 + P + Y G++ + ++ +G+ + GD + + ++K Sbjct: 121 HDIISPKKHVSKTYEAVVTGKISEKEVKTFSQGM---ELANGDKLQPAQLDIISYSEKDD 177 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + V V + EGK +++++F + +V L R+ G +L TL G R+++++ L Sbjct: 178 TSKVRVIIHEGKYHQVRRMFGAVSQRVLELDRVKIGLLELDDTLERGEYRKLTEEEL 234 >gi|55823410|ref|YP_141851.1| ribosomal small subunit pseudouridine synthase A [Streptococcus thermophilus CNRZ1066] gi|55739395|gb|AAV63036.1| ribosomal small subunit pseudouridine synthase A [Streptococcus thermophilus CNRZ1066] Length = 243 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 62/216 (28%), Positives = 107/216 (49%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ SR +V+ + +++V VNG + + D I G L E Sbjct: 2 RLDKFLVDCGVGSRSQVKTFLKKKQVTVNGQVETSPKTQIDEDKDQIAYLGQELTH-ETF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D + TV D L +V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDSRHK-TVLDLLDETARHKQVFPVGRLDIDTHGLLLLTNNGDLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICY-GDMQVTLDTQKGSNAWV 189 + P ++Y+ + G +D++ + +KGI ++ C +++ + S + V Sbjct: 120 HAMLSPKRHVDKIYQAKVAGIMDEEDILAFEKGIKLKDHTCQPAKLEIVSVDRNASTSLV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK ++K++ +V L R+ GP L Sbjct: 180 QITIAEGKFHQVKRMVAACGKEVADLQRLKMGPLSL 215 >gi|33601504|ref|NP_889064.1| putative RNA pseudouridylate synthase [Bordetella bronchiseptica RB50] gi|33575940|emb|CAE33019.1| putative RNA pseudouridylate synthase [Bordetella bronchiseptica RB50] Length = 243 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 112/236 (47%), Gaps = 21/236 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ G+ SRRE + I + V+V+G+++ I ++ + Sbjct: 5 RISKLMSERGLCSRREADSYIERGWVRVDGVVVSELGARAFPDQAITLERAAAARQTARV 64 Query: 75 LWLYHKPIGLVTTHSDP---------DGRS-TVFDNLPSIFSR-----VISVGRLDINTE 119 L HKP+G V+ ++ D RS D P F R + GRLDI+++ Sbjct: 65 TILLHKPVGYVSGQAEKGYTPAVALIDARSRYAGDRAPLRFERGQLQGLAVAGRLDIDSQ 124 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT DG +A+ L ++ + Y VR G++ + L LL G+ + G QV Sbjct: 125 GLLVLTQDGRIAKKLIGEDSEVDKEYLVRVQGRLSEAGLALLNHGLSLDGKPLRPAQV-- 182 Query: 180 DTQKGSNA-WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + NA + LREGK R+I+++ E +V L R+ G LG L G R Sbjct: 183 ---RWQNADQLRFVLREGKKRQIRRMCELVGLRVVGLKRVRIGRVSLGDLPVGQWR 235 >gi|238796005|ref|ZP_04639517.1| Ribosomal large subunit pseudouridine synthase E [Yersinia mollaretii ATCC 43969] gi|238720210|gb|EEQ12014.1| Ribosomal large subunit pseudouridine synthase E [Yersinia mollaretii ATCC 43969] Length = 208 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 57/211 (27%), Positives = 106/211 (50%), Gaps = 20/211 (9%) Query: 42 VNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL 101 +N ++ VN ST +P+ R+ L++KP ++ +D GR T+ + + Sbjct: 1 MNKFSVKNHKVNRFSTQSPAKTAIPVPPQ---RVLLFNKPFDVLPQFTDESGRRTLKEFI 57 Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 P F+ V + GRLD ++EGLL+LTN+G L L P+ + +VY V+ G ++ L L Sbjct: 58 P--FNDVYAAGRLDRDSEGLLVLTNNGKLQAKLTQPAQKTGKVYFVQVEGVPTEEALTQL 115 Query: 162 KKGIVIQG----------ICYGDM-----QVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 ++G++++ +C + + + +W+ + L EG+NR+++++ Sbjct: 116 QRGVILKDGPTLPAGAELVCEPEWLWPRNPPIRERKSIPTSWLKITLFEGRNRQVRRMTA 175 Query: 207 FFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + RLIR S G LG L G +E++ Sbjct: 176 HIGFPTLRLIRFSMGNLSLGDLQPGEWKEIN 206 >gi|217077200|ref|YP_002334918.1| RNA pseudouridine synthase family protein [Thermosipho africanus TCF52B] gi|217037055|gb|ACJ75577.1| RNA pseudouridine synthase family protein [Thermosipho africanus TCF52B] Length = 225 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 54/203 (26%), Positives = 107/203 (52%), Gaps = 7/203 (3%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 ++ A + SR++V+++I ++RVKVNG ++ + NV D + VD + + + +++ Sbjct: 1 MSNAKVGSRKQVKKLIKEKRVKVNGSIVTKPEFNVDENDEVFVDDIEIIPHHNVYI-VFN 59 Query: 80 KPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPST 139 KP G ++ S+ + F + P + + VGRLD + EGL+L+TNDG + P + Sbjct: 60 KPSGFTSSKSEYERNIFEFIDHPYL-DELHIVGRLDKDVEGLILITNDGNFTHKVISPKS 118 Query: 140 QWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVGLREGKN 198 + Y V+ G + ++ + + GI + GI + ++T K + +++ + EGK Sbjct: 119 NIEKEYIVKIEGILTKEMIEIASNGITLNNGIKFKPAKIT----KIDDETISLVITEGKF 174 Query: 199 REIKKVFEFFNWKVNRLIRISYG 221 E+K + F K ++ R+ G Sbjct: 175 HEVKLIVGFLGLKYKKIKRVRIG 197 >gi|313617518|gb|EFR89863.1| RNA pseudouridine synthase family protein [Listeria innocua FSL S4-378] Length = 233 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 65/215 (30%), Positives = 102/215 (47%), Gaps = 10/215 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+++ G SR+EV+ ++ V VNG + + + V D + V G P+ E Sbjct: 2 RLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGTPVIYQEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG LA Sbjct: 62 YFML-HKPQNVVSATED-NLSETVIDLLEQEDTLTNPFPVGRLDKDTEGLLIITNDGTLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y + G+V + + G+ + G + + T + Sbjct: 120 HNLLSPKKHIDKTYYAKIDGEVTAEDVEAFSAGVTLDDGYTCKPAHLEIITPN----EIK 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V ++EGK ++K++F V+ L RIS G QL Sbjct: 176 VTIQEGKFHQVKRMFAARGKTVSYLKRISMGNLQL 210 >gi|262191472|ref|ZP_06049658.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae CT 5369-93] gi|262032667|gb|EEY51219.1| ribosomal large subunit pseudouridine synthase E [Vibrio cholerae CT 5369-93] Length = 176 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 53/175 (30%), Positives = 87/175 (49%), Gaps = 16/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LTNDG L L Sbjct: 3 LFNKPYDTLSQFTDGDGRKTLADYIP--IKDVYAAGRLDRDSEGLLILTNDGILQARLTQ 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 61 PQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTLWPRNPPVRFRA 120 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ + L EG+NR+++++ + RLIR S G + LG L G REV+ Sbjct: 121 AIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPGEWREVT 175 >gi|253577342|ref|ZP_04854659.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14] gi|251843242|gb|EES71273.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14] Length = 234 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 62/233 (26%), Positives = 117/233 (50%), Gaps = 14/233 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLRKAER 72 R++K I+ G SRRE ++++ +V +NG+ +A + + D + V+G P+ Sbjct: 2 RINKFISETGFCSRREADKLVESGQVTINGV---KAVLGSQAEPGDDVRVNGRPIAAKRS 58 Query: 73 TRLWL-YHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +++ +KP+G+ TT + G F P R+ +GRLD ++EGL+LLT+DG + Sbjct: 59 KHVYIALNKPVGITCTTETHVKGNIVDFVGHPE---RIFPIGRLDKDSEGLILLTSDGDI 115 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + Y V + + + +G+ I G+M + + S+ Sbjct: 116 VNKILRAEGKHEKEYIVTVDRPITPSFVKAMSEGVKI----LGEMTLPCKVTRVSDRVFR 171 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L EGKNR+I+++ ++V RL RI LG G+ R+++++ RE Sbjct: 172 IILTEGKNRQIRRMCSALGYEVRRLQRIRIMNIHLGQQKVGTWRDLTEQEKRE 224 >gi|203284055|ref|YP_002221795.1| pseudouridylate synthase [Borrelia duttonii Ly] gi|203287595|ref|YP_002222610.1| pseudouridylate synthase [Borrelia recurrentis A1] gi|201083498|gb|ACH93089.1| pseudouridylate synthase [Borrelia duttonii Ly] gi|201084815|gb|ACH94389.1| pseudouridylate synthase [Borrelia recurrentis A1] Length = 248 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 71/228 (31%), Positives = 108/228 (47%), Gaps = 10/228 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-VPLRKAERT 73 RV +A GI SRR E +I + +KVNGI + V D +E V + + + Sbjct: 10 RVHVFLAEKGIGSRRFCEELIRKNLIKVNGIF-AKLGDKVFLGDRVEYGKQVFVFQDSKV 68 Query: 74 RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGG 129 +Y +KPI + ++ DP GR + +F R+ S+GRLD + GLLL TNDG Sbjct: 69 VNKIYIALNKPINYLCSNFDPMGRKLAISLVQPLFRERLFSIGRLDFKSSGLLLFTNDGR 128 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P + + Y + V +D L K GI + + ++ G+N Sbjct: 129 FANSIVHPKNEIEKEYIIESKRVVSEDLLVNFKNGIKVDNELF---KLKSYVMLGNNTAR 185 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L EGKNREI+KVF N + ++ R+ G L L G + +S Sbjct: 186 LI-LTEGKNREIRKVFLSRNIFLKKVHRVRIGNITLSNLKEGQIKVLS 232 >gi|149277497|ref|ZP_01883638.1| 23S rRNA pseudouridine synthase [Pedobacter sp. BAL39] gi|149231730|gb|EDM37108.1| 23S rRNA pseudouridine synthase [Pedobacter sp. BAL39] Length = 329 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 118/227 (51%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +G+ SRR +R I Q V +NG ++A V V D + V+G + ++ Sbjct: 7 RLNKYISESGLCSRRAADRYIEQGNVYING---KKAKVGDKVFFGDLVMVNGQTIEPKEV 63 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E + L Y+KP+G+ +T ++ + + D++ + RV +GRLD +++GL+ LTN+G L Sbjct: 64 EHSVLIAYNKPVGITST-TEAGVKGNIVDHV-NHSERVFPIGRLDKDSQGLIFLTNNGDL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + + KG+ I GI +VT K S Sbjct: 122 VNKILRAGNNHEKEYLVTVNKPLTEQFITNMSKGVPILGIMTKKCKVT----KESPFVFK 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G RE++ Sbjct: 178 ITLIQGLNRQIRRMCEHFGFEVTKLERTRIMNIGLKGIPLGEWRELT 224 >gi|15673334|ref|NP_267508.1| pseudouridine synthase [Lactococcus lactis subsp. lactis Il1403] gi|12724335|gb|AAK05450.1|AE006367_6 pseudouridine synthase [Lactococcus lactis subsp. lactis Il1403] gi|326406888|gb|ADZ63959.1| ribosomal large subunit pseudouridine synthase E [Lactococcus lactis subsp. lactis CV56] Length = 185 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 53/179 (29%), Positives = 96/179 (53%), Gaps = 21/179 (11%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L++KP ++T +D +GR T+ D +P++++ GRLD ++EGLLLLT+DG L +L Sbjct: 11 LFNKPYDVLTKFTDGEGRKTLKDYIKIPNVYA----AGRLDKDSEGLLLLTDDGKLNHLL 66 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--------------- 179 P ++ + Y V+ G+ + L+KG++++ +V L Sbjct: 67 TDPKSKSYKTYLVQVEGEFSPEAAQKLQKGLLLKDGKTLPAKVKLIDEPDWLWERTPPIR 126 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +WV + ++EGKNR+I+++ + RLIR S G + LG L +G + + K Sbjct: 127 ERKAIPTSWVEISIKEGKNRQIRRMTAAVGFPTLRLIRWSIGQYSLGNLKSGEYKIIQK 185 >gi|15599163|ref|NP_252657.1| pseudouridine synthase [Pseudomonas aeruginosa PAO1] gi|107103485|ref|ZP_01367403.1| hypothetical protein PaerPA_01004555 [Pseudomonas aeruginosa PACS2] gi|116052008|ref|YP_789149.1| putative pseudouridine synthase [Pseudomonas aeruginosa UCBPP-PA14] gi|254236861|ref|ZP_04930184.1| hypothetical protein PACG_02881 [Pseudomonas aeruginosa C3719] gi|254242653|ref|ZP_04935975.1| hypothetical protein PA2G_03415 [Pseudomonas aeruginosa 2192] gi|34098719|sp|Q9HX48|RLUE_PSEAE RecName: Full=Ribosomal large subunit pseudouridine synthase E; AltName: Full=rRNA pseudouridylate synthase E; AltName: Full=rRNA-uridine isomerase E gi|9950157|gb|AAG07355.1|AE004814_10 probable pseudouridine synthase [Pseudomonas aeruginosa PAO1] gi|115587229|gb|ABJ13244.1| possible pseudouridylate synthase [Pseudomonas aeruginosa UCBPP-PA14] gi|126168792|gb|EAZ54303.1| hypothetical protein PACG_02881 [Pseudomonas aeruginosa C3719] gi|126196031|gb|EAZ60094.1| hypothetical protein PA2G_03415 [Pseudomonas aeruginosa 2192] Length = 189 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 56/181 (30%), Positives = 92/181 (50%), Gaps = 16/181 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L L++KP ++T +D GRST+ D +P V GRLD ++EGLLLLTNDG L Sbjct: 10 KLLLFNKPFDVLTQFNDEQGRSTLKDFIP--VPGVYPAGRLDRDSEGLLLLTNDGRLQAR 67 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT----------- 181 + P + + Y V+ G D+++L L++G+ + G LD Sbjct: 68 IADPRHKLPKTYWVQVEGTPDEEQLRRLREGVTLNDGPTLPAEARLLDEPTLWERVPPVR 127 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + W+ + +REG+NR+++++ RL+R+ GP+ L L G REV + Sbjct: 128 FRKSVPTHWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGPWSLDGLGLGEWREVPAR 187 Query: 240 I 240 + Sbjct: 188 L 188 >gi|256854470|ref|ZP_05559834.1| pseudouridine synthase [Enterococcus faecalis T8] gi|257089099|ref|ZP_05583460.1| pseudouridine synthase [Enterococcus faecalis CH188] gi|256710030|gb|EEU25074.1| pseudouridine synthase [Enterococcus faecalis T8] gi|256997911|gb|EEU84431.1| pseudouridine synthase [Enterococcus faecalis CH188] gi|323479852|gb|ADX79291.1| S4 domain pseudouridine synthase family protein [Enterococcus faecalis 62] Length = 244 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 76/244 (31%), Positives = 123/244 (50%), Gaps = 18/244 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L ++ Sbjct: 2 RLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEIL-TYQKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ HKP G+++ D TV D L R + VGRLD +TEGLLLLTNDG LA Sbjct: 61 FYYMLHKPQGVISATEDQRD-ETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------VTLDTQKG 184 L P + Y G V + L +G ++ G+M T++ ++G Sbjct: 120 HQLLSPKKHVDKEYLAEVEGLVTVEDCQLFAQGFALKD---GEMVKPSRLVIETINEEEG 176 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 ++ V + ++EGK ++K++ V L R+ G L TL G R +++ L + Sbjct: 177 TSV-VRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRPLTEAEL-Q 234 Query: 244 QLGP 247 QL P Sbjct: 235 QLQP 238 >gi|270262758|ref|ZP_06191029.1| ribosomal small subunit pseudouridine synthase A [Serratia odorifera 4Rx13] gi|270043442|gb|EFA16535.1| ribosomal small subunit pseudouridine synthase A [Serratia odorifera 4Rx13] Length = 237 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 59/236 (25%), Positives = 113/236 (47%), Gaps = 3/236 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV V+G +++ AV + + DG PL++ R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTVDGEVVKSGAVKLTPEQEVAFDGNPLQQLSGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRV 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + +D +G+ + D+ +K + V + + Sbjct: 122 TSPKHHCEKTYLVTLEHPLAEDTAQQFAEGVQLHN--EKDLTRPAQLEKIEDTLVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G + LA G R ++++ + PHL Sbjct: 180 EGRYHQVKRMFAAVGNRVVELHRERIGAIVMDEDLAPGEYRPLTEEEIASVGAPHL 235 >gi|255526472|ref|ZP_05393383.1| pseudouridine synthase [Clostridium carboxidivorans P7] gi|296184845|ref|ZP_06853256.1| pseudouridine synthase [Clostridium carboxidivorans P7] gi|255509854|gb|EET86183.1| pseudouridine synthase [Clostridium carboxidivorans P7] gi|296050627|gb|EFG90050.1| pseudouridine synthase [Clostridium carboxidivorans P7] Length = 238 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 68/232 (29%), Positives = 117/232 (50%), Gaps = 11/232 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAER 72 +R+ K+++ G +R+E++ ++ Q V+++ +++ + + + D I V G + + Sbjct: 2 ERLDKILSNLGYGTRKEIKALVKQGLVEIDNEVVKDSGMKIDPDDKEIRVSGEMVNYRQN 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 L + +KP G+V+ D + TV D L + VGRLD +T GLLLLTNDG L Sbjct: 62 IYLIM-NKPNGVVSATFD-NYDETVVDLLDPEHQAFKPFPVGRLDKDTVGLLLLTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNA 187 L P ++Y VDQ+ + K GI + G +++ + GS Sbjct: 120 NHRLISPKWHVDKIYYAEIDKPVDQNDVEKFKIGITLDDGYKCLPGKLKILESDENGSKV 179 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 VT+ +EGK ++K++F + V L RI +GP +L L G RE+S+ Sbjct: 180 EVTI--QEGKFHQVKRMFNALDKNVVYLKRIKFGPMELDLDLEEGEYRELSE 229 >gi|89072747|ref|ZP_01159312.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Photobacterium sp. SKA34] gi|89051567|gb|EAR57021.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Photobacterium sp. SKA34] Length = 357 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 63/205 (30%), Positives = 99/205 (48%), Gaps = 9/205 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG E V VM D + +D PLR ER Sbjct: 15 RLNKFISDTGYCSRREADKLIDQGRVTINGQKPE-MGVRVMDNDDVLIDDKPLRSKERPI 73 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ TT +G F R+ +GRLD ++GL+ LTNDG + Sbjct: 74 YIALNKPTGITCTTERHIEGNIVDF---IGHRKRIFPIGRLDKPSDGLIFLTNDGDIVNK 130 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + + L + G+ I +VT +T N + L Sbjct: 131 ILRAGNSHEKEYVVRVDKVITPEFLEKMASGVEILDTVTLPCKVTKET----NFSFRIVL 186 Query: 194 REGKNREIKKVFEFFNWKVNRLIRI 218 +G NR+I+++ E ++V +L R+ Sbjct: 187 TQGLNRQIRRMCEALGYEVYKLRRV 211 >gi|92114560|ref|YP_574488.1| ribosomal large subunit pseudouridine synthase E [Chromohalobacter salexigens DSM 3043] gi|91797650|gb|ABE59789.1| ribosomal large subunit pseudouridine synthase E [Chromohalobacter salexigens DSM 3043] Length = 257 Score = 84.0 bits (206), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 54/189 (28%), Positives = 94/189 (49%), Gaps = 20/189 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+L HKP +++ +D GR+T+ + ++P I+ GRLD ++EGLLLLT DG LA Sbjct: 62 LYLLHKPYQMLSQFTDTRGRATLAEAIDVPDIYP----AGRLDYDSEGLLLLTGDGALAH 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDT---------- 181 + P + + Y V+ G+ + L L++G+ ++ +V L++ Sbjct: 118 RISHPRHKQPKTYWVQVEGEPEPAALQALRQGVTLRDGPTRPAKVRRLESPDVAPRHPPV 177 Query: 182 ---QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + AW+ + L EG+NR+++++ RLIR++ G + L L G R + Sbjct: 178 RHREAVPTAWLELTLSEGRNRQVRRMTAHVGHPTLRLIRVAIGSWHLAGLAPGEWRRETL 237 Query: 239 KILREQLGP 247 R Q P Sbjct: 238 HAPRAQAAP 246 >gi|251796174|ref|YP_003010905.1| pseudouridine synthase [Paenibacillus sp. JDR-2] gi|247543800|gb|ACT00819.1| pseudouridine synthase [Paenibacillus sp. JDR-2] Length = 249 Score = 84.0 bits (206), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 116/240 (48%), Gaps = 19/240 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K+++ G +R E+++++ Q +V V G +++ + V D + DG + E Sbjct: 6 RIDKLLSHTGYGTRSEIKKLVKQGKVTVAGKVVKDSGQLVDPELDEVAFDGELVLYREVI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + +KP G+++ D R+ + D L F VGRLD +T GLLLLTNDG Sbjct: 66 YLMM-NKPPGVISATEDRRERTVIDLLEQEDQLMDPFP----VGRLDKDTVGLLLLTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----- 183 LA L P + Y G V ++ K G+ + Y M L K Sbjct: 121 QLAHELLSPRKHVPKTYEAVVQGDVGEEDQEQFKAGVTLDD-GYVTMPSDLKILKKDSGE 179 Query: 184 -GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 G + +++ + EGK ++K++FE KV L RIS GP +L L G+ RE++ + L Sbjct: 180 GGVTSVISLTIMEGKFHQVKRMFEAVGKKVVFLKRISMGPLELDADLEEGTYRELTDEEL 239 >gi|119952932|ref|YP_945141.1| ribosomal large subunit pseudouridine synthase B [Borrelia turicatae 91E135] gi|119861703|gb|AAX17471.1| ribosomal large subunit pseudouridine synthase B [Borrelia turicatae 91E135] Length = 247 Score = 84.0 bits (206), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 71/228 (31%), Positives = 108/228 (47%), Gaps = 10/228 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL----RKA 70 RV +A G+ SRR E +I + V++N L + V D +E K Sbjct: 10 RVHVFLAEKGVGSRRFCEDLIRKNSVRINNTL-AKLGDKVFLGDRVECRKQVFVFRDCKV 68 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGG 129 E HKP + ++ DP+GR + +F R+ S+GRLD + GLLL TNDG Sbjct: 69 ESKIYIALHKPKNYLCSNFDPEGRQLAISLVQPLFKERLFSIGRLDFKSSGLLLFTNDGQ 128 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P ++ + Y V V+++ L K GI I + ++ G+N+ V Sbjct: 129 FANNIVHPRSKVEKEYIVESKRAVNENLLINFKHGIKIGREIF---KLKSYVMLGNNS-V 184 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L EGKNREI+KVF N + ++ RI G +L L G + +S Sbjct: 185 KLVLTEGKNREIRKVFLSKNIFLKKIHRIRIGNIKLDDLKEGQIKVLS 232 >gi|120437125|ref|YP_862811.1| ribosomal large subunit pseudouridine synthase F [Gramella forsetii KT0803] gi|117579275|emb|CAL67744.1| ribosomal large subunit pseudouridine synthase F [Gramella forsetii KT0803] Length = 266 Score = 84.0 bits (206), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 59/209 (28%), Positives = 104/209 (49%), Gaps = 13/209 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +++ G SRR +++I Q R+ +N + E V D ++VDG P+ K E Sbjct: 6 RINKYLSQLGYCSRRAADKLIDQGRITINDKVPE-MGTKVTPGDLVKVDGKPVSKEELKE 64 Query: 75 LWLY---HKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +Y +KP+G+V T + + D N P R+ +GRLD +EGL+ LTNDG Sbjct: 65 PNVYIAFNKPVGIVCTTDTRVEKDNIIDYINYPK---RIFPIGRLDKPSEGLIFLTNDGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y V + V + L + G+ I + ++ +K + Sbjct: 122 IVNKILRARNNHEKEYVVSVNKPVSSEFLKKMSAGVPILDTVTRECEI----EKLGHHTF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRI 218 + L +G NR+I+++ EF +++V L RI Sbjct: 178 RIVLTQGLNRQIRRMCEFLDYQVTSLKRI 206 >gi|315170764|gb|EFU14781.1| conserved hypothetical protein [Enterococcus faecalis TX1342] Length = 257 Score = 84.0 bits (206), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 76/254 (29%), Positives = 125/254 (49%), Gaps = 10/254 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGNVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEIL-TYQKFFYYMLHKPQGVISATEDQRD-ETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQ 176 TEGLLLLTNDG LA L P + Y G V + L +G ++ G + Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEIVKPSR 178 Query: 177 VTLDT--QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + ++T ++ + V + ++EGK ++K++ V L R+ G L TL G Sbjct: 179 LVIETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGGY 238 Query: 234 REVSKKILREQLGP 247 R +++ L +QL P Sbjct: 239 RPLTEAEL-QQLQP 251 >gi|295091825|emb|CBK77932.1| pseudouridine synthase family/haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED [Clostridium cf. saccharolyticum K10] Length = 471 Score = 84.0 bits (206), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 69/239 (28%), Positives = 119/239 (49%), Gaps = 17/239 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ + + SR EV++MI RV V+G + A + S + +DG + A Sbjct: 6 RLDRYLVEMKKGSRSEVKKMIKSGRVSVDGEICREAERKIQPSASEVSLDGTQVGYAA-Y 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ D GR +L R + VGRLDI+TEGLLL+TNDG LA Sbjct: 65 EYFMLNKPAGVVSATED--GRHKTVVSLIEDAKRRDLFPVGRLDIDTEGLLLITNDGKLA 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG------ 184 L P + Y R G++ ++ + K+G+ ++ G ++ + + G Sbjct: 123 HRLLSPKKHVDKTYFARVEGRLPENAIEQFKEGLTLEDGTRTLPARLLIQKEAGTAEEGK 182 Query: 185 ---SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 S + + + + EGK ++K++FE +V L R+S G +L LA G+ R ++++ Sbjct: 183 ADSSLSEIELTIHEGKFHQVKRMFEAVGCRVVYLKRLSMGSLRLYESLAPGAYRRLTEE 241 >gi|313890958|ref|ZP_07824580.1| pseudouridylate synthase [Streptococcus pseudoporcinus SPIN 20026] gi|313120682|gb|EFR43799.1| pseudouridylate synthase [Streptococcus pseudoporcinus SPIN 20026] Length = 239 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 70/230 (30%), Positives = 115/230 (50%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A AG SR +V+ ++ ++V VNG +A + + D +EV+G + E Sbjct: 2 RLDKFLAEAGFGSRSQVKNLLKTKKVCVNGKNESQAKKQINPNLDRVEVEGQEVLYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ D TV D L + + V VGRLD +T GLLLLTN+G LA Sbjct: 62 -YYMLNKPKGVVSATQDK-VHQTVLDLLDATAKQKAVFPVGRLDKDTHGLLLLTNNGDLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICY-GDMQVTLDTQKGSNAWV 189 L P +VY G + + +KGI + C +++ + + V Sbjct: 120 HRLLSPKKHVNKVYVAEVDGLMTSQDIEAFEKGIQLSDHQCQPAVLEILASDRDKFQSRV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 + ++EGK ++K++ +V L R+ GP QL TL G+ R++ K Sbjct: 180 KIVIKEGKFHQVKRMVLACGKEVRDLQRLEMGPLQLDSTLDLGAFRKLEK 229 >gi|145342798|ref|XP_001416276.1| predicted protein [Ostreococcus lucimarinus CCE9901] gi|144576501|gb|ABO94569.1| predicted protein [Ostreococcus lucimarinus CCE9901] Length = 249 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 79/251 (31%), Positives = 116/251 (46%), Gaps = 24/251 (9%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E+ +RVSK++AR G SRRE ER+I RV V+G +E + IE+ G R Sbjct: 2 EDDELERVSKILARRGTCSRREAERLIEDGRVLVDGETIE-LGFKARANARIEITGEGTR 60 Query: 69 KAERTRLWLYHKPIGLVT-----------THSDPDG------RSTVFDNLPSIFSRVIS- 110 + +KP G V+ +P T D+L + V S Sbjct: 61 WLREKLTVIVNKPPGYVSNLPAEGEIAAAACVEPRNAWMRAMEGTPMDDLKRVTRDVSSF 120 Query: 111 --VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD ++ GLL+LT DG LAR + + L+ Y V V + + L + + Sbjct: 121 NVCGRLDKDSRGLLILTEDGALARSV-IGGNGVLKKYVVTTDADVRESHMRSLNGRVQLD 179 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G+ M V GS + LREGKNR+I++V E F +V L R+ G Q+G L Sbjct: 180 GVELLPMNVQ-RLGHGSRT-LEFNLREGKNRQIRRVCEKFGLRVVDLHRVQIGDVQIGDL 237 Query: 229 LAGSTREVSKK 239 G+ R +S++ Sbjct: 238 PEGAWRLMSER 248 >gi|94499453|ref|ZP_01305990.1| Hypothetical protein yjbC [Oceanobacter sp. RED65] gi|94428207|gb|EAT13180.1| Hypothetical protein yjbC [Oceanobacter sp. RED65] Length = 376 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 67/236 (28%), Positives = 116/236 (49%), Gaps = 13/236 (5%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--V 65 N + R++K I+ +GI SRRE +R I Q V +NG +RA V V D ++V+G + Sbjct: 3 NDSTTRLNKYISESGICSRREADRYIEQGNVYING---KRAEVGDRVAPGDTVKVNGQII 59 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 ++ E +KP+G+V+T + + V +R+ +GRLD +++GL+ LT Sbjct: 60 EPQEPEDFVFIALNKPVGIVSTTESSERNNIV--RFVGHSTRIFPIGRLDKDSQGLIFLT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N+G L + + Y V + + + + + G+ I G M +K S Sbjct: 118 NNGDLVNKILRAGNDHEKEYLVEVNKPIRDNFIEGMANGVPI----LGTMTKKCKVKKES 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EG NR+I+++ E+F + V L R+ L L G R++++K L Sbjct: 174 PTVFRITLVEGLNRQIRRMCEYFGYDVVALERVRIMNVDLKGLATGDWRDLTQKEL 229 >gi|160880922|ref|YP_001559890.1| pseudouridine synthase [Clostridium phytofermentans ISDg] gi|160429588|gb|ABX43151.1| pseudouridine synthase [Clostridium phytofermentans ISDg] Length = 240 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 73/228 (32%), Positives = 114/228 (50%), Gaps = 8/228 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A + +R EV++MI + RV VNG V S D I VD L Sbjct: 9 RLDKYLADLSVGTRTEVKQMIRKGRVMVNGNTETSPETKVDSNHDKIFVDSRELSYV-TL 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G+V+ +D ++TV D + + + VGRLD +TEGLL++TNDG LA Sbjct: 68 EYFMLNKPAGVVSASNDK-KQTTVVDLIDEAKRKDLFPVGRLDKDTEGLLIITNDGDLAH 126 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY + + ++ G+ I + + L+ A+VT+ Sbjct: 127 QLLSPKKHVDKVYFAKLRDPLKKEDEEAFAAGLKIDE-EFTALPAKLERISEQEAYVTI- 184 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 REGK +IK++FE +V L RIS G L L+ G RE++++ Sbjct: 185 -REGKFHQIKRMFEATRNEVIYLKRISMGSLVLDESLSLGEYRELTEE 231 >gi|90408174|ref|ZP_01216342.1| ribosomal large subunit pseudouridine synthase F [Psychromonas sp. CNPT3] gi|90310704|gb|EAS38821.1| ribosomal large subunit pseudouridine synthase F [Psychromonas sp. CNPT3] Length = 292 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 71/255 (27%), Positives = 125/255 (49%), Gaps = 15/255 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-----VP 66 T +R++K I+ +G SRRE +++I + RVK+NG + E V+ D + VDG V Sbjct: 5 TGKRLNKYISDSGFCSRREADKLIEKSRVKINGTIPE-LGTKVLPGDIVLVDGRAINAVA 63 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 K++R + Y+KPIG+ T ++ D R + D + R+ +GRLD +EGL+ LT+ Sbjct: 64 ENKSDRIYIA-YNKPIGITCT-TERDVRGNIIDAIRH-KKRIFPIGRLDKPSEGLIFLTS 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + + Y V + + + +++G+ I V + S Sbjct: 121 DGDIVNKILRAENAHDKEYLVTVDKPLSERFVERMQRGVPILDTITKPCIVKVQ----SR 176 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE--Q 244 ++ L +G NR+I+++ E+ ++V L R L L G R +S + ++E Q Sbjct: 177 FVFSIILTQGLNRQIRRMCEYLGYEVQALQRTRIMQVTLKNLKPGQWRNLSVQEMQEINQ 236 Query: 245 LGPHLLEEAQVNLDA 259 H + AQ+ A Sbjct: 237 AVSHSSKTAQITTPA 251 >gi|86148705|ref|ZP_01066982.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio sp. MED222] gi|85833498|gb|EAQ51679.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio sp. MED222] Length = 379 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 63/234 (26%), Positives = 109/234 (46%), Gaps = 9/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +++I RV +NG + E V+ D +E+D P+R E+ Sbjct: 8 KRLNKYISETGFCSRREADKLIDAGRVTINGKIPE-MGTKVLPGDDVEIDNKPVRSREKP 66 Query: 74 RLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 67 IYIALNKPTGITCTTERDIPGNIVDF---IGHHKRIFPIGRLDKPSDGLIFLTNDGDIVN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y VR + + L + G+ I + + +K + + Sbjct: 124 KILRAGNNHEKEYVVRVDKPITTEFLKQMGAGVHI----LDTVTLPCKVEKETKFSFRIT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ E ++V +L R+ L + G R +S + + E L Sbjct: 180 LTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDEEITEILA 233 >gi|156933241|ref|YP_001437158.1| 16S rRNA pseudouridylate synthase A [Cronobacter sakazakii ATCC BAA-894] gi|156531495|gb|ABU76321.1| hypothetical protein ESA_01053 [Cronobacter sakazakii ATCC BAA-894] Length = 235 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 61/225 (27%), Positives = 108/225 (48%), Gaps = 3/225 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ +A +++ + +E DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRASRVTVDGEIVKDSAFKLLADNDVEYDGNPLIQQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D L KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAALFAKGVQLNN--EKDLTKPAQLEVITPTEVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK 238 EG+ ++K++F V L R G +L LA G R +++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVGLHRERIGAIELDPELAPGEYRPLTE 224 >gi|260587785|ref|ZP_05853698.1| ribosomal small subunit pseudouridine synthase A [Blautia hansenii DSM 20583] gi|331083787|ref|ZP_08332896.1| hypothetical protein HMPREF0992_01820 [Lachnospiraceae bacterium 6_1_63FAA] gi|260542050|gb|EEX22619.1| ribosomal small subunit pseudouridine synthase A [Blautia hansenii DSM 20583] gi|330403212|gb|EGG82772.1| hypothetical protein HMPREF0992_01820 [Lachnospiraceae bacterium 6_1_63FAA] Length = 238 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 117/229 (51%), Gaps = 18/229 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV+R I + R+ VNG +++ + + TD + DG + E Sbjct: 5 RLDKYLADMGLGTRTEVKRDIKKGRISVNGEIVKSPEYKIDIQTDVVLADGKEIAYEELV 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G+V+ D + TV D + + + VGRLD +TEGLLL+TNDG LA Sbjct: 65 -YYMLNKPQGVVSATEDRRDK-TVLDLISEKKRKDLFPVGRLDKDTEGLLLITNDGELAH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------QKGSN 186 L P + Y VR + ++ L++G+ I G+ ++TL + +K Sbjct: 123 NLLSPKKHVDKKYFVRLRDALSEEDKKHLEEGVDI-----GEDKLTLPSHVFVLNEKRDE 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 A + + REGK +IK++F +V L R+S G L LL G R Sbjct: 178 AEIVI--REGKFHQIKRMFHAVGNEVVFLKRLSMGSLTLDEALLTGEYR 224 >gi|313500758|gb|ADR62124.1| Pseudouridine synthase [Pseudomonas putida BIRD-1] Length = 210 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 55/183 (30%), Positives = 94/183 (51%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL L++KP ++T SD +GR+T+ F ++P ++ GRLD ++EGLLLLTNDGGL Sbjct: 32 RLILFNKPFDVLTQFSDGEGRATLKDFIDIPGVYP----AGRLDRDSEGLLLLTNDGGLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ ++L L+ G+ + G L+ Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPSDEQLQRLRDGVELNDGPTLPAEARRLEEPELWPRNPP 147 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + +REG+NR+++++ RL+R+ G + L L G REV Sbjct: 148 VRFRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWALDGLEQGCWREVP 207 Query: 238 KKI 240 K+ Sbjct: 208 AKL 210 >gi|307249289|ref|ZP_07531284.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|306858688|gb|EFM90749.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 4 str. M62] Length = 232 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 57/188 (30%), Positives = 93/188 (49%), Gaps = 17/188 (9%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E T + L++KP ++T +D GR T+ D +P +V VGRLD ++EGLLLLTN+G + Sbjct: 38 EDTVVVLFNKPFDVLTQFTDEQGRQTLKDFIP--IPQVYPVGRLDRDSEGLLLLTNNGEI 95 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGS---- 185 L P + + Y + G L L+KG+ ++ G+ + Sbjct: 96 QHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAISAPNYEWQTA 155 Query: 186 ----------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 +W+ + + EGKNR+++++ + RLIRI G FQLG L +G R Sbjct: 156 PKIRERKIIPTSWIELKIHEGKNRQVRRMTAHIGFPTLRLIRIGLGQFQLGELNSGEYRV 215 Query: 236 VSKKILRE 243 + +K R+ Sbjct: 216 LDEKEKRQ 223 >gi|253989219|ref|YP_003040575.1| pseudouridine synthase [Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949] gi|253780669|emb|CAQ83831.1| pseudouridine synthase [Photorhabdus asymbiotica] Length = 161 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 53/160 (33%), Positives = 86/160 (53%), Gaps = 17/160 (10%) Query: 93 GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 GR+T+ D +P FS V + GRLD ++EGLL+LTNDG L L P + +VY V+ G Sbjct: 2 GRTTLKDFIP--FSDVYAAGRLDRDSEGLLILTNDGKLQAQLTQPGKKTAKVYYVQVEGV 59 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTL---------------DTQKGSNAWVTVGLREGK 197 D++ L+ L+KGI+++ V L + + +W+ + L EG+ Sbjct: 60 PDEESLDKLRKGIILKDGLTLPAGVELVNEPTWLWVRHPPIRERKSIPVSWLKITLYEGR 119 Query: 198 NREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 NR+++++ + RLIR S G QLG + G +E++ Sbjct: 120 NRQVRRMTAHIGFPTLRLIRFSMGTLQLGEIKPGEWKEIN 159 >gi|226227546|ref|YP_002761652.1| ribosomal small subunit pseudouridine synthase A [Gemmatimonas aurantiaca T-27] gi|226090737|dbj|BAH39182.1| ribosomal small subunit pseudouridine synthase A [Gemmatimonas aurantiaca T-27] Length = 245 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 74/228 (32%), Positives = 111/228 (48%), Gaps = 13/228 (5%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKV-NGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 +S+ +AR G SR++V+ +I Q RV +G+ L D + VDG PL E Sbjct: 3 LSRYLARLGYGSRKQVDILIRQHRVTTRDGVALRDG--ECPPHDTLAVDGEPLDPPEGA- 59 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SR---VISVGRLDINTEGLLLLTNDGGL 130 + L HKP+G V + +D V++ LPS F SR + +VGRLD +T GLLLLT+DG L Sbjct: 60 VVLLHKPLGYVCSTNDRP--PIVYELLPSRFLSRSPVMATVGRLDADTSGLLLLTDDGAL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAWV 189 + P T + YRV + D+ G ++++G TL V Sbjct: 118 NHRITSPRTHVPKTYRVTLAESLHGDEAAQFASGTLMLKGEDAPLRPATLFVHDART--V 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L EG+ +++++F V L RI+ G L L G R +S Sbjct: 176 DLSLVEGRYHQVRRMFAATGNHVVTLQRIALGSLTLEGLAEGEWRVLS 223 >gi|226327594|ref|ZP_03803112.1| hypothetical protein PROPEN_01465 [Proteus penneri ATCC 35198] gi|225204120|gb|EEG86474.1| hypothetical protein PROPEN_01465 [Proteus penneri ATCC 35198] Length = 303 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 64/229 (27%), Positives = 120/229 (52%), Gaps = 17/229 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K I+ +GI SRRE +R I Q V +NG +RA++ V + D ++V+G + + Sbjct: 18 RLNKYISESGICSRREADRYIEQGLVLING---KRASIGDQVFAGDEVKVNGRLIEAQDN 74 Query: 73 TRLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L L +KP+G+V+T D + + V + + +R+ +GRLD +++GL+ LTN G L Sbjct: 75 SELVLIALNKPVGIVSTTDDGEKDNIV--DYVNHSTRIFPIGRLDKDSQGLIFLTNHGDL 132 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + ++ + G+ I G Q T + A + Sbjct: 133 VNKILRAGNDHEKEYLVTVNKPITDEFIHGMGAGVPIMG------QKTKKCKVKKEAPMV 186 Query: 191 --VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R+ L L G R+++ Sbjct: 187 FRITLVQGLNRQIRRMCEYFGYEVTKLERVRIMNVSLSGLPVGEWRDLT 235 >gi|323455461|gb|EGB11329.1| hypothetical protein AURANDRAFT_61729 [Aureococcus anophagefferens] Length = 294 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 67/231 (29%), Positives = 109/231 (47%), Gaps = 21/231 (9%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---------VPLRKAERTRLWL 77 SRR + +A RV+VNG + ++ + S D + +DG L + Sbjct: 36 SRRAADAAVAAGRVRVNGET-AKPSLRLRSGDTLALDGKKRDWEALAAKLEGGGGLEYYA 94 Query: 78 YHKPIGLVTTHSDPDGRS----TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 YHKP G+ T D RS L + R+ GRLD+++ GL++LTNDG A Sbjct: 95 YHKPEGVACTTDANDRRSLRRAPALKKLFAGGKRIFPAGRLDVDSCGLVVLTNDGAAADA 154 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTL--DTQKGSN 186 PS++ +VY V + D + L G+ I +G TL D +G Sbjct: 155 ALQPSSKLAKVYEVELDRRAADDDVAALAAGVEIATPLQRGSKAEKTGKTLPCDVARGDG 214 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + L EG+NR+++++ E ++V L R+++GP LG L G+ R ++ Sbjct: 215 RGLVITLAEGRNRQLRRMAEALGYEVTGLRRVAFGPVSLGDLRPGTLRPLA 265 >gi|257059246|ref|YP_003137134.1| pseudouridine synthase [Cyanothece sp. PCC 8802] gi|256589412|gb|ACV00299.1| pseudouridine synthase [Cyanothece sp. PCC 8802] Length = 204 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 58/177 (32%), Positives = 92/177 (51%), Gaps = 32/177 (18%) Query: 77 LYHKPIGLVTTHSDPDG----RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA- 131 L++KP G++ +D D R T+ D +P + SVGRLD ++EGLLLLTN+G L Sbjct: 6 LFNKPYGVLCQFTDTDNPNAPRPTLKDYIP--LPDIYSVGRLDFDSEGLLLLTNNGRLKH 63 Query: 132 ----RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS-- 185 R P T W++V R+ D+ L+ L++G++I+ C QV L + + Sbjct: 64 RLSHREFSHPRTYWVQVERI-----PDEIALDRLRQGVLIKDYCTRPAQVKLLATEPNLS 118 Query: 186 -------------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 AW+ + L EG+NR+++++ + RLIRIS G F++G L Sbjct: 119 PRNPPIRYRKTVPTAWLEITLTEGRNRQVRRMTAAIGYPTLRLIRISMG-FKIGKTL 174 >gi|270293127|ref|ZP_06199338.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. M143] gi|270279106|gb|EFA24952.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. M143] Length = 241 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 69/233 (29%), Positives = 122/233 (52%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A+ + SR+ +++ + ++ + V+ A N+ + G +R E T Sbjct: 2 RLDRLLAQEKV-SRKAMKQALLKKEILVDDCPASSLAQNIDTGLQELLFQGRIIRGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LP + +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPPDIQSDSLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + K+GIV + I ++ + + + + + Sbjct: 119 FQLLHPQYHVDKSYQVVVNGPLTSDHIQQFKEGIVFLDEITCKPAKLDILSASPTESRAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK ++KK+F + KV L R+ +G F L + LA G R +++K L+ Sbjct: 179 ITISEGKFHQVKKMFLSVSVKVTALKRVQFGDFTLDSELAEGQYRPLNQKELQ 231 >gi|47096040|ref|ZP_00233642.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes str. 1/2a F6854] gi|254826833|ref|ZP_05231520.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes FSL N3-165] gi|254901132|ref|ZP_05261056.1| hypothetical protein LmonJ_14998 [Listeria monocytogenes J0161] gi|254914018|ref|ZP_05264030.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes J2818] gi|254938333|ref|ZP_05270030.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes F6900] gi|47015637|gb|EAL06568.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes str. 1/2a F6854] gi|258599211|gb|EEW12536.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes FSL N3-165] gi|258610945|gb|EEW23553.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes F6900] gi|293592036|gb|EFG00371.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes J2818] Length = 233 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 69/220 (31%), Positives = 103/220 (46%), Gaps = 10/220 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+++ G SR+EV+ ++ V VNG + + + V D I V G P+ E Sbjct: 2 RLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQITVHGTPVVYQEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG LA Sbjct: 62 YFML-HKPQNVVSATED-NVSETVIDLLAQEDTLTDPFPVGRLDKDTEGLLIITNDGTLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y + G V + GI + G ++ + T + Sbjct: 120 HNLLSPKKHIDKTYYAKIDGDVTAADVEAFAAGIELDDGYTCKPARLEIITPN----EIK 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V ++EGK ++K++F V+ L RIS G QL LA Sbjct: 176 VTIQEGKFHQVKRMFAARGKSVSYLKRISMGNLQLDESLA 215 >gi|225856373|ref|YP_002737884.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae P1031] gi|225725742|gb|ACO21594.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae P1031] Length = 241 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 71/233 (30%), Positives = 120/233 (51%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ + SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKV-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQTFQKGIVFLDGTICKPARLEILSASPSLSQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK +IKK+F KV L RI +G F L LA G+ +++K L+ Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTNLKRIQFGDFTLNPDLAEGNYHPLNQKELQ 231 >gi|313668715|ref|YP_004048999.1| RNA-binding protein [Neisseria lactamica ST-640] gi|313006177|emb|CBN87639.1| putative RNA-binding protein [Neisseria lactamica 020-06] Length = 252 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 74/243 (30%), Positives = 114/243 (46%), Gaps = 30/243 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q RV VNG + AV V D IE+D + Sbjct: 15 RLSKRMAQLGLCSRREADGYIEQGRVTVNG----KTAVLGQKVSPADRIELDKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-----------------FDNLPSIFSRVISVGRL 114 L +KP+G V+ ++ +S FD P + GRL Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITPENRWEGDTGRIRFD--PKHKIGLAPAGRL 128 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +AR L ++ + Y VR G++D+ L LL G+ + G Sbjct: 129 DIDSVGLLVLTQDGRIARQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRP 188 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +V + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 189 AKVEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWR 244 Query: 235 EVS 237 ++ Sbjct: 245 YLA 247 >gi|205374450|ref|ZP_03227246.1| pseudouridylate synthase (ribosomal small subunit pseudouridine synthase A) [Bacillus coahuilensis m4-4] Length = 236 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 73/241 (30%), Positives = 114/241 (47%), Gaps = 30/241 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV+ ++ V VNG + +V S D + V G + E Sbjct: 2 RIDKLLANMGYGSRKEVKSLLKSGNVVVNGTGCKDGKQHVNPSQDEVFVHGEKVVYREFI 61 Query: 74 RLWLYHKPIGLVTTHSD-----------PDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 L L +KP G+++ D PD R VF+ P VGRLD +TEGLL Sbjct: 62 YL-LMNKPQGVISATEDLRDETVIDLLEPDHR--VFNPFP--------VGRLDKDTEGLL 110 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY---GDMQVTL 179 ++TNDG L+ L P + Y G V ++ + +G+ + + GD+ + Sbjct: 111 IITNDGQLSHQLLSPKKHVPKTYYAEVKGVVTEEDVAAFSEGVTLDDGYHTKPGDLVI-- 168 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 G + + + + EGK ++K++FE KV L RI GP L L G RE+S+ Sbjct: 169 -LSSGEMSEIELTITEGKFHQVKRMFESVGKKVVYLQRIKMGPILLDENLELGEYRELSQ 227 Query: 239 K 239 + Sbjct: 228 E 228 >gi|197262149|ref|ZP_03162223.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197240404|gb|EDY23024.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] Length = 231 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 62/226 (27%), Positives = 105/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + Y TL+ +T+ Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKYLTKPATLEVITPVQVRLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F +V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEE 225 >gi|149377823|ref|ZP_01895554.1| 23S rRNA pseudouridine synthase [Marinobacter algicola DG893] gi|149357881|gb|EDM46372.1| 23S rRNA pseudouridine synthase [Marinobacter algicola DG893] Length = 318 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 64/229 (27%), Positives = 114/229 (49%), Gaps = 9/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAER 72 R++K I+ +G+ SRRE +R I V +NG + V+ D + V+G + R E Sbjct: 8 RLNKYISESGMCSRREADRYIENGNVAINGKAAQ-VGDQVLPGDKVTVNGQLIEPRDEED 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP+G+V+T +DP R + +++ R+ +GRLD +++GL+ LT++G L Sbjct: 67 LIFIALNKPVGVVST-TDPAERRNIVNHV-GHGERIFPIGRLDKDSQGLIFLTSNGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + V + + + G+ I G +V +K S + Sbjct: 125 KILRAGNNHEKEYLVTVNKPVTTEFVQGMSAGVPILGTVTKRCKV----EKVSRFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L +G NR+I+++ EFF ++V +L R+ L L G R++ K L Sbjct: 181 LVQGLNRQIRRMCEFFGYEVTKLERVRIMNISLKGLSVGEWRDLGPKEL 229 >gi|84394472|ref|ZP_00993186.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio splendidus 12B01] gi|84374913|gb|EAP91846.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio splendidus 12B01] Length = 364 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 63/233 (27%), Positives = 109/233 (46%), Gaps = 9/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +++I RV +NG + E V+ D +E+D P+R E+ Sbjct: 8 KRLNKYISETGFCSRREADKLIDAGRVTINGKIPE-MGTKVLPGDDVEIDNKPVRSKEKP 66 Query: 74 RLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 67 IYIALNKPTGITCTTERDIPGNIVDF---IGHHKRIFPIGRLDKPSDGLIFLTNDGDIVN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y VR + + L + G+ I + + +K + + Sbjct: 124 KILRAGNNHEKEYVVRVDKPITTEFLKQMGAGVHI----LDTVTLPCKVEKETKFSFRIT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L +G NR+I+++ E ++V +L R+ L + G R +S + + E L Sbjct: 180 LTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDEEITEIL 232 >gi|255533735|ref|YP_003094107.1| pseudouridine synthase [Pedobacter heparinus DSM 2366] gi|255346719|gb|ACU06045.1| pseudouridine synthase [Pedobacter heparinus DSM 2366] Length = 348 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 78/300 (26%), Positives = 144/300 (48%), Gaps = 23/300 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +G+ SRR +R I Q V +NG ++A V V D + V+G + ++ Sbjct: 7 RLNKYISESGLCSRRAADRYIEQGNVYING---KKAKVGDKVFFGDIVTVNGQTIDPKEV 63 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E + L Y+KP+G+ +T ++ + + D++ + RV +GRLD +++GL+ LTN+G L Sbjct: 64 ENSVLIAYNKPVGITST-TEAGVKGNIVDHV-NHSERVFPIGRLDKDSQGLIFLTNNGDL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + KG+ + G+ +V K S Sbjct: 122 VNKILRAGNNHEKEYVVTVNKPLTDQFITGMAKGVPVLGVMTKKCKVV----KESPLIFK 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E+F ++V +L R+ L + G RE++ + L +++ Sbjct: 178 ITLIQGLNRQIRRMCEYFGYEVTKLERVRIMNIPLKGIPLGEWRELTPEELTGIF--NMV 235 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR--MKKNSSQKNGLSKQKKLATPVHRR 308 ++ DA + V +P E +DF SS +N K K A P R Sbjct: 236 AKSSAEADA----TPKRVSKKPKTPKE--EDFLENVTPGRSSGRNAKPKSKGKAAPASVR 289 >gi|218889749|ref|YP_002438613.1| putative pseudouridine synthase [Pseudomonas aeruginosa LESB58] gi|218769972|emb|CAW25734.1| probable pseudouridine synthase [Pseudomonas aeruginosa LESB58] Length = 189 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 56/181 (30%), Positives = 91/181 (50%), Gaps = 16/181 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L L++KP ++T +D GRST+ D +P V GRLD ++EGLLLLTNDG L Sbjct: 10 KLLLFNKPFDVLTQFNDEQGRSTLKDFIP--LPGVYPAGRLDRDSEGLLLLTNDGRLQAR 67 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT----------- 181 + P + + Y V+ G D+ +L L++G+ + G LD Sbjct: 68 IADPRHKLPKTYWVQVEGTPDEKQLRRLREGVTLNDGPTLPAEARLLDEPTLWERVPPVR 127 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + W+ + +REG+NR+++++ RL+R+ GP+ L L G REV + Sbjct: 128 FRKSVPTHWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGPWSLDGLGLGEWREVPAR 187 Query: 240 I 240 + Sbjct: 188 L 188 >gi|68068373|ref|XP_676096.1| pseudouridine synthetase [Plasmodium berghei strain ANKA] gi|56495631|emb|CAH95418.1| pseudouridine synthetase, putative [Plasmodium berghei] Length = 318 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 67/262 (25%), Positives = 120/262 (45%), Gaps = 37/262 (14%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEV-----DGVPLR 68 R++K+I+ SRR+ ++ I +K+N ++ +V ++ D I+V D ++ Sbjct: 47 RLNKLISINNNISRRKSDKFIQNANIKINNKVVLNPGTHVDITKDQIKVHDKKIDIENIK 106 Query: 69 KA----------ERTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRL 114 K + W+ HKP GL+ T+ D R ++F P R++SVGRL Sbjct: 107 KILNNYNISNTNHNSYKWIVMHKPKGLICTNQDEKDRKSIFSIFPDDLLQKYRIVSVGRL 166 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----- 169 D NT G+LL TN+ L P + +R Y + G V D L +L G+ ++ Sbjct: 167 DRNTSGVLLFTNEYTWVNKLTHPKYERVRKYMIHIEGPVRMDALKMLANGVYLKDEDNNK 226 Query: 170 -----------ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 + V + Q + + ++EG+NR+I+K+F+ N + ++ R Sbjct: 227 KKKKKTQPAFIEVLREENVKIQNQIKKITVLNISIKEGRNRQIRKMFQQINQPIVKIKRT 286 Query: 219 SYGPFQLGTL-LAGSTREVSKK 239 ++ L + L RE++KK Sbjct: 287 AFENITLKNIHLPKQYRELTKK 308 >gi|218708762|ref|YP_002416383.1| ribosomal large subunit pseudouridine synthase F [Vibrio splendidus LGP32] gi|218321781|emb|CAV17738.1| Ribosomal large subunit pseudouridine synthase F [Vibrio splendidus LGP32] Length = 379 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 63/234 (26%), Positives = 109/234 (46%), Gaps = 9/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +++I RV +NG + E V+ D +E+D P+R E+ Sbjct: 8 KRLNKYISETGFCSRREADKLIDAGRVTINGKIPE-MGTKVLPGDDVEIDNKPVRSREKP 66 Query: 74 RLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 67 IYIALNKPTGITCTTERDIPGNIVDF---IGHHKRIFPIGRLDKPSDGLIFLTNDGDIVN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y VR + + L + G+ I + + +K + + Sbjct: 124 KILRAGNNHEKEYVVRVDKPITTEFLKQMGAGVHI----LDTVTLPCKVEKETKFSFRIT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ E ++V +L R+ L + G R +S + + E L Sbjct: 180 LTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDEEITEILA 233 >gi|69244107|ref|ZP_00602643.1| Pseudouridine synthase, Rsu [Enterococcus faecium DO] gi|258614116|ref|ZP_05711886.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecium DO] gi|293557176|ref|ZP_06675728.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1039] gi|293563963|ref|ZP_06678370.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1162] gi|293568184|ref|ZP_06679518.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1071] gi|294614323|ref|ZP_06694240.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1636] gi|294619970|ref|ZP_06699342.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1679] gi|294622171|ref|ZP_06701239.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium U0317] gi|314940301|ref|ZP_07847468.1| conserved hypothetical protein [Enterococcus faecium TX0133a04] gi|314941863|ref|ZP_07848734.1| conserved hypothetical protein [Enterococcus faecium TX0133C] gi|314949516|ref|ZP_07852851.1| conserved hypothetical protein [Enterococcus faecium TX0082] gi|314952902|ref|ZP_07855870.1| conserved hypothetical protein [Enterococcus faecium TX0133A] gi|314994523|ref|ZP_07859796.1| conserved hypothetical protein [Enterococcus faecium TX0133B] gi|314995270|ref|ZP_07860382.1| conserved hypothetical protein [Enterococcus faecium TX0133a01] gi|68196564|gb|EAN10990.1| Pseudouridine synthase, Rsu [Enterococcus faecium DO] gi|291589084|gb|EFF20898.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1071] gi|291592795|gb|EFF24387.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1636] gi|291593800|gb|EFF25302.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1679] gi|291598298|gb|EFF29389.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium U0317] gi|291600677|gb|EFF30977.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1039] gi|291604053|gb|EFF33580.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1162] gi|313590526|gb|EFR69371.1| conserved hypothetical protein [Enterococcus faecium TX0133a01] gi|313591101|gb|EFR69946.1| conserved hypothetical protein [Enterococcus faecium TX0133B] gi|313595024|gb|EFR73869.1| conserved hypothetical protein [Enterococcus faecium TX0133A] gi|313599347|gb|EFR78192.1| conserved hypothetical protein [Enterococcus faecium TX0133C] gi|313640477|gb|EFS05057.1| conserved hypothetical protein [Enterococcus faecium TX0133a04] gi|313644130|gb|EFS08710.1| conserved hypothetical protein [Enterococcus faecium TX0082] Length = 239 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 120/237 (50%), Gaps = 11/237 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILL--ERAAVNVMSTDHIEVDGVPLRKAER 72 R+ K +A G+ SR+EV+ +I + ++VNG ++ ++A VN D + G + ++ Sbjct: 2 RLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKAQVNEFE-DAVTYLG-EIITYQK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ HKP G+++ D + TV D L R + VGRLD +TEGLL+LTNDG Sbjct: 60 DFYYILHKPAGVISATQD-NHDQTVIDLLEDQDYREDLFPVGRLDKDTEGLLILTNDGVF 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNA 187 A L P + Y G + ++ + L +G++I G +Q+ Q+ + Sbjct: 119 AHQLLSPKKHVEKEYLAEVSGIMTEEDIRLFAEGLIIDGDEQTLPAKLQIDQVDQETETS 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + L EGK ++K++ + +V L RI G F L L G R ++K+ L + Sbjct: 179 IIRLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGKFWLPKDLNKGQYRPMTKEELEQ 235 >gi|295095390|emb|CBK84480.1| ribosomal large subunit pseudouridine synthase F [Enterobacter cloacae subsp. cloacae NCTC 9394] Length = 290 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 68/233 (29%), Positives = 118/233 (50%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V+ D ++V+G + R A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVVPGDVVKVNGQVIEPRDA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +KP+G+V+T D + R + D + SR+ +GRLD +++GL+ LTN G L Sbjct: 65 EDLVFIALNKPVGIVSTTEDGE-RDNIVD-FVNHSSRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + + G+ I G +V +K + Sbjct: 123 VNKILRAGNDHEKEYIVTVNKPVTDEFIRGMGAGVPILGTVTKKCKV----RKEAPFAFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E+F ++V +L R L + G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIE 231 >gi|170727048|ref|YP_001761074.1| pseudouridine synthase [Shewanella woodyi ATCC 51908] gi|169812395|gb|ACA86979.1| pseudouridine synthase [Shewanella woodyi ATCC 51908] Length = 235 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 50/177 (28%), Positives = 88/177 (49%), Gaps = 16/177 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P V + GRLD ++EGLLLLTNDG L L Sbjct: 55 LFNKPFDVLCQFTDEQGRQTLKDFIP--IPGVYAAGRLDRDSEGLLLLTNDGKLQSKLTE 112 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P + + Y + G D+ +L+LL+KG+ ++ ++++ +Q Sbjct: 113 PKKKTFKTYWAQVEGAPDEAQLDLLRKGVELKDGMTLPAKISIMSQPTVWERVPPIRERK 172 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 W+ + + EG+NR+++++ + RLIR G + L L G + + K Sbjct: 173 AIPTTWLEIQICEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDDLSPGQYQSIDMK 229 >gi|251794145|ref|YP_003008876.1| pseudouridine synthase [Paenibacillus sp. JDR-2] gi|247541771|gb|ACS98789.1| pseudouridine synthase [Paenibacillus sp. JDR-2] Length = 233 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 63/232 (27%), Positives = 113/232 (48%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE ++++ RV +NG E + + D + +DG + + + Sbjct: 2 RINKFISETGYCSRREADKLVDSGRVTINGAKAELGSQAELGDD-VRIDGKRIGEQKHHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ +T ++ R + D + R+ +GRLD ++EGL+LLTNDG + + Sbjct: 61 YIALNKPVGITST-TELHIRGNIVDFVGH-KERIFPIGRLDKDSEGLILLTNDGDVVNPI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V V + + + G+ I G M + + + + L Sbjct: 119 LRSEGKHEKEYIVTVDRPVTAEFVKGMSSGVRI----LGSMTLPCQVTRVAERVFRIVLT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNR+I+++ E F + V +L RI LG L G R++++ E G Sbjct: 175 EGKNRQIRRMCEAFGYHVRKLQRIRIMNIHLGQLPTGKWRDLTETEKAELFG 226 >gi|257420928|ref|ZP_05597918.1| pseudouridine synthase [Enterococcus faecalis X98] gi|300861842|ref|ZP_07107922.1| pseudouridylate synthase [Enterococcus faecalis TUSoD Ef11] gi|257162752|gb|EEU92712.1| pseudouridine synthase [Enterococcus faecalis X98] gi|300848367|gb|EFK76124.1| pseudouridylate synthase [Enterococcus faecalis TUSoD Ef11] Length = 244 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 74/240 (30%), Positives = 121/240 (50%), Gaps = 10/240 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L ++ Sbjct: 2 RLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEIL-TYQKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ HKP G+++ D TV D L R + VGRLD +TEGLLLLTNDG LA Sbjct: 61 FYYMLHKPQGVISATEDQRD-ETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT--QKGSNAW 188 L P + Y G V + L +G ++ G ++ ++T ++ + Sbjct: 120 HQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEIVKPSRLVIETINEEEGTSV 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGP 247 V + ++EGK ++K++ V L R+ G L TL G R +++ L +QL P Sbjct: 180 VRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGGYRPLTEAEL-QQLQP 238 >gi|229030086|ref|ZP_04186150.1| Pseudouridine synthase [Bacillus cereus AH1271] gi|228731256|gb|EEL82174.1| Pseudouridine synthase [Bacillus cereus AH1271] Length = 248 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 69/239 (28%), Positives = 120/239 (50%), Gaps = 7/239 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K ++++ R++K I+ AG ASRR +++I ++RV +NG + + V D + Sbjct: 1 MSLKFCLEKDVPNLRINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDV 59 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 V+G LR A +KP+G+ T S+ + + D L + R+ +GRLD +++G Sbjct: 60 RVNGEQLRIARDHVYIALNKPVGITCT-SEKAVKGNIID-LVNHPLRISHIGRLDKDSDG 117 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+LLTNDG + + + + Y V + D L + G+ I G ++T Sbjct: 118 LILLTNDGDIVNEILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL 177 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ N +T GL NR+I+++ E ++V L R +L L G R++SKK Sbjct: 178 SKYEFNIILTQGL----NRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKK 232 >gi|169829656|ref|YP_001699814.1| putative RNA pseudouridine synthase ytzF [Lysinibacillus sphaericus C3-41] gi|168994144|gb|ACA41684.1| Hypothetical RNA pseudouridine synthase ytzF [Lysinibacillus sphaericus C3-41] Length = 237 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 67/227 (29%), Positives = 114/227 (50%), Gaps = 6/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ Q+ V V+G ++ AA++V ++ V G + E Sbjct: 2 RLDKLLANMGYGSRKEVKQLLKQKAVTVDGASVKDAAMHVDPEQQNVSVYGERVIYTEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ D TV D L + VGRLD +TEGLL+LTNDG LA Sbjct: 62 -YFMMNKPPGVISATEDLRDE-TVIDLLEPVDQHFQPFPVGRLDKDTEGLLVLTNDGILA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P +VY G V ++ + G+ + + + + + + Sbjct: 120 HNLLSPKKHVPKVYYAHIEGVVTEEDVEKFANGVELDDGYMTKPGKLVILKSAPQSEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 ++EGK ++K++FE +V L RIS G +L L G RE++ Sbjct: 180 TIQEGKFHQVKRMFEAVGKRVTYLKRISMGNLKLDDQLELGEYRELT 226 >gi|257458444|ref|ZP_05623584.1| ribosomal small subunit pseudouridine synthase A [Treponema vincentii ATCC 35580] gi|257444145|gb|EEV19248.1| ribosomal small subunit pseudouridine synthase A [Treponema vincentii ATCC 35580] Length = 246 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 67/239 (28%), Positives = 118/239 (49%), Gaps = 23/239 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE--- 71 R+ K++A G+ S++++ R++ ++ ++NG + A ++ +H + R E Sbjct: 4 RIDKILAANGLGSQKDIRRLLRKEDFRINGTRVTDAG-TLLDPEHDALS----RNGETLH 58 Query: 72 -RTRLWLY-HKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTND 127 RT +L +KP G+VT+ +DP STV + LP F + +GRLD++TEGLL++TND Sbjct: 59 LRTCCYLMLNKPAGVVTSTADPL-HSTVMELLPPPFPAMELFPIGRLDLDTEGLLIITND 117 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------D 180 G L L P + ++ Y + + + +G+ G L Sbjct: 118 GALTHRLTAPKSACIKSYYLETAEPFTESTFTAARIACA-EGLPLGKNFTCLPATFERTT 176 Query: 181 TQKGSNAWV-TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 +Q+ W + + EGK ++KK+ + +V L RI+ G L L AGS RE++ Sbjct: 177 SQRVKTEWAFLMHICEGKYHQVKKMVKALGNEVVYLKRIAMGGVTLDPKLPAGSCRELT 235 >gi|229161332|ref|ZP_04289317.1| Pseudouridine synthase [Bacillus cereus R309803] gi|228622146|gb|EEK78987.1| Pseudouridine synthase [Bacillus cereus R309803] Length = 238 Score = 83.6 bits (205), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 67/225 (29%), Positives = 114/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T ++ N +T GL Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQLSKYEFNIILTQGL- 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 NR+I+++ E ++V L R +L L G R++SKK Sbjct: 181 ---NRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKK 222 >gi|227817496|ref|YP_002817505.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. CDC 684] gi|227006383|gb|ACP16126.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. CDC 684] Length = 214 Score = 83.6 bits (205), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 64/206 (31%), Positives = 107/206 (51%), Gaps = 9/206 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + + G + E Sbjct: 2 RLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G+++ D D TV D L +IF+ VGRLDI+TEG LL+TNDG L Sbjct: 62 YLMM-HKPQGVISATED-DNHETVIDLLELEDAIFNP-FPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 + L P + Y G V ++ + KG+++ Y L K + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGALTILKSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRL 215 + + EGK ++K++FE K + L Sbjct: 178 ELVITEGKFHQVKRMFEAVGEKSSLL 203 >gi|329576942|gb|EGG58425.1| pseudouridylate synthase [Enterococcus faecalis TX1467] Length = 257 Score = 83.6 bits (205), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 77/258 (29%), Positives = 127/258 (49%), Gaps = 18/258 (6%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEIL-TYQKFFYYMLHKPQGVISATEDQRD-ETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ- 176 TEGLLLLTNDG LA L P + Y G V + L +G ++ G+M Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKD---GEMVK 175 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLL 229 T++ ++G++ V + ++EG+ ++K++ V L R+ G L TL Sbjct: 176 PSRLVIETINEEEGTSV-VRLVIQEGEFHQVKRMLATVGKPVTYLKRLRMGELWLDETLE 234 Query: 230 AGSTREVSKKILREQLGP 247 G R +++ L +QL P Sbjct: 235 LGEYRPLTEAEL-QQLQP 251 >gi|319779597|ref|YP_004130510.1| tRNA pseudouridine synthase A [Taylorella equigenitalis MCE9] gi|317109621|gb|ADU92367.1| tRNA pseudouridine synthase A [Taylorella equigenitalis MCE9] Length = 241 Score = 83.6 bits (205), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 113/235 (48%), Gaps = 22/235 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 RVSK+++ GI SRRE + I + VK +G ++ V+ + +D L + Sbjct: 5 RVSKLLSEQGICSRREADVFIERGWVKADGNVVS-LGTKVLPNAKLTLDKKALESKSKQV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV--------FDNLPSIFSR-----VISVGRLDINTEGL 121 + +KP+G V++ + + +S + +D + + FS + + GRLDI ++GL Sbjct: 64 TIILNKPVGYVSSQPEKNYKSALSLITKANQYDRVHNEFSESHLKGLATAGRLDIESQGL 123 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-- 179 L++T DG +A+ L ++ + Y VR G++ + L LL G+ + G D +V Sbjct: 124 LVMTQDGSIAKQLIGEDSEVEKEYIVRVEGKLSERGLQLLNHGLSLDGQPLRDAEVEWIN 183 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 D Q W EGK R+I+++ E KV L R+ G L L G R Sbjct: 184 DDQLRFILW------EGKKRQIRRMCELVGLKVIGLKRVRMGNVTLADLPTGKWR 232 >gi|260438469|ref|ZP_05792285.1| ribosomal large subunit pseudouridine synthase B [Butyrivibrio crossotus DSM 2876] gi|292809058|gb|EFF68263.1| ribosomal large subunit pseudouridine synthase B [Butyrivibrio crossotus DSM 2876] Length = 240 Score = 83.6 bits (205), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 61/226 (26%), Positives = 118/226 (52%), Gaps = 5/226 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+++G+ SRR +++I + V +NG++ E + V D + +D + + + Sbjct: 5 RINKYISKSGVCSRRAADKLINEGHVTINGVVAETGS-KVTEKDIVRIDDDIINLIKDIK 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ ++KP+G +++ SD G + + LP + VGRLD ++EGL+L+TNDG L + Sbjct: 64 VYAFYKPVGYISSLSDEQG-TGIASFLPQGMG-LFPVGRLDKDSEGLMLITNDGNLMNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGSNAWVTVG 192 S + Y V + + D L + KG+ I G +T T+ + + Sbjct: 122 LNASNGHEKEYIVTTRQKFNNDFLVKMAKGVPITNRATGKKIITAPCKTEALEDNSFKIT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + +G NR+I+++ +F+ V L R+ LG + G +E+S+ Sbjct: 182 IIQGLNRQIRRMCGYFDIDVVSLKRVRIMNIMLGNMRPGELKELSQ 227 >gi|165975545|ref|YP_001651138.1| pseudouridylate synthase [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|303250222|ref|ZP_07336423.1| pseudouridylate synthase [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|303251911|ref|ZP_07338082.1| ribosomal large subunit pseudouridine synthase E [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|307244890|ref|ZP_07526988.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|307247067|ref|ZP_07529120.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|307251610|ref|ZP_07533516.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|165875646|gb|ABY68694.1| probable pseudouridylate synthase [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|302649341|gb|EFL79526.1| ribosomal large subunit pseudouridine synthase E [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|302650933|gb|EFL81088.1| pseudouridylate synthase [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|306854212|gb|EFM86419.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|306856436|gb|EFM88586.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|306860921|gb|EFM92928.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 6 str. Femo] Length = 231 Score = 83.6 bits (205), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 56/188 (29%), Positives = 95/188 (50%), Gaps = 17/188 (9%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E T + L++KP ++T +D GR T+ D +P ++ VGRLD ++EGLLLLTN+G + Sbjct: 37 EDTVVVLFNKPFDVLTQFTDEQGRQTLKDFIP--IPQIYPVGRLDRDSEGLLLLTNNGEI 94 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL---------- 179 L P + + Y + G L L+KG+ ++ G+ + Sbjct: 95 QHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAISAPNYEWQTA 154 Query: 180 ----DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + +W+ + + EGKNR+++++ + RLIRI G FQLG L +G R Sbjct: 155 PKIRERKTIPTSWIELKIHEGKNRQVRRMTAHIGFPTLRLIRIGLGQFQLGELNSGEYRV 214 Query: 236 VSKKILRE 243 + +K R+ Sbjct: 215 LDEKEKRQ 222 >gi|257900337|ref|ZP_05679990.1| pseudouridine synthase [Enterococcus faecium Com15] gi|257838249|gb|EEV63323.1| pseudouridine synthase [Enterococcus faecium Com15] Length = 255 Score = 83.6 bits (205), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 120/237 (50%), Gaps = 11/237 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILL--ERAAVNVMSTDHIEVDGVPLRKAER 72 R+ K +A G+ SR+EV+ +I + ++VNG ++ ++A VN D + G + ++ Sbjct: 18 RLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKAQVNEFE-DTVTYLG-EIIAYQK 75 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ HKP G+++ D + TV D L R + VGRLD +TEGLL+LTNDG Sbjct: 76 DFYYILHKPAGVISATQD-NHDQTVIDLLEDQDYREDLFPVGRLDKDTEGLLILTNDGVF 134 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNA 187 A L P + Y G + ++ + L +G++I G +Q+ Q+ + Sbjct: 135 AHQLLSPKKHVEKEYLAEVSGIMTEEDIRLFAEGLIIDGDEQTLPAKLQIDQVDQESETS 194 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + L EGK ++K++ + +V L RI G F L L G R ++K+ L + Sbjct: 195 IIRLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGNFCLPKDLNRGQYRPMTKEELEQ 251 >gi|170725411|ref|YP_001759437.1| pseudouridine synthase [Shewanella woodyi ATCC 51908] gi|169810758|gb|ACA85342.1| pseudouridine synthase [Shewanella woodyi ATCC 51908] Length = 236 Score = 83.6 bits (205), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 71/233 (30%), Positives = 120/233 (51%), Gaps = 6/233 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + I++ +R+ V M+A+ +V+V+G L + V HI V+ ++ + + Sbjct: 7 RLDRFISQHLKINRKNVRLMLAKGQVRVDGELARDIDLIVDEFSHICVNDEVIQAKQASY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 + L HKP+G+V+ D D TV + L + VGRLD+NT GLLLLTNDG ++ Sbjct: 67 IML-HKPVGVVSATVD-DKHKTVIELLKCDDRNSLHIVGRLDLNTSGLLLLTNDGRWSKQ 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + ++YRV + + ++ KG+ + + L+ A VT L Sbjct: 125 LMDPEYKVGKLYRVELQNPLTVEYISAFAKGMYFEFEDITTLPAELEIVDSHTALVT--L 182 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 EG+ +IK++F F V L RIS G L TL +G +R ++ + ++ +L Sbjct: 183 YEGRYHQIKRMFGRFRNPVVGLHRISVGQIVLDKTLASGQSRPLTPEEIKHKL 235 >gi|87120132|ref|ZP_01076028.1| putative pseudouridine synthase [Marinomonas sp. MED121] gi|86164834|gb|EAQ66103.1| putative pseudouridine synthase [Marinomonas sp. MED121] Length = 376 Score = 83.6 bits (205), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 67/238 (28%), Positives = 119/238 (50%), Gaps = 17/238 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRK 69 T R++K I+ +G+ SRRE +R I Q V +N +RA V V D + V+G + Sbjct: 5 TSTRLNKYISESGMCSRREADRFIEQGNVFIN---KKRAEVGDQVNPGDVVRVNGAKIEP 61 Query: 70 AERTRLWL--YHKPIGLVTT--HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L +KP+G+V+T +PD + ++ SR+ +GRLD +++GL+ LT Sbjct: 62 PEAEDLVFIALNKPVGIVSTTEMEEPDNMVSFVNH----SSRIFPIGRLDKDSQGLIFLT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 ++G L + + Y V + +D +N + G+ + G +V Q+ Sbjct: 118 SNGDLVNKILRAGNNHEKEYVVTVDKPLTEDAINTMASGVPMLGTKTKKCKV---VQEAP 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 N + + L +G NR+I+++ EF ++V L R+ L L G R++++K + E Sbjct: 175 NVF-RIFLVQGLNRQIRRMCEFCGYQVTELERVRIMNISLKGLPVGDWRDLTEKEMTE 231 >gi|125623931|ref|YP_001032414.1| ribosomal large subunit pseudouridine synthase [Lactococcus lactis subsp. cremoris MG1363] gi|124492739|emb|CAL97694.1| ribosomal large subunit pseudouridine synthase [Lactococcus lactis subsp. cremoris MG1363] gi|300070705|gb|ADJ60105.1| ribosomal large subunit pseudouridine synthase [Lactococcus lactis subsp. cremoris NZ9000] Length = 177 Score = 83.6 bits (205), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 52/175 (29%), Positives = 94/175 (53%), Gaps = 21/175 (12%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L++KP ++T +D +GR T+ D +P++++ GRLD ++EGLLLLT+DG L +L Sbjct: 4 LFNKPFDVLTKFTDSEGRKTLKDYIEIPNVYA----AGRLDKDSEGLLLLTDDGKLNHLL 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--------------- 179 P ++ + Y V+ G+ + L+KG++++ +V L Sbjct: 60 TDPKSKSFKTYLVQVEGEFSIEAAQKLEKGVLLKDGKTLPAKVKLIDEPEWLWERTPPIR 119 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +WV + ++EGKNR+I+++ + RLIR S G + LG L +G + Sbjct: 120 ERKAIPTSWVEISIKEGKNRQIRRMTAAVGFPTLRLIRWSIGQYTLGNLKSGDYK 174 >gi|313632172|gb|EFR99245.1| ribosomal small subunit pseudouridine synthase A [Listeria seeligeri FSL N1-067] Length = 233 Score = 83.6 bits (205), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 67/214 (31%), Positives = 100/214 (46%), Gaps = 8/214 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+++ G SRREV+ ++ V VNG++ + + V D I V G P+ E Sbjct: 2 RLDKLLSHTGFGSRREVKPLLKSGSVVVNGVIQKDSKSQVNPEKDQITVHGNPVIYQEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG LA Sbjct: 62 YFML-HKPQNVVSATED-NLSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + + GI + Y L+ + VT+ Sbjct: 120 HNLLSPKKHIDKTYYAKIEGDVTATDVEAFRTGITLDD-GYTCKPAHLEIMAPNEIRVTI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +EGK ++K++F V L R+S G L Sbjct: 179 --QEGKFHQVKRMFAATGKTVTYLKRLSMGKLML 210 >gi|75765038|ref|ZP_00744346.1| Ribosomal large subunit pseudouridine synthase B [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|74487472|gb|EAO51380.1| Ribosomal large subunit pseudouridine synthase B [Bacillus thuringiensis serovar israelensis ATCC 35646] Length = 100 Score = 83.6 bits (205), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 43/96 (44%), Positives = 60/96 (62%), Gaps = 1/96 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 LY KP G++++ SD GRS V D P I R+ Sbjct: 62 YFLLY-KPTGVISSVSDDKGRSVVTDFFPEITQRLF 96 >gi|223041724|ref|ZP_03611918.1| ribosomal large subunit pseudouridine synthase E [Actinobacillus minor 202] gi|223017462|gb|EEF15879.1| ribosomal large subunit pseudouridine synthase E [Actinobacillus minor 202] Length = 224 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 62/196 (31%), Positives = 99/196 (50%), Gaps = 24/196 (12%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E T + L++KP ++T +D GR T+ F ++P I+ VGRLD ++EGLLLLTN+G Sbjct: 29 EETIIVLFNKPYDVLTQFTDEQGRKTLKDFIDIPKIYP----VGRLDRDSEGLLLLTNNG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT------LDTQ 182 + L P + + Y V+ G Q L L+KG+ ++ + D Q Sbjct: 85 EIQHRLAHPKFEKEKTYWVQVEGIPSQADLAKLEKGVELKDGLTQPAKAKQIEAPDFDWQ 144 Query: 183 KG---------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +W+ + + EGKNR+++++ + RLIR+ G +QLG L +G Sbjct: 145 TAPKIRERKTVPTSWIELKITEGKNRQVRRMTAHIGFPTLRLIRVGLGHYQLGELGSGEY 204 Query: 234 REVS---KKILREQLG 246 R +S K L +QLG Sbjct: 205 RILSLSEKSRLFKQLG 220 >gi|167035821|ref|YP_001671052.1| pseudouridine synthase [Pseudomonas putida GB-1] gi|166862309|gb|ABZ00717.1| pseudouridine synthase [Pseudomonas putida GB-1] Length = 212 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 56/183 (30%), Positives = 93/183 (50%), Gaps = 16/183 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL L++KP ++T SD +GR+T+ D + + V GRLD ++EGLLLLTNDGGL Sbjct: 32 RLILFNKPFDVLTQFSDCEGRATLKDFI--DIAGVYPAGRLDRDSEGLLLLTNDGGLQAR 89 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT----------- 181 + P + + Y V+ G+ ++L L+ G+ + G L+ Sbjct: 90 IADPKHKLAKTYWVQVEGEPSDEQLQRLRDGVELNDGPTLPAEARRLEEPELWPRNPPVR 149 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + +W+ + +REG+NR+++++ RL+R+ G + L L G REV K Sbjct: 150 FRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWALDGLEQGCWREVPAK 209 Query: 240 ILR 242 + R Sbjct: 210 LKR 212 >gi|330502301|ref|YP_004379170.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas mendocina NK-01] gi|328916587|gb|AEB57418.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas mendocina NK-01] Length = 230 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 60/217 (27%), Positives = 107/217 (49%), Gaps = 4/217 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ SR++ +I+ R++V+G ++ ++ +E+D L+ R Sbjct: 2 RLDRFLSNFSRFSRQDSRLLISAGRLRVDGEIIIDPRFDIRDFQRVELDDELLQAGRSAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 W+ HKP+G+V+ ++ D TV D L + + GRLD+NT GLLL+TNDG +R Sbjct: 62 YWMLHKPVGVVSA-TEHDEHRTVLDLLDEPDKHELHLAGRLDLNTSGLLLITNDGLWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + +VY V + ++ + +G+ + LD +A +T L Sbjct: 121 ITQPQQRKPKVYHVTTEQPITEEYAEVFARGLYFAFEDLTTLPAQLDVLDSHHARLT--L 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EG+ ++K++F F +V L R S G L LA Sbjct: 179 FEGRYHQVKRMFGHFRNRVVALHRESMGEIVLDPQLA 215 >gi|268608512|ref|ZP_06142239.1| 16s pseudouridylate synthase [Ruminococcus flavefaciens FD-1] Length = 255 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 62/211 (29%), Positives = 102/211 (48%), Gaps = 8/211 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K I+ +R +++ + A+ V VNG ++R+ + D + V G + +ER Sbjct: 5 RLDKFISERTEYTRSQIKSLCAKGSVTVNGSPVKRSDTKIDTGADDVTVCGNAI-SSERF 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 R L +KP G V++ D DG + + P + S+ + GRLD ++ G LL+T+DG LA Sbjct: 64 RYILLNKPKGYVSSTDDKDGETVIKLVPPEMRSKGLFPAGRLDKDSTGALLITDDGALAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA--WVT 190 + P+ ++Y +Q+ + KGIV+ G+ QK NA Sbjct: 124 RICSPNNHISKIYAAELSRPFEQEYVEKFAKGIVLAN---GEACSPCKVQKAENADNLAF 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V L EG ++K++F V L RIS G Sbjct: 181 VELHEGMYHQVKRMFAAVGNHVENLKRISIG 211 >gi|295115835|emb|CBL36682.1| ribosomal small subunit pseudouridine synthase A [butyrate-producing bacterium SM4/1] Length = 346 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 70/241 (29%), Positives = 117/241 (48%), Gaps = 20/241 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ + + SR EV++MI RV V+G A + S + +DG + A Sbjct: 6 RLDRYLVEMKKGSRSEVKKMIKSGRVSVDGETCREAERKIQPSASEVSLDGTQVGYAA-Y 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ + DGR +L R + VGRLDI+TEGLLL+TNDG LA Sbjct: 65 EYFMLNKPAGVVS--ATEDGRHKTVVSLIEDAKRRDLFPVGRLDIDTEGLLLITNDGKLA 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN----- 186 L P + Y R G++ ++ + K+G+ ++ + L QK S Sbjct: 123 HRLLSPKKHVDKTYFARVEGRLPENAIEQFKEGLTLEDGTR-TLPARLVIQKASGTAEDD 181 Query: 187 -------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK 238 + + + + EGK ++K++FE +V L R+S G +L LA G+ R +++ Sbjct: 182 GKADSSLSEIELTIHEGKFHQVKRMFEAVGCRVVYLKRLSMGSLRLDESLAPGAYRRLTE 241 Query: 239 K 239 + Sbjct: 242 E 242 >gi|305664746|ref|YP_003861033.1| pseudouridine synthase, Rsu [Maribacter sp. HTCC2170] gi|88707868|gb|EAR00107.1| pseudouridine synthase, Rsu [Maribacter sp. HTCC2170] Length = 245 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 56/207 (27%), Positives = 105/207 (50%), Gaps = 11/207 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRR +++I Q RV +NG + E ++S D + VDG + + + Sbjct: 7 RINKYLSEVGYCSRRAADKLIDQGRVTINGKVPE-MGTKIISGDEVRVDGELISEPKEKP 65 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++L ++KPIG+V T + + D N P R+ +GRLD ++GL+ LTNDG + Sbjct: 66 VYLAFNKPIGIVCTTDTRVEKDNIIDFINYPK---RIFPIGRLDKPSQGLIFLTNDGDIV 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V +++ L+ + G+ I ++T + + + Sbjct: 123 NKILRARNHHEKEYLVTVDKPINKKFLDQMASGVPILDTVTRKCEIT----EVNKYQFKI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRI 218 L +G NR+I+++ E+ + V +L RI Sbjct: 179 ILTQGLNRQIRRMCEYLGYNVKKLKRI 205 >gi|299541884|ref|ZP_07052207.1| ribosomal large subunit pseudouridine synthase F [Lysinibacillus fusiformis ZC1] gi|298725622|gb|EFI66263.1| ribosomal large subunit pseudouridine synthase F [Lysinibacillus fusiformis ZC1] Length = 233 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 67/228 (29%), Positives = 110/228 (48%), Gaps = 13/228 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV--NVMSTDHIEVDGVPLRKAER 72 R++K ++ GI SRR ++ IA+ +V +NG E A V V + D + VDG ++K ++ Sbjct: 2 RINKYLSETGIISRRGADKWIAEGKVTING---EVATVGSQVEAGDIVCVDGKEVKKEQQ 58 Query: 73 TRLWLYHKPIGLV-TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP+G+ TT G F N P R+ +GRLD +EGLLLLTNDG + Sbjct: 59 LVYIALNKPVGITSTTERHIKGNVVDFVNHPL---RIFHIGRLDKESEGLLLLTNDGDIV 115 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V+ + + + G+ I + +K S + Sbjct: 116 NKILRAENHHEKEYIVQVDKPITAQFIQKMGAGVDI----LDTTTLPCHVEKISEKVFKI 171 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L +G NR+I+++ + V RL RI +LG L G R++++K Sbjct: 172 ILEQGLNRQIRRMCSALGYSVKRLQRIRIMNIKLGNLKVGQWRDLTEK 219 >gi|225023283|ref|ZP_03712475.1| hypothetical protein EIKCOROL_00135 [Eikenella corrodens ATCC 23834] gi|224943928|gb|EEG25137.1| hypothetical protein EIKCOROL_00135 [Eikenella corrodens ATCC 23834] Length = 246 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 113/240 (47%), Gaps = 24/240 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R+SK +A G+ SRRE + I + V VNG E+A + V D IE+ + Sbjct: 9 RLSKRMAELGLCSRREADAYIERGWVSVNG---EKAVLGQKVGEGDRIELHRAAHEEQAG 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVF----------DNLPSIFSR-----VISVGRLDIN 117 L HKP+G V+ ++ RS D P F + GRLDI+ Sbjct: 66 RVTILLHKPVGFVSGQAEKGYRSAAELITEANHWPEDRSPQKFKAAHRHGLAPAGRLDID 125 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + GLL+LT DG +A+ L ++ + Y VR G++ ++ L LL G+ + G +V Sbjct: 126 SVGLLVLTQDGRVAKSLIGENSGVEKEYLVRVKGKLSEEGLRLLNHGLKLDGEALRPAKV 185 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + Q + L++GK R+I+++ E +V L RI G +LG L G R ++ Sbjct: 186 SWQNQD----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRIGKVKLGALPPGQWRYLA 241 >gi|217963560|ref|YP_002349238.1| RNA pseudouridine synthase family protein [Listeria monocytogenes HCC23] gi|290893629|ref|ZP_06556611.1| rsuA protein [Listeria monocytogenes FSL J2-071] gi|217332830|gb|ACK38624.1| RNA pseudouridine synthase family protein [Listeria monocytogenes HCC23] gi|290556831|gb|EFD90363.1| rsuA protein [Listeria monocytogenes FSL J2-071] gi|307571864|emb|CAR85043.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes L99] Length = 233 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 67/214 (31%), Positives = 101/214 (47%), Gaps = 8/214 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+++ G SR+EV+ ++ V VNG + + + V D + V G P+ E Sbjct: 2 RLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGTPVVYQEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG LA Sbjct: 62 YFML-HKPQNVVSATED-NVSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + + GI + Y L+ + VT+ Sbjct: 120 HNLLSPKKHIDKTYYAKIDGDVVAEDVTAFADGITLDD-GYTCKPARLEIINPNEIKVTI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +EGK ++K++F V+ L RIS G QL Sbjct: 179 --QEGKFHQVKRMFAARGKTVSYLKRISMGNLQL 210 >gi|224499021|ref|ZP_03667370.1| hypothetical protein LmonF1_04688 [Listeria monocytogenes Finland 1988] gi|254831233|ref|ZP_05235888.1| hypothetical protein Lmon1_07742 [Listeria monocytogenes 10403S] Length = 233 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 68/214 (31%), Positives = 101/214 (47%), Gaps = 8/214 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+++ G SR+EV+ ++ V VNG + + + V D I V G P+ E Sbjct: 2 RLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQITVHGTPVVYQEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG LA Sbjct: 62 YFML-HKPQNVVSATED-NVSETVIDLLAQEDTLTDPFPVGRLDKDTEGLLIITNDGTLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + GI + Y +L+ + VT+ Sbjct: 120 HNLLSPKKHIDKTYYAKIDGDVTAADVEAFAAGIELDD-GYTCKPASLEIITPNEINVTI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +EGK ++K++F V+ L RIS G QL Sbjct: 179 --QEGKFHQVKRMFAARGKTVSYLKRISMGNLQL 210 >gi|46908512|ref|YP_014901.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes serotype 4b str. F2365] gi|47092440|ref|ZP_00230230.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes str. 4b H7858] gi|226224887|ref|YP_002758994.1| 16S pseudouridylate synthase [Listeria monocytogenes Clip81459] gi|254825083|ref|ZP_05230084.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes FSL J1-194] gi|254854294|ref|ZP_05243642.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes FSL R2-503] gi|254933330|ref|ZP_05266689.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes HPB2262] gi|254992010|ref|ZP_05274200.1| 16S pseudouridylate synthase [Listeria monocytogenes FSL J2-064] gi|255521704|ref|ZP_05388941.1| 16S pseudouridylate synthase [Listeria monocytogenes FSL J1-175] gi|300763910|ref|ZP_07073906.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes FSL N1-017] gi|46881784|gb|AAT05078.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes serotype 4b str. F2365] gi|47019217|gb|EAL09960.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes str. 4b H7858] gi|225877349|emb|CAS06063.1| Putative 16S pseudouridylate synthase [Listeria monocytogenes serotype 4b str. CLIP 80459] gi|258607686|gb|EEW20294.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes FSL R2-503] gi|293584891|gb|EFF96923.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes HPB2262] gi|293594326|gb|EFG02087.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes FSL J1-194] gi|300515251|gb|EFK42302.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes FSL N1-017] gi|328465377|gb|EGF36624.1| 16S pseudouridylate synthase [Listeria monocytogenes 1816] gi|328471562|gb|EGF42442.1| 16S pseudouridylate synthase [Listeria monocytogenes 220] gi|332312766|gb|EGJ25861.1| Ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes str. Scott A] Length = 233 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 68/215 (31%), Positives = 102/215 (47%), Gaps = 10/215 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+++ G SR+EV+ ++ V VNG + + + V D + V G P+ E Sbjct: 2 RLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGTPVVYQEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG LA Sbjct: 62 YFML-HKPQNVVSATED-NVSETVIDLLAQEDTLTDPFPVGRLDKDTEGLLIITNDGTLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y + G V + GI + G ++ + T N Sbjct: 120 HNLLSPKKHIDKTYYAKIDGDVTLADVEAFAAGIELDDGYTCKPARLEIITPNEIN---- 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V ++EGK ++K++F KV+ L RIS G QL Sbjct: 176 VTIQEGKFHQVKRMFAARGKKVSYLKRISMGNLQL 210 >gi|257880467|ref|ZP_05660120.1| pseudouridine synthase [Enterococcus faecium 1,230,933] gi|257883279|ref|ZP_05662932.1| pseudouridine synthase [Enterococcus faecium 1,231,502] gi|257886356|ref|ZP_05666009.1| pseudouridine synthase [Enterococcus faecium 1,231,501] gi|257891502|ref|ZP_05671155.1| pseudouridine synthase [Enterococcus faecium 1,231,410] gi|257894555|ref|ZP_05674208.1| pseudouridine synthase [Enterococcus faecium 1,231,408] gi|260562466|ref|ZP_05832976.1| pseudouridine synthase [Enterococcus faecium C68] gi|261207204|ref|ZP_05921893.1| pseudouridine synthase [Enterococcus faecium TC 6] gi|289566697|ref|ZP_06447113.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecium D344SRF] gi|257814695|gb|EEV43453.1| pseudouridine synthase [Enterococcus faecium 1,230,933] gi|257818937|gb|EEV46265.1| pseudouridine synthase [Enterococcus faecium 1,231,502] gi|257822212|gb|EEV49342.1| pseudouridine synthase [Enterococcus faecium 1,231,501] gi|257827862|gb|EEV54488.1| pseudouridine synthase [Enterococcus faecium 1,231,410] gi|257830934|gb|EEV57541.1| pseudouridine synthase [Enterococcus faecium 1,231,408] gi|260073151|gb|EEW61496.1| pseudouridine synthase [Enterococcus faecium C68] gi|260078832|gb|EEW66534.1| pseudouridine synthase [Enterococcus faecium TC 6] gi|289161514|gb|EFD09398.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecium D344SRF] Length = 245 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 120/237 (50%), Gaps = 11/237 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILL--ERAAVNVMSTDHIEVDGVPLRKAER 72 R+ K +A G+ SR+EV+ +I + ++VNG ++ ++A VN D + G + ++ Sbjct: 8 RLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKAQVNEFE-DAVTYLG-EIITYQK 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ HKP G+++ D + TV D L R + VGRLD +TEGLL+LTNDG Sbjct: 66 DFYYILHKPAGVISATQD-NHDQTVIDLLEDQDYREDLFPVGRLDKDTEGLLILTNDGVF 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNA 187 A L P + Y G + ++ + L +G++I G +Q+ Q+ + Sbjct: 125 AHQLLSPKKHVEKEYLAEVSGIMTEEDIRLFAEGLIIDGDEQTLPAKLQIDQVDQETETS 184 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + L EGK ++K++ + +V L RI G F L L G R ++K+ L + Sbjct: 185 IIRLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGKFWLPKDLNKGQYRPMTKEELEQ 241 >gi|30248036|ref|NP_840106.1| 16S pseudouridylate synthase [Nitrosomonas europaea ATCC 19718] gi|30179921|emb|CAD83916.1| possible 16S pseudouridylate synthase [Nitrosomonas europaea ATCC 19718] Length = 243 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 65/239 (27%), Positives = 108/239 (45%), Gaps = 19/239 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ GI SRRE + I Q V V+G + + I +D + + Sbjct: 5 RLSKLMSARGICSRREADVYIEQGSVYVDGQPVRELGTKIYPWQEIVLDRAAQIRQNQQV 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV---------------FDNLPSIFSRVISVGRLDINTE 119 L +KP+G V+ +P +S + +P + GRLDI+++ Sbjct: 65 TILLNKPVGYVSGQPEPGYKSAISLVNNDSHFHQDRSSLRFVPQHLKNIAPAGRLDIDSQ 124 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+ T DG +A+ L +Q + Y VR G + ++ L LL G+ + G +V+ Sbjct: 125 GLLVFTQDGRIAKQLIGEYSQIEKEYLVRVSGNLTREGLALLNHGLQLDGQALKPARVSR 184 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 Q + L+EGK R+I+++ E V L R+ G +L L G R + K Sbjct: 185 LNQD----QLRFILQEGKKRQIRRMCELVGLNVTGLKRVRIGQIRLADLPEGKWRYLGK 239 >gi|281492918|ref|YP_003354898.1| ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. lactis KF147] gi|281376570|gb|ADA66056.1| Ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. lactis KF147] Length = 273 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 71/238 (29%), Positives = 114/238 (47%), Gaps = 21/238 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A +G+ SR EV+ ++ + RV V G + V ++ + DG L E Sbjct: 33 RLDKFLAESGLGSRSEVKILLKKGRVTVAGEVQRDGRFQVDKNSRQVAFDGEILDYQEYY 92 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR------VISVGRLDINTEGLLLLTND 127 +L +KP GLV+ D +F + + S + VGRLD NTEGLL+LTND Sbjct: 93 -YYLLNKPQGLVSATKD-----NLFKTVVQLLSEKDFREDIFPVGRLDKNTEGLLILTND 146 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTLD 180 G L L P + Y R G+V + +N +G+ ++ G + + + Sbjct: 147 GALGHDLTQPKKHVEKEYFARIDGKVTDEIVNKFAEGLTLKNGEKARPGELFIENIYKGE 206 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 +Q G + + V + EGK ++K++FE V L RI G L + LA G+ R ++ Sbjct: 207 SQSGWISEIRVIIHEGKFHQVKRMFEAVEMYVLYLKRIRMGNLALDSDLALGAYRPLT 264 >gi|317131163|ref|YP_004090477.1| pseudouridine synthase [Ethanoligenens harbinense YUAN-3] gi|315469142|gb|ADU25746.1| pseudouridine synthase [Ethanoligenens harbinense YUAN-3] Length = 237 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 69/228 (30%), Positives = 111/228 (48%), Gaps = 11/228 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV ++ RV+V+G + A V + +DG L R Sbjct: 5 RLDKLLAGQGQGSRKEVHTLLRGGRVQVDGQTVTDAGQKVDPDRQRVTLDGHAL--LWRA 62 Query: 74 RLWLY-HKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L+L +KP G+++ DP R TV D LP+ R + GRLD +TEG LL+T+DG Sbjct: 63 HLYLMMNKPAGVISASRDPKAR-TVLDLLPADLCRPGLFPAGRLDKDTEGFLLITDDGAF 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + P ++Y D + G+ ++ + + L +G++A+ Sbjct: 122 AHDILAPRRHVEKIYLATLDRPADTADTDAFATGLTLEDGLHC-LPARLWLGEGTDAYAA 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 V REGK +++++F +V L RI G L LA G RE++ Sbjct: 181 V--REGKFHQVRRMFAARGKQVVHLRRIQIGGLALDESLAPGEARELT 226 >gi|16801498|ref|NP_471766.1| hypothetical protein lin2436 [Listeria innocua Clip11262] gi|16414958|emb|CAC97663.1| lin2436 [Listeria innocua Clip11262] Length = 233 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 65/215 (30%), Positives = 101/215 (46%), Gaps = 10/215 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+++ G SR+EV+ ++ V VNG + + + V D + V G P+ E Sbjct: 2 RLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGTPVIYQEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG LA Sbjct: 62 YFML-HKPQNVVSATED-NLSETVIDLLEQEDTLTNPFPVGRLDKDTEGLLIITNDGTLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y + G V + + G+ + G + + T + Sbjct: 120 HNLLSPKKHIDKTYYAKIDGDVTAEDVEAFSAGVTLDDGYTCKPAHLEIITPN----EIK 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V ++EGK ++K++F V+ L RIS G QL Sbjct: 176 VTIQEGKFHQVKRMFAARGKTVSYLKRISMGNLQL 210 >gi|218246198|ref|YP_002371569.1| pseudouridine synthase [Cyanothece sp. PCC 8801] gi|218166676|gb|ACK65413.1| pseudouridine synthase [Cyanothece sp. PCC 8801] Length = 204 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 57/177 (32%), Positives = 92/177 (51%), Gaps = 32/177 (18%) Query: 77 LYHKPIGLVTTHSDPDG----RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA- 131 L++KP G++ +D D R T+ D +P + SVGRLD ++EGLLLLTN+G L Sbjct: 6 LFNKPYGVLCQFTDTDNPNSPRPTLKDYIP--LPDIYSVGRLDFDSEGLLLLTNNGRLKH 63 Query: 132 ----RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS-- 185 R P T W++V R+ D+ L+ L++G++I+ C Q+ L + + Sbjct: 64 RLSHREFSHPRTYWVQVERI-----PDEIALDRLRQGVLIKDYCTRPAQIKLLATEPNLS 118 Query: 186 -------------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 AW+ + L EG+NR+++++ + RLIRIS G F++G L Sbjct: 119 PRNPPIRYRKTVPTAWLEITLTEGRNRQVRRMTAAIGYPTLRLIRISMG-FKIGKTL 174 >gi|90579322|ref|ZP_01235132.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Vibrio angustum S14] gi|90440155|gb|EAS65336.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Vibrio angustum S14] Length = 375 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 63/205 (30%), Positives = 99/205 (48%), Gaps = 9/205 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG E V VM D + +D PLR ER Sbjct: 15 RLNKFISDTGYCSRREADKLIDQGRVTINGQKPE-MGVRVMDNDDVLIDDKPLRSKERPI 73 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ TT +G F R+ +GRLD ++GL+ LTNDG + Sbjct: 74 YIALNKPTGITCTTERHIEGNIVDF---IGHRKRIFPIGRLDKPSDGLIFLTNDGDIVNK 130 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + + L + G+ I +VT +T N + L Sbjct: 131 ILRAGNSHEKEYVVRVDKVITPEFLEKMASGVEILDTVTLPCKVTKET----NFSFRIVL 186 Query: 194 REGKNREIKKVFEFFNWKVNRLIRI 218 +G NR+I+++ E ++V +L R+ Sbjct: 187 TQGLNRQIRRMCEALGYEVYKLRRV 211 >gi|271500470|ref|YP_003333495.1| pseudouridine synthase [Dickeya dadantii Ech586] gi|270344025|gb|ACZ76790.1| pseudouridine synthase [Dickeya dadantii Ech586] Length = 218 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 55/179 (30%), Positives = 89/179 (49%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L +KP +++ +D GR T+ D +P F + + GRLD ++EGLL+LTNDG L Sbjct: 40 RIVLLNKPFDVLSQFTDEGGRPTLKDYVP--FRDIYAAGRLDRDSEGLLILTNDGKLQAR 97 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTLDTQKG-- 184 L P Q ++Y + G D+D L + G+V+ G D V L ++ Sbjct: 98 LTQPGKQTPKIYYAQVEGIPDEDALRAFRTGLVLNDGPTLPAGAECVDEPVWLWPRQPPI 157 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR S L LL G +E+ Sbjct: 158 RQRKNIPVSWLKITLYEGRNRQVRRMTAHIGYPTLRLIRYSMANLTLDGLLPGDWKEID 216 >gi|46143311|ref|ZP_00135512.2| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Actinobacillus pleuropneumoniae serovar 1 str. 4074] Length = 232 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 56/188 (29%), Positives = 95/188 (50%), Gaps = 17/188 (9%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E T + L++KP ++T +D GR T+ D +P ++ VGRLD ++EGLLLLTN+G + Sbjct: 38 EDTVVVLFNKPFDVLTQFTDEQGRQTLKDFIP--IPQIYPVGRLDRDSEGLLLLTNNGEV 95 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL---------- 179 L P + + Y + G L L+KG+ ++ G+ + Sbjct: 96 QHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAISAPNYEWQTA 155 Query: 180 ----DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + +W+ + + EGKNR+++++ + RLIRI G FQLG L +G R Sbjct: 156 PKIRERKTIPTSWIELKIHEGKNRQVRRMTAHIGFPTLRLIRIGLGQFQLGELNSGEYRV 215 Query: 236 VSKKILRE 243 + +K R+ Sbjct: 216 LDEKEKRQ 223 >gi|237808158|ref|YP_002892598.1| pseudouridine synthase [Tolumonas auensis DSM 9187] gi|237500419|gb|ACQ93012.1| pseudouridine synthase [Tolumonas auensis DSM 9187] Length = 231 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 68/233 (29%), Positives = 114/233 (48%), Gaps = 16/233 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RKAERT 73 R+ K + + SR + +++ R+ VN ++++ A +V D + +D PL E+ Sbjct: 2 RLDKHLHQCLGISRSQASQLLKAGRISVNSLIIKSGAQHVTEQDSVLLDDKPLDTPGEKL 61 Query: 74 RLWLYHKPIGLVTTHSDPD--GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ HKP G V + D G + +FD LP S + + GRLD +T GL+L+TNDG + Sbjct: 62 YYFMLHKPQGYVCANGDASHPGITRLFD-LPCA-SELHAAGRLDADTTGLVLVTNDGQWS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT----LDTQKGSNA 187 + P Q + YRV + + + KGI+++ + QVT L+T Sbjct: 120 HRVTSPRKQCDKTYRVWLAEPISPETEEIFAKGILLR----SETQVTRPAQLETITPQEV 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 +T+ EGK ++K++F V RL R G L L GS RE++ + Sbjct: 176 LLTI--HEGKYHQVKRMFAAVGNHVERLHRERIGELVLDADLPEGSYRELTPE 226 >gi|86607240|ref|YP_476003.1| RNA pseudouridine synthase family protein [Synechococcus sp. JA-3-3Ab] gi|86555782|gb|ABD00740.1| RNA pseudouridine synthase family protein [Synechococcus sp. JA-3-3Ab] Length = 208 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 58/180 (32%), Positives = 93/180 (51%), Gaps = 19/180 (10%) Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLEL 136 ++KP G++T +D GR T+ +P +V VGRLD ++EGLLLLT+DG L AR+++ Sbjct: 6 FYKPYGVLTQFTDRQGRPTLKSFIP--VPKVYPVGRLDRDSEGLLLLTDDGRLNARLID- 62 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P R Y V+ G L L++G+VIQG +V + ++ Sbjct: 63 PKFGHERTYWVQVEGIPTPQALQQLQEGVVIQGRKTRPAEVRVLAEEPELPPRDPPIRFR 122 Query: 185 ---SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 W+ + LREG+NR+++++ RL+R+ GP L L G +E+S+ L Sbjct: 123 RSIPTTWLELMLREGRNRQVRRMTAAVGIPTLRLVRVGLGPLSLQGLAPGQWQELSEAEL 182 >gi|260584045|ref|ZP_05851793.1| ribosomal small subunit pseudouridine synthase A [Granulicatella elegans ATCC 700633] gi|260158671|gb|EEW93739.1| ribosomal small subunit pseudouridine synthase A [Granulicatella elegans ATCC 700633] Length = 243 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 65/217 (29%), Positives = 107/217 (49%), Gaps = 8/217 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A +GIA+R +V+ ++ Q+RV+ N + V + D I +D + E+ Sbjct: 2 RLDKFLADSGIATRSQVKLILKQKRVRKNQETVTNGKVQIDEKLDEIYLDDERVY-YEKY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ D +TV D + + + V VGRLDI+T G LLLTN+G L+ Sbjct: 61 LYYVMNKPKGVVSATEDTK-HATVLDLIGELAQKRGVFPVGRLDIDTHGFLLLTNNGALS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNA-W 188 + P + Y + G + Q+ +KGI + C L K A Sbjct: 120 HAMLSPKKHVEKTYVAKIEGIMTQEDQVSFEKGITLDDGYECMPAHLEILSVDKNHQASL 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + ++EGK ++K++ + V L RIS GP L Sbjct: 180 VQIKIKEGKFHQVKRMVKACGKTVIDLQRISMGPLHL 216 >gi|190149356|ref|YP_001967881.1| ribosomal large subunit pseudouridine synthase E [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|307262671|ref|ZP_07544300.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 13 str. N273] gi|189914487|gb|ACE60739.1| ribosomal large subunit pseudouridine synthase E [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|306871999|gb|EFN03714.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 13 str. N273] Length = 232 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 56/188 (29%), Positives = 95/188 (50%), Gaps = 17/188 (9%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E T + L++KP ++T +D GR T+ D +P ++ VGRLD ++EGLLLLTN+G + Sbjct: 38 EDTVVVLFNKPFDVLTQFTDEQGRQTLKDFIP--IPQIYPVGRLDRDSEGLLLLTNNGEI 95 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL---------- 179 L P + + Y + G L L+KG+ ++ G+ + Sbjct: 96 QHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAISAPNYEWQTA 155 Query: 180 ----DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + +W+ + + EGKNR+++++ + RLIRI G FQLG L +G R Sbjct: 156 PKIRERKTIPTSWIELKIHEGKNRQVRRMTAHIGFPTLRLIRIGLGQFQLGELNSGEYRV 215 Query: 236 VSKKILRE 243 + +K R+ Sbjct: 216 LDEKEKRQ 223 >gi|322392364|ref|ZP_08065825.1| ribosomal small subunit pseudouridine synthase A [Streptococcus peroris ATCC 700780] gi|321144899|gb|EFX40299.1| ribosomal small subunit pseudouridine synthase A [Streptococcus peroris ATCC 700780] Length = 241 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 118/233 (50%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ + + SR+ +++ + ++ + V+ + A NV + G ++ E T Sbjct: 2 RLDKLLTQEKV-SRKAIKQALLKKEILVDELPATSLAQNVDTGLQELIFQGRKIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT D TV D LP + ++GRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPNGVVTASKDKK-LPTVMDLLPQSLQSEELYAIGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + YRV +G + DK+ K GIV + G Q+ + + S++ Sbjct: 119 FQLLHPQYHVDKTYRVEVNGPLTPDKVQEFKDGIVFLDGTVCKPAQLDILSSSSSHSKAI 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK ++KK+F KV L RI +G F L + LA G R ++++ L Sbjct: 179 ITIAEGKFHQVKKMFLSIGVKVTSLKRIQFGDFTLDSELAEGQYRSLNQEELE 231 >gi|239624076|ref|ZP_04667107.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA] gi|239522107|gb|EEQ61973.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA] Length = 294 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 69/241 (28%), Positives = 119/241 (49%), Gaps = 19/241 (7%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLR----- 68 ++K +++ G+ SRRE +R+I +V V+G AA+ V + DGVP+ Sbjct: 36 LNKWLSQMGVCSRREADRLIEAGKVWVDG---SPAAMGQKVKPGQKVVCDGVPVNGGSGA 92 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + L + +KP G+V T SD D + + L R+ VGRLD ++EGLLL+TN Sbjct: 93 DSRKPKPVLLVVNKPRGIVCTTSDKDRAMNIVEYL-DYPERIYPVGRLDKDSEGLLLMTN 151 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKG 184 G L + + Y V + D ++ + KGI ++ + VT ++ Sbjct: 152 QGDLVNKIMRSGNAHEKEYIVTVDRPLTDDAMDRMAKGIYLREL----ETVTRPCKVKRV 207 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 ++ L +G NR+I+++ E V RL+R+ +L L G++REV ++ RE Sbjct: 208 DGKTFSIILTQGLNRQIRRMCEACGCHVERLVRVRIMNIRLDGLETGASREVGQEEYREL 267 Query: 245 L 245 + Sbjct: 268 M 268 >gi|238783800|ref|ZP_04627819.1| Ribosomal large subunit pseudouridine synthase E [Yersinia bercovieri ATCC 43970] gi|238715351|gb|EEQ07344.1| Ribosomal large subunit pseudouridine synthase E [Yersinia bercovieri ATCC 43970] Length = 208 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 53/179 (29%), Positives = 92/179 (51%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ + +P FS V + GRLD ++EGLL+LTNDG L Sbjct: 30 RVLLFNKPFDVLPQFTDESGRRTLKEFIP--FSDVYAAGRLDRDSEGLLVLTNDGKLQAK 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------------- 179 L P+ + +VY V+ G ++ L L++G+ ++ L Sbjct: 88 LTQPAQKTGKVYFVQVEGVPGEEALTQLQRGVTLKDGPTLPAGAELVAEPEWLWPRHPPI 147 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR S G LG L G +E++ Sbjct: 148 RERKSIPTSWLKITLFEGRNRQVRRMTAHIGFPTLRLIRFSMGNLSLGDLQPGEWKEIN 206 >gi|291460666|ref|ZP_06600056.1| ribosomal large subunit pseudouridine synthase F [Oribacterium sp. oral taxon 078 str. F0262] gi|291416625|gb|EFE90344.1| ribosomal large subunit pseudouridine synthase F [Oribacterium sp. oral taxon 078 str. F0262] Length = 247 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 76/250 (30%), Positives = 122/250 (48%), Gaps = 20/250 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK----- 69 R++K ++ G+ SRRE +R IA+ RV++NG E V D +E+DG ++K Sbjct: 2 RINKCLSELGLCSRREADRWIAEGRVRLNGETAE-MGQQVEEKDRLELDGKLVKKAGKAV 60 Query: 70 ---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 A R L +KP G+V + SD D R+ L + RV +GRLD ++EGL+LLTN Sbjct: 61 RAQAPRRVLLACYKPRGVVCSCSDKD-RAKNIVELVNYPERVYPIGRLDKDSEGLILLTN 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI------CYGDMQVTLD 180 G L + + Y V + ++ L+ L G+ + + C + L Sbjct: 120 QGELVNRINRGGRNE-KEYVVTVDRPLTREALDRLADGVELSELNQKTRPCEVWQDLRLP 178 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV--SK 238 + + V L +G NR+I+++ E ++V RL R+ +L L G RE+ S+ Sbjct: 179 PGRRQRQFHIV-LSQGLNRQIRRMCEALGYEVKRLKRVRILSLRLEGLRPGEFREIGLSE 237 Query: 239 KILREQLGPH 248 L E+L P Sbjct: 238 LGLSEELWPE 247 >gi|168242327|ref|ZP_02667259.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|194449422|ref|YP_002046277.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194407726|gb|ACF67945.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|205338506|gb|EDZ25270.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] Length = 231 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 62/226 (27%), Positives = 104/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCATDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + Y TL+ +T+ Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKYLTKPATLEVITPVQVRLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F +V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEE 225 >gi|90961422|ref|YP_535338.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus salivarius UCC118] gi|90820616|gb|ABD99255.1| Ribosomal small subunit pseudouridine synthase A [Lactobacillus salivarius UCC118] Length = 240 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 61/234 (26%), Positives = 119/234 (50%), Gaps = 8/234 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +++ G +R E +++I +RV++N +++ + + +D I +DG L + Sbjct: 4 RLDKFLSQTGKFTRAEAKKVIKAKRVRLNDEVVKDGKIKINEESDKIFLDGELLALNNKE 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ D D TV D N P + VGRLD T GLL++TNDG A Sbjct: 64 VYYMLNKPAGVVSATRD-DKDKTVIDLINFPGRKEDLFPVGRLDKETTGLLIITNDGKFA 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAW 188 + P + Y G++ + ++ + +G+ + + + + ++K + Sbjct: 123 HDIISPKKHVSKTYEAVVTGKISEKEVKIFSQGMELSNGDKLQPAQLDIISYSEKDDTSK 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 V V + EGK +++++F + +V L R+ G +L TL G RE++++ L Sbjct: 183 VRVIIHEGKYHQVRRMFGAVSQRVLELDRVKIGLLELDDTLERGEYRELTEEEL 236 >gi|126207576|ref|YP_001052801.1| ribosomal large subunit pseudouridine synthase E [Actinobacillus pleuropneumoniae L20] gi|126096368|gb|ABN73196.1| ribosomal large subunit pseudouridine synthase E [Actinobacillus pleuropneumoniae serovar 5b str. L20] Length = 231 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 56/188 (29%), Positives = 95/188 (50%), Gaps = 17/188 (9%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E T + L++KP ++T +D GR T+ D +P ++ VGRLD ++EGLLLLTN+G + Sbjct: 37 EDTVVVLFNKPFDVLTQFTDEQGRQTLKDFIP--IPQIYPVGRLDRDSEGLLLLTNNGEV 94 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL---------- 179 L P + + Y + G L L+KG+ ++ G+ + Sbjct: 95 QHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAISAPNYEWQTA 154 Query: 180 ----DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + +W+ + + EGKNR+++++ + RLIRI G FQLG L +G R Sbjct: 155 PKIRERKTIPTSWIELKIHEGKNRQVRRMTAHIGFPTLRLIRIGLGQFQLGELNSGEYRV 214 Query: 236 VSKKILRE 243 + +K R+ Sbjct: 215 LDEKEKRQ 222 >gi|323447017|gb|EGB02989.1| hypothetical protein AURANDRAFT_34656 [Aureococcus anophagefferens] Length = 273 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 67/231 (29%), Positives = 109/231 (47%), Gaps = 21/231 (9%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---------VPLRKAERTRLWL 77 SRR + +A RV+VNG + ++ + S D + +DG L + Sbjct: 36 SRRAADAAVAAGRVRVNGET-AKPSLRLRSGDTLALDGKKRDWEALAAKLEGGGGLEYYA 94 Query: 78 YHKPIGLVTTHSDPDGRS----TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 YHKP G+ T D RS L + R+ GRLD+++ GL++LTNDG A Sbjct: 95 YHKPEGVACTTDANDRRSLRRAPALKKLFAGGKRIFPAGRLDVDSCGLVVLTNDGAAADA 154 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTL--DTQKGSN 186 PS++ +VY V + D + L G+ I +G TL D +G Sbjct: 155 ALQPSSKLAKVYEVELDRRAADDDVAALAAGVEIATPLQRGSKAEKTGKTLPCDVARGDG 214 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + L EG+NR+++++ E ++V L R+++GP LG L G+ R ++ Sbjct: 215 RGLVITLAEGRNRQLRRMAEALGYEVTGLRRVAFGPVSLGDLRPGTLRPLA 265 >gi|15674222|ref|NP_268397.1| ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. lactis Il1403] gi|12725309|gb|AAK06338.1|AE006453_2 ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. lactis Il1403] Length = 273 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 71/238 (29%), Positives = 114/238 (47%), Gaps = 21/238 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A +G+ SR EV+ ++ + RV V G + V ++ + DG L E Sbjct: 33 RLDKFLAESGLGSRSEVKILLKKGRVTVAGEVQRDGRFQVDKNSRQVAFDGEILDYQEYY 92 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR------VISVGRLDINTEGLLLLTND 127 +L +KP GLV+ D +F + + S + VGRLD NTEGLL+LTND Sbjct: 93 -YYLLNKPQGLVSATKD-----NLFKTVVQLLSEKDFREDIFPVGRLDKNTEGLLILTND 146 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTLD 180 G L L P + Y R G+V + +N +G+ ++ G + + + Sbjct: 147 GALGHDLTQPKKHVEKEYFARIDGKVTDEIVNKFAEGLTLKNGEKARPGELFIENIYEGE 206 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 +Q G + + V + EGK ++K++FE V L RI G L + LA G+ R ++ Sbjct: 207 SQSGWISEIRVIIHEGKFHQVKRMFEAVEMYVLYLKRIRMGNLALDSDLALGAYRPLT 264 >gi|307256109|ref|ZP_07537896.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 10 str. D13039] gi|306865290|gb|EFM97186.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 10 str. D13039] Length = 231 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 56/188 (29%), Positives = 93/188 (49%), Gaps = 17/188 (9%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E T + L++KP ++T +D GR T+ D +P ++ VGRLD ++EGLLLLTN+G + Sbjct: 37 EDTVVVLFNKPFDVLTQFTDEQGRQTLKDFIP--IPQIYPVGRLDRDSEGLLLLTNNGEI 94 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGS---- 185 L P + + Y + G L L+KG+ ++ G+ + Sbjct: 95 QHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAISAPNYEWQTA 154 Query: 186 ----------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 +W+ + + EGKNR+++++ + RLIRI G FQLG L +G R Sbjct: 155 PKIRERKIIPTSWIELKIHEGKNRQVRRMTAHIGFPTLRLIRIGLGQFQLGELNSGEYRV 214 Query: 236 VSKKILRE 243 + +K R+ Sbjct: 215 LDEKEKRQ 222 >gi|254509192|ref|ZP_05121290.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus 16] gi|219547897|gb|EED24924.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus 16] Length = 345 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 61/207 (29%), Positives = 100/207 (48%), Gaps = 10/207 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +R+I Q RV +NG + E VM D + VD P+ Sbjct: 7 KRLNKFISETGFCSRREADRLIEQGRVTINGQVPE-MGTKVMPGDDVRVDDKPINAVTDK 65 Query: 74 RLWL-YHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +++ +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 66 PVYIALNKPTGITCTTERDIPGNIVDFVGHKK---RIFPIGRLDKPSDGLIFLTNDGDIV 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + D + + G+ I +VT +T+ +T Sbjct: 123 NKILRAGNNHEKEYVVRVDKPISDDFIKKMSSGVNILDTITLPCKVTKETKFSFRIVLTQ 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRI 218 GL NR+I+++ E ++V +L R+ Sbjct: 183 GL----NRQIRRMCEALGYEVFKLRRV 205 >gi|150020759|ref|YP_001306113.1| RNA-binding S4 domain-containing protein [Thermosipho melanesiensis BI429] gi|149793280|gb|ABR30728.1| RNA-binding S4 domain protein [Thermosipho melanesiensis BI429] Length = 230 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 56/212 (26%), Positives = 107/212 (50%), Gaps = 5/212 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++ A + SR+EV+R+I VK+NG ++ V D + V+ P+ Sbjct: 1 MRLDKFLSNAKVGSRKEVKRLIKFGIVKINGEIITNVDFKVKENDIVTVNNTPITPYHNV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +++KP G ++ S+ + F + P + + I+ GRLD + EGLLL+TNDG Sbjct: 61 YI-IFNKPTGYTSSKSEFERNIFEFIDHPYVENLHIA-GRLDKDVEGLLLITNDGIFTHK 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P ++ + Y V+ ++ + + K GIV++ G ++ + ++++ + Sbjct: 119 ITSPKSKIEKEYIVKVDKEISDEMIQKAKDGIVLKN---GTRFKPAIIKRLKDNFISITI 175 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EGK EIK + +F ++ RI G +L Sbjct: 176 TEGKYHEIKLIVKFLGLSYKKIERIRIGKLKL 207 >gi|168186069|ref|ZP_02620704.1| RNA pseudouridine synthase family protein [Clostridium botulinum C str. Eklund] gi|169295997|gb|EDS78130.1| RNA pseudouridine synthase family protein [Clostridium botulinum C str. Eklund] Length = 238 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 121/243 (49%), Gaps = 31/243 (12%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAER 72 +R+ KV++ G SR+E++ ++ + ++++G +++ + V I +V+G + Sbjct: 2 ERLDKVLSNLGYGSRKEIKALVKKGEIEIDGKVIKDNGLKVDPNKSIIKVNGEKIN---- 57 Query: 73 TRLWLY---HKPIGLVTTHSDP---------DGRSTVFDNLPSIFSRVISVGRLDINTEG 120 R ++Y +KP G+V+ D D TVFD P VGRLD +TEG Sbjct: 58 YRKYIYIMMNKPAGVVSATFDNYDETVIDLLDYEYTVFDPFP--------VGRLDKDTEG 109 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICY-GDMQV 177 LL++TNDG L L P ++Y +VD+ + +KGI + C +++ Sbjct: 110 LLIITNDGELNHRLTSPKWHVDKIYYAEIDKRVDEKDVEKFEKGITLDDGYKCLPAKLEI 169 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREV 236 + GS V V ++EGK ++K++FE + KV L R+ G L L G RE+ Sbjct: 170 LSADENGSE--VNVIIQEGKFHQVKRMFEARDKKVVYLKRLKMGNISLDNELEEGEYREL 227 Query: 237 SKK 239 ++K Sbjct: 228 TEK 230 >gi|21243538|ref|NP_643120.1| pseudouridylate synthase [Xanthomonas axonopodis pv. citri str. 306] gi|21109103|gb|AAM37656.1| pseudouridylate synthase [Xanthomonas axonopodis pv. citri str. 306] Length = 240 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 114/236 (48%), Gaps = 16/236 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA G SRRE +R+I ++RV VNG+ AV V D + VD PLR E + Sbjct: 4 RLNKYIAETGFCSRREADRLIGERRVTVNGVPAGTGAV-VGEEDTVLVDDQPLRIREAKK 62 Query: 75 LW-------LYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L +KP+G+ TT S G F R+ +GRLD ++EGL+L+T+ Sbjct: 63 LGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHE---QRIFPIGRLDKDSEGLILMTS 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + + + Y V + V + L + +G+ I + + + T + + Sbjct: 120 NGNIVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRI----HNETTLPCRTARIAK 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR Sbjct: 176 FGFRIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELR 231 >gi|116492417|ref|YP_804152.1| ribosomal small subunit pseudouridine synthase A [Pediococcus pentosaceus ATCC 25745] gi|116102567|gb|ABJ67710.1| ribosomal small subunit pseudouridine synthase A [Pediococcus pentosaceus ATCC 25745] Length = 239 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 119/233 (51%), Gaps = 15/233 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----KA 70 RV K + + +R ++ +MI + + VN +++ V V VD V L+ + Sbjct: 2 RVDKFLHDMNMGTRTQIRKMIKDKLIFVNDTVVKTGRVKVDPV----VDEVRLKDQVIEY 57 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ ++ +KP+G++T D + TV D N + + + VGRLD +T+GLLL+TN+G Sbjct: 58 QQYFYFMMNKPLGVLTATEDR-KQKTVMDLFNKVDLRNDLFPVGRLDKDTQGLLLITNNG 116 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLD--TQKGS 185 LA L P + Y G++ + +KGI ++ G Q+ ++ ++ Sbjct: 117 QLAHDLLAPERHVDKTYEAVVTGKITDQAVEEFQKGITLRDGTTLKPAQLIIEHYSELDD 176 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 V V L+EGK +++++F KV L R S+GP +L LL G+ RE++ Sbjct: 177 QTVVKVVLKEGKYHQVRRMFGSLGEKVVTLRRTSFGPLELDVGLLPGTYRELT 229 >gi|253680889|ref|ZP_04861692.1| RNA pseudouridine synthase family protein [Clostridium botulinum D str. 1873] gi|253562738|gb|EES92184.1| RNA pseudouridine synthase family protein [Clostridium botulinum D str. 1873] Length = 238 Score = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 67/239 (28%), Positives = 118/239 (49%), Gaps = 25/239 (10%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K+++ G SR+E++ ++ + ++++G +++ + V + I+V G + + Sbjct: 2 ERLDKILSNLGYGSRKEIKALVKKGEIEIDGKIIKDNGIKVDPNKSTIKVSGEEINYRKY 61 Query: 73 TRLWLYHKPIGLVTTHSDP---------DGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 L + +KP G+V+ D D TVFD P VGRLD +TEG LL Sbjct: 62 IYLMM-NKPAGVVSATFDNYDETVIDLLDYEYTVFDPFP--------VGRLDKDTEGFLL 112 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICY-GDMQVTLD 180 +TNDG L L P ++Y VD+ + +KGIV+ C +++ Sbjct: 113 ITNDGDLNHRLTSPKWHVDKIYYAEIDKIVDEKDIRAFEKGIVLDDGYKCLPAKLEILSA 172 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + GS +T+ +EGK ++K++FE KV L R+ G L +L G RE+++ Sbjct: 173 DENGSEVNITI--QEGKFHQVKRMFEAREKKVIYLKRLQMGNLVLDESLNEGEYRELTE 229 >gi|310641936|ref|YP_003946694.1| tRNA pseudouridine synthase a [Paenibacillus polymyxa SC2] gi|309246886|gb|ADO56453.1| tRNA pseudouridine synthase A [Paenibacillus polymyxa SC2] Length = 230 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 62/207 (29%), Positives = 106/207 (51%), Gaps = 12/207 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAER 72 R++K I+ G SRRE R+IA R+ +NG + E A V D + +DG +P+ +E Sbjct: 2 RINKYISETGFCSRRETNRLIAAGRITINGSVCE-AGAEVEPLDIVLIDGKPIPINHSEP 60 Query: 73 TRLWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L +KPIG+V T ++ +G + N PS R+ ++GRLD +EGL+LLTNDG + Sbjct: 61 VYLAL-NKPIGIVCTAAEQVEGNIIRYVNYPS---RIFAIGRLDKASEGLILLTNDGSIV 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V V + + +G+ I + +V + S + Sbjct: 117 NQMMRSEHGHEKEYVVTVDKPVTDEFTQTMSRGVEILNVITKPCKV----DRISEYEFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRI 218 L +G N +I+++ + ++V +L R+ Sbjct: 173 ILTQGLNLQIRRMCKALGYRVLKLERV 199 >gi|169825022|ref|YP_001692633.1| 16S pseudouridylate synthase [Finegoldia magna ATCC 29328] gi|167831827|dbj|BAG08743.1| 16S pseudouridylate synthase [Finegoldia magna ATCC 29328] Length = 235 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 66/236 (27%), Positives = 125/236 (52%), Gaps = 17/236 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 R+ ++++ IA+R+E+++M+ + + VN + +++ S++HI+ + ++ + Sbjct: 2 RLDRMLSEMKIATRKEIKQMVKKGIITVNDVTVKK------SSEHIDENNDVVKIYDEVI 55 Query: 74 --RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTND 127 R +LY +K G VT+HS TV D++ + ++ VGRLD++T GLL++TND Sbjct: 56 EYRKFLYFVMNKRKG-VTSHSKDPMHKTVIDDMGELCVFDLNPVGRLDLDTTGLLIITND 114 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G A L P + Y+V +VD+ + +KGI + ++ N Sbjct: 115 GKFAHNLISPKKDVSKKYKVTLRDKVDEKYNDTFEKGIKLMPEDIVTKPAKMEIIDDYNC 174 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 ++T+ +EGK ++K++FE +V L R+ G F+L L G RE++ + LR Sbjct: 175 YLTI--KEGKYHQVKRMFEKVGNEVVELQRVQIGDFKLPEDLEEGDFRELTDEELR 228 >gi|120556507|ref|YP_960858.1| pseudouridine synthase [Marinobacter aquaeolei VT8] gi|120326356|gb|ABM20671.1| ribosomal small subunit pseudouridine synthase A [Marinobacter aquaeolei VT8] Length = 231 Score = 82.8 bits (203), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 64/235 (27%), Positives = 116/235 (49%), Gaps = 16/235 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ SR+E +++++ RVKV+G +A V + + +DG P+ Sbjct: 2 RLDQYLSNGTELSRKEAKKVVSAGRVKVDGETCRQANRQVEAEQSVHLDGKPVNPPGDIY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + HKP G+++ +D + T D LP + SRV GRLD +T GLLLLT+DG + Sbjct: 62 L-MMHKPAGVLSATTD-SSQPTALDLLPRGLASRVHIAGRLDKDTTGLLLLTSDGQWSHA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-----SNAW 188 + P + + YRV + + L+KG+++ G T +T+ +N Sbjct: 120 VTSPRRECRKSYRVWLAEAIPEQACRALEKGVMLNG-------ETTETRPAEVRVHNNQL 172 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + + EG+ ++K++ +V L R G +L LA G R ++ + +R Sbjct: 173 IDLTIGEGRYHQVKRMLAAVGNRVEALHRFRIGSIELDDKLAPGEFRALTYQEIR 227 >gi|156973557|ref|YP_001444464.1| pseudouridylate synthase [Vibrio harveyi ATCC BAA-1116] gi|156525151|gb|ABU70237.1| hypothetical protein VIBHAR_01258 [Vibrio harveyi ATCC BAA-1116] Length = 384 Score = 82.8 bits (203), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 59/205 (28%), Positives = 100/205 (48%), Gaps = 7/205 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +R+I Q RV +NG E V+ D + VDG P+ E+ Sbjct: 7 KRLNKYISETGFCSRREADRLIEQGRVTINGQQPE-MGTKVLPGDDVCVDGSPVAAKEKP 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 66 IYIALNKPTGITCT-TERDIPGNIVDFI-GHKKRIFPIGRLDKPSDGLIFLTNDGDIVNK 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + + L + G+ I +V +T+ +T GL Sbjct: 124 ILRAGNNHEKEYVVRVDKPITGEFLKQMSSGVKILDTVTLPCKVEKETKFSFRIVLTQGL 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRI 218 NR+I+++ E ++V +L R+ Sbjct: 184 ----NRQIRRMCEALGYEVFKLRRV 204 >gi|118595060|ref|ZP_01552407.1| pseudouridine synthase, Rsu [Methylophilales bacterium HTCC2181] gi|118440838|gb|EAV47465.1| pseudouridine synthase, Rsu [Methylophilales bacterium HTCC2181] Length = 242 Score = 82.8 bits (203), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 66/236 (27%), Positives = 117/236 (49%), Gaps = 22/236 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKAERT 73 R+SK+++ G+ SRRE ++ I V ++G + T +E+ D + ++ + Sbjct: 5 RISKILSEQGLCSRREADKFIELGLVLLDGKTVSELGTKACRTQKVELKDRAQIAQSAKA 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSR-------------VISVGRLDINT 118 + L +KP+G ++ H D D T +L P F + + GRLDI++ Sbjct: 65 TIIL-NKPVGFIS-HLDDDKEFTPAASLVTPDKFYQTNDTRRPTFNTDGLAPAGRLDIDS 122 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLL+LT DG +A+ + + + Y VR G + + L+LL G+ + G +V Sbjct: 123 SGLLVLTQDGRIAKQIIGENVIVEKEYLVRIEGTLTDEALSLLNHGLTLDGYELKPAKVL 182 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 ++A ++ L EG+NR+I+K+ + KV L R+ G +LG + +GS R Sbjct: 183 WQ----NDAQLSFTLIEGRNRQIRKMCQLVGVKVTALKRVRIGNVRLGNIPSGSWR 234 >gi|308069018|ref|YP_003870623.1| 16S rRNA uridine-516 pseudouridylate synthase [Paenibacillus polymyxa E681] gi|305858297|gb|ADM70085.1| 16S rRNA uridine-516 pseudouridylate synthase [Paenibacillus polymyxa E681] Length = 230 Score = 82.8 bits (203), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 63/207 (30%), Positives = 104/207 (50%), Gaps = 12/207 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAER 72 R++K I+ G SRRE R+IA R+ +NG + E A V D + +DG +PL +E Sbjct: 2 RINKYISETGFCSRRETNRLIAAGRITINGNVCE-AGAEVEPQDIVLIDGEAIPLNSSEP 60 Query: 73 TRLWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L +KPIG+V T ++ G + N PS R+ ++GRLD +EGL+LLTNDG + Sbjct: 61 VYLAL-NKPIGIVCTAAEQVAGNIISYVNYPS---RIFAIGRLDKASEGLILLTNDGSIV 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V V + + G+ I + +V + S + Sbjct: 117 NQMMRSEHGHEKEYVVTVDKPVTNEFTQAMSCGVEILNVITKPCKV----DRTSEYEFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRI 218 L +G N +I+++ + ++V +L R+ Sbjct: 173 ILTQGLNLQIRRMCKALGYRVLKLERV 199 >gi|293604951|ref|ZP_06687348.1| ribosomal large subunit pseudouridine synthase F [Achromobacter piechaudii ATCC 43553] gi|292816779|gb|EFF75863.1| ribosomal large subunit pseudouridine synthase F [Achromobacter piechaudii ATCC 43553] Length = 243 Score = 82.8 bits (203), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 112/236 (47%), Gaps = 21/236 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVPLRKAERT 73 R+SK+++ G+ SRRE + I + V+V+G+++ I ++ R+ R Sbjct: 5 RISKLMSERGLCSRREADSYIERGWVRVDGVVVSELGAKAFPDQVITLERAAQARQTSRV 64 Query: 74 RLWLYHKPIGLVTTHSDP---------DGRSTVF-DNLPSIFSR-----VISVGRLDINT 118 + L +KP+G V+ ++ D RS D P F R + GRLDI++ Sbjct: 65 TI-LINKPVGYVSGQAEKGYTPAVALIDARSRFANDRHPQRFERAHLEGLAVAGRLDIDS 123 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 +GLL+LT DG +A+ L + + Y VR G++ L LL G+ + G QV Sbjct: 124 QGLLVLTQDGRIAKHLIGEDSSVDKEYLVRVQGELSDRGLQLLNHGLSLDGKALKPAQVR 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 ++ + LREGK R+I+++ E KV L R+ G LG L G R Sbjct: 184 WQ----NHDQLRFVLREGKKRQIRRMCELVGLKVVGLKRVRIGRVSLGDLPLGQWR 235 >gi|108760801|ref|YP_630635.1| RsuA family pseudouridine synthase [Myxococcus xanthus DK 1622] gi|108464681|gb|ABF89866.1| pseudouridine synthase, RsuA family [Myxococcus xanthus DK 1622] Length = 268 Score = 82.8 bits (203), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 65/240 (27%), Positives = 114/240 (47%), Gaps = 11/240 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAE 71 P +S+ +ARAG+ ++E E I RV +NG + + A V ++VDG+ + +A Sbjct: 23 PDWLSRALARAGVFPQKEAEDAIRAGRVSINGRVAKMALTPVPPGATVKVDGLVVSLEAP 82 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDN-LPSIFSRVI-----SVGRLDINTEGLLLLT 125 TR+ +HKP GL+++ TVF+ LP + + +VGRLD+++ GLLL T Sbjct: 83 PTRVLAFHKPAGLLSSTERQHRTGTVFEALLPQLPPELAGYTWHAVGRLDVDSTGLLLFT 142 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 ND L P + Y +++ L++G+ + +V + + Sbjct: 143 NDDKLVAHATSPDAHLPKRYVATVFSTASDERVEPLRRGMTLDDGPARPAKVNVRDEHT- 201 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 V V L EG++ ++K++ V L R + G L + G+ R ++ +RE L Sbjct: 202 ---VEVTLTEGRHHQVKRMLGAVGLPVRALHREAVGSVDLEGIPEGTFRLLTDDEVREGL 258 >gi|332306350|ref|YP_004434201.1| pseudouridine synthase [Glaciecola agarilytica 4H-3-7+YE-5] gi|332173679|gb|AEE22933.1| pseudouridine synthase [Glaciecola agarilytica 4H-3-7+YE-5] Length = 192 Score = 82.8 bits (203), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 53/196 (27%), Positives = 98/196 (50%), Gaps = 19/196 (9%) Query: 55 MSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 M+ D + P+R R+++ L++KP ++T +D GR T+ D +P + + GRL Sbjct: 1 MNIDQYKKRKAPIR---RSKIVLFNKPFNVLTQFTDATGRQTLKDFIP--IPDIYAAGRL 55 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D ++EGLL+LTNDG L L P + + Y V+ G+ + +L L+ G+ ++ Sbjct: 56 DKDSEGLLVLTNDGKLQHKLTDPKKKTSKTYWVQVEGEPQEYQLQALRDGVALKDGMTRP 115 Query: 175 MQVTLDT--------------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 +V Q +W+ + + EGKNR+++++ + RL+R Sbjct: 116 AKVERMQEPSLWARNPPVRFRQSIPTSWLAITISEGKNRQVRRMTAHIGFPTLRLVRYRV 175 Query: 221 GPFQLGTLLAGSTREV 236 G + L + +G+ RE+ Sbjct: 176 GNWTLDGIASGTYREL 191 >gi|315283394|ref|ZP_07871600.1| ribosomal small subunit pseudouridine synthase A [Listeria marthii FSL S4-120] gi|313612966|gb|EFR86902.1| ribosomal small subunit pseudouridine synthase A [Listeria marthii FSL S4-120] Length = 233 Score = 82.8 bits (203), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 67/215 (31%), Positives = 101/215 (46%), Gaps = 10/215 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+++ G SRREV+ ++ V VNG + + + V D + V G P+ E Sbjct: 2 RLDKLLSHTGFGSRREVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGTPVVYQEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG LA Sbjct: 62 YFML-HKPQNVVSATED-NVSETVIDLLAQEDTLTDPFPVGRLDKDTEGLLIITNDGTLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y + G V + GI + G ++ + T + Sbjct: 120 HNLLSPKKHIDKTYYAKIDGDVTATDVEAFAAGIELDDGYTCKPARLEIITPN----EIK 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V ++EGK ++K++F V+ L RIS G QL Sbjct: 176 VTIQEGKFHQVKRMFAARGKTVSYLKRISMGNLQL 210 >gi|149909594|ref|ZP_01898247.1| ribosomal large subunit pseudouridine synthase F [Moritella sp. PE36] gi|149807298|gb|EDM67251.1| ribosomal large subunit pseudouridine synthase F [Moritella sp. PE36] Length = 407 Score = 82.8 bits (203), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 63/229 (27%), Positives = 110/229 (48%), Gaps = 7/229 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + Q++ R++K I+ G SRRE +R+I Q RV +NG + E V D + V+G Sbjct: 1 MTQQDIKLTRLNKYISDTGYCSRREADRLIEQGRVTINGKIPE-MGTKVSDGDMVSVNGR 59 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+++ ++ +KP G+ T ++ V D L +R+ +GRLD +EGL+ LT Sbjct: 60 PVKEKQKRIYIALNKPAGITCT-TERHIHGNVID-LIDYSTRIFPIGRLDKPSEGLIFLT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y V+ V L + +G+ I +V T++G Sbjct: 118 NDGDIVNKILRAGNAHEKEYIVKVDSTVTDKFLTGMARGVPILDTVTKPCKV---TREGR 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + L +G N++I+++ E F ++V L R + L G R Sbjct: 175 FEFKII-LTQGLNQQIRRMCEHFGFQVKSLTRTRIMNIDIKGLATGQWR 222 >gi|157960503|ref|YP_001500537.1| pseudouridine synthase [Shewanella pealeana ATCC 700345] gi|157845503|gb|ABV86002.1| pseudouridine synthase [Shewanella pealeana ATCC 700345] Length = 238 Score = 82.8 bits (203), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 76/250 (30%), Positives = 115/250 (46%), Gaps = 36/250 (14%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVK--------VNGILLERAAVNVMSTDHIEVDGVP 66 R++K +A G SRR R+I V+ V+ + L + S + I V+ P Sbjct: 2 RLAKYLALTGCCSRRAATRLIRDGLVRIDERLANHVDSVTLIDTPIGQRSIEQIYVNDEP 61 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-------SRVISVGRLDINTE 119 +R E WL++K +G S + +LP+ R+ VGRLD ++ Sbjct: 62 IRVVEAKAYWLFNKAVG---------TDSRLLAHLPNSLLHLLPESPRLYPVGRLDKDSR 112 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--DKLNLLKKGIVIQGICYGDMQV 177 GLL+LTNDG L L P + Y H QVD+ D L+ G+ Y D+ V Sbjct: 113 GLLILTNDGELTHKLMHPDFGHAKTY----HVQVDRPFDDAFLVNMA---AGVSYKDV-V 164 Query: 178 TLDT--QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 TL Q+ + + L +G NR+I+++ + +KV L R+S QLG L GS R Sbjct: 165 TLPCIMQRLAADKYEITLTQGLNRQIRRMSQALGFKVIDLKRVSIQSLQLGDLPEGSMRP 224 Query: 236 VSKKILREQL 245 +S L + L Sbjct: 225 LSSAELADLL 234 >gi|119945902|ref|YP_943582.1| pseudouridine synthase [Psychromonas ingrahamii 37] gi|119864506|gb|ABM03983.1| ribosomal large subunit pseudouridine synthase F [Psychromonas ingrahamii 37] Length = 318 Score = 82.8 bits (203), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 80/304 (26%), Positives = 139/304 (45%), Gaps = 32/304 (10%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 NIV N + R++K I+ +G SRRE +++I Q RVK+NG + E V D + VDG Sbjct: 15 NIVDNN-SEIRLNKFISDSGFCSRREADKLIEQNRVKINGDIPE-LGTKVQLGDLVLVDG 72 Query: 65 VPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDIN 117 + + + +L +Y+KPIG+ T + N+ + R+ +GRLD Sbjct: 73 KRINASAQDKLDRIYIVYNKPIGITCTTE-----RHIHGNIINAIGHKKRIFPIGRLDKP 127 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 +EGL+ LT+DG + + + Y V + + + +++G+ I +V Sbjct: 128 SEGLIFLTSDGDIVNKILRAENAHDKEYLVTVDKPLSERFVERMQRGVPILDTITKPCKV 187 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 T+D S + L +G NR+I+++ E ++V +L R LG L G R ++ Sbjct: 188 TVD----SRFIFRIVLTQGLNRQIRRMCEHLGYEVLKLKRTRIMKVGLGNLKPGQWRNLT 243 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 +E A++N + SS D +S+ P +KK++ N Sbjct: 244 N-----------IELAEIN--QAVSSSSKTATDPAKPVSKAPQS-EAIKKSTGANNSHQP 289 Query: 298 QKKL 301 KK+ Sbjct: 290 AKKI 293 >gi|91070007|gb|ABE10933.1| putative pseudouridylate synthase specific to ribosomal small subunit [uncultured Prochlorococcus marinus clone ASNC3046] Length = 240 Score = 82.8 bits (203), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 121/234 (51%), Gaps = 9/234 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER-T 73 R++K ++ G SRRE +++I + +V +NG + E A V D +EV G + K++R Sbjct: 4 RINKYLSEVGYCSRREADKLILEGKVTINGKIPEIGA-KVEEIDQVEVKGQRIEKSDRQE 62 Query: 74 RLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++L ++KP+G+V T + V D + R+ +GRLD +EGL+ LTNDG + Sbjct: 63 KIYLAFNKPLGIVCTTDRKVEPNNVIDFI-KYPKRIFPIGRLDKLSEGLIFLTNDGDIVN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V+ + ++ + + + G+ I + V Q G + + Sbjct: 122 KILRARNNHEKEYIVKVNRPINSEFIQKMSNGVEILDTITKNCSV---KQLGPRKFKII- 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ E ++V L R+ +L + +G RE S++ L+E G Sbjct: 178 LTQGLNRQIRRMCETLGYRVRSLKRVRIMNIKL-DMPSGKYREFSREELQELNG 230 >gi|326407871|gb|ADZ64942.1| ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. lactis CV56] Length = 273 Score = 82.8 bits (203), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 71/238 (29%), Positives = 114/238 (47%), Gaps = 21/238 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A +G+ SR EV+ ++ + RV V G + V ++ + DG L E Sbjct: 33 RLDKFLAESGLGSRSEVKILLKKGRVTVAGEVQRDGRFQVDKNSRQVAFDGEILDYQEYY 92 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR------VISVGRLDINTEGLLLLTND 127 +L +KP GLV+ D +F + + S + VGRLD NTEGLL+LTND Sbjct: 93 -YYLLNKPQGLVSATKD-----NLFKTVVQLLSEKDFREDIFPVGRLDKNTEGLLILTND 146 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTLD 180 G L L P + Y R G+V + +N +G+ ++ G + + + Sbjct: 147 GALGHDLTQPKRHVEKEYFARIDGKVTDEIVNKFAEGLTLKNGEKARPGELFIENIYKGE 206 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 +Q G + + V + EGK ++K++FE V L RI G L + LA G+ R ++ Sbjct: 207 SQSGWISEIRVIIHEGKFHQVKRMFEAVEMYVLYLKRIRMGNLALDSDLALGAYRPLT 264 >gi|325276236|ref|ZP_08142031.1| pseudouridine synthase [Pseudomonas sp. TJI-51] gi|324098614|gb|EGB96665.1| pseudouridine synthase [Pseudomonas sp. TJI-51] Length = 181 Score = 82.8 bits (203), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 54/185 (29%), Positives = 94/185 (50%), Gaps = 20/185 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL L++KP ++T SD +GR+T+ F ++P ++ GRLD ++EGLLLLTNDGGL Sbjct: 1 RLILFNKPFDVLTQFSDGEGRATLKDFIDIPGVYP----AGRLDRDSEGLLLLTNDGGLQ 56 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--------------VIQGICYGDMQV 177 + P + + Y V+ G+ ++L L+ G+ + + + Sbjct: 57 ARIADPKHKLAKTYWVQVEGEPSDEQLQRLRDGVELNDGPTLPAEARRLAEPALWPRNPP 116 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + +REG+NR+++++ RL+R+ G + L L G REV Sbjct: 117 VRFRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWALDGLEQGCWREVP 176 Query: 238 KKILR 242 K+ R Sbjct: 177 AKLQR 181 >gi|322515146|ref|ZP_08068149.1| ribosomal large subunit pseudouridine synthase E [Actinobacillus ureae ATCC 25976] gi|322118860|gb|EFX91050.1| ribosomal large subunit pseudouridine synthase E [Actinobacillus ureae ATCC 25976] Length = 232 Score = 82.8 bits (203), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 58/193 (30%), Positives = 97/193 (50%), Gaps = 20/193 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E T + L++KP ++T +D GR T+ D +P +V VGRLD ++EGLLLLTN+G + Sbjct: 38 EDTVVVLFNKPFDVLTQFTDEQGRQTLKDFIP--IPQVYPVGRLDRDSEGLLLLTNNGEI 95 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL---------- 179 L P + + Y + G L L+KG+ ++ G+ + Sbjct: 96 QHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAISAPNYEWQTA 155 Query: 180 ----DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR- 234 + + +W+ + + EGKNR+++++ + RLIR+ G FQLG L +G R Sbjct: 156 PKIRERKTIPTSWIELKIHEGKNRQVRRMTAHIGFPTLRLIRVGLGQFQLGDLDSGEYRI 215 Query: 235 --EVSKKILREQL 245 E K+ L +Q+ Sbjct: 216 LNETGKRQLFQQI 228 >gi|307253844|ref|ZP_07535697.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|307258300|ref|ZP_07540042.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 11 str. 56153] gi|306863204|gb|EFM95145.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|306867639|gb|EFM99485.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 11 str. 56153] Length = 232 Score = 82.8 bits (203), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 56/188 (29%), Positives = 95/188 (50%), Gaps = 17/188 (9%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E T + L++KP ++T +D GR T+ D +P ++ VGRLD ++EGLLLLTN+G + Sbjct: 38 EDTVVVLFNKPFDVLTQFTDEQGRQTLKDFIP--IPQIYPVGRLDRDSEGLLLLTNNGEI 95 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL---------- 179 L P + + Y + G L L+KG+ ++ G+ + Sbjct: 96 QHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAISAPNYEWQTA 155 Query: 180 ----DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + +W+ + + EGKNR+++++ + RLIRI G FQLG L +G R Sbjct: 156 PKIRERKTIPTSWIELKIHEGKNRQVRRMTAHIGFPPLRLIRIGLGQFQLGELNSGEYRV 215 Query: 236 VSKKILRE 243 + +K R+ Sbjct: 216 LDEKEKRQ 223 >gi|116512199|ref|YP_809415.1| ribosomal large subunit pseudouridine synthase E [Lactococcus lactis subsp. cremoris SK11] gi|116107853|gb|ABJ72993.1| ribosomal large subunit pseudouridine synthase E [Lactococcus lactis subsp. cremoris SK11] Length = 177 Score = 82.8 bits (203), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 52/175 (29%), Positives = 94/175 (53%), Gaps = 21/175 (12%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L++KP ++T +D +GR T+ D +P++++ GRLD ++EGLLLLT+DG L +L Sbjct: 4 LFNKPFDVLTKFTDGEGRKTLKDYIEIPNVYA----AGRLDKDSEGLLLLTDDGKLNHLL 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--------------- 179 P ++ + Y V+ G+ + L+KG++++ +V L Sbjct: 60 TDPKSKSFKTYLVQVEGEFSIEAAQKLEKGVLLKDGKTLPAKVKLIDEPEWLWERTPPIR 119 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +WV + ++EGKNR+I+++ + RLIR S G + LG L +G + Sbjct: 120 ERKAIPTSWVEISIKEGKNRQIRRMTAAVGFPTLRLIRWSIGQYTLGNLKSGDYK 174 >gi|27363727|ref|NP_759255.1| ribosomal large subunit pseudouridine synthase F [Vibrio vulnificus CMCP6] gi|27359843|gb|AAO08782.1| Ribosomal large subunit pseudouridine synthase F [Vibrio vulnificus CMCP6] Length = 347 Score = 82.8 bits (203), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 60/206 (29%), Positives = 99/206 (48%), Gaps = 9/206 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +++I Q RV +NG E V+ D + VDG P+ E+ Sbjct: 7 KRLNKYISETGFCSRREADKLIEQGRVTINGKQPE-MGTKVLPGDDVCVDGKPVAAKEKP 65 Query: 74 RLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 66 VYIALNKPTGITCTTERDIPGNIVDFIGHKK---RIFPIGRLDKPSDGLIFLTNDGDIVN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y VR + + + + G+ I +VT +T+ +T G Sbjct: 123 KILRAGNHHEKEYVVRVDKPITPEFIKAMSSGVNILDTVTLPCKVTQETKFSFRIVLTQG 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRI 218 L NR+I+++ E ++V +L R+ Sbjct: 183 L----NRQIRRMCEALGYEVFKLRRV 204 >gi|260772257|ref|ZP_05881173.1| ribosomal large subunit pseudouridine synthase F [Vibrio metschnikovii CIP 69.14] gi|260611396|gb|EEX36599.1| ribosomal large subunit pseudouridine synthase F [Vibrio metschnikovii CIP 69.14] Length = 332 Score = 82.8 bits (203), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 58/209 (27%), Positives = 103/209 (49%), Gaps = 7/209 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + T +R++K I+ G SRRE +++I Q RV +NG L + V D + +DG P+ Sbjct: 3 SLTEKRLNKYISETGFCSRREADKLIEQGRVTINGQLPPMGS-KVTEHDQVCIDGKPVGY 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG Sbjct: 62 KEKPIYIALNKPTGITCT-TERDVPGNIVDFIGH-NKRIFPIGRLDKPSDGLIFLTNDGD 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y VR + + + + + G+ I +V +TQ + Sbjct: 120 IVNKILRAGNNHEKEYVVRVNKPISAEFIRQMSAGVNILDTVTLPCKVVQETQYSFRIIL 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRI 218 T GL NR+I+++ E ++V +L R+ Sbjct: 180 TQGL----NRQIRRMCEALGYEVFKLRRV 204 >gi|34495844|ref|NP_900059.1| pseudouridine synthase A, small subunit [Chromobacterium violaceum ATCC 12472] gi|34101699|gb|AAQ58067.1| pseudouridine synthase A, small subunit [Chromobacterium violaceum ATCC 12472] Length = 234 Score = 82.8 bits (203), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 64/231 (27%), Positives = 108/231 (46%), Gaps = 7/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLE--RAAVNVMSTDHIEVDGVPLRKAER 72 + +++ + G R+E ++I V+VNG +++ RA + + VDG P Sbjct: 2 ELYRLLQQQGFGGRKECRQLIEYGLVEVNGEVVDDYRAQFELADIASLAVDGEPWPLVTG 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L HKP T+H P +V+ LP F+R V +VGRLD++T GL+LL+NDG Sbjct: 62 PLYLLLHKPANYETSHK-PQCHPSVYRLLPDQFARLDVSAVGRLDVDTTGLILLSNDGQF 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P +VYRV + + + L+ G+ + +++ +T Sbjct: 121 IHALSSPKKLVPKVYRVTLKHEATPELIAKLQSGVYLNDEAREFAADSVEQIDPHTILLT 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGK ++K++ + +V L R S G LG L G R ++ + L Sbjct: 181 I--TEGKYHQVKRMVAAASNRVEALHRESLGAIVLGDLPVGEWRHLTAEEL 229 >gi|333030055|ref|ZP_08458116.1| pseudouridine synthase Rsu [Bacteroides coprosuis DSM 18011] gi|332740652|gb|EGJ71134.1| pseudouridine synthase Rsu [Bacteroides coprosuis DSM 18011] Length = 321 Score = 82.8 bits (203), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 60/225 (26%), Positives = 120/225 (53%), Gaps = 11/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K I+ +G SRRE +++I +VKVNG ++A++ V + V+G + Sbjct: 4 RLNKYISNSGYCSRREADKLIEAGQVKVNG---KKASIGDRVYPKQKVTVNGELIVNDIE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++KP+G+V+T +DP+ ++ + + S R+ +GRLD +++GL+LLTNDG + Sbjct: 61 PVYIAFNKPVGIVST-TDPNEKANIVKYI-SHEQRIFPIGRLDKDSQGLILLTNDGDIVN 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + +VY V+ + + + +K G+ I + + +K + + Sbjct: 119 KILRAGNNHKKVYIVQVDKPITDEFIEKMKTGVPI----LDRVTRKCEVEKINPYTFKIE 174 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L +G NR+I+++ +F+++V +L R +L L GS R+++ Sbjct: 175 LIQGLNRQIRRMCAYFDYEVLKLERTQIMNIELEGLGLGSWRDLN 219 >gi|297586934|ref|ZP_06945579.1| ribosomal small subunit pseudouridine synthase A [Finegoldia magna ATCC 53516] gi|297574915|gb|EFH93634.1| ribosomal small subunit pseudouridine synthase A [Finegoldia magna ATCC 53516] Length = 235 Score = 82.8 bits (203), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 66/236 (27%), Positives = 126/236 (53%), Gaps = 17/236 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 R+ ++++ IA+R+E+++M+ + + VN + +++ S++HI+ + ++ + Sbjct: 2 RLDRMLSEMKIATRKEIKQMVKKGIITVNDVTVKK------SSEHIDENKDVVKIYDEVI 55 Query: 74 --RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTND 127 R +LY +K G VT+HS TV D++ + ++ VGRLD++T GLL++TND Sbjct: 56 EYRKYLYFVMNKRKG-VTSHSKDPMHRTVIDDMGELCVFDLNPVGRLDLDTTGLLIITND 114 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G A L P + Y+V +VD+ + +KGI + T++ N Sbjct: 115 GKFAHNLISPKKDVSKKYKVTLRYKVDEKYNDTFEKGIKLMPEDIITKPATMEIIDDYNC 174 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 ++T+ +EGK ++K++FE +V L R+ G F+L L G RE++ + L+ Sbjct: 175 YLTI--KEGKYHQVKRMFEKVGNEVVELQRVQIGSFKLPEDLEEGDFRELTDEELK 228 >gi|110835398|ref|YP_694257.1| pseudouridylate synthase [Alcanivorax borkumensis SK2] gi|110648509|emb|CAL17985.1| pseudouridylate synthase [Alcanivorax borkumensis SK2] Length = 229 Score = 82.8 bits (203), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 65/228 (28%), Positives = 117/228 (51%), Gaps = 10/228 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ +A + +R+E +++I++ V V G +A + + + V G ++ R Sbjct: 2 RLDYFLAHSAGLTRKEAKQLISRGAVTVEGEAKPKANLQLRPDQAVTVHGERVQPPGH-R 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP+ +V + DP G TV D LP + ++V GRLD +T GL+LLT+DG + Sbjct: 61 YLMLHKPVDVVCSTEDP-GHRTVLDLLPPELRAQVHPAGRLDRDTTGLVLLTSDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 L P+ + YRV+ V + + L++G++++ G+ + TL Q + A + + Sbjct: 120 LTSPNHACGKRYRVQCADPVSDEDMQALREGVLLR----GEDKPTLPAQVERLDEACLLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK 238 +REG+ ++K++ KV L R G QL LA G R +++ Sbjct: 176 TIREGRYHQVKRMLAACGNKVLGLHREQIGEIQLDAALAPGEYRALTE 223 >gi|91793104|ref|YP_562755.1| 23S rRNA pseudouridine synthase F [Shewanella denitrificans OS217] gi|91715106|gb|ABE55032.1| ribosomal large subunit pseudouridine synthase F [Shewanella denitrificans OS217] Length = 309 Score = 82.8 bits (203), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 66/231 (28%), Positives = 118/231 (51%), Gaps = 13/231 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R + Q V +NG RA V + + D ++V+G + R A Sbjct: 7 RLNKYISESGICSRRDADRYVEQGNVFING---RRAQVGDLVSIGDKVKVNGQDIEPRDA 63 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +KP+G+V+T ++ R + D + SR+ +GRLD +++GL+ LTN+G L Sbjct: 64 ENLVFIALNKPVGIVST-TEGSERDNIVD-FVNHSSRIFPIGRLDKDSQGLIFLTNNGDL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + D + + G+ I G+ V ++ S Sbjct: 122 VNKILRAGNNHDKEYVVTVNKPITDDFIKGMGAGVPILGVVTKKCVV----EQVSPFAFK 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +G NR+I+++ E+F ++V +L R L L G R++ K+ L Sbjct: 178 IVLVQGLNRQIRRMCEYFGFEVTKLERQQIMNVSLKGLPIGEWRDLDKQEL 228 >gi|229102971|ref|ZP_04233660.1| Pseudouridine synthase [Bacillus cereus Rock3-28] gi|229115851|ref|ZP_04245249.1| Pseudouridine synthase [Bacillus cereus Rock1-3] gi|229173064|ref|ZP_04300615.1| Pseudouridine synthase [Bacillus cereus MM3] gi|228610397|gb|EEK67668.1| Pseudouridine synthase [Bacillus cereus MM3] gi|228667594|gb|EEL23038.1| Pseudouridine synthase [Bacillus cereus Rock1-3] gi|228680386|gb|EEL34574.1| Pseudouridine synthase [Bacillus cereus Rock3-28] Length = 238 Score = 82.8 bits (203), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 67/225 (29%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G +VT + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R++SKK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKK 222 >gi|254517670|ref|ZP_05129726.1| pseudouridine synthase [Clostridium sp. 7_2_43FAA] gi|226911419|gb|EEH96620.1| pseudouridine synthase [Clostridium sp. 7_2_43FAA] Length = 238 Score = 82.4 bits (202), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 122/235 (51%), Gaps = 15/235 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-R 72 +R+ KV++ G +R+E+++++ + ++VNG E N M D EVD + + E Sbjct: 2 ERLDKVLSNLGYGTRKEIKQVVRKGLIEVNG---EIVKDNGMQIDP-EVDKILVNGEEIF 57 Query: 73 TRLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---VGRLDINTEGLLLLTN 126 R ++Y +KP G+V+ + D R +L I +V VGRLD +T GLLLLTN Sbjct: 58 YRKYIYLMMNKPDGVVS--ATFDNRDETVIDLLEIEHQVFEPFPVGRLDKDTVGLLLLTN 115 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS 185 DG L L P + +VY + +V + + K GI + G + ++ + S Sbjct: 116 DGELNHRLISPKWKVDKVYYAKIDKKVTEADIKKFKNGITLDDGYTCKEAKLEILESSDS 175 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + V + ++EGK ++K++FE + V L R+ +G QL L G RE++++ Sbjct: 176 GSEVMITIQEGKFHQVKRMFEAVDKSVVYLKRVEFGTLQLDEDLEEGEYRELTEE 230 >gi|50121666|ref|YP_050833.1| 16S rRNA pseudouridylate synthase A [Pectobacterium atrosepticum SCRI1043] gi|49612192|emb|CAG75642.1| ribosomal small subunit pseudouridine synthase [Pectobacterium atrosepticum SCRI1043] Length = 231 Score = 82.4 bits (202), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 63/227 (27%), Positives = 114/227 (50%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + QRV V+G +++ A + ++E DG PL++ R Sbjct: 2 RLDKFLSQQLEISRSLVARELHAQRVTVDGEVVKSGAFKLSPEHNVEFDGNPLKQQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V + DPD + + F ++P + ++ + GRLDI+T GL+LLT+DG + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTILYFMDVPVAY-KLHAAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y V + +D G+ + TL +K ++ V + + Sbjct: 121 ITSPKHECEKTYLVTLELPLAEDTAEQFTVGVQLHNEKNLTKPATL--EKITDHVVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 EG+ ++K++F +V L R G L + L G RE+S + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGGICLDSELEPGEFRELSAE 225 >gi|317403818|gb|EFV84295.1| pseudouridylate synthase [Achromobacter xylosoxidans C54] Length = 243 Score = 82.4 bits (202), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 113/236 (47%), Gaps = 21/236 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVPLRKAERT 73 R+SK+++ G+ SRRE + I + V+V+G ++ I ++ R+ R Sbjct: 5 RISKLMSERGLCSRREADSYIERGWVRVDGEVVSELGARAFPNQVITLERAAQARQTSRV 64 Query: 74 RLWLYHKPIGLVTTHSDP---------DGRSTVF-DNLPSIFSR-----VISVGRLDINT 118 + L +KP+G V+ ++ D RS D P F R + GRLDI++ Sbjct: 65 TI-LINKPVGYVSGQAEKGYTPAVALIDARSRFAGDRSPQRFERGHLDGLAVAGRLDIDS 123 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 +GLL+LT DG +A++L + + Y VR G + ++ L LL G+ + G QV Sbjct: 124 QGLLVLTQDGRVAKLLIGEDSSIDKEYLVRVQGDLSENGLALLNHGLSLDGKALKPAQVR 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 ++ + LREGK R+I+++ E KV L R+ G LG L G R Sbjct: 184 WQ----NHDQLRFVLREGKKRQIRRMCELVGLKVVGLKRVRIGRVALGELPLGQWR 235 >gi|325103401|ref|YP_004273055.1| ribosomal large subunit pseudouridine synthase F [Pedobacter saltans DSM 12145] gi|324972249|gb|ADY51233.1| ribosomal large subunit pseudouridine synthase F [Pedobacter saltans DSM 12145] Length = 298 Score = 82.4 bits (202), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 66/233 (28%), Positives = 112/233 (48%), Gaps = 14/233 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL---RKAE 71 R++K I+ +GI SRRE +R+I + RV +NG + V + D + VD L + E Sbjct: 12 RLNKAISDSGICSRREADRLIEEGRVTING-KTAKVGDRVSAFDEVIVDDRRLKLNKTGE 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R ++KP G+V T ++PD + + D N P R+ +GRLD +EGL+ LT+DG Sbjct: 71 RPVYIAFNKPRGIVCT-TEPDVKDNIIDYINFP---KRIFPIGRLDKPSEGLIFLTSDGN 126 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y V + + + + KG+ I QV K Sbjct: 127 IVNKILRAGNNHEKEYIVTVDKPITDEFIKGMMKGVPILDTVTKKCQVF----KEGELVF 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G R+++K+ E+F + V +L R L L G+ R ++ + L+ Sbjct: 183 RIILTQGLYRQVRKMCEYFGYHVTKLKRTRIMNISLAKLPLGTWRYLTPEELQ 235 >gi|315929678|gb|EFV08855.1| conserved hypothetical protein [Campylobacter jejuni subsp. jejuni 305] Length = 204 Score = 82.4 bits (202), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 65/205 (31%), Positives = 101/205 (49%), Gaps = 17/205 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ SRRE + +I Q VK+N + + V D + V G ++K + Sbjct: 2 RINKFISHNTRYSRREADELIKQGLVKINN-KIALLSDEVKFDDKVFVKGKRVQKRTQFS 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A L Sbjct: 61 VIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIADAL 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----------- 183 + R Y ++ G V + + ++ G+ I+ G T T Sbjct: 121 MHSDLE--REYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEIF 178 Query: 184 GSNAWVT---VGLREGKNREIKKVF 205 GS+ T V + EGKNRE+++ F Sbjct: 179 GSSGGYTKLRVVINEGKNRELRRFF 203 >gi|331270360|ref|YP_004396852.1| pseudouridine synthase [Clostridium botulinum BKT015925] gi|329126910|gb|AEB76855.1| pseudouridine synthase [Clostridium botulinum BKT015925] Length = 240 Score = 82.4 bits (202), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 68/242 (28%), Positives = 118/242 (48%), Gaps = 25/242 (10%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRK 69 T +R+ K+++ G SR+E++ ++ + ++++G ++ V V I +V G + Sbjct: 1 MTMERLDKILSNLGYGSRKEIKVLVKKGEIEIDGEKIKDNGVKVDPNKSIIKVSGEEINY 60 Query: 70 AERTRLWLYHKPIGLVTTHSDP---------DGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + L + +KP G+V+ D D TVFD P VGRLD +TEG Sbjct: 61 RKYIYLMM-NKPAGVVSATFDNYDETVIDLLDYEYTVFDPFP--------VGRLDKDTEG 111 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQV 177 LL+TNDG L L P ++Y VD+ + +KGI+++ ++V Sbjct: 112 FLLITNDGDLNHRLTSPKWHVDKIYYAEIDKIVDEKDIKAFEKGIMLEDGYRCLPAKLRV 171 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 + GS +T+ +EGK ++K++FE + KV L R+ G L +L G RE+ Sbjct: 172 LSADENGSEVNITI--QEGKFHQVKRMFEARDKKVIYLKRLQMGNLVLDESLSEGEYREL 229 Query: 237 SK 238 ++ Sbjct: 230 TE 231 >gi|317498387|ref|ZP_07956682.1| RNA pseudouridylate synthase [Lachnospiraceae bacterium 5_1_63FAA] gi|316894281|gb|EFV16468.1| RNA pseudouridylate synthase [Lachnospiraceae bacterium 5_1_63FAA] Length = 242 Score = 82.4 bits (202), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 71/234 (30%), Positives = 117/234 (50%), Gaps = 8/234 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + +R+E + + + +V VNG +++ V D +E D L + E+ Sbjct: 6 RLDKFLCDSLNMTRKEAKESVKKGKVVVNGEAIKKPEYKVDAEQDQVEFDH-KLIQFEQF 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP G+V+ D + TV D + + R+ VGRLD +TEGLLLLT+DG LA Sbjct: 65 HYLMLHKPQGVVSATKDHHDQ-TVLDLIHEDYKDRLFPVGRLDKDTEGLLLLTDDGMLAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVT 190 L P +VY + GQ ++++ K+G+ I G Q L K + V Sbjct: 124 ELLSPRKHVDKVYFAKVSGQFGENEIARFKEGLDI-GNGEKSKQARLQILKADVQESEVL 182 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILRE 243 + + EGK ++K++ + +V L R+S G +L L G R ++K L+E Sbjct: 183 ITIMEGKFHQVKRMVKAVGSEVLYLKRLSMGSLKLDEELKLGEYRRLTKAELQE 236 >gi|169834407|ref|YP_001694153.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae Hungary19A-6] gi|168996909|gb|ACA37521.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae Hungary19A-6] Length = 241 Score = 82.4 bits (202), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 120/233 (51%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ I SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKI-SRKAMKQALLKGEILVDGCPARSLAQNIDTGLQELLFQDQIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HK G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKSAGVVTANKDRE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQTFQKGIVFLDGTICKPARLEILSASPSLSQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK +IKK+F KV L RI +G F L LA G+ R +++K L+ Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >gi|297621361|ref|YP_003709498.1| RNA pseudouridylate synthase family protein [Waddlia chondrophila WSU 86-1044] gi|297376662|gb|ADI38492.1| RNA pseudouridylate synthase family protein [Waddlia chondrophila WSU 86-1044] Length = 239 Score = 82.4 bits (202), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 115/240 (47%), Gaps = 25/240 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---AE 71 R+SK+++ GI SRRE +RMI + V+ NG ++ V IE+ +P K AE Sbjct: 5 RLSKLMSLRGICSRREADRMIEKGLVRANGKVISELGTKVPENAEIEL--LPHAKKWQAE 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGR-------------STVFDNLPSIFSRVISVGRLDINT 118 + + L +KPIG V+T + + S FD P ++ GRLDI++ Sbjct: 63 KVTIIL-NKPIGYVSTQPEKGYKQALDLITPERQWNSKSFD--PKHLRKLSVAGRLDIDS 119 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 +G+L+LT DG +A+ + ++ + Y VR G V + L G+V+ + Sbjct: 120 KGILILTQDGVIAKKIIGNESEIEKEYLVRVDGAVTPGIIKRLSFGLVLDNTPLKKANI- 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 Q+ + L EGK R+I+++ E KV L R+ G +LG L G R + K Sbjct: 179 ---QQLDEHLMKFTLIEGKKRQIRRMCELVGLKVVDLKRVRIGKIRLGDLPTGYWRYLKK 235 >gi|66047563|ref|YP_237404.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae B728a] gi|63258270|gb|AAY39366.1| Pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae B728a] gi|330969466|gb|EGH69532.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. aceris str. M302273PT] Length = 210 Score = 82.4 bits (202), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 55/183 (30%), Positives = 93/183 (50%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL L++KP ++T SD +GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 RLILFNKPFDVLTQFSDEEGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ ++L L+ G+ + G LD Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPSDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPRNPP 147 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + ++EG+NR+++++ RL+R+ G + L L G REV+ Sbjct: 148 VRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLEGLDQGQYREVA 207 Query: 238 KKI 240 K+ Sbjct: 208 AKL 210 >gi|297583540|ref|YP_003699320.1| pseudouridine synthase [Bacillus selenitireducens MLS10] gi|297141997|gb|ADH98754.1| pseudouridine synthase [Bacillus selenitireducens MLS10] Length = 236 Score = 82.4 bits (202), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 68/230 (29%), Positives = 117/230 (50%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 RV K++A G SR++V++++ + VNG +++ A +V TD + G P+ E Sbjct: 2 RVDKLLAHVGYGSRKDVKQLLKKGLFTVNGEVVKSAKAHVDPETDDLAFGGEPILYREHL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + HKP G+++ D R+ V + +F + VGRLD +T GLLLLTNDG A Sbjct: 62 YVMM-HKPAGVLSATEDVSERTVVDLLEEEDRLF-QPFPVGRLDKDTTGLLLLTNDGKWA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + P+ + + Y V V + + L++G+ + G V + S ++T Sbjct: 120 HGITSPARKIPKTYEVLTAEPVTDEMADQLQQGVTLDDGYETRPAGVAFPDESRSRLYLT 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++ V+ L RI G L +L AG+ RE+++K Sbjct: 180 I--DEGKYHQVKRMLAAVGNHVDGLKRIRIGGLPLDESLEAGTYRELTEK 227 >gi|317047747|ref|YP_004115395.1| pseudouridine synthase [Pantoea sp. At-9b] gi|316949364|gb|ADU68839.1| pseudouridine synthase [Pantoea sp. At-9b] Length = 224 Score = 82.4 bits (202), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 56/194 (28%), Positives = 97/194 (50%), Gaps = 21/194 (10%) Query: 66 PLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 P+R+ R R+ L++KP ++ SD GR T+ D +P + V + GRLD ++EGL Sbjct: 28 PVRRDARPKGPLRVILFNKPFDVLPQFSDEAGRRTLKDFVP--VTDVYAAGRLDRDSEGL 85 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI---- 170 ++LTNDG L L P + ++Y V+ G+ L+ L+ G+ + G+ Sbjct: 86 MVLTNDGALQARLTQPGKRTGKIYFVQVEGEPQDSDLSRLRSGVTLNDGPTLPAGVERVA 145 Query: 171 ---CYGDMQVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 Q + +K W+ + L EG+NR+++++ + RLIR + G +QL Sbjct: 146 APEWLWPRQPPIRERKAIPTCWLKITLYEGRNRQVRRMTAHIGFPTLRLIRYAMGEYQLD 205 Query: 227 TLLAGSTREVSKKI 240 L G R++S + Sbjct: 206 HLAPGEWRDISAEF 219 >gi|123968794|ref|YP_001009652.1| putative pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus str. AS9601] gi|123198904|gb|ABM70545.1| putative pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus str. AS9601] Length = 240 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 62/209 (29%), Positives = 108/209 (51%), Gaps = 14/209 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRRE +R+I +V +NG + E V +D +EV G + K++R + Sbjct: 4 RINKYLSEVGYCSRREADRLILDGKVTINGKIPE-IGTKVEDSDQVEVKGQRIEKSKRQK 62 Query: 75 -LWL-YHKPIGLVTTHS---DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++L ++KP+G+V T +PD F P R+ +GRLD +EGL+ LTNDG Sbjct: 63 NIYLAFNKPVGIVCTTDRKVEPDN-VIDFIKYPK---RIFPIGRLDKLSEGLIFLTNDGD 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y V+ + ++ D + + G+ I G + V Q G + Sbjct: 119 IVNKILRARNNHEKEYIVKVNRPINNDFIQSMSNGVEILGTITKNCFV---KQLGPRNFK 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRI 218 + L +G NR+I+++ E ++V L RI Sbjct: 176 II-LTQGLNRQIRRMCEALGYRVQSLKRI 203 >gi|330987630|gb|EGH85733.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. lachrymans str. M301315] Length = 210 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 54/183 (29%), Positives = 94/183 (51%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L+L++KP ++T SD GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 KLFLFNKPFDVLTQFSDEGGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ ++L L+ G+ + G LD Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPTDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPRNPP 147 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + ++EG+NR+++++ RL+R+ G + L +L G REV+ Sbjct: 148 VRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDSLDQGQYREVA 207 Query: 238 KKI 240 K+ Sbjct: 208 AKL 210 >gi|254517600|ref|ZP_05129656.1| ribosomal large subunit pseudouridine synthase f [Clostridium sp. 7_2_43FAA] gi|226911349|gb|EEH96550.1| ribosomal large subunit pseudouridine synthase f [Clostridium sp. 7_2_43FAA] Length = 258 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 118/250 (47%), Gaps = 16/250 (6%) Query: 1 MKDKN------IVQENFTPQ-RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN 53 MK KN I+ + P+ R++K I+ G SRRE +++I RV V+GI Sbjct: 1 MKQKNNEDKFVIIHNDRGPEIRLNKFISETGFCSRREADKLIENGRVTVDGIK-AVMGTK 59 Query: 54 VMSTDHIEVDGVPLRKAERTRLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVG 112 V + ++VDG ++K + +KP+G+ TT G F N R+ +G Sbjct: 60 VKESADVKVDGKSIKKVDELVYIALNKPVGITCTTEKKVKGNIVDFVNHKK---RIFPIG 116 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLD +++GL+LLTNDG + + + Y V +D+ + + G+ I G Sbjct: 117 RLDKDSQGLILLTNDGDVVNKILRAGNNHEKEYIVTVDKPIDEKFIKSMSSGVKILGTIT 176 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 V T++ N + + L +G NR+I+++ E + V +L RI + L G Sbjct: 177 KKCIV---TKENKNTFRII-LTQGMNRQIRRMCEALGYNVVKLNRIRIMNINIERLKIGE 232 Query: 233 TREVSKKILR 242 R ++ K L+ Sbjct: 233 WRNLTSKELK 242 >gi|117619273|ref|YP_856164.1| 23S rRNA pseudouridine synthase F [Aeromonas hydrophila subsp. hydrophila ATCC 7966] gi|117560680|gb|ABK37628.1| ribosomal large subunit pseudouridine synthase F [Aeromonas hydrophila subsp. hydrophila ATCC 7966] Length = 344 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 120/233 (51%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA V V + D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRFIEQGNVFING---KRAGVGDQVFAGDLVKVNGQVIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + +KP+G+V+T ++ + + D + + +R+ +GRLD +++GL+ LTN G L Sbjct: 65 DSLVFIVLNKPVGIVST-TEAGEKDNIVDFV-NHSTRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ I G +V +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPILGAVTKKCKV----KKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E F ++V +L RI L L G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCEHFGFEVTKLERIRIMNVSLKGLPVGEWRDLTDDELIE 231 >gi|262171826|ref|ZP_06039504.1| ribosomal large subunit pseudouridine synthase E [Vibrio mimicus MB-451] gi|261892902|gb|EEY38888.1| ribosomal large subunit pseudouridine synthase E [Vibrio mimicus MB-451] Length = 242 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 52/175 (29%), Positives = 86/175 (49%), Gaps = 16/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D DGR T+ D + V + GRLD ++EGLL+LTNDG L L Sbjct: 69 LFNKPYDTLSQFTDGDGRKTLADYI--SIKDVYAAGRLDRDSEGLLILTNDGILQARLTQ 126 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 127 PQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTLWPRNPPVRFRA 186 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ + L EG+NR+++++ + RLIR S G + LG L G REV+ Sbjct: 187 AIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRHSMGDWNLGDLQPGEWREVT 241 >gi|307709844|ref|ZP_07646293.1| conserved hypothetical protein [Streptococcus mitis SK564] gi|307619393|gb|EFN98520.1| conserved hypothetical protein [Streptococcus mitis SK564] Length = 220 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 70/220 (31%), Positives = 109/220 (49%), Gaps = 10/220 (4%) Query: 34 MIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPD 92 M+ RV VNG + A + + D I DG L E ++ +KP G+++ DP Sbjct: 1 MLKAGRVTVNGKKEKSAKLQIDEERDEIIFDGQVLEYEEFV-YYMMNKPKGVISATEDPK 59 Query: 93 GRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 R TV D L + V VGRLDI+T GLLLLTNDG LA L P + Y+ + Sbjct: 60 HR-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGQLAHALLSPKRHVDKTYQAQVK 118 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 G + Q+ + + KGI ++ + V++DT+K + + V + EGK ++K++ + Sbjct: 119 GIMTQEDVEIFAKGIPLKDFTCQPAKLEIVSIDTEK-IQSQIRVTIAEGKFHQVKRMVAY 177 Query: 208 FNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 +V L R++ G L L G R ++K+ L L Sbjct: 178 CGKEVVDLQRLTMGTLVLDENLQRGEWRRLTKEELEALLA 217 >gi|322615369|gb|EFY12289.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 315996572] gi|322618430|gb|EFY15319.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-1] gi|322622159|gb|EFY19009.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-3] gi|322627229|gb|EFY24021.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-4] gi|322631190|gb|EFY27954.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-1] gi|322637592|gb|EFY34293.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-2] gi|322642558|gb|EFY39155.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 531954] gi|322643574|gb|EFY40129.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. NC_MB110209-0054] gi|322648310|gb|EFY44769.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. OH_2009072675] gi|322654619|gb|EFY50939.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. CASC_09SCPH15965] gi|322659579|gb|EFY55822.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] gi|322662213|gb|EFY58429.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 81038-01] gi|322666043|gb|EFY62221.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. MD_MDA09249507] gi|322672462|gb|EFY68573.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 414877] gi|322675891|gb|EFY71962.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 366867] gi|322680375|gb|EFY76413.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 413180] gi|322684730|gb|EFY80734.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 446600] gi|323195994|gb|EFZ81160.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 609458-1] gi|323197076|gb|EFZ82217.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 556150-1] gi|323202220|gb|EFZ87270.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 609460] gi|323206320|gb|EFZ91282.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 507440-20] gi|323213332|gb|EFZ98134.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] gi|323215701|gb|EGA00445.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. MB101509-0077] gi|323222124|gb|EGA06510.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. MB102109-0047] gi|323226535|gb|EGA10741.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. MB110209-0055] gi|323229161|gb|EGA13290.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. MB111609-0052] gi|323236230|gb|EGA20306.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 2009083312] gi|323237651|gb|EGA21712.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 2009085258] gi|323241684|gb|EGA25713.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. 315731156] gi|323248169|gb|EGA32106.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2009159199] gi|323258439|gb|EGA42116.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008283] gi|323259719|gb|EGA43353.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008284] gi|323265992|gb|EGA49488.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008285] gi|323270434|gb|EGA53882.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008287] Length = 289 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 66/230 (28%), Positives = 118/230 (51%), Gaps = 13/230 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V+S D ++V+G + Sbjct: 5 TSTRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVSGDVVKVNGRLIEP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNYSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G + +K + Sbjct: 120 GDLVNKILRVGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|237745528|ref|ZP_04576008.1| pseudouridylate synthase [Oxalobacter formigenes HOxBLS] gi|229376879|gb|EEO26970.1| pseudouridylate synthase [Oxalobacter formigenes HOxBLS] Length = 249 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 71/242 (29%), Positives = 117/242 (48%), Gaps = 25/242 (10%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK ++ GI SRRE + I + VKV+G + + V+ I ++ ++ R Sbjct: 5 PVRLSKRMSELGICSRREADEWIERGWVKVDGKTVSQLGSKVLPHQKISIEKQASQEQAR 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL----------------PSIFSRVISVGRLDI 116 L +KP+G V+ ++ DG + PS ++ GRLDI Sbjct: 65 RVTILINKPVGYVSGQAE-DGYKPAVSLISEATRWKGDPSKEKFKPSQLRSLVPAGRLDI 123 Query: 117 NTEGLLLLTNDGGLARVL--ELPSTQWLRVYRVRF--HGQVDQDKLNLLKKGIVIQGICY 172 ++ GLL+LT DG +A+ L E +T + RV++ G++ ++ L LL+ G+ + G Sbjct: 124 DSVGLLVLTQDGRIAKRLIGENSATDKEYLVRVKYLKPGKLPENDLQLLRHGLKLDGKPL 183 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 +V ++ + LREGK R+I+++ E KV L RI G +LG L G Sbjct: 184 LPAKVNWQ----NDDQLRFVLREGKKRQIRRMCEAVGLKVIGLKRIRIGQIKLGDLPPGQ 239 Query: 233 TR 234 R Sbjct: 240 WR 241 >gi|121607481|ref|YP_995288.1| RNA-binding S4 domain-containing protein [Verminephrobacter eiseniae EF01-2] gi|121552121|gb|ABM56270.1| RNA-binding S4 domain protein [Verminephrobacter eiseniae EF01-2] Length = 305 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 79/248 (31%), Positives = 120/248 (48%), Gaps = 31/248 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ SRRE + IAQ RV+VNG + + V ++D I VD R A+R R Sbjct: 59 RLNKRMAELGLCSRREADDWIAQGRVRVNGQVAP-IGLRVTASDRIAVDK-QARGAQRQR 116 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTV--FDN-------------LPSIFSRVISVGRLDINT 118 + L HKP+G V+ ++ R V D P+ + GRLDI++ Sbjct: 117 VTILLHKPMGYVSGQAEDGHRPAVALIDQRTHWRDDTSRNRFAPAQLRGLAPAGRLDIDS 176 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRF-HGQVDQDKLNLLKKGIVIQGICYGDMQV 177 GLL+LT DG +AR L + + Y VR +G V D ++ G + +C+G + Sbjct: 177 VGLLVLTQDGRVARQLIGADSTVDKEYLVRVQYGAVALDVRSVFPAG-QLASLCHG---L 232 Query: 178 TLDTQKGSNAWVT--------VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 +LD Q A V L EG+ R+I+++ V L R+ G +LG L Sbjct: 233 SLDGQPLKPAVVDWQNPEQLRFVLTEGRKRQIRRMCALVGLTVVGLKRVRIGRVRLGLLP 292 Query: 230 AGSTREVS 237 AG R ++ Sbjct: 293 AGQWRYLA 300 >gi|238791828|ref|ZP_04635465.1| Ribosomal large subunit pseudouridine synthase E [Yersinia intermedia ATCC 29909] gi|238728932|gb|EEQ20449.1| Ribosomal large subunit pseudouridine synthase E [Yersinia intermedia ATCC 29909] Length = 208 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 51/178 (28%), Positives = 91/178 (51%), Gaps = 17/178 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ + +P F+ V + GRLD ++EGLL+LTNDG L Sbjct: 30 RVLLFNKPFDVLPQFTDESGRRTLKEFIP--FNDVYAAGRLDRDSEGLLVLTNDGKLQAK 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---------------ICYGDMQVT 178 L P+ + ++Y V+ G + D L+ L+ G+V++ + + Sbjct: 88 LTQPTAKTGKIYFVQVEGVPEDDALDKLRHGVVLKDGPTLPAGAELVSEPEWLWPRVPPI 147 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + W+ + L EG+NR+++++ + RLIR S G L L G +E+ Sbjct: 148 RERKNIPTRWLQITLYEGRNRQVRRMTAHIGFPTLRLIRFSVGNLSLADLQPGEWKEI 205 >gi|269961576|ref|ZP_06175938.1| Ribosomal large subunit pseudouridine synthase F [Vibrio harveyi 1DA3] gi|269833617|gb|EEZ87714.1| Ribosomal large subunit pseudouridine synthase F [Vibrio harveyi 1DA3] Length = 384 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 59/205 (28%), Positives = 100/205 (48%), Gaps = 7/205 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +R+I Q RV +NG E V+ D + VDG P+ E+ Sbjct: 7 KRLNKYISETGFCSRREADRLIEQGRVTINGQQPE-MGTKVLPGDDVCVDGNPVAAKEKP 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 66 IYIALNKPTGITCT-TERDIPGNIVDFI-GHKKRIFPIGRLDKPSDGLIFLTNDGDIVNK 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + + L + G+ I +V +T+ +T GL Sbjct: 124 ILRAGNNHEKEYVVRVDKPITGEFLKQMSSGVKILDTVTLPCKVEKETKFSFRIVLTQGL 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRI 218 NR+I+++ E ++V +L R+ Sbjct: 184 ----NRQIRRMCEALGYEVFKLRRV 204 >gi|269967650|ref|ZP_06181700.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 40B] gi|269827737|gb|EEZ82021.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 40B] Length = 233 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 52/175 (29%), Positives = 91/175 (52%), Gaps = 16/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP ++ +D DGR T+ D +P V + GRLD ++EGL++LTNDG L L Sbjct: 60 IFNKPYDTLSQFTDGDGRKTLADYIP--IKNVYAAGRLDRDSEGLMVLTNDGILQAKLTQ 117 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQ------------ 182 P ++ + Y V+ G + L L+KG+ ++ G+ +++V + Q Sbjct: 118 PKSKSPKTYWVQVDGAPQEQDLEKLRKGVELKDGMTLPAEVEVIPEPQVWDRTPPVRFRA 177 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ + + EG+NR+++++ + RLIR S G L L+ G RE+S Sbjct: 178 NIPTTWLAITIIEGRNRQVRRMTAHIGFPTLRLIRHSMGDIVLNDLMPGEWREIS 232 >gi|323254500|gb|EGA38311.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008282] Length = 289 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 66/230 (28%), Positives = 118/230 (51%), Gaps = 13/230 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V+S D ++V+G + Sbjct: 5 TSTRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVSGDVVKVNGRLIEP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNYSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G + +K + Sbjct: 120 GDLVNKILRVGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|294497295|ref|YP_003560995.1| pseudouridine synthase F (ribosomal large subunit) [Bacillus megaterium QM B1551] gi|294347232|gb|ADE67561.1| pseudouridine synthase F (ribosomal large subunit) [Bacillus megaterium QM B1551] Length = 238 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/225 (29%), Positives = 114/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G ASRR +++I++ RV VNG + + V D I V G LR A Sbjct: 5 RLNKFISESGKASRRGADKLISEGRVTVNG-KVAKVGDQVKPGDDIRVSGQQLRIARNNV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ +T S+ + + D L + R+ VGRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITST-SEKKVKGNIID-LVNHPLRIHHVGRLDKDSDGLILLTNDGDIINEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + + + +G+ I G +VT + S + L Sbjct: 122 LRAENKHEKEYIVAVDKPITPEFIKNMSEGVKILGTKTLPCEVT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V RL R L L G R+++KK Sbjct: 178 QGLNRQIRRMCEVLGYEVYRLQRTRIMNIHLNNLPVGQWRDLTKK 222 >gi|261418151|ref|YP_003251833.1| pseudouridine synthase [Geobacillus sp. Y412MC61] gi|319767889|ref|YP_004133390.1| pseudouridine synthase [Geobacillus sp. Y412MC52] gi|261374608|gb|ACX77351.1| pseudouridine synthase [Geobacillus sp. Y412MC61] gi|317112755|gb|ADU95247.1| pseudouridine synthase [Geobacillus sp. Y412MC52] Length = 248 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 72/228 (31%), Positives = 110/228 (48%), Gaps = 8/228 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VKV+G + A V + I V G + Sbjct: 4 RIDKLLAHMGYGTRKEVKKLLKSGAVKVDGAPVRDAKTKVRPDEQIVTVWGETVEYKPFI 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGGL 130 L + +KP G+V+ D TV D L F VGRLD +TEGLLLLTNDG L Sbjct: 64 YLMM-NKPSGVVSATEDA-VEETVVDLLEEEDRAFCP-FPVGRLDKDTEGLLLLTNDGQL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y G+V + + ++G+V+ + + G + V Sbjct: 121 AHQLLSPKKHVPKTYFAVVGGEVTEADVAAFQRGVVLDDGYETKPAKLVVLKSGLRSDVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 V + EGK ++K++F+ +V L RI GP L LA G RE++ Sbjct: 181 VTITEGKFHQVKRMFQAVGKRVVYLKRIQMGPLALDPDLAVGEYRELT 228 >gi|332971035|gb|EGK10006.1| ribosomal large subunit pseudouridine synthase F [Kingella kingae ATCC 23330] Length = 243 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 108/237 (45%), Gaps = 20/237 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK +A I SRRE + I Q VKVNG + V+ D I++D ++ + Sbjct: 4 PIRLSKRMAELKICSRREADSYIEQGWVKVNGAV-AVLGQKVLPNDRIDLDKRAHQQQTQ 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV---------------FDNLPSIFSRVISVGRLDIN 117 L +KP+G V+ + D R+ + PS + GRLDI+ Sbjct: 63 RVTILLNKPVGFVSGQPEKDYRAAIELITESNHWQGDTSRIAFHPSQLRGLAPAGRLDID 122 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + GLL+LT DG +A+ L + + Y VR G + L LL G+ + G +V Sbjct: 123 SVGLLVLTQDGRIAKQLIGEQSDSEKEYLVRVKGTLSPQGLALLNHGLSLDGEKLRPAKV 182 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 183 EWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGALPTGQWR 235 >gi|310659128|ref|YP_003936849.1| pseudouridylate synthase [Clostridium sticklandii DSM 519] gi|308825906|emb|CBH21944.1| pseudouridylate synthase [Clostridium sticklandii] Length = 236 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 107/227 (47%), Gaps = 15/227 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++ I+ +G+ SRR+ + +I +VKVN + + V D +EVDG ++ E Sbjct: 2 RLNNYISSSGLCSRRKADELIKNNKVKVNSKIAD-LGYQVSEGDIVEVDGTIIKPKEDKV 60 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ TT +G + N R+ +GRLD ++EGL+LLTNDG + Sbjct: 61 YIALYKPVGITCTTEEHIEGNIVDYVNYKE---RIFPIGRLDKDSEGLILLTNDGDIVNR 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------QKGSNA 187 + + Y V +D L + +G+ I Y ++ T T K S Sbjct: 118 ILREENHHEKEYIVTVDKPLDSKTLKQMSQGVRI----YNPVKNTYTTTKPCKIHKISEK 173 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L +G NR+I+++ + F +KV +L R+ L L G R Sbjct: 174 SFKIVLSQGLNRQIRRMCQHFGYKVRKLKRVRILNITLDGLSYGKWR 220 >gi|104783740|ref|YP_610238.1| pseudouridylate synthase [Pseudomonas entomophila L48] gi|95112727|emb|CAK17455.1| pseudouridylate synthase [Pseudomonas entomophila L48] Length = 209 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 54/183 (29%), Positives = 94/183 (51%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL L++KP ++T SD +GR+T+ F ++P I+ GRLD ++EGLLLLTNDG L Sbjct: 31 RLILFNKPFDVLTQFSDGEGRATLKDFIDIPGIYP----AGRLDRDSEGLLLLTNDGRLQ 86 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------- 184 + P + + Y V+ G+ +++L L++G+ + + L + Sbjct: 87 ARIADPKHKLAKTYWVQVEGEPSEEQLKRLREGVELNDGPTLPAEARLLEEPELWPRNPP 146 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 AW+ + +REG+NR+++++ RL+R+ G + + L G REV Sbjct: 147 VRFRKSVPTAWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWTIEGLEQGCWREVV 206 Query: 238 KKI 240 K+ Sbjct: 207 AKL 209 >gi|268593179|ref|ZP_06127400.1| ribosomal large subunit pseudouridine synthase F [Providencia rettgeri DSM 1131] gi|291311225|gb|EFE51678.1| ribosomal large subunit pseudouridine synthase F [Providencia rettgeri DSM 1131] Length = 289 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/247 (27%), Positives = 127/247 (51%), Gaps = 15/247 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V S D ++V+G + R Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFING---KRAGIGDQVFSGDVVKVNGQLIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T ++ + + D + + +R+ +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVST-TESGEKDNIVDYV-NHSTRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + + G+ I G M +K + Sbjct: 123 VNKILRAGNSHEKEYLVTVNKPVTDEFIRGMGAGVPI----LGTMTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R+ +L + G R+++ L E ++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGFEVTKLERVRIMNVRLTGIPVGEWRDLTDDELIELF--DMM 236 Query: 251 EEAQVNL 257 E+++ ++ Sbjct: 237 EKSESDI 243 >gi|167632749|ref|ZP_02391075.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0442] gi|167531561|gb|EDR94226.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0442] Length = 238 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKSVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQRRDLTKK 222 >gi|301328490|ref|ZP_07221556.1| conserved hypothetical protein [Escherichia coli MS 78-1] gi|300845097|gb|EFK72857.1| conserved hypothetical protein [Escherichia coli MS 78-1] Length = 217 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 54/180 (30%), Positives = 91/180 (50%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G+ D L Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGVELVDEPAWLWPRNPP 156 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G REV+ Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREVT 216 >gi|284920961|emb|CBG34024.1| ribosomal large subunit pseudouridine synthase E (rRNA pseudouridylate synthase E) [Escherichia coli 042] Length = 217 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 54/180 (30%), Positives = 91/180 (50%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G+ D L Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGVELVDEPAWLWPRNPP 156 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G REV+ Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREVT 216 >gi|171464311|ref|YP_001798424.1| RNA-binding S4 domain protein [Polynucleobacter necessarius subsp. necessarius STIR1] gi|171193849|gb|ACB44810.1| RNA-binding S4 domain protein [Polynucleobacter necessarius subsp. necessarius STIR1] Length = 245 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 70/256 (27%), Positives = 120/256 (46%), Gaps = 41/256 (16%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKAERT 73 RVSK+++ G+ SRRE + I Q V ++G ++ V IE+ G ++A R Sbjct: 6 RVSKLLSELGLCSRREADSYIEQGLVTIDGEVVNELGVRAYRHQKIELQSGAKAQQASRI 65 Query: 74 RLWLYHKPIGLVTTHSDPD---------------------GRSTVFDNLPSIFSRVISVG 112 + L +KP+G ++ + D G+S F+ + G Sbjct: 66 TVIL-NKPVGYISHYDDEQEYQPAASLITPANYFASPLDKGKSPRFNT-----KGLAPAG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLDI++ G+L+LT DG +A++L ++ + Y VR G++ + L+ L+ G+ + + Sbjct: 120 RLDIDSTGMLVLTQDGRIAKLLIGENSPIEKEYLVRVAGRLSFEGLDRLRHGLSLDEVEL 179 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 QV+ ++ + LREG+ R+I+++ E KV L R+ G LG+L G Sbjct: 180 KPAQVSWQNEE----QLRFVLREGRKRQIRRMCEIVGLKVLGLKRVRMGRISLGSLPPGQ 235 Query: 233 TREVSKKILREQLGPH 248 R V GPH Sbjct: 236 WRYV---------GPH 242 >gi|258626360|ref|ZP_05721207.1| pseudouridine synthase family 1 protein [Vibrio mimicus VM603] gi|258581412|gb|EEW06314.1| pseudouridine synthase family 1 protein [Vibrio mimicus VM603] Length = 275 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 65/238 (27%), Positives = 112/238 (47%), Gaps = 34/238 (14%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR +K AR S ++ A++R N I + A++ +ER Sbjct: 57 QRTTKNTARPHTTSGKK--SFSAKKRATSNDITSPKRAIS---------------PSER- 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ L++KP ++ +D DGR T+ + + V + GRLD ++EGLL+LTNDG L Sbjct: 99 KVVLFNKPYDTLSQFTDGDGRKTLANYI--QIKDVYAAGRLDRDSEGLLILTNDGILQAR 156 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------- 184 L P ++ + Y V+ G + L L++G+ ++ +V + + Sbjct: 157 LTQPQSKAPKTYWVQVEGVPQESDLEALRQGVTLKDGPTLPAKVEIMPEPELWPRNPPVR 216 Query: 185 -----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+T+ L EG+NR+++++ + RLIR S G + LG L G REV+ Sbjct: 217 FRAAIPTTWLTITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPGEWREVT 274 >gi|157148091|ref|YP_001455410.1| 23S rRNA pseudouridine synthase F [Citrobacter koseri ATCC BAA-895] gi|157085296|gb|ABV14974.1| hypothetical protein CKO_03898 [Citrobacter koseri ATCC BAA-895] Length = 291 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/227 (29%), Positives = 114/227 (50%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + VM D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFING---KRATIGDQVMPGDVVKVNGRLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +KP+G+V+T D + R + D + + R+ +GRLD +++GL+ LTN G L Sbjct: 65 EDLVFIALNKPVGIVSTTEDSE-RDNIVDFV-NHSKRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V D + + G+ I G +V + + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDDFIRGMGAGVPILGTVTKKCKVKKE----APFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L L G R+++ Sbjct: 179 ITLIQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLSGLPPGEWRDLT 225 >gi|238758424|ref|ZP_04619601.1| Ribosomal large subunit pseudouridine synthase E [Yersinia aldovae ATCC 35236] gi|238703328|gb|EEP95868.1| Ribosomal large subunit pseudouridine synthase E [Yersinia aldovae ATCC 35236] Length = 208 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 54/179 (30%), Positives = 95/179 (53%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR+T+ + +P F+ V + GRLD ++EGLL+LTNDG L Sbjct: 30 RVLLFNKPFDVLPQFTDESGRTTLKEFIP--FNDVYAAGRLDRDSEGLLVLTNDGKLQAR 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVT------------ 178 L P+ + +VY V+ G D L L++G+ ++ + G V+ Sbjct: 88 LTQPAKKTGKVYFVQVEGVPSDDALLQLQRGMTLKDGPTLPAGAELVSEPEWLWPRNPPI 147 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR S G LG L G +E++ Sbjct: 148 RERKSIPTSWLKITLFEGRNRQVRRMTAHIGFPTLRLIRFSMGNLSLGDLQPGEWKEIN 206 >gi|288555072|ref|YP_003427007.1| RNA pseudouridine synthase family protein [Bacillus pseudofirmus OF4] gi|288546232|gb|ADC50115.1| RNA pseudouridine synthase family protein [Bacillus pseudofirmus OF4] Length = 229 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 70/232 (30%), Positives = 108/232 (46%), Gaps = 17/232 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ ++ G SRRE ER++A R+ VNG + V + D I +DG P+ ER Sbjct: 2 RIQLYMSNTGYCSRRETERLLAAGRITVNGKTATKDTF-VDTDDCILLDGSPVPMKERNI 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGLA 131 L HKP G+V T + V +NL + R+ +VGRLD ++EGLLLLTNDG + Sbjct: 61 YLLLHKPTGIVCT-----AQRQVKNNLIDYMNYRERIFAVGRLDKDSEGLLLLTNDGDIV 115 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGSNAWV 189 + + Y V L + G+ I QVT + Sbjct: 116 NKIMRVENGHEKEYIVTVDRPYPDTFLKSMASGVEILD------QVTEPCTVTRIDEMTF 169 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L++G NR+I+++ + F + V RL R+ + L G RE++ + L Sbjct: 170 RIILKQGLNRQIRRMTKEFGYYVTRLRRVRIMNLSIDRLPYGQWRELTDEEL 221 >gi|298209211|ref|YP_003717390.1| pseudouridine synthase, Rsu [Croceibacter atlanticus HTCC2559] gi|83849138|gb|EAP87007.1| pseudouridine synthase, Rsu [Croceibacter atlanticus HTCC2559] Length = 244 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 60/209 (28%), Positives = 103/209 (49%), Gaps = 10/209 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K G SRR+ +++I V VNG E + D + V+G + + E Sbjct: 3 PIRINKYFTTIGFCSRRKADKLIEAGYVTVNGKRPEMGQKIDPAKDKVRVNGKLVGQEEE 62 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++L ++KP+G+V T + + D N PS R+ +GRLD +EGL+ LTNDG Sbjct: 63 KPVYLVFNKPVGIVCTTDTHVEKDNIIDYINYPS---RIFPIGRLDKPSEGLIFLTNDGD 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y V + D +N +K GI I + +V +K ++ Sbjct: 120 IVNKILRARNHHEKEYIVTVDRVISDDFVNRMKSGIPILDTVTRECEV----EKITDYMF 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRI 218 + L +G NR+I+++ E+ ++V L RI Sbjct: 176 KIVLTQGLNRQIRRMCEYLGYEVLTLKRI 204 >gi|259908737|ref|YP_002649093.1| Ribosomal large subunit pseudouridine synthase E [Erwinia pyrifoliae Ep1/96] gi|224964359|emb|CAX55868.1| Ribosomal large subunit pseudouridine synthase E [Erwinia pyrifoliae Ep1/96] gi|283478710|emb|CAY74626.1| ribosomal large subunit pseudouridine synthase [Erwinia pyrifoliae DSM 12163] Length = 218 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 54/179 (30%), Positives = 90/179 (50%), Gaps = 17/179 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ SD GR T+ D +P + + + GRLD ++EGL++LTNDG L L Sbjct: 42 LFNKPFDVLPQFSDGSGRRTLKDYVPQL--GIYAAGRLDRDSEGLMVLTNDGELQAQLTQ 99 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGI----------VIQGICYGDM----QVTLDTQ 182 P + +VY V+ G + L L+ G+ V++ + D Q + + Sbjct: 100 PGKRTGKVYYVQVEGCPQEGDLQPLRDGVNLKDGPTLPAVVEKVAAPDWLWDRQPPIRER 159 Query: 183 KG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 K W+ + L EG+NR+++++ + RLIR S G L L G R++S +I Sbjct: 160 KAIPTCWLKITLYEGRNRQVRRMTAHIGFPTLRLIRFSMGSLGLRALAPGEWRDISDEI 218 >gi|299148164|ref|ZP_07041226.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 3_1_23] gi|298512925|gb|EFI36812.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 3_1_23] Length = 211 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 64/202 (31%), Positives = 100/202 (49%), Gaps = 7/202 (3%) Query: 40 VKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 V VNG ++ + +D ++ P+ ER L +KP VTT DP R TV D Sbjct: 2 VSVNGEVVTELGTKIKRSDVVKFHDEPV-SIERKVYVLLNKPKDTVTTSDDPQERRTVMD 60 Query: 100 NLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 + + R+ VGRLD NT G+LLLTNDG LA L P ++Y V + + + Sbjct: 61 LVKGACNERIYPVGRLDRNTTGVLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADM 120 Query: 159 NLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + + GI ++ G + D + T D +K V + + GKNR ++++FE +KV +L Sbjct: 121 DQIAAGIQLEDGEIHADAISYTDDFKKDQ---VGIEIHSGKNRIVRRIFESLGYKVVKLD 177 Query: 217 RISYGPFQLGTLLAGSTREVSK 238 R+ + L G R +S+ Sbjct: 178 RVFFAGLTKKGLRRGDWRYLSE 199 >gi|311105891|ref|YP_003978744.1| ribosomal large subunit pseudouridine synthase F [Achromobacter xylosoxidans A8] gi|310760580|gb|ADP16029.1| ribosomal large subunit pseudouridine synthase F [Achromobacter xylosoxidans A8] Length = 243 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 112/236 (47%), Gaps = 21/236 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVPLRKAERT 73 R+SK+++ G+ SRRE + I + V+V+G+++ I ++ R+ R Sbjct: 5 RISKLMSERGLCSRREADTYIERGWVRVDGVVVSELGARAYPDQVITLERAAQARQTSRV 64 Query: 74 RLWLYHKPIGLVTTHSDP---------DGRS-TVFDNLPSIFSR-----VISVGRLDINT 118 + L +KP+G V+ ++ D RS D P F R + GRLDI++ Sbjct: 65 TI-LINKPVGYVSGQAEKGYTPAVALIDSRSRYAGDRAPQRFERAHLDGLAVAGRLDIDS 123 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 +GLL+LT DG +A+ L + + Y VR G + + L LL G+ + G QV Sbjct: 124 QGLLVLTQDGRIAKHLIGEDSSVDKEYLVRVQGNLSDNGLALLNHGLSLDGKALKPAQVR 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 ++ + LREGK R+I+++ E KV L R+ G LG L G R Sbjct: 184 WQ----NSDQLRFVLREGKKRQIRRMCELVGLKVIGLKRVRIGRVSLGDLPLGQWR 235 >gi|323127651|gb|ADX24948.1| Putative 16S pseudouridylate synthetase [Streptococcus dysgalactiae subsp. equisimilis ATCC 12394] Length = 238 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 68/231 (29%), Positives = 115/231 (49%), Gaps = 14/231 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ SRR+V+++I Q V+++ + NV IE+ G + + + Sbjct: 2 RLDKLLEVVTDGSRRQVKQLIKGQDVRIDHEIAWSGRQNVDPGLQLIEISGKRISHPKHS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLLLTND 127 ++ +KP G+V+ SD + TV D L P ++ VGRLD +TEGL+LLT++ Sbjct: 62 -YFILNKPAGVVSARSDIN-HVTVLDQLSEKDRHPDLYP----VGRLDRDTEGLVLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G L + PS + Y V +G +D+D + GI G Q+T+ Sbjct: 116 GPLGFRMLHPSHHVAKTYMVTVNGFLDEDAPDFFAAGIKFPTGEQCRPAQLTILQASQEK 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + EGK ++KK+F + KV L R S+ +LG L +G+ R V+ Sbjct: 176 SQARLVISEGKFHQVKKMFLTYGLKVISLKRTSFAGLELGELASGAYRSVT 226 >gi|260597505|ref|YP_003210076.1| ribosomal large subunit pseudouridine synthase E [Cronobacter turicensis z3032] gi|260216682|emb|CBA30036.1| Ribosomal large subunit pseudouridine synthase E [Cronobacter turicensis z3032] Length = 218 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 55/181 (30%), Positives = 91/181 (50%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL L++KP ++ +D GR T+ D +P + V + GRLD ++EGLL+LTNDG L Sbjct: 40 RLILFNKPYDVLPQFTDEAGRQTLKDFIP--VADVYAAGRLDRDSEGLLVLTNDGALQAK 97 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVT------------ 178 L P + +VY V+ G+ + L L+ G+ + + G +V Sbjct: 98 LTQPGKRTGKVYFVQVEGEPTDEALAQLRTGVTLNDGPTLPAGVERVAEPAWLWPRNPPI 157 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ + L EG+NR+++++ + RLIR + G + L L G REV Sbjct: 158 RERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYATGDYTLDALACGQWREVPL 217 Query: 239 K 239 K Sbjct: 218 K 218 >gi|295702668|ref|YP_003595743.1| pseudouridine synthase F [Bacillus megaterium DSM 319] gi|294800327|gb|ADF37393.1| pseudouridine synthase F (ribosomal large subunit) [Bacillus megaterium DSM 319] Length = 238 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/225 (29%), Positives = 114/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G ASRR +++I++ RV VNG + + V D I V G LR A Sbjct: 5 RLNKFISESGKASRRGADKLISEGRVTVNG-KVAKVGDQVKPGDDIRVSGQQLRIARNNV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ +T S+ + + D L + R+ VGRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITST-SEKKVKGNIID-LVNHPLRIHHVGRLDKDSDGLILLTNDGDIINEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + + + +G+ I G +VT + S + L Sbjct: 122 LRAENKHEKEYIVAVDKPITPEFIKNMSEGVKILGTKTLPCKVT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V RL R L L G R+++KK Sbjct: 178 QGLNRQIRRMCEVLGYEVYRLQRTRIMNIHLNNLPVGQWRDLTKK 222 >gi|254743404|ref|ZP_05201089.1| ribosomal large subunit pseudouridine synthase F [Bacillus anthracis str. Kruger B] Length = 235 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 66/227 (29%), Positives = 113/227 (49%), Gaps = 11/227 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 2 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP+G+ T S+ + + D N P R+ +GRLD +++GL+LLTNDG + Sbjct: 61 YIALNKPVGITCT-SEKSVKGNIIDLVNHPL---RISHIGRLDKDSDGLILLTNDGDIVN 116 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V + D L + G+ I G ++T + S + Sbjct: 117 EILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKII 172 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 173 LTQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQRRDLTKK 219 >gi|119897119|ref|YP_932332.1| pseudouridylate synthase [Azoarcus sp. BH72] gi|119669532|emb|CAL93445.1| pseudouridylate synthase [Azoarcus sp. BH72] Length = 500 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 73/240 (30%), Positives = 110/240 (45%), Gaps = 30/240 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SKV+A GI SRRE + +I + V V+G + + D V +KA+ R Sbjct: 263 RLSKVMADRGICSRREADELIERGWVFVDGRRVSELGTRI-DPDARVVLAPEAKKAQAQR 321 Query: 75 LW-LYHKPIGLVTTHSDPD--------GRSTVFDN------LPSIFSRVISVGRLDINTE 119 + L HKP+G V+ +P G FD PS + GRLDI++ Sbjct: 322 VTILLHKPVGYVSGQPEPGYEPAVTLIGGDNQFDRDVAQRFHPSQLKGLAPAGRLDIDST 381 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT DG +AR L ++ + Y VR G++ D L LL G+ + +V Sbjct: 382 GLLVLTQDGRIARQLIGDDSKVEKEYLVRVEGELVDDGLALLNHGLSLDDKPLRPAKVE- 440 Query: 180 DTQKGSNAWVTVG-----LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 W+ L+EG+ R+I+++ E +V L R+ G +LG L G R Sbjct: 441 --------WINEDQLRFVLKEGRKRQIRRMCELVGLRVVGLKRVRIGRVKLGDLPLGEWR 492 >gi|330446629|ref|ZP_08310281.1| 23S rRNA pseudouridine 2604 synthase [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|328490820|dbj|GAA04778.1| 23S rRNA pseudouridine 2604 synthase [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 378 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 64/210 (30%), Positives = 102/210 (48%), Gaps = 11/210 (5%) Query: 12 TPQ--RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +PQ R++K I+ G SRRE +++I Q RV +NG E V V +D + +D PLR Sbjct: 10 SPQGVRLNKFISDTGYCSRREADKLIDQGRVTINGKKPE-MGVRVTDSDDVLIDDKPLRS 68 Query: 70 AERTRLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ER +KP G+ TT +G F R+ +GRLD ++GL+ LTNDG Sbjct: 69 KERPIYIALNKPTGITCTTERHIEGNIVDF---IGHRKRIFPIGRLDKPSDGLIFLTNDG 125 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y VR + + L + G+ I +VT +T N Sbjct: 126 DIVNKILRAGNSHEKEYVVRVDKVITPEFLEKMASGVEILDTVTLPCKVTKET----NFS 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 + L +G NR+I+++ E ++V +L R+ Sbjct: 182 FRIVLTQGLNRQIRRMCEALGYEVYKLRRV 211 >gi|310767366|gb|ADP12316.1| Ribosomal large subunit pseudouridine synthase E [Erwinia sp. Ejp617] Length = 218 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 54/179 (30%), Positives = 90/179 (50%), Gaps = 17/179 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ SD GR T+ D +P + + + GRLD ++EGL++LTNDG L L Sbjct: 42 LFNKPFDVLPQFSDGSGRRTLKDYVPQL--GIYAAGRLDRDSEGLMVLTNDGELQAQLTQ 99 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGI----------VIQGICYGDM----QVTLDTQ 182 P + +VY V+ G + L L+ G+ V++ + D Q + + Sbjct: 100 PGKRTGKVYYVQVEGCPQEGDLQPLRDGVNLKDGPTLPAVVEKVAAPDWLWDRQPPIRER 159 Query: 183 KG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 K W+ + L EG+NR+++++ + RLIR S G L L G R++S +I Sbjct: 160 KAIPTCWLKITLYEGRNRQVRRMTAHIGFPTLRLIRFSMGSLGLRALAPGEWRDISNEI 218 >gi|123966487|ref|YP_001011568.1| putative pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus str. MIT 9515] gi|123200853|gb|ABM72461.1| putative pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus str. MIT 9515] Length = 240 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 64/229 (27%), Positives = 118/229 (51%), Gaps = 15/229 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRR +R+I + +V +NG + E V D +EV+G+ + K + + Sbjct: 4 RINKYLSEVGYCSRRVADRLIEEGKVTINGKISE-IGTKVKEDDQVEVEGIIIDKPTKQK 62 Query: 75 -LWL-YHKPIGLVTTHS---DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++L ++KP+G+V T +PD + D + +R+ +GRLD N+EGL+ LTNDG Sbjct: 63 YIYLAFNKPVGIVCTTDRRVEPDN---IID-FINYSTRIFPIGRLDKNSEGLIFLTNDGD 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y V + +++D ++ + G+ I + V Q G + Sbjct: 119 IVNKILRARNNHEKEYIVSVNRPINRDFIHNMSNGVKILDTITKNCFV---KQLGVKKFK 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + L +G NR+I+++ E ++V L RI +L + G RE +K Sbjct: 176 II-LTQGLNRQIRRMCESLGYRVQSLKRIRIMNIKLD-IPTGKYREFTK 222 >gi|227550282|ref|ZP_03980331.1| pseudouridylate synthase [Enterococcus faecium TX1330] gi|257889008|ref|ZP_05668661.1| pseudouridine synthase [Enterococcus faecium 1,141,733] gi|257897603|ref|ZP_05677256.1| pseudouridine synthase [Enterococcus faecium Com12] gi|227180583|gb|EEI61555.1| pseudouridylate synthase [Enterococcus faecium TX1330] gi|257825071|gb|EEV51994.1| pseudouridine synthase [Enterococcus faecium 1,141,733] gi|257834168|gb|EEV60589.1| pseudouridine synthase [Enterococcus faecium Com12] Length = 255 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 115/235 (48%), Gaps = 7/235 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A G+ SR+EV+ +I + ++VNG +++ V + + ++ Sbjct: 18 RLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKTQVNEFEDTVTYLGEIIAYQKDF 77 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 ++ HKP G+++ D + TV D L R + VGRLD +TEGLL+LTNDG A Sbjct: 78 YYILHKPAGVISATQD-NHDQTVIDLLKDQDYREDLFPVGRLDKDTEGLLILTNDGIFAH 136 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWV 189 L P + Y G + ++ + L +G++I G +Q+ Q+ + + Sbjct: 137 QLLSPKKHVEKEYLAEVSGIMTEEDIRLFAEGLIIDGDEQTLPAKLQIDQVDQESETSII 196 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + L EGK ++K++ + +V L RI G F L L G R ++K+ L + Sbjct: 197 RLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGNFWLPKDLNKGQYRPMTKEELEQ 251 >gi|331672646|ref|ZP_08373435.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli TA280] gi|331070289|gb|EGI41655.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli TA280] Length = 217 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 54/180 (30%), Positives = 91/180 (50%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G+ D L Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGRTLPAGVELVDEPTWLWPRNPP 156 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G REV+ Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREVT 216 >gi|332288671|ref|YP_004419523.1| 16S rRNA pseudouridylate synthase A [Gallibacterium anatis UMN179] gi|330431567|gb|AEC16626.1| 16S rRNA pseudouridylate synthase A [Gallibacterium anatis UMN179] Length = 234 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 60/205 (29%), Positives = 101/205 (49%), Gaps = 4/205 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ K ++ SR + + + Q VKVN L++ A+ V D +E DG L Sbjct: 3 QRLDKFLSEYTGLSRSQATKALRQNLVKVNQQLVKDGALKVSPEDVVEFDGETLEWVSGN 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +L +KP G V +H D + + F + P + SR+ + GRLD++T GL+LLT+DG + Sbjct: 63 QYFLLYKPEGYVCSHDDGEYPTVYQFFDYP-LSSRLHTAGRLDVDTTGLVLLTDDGQWSH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y V V+ L +GI+++G ++ N +T+ Sbjct: 122 RITSPKYHYKKTYLVTLAAPVEDFYLEQCAQGILLRGEKQPTKPAQIEIIDDYNLNLTI- 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIR 217 EGK ++K++F KV L R Sbjct: 181 -VEGKYHQVKRMFAALGNKVIALHR 204 >gi|253995406|ref|YP_003047470.1| RNA-binding S4 domain-containing protein [Methylotenera mobilis JLW8] gi|253982085|gb|ACT46943.1| RNA-binding S4 domain protein [Methylotenera mobilis JLW8] Length = 427 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/240 (27%), Positives = 106/240 (44%), Gaps = 24/240 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SKV+A G+ SRRE + I+ VKV+G ++E + I + Sbjct: 184 RLSKVMAERGLCSRREADEWISNGWVKVDGEIIETLGTRIKPDAEIIISSYAQEYQAENV 243 Query: 75 LWLYHKPIGLVTTHSD-----------PDGR----STVFDNLPSIFSR-----VISVGRL 114 + HKP+G V+ ++ PD + + + P F R + GRL Sbjct: 244 TIILHKPVGYVSGQAEDGYQPAIVLVHPDNQWEDDPELHKHNPKQFHRGMLQGLAPAGRL 303 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ G+L+LT DG +AR L + + Y VR G++ + L G+ + G Sbjct: 304 DIDSTGMLVLTQDGRIARHLIGEDSTVEKEYLVRVTGELSDADMKRLNYGLSLDGEKLKP 363 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +V+ + + LREGK R+I+++ E V L RI G LG L G R Sbjct: 364 AKVSWQNED----QLRFVLREGKKRQIRRMCEMVGLHVVGLKRIRMGSITLGKLPVGQWR 419 >gi|229096863|ref|ZP_04227832.1| Pseudouridine synthase [Bacillus cereus Rock3-29] gi|228686473|gb|EEL40382.1| Pseudouridine synthase [Bacillus cereus Rock3-29] Length = 235 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/225 (29%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 2 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 61 YIALNKPVGITCT-SEKAVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G +VT + S + L Sbjct: 119 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVT----QLSKYEFQIILT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R++SKK Sbjct: 175 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKK 219 >gi|153855785|ref|ZP_01996786.1| hypothetical protein DORLON_02807 [Dorea longicatena DSM 13814] gi|149751912|gb|EDM61843.1| hypothetical protein DORLON_02807 [Dorea longicatena DSM 13814] Length = 248 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/243 (27%), Positives = 120/243 (49%), Gaps = 23/243 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD---HIEVDGVPLRKAE 71 R++K ++ AG+ SRRE +R+I V V+G + AV M + + V ++ Sbjct: 3 RLNKYLSEAGVCSRREADRLIESGVVTVDG----KNAVPGMKVEDGQEVCVGKKRIKSKT 58 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+V T + ++ + F N P RV GRLD ++EGLL++TNDG L Sbjct: 59 KKTVLAVYKPAGIVCTEDKREKKNIIRFLNYPL---RVTYAGRLDKDSEGLLIMTNDGDL 115 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-------QK 183 + + Y+V + ++ + + + +G+ I+ D + LD +K Sbjct: 116 INGMMRARFSHEKEYKVTVNKEITPEFIEKMSRGVHIR-----DREKNLDAVTRPCKVRK 170 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 ++ L +G NR+I+++ E +KV L RI +LG L G R ++++ L+E Sbjct: 171 NGKYTFSIILTQGLNRQIRRMCEALGYKVTTLKRIRIMNVELGNLKPGEVRGLTEQELKE 230 Query: 244 QLG 246 G Sbjct: 231 LYG 233 >gi|289435619|ref|YP_003465491.1| ribosomal small subunit pseudouridine synthase A [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|289171863|emb|CBH28409.1| ribosomal small subunit pseudouridine synthase A [Listeria seeligeri serovar 1/2b str. SLCC3954] Length = 233 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/214 (31%), Positives = 100/214 (46%), Gaps = 8/214 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+++ G SRREV+ ++ V VNG++ + + V D I V G P+ E Sbjct: 2 RLDKLLSHTGFGSRREVKPLLKSGSVVVNGVIQKDSKSQVNPEKDQITVHGNPVIYQEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG LA Sbjct: 62 YFML-HKPQNVVSATED-NLSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + + GI + Y L+ + VT+ Sbjct: 120 HNLLSPKKHIDKTYYAKIEGDVTATDVEAFRTGITLDD-GYTCKPAHLEIMAPNEIRVTI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +EGK ++K++F V L R+S G L Sbjct: 179 --QEGKFHQVKRMFAATGKTVIYLKRLSMGKLML 210 >gi|307710882|ref|ZP_07647309.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis SK321] gi|307617327|gb|EFN96500.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis SK321] Length = 220 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 70/220 (31%), Positives = 108/220 (49%), Gaps = 10/220 (4%) Query: 34 MIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPD 92 M+ RV VNG + A + + D I +DG L E ++ +KP G+++ DP Sbjct: 1 MLKAGRVTVNGKKEKSAKLQIDEERDEIRLDGQVLEYEEFV-YYMMNKPQGVISATEDPK 59 Query: 93 GRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 R TV D L + V VGRLDI+T GLLLLTNDG LA L P + Y + Sbjct: 60 HR-TVLDLLDDLARTKEVFPVGRLDIDTHGLLLLTNDGQLAHALLSPKRHVDKTYLAQVK 118 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 G + Q+ + KGI ++ + V++DT K + + + V + EGK ++K++ + Sbjct: 119 GIMTQEDVETFAKGIPLKDFTCQPARLELVSIDTAK-NQSQIRVTIAEGKFHQVKRMVAY 177 Query: 208 FNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 +V L R++ G L L G R ++K+ L L Sbjct: 178 CGKEVVDLQRLTMGTLMLDENLQRGEWRRLTKEELENLLA 217 >gi|302187757|ref|ZP_07264430.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae 642] Length = 230 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 66/227 (29%), Positives = 109/227 (48%), Gaps = 9/227 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R++V +A RV+V+G V + +DG L+ + R Sbjct: 2 RLDRFLSNLPRFNRQQVRLALASGRVQVDGQATRDPHHEVREFSCVALDGEILQAGKAPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ SD TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPQGCVSATSDAQ-HPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ +G+ +G+ Q+TL + + + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAAKFAEGLYFAFEGLTTQPAQLTLLGPRSARLSIV- 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 EG+ ++K++F F+ KV RL R + G L L GS R ++ Sbjct: 180 ---EGRYHQVKRMFGHFDNKVLRLHRENIGALALDPGLRPGSYRALN 223 >gi|157374135|ref|YP_001472735.1| pseudouridine synthase [Shewanella sediminis HAW-EB3] gi|157316509|gb|ABV35607.1| pseudouridine synthase [Shewanella sediminis HAW-EB3] Length = 247 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 74/227 (32%), Positives = 112/227 (49%), Gaps = 6/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + I+ +R+ V M+A+ RV+V+G L V HI +D L+ E + Sbjct: 21 RLDRFISVNTGINRKHVRLMLAKGRVRVDGELARDIDQVVDEFSHICLDDKVLQANEASY 80 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 + L HKP+G+V+ D D TV D L + VGRLD+NT GLLLLTNDG ++ Sbjct: 81 VML-HKPVGVVSATID-DKHRTVIDLLEQDDKESLHIVGRLDLNTSGLLLLTNDGRWSKR 138 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + ++YRV + D ++ +G+ + + L+ A VT L Sbjct: 139 LMDPEHKVGKLYRVHLQNPLTPDYISGFAQGMYFEFEDITTLPAELEIIDSYTALVT--L 196 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 EG+ +IK++F F V L RIS G L L G +R ++ K Sbjct: 197 YEGRYHQIKRMFGRFRNPVIGLHRISVGNIVLDNNLKPGESRVLTPK 243 >gi|115376490|ref|ZP_01463724.1| ribosomal large subunit pseudouridine synthase B [Stigmatella aurantiaca DW4/3-1] gi|310819631|ref|YP_003951989.1| pseudouridine synthase [Stigmatella aurantiaca DW4/3-1] gi|115366493|gb|EAU65494.1| ribosomal large subunit pseudouridine synthase B [Stigmatella aurantiaca DW4/3-1] gi|309392703|gb|ADO70162.1| Pseudouridine synthase [Stigmatella aurantiaca DW4/3-1] Length = 264 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 61/216 (28%), Positives = 103/216 (47%), Gaps = 10/216 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 +++ + RAG+ ++E E+ I RVKV G L V ++ VDG R + Sbjct: 29 LARALGRAGVMPQQEAEQAIRDGRVKVEGRLELEPFAPVRLGSNVFVDGWAHRLEAPLHV 88 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS------RVISVGRLDINTEGLLLLTNDGG 129 ++HKP G++ +DP+GR TVF+ L ++ +VGRLD +T GLLL TND Sbjct: 89 LMFHKPEGVIVAGTDPEGRGTVFERLRAVLPPDMRNFEWYAVGRLDRDTTGLLLFTNDER 148 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + P + Y + G+ ++ L L++GIV++ L + V Sbjct: 149 VVQHGTSPDKHLPKRYVAQVAGKPSEETLARLREGIVLEDGPTRPAGARLLAPE----CV 204 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + L EG++ ++K++ V L R + G L Sbjct: 205 ELVLTEGRHHQVKRMLAAVGHPVRTLHRQAVGTVSL 240 >gi|260890235|ref|ZP_05901498.1| ribosomal small subunit pseudouridine synthase A [Leptotrichia hofstadii F0254] gi|260859855|gb|EEX74355.1| ribosomal small subunit pseudouridine synthase A [Leptotrichia hofstadii F0254] Length = 238 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 68/242 (28%), Positives = 122/242 (50%), Gaps = 25/242 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A +GI +R+EV+ ++ +++ VN ++ + + I K E Sbjct: 2 RLDKFLANSGIGTRKEVKEILKNKKISVNDAFVKDGKIQIDEEKDI-------VKYEDNI 54 Query: 75 LW-------LYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLT 125 ++ + +KP G+++ D R TV D L + + VGRLDI+TEGLLLLT Sbjct: 55 IYYKPFVYIMMNKPAGVISATEDNHHR-TVIDLLNDEYRTYDIFPVGRLDIDTEGLLLLT 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTL---DT 181 NDG L+ L P + Y V+ + ++ + L+ GI + + +V + ++ Sbjct: 114 NDGILSHNLLSPKKHVDKKYYVKISNPLTEEDIKTLENGIKLEENFVTKKAKVKIICNNS 173 Query: 182 QKGSN-AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 +K N A++T+ EGK ++K++F+ N +V L R+ G L L G RE++++ Sbjct: 174 EKNENLAYITIS--EGKFHQVKRMFKAVNNEVLYLKRVKMGSLSLDEKLKLGEYRELTEE 231 Query: 240 IL 241 L Sbjct: 232 EL 233 >gi|224531930|ref|ZP_03672562.1| hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Borrelia valaisiana VS116] gi|224511395|gb|EEF81801.1| hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Borrelia valaisiana VS116] Length = 249 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 71/230 (30%), Positives = 111/230 (48%), Gaps = 11/230 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLR 68 TP RV +A G+ SRR E +I ++ V+VNG + + V D I V Sbjct: 6 TP-RVQVFLAEKGVGSRRFCEELIKKKLVRVNGSI-AKLGDKVALGDRITYKKQIYVFTD 63 Query: 69 KAERTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTN 126 +++++L +KP + ++ D +GR + +F R+ S+GRLD + GLLL TN Sbjct: 64 FQSKSKIYLALNKPKNYLCSNFDVNGRKLAISLVQPLFKERIFSIGRLDFKSSGLLLFTN 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + P + R Y + +D++ L K GI I+ + ++ K S Sbjct: 124 DGKFANYIIHPKGKVEREYIIESKKDIDENLLISFKSGIKIKKEFF-KLKSYEILNKNSA 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + L EGKNREI+KVF N + ++ RI G L +L G + V Sbjct: 183 RLI---LDEGKNREIRKVFLSKNVFLKKIHRIRIGNINLDSLREGQVKIV 229 >gi|293379060|ref|ZP_06625213.1| pseudouridylate synthase [Enterococcus faecium PC4.1] gi|292642339|gb|EFF60496.1| pseudouridylate synthase [Enterococcus faecium PC4.1] Length = 239 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 115/235 (48%), Gaps = 7/235 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A G+ SR+EV+ +I + ++VNG +++ V + + ++ Sbjct: 2 RLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKTQVNEFEDTVTYLGEIIAYQKDF 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 ++ HKP G+++ D + TV D L R + VGRLD +TEGLL+LTNDG A Sbjct: 62 YYILHKPAGVISATQD-NHDQTVIDLLKDQDYREDLFPVGRLDKDTEGLLILTNDGIFAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWV 189 L P + Y G + ++ + L +G++I G +Q+ Q+ + + Sbjct: 121 QLLSPKKHVEKEYLAEVSGIMTEEDIRLFAEGLIIDGDEQTLPAKLQIDQVDQESETSII 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + L EGK ++K++ + +V L RI G F L L G R ++K+ L + Sbjct: 181 RLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGNFWLPKDLNKGQYRPMTKEELEQ 235 >gi|240950257|ref|ZP_04754536.1| pseudouridylate synthase [Actinobacillus minor NM305] gi|240295234|gb|EER46035.1| pseudouridylate synthase [Actinobacillus minor NM305] Length = 224 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 61/196 (31%), Positives = 99/196 (50%), Gaps = 24/196 (12%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E T + L++KP ++T +D GR T+ F ++P I+ VGRLD ++EGLLLLTN+G Sbjct: 29 EETIIVLFNKPYDVLTQFTDEQGRKTLKDFIDIPKIYP----VGRLDRDSEGLLLLTNNG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT------LDTQ 182 + L P + + Y V+ G Q L L+KG+ ++ + D Q Sbjct: 85 EIQHRLAHPKFEKEKTYWVQVEGIPSQADLAKLEKGVELKDGLTQPAKAKQIEAPDFDWQ 144 Query: 183 KG---------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +W+ + + EGKNR+++++ + RLIR+ G +QLG L +G Sbjct: 145 TAPKIRERKTIPTSWIELKITEGKNRQVRRMTAHIGFPTLRLIRVGLGHYQLGELGSGEY 204 Query: 234 REVS---KKILREQLG 246 + +S K L +QLG Sbjct: 205 QVLSLSEKSRLFKQLG 220 >gi|242374043|ref|ZP_04819617.1| pseudouridylate synthase [Staphylococcus epidermidis M23864:W1] gi|242348249|gb|EES39851.1| pseudouridylate synthase [Staphylococcus epidermidis M23864:W1] Length = 230 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 61/214 (28%), Positives = 106/214 (49%), Gaps = 10/214 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + V+VN ++ ++ + DH+ V+G + E Sbjct: 2 RIDKFLANMGVGTRNEVKQLLKKGAVEVNDKKIKTPKTHINPNEDHVTVNGSTISYIENV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 + L +KP G+++ D D TV D +P +S + VGRLD +TEGLLLLTNDG Sbjct: 62 YIML-NKPKGVISATED-DSHKTVIDLIPE-YSHLGIFPVGRLDKDTEGLLLLTNDGQFN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + Q + + G+ + ++ KG++ V Sbjct: 119 HELMNPNKHVSKTYEVVSKYPIKQADIEAFESGVELSDGKVKPAKLI----KGNDHLSYV 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + EGK ++K++F +V L RI +L Sbjct: 175 TIYEGKYHQVKRMFHSIENEVLELKRIKIANLEL 208 >gi|331088168|ref|ZP_08337088.1| hypothetical protein HMPREF1025_00671 [Lachnospiraceae bacterium 3_1_46FAA] gi|330408824|gb|EGG88287.1| hypothetical protein HMPREF1025_00671 [Lachnospiraceae bacterium 3_1_46FAA] Length = 244 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 62/231 (26%), Positives = 117/231 (50%), Gaps = 23/231 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ AG+ SRRE +R+I +V V+G+ + + V + ++V + K + Sbjct: 17 RLNKYLSEAGVCSRREADRLIESGKVTVDGVTAQ-MGMRVTAGQIVKVGKKTVSKQDEMI 75 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G+V T + S V F N P RV GRLD ++ GLLL+TN+G + Sbjct: 76 VLAVNKPKGIVCTEDQRERDSIVRFLNYPV---RVTYAGRLDKDSRGLLLMTNNGDIINQ 132 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-------QKGSN 186 + + + + Y+V ++ + + + +G+ I LDT +K Sbjct: 133 MMRAANRHEKEYKVTVDKEITEQFIKKMSEGVPI-----------LDTVTRPCTVKKIGK 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++ L +G NR+I+++ F ++V L+RI +LG+L G+ R+++ Sbjct: 182 YTFSIILTQGLNRQIRRMCAAFGYEVKDLVRIRIMNIRLGSLKEGAYRKLT 232 >gi|229127761|ref|ZP_04256750.1| Pseudouridine synthase [Bacillus cereus BDRD-Cer4] gi|229144960|ref|ZP_04273356.1| Pseudouridine synthase [Bacillus cereus BDRD-ST24] gi|229150585|ref|ZP_04278800.1| Pseudouridine synthase [Bacillus cereus m1550] gi|228632894|gb|EEK89508.1| Pseudouridine synthase [Bacillus cereus m1550] gi|228638482|gb|EEK94916.1| Pseudouridine synthase [Bacillus cereus BDRD-ST24] gi|228655838|gb|EEL11687.1| Pseudouridine synthase [Bacillus cereus BDRD-Cer4] Length = 238 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 66/225 (29%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKSVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G +VT + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 222 >gi|149020294|ref|ZP_01835186.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP23-BS72] gi|147930596|gb|EDK81578.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP23-BS72] Length = 241 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 70/233 (30%), Positives = 120/233 (51%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ + SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKV-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV + LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMNLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQTFQKGIVFLDGTICKPARLEILSASPSLSQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK +IKK+F KV L RI +G F L LA G+ +++K L+ Sbjct: 179 ITISEGKFHQIKKMFLSIGVKVTNLKRIQFGDFTLNPDLAEGNYHPLNQKELQ 231 >gi|260913145|ref|ZP_05919627.1| ribosomal small subunit pseudouridine synthase A [Pasteurella dagmatis ATCC 43325] gi|260632732|gb|EEX50901.1| ribosomal small subunit pseudouridine synthase A [Pasteurella dagmatis ATCC 43325] Length = 233 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 63/227 (27%), Positives = 111/227 (48%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + +R + +++ Q V +NG + + +V V S D I DG L E + Sbjct: 2 RLDKFLAESTGLTRSQANKVLKQSAVTMNGKVEKNGSVKVNSEDEICFDGELLTWIEEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G V +H D D + F + P + +++ S GRLD++T GL+LLT+DG + Sbjct: 62 YIMLYKPQGYVCSHDDGDYPTIYQFFDYP-LSTKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V ++ + + GI+++G L+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPIESNYQQACEAGILLRGEKELTKPAKLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EG+ ++K++F KV L R G +L TL G R +S++ Sbjct: 179 SEGRYHQVKRMFAALGNKVVGLHRWKIGCIELDETLEEGGYRSLSEQ 225 >gi|154248798|ref|YP_001409623.1| RNA-binding S4 domain-containing protein [Fervidobacterium nodosum Rt17-B1] gi|154152734|gb|ABS59966.1| RNA-binding S4 domain protein [Fervidobacterium nodosum Rt17-B1] Length = 245 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 117/227 (51%), Gaps = 7/227 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K ++ A I +R EV+++I + RV VN ++ +V D IE+DG + + Sbjct: 16 RLDKFLSNAHIGTRNEVKKIIKEGRVSVNFEIIRNPDFHVKLDDIIELDGNRIEPHKNVY 75 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + ++HKP G V+T SD + + P + I+ GRLD + EGLL+LTNDG L Sbjct: 76 I-IFHKPSGFVSTTSDREPSVLNLIDHPYLNELHIA-GRLDKDVEGLLILTNDGEFTHNL 133 Query: 135 ELPSTQWLRVYRV--RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P + Y + + + +V Q+ + ++ +GI ++ G + +K S +++ Sbjct: 134 ISPKKHIEKEYWIYTKENVEVTQNMVKMVSEGIELEK---GTKTLPGKIRKVSEKIISLT 190 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EGK ++KK+ + +++R+ G L L G +E+SK+ Sbjct: 191 IVEGKYHQVKKMCISLGIEWEKIVRVRIGNLTLEGLEKGKWKELSKE 237 >gi|330952996|gb|EGH53256.1| pseudouridine synthase, Rsu [Pseudomonas syringae Cit 7] Length = 210 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 55/183 (30%), Positives = 93/183 (50%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL L++KP ++T SD +GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 RLILFNKPFDVLTQFSDEEGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ ++L L+ G+ + G LD Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPSDEQLQQLRDGVQLNDGPTLPAEARRLDEPQLWPRNPP 147 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + ++EG+NR+++++ RL+R+ G + L L G REV+ Sbjct: 148 VRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLEGLDQGQYREVA 207 Query: 238 KKI 240 K+ Sbjct: 208 AKL 210 >gi|312172141|emb|CBX80398.1| ribosomal large subunit pseudouridine synthase [Erwinia amylovora ATCC BAA-2158] Length = 218 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 54/179 (30%), Positives = 89/179 (49%), Gaps = 17/179 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ SD GR T+ D +P + + GRLD ++EGL++LTNDG L L Sbjct: 42 LFNKPFDVLPQFSDEAGRRTLKDYIPH--PGIYAAGRLDRDSEGLMVLTNDGALQAQLTQ 99 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGI----------VIQGIC----YGDMQVTLDTQ 182 P + +VY V+ G + L L+ G+ V++ + D Q + + Sbjct: 100 PGKRTGKVYFVQVEGCPQESDLQPLRDGVNLKDGPTLPAVVERVAAPGWLWDRQPPIRER 159 Query: 183 KG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 K W+ + L EG+NR+++++ + RLIR S G L L G R++S +I Sbjct: 160 KAIPTCWLKITLYEGRNRQVRRMTAHIGYPTLRLIRFSMGNLGLRALAPGEWRDISHEI 218 >gi|162447507|ref|YP_001620639.1| pseudouridylate synthase, 16S RNA-specific [Acholeplasma laidlawii PG-8A] gi|161985614|gb|ABX81263.1| pseudouridylate synthase, 16S RNA-specific [Acholeplasma laidlawii PG-8A] Length = 236 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 61/233 (26%), Positives = 112/233 (48%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++ I++ G+ASRR + +I R+KVNG+ + + D + +D + E Sbjct: 1 MRLNLYISKTGVASRRGADSLIEHGRIKVNGVT-AVLGMQITKNDVVTLDNNIIEPLEEK 59 Query: 74 RLWLYHKPIGLV-TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G+V TT++ G F N ++ VGRLD ++ GL+LLTNDG + Sbjct: 60 FYILLNKPVGIVSTTNTAISGNMITFMNFKE---KIFPVGRLDKDSHGLILLTNDGSIVN 116 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 + + Y V + D + + G+ I + Q+T+ + + + Sbjct: 117 KILRVENGHDKEYHVTLNKPYDDYFIETMTSGVEIYNPVAHEKQMTMPSILKPLDERTFS 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + +R+G NR+I+++ + ++V L R+ LG L G R ++ L+E Sbjct: 177 LTIRQGLNRQIRRMADSLGYRVESLERVRIMHLTLGDLPVGYWRYLTSDELKE 229 >gi|225076290|ref|ZP_03719489.1| hypothetical protein NEIFLAOT_01331 [Neisseria flavescens NRL30031/H210] gi|224952414|gb|EEG33623.1| hypothetical protein NEIFLAOT_01331 [Neisseria flavescens NRL30031/H210] Length = 247 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 116/246 (47%), Gaps = 32/246 (13%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +F R+SK +A+ G+ SRRE + I Q VKVNG V+ E+D + L K Sbjct: 5 DFETMRLSKRMAQLGLCSRREADSYIEQGWVKVNG------QTAVLGQKVTELDRIDLNK 58 Query: 70 ------AERTRLWLYHKPIGLVTTHSDPDGRS-----TVFDNLPSIFSRV---------- 108 A R + L +KP+G V+ ++ +S T ++ SR+ Sbjct: 59 QAHEKQAARVTIIL-NKPVGYVSAQAEKGYKSAAELITANNHWEDDDSRIPFSEKHKFGL 117 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D L LL G+ + Sbjct: 118 APAGRLDIDSVGLLVLTQDGRIAKQLIGENSNSEKEYLVRVRGKLDDKGLALLNHGLSLD 177 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G +V + + LR+GK R+I+++ E +V L RI G +LG L Sbjct: 178 GEKLRPAKVEWQNEDQ----LRFILRQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRL 233 Query: 229 LAGSTR 234 G R Sbjct: 234 PPGKWR 239 >gi|323493242|ref|ZP_08098371.1| ribosomal large subunit pseudouridine synthase E [Vibrio brasiliensis LMG 20546] gi|323312508|gb|EGA65643.1| ribosomal large subunit pseudouridine synthase E [Vibrio brasiliensis LMG 20546] Length = 230 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 50/186 (26%), Positives = 95/186 (51%), Gaps = 16/186 (8%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P A+ ++ +++KP ++ +D +GR T+ D +P + + GRLD ++EGL++LT Sbjct: 46 PRISAQDRKVVVFNKPFDTLSQFTDGEGRKTLADYIP--IKDIYAAGRLDRDSEGLMVLT 103 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L PS++ + Y V+ G ++ L+ L+KG+ ++ +V + + Sbjct: 104 NDGILQARLTQPSSKSPKTYWVQVDGAPNEADLDKLRKGVELKDGMTLPAKVEVMAEPSV 163 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RLIR S G LG L G Sbjct: 164 WERNPPVRFRANIPTTWIAITIVEGRNRQVRRMTANIGFPTLRLIRYSMGDVTLGDLQPG 223 Query: 232 STREVS 237 +E++ Sbjct: 224 EWKEIT 229 >gi|311693777|gb|ADP96650.1| pseudouridine synthase family 1 protein [marine bacterium HP15] Length = 312 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 64/231 (27%), Positives = 115/231 (49%), Gaps = 13/231 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +G+ SRRE +R I Q V +NG +RA V V+ D ++V+G + R Sbjct: 8 RLNKYISESGMCSRREADRYIEQGNVYING---KRATVGDQVLPGDTVKVNGQVIEPRAE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +KP+G+V+T + + R+ +GRLD +++GL+ +T++G L Sbjct: 65 EDLVFIALNKPVGIVSTTDSAEKHN--IQRFVGHSERIFPIGRLDKDSQGLIFMTSNGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V ++ + + G+ I G +V+ + S Sbjct: 123 VNKILRAGNNHEKEYLVTVDKPVTREFVEGMANGVPILGTMTKKCKVSRE----SRFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +G NR+I+++ E+F ++V +L RI L L G R++S+K L Sbjct: 179 ITLVQGLNRQIRRMCEYFGYEVTKLERIRIMNVSLKGLAVGQWRDLSEKEL 229 >gi|197301581|ref|ZP_03166654.1| hypothetical protein RUMLAC_00307 [Ruminococcus lactaris ATCC 29176] gi|197299311|gb|EDY33838.1| hypothetical protein RUMLAC_00307 [Ruminococcus lactaris ATCC 29176] Length = 266 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 69/256 (26%), Positives = 126/256 (49%), Gaps = 19/256 (7%) Query: 5 NIVQENFT----PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTD 58 N ++E F P R++K ++ AG+ SRRE +R+I +V V+G +RA + + Sbjct: 3 NRIREEFIQKKEPVRLNKYLSEAGVCSRREADRLIETGKVSVDG---KRAGMGMKIYPGQ 59 Query: 59 HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDIN 117 ++V + + + + +KP G+V T + S V F N P RV +GRLD + Sbjct: 60 TVKVGNKTVSRQDEMIVLAVNKPKGIVCTEERRERDSIVRFLNYPV---RVTYIGRLDKD 116 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + GLLL+TN+G + + + + Y+V ++ +D L + +G+ I +V Sbjct: 117 SRGLLLMTNNGDIINKIMRAANYHEKEYKVTVDHEITEDFLKKMSRGVAILDTVTRPCKV 176 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +K + L +G NR+I+++ E ++V L+R+ L L G R+++ Sbjct: 177 ----EKLGKYTFKIILTQGLNRQIRRMCEALGYEVKDLLRVRVMNITLDGLKEGKYRKLT 232 Query: 238 KKILREQLGPHLLEEA 253 + L E LLE++ Sbjct: 233 DRELNEL--DQLLEQS 246 >gi|167758122|ref|ZP_02430249.1| hypothetical protein CLOSCI_00460 [Clostridium scindens ATCC 35704] gi|167664019|gb|EDS08149.1| hypothetical protein CLOSCI_00460 [Clostridium scindens ATCC 35704] Length = 246 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 73/235 (31%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K +A GI +R+EV+R I Q RV ++GI + + I DG + A+ Sbjct: 8 RLDKYLADMGIGTRQEVKRYIRQGRVSIDGIPAKSPETKIEEKARKITFDGREVDYAD-Y 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ + D R T +L R + VGRLD +TEGLLL+TNDG L+ Sbjct: 67 EYYMLNKPSGVVS--ATEDARCTTVVDLIRDKKRKDLFPVGRLDKDTEGLLLITNDGQLS 124 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV---TLDTQKGSN-A 187 L P + Y + G+V ++ ++G+ I G + LD K + Sbjct: 125 HRLLSPKKHVDKTYYAKVAGKVTKEDAKAFREGVNI-GTEEKEEWTRPGVLDILKSEEVS 183 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + ++EGK ++K++F+ +V L R S G +L TL G R ++KK L Sbjct: 184 EIRLTIQEGKYHQVKRMFQAVGKEVLYLKRESMGCLKLDETLKPGEYRPLTKKEL 238 >gi|163803577|ref|ZP_02197444.1| pseudouridine synthase family 1 protein [Vibrio sp. AND4] gi|159172619|gb|EDP57476.1| pseudouridine synthase family 1 protein [Vibrio sp. AND4] Length = 383 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 106/233 (45%), Gaps = 9/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +R+I Q RV +NG E V D + VDG P+ E+ Sbjct: 7 KRLNKFISETGFCSRREADRLIEQGRVTINGQQPE-MGTKVQPGDDVCVDGNPVAAKEKP 65 Query: 74 RLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 66 IYIALNKPTGITCTTERDIPGNIVDFIGHKK---RIFPIGRLDKPSDGLIFLTNDGDIVN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y VR + + L + G+ I +V +T+ +T G Sbjct: 123 KILRAGNNHEKEYVVRVDKPITGEFLKQMSSGVKILDTVTLPCKVEKETKFSFRIVLTQG 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 183 L----NRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDNEVSEIL 231 >gi|301793860|emb|CBW36253.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae INV104] gi|332204697|gb|EGJ18762.1| hypothetical protein SPAR120_0662 [Streptococcus pneumoniae GA47901] Length = 241 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 68/222 (30%), Positives = 113/222 (50%), Gaps = 7/222 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ + SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKV-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LPS ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V+ + + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVQVNELLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSLSQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + EGK +IKK+F KV L RI +G F L LA S Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAES 220 >gi|188997597|ref|YP_001931848.1| RNA-binding S4 domain protein [Sulfurihydrogenibium sp. YO3AOP1] gi|188932664|gb|ACD67294.1| RNA-binding S4 domain protein [Sulfurihydrogenibium sp. YO3AOP1] Length = 244 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 66/236 (27%), Positives = 117/236 (49%), Gaps = 9/236 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K ++ G SR +V+++I + VKVN +++ + ++ D +E++ + E Sbjct: 2 RLDKFLSNQGFGSRSQVQKLIKKGFVKVNDEIVKDPSYHIDPMKDKVELEDEEILYKE-N 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G +T D + + + F +LP I S++ VGRLDI+TEGLL+LT DG Sbjct: 61 HYFMLNKPAGYITATEDEEYPTVLDLFSDLP-IASKLFPVGRLDIDTEGLLILTTDGQFG 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQ-DKLNLLKKGIVIQGICYGD--MQVTLDTQKGSNAW 188 L P + Y G + D KGI ++ Y +V + + Sbjct: 120 HRLSHPKWNIEKEYYAIVEGDISNIDFSESENKGIYLKKEKYQTKPFKVKVLNTSKDKSE 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + + L EGK +K++ + + V L RI G +L LL G RE+++K +++ Sbjct: 180 ILITLTEGKYHIVKRIMQELGYPVLYLKRIRIGNLKLDEDLLPGEFRELTEKEIKD 235 >gi|317502014|ref|ZP_07960198.1| pseudouridine synthase [Lachnospiraceae bacterium 8_1_57FAA] gi|316896694|gb|EFV18781.1| pseudouridine synthase [Lachnospiraceae bacterium 8_1_57FAA] Length = 249 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 62/231 (26%), Positives = 117/231 (50%), Gaps = 23/231 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ AG+ SRRE +R+I +V V+G+ + + V + ++V + K + Sbjct: 22 RLNKYLSEAGVCSRREADRLIESGKVTVDGVTAQ-MGMRVTAGQIVKVGKKTVSKQDEMI 80 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G+V T + S V F N P RV GRLD ++ GLLL+TN+G + Sbjct: 81 VLAVNKPKGIVCTEDQRERDSIVRFLNYPV---RVTYAGRLDKDSRGLLLMTNNGDIINQ 137 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-------QKGSN 186 + + + + Y+V ++ + + + +G+ I LDT +K Sbjct: 138 MMRAANRHEKEYKVTVDKEITEQFIKKMSEGVPI-----------LDTVTRPCTVKKIGK 186 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++ L +G NR+I+++ F ++V L+RI +LG+L G+ R+++ Sbjct: 187 YTFSIILTQGLNRQIRRMCAAFGYEVKDLVRIRIMNIRLGSLKEGAYRKLT 237 >gi|163749124|ref|ZP_02156374.1| putative ribosomal RNA pseudouridylate synthase [Shewanella benthica KT99] gi|161331194|gb|EDQ02083.1| putative ribosomal RNA pseudouridylate synthase [Shewanella benthica KT99] Length = 250 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 66/232 (28%), Positives = 111/232 (47%), Gaps = 16/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG--------ILLERAAVNVMSTDHIEVDGVP 66 R++K +A G+ SRR R I ++ ++G I L + +S + ++ DGV Sbjct: 9 RLAKYLAMTGLCSRRAATRYIRDGQITLDGRLANHIDTISLTDSDSGFISQEILKFDGVL 68 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 ++ E + W+ +K +G P S++ LP+ R+ VGRLD ++ G LLLTN Sbjct: 69 IQGIESKQYWMLNKSVG-TDCRLLPHDPSSLLHLLPA-SPRLYPVGRLDKDSRGQLLLTN 126 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKGS 185 DG L + L P + Y V D L + +G+ + + Q+T LD K Sbjct: 127 DGELTQKLMHPDFGHSKTYHVLVDRNFDDSFLISMAQGVSYRDVTTLPCQMTRLDDDK-- 184 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ + +KV L R+ +LG L G RE++ Sbjct: 185 ---FEIILTQGLNRQIRRMSQALGYKVIDLKRVQIQTLKLGELEEGEMRELT 233 >gi|331091189|ref|ZP_08340030.1| hypothetical protein HMPREF9477_00673 [Lachnospiraceae bacterium 2_1_46FAA] gi|330404636|gb|EGG84175.1| hypothetical protein HMPREF9477_00673 [Lachnospiraceae bacterium 2_1_46FAA] Length = 234 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 67/231 (29%), Positives = 116/231 (50%), Gaps = 11/231 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLR--KA 70 R+ K + + SR EV++ I Q R+ V+G + AV +H + V R Sbjct: 3 RLDKYLCEMNVGSRSEVKKYIRQGRITVDG----KTAVKPEEKIDEHSQKVCVDSRVIGY 58 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGG 129 E ++ +KP G+V+ +D + TV D + + + VGRLD +TEGLLL+TNDG Sbjct: 59 EAFEYYMLYKPSGVVSATTDRKEK-TVLDLIEEKKRKDLFPVGRLDKDTEGLLLITNDGE 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 +A L P +VY + G+V + ++ + +G+ I Y ++G+ + + Sbjct: 118 MAHRLLSPKKHVDKVYYAKIDGKVTEREVQIFSEGLSIGNDEYAKPSALKILKEGNISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + ++EGK ++K++F +V L RIS G L +L G R +++K Sbjct: 178 ELTIQEGKFHQVKRMFHAVGMEVIYLKRISMGNLVLDESLKKGEYRRLTEK 228 >gi|296314139|ref|ZP_06864080.1| ribosomal large subunit pseudouridine synthase F [Neisseria polysaccharea ATCC 43768] gi|296839244|gb|EFH23182.1| ribosomal large subunit pseudouridine synthase F [Neisseria polysaccharea ATCC 43768] Length = 252 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 73/243 (30%), Positives = 114/243 (46%), Gaps = 30/243 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q RV VNG + AV V D IE++ + Sbjct: 15 RLSKRMAQLGLCSRREADGYIEQGRVTVNG----KTAVLGQKVSPADRIELNKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-----------------FDNLPSIFSRVISVGRL 114 L +KP+G V+ ++ +S FD P + GRL Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITPENRWEGDTGRIRFD--PKHKIGLAPAGRL 128 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +AR L ++ + Y VR G++D+ L LL G+ + G Sbjct: 129 DIDSVGLLVLTQDGRIARQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRP 188 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +V + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 189 AKVEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVIGLKRIRMGKVKLGRLPPGKWR 244 Query: 235 EVS 237 ++ Sbjct: 245 YLA 247 >gi|291561019|emb|CBL39819.1| ribosomal small subunit pseudouridine synthase A [butyrate-producing bacterium SSC/2] Length = 242 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 71/234 (30%), Positives = 117/234 (50%), Gaps = 8/234 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + +R+E + + + +V VNG +++ V D +E D L + E+ Sbjct: 6 RLDKFLCDSLNMTRKEAKESVKKGKVVVNGEAIKKPEYKVDAEQDQVEFDH-KLIQFEQF 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP G+V+ D + TV D + + R+ VGRLD +TEGLLLLT+DG LA Sbjct: 65 HYLMLHKPQGVVSATKDHHDQ-TVLDLIHEDYKDRLFPVGRLDKDTEGLLLLTDDGMLAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVT 190 L P +VY + GQ ++++ K+G+ I G Q L K + V Sbjct: 124 ELLSPRKHVDKVYFAKVSGQFGENEIARFKEGLDI-GNGERSKQARLQILKADVQESEVL 182 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILRE 243 + + EGK ++K++ + +V L R+S G +L L G R ++K L+E Sbjct: 183 ITIMEGKFHQVKRMVKAVGSEVLYLKRLSMGSLKLDEELKLGEYRRLTKAELQE 236 >gi|237731117|ref|ZP_04561598.1| pseudouridylate synthase [Citrobacter sp. 30_2] gi|226906656|gb|EEH92574.1| pseudouridylate synthase [Citrobacter sp. 30_2] Length = 207 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 53/178 (29%), Positives = 92/178 (51%), Gaps = 17/178 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GRST+ D +P + + GRLD ++EGLL+LTNDG L Sbjct: 30 RVVLFNKPYDVLPQFTDEAGRSTLKDFIP--VPGIYAAGRLDRDSEGLLVLTNDGALQAR 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------- 179 L P + ++Y V+ G+ + L+ L+ G+ + GI + V L Sbjct: 88 LTQPGKRTGKIYYVQVEGEPTAEALDALRNGVTLNDGPTLPAGIEVVEEPVWLWPRNPPI 147 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE+ Sbjct: 148 RERKNIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLENLANGEWREL 205 >gi|170693595|ref|ZP_02884753.1| pseudouridine synthase [Burkholderia graminis C4D1M] gi|170141377|gb|EDT09547.1| pseudouridine synthase [Burkholderia graminis C4D1M] Length = 239 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 62/220 (28%), Positives = 97/220 (44%), Gaps = 9/220 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD---HIEVDGVPLRKAER 72 + ++ G SRR+ +IA RV + GI+ + + D VDGVP E Sbjct: 3 LESILFSQGFGSRRQCRALIADARVAIGGIVCTDPDADFATDDASFSFSVDGVPWPYREH 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L L +KP G + DP +VF LP F+ V VGRLD +T GLLLL++DG Sbjct: 63 AYL-LLNKPAGYECSR-DPQHHLSVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGKF 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + +VY +D +L+ L+ G+++ G +D + Sbjct: 121 VHMFTSPKRKVPKVYVATTRHPIDDRQLSALRDGVMLHG--ESKAVAAIDAHARGEHSLA 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + EGK ++K++ + L R G L LA Sbjct: 179 LTVMEGKYHQVKRMIAAAGNRCEALHRERVGGLALPATLA 218 >gi|167768019|ref|ZP_02440072.1| hypothetical protein CLOSS21_02562 [Clostridium sp. SS2/1] gi|167710348|gb|EDS20927.1| hypothetical protein CLOSS21_02562 [Clostridium sp. SS2/1] Length = 245 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 71/234 (30%), Positives = 117/234 (50%), Gaps = 8/234 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + + +R+E + + + +V VNG +++ V D +E D L + E+ Sbjct: 9 RLDKFLCDSLNMTRKEAKESVKKGKVVVNGEAIKKPEYKVDAEQDQVEFDH-KLIQFEQF 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP G+V+ D + TV D + + R+ VGRLD +TEGLLLLT+DG LA Sbjct: 68 HYLMLHKPQGVVSATKDHHDQ-TVLDLIHEDYKDRLFPVGRLDKDTEGLLLLTDDGMLAH 126 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVT 190 L P +VY + GQ ++++ K+G+ I G Q L K + V Sbjct: 127 ELLSPRKHVDKVYFAKVSGQFGENEIARFKEGLDI-GNGERSKQARLQILKADVQESEVL 185 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILRE 243 + + EGK ++K++ + +V L R+S G +L L G R ++K L+E Sbjct: 186 ITIMEGKFHQVKRMVKAVGSEVLYLKRLSMGSLKLDEELKLGEYRRLTKAELQE 239 >gi|146298001|ref|YP_001192592.1| pseudouridine synthase [Flavobacterium johnsoniae UW101] gi|146152419|gb|ABQ03273.1| ribosomal large subunit pseudouridine synthase F [Flavobacterium johnsoniae UW101] Length = 272 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 59/214 (27%), Positives = 106/214 (49%), Gaps = 12/214 (5%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-V 65 ++EN +R++K I G SRRE +++I + RV +NG E V S D I +DG + Sbjct: 1 MEENL--KRLNKFIGETGYCSRREADKLIEEGRVTINGAAAE-MGTKVSSDDEIRIDGKL 57 Query: 66 PLRKAERTRLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + K E+ ++KP+G+ TT+ + + N P R+ +GRLD +EGL+ + Sbjct: 58 IVEKHEKLVYLAFNKPVGIECTTNLEVKNNIVDYINYP---KRIFPIGRLDKASEGLIFM 114 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG + + + Y V + + + + + G+ I +V ++ Sbjct: 115 TNDGDIVNKILRARNNHEKEYTVTVNKPITERFIQRMGNGVPILDTVTKKCKV----EQI 170 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 S + L +G NR+I+++ E+ ++V L RI Sbjct: 171 SKYTFKIILTQGLNRQIRRMSEYLGYEVTALKRI 204 >gi|261365431|ref|ZP_05978314.1| ribosomal large subunit pseudouridine synthase F [Neisseria mucosa ATCC 25996] gi|288566092|gb|EFC87652.1| ribosomal large subunit pseudouridine synthase F [Neisseria mucosa ATCC 25996] Length = 247 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 118/239 (49%), Gaps = 28/239 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVD-GVPLRKA 70 R+SK +A+ G+ SRRE + I Q VKVNG + AV V D I+++ R+A Sbjct: 10 RLSKRMAQLGLCSRREADSYIEQGWVKVNG----QTAVLGQKVTERDRIDLNRQAHERQA 65 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV----------FDNLPSIFSR-----VISVGRLD 115 ER + L +KP+G V+ ++ +S D+ FS + GRLD Sbjct: 66 ERVTI-LLNKPVGYVSAQAEKGYKSAAELITADNRWESDDSHIPFSEKHKFGLAPAGRLD 124 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 I++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Sbjct: 125 IDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRPA 184 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +V + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 185 KVEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGKLPPGKWR 239 >gi|228952702|ref|ZP_04114776.1| Pseudouridine synthase [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228958637|ref|ZP_04120355.1| Pseudouridine synthase [Bacillus thuringiensis serovar pakistani str. T13001] gi|229069893|ref|ZP_04203175.1| Pseudouridine synthase [Bacillus cereus F65185] gi|229079559|ref|ZP_04212096.1| Pseudouridine synthase [Bacillus cereus Rock4-2] gi|228703728|gb|EEL56177.1| Pseudouridine synthase [Bacillus cereus Rock4-2] gi|228713296|gb|EEL65189.1| Pseudouridine synthase [Bacillus cereus F65185] gi|228801058|gb|EEM47957.1| Pseudouridine synthase [Bacillus thuringiensis serovar pakistani str. T13001] gi|228806978|gb|EEM53523.1| Pseudouridine synthase [Bacillus thuringiensis serovar kurstaki str. T03a001] Length = 238 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKSVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 222 >gi|216264053|ref|ZP_03436047.1| hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Borrelia afzelii ACA-1] gi|215980097|gb|EEC20919.1| hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Borrelia afzelii ACA-1] Length = 249 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 70/229 (30%), Positives = 112/229 (48%), Gaps = 9/229 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 TP R+ +A G+ SRR E +I ++ V+VNG + + + I + + K Sbjct: 6 TP-RIHVFLAEKGVGSRRFCEELIRKKLVRVNGSIAKLGDKVALGDRIIYKKQIYVFKDL 64 Query: 70 AERTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 ++R++L +KP + ++ D +GR + +F RV S+GRLD + GLLL TND Sbjct: 65 QSKSRVYLALNKPRNYLCSNFDANGRKLAISLVQPLFKERVFSIGRLDFKSSGLLLFTND 124 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G A + P + R Y + +D++ L K GI I+ + ++ K S Sbjct: 125 GKFANDIIHPRQKVEREYIIESKKDIDENLLISFKLGIKIKKEFF-KLKSYEILNKNSAR 183 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + L EGKNREI+KVF N + ++ RI G L +L G + V Sbjct: 184 LI---LDEGKNREIRKVFLSKNVFLKKIHRIRIGNINLDSLKEGQVKIV 229 >gi|298368564|ref|ZP_06979882.1| ribosomal large subunit pseudouridine synthase F [Neisseria sp. oral taxon 014 str. F0314] gi|298282567|gb|EFI24054.1| ribosomal large subunit pseudouridine synthase F [Neisseria sp. oral taxon 014 str. F0314] Length = 247 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 73/238 (30%), Positives = 117/238 (49%), Gaps = 26/238 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---GVPLRKAE 71 R+SK +A+ G+ SRRE + I Q VKVNG + AA+ T+ +D ++AE Sbjct: 10 RLSKRMAQLGLCSRREADSYIEQGWVKVNG---QTAALGQKVTERDRIDLNRQAHEKQAE 66 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV----------FDNLPSIFSR-----VISVGRLDI 116 R + L +KP+G V+ ++ +S D+ FS + GRLDI Sbjct: 67 RVTI-LLNKPVGYVSAQAEKGYKSAAELITADNRWEGDDSRIPFSEKHKFGLAPAGRLDI 125 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 ++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G + Sbjct: 126 DSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRPAK 185 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 186 VKWQNED----QLRFVLKQGKKRQIRRMCELVGLRVIGLKRIRMGKVKLGKLPPGKWR 239 >gi|157160659|ref|YP_001457977.1| 23S rRNA pseudouridine synthase E [Escherichia coli HS] gi|157066339|gb|ABV05594.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli HS] Length = 217 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 55/180 (30%), Positives = 90/180 (50%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTLDTQKGS 185 L P + ++Y V+ G QD L L+ G+ + G D L + S Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPS 156 Query: 186 --------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR + G + L L G REV+ Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREVT 216 >gi|302185134|ref|ZP_07261807.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae 642] Length = 210 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 54/183 (29%), Positives = 93/183 (50%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP ++T SD +GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 KLILFNKPFDVLTQFSDEEGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ ++L L+ G+ + G LD Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPSDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPRNPP 147 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + ++EG+NR+++++ RL+R+ G + L L G REV+ Sbjct: 148 VRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYREVA 207 Query: 238 KKI 240 K+ Sbjct: 208 AKL 210 >gi|293365020|ref|ZP_06611737.1| ribosomal small subunit pseudouridine synthase A [Streptococcus oralis ATCC 35037] gi|307702270|ref|ZP_07639230.1| conserved hypothetical protein [Streptococcus oralis ATCC 35037] gi|291316470|gb|EFE56906.1| ribosomal small subunit pseudouridine synthase A [Streptococcus oralis ATCC 35037] gi|307624283|gb|EFO03260.1| conserved hypothetical protein [Streptococcus oralis ATCC 35037] Length = 241 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 66/220 (30%), Positives = 112/220 (50%), Gaps = 7/220 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A+ + SR+ +++ + ++ + V+ A NV + G ++ E T Sbjct: 2 RLDRLLAQE-MVSRKAMKQALLKKEILVDDCPARSLAQNVDTGLQKLVFQGRQIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G VT D G TV D LP ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPNGSVTASKD-KGLPTVMDLLPPDIQSDQLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + K+GIV + G ++ + + + + + Sbjct: 119 FQLLHPQYHVDKSYQVVVNGLLTPDHIQYFKEGIVFLDGTTCKPAKLDILSASPTESRAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + EGK ++KK+F KV L R+ +G F L + LA Sbjct: 179 ITISEGKFHQVKKMFLSVGVKVTTLKRVQFGDFTLDSELA 218 >gi|160882411|ref|ZP_02063414.1| hypothetical protein BACOVA_00362 [Bacteroides ovatus ATCC 8483] gi|156112224|gb|EDO13969.1| hypothetical protein BACOVA_00362 [Bacteroides ovatus ATCC 8483] Length = 211 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 64/202 (31%), Positives = 99/202 (49%), Gaps = 7/202 (3%) Query: 40 VKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 V VNG ++ + +D ++ P+ ER L +KP VTT DP R TV D Sbjct: 2 VSVNGEVVTELGTKIKRSDVVKFHDEPV-SIERKVYVLLNKPKDTVTTSDDPQERRTVMD 60 Query: 100 NLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 + + R+ VGRLD NT G+LLLTNDG LA L P ++Y V + + + Sbjct: 61 LVKGACNERIYPVGRLDRNTTGVLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADM 120 Query: 159 NLLKKGIVIQ-GICYGD-MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + GI ++ G + D + T D +K V + + GKNR ++++FE +KV +L Sbjct: 121 EQIAAGIQLEDGEIHADAISYTDDFKKDQ---VGIEIHSGKNRIVRRIFESLGYKVVKLD 177 Query: 217 RISYGPFQLGTLLAGSTREVSK 238 R+ + L G R +S+ Sbjct: 178 RVFFAGLTKKGLRRGDWRYLSE 199 >gi|296100644|ref|YP_003610790.1| 23S rRNA pseudouridine synthase F [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295055103|gb|ADF59841.1| 23S rRNA pseudouridine synthase F [Enterobacter cloacae subsp. cloacae ATCC 13047] Length = 289 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 68/233 (29%), Positives = 117/233 (50%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + VM D ++V+G + R A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVMPGDVVKVNGQLIEPRDA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +KP+G+V+T D + R + D + SR+ +GRLD +++GL+ LTN G L Sbjct: 65 EDLVFIALNKPVGIVSTTEDGE-RDNIVD-FVNHSSRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYIVTVNKPVTDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFAFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E+F ++V +L R L + G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIE 231 >gi|222095973|ref|YP_002530030.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus cereus Q1] gi|229139077|ref|ZP_04267654.1| Pseudouridine synthase [Bacillus cereus BDRD-ST26] gi|229196600|ref|ZP_04323344.1| Pseudouridine synthase [Bacillus cereus m1293] gi|221240031|gb|ACM12741.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus cereus Q1] gi|228586956|gb|EEK45030.1| Pseudouridine synthase [Bacillus cereus m1293] gi|228644432|gb|EEL00687.1| Pseudouridine synthase [Bacillus cereus BDRD-ST26] Length = 238 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKSVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 222 >gi|331652186|ref|ZP_08353205.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli M718] gi|331050464|gb|EGI22522.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli M718] Length = 217 Score = 81.6 bits (200), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 54/180 (30%), Positives = 89/180 (49%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTLDTQKG- 184 L P + ++Y V+ G QD L L+ G+ + G D L + Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLSPRNPP 156 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR + G + L L G REV+ Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLANGEWREVT 216 >gi|161503669|ref|YP_001570781.1| hypothetical protein SARI_01753 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980] gi|160865016|gb|ABX21639.1| hypothetical protein SARI_01753 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:--] Length = 245 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 56/189 (29%), Positives = 93/189 (49%), Gaps = 17/189 (8%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P ++ + R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LT Sbjct: 56 PRKENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLT 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI-------- 170 NDG L L P + ++Y V+ G D + L L+ G+ + GI Sbjct: 114 NDGALQARLTQPDKRTGKIYYVQVEGIPDHEALQALRAGVTLNDGPTLPAGIEIVAEPDW 173 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + + W+ V L EG+NR+I+++ RLIR S G + L L Sbjct: 174 LWPRTPPIRERKNIPTTWLKVTLYEGRNRQIRRMTAHVGHPTLRLIRYSMGDYMLNGLNN 233 Query: 231 GSTREVSKK 239 G RE++++ Sbjct: 234 GQWREIAQE 242 >gi|49185230|ref|YP_028482.1| RNA pseudouridylate synthase [Bacillus anthracis str. Sterne] gi|49477651|ref|YP_036487.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus thuringiensis serovar konkukian str. 97-27] gi|52143096|ref|YP_083735.1| tRNA pseudouridine synthase A [Bacillus cereus E33L] gi|118477786|ref|YP_894937.1| ribosomal large subunit pseudouridine synthase F [Bacillus thuringiensis str. Al Hakam] gi|228914973|ref|ZP_04078578.1| Pseudouridine synthase [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228927441|ref|ZP_04090497.1| Pseudouridine synthase [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228933676|ref|ZP_04096524.1| Pseudouridine synthase [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228945990|ref|ZP_04108331.1| Pseudouridine synthase [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|229091360|ref|ZP_04222575.1| Pseudouridine synthase [Bacillus cereus Rock3-42] gi|229121932|ref|ZP_04251151.1| Pseudouridine synthase [Bacillus cereus 95/8201] gi|229184594|ref|ZP_04311796.1| Pseudouridine synthase [Bacillus cereus BGSC 6E1] gi|270000600|ref|YP_003329039.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Ames] gi|291612215|ref|YP_003541029.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. 'Ames Ancestor'] gi|49179157|gb|AAT54533.1| RNA pseudouridylate synthase [Bacillus anthracis str. Sterne] gi|49329207|gb|AAT59853.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus thuringiensis serovar konkukian str. 97-27] gi|51976565|gb|AAU18115.1| tRNA pseudouridine synthase A [Bacillus cereus E33L] gi|118417011|gb|ABK85430.1| ribosomal large subunit pseudouridine synthase F [Bacillus thuringiensis str. Al Hakam] gi|224552841|gb|ACN55054.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. 'Ames Ancestor'] gi|228598911|gb|EEK56529.1| Pseudouridine synthase [Bacillus cereus BGSC 6E1] gi|228661581|gb|EEL17202.1| Pseudouridine synthase [Bacillus cereus 95/8201] gi|228691989|gb|EEL45731.1| Pseudouridine synthase [Bacillus cereus Rock3-42] gi|228813683|gb|EEM59963.1| Pseudouridine synthase [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228826003|gb|EEM71788.1| Pseudouridine synthase [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228832234|gb|EEM77815.1| Pseudouridine synthase [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228844769|gb|EEM89815.1| Pseudouridine synthase [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|269850305|gb|ACZ49999.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Ames] Length = 238 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKSVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 222 >gi|332307043|ref|YP_004434894.1| pseudouridine synthase [Glaciecola agarilytica 4H-3-7+YE-5] gi|332174372|gb|AEE23626.1| pseudouridine synthase [Glaciecola agarilytica 4H-3-7+YE-5] Length = 305 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 61/233 (26%), Positives = 112/233 (48%), Gaps = 11/233 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 R++K I+ +G SRRE +++I RV +NG++ E V+ D + VDG ++ + Sbjct: 12 RLNKFISDSGFCSRREADKLIDSNRVTINGVIPE-LGTKVLPGDEVRVDGNLVKASAENK 70 Query: 74 --RLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R++L YHKP+G+ T ++ + + D + R+ +GRLD +EGL+ LT+DG + Sbjct: 71 SDRVYLAYHKPVGITCT-TERHVKGNIIDAIGH-RERIFPIGRLDKPSEGLIFLTSDGDI 128 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I VT+ S Sbjct: 129 VNKILRAENAHDKEYIVTVDRPLTERFIQAMAAGVPILDTVTKPCTVTMQ----SKFVFR 184 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E+ + V +L R +L L G R ++ + E Sbjct: 185 IILTQGLNRQIRRMCEYLGYGVTKLKRSRIMSIRLAGLKVGQWRNLTPDEMHE 237 >gi|197247683|ref|YP_002149101.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197211386|gb|ACH48783.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Agona str. SL483] Length = 289 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 118/230 (51%), Gaps = 13/230 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + Sbjct: 5 TSTRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDVVKVNGRLIEP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G + +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|254506210|ref|ZP_05118354.1| ribosomal large subunit pseudouridine synthase E [Vibrio parahaemolyticus 16] gi|219551028|gb|EED28009.1| ribosomal large subunit pseudouridine synthase E [Vibrio parahaemolyticus 16] Length = 231 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 53/180 (29%), Positives = 89/180 (49%), Gaps = 16/180 (8%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E ++ ++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 51 EARKVIAFNKPFDTLSQFTDGDGRKTLADFIP--VKDVYAAGRLDRDSEGLLILTNDGVL 108 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------ 184 L P ++ + Y V+ G + L+ L+KG+ ++ QV + Sbjct: 109 QAKLTQPKSKSPKTYWVQVDGAPSEADLDKLRKGVELKDGMTLPAQVEVMEAPEIWERNP 168 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+ + + EG+NR+++++ + RLIR S G +LG L G +EV Sbjct: 169 PVRFRANIPTTWLAITIIEGRNRQVRRMTANIGFPTLRLIRYSMGDIKLGDLQPGEWKEV 228 >gi|298206743|ref|YP_003714922.1| putative ribosomal large subunit pseudouridine synthase [Croceibacter atlanticus HTCC2559] gi|83849374|gb|EAP87242.1| putative ribosomal large subunit pseudouridine synthase [Croceibacter atlanticus HTCC2559] Length = 259 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 60/229 (26%), Positives = 121/229 (52%), Gaps = 9/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGI SRR+ + I V VNG + V +D ++ DG + ++ Sbjct: 28 RLNKYIANAGICSRRDADIYITAGNVTVNGKTITEMGYKVKLSDEVKFDGRSI-TPDKKE 86 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP + + S + TV D + + +R+ +G+L+ + GL++LTNDG L++ Sbjct: 87 YYLLNKPKDVFVSGSLNESGMTVLDIVGRATKARLSPIGKLERSAMGLVVLTNDGTLSKS 146 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---TQKGSNAWVT 190 L P ++Y V+ + ++ Q L +++GI ++ G+++V +D + S V Sbjct: 147 LANPRHGIRQIYHVQLNKELSQVDLEKIRQGITLED---GEIKV-VDISYVENKSKREVG 202 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + ++ K+ ++++F+ N+++ L R+ +G L G R ++K+ Sbjct: 203 IEIKSTKSHIVQRLFKSLNYEIKYLDRVVFGTLTKKDLPRGMFRHLTKQ 251 >gi|30020453|ref|NP_832084.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 14579] gi|229109805|ref|ZP_04239390.1| Pseudouridine synthase [Bacillus cereus Rock1-15] gi|29896004|gb|AAP09285.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 14579] gi|228673650|gb|EEL28909.1| Pseudouridine synthase [Bacillus cereus Rock1-15] Length = 235 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 66/225 (29%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 2 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 61 YIALNKPVGITCT-SEKSVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G +VT + S + L Sbjct: 119 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVT----QLSKYEFQIILT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 175 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 219 >gi|47565741|ref|ZP_00236781.1| pseudouridine synthase family 1 protein VC2223 [Bacillus cereus G9241] gi|228985473|ref|ZP_04145630.1| Pseudouridine synthase [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|47557377|gb|EAL15705.1| pseudouridine synthase family 1 protein VC2223 [Bacillus cereus G9241] gi|228774238|gb|EEM22647.1| Pseudouridine synthase [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] Length = 238 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKSVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 222 >gi|167622881|ref|YP_001673175.1| pseudouridine synthase [Shewanella halifaxensis HAW-EB4] gi|167352903|gb|ABZ75516.1| pseudouridine synthase [Shewanella halifaxensis HAW-EB4] Length = 234 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 70/226 (30%), Positives = 113/226 (50%), Gaps = 6/226 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + I+ +++ V ++A+ +V V+G + + + H+ +DG L+ + Sbjct: 7 RLDRFISVKTGINKKYVRLLLAKGQVLVDGEIARDIDLIIDQFSHVSLDGQVLQANAPSY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 + LY KP+G+V+ D D TV D L + VGRLD+NT GLLLLTNDG ++ Sbjct: 67 VMLY-KPVGVVSATID-DKHKTVIDLLDREDKHSLHIVGRLDLNTSGLLLLTNDGRWSKK 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + +VYRV +D+ + G+ L+ A VT L Sbjct: 125 LMSPQHKVDKVYRVTLKNPIDESYIVAFAAGMYFAFEDITTQPAKLEIVDDHTALVT--L 182 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK 238 EG+ +IK++F F V L R+S G +LG LA G +R++S+ Sbjct: 183 VEGRYHQIKRMFGRFRNPVIGLHRLSVGTIELGLQLAVGESRDLSE 228 >gi|228939520|ref|ZP_04102108.1| Pseudouridine synthase [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228972373|ref|ZP_04132984.1| Pseudouridine synthase [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228978987|ref|ZP_04139351.1| Pseudouridine synthase [Bacillus thuringiensis Bt407] gi|229044113|ref|ZP_04191799.1| Pseudouridine synthase [Bacillus cereus AH676] gi|228725226|gb|EEL76497.1| Pseudouridine synthase [Bacillus cereus AH676] gi|228780698|gb|EEM28912.1| Pseudouridine synthase [Bacillus thuringiensis Bt407] gi|228787390|gb|EEM35358.1| Pseudouridine synthase [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228820220|gb|EEM66257.1| Pseudouridine synthase [Bacillus thuringiensis serovar berliner ATCC 10792] Length = 238 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 66/225 (29%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G +VT + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 222 >gi|111114952|ref|YP_709570.1| hypothetical protein BAPKO_0131 [Borrelia afzelii PKo] gi|110890226|gb|ABH01394.1| conserved hypothetical protein [Borrelia afzelii PKo] Length = 249 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 69/229 (30%), Positives = 112/229 (48%), Gaps = 9/229 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 TP R+ +A G+ SRR E +I ++ V+VNG + + + I + + K Sbjct: 6 TP-RIHVFLAEKGVGSRRFCEELIRKKLVRVNGSIAKLGDKVALGDRIIYKKQIYVFKDL 64 Query: 70 AERTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 ++R++L +KP + ++ D +GR + +F R+ S+GRLD + GLLL TND Sbjct: 65 QSKSRVYLALNKPRNYLCSNFDANGRKLAISLVQPLFKERLFSIGRLDFKSSGLLLFTND 124 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G A + P + R Y + +D++ L K GI I+ + ++ K S Sbjct: 125 GKFANDIIHPRQKVEREYIIESKKDIDENLLISFKSGIKIKKEFF-KLKSYEILNKNSAR 183 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + L EGKNREI+KVF N + ++ RI G L +L G + V Sbjct: 184 LI---LDEGKNREIRKVFLSKNVFLKKIHRIRIGNINLDSLKEGQVKIV 229 >gi|114561788|ref|YP_749301.1| 23S rRNA pseudouridine synthase F [Shewanella frigidimarina NCIMB 400] gi|114333081|gb|ABI70463.1| ribosomal large subunit pseudouridine synthase F [Shewanella frigidimarina NCIMB 400] Length = 293 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 67/232 (28%), Positives = 123/232 (53%), Gaps = 15/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV--NVMSTDHIEVDG---VPLRK 69 R++K I+ +GI SRRE +R I Q V +NG +RA + +V D ++V+G P + Sbjct: 7 RLNKYISESGICSRREADRYIEQGNVFING---KRAKIGDSVEFGDKVKVNGHDIAPRDE 63 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 A+ + L +KP+G+V+T + + R + D + RV +GRLD +++GL+ LT++G Sbjct: 64 ADLVFIAL-NKPVGIVSTTENTE-RDNIVD-FVNHSERVFPIGRLDKDSQGLIFLTSNGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + L ++ G+ + G+ +V ++ S Sbjct: 121 LVNKILRAGNNHDKEYVVTVNKPITEAFLQGMRAGVPMLGVITKKCKV----EQVSTFVF 176 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +G NR+I+++ E FN++V +L R S L L G R++ ++ L Sbjct: 177 KIILVQGLNRQIRRMCEHFNFEVTKLERQSIMNVSLKGLPVGEWRDLDEQEL 228 >gi|149908393|ref|ZP_01897056.1| pseudouridine synthase family 1 protein [Moritella sp. PE36] gi|149808556|gb|EDM68491.1| pseudouridine synthase family 1 protein [Moritella sp. PE36] Length = 239 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 53/181 (29%), Positives = 92/181 (50%), Gaps = 20/181 (11%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 T++++++KP ++T +D D R T+ D +P I++ GRLD ++EGLLLLTN+G L Sbjct: 58 TQVYVFNKPYMVLTQFTDADNRETLKDYIKVPDIYA----AGRLDRDSEGLLLLTNNGRL 113 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------ 184 L P + + Y V+ G+ +KL+ L+ GI+++ +V + T+ Sbjct: 114 QAKLTQPGEKTEKTYWVQVEGEPSPEKLSDLRYGIILKDGPTLPAKVEIMTEPSVWPRVP 173 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+ + + EG+NR+I+++ RLIR GP+ L + G E Sbjct: 174 PIRERQNIPTTWLAITIIEGRNRQIRRMTAHIGHPTLRLIRYRIGPWTLDNIQPGELVES 233 Query: 237 S 237 S Sbjct: 234 S 234 >gi|261252238|ref|ZP_05944811.1| ribosomal large subunit pseudouridine synthase F [Vibrio orientalis CIP 102891] gi|260935629|gb|EEX91618.1| ribosomal large subunit pseudouridine synthase F [Vibrio orientalis CIP 102891] Length = 344 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 108/234 (46%), Gaps = 10/234 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +R+I Q RV +NG + E V D + VD P+ A Sbjct: 7 KRLNKFISETGFCSRREADRLIEQGRVTINGQVPE-MGTKVQLGDDVRVDDKPIAAATDK 65 Query: 74 RLWL-YHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +++ +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 66 PVYIALNKPTGITCTTERDIPGNIVDFVGHKK---RIFPIGRLDKPSDGLIFLTNDGDIV 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + D + + G+ I VT +T+ +T Sbjct: 123 NKILRAGNSHEKEYVVRVDKPISDDFIKKMSSGVNILDTITLPCTVTKETKYSFRIVLTQ 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 GL NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 183 GL----NRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGQWRYLSDSEVTEIL 232 >gi|73748599|ref|YP_307838.1| RsuA family pseudouridine synthase [Dehalococcoides sp. CBDB1] gi|147669359|ref|YP_001214177.1| ribosomal large subunit pseudouridine synthase B [Dehalococcoides sp. BAV1] gi|289432625|ref|YP_003462498.1| pseudouridine synthase [Dehalococcoides sp. GT] gi|73660315|emb|CAI82922.1| pseudouridine synthase, RsuA family [Dehalococcoides sp. CBDB1] gi|146270307|gb|ABQ17299.1| ribosomal large subunit pseudouridine synthase B [Dehalococcoides sp. BAV1] gi|288946345|gb|ADC74042.1| pseudouridine synthase [Dehalococcoides sp. GT] Length = 249 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 70/225 (31%), Positives = 109/225 (48%), Gaps = 7/225 (3%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDG--VPLRKAERTR 74 KV+ A + SRR++ I Q V +NG E + V D + +G V L + R Sbjct: 13 KVLVEARLGSRRKMAEAIKQGLVTLNGQKAESYSQPVNTQKDKVTFEGKLVVLSRVRRIY 72 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP +V+T SD GR TV D L + + + VGRLD T GL+LLTNDG + Sbjct: 73 LML-NKPPEIVSTTSDELGRKTVMDLLHRRYEGAGLFPVGRLDEATTGLILLTNDGEMTN 131 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y + + Q L+KGI++ +++ T + + + Sbjct: 132 RLTHPSYEIEKEYLISIDAALTQADKESLEKGILLDDGLTSPARLSRVTDEPPYNYKLI- 190 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EGK R ++++F + L R +LG L G TRE++ Sbjct: 191 IHEGKKRIVRRMFARLGHPIKALKRSRIATLRLGKLEEGKTRELT 235 >gi|168239322|ref|ZP_02664380.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|168466867|ref|ZP_02700715.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|194442736|ref|YP_002043438.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194735254|ref|YP_002117092.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|204927294|ref|ZP_03218496.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|194401399|gb|ACF61621.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194710756|gb|ACF89977.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|195630602|gb|EDX49214.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|197287935|gb|EDY27323.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|204323959|gb|EDZ09154.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] Length = 289 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 118/230 (51%), Gaps = 13/230 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + Sbjct: 5 TSTRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDVVKVNGRLIEP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G + +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|114778386|ref|ZP_01453233.1| ribosomal large subunit pseudouridine synthase E [Mariprofundus ferrooxydans PV-1] gi|114551349|gb|EAU53906.1| ribosomal large subunit pseudouridine synthase E [Mariprofundus ferrooxydans PV-1] Length = 221 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 55/202 (27%), Positives = 99/202 (49%), Gaps = 22/202 (10%) Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 ++KP ++T SD GR T+ D +P S V + GRLD ++EGLLLLT+DG L + P Sbjct: 6 FNKPFEVLTQFSDGAGRQTLADFIP--VSGVYAAGRLDRDSEGLLLLTDDGPLQNRISHP 63 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS------------ 185 + +VY V+ G + + + L+ G+ ++ +V++ + Sbjct: 64 LHKLKKVYWVQVDGAISDEAVERLRHGVELKDGMTSPARVSVMEAPATLWPRNPPIRTRA 123 Query: 186 ---NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +W+++ + EG+NR+++++ + RLIR + GP L L G+ EV + L Sbjct: 124 QIPTSWISLEISEGRNRQVRRMTAAVGFPTLRLIRYAIGPITLDGLQPGTYDEVDAQQLW 183 Query: 243 EQLGPHLLEEAQVNLDAPIYSS 264 +L +D P+ S+ Sbjct: 184 -----NLFPTQGSGVDRPVVSA 200 >gi|110833959|ref|YP_692818.1| ribosomal small subunit pseudouridine synthase A [Alcanivorax borkumensis SK2] gi|110647070|emb|CAL16546.1| Ribosomal small subunit pseudouridine synthase A [Alcanivorax borkumensis SK2] Length = 248 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 116/229 (50%), Gaps = 10/229 (4%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVT 86 SR + ++A RV+VNG + + D + DG L +A R R + +KP G+V+ Sbjct: 26 SRSNLRLLLAAGRVRVNGQVERDRQRRIGLFDAVVCDGEIL-QANRPRYLMINKPAGVVS 84 Query: 87 THSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY 145 D + TV + LP + + GRLD N+ GL+LLTNDG +R L LP T + Y Sbjct: 85 ATRD-EHHPTVLELLPRGQREGLHLAGRLDFNSTGLVLLTNDGAWSRRLSLPETGLWKHY 143 Query: 146 RVRFHGQV-DQDKLNLLKK-GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 RV + D+D ++ ++ + I ++T+ + ++ W L EGK +IK+ Sbjct: 144 RVSVDKPLSDEDVVSFSQRMWFDFEQIYTQPARLTIRSSFEADVW----LHEGKYHQIKR 199 Query: 204 VFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHLLE 251 +F KV L R++ G QL LA G +RE+++ + L P +E Sbjct: 200 MFGRTGKKVTALHRLAVGRIQLDAYLAPGESRELTQAEQQTALDPEPVE 248 >gi|229155962|ref|ZP_04284063.1| Pseudouridine synthase [Bacillus cereus ATCC 4342] gi|228627569|gb|EEK84295.1| Pseudouridine synthase [Bacillus cereus ATCC 4342] Length = 238 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKSVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMATGVKILGTKTLPCEIT----QLSKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 222 >gi|168231182|ref|ZP_02656240.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|194472572|ref|ZP_03078556.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194458936|gb|EDX47775.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|205334218|gb|EDZ20982.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] Length = 289 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 118/230 (51%), Gaps = 13/230 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + Sbjct: 5 TSTRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDVVKVNGRLIEP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G + +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVAVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|56416014|ref|YP_153089.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|197364941|ref|YP_002144578.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|56130271|gb|AAV79777.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|197096418|emb|CAR62024.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] Length = 289 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 118/230 (51%), Gaps = 13/230 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + Sbjct: 5 TSTRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDIVKVNGRLIEP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G + +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|16767443|ref|NP_463058.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|161617332|ref|YP_001591297.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|167991374|ref|ZP_02572473.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|168243582|ref|ZP_02668514.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|194448614|ref|YP_002048178.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|197263699|ref|ZP_03163773.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|34098651|sp|Q8ZKL1|RLUF_SALTY RecName: Full=Ribosomal large subunit pseudouridine synthase F; AltName: Full=rRNA pseudouridylate synthase F; AltName: Full=rRNA-uridine isomerase F gi|16422749|gb|AAL23017.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|161366696|gb|ABX70464.1| hypothetical protein SPAB_05187 [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|194406918|gb|ACF67137.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|197241954|gb|EDY24574.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|205330127|gb|EDZ16891.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|205337314|gb|EDZ24078.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|261249293|emb|CBG27155.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. D23580] gi|267996496|gb|ACY91381.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S] gi|301160685|emb|CBW20216.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344] gi|312915294|dbj|BAJ39268.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhimurium str. T000240] gi|321223059|gb|EFX48129.1| Ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhimurium str. TN061786] gi|323132528|gb|ADX19958.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhimurium str. 4/74] gi|332991008|gb|AEF09991.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhimurium str. UK-1] Length = 289 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 118/230 (51%), Gaps = 13/230 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + Sbjct: 5 TSTRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDIVKVNGRLIEP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G + +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|237747726|ref|ZP_04578206.1| pseudouridylate synthase [Oxalobacter formigenes OXCC13] gi|229379088|gb|EEO29179.1| pseudouridylate synthase [Oxalobacter formigenes OXCC13] Length = 248 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 117/243 (48%), Gaps = 27/243 (11%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK ++ GI+SRRE + I + VKV+G ++ + V+ I ++ ++ R Sbjct: 4 PVRLSKRMSELGISSRREADEWIEKGWVKVDGKVVSQLGSKVLPHQKITIEKQASQEQSR 63 Query: 73 TRLWLYHKPIGLVT-----------------THSDPDGRSTVFDNLPSIFSRVISVGRLD 115 L +KP+G V+ TH D F PS ++ GRLD Sbjct: 64 RVTILINKPMGYVSGQAEDGYKPAVALISEDTHWKDDPSKEKFR--PSQLRSLVPAGRLD 121 Query: 116 INTEGLLLLTNDGGLARVL--ELPSTQWLRVYRVRFH--GQVDQDKLNLLKKGIVIQGIC 171 I++ GLL+LT DG +A+ L E T + RV++ G++ +LN+L+ G+ + G Sbjct: 122 IDSVGLLVLTQDGRIAKHLIGENSPTDKEYLVRVKYTRPGRLPDSELNMLRHGLKLDGKA 181 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +V ++ + LREGK R+I+++ E +V L RI G +LG L G Sbjct: 182 LLPAKVEWQ----NDDQLRFVLREGKKRQIRRMCEAVGLRVIGLKRIRIGNVRLGDLPTG 237 Query: 232 STR 234 R Sbjct: 238 QWR 240 >gi|197286701|ref|YP_002152573.1| ribosomal large subunit pseudouridine synthase F [Proteus mirabilis HI4320] gi|227355108|ref|ZP_03839519.1| RluF protein [Proteus mirabilis ATCC 29906] gi|194684188|emb|CAR45657.1| ribosomal large subunit pseudouridine synthase F [Proteus mirabilis HI4320] gi|227164895|gb|EEI49742.1| RluF protein [Proteus mirabilis ATCC 29906] Length = 292 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 66/229 (28%), Positives = 117/229 (51%), Gaps = 17/229 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K I+ +GI SRRE +R I Q V +NG +RA + V + D ++V+G + + Sbjct: 8 RLNKYISESGICSRREADRYIEQGLVLING---KRAGIGDRVTAGDEVKVNGRLIEAQDN 64 Query: 73 TRLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L L +KP+G+V+T +D + + D + +RV +GRLD +++GL+ LTN G L Sbjct: 65 SELVLIALNKPVGIVST-TDEGEKDNIVDYVNH-STRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G Q T + A + Sbjct: 123 VNKILRAGNSHEKEYLVTVDKPITDEFIRGMGAGVPILG------QKTKKCKVKKEAAMV 176 Query: 191 --VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L RI L L G R+++ Sbjct: 177 FRITLVQGLNRQIRRMCEYFGYEVTKLERIRIMNVSLAGLPVGEWRDLT 225 >gi|167552572|ref|ZP_02346325.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|168263493|ref|ZP_02685466.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|200389083|ref|ZP_03215695.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|199606181|gb|EDZ04726.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|205322854|gb|EDZ10693.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|205348000|gb|EDZ34631.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] Length = 289 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 118/230 (51%), Gaps = 13/230 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + Sbjct: 5 TSTRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDVVKVNGRLIEP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G + +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|330938238|gb|EGH41915.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. pisi str. 1704B] Length = 210 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 54/183 (29%), Positives = 93/183 (50%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP ++T SD +GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 KLILFNKPFDVLTQFSDEEGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ ++L L+ G+ + G LD Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPSDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPRNPP 147 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + ++EG+NR+++++ RL+R+ G + L L G REV+ Sbjct: 148 VRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLEGLDQGQYREVA 207 Query: 238 KKI 240 K+ Sbjct: 208 AKL 210 >gi|298488650|ref|ZP_07006680.1| Ribosomal small subunit pseudouridine synthase A [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|298156991|gb|EFH98081.1| Ribosomal small subunit pseudouridine synthase A [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] Length = 230 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 64/219 (29%), Positives = 101/219 (46%), Gaps = 8/219 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R+ V +A RV+V+G V + +DG L+ + R Sbjct: 2 RLDRFLSNLPSLNRKSVRLALASGRVQVDGQTTSDPHHEVREFSRVALDGEILQAGKAAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ D TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPEGCVSATVDTQ-HPTVLDLLDEPDRHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ G+ + I Q+TL + + + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAATFAAGMYFSFENITTQPAQLTLLGPRSARLTIV- 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EG+ ++K++F FN KV RL R + G L LA Sbjct: 180 ---EGRYHQVKRMFGHFNNKVLRLHRENIGALALDPALA 215 >gi|330889469|gb|EGH22130.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. mori str. 301020] Length = 230 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 64/219 (29%), Positives = 101/219 (46%), Gaps = 8/219 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R+ V +A RV+V+G V + +DG L+ + R Sbjct: 2 RLDRFLSNLPSLNRKSVRLALASGRVQVDGQTTSDPHHEVRDFSRVALDGEILQAGKAAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ D TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPEGCVSATVDTQ-HPTVLDLLDEPDRHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ G+ + I Q+TL + + + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAATFAAGMYFSFENITTQPAQLTLLRPRSARLTIV- 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EG+ ++K++F FN KV RL R + G L LA Sbjct: 180 ---EGRYHQVKRMFGHFNNKVLRLHRENIGALALDPALA 215 >gi|68249271|ref|YP_248383.1| pseudouridylate synthase [Haemophilus influenzae 86-028NP] gi|68057470|gb|AAX87723.1| ribosomal large subunit pseudouridine synthase E [Haemophilus influenzae 86-028NP] Length = 227 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 51/183 (27%), Positives = 97/183 (53%), Gaps = 20/183 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T++ L++KP ++T +D GR+T+ F ++P++++ GRLD ++EGLL+LTN+G Sbjct: 36 DETKVVLFNKPFDVLTQFTDEQGRATLKDFISIPNVYA----AGRLDRDSEGLLILTNNG 91 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L L P + + Y V+ G ++ L L+KG+ ++ QV L ++ Sbjct: 92 ELQHRLSDPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGMTKQAQVRLISEPNLWER 151 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + + EG+NR+++++ + RL+R+S G + L GS R Sbjct: 152 NPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSIDGLANGSFR 211 Query: 235 EVS 237 +S Sbjct: 212 LLS 214 >gi|71737959|ref|YP_276115.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. phaseolicola 1448A] gi|71558512|gb|AAZ37723.1| Ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. phaseolicola 1448A] gi|320325537|gb|EFW81599.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. glycinea str. B076] gi|320327176|gb|EFW83190.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. glycinea str. race 4] gi|330879332|gb|EGH13481.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. glycinea str. race 4] Length = 230 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 64/219 (29%), Positives = 101/219 (46%), Gaps = 8/219 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R+ V +A RV+V+G V + +DG L+ + R Sbjct: 2 RLDRFLSNLPSLNRKSVRLALASGRVQVDGQTTSDPHHEVREFSRVALDGEILQAGKAAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ D TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPEGCVSATVDTQ-HPTVLDLLDEPDRHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ G+ + I Q+TL + + + Sbjct: 121 LTQPKTKMPKVYYVETEQPIDERYAATFAAGMYFSFENITTQPAQLTLLGPRSARLTIV- 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EG+ ++K++F FN KV RL R + G L LA Sbjct: 180 ---EGRYHQVKRMFGHFNNKVLRLHRENIGALALDPALA 215 >gi|228965356|ref|ZP_04126448.1| Pseudouridine synthase [Bacillus thuringiensis serovar sotto str. T04001] gi|228794346|gb|EEM41860.1| Pseudouridine synthase [Bacillus thuringiensis serovar sotto str. T04001] Length = 238 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKSITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 222 >gi|16762895|ref|NP_458512.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. CT18] gi|29144382|ref|NP_807724.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|213420596|ref|ZP_03353662.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] gi|213581144|ref|ZP_03362970.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] gi|213647413|ref|ZP_03377466.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. J185] gi|213855503|ref|ZP_03383743.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. M223] gi|289827405|ref|ZP_06546017.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. E98-3139] gi|34098634|sp|Q8Z1V3|RLUF_SALTI RecName: Full=Ribosomal large subunit pseudouridine synthase F; AltName: Full=rRNA pseudouridylate synthase F; AltName: Full=rRNA-uridine isomerase F gi|25324020|pir||AE1012 probable pseudouridine synthase STY4410 [imported] - Salmonella enterica subsp. enterica serovar Typhi (strain CT18) gi|16505202|emb|CAD09198.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhi] gi|29140020|gb|AAO71584.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] Length = 289 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 118/230 (51%), Gaps = 13/230 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + Sbjct: 5 TSTRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDVVKVNGRLIEP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G + +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|300949486|ref|ZP_07163483.1| conserved hypothetical protein [Escherichia coli MS 116-1] gi|300955541|ref|ZP_07167903.1| hypothetical protein HMPREF9547_01414 [Escherichia coli MS 175-1] gi|300317580|gb|EFJ67364.1| hypothetical protein HMPREF9547_01414 [Escherichia coli MS 175-1] gi|300451106|gb|EFK14726.1| conserved hypothetical protein [Escherichia coli MS 116-1] Length = 217 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 54/180 (30%), Positives = 90/180 (50%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDILPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G D L Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPP 156 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G REV+ Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREVT 216 >gi|171911201|ref|ZP_02926671.1| ribosomal large subunit pseudouridine synthase B [Verrucomicrobium spinosum DSM 4136] Length = 345 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 53/169 (31%), Positives = 82/169 (48%), Gaps = 16/169 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 + HKP GLV + D R T++ LP F + VGRLD +EGLLL+TN G +++ L Sbjct: 43 VLHKPRGLVCSRRDERDRDTIYSLLPEKFHTLHHVGRLDKESEGLLLMTNRGEVSQRLLH 102 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW------VT 190 PS + Y V + D + L L KG K AW + Sbjct: 103 PSQGVEKEYEVILETRFDPENLTRLTKGF----------HTEDGYAKAERAWMIGDYKIG 152 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + L++G R+I+ + F ++V RL+R+ G + +L G+ +E+S K Sbjct: 153 MVLKQGLKRQIRMMLYFLGYEVKRLVRVRIGNLAIKGILEGNWKELSDK 201 >gi|330976863|gb|EGH76892.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. aptata str. DSM 50252] Length = 210 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 54/183 (29%), Positives = 93/183 (50%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP ++T SD +GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 KLILFNKPFDVLTQFSDEEGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ ++L L+ G+ + G LD Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPSDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPRNPP 147 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + ++EG+NR+++++ RL+R+ G + L L G REV+ Sbjct: 148 VRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLEGLDQGQYREVA 207 Query: 238 KKI 240 K+ Sbjct: 208 AKL 210 >gi|19879252|gb|AAK38326.1| hypothetical pseudouridine synthase [Flavobacterium johnsoniae UW101] Length = 304 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 59/214 (27%), Positives = 106/214 (49%), Gaps = 12/214 (5%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-V 65 ++EN +R++K I G SRRE +++I + RV +NG E V S D I +DG + Sbjct: 1 MEENL--KRLNKFIGETGYCSRREADKLIEEGRVTINGAAAE-MGTKVSSDDEIRIDGKL 57 Query: 66 PLRKAERTRLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + K E+ ++KP+G+ TT+ + + N P R+ +GRLD +EGL+ + Sbjct: 58 IVEKHEKLVYLAFNKPVGIECTTNLEVKNNIVDYINYP---KRIFPIGRLDKASEGLIFM 114 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG + + + Y V + + + + + G+ I +V ++ Sbjct: 115 TNDGDIVNKILRARNNHEKEYTVTVNKPITERFIQRMGNGVPILDTVTKKCKV----EQI 170 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 S + L +G NR+I+++ E+ ++V L RI Sbjct: 171 SKYTFKIILTQGLNRQIRRMSEYLGYEVTALKRI 204 >gi|298489014|ref|ZP_07007037.1| tRNA pseudouridine synthase A [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|298156512|gb|EFH97609.1| tRNA pseudouridine synthase A [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] Length = 210 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 54/183 (29%), Positives = 93/183 (50%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L+L++KP ++T SD GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 KLFLFNKPFDVLTQFSDEGGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ ++L L+ G+ + G LD Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPTDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPRNPP 147 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + ++EG+NR+++++ RL+R+ G + L L G REV+ Sbjct: 148 VRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYREVA 207 Query: 238 KKI 240 K+ Sbjct: 208 AKL 210 >gi|254362527|ref|ZP_04978630.1| pseudouridylate synthase [Mannheimia haemolytica PHL213] gi|261494150|ref|ZP_05990653.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. BOVINE] gi|153094127|gb|EDN75026.1| pseudouridylate synthase [Mannheimia haemolytica PHL213] gi|261310316|gb|EEY11516.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. BOVINE] Length = 227 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/201 (32%), Positives = 99/201 (49%), Gaps = 25/201 (12%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLL 123 PL AE T L L +KP ++T +D GR T+ F +P+I+ VGRLD ++EGLLL Sbjct: 28 PLTFAETT-LVLLNKPYDVLTQFTDEQGRKTLKDFITMPNIYP----VGRLDRDSEGLLL 82 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----------VIQGICYG 173 LTN+G + L P + Y V+ G + L L KG+ ++ I Sbjct: 83 LTNNGEIQHRLAHPKFDKQKTYWVQVEGVPQPEDLAKLAKGVELKDGLTKPAKVRAIATP 142 Query: 174 DMQVTLDTQ-----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 D + Q +W+ + + EGKNR+++++ + RLIR+ G F+LG L Sbjct: 143 DFAWNIAPQIRERKTIPTSWIELIISEGKNRQVRRMTAHIGFPTLRLIRVGIGQFRLGNL 202 Query: 229 LAGSTREVS---KKILREQLG 246 G + +S K+ L QLG Sbjct: 203 GCGEFQVLSENEKRKLFTQLG 223 >gi|310779774|ref|YP_003968106.1| ribosomal small subunit pseudouridine synthase A [Ilyobacter polytropus DSM 2926] gi|309749097|gb|ADO83758.1| ribosomal small subunit pseudouridine synthase A [Ilyobacter polytropus DSM 2926] Length = 227 Score = 80.9 bits (198), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 62/226 (27%), Positives = 110/226 (48%), Gaps = 11/226 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + G+ SR+++++++ + RVK+NG++ + + D I +D L + + Sbjct: 2 RLEKYLVNCGVGSRKDIKKIVEEGRVKINGLVTLNFGLWIEEDRDDITLDNRHL-EFKTL 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 R ++ +K G +T D D T+ + LP + VGRLD +TEGLLL TNDG Sbjct: 61 RYYILYKTKGYITAVKD-DRHPTIMELLPGWLETKDLFPVGRLDKDTEGLLLFTNDGDTN 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + P + + Y V + + + L+KG+ I IC + Q + Sbjct: 120 YKMTHPDKKISKKYYVELDKPISEGDIKDLEKGVDIGTHIC-----LPAKVQYIEQNKIF 174 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + ++EGK ++KK+ KV+ L R+ +G L + G RE+ Sbjct: 175 LTIQEGKYHQVKKMVGSIKNKVSYLKRVKFGNLTLEDMKPGELREI 220 >gi|330963493|gb|EGH63753.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. actinidiae str. M302091] Length = 210 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 54/183 (29%), Positives = 93/183 (50%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP ++T SD +GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 KLILFNKPFDVLTQFSDEEGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK------- 183 + P + + Y V+ G+ ++L L+ G+ + G LD + Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPTPEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPRNPP 147 Query: 184 ------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + ++EG+NR+++++ RL+R+ G + L L G REV+ Sbjct: 148 VRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYREVA 207 Query: 238 KKI 240 K+ Sbjct: 208 AKL 210 >gi|309379383|emb|CBX21950.1| unnamed protein product [Neisseria lactamica Y92-1009] Length = 252 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 73/241 (30%), Positives = 116/241 (48%), Gaps = 26/241 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q RV VNG + AV V D IE++ + Sbjct: 15 RLSKRMAQLGLCSRREADGYIEQGRVTVNG----KTAVLGQKVSPADRIELNKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRS-----TVFDNLPSIFSRV----------ISVGRLDI 116 L +KP+G V+ ++ +S T + S SR+ GRLDI Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITSENRWESDTSRIRFDPKHKIGLAPAGRLDI 130 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 ++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G + Sbjct: 131 DSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRPAK 190 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + L++GK R+I+++ E +V L RI G +LG L G R + Sbjct: 191 VEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWRYL 246 Query: 237 S 237 + Sbjct: 247 A 247 >gi|118444660|ref|YP_877521.1| RNA pseudouridylate synthase family protein [Clostridium novyi NT] gi|118135116|gb|ABK62160.1| RNA pseudouridylate synthase family protein [Clostridium novyi NT] Length = 229 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 62/224 (27%), Positives = 113/224 (50%), Gaps = 8/224 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+++ GI SR+E R+I Q R+ VNG L V +D I +D ++ ++ Sbjct: 2 RINKLLSNYGICSRKEANRIIEQNRIIVNGKLCIPGQW-VEESDEILLDNKRIKPKKKVY 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L +KP+G+ T S D ++ + D + + VGRLD +EGL++LTNDG L+ + Sbjct: 61 ILL-NKPVGITCTSS-KDIKANIID-FVNYRDYIFPVGRLDKKSEGLIILTNDGELSNKI 117 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V+ D + + + KG+ ++G+ T ++ + L Sbjct: 118 LESENMHEKEYVVKVDKPFDDEFIENMSKGVQLKGV----KTRTCIVRRIDECTFKIILT 173 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +G NR+I+K+ F + V +L RI ++ + GS R ++ Sbjct: 174 QGLNRQIRKMTRAFGYTVVKLKRIRIMNLKIDGIDIGSFRHFTE 217 >gi|322412114|gb|EFY03022.1| Putative 16S pseudouridylate synthetase [Streptococcus dysgalactiae subsp. dysgalactiae ATCC 27957] Length = 238 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 68/237 (28%), Positives = 115/237 (48%), Gaps = 26/237 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K++ SRR+V+++I Q V+++ + NV G+ L + R R Sbjct: 2 RLDKLLELVANGSRRQVKQLIKGQDVRIDHEIAWSGRQNVDP-------GLQLIEVSRKR 54 Query: 75 L-------WLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGL 121 + ++ +KP G+V+ SD + TV D L P ++ VGRLD +TEGL Sbjct: 55 ISHPKHSYFILNKPAGVVSARSDIN-HVTVLDQLAEKDRHPDLYP----VGRLDRDTEGL 109 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLD 180 +LLT++G L + PS + Y V +G +D+D + GI G Q+T+ Sbjct: 110 VLLTDNGPLGFRMLHPSHHVAKTYMVTVNGFLDEDAPDFFASGIKFPTGEQCRPAQLTIL 169 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + EGK ++KK+F + KV L R S+ +LG L +G+ R ++ Sbjct: 170 QASQEKSQARLVISEGKFHQVKKMFLTYGLKVISLKRTSFAGLELGELASGAYRSLT 226 >gi|254525629|ref|ZP_05137681.1| ribosomal large subunit pseudouridine synthase F [Prochlorococcus marinus str. MIT 9202] gi|221537053|gb|EEE39506.1| ribosomal large subunit pseudouridine synthase F [Prochlorococcus marinus str. MIT 9202] Length = 240 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 63/231 (27%), Positives = 115/231 (49%), Gaps = 9/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AER 72 R++K ++ G SRRE +R+I + +V +NG + + V +D +EV G ++K ++ Sbjct: 4 RINKYLSEVGYCSRREADRLIHEGKVTING-KIPKIGSKVEESDQVEVKGQRIKKITGQK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++KP+G+V T + V D + R+ +GRLD +EGL+ LTNDG + Sbjct: 63 NIYLAFNKPVGIVCTTDRKVEPNNVIDFIKYP-KRIFPIGRLDKLSEGLIFLTNDGDIVN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V+ + Q++ D + + G+ I + V Q G + + Sbjct: 122 KILRARNNHEKEYIVKVNRQINSDFIQSMSSGVEILDTITKNCFV---KQLGPKKFKII- 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 L +G NR+I+++ E ++V L R+ +L + G RE +K+ L E Sbjct: 178 LTQGLNRQIRRMCESLGYRVRSLKRVRIMNIEL-DVSTGKYREFTKEELFE 227 >gi|257482196|ref|ZP_05636237.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. tabaci ATCC 11528] gi|289625808|ref|ZP_06458762.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. aesculi str. NCPPB3681] gi|289648408|ref|ZP_06479751.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. aesculi str. 2250] gi|330867203|gb|EGH01912.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. aesculi str. 0893_23] gi|330871091|gb|EGH05800.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. aesculi str. 0893_23] gi|330887918|gb|EGH20579.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. mori str. 301020] gi|331011340|gb|EGH91396.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. tabaci ATCC 11528] Length = 210 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 54/183 (29%), Positives = 93/183 (50%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L+L++KP ++T SD GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 KLFLFNKPFDVLTQFSDEGGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ ++L L+ G+ + G LD Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPTDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPRNPP 147 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + ++EG+NR+++++ RL+R+ G + L L G REV+ Sbjct: 148 VRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYREVA 207 Query: 238 KKI 240 K+ Sbjct: 208 AKL 210 >gi|213163156|ref|ZP_03348866.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. E00-7866] Length = 289 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 62/210 (29%), Positives = 111/210 (52%), Gaps = 13/210 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + Sbjct: 5 TSTRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDVVKVNGRLIEP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G + +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 + L +G NR+I+++ E+F ++V +L R Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLER 205 >gi|322389007|ref|ZP_08062577.1| ribosomal small subunit pseudouridine synthase A [Streptococcus parasanguinis ATCC 903] gi|321144312|gb|EFX39720.1| ribosomal small subunit pseudouridine synthase A [Streptococcus parasanguinis ATCC 903] Length = 251 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 62/217 (28%), Positives = 111/217 (51%), Gaps = 7/217 (3%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLWLYHKPIGLV 85 +R+++++++A++++ V+ + ++ + N+ I++ G + + R ++ HKPIG V Sbjct: 23 TRKDIKQLLARRQILVDHLPAQKLSQNIDPGLQQIQI-GERIIQEPRHHYYMLHKPIGAV 81 Query: 86 TTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 T D TV D + + + +GRLD +T GLLLLT++G L L P + Sbjct: 82 TAKRDAH-HPTVIDLVDPQQEYPDLYPLGRLDRDTSGLLLLTDNGPLGFQLLHPQYHVEK 140 Query: 144 VYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 VY V +G + + + GI G +T+ S + V + EGK ++K Sbjct: 141 VYEVEVNGPLYAAHIEQFQNGISFTDGPICKPASLTILESTPSYSKAQVRISEGKYHQVK 200 Query: 203 KVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK 238 K+F KV L R+S+GPF L LA G +R +++ Sbjct: 201 KMFLAIGVKVMTLKRLSFGPFTLDPQLAPGESRPLNE 237 >gi|311069499|ref|YP_003974422.1| putative 16S pseudouridylate synthase [Bacillus atrophaeus 1942] gi|310870016|gb|ADP33491.1| putative 16S pseudouridylate synthase [Bacillus atrophaeus 1942] Length = 239 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 70/233 (30%), Positives = 117/233 (50%), Gaps = 9/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ K++A +GI SR+EV++++ V ++G + +V ++H + V G P+ E Sbjct: 2 RLDKLLANSGIGSRKEVKKIVKAGAVSIDGKQAKDVKTHVDPSEHEVTVYGEPIEYREFI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 L + +KP G+++ D + TV D L R GRLD +T GLLLLTNDG LA Sbjct: 62 YLMM-NKPQGVLSATED-SRQKTVIDLLAPDDMRFEPFPAGRLDKDTVGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V + ++ + L+ G+ I+G Y ++T S + Sbjct: 120 HRLLSPKKHVPKTYEVHLRSGLSEEDIANLESGVFIEG-GYKTKPAKVETIANSEEHTEI 178 Query: 192 GL--REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L EGK ++K++ + +V L R+S G L +L G RE++++ L Sbjct: 179 RLTITEGKYHQVKQMAKAVENEVIFLKRLSMGSLLLDPSLEPGEYRELTEEEL 231 >gi|212710610|ref|ZP_03318738.1| hypothetical protein PROVALCAL_01676 [Providencia alcalifaciens DSM 30120] gi|212686691|gb|EEB46219.1| hypothetical protein PROVALCAL_01676 [Providencia alcalifaciens DSM 30120] Length = 292 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 67/247 (27%), Positives = 128/247 (51%), Gaps = 15/247 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V + D ++V+G + R Sbjct: 8 RLNKYISESGICSRREADRYIEQGHVFING---KRAGIGDQVSAGDVVKVNGQLIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T ++ + + D + + +R+ +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVST-TESGEKDNIVDYV-NHSTRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + + G+ I G M +K + Sbjct: 123 VNKILRAGNDHEKEYIVTVNKPVTDEFIRGMGAGVPI----LGTMTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R+ +L + G R+++ L E +L+ Sbjct: 179 ITLVQGLNRQIRRMTEHFGYEVTKLERVRIMNVRLTGIPVGEWRDLTDDELIELF--NLI 236 Query: 251 EEAQVNL 257 E+++ ++ Sbjct: 237 EKSESDV 243 >gi|165870573|ref|ZP_02215227.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0488] gi|167639629|ref|ZP_02397899.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0193] gi|170687035|ref|ZP_02878254.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0465] gi|170706712|ref|ZP_02897171.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0389] gi|177649814|ref|ZP_02932816.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0174] gi|190565285|ref|ZP_03018205.1| RNA pseudouridine synthase family protein [Bacillus anthracis Tsiankovskii-I] gi|196033723|ref|ZP_03101134.1| RNA pseudouridine synthase family protein [Bacillus cereus W] gi|196039867|ref|ZP_03107170.1| RNA pseudouridine synthase family protein [Bacillus cereus NVH0597-99] gi|196043149|ref|ZP_03110387.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB108] gi|218903519|ref|YP_002451353.1| RNA pseudouridine synthase family protein [Bacillus cereus AH820] gi|225864348|ref|YP_002749726.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB102] gi|227814804|ref|YP_002814813.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. CDC 684] gi|229604604|ref|YP_002866722.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0248] gi|254684963|ref|ZP_05148823.1| ribosomal large subunit pseudouridine synthase F [Bacillus anthracis str. CNEVA-9066] gi|254722369|ref|ZP_05184157.1| ribosomal large subunit pseudouridine synthase F [Bacillus anthracis str. A1055] gi|254737410|ref|ZP_05195114.1| ribosomal large subunit pseudouridine synthase F [Bacillus anthracis str. Western North America USA6153] gi|254751725|ref|ZP_05203762.1| ribosomal large subunit pseudouridine synthase F [Bacillus anthracis str. Vollum] gi|254760244|ref|ZP_05212268.1| ribosomal large subunit pseudouridine synthase F [Bacillus anthracis str. Australia 94] gi|301053904|ref|YP_003792115.1| pseudouridylate synthase [Bacillus anthracis CI] gi|164713728|gb|EDR19251.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0488] gi|167512338|gb|EDR87714.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0193] gi|170128443|gb|EDS97311.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0389] gi|170669086|gb|EDT19830.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0465] gi|172084888|gb|EDT69946.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0174] gi|190563312|gb|EDV17277.1| RNA pseudouridine synthase family protein [Bacillus anthracis Tsiankovskii-I] gi|195993403|gb|EDX57360.1| RNA pseudouridine synthase family protein [Bacillus cereus W] gi|196025458|gb|EDX64127.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB108] gi|196029126|gb|EDX67730.1| RNA pseudouridine synthase family protein [Bacillus cereus NVH0597-99] gi|218536034|gb|ACK88432.1| RNA pseudouridine synthase family protein [Bacillus cereus AH820] gi|225790118|gb|ACO30335.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB102] gi|227006328|gb|ACP16071.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. CDC 684] gi|229269012|gb|ACQ50649.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0248] gi|300376073|gb|ADK04977.1| pseudouridylate synthase [Bacillus cereus biovar anthracis str. CI] Length = 235 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 2 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 61 YIALNKPVGITCT-SEKSVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 119 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIILT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 175 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 219 >gi|89107981|ref|AP_001761.1| 23S rRNA pseudouridine synthase [Escherichia coli str. K-12 substr. W3110] gi|157158295|ref|YP_001462404.1| 23S rRNA pseudouridine synthase E [Escherichia coli E24377A] gi|162135898|ref|NP_415653.4| 23S rRNA U2457 pseudouridine synthase [Escherichia coli str. K-12 substr. MG1655] gi|170020472|ref|YP_001725426.1| 23S rRNA pseudouridine synthase E [Escherichia coli ATCC 8739] gi|170080786|ref|YP_001730106.1| 23S rRNA pseudouridine synthase [Escherichia coli str. K-12 substr. DH10B] gi|209918392|ref|YP_002292476.1| 23S rRNA pseudouridine synthase E [Escherichia coli SE11] gi|218553713|ref|YP_002386626.1| 23S rRNA pseudouridine synthase E [Escherichia coli IAI1] gi|218694669|ref|YP_002402336.1| 23S rRNA pseudouridine synthase E [Escherichia coli 55989] gi|238900389|ref|YP_002926185.1| 23S rRNA pseudouridine synthase [Escherichia coli BW2952] gi|260843451|ref|YP_003221229.1| 23S rRNA pseudouridine synthase [Escherichia coli O103:H2 str. 12009] gi|260854817|ref|YP_003228708.1| 23S rRNA pseudouridine synthase [Escherichia coli O26:H11 str. 11368] gi|260867564|ref|YP_003233966.1| 23S rRNA pseudouridine synthase [Escherichia coli O111:H- str. 11128] gi|293414426|ref|ZP_06657075.1| 23S rRNA pseudouridine synthase E [Escherichia coli B185] gi|293433423|ref|ZP_06661851.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli B088] gi|300816838|ref|ZP_07097058.1| conserved hypothetical protein [Escherichia coli MS 107-1] gi|300821081|ref|ZP_07101230.1| conserved hypothetical protein [Escherichia coli MS 119-7] gi|300906946|ref|ZP_07124618.1| hypothetical protein HMPREF9536_04903 [Escherichia coli MS 84-1] gi|300917908|ref|ZP_07134541.1| conserved hypothetical protein [Escherichia coli MS 115-1] gi|300922665|ref|ZP_07138762.1| hypothetical protein HMPREF9548_00907 [Escherichia coli MS 182-1] gi|301306079|ref|ZP_07212157.1| hypothetical protein HMPREF9347_04696 [Escherichia coli MS 124-1] gi|301644553|ref|ZP_07244546.1| conserved hypothetical protein [Escherichia coli MS 146-1] gi|307137770|ref|ZP_07497126.1| 23S rRNA pseudouridine synthase E [Escherichia coli H736] gi|307310088|ref|ZP_07589738.1| pseudouridine synthase [Escherichia coli W] gi|309796518|ref|ZP_07690925.1| conserved hypothetical protein [Escherichia coli MS 145-7] gi|331641679|ref|ZP_08342814.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli H736] gi|331676928|ref|ZP_08377624.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli H591] gi|331682641|ref|ZP_08383260.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli H299] gi|332279677|ref|ZP_08392090.1| 23S rRNA pseudouridine synthase [Shigella sp. D9] gi|3916025|sp|P75966|RLUE_ECOLI RecName: Full=Ribosomal large subunit pseudouridine synthase E; AltName: Full=rRNA pseudouridylate synthase E; AltName: Full=rRNA-uridine isomerase E gi|145580080|pdb|2OLW|A Chain A, Crystal Structure Of E. Coli Pseudouridine Synthase Rlue gi|145580081|pdb|2OLW|B Chain B, Crystal Structure Of E. Coli Pseudouridine Synthase Rlue gi|4062699|dbj|BAA35957.1| 23S rRNA pseudouridine synthase [Escherichia coli str. K12 substr. W3110] gi|87081838|gb|AAC74219.2| 23S rRNA U2457 pseudouridine synthase [Escherichia coli str. K-12 substr. MG1655] gi|157080325|gb|ABV20033.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli E24377A] gi|169755400|gb|ACA78099.1| pseudouridine synthase [Escherichia coli ATCC 8739] gi|169888621|gb|ACB02328.1| 23S rRNA pseudouridine synthase [Escherichia coli str. K-12 substr. DH10B] gi|209911651|dbj|BAG76725.1| conserved hypothetical protein [Escherichia coli SE11] gi|218351401|emb|CAU97107.1| 23S rRNA pseudouridine synthase [Escherichia coli 55989] gi|218360481|emb|CAQ98035.1| 23S rRNA pseudouridine synthase [Escherichia coli IAI1] gi|238859757|gb|ACR61755.1| 23S rRNA pseudouridine synthase [Escherichia coli BW2952] gi|257753466|dbj|BAI24968.1| 23S rRNA pseudouridine synthase [Escherichia coli O26:H11 str. 11368] gi|257758598|dbj|BAI30095.1| 23S rRNA pseudouridine synthase [Escherichia coli O103:H2 str. 12009] gi|257763920|dbj|BAI35415.1| 23S rRNA pseudouridine synthase [Escherichia coli O111:H- str. 11128] gi|260449726|gb|ACX40148.1| pseudouridine synthase [Escherichia coli DH1] gi|291324242|gb|EFE63664.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli B088] gi|291434484|gb|EFF07457.1| 23S rRNA pseudouridine synthase E [Escherichia coli B185] gi|300401293|gb|EFJ84831.1| hypothetical protein HMPREF9536_04903 [Escherichia coli MS 84-1] gi|300414898|gb|EFJ98208.1| conserved hypothetical protein [Escherichia coli MS 115-1] gi|300421014|gb|EFK04325.1| hypothetical protein HMPREF9548_00907 [Escherichia coli MS 182-1] gi|300526380|gb|EFK47449.1| conserved hypothetical protein [Escherichia coli MS 119-7] gi|300530612|gb|EFK51674.1| conserved hypothetical protein [Escherichia coli MS 107-1] gi|300838651|gb|EFK66411.1| hypothetical protein HMPREF9347_04696 [Escherichia coli MS 124-1] gi|301077135|gb|EFK91941.1| conserved hypothetical protein [Escherichia coli MS 146-1] gi|306909806|gb|EFN40300.1| pseudouridine synthase [Escherichia coli W] gi|308119830|gb|EFO57092.1| conserved hypothetical protein [Escherichia coli MS 145-7] gi|309701459|emb|CBJ00763.1| ribosomal large subunit pseudouridine synthase E (rRNA pseudouridylate synthase E) [Escherichia coli ETEC H10407] gi|315060412|gb|ADT74739.1| 23S rRNA pseudouridine synthase [Escherichia coli W] gi|315135767|dbj|BAJ42926.1| 23S rRNA pseudouridine synthase [Escherichia coli DH1] gi|315254891|gb|EFU34859.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli MS 85-1] gi|323379028|gb|ADX51296.1| pseudouridine synthase [Escherichia coli KO11] gi|323937875|gb|EGB34139.1| RNA pseudouridylate synthase [Escherichia coli E1520] gi|323942605|gb|EGB38772.1| RNA pseudouridylate synthase [Escherichia coli E482] gi|323947561|gb|EGB43565.1| RNA pseudouridylate synthase [Escherichia coli H120] gi|324017531|gb|EGB86750.1| hypothetical protein HMPREF9542_03832 [Escherichia coli MS 117-3] gi|324117294|gb|EGC11201.1| RNA pseudouridylate synthase [Escherichia coli E1167] gi|331038477|gb|EGI10697.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli H736] gi|331075617|gb|EGI46915.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli H591] gi|331080272|gb|EGI51451.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli H299] gi|332102029|gb|EGJ05375.1| 23S rRNA pseudouridine synthase [Shigella sp. D9] Length = 217 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 54/180 (30%), Positives = 90/180 (50%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G D L Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPP 156 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G REV+ Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREVT 216 >gi|296502925|ref|YP_003664625.1| tRNA pseudouridine synthase A [Bacillus thuringiensis BMB171] gi|296323977|gb|ADH06905.1| tRNA pseudouridine synthase A [Bacillus thuringiensis BMB171] gi|326940067|gb|AEA15963.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar chinensis CT-43] Length = 235 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 66/225 (29%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 2 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 61 YIALNKPVGITCT-SEKAVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G +VT + S + L Sbjct: 119 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVT----QLSKYEFQIILT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 175 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 219 >gi|183599733|ref|ZP_02961226.1| hypothetical protein PROSTU_03236 [Providencia stuartii ATCC 25827] gi|188021992|gb|EDU60032.1| hypothetical protein PROSTU_03236 [Providencia stuartii ATCC 25827] Length = 291 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 118/227 (51%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +RAA+ V S D ++V+G + R Sbjct: 8 RLNKYISESGICSRRDADRYIEQGNVFING---KRAAIGDQVFSGDVVKVNGQLIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T ++ R + D + + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVST-TESGERDNIVDYV-NHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + Y V + + D + + G+ I G + +K + Sbjct: 123 VNKILRAGNEHEKEYLVTVNKPITDDFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R+ L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEYFGFEVTKLERVRIMNVNLSGIPLGEWRDLT 225 >gi|331662548|ref|ZP_08363471.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli TA143] gi|331060970|gb|EGI32934.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli TA143] Length = 217 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 53/180 (29%), Positives = 90/180 (50%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G+ D L Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGVELVDEPAWLWPRNPP 156 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREAT 216 >gi|228900980|ref|ZP_04065193.1| Pseudouridine synthase [Bacillus thuringiensis IBL 4222] gi|228908132|ref|ZP_04071980.1| Pseudouridine synthase [Bacillus thuringiensis IBL 200] gi|229190444|ref|ZP_04317444.1| Pseudouridine synthase [Bacillus cereus ATCC 10876] gi|228593057|gb|EEK50876.1| Pseudouridine synthase [Bacillus cereus ATCC 10876] gi|228851550|gb|EEM96356.1| Pseudouridine synthase [Bacillus thuringiensis IBL 200] gi|228858678|gb|EEN03125.1| Pseudouridine synthase [Bacillus thuringiensis IBL 4222] Length = 238 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 222 >gi|206971481|ref|ZP_03232431.1| RNA pseudouridine synthase family protein [Bacillus cereus AH1134] gi|229178726|ref|ZP_04306090.1| Pseudouridine synthase [Bacillus cereus 172560W] gi|206733466|gb|EDZ50638.1| RNA pseudouridine synthase family protein [Bacillus cereus AH1134] gi|228604884|gb|EEK62341.1| Pseudouridine synthase [Bacillus cereus 172560W] Length = 235 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 2 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 61 YIALNKPVGITCT-SEKSVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 119 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFQIILT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 175 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 219 >gi|170660219|ref|YP_001740062.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. tomato str. DC3000] gi|170652969|gb|ACB22025.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. tomato str. DC3000] gi|331014769|gb|EGH94825.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. lachrymans str. M302278PT] Length = 210 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 54/183 (29%), Positives = 93/183 (50%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP ++T SD +GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 KLILFNKPFDVLTQFSDEEGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ ++L L+ G+ + G LD Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPTPEQLQQLRNGVQLNDGPTLPAEARQLDEPQLWPRNPP 147 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + ++EG+NR+++++ RL+R+ G + L L G REV+ Sbjct: 148 VRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYREVA 207 Query: 238 KKI 240 K+ Sbjct: 208 AKL 210 >gi|146319594|ref|YP_001199306.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis 05ZYH33] gi|145690400|gb|ABP90906.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Streptococcus suis 05ZYH33] Length = 233 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 61/191 (31%), Positives = 95/191 (49%), Gaps = 7/191 (3%) Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLD 115 D I V G L E +L +KP G+++ D D TV D L + + V VGRLD Sbjct: 37 DQIAVAGQVLSH-ETFVYYLLNKPKGVISATED-DHHRTVLDLLDNTARQKEVFPVGRLD 94 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 I+T GLLLLTN G LA + P ++YR + G + Q+ + GI ++ Sbjct: 95 IDTHGLLLLTNKGQLAHAMLSPKKHVDKLYRAQVDGIMTQEDVERFAAGIELKDFTCQPA 154 Query: 176 QVTL--DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GS 232 Q+T+ + + V + +REGK +IK++ + V L R++ GP +L LA G Sbjct: 155 QLTILSTDEAKQTSLVDITIREGKFHQIKRMVQACGKTVTDLQRLTMGPLRLDPKLALGE 214 Query: 233 TREVSKKILRE 243 R ++ L++ Sbjct: 215 YRRLTAAELKQ 225 >gi|324326400|gb|ADY21660.1| RNA pseudouridine synthase family protein [Bacillus thuringiensis serovar finitimus YBT-020] Length = 235 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 2 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 61 YIALNKPVGITCT-SEKSVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 119 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIILT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 175 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 219 >gi|315633718|ref|ZP_07889008.1| ribosomal small subunit pseudouridine synthase A [Aggregatibacter segnis ATCC 33393] gi|315477760|gb|EFU68502.1| ribosomal small subunit pseudouridine synthase A [Aggregatibacter segnis ATCC 33393] Length = 234 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 57/208 (27%), Positives = 96/208 (46%), Gaps = 4/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A +R + +++ Q V +NG + + A V D I DG L E + Sbjct: 2 RLDKFLAETTGLTRSQAAKVLRQSAVTINGKIEKSGAAKVSPDDEIYYDGERLTWVENGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-SVGRLDINTEGLLLLTNDGGLARV 133 + HKP G + +H D D T++ S + S GRLD++T GL+LLT+DG + Sbjct: 62 YIMLHKPQGYICSHEDGD-HPTIYQFFDYPLSTCLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y V V+ + +GI+++G L+ N V + + Sbjct: 121 ITSPKHHYPKTYLVTLADPVEANYAQACAEGILLRGEKEPTKPAELEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 EG+ ++K++F KV L R G Sbjct: 179 SEGRYHQVKRMFAALGNKVVGLHRWKIG 206 >gi|206973507|ref|ZP_03234425.1| RNA pseudouridine synthase family protein [Bacillus cereus H3081.97] gi|217959884|ref|YP_002338440.1| RNA pseudouridine synthase family protein [Bacillus cereus AH187] gi|206747663|gb|EDZ59052.1| RNA pseudouridine synthase family protein [Bacillus cereus H3081.97] gi|217067986|gb|ACJ82236.1| RNA pseudouridine synthase family protein [Bacillus cereus AH187] Length = 235 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 2 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 61 YIALNKPVGITCT-SEKSVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 119 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIILT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 175 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 219 >gi|187934882|ref|YP_001884642.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum B str. Eklund 17B] gi|187723035|gb|ACD24256.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum B str. Eklund 17B] Length = 238 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 71/236 (30%), Positives = 122/236 (51%), Gaps = 13/236 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAER 72 +R+ K+I+ G SR+E + + + ++V+G +++ ++V + I +++G + + Sbjct: 2 ERLDKIISNLGYGSRKEAKVLARKGLIEVDGKIIKDSSVTIDPEKSIVKINGEEIFYRKY 61 Query: 73 TRLWLYHKPIGLVT-THSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDG 128 L + +KP G+++ TH D TV D L IF+ VGRLD +T GLLLLTNDG Sbjct: 62 IYLMM-NKPTGVISATHDSKD--ETVIDLLELDHQIFNP-FPVGRLDKDTVGLLLLTNDG 117 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--N 186 + P +VY + +V++ KKG+V+ Y ++ LD S Sbjct: 118 EFNHRMISPKWHVDKVYYAKIDKEVNEKDQQAFKKGVVLDD-GYKCLEAKLDIISASPEG 176 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + V + ++EGK ++K++FE + KV L R +G L L G RE+S + L Sbjct: 177 SEVRITIQEGKYHQVKRMFEACDKKVVYLKREEFGGLILDENLEEGEYRELSDEEL 232 >gi|156934379|ref|YP_001438295.1| hypothetical protein ESA_02210 [Cronobacter sakazakii ATCC BAA-894] gi|156532633|gb|ABU77459.1| hypothetical protein ESA_02210 [Cronobacter sakazakii ATCC BAA-894] Length = 218 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 53/181 (29%), Positives = 92/181 (50%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL L++KP ++ +D GR T+ D +P + V + GRLD ++EGLL+LTNDG L Sbjct: 40 RLILFNKPYDVLPQFTDEAGRQTLKDFIP--VAGVYAAGRLDRDSEGLLVLTNDGALQAK 97 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------- 179 L P + ++Y V+ G+ + L L+ G+ + G+ + L Sbjct: 98 LTQPGKRTGKIYFVQVEGEPTEAALAQLRSGVTLNDGPTLPAGVERVEEPAWLWPRNPPI 157 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ + L EG+NR+++++ + RLIR + G + L +L G R+V Sbjct: 158 RERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDSLACGQWRDVPL 217 Query: 239 K 239 K Sbjct: 218 K 218 >gi|237728101|ref|ZP_04558582.1| 23S rRNA pseudouridine synthase F [Citrobacter sp. 30_2] gi|226910112|gb|EEH96030.1| 23S rRNA pseudouridine synthase F [Citrobacter sp. 30_2] Length = 291 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 68/227 (29%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + VM D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRFIEQGNVFLNG---KRATIGDQVMPGDVVKVNGRLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVFIALNKPVGIVSTTEDSE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V D + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDDFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L L G R+++ Sbjct: 179 ITLIQGLNRQIRRMCEHFGYEVTKLERTRIMNVGLSGLPLGEWRDLT 225 >gi|110805163|ref|YP_688683.1| 23S rRNA pseudouridine synthase E [Shigella flexneri 5 str. 8401] gi|34098457|sp|Q83LF6|RLUE_SHIFL RecName: Full=Ribosomal large subunit pseudouridine synthase E; AltName: Full=rRNA pseudouridylate synthase E; AltName: Full=rRNA-uridine isomerase E gi|110614711|gb|ABF03378.1| conserved hypothetical protein [Shigella flexneri 5 str. 8401] gi|281600568|gb|ADA73552.1| Ribosomal large subunit pseudouridine synthase E [Shigella flexneri 2002017] Length = 217 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 54/180 (30%), Positives = 90/180 (50%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDETGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G D L Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPP 156 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G REV+ Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREVT 216 >gi|167551196|ref|ZP_02344951.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|168466080|ref|ZP_02699950.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|205353355|ref|YP_002227156.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|207857656|ref|YP_002244307.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|195631355|gb|EDX49915.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|205273136|emb|CAR38093.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205324100|gb|EDZ11939.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|206709459|emb|CAR33800.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|326628444|gb|EGE34787.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Gallinarum str. 9] Length = 231 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 106/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D + KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTVAQFAKGVQLHN--EKDLTKPATLEVITPVQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F +V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEE 225 >gi|282856276|ref|ZP_06265557.1| RNA pseudouridine synthase family protein [Pyramidobacter piscolens W5455] gi|282585853|gb|EFB91140.1| RNA pseudouridine synthase family protein [Pyramidobacter piscolens W5455] Length = 239 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 71/238 (29%), Positives = 111/238 (46%), Gaps = 26/238 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A G+ SRRE + I++ V VNG+ AV V D IE++ V R Sbjct: 2 RLSKRMAELGLCSRREADEYISRGLVSVNGV----PAVLGQKVTERDRIEMNRVAERDQS 57 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVF----------DNLPSIFS-----RVISVGRLDI 116 R L HKP+G V+ ++ R D P F ++ GRLD+ Sbjct: 58 RRVTILLHKPLGYVSGQAEDGYRPARVLIRPENCWSGDKSPLRFDLRQLQNLVPAGRLDV 117 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 N+ GLL+LT DG +AR L + + Y VR G + + L LL G+ + G+ Sbjct: 118 NSTGLLVLTQDGRVARRLVGEDSAVEKEYLVRVAGSLSERGLALLNHGLSLD----GEEL 173 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + ++ + L++GK R+I+++ +V L R+ G +LG L G R Sbjct: 174 LPARVRWQNDDQLRFVLQQGKKRQIRRMCALVGLEVLALKRVRVGSVRLGALPPGQWR 231 >gi|224536211|ref|ZP_03676750.1| hypothetical protein BACCELL_01078 [Bacteroides cellulosilyticus DSM 14838] gi|224522154|gb|EEF91259.1| hypothetical protein BACCELL_01078 [Bacteroides cellulosilyticus DSM 14838] Length = 208 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 62/201 (30%), Positives = 98/201 (48%), Gaps = 7/201 (3%) Query: 42 VNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL 101 VNG+++ + D ++ + ER L +KP VTT DP R TV D + Sbjct: 1 VNGVVVTELGTKIKRADEVKFHD-QMVSIERKIYILLNKPKDTVTTSDDPQARRTVMDLV 59 Query: 102 P-SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 + R+ VGRLD NT G+LLLTNDG LA L P ++Y V V + ++ Sbjct: 60 KGACDERIYPVGRLDRNTTGVLLLTNDGDLASKLTHPKFLKKKIYHVHTDKNVTKADMDQ 119 Query: 161 LKKGIVI-QGICYGD-MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 + GI + G + D + T D ++ V + + GKNR ++++FE +KV +L R+ Sbjct: 120 IAAGIQLDDGEIHADAISYTDDVRRDE---VGIEIHSGKNRIVRRIFESLGYKVVKLDRV 176 Query: 219 SYGPFQLGTLLAGSTREVSKK 239 + L G R +S++ Sbjct: 177 FFAGLTKKGLRRGEWRYLSEQ 197 >gi|213966827|ref|ZP_03394978.1| Pseudouridine synthase, Rsu [Pseudomonas syringae pv. tomato T1] gi|301381958|ref|ZP_07230376.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. tomato Max13] gi|302058781|ref|ZP_07250322.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. tomato K40] gi|213928677|gb|EEB62221.1| Pseudouridine synthase, Rsu [Pseudomonas syringae pv. tomato T1] Length = 210 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 54/183 (29%), Positives = 93/183 (50%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP ++T SD +GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 KLILFNKPFDVLTQFSDEEGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK------- 183 + P + + Y V+ G+ ++L L+ G+ + G LD + Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPTPEQLQQLRNGVQLNDGPTLPAEARQLDEPQLWPRNPP 147 Query: 184 ------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + ++EG+NR+++++ RL+R+ G + L L G REV+ Sbjct: 148 VRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYREVA 207 Query: 238 KKI 240 K+ Sbjct: 208 AKL 210 >gi|228921081|ref|ZP_04084416.1| Pseudouridine synthase [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228838627|gb|EEM83933.1| Pseudouridine synthase [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] Length = 238 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 222 >gi|89902309|ref|YP_524780.1| RNA-binding S4 [Rhodoferax ferrireducens T118] gi|89347046|gb|ABD71249.1| RNA-binding S4 [Rhodoferax ferrireducens T118] Length = 304 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 80/267 (29%), Positives = 116/267 (43%), Gaps = 50/267 (18%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ASRRE + IA+ VKVNG++ + V+ IE+D + + Sbjct: 39 RLNKRMAELGLASRREADDWIAKGWVKVNGVV-ATMGMQVLPDVRIEIDKQAQGQQAKQV 97 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNL-----PSIFSRVISVGRLDINT 118 L HKPIGLV+ ++ DG DN PS ++ GRLDI++ Sbjct: 98 TVLVHKPIGLVSGQAE-DGHLPAITLVQPQNRWAQDNARFFFHPSQLKSLVPAGRLDIDS 156 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------------------- 155 GLL+LT DG +AR L + Y VR DQ Sbjct: 157 TGLLVLTQDGRVARQLIGEDAVMEKEYLVRVVYNADQGAATSTGQLSRIDDDDPVSTDVQ 216 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 +KL LL+ G+ + G +V D Q + L EGK R+I+++ E Sbjct: 217 SVFPREKLALLRHGLSLDGQALQPAKV--DWQNPEQ--LRFILTEGKKRQIRRMCELVGL 272 Query: 211 KVNRLIRISYGPFQLGTLLAGSTREVS 237 KV L R+ G LG L G R ++ Sbjct: 273 KVVGLKRVRIGKVMLGNLPLGQWRYLA 299 >gi|24112554|ref|NP_707064.1| 23S rRNA pseudouridine synthase E [Shigella flexneri 2a str. 301] gi|30062682|ref|NP_836853.1| 23S rRNA pseudouridine synthase E [Shigella flexneri 2a str. 2457T] gi|24051449|gb|AAN42771.1| orf, conserved hypothetical protein [Shigella flexneri 2a str. 301] gi|30040930|gb|AAP16660.1| hypothetical protein S1237 [Shigella flexneri 2a str. 2457T] Length = 207 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 54/180 (30%), Positives = 90/180 (50%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 29 TRVILFNKPYDVLPQFTDETGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 86 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G D L Sbjct: 87 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPP 146 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G REV+ Sbjct: 147 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREVT 206 >gi|37679122|ref|NP_933731.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio vulnificus YJ016] gi|37197864|dbj|BAC93702.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio vulnificus YJ016] Length = 347 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 59/206 (28%), Positives = 99/206 (48%), Gaps = 9/206 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +++I Q RV +NG E V+ D + VDG P+ E+ Sbjct: 7 KRLNKYISETGFCSRREADKLIEQGRVTINGKQPE-MGTKVLPGDDVCVDGKPVAAKEKP 65 Query: 74 RLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+ TT + G F R+ +GRLD ++GL+ LTNDG + Sbjct: 66 VYIALNKPTGITCTTERNIPGNIVDFIGHKK---RIFPIGRLDKPSDGLIFLTNDGDIVN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y VR + + + + G+ I +VT +T+ +T G Sbjct: 123 KILRAGNHHEKEYVVRVDKPITPEFIKAMSSGVNILDTVTLPCKVTQETKFSFRIVLTQG 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRI 218 L NR+I+++ E ++V +L R+ Sbjct: 183 L----NRQIRRMCEALGYEVFKLRRV 204 >gi|300938707|ref|ZP_07153431.1| conserved hypothetical protein [Escherichia coli MS 21-1] gi|300456352|gb|EFK19845.1| conserved hypothetical protein [Escherichia coli MS 21-1] Length = 212 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 56/187 (29%), Positives = 93/187 (49%), Gaps = 19/187 (10%) Query: 68 RKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 RK E TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LT Sbjct: 27 RKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLT 84 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVT 178 N+G L L P + ++Y V+ G QD L L+ G+ + G+ D Sbjct: 85 NNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGVELVDEPAW 144 Query: 179 L--------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 L + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 145 LWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLAN 204 Query: 231 GSTREVS 237 G RE + Sbjct: 205 GEWREAT 211 >gi|218704609|ref|YP_002412128.1| 23S rRNA pseudouridine synthase E [Escherichia coli UMN026] gi|293404491|ref|ZP_06648485.1| 23S rRNA pseudouridine synthase E [Escherichia coli FVEC1412] gi|298380266|ref|ZP_06989871.1| 23S rRNA pseudouridine synthase E [Escherichia coli FVEC1302] gi|300896836|ref|ZP_07115331.1| conserved hypothetical protein [Escherichia coli MS 198-1] gi|218431706|emb|CAR12588.1| 23S rRNA pseudouridine synthase [Escherichia coli UMN026] gi|291429077|gb|EFF02102.1| 23S rRNA pseudouridine synthase E [Escherichia coli FVEC1412] gi|298279964|gb|EFI21472.1| 23S rRNA pseudouridine synthase E [Escherichia coli FVEC1302] gi|300359318|gb|EFJ75188.1| conserved hypothetical protein [Escherichia coli MS 198-1] Length = 217 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 53/180 (29%), Positives = 90/180 (50%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G+ D L Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGVELVDEPAWLWPRNPP 156 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREAT 216 >gi|218231829|ref|YP_002367069.1| RNA pseudouridine synthase family protein [Bacillus cereus B4264] gi|218159786|gb|ACK59778.1| RNA pseudouridine synthase family protein [Bacillus cereus B4264] Length = 235 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 2 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 61 YIALNKPVGITCT-SEKSVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 119 LRAENKHEKEYIVSVDKPITPDFLEKMATGVKILGTKTLPCEIT----QLSKYEFQIILT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 175 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 219 >gi|110802829|ref|YP_698310.1| ribosomal large subunit pseudouridine synthase f [Clostridium perfringens SM101] gi|110683330|gb|ABG86700.1| RNA pseudouridine synthase family protein [Clostridium perfringens SM101] Length = 228 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 67/228 (29%), Positives = 120/228 (52%), Gaps = 14/228 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGI-LLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+ + GI SR+E ++I + RV VNG +E V + +D I +DG PL E+ Sbjct: 2 RINKLFSNFGICSRKETNKIIREGRVIVNGKPCIEGQWVEL--SDEILLDGKPLVPKEKI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP+G+V T ++ + + + D L I V +GRLD +++GL++LTNDG LA Sbjct: 60 YIAL-NKPVGVVCTAAE-EVKDNIIDYL-GIDDYVFPIGRLDKDSQGLIILTNDGDLANE 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGSNAWVTV 191 + + Y V D + +++G+ I G QVT ++ + ++ Sbjct: 117 VLAAENNHEKEYIVTLDQPFYDDFIEKMEQGVEILG------QVTKPCKLKRINENTYSI 170 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L +G NR+I+++ + F + V +L RI + + G R +++K Sbjct: 171 ILTQGLNRQIRRMSKVFGFNVVKLERIRILNITIDNIEYGKWRYINRK 218 >gi|51892665|ref|YP_075356.1| ribosomal small subunit pseudouridine synthase A [Symbiobacterium thermophilum IAM 14863] gi|51856354|dbj|BAD40512.1| ribosomal small subunit pseudouridine synthase A [Symbiobacterium thermophilum IAM 14863] Length = 251 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 76/226 (33%), Positives = 111/226 (49%), Gaps = 8/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++ G SR+E+ ++ RV V+G + V T + VDG P+R +R Sbjct: 2 RLDRLLGHMGFGSRKELRALLKAGRVTVDGRPVTDPGTLVDPGTSSVAVDGEPVR-FQRH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 L HKP G++T +DP R TV D LP R ++ VGRLD +TEGLLLLT DG LA Sbjct: 61 FHVLLHKPAGVITATADPRQR-TVMDVLPEDLRRRDLVPVGRLDKDTEGLLLLTTDGTLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y R +D G+ + Y + L+ VTV Sbjct: 120 HRLMAPRWHQPKRYLARVDRPLDPADQEAFAAGVPLAD-GYVTLPARLEILSPQEGIVTV 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 REGK +++++F +V L R+S GP LG L G+ R ++ Sbjct: 179 --REGKYHQVRRMFAARGKRVVYLKRLSMGPLSLGDLPPGAARPLT 222 >gi|301024579|ref|ZP_07188251.1| conserved hypothetical protein [Escherichia coli MS 69-1] gi|300396504|gb|EFJ80042.1| conserved hypothetical protein [Escherichia coli MS 69-1] Length = 212 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 53/180 (29%), Positives = 90/180 (50%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 34 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 91 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G+ D L Sbjct: 92 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGSTLPAGVELVDEPAWLWPRNPP 151 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 152 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREAT 211 >gi|330873550|gb|EGH07699.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. morsprunorum str. M302280PT] Length = 210 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 54/183 (29%), Positives = 93/183 (50%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP ++T SD +GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 KLILFNKPFDVLTQFSDEEGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK------- 183 + P + + Y V+ G+ ++L L+ G+ + G LD + Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPTPEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPRNPP 147 Query: 184 ------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + ++EG+NR+++++ RL+R+ G + L L G REV+ Sbjct: 148 VRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYREVA 207 Query: 238 KKI 240 K+ Sbjct: 208 AKL 210 >gi|320157132|ref|YP_004189511.1| ribosomal large subunit pseudouridine synthase F [Vibrio vulnificus MO6-24/O] gi|319932444|gb|ADV87308.1| ribosomal large subunit pseudouridine synthase F [Vibrio vulnificus MO6-24/O] Length = 347 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 59/206 (28%), Positives = 99/206 (48%), Gaps = 9/206 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +++I Q RV +NG E V+ D + VDG P+ E+ Sbjct: 7 KRLNKYISETGFCSRREADKLIEQGRVTINGKQPE-MGTKVLPGDDVCVDGKPVAAKEKP 65 Query: 74 RLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+ TT + G F R+ +GRLD ++GL+ LTNDG + Sbjct: 66 VYIALNKPTGITCTTERNIPGNIVDFIGHKK---RIFPIGRLDKPSDGLIFLTNDGDIVN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y VR + + + + G+ I +VT +T+ +T G Sbjct: 123 KILRAGNHHEKEYVVRVDKPITPEFIKAMSSGVNILDTVTLPCKVTQETKFSFRIVLTQG 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRI 218 L NR+I+++ E ++V +L R+ Sbjct: 183 L----NRQIRRMCEALGYEVFKLRRV 204 >gi|157693404|ref|YP_001487866.1| pseudouridylate synthase [Bacillus pumilus SAFR-032] gi|157682162|gb|ABV63306.1| pseudouridylate synthase [Bacillus pumilus SAFR-032] Length = 238 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 72/232 (31%), Positives = 117/232 (50%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A +G SR++V++++ + V VNG L ++ +V S D + V G + E Sbjct: 2 RLDKLLASSGFGSRKDVKKLVKARAVTVNGELAKQVKDHVDPSNDEVLVHGERVEYKEFI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 L + +KP G+++ D TV D L P +R VGRLD +T GLLLLTNDG LA Sbjct: 62 YLMM-NKPDGVISATEDVRD-ETVVDLLEPEDIAREPFPVGRLDKDTVGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V + +N L++G++I +V +D + + + Sbjct: 120 HQLLSPKKHVPKTYEVHLKYPLGDQDINRLEEGVIILDDYRTKPAKVEVDANESEDTRIR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 + + EGK ++K + + +V L R S G L LA G RE++ + L Sbjct: 180 LTITEGKYHQVKLMAQAVGNEVIFLKRRSMGSLSLDEDLAPGEYRELTDEEL 231 >gi|146311304|ref|YP_001176378.1| ribosomal large subunit pseudouridine synthase E [Enterobacter sp. 638] gi|145318180|gb|ABP60327.1| ribosomal large subunit pseudouridine synthase E [Enterobacter sp. 638] Length = 217 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 52/180 (28%), Positives = 93/180 (51%), Gaps = 17/180 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GRST+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 40 RVILFNKPYDVLPQFTDEAGRSTLKDFIP--VQGVYAAGRLDRDSEGLLVLTNDGALQAS 97 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVT------------ 178 L P + ++Y V+ G+ + L L+ G+ + + G +V+ Sbjct: 98 LTQPGKRTGKIYYVQVEGEPTDETLAALRHGVELNDGPTLPAGVERVSEPEWLWPRNPPI 157 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + AW+ + L EG+NR+++++ + RLIR + G + L +L G R+ ++ Sbjct: 158 RERKSIPTAWLKITLYEGRNRQVRRMTAHVGYPTLRLIRYAMGHYTLDSLANGEWRDATE 217 >gi|312793399|ref|YP_004026322.1| pseudouridine synthase [Caldicellulosiruptor kristjanssonii 177R1B] gi|312877026|ref|ZP_07736999.1| pseudouridine synthase [Caldicellulosiruptor lactoaceticus 6A] gi|311796167|gb|EFR12523.1| pseudouridine synthase [Caldicellulosiruptor lactoaceticus 6A] gi|312180539|gb|ADQ40709.1| pseudouridine synthase [Caldicellulosiruptor kristjanssonii 177R1B] Length = 232 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 67/218 (30%), Positives = 108/218 (49%), Gaps = 16/218 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K + G SR +V+++I + V VNG + + D +EVDG + K R Sbjct: 2 RLDKFLTHCGFGSRSQVKKLIREGIVTVNGKRIVEVDFKINPEEDVVEVDG-RVAKFSRQ 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVF----DNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + +KP G V ++ DP TVF D+L + + +VGRLD + EGLL++T+DG Sbjct: 61 IYIMMNKPKGYVCSNDDP-ASLTVFSLISDDLK--YRDLHTVGRLDKDAEGLLIITDDGE 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNA 187 + P + + Y VR +VD++KL + GI++ D TL + + Sbjct: 118 YTHRVISPKKRIEKEYLVRLEKEVDEEKLKEFENGIILD-----DGYKTLPAKYTIIDST 172 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + + EGK ++K++FE KV L R+ G L Sbjct: 173 TVKLCIYEGKYHQVKRMFEAIGNKVVDLKRLRIGGLNL 210 >gi|319426627|gb|ADV54701.1| pseudouridine synthase [Shewanella putrefaciens 200] Length = 270 Score = 80.5 bits (197), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 50/169 (29%), Positives = 84/169 (49%), Gaps = 16/169 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P + V + GRLD ++EGLLLLTNDG L L Sbjct: 93 LFNKPFDVLCQFTDEQGRKTLKDYIP--IADVYAAGRLDRDSEGLLLLTNDGQLQARLTE 150 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT-------------Q 182 P + + Y V+ G +D L L++G+ + GI +D+ + Sbjct: 151 PKKKTFKTYWVQVEGVPTEDALTKLRQGVELNDGITLPAKVKIMDSPDVWPRNPPVRERK 210 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RLIR G + L L +G Sbjct: 211 NIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDNLPSG 259 >gi|311279960|ref|YP_003942191.1| pseudouridine synthase [Enterobacter cloacae SCF1] gi|308749155|gb|ADO48907.1| pseudouridine synthase [Enterobacter cloacae SCF1] Length = 215 Score = 80.5 bits (197), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 52/178 (29%), Positives = 91/178 (51%), Gaps = 17/178 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GRST+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 40 RVILFNKPYDVLPQFTDEAGRSTLKDYIP--VQGVYAAGRLDRDSEGLLVLTNDGPLQAR 97 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDT--------- 181 L P + ++Y V+ G+ ++ L L+ G+ + + G +V T Sbjct: 98 LTQPGKRTGKIYFVQVEGEPGEEALAALRSGVTLNDGPTLPAGAERVAEPTWLWPRNPPI 157 Query: 182 ---QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + +W+ + L EG+NR+++++ + RLIR + G + L L +G R+ Sbjct: 158 RERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLASGEWRDA 215 >gi|261345329|ref|ZP_05972973.1| ribosomal large subunit pseudouridine synthase F [Providencia rustigianii DSM 4541] gi|282566663|gb|EFB72198.1| ribosomal large subunit pseudouridine synthase F [Providencia rustigianii DSM 4541] Length = 291 Score = 80.5 bits (197), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 69/248 (27%), Positives = 124/248 (50%), Gaps = 17/248 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V + D ++V+G + R Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFING---KRAGIGDQVSAGDIVKVNGQLIEPRDE 64 Query: 71 ERTRLWLYHKPIGLV-TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L +KP+G+V TT S G + N R+ +GRLD +++GL+ LTN G Sbjct: 65 DDLVLIALNKPVGIVSTTESGEKGNIVDYVNHSK---RIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + V + + + G+ I G M +K + Sbjct: 122 LVNKILRAGNDHEKEYVVTVNKPVTDEFIQGMASGVPI----LGTMTKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E F ++V +L R+ +L + G R+++ L E +L Sbjct: 178 RITLVQGLNRQIRRMTEHFGYEVTKLERVRIMNVKLTGIPVGEWRDLTDDELIELF--NL 235 Query: 250 LEEAQVNL 257 +E+++ ++ Sbjct: 236 IEKSESDV 243 >gi|289810128|ref|ZP_06540757.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 256 Score = 80.5 bits (197), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 118/230 (51%), Gaps = 13/230 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + Sbjct: 5 TSTRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDVVKVNGRLIEP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G + +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|224825900|ref|ZP_03699004.1| RNA-binding S4 domain protein [Lutiella nitroferrum 2002] gi|224602124|gb|EEG08303.1| RNA-binding S4 domain protein [Lutiella nitroferrum 2002] Length = 242 Score = 80.5 bits (197), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 74/241 (30%), Positives = 115/241 (47%), Gaps = 24/241 (9%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP-LRK 69 P R+SK +A GI SRRE + I Q VKV+G + V+ HIE+D P +K Sbjct: 1 MEPVRLSKRLAELGICSRREADSYIEQGWVKVDG-QVAVLGFKVLPHQHIELD--PRAKK 57 Query: 70 AERTRL-WLYHKPIGLVTTHSDP---------------DGRSTVFDNLPSIFSRVISVGR 113 A+ R+ L +KP+G V+ ++ +G + P+ + GR Sbjct: 58 AQLERVTILLNKPVGYVSGQAEKGYKPAAMLAVPANHWEGDKSGIRFSPNHLKGLAPAGR 117 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LDI++ GLL+LT DG +A+ L ++ + Y VR G++ + L LL G+ + G Sbjct: 118 LDIDSVGLLVLTQDGVVAKRLIGENSTVEKEYLVRVTGELSPEGLKLLNHGLSLDGQPLR 177 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +V+ + + LREGK R+I+++ E V L R+ G LG L G Sbjct: 178 PAKVSWQNED----QLRFILREGKKRQIRRMCEQVGLYVVGLKRVRIGNVMLGDLPTGQW 233 Query: 234 R 234 R Sbjct: 234 R 234 >gi|205354985|ref|YP_002228786.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205274766|emb|CAR39823.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|326630136|gb|EGE36479.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Gallinarum str. 9] Length = 289 Score = 80.5 bits (197), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 118/230 (51%), Gaps = 13/230 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + Sbjct: 5 TSIRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDVVKVNGRLIEP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G + +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVSI----LGTVTKKCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|193066244|ref|ZP_03047296.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli E22] gi|194429525|ref|ZP_03062046.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli B171] gi|256018609|ref|ZP_05432474.1| 23S rRNA pseudouridine synthase E [Shigella sp. D9] gi|256023167|ref|ZP_05437032.1| 23S rRNA pseudouridine synthase E [Escherichia sp. 4_1_40B] gi|301029556|ref|ZP_07192634.1| conserved hypothetical protein [Escherichia coli MS 196-1] gi|312971272|ref|ZP_07785450.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli 1827-70] gi|192926093|gb|EDV80735.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli E22] gi|194412399|gb|EDX28700.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli B171] gi|299877551|gb|EFI85762.1| conserved hypothetical protein [Escherichia coli MS 196-1] gi|310336474|gb|EFQ01660.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli 1827-70] gi|315616007|gb|EFU96633.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli 3431] gi|323185681|gb|EFZ71042.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli 1357] gi|332089263|gb|EGI94369.1| ribosomal large subunit pseudouridine synthase E [Shigella boydii 5216-82] Length = 207 Score = 80.5 bits (197), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 54/180 (30%), Positives = 90/180 (50%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 29 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 86 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G D L Sbjct: 87 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPP 146 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G REV+ Sbjct: 147 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREVT 206 >gi|307708856|ref|ZP_07645316.1| conserved hypothetical protein [Streptococcus mitis SK564] gi|307620192|gb|EFN99308.1| conserved hypothetical protein [Streptococcus mitis SK564] Length = 241 Score = 80.5 bits (197), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 69/232 (29%), Positives = 117/232 (50%), Gaps = 8/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ + SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKV-SRKAMKQALLKGDILVDGCPARSLAQNIDTGLQELLFQEQIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D + TV D LP ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKE-LPTVMDLLPPDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + YRV +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYRVEVNGLLTLDHIQAFQKGIVFLDGTICKPARLEILSASPSLSQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EGK ++KK+F KV L R +GP+ L L AG R ++ + L Sbjct: 179 ITISEGKFHQVKKMFLSVGVKVTSLKRTHFGPWSLDENLQAGDYRPLNSEEL 230 >gi|74311694|ref|YP_310113.1| 23S rRNA pseudouridine synthase E [Shigella sonnei Ss046] gi|73855171|gb|AAZ87878.1| conserved hypothetical protein [Shigella sonnei Ss046] Length = 207 Score = 80.5 bits (197), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 54/181 (29%), Positives = 90/181 (49%), Gaps = 17/181 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD +TEGLL+LTN+G L Sbjct: 29 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDTEGLLVLTNNGALQA 86 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G D L Sbjct: 87 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPP 146 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 147 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLANGEWREAT 206 Query: 238 K 238 + Sbjct: 207 E 207 >gi|332527071|ref|ZP_08403153.1| RNA-binding S4 domain-containing protein [Rubrivivax benzoatilyticus JA2] gi|332111503|gb|EGJ11486.1| RNA-binding S4 domain-containing protein [Rubrivivax benzoatilyticus JA2] Length = 255 Score = 80.5 bits (197), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 113/246 (45%), Gaps = 30/246 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKAE 71 RVSK+I G+ASRRE + I VKV+G +L +RAA + IE+D + Sbjct: 13 RVSKLITERGLASRREADAWIEAGWVKVDGKMAVLGQRAAADC----RIEIDPRARNEQA 68 Query: 72 RTRLWLYHKPIGLVTTHSD-----------PDGR----STVFDNLPSIFSRVISVGRLDI 116 R L HKP+G V+ ++ P R T P + GRLDI Sbjct: 69 RRVTVLLHKPMGFVSGQAEDGYKPAATLVIPANRWKDDPTRLAFHPGQLRGLAPAGRLDI 128 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH----GQVDQDKLNLLKKGIVIQGICY 172 ++ GLL+LT DG +A+ L T+ + Y VR G++ L L+ G+ + G Sbjct: 129 DSTGLLVLTQDGRIAKTLIGDETKVEKEYLVRVQYTKPGRLPDADLERLRHGLELDGRPL 188 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 +V+ + + LREG+ R+I+++ E KV L R+ G LG L G Sbjct: 189 RPARVSWQNEDQ----LRFVLREGRKRQIRRMCELVGLKVVGLKRVRIGSVSLGQLPPGQ 244 Query: 233 TREVSK 238 R + + Sbjct: 245 WRYLGE 250 >gi|257066980|ref|YP_003153236.1| pseudouridine synthase [Anaerococcus prevotii DSM 20548] gi|256798860|gb|ACV29515.1| pseudouridine synthase [Anaerococcus prevotii DSM 20548] Length = 232 Score = 80.5 bits (197), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 68/229 (29%), Positives = 113/229 (49%), Gaps = 11/229 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K+I +G+ +R+ +++ + + VNG +++ A V D + G + E Sbjct: 1 MRLDKMIGNSGLDTRKNIKKNAKKGAILVNGEVVKDTATQVDPEVDEVYYMGHFVDYFEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV---GRLDINTEGLLLLTNDGG 129 + + +KP G ++ D D TV D L F +VI + GRLD +T GLLLL+ DG Sbjct: 61 IYVMM-NKPAGFLSATEDKD--PTVIDLLDD-FYKVIDLSIAGRLDKDTTGLLLLSTDGK 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + P++ + Y V ++D+ ++L K+G+ I+ Y L+ + A V Sbjct: 117 FIHKVTSPNSNIEKTYLVECRDKIDESLIDLFKEGVYIKEDDYTARSAKLEILEEKKAIV 176 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 V EGK +K++F KV +L RI+ G L LA G RE+S Sbjct: 177 KV--TEGKFHLVKRLFSNCCNKVEKLKRIAIGDLSLDEHLAEGEYRELS 223 >gi|224534191|ref|ZP_03674769.1| hypothetical RNA pseudouridine synthase [Borrelia spielmanii A14S] gi|224514293|gb|EEF84609.1| hypothetical RNA pseudouridine synthase [Borrelia spielmanii A14S] Length = 249 Score = 80.5 bits (197), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 70/227 (30%), Positives = 109/227 (48%), Gaps = 9/227 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 TP R+ +A G+ SRR E +I ++ V+VNG + + + I V L K Sbjct: 6 TP-RIHVFLAEKGVGSRRFCEELIRKKLVRVNGSIAKLGDKVTLGDRIIYKKQVYLFKDF 64 Query: 70 AERTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 + R++L +KP + ++ D +GR + +F RV S+GRLD + GLLL TND Sbjct: 65 QSKDRVYLALNKPKNYLCSNFDANGRKLAISLVQPLFKERVFSIGRLDFKSSGLLLFTND 124 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G A + P + R Y + +D++ L K GI I+ + + K S Sbjct: 125 GKFANDIIHPRLKVEREYIIESKKDIDENLLISFKSGIKIKKEFFKLKSYEI-LNKNSAR 183 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNREI+KVF + + ++ RI G L +L G + Sbjct: 184 LI---LDEGKNREIRKVFLSKSVFLKKIHRIRIGNINLDSLKEGQVK 227 >gi|120598595|ref|YP_963169.1| pseudouridylate synthase [Shewanella sp. W3-18-1] gi|146293327|ref|YP_001183751.1| pseudouridylate synthase [Shewanella putrefaciens CN-32] gi|120558688|gb|ABM24615.1| ribosomal large subunit pseudouridine synthase E [Shewanella sp. W3-18-1] gi|145565017|gb|ABP75952.1| ribosomal large subunit pseudouridine synthase E [Shewanella putrefaciens CN-32] Length = 270 Score = 80.5 bits (197), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 50/169 (29%), Positives = 84/169 (49%), Gaps = 16/169 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P + V + GRLD ++EGLLLLTNDG L L Sbjct: 93 LFNKPFDVLCQFTDEQGRKTLKDYIP--IADVYAAGRLDRDSEGLLLLTNDGQLQARLTE 150 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT-------------Q 182 P + + Y V+ G +D L L++G+ + GI +D+ + Sbjct: 151 PKKKTFKTYWVQVEGVPTEDALTKLRQGVELNDGITLPAKVKIMDSPDIWPRNPPVRERK 210 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RLIR G + L L +G Sbjct: 211 NIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDNLPSG 259 >gi|261496009|ref|ZP_05992419.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. OVINE] gi|261308259|gb|EEY09552.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. OVINE] Length = 227 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 65/201 (32%), Positives = 99/201 (49%), Gaps = 25/201 (12%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLL 123 PL AE T L L +KP ++T +D GR T+ F +P+I+ VGRLD ++EGLLL Sbjct: 28 PLTFAETT-LVLLNKPYDVLTQFTDEQGRKTLKDFITMPNIYP----VGRLDRDSEGLLL 82 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----------VIQGICYG 173 LTN+G + L P + Y V+ G + L L KG+ ++ I Sbjct: 83 LTNNGEIQHRLAHPKFDKQKTYWVQVEGVPQPEDLAKLAKGVELKDGLTKPAKVRAIATP 142 Query: 174 DMQVTLDTQ-----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 D + Q +W+ + + EGKNR+++++ + RLIR+ G F+LG L Sbjct: 143 DFAWHIAPQIRERKTIPTSWIELIISEGKNRQVRRMTAHIGFPTLRLIRVGIGQFRLGNL 202 Query: 229 LAGSTREVS---KKILREQLG 246 G + +S K+ L QLG Sbjct: 203 GCGEFQVLSENEKRKLFTQLG 223 >gi|257486528|ref|ZP_05640569.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. tabaci ATCC 11528] gi|331010014|gb|EGH90070.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. tabaci ATCC 11528] Length = 230 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 64/219 (29%), Positives = 100/219 (45%), Gaps = 8/219 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R+ V +A RV+V+G V + +DG L+ + R Sbjct: 2 RLDRFLSNLPSLNRKSVRLALASGRVQVDGQTTSDPHHEVREFSRVALDGEILQAGKAAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ D TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPEGCVSATVDTQ-HPTVLDLLDEPDRHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ G+ + I Q+TL + + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAATFAAGMYFSFENITTQPAQLTLLGPHSARLTIV- 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EG+ ++K++F FN KV RL R + G L LA Sbjct: 180 ---EGRYHQVKRMFGHFNNKVLRLHRENIGALALDPALA 215 >gi|213424484|ref|ZP_03357281.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. E02-1180] Length = 267 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 118/230 (51%), Gaps = 13/230 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + Sbjct: 5 TSTRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDVVKVNGRLIEP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G + +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|302135159|ref|ZP_07261149.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. tomato NCPPB 1108] Length = 222 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 54/183 (29%), Positives = 93/183 (50%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP ++T SD +GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 44 KLILFNKPFDVLTQFSDEEGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 99 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ ++L L+ G+ + G LD Sbjct: 100 ARIADPKHKLAKTYWVQVEGEPTPEQLQQLRNGVQLNDGPTLPAEARQLDEPQLWPRNPP 159 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + ++EG+NR+++++ RL+R+ G + L L G REV+ Sbjct: 160 VRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYREVA 219 Query: 238 KKI 240 K+ Sbjct: 220 AKL 222 >gi|126663357|ref|ZP_01734355.1| ribosomal large subunit pseudouridine synthase F [Flavobacteria bacterium BAL38] gi|126625015|gb|EAZ95705.1| ribosomal large subunit pseudouridine synthase F [Flavobacteria bacterium BAL38] Length = 262 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 60/214 (28%), Positives = 110/214 (51%), Gaps = 14/214 (6%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++EN T R++K ++ G SRRE +R+I Q RV +NG + E V +D + V+G Sbjct: 1 MEENAT--RINKFLSETGFCSRREADRLIEQGRVTINGKVPE-MGTKVTPSDEVRVNGKL 57 Query: 67 LRKAERTRLWL-YHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLL 123 +++ ++L ++KP G+ T ++ D R + D N P R+ +GRLD +EGL+ Sbjct: 58 IQERTEKPIYLAFNKPAGIECT-TNLDVRDNIIDFINYP---ERIFPIGRLDKASEGLIF 113 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 +TNDG + + + Y V + + ++ + GI I +V ++ Sbjct: 114 MTNDGDIVNKILRARNNHEKEYIVTVNHPITDRFIDRMANGIPILETITKKCKV----EQ 169 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 S + L +G NR+I+++ E+ +++V L R Sbjct: 170 ISKFVFRIILTQGLNRQIRRMCEYLDYEVTALKR 203 >gi|311281430|ref|YP_003943661.1| pseudouridine synthase [Enterobacter cloacae SCF1] gi|308750625|gb|ADO50377.1| pseudouridine synthase [Enterobacter cloacae SCF1] Length = 292 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 116/233 (49%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R A Sbjct: 8 RLNKYISESGICSRREADRFIEQGNVFING---KRATIGDQVAPGDVVKVNGQLIEPRDA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +KP+G+V+T D + R+ + D + SR+ +GRLD +++GL+ LTN G L Sbjct: 65 EDLVFIALNKPVGIVSTTEDGE-RNNIVD-FVNHSSRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYVVTVNKPVTDEFIRAMGAGVPI----LGTVTKKCKVKKEAPFAFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E F ++V +L R L + G R+++ L E Sbjct: 179 ITLIQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLAGIPPGEWRDLTDDELIE 231 >gi|75763968|ref|ZP_00743593.1| Ribosomal large subunit pseudouridine synthase F [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|74488543|gb|EAO52134.1| Ribosomal large subunit pseudouridine synthase F [Bacillus thuringiensis serovar israelensis ATCC 35646] Length = 254 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 66/227 (29%), Positives = 113/227 (49%), Gaps = 11/227 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 21 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 79 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP+G+ T S+ + + D N P R+ +GRLD +++GL+LLTNDG + Sbjct: 80 YIALNKPVGITCT-SEKAVKGNIIDLVNHPL---RISHIGRLDKDSDGLILLTNDGDIVN 135 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V + D L + G+ I G ++T + S + Sbjct: 136 EILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFQII 191 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 192 LTQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 238 >gi|317473625|ref|ZP_07932914.1| RNA pseudouridylate synthase [Anaerostipes sp. 3_2_56FAA] gi|316898915|gb|EFV20940.1| RNA pseudouridylate synthase [Anaerostipes sp. 3_2_56FAA] Length = 238 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 80/245 (32%), Positives = 119/245 (48%), Gaps = 28/245 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDG--VPLRKAE 71 R+ K + +R E +MI Q RV ++++ V D I DG + RK E Sbjct: 5 RLDKFLCDVLGCTRSEARKMIRQGRVLAGDEIIKKPEYKVNPEEDEITADGQRLNFRKYE 64 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRS-TVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGG 129 + +KP G+VT + DGR TV D L + + GRLD +TEGLLL+TNDG Sbjct: 65 ---YLMMNKPKGVVT--ATKDGRDKTVMDLLTGRHRKGLFPAGRLDKDTEGLLLITNDGE 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------VTLDTQ 182 LA L P + Y V G++ +++ + + G+ I GD + V L + Sbjct: 120 LAHRLLSPKHHVTKCYSVTVTGEIGREQQEIFESGMDI-----GDDKPLKPAKLVILTSG 174 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK--- 238 + S A V + EG+ +IK++FE KV L R+S G L LL G RE+++ Sbjct: 175 EVSQAEVFI--TEGRFHQIKRMFEAVGSKVLELKRLSMGSLVLDPELLPGQVRELTEEEI 232 Query: 239 KILRE 243 K L+E Sbjct: 233 KCLKE 237 >gi|168821347|ref|ZP_02833347.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|238913060|ref|ZP_04656897.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] gi|205342140|gb|EDZ28904.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|320088621|emb|CBY98379.1| pseudouridylate synthase [Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1] Length = 289 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 118/230 (51%), Gaps = 13/230 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + Sbjct: 5 TSIRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDVVKVNGRLIEP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G + +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|321312541|ref|YP_004204828.1| putative 16S pseudouridylate synthase [Bacillus subtilis BSn5] gi|320018815|gb|ADV93801.1| putative 16S pseudouridylate synthase [Bacillus subtilis BSn5] Length = 239 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 67/221 (30%), Positives = 109/221 (49%), Gaps = 8/221 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLE--RAAVNVMSTDHIEVDGVPLRKAER 72 R+ K++A +G SR+EV+ ++ V ++G + +A VN T + V G P+ E Sbjct: 2 RLDKLLANSGYGSRKEVKAVVKAGAVMIDGKPAKDVKAHVNP-DTQEVTVYGEPVDYREF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 L + +KP G+++ D + TV D L R GRLD +TEG LLLTNDG L Sbjct: 61 IYLMM-NKPQGVLSATED-SRQQTVVDLLTPEEMRFEPFPAGRLDKDTEGFLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L P + Y V Q+ ++ ++ L+ G+ I+ G + + T N + Sbjct: 119 AHRLLSPKKHVPKTYEVHLKSQISREDISDLETGVYIEGGYKTKPARAEIKTNDSGNTVI 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + EGK ++K++ + +V L R+S G L LA Sbjct: 179 YLTITEGKYHQVKQMAKAVGNEVVYLKRLSMGRVSLDPALA 219 >gi|313885042|ref|ZP_07818794.1| pseudouridylate synthase [Eremococcus coleocola ACS-139-V-Col8] gi|312619733|gb|EFR31170.1| pseudouridylate synthase [Eremococcus coleocola ACS-139-V-Col8] Length = 246 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 114/245 (46%), Gaps = 16/245 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ +++ S+ + + + ++ V V+ ++ ++NV I G L + Sbjct: 2 RIDRLLQVNDFGSKSDRKHLFQRKIVTVDQRVITDGSINVDPGLQIIKVGNHLITGPQEY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLLLTNDG 128 W+ +KP G VT + D + VFD L P ++S +GRLD TEGLL+LT +G Sbjct: 62 YWMMNKPAGYVTANKDIT-KPVVFDLLQAQDRHPDLYS----LGRLDRFTEGLLILTTNG 116 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNA 187 L+R L P + Y V +G + D++ +GIVI Q Q+ + S + Sbjct: 117 PLSRRLLQPHQHVAKTYAVEVNGFLGYDQVQAFAQGIVIDQSYQCQPAQLQIIQAGSSAS 176 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK----KILRE 243 V L EGK ++KK+F KV +L R+S+ L LA V K +++ Sbjct: 177 RAQVTLHEGKFHQVKKMFLSLGVKVTQLKRLSFAGIDLDPDLAPGQYRVLKADELALIKA 236 Query: 244 QLGPH 248 LGP Sbjct: 237 FLGPQ 241 >gi|62182642|ref|YP_219059.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|62130275|gb|AAX67978.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|322717140|gb|EFZ08711.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] Length = 289 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 118/230 (51%), Gaps = 13/230 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + Sbjct: 5 TSIRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDVVKVNGRLIEP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G + +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|323343010|ref|ZP_08083241.1| ribosomal large subunit pseudouridine synthase B [Erysipelothrix rhusiopathiae ATCC 19414] gi|322463074|gb|EFY08269.1| ribosomal large subunit pseudouridine synthase B [Erysipelothrix rhusiopathiae ATCC 19414] Length = 262 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 65/232 (28%), Positives = 112/232 (48%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G SRR+ +R IA+ V ++G+ V+ + V+G + + Sbjct: 27 RLNKYISDSGYCSRRQADRFIAEGVVAIDGVTAT-VGQQVLPGQRVTVEGNHVTIDDEKV 85 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ TT +G + F N P + + +GRLD ++ GL+LLTNDG + Sbjct: 86 YIALNKPRGITCTTDGAIEGNISDFMNYPKM---IFPIGRLDKDSSGLILLTNDGDIVNK 142 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGSNAWVTV 191 + + Y V + +D+D + + KG+ I MQVT D ++ + + Sbjct: 143 ILREEYGHDKEYIVSVNKTIDEDFITKMSKGVEIYNQQTHRMQVTNPSDVEQVAPKTFRI 202 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 L +G NR+I+++ + +KV L R+ LG L G R +S L E Sbjct: 203 VLNQGLNRQIRRMTKALGFKVTTLNRVRIMNINLGDLKVGEWRYLSVHELEE 254 >gi|224585957|ref|YP_002639756.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|224470485|gb|ACN48315.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] Length = 289 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 118/230 (51%), Gaps = 13/230 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + Sbjct: 5 TSIRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDVVKVNGRLIES 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G + +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|198242968|ref|YP_002218105.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|207859366|ref|YP_002246017.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|197937484|gb|ACH74817.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|206711169|emb|CAR35544.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|326625901|gb|EGE32246.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Dublin str. 3246] Length = 289 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 118/230 (51%), Gaps = 13/230 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + Sbjct: 5 TSIRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDVVKVNGRLIEP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G + +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|127514108|ref|YP_001095305.1| pseudouridine synthase [Shewanella loihica PV-4] gi|126639403|gb|ABO25046.1| pseudouridine synthase [Shewanella loihica PV-4] Length = 238 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 69/237 (29%), Positives = 110/237 (46%), Gaps = 14/237 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKV--------NGILLERAAVNVMSTDHIEVDGVP 66 R+++ +A G SRR R+I RV + + I L ++ + VDG P Sbjct: 2 RLAQYLALTGRCSRRAASRLIRNGRVSLGDRLAKHTDSIELIETPTGTQASLSVCVDGEP 61 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L W+++K +G D S + +L R+ VGRLD ++ GLLLLTN Sbjct: 62 LPPIADKAYWIFNKAVGTDCRLLAEDTTSLI--HLLPRQPRLYPVGRLDKDSRGLLLLTN 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L + L PS + Y VR D D + + G+ + + QV T+ G + Sbjct: 120 DGELTQRLMHPSFAHHKRYHVRLDRPFDDDFVVKMAAGVSYKDVTTQPCQV---TRLGQD 176 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 ++ V L +G NR+I+++ + KV L R++ LG L G R +++ L E Sbjct: 177 SFEIV-LTQGLNRQIRRMSKTLGHKVIDLKRVAIESLTLGDLPEGEMRPLTQAELDE 232 >gi|157371489|ref|YP_001479478.1| 16S rRNA pseudouridylate synthase A [Serratia proteamaculans 568] gi|157323253|gb|ABV42350.1| pseudouridine synthase [Serratia proteamaculans 568] Length = 237 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 57/236 (24%), Positives = 112/236 (47%), Gaps = 3/236 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV V+G +++ A+ + + DG PL++ R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTVDGEVVKSGALKLTPEQEVTFDGNPLQRQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + D +G+ + D+ ++ + V + + Sbjct: 122 TSPKHHCEKTYLVTLEHPLAADTAQQFAEGVQLHN--EKDLTRPAQLEQIEDKLVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G + LA G R ++++ + PHL Sbjct: 180 EGRYHQVKRMFAAVGNRVLELHRERIGAIVMDEDLAEGEYRPLTEEEIASVGAPHL 235 >gi|328473478|gb|EGF44326.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus 10329] Length = 371 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 59/206 (28%), Positives = 98/206 (47%), Gaps = 9/206 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRR +++I + RV +NG E V+ D + VDG P+ E+ Sbjct: 7 KRLNKFISETGFCSRRAADKLIEEGRVTINGKQPE-MGTKVLPGDDVCVDGKPVASKEKP 65 Query: 74 RLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 66 IYIALNKPTGITCTTERDIPGNIVDFIGHKK---RIFPIGRLDKPSDGLIFLTNDGDIVN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y VR + + L + G+ I +VT +T+ +T G Sbjct: 123 KILRAGNNHEKEYVVRVDKPITDEFLKQMSSGVRILDTVTLPCKVTKETKFSFRIVLTQG 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRI 218 L NR+I+++ E ++V +L R+ Sbjct: 183 L----NRQIRRMCEALGYEVFKLRRV 204 >gi|292899235|ref|YP_003538604.1| ribosomal large subunit pseudouridine synthase E [Erwinia amylovora ATCC 49946] gi|291199083|emb|CBJ46194.1| ribosomal large subunit pseudouridine synthase E [Erwinia amylovora ATCC 49946] Length = 208 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 54/179 (30%), Positives = 89/179 (49%), Gaps = 17/179 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ SD GR T+ D +P + + GRLD ++EGL++LTNDG L L Sbjct: 32 LFNKPFDVLPQFSDEAGRRTLKDYIPH--PGIYAAGRLDRDSEGLMVLTNDGALQAQLTQ 89 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGI----------VIQGIC----YGDMQVTLDTQ 182 P + +VY V+ G + L L+ G+ V++ + D Q + + Sbjct: 90 PGKRTGKVYFVQVEGCPQESDLLPLRDGVNLKDGPTLPAVVERVAAPGWLWDRQPPIRER 149 Query: 183 KG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 K W+ + L EG+NR+++++ + RLIR S G L L G R++S +I Sbjct: 150 KAIPTCWLKITLYEGRNRQVRRMTAHIGYPTLRLIRFSMGNLGLRALAPGEWRDISHEI 208 >gi|327393520|dbj|BAK10942.1| ribosomal large subunit pseudouridine synthase E RluE [Pantoea ananatis AJ13355] Length = 219 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 50/179 (27%), Positives = 90/179 (50%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D + S V + GRLD ++EGL++LTNDG L Sbjct: 40 RVLLFNKPFDVLPQFTDEAGRRTLKDFID--VSEVYAAGRLDRDSEGLMVLTNDGALQAA 97 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + ++Y V+ G ++ L L+ G+ ++ GI + Sbjct: 98 LTQPGKRTGKIYYVQVEGAPEERDLQPLRDGVNLKDGLTLPAGIEKVAEPEWLWARQPPI 157 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + W+ + L EG+NR+++++ + RL+R + G F+L L G R++S Sbjct: 158 RERKAIPTQWLKITLYEGRNRQVRRMTAHIGFPTLRLVRYAMGDFELDNLAPGEWRDIS 216 >gi|292488017|ref|YP_003530894.1| ribosomal large subunit pseudouridine synthase [Erwinia amylovora CFBP1430] gi|291553441|emb|CBA20486.1| ribosomal large subunit pseudouridine synthase [Erwinia amylovora CFBP1430] Length = 218 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 54/179 (30%), Positives = 89/179 (49%), Gaps = 17/179 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ SD GR T+ D +P + + GRLD ++EGL++LTNDG L L Sbjct: 42 LFNKPFDVLPQFSDEAGRRTLKDYIPH--PGIYAAGRLDRDSEGLMVLTNDGALQAQLTQ 99 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGI----------VIQGIC----YGDMQVTLDTQ 182 P + +VY V+ G + L L+ G+ V++ + D Q + + Sbjct: 100 PGKRTGKVYFVQVEGCPQESDLLPLRDGVNLKDGPTLPAVVERVAAPGWLWDRQPPIRER 159 Query: 183 KG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 K W+ + L EG+NR+++++ + RLIR S G L L G R++S +I Sbjct: 160 KAIPTCWLKITLYEGRNRQVRRMTAHIGYPTLRLIRFSMGNLGLRALAPGEWRDISHEI 218 >gi|291485437|dbj|BAI86512.1| hypothetical protein BSNT_04375 [Bacillus subtilis subsp. natto BEST195] Length = 239 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 65/220 (29%), Positives = 107/220 (48%), Gaps = 6/220 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A +G SR+EV+ ++ V ++G + +V T + V G P+ E Sbjct: 2 RLDKLLANSGYGSRKEVKAVVKAGAVMIDGKPAKDVKAHVDPDTQEVTVYGEPVDYREFI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 L + +KP G+++ D + TV D L R GRLD +TEG LLLTNDG LA Sbjct: 62 YLMM-NKPQGVLSATED-SRQQTVVDLLTPEEMRFEPFPAGRLDKDTEGFLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P + Y V Q+ ++ ++ L+ G+ I+ G + + T N + Sbjct: 120 HRLLSPKKHVPKTYEVHLKSQISREDISDLETGVYIEGGYKTKPARAEIKTNDSGNTVIY 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + EGK ++K++ + +V L R+S G L LA Sbjct: 180 LTITEGKYHQVKQMAKAVGNEVVYLKRLSMGRVSLDPALA 219 >gi|89890105|ref|ZP_01201616.1| ribosomal large subunit pseudouridine synthase F [Flavobacteria bacterium BBFL7] gi|89518378|gb|EAS21034.1| ribosomal large subunit pseudouridine synthase F [Flavobacteria bacterium BBFL7] Length = 326 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 61/226 (26%), Positives = 107/226 (47%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +GI SRR+ + I V VNG + V TD ++ DG ++ ++ Sbjct: 95 RLNKYISNSGICSRRDADIYIKAGSVTVNGKPVSEMGYRVKLTDEVKFDGQNIQPYQKQY 154 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L +KP G + TV D + S + + VGRL + GL+L TND +A Sbjct: 155 LLL-NKPKGFIAPRKGERASKTVLDLMQSAGVANLHYVGRLGRQSVGLMLFTNDLEMANK 213 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+ + ++Y+V + L L+ GI I G D++ + G N + + + Sbjct: 214 LNNPNLEMRKIYQVALDRSFKHEDLMQLRNGIAINGEVI-DVKEINYVEDGRNNEIGIEI 272 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 GK+ ++ +FE +++ L R+ G L G R ++++ Sbjct: 273 HSGKDNIVQALFEAVKYEIKVLDRVVLGGLTKKDLPRGHYRALTEQ 318 >gi|330960137|gb|EGH60397.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. maculicola str. ES4326] Length = 210 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 54/183 (29%), Positives = 93/183 (50%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP ++T SD GR+T+ F ++P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 KLILFNKPFDVLTQFSDEGGRATLKDFIDIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ +++L L+ G+ + G LD Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPSEEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPRNPP 147 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + ++EG+NR+++++ RL+R+ G + L L G REV Sbjct: 148 VRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYREVV 207 Query: 238 KKI 240 K+ Sbjct: 208 AKL 210 >gi|254785989|ref|YP_003073418.1| ribosomal small subunit pseudouridine synthase A [Teredinibacter turnerae T7901] gi|237683937|gb|ACR11201.1| ribosomal small subunit pseudouridine synthase A [Teredinibacter turnerae T7901] Length = 238 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 64/237 (27%), Positives = 110/237 (46%), Gaps = 14/237 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A SR +V ++ +R++VNG + + S D + +D PL+ Sbjct: 2 RLDKFVADNTSYSRSQVRGLLKAKRIRVNGQTALAPSAALKSDDEVTLDDAPLQARSDVY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--------FSRVISVGRLDINTEGLLLLTN 126 L L HKP G V ++D + TVFD LP +R+ GRLD++T GL+L+T+ Sbjct: 62 LML-HKPAGYVCANTDAE-HPTVFD-LPGFSARYSNADIARLQIAGRLDLDTTGLVLITS 118 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + P + + Y V + + + +G+++ G + L+ + Sbjct: 119 DGQWNHRITSPRQKCRKAYYVECAAPIAAETKSAFAEGVLLHGEKRPTLPAELELLSANT 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 A + + +G ++K++F KV RL R G L T LL G R ++ +R Sbjct: 179 ANLYI--EQGIYHQVKRMFASTGNKVLRLHRFQIGALALETDLLPGDMRALTSDEIR 233 >gi|218897335|ref|YP_002445746.1| RNA pseudouridine synthase family protein [Bacillus cereus G9842] gi|218544394|gb|ACK96788.1| RNA pseudouridine synthase family protein [Bacillus cereus G9842] Length = 235 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 2 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 61 YIALNKPVGITCT-SEKAVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 119 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFQIILT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 175 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 219 >gi|167747171|ref|ZP_02419298.1| hypothetical protein ANACAC_01885 [Anaerostipes caccae DSM 14662] gi|167654131|gb|EDR98260.1| hypothetical protein ANACAC_01885 [Anaerostipes caccae DSM 14662] Length = 243 Score = 80.5 bits (197), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 80/245 (32%), Positives = 119/245 (48%), Gaps = 28/245 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDG--VPLRKAE 71 R+ K + +R E +MI Q RV ++++ V D I DG + RK E Sbjct: 10 RLDKFLCDVLGCTRSEARKMIRQGRVLAGDEIIKKPEYKVNPEEDEITADGQRLNFRKYE 69 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRS-TVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGG 129 + +KP G+VT + DGR TV D L + + GRLD +TEGLLL+TNDG Sbjct: 70 ---YLMMNKPKGVVT--ATKDGRDKTVMDLLTGRHRKGLFPAGRLDKDTEGLLLITNDGE 124 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------VTLDTQ 182 LA L P + Y V G++ +++ + + G+ I GD + V L + Sbjct: 125 LAHRLLSPKHHVTKCYSVTVTGEIGREQQEIFESGMDI-----GDDKPLKPAKLVILTSG 179 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK--- 238 + S A V + EG+ +IK++FE KV L R+S G L LL G RE+++ Sbjct: 180 EVSQAEVFI--TEGRFHQIKRMFEAVGSKVLELKRLSMGSLVLDPELLPGQVRELTEEEI 237 Query: 239 KILRE 243 K L+E Sbjct: 238 KCLKE 242 >gi|28897524|ref|NP_797129.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus RIMD 2210633] gi|260879260|ref|ZP_05891615.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus AN-5034] gi|260897564|ref|ZP_05906060.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus Peru-466] gi|260903534|ref|ZP_05911929.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus AQ4037] gi|28805736|dbj|BAC59013.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus RIMD 2210633] gi|308086349|gb|EFO36044.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus Peru-466] gi|308089664|gb|EFO39359.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus AN-5034] gi|308110853|gb|EFO48393.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus AQ4037] Length = 371 Score = 80.1 bits (196), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 59/206 (28%), Positives = 98/206 (47%), Gaps = 9/206 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRR +++I + RV +NG E V+ D + VDG P+ E+ Sbjct: 7 KRLNKFISETGFCSRRAADKLIEEGRVTINGKQPE-MGTKVLPGDDVCVDGKPVASKEKP 65 Query: 74 RLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 66 IYIALNKPTGITCTTERDIPGNIVDFIGHKK---RIFPIGRLDKPSDGLIFLTNDGDIVN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y VR + + L + G+ I +VT +T+ +T G Sbjct: 123 KILRAGNNHEKEYVVRVDKPITDEFLKQMSSGVRILDTVTLPCKVTKETKFSFRIVLTQG 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRI 218 L NR+I+++ E ++V +L R+ Sbjct: 183 L----NRQIRRMCEALGYEVFKLRRV 204 >gi|330811899|ref|YP_004356361.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas brassicacearum subsp. brassicacearum NFM421] gi|327380007|gb|AEA71357.1| Ribosomal large subunit pseudouridine synthase E [Pseudomonas brassicacearum subsp. brassicacearum NFM421] Length = 211 Score = 80.1 bits (196), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 53/183 (28%), Positives = 95/183 (51%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP ++T SD +GR+T+ F ++P I+ GRLD ++EGLLLLTNDG L Sbjct: 33 KLILFNKPFDVLTQFSDGEGRATLKDFIDVPGIYP----AGRLDRDSEGLLLLTNDGQLQ 88 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ ++L L+ G+ + G+ +LD Sbjct: 89 ARIADPKHKLAKTYWVQVEGEPSAEQLQRLRDGVELNDGMTLPAEARSLDEPQLWPRNPP 148 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +WV + +REG+NR+++++ RL+R+ G + + L G +EV Sbjct: 149 VRFRKSVPTSWVELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWTIEGLDQGQWKEVP 208 Query: 238 KKI 240 ++ Sbjct: 209 ARL 211 >gi|256003625|ref|ZP_05428614.1| pseudouridine synthase [Clostridium thermocellum DSM 2360] gi|255992416|gb|EEU02509.1| pseudouridine synthase [Clostridium thermocellum DSM 2360] Length = 202 Score = 80.1 bits (196), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 66/182 (36%), Positives = 94/182 (51%), Gaps = 7/182 (3%) Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDIN 117 IEV G L+ E + + +KP G+++ D R TV D LP F + VGRLDI+ Sbjct: 10 IEVAGEILKYREYIYIMM-NKPQGVISATYDNRHR-TVIDILPDEYKFFNLFPVGRLDID 67 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLLLTNDG LA L P + Y G V +++ ++G+V+ Y + Sbjct: 68 TEGLLLLTNDGQLAHELLSPRKHVPKKYYALIDGIVTTKDVDVFREGVVLDD-GYKTLPS 126 Query: 178 TLDTQK-GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTRE 235 L K G + V + + EGK ++K++FE KV L RI G +L TL G RE Sbjct: 127 ELFILKSGPYSEVEIVIYEGKFHQVKRMFEAVGKKVKYLRRIGMGKLKLDETLEPGDVRE 186 Query: 236 VS 237 ++ Sbjct: 187 LT 188 >gi|261340615|ref|ZP_05968473.1| ribosomal small subunit pseudouridine synthase A [Enterobacter cancerogenus ATCC 35316] gi|288317026|gb|EFC55964.1| ribosomal small subunit pseudouridine synthase A [Enterobacter cancerogenus ATCC 35316] Length = 235 Score = 80.1 bits (196), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 104/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ +A + +E DG L + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRASRVTVDGDIVKDSAFKLQPEHQVEYDGNTLTQQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ HKP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLHKPEGYVCSTDDPDHPTVLYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + L+ + +T+ Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAEHFAKGVQLHNEKDLTRPAVLEVITPTEVRLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F +V L R G +L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNRVVGLHRERIGAIELDPELAPGEYRPLTEE 225 >gi|307260542|ref|ZP_07542235.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|306869771|gb|EFN01555.1| Pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 12 str. 1096] Length = 231 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 55/188 (29%), Positives = 94/188 (50%), Gaps = 17/188 (9%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E T + L++KP ++T +D R T+ D +P ++ VGRLD ++EGLLLLTN+G + Sbjct: 37 EDTVVVLFNKPFDVLTQFTDEQRRQTLKDFIP--IPQIYPVGRLDRDSEGLLLLTNNGEI 94 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL---------- 179 L P + + Y + G L L+KG+ ++ G+ + Sbjct: 95 QHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAISAPNYEWQTA 154 Query: 180 ----DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + +W+ + + EGKNR+++++ + RLIRI G FQLG L +G R Sbjct: 155 PKIRERKTIPTSWIELKIHEGKNRQVRRMTAHIGFPTLRLIRIGLGQFQLGELNSGEYRV 214 Query: 236 VSKKILRE 243 + +K R+ Sbjct: 215 LDEKEKRQ 222 >gi|254515118|ref|ZP_05127179.1| ribosomal small subunit pseudouridine synthase A [gamma proteobacterium NOR5-3] gi|219677361|gb|EED33726.1| ribosomal small subunit pseudouridine synthase A [gamma proteobacterium NOR5-3] Length = 205 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 62/208 (29%), Positives = 106/208 (50%), Gaps = 11/208 (5%) Query: 34 MIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 M+AQ+R+ V+G + + + +++DG + L L +KP G+V DP Sbjct: 1 MLAQRRIMVDGKVASDMSQTIDKFSRVQLDGEWTQNHTAHYLML-NKPQGVVCATKDPLH 59 Query: 94 RSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG 151 R T+ D LP ++ VGRLD N+ GL+LLTNDG +R L P ++ ++ YRV Sbjct: 60 R-TILDLLELPDK-EQLHIVGRLDYNSTGLVLLTNDGQWSRKLSHPDSKLIKRYRVTTEQ 117 Query: 152 QVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + ++ + + G+ +GI +T+ K + V L EG+ +IK++F F Sbjct: 118 TITEEYVQAFQSGMYFDFEGITTRPAPLTILDSKTAQ----VDLTEGRYHQIKRMFGRFQ 173 Query: 210 WKVNRLIRISYGPFQLGTLLAGSTREVS 237 KV + R + G ++LG L G + ++ Sbjct: 174 NKVLSIHRFAVGSYELGELSPGEYKSIA 201 >gi|291617070|ref|YP_003519812.1| RluE [Pantoea ananatis LMG 20103] gi|291152100|gb|ADD76684.1| RluE [Pantoea ananatis LMG 20103] Length = 219 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 50/179 (27%), Positives = 90/179 (50%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D + S V + GRLD ++EGL++LTNDG L Sbjct: 40 RVLLFNKPFDVLPQFTDEAGRRTLKDFID--VSEVYAAGRLDRDSEGLMVLTNDGALQAA 97 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + ++Y V+ G ++ L L+ G+ ++ GI + Sbjct: 98 LTQPGKRTGKIYYVQVEGAPEERDLQPLRDGVNLKDGLTLPAGIEKVAEPEWLWARQPPI 157 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + W+ + L EG+NR+++++ + RL+R + G F+L L G R++S Sbjct: 158 RERKAIPTQWLKITLYEGRNRQVRRMTAHIGFPTLRLVRYAMGDFELDNLAPGEWRDIS 216 >gi|312127717|ref|YP_003992591.1| pseudouridine synthase [Caldicellulosiruptor hydrothermalis 108] gi|311777736|gb|ADQ07222.1| pseudouridine synthase [Caldicellulosiruptor hydrothermalis 108] Length = 233 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 66/218 (30%), Positives = 109/218 (50%), Gaps = 16/218 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K + G SR +V+++I V VNG + + D +EVDG ++ + R Sbjct: 2 RLDKFLTHCGFGSRSQVKKLIRGGIVTVNGKRIVEVDFKINPEEDVVEVDGRIVKFSRRI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVF----DNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + +KP G V ++ DP TVF DNL + + +VGRLD + EGLL++T+DG Sbjct: 62 YIMM-NKPKGYVCSNDDP-ASLTVFSLISDNLK--YRDLHTVGRLDKDAEGLLIITDDGE 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNA 187 + P + + Y VR +VD+++L + GI++ D TL + + Sbjct: 118 YTHRVISPRKRIEKEYLVRLEKEVDEERLKEFENGIILD-----DGYKTLPAKYTIIDST 172 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + + EGK ++K++FE KV L R+ G L Sbjct: 173 TVKLCIYEGKYHQVKRMFEAIGNKVVDLKRLRIGGLNL 210 >gi|195941866|ref|ZP_03087248.1| hypothetical protein Bbur8_03164 [Borrelia burgdorferi 80a] gi|195942365|ref|ZP_03087747.1| hypothetical protein Bbur8_05879 [Borrelia burgdorferi 80a] gi|195942740|ref|ZP_03088122.1| hypothetical protein Bbur8_07965 [Borrelia burgdorferi 80a] gi|195942847|ref|ZP_03088229.1| hypothetical protein Bbur8_08590 [Borrelia burgdorferi 80a] gi|218249574|ref|YP_002374657.1| hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Borrelia burgdorferi ZS7] gi|223889072|ref|ZP_03623661.1| hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Borrelia burgdorferi 64b] gi|226321960|ref|ZP_03797485.1| hypothetical RNA pseudouridine synthase [Borrelia burgdorferi Bol26] gi|218164762|gb|ACK74823.1| hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Borrelia burgdorferi ZS7] gi|223885321|gb|EEF56422.1| hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Borrelia burgdorferi 64b] gi|226232550|gb|EEH31304.1| hypothetical RNA pseudouridine synthase [Borrelia burgdorferi Bol26] Length = 249 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 69/226 (30%), Positives = 107/226 (47%), Gaps = 8/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER-- 72 RV +A G+ SRR E +I ++ VKVN + + + I + + K + Sbjct: 8 RVHVFLAEKGVGSRRFCEELIRKKLVKVNNTIAKLGDKVALGDRIIYKKQIFVFKDFQIN 67 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 R++L +KP + ++ D DGR + +F RV S+GRLD + GLLL TNDG Sbjct: 68 NRIYLALNKPRNYLCSNFDVDGRKLAISLVQPLFKERVFSIGRLDFKSSGLLLFTNDGKF 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + P + R Y + +D++ L K GI ++ + + K S + Sbjct: 128 ANDIIHPRQKVEREYIIESKKDIDENLLISFKSGIKVKKEFFKLKSYEI-LNKNSARLI- 185 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 L EGKNREI+KVF N + ++ RI G L +L G + V Sbjct: 186 --LDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDSLKEGQVKIV 229 >gi|154487334|ref|ZP_02028741.1| hypothetical protein BIFADO_01184 [Bifidobacterium adolescentis L2-32] gi|154083852|gb|EDN82897.1| hypothetical protein BIFADO_01184 [Bifidobacterium adolescentis L2-32] Length = 164 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 52/155 (33%), Positives = 85/155 (54%), Gaps = 3/155 (1%) Query: 90 DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 DP GR T+ D + + R+ +GRLD ++EGL+L+TNDG L++ + P + + Y Sbjct: 3 DPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTNDGELSQHVMHPKYEVEKTYIATL 62 Query: 150 HGQVD-QDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 G++ Q L+ G+ + G D LD+ + S V V L GKNR ++++F Sbjct: 63 EGRISGQVCRRLVTTGVKLDDGWIKLDRCAILDSSREST-LVKVVLHSGKNRIVRRIFGS 121 Query: 208 FNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + V RL+R GP +LG L +G+ R +S+ +R Sbjct: 122 IGFPVKRLVRTQIGPIKLGDLKSGTYRVLSQAEVR 156 >gi|16761163|ref|NP_456780.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. CT18] gi|16765551|ref|NP_461166.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|29141142|ref|NP_804484.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|161613070|ref|YP_001587035.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|168229594|ref|ZP_02654652.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|168236410|ref|ZP_02661468.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|168818048|ref|ZP_02830048.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|194446350|ref|YP_002041497.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194469360|ref|ZP_03075344.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194737206|ref|YP_002115312.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|197249585|ref|YP_002147195.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|198241888|ref|YP_002216306.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|204929076|ref|ZP_03220219.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|213023702|ref|ZP_03338149.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. 404ty] gi|213052312|ref|ZP_03345190.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. E00-7866] gi|213424223|ref|ZP_03357082.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. E02-1180] gi|213581650|ref|ZP_03363476.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] gi|213646821|ref|ZP_03376874.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. J185] gi|224583280|ref|YP_002637078.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|238913797|ref|ZP_04657634.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] gi|54039570|sp|P65841|RSUA_SALTI RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|54042084|sp|P65840|RSUA_SALTY RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|25324010|pir||AG0785 pseudouridylate synthase (EC 4.2.1.70) - Salmonella enterica subsp. enterica serovar Typhi (strain CT18) gi|16420760|gb|AAL21125.1| 16S rRNA pseudouridylate 516 synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|16503461|emb|CAD02605.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhi] gi|29136768|gb|AAO68333.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|161362434|gb|ABX66202.1| hypothetical protein SPAB_00778 [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|194405013|gb|ACF65235.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194455724|gb|EDX44563.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194712708|gb|ACF91929.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|197213288|gb|ACH50685.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197290459|gb|EDY29814.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|197936404|gb|ACH73737.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|204321620|gb|EDZ06819.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205335593|gb|EDZ22357.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|205345073|gb|EDZ31837.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|224467807|gb|ACN45637.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|261247434|emb|CBG25259.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. D23580] gi|267994304|gb|ACY89189.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S] gi|301158783|emb|CBW18295.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344] gi|312913212|dbj|BAJ37186.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhimurium str. T000240] gi|320086666|emb|CBY96437.1| 16S pseudouridylate 516 synthase [Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1] gi|321224878|gb|EFX49941.1| Ribosomal small subunit pseudouridine synthase A ; SSU Psi [Salmonella enterica subsp. enterica serovar Typhimurium str. TN061786] gi|322615249|gb|EFY12171.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 315996572] gi|322617839|gb|EFY14735.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-1] gi|322624567|gb|EFY21398.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-3] gi|322626983|gb|EFY23779.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-4] gi|322634168|gb|EFY30904.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-1] gi|322635640|gb|EFY32350.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-2] gi|322640225|gb|EFY36889.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 531954] gi|322646353|gb|EFY42865.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. NC_MB110209-0054] gi|322649320|gb|EFY45756.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. OH_2009072675] gi|322656440|gb|EFY52729.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. CASC_09SCPH15965] gi|322660683|gb|EFY56918.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] gi|322665695|gb|EFY61879.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 81038-01] gi|322667221|gb|EFY63388.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. MD_MDA09249507] gi|322671226|gb|EFY67354.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 414877] gi|322675134|gb|EFY71211.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 366867] gi|322680742|gb|EFY76777.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 413180] gi|322686917|gb|EFY82894.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 446600] gi|323130552|gb|ADX17982.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhimurium str. 4/74] gi|323192682|gb|EFZ77909.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 609458-1] gi|323198887|gb|EFZ83986.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 556150-1] gi|323205103|gb|EFZ90081.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 609460] gi|323208146|gb|EFZ93090.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 507440-20] gi|323211199|gb|EFZ96045.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] gi|323215829|gb|EGA00572.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. MB101509-0077] gi|323221865|gb|EGA06265.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. MB102109-0047] gi|323223805|gb|EGA08108.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. MB110209-0055] gi|323231275|gb|EGA15390.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. MB111609-0052] gi|323233708|gb|EGA17800.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 2009083312] gi|323237780|gb|EGA21840.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 2009085258] gi|323245761|gb|EGA29755.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 315731156] gi|323246500|gb|EGA30479.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2009159199] gi|323255132|gb|EGA38915.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008283] gi|323259561|gb|EGA43196.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008284] gi|323266058|gb|EGA49551.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008285] gi|323271866|gb|EGA55282.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008287] gi|326624057|gb|EGE30402.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Dublin str. 3246] gi|332989156|gb|AEF08139.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhimurium str. UK-1] Length = 231 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 105/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHN--EKDLTKPATLEVITPVQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F +V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEE 225 >gi|226320679|ref|ZP_03796237.1| hypothetical RNA pseudouridine synthase [Borrelia burgdorferi 29805] gi|226233895|gb|EEH32618.1| hypothetical RNA pseudouridine synthase [Borrelia burgdorferi 29805] Length = 249 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 69/226 (30%), Positives = 107/226 (47%), Gaps = 8/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER-- 72 RV +A G+ SRR E +I ++ VKVN + + + I + + K + Sbjct: 8 RVHVFLAEKGVGSRRFCEELIRKKLVKVNNTIAKLGDKVALGDRIIYKKQIFVFKDFQIN 67 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 R++L +KP + ++ D DGR + +F RV S+GRLD + GLLL TNDG Sbjct: 68 NRIYLALNKPRNYLCSNFDVDGRKLAISLVQPLFKERVFSIGRLDFKSSGLLLFTNDGKF 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + P + R Y + +D++ L K GI ++ + + K S + Sbjct: 128 ANDIIHPRKKVEREYIIESKKDIDENLLISFKSGIKVKKEFFKLKSYEI-LNKNSARLI- 185 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 L EGKNREI+KVF N + ++ RI G L +L G + V Sbjct: 186 --LDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDSLKEGQVKIV 229 >gi|42781479|ref|NP_978726.1| RNA pseudouridylate synthase family protein [Bacillus cereus ATCC 10987] gi|42737401|gb|AAS41334.1| RNA pseudouridylate synthase family protein [Bacillus cereus ATCC 10987] Length = 238 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 112/225 (49%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR ++ I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKXINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKSVKGNIID-LVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R+++KK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKK 222 >gi|218709063|ref|YP_002416684.1| ribosomal large subunit pseudouridine synthase E [Vibrio splendidus LGP32] gi|218322082|emb|CAV18165.1| Ribosomal large subunit pseudouridine synthase E [Vibrio splendidus LGP32] Length = 242 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 53/185 (28%), Positives = 95/185 (51%), Gaps = 16/185 (8%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P E ++ L++KP ++ +D +GR T+ D +P V + GRLD ++EGLL+LT Sbjct: 60 PKVAPEDRKVILFNKPFDTLSQFTDGEGRKTLADFIP--VKDVYAAGRLDRDSEGLLVLT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQ- 182 NDG L P+++ + Y V+ G + L+ L+KG+ ++ G+ +++V + Q Sbjct: 118 NDGIFQAKLTQPNSKSTKTYWVQVEGAPSEKDLDKLRKGVELKDGMTLPAEVEVMQEPQV 177 Query: 183 -----------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RLIR S G +G L G Sbjct: 178 WERTPPVRFRAAIPTTWLAITIIEGRNRQVRRMTANIGFPTLRLIRYSMGNMNVGQLQPG 237 Query: 232 STREV 236 +EV Sbjct: 238 EWKEV 242 >gi|78779587|ref|YP_397699.1| ribosomal large subunit pseudouridine synthase F [Prochlorococcus marinus str. MIT 9312] gi|78713086|gb|ABB50263.1| ribosomal large subunit pseudouridine synthase F [Prochlorococcus marinus str. MIT 9312] Length = 240 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 66/238 (27%), Positives = 120/238 (50%), Gaps = 31/238 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRR+ +R+I + +V +NG + E A V D +EV+G ++K+ + + Sbjct: 4 RINKYLSEVGYCSRRKADRLIEEGKVTINGKIPEIGA-KVEDGDQVEVEGQRIKKSTKQK 62 Query: 75 -LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGG 129 ++L ++KPIG+V T R DN+ R+ +GRLD ++EGL+ LTNDG Sbjct: 63 NIYLAFNKPIGVVCTTD----RGVEPDNIIDFIKYPKRIFPIGRLDKSSEGLIFLTNDGD 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y V + ++++ + + G+ I L+T K N +V Sbjct: 119 IVNKILRARNNHEKEYIVSVNRPINREFIQTMSNGVEI-----------LET-KTKNCFV 166 Query: 190 --------TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + L +G NR+I+++ E ++V L R+ +L L G RE +K+ Sbjct: 167 KKLGPKKFKIILTQGLNRQIRRMCESLGYRVQSLKRVRIMNIKL-DLPIGKYREFTKE 223 >gi|308812959|ref|XP_003083786.1| pseudouridine synthase family 1 protein (ISS) [Ostreococcus tauri] gi|116055668|emb|CAL57753.1| pseudouridine synthase family 1 protein (ISS) [Ostreococcus tauri] Length = 391 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 113/229 (49%), Gaps = 28/229 (12%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-----VPLRKAERTRL------W 76 RRE + ++ RV VNG L+ R + V+ D + +DG P ++ + L + Sbjct: 106 RREADDAVSAGRVLVNGELV-RPSRRVVHGDVVTLDGKAMDWEPYAQSVESELGDARFVY 164 Query: 77 L-YHKPIGLVTTHSDPDGRSTVFDNLPSIFS------RVISVGRLDINTEGLLLLTNDGG 129 L Y+KP G+V T SD + R+++F L R+ VGRLD ++ GL+LLTNDG Sbjct: 165 LKYNKPRGVVCTMSDTE-RTSMFHALHHERKALGKDVRLFPVGRLDKDSSGLVLLTNDGR 223 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------TQ 182 ++ L P + + Y V V + L +G+VI D++ T+ T+ Sbjct: 224 VSDALLDPERKAEKTYDVDVDRIVSEADARTLARGVVISTTQQRDLKETVAATLPCEVTK 283 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 G + V L+EG+NR+I+K+ E ++ V RL R LG L G Sbjct: 284 TGEKSLRFV-LKEGRNRQIRKMCEVLSYDVERLHRTRIDDVALGDLEVG 331 >gi|114800237|ref|YP_759483.1| ribosomal small subunit pseudouridine synthase A [Hyphomonas neptunium ATCC 15444] gi|114740411|gb|ABI78536.1| ribosomal small subunit pseudouridine synthase A [Hyphomonas neptunium ATCC 15444] Length = 224 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 66/230 (28%), Positives = 108/230 (46%), Gaps = 23/230 (10%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++++K +A G SR+E+E I + RV G + +E DG PL Sbjct: 5 RKLAKYLASLGYGSRKEMEVAIRRGRVTGWG-------------EDVEFDGEPLDPGPGM 51 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINTEGLLLLTNDGG 129 + L HKP G +H D G+ V+D LP F ++ SVGRLD +T GLLL T+DG Sbjct: 52 VI-LMHKPAGYTCSHQD-QGK-LVYDLLPPRFLKRDPKISSVGRLDADTTGLLLFTDDGA 108 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAW 188 L L P + + Y ++ + G ++++G + L+ A Sbjct: 109 LLHRLISPKSDIPKTYEATLARPLEGFEKEFFASGSLILRGEDKPCLPAELEVTGERTAR 168 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +T L EG+ +++++F V L R +GP +LG L G+ R +++ Sbjct: 169 LT--LSEGRYHQVRRMFAAAGNHVEALHRSRFGPLELGDLSEGAWRLLTE 216 >gi|311695566|gb|ADP98439.1| pseudouridine synthase, Rsu [marine bacterium HP15] Length = 232 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 63/226 (27%), Positives = 105/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++S++++ SRR+ +IA RV VN + AA V + +DG +++AE Sbjct: 2 KLSRILSNRNDISRRQANFLIASGRVAVNDVTCRDAAAEVDRFSCVRMDGDIIQEAEACH 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + HKP G ++ D R+ + P + + GRLD + GLL+LTNDG +R L Sbjct: 62 HLMLHKPAGFLSATLDDTHRTVMELISPELREDLHIAGRLDRASTGLLILTNDGRWSRQL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + +VYRV + + + +GI + LD A VT+ Sbjct: 122 TEPRIKIPKVYRVSTAYPISPETPHRFAEGIWFEFEQLTTSPADLDLLSPCEARVTI--Y 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 EG+ ++K++F +V L R G +L L AG R ++ + Sbjct: 180 EGRYHQVKRMFHAVGNRVTALHREQMGNIRLDDDLAAGEYRSLTAE 225 >gi|168216005|ref|ZP_02641630.1| RNA pseudouridine synthase family protein [Clostridium perfringens NCTC 8239] gi|182381895|gb|EDT79374.1| RNA pseudouridine synthase family protein [Clostridium perfringens NCTC 8239] Length = 228 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 67/228 (29%), Positives = 121/228 (53%), Gaps = 14/228 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+ + GI SR+E ++I + RV VNG +E V + +D I +DG PL E+ Sbjct: 2 RINKLFSNFGICSRKETNKIIREGRVIVNGNPCIEGQWVEL--SDEILLDGKPLVPKEKI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP+G+V T ++ + ++ + D L I V +GRLD +++GL++LTNDG LA Sbjct: 60 YIAL-NKPVGVVCTAAE-EVKNNIIDYL-GIDDYVFPIGRLDKDSQGLIILTNDGDLANE 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGSNAWVTV 191 + + Y V D + +++G+ I G QVT ++ + ++ Sbjct: 117 VLAAENNHEKEYIVTLDQPFYDDFIEKMERGVEILG------QVTKPCKLKRINENTYSI 170 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L +G NR+I+++ + F + V +L RI L + G R ++++ Sbjct: 171 ILTQGLNRQIRRMSKVFGFNVIKLERIRILNITLEDIEYGKWRYINRE 218 >gi|62180809|ref|YP_217226.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|62128442|gb|AAX66145.1| 16S rRNA pseudouridylate 516 synthase [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] Length = 231 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 105/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P ++Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKIYLVTLESPVADDTAAQFAKGVQLHN--EKDLTKPATLEVITPVQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNCVVELHRERIGAITLDENLAPGEYRPLTEE 225 >gi|209522381|ref|ZP_03270995.1| RNA-binding S4 domain protein [Burkholderia sp. H160] gi|209497187|gb|EDZ97428.1| RNA-binding S4 domain protein [Burkholderia sp. H160] Length = 325 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 68/248 (27%), Positives = 113/248 (45%), Gaps = 28/248 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK++++ G+ SRRE + I + V V+G ++ V I++D Sbjct: 78 RLSKLMSKLGLCSRREADEWIEKGWVMVDGERVDTLGTKVFPDQRIDIDPAAEAFQSSQV 137 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP---------------SIFSRVISVGRLDINTE 119 + HKP+GLV+ ++ + + P S ++ GRLDI++ Sbjct: 138 TVIVHKPVGLVSGQAEDGYQPAITLVTPENRWEGDRSGVRFSVSHLRQLAPAGRLDIDST 197 Query: 120 GLLLLTNDGGLARVL-----ELPSTQWLRV----YRVRFHGQVDQDKLNLLKKGIVIQGI 170 GLL+LT DG +A+ L ++ +RV Y V +KL LL+ G+ + + Sbjct: 198 GLLVLTQDGRIAKQLIGGHSDVDKEYLVRVAYGEYTVDVESHFPAEKLALLRHGLSLDDV 257 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 QV+ Q G + LREGK R+I+++ E +V L R+ G LG L Sbjct: 258 ALKPAQVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVVGLKRVRMGQVMLGALPP 313 Query: 231 GSTREVSK 238 G R +S+ Sbjct: 314 GQWRYLSE 321 >gi|295100310|emb|CBK97855.1| ribosomal small subunit pseudouridine synthase A [Faecalibacterium prausnitzii L2-6] Length = 234 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 66/227 (29%), Positives = 107/227 (47%), Gaps = 8/227 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A +R E + ++A+ RV VNG + + + D + VDG L + Sbjct: 2 RLDKYLAETAQCTRSEAKALLAKGRVTVNGAVCRKGDTQLKEADAVAVDGKALAYRQFVY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP G+V+ +D +TV D + + R + GRLD + G +LLT+DGG A Sbjct: 62 LML-NKPEGVVSASADKR-DTTVVDLVGDAYPRRELFPAGRLDKTSTGFVLLTDDGGFAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V + ++ G+ + G +V+ T G V V Sbjct: 120 DILAPKRHVSKTYTVVIDTPLTEEMKAGFAAGVTLADGTALSPAEVSALTPDGLT--VRV 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 LR+G +IK++F + VN L R + G L +L AG RE++ Sbjct: 178 LLRQGVYHQIKRMFGVYGAGVNALHRDAIGGLALDESLAAGQWRELT 224 >gi|224532779|ref|ZP_03673395.1| hypothetical RNA pseudouridine synthase [Borrelia burgdorferi WI91-23] gi|224512267|gb|EEF82652.1| hypothetical RNA pseudouridine synthase [Borrelia burgdorferi WI91-23] Length = 249 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 69/226 (30%), Positives = 107/226 (47%), Gaps = 8/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER-- 72 RV +A G+ SRR E +I ++ VKVN + + + I + + K + Sbjct: 8 RVHVFLAEKGVGSRRFCEELIRKKLVKVNNTIAKLGDKVALGDRIIYKKQIFVFKDFQIN 67 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 R++L +KP + ++ D DGR + +F RV S+GRLD + GLLL TNDG Sbjct: 68 NRIYLALNKPRNYLCSNFDVDGRKLAISLVQPLFKERVFSIGRLDFKSSGLLLFTNDGKF 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + P + R Y + +D++ L K GI ++ + + K S + Sbjct: 128 ANDIIHPRQKVEREYIIESKKDIDENLLISFKSGIKVKKEFFKLKSYEI-LNKNSARLI- 185 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 L EGKNREI+KVF N + ++ RI G L +L G + V Sbjct: 186 --LDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDSLKEGQVKIV 229 >gi|296103839|ref|YP_003613985.1| 16S rRNA pseudouridylate synthase A [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295058298|gb|ADF63036.1| 16S rRNA pseudouridylate synthase A [Enterobacter cloacae subsp. cloacae ATCC 13047] Length = 235 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 104/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ +A + +E DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRASRVTVDGDIVRDSAFKLQPDHQVEYDGNPLTQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPEGYVCSTDDPDHPTVLYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTEVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G +L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVGLHRERIGAIELDPDLAPGEYRPLTEE 225 >gi|51595642|ref|YP_069833.1| 16S rRNA pseudouridylate synthase A [Yersinia pseudotuberculosis IP 32953] gi|186894712|ref|YP_001871824.1| 16S rRNA pseudouridylate synthase A [Yersinia pseudotuberculosis PB1/+] gi|51588924|emb|CAH20541.1| ribosomal small subunit pseudouridine synthase A [Yersinia pseudotuberculosis IP 32953] gi|186697738|gb|ACC88367.1| pseudouridine synthase [Yersinia pseudotuberculosis PB1/+] Length = 235 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 59/236 (25%), Positives = 109/236 (46%), Gaps = 3/236 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQMVGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRV 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + D G+ + LD + +T+ R Sbjct: 122 TSPRHHCEKTYLVTLEHPLSDDTAQQFADGVQLHNEKSLTKPAQLDVIEPQRVRLTI--R 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G L LA G R ++ + + PHL Sbjct: 180 EGRYHQVKRMFAAVGNRVIELHRERIGDITLDDDLAPGEYRPLTAEEIASVGAPHL 235 >gi|160935783|ref|ZP_02083158.1| hypothetical protein CLOBOL_00673 [Clostridium bolteae ATCC BAA-613] gi|158441527|gb|EDP19237.1| hypothetical protein CLOBOL_00673 [Clostridium bolteae ATCC BAA-613] Length = 251 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 71/242 (29%), Positives = 119/242 (49%), Gaps = 18/242 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLR-- 68 +R++K +++ G+ SRRE +R+I +V V+ R A V + +G +R Sbjct: 3 ERLNKWLSQMGVCSRREADRLIEAGKVLVDN----RPASMGQKVTPGQKVVCNGKMVRVD 58 Query: 69 KAERTR--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +++R R L +KP G+V T +D D + D L R+ VGRLD ++EGLLL+TN Sbjct: 59 RSQRPRPVLLAVNKPKGIVCTTTDKDRAENIVDFL-GYPERIYPVGRLDKDSEGLLLMTN 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKG 184 G L + + Y V V + L + GI + + QVT +K Sbjct: 118 QGDLVNKIMRSGNAHEKEYIVTIDKPVTERFLEQMAGGIRLPEL----DQVTRPCKVKKV 173 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 ++ L +G NR+I+++ E +V RL+R+ +LG L G+ R+++K+ E Sbjct: 174 ERNTFSIILTQGLNRQIRRMCEACGCQVKRLVRVRIMNIRLGNLRTGAYRQITKEEYEEL 233 Query: 245 LG 246 G Sbjct: 234 TG 235 >gi|153000988|ref|YP_001366669.1| pseudouridine synthase [Shewanella baltica OS185] gi|151365606|gb|ABS08606.1| pseudouridine synthase [Shewanella baltica OS185] Length = 282 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 49/169 (28%), Positives = 84/169 (49%), Gaps = 16/169 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P + V + GRLD ++EGLLLLTNDG L L Sbjct: 105 LFNKPFDVLCQFTDEQGRKTLKDYIP--IADVYAAGRLDRDSEGLLLLTNDGQLQARLTE 162 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT-------------Q 182 P + + Y V+ G +D L L++G+ + G+ +D+ + Sbjct: 163 PKKKTFKTYWVQVEGVPTEDALTKLRQGVELNDGMTLPAKVKIMDSPDIWPRNPPVRERK 222 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RLIR G + L L +G Sbjct: 223 NIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDNLPSG 271 >gi|149182614|ref|ZP_01861084.1| 16S pseudouridylate synthase [Bacillus sp. SG-1] gi|148849692|gb|EDL63872.1| 16S pseudouridylate synthase [Bacillus sp. SG-1] Length = 239 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 69/234 (29%), Positives = 119/234 (50%), Gaps = 16/234 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K+++ G SR+EV++ + VNG +++ V +D + V G + E Sbjct: 2 RIDKLLSNMGYGSRKEVKKHLKGGGTVVNGEVVKDPKFQVDPESDTVTVHGEEVVYREFI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + +KP G+++ D +G TV D L IF+ VGRLD +TEGLLL+TNDG L Sbjct: 62 YLMM-NKPPGVLSATEDAEGE-TVIDLLEMEDQIFNP-FPVGRLDKDTEGLLLITNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY----GDMQVTLDTQKGSN 186 + L P + Y G+V ++ ++ +G+ + Y G++++ G Sbjct: 119 SHQLLSPKKHVPKTYFAVIEGEVTEEDVSAFAEGVTLDD-GYETKPGELEI---ISSGIR 174 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + + + + EGK ++K++FE +V L RI+ G L TL G RE++ + Sbjct: 175 SEINLTITEGKFHQVKRMFESVGKRVIYLKRITMGLLPLDETLELGEYRELTDE 228 >gi|118444952|ref|YP_878908.1| RNA pseudouridylate synthase family protein [Clostridium novyi NT] gi|118135408|gb|ABK62452.1| RNA pseudouridylate synthase family protein [Clostridium novyi NT] Length = 238 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 68/236 (28%), Positives = 111/236 (47%), Gaps = 30/236 (12%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAER 72 +R+ KV++ G SR+E++ + + ++V+G +++ + V I +V+G + Sbjct: 2 ERLDKVLSNLGYGSRKEIKAFVKKGEIEVDGKVVKDNGIKVDPNKSIIKVNGEEIN---- 57 Query: 73 TRLWLY---HKPIGLVTTHSDP---------DGRSTVFDNLPSIFSRVISVGRLDINTEG 120 R ++Y +KP G+V+ D D TVFD P VGRLD +TEG Sbjct: 58 YRKYIYIMMNKPAGVVSATFDNYDETVIDLLDYEYTVFDPFP--------VGRLDKDTEG 109 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICY-GDMQV 177 LLL+TNDG L L P + Y VD+ + KKGI + C +++ Sbjct: 110 LLLITNDGELNHRLTSPKWHVDKTYYAEIDKMVDEKDVEKFKKGITLDDGYKCLPAKLEI 169 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + GS +T+ +EGK ++K++FE V L R++ G L L T Sbjct: 170 LSSDENGSEVNITI--QEGKFHQVKRMFEARGKNVVYLKRLTMGNISLDEELDEGT 223 >gi|302841952|ref|XP_002952520.1| hypothetical protein VOLCADRAFT_93239 [Volvox carteri f. nagariensis] gi|300262159|gb|EFJ46367.1| hypothetical protein VOLCADRAFT_93239 [Volvox carteri f. nagariensis] Length = 381 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 71/256 (27%), Positives = 122/256 (47%), Gaps = 26/256 (10%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEV---DGV 65 N + R++KV+A G+ASRR E +I++ RV+VNG ++ E+ +TD +E+ V Sbjct: 72 NESRPRLAKVLAACGVASRRACEELISEGRVRVNGRVVSEQGTTIDPTTDRVELLVKYSV 131 Query: 66 PLRKAERTRL--WLYHKP-IGLVTTHSDPDGRSTVFDNL---------------PSIFSR 107 L + R R +Y +P G + + SD GR + L + R Sbjct: 132 NLHRGHRVRRHNLIYPEPDKGYICSSSDVSGRGKLAVQLLNPWLEQWRRNSKDTKRLPPR 191 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 +VGRLD+ + GL+ +TNDG A + PS+ + Y V + +L L G + Sbjct: 192 FFTVGRLDVASSGLIFITNDGHWANRVIHPSSGLTKEYVVGLGRDASRPQLQALAAGTEV 251 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G ++V + G + + + ++EGK E++++ + ++ L R+ G F+L Sbjct: 252 AGTFVSPVEVEV---LGDSRRLRIVVQEGKKHEVRELVKAAGLELTSLKRVRIGGFRLPR 308 Query: 228 LLA-GSTREVSKKILR 242 L G RE+ LR Sbjct: 309 DLGIGGFRELKPSDLR 324 >gi|160875701|ref|YP_001555017.1| pseudouridine synthase [Shewanella baltica OS195] gi|160861223|gb|ABX49757.1| pseudouridine synthase [Shewanella baltica OS195] gi|315267890|gb|ADT94743.1| pseudouridine synthase [Shewanella baltica OS678] Length = 282 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 49/169 (28%), Positives = 84/169 (49%), Gaps = 16/169 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P + V + GRLD ++EGLLLLTNDG L L Sbjct: 105 LFNKPFDVLCQFTDEQGRKTLKDYIP--IADVYAAGRLDRDSEGLLLLTNDGQLQARLTE 162 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT-------------Q 182 P + + Y V+ G +D L L++G+ + G+ +D+ + Sbjct: 163 PKKKTFKTYWVQVEGVPTEDALTKLRQGVELNDGMTLPAKVKIMDSPDIWPRNPPVRERK 222 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RLIR G + L L +G Sbjct: 223 NIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDNLPSG 271 >gi|229085292|ref|ZP_04217534.1| Pseudouridine synthase [Bacillus cereus Rock3-44] gi|228698011|gb|EEL50754.1| Pseudouridine synthase [Bacillus cereus Rock3-44] Length = 238 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 66/225 (29%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISESGKASRRGADKLINERRVIING-KVAKIGDQVQPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + RV VGRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIID-LVNHPLRVNHVGRLDKDSDGLILLTNDGDIINEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPEFLKQMAAGVKILGTKTLPCEIT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R QL L G R+++KK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIQLNNLPVGQWRDLTKK 222 >gi|213859463|ref|ZP_03385167.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. M223] Length = 231 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 61/226 (26%), Positives = 104/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + TL+ +T+ Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNRKSLTKPATLEVITPVQVRLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F +V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEE 225 >gi|313884640|ref|ZP_07818398.1| 16S pseudouridylate 516 synthase [Eremococcus coleocola ACS-139-V-Col8] gi|312620150|gb|EFR31581.1| 16S pseudouridylate 516 synthase [Eremococcus coleocola ACS-139-V-Col8] Length = 242 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 65/212 (30%), Positives = 106/212 (50%), Gaps = 7/212 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A G+ SR+EV+++I +++VN + + + V DH +V + + Sbjct: 3 RLDKFLATLGLGSRKEVKKLITSGQIQVNDVTVTKVNHGV-DEDHDQVAYLGQELVYQAY 61 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 + + +KP GLV+ D TV D + F V VGRLDI+T GLLLLTN+G LA Sbjct: 62 YYVMLNKPDGLVSATEDK-MHETVIDWVALDFDHVDLFPVGRLDIDTTGLLLLTNNGQLA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNAWVT 190 L P + Y+ GQV + + GI ++ ++ LD + +T Sbjct: 121 HQLLSPKKHVAKTYQALVTGQVSEVDIAAFAAGIRLKDFTAQAAELEILDYDPDKDQSLT 180 Query: 191 -VGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V + EGK ++K++F + +V L R+S G Sbjct: 181 KVTIHEGKFHQVKRMFLARDHEVLHLHRVSMG 212 >gi|229847199|ref|ZP_04467303.1| hypothetical protein CGSHi7P49H1_08845 [Haemophilus influenzae 7P49H1] gi|229809875|gb|EEP45597.1| hypothetical protein CGSHi7P49H1_08845 [Haemophilus influenzae 7P49H1] Length = 227 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 51/183 (27%), Positives = 96/183 (52%), Gaps = 20/183 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T + L++KP ++T +D GR+T+ F ++P++++ GRLD ++EGLL+LTN+G Sbjct: 36 DETTVVLFNKPFDVLTQFTDEQGRATLKDFISIPNVYA----AGRLDRDSEGLLILTNNG 91 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L L P + + Y V+ G ++ L L+KG+ ++ QV L ++ Sbjct: 92 ELQHRLSDPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGMTKQAQVRLISEPNLWER 151 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + + EG+NR+++++ + RL+R+S G + L GS R Sbjct: 152 NPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSINGLENGSFR 211 Query: 235 EVS 237 +S Sbjct: 212 LLS 214 >gi|195938767|ref|ZP_03084149.1| 23S rRNA pseudouridine synthase E [Escherichia coli O157:H7 str. EC4024] gi|254792595|ref|YP_003077432.1| 23S rRNA pseudouridine synthase E [Escherichia coli O157:H7 str. TW14359] gi|261227236|ref|ZP_05941517.1| 23S rRNA pseudouridine synthase [Escherichia coli O157:H7 str. FRIK2000] gi|261258757|ref|ZP_05951290.1| 23S rRNA pseudouridine synthase [Escherichia coli O157:H7 str. FRIK966] gi|291282170|ref|YP_003498988.1| Ribosomal large subunit pseudouridine synthase E [Escherichia coli O55:H7 str. CB9615] gi|34098618|sp|Q8X724|RLUE_ECO57 RecName: Full=Ribosomal large subunit pseudouridine synthase E; AltName: Full=rRNA pseudouridylate synthase E; AltName: Full=rRNA-uridine isomerase E gi|13361071|dbj|BAB35030.1| hypothetical protein [Escherichia coli O157:H7 str. Sakai] gi|209772818|gb|ACI84721.1| hypothetical protein ECs1607 [Escherichia coli] gi|209772820|gb|ACI84722.1| hypothetical protein ECs1607 [Escherichia coli] gi|209772822|gb|ACI84723.1| hypothetical protein ECs1607 [Escherichia coli] gi|209772824|gb|ACI84724.1| hypothetical protein ECs1607 [Escherichia coli] gi|209772826|gb|ACI84725.1| hypothetical protein ECs1607 [Escherichia coli] gi|254591995|gb|ACT71356.1| 23S rRNA pseudouridine synthase [Escherichia coli O157:H7 str. TW14359] gi|290762043|gb|ADD56004.1| Ribosomal large subunit pseudouridine synthase E [Escherichia coli O55:H7 str. CB9615] gi|320637603|gb|EFX07403.1| 23S rRNA pseudouridine synthase E [Escherichia coli O157:H7 str. G5101] gi|320643163|gb|EFX12364.1| 23S rRNA pseudouridine synthase E [Escherichia coli O157:H- str. 493-89] gi|320653933|gb|EFX22007.1| 23S rRNA pseudouridine synthase E [Escherichia coli O55:H7 str. 3256-97 TW 07815] gi|320659413|gb|EFX26982.1| 23S rRNA pseudouridine synthase E [Escherichia coli O55:H7 str. USDA 5905] Length = 217 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 53/181 (29%), Positives = 90/181 (49%), Gaps = 17/181 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G D L Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPP 156 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREAT 216 Query: 238 K 238 + Sbjct: 217 E 217 >gi|217973052|ref|YP_002357803.1| pseudouridine synthase [Shewanella baltica OS223] gi|217498187|gb|ACK46380.1| pseudouridine synthase [Shewanella baltica OS223] Length = 282 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 49/169 (28%), Positives = 84/169 (49%), Gaps = 16/169 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P + V + GRLD ++EGLLLLTNDG L L Sbjct: 105 LFNKPFDVLCQFTDEQGRKTLKDYIP--IADVYAAGRLDRDSEGLLLLTNDGQLQARLTE 162 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT-------------Q 182 P + + Y V+ G +D L L++G+ + G+ +D+ + Sbjct: 163 PKKKTFKTYWVQVEGVPTEDALTKLRQGVELNDGMTLPAKVKIMDSPDIGPRNPPVRERK 222 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RLIR G + L L +G Sbjct: 223 NIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDNLPSG 271 >gi|293396525|ref|ZP_06640801.1| ribosomal large subunit pseudouridine synthase E [Serratia odorifera DSM 4582] gi|291420789|gb|EFE94042.1| ribosomal large subunit pseudouridine synthase E [Serratia odorifera DSM 4582] Length = 208 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 53/174 (30%), Positives = 88/174 (50%), Gaps = 17/174 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR+T+ + +P F+ V + GRLD ++EGLL+LTNDG L Sbjct: 30 RVILFNKPFDVLPQFTDEAGRATLKEFIP--FNDVYAAGRLDRDSEGLLVLTNDGKLQAQ 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------- 179 L P + +VY V+ G D + L+ G+ ++ G+ D L Sbjct: 88 LTQPGKRTGKVYYVQVEGAPQDDDVAPLRAGVTLKDGPTLPAGVELVDEPTWLWPRHPPI 147 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + W+ + L EG+NR+++++ + RLIR S G LG L G Sbjct: 148 RERKAIPTRWLKITLYEGRNRQVRRMTAHIGFPTLRLIRYSMGELALGELQPGE 201 >gi|290968302|ref|ZP_06559844.1| pseudouridylate synthase [Megasphaera genomosp. type_1 str. 28L] gi|290781661|gb|EFD94247.1| pseudouridylate synthase [Megasphaera genomosp. type_1 str. 28L] Length = 238 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 69/221 (31%), Positives = 103/221 (46%), Gaps = 12/221 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++ +G SR+EV + Q RV VNG I + A + D ++VD P+ E Sbjct: 6 RLDKWLSHSGQGSRKEVRDLCRQGRVLVNGEICRDGAQLVETGVDRVQVDRQPVCYEEFY 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 + L HKP G+++ +D R TV D LP V VGRLD +T GLLLLTNDG A Sbjct: 66 YIML-HKPRGVISATTDAACR-TVLDFLPPPCRTGGVFPVGRLDKDTTGLLLLTNDGVWA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWV 189 + P +VY G + +D IV+ +C + +D Q V Sbjct: 124 HRILSPKKHCYKVYEATVSGSIPEDLTVRFASRIVLADGTVCLPARALRIDGQT-----V 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + EG+ ++K++ +V L R G L L+ Sbjct: 179 EITVYEGRYHQVKRMCAAVGLQVLSLHRHKIGALGLDPALS 219 >gi|170768017|ref|ZP_02902470.1| ribosomal large subunit pseudouridine synthase E [Escherichia albertii TW07627] gi|170122783|gb|EDS91714.1| ribosomal large subunit pseudouridine synthase E [Escherichia albertii TW07627] Length = 207 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 53/181 (29%), Positives = 89/181 (49%), Gaps = 17/181 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 29 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 86 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 L P + ++Y V+ G QD L L+ G+ + V L T+ Sbjct: 87 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGVELVTEPEWLWPRNPP 146 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 147 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGNYTLDNLANGEWREAT 206 Query: 238 K 238 + Sbjct: 207 E 207 >gi|161502618|ref|YP_001569730.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980] gi|160863965|gb|ABX20588.1| hypothetical protein SARI_00665 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:--] Length = 231 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 61/226 (26%), Positives = 103/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + TL+ +T+ Sbjct: 122 TSPRHHCEKTYLVTLESPVTDDTAAQFAKGVQLHNEKELTKPATLEVVTPVQVRLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGAITLDEDLAPGEYRPLTEE 225 >gi|319638629|ref|ZP_07993391.1| RNA-binding protein [Neisseria mucosa C102] gi|317400378|gb|EFV81037.1| RNA-binding protein [Neisseria mucosa C102] Length = 247 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 73/238 (30%), Positives = 113/238 (47%), Gaps = 26/238 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q VKVNG + AV V D I+++ K Sbjct: 10 RLSKRMAQLGLCSRREADSYIEQGWVKVNG----QTAVLGQKVTERDRIDLNKQAHEKQA 65 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRS-----TVFDNLPSIFSRV----------ISVGRLDI 116 L +KP+G V+ ++ +S T ++ SR+ GRLDI Sbjct: 66 ARVTILLNKPVGYVSAQAEKGYKSAAELITADNHWEGDDSRIPFSEKHKFGLAPAGRLDI 125 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 ++ GLL+LT DG +A+ L ++ + Y VR G++D L LL G+ + G + Sbjct: 126 DSVGLLVLTQDGRIAKQLIGENSSSEKEYLVRVRGKLDNKGLALLNHGLSLDGEKLRPAK 185 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V + + LR+GK R+I+++ E +V L RI G +LG L G R Sbjct: 186 VEWQNED----QLRFILRQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWR 239 >gi|317491859|ref|ZP_07950294.1| RNA pseudouridylate synthase [Enterobacteriaceae bacterium 9_2_54FAA] gi|316920293|gb|EFV41617.1| RNA pseudouridylate synthase [Enterobacteriaceae bacterium 9_2_54FAA] Length = 207 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 53/175 (30%), Positives = 90/175 (51%), Gaps = 17/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP ++ +D GRST+ D +P + V + GRLD ++EGLL+LTNDG L L Sbjct: 33 IFNKPFDVLPQFTDEAGRSTLKDFIP--LTDVYAAGRLDRDSEGLLVLTNDGKLQAQLTQ 90 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQ------------ 182 P + +VY V+ G D L ++G+ ++ G+ +++ + + Sbjct: 91 PGQKTGKVYYVQVEGVPDDAALAQFRQGLELKDGMTLPAGIEIVAEPEWLWPRNPPIRER 150 Query: 183 -KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 AW+ V L EG+NR+++++ + RLIR S G + L L G RE+ Sbjct: 151 KSIPTAWIKVILFEGRNRQVRRMTAHIGFPTLRLIRYSMGDYTLDNLANGEWREM 205 >gi|322376975|ref|ZP_08051468.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. M334] gi|321282782|gb|EFX59789.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. M334] Length = 241 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 63/179 (35%), Positives = 96/179 (53%), Gaps = 6/179 (3%) Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFS-RVISVGRLDINTEGLLLL 124 +R E T L L HKP G+VT + D + TV D L P I S ++ +VGRLD +T GLLL+ Sbjct: 54 IRGYEHTYLML-HKPAGVVTANKDRE-LPTVMDLLSPDIQSDKLYAVGRLDRDTTGLLLV 111 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQK 183 T++G L L P + YRV +G + D + +KGIV + G ++ + + Sbjct: 112 TDNGPLGFQLLHPQYHVDKTYRVEVNGLLTPDHIQAFQKGIVFLDGTVCKPARLEILSAS 171 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 S + ++ + EGK ++KK+F KV L R +GP+ L L AG R ++ + L Sbjct: 172 PSLSQASITISEGKFHQVKKMFLSVGVKVTSLKRTHFGPWSLDENLQAGDYRPLNSEEL 230 >gi|296876964|ref|ZP_06901008.1| ribosomal small subunit pseudouridine synthase A [Streptococcus parasanguinis ATCC 15912] gi|296431999|gb|EFH17802.1| ribosomal small subunit pseudouridine synthase A [Streptococcus parasanguinis ATCC 15912] Length = 241 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 64/229 (27%), Positives = 117/229 (51%), Gaps = 8/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A A R+++++++A++++ V+ + ++ + N+ I++ G + + R Sbjct: 2 RLDQLMADHQYA-RKDIKQLLARRQILVDHLPAQKLSQNIDPGLQQIQI-GERIIQEPRH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ HKPIG VT D TV D + + + +GRLD +T GLLL+T++G L Sbjct: 60 HYYMLHKPIGAVTAKRDAH-HPTVIDLVDPQQEYPDLYPLGRLDRDTSGLLLITDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVT 190 L P +VY V +G + + + GI G +T+ S + Sbjct: 119 FQLLHPQYHVEKVYEVEVNGPLYAAHIEQFQNGISFTDGPICKPASLTILESTPSYSKAQ 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK 238 V + EGK ++KK+F KV L R+S+GPF L LA G +R +++ Sbjct: 179 VRISEGKYHQVKKMFLAIGVKVMTLKRLSFGPFTLDPQLAPGESRPLNE 227 >gi|313674669|ref|YP_004052665.1| ribosomal large subunit pseudouridine synthase f [Marivirga tractuosa DSM 4126] gi|312941367|gb|ADR20557.1| ribosomal large subunit pseudouridine synthase F [Marivirga tractuosa DSM 4126] Length = 243 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 61/217 (28%), Positives = 107/217 (49%), Gaps = 11/217 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K ++ AG SRR +++I + V +NG + E V D + V G + + Sbjct: 6 KRINKFLSEAGYCSRRNADKLIEEGAVTINGKIPE-MGTKVGPDDEVRVKGELITEPNSN 64 Query: 74 RLWL-YHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++L ++KP G+V T + + D N P R+ +GRLD +EGL+LLTNDG + Sbjct: 65 FVYLAFNKPRGIVCTTDTRREKDNIIDYINYPE---RIFPIGRLDKYSEGLILLTNDGDI 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + D + + G+ I V Q G +++ Sbjct: 122 VNKILRARNNHEKEYIVHLNKPIKGDFIQKMGDGVPILDTVTKKCFV---EQIGKSSFKI 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 + L +G NR+I+++ E+F++KV L RI +L T Sbjct: 179 I-LTQGLNRQIRRMCEYFDYKVAGLKRIRIMNVKLDT 214 >gi|261380881|ref|ZP_05985454.1| ribosomal large subunit pseudouridine synthase F [Neisseria subflava NJ9703] gi|284796358|gb|EFC51705.1| ribosomal large subunit pseudouridine synthase F [Neisseria subflava NJ9703] Length = 247 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 73/238 (30%), Positives = 113/238 (47%), Gaps = 26/238 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q VKVNG + AV V D I+++ K Sbjct: 10 RLSKRMAQLGLCSRREADSYIEQGWVKVNG----QTAVLGQKVTERDRIDLNKQAHEKQA 65 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRS-----TVFDNLPSIFSRV----------ISVGRLDI 116 L +KP+G V+ ++ +S T ++ SR+ GRLDI Sbjct: 66 ARVTILLNKPVGYVSAQAEKGYKSAAELITAENHWEGDDSRIPFSEKHKFGLAPAGRLDI 125 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 ++ GLL+LT DG +A+ L ++ + Y VR G++D L LL G+ + G + Sbjct: 126 DSVGLLVLTQDGRIAKQLIGENSSSEKEYLVRVRGKLDDKGLALLNHGLSLDGEKLRPAK 185 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V + + LR+GK R+I+++ E +V L RI G +LG L G R Sbjct: 186 VEWQNED----QLRFILRQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWR 239 >gi|322616613|gb|EFY13522.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 315996572] gi|322619872|gb|EFY16746.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-1] gi|322622440|gb|EFY19285.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-3] gi|322629442|gb|EFY26219.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-4] gi|322632938|gb|EFY29681.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-1] gi|322636817|gb|EFY33520.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-2] gi|322641383|gb|EFY38022.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 531954] gi|322645148|gb|EFY41677.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. NC_MB110209-0054] gi|322652311|gb|EFY48667.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. OH_2009072675] gi|322655663|gb|EFY51965.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. CASC_09SCPH15965] gi|322660968|gb|EFY57198.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] gi|322665446|gb|EFY61634.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 81038-01] gi|322667577|gb|EFY63738.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. MD_MDA09249507] gi|322673629|gb|EFY69731.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 414877] gi|322677555|gb|EFY73619.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 366867] gi|322679780|gb|EFY75819.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 413180] gi|322687253|gb|EFY83225.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 446600] gi|323193055|gb|EFZ78277.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 609458-1] gi|323199448|gb|EFZ84541.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 556150-1] gi|323203636|gb|EFZ88658.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 609460] gi|323208823|gb|EFZ93761.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 507440-20] gi|323214161|gb|EFZ98921.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] gi|323217797|gb|EGA02512.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. MB101509-0077] gi|323218892|gb|EGA03403.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. MB102109-0047] gi|323226640|gb|EGA10840.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. MB110209-0055] gi|323229600|gb|EGA13723.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. MB111609-0052] gi|323232825|gb|EGA16921.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 2009083312] gi|323240139|gb|EGA24183.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 2009085258] gi|323242874|gb|EGA26895.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. 315731156] gi|323246790|gb|EGA30760.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2009159199] gi|323254310|gb|EGA38127.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008282] gi|323255576|gb|EGA39335.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008283] gi|323259410|gb|EGA43046.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008284] gi|323267006|gb|EGA50491.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008285] gi|323272110|gb|EGA55524.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008287] Length = 221 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 54/181 (29%), Positives = 90/181 (49%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 40 RVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLTNDGALQAR 97 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + ++Y V+ G D + L L+ G+ + GI + Sbjct: 98 LTQPGKRTGKIYYVQVEGIPDNEALQALRTGVTLNDGPTLPAGIEIVAEPDWLWPRTPPI 157 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ V L EG+NR+++++ RLIR S G + L L G RE+++ Sbjct: 158 RERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLSGLDNGQWREIAQ 217 Query: 239 K 239 + Sbjct: 218 E 218 >gi|145580106|pdb|2OML|A Chain A, Crystal Structure Of E. Coli Pseudouridine Synthase Rlue Length = 189 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 57/187 (30%), Positives = 93/187 (49%), Gaps = 19/187 (10%) Query: 68 RKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 RK E TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LT Sbjct: 4 RKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLT 61 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVT 178 N+G L L P + ++Y V+ G QD L L+ G+ + G D Sbjct: 62 NNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAW 121 Query: 179 L--------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 L + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 122 LWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLAN 181 Query: 231 GSTREVS 237 G REV+ Sbjct: 182 GEWREVT 188 >gi|304409066|ref|ZP_07390687.1| pseudouridine synthase [Shewanella baltica OS183] gi|307303069|ref|ZP_07582824.1| pseudouridine synthase [Shewanella baltica BA175] gi|304352887|gb|EFM17284.1| pseudouridine synthase [Shewanella baltica OS183] gi|306913429|gb|EFN43851.1| pseudouridine synthase [Shewanella baltica BA175] Length = 282 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 49/169 (28%), Positives = 84/169 (49%), Gaps = 16/169 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P + V + GRLD ++EGLLLLTNDG L L Sbjct: 105 LFNKPFDVLCQFTDEQGRKTLKDYIP--IADVYAAGRLDRDSEGLLLLTNDGQLQARLTE 162 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT-------------Q 182 P + + Y V+ G +D L L++G+ + G+ +D+ + Sbjct: 163 PKKKTFKTYWVQVEGVPTEDALTKLRQGVELNDGMTLPAKVKIMDSPDIGPRNPPVRERK 222 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RLIR G + L L +G Sbjct: 223 NIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDNLPSG 271 >gi|261378838|ref|ZP_05983411.1| ribosomal large subunit pseudouridine synthase F [Neisseria cinerea ATCC 14685] gi|269144818|gb|EEZ71236.1| ribosomal large subunit pseudouridine synthase F [Neisseria cinerea ATCC 14685] Length = 252 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 73/243 (30%), Positives = 114/243 (46%), Gaps = 30/243 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK IA+ G+ SRRE + I Q V VNG + AV V TD IE++ + Sbjct: 15 RLSKRIAQLGLCSRREADGYIEQGWVTVNG----KTAVLGQKVSPTDRIELNKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-----------------FDNLPSIFSRVISVGRL 114 L +KP+G V+ ++ +S FD P + GRL Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITSENRWEGDTSRIRFD--PKHKIGLAPAGRL 128 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Sbjct: 129 DIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRP 188 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +V + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 189 AKVEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWR 244 Query: 235 EVS 237 ++ Sbjct: 245 YLA 247 >gi|241759798|ref|ZP_04757898.1| RNA pseudouridine synthase family protein [Neisseria flavescens SK114] gi|241319806|gb|EER56202.1| RNA pseudouridine synthase family protein [Neisseria flavescens SK114] Length = 247 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 73/238 (30%), Positives = 113/238 (47%), Gaps = 26/238 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q VKVNG + AV V D I+++ K Sbjct: 10 RLSKRMAQLGLCSRREADSYIEQGWVKVNG----QTAVLGQKVTERDRIDLNKQAHEKQA 65 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRS-----TVFDNLPSIFSRV----------ISVGRLDI 116 L +KP+G V+ ++ +S T ++ SR+ GRLDI Sbjct: 66 ARVTILLNKPVGYVSAQAEKGYKSAAELITADNHWEDDDSRIPFSEKHKFGLAPAGRLDI 125 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 ++ GLL+LT DG +A+ L ++ + Y VR G++D L LL G+ + G + Sbjct: 126 DSVGLLVLTQDGRIAKQLIGENSSSEKEYLVRVRGKLDDKGLALLNHGLSLDGEKLRPAK 185 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V + + LR+GK R+I+++ E +V L RI G +LG L G R Sbjct: 186 VEWQNEDQ----LRFILRQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWR 239 >gi|15801332|ref|NP_287349.1| 23S rRNA pseudouridine synthase E [Escherichia coli O157:H7 EDL933] gi|162139799|ref|NP_309634.2| 23S rRNA pseudouridine synthase E [Escherichia coli O157:H7 str. Sakai] gi|168749738|ref|ZP_02774760.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4113] gi|168756474|ref|ZP_02781481.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4401] gi|187776203|ref|ZP_02801059.2| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4196] gi|189010504|ref|ZP_02807479.2| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4076] gi|189403535|ref|ZP_02796010.2| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4486] gi|189404169|ref|ZP_02787559.2| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4501] gi|189405017|ref|ZP_02812617.2| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC869] gi|208809289|ref|ZP_03251626.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4206] gi|208815426|ref|ZP_03256605.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4045] gi|208822240|ref|ZP_03262559.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4042] gi|209396285|ref|YP_002270052.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4115] gi|217327988|ref|ZP_03444070.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. TW14588] gi|12514789|gb|AAG55961.1|AE005329_5 orf, hypothetical protein [Escherichia coli O157:H7 str. EDL933] gi|187768550|gb|EDU32394.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4196] gi|188015997|gb|EDU54119.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4113] gi|189000066|gb|EDU69052.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4076] gi|189356411|gb|EDU74830.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4401] gi|189360150|gb|EDU78569.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4486] gi|189367183|gb|EDU85599.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4501] gi|189372526|gb|EDU90942.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC869] gi|208729090|gb|EDZ78691.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4206] gi|208732074|gb|EDZ80762.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4045] gi|208737725|gb|EDZ85408.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4042] gi|209157685|gb|ACI35118.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC4115] gi|217318415|gb|EEC26841.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. TW14588] gi|320648100|gb|EFX16776.1| 23S rRNA pseudouridine synthase E [Escherichia coli O157:H- str. H 2687] gi|320664550|gb|EFX31701.1| 23S rRNA pseudouridine synthase E [Escherichia coli O157:H7 str. LSU-61] Length = 207 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 53/181 (29%), Positives = 90/181 (49%), Gaps = 17/181 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 29 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 86 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G D L Sbjct: 87 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPP 146 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 147 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREAT 206 Query: 238 K 238 + Sbjct: 207 E 207 >gi|238791770|ref|ZP_04635407.1| Ribosomal large subunit pseudouridine synthase F [Yersinia intermedia ATCC 29909] gi|238728874|gb|EEQ20391.1| Ribosomal large subunit pseudouridine synthase F [Yersinia intermedia ATCC 29909] Length = 290 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 115/233 (49%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I +GI SRR+ +R I Q V +NG +RAAV V S D ++V+G + R Sbjct: 8 RLNKYIGESGICSRRDADRYIEQGHVFING---KRAAVGDQVYSGDVVKVNGQLIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L +KP+G+++T + G S + + RV +GRLD +++GL+ LTN G L Sbjct: 65 NDLVLIALNKPVGIISTTEE--GESDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V ++ + L G+ + G +V+ K + Sbjct: 123 VNKILRAGNDHEKEYLVTVNKPVTEEFILGLGAGVPMMGTVTKKCKVS----KVATFVFN 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ + F ++V +L R L L G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNVTLKGLPMGEWRDLTDDELIE 231 >gi|89073382|ref|ZP_01159906.1| putative pseudouridine synthase family 1 protein [Photobacterium sp. SKA34] gi|89050869|gb|EAR56343.1| putative pseudouridine synthase family 1 protein [Photobacterium sp. SKA34] Length = 216 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 57/189 (30%), Positives = 90/189 (47%), Gaps = 20/189 (10%) Query: 67 LRKAERTR----LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 L K +R+R + L++KP +T S G ST+ D +P V GRLD ++EGLL Sbjct: 23 LNKPKRSRGPQKIILFNKPFNTLTQFSGEPGDSTLADFIP--VKDVYPAGRLDKDSEGLL 80 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-------------VIQG 169 +LTNDG L L P ++ +VY V+ G + L L+ G+ VI+ Sbjct: 81 VLTNDGVLQARLTQPKSKQAKVYWVQVEGAPTETNLQALRDGVELKDGMTLPAGVEVIES 140 Query: 170 ICYGDMQVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 D + +K W+ + L+EG+NR+++++ RLIR + + L Sbjct: 141 PIVWDRNPPIRERKNIPTTWLAITLKEGRNRQVRRMTAHIGHPTLRLIRYQMAQWTVSDL 200 Query: 229 LAGSTREVS 237 G REV+ Sbjct: 201 APGEWREVT 209 >gi|319896936|ref|YP_004135131.1| ribosomal small subunit pseudouridine synthase a [Haemophilus influenzae F3031] gi|317432440|emb|CBY80795.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae F3031] Length = 232 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 62/226 (27%), Positives = 108/226 (47%), Gaps = 5/226 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E + Sbjct: 2 RLDKFIAENTGLTRSQATKAIHQSAVKINGEIVKSGAVQISQEDKIYFEDELLTWVEEDQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V ++ D D + F + P + ++ S GRLD++T GL+LLT+DG + Sbjct: 62 YFMLHKPQGCVCSNDDGDYPTIYQFFDYP-LAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+++ +GI+++G L+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 EG+ ++K++F KV L R G L +L G R +++ Sbjct: 179 SEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQ 224 >gi|148827867|ref|YP_001292620.1| hypothetical protein CGSHiGG_06765 [Haemophilus influenzae PittGG] gi|148719109|gb|ABR00237.1| hypothetical protein CGSHiGG_06765 [Haemophilus influenzae PittGG] Length = 227 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 50/183 (27%), Positives = 97/183 (53%), Gaps = 20/183 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T++ L++KP ++T +D GR+T+ F ++P++++ GRLD ++EGLL+LTN+G Sbjct: 36 DETKVVLFNKPFDVLTQFTDEQGRATLKDFISIPNVYA----AGRLDRDSEGLLILTNNG 91 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L L P + + Y V+ G ++ L L+KG+ ++ +V L ++ Sbjct: 92 ELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKPAKVRLISEPNLWER 151 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + + EG+NR+++++ + RL+R+S G + L GS R Sbjct: 152 NPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSINGLENGSFR 211 Query: 235 EVS 237 +S Sbjct: 212 LLS 214 >gi|320322675|gb|EFW78768.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. glycinea str. B076] gi|320330540|gb|EFW86519.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. glycinea str. race 4] Length = 210 Score = 79.7 bits (195), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 54/183 (29%), Positives = 92/183 (50%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L+L++KP ++T SD GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 KLFLFNKPFDVLTQFSDEGGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ ++L L+ G+ + G LD Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPTDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPRNPP 147 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + ++EG NR+++++ RL+R+ G + L L G REV+ Sbjct: 148 VRFRKSVPTSWLELVIKEGCNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYREVA 207 Query: 238 KKI 240 K+ Sbjct: 208 AKL 210 >gi|229828352|ref|ZP_04454421.1| hypothetical protein GCWU000342_00410 [Shuttleworthia satelles DSM 14600] gi|229792946|gb|EEP29060.1| hypothetical protein GCWU000342_00410 [Shuttleworthia satelles DSM 14600] Length = 265 Score = 79.7 bits (195), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 61/233 (26%), Positives = 116/233 (49%), Gaps = 8/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR++K + AG+ SRRE + I +V ++G E V+ + V+G + E Sbjct: 24 QRLNKFLTNAGVCSRREADHRIRAGQVTIDGQTAE-LGQRVLPGQRVAVNGRIIEGKEEE 82 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L+HKP G+V T + + V F PS RV VGRLD + GL+L+TN G + Sbjct: 83 IILLFHKPRGIVCTAEKREKNNIVDFIGYPS---RVYPVGRLDKESRGLILMTNQGDIVN 139 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + + Y+V + + + + ++ GI ++ + G+ + + T+ Sbjct: 140 RMMRAANRHEKEYQVTVNRGISETFVRRMRAGIYLKEL--GETTRPCQIHQTGDRTFTII 197 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L +G NR+I+++ ++V L+R+ +L + G R++ ++ RE+L Sbjct: 198 LTQGLNRQIRRMCHTLGYEVTDLLRVRIMNLRLDGIPEGEYRKIGRR-EREEL 249 >gi|255767687|ref|NP_390882.2| 16S pseudouridylate synthase [Bacillus subtilis subsp. subtilis str. 168] gi|269849526|sp|O32068|YTZG_BACSU RecName: Full=Uncharacterized RNA pseudouridine synthase ytzG; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|225185315|emb|CAB14982.2| putative 16S pseudouridylate synthase [Bacillus subtilis subsp. subtilis str. 168] Length = 239 Score = 79.7 bits (195), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 65/220 (29%), Positives = 107/220 (48%), Gaps = 6/220 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A +G SR+EV+ ++ V ++G + +V T + V G P+ E Sbjct: 2 RLDKLLANSGYGSRKEVKAVVKAGAVMIDGKPAKDVKEHVDPDTQEVTVYGEPVDYREFI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 L + +KP G+++ D + TV D L R GRLD +TEG LLLTNDG LA Sbjct: 62 YLMM-NKPQGVLSATED-SRQQTVVDLLTPEEMRFEPFPAGRLDKDTEGFLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P + Y V Q+ ++ ++ L+ G+ I+ G + + T N + Sbjct: 120 HRLLSPKKHVPKTYEVHLKSQISREDISDLETGVYIEGGYKTKPAKAEIKTNDSGNTVIY 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + EGK ++K++ + +V L R+S G L LA Sbjct: 180 LTITEGKYHQVKQMAKAVGNEVVYLKRLSMGRVSLDPALA 219 >gi|114047181|ref|YP_737731.1| ribosomal large subunit pseudouridine synthase E [Shewanella sp. MR-7] gi|113888623|gb|ABI42674.1| ribosomal large subunit pseudouridine synthase E [Shewanella sp. MR-7] Length = 265 Score = 79.7 bits (195), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 61/237 (25%), Positives = 109/237 (45%), Gaps = 36/237 (15%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 + R G + R ER A+ R + + ST + G P+ + L++ Sbjct: 48 LQRGGTSERNSSERGGAKSRPQRHS-----------STTRTKPQGDPM-------IVLFN 89 Query: 80 KPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPST 139 KP ++ +D GR T+ D +P V + GRLD ++EGLLLLTNDG L L P Sbjct: 90 KPFDVLCQFTDEQGRKTLKDYIP--IPGVYAAGRLDRDSEGLLLLTNDGQLQAKLTEPKK 147 Query: 140 QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--------------DTQKGS 185 + + Y V+ G+ + L L++G+ ++ +V+L + + Sbjct: 148 KTFKTYWVQVEGEPTEADLAKLRQGVELKDGMTLPAKVSLMATPNVWPRNPPIRERKNIP 207 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR--EVSKKI 240 W+ + + EG+NR+++++ + RLIR G + L L G + +V++K+ Sbjct: 208 TTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDDLATGEHKCIQVTQKM 264 >gi|254228993|ref|ZP_04922414.1| conserved hypothetical protein [Vibrio sp. Ex25] gi|262394731|ref|YP_003286585.1| ribosomal large subunit pseudouridine synthase E [Vibrio sp. Ex25] gi|151938461|gb|EDN57298.1| conserved hypothetical protein [Vibrio sp. Ex25] gi|262338325|gb|ACY52120.1| ribosomal large subunit pseudouridine synthase E [Vibrio sp. Ex25] Length = 233 Score = 79.7 bits (195), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 52/175 (29%), Positives = 91/175 (52%), Gaps = 16/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP ++ +D DGR T+ D +P V + GRLD ++EGL++LTNDG L L Sbjct: 60 IFNKPYDTLSQFTDGDGRKTLADYIP--VKDVYAAGRLDRDSEGLMVLTNDGILQAKLTQ 117 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQ------------ 182 P ++ + Y V+ G + L L+KG+ ++ G+ +++V + Q Sbjct: 118 PKSKSPKTYWVQVDGAPLEQDLEKLRKGVELKDGMTLPAEVEVIPEPQVWDRTPPVRFRA 177 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ + + EG+NR+++++ + RLIR S G L L+ G RE+S Sbjct: 178 NIPTTWLAITIIEGRNRQVRRMTAHIGFPTLRLIRHSMGDIVLKDLMPGEWREIS 232 >gi|251782848|ref|YP_002997151.1| putative 16S pseudouridylate synthetase [Streptococcus dysgalactiae subsp. equisimilis GGS_124] gi|242391478|dbj|BAH81937.1| putative 16S pseudouridylate synthetase [Streptococcus dysgalactiae subsp. equisimilis GGS_124] Length = 238 Score = 79.7 bits (195), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 67/231 (29%), Positives = 114/231 (49%), Gaps = 14/231 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ SRR+V+++I Q V+++ + NV IE+ G + + + Sbjct: 2 RLDKLLEVVTDGSRRQVKQLIKGQDVRIDHEIAWSGRQNVDPGLQLIEISGKRISHPKHS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLLLTND 127 ++ +KP G+V+ SD + TV D L P ++ VGRLD +TEGL+LLT++ Sbjct: 62 -YFILNKPAGVVSARSDIN-HVTVLDQLSEKDRHPDLYP----VGRLDRDTEGLVLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G L + PS + Y V +G +D D + GI G Q+T+ Sbjct: 116 GPLGFRMLHPSHHVAKTYMVTVNGFLDADAPDFFAAGIKFPTGEQCRPAQLTILQASQEK 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + EGK ++KK+F + KV L R S+ +LG L +G+ R ++ Sbjct: 176 SQARLVISEGKFHQVKKMFLTYGLKVISLKRASFAGLELGELASGAYRSLT 226 >gi|238786255|ref|ZP_04630200.1| Ribosomal large subunit pseudouridine synthase F [Yersinia bercovieri ATCC 43970] gi|238712846|gb|EEQ04913.1| Ribosomal large subunit pseudouridine synthase F [Yersinia bercovieri ATCC 43970] Length = 290 Score = 79.7 bits (195), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 66/233 (28%), Positives = 119/233 (51%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM--STDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +RA V V + D ++V+G + R Sbjct: 8 RLNKYISESGICSRRDADRYIEQGNVFING---KRATVGVQVSAGDVVKVNGQIIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+++T D + + V + + RV +GRLD +++GL+LLTN G L Sbjct: 65 EDLILIALNKPVGVISTTEDGEQNNIV--DFVNHSKRVFPIGRLDKDSQGLILLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + L G+ + G +V ++ + Sbjct: 123 VNKILRAGNDHEKEYVVTVNKPVTDEFILGLGAGVPMLGTVTKKCKV----KREATFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ + F ++V +L R+ L L G R++++ L E Sbjct: 179 ITLVQGLNRQIRRMCKHFGYEVTKLERVRIMNISLKGLPQGEWRDLTEDELIE 231 >gi|152978114|ref|YP_001343743.1| pseudouridine synthase [Actinobacillus succinogenes 130Z] gi|150839837|gb|ABR73808.1| pseudouridine synthase [Actinobacillus succinogenes 130Z] Length = 243 Score = 79.7 bits (195), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 53/181 (29%), Positives = 95/181 (52%), Gaps = 16/181 (8%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +T++ L++KP ++T +D GR T+ D +P + + GRLD ++EGLL+LTN+G L Sbjct: 52 QTQVVLFNKPFDVLTQFTDESGRKTLKDFIP--VPGIYAAGRLDRDSEGLLILTNNGELQ 109 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----------VIQGICYGDM-QVTLD 180 L P + + Y V+ GQ + L L++G+ ++ I D+ Q Sbjct: 110 HRLANPKFKLPKTYWVQVEGQPTEADLERLRRGVELKDGMTKPAKVRSIAEPDLWQRVPP 169 Query: 181 TQKGSN---AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++ N AW+ + L EGKNR+++++ + RL+R + L L +G RE++ Sbjct: 170 IRERKNIPTAWLEIQLGEGKNRQVRRMTAHIGFPTLRLVRAATAGLTLHGLPSGQYRELT 229 Query: 238 K 238 + Sbjct: 230 E 230 >gi|83645148|ref|YP_433583.1| 16S rRNA uridine-516 pseudouridylate synthase-like protein [Hahella chejuensis KCTC 2396] gi|83633191|gb|ABC29158.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Hahella chejuensis KCTC 2396] Length = 202 Score = 79.7 bits (195), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 48/175 (27%), Positives = 90/175 (51%), Gaps = 20/175 (11%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +++KP+ ++T +D GR+T+ D + P +++ GRLD ++EGLLLLT+DG + + Sbjct: 6 VFNKPMNVLTQFNDSQGRATLSDFIDKPGVYA----AGRLDYDSEGLLLLTDDGAIQARI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------------- 181 P + + Y V+ G + + L L+KG+++ +L + Sbjct: 62 SQPKFKLPKTYWVQVEGVIGEAALRRLEKGVMLNDGPTRPAHASLISPPEVWERDPPIRQ 121 Query: 182 -QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + +W+ + L EG+NR+++++ + RLIR S GP+ + L G RE Sbjct: 122 RKNIPTSWIALTLFEGRNRQVRRMTAAVGFPTLRLIRYSIGPWSINGLQPGEWRE 176 >gi|329116700|ref|ZP_08245417.1| putative 16S pseudouridylate 516 synthase [Streptococcus parauberis NCFD 2020] gi|326907105|gb|EGE54019.1| putative 16S pseudouridylate 516 synthase [Streptococcus parauberis NCFD 2020] Length = 238 Score = 79.7 bits (195), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 65/216 (30%), Positives = 104/216 (48%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K + AGI SR +V+ ++ ++ V VNG + A + S D I G L E Sbjct: 2 RLDKFLVDAGIGSRSQVKSLLKKKEVLVNGQVESSAKRQIDSDKDQIVFQGQKLV-YEEF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ D + TV D L + V VGRLD +T GLLLLTN+G LA Sbjct: 61 LYYMLNKPAGVVSATED-NLHQTVVDLLDDRARQKEVFPVGRLDKDTHGLLLLTNNGELA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICY-GDMQVTLDTQKGSNAWV 189 L P ++Y G + + + GI + C ++V + V Sbjct: 120 HQLLTPKKHVDKIYLAHIEGMMTKKDQEAFENGIQLSDHHCLPATLEVLETDEHKQTCKV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + L+EGK ++K++ + +V L R++ GP +L Sbjct: 180 KITLKEGKFHQVKRMVKACGKEVTDLQRLTMGPLKL 215 >gi|253681751|ref|ZP_04862548.1| ribosomal large subunit pseudouridine synthase F [Clostridium botulinum D str. 1873] gi|253561463|gb|EES90915.1| ribosomal large subunit pseudouridine synthase F [Clostridium botulinum D str. 1873] Length = 226 Score = 79.7 bits (195), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 64/230 (27%), Positives = 115/230 (50%), Gaps = 10/230 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+++ GI SR+E R+I + R+ VNG + V D I +D P++K E+ Sbjct: 2 RINKLLSNYGICSRKEANRIIEENRIIVNGEVCIPGQW-VEEYDEILMDNEPIKKKEKIY 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP+G+ T + + + F N P + VGRLD ++EGL+L+TNDG L+ Sbjct: 61 IAL-NKPVGITCTAAREVKDNIIDFLNYPEY---IFPVGRLDKDSEGLILMTNDGELSNK 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V D + + +G+ + G+ VT + +N + L Sbjct: 117 ILESENHHEKEYIVTVDKPFDDSFIKGMSEGVQLNGVKTRPCIVT----RINNDTFRIIL 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +G NR+I+++ F + V +L RI ++ + G R ++ K + E Sbjct: 173 TQGLNRQIRRMTRAFRYTVIKLERIRILNIKINEIDVGKWRYLTHKEIDE 222 >gi|145635545|ref|ZP_01791244.1| hypothetical protein CGSHiAA_01247 [Haemophilus influenzae PittAA] gi|229845528|ref|ZP_04465656.1| hypothetical protein CGSHi6P18H1_07818 [Haemophilus influenzae 6P18H1] gi|145267208|gb|EDK07213.1| hypothetical protein CGSHiAA_01247 [Haemophilus influenzae PittAA] gi|229811544|gb|EEP47245.1| hypothetical protein CGSHi6P18H1_07818 [Haemophilus influenzae 6P18H1] Length = 227 Score = 79.7 bits (195), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 50/183 (27%), Positives = 97/183 (53%), Gaps = 20/183 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T++ L++KP ++T +D GR+T+ F ++P++++ GRLD ++EGLL+LTN+G Sbjct: 36 DETKVVLFNKPFDVLTQFTDEQGRATLKDFISIPNVYA----AGRLDRDSEGLLILTNNG 91 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L L P + + Y V+ G ++ L L+KG+ ++ +V L ++ Sbjct: 92 ELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKPAKVRLISEPNLWER 151 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + + EG+NR+++++ + RL+R+S G + L GS R Sbjct: 152 NPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSINGLENGSFR 211 Query: 235 EVS 237 +S Sbjct: 212 LLS 214 >gi|322374684|ref|ZP_08049198.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. C300] gi|321280184|gb|EFX57223.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. C300] Length = 241 Score = 79.7 bits (195), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 68/233 (29%), Positives = 117/233 (50%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A+ + SR+ +++ + ++ + V+ A NV + G ++ E Sbjct: 2 RLDRLLAQEKV-SRKAMKQALLKKEILVDDCPASSLAQNVDTGLQKLVFQGRQIQGYEHN 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT D TV D LP ++ ++GRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPNGVVTASKD-KKLPTVMDLLPPDIQSDQLYAIGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + K GIV + GI Q+ + + + + + Sbjct: 119 FQLLHPQYHVDKSYQVVVNGLLTSDHIQKFKDGIVFLDGITCKPAQLEILSSSPTESRAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + EGK ++KK+F KV L R+ +G F L LA G R ++ + L+ Sbjct: 179 ITISEGKFHQVKKMFLSVGVKVTALKRVQFGDFTLDPELAKGQYRPLNPEELK 231 >gi|255067937|ref|ZP_05319792.1| ribosomal large subunit pseudouridine synthase F [Neisseria sicca ATCC 29256] gi|255047819|gb|EET43283.1| ribosomal large subunit pseudouridine synthase F [Neisseria sicca ATCC 29256] Length = 247 Score = 79.7 bits (195), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 74/239 (30%), Positives = 118/239 (49%), Gaps = 28/239 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVD-GVPLRKA 70 R+SK +A+ G+ SRRE + I Q VKVNG + AV V D I+++ ++A Sbjct: 10 RLSKRMAQLGLCSRREADSYIEQGWVKVNG----QTAVLGQKVTERDRIDLNRQAHEKQA 65 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRS-----TVFDNLPSIFSRV----------ISVGRLD 115 ER + L +KP+G V+ ++ +S T + SR+ GRLD Sbjct: 66 ERVTI-LLNKPVGYVSAQAEKGYKSAAELITADNRWEGDDSRIPFNEKHKFGLAPAGRLD 124 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 I++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Sbjct: 125 IDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRPA 184 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +V + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 185 KVEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGKLPPGKWR 239 >gi|187732570|ref|YP_001879943.1| 23S rRNA pseudouridine synthase E [Shigella boydii CDC 3083-94] gi|187429562|gb|ACD08836.1| ribosomal large subunit pseudouridine synthase E [Shigella boydii CDC 3083-94] Length = 217 Score = 79.3 bits (194), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 53/181 (29%), Positives = 90/181 (49%), Gaps = 17/181 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G D L Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPP 156 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLANGEWREAT 216 Query: 238 K 238 + Sbjct: 217 E 217 >gi|291086679|ref|ZP_06356433.2| ribosomal large subunit pseudouridine synthase F [Citrobacter youngae ATCC 29220] gi|291067434|gb|EFE05543.1| ribosomal large subunit pseudouridine synthase F [Citrobacter youngae ATCC 29220] Length = 318 Score = 79.3 bits (194), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 73/250 (29%), Positives = 120/250 (48%), Gaps = 16/250 (6%) Query: 1 MKDKNIVQENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VM 55 +KD+ E P R++K I+ +GI SRRE +R I Q V +NG +RA + V Sbjct: 18 LKDEVYTGEIMLPDSSIRLNKYISESGICSRREADRFIEQGNVFLNG---KRATIGDQVK 74 Query: 56 STDHIEVDG--VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 D ++V+G + R+AE +KP+G+V+T D + R + D + RV +GR Sbjct: 75 PGDVVKVNGRLIEPREAEDLVFIALNKPVGIVSTTEDSE-RDNIVD-FVNHSKRVFPIGR 132 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LD +++GL+ LTN G L + + Y V + D + + G+ I G Sbjct: 133 LDKDSQGLIFLTNHGDLVNKILRAGNDHEKEYLVTVDKPITDDFIRGMGAGVPI----LG 188 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + +K + + L +G NR+I+++ E F ++V RL R L L G Sbjct: 189 TVTKKCKVKKEAPFVFRITLIQGLNRQIRRMCEHFGYEVTRLERTRIMNVGLSGLPLGEW 248 Query: 234 REVSKKILRE 243 R+++ L E Sbjct: 249 RDLTDDELIE 258 >gi|110801287|ref|YP_695597.1| RNA pseudouridine synthase family protein [Clostridium perfringens ATCC 13124] gi|168209502|ref|ZP_02635127.1| RNA pseudouridine synthase family protein [Clostridium perfringens B str. ATCC 3626] gi|110675934|gb|ABG84921.1| RNA pseudouridine synthase family protein [Clostridium perfringens ATCC 13124] gi|170712304|gb|EDT24486.1| RNA pseudouridine synthase family protein [Clostridium perfringens B str. ATCC 3626] Length = 228 Score = 79.3 bits (194), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 67/228 (29%), Positives = 120/228 (52%), Gaps = 14/228 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGI-LLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+ + GI SR+E ++I + RV VNG +E V + +D I +DG PL E+ Sbjct: 2 RINKLFSNFGICSRKETNKIIREGRVIVNGKPCIEGQWVEL--SDEILLDGKPLVPKEKI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP+G+V T ++ + + + D L I V +GRLD +++GL++LTNDG LA Sbjct: 60 YIAL-NKPVGVVCTAAE-EVKDNIIDYL-GIDDYVFPIGRLDKDSQGLIILTNDGDLANE 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGSNAWVTV 191 + + Y V D + +++G+ I G QVT ++ + ++ Sbjct: 117 VLAAENNHEKEYIVTLDQPFYDDFIEKMERGVEILG------QVTKPCKLKRINENTYSI 170 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L +G NR+I+++ + F + V +L RI L + G R ++++ Sbjct: 171 ILTQGLNRQIRRMSKVFGFNVVKLERIRILNITLEDIEYGKWRYINRE 218 >gi|150015235|ref|YP_001307489.1| pseudouridine synthase [Clostridium beijerinckii NCIMB 8052] gi|149901700|gb|ABR32533.1| pseudouridine synthase [Clostridium beijerinckii NCIMB 8052] Length = 238 Score = 79.3 bits (194), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 73/240 (30%), Positives = 120/240 (50%), Gaps = 21/240 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV---MSTDHIEVDGVPLRKA 70 +R+ K+I+ G SR++V+ + ++V+G++++ +A+ V S I + V RK Sbjct: 2 ERLDKIISNLGYGSRKDVKSFAKKGIIEVDGLIVKDSAMLVDPEKSVIKINGEEVLYRK- 60 Query: 71 ERTRLWLY---HKPIGLVT-THSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLL 124 ++Y +KP G+++ TH + D TV D NL +GRLD +T GLLLL Sbjct: 61 -----YIYIMMNKPDGVISATHDNRD--ETVIDLLNLEHQVFDPFPIGRLDKDTVGLLLL 113 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG L L P +VY VD+ + K GI + Y ++ L+ Sbjct: 114 TNDGELNHRLISPKWHVDKVYYAEIDKSVDEKDIKAFKDGITLDD-GYKCLEANLEILSS 172 Query: 185 SN--AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 SN + + + ++EGK ++K++FE KV L R +G L L G RE++ + L Sbjct: 173 SNDGSEIRLTIQEGKFHQVKRMFEAVGKKVTYLKREEFGGLLLDPDLEEGEYRELTDEEL 232 >gi|225028067|ref|ZP_03717259.1| hypothetical protein EUBHAL_02337 [Eubacterium hallii DSM 3353] gi|224954615|gb|EEG35824.1| hypothetical protein EUBHAL_02337 [Eubacterium hallii DSM 3353] Length = 273 Score = 79.3 bits (194), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 67/231 (29%), Positives = 113/231 (48%), Gaps = 13/231 (5%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPL 67 N P R++K ++ AG+ SRR+ +R + Q R+ V+G E A + V + I VDG + Sbjct: 32 NGEPMRLNKFLSDAGVCSRRQADRYVEQGRILVDG---EPAQMGQKVHAGQDIRVDGKRV 88 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + + +KP G+V T + + V F P R+ VGRLD ++EGL+L+TN Sbjct: 89 SVSRKQIVLAVNKPKGIVCTTEKREKDNIVDFIGYPE---RIYPVGRLDKDSEGLILMTN 145 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L + + Y V + V L + +G+ I +V + G Sbjct: 146 DGELMNEILKARNYHEKEYEVTINRPVTNVFLKQMSEGVEILDTVTRPCKV---KRTGVY 202 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + L +G NR+I+++ E ++V L R+ LG+L G RE++ Sbjct: 203 TFRII-LTQGLNRQIRRMCEACGYRVRELKRLRIMNIHLGSLPTGKYREIT 252 >gi|123442126|ref|YP_001006108.1| 23S rRNA pseudouridine synthase F [Yersinia enterocolitica subsp. enterocolitica 8081] gi|122089087|emb|CAL11923.1| conserved hypothetical protein [Yersinia enterocolitica subsp. enterocolitica 8081] Length = 290 Score = 79.3 bits (194), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 63/226 (27%), Positives = 116/226 (51%), Gaps = 13/226 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K I+ +GI SRR+ +R I Q V +NG +RA V V + D ++V+G + ++ Sbjct: 8 RLNKYISESGICSRRDADRYIEQGNVFING---KRATVGEQVYAGDVVKVNGQLIEPRDQ 64 Query: 73 TRLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L +KP+G++ T D +G + V + + RV +GRLD +++GL+ LTN G L Sbjct: 65 NDLVLIALNKPVGIICTTEDGEGDNIV--DFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + L G+ + G +V +K + + Sbjct: 123 VNKILRAGNDHEKEYVVTVNKPLTDEFILGLGAGVPMLGTVTKKCKV----RKEAPFVFS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + L +G NR+I+++ ++F ++V +L R L L G R++ Sbjct: 179 ITLVQGLNRQIRRMCKYFGYEVTKLERTRIMNINLKGLPIGEWRDL 224 >gi|194735157|ref|YP_002114244.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|197301168|ref|ZP_02664202.2| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|194710659|gb|ACF89880.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|197288149|gb|EDY27536.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] Length = 245 Score = 79.3 bits (194), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 54/181 (29%), Positives = 90/181 (49%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 64 RVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLTNDGALQAR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + ++Y V+ G D + L L+ G+ + GI + Sbjct: 122 LTQPGKRTGKIYYVQVEGIPDNEALQALRTGVTLNDGPTLPAGIEIVAEPDWLWPRTPPI 181 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ V L EG+NR+++++ RLIR S G + L L G RE+++ Sbjct: 182 RERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLSGLDNGQWREIAQ 241 Query: 239 K 239 + Sbjct: 242 E 242 >gi|260582971|ref|ZP_05850754.1| ribosomal large subunit pseudouridine synthase E [Haemophilus influenzae NT127] gi|260093955|gb|EEW77860.1| ribosomal large subunit pseudouridine synthase E [Haemophilus influenzae NT127] Length = 227 Score = 79.3 bits (194), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 50/183 (27%), Positives = 97/183 (53%), Gaps = 20/183 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T++ L++KP ++T +D GR+T+ F ++P++++ GRLD ++EGLL+LTN+G Sbjct: 36 DETKVVLFNKPFDVLTQFTDEQGRATLKDFISIPNVYA----AGRLDRDSEGLLILTNNG 91 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L L P + + Y V+ G ++ L L+KG+ ++ +V L ++ Sbjct: 92 ELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGMTKPAKVRLISEPNLWER 151 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + + EG+NR+++++ + RL+R+S G + L GS R Sbjct: 152 NPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSINGLENGSFR 211 Query: 235 EVS 237 +S Sbjct: 212 LLS 214 >gi|56412865|ref|YP_149940.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|168261760|ref|ZP_02683733.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|197361796|ref|YP_002141432.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|56127122|gb|AAV76628.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|197093272|emb|CAR58718.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|205349524|gb|EDZ36155.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] Length = 231 Score = 79.3 bits (194), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 104/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHN--EKDLTKPATLEVITPVQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGAITLDENLAPGEYRPLTEE 225 >gi|254672187|emb|CBA05055.1| pseudouridylate synthase [Neisseria meningitidis alpha275] gi|325127918|gb|EGC50821.1| ribosomal large subunit pseudouridine synthase F [Neisseria meningitidis N1568] Length = 252 Score = 79.3 bits (194), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 73/241 (30%), Positives = 115/241 (47%), Gaps = 26/241 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q V VNG + AV V D IE++ + Sbjct: 15 RLSKRMAQLGLCSRREADGYIEQGWVTVNG----KTAVLGQKVSPADRIELNKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRS-----TVFDNLPSIFSRV----------ISVGRLDI 116 L +KP+G V+ ++ +S T + S SR+ GRLDI Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITSENRWESDTSRIRFDPKHKIGLAPAGRLDI 130 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 ++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Q Sbjct: 131 DSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRPAQ 190 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + L++GK R+I+++ E +V L RI G +LG L G R + Sbjct: 191 VEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWRYL 246 Query: 237 S 237 + Sbjct: 247 A 247 >gi|82544378|ref|YP_408325.1| 23S rRNA pseudouridine synthase E [Shigella boydii Sb227] gi|81245789|gb|ABB66497.1| conserved hypothetical protein [Shigella boydii Sb227] Length = 207 Score = 79.3 bits (194), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 53/181 (29%), Positives = 90/181 (49%), Gaps = 17/181 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 29 TRVILFNKPYDVLPQFTDETGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 86 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G D L Sbjct: 87 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPP 146 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 147 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLANGEWREAT 206 Query: 238 K 238 + Sbjct: 207 E 207 >gi|260581465|ref|ZP_05849276.1| ribosomal large subunit pseudouridine synthase E [Haemophilus influenzae RdAW] gi|260091866|gb|EEW75818.1| ribosomal large subunit pseudouridine synthase E [Haemophilus influenzae RdAW] Length = 238 Score = 79.3 bits (194), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 50/183 (27%), Positives = 97/183 (53%), Gaps = 20/183 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T++ L++KP ++T +D GR+T+ F ++P++++ GRLD ++EGLL+LTN+G Sbjct: 47 DETKVVLFNKPFDVLTQFTDEQGRATLKDFISIPNVYA----AGRLDRDSEGLLILTNNG 102 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L L P + + Y V+ G ++ L L+KG+ ++ +V L ++ Sbjct: 103 ELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKSAKVRLISEPNLWER 162 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + + EG+NR+++++ + RL+R+S G + L GS R Sbjct: 163 NPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGLLSINGLENGSFR 222 Query: 235 EVS 237 +S Sbjct: 223 LLS 225 >gi|145641981|ref|ZP_01797554.1| hypothetical protein CGSHiR3021_02808 [Haemophilus influenzae R3021] gi|145273347|gb|EDK13220.1| hypothetical protein CGSHiR3021_02808 [Haemophilus influenzae 22.4-21] Length = 221 Score = 79.3 bits (194), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 50/183 (27%), Positives = 97/183 (53%), Gaps = 20/183 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T++ L++KP ++T +D GR+T+ F ++P++++ GRLD ++EGLL+LTN+G Sbjct: 30 DETKVVLFNKPFDVLTQFTDEQGRATLKDFISIPNVYA----AGRLDRDSEGLLILTNNG 85 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L L P + + Y V+ G ++ L L+KG+ ++ +V L ++ Sbjct: 86 ELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKPAKVRLISEPNLWER 145 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + + EG+NR+++++ + RL+R+S G + L GS R Sbjct: 146 NPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSINGLENGSFR 205 Query: 235 EVS 237 +S Sbjct: 206 LLS 208 >gi|293409501|ref|ZP_06653077.1| 23S rRNA pseudouridine synthase E [Escherichia coli B354] gi|291469969|gb|EFF12453.1| 23S rRNA pseudouridine synthase E [Escherichia coli B354] Length = 217 Score = 79.3 bits (194), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 52/180 (28%), Positives = 88/180 (48%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------------- 179 L P + ++Y V+ G QD L L+ G+ + L Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPEWLWPRNPP 156 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G REV+ Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREVT 216 >gi|237798683|ref|ZP_04587144.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. oryzae str. 1_6] gi|331021536|gb|EGI01593.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. oryzae str. 1_6] Length = 230 Score = 79.3 bits (194), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 65/224 (29%), Positives = 105/224 (46%), Gaps = 5/224 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R+ V +A RV+V+G+ V + D L+ + R Sbjct: 2 RLDRFLSNLPRFNRKSVRLALASGRVQVDGLTTSDPHHEVREFSCVMFDTEILQPGKAAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ +D TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPPGCVSATTDAQ-HPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T+ +VY V +D + +G+ L+ +A +++ Sbjct: 121 LTQPQTKMPKVYYVETEQLIDDRYVLKFAEGLYFSFENITTQPAQLNVLGPRSAHLSI-- 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 EG+ ++K++F F+ KV RL R S G L TL AGS R + Sbjct: 179 VEGRYHQVKRMFGHFDNKVLRLHRESIGALTLDPTLAAGSYRAL 222 >gi|56808351|ref|ZP_00366108.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Streptococcus pyogenes M49 591] gi|209559629|ref|YP_002286101.1| Putative 16S pseudouridylate synthetase [Streptococcus pyogenes NZ131] gi|209540830|gb|ACI61406.1| Putative 16S pseudouridylate synthetase [Streptococcus pyogenes NZ131] Length = 238 Score = 79.3 bits (194), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 67/231 (29%), Positives = 112/231 (48%), Gaps = 14/231 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ + SR +V+++I Q V V+ +L NV IEV G + + + Sbjct: 2 RLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMLARNGRQNVDPGLQLIEVTGQRVTHPKHS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLLLTND 127 + L +KP G+V+ D + TV D L P ++ VGRLD +TEGL+LLT++ Sbjct: 62 YIIL-NKPSGVVSAKKDTN-YLTVIDQLAEEDKSPDLYP----VGRLDRDTEGLVLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G L + PS + Y V +G + +D + GI G Q+T+ Sbjct: 116 GPLGFRMLHPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQ 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + ++ + EGK ++KK+F + KV L R + +LG L +G R ++ Sbjct: 176 SQASLTISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLT 226 >gi|160881056|ref|YP_001560024.1| pseudouridine synthase [Clostridium phytofermentans ISDg] gi|160429722|gb|ABX43285.1| pseudouridine synthase [Clostridium phytofermentans ISDg] Length = 477 Score = 79.3 bits (194), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 70/241 (29%), Positives = 115/241 (47%), Gaps = 24/241 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ +GI SRRE + IA+ V ++G V VM + + V L K E +R Sbjct: 20 RINKYLSESGICSRREADTRIAKGEVTIDG------EVAVMGSKVLPGQKVVLGKKEVSR 73 Query: 75 -----LWLYHKPIGLVTTHS--DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L +HKP G+V T +PD + D + R+ +GRLD ++EGL+ LTN+ Sbjct: 74 EEKMVLIAFHKPKGIVCTTEKREPD---NIIDYIK-YSQRIYPIGRLDKDSEGLIFLTNN 129 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y V + + L + G+ I TL+ Sbjct: 130 GDIVNKILRAGNHHEKEYIVTVNKPITAAFLKGMAGGVPILDTVT--KPCTLEAI--DKV 185 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL---REQ 244 + L +G NR+I+++ E F++KV +L+RI LG L G R ++ K L +EQ Sbjct: 186 TFRIILTQGLNRQIRRMCEHFDYKVTKLVRIRIMNVNLGRLKVGGYRNLTDKELEGIKEQ 245 Query: 245 L 245 + Sbjct: 246 I 246 >gi|71736265|ref|YP_276494.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. phaseolicola 1448A] gi|71556818|gb|AAZ36029.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. phaseolicola 1448A] Length = 210 Score = 79.3 bits (194), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 55/183 (30%), Positives = 94/183 (51%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L+L++KP ++T SD GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 KLFLFNKPFDVLTQFSDEGGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK--GSN-- 186 + P + + Y V+ G+ ++L L+ G+ + G LD + SN Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPTDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPSNPP 147 Query: 187 ---------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + ++EG+NR+++++ RL+R+ G + L L G REV+ Sbjct: 148 VRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYREVA 207 Query: 238 KKI 240 + Sbjct: 208 ANL 210 >gi|134094557|ref|YP_001099632.1| putative pseudouridylate synthase [Herminiimonas arsenicoxydans] gi|133738460|emb|CAL61505.1| putative ribosomal large subunit pseudouridine synthase [Herminiimonas arsenicoxydans] Length = 248 Score = 79.3 bits (194), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 66/245 (26%), Positives = 118/245 (48%), Gaps = 23/245 (9%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK ++ G+ SRRE + IA+ V+V+G ++ ++ T + V+ + + Sbjct: 4 PLRLSKRMSELGLCSRREADEWIARGWVRVDGKVVSELGTKILPTQRVTVERQAAAEQSK 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVF----------DNLPSIFS-----RVISVGRLDIN 117 L +KP+G V+ ++ + V D P+ F ++ GRLDI+ Sbjct: 64 RVTILINKPMGYVSGQAEDGYKPAVALVKAESRWKEDTSPTQFHPTQLRSLVPAGRLDID 123 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH----GQVDQDKLNLLKKGIVIQGICYG 173 + GLL+LT DG +A+ L ++ + Y VR G++ + L L G+++ G Sbjct: 124 SVGLLVLTQDGRIAKHLIGENSSVEKEYLVRVQYIKPGKLPEADLQRLNHGLMLDGKKLL 183 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 QV + ++ LREGK R+I+++ + KV L R+ G +LG L G Sbjct: 184 PAQVKWQNEDQ----LSFILREGKKRQIRRMCDIVGLKVVGLKRVRIGRVKLGDLPVGEW 239 Query: 234 REVSK 238 R +++ Sbjct: 240 RYLAE 244 >gi|16272636|ref|NP_438854.1| hypothetical protein HI0694 [Haemophilus influenzae Rd KW20] gi|1175289|sp|P44827|RLUE_HAEIN RecName: Full=Ribosomal large subunit pseudouridine synthase E; AltName: Full=rRNA pseudouridylate synthase E; AltName: Full=rRNA-uridine isomerase E gi|1573697|gb|AAC22354.1| conserved hypothetical protein [Haemophilus influenzae Rd KW20] Length = 240 Score = 79.3 bits (194), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 50/183 (27%), Positives = 97/183 (53%), Gaps = 20/183 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T++ L++KP ++T +D GR+T+ F ++P++++ GRLD ++EGLL+LTN+G Sbjct: 49 DETKVVLFNKPFDVLTQFTDEQGRATLKDFISIPNVYA----AGRLDRDSEGLLILTNNG 104 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L L P + + Y V+ G ++ L L+KG+ ++ +V L ++ Sbjct: 105 ELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKSAKVRLISEPNLWER 164 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + + EG+NR+++++ + RL+R+S G + L GS R Sbjct: 165 NPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGLLSINGLENGSFR 224 Query: 235 EVS 237 +S Sbjct: 225 LLS 227 >gi|204930693|ref|ZP_03221566.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205360072|ref|ZP_02834344.2| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|204320152|gb|EDZ05356.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205341275|gb|EDZ28039.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|320086322|emb|CBY96095.1| ribosomal large subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1] Length = 245 Score = 79.3 bits (194), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 54/181 (29%), Positives = 90/181 (49%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 64 RVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLTNDGALQAR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + ++Y V+ G D + L L+ G+ + GI + Sbjct: 122 LTQPGKRTGKIYYVQVEGIPDNEALQALRTGVTLNDGPTLPAGIEIVAEPDWLWPRTPPI 181 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ V L EG+NR+++++ RLIR S G + L L G RE+++ Sbjct: 182 RERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQWREIAQ 241 Query: 239 K 239 + Sbjct: 242 E 242 >gi|126666853|ref|ZP_01737829.1| Pseudouridine synthase, Rsu [Marinobacter sp. ELB17] gi|126628569|gb|EAZ99190.1| Pseudouridine synthase, Rsu [Marinobacter sp. ELB17] Length = 250 Score = 79.3 bits (194), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 62/222 (27%), Positives = 105/222 (47%), Gaps = 4/222 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + ++S++++ SR++ +IA +V VN + A +V + V+G L++ Sbjct: 12 TMSAMKLSRIVSNQPDISRKQANWLIATGQVYVNDLSCRTADADVDEFAAVSVNGKTLQQ 71 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDG 128 + HKP G ++ D D TV LP S+ + + GRLD T GL++LTN+G Sbjct: 72 GHCAHYIMLHKPAGYLSATED-DTHPTVLQLLPPGLSQCLHIAGRLDRATTGLMILTNNG 130 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 +R L LP +VYRV + D +GI + TL+ + + A Sbjct: 131 TWSRQLTLPGMGIAKVYRVTTAYPIGPDTPQRFAEGIWFEYEQLTTAPATLELLEPTLAR 190 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +T+ EG+ ++K++F +V L R G QL + LA Sbjct: 191 LTI--YEGRYHQVKRMFHAVGNRVIALHREQIGHLQLNSDLA 230 >gi|226330493|ref|ZP_03806011.1| hypothetical protein PROPEN_04411 [Proteus penneri ATCC 35198] gi|225201288|gb|EEG83642.1| hypothetical protein PROPEN_04411 [Proteus penneri ATCC 35198] Length = 209 Score = 79.3 bits (194), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 52/187 (27%), Positives = 89/187 (47%), Gaps = 17/187 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+R ++ +++KP ++ +D +GR T+ D +P + + GRLD ++EGLL+LT Sbjct: 23 PVRPRGERKVVIFNKPFDVLVQFTDENGRKTLKDFIP--IRDIYAAGRLDRDSEGLLVLT 80 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------ 179 NDG L L PS ++Y + G L + G+ ++ QV + Sbjct: 81 NDGKLQAKLTQPSKNTGKIYYAQVEGVPCTAALQQFRDGLALKDGKTLPAQVEIVEQPEW 140 Query: 180 ---------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + Q W+ + L EGKNR+++++ + RLIR S G L LL Sbjct: 141 LWERNPPIRERQTIPTTWLRITLFEGKNRQVRRMTAHIGYPTLRLIRFSMGNITLDNLLP 200 Query: 231 GSTREVS 237 G +E++ Sbjct: 201 GEWKEIN 207 >gi|330446457|ref|ZP_08310109.1| 23S rRNA pseudouridine 2457 synthase [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|328490648|dbj|GAA04606.1| 23S rRNA pseudouridine 2457 synthase [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 216 Score = 79.3 bits (194), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 57/189 (30%), Positives = 90/189 (47%), Gaps = 20/189 (10%) Query: 67 LRKAERTR----LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 L K +R R + L++KP +T S G ST+ D +P V GRLD ++EGLL Sbjct: 23 LNKPKRARGPQKIILFNKPFNTLTQFSGEPGDSTLADFIP--VKDVYPAGRLDKDSEGLL 80 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-------------VIQG 169 +LTNDG L L P ++ +VY V+ G + L L+ G+ VI+ Sbjct: 81 VLTNDGVLQARLTQPKSKQAKVYWVQVEGAPTEADLQALRDGVELKDGMTLPAGVEVIES 140 Query: 170 ICYGDMQVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 D + +K W+ + L+EG+NR+++++ + RLIR + + L Sbjct: 141 PQIWDRNPPIRERKNIPTTWLAITLKEGRNRQVRRMTAHIGFPTLRLIRYKMAQWTVDDL 200 Query: 229 LAGSTREVS 237 G REV+ Sbjct: 201 APGEWREVT 209 >gi|319775460|ref|YP_004137948.1| Pseudouridine synthase [Haemophilus influenzae F3047] gi|329122507|ref|ZP_08251092.1| ribosomal large subunit pseudouridine synthase E [Haemophilus aegyptius ATCC 11116] gi|317450051|emb|CBY86265.1| Pseudouridine synthase [Haemophilus influenzae F3047] gi|327473197|gb|EGF18619.1| ribosomal large subunit pseudouridine synthase E [Haemophilus aegyptius ATCC 11116] Length = 227 Score = 79.3 bits (194), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 50/183 (27%), Positives = 97/183 (53%), Gaps = 20/183 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T++ L++KP ++T +D GR+T+ F ++P++++ GRLD ++EGLL+LTN+G Sbjct: 36 DETKVVLFNKPFDVLTQFTDEQGRATLKDFISIPNVYA----AGRLDRDSEGLLILTNNG 91 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L L P + + Y V+ G ++ L L+KG+ ++ +V L ++ Sbjct: 92 ELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKPAKVRLISEPNLWER 151 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + + EG+NR+++++ + RL+R+S G + L GS R Sbjct: 152 NPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSINGLENGSFR 211 Query: 235 EVS 237 +S Sbjct: 212 LLS 214 >gi|148827048|ref|YP_001291801.1| malic enzyme [Haemophilus influenzae PittGG] gi|148718290|gb|ABQ99417.1| malic enzyme [Haemophilus influenzae PittGG] Length = 232 Score = 79.3 bits (194), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 58/208 (27%), Positives = 100/208 (48%), Gaps = 4/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E + Sbjct: 2 RLDKFIAENTGLTRSQATKAIRQSAVKINGEIVKSGAVQISQKDEIYFEDELLTWVEEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V ++ D D + F + P + ++ S GRLD++T GL+LLT+DG + Sbjct: 62 YFMLHKPQGCVCSNDDGDYPTIYQFFDYP-LAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+++ +GI+++G L+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEKNYAEACAEGILLRGEKEPTKPAKLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 EG+ ++K++F KV L R G Sbjct: 179 SEGRYHQVKRMFAALGNKVVGLHRWKIG 206 >gi|82777254|ref|YP_403603.1| 23S rRNA pseudouridine synthase E [Shigella dysenteriae Sd197] gi|81241402|gb|ABB62112.1| conserved hypothetical protein [Shigella dysenteriae Sd197] Length = 207 Score = 79.3 bits (194), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 53/181 (29%), Positives = 90/181 (49%), Gaps = 17/181 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 29 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 86 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G D L Sbjct: 87 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPP 146 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 147 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLANGEWREAT 206 Query: 238 K 238 + Sbjct: 207 E 207 >gi|70726170|ref|YP_253084.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Staphylococcus haemolyticus JCSC1435] gi|68446894|dbj|BAE04478.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Staphylococcus haemolyticus JCSC1435] Length = 230 Score = 79.3 bits (194), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 67/231 (29%), Positives = 112/231 (48%), Gaps = 9/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV+ ++ + +V VN + + ++ T D + V+G + Sbjct: 2 RLDKFLANMGVGTRTEVKHLLKKGKVTVNTSVEKSPKSHINPTEDIVHVNGKQVEFVNNV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G ++ D R TV D +P + VGRLD +TEGLLL+TNDG + Sbjct: 62 YIML-NKPKGYISATHDESNR-TVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGQFSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + Y V V + ++ KKGI++ Q+T + S+ V Sbjct: 120 DLMSPSKHVSKTYEVTSKKPVTKVDIDAFKKGIILSDGPVKPAQLTRINETISH----VT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++F +V L R+ L L +G + +S K L+ Sbjct: 176 IYEGKYHQVKRMFHAIENEVLELKRLKIANLALDENLKSGEYKLLSDKELK 226 >gi|15601868|ref|NP_244940.1| hypothetical protein PM0003 [Pasteurella multocida subsp. multocida str. Pm70] gi|34098699|sp|Q9CPN4|RSUA_PASMU RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|12720202|gb|AAK02087.1| RsuA [Pasteurella multocida subsp. multocida str. Pm70] Length = 232 Score = 79.3 bits (194), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 63/227 (27%), Positives = 107/227 (47%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A +R + +++ Q V VNG + + A V TD I ++G L + Sbjct: 2 RLDKFLAENTGLTRSQANKVLKQSAVTVNGHVEKNGAQKVSQTDEICLEGEHLPWVSAGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G V +H D D + F + P + ++ S GRLD++T GL+LLT+DG + Sbjct: 62 YLMLYKPQGYVCSHEDGDYPTIYQFFDYP-LAGKLHSAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ +G++++G TL+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVESHYQQACAEGMLLRGEKTPTKPATLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F KV L R G +L LA G R +S + Sbjct: 179 SEGRYHQVKRMFAALGNKVVGLHRWKIGQIELDDRLAEGEYRSLSAE 225 >gi|330720777|gb|EGG98994.1| Ribosomal small subunit pseudouridine synthase A [gamma proteobacterium IMCC2047] Length = 239 Score = 79.3 bits (194), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 77/230 (33%), Positives = 116/230 (50%), Gaps = 16/230 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + I+ S++ V ++AQ RV V+G + + + I +DG L+ T Sbjct: 7 RLDRFISSKMAISQKAVRPILAQGRVAVDGCVCRDRQQIINTFSRITLDGQILQA--NTP 64 Query: 75 LWLY-HKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L+L +KP G+V+ D + TV D L P S++ VGRLD N+ GLLLLTND G + Sbjct: 65 LYLMMNKPKGVVSATRD-NQYQTVIDLLDHPE-RSKLHLVGRLDFNSTGLLLLTNDSGWS 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAW 188 + L P + + YRV + +DQ ++ G+ Y D L+ A Sbjct: 123 QQLMKPDQKVSKRYRVTVNNPLDQQTVDAFAAGMY---FAYEDATTRPAGLNIINDYEAE 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 VT L EG+ +IK++F N KV L RI+ G L +L AG +RE+S Sbjct: 180 VT--LTEGRYHQIKRMFARCNNKVLALHRIAIGNLLLDPSLSAGQSRELS 227 >gi|161505323|ref|YP_001572435.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980] gi|160866670|gb|ABX23293.1| hypothetical protein SARI_03464 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:--] Length = 309 Score = 79.3 bits (194), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 67/230 (29%), Positives = 116/230 (50%), Gaps = 13/230 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + Sbjct: 23 TSIRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDVVKVNGRLIEP 79 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ VGRLD +++GL+ LTN Sbjct: 80 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPVGRLDKDSQGLIFLTNH 137 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V V + + + G+ I G + +K + Sbjct: 138 GDLVNKILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPI----LGTVTKKCKVKKEAPF 193 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F + V +L R L + G R+++ Sbjct: 194 VFRITLVQGLNRQIRRMCEHFGYDVTKLERTRIMNVSLSGIPLGEWRDLT 243 >gi|91792155|ref|YP_561806.1| pseudouridine synthase, Rsu [Shewanella denitrificans OS217] gi|91714157|gb|ABE54083.1| Pseudouridine synthase, Rsu [Shewanella denitrificans OS217] Length = 233 Score = 79.3 bits (194), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 66/221 (29%), Positives = 106/221 (47%), Gaps = 18/221 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + ++ SR E ++I +RV VNG+ + A V +HI +DG L R Sbjct: 2 RLDKFVCKSTPLSRTEAVQVIHHERVLVNGVAIVDEAAQVHENNHIILDGKHLVP-RPFR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--------SRVISVGRLDINTEGLLLLTN 126 L HKP ++ + +ST + PS+F S + VGRLD +T GLLL T+ Sbjct: 61 YLLLHKPANCLSANISEPSKSTKY---PSVFDVLNIDNSSELHLVGRLDADTTGLLLATD 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-- 184 DG + + P++ +VYRV + + + GI++Q G+ ++TL + Sbjct: 118 DGRWSFTITSPNSDCSKVYRVGLAKPLGPEVADKFLAGILLQ----GEHELTLPAKLEVI 173 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 S V + L +GK ++K++F KV L R G L Sbjct: 174 SPNQVLLTLTQGKFHQVKRMFAAVGNKVVSLHREKIGAISL 214 >gi|189405961|ref|ZP_02825460.2| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC508] gi|189377278|gb|EDU95694.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli O157:H7 str. EC508] Length = 207 Score = 79.0 bits (193), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 53/181 (29%), Positives = 90/181 (49%), Gaps = 17/181 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 29 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 86 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G D L Sbjct: 87 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPP 146 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 147 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREAT 206 Query: 238 K 238 + Sbjct: 207 E 207 >gi|262281963|ref|ZP_06059732.1| pseudouridine synthase rRNA-specific [Streptococcus sp. 2_1_36FAA] gi|262262417|gb|EEY81114.1| pseudouridine synthase rRNA-specific [Streptococcus sp. 2_1_36FAA] Length = 237 Score = 79.0 bits (193), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 65/208 (31%), Positives = 104/208 (50%), Gaps = 15/208 (7%) Query: 56 STDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGR 113 + D + V G L E+ +L +KP G ++ D + TV D L ++ V VGR Sbjct: 39 TEDEVVVSGQKL-TYEKFVYYLLNKPKGYISATED-ERHKTVLDLLDETALQKEVFPVGR 96 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LDI+T GLLLLTN+G LA + P ++YR + G ++Q + +GI ++ Sbjct: 97 LDIDTHGLLLLTNNGKLAHAMLSPKKHVEKIYRAQVAGLMNQSDVEQFARGIELKDFTCQ 156 Query: 174 DMQVTL---DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 Q+ + D +K + V + L EGK ++K++ +V L R++ GP QL LA Sbjct: 157 PAQLKILEVDEEK-ETSLVEISLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDPELA 215 Query: 231 -GSTREVSKKILREQLGPHLLEEAQVNL 257 G R ++++ L+ LE QV L Sbjct: 216 LGEWRRLTEEELKS------LERFQVEL 237 >gi|119478215|ref|ZP_01618271.1| putative pseudouridine synthase [marine gamma proteobacterium HTCC2143] gi|119448724|gb|EAW29968.1| putative pseudouridine synthase [marine gamma proteobacterium HTCC2143] Length = 307 Score = 79.0 bits (193), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 64/234 (27%), Positives = 117/234 (50%), Gaps = 13/234 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R + + V +NG +RA V V + D ++V+G + Sbjct: 5 TTTRLNKYISESGICSRREADRFVEKGSVFING---KRAKVGDQVSAGDTVKVNGQIIDP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R ER L +KP+G+V T + ++ + D + + R+ +GRLD +++GL+ LTN+ Sbjct: 62 RDEERLVLIALNKPVGVVCTTEGSE-KNNIVDYV-NHGERIFPIGRLDKDSQGLIFLTNN 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + + Y V + + + KG+ I G ++ +T Sbjct: 120 GDLVNKILRAGNRHEKEYLVTVDKPITDTFIRDMAKGVPILGEVTRKCKIVKETP----T 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +G NR+I+++ + F + + RL R+ + L G R+ S+ L Sbjct: 176 LFRITLVQGLNRQIRRMCDHFGYDIVRLERVRIMNVSMKGLGVGEWRDFSQNEL 229 >gi|88801771|ref|ZP_01117299.1| RNA pseudouridine synthase family protein [Polaribacter irgensii 23-P] gi|88782429|gb|EAR13606.1| RNA pseudouridine synthase family protein [Polaribacter irgensii 23-P] Length = 181 Score = 79.0 bits (193), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 53/181 (29%), Positives = 92/181 (50%), Gaps = 21/181 (11%) Query: 77 LYHKPIGLVTTHSDPDGRS-TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 + HKP G+++ +P R T+ +L +++GRLD+ +EGLLLLT DG ++ E Sbjct: 1 MVHKPWGMISQFVNPAKRKKTLLGDLYGFPEGTMAIGRLDVPSEGLLLLTTDGKVSA--E 58 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI------------QGICYGDMQVTLDTQK 183 + S + + Y V+ G + L LK G+ I + + D + L +QK Sbjct: 59 IRSNAYEKEYYVQVDGIMTAAALENLKTGVEIGFKGTKYVTKPGKAMLLKDPRFPLRSQK 118 Query: 184 ------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 G +W+++ ++EGK R+++K+ + RL+R+ G +LG L G+ EV Sbjct: 119 IRDERHGPTSWISIIIKEGKFRQVRKMTAAVGFPTLRLVRVRIGTMKLGELAIGAVVEVE 178 Query: 238 K 238 K Sbjct: 179 K 179 >gi|217031798|ref|ZP_03437301.1| hypothetical protein HPB128_199g6 [Helicobacter pylori B128] gi|216946450|gb|EEC25052.1| hypothetical protein HPB128_199g6 [Helicobacter pylori B128] Length = 208 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 54/210 (25%), Positives = 107/210 (50%), Gaps = 19/210 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAER 72 R+++ +A SRRE E+++ + RVK+N + A+V V D + +D ++ K ++ Sbjct: 2 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDKVFLDKRLIKPLKNKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+L+L++ + Sbjct: 61 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLILSDSKAVVS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-------------- 178 L + + + Y V+ G V ++ N +++G+ ++ G Q T Sbjct: 121 ALMHANLE--KEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + + V + EGKNRE+++ F F Sbjct: 179 IIKNHAKYSKLRVVINEGKNRELRRFFVVF 208 >gi|148977560|ref|ZP_01814139.1| pseudouridine synthase family 1 protein [Vibrionales bacterium SWAT-3] gi|145963211|gb|EDK28478.1| pseudouridine synthase family 1 protein [Vibrionales bacterium SWAT-3] Length = 242 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 49/180 (27%), Positives = 91/180 (50%), Gaps = 16/180 (8%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E ++ L++KP ++ +D +GR T+ D +P V + GRLD ++EGL++LTNDG Sbjct: 65 EDRKVILFNKPFDTLSQFTDGEGRKTLADFIP--VKDVYAAGRLDRDSEGLMVLTNDGIF 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------ 184 L P+++ + Y V+ G ++ L+ L+KG+ ++ +V L + Sbjct: 123 QAKLTQPNSKSPKTYWVQVEGAPSEEDLDKLRKGVELKDGMTLPAKVELMAEPEVWDRNP 182 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+ + + EG+NR+++++ + RLIR S G +G L G +E+ Sbjct: 183 PVRFRAAIPTTWLVITIIEGRNRQVRRMTANIGFPTLRLIRYSMGDMNVGQLQPGEWKEI 242 >gi|254804685|ref|YP_003082906.1| pseudouridylate synthase [Neisseria meningitidis alpha14] gi|254668227|emb|CBA05021.1| pseudouridylate synthase [Neisseria meningitidis alpha14] Length = 252 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 73/241 (30%), Positives = 115/241 (47%), Gaps = 26/241 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q V VNG + AV V D IE++ + Sbjct: 15 RLSKRMAQLGLCSRREADGYIEQGWVTVNG----KTAVLGQKVSPADRIELNKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRS-----TVFDNLPSIFSRV----------ISVGRLDI 116 L +KP+G V+ ++ +S T + S SR+ GRLDI Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITSENRWESDTSRIRFDPKHKIGLAPAGRLDI 130 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 ++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Q Sbjct: 131 DSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRPAQ 190 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + L++GK R+I+++ E +V L RI G +LG L G R + Sbjct: 191 VEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPLGKWRYL 246 Query: 237 S 237 + Sbjct: 247 A 247 >gi|254670635|emb|CBA06652.1| pseudouridylate synthase [Neisseria meningitidis alpha153] Length = 252 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 113/243 (46%), Gaps = 30/243 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q V VNG + AV V D IE++ + Sbjct: 15 RLSKRMAQLGLCSRREADGYIGQGWVTVNG----KTAVLGQKVSPADRIELNKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-----------------FDNLPSIFSRVISVGRL 114 L +KP+G V+ ++ +S FD P + GRL Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITSENRWEGDTSRIRFD--PKHKIGLAPAGRL 128 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Sbjct: 129 DIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRP 188 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 QV + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 189 AQVEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWR 244 Query: 235 EVS 237 ++ Sbjct: 245 YLA 247 >gi|261346009|ref|ZP_05973653.1| ribosomal large subunit pseudouridine synthase E [Providencia rustigianii DSM 4541] gi|282565894|gb|EFB71429.1| ribosomal large subunit pseudouridine synthase E [Providencia rustigianii DSM 4541] Length = 223 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 50/176 (28%), Positives = 88/176 (50%), Gaps = 17/176 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP ++ +D GR T+ + +P S V + GRLD ++EGLL+LTNDG L L Sbjct: 48 IFNKPFDVLPQFTDEQGRETLKNYIP--ISDVYAAGRLDRDSEGLLVLTNDGKLQARLTQ 105 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---------------DT 181 P + ++Y + G D+ L ++G+V+ ++ L + Sbjct: 106 PQKKTGKIYYAQVEGIPDEIALANFRRGLVLNDGPTLPAEIELVEEPDWLWERIPPIRER 165 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + L EG+NR+++++ + RLIR S G F L L G +EV+ Sbjct: 166 KNIPTSWLKITLFEGRNRQVRRMTANIGFPTLRLIRYSTGEFSLDNLSPGEWKEVT 221 >gi|297585561|ref|YP_003701341.1| pseudouridine synthase [Bacillus selenitireducens MLS10] gi|297144018|gb|ADI00776.1| pseudouridine synthase [Bacillus selenitireducens MLS10] Length = 237 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 61/226 (26%), Positives = 107/226 (47%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRR +++I + +V +NG + V D + V+G P+ + Sbjct: 4 RINKYVSETGKTSRRGADKLIQEGKVTINGKPAQLGD-QVEPGDDVIVNGEPVHIVKENV 62 Query: 75 LWLYHKPIGLV-TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ TT G N P R+ +GRLD ++EGL+LLTNDG + Sbjct: 63 YIALNKPVGITSTTERKVKGNIIDLVNHPL---RIFHIGRLDKDSEGLILLTNDGDIVNE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + + L + +G+ I + +K S + L Sbjct: 120 ILRAENKHEKEYIVTVNKPITPEFLKQMSEGVDI----LDTTTLPCKVKKLSKYEFNITL 175 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ + + V RL+R LG L G R++SKK Sbjct: 176 TQGLNRQIRRMCDALGYDVQRLLRTRIMNIHLGKLPPGQWRDLSKK 221 >gi|169343901|ref|ZP_02864897.1| RNA pseudouridine synthase family protein [Clostridium perfringens C str. JGS1495] gi|169298021|gb|EDS80112.1| RNA pseudouridine synthase family protein [Clostridium perfringens C str. JGS1495] Length = 228 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 66/228 (28%), Positives = 120/228 (52%), Gaps = 14/228 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGI-LLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+ + GI SR+E ++I + R+ VNG +E V + +D I +DG PL E+ Sbjct: 2 RINKLFSNFGICSRKETNKIIREGRIIVNGKPCIEGQWVEL--SDEILLDGKPLVPKEKI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP+G+V T ++ + + + D L I V +GRLD +++GL++LTNDG LA Sbjct: 60 YIAL-NKPVGVVCTAAE-EVKDNIIDYL-GIDDYVFPIGRLDKDSQGLIILTNDGDLANE 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGSNAWVTV 191 + + Y V D + +++G+ I G QVT ++ + ++ Sbjct: 117 VLAAENNHEKEYIVTLDQPFYDDFIEKMEQGVEILG------QVTKPCKLKRINENTYSI 170 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L +G NR+I+++ + F + V +L RI L + G R ++++ Sbjct: 171 ILTQGLNRQIRRMSKVFGFNVVKLERIRILNITLKDIEYGKWRYINRE 218 >gi|320184392|gb|EFW59203.1| 23S rRNA pseudouridine synthase E [Shigella flexneri CDC 796-83] Length = 207 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 53/181 (29%), Positives = 90/181 (49%), Gaps = 17/181 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 29 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 86 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G D L Sbjct: 87 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPP 146 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 147 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLANGEWREAT 206 Query: 238 K 238 + Sbjct: 207 E 207 >gi|168206272|ref|ZP_02632277.1| RNA pseudouridine synthase family protein [Clostridium perfringens E str. JGS1987] gi|170662280|gb|EDT14963.1| RNA pseudouridine synthase family protein [Clostridium perfringens E str. JGS1987] Length = 228 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 66/228 (28%), Positives = 120/228 (52%), Gaps = 14/228 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGI-LLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+ + GI SR+E ++I + R+ VNG +E V + +D I +DG PL E+ Sbjct: 2 RINKLFSNFGICSRKETNKIIREGRIIVNGKPCIEGQWVEL--SDEILLDGKPLVPKEKI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP+G+V T ++ + + + D L I V +GRLD +++GL++LTNDG LA Sbjct: 60 YIAL-NKPVGVVCTAAE-EVKDNIIDYL-GIDDYVFPIGRLDKDSQGLIILTNDGDLANE 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGSNAWVTV 191 + + Y V D + +++G+ I G QVT ++ + ++ Sbjct: 117 VLAAENNHEKEYIVTLDQPFYDDFIEKMEQGVEILG------QVTKPCKLKRINENTYSI 170 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L +G NR+I+++ + F + V +L RI L + G R ++++ Sbjct: 171 ILTQGLNRQIRRMSKVFGFNVVKLERIRILNITLEDIEYGKWRYINRE 218 >gi|228994293|ref|ZP_04154184.1| Pseudouridine synthase [Bacillus pseudomycoides DSM 12442] gi|228997453|ref|ZP_04157072.1| Pseudouridine synthase [Bacillus mycoides Rock3-17] gi|229005098|ref|ZP_04162822.1| Pseudouridine synthase [Bacillus mycoides Rock1-4] gi|228756200|gb|EEM05521.1| Pseudouridine synthase [Bacillus mycoides Rock1-4] gi|228762329|gb|EEM11256.1| Pseudouridine synthase [Bacillus mycoides Rock3-17] gi|228765443|gb|EEM14106.1| Pseudouridine synthase [Bacillus pseudomycoides DSM 12442] Length = 235 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 113/225 (50%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 2 RINKFISESGKASRRGADKLINERRVIING-KVAKIGDQVQPGDDVRVNGEQLRIARDHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ VGRLD +++GL+LLTNDG + + Sbjct: 61 YIALNKPVGITCT-SEKAVKGNIID-LVNHPLRINHVGRLDKDSDGLILLTNDGDIINEI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + L + G+ I G ++T + S + L Sbjct: 119 LRAENKHEKEYIVSVDKPITPEFLKEMAAGVKILGTKTLPCEIT----QLSKYEFQIILT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R QL L G R+++KK Sbjct: 175 QGLNRQIRRMCEALGYQVYTLKRTRIMNIQLNNLPVGQWRDLTKK 219 >gi|170681779|ref|YP_001744042.1| 23S rRNA pseudouridine synthase E [Escherichia coli SMS-3-5] gi|170519497|gb|ACB17675.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli SMS-3-5] Length = 207 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 52/180 (28%), Positives = 88/180 (48%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 29 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 86 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------------- 179 L P + ++Y V+ G QD L L+ G+ + V L Sbjct: 87 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGVDLVEEPEWLWPRNPP 146 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 147 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREAT 206 >gi|319776127|ref|YP_004138615.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae F3047] gi|329123291|ref|ZP_08251859.1| ribosomal small subunit pseudouridine synthase A [Haemophilus aegyptius ATCC 11116] gi|317450718|emb|CBY86938.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae F3047] gi|327471500|gb|EGF16948.1| ribosomal small subunit pseudouridine synthase A [Haemophilus aegyptius ATCC 11116] Length = 232 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 58/208 (27%), Positives = 100/208 (48%), Gaps = 4/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E + Sbjct: 2 RLDKFIAENTGLTRSQATKAIRQSAVKINGEIVKSGAVQISQEDKIYFEDELLTWVEEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V ++ D D + F + P + ++ S GRLD++T GL+LLT+DG + Sbjct: 62 YFMLHKPQGCVCSNDDGDYPTIYQFFDYP-LAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+++ +GI+++G L+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 EG+ ++K++F KV L R G Sbjct: 179 SEGRYHQVKRMFAALGNKVVGLHRWKIG 206 >gi|209966489|ref|YP_002299404.1| ribosomal large subunit pseudouridine synthase E [Rhodospirillum centenum SW] gi|209959955|gb|ACJ00592.1| ribosomal large subunit pseudouridine synthase E [Rhodospirillum centenum SW] Length = 205 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 52/180 (28%), Positives = 89/180 (49%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L +KP ++ +D DGR+T+ D +P V + GRLD ++EGL++LT+DG L Sbjct: 7 TRVILLNKPYDVLCQFTDADGRATLKDFVP--VPGVYAAGRLDRDSEGLVVLTDDGALTA 64 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG------- 184 + P + + Y + G + L L++G+V+ +V + G Sbjct: 65 RIADPRHKMAKTYWAQVEGIPEDAALEALRRGVVLNDGPTLPAEVRAIPEPPGLWPRTPP 124 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 AW+ + LREG+NR+++++ RL+R + GP+ L L G RE + Sbjct: 125 VRFRKSIPTAWLELTLREGRNRQVRRMTAAVGLPTLRLVRRAVGPWTLEGLAPGEWREAA 184 >gi|145639451|ref|ZP_01795056.1| hypothetical protein CGSHiII_04737 [Haemophilus influenzae PittII] gi|145271498|gb|EDK11410.1| hypothetical protein CGSHiII_04737 [Haemophilus influenzae PittII] Length = 227 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 50/183 (27%), Positives = 97/183 (53%), Gaps = 20/183 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T++ L++KP ++T +D GR+T+ F ++P++++ GRLD ++EGLL+LTN+G Sbjct: 36 DETKVVLFNKPFDVLTQFTDEQGRATLKDFISIPNVYA----AGRLDRDSEGLLILTNNG 91 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L L P + + Y V+ G ++ L L+KG+ ++ +V L ++ Sbjct: 92 ELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKPAKVRLISEPNLWER 151 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + + EG+NR+++++ + RL+R+S G + L GS R Sbjct: 152 NPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGLLSINGLENGSFR 211 Query: 235 EVS 237 +S Sbjct: 212 LLS 214 >gi|121592905|ref|YP_984801.1| RNA-binding S4 domain-containing protein [Acidovorax sp. JS42] gi|120604985|gb|ABM40725.1| RNA-binding S4 domain protein [Acidovorax sp. JS42] Length = 360 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 80/250 (32%), Positives = 112/250 (44%), Gaps = 35/250 (14%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ SRRE + IAQ V+VNG + + V D I+VD + Sbjct: 114 RLNKRMADLGLCSRREADDWIAQGWVRVNGQVAA-MGLQVGPHDRIDVDRAAQGHQRQQV 172 Query: 75 LWLYHKPIGLVT-----------------THSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 L HKP+G V+ TH D T F P+ + GRLDI+ Sbjct: 173 TILLHKPMGYVSGQAEDGHTPAVALINPRTHWKDDESRTRFS--PAQLKGLAPCGRLDID 230 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRF-HGQVDQD--------KLNLLKKGIVIQ 168 + GLL+LT DG +AR L + + Y VR +G QD KL LL G+ + Sbjct: 231 SVGLLVLTQDGRVARQLIGEDSTVDKEYLVRVQYGDRAQDVRAVFPADKLALLNHGLALD 290 Query: 169 GICYGDMQVTLDTQKGSNA-WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G Q+ + N + LREGK R+I+++ E KV L RI G LG Sbjct: 291 G-----QQLKPAVVEWQNPEQLRFVLREGKKRQIRRMCELVGLKVVGLKRIRIGQVLLGK 345 Query: 228 LLAGSTREVS 237 L G R ++ Sbjct: 346 LPPGQWRYLA 355 >gi|312148012|gb|ADQ30671.1| hypothetical RNA pseudouridine synthase [Borrelia burgdorferi JD1] Length = 249 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 68/226 (30%), Positives = 107/226 (47%), Gaps = 8/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER-- 72 RV +A G+ SRR E +I ++ V+VN + + + I + + K + Sbjct: 8 RVHVFLAEKGVGSRRFCEELIRKKLVRVNNTIAKLGDKVALGDRIIYKKQIFVFKDFQIN 67 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 R++L +KP + ++ D DGR + +F RV S+GRLD + GLLL TNDG Sbjct: 68 NRIYLALNKPRNYLCSNFDVDGRKLAISLVQPLFKERVFSIGRLDFKSSGLLLFTNDGKF 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + P + R Y + +D++ L K GI ++ + + K S + Sbjct: 128 ANDIIHPRQKVEREYIIESKKDIDENLLISFKSGIKVKKEFFKLKSYEI-LNKNSARLI- 185 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 L EGKNREI+KVF N + ++ RI G L +L G + V Sbjct: 186 --LDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDSLKEGQVKIV 229 >gi|85712896|ref|ZP_01043937.1| RNA pseudouridylate synthase-family protein [Idiomarina baltica OS145] gi|85693276|gb|EAQ31233.1| RNA pseudouridylate synthase-family protein [Idiomarina baltica OS145] Length = 199 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 57/196 (29%), Positives = 89/196 (45%), Gaps = 17/196 (8%) Query: 55 MSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 M T H + +L L +KP G+++ S T+ D +P S V GRL Sbjct: 1 MPTQHRRKRSPKRPRPVNPKLVLLNKPYGVLSQFSGEPDDVTLKDFVPH--SNVYPAGRL 58 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYG 173 D ++EGL+LLTNDG L P + + Y V+ G D+ +L L+ G + G+ Sbjct: 59 DKDSEGLMLLTNDGVYQARLANPKYKVAKTYWVQVEGIPDEAQLTALRNGCELNDGLTKP 118 Query: 174 DMQVTLDTQKG--------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 +D G ++W+++ + EGKNR+++++ RLIR Sbjct: 119 AQAFAIDAPIGLWPRNPPVRERKTVPDSWLSLSITEGKNRQVRRMTAHVGLPTLRLIRAQ 178 Query: 220 YGPFQLGTLLAGSTRE 235 GPF+L L G RE Sbjct: 179 IGPFKLAGLQPGEWRE 194 >gi|84393764|ref|ZP_00992512.1| pseudouridine synthase family 1 protein [Vibrio splendidus 12B01] gi|84375626|gb|EAP92525.1| pseudouridine synthase family 1 protein [Vibrio splendidus 12B01] Length = 242 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 48/180 (26%), Positives = 92/180 (51%), Gaps = 16/180 (8%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E ++ L++KP ++ +D +GR T+ D +P V + GRLD ++EGL++LTNDG Sbjct: 65 EDRKVILFNKPFDTLSQFTDGEGRKTLADFIP--VKDVYAAGRLDRDSEGLMVLTNDGIF 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------ 184 L P+++ + Y V+ G ++ L+ L+KG+ ++ Q+ + ++ Sbjct: 123 QAKLTQPNSKSPKTYWVQVEGAPSEEDLDKLRKGVELKDGMTLPAQIEVMSEPVVWERTP 182 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+ + + EG+NR+++++ + RLIR S G +G L G +E+ Sbjct: 183 PVRFRAAIPTTWLAITIIEGRNRQVRRMTANIGFPTLRLIRYSMGNMNVGQLQPGEWKEI 242 >gi|332093194|gb|EGI98254.1| ribosomal small subunit pseudouridine synthase A [Shigella boydii 5216-82] Length = 231 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 61/226 (26%), Positives = 103/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+TNDG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTNDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEE 225 >gi|307704494|ref|ZP_07641403.1| conserved hypothetical protein [Streptococcus mitis SK597] gi|307621963|gb|EFO00991.1| conserved hypothetical protein [Streptococcus mitis SK597] Length = 241 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 65/220 (29%), Positives = 110/220 (50%), Gaps = 7/220 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ + SR+ +++ + + + V+G A N+ + ++ E T Sbjct: 2 RLDNLLAQEKV-SRKAMKQALLKGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D TV D LP ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPAGVVTANKDKK-LPTVMDLLPLDIQSDKLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPARLEILSASPSLSRAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + EGK ++KK+F KV L R+ +G F L T L Sbjct: 179 ITISEGKFHQVKKMFLSIGVKVTSLKRVQFGDFTLDTELT 218 >gi|3402689|gb|AAC28992.1| unknown protein [Arabidopsis thaliana] Length = 303 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 55/146 (37%), Positives = 81/146 (55%), Gaps = 15/146 (10%) Query: 9 ENF--TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGV 65 ENF PQR+SKV+A AG+ASRR E +I +V VNGIL V S D I V+G Sbjct: 153 ENFKEQPQRLSKVLAAAGVASRRTSEELIFDGKVTVNGILCNTPQTRVDPSRDIIYVNGN 212 Query: 66 PLRKAERTRLWL-YHKPIGLVTTHSDPDGRSTV--FDNLPSIF---------SRVISVGR 113 + K +++ +KP G + + + + +S + FD S + R+ +VGR Sbjct: 213 RIPKKLPPKVYFALNKPKGYICSSGEKEIKSAISLFDEYLSSWDKRNPGTPKPRLFTVGR 272 Query: 114 LDINTEGLLLLTNDGGLARVLELPST 139 LD+ T GL+++TNDG A+ L PS+ Sbjct: 273 LDVATTGLIVVTNDGDFAQKLSHPSS 298 >gi|71909080|ref|YP_286667.1| pseudouridine synthase, Rsu [Dechloromonas aromatica RCB] gi|71848701|gb|AAZ48197.1| Pseudouridine synthase, Rsu [Dechloromonas aromatica RCB] Length = 379 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 110/243 (45%), Gaps = 35/243 (14%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+SKV++ G+ SRRE + I + V VNG + + S I V + + Sbjct: 141 RLSKVMSERGMCSRREADLWIERGWVFVNGEQVSELGSRIDPSVSEITVSQEAKKDQAKA 200 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVF--------------DNLPSIFSRVISVGRLDINTE 119 L HKP+G V+ +P V + P + + GRLDI++ Sbjct: 201 VTILLHKPVGYVSGQPEPGCIPAVTLITAETQVEQSGGPEFKPWMLRGLAPAGRLDIDST 260 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT+DG +A+ L ++ + Y VR G++ + L+LL+ G+ L Sbjct: 261 GLLVLTSDGRVAKRLIGEDSEAEKEYLVRVSGEMIKGGLDLLRHGL------------EL 308 Query: 180 DTQKGSNAWVT--------VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 D + AWV + L+EGK R+I+++ E +V L R+ G +LG L G Sbjct: 309 DGKPLKPAWVKQLNEDQLHIILKEGKKRQIRRMCELVGLQVIGLKRVRIGRIRLGDLPMG 368 Query: 232 STR 234 R Sbjct: 369 QWR 371 >gi|257867046|ref|ZP_05646699.1| pseudouridine synthase [Enterococcus casseliflavus EC30] gi|257873381|ref|ZP_05653034.1| pseudouridine synthase [Enterococcus casseliflavus EC10] gi|257877124|ref|ZP_05656777.1| pseudouridine synthase [Enterococcus casseliflavus EC20] gi|257801102|gb|EEV30032.1| pseudouridine synthase [Enterococcus casseliflavus EC30] gi|257807545|gb|EEV36367.1| pseudouridine synthase [Enterococcus casseliflavus EC10] gi|257811290|gb|EEV40110.1| pseudouridine synthase [Enterococcus casseliflavus EC20] Length = 238 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 71/236 (30%), Positives = 121/236 (51%), Gaps = 14/236 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ KVI + SR+E++R+ Q +V V+ + R NV S H I V G L ER Sbjct: 2 RLDKVIEQQLNTSRKEMKRLFQQGKVLVDQRIEGRPERNVDSAIHQIIVAGRQLETQER- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV-----FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ +KP G+VT + D ++ + D P +++ VGRLD +TEGL+L+T +G Sbjct: 61 -YYIVNKPNGVVTANVDQQHQTVIDLIAPKDQHPDLYA----VGRLDRDTEGLVLVTTNG 115 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNA 187 L L P+ + + Y V + V + + GI G+ +T+ + + + Sbjct: 116 QLGYDLLHPTKKVTKRYEVVVNDLVTPEDVAAFATGITFHGGVTCKPAALTIIDARAARS 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 +V++ + EGK ++KK+F KV +L R + G L LA GS R ++++ L+ Sbjct: 176 FVSLEIAEGKFHQVKKMFLARGKKVIQLKRTAMGSLVLPDDLAVGSYRSLTQEELK 231 >gi|152978349|ref|YP_001343978.1| pseudouridine synthase [Actinobacillus succinogenes 130Z] gi|150840072|gb|ABR74043.1| pseudouridine synthase [Actinobacillus succinogenes 130Z] Length = 231 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 60/208 (28%), Positives = 102/208 (49%), Gaps = 4/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ +R + + I Q V+VNG + + A+ V D I DG PL E + Sbjct: 2 RLDKFIAQQTGLTRSQATKSIRQGVVEVNGNMEKSGALKVSPQDEIVFDGEPLPWLEGLQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V +H D D + F + P + ++ + GRLD +T GL+LLT+DG + Sbjct: 62 YFMLNKPQGYVCSHEDGDYPTVYQFFDYP-LAGKLHTAGRLDADTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ + + ++GI+++G L+ N V + + Sbjct: 121 VTSPKHYCEKTYLVTLADPVESNYQSACEQGILLRGEKEATKPAKLEIIDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 EG+ ++K++F KV L R G Sbjct: 179 TEGRYHQVKRMFAALGNKVVALHRWRVG 206 >gi|90579123|ref|ZP_01234933.1| putative pseudouridine synthase family 1protein [Vibrio angustum S14] gi|90439956|gb|EAS65137.1| putative pseudouridine synthase family 1protein [Vibrio angustum S14] Length = 216 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 57/189 (30%), Positives = 89/189 (47%), Gaps = 20/189 (10%) Query: 67 LRKAERTR----LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 L K +R R + L++KP +T S G ST+ D +P V GRLD ++EGLL Sbjct: 23 LNKPKRARGPQKIILFNKPFNTLTQFSGEPGDSTLADFIP--VKDVYPAGRLDKDSEGLL 80 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-------------VIQG 169 +LTNDG L L P ++ +VY V+ G + L L+ G+ VI+ Sbjct: 81 VLTNDGVLQARLTQPKSKQAKVYWVQVEGTPTEANLQALRDGVELKDGMTLPAGVEVIES 140 Query: 170 ICYGDMQVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 D + +K W+ + L+EG+NR+++++ RLIR + + L Sbjct: 141 PIVWDRNPPIRERKSIPTTWLAITLKEGRNRQVRRMTAHIGHPTLRLIRYQMAQWTVNDL 200 Query: 229 LAGSTREVS 237 G REV+ Sbjct: 201 APGEWREVT 209 >gi|157146080|ref|YP_001453399.1| hypothetical protein CKO_01836 [Citrobacter koseri ATCC BAA-895] gi|157083285|gb|ABV12963.1| hypothetical protein CKO_01836 [Citrobacter koseri ATCC BAA-895] Length = 217 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 54/179 (30%), Positives = 88/179 (49%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GRST+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 40 RVVLFNKPYDVLPQFTDEAGRSTLKDYIP--VQGVYAAGRLDRDSEGLLVLTNDGALQAR 97 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------- 179 L P + ++Y V+ G+ + L L+ G+ + GI D L Sbjct: 98 LTQPGKRTGKIYYVQVEGEPTAEALEALRNGVTLNDGPTLPAGIEVVDEPEWLWPRTPPI 157 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + W+ V L EG+NR+++++ RLIR + G + L L G R+ + Sbjct: 158 RERKSIPTRWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYAMGNYTLDNLANGEWRDAT 216 >gi|325202400|gb|ADY97854.1| ribosomal large subunit pseudouridine synthase F [Neisseria meningitidis M01-240149] gi|325207848|gb|ADZ03300.1| ribosomal large subunit pseudouridine synthase F [Neisseria meningitidis NZ-05/33] Length = 252 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 113/243 (46%), Gaps = 30/243 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q V VNG + AV V D IE++ + Sbjct: 15 RLSKRMAQLGLCSRREADGYIEQGWVTVNG----KTAVLGQKVSPADRIELNKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-----------------FDNLPSIFSRVISVGRL 114 L +KP+G V+ ++ +S FD P + GRL Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITPENHWEGDTSRIRFD--PKHKIGLAPAGRL 128 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Sbjct: 129 DIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRP 188 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 QV + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 189 AQVEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWR 244 Query: 235 EVS 237 ++ Sbjct: 245 YLA 247 >gi|322715286|gb|EFZ06857.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] Length = 231 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 104/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHN--EKDLTKPATLEVITPVQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNCVVELHRERIGAITLDENLAPGEYRPLTEE 225 >gi|15594474|ref|NP_212263.1| hypothetical protein BB0129 [Borrelia burgdorferi B31] gi|216264234|ref|ZP_03436226.1| hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Borrelia burgdorferi 156a] gi|221217438|ref|ZP_03588909.1| hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Borrelia burgdorferi 72a] gi|225549328|ref|ZP_03770301.1| hypothetical RNA pseudouridine synthase [Borrelia burgdorferi 94a] gi|225549831|ref|ZP_03770793.1| hypothetical RNA pseudouridine synthase [Borrelia burgdorferi 118a] gi|3915347|sp|O51155|Y129_BORBU RecName: Full=Uncharacterized RNA pseudouridine synthase BB_0129; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|2688006|gb|AAC66508.1| conserved hypothetical protein [Borrelia burgdorferi B31] gi|215980707|gb|EEC21514.1| hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Borrelia burgdorferi 156a] gi|221192716|gb|EEE18932.1| hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Borrelia burgdorferi 72a] gi|225369522|gb|EEG98973.1| hypothetical RNA pseudouridine synthase [Borrelia burgdorferi 118a] gi|225370186|gb|EEG99626.1| hypothetical RNA pseudouridine synthase [Borrelia burgdorferi 94a] gi|312149536|gb|ADQ29607.1| hypothetical RNA pseudouridine synthase [Borrelia burgdorferi N40] Length = 249 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 68/226 (30%), Positives = 107/226 (47%), Gaps = 8/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER-- 72 RV +A G+ SRR E +I ++ V+VN + + + I + + K + Sbjct: 8 RVHVFLAEKGVGSRRFCEELIRKKLVRVNNTIAKLGDKVTLGDRIIYKKQIFVFKDFQIN 67 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 R++L +KP + ++ D DGR + +F RV S+GRLD + GLLL TNDG Sbjct: 68 NRIYLALNKPRNYLCSNFDVDGRKLAISLVQPLFKERVFSIGRLDFKSSGLLLFTNDGKF 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + P + R Y + +D++ L K GI ++ + + K S + Sbjct: 128 ANDIIHPRQKVEREYIIESKKDIDENLLISFKSGIKVKKEFFKLKSYEI-LNKNSARLI- 185 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 L EGKNREI+KVF N + ++ RI G L +L G + V Sbjct: 186 --LDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDSLKEGQVKIV 229 >gi|325142066|gb|EGC64494.1| ribosomal large subunit pseudouridine synthase F [Neisseria meningitidis 961-5945] gi|325198023|gb|ADY93479.1| ribosomal large subunit pseudouridine synthase F [Neisseria meningitidis G2136] Length = 252 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 114/243 (46%), Gaps = 30/243 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q V VNG + AV V+ D IE++ + Sbjct: 15 RLSKRMAQLGLCSRREADGYIEQGWVTVNG----KTAVLGQKVLPADRIELNKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-----------------FDNLPSIFSRVISVGRL 114 L +KP+G V+ ++ +S FD P + GRL Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITPENHWEDDTSRIRFD--PKHKIGLAPAGRL 128 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Sbjct: 129 DIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRP 188 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +V + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 189 AKVEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWR 244 Query: 235 EVS 237 ++ Sbjct: 245 YLA 247 >gi|260685750|ref|YP_003216883.1| pseudouridine synthase [Clostridium difficile R20291] gi|260211766|emb|CBE02116.1| pseudouridine synthase [Clostridium difficile R20291] Length = 258 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 69/246 (28%), Positives = 113/246 (45%), Gaps = 24/246 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 QR+ K+++ G SR E+++ Q V VNG + V D I +G + E Sbjct: 5 QRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYREY 64 Query: 73 TRLWL-----------------YHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGR 113 L + +KP G ++ +D TV D +L + VGR Sbjct: 65 IYLIMQNSVKQEPCDFSHGRFRMNKPDGYISATTDK-YDPTVLDLIDLSYLAFEPFPVGR 123 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LD +TEGLL+LTNDG L+ + P + Y + G V ++ + +G+V+ Y Sbjct: 124 LDKDTEGLLVLTNDGKLSHRVLSPKKHVPKTYYAKIDGVVTEEDVEAFLEGVVLDD-GYK 182 Query: 174 DMQVTLDTQKGSN-AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAG 231 M L+ K + + + + + EGK ++K++FE KV L R+S G +L +L G Sbjct: 183 TMPSQLNILKSDDESEIELTIHEGKFHQVKRMFESVGKKVVYLKRLSMGNLKLDESLELG 242 Query: 232 STREVS 237 RE++ Sbjct: 243 EYRELT 248 >gi|315617385|gb|EFU97991.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 3431] Length = 290 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 66/227 (29%), Positives = 114/227 (50%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D GR + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTED-GGRDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + ++ + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|326794629|ref|YP_004312449.1| pseudouridine synthase Rsu [Marinomonas mediterranea MMB-1] gi|326545393|gb|ADZ90613.1| pseudouridine synthase Rsu [Marinomonas mediterranea MMB-1] Length = 232 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 50/188 (26%), Positives = 97/188 (51%), Gaps = 19/188 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L + +KP +++ + DG+ T+ + + V + GRLD ++EGLLLLTN+G L + Sbjct: 4 KLIILNKPFHVLSQFTADDGKDTLANYIDD--ENVYAAGRLDYDSEGLLLLTNNGSLQHL 61 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------- 184 + P + + Y V+ G++ D + L +G+ ++ + Q Sbjct: 62 IASPKFKMPKTYWVQVEGEITDDAIGSLCRGVELKDGMTKPAECRKIDQPNIWDRTPAVR 121 Query: 185 -----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR--EVS 237 +WV + + EGKNR+++++ + RLIR S GP+ + +L +G ++ E++ Sbjct: 122 YRANIPTSWVALTITEGKNRQVRRMTAAVGFPTLRLIRYSIGPYTVDSLRSGESKIAELT 181 Query: 238 KKILREQL 245 + LREQ+ Sbjct: 182 SQ-LREQV 188 >gi|289623710|ref|ZP_06456664.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. aesculi str. NCPPB3681] gi|289648096|ref|ZP_06479439.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. aesculi str. 2250] gi|330871273|gb|EGH05982.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. aesculi str. 0893_23] Length = 230 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 62/219 (28%), Positives = 100/219 (45%), Gaps = 8/219 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R+ V +A RV+V+G V + +DG L+ + R Sbjct: 2 RLDRFLSNLPSLNRKSVRLALASGRVQVDGQTTSDPHHEVREFSRVALDGEILQAGKAAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ D T+ D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPEGCVSATVDTQ-HPTILDLLDEPDRHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY V +D+ G+ + I Q+TL + + + Sbjct: 121 LTQPQNKMPKVYYVETEQPIDERYAATFAAGMYFSFENITTQPAQLTLLGPRSARLTIV- 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EG+ ++K++F FN KV RL R + G L LA Sbjct: 180 ---EGRYHQVKRMFGHFNNKVLRLHRENIGALALDPALA 215 >gi|126174689|ref|YP_001050838.1| pseudouridine synthase [Shewanella baltica OS155] gi|125997894|gb|ABN61969.1| ribosomal large subunit pseudouridine synthase E [Shewanella baltica OS155] Length = 270 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 48/169 (28%), Positives = 84/169 (49%), Gaps = 16/169 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P + V + GRLD ++EGLLLLTNDG L L Sbjct: 93 LFNKPFDVLCQFTDEQGRKTLKDYIP--IADVYAAGRLDRDSEGLLLLTNDGQLQARLTE 150 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT-------------Q 182 P + + Y V+ G +D L L++G+ + G+ +D+ + Sbjct: 151 PKKKTFKTYWVQVEGVPTEDALTKLRQGVELNDGMTLPAKVKIMDSPDIWPRNPPVRERK 210 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RLIR G + + L +G Sbjct: 211 NIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSIDNLPSG 259 >gi|331667536|ref|ZP_08368400.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli TA271] gi|331065121|gb|EGI37016.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli TA271] Length = 217 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 53/180 (29%), Positives = 89/180 (49%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T + L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 THVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD L L+ G+ + G D L Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPP 156 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G REV+ Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREVT 216 >gi|27365449|ref|NP_760977.1| ribosomal large subunit pseudouridine synthase E [Vibrio vulnificus CMCP6] gi|37680510|ref|NP_935119.1| pseudouridine synthase family 1 protein [Vibrio vulnificus YJ016] gi|34098533|sp|Q8DAS3|RLUE_VIBVU RecName: Full=Ribosomal large subunit pseudouridine synthase E; AltName: Full=rRNA pseudouridylate synthase E; AltName: Full=rRNA-uridine isomerase E gi|27361597|gb|AAO10504.1| Ribosomal large subunit pseudouridine synthase E [Vibrio vulnificus CMCP6] gi|37199258|dbj|BAC95090.1| pseudouridine synthase family 1 protein [Vibrio vulnificus YJ016] Length = 234 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 51/182 (28%), Positives = 95/182 (52%), Gaps = 17/182 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 AER ++ +++KP ++ +D +GR T+ D +P V + GRLD ++EGL++LTNDG Sbjct: 53 AER-KIIIFNKPYDTLSQFTDGEGRKTLADFIP--VKEVYAAGRLDRDSEGLMVLTNDGI 109 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQ----- 182 L L P ++ + Y V+ G + +L L++G+ ++ G+ +++ D Q Sbjct: 110 LQAKLTQPKSKSPKTYWVQVEGAPTEAQLEPLRRGVELKDGLTLPAQVEIIQDPQLWERN 169 Query: 183 -------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 W+ + + EG+NR+++++ + RL+R S G L L G +E Sbjct: 170 PPVRFRAAIPTTWLAITIIEGRNRQVRRMTAHIGFPTLRLVRYSMGGMTLQDLQPGEWKE 229 Query: 236 VS 237 +S Sbjct: 230 IS 231 >gi|253773841|ref|YP_003036672.1| 23S rRNA pseudouridine synthase E [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254161242|ref|YP_003044350.1| 23S rRNA pseudouridine synthase E [Escherichia coli B str. REL606] gi|297518451|ref|ZP_06936837.1| 23S rRNA pseudouridine synthase E [Escherichia coli OP50] gi|253324885|gb|ACT29487.1| pseudouridine synthase [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|253973143|gb|ACT38814.1| 23S rRNA pseudouridine synthase [Escherichia coli B str. REL606] gi|253977357|gb|ACT43027.1| 23S rRNA pseudouridine synthase [Escherichia coli BL21(DE3)] gi|313848606|emb|CAQ31658.2| 23S rRNA pseudouridine 2457 synthase [Escherichia coli BL21(DE3)] gi|323962734|gb|EGB58312.1| RNA pseudouridylate synthase [Escherichia coli H489] gi|323973275|gb|EGB68464.1| RNA pseudouridylate synthase [Escherichia coli TA007] Length = 217 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 52/181 (28%), Positives = 90/181 (49%), Gaps = 17/181 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD + L+ G+ + G D L Sbjct: 97 RLTQPGKRTGKIYYVQVEGFPTQDAIEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPP 156 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLANGEWREAT 216 Query: 238 K 238 + Sbjct: 217 E 217 >gi|302879085|ref|YP_003847649.1| pseudouridine synthase [Gallionella capsiferriformans ES-2] gi|302581874|gb|ADL55885.1| pseudouridine synthase [Gallionella capsiferriformans ES-2] Length = 243 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 72/241 (29%), Positives = 116/241 (48%), Gaps = 31/241 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA---- 70 R+SK ++ G+ SRRE + I + V V+G V+++ T + LR A Sbjct: 5 RLSKRMSELGLCSRREADSYIEKGWVDVDG-----ETVSLLGTKVYPNQQITLRTAAQVV 59 Query: 71 --ERTRLWLYHKPIGLVTTHSDPDGR--STVFDNL--------PSIFSR-----VISVGR 113 ER + L +KP+G V+ ++ + S + D P F R + GR Sbjct: 60 QHERVTI-LINKPVGYVSGQAEHGYKPASALLDEATHWKDDPSPIKFHRSQFIGLAPAGR 118 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LDI+++GLL+LT DG +A+ L ++ + Y VR G+++ L LL +G+ + G Sbjct: 119 LDIDSQGLLILTQDGRVAKQLIGEDSKVDKEYLVRVQGKLESSGLALLCQGLKLDGEYLK 178 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +V+ + + LREGK R+I+++ E V L RI G +LG L AG Sbjct: 179 PAKVSWQNEDQ----LRFVLREGKKRQIRRMCELVGLTVTGLKRIRIGKIKLGLLPAGQW 234 Query: 234 R 234 R Sbjct: 235 R 235 >gi|229824809|ref|ZP_04450878.1| hypothetical protein GCWU000182_00158 [Abiotrophia defectiva ATCC 49176] gi|229790812|gb|EEP26926.1| hypothetical protein GCWU000182_00158 [Abiotrophia defectiva ATCC 49176] Length = 242 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 67/220 (30%), Positives = 104/220 (47%), Gaps = 14/220 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K ++ +R +V+ I + RV NG++++ V D I +DG P+ E Sbjct: 6 RLDKYLSDMTSETRSKVKEYIRKGRVTANGVVIKSPETKVDTDNDEICIDGKPVGYVEY- 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRS-TVFDNLPSI------FSRVISVGRLDINTEGLLLLTN 126 ++ +KP G++T S GR+ TV D F+ + VGRLD +TEGLLL+TN Sbjct: 65 YYYMMNKPQGVIT--STEKGRTKTVMDVFKETGTGCPRFNELSPVGRLDKDTEGLLLITN 122 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLDTQKGS 185 DG L L P +VY V + + G+ + IC D K Sbjct: 123 DGELNHKLLSPKNHVDKVYYAELKSPVKVSDIEIFAGGLDLGDFICKPARLEICDDVKKF 182 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 A +T+ EGK ++K++FE +V L R+S G +L Sbjct: 183 AAKITIS--EGKFHQVKRMFEAVENEVIYLKRLSMGSLKL 220 >gi|146309893|ref|YP_001174967.1| 23S rRNA pseudouridine synthase F [Enterobacter sp. 638] gi|145316769|gb|ABP58916.1| ribosomal large subunit pseudouridine synthase F [Enterobacter sp. 638] Length = 289 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 115/233 (49%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RAA+ V D ++V+G + R Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFING---KRAAIGDQVAPGDVVKVNGQLIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +KP+G+V+T D + R + D + SR+ +GRLD +++GL+ LTN G L Sbjct: 65 EDLVFIALNKPVGIVSTTEDGE-RDNIVD-FVNHSSRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + D + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYVVTVNKPITDDFIRGMGAGVPI----LGTVTKKCKVKKEAPFAFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E F ++V +L R L + G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCEHFGFEVTKLERTRIMNVSLSGIPLGEWRDLNGDELIE 231 >gi|121634598|ref|YP_974843.1| putative RNA-binding protein [Neisseria meningitidis FAM18] gi|218767923|ref|YP_002342435.1| putative RNA-binding protein [Neisseria meningitidis Z2491] gi|120866304|emb|CAM10045.1| putative RNA-binding protein [Neisseria meningitidis FAM18] gi|121051931|emb|CAM08237.1| putative RNA-binding protein [Neisseria meningitidis Z2491] gi|308388992|gb|ADO31312.1| putative RNA-binding protein [Neisseria meningitidis alpha710] gi|319410171|emb|CBY90507.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F; rRNA pseudouridylate synthase F) [Neisseria meningitidis WUE 2594] gi|325129963|gb|EGC52762.1| ribosomal large subunit pseudouridine synthase F [Neisseria meningitidis OX99.30304] gi|325135973|gb|EGC58583.1| ribosomal large subunit pseudouridine synthase F [Neisseria meningitidis M0579] Length = 252 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 113/243 (46%), Gaps = 30/243 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q V VNG + AV V D IE++ + Sbjct: 15 RLSKRMAQLGLCSRREADGYIEQGWVTVNG----KTAVLGQKVSPADRIELNKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-----------------FDNLPSIFSRVISVGRL 114 L +KP+G V+ ++ +S FD P + GRL Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITPENRWEGDTGRIRFD--PKHKIGLAPAGRL 128 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Sbjct: 129 DIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRP 188 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 QV + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 189 AQVEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWR 244 Query: 235 EVS 237 ++ Sbjct: 245 YLA 247 >gi|310765941|gb|ADP10891.1| 23S rRNA pseudouridine synthase F [Erwinia sp. Ejp617] Length = 292 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 66/233 (28%), Positives = 117/233 (50%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I +GI SRR+ +R I Q V +NG +RA+V V + D ++V+G + R Sbjct: 8 RLNKYIGESGICSRRDADRYIEQGNVFING---KRASVGDRVFAGDVVKVNGQLIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + +KP+G+++T + + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 DDLVVIALNKPVGIISTTEEGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V ++ + L G+ + G +V K S Sbjct: 123 VNKILRAGNDHEKEYLVTVNKPVTEEFIRGLGAGVPMLGTVTKKCKV----NKESTFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E F ++V++L R L L G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMSEHFGYEVSKLERTRIMNISLKGLPPGEWRDLTDDELIE 231 >gi|72382440|ref|YP_291795.1| ribosomal large subunit pseudouridine synthase F [Prochlorococcus marinus str. NATL2A] gi|124026115|ref|YP_001015231.1| putative pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus str. NATL1A] gi|72002290|gb|AAZ58092.1| ribosomal large subunit pseudouridine synthase F [Prochlorococcus marinus str. NATL2A] gi|123961183|gb|ABM75966.1| putative pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus str. NATL1A] Length = 240 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 62/229 (27%), Positives = 116/229 (50%), Gaps = 15/229 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRR +R+I + +V +NG + E+ V D ++VDG + K+ + + Sbjct: 4 RINKYLSEVGYCSRRVADRLIEEGKVVINGKIPEKGT-KVEEGDQVKVDGQRIEKSTKQK 62 Query: 75 -LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGG 129 ++L ++KP+G+V T R DN+ +R+ +GRLD +EGL+ LTNDG Sbjct: 63 NIYLAFNKPVGIVCTTD----RRVEHDNIIDFIKYPTRIFPIGRLDKPSEGLIFLTNDGD 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y V + +++D + + G+ I + V Q G+ + Sbjct: 119 IVNKILRARNNHEKEYIVSVNRPINRDFIQSMSNGVEILETITKNCFV---KQLGAKKFK 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + L +G NR+I+++ E ++V L R+ +L + G RE +K Sbjct: 176 II-LTQGLNRQIRRMCESLGYRVESLKRVRIMNIKLDVPI-GKYREFTK 222 >gi|15676704|ref|NP_273848.1| hypothetical protein NMB0806 [Neisseria meningitidis MC58] gi|7226040|gb|AAF41219.1| conserved hypothetical protein [Neisseria meningitidis MC58] gi|316984481|gb|EFV63449.1| conserved hypothetical protein [Neisseria meningitidis H44/76] gi|325140042|gb|EGC62571.1| ribosomal large subunit pseudouridine synthase F [Neisseria meningitidis CU385] gi|325144157|gb|EGC66464.1| ribosomal large subunit pseudouridine synthase F [Neisseria meningitidis M01-240013] gi|325200510|gb|ADY95965.1| ribosomal large subunit pseudouridine synthase F [Neisseria meningitidis H44/76] gi|325203890|gb|ADY99343.1| ribosomal large subunit pseudouridine synthase F [Neisseria meningitidis M01-240355] gi|325206353|gb|ADZ01806.1| ribosomal large subunit pseudouridine synthase F [Neisseria meningitidis M04-240196] Length = 252 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 113/243 (46%), Gaps = 30/243 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q V VNG + AV V D IE++ + Sbjct: 15 RLSKRMAQLGLCSRREADGYIEQGWVTVNG----KTAVLGQKVSPADRIELNKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-----------------FDNLPSIFSRVISVGRL 114 L +KP+G V+ ++ +S FD P + GRL Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITPENHWEGDTGRIRFD--PKHKIGLAPAGRL 128 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Sbjct: 129 DIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRP 188 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 QV + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 189 AQVEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWR 244 Query: 235 EVS 237 ++ Sbjct: 245 YLA 247 >gi|329577701|gb|EGG59128.1| pseudouridylate synthase [Enterococcus faecalis TX1467] Length = 197 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 61/188 (32%), Positives = 100/188 (53%), Gaps = 5/188 (2%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVL 134 + +KP G+V+ SD + TV D + R + VGRLD +TEGLLLLT++G L L Sbjct: 1 MLNKPKGVVSAVSDAS-KKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLTDNGQLGYQL 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVGL 193 P+ + + Y V+ +G V + K GIV+Q GI ++T+ + + V + + Sbjct: 60 IRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETESHVFLTI 119 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHLLEE 252 +EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L +E+ Sbjct: 120 QEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLLPYFFIEK 179 Query: 253 AQVNLDAP 260 Q + P Sbjct: 180 QQTSKALP 187 >gi|237798440|ref|ZP_04586901.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. oryzae str. 1_6] gi|331021291|gb|EGI01348.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. oryzae str. 1_6] Length = 212 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 52/182 (28%), Positives = 94/182 (51%), Gaps = 20/182 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+L++KP ++T SD GR+T+ F ++P I+ GRLD ++EGLLLLTNDG L Sbjct: 35 LFLFNKPFDVLTQFSDEGGRATLKDFIDIPGIYP----AGRLDRDSEGLLLLTNDGQLQA 90 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT---------- 181 + P + + Y V+ G+ ++ +L L+ G+ + G L+ Sbjct: 91 RIADPKHKLAKTYWVQVEGEPNEAQLQQLRDGVQLNDGPTLPAEARQLEEPQLWPRNPPV 150 Query: 182 ---QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + +W+ + ++EG+NR+++++ RL+R+ G + L L G REV+ Sbjct: 151 RFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVKIGNWTLDGLDQGQYREVAA 210 Query: 239 KI 240 ++ Sbjct: 211 QL 212 >gi|52426397|ref|YP_089534.1| RsuA protein [Mannheimia succiniciproducens MBEL55E] gi|52308449|gb|AAU38949.1| RsuA protein [Mannheimia succiniciproducens MBEL55E] Length = 247 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 50/179 (27%), Positives = 92/179 (51%), Gaps = 21/179 (11%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 T++ L++KP ++T +D +GR+T+ F ++P +++ GRLD ++EGLL+LTN+G + Sbjct: 54 TQVILFNKPFDVLTQFTDENGRATLKDFIHIPDVYA----AGRLDRDSEGLLILTNNGEI 109 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------ 184 L P + + Y V+ G+ + L L++G+ ++ +V L Q Sbjct: 110 QHRLADPKFKMEKTYFVQVEGEPTETDLAKLRQGVELKDGMTRPAKVRLIAQPDFIWQRT 169 Query: 185 ---------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + + EGKNR+++++ + RLIR + F L L GS R Sbjct: 170 PPIRERKSIPTSWLEIKISEGKNRQVRRMTANIGFPTLRLIRYAVSSFTLDNLANGSYR 228 >gi|167856142|ref|ZP_02478882.1| ribosomal small subunit pseudouridine synthase A [Haemophilus parasuis 29755] gi|167852738|gb|EDS24012.1| ribosomal small subunit pseudouridine synthase A [Haemophilus parasuis 29755] Length = 230 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 62/226 (27%), Positives = 105/226 (46%), Gaps = 5/226 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + + +V VNG++ + +A + D I DG PL + + Sbjct: 2 RLDKFIAENTGLTRSQASKALRAGQVTVNGVVEKNSATKISEQDEICFDGEPLAWVDEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP V +H D D TVF + +++ GRLD +T GL+LLT+DG + Sbjct: 62 YFMLYKPQNCVCSHDDGD-YPTVFQFFDYPLTTKLHCAGRLDADTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ +GI+++G TL+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYATQFAEGILLRGEKTLTKPATLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 EG+ ++K++F KV L R G L TL G R +++ Sbjct: 179 SEGRYHQVKRMFAALGNKVVALHRWRIGNVVLDETLAEGEFRALTE 224 >gi|325132039|gb|EGC54737.1| ribosomal large subunit pseudouridine synthase F [Neisseria meningitidis M6190] gi|325137793|gb|EGC60368.1| ribosomal large subunit pseudouridine synthase F [Neisseria meningitidis ES14902] Length = 252 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 113/243 (46%), Gaps = 30/243 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q V VNG + AV V D IE++ + Sbjct: 15 RLSKRMAQLGLCSRREADGYIEQGWVTVNG----KTAVLGQKVSPADRIELNKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-----------------FDNLPSIFSRVISVGRL 114 L +KP+G V+ ++ +S FD P + GRL Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITPENRWEGDTGRIRFD--PKHKIGLAPAGRL 128 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Sbjct: 129 DIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRP 188 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 QV + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 189 AQVEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWR 244 Query: 235 EVS 237 ++ Sbjct: 245 YLA 247 >gi|323967074|gb|EGB62500.1| RNA pseudouridylate synthase [Escherichia coli M863] Length = 217 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 52/180 (28%), Positives = 89/180 (49%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQV------------ 177 L P + ++Y V+ G QD L L+ G+ + + G V Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAEMVEEPEWLWPRNPP 156 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREAT 216 >gi|301120326|ref|XP_002907890.1| ribosomal large subunit pseudouridine synthase F, putative [Phytophthora infestans T30-4] gi|262102921|gb|EEY60973.1| ribosomal large subunit pseudouridine synthase F, putative [Phytophthora infestans T30-4] Length = 293 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 114/246 (46%), Gaps = 31/246 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K++A+ G+ SRRE E I V V+G ++ + V + +D R + Sbjct: 45 RLAKLMAQKGLCSRREAEAYIQAGDVLVDGERVQADWLKVPVDSDVSLDFRAQRHQNKKV 104 Query: 75 LWLYHKPIGLVTTHSD----PDGRSTVFDNLPSIFSRV--------------ISVGRLDI 116 + +KP+G V++ + P R F+N SRV GRLD+ Sbjct: 105 TLVLNKPLGYVSSQPELNKTPAVRLLTFENECQELSRVKPRQNVEPVALWKMAVCGRLDV 164 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD------QDKLNLLKKGIVI-QG 169 N+ GLLL T DG +A+ L P + Y VR +D + K+ +L+ G+ +G Sbjct: 165 NSTGLLLFTQDGTVAKKLLDPKGGIEKEYLVRVDLNLDPLTDKIRRKIEVLQAGVTSDEG 224 Query: 170 ICYGDMQVTLDTQKGSNA-WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 I Y V + NA + V L EGKNR I+++ E +V L R+ G +LG+L Sbjct: 225 ITYRAKSVEI-----LNANQLRVVLTEGKNRHIRRMCEHVGLRVMALKRVRIGGVKLGSL 279 Query: 229 LAGSTR 234 G R Sbjct: 280 PVGQWR 285 >gi|261392828|emb|CAX50409.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F; rRNA pseudouridylate synthase F) [Neisseria meningitidis 8013] gi|325134050|gb|EGC56705.1| ribosomal large subunit pseudouridine synthase F [Neisseria meningitidis M13399] Length = 252 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 113/243 (46%), Gaps = 30/243 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q V VNG + AV V D IE++ + Sbjct: 15 RLSKRMAQLGLCSRREADGYIEQGWVTVNG----KTAVLGQKVSPADRIELNKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-----------------FDNLPSIFSRVISVGRL 114 L +KP+G V+ ++ +S FD P + GRL Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITSENRWEGDTGRIRFD--PKHKIGLAPAGRL 128 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Sbjct: 129 DIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRP 188 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 QV + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 189 AQVEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWR 244 Query: 235 EVS 237 ++ Sbjct: 245 YLA 247 >gi|167622673|ref|YP_001672967.1| pseudouridine synthase [Shewanella halifaxensis HAW-EB4] gi|167352695|gb|ABZ75308.1| pseudouridine synthase [Shewanella halifaxensis HAW-EB4] Length = 244 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 70/248 (28%), Positives = 116/248 (46%), Gaps = 30/248 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERA-AVNVMST-------DHIEVDGVP 66 R++K +A G SRR R+I +V++N L +V+++ T + I V+ Sbjct: 2 RLAKYLALTGCCSRRAATRLIRDGQVRINDRLANHVDSVSLIDTPEGQRSAEQIYVNDEL 61 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-------SRVISVGRLDINTE 119 + E WL++K +G D R + +LP+ R+ +GRLD ++ Sbjct: 62 VCPIEAKAYWLFNKSVG-------TDSR--LLAHLPNSLIHLLPETPRLYPIGRLDKDSR 112 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-QVT 178 GLL+LTNDG L L P + Y H Q+D+D + + G+ Y D+ + Sbjct: 113 GLLILTNDGELTHKLMHPDFGHAKTY----HVQLDRDFDDAFLASMA-AGVSYKDVTTLP 167 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 Q+ + + L +G NR+I+++ + +KV L R+S QLG L GS R +S Sbjct: 168 CIMQRLAADKYQITLTQGLNRQIRRMSQALGFKVIDLKRVSIQSLQLGDLAEGSMRPLSS 227 Query: 239 KILREQLG 246 L + L Sbjct: 228 AELADLLA 235 >gi|304387883|ref|ZP_07370057.1| ribosomal large subunit pseudouridine synthase F [Neisseria meningitidis ATCC 13091] gi|304338148|gb|EFM04284.1| ribosomal large subunit pseudouridine synthase F [Neisseria meningitidis ATCC 13091] Length = 252 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 113/243 (46%), Gaps = 30/243 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q V VNG + AV V D IE++ + Sbjct: 15 RLSKRMAQLGLCSRREADGYIEQGWVTVNG----KTAVLGQKVSPADRIELNKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-----------------FDNLPSIFSRVISVGRL 114 L +KP+G V+ ++ +S FD P + GRL Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITPENHWEGDTGRIRFD--PKHKIGLAPAGRL 128 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Sbjct: 129 DIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRP 188 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 QV + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 189 AQVEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWR 244 Query: 235 EVS 237 ++ Sbjct: 245 YLA 247 >gi|145641141|ref|ZP_01796722.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae R3021] gi|145274302|gb|EDK14167.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae 22.4-21] Length = 232 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 58/208 (27%), Positives = 100/208 (48%), Gaps = 4/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E + Sbjct: 2 RLDKFIAENTGLTRSQATKAIRQSAVKINGEIVKSGAVQISQEDKIYFEDELLTWLEEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V ++ D D + F + P + ++ S GRLD++T GL+LLT+DG + Sbjct: 62 YFMLHKPQGCVCSNDDGDYPTIYQFFDYP-LAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+++ +GI+++G L+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 EG+ ++K++F KV L R G Sbjct: 179 SEGRYHQVKRMFAALGNKVVGLHRWKIG 206 >gi|16764592|ref|NP_460207.1| ribosomal large subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|205353029|ref|YP_002226830.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205357731|ref|ZP_02573072.2| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|207857256|ref|YP_002243907.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|34098654|sp|Q8ZPZ1|RLUE_SALTY RecName: Full=Ribosomal large subunit pseudouridine synthase E; AltName: Full=rRNA pseudouridylate synthase E; AltName: Full=rRNA-uridine isomerase E gi|16419756|gb|AAL20166.1| putative ribosomal large subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|205272810|emb|CAR37736.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205329690|gb|EDZ16454.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|206709059|emb|CAR33392.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|261246449|emb|CBG24259.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhimurium str. D23580] gi|267993016|gb|ACY87901.1| putative ribosomal large subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S] gi|301157778|emb|CBW17271.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344] gi|312912225|dbj|BAJ36199.1| 23S rRNA pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Typhimurium str. T000240] gi|332988128|gb|AEF07111.1| putative ribosomal large subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. UK-1] Length = 221 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 54/181 (29%), Positives = 89/181 (49%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 40 RVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLTNDGALQAR 97 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + ++Y V+ G D L L+ G+ + GI + Sbjct: 98 LTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLWPRTPPI 157 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ V L EG+NR+++++ RLIR S G + L L G RE+++ Sbjct: 158 RERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQWREIAQ 217 Query: 239 K 239 + Sbjct: 218 E 218 >gi|170767473|ref|ZP_02901926.1| ribosomal small subunit pseudouridine synthase A [Escherichia albertii TW07627] gi|170123807|gb|EDS92738.1| ribosomal small subunit pseudouridine synthase A [Escherichia albertii TW07627] Length = 231 Score = 78.6 bits (192), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 104/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ ++ DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRANRVTVDGEIVRNAAFKLLPEHNVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGGIMLDADLAPGEYRPLTEE 225 >gi|289168287|ref|YP_003446556.1| ribosomal small subunit pseudouridine synthase A [Streptococcus mitis B6] gi|288907854|emb|CBJ22694.1| ribosomal small subunit pseudouridine synthase A [Streptococcus mitis B6] Length = 241 Score = 78.6 bits (192), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 68/232 (29%), Positives = 116/232 (50%), Gaps = 8/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++A+ I SR+ +++ + + + V+ A N+ + G ++ E T Sbjct: 2 RLDNLLAQEKI-SRKAMKQALLKGDILVDSCPARSLAQNIDTGLQELLFQGRIIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT + D TV D LP ++ +VGRLD +T GLLL+T++G L Sbjct: 61 YLML-HKPAGVVTANKDKK-LPTVMDFLPPDIQSDKLYAVGRLDRDTTGLLLVTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + +KGIV + G ++ + + S + + Sbjct: 119 FQLLHPQYHVDKTYQVEVNGLLTPDHIQTFQKGIVFLDGTVCKAARLEILSASPSLSQAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + + EGK ++KK+F KV L R +GP+ L L AG R ++ + L Sbjct: 179 ITISEGKFHQVKKMFLSVGVKVTSLKRTHFGPWSLDDNLQAGDYRPLNSEEL 230 >gi|238795690|ref|ZP_04639204.1| Ribosomal large subunit pseudouridine synthase F [Yersinia mollaretii ATCC 43969] gi|238720416|gb|EEQ12218.1| Ribosomal large subunit pseudouridine synthase F [Yersinia mollaretii ATCC 43969] Length = 290 Score = 78.6 bits (192), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 68/233 (29%), Positives = 118/233 (50%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV--MSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +RAAV V D ++V+G + R Sbjct: 8 RLNKYISESGICSRRDADRYIEQGNVFING---KRAAVGVQVFPGDVVKVNGQTIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+++T D + + V + + RV +GRLD +++GL+LLTN G L Sbjct: 65 EDLVLIALNKPVGVISTTEDGEQNNIV--DFVNHSKRVFPIGRLDKDSQGLILLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + L G+ + G +V + S Sbjct: 123 VNKILRAGNDHEKEYVVTVNKPVTDEFILGLGAGVPMLGTVTKKCKVKKE----STFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ + F ++V +L R+ L L G R++++ L E Sbjct: 179 ITLVQGLNRQIRRMTKHFGYEVTKLERVRIMNISLKGLPQGEWRDLTEDELIE 231 >gi|238784264|ref|ZP_04628276.1| Ribosomal small subunit pseudouridine synthase A [Yersinia bercovieri ATCC 43970] gi|238714831|gb|EEQ06831.1| Ribosomal small subunit pseudouridine synthase A [Yersinia bercovieri ATCC 43970] Length = 235 Score = 78.6 bits (192), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 60/238 (25%), Positives = 112/238 (47%), Gaps = 7/238 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPESDVRFDGNPLQQTLGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTVG 192 P + Y V V +D G+ + + + +T Q V + Sbjct: 122 TSPRHHCEKTYLVTLEHPVAEDTAQRFADGVQL----HNETSLTKPAQLEIIEPQLVRLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHL 249 L EG+ ++K++F +V L R G +L LA G R ++ + + PHL Sbjct: 178 LSEGRYHQVKRMFGAVGNRVLALHRERIGAMKLDDDLAPGEYRPLTAEEIASVGAPHL 235 >gi|170769533|ref|ZP_02903986.1| ribosomal large subunit pseudouridine synthase F [Escherichia albertii TW07627] gi|170121590|gb|EDS90521.1| ribosomal large subunit pseudouridine synthase F [Escherichia albertii TW07627] Length = 290 Score = 78.6 bits (192), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 68/233 (29%), Positives = 116/233 (49%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVNPGDVVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDEFVTGMAAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E+F ++V +L R L + G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCEYFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIE 231 >gi|153837322|ref|ZP_01989989.1| RNA pseudouridine synthase family protein [Vibrio parahaemolyticus AQ3810] gi|260901420|ref|ZP_05909815.1| RNA pseudouridine synthase family protein [Vibrio parahaemolyticus AQ4037] gi|149749353|gb|EDM60126.1| RNA pseudouridine synthase family protein [Vibrio parahaemolyticus AQ3810] gi|308107510|gb|EFO45050.1| RNA pseudouridine synthase family protein [Vibrio parahaemolyticus AQ4037] Length = 232 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 49/174 (28%), Positives = 86/174 (49%), Gaps = 16/174 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP ++ +D DGR T+ D +P V + GRLD ++EGL++LTNDG L L Sbjct: 59 IFNKPYDTLSQFTDGDGRKTLADYIP--VKDVYAAGRLDRDSEGLMVLTNDGILQAKLTQ 116 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT-------------Q 182 P ++ + Y V+ G + L L+KG+ ++ G+ +D Sbjct: 117 PKSKSPKTYWVQVDGAPQEQDLEKLRKGVELKDGMTLPAKVEVIDAPTIWERNPPVRFRA 176 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+ + + EG+NR+++++ + RL+R S G LG L G +E+ Sbjct: 177 NIPTTWLAITIVEGRNRQVRRMTAHIGFPTLRLVRYSMGDITLGGLQPGQWKEI 230 >gi|332342737|gb|AEE56071.1| ribosomal pseudouridine synthase, large subunit [Escherichia coli UMNK88] Length = 207 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 52/181 (28%), Positives = 90/181 (49%), Gaps = 17/181 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 29 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 86 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------ 179 L P + ++Y V+ G QD + L+ G+ + G D L Sbjct: 87 RLTQPGKRTGKIYYVQVEGFPTQDAIEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPP 146 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 147 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLANGEWREAT 206 Query: 238 K 238 + Sbjct: 207 E 207 >gi|288959446|ref|YP_003449787.1| ribosomal large subunit pseudouridine synthase E [Azospirillum sp. B510] gi|288911754|dbj|BAI73243.1| ribosomal large subunit pseudouridine synthase E [Azospirillum sp. B510] Length = 261 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 51/180 (28%), Positives = 89/180 (49%), Gaps = 17/180 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL L +KP G++ +D GR T+ + +P V + GRLD ++EGLL L++DG L Sbjct: 25 RLILLNKPYGVLPQFTDDQGRPTLAELVP--VKGVYAAGRLDRDSEGLLALSDDGPLIAR 82 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------- 184 + P+++ + Y V+ G + L L++G+ ++ +V + Sbjct: 83 IAAPASKMPKTYWVQVEGVPTDEALEALRRGVTLKDGPTLPAEVRRMEEPDPLWPRDPPV 142 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +W+ + LREG+NR+++++ + RLIR S G + L L G REV + Sbjct: 143 RYRAAIPTSWIALTLREGRNRQVRRMTAAVGFPTLRLIRWSIGDWTLDGLAPGQWREVPQ 202 >gi|283784946|ref|YP_003364811.1| ribosomal large subunit pseudouridine synthase E (rRNA pseudouridylate synthase E) [Citrobacter rodentium ICC168] gi|282948400|emb|CBG87988.1| ribosomal large subunit pseudouridine synthase E (rRNA pseudouridylate synthase E) [Citrobacter rodentium ICC168] Length = 218 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 52/185 (28%), Positives = 89/185 (48%), Gaps = 17/185 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+ + R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTND Sbjct: 34 RENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLTND 91 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--- 184 G L L P + ++Y V+ G + LN L+ G+ + V L + Sbjct: 92 GALQARLTQPGKRTGKIYFVQVEGDPTAEALNALRNGVTLNDGPTLPAGVELVAEPDWLW 151 Query: 185 ------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 W+ + L EG+NR+++++ + RLIR + G + L L G Sbjct: 152 PRNPPIRERKTIPTRWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLANGE 211 Query: 233 TREVS 237 R+++ Sbjct: 212 WRDIT 216 >gi|303256756|ref|ZP_07342770.1| ribosomal large subunit pseudouridine synthase F [Burkholderiales bacterium 1_1_47] gi|302860247|gb|EFL83324.1| ribosomal large subunit pseudouridine synthase F [Burkholderiales bacterium 1_1_47] Length = 292 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 74/248 (29%), Positives = 118/248 (47%), Gaps = 38/248 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA---- 70 R+SK ++ G+ SRRE + I++ VKV+G ++ V I +D RKA Sbjct: 10 RLSKRMSELGLCSRREADEWISKGWVKVDGQVVSELGSKVRPDQKITID----RKAKDQQ 65 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDG----------RSTVFDNL------PSIFSRVISVGR 113 ER + + +KP+G V+ ++ DG R+ D+ PS ++ GR Sbjct: 66 NERVTI-ILNKPLGYVSGQAE-DGHEPARILITPRNRWIDDPSPRRFNPSQLKSLVPAGR 123 Query: 114 LDINTEGLLLLTNDGGLARVL--ELPSTQWLRVYRV-----RFHGQVDQDKLNLLKKGIV 166 LDIN+ GLL+LT DG +A+ + E S + + RV R + + KL LL G+ Sbjct: 124 LDINSTGLLVLTQDGRIAKTIIGENSSVEKEYIVRVAMTDGRSNSEFPPAKLALLNHGLE 183 Query: 167 IQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 + G +V+ + + LREG+NR+I+++ + KV L R+ G LG Sbjct: 184 LDGKPLEKAEVSWLNEDQ----LKFVLREGRNRQIRRMCDLVGLKVLALKRVRVGNIPLG 239 Query: 227 TLLAGSTR 234 L G R Sbjct: 240 NLPVGKWR 247 >gi|242239490|ref|YP_002987671.1| pseudouridine synthase [Dickeya dadantii Ech703] gi|242131547|gb|ACS85849.1| pseudouridine synthase [Dickeya dadantii Ech703] Length = 208 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 53/190 (27%), Positives = 94/190 (49%), Gaps = 19/190 (10%) Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 V +P+ +A R + L++KP +++ +D GR T+ + +P F + S GRLD ++EGL Sbjct: 20 VKSIPIGQARR--IVLFNKPFDVLSQFTDESGRETLKNYIP--FGDIYSAGRLDRDSEGL 75 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGD 174 +LLTNDG L L P + ++Y + G D+ L + G+ + G D Sbjct: 76 MLLTNDGKLQARLTQPGKKTPKIYYAQIEGIPDEAALQAFRTGLQLNDGLTQPAGAERVD 135 Query: 175 MQVTL--------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 + L + ++ +W+ + L EG+NR+++++ + RLIR S L Sbjct: 136 APLWLWPRNPPIRERKQIPTSWLKITLYEGRNRQVRRMTAHIGFPTLRLIRYSMANHTLD 195 Query: 227 TLLAGSTREV 236 L G +E+ Sbjct: 196 GLQPGEWKEI 205 >gi|157413639|ref|YP_001484505.1| 16S rRNA uridine-516 pseudouridylate synthase-like protein [Prochlorococcus marinus str. MIT 9215] gi|157388214|gb|ABV50919.1| 16S rRNA uridine-516 pseudouridylate synthase-like protein [Prochlorococcus marinus str. MIT 9215] Length = 240 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 60/225 (26%), Positives = 111/225 (49%), Gaps = 9/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AER 72 R++K ++ G SRRE +R+I + +V +NG + + V +D +EV G ++K ++ Sbjct: 4 RINKYLSEVGYCSRREADRLIHEGKVTING-KIPKIGSKVEESDQVEVKGQRIKKITGQK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++KP+G+V T + V D + R+ +GRLD +EGL+ LTNDG + Sbjct: 63 NIYLAFNKPVGIVCTTDRKVEPNNVIDFIKYP-KRIFPIGRLDKLSEGLIFLTNDGDIVN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V+ + Q++ D + + G+ I + V Q G + + Sbjct: 122 KILRARNNHEKEYIVKVNRQINSDFIQSMSSGVEILDTITKNCFV---KQLGPKKFKII- 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L +G NR+I+++ E ++V L R+ +L + G RE + Sbjct: 178 LTQGLNRQIRRMCESLGYRVRSLKRVRIMNIEL-DVSTGKYREFT 221 >gi|160946175|ref|ZP_02093386.1| hypothetical protein PEPMIC_00137 [Parvimonas micra ATCC 33270] gi|158447698|gb|EDP24693.1| hypothetical protein PEPMIC_00137 [Parvimonas micra ATCC 33270] Length = 235 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 64/233 (27%), Positives = 111/233 (47%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ + + GI SR E+++ + RVK+NG + + V + D I D + E T Sbjct: 4 RIDRFLCHMGIGSRSEIKKYLKTCRVKLNGKFEKNSNTQVDIEKDEILFDDEIVIYKEFT 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 L L +KP ++ D TV D L +S + VGRLDI+T G L+LTNDG + Sbjct: 64 YLML-NKPKDFISATFDT-KLPTVLDLLEFPYSNMELFPVGRLDIDTTGFLILTNDGKFS 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y V ++ +++ L+ GI + + + +K S + + Sbjct: 122 YNVTNPKKKVNKKYFVTLRDEIISEQIEKLENGIYFEKEDFTTENAKV--EKISEKEINL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + EGK ++K++ E+ +V L ++ G L +L G RE++ L E Sbjct: 180 TISEGKFHQVKRMLEYVENEVVELKKVCIGNLNLDDSLKLGEYREITNSELEE 232 >gi|224534022|ref|ZP_03674606.1| hypothetical RNA pseudouridine synthase [Borrelia burgdorferi CA-11.2a] gi|224512858|gb|EEF83225.1| hypothetical RNA pseudouridine synthase [Borrelia burgdorferi CA-11.2a] Length = 249 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 67/226 (29%), Positives = 107/226 (47%), Gaps = 8/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER-- 72 RV +A G+ SRR E +I ++ ++VN + + + I + + K + Sbjct: 8 RVHVFLAEKGVGSRRFCEELIRKKLIRVNNTIAKLGDKVTLGDRIIYKKQIFVFKDFQIN 67 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 R++L +KP + ++ D DGR + +F RV S+GRLD + GLLL TNDG Sbjct: 68 NRIYLALNKPRNYLCSNFDVDGRKLAISLVQPLFKERVFSIGRLDFKSSGLLLFTNDGKF 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + P + R Y + +D++ L K GI ++ + + K S + Sbjct: 128 ANDIIHPRQKVEREYIIESKKDIDENLLISFKSGIKVKKEFFKLKSYEI-LNKNSARLI- 185 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 L EGKNREI+KVF N + ++ RI G L +L G + V Sbjct: 186 --LDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDSLKEGQVKIV 229 >gi|254448522|ref|ZP_05061982.1| ribosomal large subunit pseudouridine synthase E [gamma proteobacterium HTCC5015] gi|198261905|gb|EDY86190.1| ribosomal large subunit pseudouridine synthase E [gamma proteobacterium HTCC5015] Length = 187 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 49/181 (27%), Positives = 90/181 (49%), Gaps = 26/181 (14%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +R+ L++KP G++ DPDG T+ D ++P +++ GRLD ++EGLL+LT+DG L Sbjct: 2 SRVILFNKPCGVLCQFRDPDGVPTLGDYIDVPDVYA----AGRLDKDSEGLLVLTDDGRL 57 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--------------------GI 170 + P + + Y V+ G+ + L L++G+ ++ G Sbjct: 58 QNRITSPENKLPKTYWVQVEGEPSDEALKQLRRGVHLKDGKTRRADVKRMAGEPLSEHGG 117 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + W+++ L+EGKNR+++++ RL+R GP+QL L + Sbjct: 118 LWPRNPPVRYRKSVPTCWLSITLKEGKNRQVRRMTAAVGHPTLRLVRWRIGPWQLADLAS 177 Query: 231 G 231 G Sbjct: 178 G 178 >gi|218700342|ref|YP_002407971.1| 23S rRNA pseudouridine synthase E [Escherichia coli IAI39] gi|218370328|emb|CAR18131.1| 23S rRNA pseudouridine synthase [Escherichia coli IAI39] Length = 216 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 55/187 (29%), Positives = 91/187 (48%), Gaps = 19/187 (10%) Query: 68 RKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 RK E TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LT Sbjct: 31 RKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLT 88 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------ 179 N+G L L P + ++Y V+ G QD L L+ G+ + V L Sbjct: 89 NNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGVDLVEEPEW 148 Query: 180 ---------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 LWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTANVGFPTLRLIRYAMGDYSLDNLAN 208 Query: 231 GSTREVS 237 G RE + Sbjct: 209 GEWREAT 215 >gi|86146446|ref|ZP_01064769.1| pseudouridine synthase family 1 protein [Vibrio sp. MED222] gi|85835709|gb|EAQ53844.1| pseudouridine synthase family 1 protein [Vibrio sp. MED222] Length = 242 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 51/185 (27%), Positives = 95/185 (51%), Gaps = 16/185 (8%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P E ++ L++KP ++ +D +GR T+ D +P V + GRLD ++EGLL+LT Sbjct: 60 PKVAPEDRKVILFNKPFDTLSQFTDGEGRKTLADFIP--VKDVYAAGRLDRDSEGLLVLT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQ- 182 NDG L P+++ + Y V+ G + L+ L+KG+ ++ G+ +++V + Q Sbjct: 118 NDGIFQAKLTQPNSKSTKTYWVQVEGAPSEKDLDKLRKGVELKDGMTLPAEVEVMQEPQV 177 Query: 183 -----------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RLIR S G +G L G Sbjct: 178 WERTPPVRFRAAIPTTWLAITIIEGRNRQVRRMTANIGFPTLRLIRYSMGNMDVGQLQPG 237 Query: 232 STREV 236 +++ Sbjct: 238 EWKDI 242 >gi|269960959|ref|ZP_06175328.1| pseudouridine synthase family 1 protein [Vibrio harveyi 1DA3] gi|269834178|gb|EEZ88268.1| pseudouridine synthase family 1 protein [Vibrio harveyi 1DA3] Length = 236 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 49/181 (27%), Positives = 89/181 (49%), Gaps = 16/181 (8%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E ++ +++KP ++ +D DGR T+ D +P V + GRLD ++EGL++LTNDG Sbjct: 54 PEDRKVIIFNKPYDTLSQFTDGDGRKTLADYIP--VKDVYAAGRLDRDSEGLMVLTNDGI 111 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG----- 184 L L P ++ + Y V+ G ++ L L+KG+ ++ +V + + Sbjct: 112 LQAKLTQPQSKSPKTYWVQVDGAPTEEDLEKLRKGVELKDGMTLPAKVEVMPEPEIWDRT 171 Query: 185 ---------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 W+ + + EG+NR+++++ + RL+R S G L L G RE Sbjct: 172 PPVRFRANIPTTWLAITITEGRNRQVRRMTAHIGFPTLRLVRYSMGGIVLDDLKPGEWRE 231 Query: 236 V 236 + Sbjct: 232 I 232 >gi|194017854|ref|ZP_03056463.1| RNA pseudouridine synthase family protein [Bacillus pumilus ATCC 7061] gi|194010506|gb|EDW20079.1| RNA pseudouridine synthase family protein [Bacillus pumilus ATCC 7061] Length = 238 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 72/232 (31%), Positives = 116/232 (50%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A +G SR++V++++ + V VNG L ++ +V S D + V G + E Sbjct: 2 RLDKLLASSGFGSRKDVKKLVKARAVTVNGELAKQVKDHVDPSNDEVLVHGERVEYKEFI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 L + +KP G+++ D TV D L P +R VGRLD +T GLLLLTNDG LA Sbjct: 62 YLMM-NKPDGVISATEDLRD-ETVVDLLEPEDIAREPFPVGRLDKDTVGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V + + L++G+VI +V +D + + + Sbjct: 120 HQLLSPKKHVPKTYEVHLKYPLGDQDIKRLEEGVVILDDYRTKPAKVEVDANESEDTRIR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 + + EGK ++K + + +V L R S G L LA G RE++ + L Sbjct: 180 LTITEGKYHQVKLMAQAVGNEVIFLKRRSMGAVSLDEDLAPGEYRELTDEEL 231 >gi|146296790|ref|YP_001180561.1| pseudouridine synthase [Caldicellulosiruptor saccharolyticus DSM 8903] gi|145410366|gb|ABP67370.1| ribosomal small subunit pseudouridine synthase A [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 232 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 58/215 (26%), Positives = 110/215 (51%), Gaps = 10/215 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A +G +R EV+R+I + VKVNG + + + + G + + ++ Sbjct: 2 RLDRFLAHSGFGTRSEVKRLIKKGLVKVNGKQAKSPDLKIDEDKDVVQVGEEIVELQKRV 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G V ++ DP T+F +P + + +VGRLD + EGLL++TN+G Sbjct: 62 YIMMNKPQGYVCSNDDPLS-PTIFSLIPENLKYRNLHTVGRLDKDAEGLLIITNNGEYTH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVT 190 + P + Y V+ +++++K+ + + G+V+ D TL + + V+ Sbjct: 121 KVISPKKHIEKEYIVKLEKELNREKIKVFEDGVVLD-----DGYKTLPAKYTILDDFTVS 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK +IK++FE KV L R+ G +L Sbjct: 176 LTIYEGKYHQIKRMFESIGNKVVYLKRVRIGRLKL 210 >gi|330999105|ref|ZP_08322826.1| pseudouridylate synthase [Parasutterella excrementihominis YIT 11859] gi|329575494|gb|EGG57033.1| pseudouridylate synthase [Parasutterella excrementihominis YIT 11859] Length = 292 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 74/248 (29%), Positives = 119/248 (47%), Gaps = 38/248 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA---- 70 R+SK ++ G+ SRRE + I++ VKV+G ++ V I +D RKA Sbjct: 10 RLSKRMSELGLCSRREADEWISKGWVKVDGQVVSELGSKVRPDQKITID----RKAQDQQ 65 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDG----------RSTVFDNL------PSIFSRVISVGR 113 ER + + +KP+G V+ ++ DG R+ D+ PS ++ GR Sbjct: 66 NERVTI-ILNKPLGYVSGQAE-DGHEPARILITPRNRWIDDPSPRRFNPSQLKSLVPAGR 123 Query: 114 LDINTEGLLLLTNDGGLARVL--ELPSTQWLRVYRV-----RFHGQVDQDKLNLLKKGIV 166 LDIN+ GLL+LT DG +A+ + E S + + RV R + + KL LL G+ Sbjct: 124 LDINSTGLLVLTQDGRIAKTIIGENSSVEKEYIVRVAMTDGRSNSEFPPAKLALLNHGLE 183 Query: 167 IQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 + G +V+ + + LREG+NR+I+++ + KV L R+ G +LG Sbjct: 184 LDGKPLEKAEVSWLNEDQ----LKFVLREGRNRQIRRMCDLVGLKVLALKRVRVGNVRLG 239 Query: 227 TLLAGSTR 234 L G R Sbjct: 240 KLPVGKWR 247 >gi|28897784|ref|NP_797389.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus RIMD 2210633] gi|260363791|ref|ZP_05776546.1| RNA pseudouridine synthase family protein [Vibrio parahaemolyticus K5030] gi|260876948|ref|ZP_05889303.1| RNA pseudouridine synthase family protein [Vibrio parahaemolyticus AN-5034] gi|260897911|ref|ZP_05906407.1| RNA pseudouridine synthase family protein [Vibrio parahaemolyticus Peru-466] gi|34098484|sp|Q87QY8|RLUE_VIBPA RecName: Full=Ribosomal large subunit pseudouridine synthase E; AltName: Full=rRNA pseudouridylate synthase E; AltName: Full=rRNA-uridine isomerase E gi|28805997|dbj|BAC59273.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus RIMD 2210633] gi|308085469|gb|EFO35164.1| RNA pseudouridine synthase family protein [Vibrio parahaemolyticus Peru-466] gi|308093803|gb|EFO43498.1| RNA pseudouridine synthase family protein [Vibrio parahaemolyticus AN-5034] gi|308113873|gb|EFO51413.1| RNA pseudouridine synthase family protein [Vibrio parahaemolyticus K5030] Length = 238 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 49/174 (28%), Positives = 86/174 (49%), Gaps = 16/174 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP ++ +D DGR T+ D +P V + GRLD ++EGL++LTNDG L L Sbjct: 65 IFNKPYDTLSQFTDGDGRKTLADYIP--VKDVYAAGRLDRDSEGLMVLTNDGILQAKLTQ 122 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT-------------Q 182 P ++ + Y V+ G + L L+KG+ ++ G+ +D Sbjct: 123 PKSKSPKTYWVQVDGAPQEQDLEKLRKGVELKDGMTLPAKVEVIDAPTIWERNPPVRFRA 182 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+ + + EG+NR+++++ + RL+R S G LG L G +E+ Sbjct: 183 NIPTTWLAITIIEGRNRQVRRMTAHIGFPTLRLVRYSMGDITLGDLQPGQWKEI 236 >gi|88798700|ref|ZP_01114283.1| Pseudouridine synthase, Rsu [Reinekea sp. MED297] gi|88778463|gb|EAR09655.1| Pseudouridine synthase, Rsu [Reinekea sp. MED297] Length = 228 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 47/186 (25%), Positives = 92/186 (49%), Gaps = 21/186 (11%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +R L++KP ++T +DPD R T+ D ++P ++S GRLD ++EGLLLLT+DG L Sbjct: 2 SRYLLFNKPFQVLTQFTDPDNRQTLADFIDVPEVYS----AGRLDYDSEGLLLLTDDGAL 57 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---------------GICYGDM 175 + P + + Y + G + + + L+ G+ ++ + Sbjct: 58 IHSMMNPRFKTPKTYLAQVEGDITDEAIRRLESGLQLKDGPTLPAKARRVSEPAWLWPRQ 117 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + +WV + L EG+NR+++++ + RLIR++ + +L G +E Sbjct: 118 PPIRERATIPASWVELTLVEGRNRQVRRMTAAVGFPTLRLIRVALAELTVESLSVGQYKE 177 Query: 236 VSKKIL 241 V ++++ Sbjct: 178 VDRELI 183 >gi|146306387|ref|YP_001186852.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas mendocina ymp] gi|145574588|gb|ABP84120.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas mendocina ymp] Length = 230 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 60/217 (27%), Positives = 106/217 (48%), Gaps = 4/217 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ SR++ +I+ R++V+G + +V +E+D L+ R Sbjct: 2 RLDRFLSNFPRFSRQDSRLLISAGRLRVDGETVRDPRFDVRDFQRVELDDELLQAGRSAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 W+ HKP+G+V+ + + R TV D L + + GRLD+NT GLLL+TNDG +R Sbjct: 62 YWMLHKPVGVVSATAHDEHR-TVLDLLDEPDRHDLHLAGRLDLNTSGLLLITNDGRWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + +VY V + + + ++G+ + L+ +A +T L Sbjct: 121 ITQPQQRKPKVYHVSTEQPITAEYAEVFERGLYFAFEDLTTLPARLELLGSHSARLT--L 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EG+ ++K++F F +V L R S G L LA Sbjct: 179 FEGRYHQVKRMFGHFRNRVVALHRESMGEIVLDPQLA 215 >gi|260776566|ref|ZP_05885461.1| ribosomal large subunit pseudouridine synthase F [Vibrio coralliilyticus ATCC BAA-450] gi|260607789|gb|EEX34054.1| ribosomal large subunit pseudouridine synthase F [Vibrio coralliilyticus ATCC BAA-450] Length = 344 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 67/248 (27%), Positives = 114/248 (45%), Gaps = 12/248 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRRE +R+I Q RV +NG + E V+ D + VD P+ Sbjct: 6 KRLNKFISETGFCSRREADRLIEQGRVTINGKVPE-MGTKVLPGDDVCVDDKPISAVTDK 64 Query: 74 RLWL-YHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +++ +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 65 PVYIALNKPTGITCTTERDIPGNIVDFIGHKK---RIFPIGRLDKPSDGLIFLTNDGDIV 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + + + + G+ I +V+ +T+ +T Sbjct: 122 NKILRAGNNHEKEYVVRVDKPITEQFIKKMSSGVDILDTTTLPCKVSKETKFSFRIVLTQ 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 GL NR+I+++ E ++V +L R+ L + G R +S + E L + E Sbjct: 182 GL----NRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGQWRYLSDDEIGEILA--MCE 235 Query: 252 EAQVNLDA 259 + DA Sbjct: 236 SSSGTEDA 243 >gi|300867766|ref|ZP_07112410.1| pseudouridine synthase, Rsu [Oscillatoria sp. PCC 6506] gi|300334233|emb|CBN57582.1| pseudouridine synthase, Rsu [Oscillatoria sp. PCC 6506] Length = 193 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 56/187 (29%), Positives = 92/187 (49%), Gaps = 20/187 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDG---RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R L++KP ++T +D + RST+ D +P F + VGRLD ++EGLLLLT+DG + Sbjct: 4 RYILFYKPYDVLTQFTDAESENKRSTLKDYIPISF--IYPVGRLDRDSEGLLLLTDDGQM 61 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------ 184 L P R Y V+ +D + L+ GI IQ +V L + + Sbjct: 62 QHRLSDPKFAHPRTYWVQVEKIPSEDAIAHLRSGITIQNYRTRPTKVQLLSTEPLLPPRN 121 Query: 185 ---------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 AW+ + L EGKNR+++++ + RL+R++ +L L G RE Sbjct: 122 PPIRFRKNIPTAWLEMTLTEGKNRQVRRMTAAVGFPTLRLVRVAIAHLRLDGLEPGQWRE 181 Query: 236 VSKKILR 242 ++ + L+ Sbjct: 182 LNPEELK 188 >gi|327253839|gb|EGE65468.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli STEC_7v] Length = 207 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 52/180 (28%), Positives = 89/180 (49%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 29 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 86 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQV------------ 177 L P + ++Y V+ G QD L L+ G+ + + G V Sbjct: 87 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAEMVEEPEWLWPRNPP 146 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 147 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREAT 206 >gi|152981336|ref|YP_001353751.1| pseudouridylate synthase [Janthinobacterium sp. Marseille] gi|151281413|gb|ABR89823.1| pseudouridylate synthase [Janthinobacterium sp. Marseille] Length = 248 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 67/243 (27%), Positives = 114/243 (46%), Gaps = 27/243 (11%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK ++ G+ SRRE + IA+ V+V+G ++ V+ T + V+ + + Sbjct: 4 PLRLSKRMSELGLCSRREADEWIARGWVRVDGKVVSELGSKVLPTQRVTVERQAAAEQSK 63 Query: 73 TRLWLYHKPIGLVTTHSD-----------------PDGRSTVFDNLPSIFSRVISVGRLD 115 L +KP+G V+ ++ D +T F P+ ++ GRLD Sbjct: 64 RVTVLINKPMGYVSGQAEDGYKPAVALVNASTRWSEDQAATQFH--PTQLRSLVPAGRLD 121 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH----GQVDQDKLNLLKKGIVIQGIC 171 I++ GLL+LT DG +A+ L T + Y VR G++ + L L G+++ G Sbjct: 122 IDSVGLLVLTQDGRIAKHLIGEDTSVEKEYLVRVQYSKPGKLPEADLKRLNHGLMLDGKK 181 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +V + ++ LREGK R+I+++ + KV L R+ G +LG L G Sbjct: 182 LLPAKVKWQNEDQ----LSFILREGKKRQIRRMCDMVGLKVIGLKRVRIGNVKLGDLPVG 237 Query: 232 STR 234 R Sbjct: 238 QWR 240 >gi|328473240|gb|EGF44088.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus 10329] Length = 232 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 49/174 (28%), Positives = 86/174 (49%), Gaps = 16/174 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP ++ +D DGR T+ D +P V + GRLD ++EGL++LTNDG L L Sbjct: 59 VFNKPYDTLSQFTDGDGRKTLADYIP--VKDVYAAGRLDRDSEGLMVLTNDGILQAKLTQ 116 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT-------------Q 182 P ++ + Y V+ G + L L+KG+ ++ G+ +D Sbjct: 117 PKSKSPKTYWVQVDGAPQEQDLEKLRKGVELKDGMTLPAKVEVIDAPTIWERNPPVRFRA 176 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+ + + EG+NR+++++ + RL+R S G LG L G +E+ Sbjct: 177 NIPTTWLAITIIEGRNRQVRRMTAHIGFPTLRLVRYSMGDITLGDLQPGQWKEI 230 >gi|257091858|ref|YP_003165499.1| pseudouridine synthase [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] gi|257044382|gb|ACV33570.1| pseudouridine synthase [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] Length = 305 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 105/234 (44%), Gaps = 18/234 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK++A G+ SRR+ + IA+ V V+G + I +D + + Sbjct: 68 RISKLMAERGLCSRRDADDYIARGWVFVDGRRVSELGTRADPGAAITLDTAAQTQQRKQM 127 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV--------FDNL------PSIFSRVISVGRLDINTEG 120 L HKP+G V+ +P V F PS + GRLDI++ G Sbjct: 128 TILLHKPVGYVSGQPEPGCTPAVTLIQPERQFRTPDTPVFHPSCLRGLAPAGRLDIDSTG 187 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LL+LT DG +AR L + + Y VR G++ L LL G+ + G +V Sbjct: 188 LLVLTQDGRVARQLIGEESTVEKEYLVRVDGRLADKDLALLNHGLSLDGRQLKPARV--- 244 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + ++ + LREG+ R+I+++ E +V L R+ G +L L G R Sbjct: 245 -EWLNDDQLRFVLREGRKRQIRRMCELVGLRVTGLKRVRIGAVRLADLPLGQWR 297 >gi|124801447|ref|XP_001349696.1| pseudouridine synthase, putative [Plasmodium falciparum 3D7] gi|3845303|gb|AAC71967.1| pseudouridine synthase, putative [Plasmodium falciparum 3D7] Length = 338 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 71/284 (25%), Positives = 125/284 (44%), Gaps = 61/284 (21%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEV--------DGV 65 R++K+I+ SRR+ + I +VK+N ++ +V + D + + + + Sbjct: 47 RLNKLISMKRNISRRKSDEFIKDGKVKINNKIITNPGTHVHIGKDSLRIYDKKIKLTNII 106 Query: 66 PLRKAERTRL--WL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTE 119 + K +L W+ HKP GL+ T +D R +++ P R+++VGRLD NT Sbjct: 107 NMIKQNENKLHKWIVLHKPKGLLCTSNDEKNRKSIYTLFPEEMLQKYRLVTVGRLDRNTS 166 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-------------- 165 G+LLLTND L P Q +R YRV G V + L L +GI Sbjct: 167 GVLLLTNDYAWVNKLTHPKYQRIRTYRVHIEGPVKMNALKELARGIYLEEDEKTQPKKIY 226 Query: 166 -----------------------------VIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 I+ + +++ DT+K + + + ++EG Sbjct: 227 NYKESREKSNIDDKKKKKMSKMKKKTNPAFIEILREEKIKIKEDTKKIT--VLNISIKEG 284 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTL-LAGSTREVSKK 239 +NR+I+K+F+ N V ++ R S+ L + RE+++K Sbjct: 285 RNRQIRKMFQQINQPVIKIKRTSFENITLKNIYFPKQYRELNQK 328 >gi|322373412|ref|ZP_08047948.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. C150] gi|321278454|gb|EFX55523.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. C150] Length = 243 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 62/216 (28%), Positives = 104/216 (48%), Gaps = 7/216 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ SR +V+ + +++V VNG + + D I L E Sbjct: 2 RLDKFLVDCGLGSRSQVKIYLKKKQVTVNGQVETSPKTQIDEKKDQIAYQSQELTH-ETF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D + TV D L +V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPKGVISATEDARHK-TVLDLLDETARHKQVFPVGRLDIDTHGLLLLTNNGDLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICY-GDMQVTLDTQKGSNAWV 189 + P ++Y+ + G +D+ + +KGI ++ C +++ Q + V Sbjct: 120 HAMLSPRKHVDKIYQAKVAGVMDEADMQAFEKGIELKDHTCQPAKLEILSVDQAVKTSTV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + EGK ++K++ +V L R+S G L Sbjct: 180 QVTIAEGKFHQVKRMVAACGKEVTDLQRLSMGSLVL 215 >gi|113969946|ref|YP_733739.1| ribosomal large subunit pseudouridine synthase E [Shewanella sp. MR-4] gi|113884630|gb|ABI38682.1| ribosomal large subunit pseudouridine synthase E [Shewanella sp. MR-4] Length = 261 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 58/226 (25%), Positives = 102/226 (45%), Gaps = 34/226 (15%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 + R G + R ER A+ R + + ST + G P+ + L++ Sbjct: 48 LQRGGTSERNSSERGGAKSRPQRHS-----------STTRTKPQGDPM-------IVLFN 89 Query: 80 KPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPST 139 KP ++ +D GR T+ D +P V + GRLD ++EGLLLLTNDG L L P Sbjct: 90 KPFDVLCQFTDEQGRKTLKDYIP--IPGVYAAGRLDRDSEGLLLLTNDGQLQAKLTEPKK 147 Query: 140 QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--------------DTQKGS 185 + + Y V+ G+ + L L++G+ ++ +V++ + + Sbjct: 148 KTFKTYWVQVEGKPTEADLAKLRQGVELKDGMTLPAKVSIMATPNVWPRNPPIRERKNIP 207 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RLIR G + L L G Sbjct: 208 TTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDDLATG 253 >gi|320155833|ref|YP_004188212.1| ribosomal large subunit pseudouridine synthase E [Vibrio vulnificus MO6-24/O] gi|319931145|gb|ADV86009.1| ribosomal large subunit pseudouridine synthase E [Vibrio vulnificus MO6-24/O] Length = 234 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 51/182 (28%), Positives = 94/182 (51%), Gaps = 17/182 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 AER ++ +++KP ++ +D +GR T+ D +P V + GRLD ++EGL++LTNDG Sbjct: 53 AER-KIIIFNKPYDTLSQFTDGEGRKTLADFIP--VKEVYAAGRLDRDSEGLMVLTNDGI 109 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQ----- 182 L L P ++ + Y V+ G + +L L+ G+ ++ G+ +++ D Q Sbjct: 110 LQAKLTQPKSKSPKTYWVQVEGAPTEAQLEPLRSGVELKDGLTLPAQVEIIQDPQLWERN 169 Query: 183 -------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 W+ + + EG+NR+++++ + RL+R S G L L G +E Sbjct: 170 PPVRFRAAIPTTWLAITIIEGRNRQVRRMTAHIGFPTLRLVRYSMGGMTLQDLQPGEWKE 229 Query: 236 VS 237 +S Sbjct: 230 IS 231 >gi|314933904|ref|ZP_07841269.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus caprae C87] gi|313654054|gb|EFS17811.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus caprae C87] Length = 230 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 64/219 (29%), Positives = 105/219 (47%), Gaps = 12/219 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + V+VN ++ + TD + VDG + + Sbjct: 2 RIDKFLANMGLGTRTEVKQLLKKGLVEVNEKKIKTPKSQIDPETDKVVVDGEEISYVDNV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 + L +KP G ++ D + TV D +P FS + VGRLD +TEGLLLLTNDG Sbjct: 62 YMML-NKPKGYISATED-NAHQTVLDLIPE-FSHLGIFPVGRLDKDTEGLLLLTNDGQFN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKGSNAWVT 190 L P + Y V + Q + K G+ + D +V + KG++ Sbjct: 119 HELMSPKKHVSKTYEVISKYPIKQSDIEAFKLGVEL-----SDGKVKPAELIKGNDRLSY 173 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V + EGK ++K++F +V L R+ +L L Sbjct: 174 VTIYEGKYHQVKRMFHSIENEVLELKRVKIANLELDKTL 212 >gi|195874174|ref|ZP_02701041.2| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|205360749|ref|ZP_02686223.2| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|195630337|gb|EDX48963.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|205347204|gb|EDZ33835.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] Length = 245 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 54/181 (29%), Positives = 89/181 (49%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 64 RVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLTNDGALQAR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + ++Y V+ G D L L+ G+ + GI + Sbjct: 122 LTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLWPRTPPI 181 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ V L EG+NR+++++ RLIR S G + L L G RE+++ Sbjct: 182 RERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQWREIAQ 241 Query: 239 K 239 + Sbjct: 242 E 242 >gi|54308341|ref|YP_129361.1| pseudouridine synthase family 1 protein [Photobacterium profundum SS9] gi|46912769|emb|CAG19559.1| putative pseudouridine synthase family 1protein [Photobacterium profundum SS9] Length = 216 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 51/186 (27%), Positives = 86/186 (46%), Gaps = 16/186 (8%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P R ++ L++KP ++T S G T+ D + + GRLD ++EGLL+LT Sbjct: 26 PKRPRGPQKIILFNKPFNVLTQFSGEPGDKTLADYI--SIKDIYPAGRLDKDSEGLLVLT 83 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--------------QGIC 171 NDG L L P ++ + Y V+ G D L L+KG+ + Q + Sbjct: 84 NDGILQARLTQPQSKQPKTYWVQVEGAPSDDDLEQLRKGVTLKDGLTLPADIERMEQPVI 143 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + W+ + LREG+NR+++++ + RLIR + + L G Sbjct: 144 WDRTPPIRERKNIPTTWLALTLREGRNRQVRRMTAHIGFPTLRLIRYKMADWTVDDLAPG 203 Query: 232 STREVS 237 REV+ Sbjct: 204 EWREVT 209 >gi|238757900|ref|ZP_04619082.1| Ribosomal small subunit pseudouridine synthase A [Yersinia aldovae ATCC 35236] gi|238703885|gb|EEP96420.1| Ribosomal small subunit pseudouridine synthase A [Yersinia aldovae ATCC 35236] Length = 236 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 59/237 (24%), Positives = 111/237 (46%), Gaps = 3/237 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQTVGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + D G+ + L+ + V + L Sbjct: 122 TSPRHHCEKTYLVTLEHPLADDTAQQFTDGVQLHNEESLTKPARLEVIEPQ--LVRLTLS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHLL 250 EG+ ++K++F +V L R G +L LA G R ++++ + PHLL Sbjct: 180 EGRYHQVKRMFAAVGNRVLELHRERIGEIKLDDDLAPGEYRPLTEEEIASVGAPHLL 236 >gi|323527102|ref|YP_004229255.1| pseudouridine synthase [Burkholderia sp. CCGE1001] gi|323384104|gb|ADX56195.1| pseudouridine synthase [Burkholderia sp. CCGE1001] Length = 239 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 62/220 (28%), Positives = 97/220 (44%), Gaps = 9/220 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH---IEVDGVPLRKAER 72 + ++ G SRR+ +I RV ++G + A + + D VDGV ER Sbjct: 3 LESILFSQGFGSRRQCRALIVDARVSIDGTVCADADADFPAGDAAFCFSVDGVVWPYRER 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L L +KP G + DP +VF LP F+ V VGRLD +T GLLLL++DG Sbjct: 63 AYL-LLNKPAGYECSR-DPQHHLSVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGKF 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 P + +VY +D +L LL+ G+++ G +D + + Sbjct: 121 VHTFTSPKRKVPKVYVATTRHPLDDAQLGLLRHGVLLHG--ESKPVAAVDAEARGEHSLA 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + EGK ++K++ + L R G L LA Sbjct: 179 LTVMEGKYHQVKRMIAAAGNRCEALHRERIGGLALPATLA 218 >gi|145631551|ref|ZP_01787318.1| hypothetical protein CGSHi22421_09850 [Haemophilus influenzae R3021] gi|148826662|ref|YP_001291415.1| hypothetical protein CGSHiEE_08665 [Haemophilus influenzae PittEE] gi|144982820|gb|EDJ90342.1| hypothetical protein CGSHi22421_09850 [Haemophilus influenzae R3021] gi|148716822|gb|ABQ99032.1| hypothetical protein CGSHiEE_08665 [Haemophilus influenzae PittEE] gi|309973807|gb|ADO97008.1| 23S rRNA U2457 pseudouridine synthase [Haemophilus influenzae R2846] Length = 227 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 50/183 (27%), Positives = 96/183 (52%), Gaps = 20/183 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T + L++KP ++T +D GR+T+ F ++P++++ GRLD ++EGLL+LTN+G Sbjct: 36 DETTVVLFNKPFDVLTQFTDEQGRATLKDFISIPNVYA----AGRLDRDSEGLLILTNNG 91 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L L P + + Y V+ G ++ L L+KG+ ++ +V L ++ Sbjct: 92 ELQHRLSDPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGMTKPAKVRLISEPNLWER 151 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + + EG+NR+++++ + RL+R+S G + L GS R Sbjct: 152 NPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSINGLENGSFR 211 Query: 235 EVS 237 +S Sbjct: 212 LLS 214 >gi|157960717|ref|YP_001500751.1| pseudouridine synthase [Shewanella pealeana ATCC 700345] gi|157845717|gb|ABV86216.1| pseudouridine synthase [Shewanella pealeana ATCC 700345] Length = 234 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 70/219 (31%), Positives = 109/219 (49%), Gaps = 7/219 (3%) Query: 21 ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHK 80 A+ GI +++ V ++A+ +V V+G + + H+ +DG L+ + + LY K Sbjct: 14 AKTGI-NKKHVRLLLAKGQVLVDGEVARDIDQIIDEFSHVCLDGKVLQANAPSYVMLY-K 71 Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARVLELPST 139 P+G+V+ D D TV D L + VGRLD+NT GLLLLTNDG ++ L P Sbjct: 72 PVGVVSATVD-DKHRTVIDLLERDDKHSLHIVGRLDLNTSGLLLLTNDGRWSKKLMSPDH 130 Query: 140 QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNR 199 + +VYRV +D+ + G+ L+ A VT L EG+ Sbjct: 131 KVGKVYRVTLKNPIDESYIAAFAGGMYFAFEDITTQPAKLEIVDEHTALVT--LVEGRYH 188 Query: 200 EIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 +IK++F F V L R+S G +L LA G +R++S Sbjct: 189 QIKRMFGRFRNPVIGLHRLSVGAIELDPQLAVGQSRDLS 227 >gi|242239776|ref|YP_002987957.1| 16S rRNA pseudouridylate synthase A [Dickeya dadantii Ech703] gi|242131833|gb|ACS86135.1| pseudouridine synthase [Dickeya dadantii Ech703] Length = 232 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 58/226 (25%), Positives = 103/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR + R + QRV V+G +++ A + + DG PL + R Sbjct: 2 RLDKFLSQQLGISRSLIARELRAQRVTVDGDVIKNGAFKLAPEHQVAFDGNPLVQQTGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ HKP G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + + Sbjct: 62 YFMLHKPQGYVCSTDDPDHPTILYFIDEPVAHKLHAAGRLDIDTSGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V ++ GI + G L+ A +T+ Sbjct: 122 TSPKHHCEKTYLVALDRPIEPGTAEHFAAGIQLNGEKELTKPAVLEVLDEQLARLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 EG+ ++K++F V L R G L +L G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVTALHRERIGAIVLDSSLEPGEYRALTQE 225 >gi|161614528|ref|YP_001588493.1| hypothetical protein SPAB_02277 [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|194442636|ref|YP_002040493.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|197250532|ref|YP_002146804.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197263615|ref|ZP_03163689.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|205357418|ref|ZP_02347541.2| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|161363892|gb|ABX67660.1| hypothetical protein SPAB_02277 [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|194401299|gb|ACF61521.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|197214235|gb|ACH51632.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197241870|gb|EDY24490.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|205321847|gb|EDZ09686.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|323129507|gb|ADX16937.1| putative RNA pseudouridylate synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. 4/74] gi|326628108|gb|EGE34451.1| RNA pseudouridylate synthase [Salmonella enterica subsp. enterica serovar Gallinarum str. 9] Length = 245 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 54/181 (29%), Positives = 89/181 (49%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 64 RVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLTNDGALQAR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + ++Y V+ G D L L+ G+ + GI + Sbjct: 122 LTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLWPRTPPI 181 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ V L EG+NR+++++ RLIR S G + L L G RE+++ Sbjct: 182 RERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQWREIAQ 241 Query: 239 K 239 + Sbjct: 242 E 242 >gi|86142065|ref|ZP_01060589.1| putative ribosomal large subunit pseudouridine synthase [Leeuwenhoekiella blandensis MED217] gi|85831628|gb|EAQ50084.1| putative ribosomal large subunit pseudouridine synthase [Leeuwenhoekiella blandensis MED217] Length = 284 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 66/232 (28%), Positives = 105/232 (45%), Gaps = 11/232 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +GI SRRE + I+ +V VNG ++ V D + DG + + Sbjct: 54 RLNKYIANSGICSRREADLYISTGQVTVNGEIINEMGFKVNLDDDVRFDGRRINPEAKAY 113 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L +KP G T S+ G + + S SR+ VGRL N GLLL TND + + L Sbjct: 114 VLL-NKPKGFSVTTSNAKGMTVMDLVASSTKSRIQPVGRLGRNATGLLLFTNDDKVMKKL 172 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVG 192 T R++ + + + L+ +KKG+ + G + D+ K V + Sbjct: 173 TNSKTGLPRLFHIELDKNLKAEDLDKIKKGLTVDGKRLEIEDLSYVDGAPK---KEVGLK 229 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +R N I+ +FE ++V R+ + G L G R L+EQ Sbjct: 230 MRNVGNSIIRSIFEHLGYQVVRVDCVILGTLTKKDLPRGKYRH-----LKEQ 276 >gi|194447665|ref|YP_002045239.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|205359348|ref|ZP_02669243.2| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|194405969|gb|ACF66188.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|205336733|gb|EDZ23497.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] Length = 245 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 54/181 (29%), Positives = 89/181 (49%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 64 RVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLTNDGALQAR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + ++Y V+ G D L L+ G+ + GI + Sbjct: 122 LTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEMVAEPDWLWPRTPPI 181 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ V L EG+NR+++++ RLIR S G + L L G RE+++ Sbjct: 182 RERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQWREIAQ 241 Query: 239 K 239 + Sbjct: 242 E 242 >gi|163802088|ref|ZP_02195984.1| pseudouridine synthase family 1 protein [Vibrio sp. AND4] gi|159174229|gb|EDP59037.1| pseudouridine synthase family 1 protein [Vibrio sp. AND4] Length = 234 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 49/175 (28%), Positives = 88/175 (50%), Gaps = 16/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP ++ +D DGR T+ D +P V + GRLD ++EGL++LTNDG L L Sbjct: 61 IFNKPYDTLSQFTDGDGRKTLADYIP--VKDVYAAGRLDRDSEGLMVLTNDGILQAKLTQ 118 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQK------------ 183 P ++ + Y V+ G ++ L L+KG+ ++ GI + + + Sbjct: 119 PQSKSPKTYWVQVDGAPTEEDLEKLRKGVELKDGITLPAIVEVMPEPEIWERNPPVRFRA 178 Query: 184 -GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ + + EG+NR+++++ + RL+R S G L L G RE++ Sbjct: 179 NIPTTWLAITIIEGRNRQVRRMTAHIGFPTLRLVRYSMGSIVLDNLKPGEWREIN 233 >gi|110806162|ref|YP_689682.1| 16S rRNA pseudouridylate synthase A [Shigella flexneri 5 str. 8401] gi|26108971|gb|AAN81174.1|AE016763_133 Ribosomal small subunit pseudouridine synthase A [Escherichia coli CFT073] gi|91073047|gb|ABE07928.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli UTI89] gi|110615710|gb|ABF04377.1| 16S pseudouridylate 516 synthase [Shigella flexneri 5 str. 8401] gi|281601638|gb|ADA74622.1| Ribosomal small subunit pseudouridine synthase A [Shigella flexneri 2002017] Length = 263 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 61/230 (26%), Positives = 104/230 (45%), Gaps = 3/230 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 30 ITHMRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQ 89 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG Sbjct: 90 HGPRYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQW 149 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + P + Y V V D KG+ + D+ + + V Sbjct: 150 SHRITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTQVR 207 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 + + EG+ ++K++F V L R G L LA G R ++++ Sbjct: 208 LTISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEE 257 >gi|332284234|ref|YP_004416145.1| pseudouridylate synthase [Pusillimonas sp. T7-7] gi|330428187|gb|AEC19521.1| pseudouridylate synthase [Pusillimonas sp. T7-7] Length = 244 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 107/235 (45%), Gaps = 19/235 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK++A G+ SRRE + I + V+V+G+++ I +D R+ Sbjct: 5 RISKLMAERGLCSRREADAYIERGWVRVDGVVVSELGSKAWPDQKITLDKQAQRRQTSRV 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV----------FDNLPSIFS-----RVISVGRLDINTE 119 L +KP+G V+ ++ R V D P F + GRLDI+++ Sbjct: 65 TILLNKPVGYVSGQAEQGYRPAVSLISASTRYRVDKSPLKFEPGHLRGLAPAGRLDIDSQ 124 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT DG +AR L ++ + Y VR G++ + L L G+ + G V Sbjct: 125 GLLVLTQDGRIARQLINEDSEIDKEYLVRVQGKIAGNGLAQLNFGLSLDGKPLRRAHVEW 184 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + L+EGK R+I+++ E KV L R+ G LG L G R Sbjct: 185 QNED----QLRFVLQEGKKRQIRRMCEQVGLKVIGLKRVRMGRIVLGDLPPGQWR 235 >gi|145637609|ref|ZP_01793265.1| ribosomal large subunit pseudouridine synthase E [Haemophilus influenzae PittHH] gi|145269206|gb|EDK09153.1| ribosomal large subunit pseudouridine synthase E [Haemophilus influenzae PittHH] Length = 221 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 49/183 (26%), Positives = 96/183 (52%), Gaps = 20/183 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T++ L++KP ++T +D GR+T+ F ++P++++ GRLD ++EGLL+LTN+G Sbjct: 30 DETKVVLFNKPFDVLTQFTDEQGRATLKDFISIPNVYA----AGRLDRDSEGLLILTNNG 85 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L L P + + Y V+ G ++ L L+KG+ ++ +V L ++ Sbjct: 86 ELQHRLSDPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGMTKPAKVRLISEPNLWER 145 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + + EG+NR+++++ + RL+R+ G + L GS R Sbjct: 146 NPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVGMGSLSINGLANGSFR 205 Query: 235 EVS 237 +S Sbjct: 206 LLS 208 >gi|153949734|ref|YP_001401683.1| 16S rRNA pseudouridylate synthase A [Yersinia pseudotuberculosis IP 31758] gi|170025018|ref|YP_001721523.1| 16S rRNA pseudouridylate synthase A [Yersinia pseudotuberculosis YPIII] gi|152961229|gb|ABS48690.1| ribosomal small subunit pseudouridine synthase A [Yersinia pseudotuberculosis IP 31758] gi|169751552|gb|ACA69070.1| pseudouridine synthase [Yersinia pseudotuberculosis YPIII] Length = 235 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 58/236 (24%), Positives = 108/236 (45%), Gaps = 3/236 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQMVGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRV 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + D G+ + LD + +T+ Sbjct: 122 TSPRHHCEKTYLVTLEHPLSDDTAQQFADGVQLHNEKSLTKPAQLDVIEPQRVRLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G L LA G R ++ + + PHL Sbjct: 180 EGRYHQVKRMFAAVGNRVIELHRERIGDITLDDDLAPGEYRPLTAEEIASVGAPHL 235 >gi|330828860|ref|YP_004391812.1| ribosomal large subunit pseudouridine synthase E [Aeromonas veronii B565] gi|328803996|gb|AEB49195.1| ribosomal large subunit pseudouridine synthase E [Aeromonas veronii B565] Length = 307 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 62/229 (27%), Positives = 105/229 (45%), Gaps = 31/229 (13%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDG 128 E +L L +KP ++ +D GR T+ D + P I++ GRLD ++EGLLLLTNDG Sbjct: 41 EDRKLLLLNKPYMVLCQFTDEAGRETLKDYIKEPGIYA----AGRLDRDSEGLLLLTNDG 96 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT------ 181 L L P + + Y V+ G ++KL L+ G+ + G+ +D Sbjct: 97 KLQARLTQPGEKTPKTYWVQVEGIPSEEKLAALRAGVELNDGMTLPAGARIMDEPAVWPR 156 Query: 182 -------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 ++ +W+ + + EG+NR+++++ RLIR + G + L L G +R Sbjct: 157 NPPIRERKEIPTSWLEIKIIEGRNRQVRRMTAHIGHPTLRLIRYAIGDWTLDGLAPGESR 216 Query: 235 EVSKKIL-----------REQLGPHLLEEAQVNLDAPIYSSETLVRDRP 272 + L + G H + A+ DAP +S+ +RP Sbjct: 217 SLPAPELTPSSSRSPRPASSRSGAHTAKPAKPAGDAPRRASQPRQDERP 265 >gi|320667979|gb|EFX34882.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 str. LSU-61] Length = 231 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 104/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D + KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTADQFAKGVQLHN--EKDLTKPAVLEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEE 225 >gi|212712843|ref|ZP_03320971.1| hypothetical protein PROVALCAL_03940 [Providencia alcalifaciens DSM 30120] gi|212684535|gb|EEB44063.1| hypothetical protein PROVALCAL_03940 [Providencia alcalifaciens DSM 30120] Length = 178 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 53/176 (30%), Positives = 89/176 (50%), Gaps = 17/176 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP ++ +D GR T+ + +P S V + GRLD ++EGLL+LTNDG L L Sbjct: 3 IFNKPFDVLPQFTDEQGRETLKNYIP--VSDVYAAGRLDRDSEGLLVLTNDGKLQAELTQ 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL--------DT 181 P + +VY + G D+ L ++G+ + GI D L + Sbjct: 61 PQKKTGKVYYAQVEGVPDETALAKFRQGLTLNDGPTLPAGIERVDEPEWLWVRNPPIRER 120 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + L EG+NR+++++ + RLIR S G F L L +G +EV+ Sbjct: 121 KNIPTSWLKITLYEGRNRQVRRMTANIGFPTLRLIRYSMGSFTLNNLSSGEWKEVT 176 >gi|256822323|ref|YP_003146286.1| pseudouridine synthase [Kangiella koreensis DSM 16069] gi|256795862|gb|ACV26518.1| pseudouridine synthase [Kangiella koreensis DSM 16069] Length = 203 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 51/191 (26%), Positives = 93/191 (48%), Gaps = 20/191 (10%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++L L++KP + + +G ST+ D ++P ++ GRLD ++EGLLLLT+DG L Sbjct: 2 SKLVLFNKPFNTLCQFTGENGDSTLADYIDIPEVYP----AGRLDKDSEGLLLLTDDGQL 57 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL----------- 179 + P + + Y V+ G + ++L L+ G++IQ +V L Sbjct: 58 QNQIASPKHKMEKTYWVQVEGVPEDNELEPLRLGVIIQNYKTKPAKVRLLETPEVWPRNP 117 Query: 180 ---DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + +W+ + + EGKNR+++++ + RLIR G +QL L G + + Sbjct: 118 PIRERKNIPTSWLEITISEGKNRQVRRMTAAVGFPTLRLIRAQIGQWQLDDLKVGEYKVI 177 Query: 237 SKKILREQLGP 247 + GP Sbjct: 178 EVSTPKAMAGP 188 >gi|71065415|ref|YP_264142.1| 23S rRNA pseudouridine synthase F [Psychrobacter arcticus 273-4] gi|71038400|gb|AAZ18708.1| ribosomal large subunit pseudouridine synthase F [Psychrobacter arcticus 273-4] Length = 332 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 60/212 (28%), Positives = 110/212 (51%), Gaps = 13/212 (6%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--V 65 N + R++K I+ +GI SRR+ +R I Q V +NG +RAAV V++ D ++V+G + Sbjct: 3 NASSTRLNKYISESGICSRRDADRFIEQGNVYLNG---KRAAVGDQVVAGDTVKVNGQLI 59 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 ++A+ + +KP+G+V+T + + V S+ R+ +GRLD +++GL+ LT Sbjct: 60 EPKEADDFVFIVLNKPVGIVSTTESSEKNNIVDFVRHSV--RIFPIGRLDKDSQGLIFLT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N+G L + + Y V + + + L G+ + G M K + Sbjct: 118 NNGDLVNKVLRAGNNHEKDYVVTVNKPITDSFIEGLAGGVPM----LGKMTKKCPVTKVA 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 + L +G NR+I+++ E F ++V +L R Sbjct: 174 PNVFNITLVQGLNRQIRRMCEHFGYEVVKLER 205 >gi|301169983|emb|CBW29587.1| 16S rRNA pseudouridylate 516 synthase [Haemophilus influenzae 10810] Length = 232 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 61/226 (26%), Positives = 108/226 (47%), Gaps = 5/226 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E + Sbjct: 2 RLDKFIAENVGLTRSQATKAIHQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWVEEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V ++ D D + F + P + ++ S GRLD++T GL+LLT+DG + Sbjct: 62 YFMLHKPQGCVCSNDDGDYPTIYQFFDYP-LAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+++ +GI+++G L+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 EG+ ++K++F KV L R G L +L G R +++ Sbjct: 179 SEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRSLTQ 224 >gi|313115054|ref|ZP_07800544.1| conserved hypothetical protein [Faecalibacterium cf. prausnitzii KLE1255] gi|310622616|gb|EFQ06081.1| conserved hypothetical protein [Faecalibacterium cf. prausnitzii KLE1255] Length = 233 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 63/229 (27%), Positives = 109/229 (47%), Gaps = 8/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A +R E + ++++ RV+VNG + ++ + +D + VDG L + Sbjct: 2 RLDKYLAETAQCTRSEAKALLSKGRVQVNGAVCKKGDTQLKESDTVAVDGRALSYQQFVY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G+V+ +D +TV D + + R + GRLD + G +LLT+DG A Sbjct: 62 IML-NKPEGVVSASTDKR-DTTVVDLVGDAYPRRQLFPAGRLDKTSTGFVLLTDDGTFAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V + ++ G+ + G +VT + G V V Sbjct: 120 DILAPKRHVSKTYTVVLDTPLTEEMRTGFAAGVTLADGTALSPAEVTALSADGCT--VRV 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 L++G +IK++F + VN L R + G L LA G RE+S + Sbjct: 178 VLKQGVYHQIKRMFGVYGAGVNGLHRDAIGGLALDPALAPGQWRELSAE 226 >gi|194470599|ref|ZP_03076583.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|205358660|ref|ZP_02658177.2| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|194456963|gb|EDX45802.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|205332703|gb|EDZ19467.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] Length = 245 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 54/181 (29%), Positives = 89/181 (49%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 64 RVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLTNDGALQAR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + ++Y V+ G D L L+ G+ + GI + Sbjct: 122 LTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLWPRTPPI 181 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ V L EG+NR+++++ RLIR S G + L L G RE+++ Sbjct: 182 RERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQWREIAQ 241 Query: 239 K 239 + Sbjct: 242 E 242 >gi|306814015|ref|ZP_07448188.1| 23S rRNA pseudouridine synthase E [Escherichia coli NC101] gi|305852652|gb|EFM53100.1| 23S rRNA pseudouridine synthase E [Escherichia coli NC101] Length = 207 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 51/180 (28%), Positives = 86/180 (47%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 29 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 86 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 L P + ++Y V+ G QD L L+ G+ + L + Sbjct: 87 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPAWLWPRNPP 146 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 147 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGNYSLDNLANGEWREAT 206 >gi|300902164|ref|ZP_07120164.1| hypothetical protein HMPREF9536_00353 [Escherichia coli MS 84-1] gi|301306200|ref|ZP_07212275.1| hypothetical protein HMPREF9347_04814 [Escherichia coli MS 124-1] gi|300405683|gb|EFJ89221.1| hypothetical protein HMPREF9536_00353 [Escherichia coli MS 84-1] gi|300838566|gb|EFK66326.1| hypothetical protein HMPREF9347_04814 [Escherichia coli MS 124-1] gi|315255301|gb|EFU35269.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli MS 85-1] Length = 268 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 61/229 (26%), Positives = 104/229 (45%), Gaps = 3/229 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 36 THMRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQH 95 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 96 GPRYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWS 155 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + D+ + + V + Sbjct: 156 HRITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTQVRL 213 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 + EG+ ++K++F V L R G L LA G R ++++ Sbjct: 214 TISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEE 262 >gi|282917013|ref|ZP_06324771.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus D139] gi|283770831|ref|ZP_06343723.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus H19] gi|282319500|gb|EFB49852.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus D139] gi|283460978|gb|EFC08068.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus H19] gi|302333417|gb|ADL23610.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus JKD6159] Length = 231 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 63/224 (28%), Positives = 106/224 (47%), Gaps = 11/224 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 2 RIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKISVRGELIEYVENV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G ++ D + TV D +P + VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPKGYISATEDHHSK-TVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + +D + K+G+ + G + +D Q V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLSDGKVKPAILTYIDNQTSH-----V 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 + EGK ++K++F +V L RI +L + L +G R Sbjct: 175 TIYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYR 218 >gi|224584255|ref|YP_002638053.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|224468782|gb|ACN46612.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] Length = 245 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 54/181 (29%), Positives = 89/181 (49%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 64 RVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDCDSEGLLVLTNDGVLQAR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + ++Y V+ G D L L+ G+ + GI + Sbjct: 122 LTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLWPRTPPI 181 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ V L EG+NR+++++ RLIR S G + L L G RE+++ Sbjct: 182 RERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQWREIAQ 241 Query: 239 K 239 + Sbjct: 242 E 242 >gi|110644361|ref|YP_672091.1| 23S rRNA pseudouridine synthase F [Escherichia coli 536] gi|110345953|gb|ABG72190.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 536] Length = 290 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 115/227 (50%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R++ Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPRES 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRPGNDHEKEYLVTVDKPITDEFIRGMGPGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|325181472|emb|CCA15906.1| ribosomal large subunit pseudouridine synthase F put [Albugo laibachii Nc14] Length = 246 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 63/235 (26%), Positives = 109/235 (46%), Gaps = 27/235 (11%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 +A + SRR+ ER I+ V VNG +++ + + +E G ++ ++ + + Sbjct: 1 MAERKMCSRRDAERYISAGDVYVNGEQIQQDWIKIPRDSCVEFSGKAVKAEKQKVSVILN 60 Query: 80 KPIGLVTTHSDPDGRSTV---------------FDNLPSIFSRVISVGRLDINTEGLLLL 124 KP+G V++ +P + + + P S++ GRLDIN+ GLLL Sbjct: 61 KPLGYVSSQPEPMRKPAIELLSIQNAFQLTARWYGKEPKSLSKLAVCGRLDINSTGLLLF 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK------LNLLKKGIVIQGICYGDMQV- 177 T DG LA+ + P+ + Y VR +++D ++ L++G + ICY V Sbjct: 121 TQDGVLAKQILDPNGGVEKEYLVRVDMDLERDTKQAEEVVDKLREGFIWNDICYRARSVR 180 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 L+ + + L EGK R I+ + E KV L R+ G +LG L G+ Sbjct: 181 VLNANQ-----LQFILTEGKKRHIRYMCEAVGIKVIALKRVRIGNIRLGALPVGN 230 >gi|22126794|ref|NP_670217.1| 16S rRNA pseudouridylate synthase A [Yersinia pestis KIM 10] gi|45441149|ref|NP_992688.1| 16S rRNA pseudouridylate synthase A [Yersinia pestis biovar Microtus str. 91001] gi|108806980|ref|YP_650896.1| 16S rRNA pseudouridylate synthase A [Yersinia pestis Antiqua] gi|108812871|ref|YP_648638.1| 16S rRNA pseudouridylate synthase A [Yersinia pestis Nepal516] gi|145599700|ref|YP_001163776.1| 16S rRNA pseudouridylate synthase A [Yersinia pestis Pestoides F] gi|149366750|ref|ZP_01888784.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis CA88-4125] gi|162418753|ref|YP_001606002.1| 16S rRNA pseudouridylate synthase A [Yersinia pestis Angola] gi|165924511|ref|ZP_02220343.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Orientalis str. F1991016] gi|165936140|ref|ZP_02224709.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Orientalis str. IP275] gi|166009884|ref|ZP_02230782.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Antiqua str. E1979001] gi|166211428|ref|ZP_02237463.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Antiqua str. B42003004] gi|167400432|ref|ZP_02305945.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167419607|ref|ZP_02311360.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167424159|ref|ZP_02315912.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Mediaevalis str. K1973002] gi|218928420|ref|YP_002346295.1| 16S rRNA pseudouridylate synthase A [Yersinia pestis CO92] gi|229841215|ref|ZP_04461374.1| 16S rRNA pseudouridylate 516 synthase [Yersinia pestis biovar Orientalis str. PEXU2] gi|229843320|ref|ZP_04463466.1| 16S rRNA pseudouridylate 516 synthase [Yersinia pestis biovar Orientalis str. India 195] gi|229903299|ref|ZP_04518412.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Nepal516] gi|270487103|ref|ZP_06204177.1| pseudouridylate synthase [Yersinia pestis KIM D27] gi|294503270|ref|YP_003567332.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Z176003] gi|34098649|sp|Q8ZGM2|RSUA_YERPE RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|21959821|gb|AAM86468.1|AE013894_3 16S pseudouridylate 516 synthase [Yersinia pestis KIM 10] gi|45436008|gb|AAS61565.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Microtus str. 91001] gi|108776519|gb|ABG19038.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Nepal516] gi|108778893|gb|ABG12951.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Antiqua] gi|115347031|emb|CAL19923.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis CO92] gi|145211396|gb|ABP40803.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Pestoides F] gi|149291124|gb|EDM41199.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis CA88-4125] gi|162351568|gb|ABX85516.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Angola] gi|165915754|gb|EDR34362.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Orientalis str. IP275] gi|165923571|gb|EDR40703.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Orientalis str. F1991016] gi|165991280|gb|EDR43581.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Antiqua str. E1979001] gi|166207199|gb|EDR51679.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Antiqua str. B42003004] gi|166962348|gb|EDR58369.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167050381|gb|EDR61789.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167057008|gb|EDR66771.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Mediaevalis str. K1973002] gi|229679069|gb|EEO75172.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Nepal516] gi|229689667|gb|EEO81728.1| 16S rRNA pseudouridylate 516 synthase [Yersinia pestis biovar Orientalis str. India 195] gi|229697581|gb|EEO87628.1| 16S rRNA pseudouridylate 516 synthase [Yersinia pestis biovar Orientalis str. PEXU2] gi|262361308|gb|ACY58029.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis D106004] gi|262365154|gb|ACY61711.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis D182038] gi|270335607|gb|EFA46384.1| pseudouridylate synthase [Yersinia pestis KIM D27] gi|294353729|gb|ADE64070.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Z176003] gi|320015889|gb|ADV99460.1| Ribosomal small subunit pseudouridine synthaseA [Yersinia pestis biovar Medievalis str. Harbin 35] Length = 235 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 60/240 (25%), Positives = 112/240 (46%), Gaps = 11/240 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQMVGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRV 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT----LDTQKGSNAWVT 190 P + Y V + D G+ + Y + +T LD + +T Sbjct: 122 TSPRHHCEKTYLVTLEHPLSDDTAQQFADGVQL----YNEKSLTKPAQLDVIEPQRVRLT 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHL 249 + EG+ ++K++F +V L R G L LA G R ++ + + PHL Sbjct: 178 IS--EGRYHQVKRMFAAVGNRVIELHRERIGDITLDDDLAPGEYRPLTTEEIASVGAPHL 235 >gi|308186451|ref|YP_003930582.1| ribosomal large subunit pseudouridine synthase [Pantoea vagans C9-1] gi|308056961|gb|ADO09133.1| putative ribosomal large subunit pseudouridine synthase [Pantoea vagans C9-1] Length = 223 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 52/177 (29%), Positives = 87/177 (49%), Gaps = 17/177 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D + + V + GRLD ++EGL++LTNDG L L Sbjct: 46 LFNKPFDVLPQFTDEAGRRTLKDFV--SVADVYAAGRLDRDSEGLMVLTNDGALQAALTQ 103 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGI--------------VIQGICYGDMQVTLDTQ 182 P + +VY V+ G + L L+ G+ V + Q + + Sbjct: 104 PGKRTGKVYYVQVEGDPQEADLQPLRDGVNLKDGMTLPAGVEKVAEPAWLWPRQPPIRER 163 Query: 183 KG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 K W+ V L EG+NR+++++ + RLIR + G + L L +G RE+S+ Sbjct: 164 KNIPTQWLKVTLYEGRNRQVRRMTAHIGFPTLRLIRYAMGSYSLDDLASGMWREISE 220 >gi|331657199|ref|ZP_08358161.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli TA206] gi|315296604|gb|EFU55899.1| conserved hypothetical protein [Escherichia coli MS 16-3] gi|331055447|gb|EGI27456.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli TA206] Length = 217 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 51/180 (28%), Positives = 86/180 (47%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 L P + ++Y V+ G QD L L+ G+ + L + Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPAWLWPRNPP 156 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGNYSLDNLANGEWREAT 216 >gi|200386647|ref|ZP_03213259.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|199603745|gb|EDZ02290.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Virchow str. SL491] Length = 231 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 103/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLALQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTEDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHN--EKDLTKPATLEVITPVQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F +V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEE 225 >gi|254283622|ref|ZP_04958590.1| ribosomal large subunit pseudouridine synthase E [gamma proteobacterium NOR51-B] gi|219679825|gb|EED36174.1| ribosomal large subunit pseudouridine synthase E [gamma proteobacterium NOR51-B] Length = 184 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 54/180 (30%), Positives = 92/180 (51%), Gaps = 21/180 (11%) Query: 77 LYHKPIGLVTTHSDPD-----GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP +++ +D + R T+ D L + RV GRLD ++EGLLLLTNDG L Sbjct: 6 LINKPFRVLSQFTDREQTSRGPRKTLADYLSAPGFRV--AGRLDYDSEGLLLLTNDGVLQ 63 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------- 184 + + P + + Y V+ G V+ + L L KG+ ++ + T ++ Sbjct: 64 QRIANPRHKQWKTYWVQIEGAVNNEILGQLMKGVELKDGPTQPCKATAISEPALWSRDPP 123 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++W+ + LREG+NR+I+++ + RL+R + GP+QL TL G R ++ Sbjct: 124 VRYRRNVPDSWIEMSLREGRNRQIRRMTAAVGFPTLRLVRRAIGPWQLDTLRPGEHRRLT 183 >gi|301169411|emb|CBW29011.1| 23S rRNA pseudouridine synthase [Haemophilus influenzae 10810] Length = 240 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 50/183 (27%), Positives = 96/183 (52%), Gaps = 20/183 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T++ L++KP ++T +D GR+T+ F ++P++++ GRLD ++EGLL+LTN G Sbjct: 49 DETKVVLFNKPFDVLTQFTDEQGRATLKDFISIPNVYA----AGRLDRDSEGLLILTNHG 104 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L L P + + Y V+ G ++ L L+KG+ ++ +V L ++ Sbjct: 105 ELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKPAKVRLISEPNLWER 164 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + + EG+NR+++++ + RL+R+S G + L GS R Sbjct: 165 NPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGLLSINGLENGSFR 224 Query: 235 EVS 237 +S Sbjct: 225 LLS 227 >gi|254481482|ref|ZP_05094726.1| conserved hypothetical protein, putative [marine gamma proteobacterium HTCC2148] gi|214038110|gb|EEB78773.1| conserved hypothetical protein, putative [marine gamma proteobacterium HTCC2148] Length = 238 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 65/226 (28%), Positives = 109/226 (48%), Gaps = 10/226 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + ++++ G R+EV ++AQ R+ ++G + V + +D L +A + R Sbjct: 1 MDRLVSERGGVHRKEVRLLLAQGRIHIDGRPADSINQAVGPFTRVTLDARVL-QANKARY 59 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARVL 134 + HKP G+V+ D + TV D L +S + VGRLD N+ GL+LLTNDG +R L Sbjct: 60 VMLHKPSGVVSATRDKQHK-TVIDLLSVPYSSELHIVGRLDFNSTGLMLLTNDGRWSRSL 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTVG 192 P + YRV +D + G+ +G+ ++ + Q + V Sbjct: 119 SDPQNNIAKTYRVLLEKALDDSYVKAFADGMYFDFEGVTTRPAELRILGQYEAE----VD 174 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 L EG+ +IK++F F+ +V L R S G + A G RE++ Sbjct: 175 LIEGRYHQIKRMFGRFDNRVKALHRTSVGSLSMAAGPALGQWRELT 220 >gi|238794236|ref|ZP_04637850.1| Ribosomal small subunit pseudouridine synthase A [Yersinia intermedia ATCC 29909] gi|238726418|gb|EEQ17958.1| Ribosomal small subunit pseudouridine synthase A [Yersinia intermedia ATCC 29909] Length = 235 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 59/238 (24%), Positives = 112/238 (47%), Gaps = 7/238 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQTVGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTVG 192 P + Y V + D +G+ + + + +T Q V + Sbjct: 122 TSPRHHCEKTYLVTLEHPLADDTAQQFTEGVQL----HNEKSLTKPAQLEVIEPQLVRLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHL 249 L EG+ ++K++F +V L R G +L LA G R ++ + + PHL Sbjct: 178 LSEGRYHQVKRMFAAVGNRVVELHRERIGDIKLDDDLAPGEYRPLTAEEIASVGAPHL 235 >gi|309751708|gb|ADO81692.1| 23S rRNA U2457 pseudouridine synthase [Haemophilus influenzae R2866] Length = 227 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 50/183 (27%), Positives = 96/183 (52%), Gaps = 20/183 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T++ L++KP ++T +D GR+T+ F ++P++++ GRLD ++EGLL+LTN G Sbjct: 36 DETKVVLFNKPFDVLTQFTDEQGRATLKDFISIPNVYA----AGRLDRDSEGLLILTNHG 91 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L L P + + Y V+ G ++ L L+KG+ ++ +V L ++ Sbjct: 92 ELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKPAKVRLISEPNLWER 151 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + + EG+NR+++++ + RL+R+S G + L GS R Sbjct: 152 NPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGLLSINGLENGSFR 211 Query: 235 EVS 237 +S Sbjct: 212 LLS 214 >gi|218690332|ref|YP_002398544.1| 16S rRNA pseudouridylate synthase A [Escherichia coli ED1a] gi|218427896|emb|CAR08815.2| 16S rRNA pseudouridylate 516 synthase [Escherichia coli ED1a] Length = 231 Score = 77.8 bits (190), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 59/218 (27%), Positives = 98/218 (44%), Gaps = 2/218 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 EG+ ++K++F V L R G L LA S Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPS 217 >gi|188590522|ref|YP_001921660.1| ribosomal large subunit pseudouridine synthase F [Clostridium botulinum E3 str. Alaska E43] gi|188500803|gb|ACD53939.1| ribosomal large subunit pseudouridine synthase F [Clostridium botulinum E3 str. Alaska E43] Length = 226 Score = 77.8 bits (190), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 63/227 (27%), Positives = 114/227 (50%), Gaps = 8/227 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+ + GI SR++ ++I + R+ VNG+ + V D I +D PL E+ Sbjct: 2 RINKLFSNLGICSRKDTSKLIEENRIIVNGLPCIQGQW-VELEDEILLDNKPLPIKEKIY 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L +KP+G+ T +D + + N + + VGRLD ++GL+LLTNDG LA + Sbjct: 61 IAL-NKPVGVTCTAADEVEHNII--NFMNYNEYIFPVGRLDKASQGLILLTNDGDLANKI 117 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + + + G+ I + +V ++ N +T GL Sbjct: 118 LESENEHEKEYIVTLDRPFNDEFILGMTSGVEICNVKTRQCKVRRISEDTFNIILTQGL- 176 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 N++I+++ + F + V +L RI +LG L G R +S++ L Sbjct: 177 ---NKQIRRMSKAFGYNVKKLERIRIVNIELGNLEYGKWRYLSEEEL 220 >gi|308049703|ref|YP_003913269.1| ribosomal large subunit pseudouridine synthase E [Ferrimonas balearica DSM 9799] gi|307631893|gb|ADN76195.1| ribosomal large subunit pseudouridine synthase E [Ferrimonas balearica DSM 9799] Length = 214 Score = 77.8 bits (190), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 52/190 (27%), Positives = 93/190 (48%), Gaps = 25/190 (13%) Query: 66 PLRKAERTR----LWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTE 119 PLR+ +R R + L++KP +++ +D R+T+ D + P +++ GRLD ++E Sbjct: 22 PLRRPDRPREARRIVLFNKPFDVLSQFTDGGNRATLADYIQEPGVYA----AGRLDRDSE 77 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-- 177 GLLLLTNDG L L P + + Y V+ G+ D+ L L+ G+ + +V Sbjct: 78 GLLLLTNDGALQAKLTQPGKKTSKTYYVQVEGEPDEAALQALRDGVTLNDGPTLPAKVER 137 Query: 178 -------------TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 + + +W+++ + EG+NR+++++ + RLIR G + Sbjct: 138 IDEPHWLWPRNPPIRERKAIPTSWLSISIIEGRNRQVRRMTAHIGYPTLRLIRYRIGSWT 197 Query: 225 LGTLLAGSTR 234 L L G R Sbjct: 198 LDGLANGEYR 207 >gi|225552398|ref|ZP_03773338.1| hypothetical RNA pseudouridine synthase [Borrelia sp. SV1] gi|225371396|gb|EEH00826.1| hypothetical RNA pseudouridine synthase [Borrelia sp. SV1] Length = 249 Score = 77.8 bits (190), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 68/226 (30%), Positives = 107/226 (47%), Gaps = 8/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER-- 72 RV +A G+ SRR E +I ++ VKVN + + + I + + K + Sbjct: 8 RVHVFLAEKGVGSRRFCEELIRKKLVKVNNTIAKLGDKVALGDRIIYKKQIFVFKDFQIN 67 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGL 130 R++L +KP + ++ D +GR + +F RV S+GRLD + GLLL TNDG Sbjct: 68 NRIYLALNKPRNYLCSNFDINGRRLAISLVQPLFKERVFSIGRLDFKSSGLLLFTNDGKF 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + P + R Y + +D++ L K GI ++ + + K S + Sbjct: 128 ANDIIHPRQKVEREYIIESKKDIDENLLISFKSGIKVKKEFFKLKSYEI-LNKNSARLI- 185 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 L EGKNREI+KVF N + ++ RI G L +L G + V Sbjct: 186 --LDEGKNREIRKVFLTKNIFLKKIHRIRIGNINLDSLKEGQVKIV 229 >gi|86130476|ref|ZP_01049076.1| pseudouridylate synthase [Dokdonia donghaensis MED134] gi|85819151|gb|EAQ40310.1| pseudouridylate synthase [Dokdonia donghaensis MED134] Length = 260 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 64/249 (25%), Positives = 118/249 (47%), Gaps = 13/249 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ AG SRR +++I Q RV +NG + E + D + V+G + + Sbjct: 8 RINKYLSEAGYCSRRAADKLIDQGRVTINGKVPE-MGTKITEGDEVRVNGELITSSTEKP 66 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +++ +KP+G+V T + + D N PS R+ +GRLD +EGL+ LTNDG + Sbjct: 67 VYIALNKPVGIVCTTDTRVEKDNIIDFINYPS---RIFPIGRLDKPSEGLIFLTNDGDIV 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + + + G+ I V ++ S + Sbjct: 124 NKILRARNNHEKEYEVWVDKPITPSFIQQMSNGVPILDTVTRKCHV----EQLSRFSFKI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E +++V RL R +L + G R +S + E++ + + Sbjct: 180 ILTQGLNRQIRRMCEALDYEVTRLKRNRIMNIELD-VPVGKWRYISDTEM-EEINRLVED 237 Query: 252 EAQVNLDAP 260 A+ + DAP Sbjct: 238 SAKTHTDAP 246 >gi|121604242|ref|YP_981571.1| pseudouridine synthase [Polaromonas naphthalenivorans CJ2] gi|120593211|gb|ABM36650.1| ribosomal large subunit pseudouridine synthase E [Polaromonas naphthalenivorans CJ2] Length = 221 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 54/192 (28%), Positives = 94/192 (48%), Gaps = 17/192 (8%) Query: 59 HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 H D ++ + +RL L++KP G+++ + P+GR + +I V GRLD ++ Sbjct: 19 HQPTDSPLTQRHDASRLILFNKPYGVLSQFT-PEGRWRGLKDFIAIPG-VYVAGRLDADS 76 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQV 177 EGLLLL NDG L + P + ++Y V+ G + L L++G+ + G Sbjct: 77 EGLLLLANDGKLQAHIADPRFKMEKIYWVQVEGTPGEAALQALREGVALNDGPTRPARAR 136 Query: 178 TLDT--------------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 +D Q AW+ +G+REG+NR+++++ + RL+R + G + Sbjct: 137 LMDAPAALWQREPPVRVRQSIPTAWIELGIREGRNRQVRRMTAAVGFPTLRLVRAAIGNW 196 Query: 224 QLGTLLAGSTRE 235 L L GS R+ Sbjct: 197 SLDGLAPGSWRD 208 >gi|238751859|ref|ZP_04613346.1| Ribosomal small subunit pseudouridine synthase A [Yersinia rohdei ATCC 43380] gi|238709988|gb|EEQ02219.1| Ribosomal small subunit pseudouridine synthase A [Yersinia rohdei ATCC 43380] Length = 235 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 59/238 (24%), Positives = 112/238 (47%), Gaps = 7/238 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ +R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQMVGSR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTVG 192 P + Y V + D G+ + + + +T Q V + Sbjct: 122 TSPRHHCEKTYLVTLEHPLADDTAQQFADGVQL----HNEKSLTKPAQLEVIEPQLVRLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHL 249 L EG+ ++K++F +V L R G +L LA G R ++ + + PHL Sbjct: 178 LSEGRYHQVKRMFAAVGNRVLELHRERIGAIKLDDDLAPGEYRRLTAEEIASVGAPHL 235 >gi|311745139|ref|ZP_07718924.1| RNA pseudouridine synthase family protein [Algoriphagus sp. PR1] gi|126577657|gb|EAZ81877.1| RNA pseudouridine synthase family protein [Algoriphagus sp. PR1] Length = 243 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 59/230 (25%), Positives = 115/230 (50%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRRE ++++ R+ +NG + E VM D + VDG P+ K + Sbjct: 8 RINKYLSEVGFCSRREGDKLLEAGRITLNGKIPE-IGTKVMPKDVVCVDGKPVGKPIQDH 66 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +++ ++KP+G+V+T ++ + D + R+ +GRLD ++EGL+ LT++G + Sbjct: 67 VYIAFNKPVGIVSTTDTKAEKNNMIDYIGH-QQRIFPIGRLDKDSEGLIFLTSEGDIVNK 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + + GI I +V +K S + L Sbjct: 126 ILRSKNNHEKEYIVTVDKPITDRFIQKMGAGIPILDTVTDPCKV----EKISKVKFRIIL 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +G NR+I+++ E+ ++V +L RI L + G R+++ L+E Sbjct: 182 TQGLNRQIRRMCEYLGYEVRQLKRIRIMNVHL-DIPVGKWRDLTASELKE 230 >gi|93004862|ref|YP_579299.1| pseudouridine synthase, Rsu [Psychrobacter cryohalolentis K5] gi|92392540|gb|ABE73815.1| ribosomal small subunit pseudouridine synthase A [Psychrobacter cryohalolentis K5] Length = 234 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 66/226 (29%), Positives = 114/226 (50%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +++A SR+E ++++ V VN +++ V+V + D ++ G PL A Sbjct: 2 RLDKFLSKATELSRKESKKILHAGEVTVNEQVIKDPGVHVDIVNDDVQWAGEPLSVATGN 61 Query: 74 RLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R L HKP G T + T +P + S I+ GRLD++T G LL+++DGG Sbjct: 62 RYILLHKPEGFECTLKAKEYPIVTDLIAVPELGSLRIA-GRLDVDTTGALLISDDGGWLH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQD-KLNLLK---KGIVIQGICYGDMQVTLDTQKGSNAW 188 + P + +VY + +D D + N +K +GI+++G TL+ ++A Sbjct: 121 RVTSPKHEHAKVYELTLADAMDSDAQANAIKEVAEGILLEGDHEETKPATLEFIDETHAR 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +T L +GK ++K++ +F +V L R S G L L G +R Sbjct: 181 LT--LEQGKYHQVKRMMGYFGNRVVELHRASVGHITLDGLEKGDSR 224 >gi|307130686|ref|YP_003882702.1| 16S rRNA pseudouridylate 516 synthase [Dickeya dadantii 3937] gi|306528215|gb|ADM98145.1| 16S rRNA pseudouridylate 516 synthase [Dickeya dadantii 3937] Length = 232 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 57/215 (26%), Positives = 100/215 (46%), Gaps = 2/215 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + QRV VNG +++ A ++ + DG L + R Sbjct: 2 RLDKFLSQQLGISRALVARELRAQRVTVNGEVIKSGAFKLLPEHEVAFDGNVLEQQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTILYFIDEPVAHKLHAAGRLDIDTSGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + D + + G+ + G TL ++ S V + + Sbjct: 122 TSPKHHCEKTYLVTLEQPLAPDTADNFQAGVQLHGEKNLTRPATL--EQISEHQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 EG+ ++K++F V L R G L L Sbjct: 180 EGRYHQVKRMFAAVGNHVVALHRERIGAITLDDAL 214 >gi|304397253|ref|ZP_07379132.1| pseudouridine synthase [Pantoea sp. aB] gi|304355402|gb|EFM19770.1| pseudouridine synthase [Pantoea sp. aB] Length = 184 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 52/179 (29%), Positives = 90/179 (50%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D + + V + GRLD ++EGL++LTNDG L Sbjct: 4 RVILFNKPFDVLPQFTDEAGRRTLKDFV--SVAEVYAAGRLDRDSEGLMVLTNDGALQAA 61 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + +VY V+ G+ + L L+ G+ ++ GI + Sbjct: 62 LTQPGKRTGKVYYVQVEGEPQEADLQPLRDGVNLKDGMTLPAGIEKVPEPQWLWPRQPPI 121 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + W+ V L EG+NR+++++ + RLIR + G + L L G+ RE+S Sbjct: 122 RERKNIPTQWLKVTLYEGRNRQVRRMTAHIGFPTLRLIRYAMGQYSLDDLAPGAWRELS 180 >gi|260913461|ref|ZP_05919939.1| ribosomal large subunit pseudouridine synthase E [Pasteurella dagmatis ATCC 43325] gi|260632401|gb|EEX50574.1| ribosomal large subunit pseudouridine synthase E [Pasteurella dagmatis ATCC 43325] Length = 241 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 51/184 (27%), Positives = 92/184 (50%), Gaps = 17/184 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T++ L++KP ++T SD +GR+T+ D +P S+V GRLD ++EGL+LLTN+G + Sbjct: 49 TKVILFNKPYDVLTQFSDENGRATLKDFIP--VSQVYPAGRLDRDSEGLVLLTNNGEIQH 106 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 L P + + Y + + L L++G+V+ +V L ++ Sbjct: 107 RLAEPKFKTEKTYFAQVEAIPQEVDLEQLRQGVVLNDGKTLPAKVRLVSEPNWLWERNPP 166 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + + EG+NR+++++ + RLIR F L L G R++S Sbjct: 167 IRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLIRYQMALFTLDNLPQGQYRQLS 226 Query: 238 KKIL 241 + L Sbjct: 227 EAEL 230 >gi|218549599|ref|YP_002383390.1| 16S rRNA pseudouridylate synthase A [Escherichia fergusonii ATCC 35469] gi|218357140|emb|CAQ89774.1| 16S rRNA pseudouridylate 516 synthase [Escherichia fergusonii ATCC 35469] gi|324114400|gb|EGC08369.1| RNA pseudouridylate synthase [Escherichia fergusonii B253] Length = 231 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 103/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHEVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEE 225 >gi|238916961|ref|YP_002930478.1| ribosomal small subunit pseudouridine synthase A [Eubacterium eligens ATCC 27750] gi|238872321|gb|ACR72031.1| ribosomal small subunit pseudouridine synthase A [Eubacterium eligens ATCC 27750] Length = 244 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 61/231 (26%), Positives = 116/231 (50%), Gaps = 8/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A + +R EV+ +I ++RV VN ++ + + + D + VDG + E Sbjct: 4 RLDKYLADMQVGTRSEVKELIRKKRVTVNDNIVTKPESKINTDGDSVNVDGNAVGYHEY- 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G+V+ +D + +TV D + + + + VGRLD +TEGLL++TNDG +A Sbjct: 63 EYFMLNKPAGVVSA-TDDNTCTTVIDLIKNKNRKDLFPVGRLDKDTEGLLIITNDGAMAH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---GICYGDMQVTLDTQKGSNAWV 189 L P + Y + G++ ++ G+ + ++V + + Sbjct: 122 DLLSPKKHVDKTYYAKVKGKISDMEVKQFADGLFVDEELTALPAILKVLSYNSDKDYSEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 V + EGK ++K++F +V L RI++G L +L G R ++K+ Sbjct: 182 HVTIHEGKFHQVKRMFTAIGSEVLFLKRITFGALPLDESLKTGEYRALTKE 232 >gi|153950805|ref|YP_001401950.1| 23S rRNA pseudouridine synthase F [Yersinia pseudotuberculosis IP 31758] gi|152962300|gb|ABS49761.1| RNA pseudouridine synthase family protein [Yersinia pseudotuberculosis IP 31758] Length = 290 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 110/227 (48%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +RA V V + D ++V+G + R Sbjct: 8 RLNKYISESGICSRRDGDRYIEQGNVFING---KRATVGDQVFAGDVVKVNGQIIEPRDE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +KP G++TT + G + + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVFIALNKPAGIITTMEE--GERDNISDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + + G+ I G +V QK + Sbjct: 123 VNKILRAGNNHEKEYVVTVNKPVTDEFIQGMSAGVPILGTVTKKCKV----QKEAPLVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ + F ++V +L R L L G R+++ Sbjct: 179 ITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNISLKGLPLGEWRDLT 225 >gi|145639224|ref|ZP_01794831.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae PittII] gi|145271786|gb|EDK11696.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae PittII] gi|309750799|gb|ADO80783.1| 16S RNA U516 pseudouridine synthase [Haemophilus influenzae R2866] Length = 232 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 57/208 (27%), Positives = 100/208 (48%), Gaps = 4/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E + Sbjct: 2 RLDKFIAENTGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWIEEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V ++ D D + F + P + ++ S GRLD++T GL+LLT+DG + Sbjct: 62 YFMLHKPQGCVCSNDDGDYPTIYQFFDYP-LAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+++ +GI+++G L+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 EG+ ++K++F KV L R G Sbjct: 179 SEGRYHQVKRMFAALGNKVVGLHRWKIG 206 >gi|192361094|ref|YP_001982433.1| ribosomal small subunit pseudouridine synthase A [Cellvibrio japonicus Ueda107] gi|190687259|gb|ACE84937.1| ribosomal small subunit pseudouridine synthase A [Cellvibrio japonicus Ueda107] Length = 234 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 63/218 (28%), Positives = 103/218 (47%), Gaps = 7/218 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ I+ +R +++R+I RV ++ + + A + T+ + VDG L + Sbjct: 3 QRLDAFISNNSDFTRSQIQRLIKAGRVHIDDKPVSQGAQKLNGTESVRVDG-ELIEPLSL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R + HKP G V ++D + TV D +LP + I+ GRLD++T GL+LLT+DG Sbjct: 62 RYLMLHKPQGYVCANTDSE-HPTVLDLIDLPRKQTLQIA-GRLDLDTTGLVLLTDDGQWN 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D + GI + G + L+ NAW+ + Sbjct: 120 HRITSPRRECSKRYRVTTAEPIAADTAHYFTDGIQLHGEKHKTRPAHLELIDDYNAWLDI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 EGK ++K++F KV L R G L L Sbjct: 180 --HEGKYHQVKRMFAATGNKVIALHRTRIGSITLDNQL 215 >gi|154502351|ref|ZP_02039411.1| hypothetical protein RUMGNA_00164 [Ruminococcus gnavus ATCC 29149] gi|153796976|gb|EDN79396.1| hypothetical protein RUMGNA_00164 [Ruminococcus gnavus ATCC 29149] Length = 252 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 65/232 (28%), Positives = 117/232 (50%), Gaps = 13/232 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERA--AVNVMSTDHIEVDGVPLRKAER 72 R++K ++ AG+ SRRE +R+I RV V+G +RA + ++ ++V + K + Sbjct: 17 RLNKYLSEAGVCSRREADRLIESGRVSVDG---KRAQTGMKIVPGQVVKVGKKVVSKQDE 73 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+V T + S V F + P R+ VGRLD +++GLLL+TN+G + Sbjct: 74 MVVLAVNKPAGIVCTEERRERNSIVRFLDYPI---RITYVGRLDKDSKGLLLMTNNGDII 130 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y+V ++ Q+ L + G+ I +V +K ++ Sbjct: 131 NKMMRAGNRHEKEYKVTVDKEITQEFLEKMASGVPILDTVTRPCKV----EKIGKYTFSI 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 L +G NR+I+++ E ++V LIR+ LG L G R+++ L E Sbjct: 187 ILTQGLNRQIRRMCEALGYQVRELIRVRIMNIHLGRLKEGEYRKLTDAELNE 238 >gi|283785995|ref|YP_003365860.1| ribosomal small subunit pseudouridine synthase A [Citrobacter rodentium ICC168] gi|282949449|emb|CBG89062.1| ribosomal small subunit pseudouridine synthase A [Citrobacter rodentium ICC168] Length = 231 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 104/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ +E DG L + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRASRVTVDGEIVRNAAFKLLPEHAVEYDGNTLVQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTRPAELEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVALHRERIGAIALDADLAPGEYRPLTEE 225 >gi|145629614|ref|ZP_01785411.1| hypothetical protein CGSHi22121_01167 [Haemophilus influenzae 22.1-21] gi|144978125|gb|EDJ87898.1| hypothetical protein CGSHi22121_01167 [Haemophilus influenzae 22.1-21] Length = 221 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 50/183 (27%), Positives = 96/183 (52%), Gaps = 20/183 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T++ L++KP ++T +D GR+T+ F ++P++++ GRLD ++EGLL+LTN G Sbjct: 30 DETKVVLFNKPFDVLTQFTDEQGRATLKDFISIPNVYA----AGRLDRDSEGLLILTNHG 85 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L L P + + Y V+ G ++ L L+KG+ ++ +V L ++ Sbjct: 86 ELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKPAKVRLISEPNLWER 145 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + + EG+NR+++++ + RL+R+S G + L GS R Sbjct: 146 NPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGLLSINGLENGSFR 205 Query: 235 EVS 237 +S Sbjct: 206 LLS 208 >gi|110638234|ref|YP_678444.1| ribosomal large subunit pseudouridine synthase F [Cytophaga hutchinsonii ATCC 33406] gi|110280915|gb|ABG59101.1| ribosomal large subunit pseudouridine synthase F [Cytophaga hutchinsonii ATCC 33406] Length = 281 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 64/229 (27%), Positives = 113/229 (49%), Gaps = 9/229 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGI-LLERAAVNVMSTDHIEVDGVPLRK 69 +T +++ + + S+ + M+ + +V +NG+ L+R +V+ +DHI V+G L++ Sbjct: 56 YTFMNINEFLIKRFHISKDKASNMVLENQVFINGVKALQRN--DVLKSDHIVVNGEVLQE 113 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + Y+KP G+ T + + + LP V VGRLD +EGLLLLTNDG Sbjct: 114 GRNFTYYAYYKPRGIECT-LNAAIENNLLHTLP-FGEHVYPVGRLDKESEGLLLLTNDGK 171 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + + Y V + + + L GIVI G +V++ T+ + Sbjct: 172 LYKDIAFSDNFKEKEYLVEVDKPLTDEAVEQLSSGIVIMGQKTRPARVSMVTEHSFRIIL 231 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 T GL NR+I+++ ++V L RI +LG L G+ R +++ Sbjct: 232 TQGL----NRQIRRMCYKLRYEVTMLKRIRITSIELGDLKPGAYRVLTR 276 >gi|117921613|ref|YP_870805.1| pseudouridine synthase, Rsu [Shewanella sp. ANA-3] gi|117613945|gb|ABK49399.1| Pseudouridine synthase, Rsu [Shewanella sp. ANA-3] Length = 241 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 68/215 (31%), Positives = 102/215 (47%), Gaps = 11/215 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A R+ V ++ +RV V+GI + + V HI DG L+ + Sbjct: 7 RLDRYLAVKLQIHRKAVRELLLTERVYVDGIPAKALDLLVDEFSHIVFDGQVLQANKPVY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 L L HKP+G+V+ D + R TV D L + + GRLD+N+ GLLLLTND + Sbjct: 67 LML-HKPVGVVSATKDTEHR-TVIDLLDCDARHELHIAGRLDLNSSGLLLLTNDSRWSEA 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS---NAWVT 190 L P + +VYRV + ++ + QG+ +G +T K + Sbjct: 125 LMSPDQKVDKVYRVTLANPLSEEYI-----AAFAQGMYFGFEDITTQPAKLTILDTHIAE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V LREGK +IK++F F V L R S G L Sbjct: 180 VTLREGKYHQIKRMFGRFRNPVVGLHRHSIGEITL 214 >gi|218549142|ref|YP_002382933.1| 23S rRNA pseudouridine synthase E [Escherichia fergusonii ATCC 35469] gi|218356683|emb|CAQ89310.1| 23S rRNA pseudouridine synthase [Escherichia fergusonii ATCC 35469] Length = 217 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 51/180 (28%), Positives = 90/180 (50%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--IQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQV------------ 177 L P + ++Y V+ G +D L L+ G+ + + G V Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTEDALEALRNGVTLNDGPTLPAGAEMVEEPEWLWPRNPP 156 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G R+V+ Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWRDVT 216 >gi|161869750|ref|YP_001598917.1| RNA-binding protein [Neisseria meningitidis 053442] gi|161595303|gb|ABX72963.1| RNA-binding protein [Neisseria meningitidis 053442] Length = 252 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 113/243 (46%), Gaps = 30/243 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q V VNG + AV V D IE++ + Sbjct: 15 RLSKRMAQLGLCSRREADGYIGQGWVTVNG----KTAVLGQKVSPADRIELNKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-----------------FDNLPSIFSRVISVGRL 114 L +KP+G V+ ++ +S FD P + GRL Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITSENRWEGDTSRIRFD--PKHKIGLAPAGRL 128 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Sbjct: 129 DIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGEKLRP 188 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +V + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 189 AKVEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWR 244 Query: 235 EVS 237 ++ Sbjct: 245 YLA 247 >gi|71064605|ref|YP_263332.1| ribosomal small subunit pseudouridine synthase A [Psychrobacter arcticus 273-4] gi|71037590|gb|AAZ17898.1| ribosomal small subunit pseudouridine synthase A [Psychrobacter arcticus 273-4] Length = 239 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 66/226 (29%), Positives = 114/226 (50%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +++A SR+E ++++ V VN +++ V+V + D ++ G PL A Sbjct: 7 RLDKFLSKATELSRKESKKILHAGEVTVNEQVIKDPGVHVDIVNDDVQWAGEPLSVATGN 66 Query: 74 RLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R L HKP G T + T +P + S I+ GRLD++T G LL+++DGG Sbjct: 67 RYILLHKPEGFECTLKAKEYPIVTDLIAVPELGSLRIA-GRLDVDTTGALLISDDGGWLH 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQD-KLNLLK---KGIVIQGICYGDMQVTLDTQKGSNAW 188 + P + +VY + +D D + N +K +GI+++G TL+ ++A Sbjct: 126 RVTSPKHEHAKVYELTLADAMDSDAQANAIKEVAEGILLEGDHEETKPATLEFIDETHAR 185 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +T L +GK ++K++ +F +V L R S G L L G +R Sbjct: 186 LT--LEQGKYHQVKRMMGYFGNRVVELHRASVGHITLDGLEKGDSR 229 >gi|218707643|ref|YP_002415162.1| 23S rRNA pseudouridine synthase F [Escherichia coli UMN026] gi|293402661|ref|ZP_06646758.1| 23S rRNA pseudouridine synthase F [Escherichia coli FVEC1412] gi|298378190|ref|ZP_06988074.1| 23S rRNA pseudouridine synthase F [Escherichia coli FVEC1302] gi|300899867|ref|ZP_07118079.1| conserved hypothetical protein [Escherichia coli MS 198-1] gi|218434740|emb|CAR15672.1| 23S rRNA pseudouridine synthase [Escherichia coli UMN026] gi|291429576|gb|EFF02590.1| 23S rRNA pseudouridine synthase F [Escherichia coli FVEC1412] gi|298280524|gb|EFI22025.1| 23S rRNA pseudouridine synthase F [Escherichia coli FVEC1302] gi|300356569|gb|EFJ72439.1| conserved hypothetical protein [Escherichia coli MS 198-1] Length = 290 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 114/227 (50%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEYFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|306827091|ref|ZP_07460388.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes ATCC 10782] gi|304430725|gb|EFM33737.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes ATCC 10782] Length = 238 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 66/231 (28%), Positives = 111/231 (48%), Gaps = 14/231 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ + SR +V+++I Q V V+ + NV IEV G + + + Sbjct: 2 RLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQQVTHPKHS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLLLTND 127 + L +KP G+V+ D + TV D L P ++ VGRLD +TEGL+LLT++ Sbjct: 62 YIIL-NKPSGVVSAKKDTN-YLTVIDQLAEEDKSPDLYP----VGRLDRDTEGLVLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G L + PS + Y V +G + +D + GI G Q+T+ Sbjct: 116 GPLGFRMLHPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQ 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + ++ + EGK ++KK+F + KV L R + +LG L +G R ++ Sbjct: 176 SQASLTISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLT 226 >gi|331649882|ref|ZP_08350959.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli M605] gi|281181089|dbj|BAI57419.1| putative pseudouridine synthase [Escherichia coli SE15] gi|330908342|gb|EGH36861.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli AA86] gi|331041262|gb|EGI13415.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli M605] Length = 290 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 66/227 (29%), Positives = 114/227 (50%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V S D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKSGDVVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|94990717|ref|YP_598817.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS10270] gi|94544225|gb|ABF34273.1| Ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS10270] Length = 238 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 66/231 (28%), Positives = 111/231 (48%), Gaps = 14/231 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ + SR +V+++I Q V V+ + NV IEV G + + + Sbjct: 2 RLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQQVTHPKHS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLLLTND 127 + L +KP G+V+ D + TV D L P ++ VGRLD +TEGL+LLT++ Sbjct: 62 YIIL-NKPSGVVSAKKDTN-YLTVIDQLAEEDKSPDLYP----VGRLDRDTEGLVLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G L + PS + Y V +G + +D + GI G Q+T+ Sbjct: 116 GPLGFRMLHPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQ 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + ++ + EGK ++KK+F + KV L R + +LG L +G R ++ Sbjct: 176 SQASLTISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLT 226 >gi|291618129|ref|YP_003520871.1| RsuA [Pantoea ananatis LMG 20103] gi|291153159|gb|ADD77743.1| RsuA [Pantoea ananatis LMG 20103] Length = 239 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 62/226 (27%), Positives = 101/226 (44%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I++ SR R I QRV VNG ++ A + +E DG L+ R Sbjct: 2 RLDKFISQQLEISRAIAAREIRGQRVTVNGDVVRDTAFKLQPDHEVEYDGNVLQMQTGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + V+ + ++ + GRLDI+T GL+LLT+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTIVYFIEEPMAFKLHAAGRLDIDTTGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + YRV V D G+ + L+ + +T L Sbjct: 122 TSPRHHCEKTYRVTLEAPVSDDTAAQFSAGVQLHNEKSLTKPAQLEVITPTEVLLT--LS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVSKK 239 EG+ ++K++F +V L R G L L G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNRVVGLHRERIGEIVLDEALEPGEYRPLTEE 225 >gi|33861215|ref|NP_892776.1| putative pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus subsp. pastoris str. CCMP1986] gi|33639947|emb|CAE19117.1| putative pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus subsp. pastoris str. CCMP1986] Length = 240 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 64/234 (27%), Positives = 117/234 (50%), Gaps = 15/234 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-ERT 73 R++K ++ G SRR + +I + +V +NG + E V D +EV+G + K+ + Sbjct: 4 RINKYLSEVGYCSRRVADSLIEEGKVTINGEIPE-MGTKVEEGDQVEVEGQRIEKSMKHE 62 Query: 74 RLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGG 129 +++L ++KP+G+V T R DN+ +R+ +GRLD +EGL+ LTNDG Sbjct: 63 KIYLVFNKPVGIVCTTD----RRVESDNIIDFIKYPTRIFPIGRLDKPSEGLIFLTNDGD 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y V + +++D + + G+ I G + V Q G + Sbjct: 119 IVNKILRARNNHEKEYIVSVNRPINRDFIQSMSNGVEILGTITKNCFV---KQLGPKKFR 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E ++V L R+ +L + G RE +K+ L E Sbjct: 176 II-LTQGLNRQIRRMCESLGFRVKSLKRVRIMNIKLDVSI-GEYREFTKEELFE 227 >gi|307730739|ref|YP_003907963.1| pseudouridine synthase [Burkholderia sp. CCGE1003] gi|307585274|gb|ADN58672.1| pseudouridine synthase [Burkholderia sp. CCGE1003] Length = 239 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 63/220 (28%), Positives = 97/220 (44%), Gaps = 9/220 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD---HIEVDGVPLRKAER 72 + ++ G SRR+ +IA RV + + A + + D VDGV E Sbjct: 3 LESILFTQGFGSRRQCRALIADARVTIGDTVCTDADADFPAEDTSFCFSVDGVTWPYREH 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L L +KP G + DP +VF LP F+ V VGRLD +T GLLLL++DG Sbjct: 63 AYL-LLNKPAGYECSR-DPQHHLSVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGKF 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + +VY VD +L+LL+ G+++ G +D Q + Sbjct: 121 VHLFTSPKRKVPKVYVASTRHPVDDTQLSLLRNGVLLHG--ESKPVAAVDAQLRGERSLA 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + EGK ++K++ + L R G L LA Sbjct: 179 LTVMEGKYHQVKRMIAAAGNRCEALHRERVGGLALPATLA 218 >gi|300310727|ref|YP_003774819.1| 16S rRNA uridine-516 pseudouridylate synthase [Herbaspirillum seropedicae SmR1] gi|300073512|gb|ADJ62911.1| 16S rRNA uridine-516 pseudouridylate synthase protein [Herbaspirillum seropedicae SmR1] Length = 188 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 53/189 (28%), Positives = 90/189 (47%), Gaps = 23/189 (12%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP +++ S R T+ D ++P+++ GRLD ++EGLLLLT+DG L Sbjct: 3 LILLNKPFQVMSQFSAHPERQTLADYIDIPNVYP----AGRLDADSEGLLLLTDDGKLQH 58 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 + P + + Y + GQ + L+ L++ + + Q L + G Sbjct: 59 AIAHPRRKLPKTYLAQVEGQPSPEALDKLRQPLDLGDFVTQGSQARLIQEPGWMWPRNPP 118 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTRE 235 +W+ + + EGKNR+++++ RL+RI+ GPF L T ++ G RE Sbjct: 119 IRQRQNQPTSWIALTISEGKNRQVRRMTAAVGLPTLRLVRIAIGPFSLATHPVMPGEWRE 178 Query: 236 VSKKILREQ 244 V L Q Sbjct: 179 VDPLELERQ 187 >gi|260779180|ref|ZP_05888072.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Vibrio coralliilyticus ATCC BAA-450] gi|260605344|gb|EEX31639.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Vibrio coralliilyticus ATCC BAA-450] Length = 174 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 48/174 (27%), Positives = 88/174 (50%), Gaps = 16/174 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP ++ +D +GR T+ D +P V + GRLD ++EGL++LTNDG L L Sbjct: 1 MFNKPFDTLSQFTDGEGRKTLADFIP--VKDVYAAGRLDRDSEGLMVLTNDGILQAKLTQ 58 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P ++ + Y V+ G + L+ L+KG+ ++ +V + + Sbjct: 59 PKSKSPKTYWVQVDGAPSESDLDKLRKGVELKDGMTLPAKVEVMAEPNVWERTPPVRFRA 118 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+ + + EG+NR+++++ + RLIR S G +LG L G +E+ Sbjct: 119 NIPTTWLAITIIEGRNRQVRRMTANIGFPTLRLIRYSMGDIKLGELQPGEWKEI 172 >gi|219870596|ref|YP_002474971.1| ribosomal small subunit pseudouridine synthase A [Haemophilus parasuis SH0165] gi|219690800|gb|ACL32023.1| ribosomal small subunit pseudouridine synthase A [Haemophilus parasuis SH0165] Length = 230 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 59/217 (27%), Positives = 99/217 (45%), Gaps = 4/217 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + + +V VNG++ + +A + D I DG PL + + Sbjct: 2 RLDKFIAENTGLTRSQASKALRAGQVTVNGVVEKNSATKISEQDEICFDGEPLAWVDEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP V +H D D TVF + +++ GRLD +T GL+LLT+DG + Sbjct: 62 YFMLYKPQNCVCSHDDGD-YPTVFQFFDYPLTTKLHCAGRLDADTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ +GI+++G L+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYATQFAEGILLRGEKTATKPAQLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EG+ ++K++F KV L R G L LA Sbjct: 179 SEGRYHQVKRMFAALGNKVVALHRWRIGDVVLDENLA 215 >gi|51595406|ref|YP_069597.1| 23S rRNA pseudouridine synthase F [Yersinia pseudotuberculosis IP 32953] gi|170025288|ref|YP_001721793.1| 23S rRNA pseudouridine synthase F [Yersinia pseudotuberculosis YPIII] gi|186894432|ref|YP_001871544.1| 23S rRNA pseudouridine synthase F [Yersinia pseudotuberculosis PB1/+] gi|51588688|emb|CAH20298.1| conserved hypothetical protein [Yersinia pseudotuberculosis IP 32953] gi|169751822|gb|ACA69340.1| pseudouridine synthase [Yersinia pseudotuberculosis YPIII] gi|186697458|gb|ACC88087.1| pseudouridine synthase [Yersinia pseudotuberculosis PB1/+] Length = 290 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 110/227 (48%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +RA V V + D ++V+G + R Sbjct: 8 RLNKYISESGICSRRDGDRYIEQGNVFING---KRATVGDQVFAGDVVKVNGQIIEPRDE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +KP G++TT + G + + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVFIALNKPAGIITTMEE--GERDNISDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + + G+ I G +V QK + Sbjct: 123 VNKILRAGNNHEKEYVVTVNKPVTDEFIQGMSAGVPILGTVTKKCKV----QKEAPLVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ + F ++V +L R L L G R+++ Sbjct: 179 ITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNISLKGLPLGEWRDLT 225 >gi|70732728|ref|YP_262491.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas fluorescens Pf-5] gi|68347027|gb|AAY94633.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas fluorescens Pf-5] Length = 212 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 51/183 (27%), Positives = 95/183 (51%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP ++T SD +GR+T+ F +P ++ GRLD ++EGLLLLTNDG L Sbjct: 34 KLILFNKPFDVLTQFSDGEGRATLKDFIAVPGVYP----AGRLDRDSEGLLLLTNDGQLQ 89 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ ++L L++G+ + G+ L+ Sbjct: 90 ARIADPKHKLAKTYWVQVEGEPSAEQLQRLREGVQLNDGMTLPAEARQLEEPTLWPRNPP 149 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + +REG+NR+++++ RL+R+ G + L L G +EV+ Sbjct: 150 VRFRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLEQGQWKEVA 209 Query: 238 KKI 240 ++ Sbjct: 210 ARL 212 >gi|295398834|ref|ZP_06808828.1| ribosomal small subunit pseudouridine synthase A [Aerococcus viridans ATCC 11563] gi|294972924|gb|EFG48757.1| ribosomal small subunit pseudouridine synthase A [Aerococcus viridans ATCC 11563] Length = 258 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 64/212 (30%), Positives = 106/212 (50%), Gaps = 11/212 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERA--AVNVMSTDHIEVDGVPLRKAE 71 QR+ K ++ SR +V+ +I + + VNG + ++ VNV + D +EVDG L Sbjct: 11 QRLDKFVSSMTPYSRSDVKTLIKKSAIYVNGSVAKKPNQPVNV-TEDKVEVDGQELVYEP 69 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDG 128 + + HKP G+++ D + TV D LP + + VGRLD +T GLLL+TNDG Sbjct: 70 YVYIMM-HKPDGVISATED-NRWETVIDLLPEDLILTYQPFPVGRLDKDTTGLLLITNDG 127 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLD--TQKGS 185 L P + Y V G + ++ +KG+ I QG Q+ +D ++ Sbjct: 128 QFNHALMAPKKHVEKEYAVLVDGLLSDKHIDQFEKGLDIGQGEKTKPAQLFIDQVDEEAG 187 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 + V + EGK ++K++F + +V +L R Sbjct: 188 QSLARVVIAEGKYHQVKRMFHAVDCEVVQLHR 219 >gi|251791839|ref|YP_003006559.1| ribosomal small subunit pseudouridine synthase A [Aggregatibacter aphrophilus NJ8700] gi|247533226|gb|ACS96472.1| ribosomal small subunit pseudouridine synthase A [Aggregatibacter aphrophilus NJ8700] Length = 233 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 59/212 (27%), Positives = 99/212 (46%), Gaps = 4/212 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A +R + +++ Q V +NG + + A V D I DG L + Sbjct: 2 RLDKFLAEMTDLTRSQATKVLRQSAVTINGKIEKSGAAKVGPNDEICYDGERLAWVAEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G + +H D D + F P + +R+ S GRLD++T GL+LLT+DG + Sbjct: 62 YIMLNKPQGYICSHEDGDHPTIYQFFGYP-LSARLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ + + +GI+++G TL+ N V + + Sbjct: 121 ITSPKHHQPKTYLVTLADPVEANYVQACTEGILLRGEKDPTKPATLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EG+ +IK++F KV L R G L Sbjct: 179 SEGRYHQIKRMFAALGNKVVGLHRWKIGALVL 210 >gi|225017146|ref|ZP_03706338.1| hypothetical protein CLOSTMETH_01071 [Clostridium methylpentosum DSM 5476] gi|224950065|gb|EEG31274.1| hypothetical protein CLOSTMETH_01071 [Clostridium methylpentosum DSM 5476] Length = 248 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 64/215 (29%), Positives = 105/215 (48%), Gaps = 7/215 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K ++ IA+R + + M+ RV VNG ++ A + V D I VDG E Sbjct: 4 RIDKFLSTQAIATRSQAKEMLRAGRVLVNGTPVKAADLKVDPEGDEIRVDGRVYGYQEHL 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 L L +KP G+V+ D R TV D +P R + GRLD +T G +L+T+DG A Sbjct: 64 YLML-NKPQGVVSATDDKVHR-TVLDLVPPELRRRGLFPAGRLDRDTVGFVLITDDGEFA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + P + Y G + +++L++L +G+V+ G ++T+ Q G + Sbjct: 122 HNILSPRHHVPKTYEAGLDGPIGENELSVLAQGVVLGDGTKCRPAELTV-LQSGERPLIQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EG+ +IK++F +V L R G L Sbjct: 181 IVIVEGRYHQIKRMFAAVGRRVLTLKRTKIGGLAL 215 >gi|88703375|ref|ZP_01101091.1| Ribosomal large subunit pseudouridine synthase E [Congregibacter litoralis KT71] gi|88702089|gb|EAQ99192.1| Ribosomal large subunit pseudouridine synthase E [Congregibacter litoralis KT71] Length = 201 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 48/176 (27%), Positives = 89/176 (50%), Gaps = 16/176 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L L+HKP +++ +D +GR T+ D + + + GRLD ++EGLLLL NDG L + Sbjct: 2 SELILFHKPYRVLSQFTDSEGRGTLGDFITK--AGFYAAGRLDYDSEGLLLLCNDGRLQQ 59 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------------- 179 + P + + Y V+ G + + L L+ G+ ++ + ++ Sbjct: 60 RIADPRFKLWKSYAVQLEGDITEAALCSLRDGVELKDGATLPARASIIRTPAFWPRNPPI 119 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + + +WV + +REG+NR+++++ + V RLIR G + L L G R Sbjct: 120 RERKTQTTSWVEISIREGRNRQVRRMCAKVGFPVLRLIRTRIGDWGLDDLAPGEYR 175 >gi|261252477|ref|ZP_05945050.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Vibrio orientalis CIP 102891] gi|260935868|gb|EEX91857.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Vibrio orientalis CIP 102891] Length = 230 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 51/185 (27%), Positives = 91/185 (49%), Gaps = 16/185 (8%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P E ++ +++KP ++ +D DGR T+ D + V + GRLD ++EGL++LT Sbjct: 46 PKVAPEDRKVVVFNKPFDTLSQFTDGDGRKTLADYI--TVKDVYAAGRLDRDSEGLMVLT 103 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG 184 NDG L L P+++ + Y V+ G + L+ L+KG+ ++ G+ +D Sbjct: 104 NDGILQARLTQPNSKSPKTYWVQVDGAPSDEDLDKLRKGVELKDGMTLPAKVEVMDAPNV 163 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RLIR S G LG L G Sbjct: 164 WERNPPVRFRANIPTTWLAITIIEGRNRQVRRMTANIGFPTLRLIRYSMGDVTLGDLQPG 223 Query: 232 STREV 236 +E+ Sbjct: 224 EWKEI 228 >gi|157144864|ref|YP_001452183.1| 16S rRNA pseudouridylate synthase A [Citrobacter koseri ATCC BAA-895] gi|157082069|gb|ABV11747.1| hypothetical protein CKO_00593 [Citrobacter koseri ATCC BAA-895] Length = 245 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 59/225 (26%), Positives = 100/225 (44%), Gaps = 2/225 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M D I+ R+ K IA+ SR R I RV V+G ++ AA ++ ++ Sbjct: 1 MPDFRIITGKIKLMRLDKFIAQQLGVSRAIAGREIRSNRVTVDGEIIRNAAFKLLPEHNV 60 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 E DG L + R ++ +KP G V + DPD + ++ + ++ + GRLDI+T G Sbjct: 61 EYDGNTLVQQNGPRYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTG 120 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+L+T+DG + + P + Y V V D KG+ + D+ Sbjct: 121 LVLMTDDGQWSHRITSPRHHCEKTYLVTLESPVAADTAEQFAKGVQLHN--EKDLTKPAV 178 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + V + + EG+ ++K++F V L R G L Sbjct: 179 LEVITPTQVRLTISEGRYHQVKRMFAAVGNHVVELHRERIGAIVL 223 >gi|323968113|gb|EGB63523.1| RNA pseudouridylate synthase [Escherichia coli M863] gi|323977618|gb|EGB72704.1| RNA pseudouridylate synthase [Escherichia coli TW10509] gi|327252432|gb|EGE64091.1| RNA pseudouridylate synthase [Escherichia coli STEC_7v] Length = 231 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 103/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAMLEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEE 225 >gi|261341580|ref|ZP_05969438.1| ribosomal large subunit pseudouridine synthase F [Enterobacter cancerogenus ATCC 35316] gi|288316382|gb|EFC55320.1| ribosomal large subunit pseudouridine synthase F [Enterobacter cancerogenus ATCC 35316] Length = 290 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 116/233 (49%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V+ D ++V+G + R A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVVPGDVVKVNGQLIEPRDA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +KP+G+V+T D + R + D + + SR+ +GRLD +++GL+ LTN G L Sbjct: 65 EDLVFIALNKPVGIVSTTEDGE-RDNIVDFV-NHSSRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYIVTVNKPVTDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFAFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E F + V +L R L + G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCEHFGYDVTKLERTRIMNVSLSGIPLGEWRDLTDDELIE 231 >gi|215486389|ref|YP_002328820.1| 23S rRNA pseudouridine synthase E [Escherichia coli O127:H6 str. E2348/69] gi|215264461|emb|CAS08824.1| 23S rRNA pseudouridine synthase [Escherichia coli O127:H6 str. E2348/69] gi|323976494|gb|EGB71582.1| RNA pseudouridylate synthase [Escherichia coli TW10509] Length = 217 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 51/180 (28%), Positives = 89/180 (49%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQV------------ 177 L P + ++Y V+ G +D L L+ G+ + + G V Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTEDALEALRNGVTLNDGPTLPAGAEMVEEPEWLWPRNPP 156 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREAT 216 >gi|187733584|ref|YP_001879484.1| 16S rRNA pseudouridylate synthase A [Shigella boydii CDC 3083-94] gi|187430576|gb|ACD09850.1| ribosomal small subunit pseudouridine synthase A [Shigella boydii CDC 3083-94] Length = 231 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 103/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRYHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEE 225 >gi|90413209|ref|ZP_01221204.1| putative pseudouridine synthase family 1 protein [Photobacterium profundum 3TCK] gi|90325761|gb|EAS42219.1| putative pseudouridine synthase family 1 protein [Photobacterium profundum 3TCK] Length = 216 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 51/186 (27%), Positives = 86/186 (46%), Gaps = 16/186 (8%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P R ++ L++KP ++T S G T+ D + + GRLD ++EGLL+LT Sbjct: 26 PKRPRGPQKIILFNKPFNVLTQFSGEPGDKTLADYI--SIKDIYPAGRLDKDSEGLLVLT 83 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--------------QGIC 171 NDG L L P ++ + Y V+ G D L L+KG+ + Q + Sbjct: 84 NDGILQARLTQPQSKQPKTYWVQVEGVPSDDDLEQLRKGVTLKDGLTLPADIERMEQPVI 143 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + W+ + LREG+NR+++++ + RLIR + + L G Sbjct: 144 WDRTPPIRERKNIPTTWLALTLREGRNRQVRRMTAHIGFPTLRLIRYKMADWTVDDLAPG 203 Query: 232 STREVS 237 REV+ Sbjct: 204 EWREVT 209 >gi|66047208|ref|YP_237049.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae B728a] gi|63257915|gb|AAY39011.1| Pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae B728a] Length = 230 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 108/227 (47%), Gaps = 9/227 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R++V +A RV+V+G V + +D L+ + R Sbjct: 2 RLDRFLSNLPRFNRQQVRLALASGRVQVDGQATRDPHHEVREFSCVALDEEILQAGKVPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ SD TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPEGCVSATSDAQ-HPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P ++ +VY V +D+ +G+ +GI Q+TL + + + Sbjct: 121 LTQPQSKMPKVYYVETEQPIDERYAAKFAEGLYFAFEGITTQPAQLTLLGPRSARLSIV- 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 EG+ ++K++F F+ KV RL R + G L L GS R ++ Sbjct: 180 ---EGRYHQVKRMFGHFDNKVLRLHRETIGALLLDPDLRPGSYRALN 223 >gi|304405744|ref|ZP_07387402.1| pseudouridine synthase [Paenibacillus curdlanolyticus YK9] gi|304344987|gb|EFM10823.1| pseudouridine synthase [Paenibacillus curdlanolyticus YK9] Length = 235 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 66/230 (28%), Positives = 113/230 (49%), Gaps = 9/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE ++++ + RV +NGI+ + + D + ++G + + R Sbjct: 2 RINKFISETGFCSRREADKLVDEGRVTINGIVAQLGS-QAEQGDDVRINGKRIGASRRHV 60 Query: 75 LWLYHKPIGLV-TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ TT S G F R+ +GRLD ++EGL+L+TNDG + Sbjct: 61 YIALNKPVGITSTTESQIKGNIVDFVGHSE---RIFPIGRLDKDSEGLILMTNDGDIVNR 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V V + + +G+ I G QVT ++ + L Sbjct: 118 ILRAEGKHEKEYIVTVDRPVTPMFIKGMSEGVRILGTMTLPCQVTRIAER----IFKIVL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 EGKNR+I+++ E F ++V RL R+ LG L G R++ + L E Sbjct: 174 TEGKNRQIRRMCEVFGYRVVRLRRVRIMNIHLGDLANGRWRDLHQDELDE 223 >gi|165975813|ref|YP_001651406.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|190149629|ref|YP_001968154.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|303252597|ref|ZP_07338760.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|307247349|ref|ZP_07529397.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|307249573|ref|ZP_07531560.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|307256398|ref|ZP_07538180.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 10 str. D13039] gi|307260827|ref|ZP_07542513.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|307262953|ref|ZP_07544575.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 13 str. N273] gi|165875914|gb|ABY68962.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|189914760|gb|ACE61012.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|302648565|gb|EFL78758.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|306856193|gb|EFM88348.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|306858428|gb|EFM90497.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|306865028|gb|EFM96929.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 10 str. D13039] gi|306869394|gb|EFN01185.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|306871579|gb|EFN03301.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 13 str. N273] Length = 230 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 62/227 (27%), Positives = 107/227 (47%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + R + V VNG L + +V + TD I +G L + + Sbjct: 2 RLDKFIAENTGLTRSQAARALKSGLVTVNGKLEKSGSVKIGDTDEICYEGERLEWVDEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V +H D + TVF + +++ + GRLD++T GL+LLT+DG + Sbjct: 62 YFMLYKPQGYVCSHDDGE-YPTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ L +GI+++G + ++ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYAKKLAEGILLRGEREPCLPAKMEVIDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EG+ ++K++F KV L R G L L G R +S++ Sbjct: 179 SEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDENLEEGEYRPLSEQ 225 >gi|150016675|ref|YP_001308929.1| pseudouridine synthase [Clostridium beijerinckii NCIMB 8052] gi|149903140|gb|ABR33973.1| pseudouridine synthase [Clostridium beijerinckii NCIMB 8052] Length = 281 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 53/160 (33%), Positives = 88/160 (55%), Gaps = 14/160 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+ + GI SR+E R+I ++R+ +NG +E VN +D I DG P+ E+ Sbjct: 2 RINKLFSNYGICSRKETNRLIEEKRIIINGRYCVEGQWVN--DSDEIIFDGKPISTVEKV 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGGL 130 + L +KP+G+ T + V DN+ S + VGRLD +++GL+L+TNDG + Sbjct: 60 YIVL-NKPVGITCT-----AENKVSDNIISYMKYPHYIFPVGRLDKDSQGLILMTNDGEV 113 Query: 131 A-RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 A R+LE + + Y V+ + D + L + G+ I G Sbjct: 114 ANRILESDNMHE-KEYLVQVNKNFDDEFLKRMSNGVEITG 152 >gi|238910944|ref|ZP_04654781.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] Length = 211 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 54/181 (29%), Positives = 89/181 (49%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 30 RVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAEGRLDRDSEGLLVLTNDGALQAR 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + ++Y V+ G D L L+ G+ + GI + Sbjct: 88 LTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLWPRTPPI 147 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ V L EG+NR+++++ RLIR S G + L L G RE+++ Sbjct: 148 RERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQWREIAQ 207 Query: 239 K 239 + Sbjct: 208 E 208 >gi|238789715|ref|ZP_04633498.1| Ribosomal small subunit pseudouridine synthase A [Yersinia frederiksenii ATCC 33641] gi|238722268|gb|EEQ13925.1| Ribosomal small subunit pseudouridine synthase A [Yersinia frederiksenii ATCC 33641] Length = 235 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 57/236 (24%), Positives = 110/236 (46%), Gaps = 3/236 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQTVGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + +D G+ + L+ + +T+ Sbjct: 122 TSPRHHCEKTYLVTLEHPLAEDTAQQFADGVQLHNEQSLTKPAQLEVIEPQVVRLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G +L LA G R ++ + + PHL Sbjct: 180 EGRYHQVKRMFAAVGNRVLELHRERIGEIKLDDDLAPGEYRPLTAEEIASVGAPHL 235 >gi|307131186|ref|YP_003883202.1| 23S rRNA pseudouridine synthase [Dickeya dadantii 3937] gi|306528715|gb|ADM98645.1| 23S rRNA pseudouridine synthase [Dickeya dadantii 3937] Length = 208 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 50/180 (27%), Positives = 91/180 (50%), Gaps = 17/180 (9%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +T + L++KP +++ +D GR+T+ D +P + S GRLD ++EGL++LTNDG L Sbjct: 28 KTHIVLFNKPFDVLSQFTDEGGRATLKDYVP--LRDIYSAGRLDRDSEGLMILTNDGKLQ 85 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQV----------- 177 L P + ++Y + G D++ L+ + G+++ + G QV Sbjct: 86 ARLTQPGKKTPKIYYAQVEGVPDKEALHAFRTGLILSDGPTLPAGVEQVEEPAWLWPRQP 145 Query: 178 -TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + +W+ + L EG+NR+++++ + RLIR S L L G RE+ Sbjct: 146 PIRERKTIPVSWLKITLYEGRNRQVRRMTAHIGYPTLRLIRYSMAGQTLDGLHPGEWREI 205 >gi|221134863|ref|ZP_03561166.1| pseudouridine synthase, Rsu [Glaciecola sp. HTCC2999] Length = 196 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 47/177 (26%), Positives = 88/177 (49%), Gaps = 20/177 (11%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E+ + L++KP ++T +D GR T+ D ++P+I++ GRLD ++EGLL+LTNDG Sbjct: 19 EKKLVVLFNKPFNVLTQFTDQAGRQTLKDYIDIPNIYA----AGRLDRDSEGLLVLTNDG 74 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L L P+ + + Y V+ G + + + L G+ ++ +V Sbjct: 75 KLQHALAHPTQKTTKTYWVQVEGDITDEAIEQLSNGVNLKDGMTAPAKVEKMAAPAIWPR 134 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +WV++ + EG+NR+++++ N+ RLIR G + + + G Sbjct: 135 TPPIRERASIPTSWVSITISEGRNRQVRRMTAHVNYPTLRLIRYRVGQWTIDNIANG 191 >gi|238894184|ref|YP_002918918.1| pseudouridine synthase [Klebsiella pneumoniae NTUH-K2044] gi|330016184|ref|ZP_08308414.1| ribosomal large subunit pseudouridine synthase E [Klebsiella sp. MS 92-3] gi|238546500|dbj|BAH62851.1| pseudouridine synthase [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] gi|328529469|gb|EGF56374.1| ribosomal large subunit pseudouridine synthase E [Klebsiella sp. MS 92-3] Length = 216 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 51/175 (29%), Positives = 88/175 (50%), Gaps = 17/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GRST+ D +P + V + GRLD ++EGLL+LTNDG L L Sbjct: 43 LFNKPYDVLPQFTDEAGRSTLKDFIP--VAGVYAAGRLDRDSEGLLVLTNDGALQAKLTQ 100 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL--------DT 181 P + ++Y V+ G+ + L L+ G+ + G+ + V L + Sbjct: 101 PGKRTGKIYYVQVEGEPTPEALTALRDGVTLNDGPTLPAGVELVEEPVWLWPRNPPIRER 160 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + W+ + L EG+NR+++++ + RLIR + G + L L G R+ Sbjct: 161 KSIPTRWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGGYTLDGLANGDWRKA 215 >gi|157375021|ref|YP_001473621.1| pseudouridine synthase, Rsu [Shewanella sediminis HAW-EB3] gi|157317395|gb|ABV36493.1| pseudouridine synthase, Rsu [Shewanella sediminis HAW-EB3] Length = 236 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 48/174 (27%), Positives = 87/174 (50%), Gaps = 16/174 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P V + GRLD ++EGLLLLTNDG L + Sbjct: 60 LFNKPFDVLCQFTDEQGRQTLKDYIP--IPDVYAAGRLDRDSEGLLLLTNDGKLQSKITE 117 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-------------K 183 P + + Y + G+ ++ ++ L+ G+ ++ +V + TQ K Sbjct: 118 PKKKTFKTYWAQVEGEPNEADVDKLRHGVELKDGMTLPAKVMIMTQPDVWPRTPPIRERK 177 Query: 184 G-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 G W+ + + EG+NR+++++ + RLIR G + L L +G + + Sbjct: 178 GIPTTWLEIQICEGRNRQVRRMTANIGFPTLRLIRYKIGQWSLNDLQSGEYQRI 231 >gi|306814702|ref|ZP_07448864.1| 16S rRNA pseudouridylate synthase A [Escherichia coli NC101] gi|305852096|gb|EFM52548.1| 16S rRNA pseudouridylate synthase A [Escherichia coli NC101] gi|320196056|gb|EFW70680.1| 16S rRNA pseudouridylate synthase A [Escherichia coli WV_060327] Length = 231 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 103/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEE 225 >gi|33152188|ref|NP_873541.1| ribosomal small subunit pseudouridine synthase A [Haemophilus ducreyi 35000HP] gi|33148410|gb|AAP95930.1| ribosomal small subunit pseudouridine synthase A [Haemophilus ducreyi 35000HP] Length = 230 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 62/227 (27%), Positives = 110/227 (48%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + + VNG +++ A+ + S D + +G L E + Sbjct: 2 RLDKFIAENIGLTRSLANKALKSSLITVNGQVVKSGAMKITSADGVCYEGNRLTWLESGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G + ++ D + TVF + R+ + GRLD++T GL+LLT+DG + Sbjct: 62 YFMLYKPQGYICSNDDSE-YPTVFQFFDYRLMVRLHTAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+QD L KGI+++G + ++ N +T+ Sbjct: 121 ITSPKYHCEKSYLVTLADPVEQDYALKLAKGILLRGERDPCLPAAMEIIDDYNVNLTIC- 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EG+ ++K++F KV L R G L TL G+ R ++K+ Sbjct: 180 -EGRYHQVKRMFAALGNKVQALHRWRIGEIILDETLQEGTFRHLTKQ 225 >gi|289664922|ref|ZP_06486503.1| pseudouridylate synthase [Xanthomonas campestris pv. vasculorum NCPPB702] Length = 190 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 54/176 (30%), Positives = 88/176 (50%), Gaps = 21/176 (11%) Query: 77 LYHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+++ SD P R+ LP V + GRLD ++EGLLLLT+DG LA Sbjct: 4 LLNKPYGVLSQFSDRSQPPKRTLAEFGLPP---DVYAAGRLDHDSEGLLLLTDDGALAHR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG-------- 184 L P + + Y V+ G+ ++L L+ G+V+ QV +LD Sbjct: 61 LTDPRHKQPKTYWVQVEGEPQAEQLQALRDGVVLNDGPTLPAQVRSLDPAPQLWPRDPPV 120 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +AW+ + + EG+NR+++++ RL+R++ G ++L TL G R Sbjct: 121 RVRKTVPDAWLELQITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDTLAPGQWR 176 >gi|19746361|ref|NP_607497.1| 16S pseudouridylate synthetase [Streptococcus pyogenes MGAS8232] gi|19748557|gb|AAL97996.1| putative 16S pseudouridylate synthetase [Streptococcus pyogenes MGAS8232] Length = 254 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 113/235 (48%), Gaps = 14/235 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKA 70 T R+ K++ + SR +V+++I Q V V+ + NV IEV G + Sbjct: 15 TNMRLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQRVTHP 74 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLLL 124 + + + L +KP G+V+ D + T+ D L P ++ VGRLD +TEGL+LL Sbjct: 75 KHSYIIL-NKPSGVVSAKKDTN-YLTIIDQLAEEDKSPDLYP----VGRLDRDTEGLVLL 128 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK 183 T++G L + PS + Y V +G + +D + GI G Q+T+ Sbjct: 129 TDNGPLGFRMLHPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKAD 188 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + ++ + EGK ++KK+F + KV L R + +LG L +G R +++ Sbjct: 189 TDQSQASLTISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLTE 243 >gi|86134787|ref|ZP_01053369.1| RNA pseudouridine synthase family protein [Polaribacter sp. MED152] gi|85821650|gb|EAQ42797.1| RNA pseudouridine synthase family protein [Polaribacter sp. MED152] Length = 189 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 54/185 (29%), Positives = 96/185 (51%), Gaps = 22/185 (11%) Query: 74 RLWLYHKPIGLVTTH--SDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++ HKP G ++ + + + L +++GRLD +EGLLLLT DG ++ Sbjct: 5 RHFILHKPYGYLSQFITNQTKRKKKMLGELYDFPEGTMAIGRLDFASEGLLLLTTDGKVS 64 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICY----------GDMQVTL 179 + E+ S+++ + Y V+ G + Q+ +N LKKG+ I +G Y + + L Sbjct: 65 Q--EIRSSKYEKEYYVQVDGLITQEAINQLKKGVEIGFEGKKYITKPGKASIINNPEFPL 122 Query: 180 DTQK------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +QK G +W++V +REGK R+++K+ + RL+RI G + L G Sbjct: 123 RSQKIRDDRHGPTSWISVIIREGKFRQVRKMTAAVGYPTLRLVRIRIGTITIDDLKNGEV 182 Query: 234 REVSK 238 +EV++ Sbjct: 183 KEVNQ 187 >gi|15802739|ref|NP_288766.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 EDL933] gi|15832329|ref|NP_311102.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 str. Sakai] gi|16130121|ref|NP_416688.1| 16S rRNA U516 pseudouridine synthase [Escherichia coli str. K-12 substr. MG1655] gi|24113572|ref|NP_708082.1| 16S rRNA pseudouridylate synthase A [Shigella flexneri 2a str. 301] gi|30063626|ref|NP_837797.1| 16S rRNA pseudouridylate synthase A [Shigella flexneri 2a str. 2457T] gi|82544599|ref|YP_408546.1| 16S rRNA pseudouridylate synthase A [Shigella boydii Sb227] gi|89109001|ref|AP_002781.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli str. K-12 substr. W3110] gi|110642394|ref|YP_670124.1| 16S rRNA pseudouridylate synthase A [Escherichia coli 536] gi|117624381|ref|YP_853294.1| 16S rRNA pseudouridylate synthase A [Escherichia coli APEC O1] gi|157155587|ref|YP_001463536.1| 16S rRNA pseudouridylate synthase A [Escherichia coli E24377A] gi|157161665|ref|YP_001458983.1| 16S rRNA pseudouridylate synthase A [Escherichia coli HS] gi|161486177|ref|NP_754606.2| 16S rRNA pseudouridylate synthase A [Escherichia coli CFT073] gi|162138407|ref|YP_541459.2| 16S rRNA pseudouridylate synthase A [Escherichia coli UTI89] gi|168749590|ref|ZP_02774612.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4113] gi|168759074|ref|ZP_02784081.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4401] gi|168767807|ref|ZP_02792814.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4486] gi|168773096|ref|ZP_02798103.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4196] gi|168780036|ref|ZP_02805043.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4076] gi|168789002|ref|ZP_02814009.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC869] gi|170019500|ref|YP_001724454.1| 16S rRNA pseudouridylate synthase A [Escherichia coli ATCC 8739] gi|170081805|ref|YP_001731125.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli str. K-12 substr. DH10B] gi|170681582|ref|YP_001744379.1| 16S rRNA pseudouridylate synthase A [Escherichia coli SMS-3-5] gi|188495180|ref|ZP_03002450.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli 53638] gi|191165380|ref|ZP_03027222.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli B7A] gi|191170122|ref|ZP_03031676.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli F11] gi|193062338|ref|ZP_03043433.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli E22] gi|194427231|ref|ZP_03059782.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli B171] gi|194434188|ref|ZP_03066455.1| ribosomal small subunit pseudouridine synthase A [Shigella dysenteriae 1012] gi|194436203|ref|ZP_03068305.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli 101-1] gi|195935565|ref|ZP_03080947.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 str. EC4024] gi|208805677|ref|ZP_03248014.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4206] gi|208814565|ref|ZP_03255894.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4045] gi|208818354|ref|ZP_03258674.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4042] gi|209400555|ref|YP_002271597.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4115] gi|209919643|ref|YP_002293727.1| 16S rRNA pseudouridylate synthase A [Escherichia coli SE11] gi|215487405|ref|YP_002329836.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O127:H6 str. E2348/69] gi|217327530|ref|ZP_03443613.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. TW14588] gi|218559104|ref|YP_002392017.1| 16S rRNA pseudouridylate synthase A [Escherichia coli S88] gi|218695798|ref|YP_002403465.1| 16S rRNA pseudouridylate synthase A [Escherichia coli 55989] gi|218700655|ref|YP_002408284.1| 16S rRNA pseudouridylate synthase A [Escherichia coli IAI39] gi|218705715|ref|YP_002413234.1| 16S rRNA pseudouridylate synthase A [Escherichia coli UMN026] gi|227887240|ref|ZP_04005045.1| 16S rRNA pseudouridylate synthase A [Escherichia coli 83972] gi|237704656|ref|ZP_04535137.1| ribosomal small subunit pseudouridine synthase A [Escherichia sp. 3_2_53FAA] gi|238901360|ref|YP_002927156.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli BW2952] gi|253772890|ref|YP_003035721.1| 16S rRNA pseudouridylate synthase A [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254162198|ref|YP_003045306.1| 16S rRNA pseudouridylate synthase A [Escherichia coli B str. REL606] gi|254794084|ref|YP_003078921.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 str. TW14359] gi|256017648|ref|ZP_05431513.1| 16S rRNA pseudouridylate synthase A [Shigella sp. D9] gi|256022132|ref|ZP_05435997.1| 16S rRNA pseudouridylate synthase A [Escherichia sp. 4_1_40B] gi|260844789|ref|YP_003222567.1| 16S rRNA pseudouridylate 516 synthase RsuA [Escherichia coli O103:H2 str. 12009] gi|260856157|ref|YP_003230048.1| 16S rRNA pseudouridylate 516 synthase RsuA [Escherichia coli O26:H11 str. 11368] gi|260868884|ref|YP_003235286.1| 16S rRNA pseudouridylate 516 synthase RsuA [Escherichia coli O111:H- str. 11128] gi|261223356|ref|ZP_05937637.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli O157:H7 str. FRIK2000] gi|261259093|ref|ZP_05951626.1| 16S rRNA pseudouridylate 516 synthase RsuA [Escherichia coli O157:H7 str. FRIK966] gi|291283437|ref|YP_003500255.1| Pseudouridine synthase [Escherichia coli O55:H7 str. CB9615] gi|293405651|ref|ZP_06649643.1| 16S rRNA pseudouridylate synthase A [Escherichia coli FVEC1412] gi|293410547|ref|ZP_06654123.1| 16S rRNA pseudouridylate synthase A [Escherichia coli B354] gi|293415469|ref|ZP_06658112.1| 16S rRNA pseudouridylate synthase A [Escherichia coli B185] gi|293446535|ref|ZP_06662957.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli B088] gi|298381333|ref|ZP_06990932.1| 16S rRNA pseudouridylate synthase A [Escherichia coli FVEC1302] gi|300819120|ref|ZP_07099322.1| conserved hypothetical protein [Escherichia coli MS 107-1] gi|300822636|ref|ZP_07102774.1| conserved hypothetical protein [Escherichia coli MS 119-7] gi|300897756|ref|ZP_07116149.1| conserved hypothetical protein [Escherichia coli MS 198-1] gi|300918831|ref|ZP_07135400.1| conserved hypothetical protein [Escherichia coli MS 115-1] gi|300926291|ref|ZP_07142094.1| hypothetical protein HMPREF9548_04311 [Escherichia coli MS 182-1] gi|300930419|ref|ZP_07145828.1| conserved hypothetical protein [Escherichia coli MS 187-1] gi|300935111|ref|ZP_07150142.1| conserved hypothetical protein [Escherichia coli MS 21-1] gi|300950052|ref|ZP_07163999.1| conserved hypothetical protein [Escherichia coli MS 116-1] gi|300956858|ref|ZP_07169118.1| hypothetical protein HMPREF9547_02661 [Escherichia coli MS 175-1] gi|300981435|ref|ZP_07175516.1| hypothetical protein HMPREF9553_01804 [Escherichia coli MS 200-1] gi|300982903|ref|ZP_07176367.1| conserved hypothetical protein [Escherichia coli MS 45-1] gi|301021043|ref|ZP_07185086.1| conserved hypothetical protein [Escherichia coli MS 69-1] gi|301024319|ref|ZP_07188008.1| conserved hypothetical protein [Escherichia coli MS 196-1] gi|301048923|ref|ZP_07195916.1| conserved hypothetical protein [Escherichia coli MS 185-1] gi|301328667|ref|ZP_07221728.1| conserved hypothetical protein [Escherichia coli MS 78-1] gi|301644209|ref|ZP_07244217.1| conserved hypothetical protein [Escherichia coli MS 146-1] gi|307138843|ref|ZP_07498199.1| 16S rRNA pseudouridylate synthase A [Escherichia coli H736] gi|307311237|ref|ZP_07590881.1| pseudouridine synthase [Escherichia coli W] gi|309793067|ref|ZP_07687495.1| conserved hypothetical protein [Escherichia coli MS 145-7] gi|312967483|ref|ZP_07781698.1| conserved hypothetical protein [Escherichia coli 2362-75] gi|331642812|ref|ZP_08343947.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli H736] gi|331647839|ref|ZP_08348931.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli M605] gi|331653617|ref|ZP_08354618.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli M718] gi|331658264|ref|ZP_08359226.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli TA206] gi|331663688|ref|ZP_08364598.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli TA143] gi|331668887|ref|ZP_08369735.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli TA271] gi|331673705|ref|ZP_08374468.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli TA280] gi|331678137|ref|ZP_08378812.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli H591] gi|332278659|ref|ZP_08391072.1| 16S rRNA pseudouridylate 516 synthase [Shigella sp. D9] gi|76364197|sp|P0AA43|RSUA_ECOLI RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|88941974|sp|P0AA45|RSUA_ECO57 RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|88941975|sp|P0AA44|RSUA_ECOL6 RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|88941976|sp|P0AA46|RSUA_SHIFL RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|12516515|gb|AAG57321.1|AE005451_2 16S pseudouridylate 516 synthase [Escherichia coli O157:H7 str. EDL933] gi|405907|gb|AAA16377.1| yejD [Escherichia coli] gi|1042177|gb|AAB34905.1| 16S RNA pseudouridine 516 synthase, 16S RNA psi 516 synthase=rsuA gene product [Escherichia coli, Peptide, 231 aa] gi|1788510|gb|AAC75244.1| 16S rRNA U516 pseudouridine synthase [Escherichia coli str. K-12 substr. MG1655] gi|13362544|dbj|BAB36498.1| 16S pseudouridylate 516 synthase [Escherichia coli O157:H7 str. Sakai] gi|24052623|gb|AAN43789.1| 16S pseudouridylate 516 synthase [Shigella flexneri 2a str. 301] gi|30041879|gb|AAP17606.1| 16S pseudouridylate 516 synthase [Shigella flexneri 2a str. 2457T] gi|81246010|gb|ABB66718.1| 16S pseudouridylate 516 synthase [Shigella boydii Sb227] gi|85675292|dbj|BAE76648.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli str. K12 substr. W3110] gi|110343986|gb|ABG70223.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli 536] gi|115513505|gb|ABJ01580.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli APEC O1] gi|157067345|gb|ABV06600.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli HS] gi|157077617|gb|ABV17325.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli E24377A] gi|169754428|gb|ACA77127.1| pseudouridine synthase [Escherichia coli ATCC 8739] gi|169889640|gb|ACB03347.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli str. K-12 substr. DH10B] gi|170519300|gb|ACB17478.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli SMS-3-5] gi|187771075|gb|EDU34919.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4196] gi|188016070|gb|EDU54192.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4113] gi|188490379|gb|EDU65482.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli 53638] gi|189002071|gb|EDU71057.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4076] gi|189354270|gb|EDU72689.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4401] gi|189363003|gb|EDU81422.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4486] gi|189371377|gb|EDU89793.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC869] gi|190904543|gb|EDV64250.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli B7A] gi|190909638|gb|EDV69223.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli F11] gi|192932004|gb|EDV84603.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli E22] gi|194414852|gb|EDX31123.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli B171] gi|194417517|gb|EDX33619.1| ribosomal small subunit pseudouridine synthase A [Shigella dysenteriae 1012] gi|194424931|gb|EDX40916.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli 101-1] gi|208725478|gb|EDZ75079.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4206] gi|208735842|gb|EDZ84529.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4045] gi|208738477|gb|EDZ86159.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4042] gi|209161955|gb|ACI39388.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4115] gi|209765918|gb|ACI81271.1| 16S pseudouridylate 516 synthase [Escherichia coli] gi|209765920|gb|ACI81272.1| 16S pseudouridylate 516 synthase [Escherichia coli] gi|209765922|gb|ACI81273.1| 16S pseudouridylate 516 synthase [Escherichia coli] gi|209765924|gb|ACI81274.1| 16S pseudouridylate 516 synthase [Escherichia coli] gi|209765926|gb|ACI81275.1| 16S pseudouridylate 516 synthase [Escherichia coli] gi|209912902|dbj|BAG77976.1| ribosomal small subunit pseudouridine synthase [Escherichia coli SE11] gi|215265477|emb|CAS09878.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli O127:H6 str. E2348/69] gi|217319897|gb|EEC28322.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. TW14588] gi|218352530|emb|CAU98307.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli 55989] gi|218365873|emb|CAR03614.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli S88] gi|218370641|emb|CAR18450.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli IAI39] gi|218432812|emb|CAR13706.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli UMN026] gi|222033944|emb|CAP76685.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli LF82] gi|226901022|gb|EEH87281.1| ribosomal small subunit pseudouridine synthase A [Escherichia sp. 3_2_53FAA] gi|227835590|gb|EEJ46056.1| 16S rRNA pseudouridylate synthase A [Escherichia coli 83972] gi|238859736|gb|ACR61734.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli BW2952] gi|242377823|emb|CAQ32589.1| 16S rRNA pseudouridine 516 synthase [Escherichia coli BL21(DE3)] gi|253323934|gb|ACT28536.1| pseudouridine synthase [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|253974099|gb|ACT39770.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli B str. REL606] gi|253978266|gb|ACT43936.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli BL21(DE3)] gi|254593484|gb|ACT72845.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli O157:H7 str. TW14359] gi|257754806|dbj|BAI26308.1| 16S rRNA pseudouridylate 516 synthase RsuA [Escherichia coli O26:H11 str. 11368] gi|257759936|dbj|BAI31433.1| 16S rRNA pseudouridylate 516 synthase RsuA [Escherichia coli O103:H2 str. 12009] gi|257765240|dbj|BAI36735.1| 16S rRNA pseudouridylate 516 synthase RsuA [Escherichia coli O111:H- str. 11128] gi|260448722|gb|ACX39144.1| pseudouridine synthase [Escherichia coli DH1] gi|281179275|dbj|BAI55605.1| ribosomal small subunit pseudouridine synthase [Escherichia coli SE15] gi|284922167|emb|CBG35249.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli 042] gi|290763310|gb|ADD57271.1| Pseudouridine synthase [Escherichia coli O55:H7 str. CB9615] gi|291323365|gb|EFE62793.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli B088] gi|291427859|gb|EFF00886.1| 16S rRNA pseudouridylate synthase A [Escherichia coli FVEC1412] gi|291433117|gb|EFF06096.1| 16S rRNA pseudouridylate synthase A [Escherichia coli B185] gi|291471015|gb|EFF13499.1| 16S rRNA pseudouridylate synthase A [Escherichia coli B354] gi|294489663|gb|ADE88419.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli IHE3034] gi|298278775|gb|EFI20289.1| 16S rRNA pseudouridylate synthase A [Escherichia coli FVEC1302] gi|299880416|gb|EFI88627.1| conserved hypothetical protein [Escherichia coli MS 196-1] gi|300299299|gb|EFJ55684.1| conserved hypothetical protein [Escherichia coli MS 185-1] gi|300307508|gb|EFJ62028.1| hypothetical protein HMPREF9553_01804 [Escherichia coli MS 200-1] gi|300316339|gb|EFJ66123.1| hypothetical protein HMPREF9547_02661 [Escherichia coli MS 175-1] gi|300358471|gb|EFJ74341.1| conserved hypothetical protein [Escherichia coli MS 198-1] gi|300398295|gb|EFJ81833.1| conserved hypothetical protein [Escherichia coli MS 69-1] gi|300408703|gb|EFJ92241.1| conserved hypothetical protein [Escherichia coli MS 45-1] gi|300414074|gb|EFJ97384.1| conserved hypothetical protein [Escherichia coli MS 115-1] gi|300417720|gb|EFK01031.1| hypothetical protein HMPREF9548_04311 [Escherichia coli MS 182-1] gi|300450542|gb|EFK14162.1| conserved hypothetical protein [Escherichia coli MS 116-1] gi|300459692|gb|EFK23185.1| conserved hypothetical protein [Escherichia coli MS 21-1] gi|300461741|gb|EFK25234.1| conserved hypothetical protein [Escherichia coli MS 187-1] gi|300524836|gb|EFK45905.1| conserved hypothetical protein [Escherichia coli MS 119-7] gi|300528273|gb|EFK49335.1| conserved hypothetical protein [Escherichia coli MS 107-1] gi|300845059|gb|EFK72819.1| conserved hypothetical protein [Escherichia coli MS 78-1] gi|301077507|gb|EFK92313.1| conserved hypothetical protein [Escherichia coli MS 146-1] gi|306908743|gb|EFN39240.1| pseudouridine synthase [Escherichia coli W] gi|307554252|gb|ADN47027.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli ABU 83972] gi|307626276|gb|ADN70580.1| 16S rRNA pseudouridylate synthase A [Escherichia coli UM146] gi|308123353|gb|EFO60615.1| conserved hypothetical protein [Escherichia coli MS 145-7] gi|309702498|emb|CBJ01824.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli ETEC H10407] gi|312287680|gb|EFR15585.1| conserved hypothetical protein [Escherichia coli 2362-75] gi|312946803|gb|ADR27630.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O83:H1 str. NRG 857C] gi|313651297|gb|EFS15695.1| hypothetical protein SF2457T_0264 [Shigella flexneri 2a str. 2457T] gi|315061493|gb|ADT75820.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli W] gi|315136817|dbj|BAJ43976.1| pseudouridine synthase [Escherichia coli DH1] gi|315285741|gb|EFU45181.1| conserved hypothetical protein [Escherichia coli MS 110-3] gi|315294447|gb|EFU53795.1| conserved hypothetical protein [Escherichia coli MS 153-1] gi|315297949|gb|EFU57219.1| conserved hypothetical protein [Escherichia coli MS 16-3] gi|315615429|gb|EFU96061.1| RNA pseudouridylate synthase family protein [Escherichia coli 3431] gi|320174783|gb|EFW49909.1| 16S rRNA pseudouridylate synthase A [Shigella dysenteriae CDC 74-1112] gi|320178861|gb|EFW53824.1| 16S rRNA pseudouridylate synthase A [Shigella boydii ATCC 9905] gi|320184699|gb|EFW59492.1| 16S rRNA pseudouridylate synthase A [Shigella flexneri CDC 796-83] gi|320192188|gb|EFW66833.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 str. EC1212] gi|320199781|gb|EFW74370.1| 16S rRNA pseudouridylate synthase A [Escherichia coli EC4100B] gi|320641254|gb|EFX10732.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 str. G5101] gi|320646643|gb|EFX15554.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H- str. 493-89] gi|320651898|gb|EFX20273.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H- str. H 2687] gi|320657623|gb|EFX25421.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O55:H7 str. 3256-97 TW 07815] gi|320663228|gb|EFX30537.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O55:H7 str. USDA 5905] gi|323152225|gb|EFZ38515.1| RNA pseudouridylate synthase [Escherichia coli EPECa14] gi|323161735|gb|EFZ47617.1| RNA pseudouridylate synthase [Escherichia coli E128010] gi|323171836|gb|EFZ57480.1| RNA pseudouridylate synthase [Escherichia coli LT-68] gi|323176916|gb|EFZ62506.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli 1180] gi|323184191|gb|EFZ69568.1| RNA pseudouridylate synthase [Escherichia coli 1357] gi|323188090|gb|EFZ73385.1| RNA pseudouridylate synthase [Escherichia coli RN587/1] gi|323377926|gb|ADX50194.1| pseudouridine synthase [Escherichia coli KO11] gi|323936800|gb|EGB33085.1| RNA pseudouridylate synthase [Escherichia coli E1520] gi|323940746|gb|EGB36934.1| RNA pseudouridylate synthase [Escherichia coli E482] gi|323951979|gb|EGB47853.1| RNA pseudouridylate synthase [Escherichia coli H252] gi|323955953|gb|EGB51706.1| RNA pseudouridylate synthase [Escherichia coli H263] gi|323961577|gb|EGB57184.1| RNA pseudouridylate synthase [Escherichia coli H489] gi|323972934|gb|EGB68131.1| RNA pseudouridylate synthase [Escherichia coli TA007] gi|324006506|gb|EGB75725.1| hypothetical protein HMPREF9532_03776 [Escherichia coli MS 57-2] gi|324013929|gb|EGB83148.1| hypothetical protein HMPREF9533_01960 [Escherichia coli MS 60-1] gi|324020657|gb|EGB89876.1| hypothetical protein HMPREF9542_00685 [Escherichia coli MS 117-3] gi|324117976|gb|EGC11875.1| RNA pseudouridylate synthase [Escherichia coli E1167] gi|326339539|gb|EGD63350.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 str. 1125] gi|326344000|gb|EGD67761.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 str. 1044] gi|330912016|gb|EGH40526.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli AA86] gi|331039610|gb|EGI11830.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli H736] gi|331043563|gb|EGI15701.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli M605] gi|331048466|gb|EGI20542.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli M718] gi|331056512|gb|EGI28521.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli TA206] gi|331059487|gb|EGI31464.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli TA143] gi|331064081|gb|EGI35992.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli TA271] gi|331068978|gb|EGI40370.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli TA280] gi|331074597|gb|EGI45917.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli H591] gi|332093691|gb|EGI98749.1| ribosomal small subunit pseudouridine synthase A [Shigella boydii 3594-74] gi|332096238|gb|EGJ01241.1| ribosomal small subunit pseudouridine synthase A [Shigella dysenteriae 155-74] gi|332101011|gb|EGJ04357.1| 16S rRNA pseudouridylate 516 synthase [Shigella sp. D9] gi|332343965|gb|AEE57299.1| conserved hypothetical protein [Escherichia coli UMNK88] gi|332754826|gb|EGJ85191.1| ribosomal small subunit pseudouridine synthase A [Shigella flexneri 4343-70] gi|332755230|gb|EGJ85594.1| ribosomal small subunit pseudouridine synthase A [Shigella flexneri K-671] gi|332756177|gb|EGJ86528.1| ribosomal small subunit pseudouridine synthase A [Shigella flexneri 2747-71] gi|332765997|gb|EGJ96207.1| 16S rRNA pseudouridine synthase [Shigella flexneri 2930-71] gi|333001324|gb|EGK20892.1| ribosomal small subunit pseudouridine synthase A [Shigella flexneri VA-6] gi|333001796|gb|EGK21362.1| ribosomal small subunit pseudouridine synthase A [Shigella flexneri K-218] gi|333002908|gb|EGK22464.1| ribosomal small subunit pseudouridine synthase A [Shigella flexneri K-272] gi|333016616|gb|EGK35945.1| ribosomal small subunit pseudouridine synthase A [Shigella flexneri K-304] gi|333016912|gb|EGK36236.1| ribosomal small subunit pseudouridine synthase A [Shigella flexneri K-227] Length = 231 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 103/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEE 225 >gi|312881482|ref|ZP_07741274.1| ribosomal large subunit pseudouridine synthase E [Vibrio caribbenthicus ATCC BAA-2122] gi|309370848|gb|EFP98308.1| ribosomal large subunit pseudouridine synthase E [Vibrio caribbenthicus ATCC BAA-2122] Length = 226 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 50/180 (27%), Positives = 92/180 (51%), Gaps = 16/180 (8%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E ++ +++KP ++ +D +GR T+ D + V + GRLD ++EGLL+LTNDG L Sbjct: 47 EERKVIIFNKPFDTLSQFTDGEGRKTLADYI--SIKGVYAAGRLDRDSEGLLVLTNDGIL 104 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG----- 184 L PS++ + Y V+ G + L+ L++G+ ++ G+ +D K Sbjct: 105 QARLTQPSSKSPKTYWVQVDGSPGEVDLDKLRQGVELKDGLTLPARVEIIDEPKVWPRNP 164 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+++ + EG+NR+++++ + RLIR S G L +L G +E+ Sbjct: 165 PVRFRANIPTTWLSITIIEGRNRQVRRMTAHIGYPTLRLIRYSVGDIHLDSLKPGEWKEI 224 >gi|229017689|ref|ZP_04174580.1| Pseudouridine synthase [Bacillus cereus AH1273] gi|229023908|ref|ZP_04180391.1| Pseudouridine synthase [Bacillus cereus AH1272] gi|228737421|gb|EEL87933.1| Pseudouridine synthase [Bacillus cereus AH1272] gi|228743615|gb|EEL93724.1| Pseudouridine synthase [Bacillus cereus AH1273] Length = 238 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 64/225 (28%), Positives = 112/225 (49%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIID-LVNHPLRINHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + L + G+ I ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPEFLEKMAAGVKILDTKTLPCEIT----QLSKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R++SKK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKK 222 >gi|282600611|ref|ZP_05979218.2| ribosomal small subunit pseudouridine synthase A [Subdoligranulum variabile DSM 15176] gi|282571938|gb|EFB77473.1| ribosomal small subunit pseudouridine synthase A [Subdoligranulum variabile DSM 15176] Length = 237 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 68/228 (29%), Positives = 109/228 (47%), Gaps = 15/228 (6%) Query: 22 RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLW-LYHK 80 R G+ +R E + I + RV VNG++ +A V I VDG PL + + ++ + +K Sbjct: 11 RTGL-TRSESRKAITKGRVAVNGMVCRKADTQVAEDAAIAVDGTPLAGSYQKYVYIMLNK 69 Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVLELPS 138 P G+V+ D +TV D + + F R + GRLD + G +LLT+DG LA L P+ Sbjct: 70 PEGVVSASRDKR-DTTVVDLVAADFPRRALFPAGRLDKTSTGFVLLTDDGALAHDLLSPA 128 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ---KGSNAWVT-VGLR 194 + Y V +D + ++ G G+ D + + G + V V L Sbjct: 129 HHVDKQYLV----TLDTPLTDAMRAGFA-AGVTLADGETMAPAEAEPAGEDPCVVKVTLH 183 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 +G +IK++F + VN L R + G L LA G RE++ + L Sbjct: 184 QGVYHQIKRMFGVYGAGVNALHRYAIGGVALDAALAPGQWRELTAEEL 231 >gi|123441748|ref|YP_001005732.1| 16S rRNA pseudouridylate synthase A [Yersinia enterocolitica subsp. enterocolitica 8081] gi|122088709|emb|CAL11514.1| ribosomal small subunit pseudouridine synthase A [Yersinia enterocolitica subsp. enterocolitica 8081] Length = 235 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 58/238 (24%), Positives = 111/238 (46%), Gaps = 7/238 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQTVGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTVG 192 P + Y V + D G+ + + + +T Q V + Sbjct: 122 TSPRHHCEKTYLVTLEQPIADDTAQQFTDGVQL----HNEKSLTKPAQLEVIEPQLVRLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHL 249 + EG+ ++K++F +V L R G +L LA G R ++ + + PHL Sbjct: 178 ISEGRYHQVKRMFAAVGNRVLELHRERIGAIKLDDDLAPGEYRPLTPEEIASVGAPHL 235 >gi|229592774|ref|YP_002874893.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas fluorescens SBW25] gi|229364640|emb|CAY52558.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas fluorescens SBW25] Length = 211 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 50/183 (27%), Positives = 91/183 (49%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP ++T SD GR+T+ F ++P I+ GRLD ++EGLLLLTNDG L Sbjct: 33 KLILFNKPFDVLTQFSDEGGRATLKDFIDIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 88 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------- 184 + P + + Y V+ G+ +++L L+ G+ + + L + Sbjct: 89 ARIADPKHKLAKTYWVQVEGEPTEEQLQRLRDGVALNDGKTLPAEARLLEEPALWPRNPP 148 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ + +REG+NR+++++ RL+R+ G + + L G +EV Sbjct: 149 VRFRKSVPTHWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWTIDGLDQGQWKEVP 208 Query: 238 KKI 240 ++ Sbjct: 209 ARL 211 >gi|145633297|ref|ZP_01789028.1| malic enzyme [Haemophilus influenzae 3655] gi|145634426|ref|ZP_01790136.1| malic enzyme [Haemophilus influenzae PittAA] gi|148825838|ref|YP_001290591.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae PittEE] gi|229845029|ref|ZP_04465165.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae 6P18H1] gi|229846853|ref|ZP_04466960.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae 7P49H1] gi|144986143|gb|EDJ92733.1| malic enzyme [Haemophilus influenzae 3655] gi|145268406|gb|EDK08400.1| malic enzyme [Haemophilus influenzae PittAA] gi|148715998|gb|ABQ98208.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae PittEE] gi|229810342|gb|EEP46061.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae 7P49H1] gi|229812001|gb|EEP47694.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae 6P18H1] gi|309972980|gb|ADO96181.1| 16S rRNA U516 pseudouridine synthase [Haemophilus influenzae R2846] Length = 232 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 57/208 (27%), Positives = 100/208 (48%), Gaps = 4/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E + Sbjct: 2 RLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWVEEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V ++ D D + F + P + ++ S GRLD++T GL+LLT+DG + Sbjct: 62 YFMLHKPQGCVCSNDDGDYPTIYQFFDYP-LAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+++ +GI+++G L+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACAEGILLRGEKEPTKPAKLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 EG+ ++K++F KV L R G Sbjct: 179 SEGRYHQVKRMFAALGNKVVGLHRWKIG 206 >gi|146308760|ref|YP_001189225.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas mendocina ymp] gi|145576961|gb|ABP86493.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas mendocina ymp] Length = 206 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 53/182 (29%), Positives = 90/182 (49%), Gaps = 20/182 (10%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + RL L +KP ++T +D GR+T+ F +P ++ GRLD ++EGLLLLTNDG Sbjct: 25 QPRLILLNKPFDVLTQFNDEQGRATLKDFVEVPGVYP----AGRLDRDSEGLLLLTNDGR 80 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK----- 183 L + P + + Y V+ G+ + +L L+ G+ + G LD + Sbjct: 81 LQARIADPRHKLAKTYWVQVEGEPSEAQLQQLRDGVTLNDGPTLPAEARLLDEPQLWDRH 140 Query: 184 --------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 +W+ + +REG+NR+++++ RL+R++ GP+ L L G E Sbjct: 141 PPVRFRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVAIGPWALNGLQPGQWCE 200 Query: 236 VS 237 V Sbjct: 201 VP 202 >gi|15603470|ref|NP_246544.1| hypothetical protein PM1605 [Pasteurella multocida subsp. multocida str. Pm70] gi|34098696|sp|Q9CKK7|RLUE_PASMU RecName: Full=Ribosomal large subunit pseudouridine synthase E; AltName: Full=rRNA pseudouridylate synthase E; AltName: Full=rRNA-uridine isomerase E gi|12722002|gb|AAK03689.1| unknown [Pasteurella multocida subsp. multocida str. Pm70] Length = 241 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 49/181 (27%), Positives = 90/181 (49%), Gaps = 17/181 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T++ L++KP ++T SD +GR+T+ +P V GRLD ++EGL+LLTN+G + Sbjct: 49 TQVILFNKPYDVLTQFSDEEGRATLKAFIP--IPHVYPAGRLDRDSEGLVLLTNNGEIQH 106 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------------- 179 L +P + Y + G + L L++G+V+ +V L Sbjct: 107 RLAVPKFNTEKTYFAQVEGIPQETDLAQLRQGVVLNDGKTLPAKVRLVPEPNWLWQRNPP 166 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + ++ +W+ + + EG+NR+++++ + RLIR F L L G R++S Sbjct: 167 IRERKQIPTSWLEIKIHEGRNRQVRRMTAHIGFPTLRLIRYQMALFNLANLEQGQYRQLS 226 Query: 238 K 238 + Sbjct: 227 E 227 >gi|82776214|ref|YP_402563.1| 16S rRNA pseudouridylate synthase A [Shigella dysenteriae Sd197] gi|309786649|ref|ZP_07681269.1| RNA pseudouridylate synthase family protein [Shigella dysenteriae 1617] gi|81240362|gb|ABB61072.1| 16S pseudouridylate 516 synthase [Shigella dysenteriae Sd197] gi|308925342|gb|EFP70829.1| RNA pseudouridylate synthase family protein [Shigella dysenteriae 1617] Length = 231 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 59/226 (26%), Positives = 103/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 EG+ ++K++F V L R G L L+ G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLVPGEYRPLTEE 225 >gi|117920196|ref|YP_869388.1| ribosomal large subunit pseudouridine synthase E [Shewanella sp. ANA-3] gi|117612528|gb|ABK47982.1| ribosomal large subunit pseudouridine synthase E [Shewanella sp. ANA-3] Length = 269 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 47/169 (27%), Positives = 82/169 (48%), Gaps = 16/169 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P V + GRLD ++EGLLLLTNDG L L Sbjct: 92 LFNKPFDVLCQFTDEQGRKTLKDYIP--IPGVYAAGRLDRDSEGLLLLTNDGQLQAKLTE 149 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--------------DTQ 182 P + + Y V+ G+ L L++G+ ++ +V++ + + Sbjct: 150 PKKKTFKTYWVQVEGEPTDADLAKLRQGVELKDGITLPAKVSIMATPNVWPRNPPIRERK 209 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RLIR G + L L G Sbjct: 210 NIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDDLATG 258 >gi|56460417|ref|YP_155698.1| RNA pseudouridylate synthase-family protein [Idiomarina loihiensis L2TR] gi|56179427|gb|AAV82149.1| RNA pseudouridylate synthase-family protein [Idiomarina loihiensis L2TR] Length = 191 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 51/182 (28%), Positives = 90/182 (49%), Gaps = 17/182 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ +L L +KP G+++ + +G T+ +P + V GRLD ++EGLLLLTND Sbjct: 6 KRPANPKLVLLNKPYGVLSQFTGEEGDQTLKPFIPH--NDVYPAGRLDKDSEGLLLLTND 63 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL------- 179 G L P + + Y V+ G +++L L+ G+ + G+ + Sbjct: 64 GVYQARLANPKYKVWKTYWVQVEGDPSEEQLEQLRNGVELNDGMTRPAEAFVMPEPMNLW 123 Query: 180 -------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + ++W+ + +REGKNR+++++ RLIR + GPFQL T+ G Sbjct: 124 PRNPPVRERKSVPDSWLCLKIREGKNRQVRRMTAHVGLPTLRLIRAAVGPFQLKTMQPGE 183 Query: 233 TR 234 R Sbjct: 184 WR 185 >gi|258424167|ref|ZP_05687049.1| RNA pseudouridine synthase [Staphylococcus aureus A9635] gi|257845788|gb|EEV69820.1| RNA pseudouridine synthase [Staphylococcus aureus A9635] Length = 231 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 62/224 (27%), Positives = 107/224 (47%), Gaps = 11/224 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 2 RIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKAHIEPKNDKISVRGELIEYVENV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G ++ D + TV D +P + VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPKGYISATEDHHSK-TVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + ++ + K+G+ + G + +D Q V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEEDIQAFKEGVTLSDGKVKPAILTYIDNQTSH-----V 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 + EGK ++K++F +V L RI +L + L +G+ R Sbjct: 175 TIYEGKYHQVKRMFHSIQNEVIHLKRIKIADLELDSNLESGNYR 218 >gi|315635284|ref|ZP_07890561.1| pseudouridylate synthase [Aggregatibacter segnis ATCC 33393] gi|315476030|gb|EFU66785.1| pseudouridylate synthase [Aggregatibacter segnis ATCC 33393] Length = 233 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 50/187 (26%), Positives = 95/187 (50%), Gaps = 17/187 (9%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +T++ L++KP ++ SD +GRST+ D + + V VGRLD ++EGLLLLTN+G + Sbjct: 40 QTQVILFNKPFDVLCQFSDENGRSTLKDFID--IAEVYPVGRLDRDSEGLLLLTNNGEIQ 97 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS------ 185 L P + + Y ++ G D+ L L++G+ ++ +V L ++ Sbjct: 98 HRLAEPKFKMEKTYWMQVEGVPDETALEQLRRGVQLKDGMTKPAKVRLISEPDCLWQRVP 157 Query: 186 ---------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 +W+ + + EG+NR+++++ + RLIR F L L + R + Sbjct: 158 PIRERKNIPTSWLEIKIYEGRNRQVRRMTAHIGFPTLRLIRCQLAGFTLQNLAPKTYRTL 217 Query: 237 SKKILRE 243 ++ L++ Sbjct: 218 TQDELKQ 224 >gi|253734463|ref|ZP_04868628.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus TCH130] gi|253727517|gb|EES96246.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus TCH130] gi|329733199|gb|EGG69536.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus 21193] Length = 231 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 63/224 (28%), Positives = 106/224 (47%), Gaps = 11/224 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 2 RIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKITVRGELIEYIENV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G ++ D + TV D +P + VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPKGYISATEDHHSK-TVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + +D + K+G+ + G + +D Q V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLSDGKVKPAILTYIDNQTSH-----V 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 + EGK ++K++F +V L RI +L + L +G R Sbjct: 175 TIYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYR 218 >gi|145636895|ref|ZP_01792560.1| malic enzyme [Haemophilus influenzae PittHH] gi|145269976|gb|EDK09914.1| malic enzyme [Haemophilus influenzae PittHH] Length = 232 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 57/208 (27%), Positives = 100/208 (48%), Gaps = 4/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E + Sbjct: 2 RLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWVEEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V ++ D D + F + P + ++ S GRLD++T GL+LLT+DG + Sbjct: 62 YFMLHKPQGCVCSNDDGDYPTIYQFFDYP-LAGKLHSAGRLDMDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+++ +GI+++G L+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 EG+ ++K++F KV L R G Sbjct: 179 SEGRYHQVKRMFAALGNKVVGLHRWKIG 206 >gi|145629302|ref|ZP_01785101.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae 22.1-21] gi|144978805|gb|EDJ88528.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae 22.1-21] Length = 232 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 57/208 (27%), Positives = 100/208 (48%), Gaps = 4/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E + Sbjct: 2 RLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWIEEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V ++ D D + F + P + ++ S GRLD++T GL+LLT+DG + Sbjct: 62 YFMLHKPQGCVCSNDDGDYPTIYQFFDYP-LAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+++ +GI+++G L+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 EG+ ++K++F KV L R G Sbjct: 179 SEGRYHQVKRMFAALGNKVVGLHRWKIG 206 >gi|298695021|gb|ADI98243.1| pseudouridine synthase, family 1 [Staphylococcus aureus subsp. aureus ED133] gi|323439591|gb|EGA97311.1| 16S RNA pseudouridylate synthase [Staphylococcus aureus O11] gi|323441503|gb|EGA99155.1| 16S RNA pseudouridylate synthase [Staphylococcus aureus O46] Length = 231 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 63/224 (28%), Positives = 106/224 (47%), Gaps = 11/224 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 2 RIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKISVRGELIEYVENV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G ++ D + TV D +P + VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPKGYISATEDHHSK-TVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + +D + K+G+ + G + +D Q V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEDDIQAFKEGVKLSDGKVKPAILTYIDNQTSH-----V 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 + EGK ++K++F +V L RI +L + L +G R Sbjct: 175 TIYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYR 218 >gi|294670358|ref|ZP_06735240.1| hypothetical protein NEIELOOT_02076 [Neisseria elongata subsp. glycolytica ATCC 29315] gi|291307822|gb|EFE49065.1| hypothetical protein NEIELOOT_02076 [Neisseria elongata subsp. glycolytica ATCC 29315] Length = 245 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 74/244 (30%), Positives = 115/244 (47%), Gaps = 26/244 (10%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRK 69 P R+SK +A + SRRE + I Q VKVNG + AV V +D IE+ Sbjct: 6 PVRLSKRMAELKLCSRREADGYIEQGWVKVNG----QTAVLGQKVTPSDRIELAKQAHET 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTV--------FDN----LPSIFSR---VISVGRL 114 + L +KP+G V+ + D R+ V +D +P S + GRL Sbjct: 62 QAQRVTVLLNKPVGYVSGQPEKDYRAAVELITAENRWDGDTSRIPYRDSHKKGLAPAGRL 121 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +A+ L + + Y VR G++ ++ L LL G+ + G Sbjct: 122 DIDSVGLLVLTQDGRIAKQLIGGDSGIEKEYLVRVKGRLSEEGLRLLNYGLSLDGEKLRP 181 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +V + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 182 AKVEWQNED----QLRFILKQGKKRQIRRMCELVGLRVIGLKRIRMGQVKLGALPPGKWR 237 Query: 235 EVSK 238 + K Sbjct: 238 YLGK 241 >gi|219684864|ref|ZP_03539806.1| hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Borrelia garinii PBr] gi|219671809|gb|EED28864.1| hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Borrelia garinii PBr] Length = 249 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 67/225 (29%), Positives = 108/225 (48%), Gaps = 10/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-VPLRKAERT 73 RV +A G+ SRR E +I ++ ++VNG + + V D I + + K ++ Sbjct: 8 RVHVFLAEKGVGSRRFCEELIRKKLIRVNG-SIAKLGDKVSPGDRIIYKKQIYVFKGFQS 66 Query: 74 RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGG 129 + +Y +KP + ++ D +GR + +F R+ S+GRLD + GLLL TNDG Sbjct: 67 KNKIYLALNKPRNYLCSNFDVNGRKLAISLVQPLFKERIFSIGRLDFKSSGLLLFTNDGE 126 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P + R Y V +D++ L K GI ++ + ++ K S + Sbjct: 127 FANDIIHPRRKVEREYIVESKKDIDENLLISFKSGIKVKKEFF-KLKSYEILNKNSARLI 185 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 L EGKNREI+KVF N + ++ RI G L L G + Sbjct: 186 ---LDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDNLKEGQVK 227 >gi|332161503|ref|YP_004298080.1| 23S rRNA pseudouridine synthase F [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|325665733|gb|ADZ42377.1| 23S rRNA pseudouridine synthase F [Yersinia enterocolitica subsp. palearctica 105.5R(r)] Length = 290 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 64/226 (28%), Positives = 114/226 (50%), Gaps = 13/226 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K I+ +GI SRR+ +R + Q V +NG +RAAV V D ++V+G + + Sbjct: 8 RLNKYISESGICSRRDADRYVEQGNVFING---KRAAVGDQVYVGDVVKVNGQLIEPRDE 64 Query: 73 TRLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L L +KP+G+++T D G S + + RV +GRLD +++GL+ LTN G L Sbjct: 65 SDLILIALNKPVGIISTTED--GESDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + L G+ + G +V +K + + Sbjct: 123 VNKILRAGNDHEKEYVVTVNKPVTDEFILGLGAGVPMLGTVTKKCKV----RKEAPFVFS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + L +G NR+I+++ + F ++V +L R L L G R++ Sbjct: 179 ITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNVNLKGLPIGEWRDL 224 >gi|183599526|ref|ZP_02961019.1| hypothetical protein PROSTU_03005 [Providencia stuartii ATCC 25827] gi|188021773|gb|EDU59813.1| hypothetical protein PROSTU_03005 [Providencia stuartii ATCC 25827] Length = 234 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 60/234 (25%), Positives = 105/234 (44%), Gaps = 3/234 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +V V+ +++ AV V + +G L R Sbjct: 2 RLDKFLSQQLGISRSLVARELRAGKVTVDDEIVKSGAVQVSPEQVVAYEGSVLVHVTGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ HKP G V + DP + ++ + ++ S GRLDI+T GL+LLT+DG + + Sbjct: 62 YFMLHKPQGYVCSTDDPAHPTILYFIDEPLADKLHSAGRLDIDTTGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + YRV + D +G+++ G Y L+ +T+ Sbjct: 122 TSPKHHCEKTYRVELENDIADDVAKRFAEGVMLNGEKYPTKPAQLEVISPKEVLLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGP 247 EG+ ++K++F V L R G L LA G RE+++ + + P Sbjct: 180 EGRYHQVKRMFAAVGNHVCGLHRERIGDIWLDDDLAPGEYRELTEDEINSVIVP 233 >gi|331268777|ref|YP_004395269.1| pseudouridine synthase [Clostridium botulinum BKT015925] gi|329125327|gb|AEB75272.1| pseudouridine synthase [Clostridium botulinum BKT015925] Length = 226 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 61/205 (29%), Positives = 105/205 (51%), Gaps = 10/205 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+++ GI SR+E R+I + R+ VNG + V D I +D P++K E+ Sbjct: 2 RINKLLSNYGICSRKEANRIIEENRIIVNGEVCIPGQW-VEEYDEILMDNEPIKKKEKIY 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP+G+ T + + + F N P + VGRLD ++EGL+L+TNDG L+ Sbjct: 61 IAL-NKPVGITCTAAREVKDNIIDFLNYPE---YIFPVGRLDKDSEGLILMTNDGELSNK 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + Q + Y V D + + +G+ + G VT + +N + L Sbjct: 117 ILESENQHEKEYIVTVDKPFDDLFIKAMSEGVQLNGPKTRPCIVT----RINNDTFRIIL 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRI 218 +G NR+I+++ F + V +L RI Sbjct: 173 TQGLNRQIRRMTRAFGYTVIKLERI 197 >gi|317492524|ref|ZP_07950952.1| RNA pseudouridylate synthase [Enterobacteriaceae bacterium 9_2_54FAA] gi|316919516|gb|EFV40847.1| RNA pseudouridylate synthase [Enterobacteriaceae bacterium 9_2_54FAA] Length = 240 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 58/226 (25%), Positives = 108/226 (47%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR + R + +RV V+G +++ A + + DG L + R Sbjct: 2 RLDKFLSQQLGISRALIARELRAKRVTVDGEIVKSGAHKLTPEQEVAFDGQVLEQIHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ HKP G V + DPD + ++ + ++ + GRLD++T GL+LLT+DG + + Sbjct: 62 YFMLHKPEGYVCSTDDPDHSTILYFIDEPLAEKLHAAGRLDLDTTGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y V + D G+ + G TL+ Q +N V + + Sbjct: 122 TSPKHECDKTYLVTLEHPLADDTAEQFAHGVQLHGEKDLTKPATLE-QLDANV-VRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F +V L R G +L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNRVVELHRERIGAIELDEDLAPGEYRPLTEE 225 >gi|152969697|ref|YP_001334806.1| pseudouridine synthase [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|150954546|gb|ABR76576.1| pseudouridine synthase [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] Length = 206 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 51/175 (29%), Positives = 88/175 (50%), Gaps = 17/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GRST+ D +P + V + GRLD ++EGLL+LTNDG L L Sbjct: 33 LFNKPYDVLPQFTDEAGRSTLKDFIP--VAGVYAAGRLDRDSEGLLVLTNDGALQAKLTQ 90 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL--------DT 181 P + ++Y V+ G+ + L L+ G+ + G+ + V L + Sbjct: 91 PGKRTGKIYYVQVEGEPTPEALTALRDGVTLNDGPTLPAGVELVEEPVWLWPRNPPIRER 150 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + W+ + L EG+NR+++++ + RLIR + G + L L G R+ Sbjct: 151 KSIPTRWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGGYTLDGLANGDWRKA 205 >gi|16131848|ref|NP_418446.1| 23S rRNA U2604 pseudouridine synthase [Escherichia coli str. K-12 substr. MG1655] gi|89110743|ref|AP_004523.1| 23S rRNA pseudouridine synthase [Escherichia coli str. K-12 substr. W3110] gi|170083479|ref|YP_001732799.1| 23S rRNA pseudouridine synthase [Escherichia coli str. K-12 substr. DH10B] gi|194437171|ref|ZP_03069269.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 101-1] gi|238903075|ref|YP_002928871.1| 23S rRNA pseudouridine synthase [Escherichia coli BW2952] gi|253775354|ref|YP_003038185.1| 23S rRNA pseudouridine synthase F [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254037014|ref|ZP_04871091.1| ribosomal large subunit pseudouridine synthase F [Escherichia sp. 1_1_43] gi|254163958|ref|YP_003047066.1| 23S rRNA pseudouridine synthase F [Escherichia coli B str. REL606] gi|256024891|ref|ZP_05438756.1| 23S rRNA pseudouridine synthase F [Escherichia sp. 4_1_40B] gi|300929753|ref|ZP_07145207.1| conserved hypothetical protein [Escherichia coli MS 187-1] gi|300946586|ref|ZP_07160846.1| conserved hypothetical protein [Escherichia coli MS 116-1] gi|300957575|ref|ZP_07169780.1| hypothetical protein HMPREF9547_03329 [Escherichia coli MS 175-1] gi|301019105|ref|ZP_07183310.1| conserved hypothetical protein [Escherichia coli MS 196-1] gi|301645001|ref|ZP_07244966.1| conserved hypothetical protein [Escherichia coli MS 146-1] gi|418534|sp|P32684|RLUF_ECOLI RecName: Full=Ribosomal large subunit pseudouridine synthase F; AltName: Full=rRNA pseudouridylate synthase F; AltName: Full=rRNA-uridine isomerase F gi|228312012|pdb|3DH3|A Chain A, Crystal Structure Of Rluf In Complex With A 22 Nucleotide Rna Substrate gi|228312014|pdb|3DH3|B Chain B, Crystal Structure Of Rluf In Complex With A 22 Nucleotide Rna Substrate gi|228312016|pdb|3DH3|C Chain C, Crystal Structure Of Rluf In Complex With A 22 Nucleotide Rna Substrate gi|228312018|pdb|3DH3|D Chain D, Crystal Structure Of Rluf In Complex With A 22 Nucleotide Rna Substrate gi|396357|gb|AAC43116.1| ORF_o290a [Escherichia coli str. K-12 substr. MG1655] gi|1790453|gb|AAC76992.1| 23S rRNA U2604 pseudouridine synthase [Escherichia coli str. K-12 substr. MG1655] gi|85676774|dbj|BAE78024.1| 23S rRNA pseudouridine synthase [Escherichia coli str. K12 substr. W3110] gi|169891314|gb|ACB05021.1| 23S rRNA pseudouridine synthase [Escherichia coli str. K-12 substr. DH10B] gi|194423727|gb|EDX39716.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 101-1] gi|226840120|gb|EEH72122.1| ribosomal large subunit pseudouridine synthase F [Escherichia sp. 1_1_43] gi|238859759|gb|ACR61757.1| 23S rRNA pseudouridine synthase [Escherichia coli BW2952] gi|242379552|emb|CAQ34371.1| 23S rRNA pseudouridine 2604 synthase [Escherichia coli BL21(DE3)] gi|253326398|gb|ACT31000.1| pseudouridine synthase [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|253975859|gb|ACT41530.1| 23S rRNA pseudouridine synthase [Escherichia coli B str. REL606] gi|253980015|gb|ACT45685.1| 23S rRNA pseudouridine synthase [Escherichia coli BL21(DE3)] gi|260451153|gb|ACX41575.1| pseudouridine synthase [Escherichia coli DH1] gi|299882399|gb|EFI90610.1| conserved hypothetical protein [Escherichia coli MS 196-1] gi|300315689|gb|EFJ65473.1| hypothetical protein HMPREF9547_03329 [Escherichia coli MS 175-1] gi|300453742|gb|EFK17362.1| conserved hypothetical protein [Escherichia coli MS 116-1] gi|300462326|gb|EFK25819.1| conserved hypothetical protein [Escherichia coli MS 187-1] gi|301076689|gb|EFK91495.1| conserved hypothetical protein [Escherichia coli MS 146-1] gi|309704434|emb|CBJ03783.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli ETEC H10407] gi|315138575|dbj|BAJ45734.1| 23S rRNA pseudouridine synthase F [Escherichia coli DH1] gi|323935584|gb|EGB31911.1| RNA pseudouridylate synthase [Escherichia coli E1520] gi|323940200|gb|EGB36393.1| RNA pseudouridylate synthase [Escherichia coli E482] gi|323960493|gb|EGB56124.1| RNA pseudouridylate synthase [Escherichia coli H489] Length = 290 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 114/227 (50%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + ++ + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|332162312|ref|YP_004298889.1| 16S rRNA pseudouridylate synthase A [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|325666542|gb|ADZ43186.1| 16S rRNA pseudouridylate synthase A [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|330859689|emb|CBX70026.1| ribosomal small subunit pseudouridine synthase A [Yersinia enterocolitica W22703] Length = 235 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 58/238 (24%), Positives = 111/238 (46%), Gaps = 7/238 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQTVGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTVG 192 P + Y V + D G+ + + + +T Q V + Sbjct: 122 TSPRHHCEKTYLVTLEQPIADDTAQQFTDGVQL----HNEKSLTKPAQLEVIEPQLVRLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHL 249 + EG+ ++K++F +V L R G +L LA G R ++ + + PHL Sbjct: 178 ISEGRYHQVKRMFAAVGNRVLELHRERIGDIKLDDDLAPGEYRPLTPEEIASVGAPHL 235 >gi|119476174|ref|ZP_01616526.1| pseudouridine synthase family 1 protein [marine gamma proteobacterium HTCC2143] gi|119450801|gb|EAW32035.1| pseudouridine synthase family 1 protein [marine gamma proteobacterium HTCC2143] Length = 199 Score = 77.0 bits (188), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 46/175 (26%), Positives = 91/175 (52%), Gaps = 16/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L +KP +++ +D +GR+T+ D + ++ GRLD ++EGLLLLT++G + + Sbjct: 6 LLNKPFNVLSQFTDSEGRATLADFVTE--KKLYPAGRLDYDSEGLLLLTDNGTVQHRISH 63 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDM------------QVTLDTQK 183 P T+ + Y V+ G + + L+ G +++ G C M + + +K Sbjct: 64 PRTKMPKTYWVQVEGAPTEQDIEPLRVGAILKDGPCLPAMVELIPEPNIWKREPPIRARK 123 Query: 184 G-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ + + EG+NR+++++ + RLIR+ G + + TL G TR+++ Sbjct: 124 AIPTTWLQLVITEGRNRQVRRMTASLGFPTLRLIRVKIGEWSIDTLKPGETRQIT 178 >gi|306829140|ref|ZP_07462330.1| ribosomal small subunit pseudouridine synthase A [Streptococcus mitis ATCC 6249] gi|304428226|gb|EFM31316.1| ribosomal small subunit pseudouridine synthase A [Streptococcus mitis ATCC 6249] Length = 241 Score = 77.0 bits (188), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 63/220 (28%), Positives = 110/220 (50%), Gaps = 7/220 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A+ + SR+ +++ + ++ + V+ A NV + G ++ E Sbjct: 2 RLDRLLAQEKV-SRKAMKQALLKKEILVDDCPTSSLAQNVDTGLQKLVFQGRQIQGYEHI 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT D TV D +P ++ ++GRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPNGVVTASKDKK-LPTVMDLVPKNIQSGQLYAIGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + K+GIV + G Q+ + + + + + Sbjct: 119 FQLLHPQYHVDKSYQVVVNGPLTSDHIQKFKEGIVFLDGTTCKPAQLEILSSSPTESRAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + EGK ++KK+F KV L R+ +G F L LA Sbjct: 179 ITISEGKFHQVKKMFLSVGVKVTSLKRVQFGDFTLDPELA 218 >gi|327473408|gb|EGF18828.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK408] Length = 241 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 69/239 (28%), Positives = 119/239 (49%), Gaps = 22/239 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV--------MSTDHIEVDGVP 66 R+ +++A I SR+++++ + Q+++ V+G + + NV + H+ Sbjct: 2 RLGQLLAANHI-SRKKMKQSLLQKQIFVDGKPACKLSQNVDTGLQQITFQSKHVS----- 55 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLL 124 R ++ +KP G VT + D + + TV D L + + S+GRLD +TEGLLL+ Sbjct: 56 ---GPAHRYYMLNKPAGSVTANRDAE-KLTVLDLLDKEVEKENLYSIGRLDRDTEGLLLI 111 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQK 183 T++G L L P + Y V +G + + ++GI + G Q+++ + Sbjct: 112 TDNGPLGFQLLHPQYHVEKTYYVEVNGPLTPKDKSSFQEGIRFLDGTTCQPAQLSILSTN 171 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 S + TV + EGK +IKK+F KV L RI +G F L LA G R +++K L Sbjct: 172 SSLSCATVKISEGKFHQIKKMFLAVGVKVTYLKRIQFGDFTLDPDLATGDYRPLNQKEL 230 >gi|15924743|ref|NP_372277.1| 16S psudouridylate synthase [Staphylococcus aureus subsp. aureus Mu50] gi|15927330|ref|NP_374863.1| hypothetical protein SA1574 [Staphylococcus aureus subsp. aureus N315] gi|57652051|ref|YP_186636.1| pseudouridine synthase family 1 protein [Staphylococcus aureus subsp. aureus COL] gi|87160516|ref|YP_494393.1| pseudouridine synthase family 1 protein [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|88195567|ref|YP_500373.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus NCTC 8325] gi|148268231|ref|YP_001247174.1| pseudouridine synthase [Staphylococcus aureus subsp. aureus JH9] gi|150394299|ref|YP_001316974.1| pseudouridine synthase [Staphylococcus aureus subsp. aureus JH1] gi|151221858|ref|YP_001332680.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus str. Newman] gi|156980070|ref|YP_001442329.1| hypothetical protein SAHV_1739 [Staphylococcus aureus subsp. aureus Mu3] gi|161509971|ref|YP_001575630.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|221141491|ref|ZP_03565984.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus str. JKD6009] gi|253315873|ref|ZP_04839086.1| pseudouridine synthase family 1 protein [Staphylococcus aureus subsp. aureus str. CF-Marseille] gi|255006539|ref|ZP_05145140.2| pseudouridine synthase family 1 protein [Staphylococcus aureus subsp. aureus Mu50-omega] gi|257794136|ref|ZP_05643115.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9781] gi|258415840|ref|ZP_05682111.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9763] gi|258420669|ref|ZP_05683608.1| pseudouridine synthase, family 1 [Staphylococcus aureus A9719] gi|258438319|ref|ZP_05689603.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9299] gi|258443777|ref|ZP_05692116.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A8115] gi|258445988|ref|ZP_05694164.1| pseudouridylate synthase [Staphylococcus aureus A6300] gi|258448285|ref|ZP_05696412.1| pseudouridylate synthase [Staphylococcus aureus A6224] gi|258452304|ref|ZP_05700317.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A5948] gi|258454188|ref|ZP_05702159.1| pseudouridine synthase family 1 protein [Staphylococcus aureus A5937] gi|262049062|ref|ZP_06021940.1| hypothetical protein SAD30_2267 [Staphylococcus aureus D30] gi|262053064|ref|ZP_06025237.1| hypothetical protein SA930_1121 [Staphylococcus aureus 930918-3] gi|269203391|ref|YP_003282660.1| pseudouridine synthase family 1 protein [Staphylococcus aureus subsp. aureus ED98] gi|282893247|ref|ZP_06301481.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A8117] gi|282925640|ref|ZP_06333289.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9765] gi|282927882|ref|ZP_06335493.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A10102] gi|284024800|ref|ZP_06379198.1| pseudouridine synthase family 1 protein [Staphylococcus aureus subsp. aureus 132] gi|294849914|ref|ZP_06790653.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9754] gi|295406064|ref|ZP_06815872.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A8819] gi|296276053|ref|ZP_06858560.1| pseudouridine synthase family 1 protein [Staphylococcus aureus subsp. aureus MR1] gi|297245011|ref|ZP_06928888.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A8796] gi|304380652|ref|ZP_07363323.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|7328274|emb|CAB82472.1| hypothetical protein [Staphylococcus aureus subsp. aureus COL] gi|13701549|dbj|BAB42842.1| SA1574 [Staphylococcus aureus subsp. aureus N315] gi|14247525|dbj|BAB57915.1| similar to 16S psudouridylate synthase [Staphylococcus aureus subsp. aureus Mu50] gi|57286237|gb|AAW38331.1| pseudouridine synthase, family 1 [Staphylococcus aureus subsp. aureus COL] gi|87126490|gb|ABD21004.1| pseudouridine synthase, family 1 [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|87203125|gb|ABD30935.1| ribosomal small subunit pseudouridine synthase A, putative [Staphylococcus aureus subsp. aureus NCTC 8325] gi|147741300|gb|ABQ49598.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus JH9] gi|149946751|gb|ABR52687.1| pseudouridine synthase [Staphylococcus aureus subsp. aureus JH1] gi|150374658|dbj|BAF67918.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus str. Newman] gi|156722205|dbj|BAF78622.1| hypothetical protein [Staphylococcus aureus subsp. aureus Mu3] gi|160368780|gb|ABX29751.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|257788108|gb|EEV26448.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9781] gi|257839433|gb|EEV63906.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9763] gi|257843273|gb|EEV67683.1| pseudouridine synthase, family 1 [Staphylococcus aureus A9719] gi|257848363|gb|EEV72354.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9299] gi|257851183|gb|EEV75126.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A8115] gi|257855230|gb|EEV78169.1| pseudouridylate synthase [Staphylococcus aureus A6300] gi|257858524|gb|EEV81400.1| pseudouridylate synthase [Staphylococcus aureus A6224] gi|257860029|gb|EEV82864.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A5948] gi|257863640|gb|EEV86397.1| pseudouridine synthase family 1 protein [Staphylococcus aureus A5937] gi|259159041|gb|EEW44112.1| hypothetical protein SA930_1121 [Staphylococcus aureus 930918-3] gi|259162879|gb|EEW47443.1| hypothetical protein SAD30_2267 [Staphylococcus aureus D30] gi|262075681|gb|ACY11654.1| pseudouridine synthase family 1 protein [Staphylococcus aureus subsp. aureus ED98] gi|269941231|emb|CBI49619.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus TW20] gi|282590392|gb|EFB95471.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A10102] gi|282592420|gb|EFB97434.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9765] gi|282764565|gb|EFC04691.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A8117] gi|285817435|gb|ADC37922.1| 16S pseudouridine synthase A [Staphylococcus aureus 04-02981] gi|294823253|gb|EFG39683.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9754] gi|294969061|gb|EFG45082.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A8819] gi|297178091|gb|EFH37339.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A8796] gi|302751580|gb|ADL65757.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus str. JKD6008] gi|304340759|gb|EFM06688.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|312830131|emb|CBX34973.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus ECT-R 2] gi|315130607|gb|EFT86593.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus CGS03] gi|315197223|gb|EFU27562.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus CGS01] gi|320140780|gb|EFW32631.1| hypothetical protein HMPREF9528_00946 [Staphylococcus aureus subsp. aureus MRSA131] gi|320143781|gb|EFW35555.1| hypothetical protein HMPREF9529_00791 [Staphylococcus aureus subsp. aureus MRSA177] gi|329314428|gb|AEB88841.1| Pseudouridine synthase [Staphylococcus aureus subsp. aureus T0131] gi|329726944|gb|EGG63401.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus 21189] gi|329727428|gb|EGG63884.1| putative 16S pseudouridylate 516 synthase [Staphylococcus aureus subsp. aureus 21172] Length = 231 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 63/224 (28%), Positives = 106/224 (47%), Gaps = 11/224 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 2 RIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKITVRGELIEYIENV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G ++ D + TV D +P + VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPKGYISATEDHHSK-TVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + +D + K+G+ + G + +D Q V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLTDGKVKPAILTYIDNQTSH-----V 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 + EGK ++K++F +V L RI +L + L +G R Sbjct: 175 TIYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYR 218 >gi|289669952|ref|ZP_06491027.1| pseudouridylate synthase [Xanthomonas campestris pv. musacearum NCPPB4381] Length = 190 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 54/176 (30%), Positives = 89/176 (50%), Gaps = 21/176 (11%) Query: 77 LYHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+++ SD P R+ LP V + GRLD ++EGLLLLT+DG LA Sbjct: 4 LLNKPYGVLSQFSDRSQPPKRTLAEFGLPP---DVYAAGRLDHDSEGLLLLTDDGALAHR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDT----------- 181 L P + + Y V+ G+ ++L L+ G+V+ QV +LD Sbjct: 61 LTDPRHKQPKTYWVQVEGEPQAEQLQALRDGVVLNDGPTLPAQVRSLDPVPQLWPRDPPV 120 Query: 182 ---QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ + + EG+NR+++++ RL+R++ G ++L TL G R Sbjct: 121 RVRKTVPDAWLELQITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDTLAPGQWR 176 >gi|323691878|ref|ZP_08106132.1| hypothetical protein HMPREF9475_00994 [Clostridium symbiosum WAL-14673] gi|323504085|gb|EGB19893.1| hypothetical protein HMPREF9475_00994 [Clostridium symbiosum WAL-14673] Length = 244 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 63/226 (27%), Positives = 105/226 (46%), Gaps = 25/226 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A +R +V+ + + RV V+G + + + +DG P+ A R Sbjct: 6 RLDKFLAEMKKGTRSQVKEAVRKGRVTVDGAVCRSSDFKFDPEVSGVCMDGEPVSYA-RM 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRV--------ISVGRLDINTEGLLLL 124 ++ +KP G+V S DNL P++ S + VGRLDI+TEGLLL+ Sbjct: 65 EYFMLNKPQGVV---------SATEDNLHPTVISLIGDAKRKDLFPVGRLDIDTEGLLLI 115 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDT 181 TNDG LA L P +VY + G + +D + GI + + ++ + Sbjct: 116 TNDGKLAHELLSPKKHVDKVYFAKVKGTLREDIVQAFAGGITLADQTTVLPAELLIESSY 175 Query: 182 QKGSN--AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ + + EGK ++K++FE +V L R+S GP L Sbjct: 176 EEAGEPVCEARLTIHEGKFHQVKRMFEAAGGQVVFLKRLSMGPLTL 221 >gi|283833487|ref|ZP_06353228.1| ribosomal large subunit pseudouridine synthase E [Citrobacter youngae ATCC 29220] gi|291071148|gb|EFE09257.1| ribosomal large subunit pseudouridine synthase E [Citrobacter youngae ATCC 29220] Length = 205 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 51/178 (28%), Positives = 88/178 (49%), Gaps = 17/178 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P + + GRLD ++EGLL+LTNDG L Sbjct: 30 RVVLFNKPYDVLPQFTDEAGRKTLKDFIP--VPGIYAAGRLDRDSEGLLVLTNDGALQAR 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL------- 179 L P + ++Y V+ G+ + L L+ G+ + G+ + L Sbjct: 88 LTQPGKRTGKIYYVQVEGEPTPEALEALRTGVALNDGPTLPAGVEVVEEPAWLWPRNPPI 147 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + W+ V L EG+NR+++++ + RLIR + G + L L G RE+ Sbjct: 148 RERKNIPTRWLKVTLYEGRNRQVRRMTAHVGYPTLRLIRYAMGNYTLDNLANGEWREL 205 >gi|223043526|ref|ZP_03613571.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Staphylococcus capitis SK14] gi|222443014|gb|EEE49114.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Staphylococcus capitis SK14] Length = 230 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 66/225 (29%), Positives = 108/225 (48%), Gaps = 13/225 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + V+VN ++ + TD + VDG + + Sbjct: 2 RIDKFLANMGLGTRTEVKQLLKKGLVEVNEKKIKTPKSQIDPETDKVVVDGEEISYVDNV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 + L +KP ++ D + TV D +P FS + VGRLD +TEGLLLLTNDG Sbjct: 62 YMML-NKPKDYISATED-NAHQTVLDLIPE-FSHLGIFPVGRLDKDTEGLLLLTNDGQFN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKGSNAWVT 190 L P + Y V + Q + K G+ + D +V + KG++ Sbjct: 119 HELMSPKKHVSKTYEVISKYPIKQSDIEAFKLGVEL-----SDGKVKPAELIKGNDRLSY 173 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 V + EGK ++K++F +V L R+ +L TL +G R Sbjct: 174 VTIYEGKYHQVKRMFHSIENEVLELKRVKIANLELDETLNSGEYR 218 >gi|71910951|ref|YP_282501.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS5005] gi|139473571|ref|YP_001128287.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes str. Manfredo] gi|71853733|gb|AAZ51756.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS5005] gi|134271818|emb|CAM30052.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes str. Manfredo] Length = 238 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 66/231 (28%), Positives = 111/231 (48%), Gaps = 14/231 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ + SR +V+++I Q V V+ + NV IEV G + + + Sbjct: 2 RLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQRVTHPKHS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLLLTND 127 + L +KP G+V+ D + TV D L P ++ VGRLD +TEGL+LLT++ Sbjct: 62 YIIL-NKPSGVVSAKKDTN-YLTVIDQLAEEDKSPDLYP----VGRLDRDTEGLVLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G L + PS + Y V +G + +D + GI G Q+T+ Sbjct: 116 GPLGFRMLHPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQ 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + ++ + EGK ++KK+F + KV L R + +LG L +G R ++ Sbjct: 176 SQASLTISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLT 226 >gi|327394528|dbj|BAK11950.1| ribosomal small subunit pseudouridine synthase A RsuA [Pantoea ananatis AJ13355] Length = 239 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 60/215 (27%), Positives = 95/215 (44%), Gaps = 2/215 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I++ SR R I QRV VNG ++ A + +E DG L+ R Sbjct: 2 RLDKFISQQLEISRAIAAREIRGQRVTVNGDVVRDTAFKLQPDHEVEYDGNVLQMQTGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + V+ + ++ + GRLDI+T GL+LLT+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTIVYFIEEPMAFKLHAAGRLDIDTTGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + YRV V D G+ + L+ + +T L Sbjct: 122 TSPRHHCEKTYRVTLEAPVSDDTAAQFSAGVQLHNEKSLTKPAQLEVITPTEVLLT--LS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 EG+ ++K++F +V L R G L L Sbjct: 180 EGRYHQVKRMFAAVGNRVVGLHRERIGEIVLDEAL 214 >gi|145630872|ref|ZP_01786649.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae R3021] gi|260582948|ref|ZP_05850732.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae NT127] gi|144983532|gb|EDJ91000.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae R3021] gi|260094048|gb|EEW77952.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae NT127] Length = 232 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 57/208 (27%), Positives = 100/208 (48%), Gaps = 4/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E + Sbjct: 2 RLDKFIAENTGLTRSQATKAIRQSAVKINGEIVKSGAVQISQEDEIYFEDQLLTWVEEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V ++ D D + F + P + ++ S GRLD++T GL+LLT+DG + Sbjct: 62 YFMLNKPQGCVCSNDDGDYPTIYQFFDYP-LAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+++ +GI+++G L+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYATACAEGILLRGEKEPTKPAKLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 EG+ ++K++F KV L R G Sbjct: 179 SEGRYHQVKRMFAALGNKVVGLHRWKIG 206 >gi|254496292|ref|ZP_05109179.1| pseudouridine synthase [Legionella drancourtii LLAP12] gi|254354480|gb|EET13128.1| pseudouridine synthase [Legionella drancourtii LLAP12] Length = 240 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 54/178 (30%), Positives = 83/178 (46%), Gaps = 20/178 (11%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L L++KP +V + T+ F + P ++ GRLD N+EGLLLLTNDG L Sbjct: 53 SELILFNKPFAVVCQFTGEKHEHTLAEFIDKPDFYA----AGRLDKNSEGLLLLTNDGAL 108 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------ 184 L P + Y V+ G L LKKG+V++ I + +V + Sbjct: 109 QHQLTHPKFNKKKYYWVQVEGIPTAADLEPLKKGLVLKDITFLPAEVRCIEEPALWPRTP 168 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + LREGKN +++++ + RL+R G +QLG L G R Sbjct: 169 PVRFRQSIPTSWLEIILREGKNHQVRRMTAAMGFPTLRLVRHRIGDWQLGDLQPGEFR 226 >gi|238761999|ref|ZP_04622972.1| Ribosomal small subunit pseudouridine synthase A [Yersinia kristensenii ATCC 33638] gi|238699727|gb|EEP92471.1| Ribosomal small subunit pseudouridine synthase A [Yersinia kristensenii ATCC 33638] Length = 246 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 59/238 (24%), Positives = 111/238 (46%), Gaps = 7/238 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ R Sbjct: 13 RLDKFLSQQLGVSRALVARELRAKRVTIDGEIVKSGAIKLTPEQDVRFDGNPLQQTVGPR 72 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 73 YFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 132 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTVG 192 P + Y V V D G+ + + + +T Q V + Sbjct: 133 TSPRHHCEKTYLVTLEHPVADDTAQQFTDGVQL----HNEKSLTKPAQLEVIEPQLVRLT 188 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHL 249 + EG+ ++K++F +V L R G +L LA G R ++ + + PHL Sbjct: 189 ISEGRYHQVKRMFGAVGNRVLELHRERIGDIKLDDDLAPGEYRPLTAEEIASVGAPHL 246 >gi|331266782|ref|YP_004326412.1| ribosomal small subunit pseudouridine synthase A [Streptococcus oralis Uo5] gi|326683454|emb|CBZ01072.1| ribosomal small subunit pseudouridine synthase A [Streptococcus oralis Uo5] Length = 241 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 62/215 (28%), Positives = 108/215 (50%), Gaps = 7/215 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A+ + SR+ +++ + ++ + V+ + NV + G ++ E T Sbjct: 2 RLDRLLAQEKV-SRKAMKQALLKKEILVDNCPASSLSQNVDTGLQKLVFQGRQIQGYEHT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT D TV D LP ++ +VGRLD +T GLLLLT++G L Sbjct: 61 YLLL-HKPNGVVTASKD-KKLPTVMDLLPPDIKSYQLYAVGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y++ +G + + + K GIV + G Q+ + + + + + Sbjct: 119 FQLLHPQYHVDKSYQMVVNGPLTSEHIQKFKDGIVFLDGTTCKPAQLEILSSSPTESHAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK +IKK+F KV L R+ +G F L Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTSLKRVQFGDFTL 213 >gi|301155121|emb|CBW14585.1| 23S rRNA pseudouridine synthase [Haemophilus parainfluenzae T3T1] Length = 228 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 51/189 (26%), Positives = 99/189 (52%), Gaps = 21/189 (11%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E+T + L++KP ++T +D +GR+T+ F +P++++ GRLD ++EGLL+LTN+G Sbjct: 32 EQTIVILFNKPFDVLTQFTDENGRATLKDFITIPNVYA----AGRLDRDSEGLLILTNNG 87 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--------- 179 + L P + + Y V+ G ++ L+ L+KG+ ++ +V L Sbjct: 88 EVQHRLADPKFKTEKTYFVQVEGIPEETDLDKLRKGVELKDGMTKPAKVRLISEPDFLWP 147 Query: 180 ------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + Q + +W+ + + EG+NR+++++ + RLIR L L G Sbjct: 148 RNPPIRERQSITTSWLEIKISEGRNRQVRRMTAHIGFPTLRLIRYQMSHLTLDGLGNGEY 207 Query: 234 REVSKKILR 242 R ++K+ +R Sbjct: 208 RCLNKEEMR 216 >gi|251779869|ref|ZP_04822789.1| RNA pseudouridine synthase family protein [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|243084184|gb|EES50074.1| RNA pseudouridine synthase family protein [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 254 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 68/250 (27%), Positives = 112/250 (44%), Gaps = 29/250 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A + + R+ V I VKVNG ++ ++N+ D +E G + + Sbjct: 2 RLDKFLAESAVGRRKIVRTYIKDGMVKVNGKIITEPSININEKLDDVEYLGKKVIHNGKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++++KP G +T D + TVFD + V VGRLD +TEGLLLLTNDG Sbjct: 62 -YYIFNKPAGCITATRD-NIHKTVFDYFDEDMNGVFHVGRLDKDTEGLLLLTNDGEFEHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---------------QGICYGDMQVT 178 + P + Y G +D + L+ GI I + Y + + Sbjct: 120 VMYPEKHVEKTYFFWALGSLDDEDKKQLEAGIFIGNNESLTKPAKIDLYKSGLYKEFKEE 179 Query: 179 L--------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLL 229 + D Q + ++T+ EG+ ++K++ + V L RIS G +L +L Sbjct: 180 IPIKNLENKDHQPVVSGYLTIS--EGQKHQVKRMLKAVGCYVIYLKRISIGGLKLDESLK 237 Query: 230 AGSTREVSKK 239 G R ++KK Sbjct: 238 MGDYRNLTKK 247 >gi|222529211|ref|YP_002573093.1| pseudouridine synthase [Caldicellulosiruptor bescii DSM 6725] gi|222456058|gb|ACM60320.1| pseudouridine synthase [Caldicellulosiruptor bescii DSM 6725] Length = 233 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 65/218 (29%), Positives = 110/218 (50%), Gaps = 16/218 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K + G SR +V+++I + V VNG + + D IEVDG + +++ Sbjct: 2 RLDKFLTHCGFGSRSQVKKLIREGIVTVNGKQIVEVDFKINPEEDIIEVDGRVAKFSKQI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVF----DNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + +KP G V ++ + TVF D+L + + +VGRLD + EGLL++T+DG Sbjct: 62 YIMM-NKPKGYVCSNEEL-ASLTVFSLISDDLK--YRDLHTVGRLDKDAEGLLIITDDGE 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNA 187 + P + + Y VR +VD++KLN + GI++ D TL + + Sbjct: 118 YTHRVISPKKRIEKEYLVRLEKEVDEEKLNEFENGIILD-----DGYKTLPAKYTIIDST 172 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + + EGK ++K++FE KV L R+ G L Sbjct: 173 TVKLCIYEGKYHQVKRMFEAIGNKVVDLKRLRIGGLNL 210 >gi|330950091|gb|EGH50351.1| pseudouridine synthase, Rsu [Pseudomonas syringae Cit 7] Length = 230 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 61/214 (28%), Positives = 102/214 (47%), Gaps = 8/214 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R++V +A RV+V+G V + +D L+ + R Sbjct: 2 RLDRFLSNLPRFNRQQVRLALASGRVQVDGQATRDPHHEVREFSCVALDEEILQAGKAAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ SD TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPEGCVSATSDAQ-HPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ +G+ + I Q+TL + + + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAAKFAEGLYFAFENITTQPAQLTLLGPRSAR----L 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + EG+ ++K++F F+ KV RL R + G L Sbjct: 177 SIVEGRYHQVKRMFGHFDNKVLRLHRENIGALAL 210 >gi|126664623|ref|ZP_01735607.1| 16S rRNA pseudouridylate 516 synthase [Marinobacter sp. ELB17] gi|126630949|gb|EBA01563.1| 16S rRNA pseudouridylate 516 synthase [Marinobacter sp. ELB17] Length = 230 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 63/226 (27%), Positives = 105/226 (46%), Gaps = 21/226 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + IA + SR+E +R IA V+VNG + + +A V + + + G L R Sbjct: 2 RLDQFIATSSELSRKEAKRAIAAGDVQVNGDVWKNSATAVPANAEVMLQG-ELVALPAER 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 + +KP G ++ D D + T D LP+ +R + + GRLD +T GLLLLT+DG + Sbjct: 61 YLMLNKPAGFISATRDSD-QPTALDLLPAELTRNLHIAGRLDADTTGLLLLTSDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV-- 191 + P + + Y+V + Q + L+ G++++ DT+ A VTV Sbjct: 120 VTSPRVECPKTYQVALSVPISQAAIAALETGVMLRN----------DTKPTKPAQVTVLQ 169 Query: 192 ------GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + EG+ ++K++ V L R G L LA Sbjct: 170 SQLVELTISEGRYHQVKRMLAAVGNHVTALHRSRIGGVTLDPALAA 215 >gi|182417073|ref|ZP_02948451.1| RNA pseudouridine synthase family protein [Clostridium butyricum 5521] gi|237667148|ref|ZP_04527132.1| RNA pseudouridine synthase family protein [Clostridium butyricum E4 str. BoNT E BL5262] gi|182379082|gb|EDT76586.1| RNA pseudouridine synthase family protein [Clostridium butyricum 5521] gi|237655496|gb|EEP53052.1| RNA pseudouridine synthase family protein [Clostridium butyricum E4 str. BoNT E BL5262] Length = 258 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 67/251 (26%), Positives = 113/251 (45%), Gaps = 28/251 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A++ I +R+ V + + VK+NGI + AAV + + I + + + Sbjct: 2 RLDKFLAQSQIGTRKIVRQYVKDGLVKINGITIFEAAVEINEIEDIIEYNGQITEYKEKV 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++++KP G +T D D + TVFD I V VGRLD +TEGLLL TNDG Sbjct: 62 YYMFNKPSGCITARKDADDK-TVFDYFKEINMDGVFHVGRLDKDTEGLLLFTNDGDFNNK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---------------QGICYGDMQVT 178 L P + Y G +D+ L+ G+ I + Y +++ Sbjct: 121 LMSPKFHVDKKYFFIALGSIDEKNKKNLESGVSIGENEPITKPAKIENLKNGTYEELKDK 180 Query: 179 LDTQK----GSNAWVT------VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 L+ +K S ++ + + EG+ ++K++ + V L R+S G L Sbjct: 181 LNLKKYYHVNSEYYIQPVVCGHITISEGRRHQVKRMLKSIGCHVIYLKRMSIGNLALDEF 240 Query: 229 L-AGSTREVSK 238 L G R ++K Sbjct: 241 LKKGDYRSLTK 251 >gi|323352745|ref|ZP_08087715.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis VMC66] gi|322121781|gb|EFX93527.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis VMC66] Length = 241 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 75/240 (31%), Positives = 127/240 (52%), Gaps = 13/240 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A A SR+++++++ Q+++ V+G + + NV I G + Sbjct: 2 RLDQLLA-ANHISRKKMKQILLQKQILVDGNPACKLSQNVDTGLQQITFQGKHVSGPAH- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP G VT + D + + TV D L + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANRDAE-KLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWV 189 L P + Y V +G + QDK+ ++GI + G Q+++ + S + Sbjct: 119 FQLLHPQYHVEKTYYVEVNGPLTSQDKIT-FQEGIRFLDGTVCQPAQLSILSTSSSLSRA 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK---ILREQL 245 TV + EGK +IKK+F KV L RI +G F L LA G R +++K I++E L Sbjct: 178 TVKISEGKFHQIKKMFLAVGVKVTYLKRIQFGDFTLDPDLAKGDYRALNQKELEIIKEYL 237 >gi|150392376|ref|YP_001322425.1| RNA-binding S4 domain-containing protein [Alkaliphilus metalliredigens QYMF] gi|149952238|gb|ABR50766.1| RNA-binding S4 domain protein [Alkaliphilus metalliredigens QYMF] Length = 235 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 60/232 (25%), Positives = 111/232 (47%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++ I+ G SRRE + +I Q++V VNG + V D + + G PL+ Sbjct: 2 RLNNFISSTGKCSRREADELIKQKKVTVNG-KIATLGCKVDPGDQVMLKGKPLQAKNNDV 60 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ TT G F N P R+ +GRLD ++EGL+LLTNDG + Sbjct: 61 YIALNKPVGITCTTERHIRGNIIDFINHPE---RIFPIGRLDKDSEGLILLTNDGSIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + + + Y V + ++ + + KG+ I +T + + ++ + Sbjct: 118 ILAEENKHEKDYIVTVNKKITPSFIEGMSKGVKIYNPVKNKDTMTKRCKLVRINDRTFKI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 L +G NR+I+++ F ++V +L R+ L L G R ++++ +++ Sbjct: 178 TLCQGLNRQIRRMCTHFGYRVVKLKRVRIMNLTLKDLTIGKWRNLTEEEVKD 229 >gi|117623320|ref|YP_852233.1| 23S rRNA pseudouridine synthase E [Escherichia coli APEC O1] gi|218558017|ref|YP_002390930.1| 23S rRNA pseudouridine synthase E [Escherichia coli S88] gi|218689088|ref|YP_002397300.1| 23S rRNA pseudouridine synthase E [Escherichia coli ED1a] gi|227886508|ref|ZP_04004313.1| 23S rRNA pseudouridine synthase E [Escherichia coli 83972] gi|237706879|ref|ZP_04537360.1| ribosomal large subunit pseudouridine synthase E [Escherichia sp. 3_2_53FAA] gi|300975601|ref|ZP_07173080.1| conserved hypothetical protein [Escherichia coli MS 45-1] gi|301051075|ref|ZP_07197909.1| conserved hypothetical protein [Escherichia coli MS 185-1] gi|34098556|sp|Q8FIB6|RLUE_ECOL6 RecName: Full=Ribosomal large subunit pseudouridine synthase E; AltName: Full=rRNA pseudouridylate synthase E; AltName: Full=rRNA-uridine isomerase E gi|91071865|gb|ABE06746.1| 23S rRNA pseudouridine synthase [Escherichia coli UTI89] gi|115512444|gb|ABJ00519.1| 23S rRNA pseudouridine synthase [Escherichia coli APEC O1] gi|218364786|emb|CAR02476.1| 23S rRNA pseudouridine synthase [Escherichia coli S88] gi|218426652|emb|CAR07480.1| 23S rRNA pseudouridine synthase [Escherichia coli ED1a] gi|226898089|gb|EEH84348.1| ribosomal large subunit pseudouridine synthase E [Escherichia sp. 3_2_53FAA] gi|227836712|gb|EEJ47178.1| 23S rRNA pseudouridine synthase E [Escherichia coli 83972] gi|294491737|gb|ADE90493.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli IHE3034] gi|300297247|gb|EFJ53632.1| conserved hypothetical protein [Escherichia coli MS 185-1] gi|300410264|gb|EFJ93802.1| conserved hypothetical protein [Escherichia coli MS 45-1] gi|307553136|gb|ADN45911.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli ABU 83972] gi|307627393|gb|ADN71697.1| 23S rRNA pseudouridine synthase E [Escherichia coli UM146] gi|315287468|gb|EFU46879.1| conserved hypothetical protein [Escherichia coli MS 110-3] gi|315293097|gb|EFU52449.1| conserved hypothetical protein [Escherichia coli MS 153-1] gi|323953178|gb|EGB49044.1| RNA pseudouridylate synthase [Escherichia coli H252] gi|323957961|gb|EGB53673.1| RNA pseudouridylate synthase [Escherichia coli H263] Length = 217 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 50/180 (27%), Positives = 86/180 (47%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 L P + ++Y V+ G QD L L+ G+ + L + Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPAWLWPRNPP 156 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR + G + L L G R+ + Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWRDAT 216 >gi|303249716|ref|ZP_07335920.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|307251902|ref|ZP_07533803.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|302651283|gb|EFL81435.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|306860594|gb|EFM92606.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 6 str. Femo] Length = 230 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 62/227 (27%), Positives = 107/227 (47%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + R + V VNG L + +V + TD I +G L + + Sbjct: 2 RLDKFIAENTGLTRSQAARALKSGLVTVNGKLEKSGSVKIGDTDEICYEGERLEWVDEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V +H D + TVF + +++ + GRLD++T GL+LLT+DG + Sbjct: 62 YFMLYKPQGYVCSHDDGE-YPTVFQFFGYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ L +GI+++G + ++ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYAKKLAEGILLRGEREPCLPAKMEVIDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EG+ ++K++F KV L R G L L G R +S++ Sbjct: 179 SEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDENLEEGEYRPLSEQ 225 >gi|281178245|dbj|BAI54575.1| conserved hypothetical protein [Escherichia coli SE15] Length = 217 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 50/180 (27%), Positives = 86/180 (47%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 L P + ++Y V+ G QD L L+ G+ + L + Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPAWLWPRNPP 156 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR + G + L L G R+ + Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWRDAT 216 >gi|114563429|ref|YP_750942.1| pseudouridine synthase, Rsu [Shewanella frigidimarina NCIMB 400] gi|114334722|gb|ABI72104.1| ribosomal large subunit pseudouridine synthase E [Shewanella frigidimarina NCIMB 400] Length = 235 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 50/175 (28%), Positives = 85/175 (48%), Gaps = 16/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P + V + GRLD ++EGLLLLTNDG L L Sbjct: 60 LFNKPFDVLCQFTDEAGRQTLKDFIP--VADVYAAGRLDRDSEGLLLLTNDGQLQAKLTQ 117 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-------IC-------YGDMQVTLDTQ 182 PS + + Y V+ G+ + +N L G+ ++ +C + + + Sbjct: 118 PSQKTFKTYWVQVEGEPSDEAINALCNGVGLKDGMTLPAKVCVMASPDIWPRTPPVRERK 177 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ V + EG+NR+++++ RLIR G + L L G + +S Sbjct: 178 AIPTTWLEVQICEGRNRQVRRMTAHVGHPTLRLIRYKIGQWCLDDLPNGEYKVIS 232 >gi|46143798|ref|ZP_00204573.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|126207838|ref|YP_001053063.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae L20] gi|126096630|gb|ABN73458.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 5b str. L20] Length = 230 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 61/227 (26%), Positives = 107/227 (47%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + R + V +NG L + +V + TD I +G L + + Sbjct: 2 RLDKFIAENTGLTRSQAARALKSGLVTINGKLEKSGSVKIGDTDEICYEGERLEWVDEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V +H D + TVF + +++ + GRLD++T GL+LLT+DG + Sbjct: 62 YFMLYKPQGYVCSHDDGE-YPTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ L +GI+++G + ++ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYAKKLAEGILLRGEREPCLPAKMEVIDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EG+ ++K++F KV L R G L L G R +S++ Sbjct: 179 SEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDENLEEGEYRPLSEQ 225 >gi|186681253|ref|YP_001864449.1| pseudouridine synthase [Nostoc punctiforme PCC 73102] gi|186463705|gb|ACC79506.1| pseudouridine synthase [Nostoc punctiforme PCC 73102] Length = 192 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 57/187 (30%), Positives = 93/187 (49%), Gaps = 22/187 (11%) Query: 74 RLWLYHKPIGLVTTHS-DPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R +++KP G+++ + D ST+ D ++P ++ VGRLD ++EGLLLLTNDG L Sbjct: 6 RYIIFYKPYGVLSQFTKDAPTHSTLKDYIDVPDVYP----VGRLDWDSEGLLLLTNDGQL 61 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS----- 185 L P R Y V+ D+D + L+ G+ IQ QV L +++ Sbjct: 62 QHRLAHPRFGHKRTYWVQVERIPDEDAIKRLQTGVKIQDYRTQPAQVRLLSKEPELPERT 121 Query: 186 ----------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 AW+ + L EGKNR+++++ + RL+R+S QL L G R+ Sbjct: 122 PPIRFRKNVPTAWLEMTLTEGKNRQVRRMTAAVGFPTLRLVRVSIAHLQLDDLQLGEWRD 181 Query: 236 VSKKILR 242 ++ L+ Sbjct: 182 LTTSELQ 188 >gi|82751342|ref|YP_417083.1| 16S RNA pseudouridylate synthase [Staphylococcus aureus RF122] gi|82656873|emb|CAI81302.1| 16S RNA pseudouridylate synthase [Staphylococcus aureus RF122] Length = 231 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 63/224 (28%), Positives = 106/224 (47%), Gaps = 11/224 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 2 RIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDMISVRGELIEYVENV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G ++ D + TV D +P + VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPKGYISGTEDHHSK-TVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + +D + K+G+ + G + +D Q V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLSDGKVKPAILTYIDNQTSH-----V 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 + EGK ++K++F +V L RI +L + L +G R Sbjct: 175 TIYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYR 218 >gi|93005736|ref|YP_580173.1| 23S rRNA pseudouridine synthase F [Psychrobacter cryohalolentis K5] gi|92393414|gb|ABE74689.1| ribosomal large subunit pseudouridine synthase F [Psychrobacter cryohalolentis K5] Length = 328 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 64/236 (27%), Positives = 118/236 (50%), Gaps = 13/236 (5%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--V 65 N + R++K I+ +GI SRR+ +R I Q V +NG +RAAV V++ D ++V+G + Sbjct: 3 NASSTRLNKYISESGICSRRDADRFIEQGNVYLNG---KRAAVGDQVVAGDTVKVNGQLI 59 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 ++A+ + +KP+G+V+T + + V S+ R+ +GRLD +++GL+ LT Sbjct: 60 EPKEADDFVFIVLNKPVGIVSTTESSEKNNIVDFVRHSV--RIFPIGRLDKDSQGLIFLT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 ++G L + + Y V + + + L G+ + G M K + Sbjct: 118 SNGDLVNKVLRAGNNHEKEYLVTVNKPLTDSVIEGLAGGVPM----LGKMTKKCPVTKVA 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +G NR+I+++ E F ++V +L R L G R+++ K L Sbjct: 174 PNVFNITLVQGLNRQIRRMCEHFGYEVVKLERTRIMNVSLKGTPVGDWRDLTPKEL 229 >gi|262043150|ref|ZP_06016288.1| ribosomal large subunit pseudouridine synthase E [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|259039538|gb|EEW40671.1| ribosomal large subunit pseudouridine synthase E [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] Length = 216 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 51/176 (28%), Positives = 88/176 (50%), Gaps = 17/176 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GRST+ D +P + V + GRLD ++EGLL+LTNDG L L Sbjct: 43 LFNKPYDVLPQFTDEAGRSTLKDFIP--VAGVYAAGRLDRDSEGLLVLTNDGALQAKLTQ 100 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL--------DT 181 P + ++Y V+ G+ + L L+ G+ + G+ + V L + Sbjct: 101 PGKRTGKIYYVQVEGEPTPEALTALRDGVPLNDGPTLPAGVELVEEPVWLWPRNPPIRER 160 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + W+ + L EG+NR+++++ + RLIR + G + L L G R+ Sbjct: 161 KSIPTRWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGGYTLDGLANGDWRKAE 216 >gi|218551308|ref|YP_002385100.1| 23S rRNA pseudouridine synthase F [Escherichia fergusonii ATCC 35469] gi|218358850|emb|CAQ91507.1| 23S rRNA pseudouridine synthase [Escherichia fergusonii ATCC 35469] gi|325499580|gb|EGC97439.1| 23S rRNA pseudouridine synthase F [Escherichia fergusonii ECD227] Length = 290 Score = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRFIEQGNVFING---KRATIGDQVKPGDVVKVNGRLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|59800833|ref|YP_207545.1| hypothetical protein NGO0389 [Neisseria gonorrhoeae FA 1090] gi|194098126|ref|YP_002001174.1| RNA-binding protein [Neisseria gonorrhoeae NCCP11945] gi|239998582|ref|ZP_04718506.1| RNA-binding protein [Neisseria gonorrhoeae 35/02] gi|240016146|ref|ZP_04722686.1| RNA-binding protein [Neisseria gonorrhoeae FA6140] gi|240112500|ref|ZP_04726990.1| RNA-binding protein [Neisseria gonorrhoeae MS11] gi|240115241|ref|ZP_04729303.1| RNA-binding protein [Neisseria gonorrhoeae PID18] gi|240117527|ref|ZP_04731589.1| RNA-binding protein [Neisseria gonorrhoeae PID1] gi|240125333|ref|ZP_04738219.1| RNA-binding protein [Neisseria gonorrhoeae SK-92-679] gi|240127785|ref|ZP_04740446.1| RNA-binding protein [Neisseria gonorrhoeae SK-93-1035] gi|254493303|ref|ZP_05106474.1| RNA-binding protein [Neisseria gonorrhoeae 1291] gi|260440942|ref|ZP_05794758.1| RNA-binding protein [Neisseria gonorrhoeae DGI2] gi|268594441|ref|ZP_06128608.1| RNA-binding protein [Neisseria gonorrhoeae 35/02] gi|268598568|ref|ZP_06132735.1| RNA-binding protein [Neisseria gonorrhoeae MS11] gi|268600921|ref|ZP_06135088.1| RNA-binding protein [Neisseria gonorrhoeae PID18] gi|268603228|ref|ZP_06137395.1| RNA-binding protein [Neisseria gonorrhoeae PID1] gi|268683935|ref|ZP_06150797.1| RNA-binding protein [Neisseria gonorrhoeae SK-92-679] gi|268686179|ref|ZP_06153041.1| RNA-binding protein [Neisseria gonorrhoeae SK-93-1035] gi|291044269|ref|ZP_06569978.1| RNA-binding protein [Neisseria gonorrhoeae DGI2] gi|293399462|ref|ZP_06643615.1| ribosomal large subunit pseudouridine synthase F [Neisseria gonorrhoeae F62] gi|59717728|gb|AAW89133.1| conserved hypothetical protein [Neisseria gonorrhoeae FA 1090] gi|193933416|gb|ACF29240.1| RNA-binding protein [Neisseria gonorrhoeae NCCP11945] gi|226512343|gb|EEH61688.1| RNA-binding protein [Neisseria gonorrhoeae 1291] gi|268547830|gb|EEZ43248.1| RNA-binding protein [Neisseria gonorrhoeae 35/02] gi|268582699|gb|EEZ47375.1| RNA-binding protein [Neisseria gonorrhoeae MS11] gi|268585052|gb|EEZ49728.1| RNA-binding protein [Neisseria gonorrhoeae PID18] gi|268587359|gb|EEZ52035.1| RNA-binding protein [Neisseria gonorrhoeae PID1] gi|268624219|gb|EEZ56619.1| RNA-binding protein [Neisseria gonorrhoeae SK-92-679] gi|268626463|gb|EEZ58863.1| RNA-binding protein [Neisseria gonorrhoeae SK-93-1035] gi|291011163|gb|EFE03159.1| RNA-binding protein [Neisseria gonorrhoeae DGI2] gi|291610031|gb|EFF39153.1| ribosomal large subunit pseudouridine synthase F [Neisseria gonorrhoeae F62] gi|317163855|gb|ADV07396.1| hypothetical protein NGTW08_0424 [Neisseria gonorrhoeae TCDC-NG08107] Length = 252 Score = 76.6 bits (187), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 113/243 (46%), Gaps = 30/243 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q V VNG + AV V D IE++ + Sbjct: 15 RLSKRMAQLGLCSRREADGHIEQGWVTVNG----KTAVLGQKVSPADRIELNKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-----------------FDNLPSIFSRVISVGRL 114 L +KP+G V+ ++ +S FD P + GRL Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITPENCWEGDTSRISFD--PKHKIGLAPAGRL 128 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Sbjct: 129 DIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGDKLRP 188 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +V + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 189 AKVEWQNED----QLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPPGKWR 244 Query: 235 EVS 237 ++ Sbjct: 245 YLA 247 >gi|257455144|ref|ZP_05620382.1| ribosomal small subunit pseudouridine synthase A [Enhydrobacter aerosaccus SK60] gi|257447477|gb|EEV22482.1| ribosomal small subunit pseudouridine synthase A [Enhydrobacter aerosaccus SK60] Length = 234 Score = 76.6 bits (187), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 66/227 (29%), Positives = 111/227 (48%), Gaps = 11/227 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +++A SR++ ++++ V VNG +++ A++++ D IE G PL A Sbjct: 2 RLDKFLSKATELSRKDCKKILHAGEVTVNGEVVKDASLHIDEVGDDIEWAGEPLSVAMGN 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R L +KP G T P V D ++P + S I+ GRLD++T G LLL++DGG Sbjct: 62 RYLLLYKPEGFECTLK-PKEWPIVTDLIDVPQLGSLRIA-GRLDVDTTGALLLSDDGGFL 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDK----LNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 + P +VY + + + + + L KGI+++ L ++A Sbjct: 120 HRVTSPKHHVAKVYELTLADPMTEAQQAFAIKELAKGIMLEDEYDKTKPAELSFSDATHA 179 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGK ++K++ +F KV L R S G L L G +R Sbjct: 180 KLV--LTEGKYHQVKRMMGYFGNKVIELHRASIGNITLAGLEKGESR 224 >gi|254519947|ref|ZP_05132003.1| RNA pseudouridine synthase [Clostridium sp. 7_2_43FAA] gi|226913696|gb|EEH98897.1| RNA pseudouridine synthase [Clostridium sp. 7_2_43FAA] Length = 227 Score = 76.6 bits (187), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 63/228 (27%), Positives = 114/228 (50%), Gaps = 10/228 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+++ G SR+EV R I +R+ VNG L E+ V +D I +DG ++ E+ Sbjct: 2 RINKLLSNYGYCSRKEVSRWIEDKRIIVNGKLCEQGQW-VEESDEILLDGEKIKPKEKVY 60 Query: 75 LWLYHKPIGLVTTHS-DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP G+V T + + D F N V VGRLD +++GL+L+TNDG LA Sbjct: 61 IAL-NKPPGIVCTSAREIDNNIIDFLNYKD---YVFPVGRLDKDSQGLILMTNDGELANK 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V D+ + + G+ I G + ++ ++ L Sbjct: 117 ILSSDSYHEKEYIVTIDRDFDESFIEGMSNGVEI----LGTITRPCKLRRIDKNIFSIIL 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +G NR+I+++ + F + V +L RI + G + ++K+++ Sbjct: 173 TQGLNRQIRRMTKAFGYNVIKLERIRIMNIMSNDIELGQWKFINKEVI 220 >gi|156093633|ref|XP_001612855.1| pseudouridine synthetase [Plasmodium vivax SaI-1] gi|148801729|gb|EDL43128.1| pseudouridine synthetase, putative [Plasmodium vivax] Length = 327 Score = 76.6 bits (187), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 72/275 (26%), Positives = 120/275 (43%), Gaps = 69/275 (25%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDG--VPLRKAE 71 R++K+I+ SRR+ ++ I VK+N +++ ++ + D I++ G V + K + Sbjct: 23 RLNKIISLEKKMSRRKSDQFIKDGNVKLNNKIVKNPGTHIDVKKDKIKICGKTVNILKTQ 82 Query: 72 RT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTE 119 + + ++ HKP GL+ T D R++++ P R++SVGRLD NT Sbjct: 83 KMISPNDSSMYKWFVLHKPKGLLCTSDDEKERASIYSLFPQDILDNYRLVSVGRLDRNTS 142 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV---------------DQDKLNLLKKG 164 G+LLLTN+ L P Q +R YRV G D D+ +KKG Sbjct: 143 GVLLLTNEYAWVNKLTHPKYQRIRTYRVHIEGAAQMKVLRELAAGVYLPDDDRGGKVKKG 202 Query: 165 I-------------------VIQGICYG---DMQVTLDTQKG-----------------S 185 + V +GI G MQ TQ Sbjct: 203 MQKGMQKGMQKGMQKGMQKGVPKGIQKGFPTGMQKGFPTQPAFIEILRQETIKVKDQVKR 262 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 + + + +REG+NR+I+K+FE N V ++ R ++ Sbjct: 263 VSVLNISVREGRNRQIRKMFEQINQPVIKIKRTAF 297 >gi|49484000|ref|YP_041224.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus MRSA252] gi|257425866|ref|ZP_05602290.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus 55/2053] gi|257428533|ref|ZP_05604931.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus 65-1322] gi|257431166|ref|ZP_05607543.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus 68-397] gi|257433848|ref|ZP_05610206.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus E1410] gi|257436765|ref|ZP_05612809.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus M876] gi|282904328|ref|ZP_06312216.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus C160] gi|282906153|ref|ZP_06314008.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus Btn1260] gi|282909070|ref|ZP_06316888.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus WW2703/97] gi|282911378|ref|ZP_06319180.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus WBG10049] gi|282914547|ref|ZP_06322333.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus M899] gi|282919515|ref|ZP_06327250.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus C427] gi|282924893|ref|ZP_06332559.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus C101] gi|283958507|ref|ZP_06375958.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus A017934/97] gi|293503625|ref|ZP_06667472.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus 58-424] gi|293510641|ref|ZP_06669346.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus M809] gi|293537182|ref|ZP_06671862.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus M1015] gi|295428329|ref|ZP_06820958.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus EMRSA16] gi|297590707|ref|ZP_06949345.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus MN8] gi|49242129|emb|CAG40829.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus MRSA252] gi|257271560|gb|EEV03706.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus 55/2053] gi|257275374|gb|EEV06861.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus 65-1322] gi|257278114|gb|EEV08762.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus 68-397] gi|257281941|gb|EEV12078.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus E1410] gi|257284116|gb|EEV14239.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus M876] gi|282313259|gb|EFB43655.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus C101] gi|282317325|gb|EFB47699.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus C427] gi|282321728|gb|EFB52053.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus M899] gi|282325073|gb|EFB55383.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus WBG10049] gi|282327334|gb|EFB57629.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus WW2703/97] gi|282331445|gb|EFB60959.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus Btn1260] gi|282595946|gb|EFC00910.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus C160] gi|283790656|gb|EFC29473.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus A017934/97] gi|290920027|gb|EFD97095.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus M1015] gi|291095291|gb|EFE25556.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus 58-424] gi|291466532|gb|EFF09053.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus M809] gi|295127729|gb|EFG57366.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus EMRSA16] gi|297575593|gb|EFH94309.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus MN8] gi|312437790|gb|ADQ76861.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus TCH60] gi|315195667|gb|EFU26054.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus CGS00] Length = 231 Score = 76.6 bits (187), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 63/224 (28%), Positives = 106/224 (47%), Gaps = 11/224 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 2 RIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKISVRGELIEYVENV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G ++ D + TV D +P + VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPKGYISATEDHHSK-TVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + ++ + K+GI + G + +D Q V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEEDIQAFKEGITLSDGKVKPAILTYIDNQTSH-----V 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 + EGK ++K++F +V L RI +L + L +G R Sbjct: 175 TIYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYR 218 >gi|296157141|ref|ZP_06839977.1| pseudouridine synthase [Burkholderia sp. Ch1-1] gi|295892477|gb|EFG72259.1| pseudouridine synthase [Burkholderia sp. Ch1-1] Length = 236 Score = 76.6 bits (187), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 64/220 (29%), Positives = 98/220 (44%), Gaps = 9/220 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD---HIEVDGVPLRKAER 72 + ++ G SRR+ +IA RV + G + A + + D VDGV E Sbjct: 3 LESILFTQGFGSRRQCRALIADARVSIGGAVCTDADADFPTGDTTFSFTVDGVVWPYREH 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L L +KP G + DP +VF LP F+ V VGRLD +T GLLLL++DG Sbjct: 63 AYL-LLNKPAGYECS-RDPQHHLSVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGKF 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + +VY +D +L+ L G+++ G V ++ + +T Sbjct: 121 VHLFTSPKRKVPKVYVATTRHPIDDVQLSALHDGVLLHGESKPIAAVNVEARGDHTLALT 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V EGK ++K++ + L R G F L LA Sbjct: 181 V--MEGKYHQVKRMIAAAGNRCEALHRERIGGFALPGALA 218 >gi|113971332|ref|YP_735125.1| pseudouridine synthase, Rsu [Shewanella sp. MR-4] gi|113886016|gb|ABI40068.1| Pseudouridine synthase, Rsu [Shewanella sp. MR-4] Length = 241 Score = 76.6 bits (187), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 70/230 (30%), Positives = 109/230 (47%), Gaps = 12/230 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A R+ V ++ +RV V+G + + V HI DG L+ + Sbjct: 7 RLDRYLAVKLQIHRKAVRELLLAERVYVDGAPAKSLDLLVDEFSHIVFDGQVLQANQPVY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 L LY KP+G+V+ D + R TV D L + + + GRLD+N+ GLLLLTND + Sbjct: 67 LMLY-KPVGVVSATKDKEHR-TVIDLLDCDTRQELHIAGRLDLNSSGLLLLTNDSRWSEA 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK---GSNAWVT 190 L P + +VYRV + + + QG+ +G +T K + Sbjct: 125 LMSPEQKVDKVYRVTLANPLSDEYI-----AAFAQGMYFGFEDITTQPAKLVILAPHVAE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVSKK 239 V LREGK +IK++F F V L R+S G L L G +R ++ + Sbjct: 180 VTLREGKYHQIKRMFGRFRNPVLGLHRLSIGEITLDEALKPGESRMLTAQ 229 >gi|323484805|ref|ZP_08090162.1| pseudouridine synthase [Clostridium symbiosum WAL-14163] gi|323401911|gb|EGA94252.1| pseudouridine synthase [Clostridium symbiosum WAL-14163] Length = 244 Score = 76.6 bits (187), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 63/226 (27%), Positives = 105/226 (46%), Gaps = 25/226 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A +R +V+ + + RV V+G + + + +DG P+ A R Sbjct: 6 RLDKFLAEMKKGTRSQVKEAVRKGRVTVDGAVCRSSDFKFDPEVSGVCMDGEPVSYA-RM 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRV--------ISVGRLDINTEGLLLL 124 ++ +KP G+V S DNL P++ S + VGRLDI+TEGLLL+ Sbjct: 65 EYFMLNKPQGVV---------SATEDNLHPTVISLIGDAKRKDLFPVGRLDIDTEGLLLI 115 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDT 181 TNDG LA L P +VY + G + +D + GI + + ++ + Sbjct: 116 TNDGKLAHELLSPKKHVDKVYFAKVKGTLREDIVQAFAGGITLADQTTVLPAELLIESSY 175 Query: 182 QKGSN--AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ + + EGK ++K++FE +V L R+S GP L Sbjct: 176 EEAGEPVCEARLTIHEGKFHQVKRMFEAAGGQVVFLKRLSMGPLTL 221 >gi|330830231|ref|YP_004393183.1| 23S rRNA pseudouridine synthase F [Aeromonas veronii B565] gi|328805367|gb|AEB50566.1| 23S rRNA pseudouridine synthase F [Aeromonas veronii B565] Length = 338 Score = 76.6 bits (187), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 114/227 (50%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRFIEQGHVFING---KRAGIGDQVQVGDLVKVNGQVIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP+G+V+T + + V + + +RV +GRLD +++GL+ LTN G L Sbjct: 65 DSLVLIALNKPVGIVSTTEAGEKDNIV--DFVNHSTRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDEFVRGMAAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L RI L L G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGFEVTKLERIRIMNVSLKGLPVGEWRDLT 225 >gi|162138450|ref|YP_540277.2| 23S rRNA pseudouridine synthase E [Escherichia coli UTI89] Length = 207 Score = 76.6 bits (187), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 50/180 (27%), Positives = 86/180 (47%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 29 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 86 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 L P + ++Y V+ G QD L L+ G+ + L + Sbjct: 87 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPAWLWPRNPP 146 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR + G + L L G R+ + Sbjct: 147 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWRDAT 206 >gi|193068120|ref|ZP_03049084.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli E110019] gi|331683863|ref|ZP_08384459.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli H299] gi|192958399|gb|EDV88838.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli E110019] gi|323945000|gb|EGB41065.1| RNA pseudouridylate synthase [Escherichia coli H120] gi|331078815|gb|EGI50017.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli H299] Length = 231 Score = 76.6 bits (187), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 103/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLVQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEE 225 >gi|313204302|ref|YP_004042959.1| ribosomal large subunit pseudouridine synthase f [Paludibacter propionicigenes WB4] gi|312443618|gb|ADQ79974.1| ribosomal large subunit pseudouridine synthase F [Paludibacter propionicigenes WB4] Length = 320 Score = 76.6 bits (187), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 59/233 (25%), Positives = 116/233 (49%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAER 72 R++K I+ +G+ SRRE ++ I Q V +NG RA V + H + ++G + E Sbjct: 6 RLNKFISDSGVCSRREADKYIEQGHVFING---RRATVGAQVSKHDKVTLNGNLIEAKEG 62 Query: 73 TRLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 T ++KP+G+++T ++ + ++ D + R+ +GRLD ++GL+ LTN+G + Sbjct: 63 TDFAFIAFNKPVGIIST-TEIGVKDSIIDYI-GYHERIFPIGRLDKESQGLIFLTNNGDI 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + Y V + + + + + G+ I G+M K S Sbjct: 121 VNKILRAGNKHEKEYLVTVNKPITDEFILKMGNGVPI----LGEMTKKCSVIKESVFSFR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E+F ++V +L RI L + G R++ + + E Sbjct: 177 IVLIQGLNRQIRRMCEYFEYEVVKLERIRIMNIGLKGIPLGEWRQLEAEEMNE 229 >gi|313650387|gb|EFS14794.1| ribosomal large subunit pseudouridine synthase E [Shigella flexneri 2a str. 2457T] gi|332758324|gb|EGJ88647.1| ribosomal large subunit pseudouridine synthase E [Shigella flexneri 4343-70] gi|332759318|gb|EGJ89626.1| ribosomal large subunit pseudouridine synthase E [Shigella flexneri 2747-71] gi|332761102|gb|EGJ91389.1| ribosomal large subunit pseudouridine synthase E [Shigella flexneri K-671] gi|332767380|gb|EGJ97574.1| 23S rRNA pseudouridine synthase [Shigella flexneri 2930-71] gi|333005361|gb|EGK24879.1| ribosomal large subunit pseudouridine synthase E [Shigella flexneri K-218] gi|333019471|gb|EGK38754.1| ribosomal large subunit pseudouridine synthase E [Shigella flexneri K-304] Length = 177 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 52/176 (29%), Positives = 87/176 (49%), Gaps = 17/176 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L L Sbjct: 3 LFNKPYDVLPQFTDETGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQARLTQ 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL--------DT 181 P + ++Y V+ G QD L L+ G+ + G D L + Sbjct: 61 PGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPPIRER 120 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + L EG+NR+++++ + RLIR + G + L L G REV+ Sbjct: 121 KSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREVT 176 >gi|312973563|ref|ZP_07787735.1| conserved hypothetical protein [Escherichia coli 1827-70] gi|310332158|gb|EFP99393.1| conserved hypothetical protein [Escherichia coli 1827-70] Length = 231 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 103/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKSYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEE 225 >gi|290510858|ref|ZP_06550228.1| ribosomal large subunit pseudouridine synthase E [Klebsiella sp. 1_1_55] gi|289777574|gb|EFD85572.1| ribosomal large subunit pseudouridine synthase E [Klebsiella sp. 1_1_55] Length = 216 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 50/173 (28%), Positives = 86/173 (49%), Gaps = 17/173 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GRST+ D +P + V + GRLD ++EGLL+LTNDG L L Sbjct: 43 LFNKPYDVLPQFTDEAGRSTLKDFIP--VAGVYAAGRLDRDSEGLLVLTNDGALQAKLTQ 100 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL--------DT 181 P + ++Y V+ G+ + L L+ G+ + G+ + L + Sbjct: 101 PGKRTGKIYYVQVEGEPTAEALAALRNGVTLNDGPTLPAGVEVVEEPAWLWPRNPPIRER 160 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + W+ + L EG+NR+++++ + RLIR + G + L L G R Sbjct: 161 KSIPTCWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGGYTLDGLANGEWR 213 >gi|15615835|ref|NP_244139.1| 16S pseudouridylate synthase [Bacillus halodurans C-125] gi|10175896|dbj|BAB06992.1| 16S pseudouridylate synthase [Bacillus halodurans C-125] Length = 238 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 112/236 (47%), Gaps = 20/236 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G SR++V++++ V+V G ++ + +V ++ I V G + Sbjct: 2 RIDKFLANMGFGSRKDVKKLLKTGAVRVQGQPIKDPSTHVEPESESITVYGEEVEYKPYV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--------PSIFSRVISVGRLDINTEGLLLLT 125 L + +KP G++ D + TV D L PS VGRLD +T GLLL+T Sbjct: 62 YLMM-NKPKGVICATEDLE-HETVIDLLGEEERHYEPS------PVGRLDKDTVGLLLIT 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKG 184 NDG L P + YR G V ++ + G+V+ Y TL + G Sbjct: 114 NDGKFNHWLMSPKHHVPKTYRALVEGHVTEEDVGAFSHGVVLDD-GYVTKPATLHILEAG 172 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 + + + + L EGK ++K++F+ +V L RI G L LA G RE++K+ Sbjct: 173 ARSHIELILTEGKFHQVKRMFQAVGKRVLELERIKIGNLLLDPELARGEYRELTKE 228 >gi|318606383|emb|CBY27881.1| ribosomal small subunit pseudouridine synthase A [Yersinia enterocolitica subsp. palearctica Y11] Length = 235 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 58/238 (24%), Positives = 111/238 (46%), Gaps = 7/238 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQTVGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTVG 192 P + Y V + D G+ + + + +T Q V + Sbjct: 122 TSPRHHCEKTYLVTLEQPIADDTAQQFTDGVQL----HNEKSLTKPAQLEVIEPQLVRLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHL 249 + EG+ ++K++F +V L R G +L LA G R ++ + + PHL Sbjct: 178 ISEGRYHQVKRMFAAAGNRVLELHRERIGDIKLDDDLAPGEYRPLTPEEIASVGAPHL 235 >gi|299533715|ref|ZP_07047087.1| Pseudouridine synthase, Rsu [Comamonas testosteroni S44] gi|298718264|gb|EFI59249.1| Pseudouridine synthase, Rsu [Comamonas testosteroni S44] Length = 223 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 52/189 (27%), Positives = 92/189 (48%), Gaps = 23/189 (12%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDN---LPSIFSRVISVGRLDINTEGLL 122 P + E TRL +HKP G+++ + P+G+ + +P ++ GRLD ++EGLL Sbjct: 34 PAPRPEVTRLLCFHKPYGVLSQFT-PEGKWQGLKDWIDVPGVYV----AGRLDADSEGLL 88 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--------------- 167 LLTNDG L + P + + Y V+ G D+ L L++G+ + Sbjct: 89 LLTNDGQLQARIADPRHKMEKTYWVQVEGIPDEAALQRLREGVELSDGKTLPAKARLIEP 148 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 Q + + Q + W+ + +REGKNR+++++ RL+R++ GP+ + Sbjct: 149 QPLMWPRNPPIRVRQNIPDCWIELIIREGKNRQVRRMTAAVGHPTLRLVRMAVGPYSIEG 208 Query: 228 LLAGSTREV 236 L G +V Sbjct: 209 LEPGQWLDV 217 >gi|191168333|ref|ZP_03030125.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli B7A] gi|193071705|ref|ZP_03052605.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli E110019] gi|194433663|ref|ZP_03065939.1| ribosomal large subunit pseudouridine synthase E [Shigella dysenteriae 1012] gi|190901628|gb|EDV61385.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli B7A] gi|192954967|gb|EDV85470.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli E110019] gi|194418092|gb|EDX34185.1| ribosomal large subunit pseudouridine synthase E [Shigella dysenteriae 1012] gi|320179165|gb|EFW54123.1| 23S rRNA pseudouridine synthase E [Shigella boydii ATCC 9905] gi|320201031|gb|EFW75615.1| 23S rRNA pseudouridine synthase E [Escherichia coli EC4100B] gi|323153177|gb|EFZ39441.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli EPECa14] gi|323163679|gb|EFZ49501.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli E128010] gi|323172488|gb|EFZ58125.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli LT-68] gi|323179329|gb|EFZ64899.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli 1180] gi|332092949|gb|EGI98017.1| ribosomal large subunit pseudouridine synthase E [Shigella dysenteriae 155-74] gi|333004972|gb|EGK24492.1| ribosomal large subunit pseudouridine synthase E [Shigella flexneri VA-6] gi|333008367|gb|EGK27841.1| ribosomal large subunit pseudouridine synthase E [Shigella flexneri K-272] gi|333019854|gb|EGK39126.1| ribosomal large subunit pseudouridine synthase E [Shigella flexneri K-227] Length = 177 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 52/176 (29%), Positives = 87/176 (49%), Gaps = 17/176 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L L Sbjct: 3 LFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQARLTQ 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL--------DT 181 P + ++Y V+ G QD L L+ G+ + G D L + Sbjct: 61 PGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPPIRER 120 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + L EG+NR+++++ + RLIR + G + L L G REV+ Sbjct: 121 KSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREVT 176 >gi|28895711|ref|NP_802061.1| 16S pseudouridylate synthetase [Streptococcus pyogenes SSI-1] gi|28810960|dbj|BAC63894.1| putative 16S pseudouridylate synthetase [Streptococcus pyogenes SSI-1] Length = 238 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 66/231 (28%), Positives = 111/231 (48%), Gaps = 14/231 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ + SR +V+++I Q V V+ + NV IEV G + + + Sbjct: 2 RLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQRVTHPKHS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLLLTND 127 + L +KP G+V+ D + TV D L P ++ VGRLD +TEGL+LLT++ Sbjct: 62 YIIL-NKPSGVVSAKKDTN-YLTVIDQLAEEDKSPDLYP----VGRLDRDTEGLVLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G L + PS + Y V +G + +D + GI G Q+T+ Sbjct: 116 GPLGFRMLDPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQ 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + ++ + EGK ++KK+F + KV L R + +LG L +G R ++ Sbjct: 176 SQASLTISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLT 226 >gi|312867227|ref|ZP_07727437.1| putative 16S pseudouridylate 516 synthase [Streptococcus parasanguinis F0405] gi|311097356|gb|EFQ55590.1| putative 16S pseudouridylate 516 synthase [Streptococcus parasanguinis F0405] Length = 241 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 61/228 (26%), Positives = 116/228 (50%), Gaps = 6/228 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A A R+++++++A++++ V+ + ++ + N+ I++ G + + R Sbjct: 2 RLDQLMADHQYA-RKDIKQLLARRQILVDHLPAQKLSQNIDPGLQQIQI-GDRIIQEPRH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ HKPIG VT D + + P + + +GRLD +T GLLL+T++G L Sbjct: 60 HYYMLHKPIGAVTAKRDAHHPTVIELVDPQQEYPDLYPLGRLDRDTSGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P +VY V +G + + + GI G +T+ S + + Sbjct: 120 QLLHPQYHVEKVYEVEVNGPLYAAHIEQFQNGISFTDGPICKPASLTILESTLSYSKAQI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK 238 + EGK ++KK+F KV L R+S+GPF L LA G +R +++ Sbjct: 180 RISEGKYHQVKKMFLAIGVKVMTLNRLSFGPFTLDPQLAPGESRPLNE 227 >gi|240013706|ref|ZP_04720619.1| RNA-binding protein [Neisseria gonorrhoeae DGI18] gi|240080288|ref|ZP_04724831.1| RNA-binding protein [Neisseria gonorrhoeae FA19] gi|240120776|ref|ZP_04733738.1| RNA-binding protein [Neisseria gonorrhoeae PID24-1] gi|240123081|ref|ZP_04736037.1| RNA-binding protein [Neisseria gonorrhoeae PID332] gi|268596437|ref|ZP_06130604.1| RNA-binding protein [Neisseria gonorrhoeae FA19] gi|268681708|ref|ZP_06148570.1| RNA-binding protein [Neisseria gonorrhoeae PID332] gi|268550225|gb|EEZ45244.1| RNA-binding protein [Neisseria gonorrhoeae FA19] gi|268621992|gb|EEZ54392.1| RNA-binding protein [Neisseria gonorrhoeae PID332] Length = 252 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 113/243 (46%), Gaps = 30/243 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R+SK +A+ G+ SRRE + I Q V VNG + AV V D IE++ + Sbjct: 15 RLSKRMAQLGLCSRREADGHIEQGWVTVNG----KTAVLGQKVSPADRIELNKKAHEQQA 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV-----------------FDNLPSIFSRVISVGRL 114 L +KP+G V+ ++ +S FD P + GRL Sbjct: 71 ARITILLNKPVGYVSAQAEKGYKSAAELITPENCWEGDTSRISFD--PKHKIGLAPAGRL 128 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Sbjct: 129 DIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGDKLRP 188 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +V + + L++GK R+I+++ E ++ L RI G +LG L G R Sbjct: 189 AKVEWQNED----QLRFVLKQGKKRQIRRMCELVGLRIVGLKRIRMGKVKLGRLPPGKWR 244 Query: 235 EVS 237 ++ Sbjct: 245 YLA 247 >gi|145355123|ref|XP_001421818.1| predicted protein [Ostreococcus lucimarinus CCE9901] gi|144582057|gb|ABP00112.1| predicted protein [Ostreococcus lucimarinus CCE9901] Length = 238 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 111/233 (47%), Gaps = 28/233 (12%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-VPLRKAERTRL----------- 75 RRE + ++ RV VNG L+ R + V + D + +DG V L +A R+ Sbjct: 1 RREADAAVSAGRVLVNGELV-RPSQRVKAGDVVTLDGKVMLWEAYARRVEEEIANDATSS 59 Query: 76 ---WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-----VISVGRLDINTEGLLLLTND 127 LY+KP G+V T +P R+++ L +R + VGRLD ++ GL+LLTND Sbjct: 60 FVYLLYNKPRGVVCTM-EPHQRTSLHFALERERARMKKIRIFPVGRLDKDSSGLVLLTND 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT------LDT 181 G ++ L PS + + Y V V + L G+VI + M T + Sbjct: 119 GRVSDALLDPSRKAEKEYDVDVDRDVSAADVERLAAGVVITTLQQRTMTETTAPTQPCEV 178 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +K + L+EG+NR+I+K+ E ++ V RL R +LG L G R Sbjct: 179 RKIGPRTLRFVLKEGRNRQIRKMCEALSYDVTRLHRTRIAELELGDLEIGGLR 231 >gi|114048569|ref|YP_739119.1| pseudouridine synthase, Rsu [Shewanella sp. MR-7] gi|113890011|gb|ABI44062.1| Pseudouridine synthase, Rsu [Shewanella sp. MR-7] Length = 241 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 70/230 (30%), Positives = 109/230 (47%), Gaps = 12/230 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A R+ V ++ +RV V+G + + V HI DG L+ + Sbjct: 7 RLDRYLAVKLQIHRKAVRELLLAERVYVDGAPAKALDLLVDEFSHIVFDGQVLQANQPVY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 L LY KP+G+V+ D + R TV D L + + + GRLD+N+ GLLLLTND + Sbjct: 67 LMLY-KPVGVVSATKDKEHR-TVIDLLDCDTRQELHIAGRLDLNSSGLLLLTNDSRWSEA 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK---GSNAWVT 190 L P + +VYRV + + + QG+ +G +T K + Sbjct: 125 LMSPEQKVDKVYRVTLANPLSDEYI-----AAFAQGMYFGFEDITTQPAKLVILAPHVAE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVSKK 239 V LREGK +IK++F F V L R+S G L L G +R ++ + Sbjct: 180 VTLREGKYHQIKRMFGRFRNPVLGLHRLSIGEITLDEALKPGESRMLTAQ 229 >gi|325497996|gb|EGC95855.1| 16S rRNA pseudouridylate synthase A [Escherichia fergusonii ECD227] Length = 231 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 102/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G + AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGETVRNAAFKLLPEHEVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEE 225 >gi|110641312|ref|YP_669042.1| 23S rRNA pseudouridine synthase E [Escherichia coli 536] gi|110342904|gb|ABG69141.1| putative ribosomal large subunit pseudouridine synthase [Escherichia coli 536] Length = 217 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 50/180 (27%), Positives = 86/180 (47%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 L P + ++Y V+ G QD L L+ G+ + L + Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPAWLWPRNPP 156 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR + G + L L G R+ + Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGNYSLDNLANGEWRDAT 216 >gi|51598393|ref|YP_072581.1| hypothetical protein BG0131 [Borrelia garinii PBi] gi|51572964|gb|AAU06989.1| conserved hypothetical protein [Borrelia garinii PBi] Length = 249 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 66/225 (29%), Positives = 107/225 (47%), Gaps = 10/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-VPLRKAERT 73 RV +A G+ SRR E +I ++ ++VNG + + V D I + + K ++ Sbjct: 8 RVQVFLAEKGVGSRRFCEELIRKKLIRVNG-SIAKLGDKVSPGDRIIYKKQIYVFKDFQS 66 Query: 74 RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGG 129 + +Y +KP + ++ D +GR + +F R+ S+GRLD + GLLL TNDG Sbjct: 67 KNKIYLALNKPKNYLCSNFDVNGRKLAISLVQPLFKERIFSIGRLDFKSSGLLLFTNDGE 126 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P + R Y + +D++ L K GI ++ + + K S + Sbjct: 127 FANDIIHPRRKVEREYIIESKKDIDENLLISFKSGIKVKKEFFKLKSYEI-LNKNSARLI 185 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 L EGKNREI+KVF N + ++ RI G L L G + Sbjct: 186 ---LDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDNLKEGQVK 227 >gi|315657981|ref|ZP_07910855.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus lugdunensis M23590] gi|315497017|gb|EFU85338.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus lugdunensis M23590] Length = 230 Score = 76.3 bits (186), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 113/234 (48%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAER 72 R+ K +A G +R EV++ + + V VNG +E++A ++ H +++ G + E Sbjct: 3 RLDKFLAHMGQGTRTEVKQSLKKGNVTVNG-KVEKSAKTQINPHHDVVQIHGHQIDYVET 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLA 131 L L +KP G ++ DP ++TV D + + + VGRLD +TEGLLL+TNDG + Sbjct: 62 VYLML-NKPKGYISATEDP-KQATVIDLIKDYKYLDLFPVGRLDKDTEGLLLITNDGQFS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V V +D + K+G+++ ++T+ S V Sbjct: 120 HNLMNPNKHVAKTYLVTSKYPVTKDNQYMFKQGVMLSDGLTKPAELTIIDDYHSK----V 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+ +IK++F +V L RI +L L V + EQL Sbjct: 176 TIYEGRYHQIKRMFHSIENEVLELKRIQIANLRLDEELDEGQYRVLTQTDIEQL 229 >gi|330937693|gb|EGH41591.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. pisi str. 1704B] Length = 230 Score = 76.3 bits (186), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 107/227 (47%), Gaps = 9/227 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R++V +A RV+V+G V + +D L+ + R Sbjct: 2 RLDRFLSNLPRFNRQQVRLALASGRVQVDGQATRDPHHEVGEFSCVALDEEILQAGKVPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ SD TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPEGCVSATSDAQ-HPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ +G+ + + Q+TL + + + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAAKFAEGLYFAFENLTTQPAQLTLLGPQSARLSIV- 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 EG+ ++K++F F+ KV RL R + G L L GS R ++ Sbjct: 180 ---EGRYHQVKRMFGHFDNKVLRLHRETIGALALDPDLCPGSYRALN 223 >gi|168212250|ref|ZP_02637875.1| RNA pseudouridine synthase family protein [Clostridium perfringens CPE str. F4969] gi|170715946|gb|EDT28128.1| RNA pseudouridine synthase family protein [Clostridium perfringens CPE str. F4969] Length = 228 Score = 76.3 bits (186), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 118/230 (51%), Gaps = 18/230 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN---VMSTDHIEVDGVPLRKAE 71 R++K+ + GI SR+E ++I + RV VNG + + V +D I +D PL E Sbjct: 2 RINKLFSNFGICSRKETNKIIREGRVIVNG----KPCIEGQWVELSDEILLDEKPLVPKE 57 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + L +KP+G+V T ++ + + + D L I V +GRLD +++GL++LTNDG LA Sbjct: 58 KIYIAL-NKPVGVVCTAAE-EVKDNIIDYL-GIDDYVFPIGRLDKDSQGLIILTNDGDLA 114 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGSNAWV 189 + + Y V D + +++G+ I G QVT ++ + Sbjct: 115 NEVLAAENNHEKEYIVTLDQPFYDDFIKKMERGVEILG------QVTKPCKLKRINENTY 168 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ L +G NR+I+++ + F + V +L RI L + G R ++++ Sbjct: 169 SIILTQGLNRQIRRMSKVFGFNVVKLERIRILNITLEDIEYGKWRYINRE 218 >gi|50914459|ref|YP_060431.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS10394] gi|50903533|gb|AAT87248.1| Ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS10394] Length = 238 Score = 76.3 bits (186), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 66/232 (28%), Positives = 112/232 (48%), Gaps = 14/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ + SR +V+++I Q V V+ + NV IEV G + + + Sbjct: 2 RLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQRVTHPKHS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLLLTND 127 + L +KP G+V+ D + TV D L P ++ VGRLD +TEGL+LLT++ Sbjct: 62 YIIL-NKPSGVVSAKKDTN-YLTVIDQLAEEDKSPDLYP----VGRLDRDTEGLVLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G L + PS + Y V +G + +D + GI G Q+T+ Sbjct: 116 GPLGFRMLHPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADIDQ 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + ++ + EGK ++KK+F + KV L R + +LG L +G R +++ Sbjct: 176 SQASLTISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLTE 227 >gi|229133216|ref|ZP_04262048.1| Pseudouridine synthase [Bacillus cereus BDRD-ST196] gi|229167200|ref|ZP_04294941.1| Pseudouridine synthase [Bacillus cereus AH621] gi|228616238|gb|EEK73322.1| Pseudouridine synthase [Bacillus cereus AH621] gi|228650235|gb|EEL06238.1| Pseudouridine synthase [Bacillus cereus BDRD-ST196] Length = 238 Score = 76.3 bits (186), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 64/225 (28%), Positives = 112/225 (49%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I +++V +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERKVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIID-LVNHPLRINHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + L + G+ I +VT + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPEFLEKMAAGVKILDTKTLPCEVT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R++SKK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKK 222 >gi|325697062|gb|EGD38949.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK160] Length = 241 Score = 76.3 bits (186), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 75/238 (31%), Positives = 124/238 (52%), Gaps = 14/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A I SR+++++ + Q+++ V+G + + NV I G + Sbjct: 2 RLDQLLAANHI-SRKKMKQSLLQKQILVDGKPAYKLSQNVDTGLQQITFQGKQVSDPAH- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP G VT + D + + TV D L + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANRDAE-KLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWV 189 L P + Y V +G + QDKL ++GI + G Q+++ + S + Sbjct: 119 FQLLHPQYHVEKTYYVEVNGPLTSQDKLA-FQEGIRFLDGTICQPAQLSILSTSSSLSRA 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLG 246 TV + EGK +IKK+F KV L RI +G F L LA G R ++ +E+LG Sbjct: 178 TVKISEGKFHQIKKMFLALGVKVTYLKRIQFGNFTLDPDLATGDCRPLN----QEELG 231 >gi|294142422|ref|YP_003558400.1| ribosomal pseudouridine synthase family protein [Shewanella violacea DSS12] gi|293328891|dbj|BAJ03622.1| ribosomal pseudouridine synthase family protein [Shewanella violacea DSS12] Length = 250 Score = 76.3 bits (186), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 68/237 (28%), Positives = 117/237 (49%), Gaps = 26/237 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG--------ILLERAAVNVMSTDHIEVDGVP 66 R++K +A G+ SR+ R I + ++G I L + + S + ++ DGV Sbjct: 9 RLAKYLAMTGLCSRKAATRYIRDGHITLDGRLANHIDTISLIESPSGLTSLEILKFDGVL 68 Query: 67 LRKAERTRLWLYHKPIGL---VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 ++ E + W+ +K +G + H DP S++ LP R+ VGRLD ++ G L+ Sbjct: 69 IQGVESKQYWMLNKSVGTDCRLLAH-DP---SSLLHLLPD-NPRLYPVGRLDKDSRGQLI 123 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--- 180 LTNDG L + L P + Y V+ G + + L K + QG+ Y D+ TL Sbjct: 124 LTNDGELTQQLMHPDFGHSKTYHVQVDGNFED---SFLIK--MAQGVSYRDV-TTLPCKM 177 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 T+ N + + L +G NR+I+++ + +KV L R++ LG L G R+++ Sbjct: 178 TRLNDNKFEII-LTQGLNRQIRRMSQALGYKVVDLKRVNIQSLALGDLKEGEMRQLT 233 >gi|194367660|ref|YP_002030270.1| pseudouridine synthase [Stenotrophomonas maltophilia R551-3] gi|194350464|gb|ACF53587.1| pseudouridine synthase [Stenotrophomonas maltophilia R551-3] Length = 189 Score = 76.3 bits (186), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 52/177 (29%), Positives = 90/177 (50%), Gaps = 21/177 (11%) Query: 78 YHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++KP ++ +D P + LP RV + GRLD ++EGLLLLT++G LA L Sbjct: 15 FNKPFNVLCQFTDRSVPPRPTLAGFGLPP---RVYAAGRLDHDSEGLLLLTDNGTLAHKL 71 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-------ICYGDMQVTLDTQKG--- 184 P + + Y V+ G ++L L+ G+V+ I D +L T+ Sbjct: 72 TDPKHKADKTYWVQVEGMPSDEQLQQLRTGVVLNDGPTLPAKIERLDPAPSLWTRDPPVR 131 Query: 185 -----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 ++W+ + +REG+NR+++++ N RL+R+S GP++L L G R++ Sbjct: 132 FRKTVPDSWLAITIREGRNRQVRRMTAAVNLPTLRLVRVSMGPYRLDDLQPGQWRQI 188 >gi|188581487|ref|YP_001924932.1| pseudouridine synthase [Methylobacterium populi BJ001] gi|179344985|gb|ACB80397.1| pseudouridine synthase [Methylobacterium populi BJ001] Length = 242 Score = 76.3 bits (186), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 66/230 (28%), Positives = 111/230 (48%), Gaps = 15/230 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILL----ERAAVNVMSTDHIEVDGVPLRKA 70 R+ +++A G SRREVE + V+ +G L +R A+ + + V G PL Sbjct: 5 RLDRLLANLGYGSRREVEGLARAGLVRRDGEALRDASQRIALEPDLSARMTVQGAPLDPL 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTN 126 L L HKP+G+ +H + ++ LP + R + +VGRLD T GLLL+T+ Sbjct: 65 PGVCLML-HKPLGVTCSHKEAG--PLIYSLLPERWRRRDPALSTVGRLDKETSGLLLMTD 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG L + P + + YRV + D+ +L G ++++G + V ++ + + Sbjct: 122 DGALLHRIIAPKAKVAKRYRVTLARPLQGDEAAILASGELMLEGEDKPLLPVEMEGEDAT 181 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTR 234 + VT L EG+ +++++F V+ L R G L L AG R Sbjct: 182 HCTVT--LHEGRYHQVRRMFAALGNHVDALHRDRVGGLALPADLPAGEFR 229 >gi|307245181|ref|ZP_07527272.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|307254128|ref|ZP_07535973.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|307258592|ref|ZP_07540327.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 11 str. 56153] gi|306853825|gb|EFM86039.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|306862828|gb|EFM94777.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|306867249|gb|EFM99102.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 11 str. 56153] Length = 230 Score = 76.3 bits (186), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 61/227 (26%), Positives = 108/227 (47%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + R + V VNG L + +V + TD I +G L + + Sbjct: 2 RLDKFIAENTGLTRSQAARALKSGLVTVNGKLEKSGSVKIGDTDEICYEGERLEWVDEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V +H D + TVF + +++ + GRLD++T GL+LLT+DG + Sbjct: 62 YFMLYKPQGYVCSHDDGE-YPTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ L +GI+++G + ++ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYAKKLAEGILLRGEREPCLPAQMEIIDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EG+ ++K++F KV L R G L +L G R ++++ Sbjct: 179 SEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDESLEEGEYRPLTEQ 225 >gi|291543398|emb|CBL16507.1| pseudouridine synthase family [Ruminococcus sp. 18P13] Length = 255 Score = 76.3 bits (186), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 60/210 (28%), Positives = 100/210 (47%), Gaps = 7/210 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K IA SR+EV+ ++ + V+VNG + V D I + GV L A Sbjct: 2 RLDKCIADHSAYSRKEVKELLRRGSVRVNGAPEQDPGRQVDPEGDEIMLAGVILPTALH- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G +++ ++ V P + + GRLD++TEG+LLLTNDG LA Sbjct: 61 RTYMLNKPKGCISSTRTGKTKTVVEFLPPELRKGIFPAGRLDVDTEGMLLLTNDGDLAHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWVTV 191 + P + Y V+ V + + + G+V++ C + + G V Sbjct: 121 ILSPRRHIPKYYLVQLAKPVVEKTVETFENGVVLEDGTRC---LPARVAALPGVENTALV 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYG 221 L EGK ++K++F V +L+R+ G Sbjct: 178 ELHEGKFHQVKRMFAAVENHVEQLLRVQMG 207 >gi|218554753|ref|YP_002387666.1| 16S rRNA pseudouridylate synthase A [Escherichia coli IAI1] gi|218361521|emb|CAQ99110.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli IAI1] Length = 231 Score = 76.3 bits (186), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 103/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTQVRLIIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEE 225 >gi|188590260|ref|YP_001922453.1| RNA pseudouridine synthase family protein [Clostridium botulinum E3 str. Alaska E43] gi|188500541|gb|ACD53677.1| RNA pseudouridine synthase family protein [Clostridium botulinum E3 str. Alaska E43] Length = 254 Score = 76.3 bits (186), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 69/250 (27%), Positives = 113/250 (45%), Gaps = 29/250 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A + I R+ V I VKVNG ++ ++++ D +E G + + Sbjct: 2 RLDKFLAESAIGRRKIVRTYIKDGMVKVNGKIITEPSLDINEKLDDVEYLGKKVIHNGKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++++KP G VT D + TVFD + V VGRLD +TEGLLLLTNDG Sbjct: 62 -YYMFNKPAGCVTATRD-NVHKTVFDYFHEDMNGVFHVGRLDKDTEGLLLLTNDGEFEHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---------------QGICYGDMQVT 178 + P + Y G D + L++GI I + Y + + Sbjct: 120 VMYPEKHVEKTYFFWALGSFDDEDKKQLEEGIFIGNNESLTKPAKIDVHKSGLYKEFKEE 179 Query: 179 L--------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLL 229 + D Q + ++T+ EG+ ++K++ + V L RIS G +L +L Sbjct: 180 IPIKNLENKDHQLVVSGYLTIS--EGQKHQVKRMLKAVGCYVIYLKRISIGGLKLDESLK 237 Query: 230 AGSTREVSKK 239 G R+++KK Sbjct: 238 MGDYRDLTKK 247 >gi|186476099|ref|YP_001857569.1| RNA-binding S4 domain-containing protein [Burkholderia phymatum STM815] gi|184192558|gb|ACC70523.1| RNA-binding S4 domain protein [Burkholderia phymatum STM815] Length = 624 Score = 76.3 bits (186), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 69/242 (28%), Positives = 112/242 (46%), Gaps = 30/242 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ G+ SRRE + I + V V+G+++++ V I++D ++ Sbjct: 377 RLSKLMSELGLCSRREADEWIEKGWVTVDGVVVDKLGTKVRPDADIQIDPAAQAAQQKQV 436 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFSRV-----ISVGRLDINT 118 L HKP+G V+ ++ DG D FS V GRLDI++ Sbjct: 437 TILVHKPVGYVSGQAE-DGYEPAVTLVKPENRWDGDRTDIRFSAVHLRQLAPAGRLDIDS 495 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRF-HGQVDQD--------KLNLLKKGIVIQG 169 GLL+LT DG +A+ L ++ + Y VR +G ++ D L L+ G+ + G Sbjct: 496 TGLLVLTQDGRIAKQLIGGHSEIDKEYLVRVSYGDIETDVEHEFPAESLAKLRHGLELDG 555 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ Q G + LREGK R+I+++ E V L R+ G LG L Sbjct: 556 VPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLHVVGLKRVRMGHVMLGALP 611 Query: 230 AG 231 G Sbjct: 612 PG 613 >gi|56413777|ref|YP_150852.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|197362700|ref|YP_002142337.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|56128034|gb|AAV77540.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|197094177|emb|CAR59681.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] Length = 221 Score = 76.3 bits (186), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 53/181 (29%), Positives = 88/181 (48%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 40 RVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLTNDGALQAR 97 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + ++Y V+ D L L+ G+ + GI + Sbjct: 98 LTQPGKRTGKIYYVQVESIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLWPRTPPI 157 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ V L EG+NR+++++ RLIR S G + L L G RE+++ Sbjct: 158 RERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQWREIAQ 217 Query: 239 K 239 + Sbjct: 218 E 218 >gi|323965683|gb|EGB61135.1| RNA pseudouridylate synthase [Escherichia coli M863] gi|327250364|gb|EGE62077.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli STEC_7v] Length = 290 Score = 75.9 bits (185), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 66/227 (29%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|283471019|emb|CAQ50230.1| RNA pseudouridine synthase family protein [Staphylococcus aureus subsp. aureus ST398] Length = 231 Score = 75.9 bits (185), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 62/224 (27%), Positives = 106/224 (47%), Gaps = 11/224 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 2 RIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKISVRGELIEYVENV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G ++ D + TV D +P + VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPKGYISATEDHHSK-TVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + ++ + K+G+ + G + +D Q V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEEDIQAFKEGVTLSDGKVKPAILTYIDNQTSH-----V 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 + EGK ++K++F +V L RI +L + L +G R Sbjct: 175 TIYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYR 218 >gi|206581129|ref|YP_002239231.1| ribosomal large subunit pseudouridine synthase E [Klebsiella pneumoniae 342] gi|206570187|gb|ACI11963.1| ribosomal large subunit pseudouridine synthase E [Klebsiella pneumoniae 342] Length = 216 Score = 75.9 bits (185), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 51/175 (29%), Positives = 87/175 (49%), Gaps = 17/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GRST+ D +P + V + GRLD ++EGLL+LTNDG L L Sbjct: 43 LFNKPYDVLPQFTDEAGRSTLKDFIP--VAGVYAAGRLDRDSEGLLVLTNDGALQAKLTQ 100 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL--------DT 181 P + ++Y V+ G+ + L L+ G+ + G+ + L + Sbjct: 101 PGKRTGKIYYVQVEGEPTAEALAALRDGVTLNDGPTLPAGVEVVEEPAWLWPRNPPIRER 160 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + W+ V L EG+NR+++++ + RLIR + G + L L G R+ Sbjct: 161 KSIPTRWLKVTLYEGRNRQVRRMTAHVGFPTLRLIRYAMGGYTLDGLANGEWRKA 215 >gi|324113926|gb|EGC07900.1| RNA pseudouridylate synthase [Escherichia fergusonii B253] Length = 217 Score = 75.9 bits (185), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 50/180 (27%), Positives = 89/180 (49%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQV------------ 177 L P + ++Y V+ G +D L L+ G+ + + G V Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTEDALEALRNGVTLNDGPTLPAGAEMVEEPEWLWPRNPP 156 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + + EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 157 IRERKSIPTSWLKITIYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREAT 216 >gi|229011635|ref|ZP_04168818.1| Pseudouridine synthase [Bacillus mycoides DSM 2048] gi|228749593|gb|EEL99435.1| Pseudouridine synthase [Bacillus mycoides DSM 2048] Length = 235 Score = 75.9 bits (185), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 64/225 (28%), Positives = 112/225 (49%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I +++V +NG + + V D + V+G LR A Sbjct: 2 RINKFISEAGKASRRGADKLINERKVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 61 YIALNKPVGITCT-SEKAVKGNIID-LVNHPLRINHIGRLDKDSDGLILLTNDGDIVNEI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + L + G+ I +VT + S + L Sbjct: 119 LRAENKHEKEYIVSVDKPITPEFLEKMAAGVKILDTKTLPCEVT----QLSKYEFQIILT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R++SKK Sbjct: 175 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKK 219 >gi|157737342|ref|YP_001490025.1| ribosomal small subunit pseudouridine synthase A [Arcobacter butzleri RM4018] gi|157699196|gb|ABV67356.1| ribosomal small subunit pseudouridine synthase A [Arcobacter butzleri RM4018] Length = 228 Score = 75.9 bits (185), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 56/224 (25%), Positives = 110/224 (49%), Gaps = 14/224 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV ++ G +R E ++ + + +N + ++ D I+++G L + T Sbjct: 6 KRVDAHLSSLGYCTRSEAKKFLRMNEICINDNRVYNTSIKAYHDD-IKINGEVLD--DET 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTNDGG 129 L L +KP G + +H+D ++ LP +SR + ++GRLDI+T G++LLT+DG Sbjct: 63 LLILLNKPQGYICSHND--SGKLIYSLLPQRYSRRNPKISTIGRLDIDTTGVILLTDDGV 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNA 187 L+ L P ++Y + D++ + G ++ G+ + L + + Sbjct: 121 LSHRLTSPKKDISKIYEATLEKPLKGDEVEIFASGTLMLN---GEEKPLLPAKLEIITPT 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +V + + EGK ++K++F + KV +L R + F+L L G Sbjct: 178 FVKIEIVEGKYHQVKRMFAAVSNKVIKLHRTKFADFELEDLKEG 221 >gi|163940156|ref|YP_001645040.1| RNA-binding S4 domain-containing protein [Bacillus weihenstephanensis KBAB4] gi|163862353|gb|ABY43412.1| RNA-binding S4 domain protein [Bacillus weihenstephanensis KBAB4] Length = 235 Score = 75.9 bits (185), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 64/225 (28%), Positives = 112/225 (49%), Gaps = 7/225 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I +++V +NG + + V D + V+G LR A Sbjct: 2 RINKFISEAGKASRRGADKLINERKVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 61 YIALNKPVGITCT-SEKAVKGNIID-LVNHPLRINHIGRLDKDSDGLILLTNDGDIVNEI 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + L + G+ I +VT + S + L Sbjct: 119 LRAENKHEKEYIVSVDKPITPEFLEKMAAGVKILDTKTLPCEVT----QLSKYEFEIILT 174 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L R +L L G R++SKK Sbjct: 175 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKK 219 >gi|289550491|ref|YP_003471395.1| Ribosomal small subunit pseudouridine synthase A [Staphylococcus lugdunensis HKU09-01] gi|289180023|gb|ADC87268.1| Ribosomal small subunit pseudouridine synthase A [Staphylococcus lugdunensis HKU09-01] Length = 230 Score = 75.9 bits (185), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 112/234 (47%), Gaps = 10/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAER 72 R+ K +A G +R EV++ + + V VNG +E++A + H +++ G + E Sbjct: 3 RLDKFLAHMGQGTRTEVKQSLKKGNVTVNG-KVEKSAKTQIDPHHDVVQIHGHQIDYVET 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLA 131 L L +KP G ++ DP ++TV D + + + VGRLD +TEGLLL+TNDG + Sbjct: 62 VYLML-NKPKGYISATEDP-KQATVIDLIKDYKYLDLFPVGRLDKDTEGLLLITNDGQFS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V V +D + K+G+++ ++T+ S V Sbjct: 120 HNLMNPNKHVAKTYLVTSKYPVTKDNQYMFKQGVMLSDGLTKPAELTIIDDYHSK----V 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+ +IK++F +V L RI +L L V + EQL Sbjct: 176 TIYEGRYHQIKRMFHSIENEVLELKRIQIANLRLDEELDEGQYRVLTQTDIEQL 229 >gi|74312704|ref|YP_311123.1| 16S rRNA pseudouridylate synthase A [Shigella sonnei Ss046] gi|73856181|gb|AAZ88888.1| 16S pseudouridylate 516 synthase [Shigella sonnei Ss046] gi|323168668|gb|EFZ54348.1| RNA pseudouridylate synthase [Shigella sonnei 53G] Length = 231 Score = 75.9 bits (185), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 103/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLVSPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F V L R G L LA G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEE 225 >gi|257126419|ref|YP_003164533.1| pseudouridine synthase [Leptotrichia buccalis C-1013-b] gi|257050358|gb|ACV39542.1| pseudouridine synthase [Leptotrichia buccalis C-1013-b] Length = 252 Score = 75.9 bits (185), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 71/251 (28%), Positives = 121/251 (48%), Gaps = 29/251 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAERT 73 R+ K +A +GI +R+EV+ ++ ++V VN + ++ ++V E D V K Sbjct: 2 RLDKFLANSGIGTRKEVKEILKNKKVSVNNVFVKDGKIHVDE----EKDIVKYENKIINY 57 Query: 74 RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDG 128 + ++Y +KP G+++ D + TV D L + + VGRLDI+TEGL+LLTNDG Sbjct: 58 KPFVYIMMNKPAGVISATEDSHHK-TVIDLLNDEYRTYDIFPVGRLDIDTEGLILLTNDG 116 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----------ICYGDMQV 177 L+ L P + Y V+ + +D + L+ GI ++ IC + Sbjct: 117 ILSHNLLSPKKHVDKKYYVKITKSLSEDDIKTLENGIKLEENFITKNAKVEIICNNSEKE 176 Query: 178 TLDTQKGSNAW------VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG-PFQLGTLLA 230 + D G N V + + EGK ++K++F+ +V L R+ G L Sbjct: 177 SEDFDFGENENNKNENSVYITISEGKFHQVKRMFKAVGNEVLYLKRVKMGNLLLDENLEL 236 Query: 231 GSTREVSKKIL 241 G RE+++K L Sbjct: 237 GGYRELTQKEL 247 >gi|157962357|ref|YP_001502391.1| pseudouridine synthase [Shewanella pealeana ATCC 700345] gi|157847357|gb|ABV87856.1| pseudouridine synthase [Shewanella pealeana ATCC 700345] Length = 244 Score = 75.9 bits (185), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 46/174 (26%), Positives = 84/174 (48%), Gaps = 16/174 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P V + GRLD ++EGLLLLTNDG L + Sbjct: 66 LFNKPFDVLCQFTDEQGRQTLKDFIP--IPGVYAAGRLDRDSEGLLLLTNDGKLQSQITE 123 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P + + Y + G ++D L L++G+ ++ ++++ Sbjct: 124 PKKKTYKTYWAQVEGAPNEDDLEKLRQGVELKDGMSLPAKISIMNNPDIWPRTPPIRERA 183 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+ + + EG+NR+++++ + RLIR G + L L G R++ Sbjct: 184 NIPTTWLEIKICEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDDLKNGEYRQL 237 >gi|321223855|gb|EFX48918.1| Ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Typhimurium str. TN061786] Length = 181 Score = 75.9 bits (185), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 53/178 (29%), Positives = 87/178 (48%), Gaps = 17/178 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L L Sbjct: 3 LFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLTNDGALQARLTQ 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVTLDT 181 P + ++Y V+ G D L L+ G+ + GI + + Sbjct: 61 PGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLWPRTPPIRER 120 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + +W+ V L EG+NR+++++ RLIR S G + L L G RE++++ Sbjct: 121 KNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQWREIAQE 178 >gi|327405122|ref|YP_004345960.1| ribosomal large subunit pseudouridine synthase F [Fluviicola taffensis DSM 16823] gi|327320630|gb|AEA45122.1| ribosomal large subunit pseudouridine synthase F [Fluviicola taffensis DSM 16823] Length = 305 Score = 75.9 bits (185), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 63/235 (26%), Positives = 118/235 (50%), Gaps = 19/235 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLR-KAE 71 R++K I+ +G SRRE ++ I Q V +NG+ RA + T D + V+G L+ K++ Sbjct: 6 RLNKFISDSGYCSRREADKYIEQGSVFINGV---RAKIGTQVTRRDKVVVNGHTLQQKSQ 62 Query: 72 RTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTND 127 +++ +KP G+ +T V DN+ R+ +GRLD +++GL+ LT++ Sbjct: 63 EEEIYIALNKPPGVTSTTE-----KGVVDNIVDYVGHPQRIFPIGRLDKDSQGLIFLTSN 117 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + + Y V + D + + G+ I G+ + + Q SN Sbjct: 118 GDIVNKILRAGNEHQKEYLVTVDKPITPDFIAKMATGVPILGVV---TKKCIVEQISSNV 174 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + V L +G NR+I+++ E+F + V +L R +L + G RE+++ +R Sbjct: 175 FKIV-LIQGLNRQIRRMCEYFQYNVTKLERTRIMNIELKGIPLGEWRELTESEMR 228 >gi|239817945|ref|YP_002946855.1| RNA-binding S4 domain protein [Variovorax paradoxus S110] gi|239804522|gb|ACS21589.1| RNA-binding S4 domain protein [Variovorax paradoxus S110] Length = 273 Score = 75.9 bits (185), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 119/276 (43%), Gaps = 50/276 (18%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P R++K +A G+ SRRE + IA VKVNG E V V +D IEVD + Sbjct: 6 APIRLNKRMAELGLCSRREADEWIANGWVKVNGKPAE-MGVKVTPSDRIEVDKAAKGQQA 64 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRS---TVF--------DNLPSIFSR-----VISVGRLD 115 L +KPIG V+ ++ DG T+F DN FS + GRLD Sbjct: 65 NQVTILINKPIGYVSGQAE-DGHEPAVTLFTPQNRWAEDNARFFFSPQQLRGLAPCGRLD 123 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHG-----------QVDQDKLNLLK 162 I++ GLL++T DG +AR L + + Y RV +HG ++D D Sbjct: 124 IDSIGLLVMTQDGRIARQLIGEDSVMEKEYLVRVAYHGLGQPAPTGQLVRMDDDDPVTTN 183 Query: 163 KGIVIQGICYGDMQ--VTLDTQKGSNA---W-----VTVGLREGKNREIKKVFEFFNWKV 212 V ++ ++LD Q A W + L EGK R+I+++ E KV Sbjct: 184 VQAVFPPAMLARLRHGLSLDGQPLKPARVEWQNPEQLRFVLTEGKKRQIRRMCELVGLKV 243 Query: 213 NRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 L R+ G LG L G R LGPH Sbjct: 244 VGLKRVRIGKVMLGNLPVGQWR---------YLGPH 270 >gi|119505843|ref|ZP_01627909.1| Pseudouridine synthase, Rsu [marine gamma proteobacterium HTCC2080] gi|119458341|gb|EAW39450.1| Pseudouridine synthase, Rsu [marine gamma proteobacterium HTCC2080] Length = 229 Score = 75.9 bits (185), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 63/213 (29%), Positives = 109/213 (51%), Gaps = 15/213 (7%) Query: 31 VERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSD 90 + +++AQ R+ ++G+ E + V H+ +D L +AE+ R + +KP G+V+ D Sbjct: 1 MHQLLAQGRILLDGLAAESISQVVGPFTHVVLDQRVL-QAEQPRYIMLNKPPGMVSATCD 59 Query: 91 PDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 + STV D + + ++ + VGRLD N+ GLLLLTNDG +R + P ++ YRV+ Sbjct: 60 -EQHSTVLDLVSAPNAKSLHIVGRLDFNSTGLLLLTNDGRWSRGVSSPQKGVVKTYRVQL 118 Query: 150 HGQVDQDKLNLLKKGI--VIQGICY--GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 D G+ + I +++ D +G + EG+ +IK++F Sbjct: 119 EQPFRSDYREAFAAGLYFAFENITTRPAEIRRLSDLSRGRSV-------EGRYHQIKRMF 171 Query: 206 EFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 +FN +V L R+S G L L G+ RE++ Sbjct: 172 GYFNNRVLNLHRLSIGALSLDPKLHQGAWRELT 204 >gi|71280205|ref|YP_271062.1| putative ribosomal small subunit pseudouridine synthase A [Colwellia psychrerythraea 34H] gi|71145945|gb|AAZ26418.1| putative ribosomal small subunit pseudouridine synthase A [Colwellia psychrerythraea 34H] Length = 240 Score = 75.9 bits (185), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 66/216 (30%), Positives = 105/216 (48%), Gaps = 9/216 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ ++I+ + +R++V ++AQ+RV V+G+L A V H+ +D L +A +T Sbjct: 7 RLDRLISDSRQINRKKVRLILAQKRVYVDGVLATDIAQLVDQFSHVVMDNEVL-QANQTH 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-----SVGRLDINTEGLLLLTNDGG 129 + +KPIG+V D + TV D L F + + VGRLD+NT GL+LLTND Sbjct: 66 YIMLNKPIGVVCATKDKKHK-TVIDLLAEQFDQDVLDSLHIVGRLDLNTSGLVLLTNDSR 124 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + L P + + Y+V + D ++ KG+ L A V Sbjct: 125 WSERLTSPEHKVSKGYQVTLENALTTDYIDAFAKGMYFPYENITTKPAILHIVSLFEAQV 184 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + L EG+ +IK++F F V L R S G +L Sbjct: 185 S--LTEGRYHQIKRMFGRFRNPVIALHRYSIGSLRL 218 >gi|52841050|ref|YP_094849.1| pseudouridine synthase [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] gi|52628161|gb|AAU26902.1| pseudouridine synthase [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] Length = 222 Score = 75.9 bits (185), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 55/186 (29%), Positives = 88/186 (47%), Gaps = 20/186 (10%) Query: 68 RKAERTRLWLYHKPIGLVT--THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 R + +L L++KP G++T T P+ + F LP ++ GRLD +EGLL+LT Sbjct: 19 RNHKMPQLILFNKPYGILTQFTGELPEQTLSAFIKLPGFYA----AGRLDKQSEGLLILT 74 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 +DG L L P + + Y V+ G L L+KG+VI+ I + + L ++ Sbjct: 75 DDGKLQHRLTHPKFEKKKHYWVQVEGVPTDKDLQPLRKGLVIKDITFLPAEARLISEPKI 134 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + LREGKN +I+K+ + RLIR G + L L G Sbjct: 135 WPRIPPIRERKHIPTTWLEIILREGKNHQIRKMTAAIGFPTLRLIRYQIGDWHLDQLQPG 194 Query: 232 STREVS 237 + ++ Sbjct: 195 EYKLIN 200 >gi|82779348|ref|YP_405697.1| 23S rRNA pseudouridine synthase F [Shigella dysenteriae Sd197] gi|309784076|ref|ZP_07678718.1| ribosomal large subunit pseudouridine synthase F [Shigella dysenteriae 1617] gi|81243496|gb|ABB64206.1| conserved hypothetical protein [Shigella dysenteriae Sd197] gi|308928069|gb|EFP73534.1| ribosomal large subunit pseudouridine synthase F [Shigella dysenteriae 1617] Length = 290 Score = 75.9 bits (185), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLNGIPLGEWRDLT 225 >gi|89095132|ref|ZP_01168058.1| 16S rRNA uridine-516 pseudouridylate synthase [Oceanospirillum sp. MED92] gi|89080627|gb|EAR59873.1| 16S rRNA uridine-516 pseudouridylate synthase [Oceanospirillum sp. MED92] Length = 230 Score = 75.9 bits (185), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 60/213 (28%), Positives = 103/213 (48%), Gaps = 7/213 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A++ SR+EV R + V VN + ++ A+++ D + + G P+ +A + Sbjct: 2 RLDKYLAQSTGFSRKEVRRFMKAGEVVVNDLEIKDPALHISDEDDVYLSGYPV-EAPGEK 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP+G V ++ D TV +LP I GRLD++T GL+L+T++G A Sbjct: 61 YLMLHKPLGCVCSNDD-STHPTVLSLLDLPRAEELTI-CGRLDVDTTGLVLITSNGKWAH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y+V + QD + KG+++ L A V Sbjct: 119 KVTSPKHKTGKRYQVTTADPIPQDAITKFAKGLMLINEKERTKPAELTIIGEYEAEVV-- 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 L EG+ ++K++F KV L R+S G L Sbjct: 177 LTEGRYHQVKRMFAAIGNKVEELHRVSIGAISL 209 >gi|330877468|gb|EGH11617.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. morsprunorum str. M302280PT] Length = 230 Score = 75.9 bits (185), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 60/218 (27%), Positives = 105/218 (48%), Gaps = 8/218 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R+ V +A RV+V+G + +V + +D L+ + R Sbjct: 2 RLDRFLSNLPRFNRKSVRLALASGRVQVDGQITTDPHYDVREFSCVALDAEILQPGKAAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ +D +TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPQGCVSATTDAQ-HATVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ +G+ + I Q+T+ + + + Sbjct: 121 LTQPQTKMPKVYYVETEQLIDERYALTFAEGLFFSFENIITQPAQLTVLGPRSAR----L 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + EG+ ++K++F F+ KV +L R S G L L Sbjct: 177 SIIEGRYHQVKRMFGHFDNKVLQLHRESIGALILDPAL 214 >gi|259906718|ref|YP_002647074.1| 23S rRNA pseudouridine synthase F [Erwinia pyrifoliae Ep1/96] gi|224962340|emb|CAX53795.1| Ribosomal large subunit pseudouridine synthase F [Erwinia pyrifoliae Ep1/96] gi|283476501|emb|CAY72316.1| putative pseudouridylate synthase [Erwinia pyrifoliae DSM 12163] Length = 292 Score = 75.9 bits (185), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 66/233 (28%), Positives = 117/233 (50%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I +GI SRR+ +R I Q V +NG +RA+V V + D ++V+G + R Sbjct: 8 RLNKYIGESGICSRRDADRYIEQGNVFING---KRASVGDRVFAGDVVKVNGQLIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E + +KP+G+++T + + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVVIALNKPVGIISTTEEGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V ++ + L G+ + G +V + S Sbjct: 123 VNKILRAGNDHEKEYLVTVNKPVTEEFIRGLGAGVPMLGTVTKKCKVKKE----STFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E F ++V++L R L L G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMSEHFGYEVSKLERTRIMNVSLKGLPPGEWRDLTDDELIE 231 >gi|167623648|ref|YP_001673942.1| pseudouridine synthase [Shewanella halifaxensis HAW-EB4] gi|167353670|gb|ABZ76283.1| pseudouridine synthase [Shewanella halifaxensis HAW-EB4] Length = 239 Score = 75.9 bits (185), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 47/177 (26%), Positives = 83/177 (46%), Gaps = 16/177 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P V + GRLD ++EGLLLLTNDG L + Sbjct: 65 LFNKPFDVLCQFTDEQGRKTLKDYIP--VPGVYAAGRLDRDSEGLLLLTNDGKLQSQITE 122 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P + + Y + G D L L++G+ ++ ++++ Sbjct: 123 PKKKTYKTYWAQVEGAPDDSDLEKLRQGVELKDGMTLPAKISIMDNPAIWPRTPPIRERA 182 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 W+ + + EG+NR+++++ + RLIR G + L L G R++ K Sbjct: 183 NIPTTWLEIQICEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDDLQNGEYRQLDMK 239 >gi|157370266|ref|YP_001478255.1| pseudouridine synthase [Serratia proteamaculans 568] gi|157322030|gb|ABV41127.1| pseudouridine synthase [Serratia proteamaculans 568] Length = 178 Score = 75.9 bits (185), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 52/170 (30%), Positives = 84/170 (49%), Gaps = 17/170 (10%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR+T+ + +P F V + GRLD ++EGLL+LTNDG L L Sbjct: 3 LFNKPFDVLPQFTDEAGRATLKEFIP--FPDVYAAGRLDRDSEGLLVLTNDGKLQAQLTE 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---------------DT 181 P + +VY V+ G + L L+ G+ ++ V L + Sbjct: 61 PGKRTGKVYYVQVEGAPQDNDLVSLRNGVTLKDGPTLPAGVELVAEPQWLWPRNPPIRER 120 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + AW+ + L EG+NR+++++ + RLIR S G LG L G Sbjct: 121 KSIPTAWLKITLYEGRNRQVRRMTAHIGFPTLRLIRYSMGNISLGELQPG 170 >gi|329768850|ref|ZP_08260278.1| hypothetical protein HMPREF0433_00042 [Gemella sanguinis M325] gi|328837213|gb|EGF86850.1| hypothetical protein HMPREF0433_00042 [Gemella sanguinis M325] Length = 235 Score = 75.9 bits (185), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 63/218 (28%), Positives = 113/218 (51%), Gaps = 13/218 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K I+ + SR E +++I ++ V VN +L+++ V D + +DG L + Sbjct: 2 RLDKYISSITVYSRAETKKII-KKGVLVNNVLVKQPDYQVDEENDQVVIDGKSLFYQKHV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +KP +++ D +TV D N + VGRLD +TEGL+LLTNDG LA Sbjct: 61 YIMM-NKPGNIISATEDKKD-TTVIDILNEKDRLFKPFPVGRLDKDTEGLMLLTNDGELA 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----ICYGDMQVTLDTQKGSNA 187 L P ++ Y V G++ + + +++ G+V++ C +T +T+K S A Sbjct: 119 HKLISPKKDVIKKYYVEVDGELKVEHVTIIRDGVVLEDGYKTKCAALEILTSNTEK-SRA 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++++ EGK ++K++ + V L R+S G L Sbjct: 178 YISI--TEGKFHQVKRMMKSLGVNVTYLKRLSIGSLVL 213 >gi|330004789|ref|ZP_08305026.1| ribosomal large subunit pseudouridine synthase F [Klebsiella sp. MS 92-3] gi|328536522|gb|EGF62861.1| ribosomal large subunit pseudouridine synthase F [Klebsiella sp. MS 92-3] Length = 284 Score = 75.9 bits (185), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 114/227 (50%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRFIEQGNVFING---KRATIGDQVKPGDLVKVNGRLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP+G+V+T D + R + D + + R+ +GRLD +++GL+ LTN G L Sbjct: 65 DDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLTGIPLGEWRDLT 225 >gi|219115295|ref|XP_002178443.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217410178|gb|EEC50108.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 252 Score = 75.9 bits (185), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 109/235 (46%), Gaps = 18/235 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K++A G SRRE R I Q VKVNG++ A V TD +E+ + + + Sbjct: 9 RLNKLLAHQGWCSRREANRFIEQGLVKVNGVVSRDA--RVAPTDTVELLPQAVTVQAQQK 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-----SVGRLDINTEGLLLLTNDGG 129 L HKP+G V++ + D + +F + GRLDIN+ GLL+LT G Sbjct: 67 TILVHKPVGYVSSQPETDSIPQEQASSRRLFHPRTQLGWATAGRLDINSTGLLVLTQSGR 126 Query: 130 LARVLELPSTQWLRVYRVRF-------HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 +A+ L P + + Y VR Q L L+ GI G++ + + Sbjct: 127 VAKTLIGPDVRVDKEYLVRVRPSPFFDRNQSTAAVLERLRDGIR----DAGELLHAVSVE 182 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + L EGK+R I+++ +V+ L R+ G LG L G R ++ Sbjct: 183 RVNTDQLRFVLHEGKHRHIRRMCRAVGLEVDGLKRVRIGEIVLGNLPVGQWRYLA 237 >gi|172058280|ref|YP_001814740.1| pseudouridine synthase [Exiguobacterium sibiricum 255-15] gi|171990801|gb|ACB61723.1| pseudouridine synthase [Exiguobacterium sibiricum 255-15] Length = 239 Score = 75.9 bits (185), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 62/233 (26%), Positives = 120/233 (51%), Gaps = 15/233 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ K+++ G SR+EV++++ ++V+G ++ +V + + + + G P+ + Sbjct: 2 RLDKLLSNMGAGSRKEVKQLLKSGAIQVDGEIVYDPKQHVDTENQQVLLYGEPVTYQKFI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV---FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + +KP G+++ D ++ + FD++ + + VGRLD +TEGLLLLTNDG Sbjct: 62 YLMM-NKPPGVISATEDKRDQTVIDLLFDDV--TYFKPFPVGRLDKDTEGLLLLTNDGSF 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY----GDMQVTLDTQKGSN 186 L P +VY G + ++ + + +G+ ++ Y G + + T + S Sbjct: 119 NHALMSPKKHVEKVYYAEVIGTLTEEDVEEVAEGVTLED-GYKTKPGKLIILEATDETST 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +T+ EGK ++K++ +V L R+S G L TL AG RE+++ Sbjct: 178 LELTI--TEGKFHQVKRMMLALGKEVTYLKRLSIGQLPLDPTLEAGEYRELTR 228 >gi|315641868|ref|ZP_07896860.1| ribosomal small subunit pseudouridine synthase A [Enterococcus italicus DSM 15952] gi|315482436|gb|EFU72976.1| ribosomal small subunit pseudouridine synthase A [Enterococcus italicus DSM 15952] Length = 272 Score = 75.9 bits (185), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 67/223 (30%), Positives = 112/223 (50%), Gaps = 10/223 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILL--ERAAVNVMSTDHIEVDGVPLRKAER 72 R+ K +A + SR+EV++ I + +V VNG + ++A +N D I +G + + ++ Sbjct: 25 RLDKFLATMQLGSRKEVKQFIKKGKVTVNGEITRSDKAQINEYE-DQISFEG-EVIQYQK 82 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D + TV D L R + VGRLD +TEGLL+LTNDG L Sbjct: 83 DYYYLLNKPAGVISATVD-NYDETVMDLLVDEDFREDLFPVGRLDKDTEGLLVLTNDGQL 141 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QG-ICY-GDMQVTLDTQKGSNA 187 A L P + Y G + + + L +G++I QG C + + + + Sbjct: 142 AHRLLSPKKHVEKEYHATVAGVMTAEDVALFSEGLMIDQGEQCLPAKLTILSVDESAQTS 201 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +++ L EGK ++K++ +V L RI G L LA Sbjct: 202 QISLILHEGKFHQVKRMVAAVGKEVVYLKRIRMGQLTLDESLA 244 >gi|193063125|ref|ZP_03044217.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli E22] gi|193067850|ref|ZP_03048816.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli E110019] gi|194426901|ref|ZP_03059454.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli B171] gi|260846816|ref|YP_003224594.1| 23S rRNA pseudouridine synthase [Escherichia coli O103:H2 str. 12009] gi|192931384|gb|EDV83986.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli E22] gi|192958825|gb|EDV89262.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli E110019] gi|194415237|gb|EDX31506.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli B171] gi|257761963|dbj|BAI33460.1| 23S rRNA pseudouridine synthase [Escherichia coli O103:H2 str. 12009] gi|323161320|gb|EFZ47228.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli E128010] Length = 290 Score = 75.9 bits (185), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|24115303|ref|NP_709813.1| 23S rRNA pseudouridine synthase F [Shigella flexneri 2a str. 301] gi|30064697|ref|NP_838868.1| 23S rRNA pseudouridine synthase F [Shigella flexneri 2a str. 2457T] gi|74314515|ref|YP_312934.1| 23S rRNA pseudouridine synthase F [Shigella sonnei Ss046] gi|82546365|ref|YP_410312.1| 23S rRNA pseudouridine synthase F [Shigella boydii Sb227] gi|110807871|ref|YP_691391.1| 23S rRNA pseudouridine synthase F [Shigella flexneri 5 str. 8401] gi|187733719|ref|YP_001882708.1| 23S rRNA pseudouridine synthase F [Shigella boydii CDC 3083-94] gi|194432289|ref|ZP_03064577.1| ribosomal large subunit pseudouridine synthase F [Shigella dysenteriae 1012] gi|34098456|sp|Q83IR6|RLUF_SHIFL RecName: Full=Ribosomal large subunit pseudouridine synthase F; AltName: Full=rRNA pseudouridylate synthase F; AltName: Full=rRNA-uridine isomerase F gi|24054601|gb|AAN45520.1| orf, conserved hypothetical protein [Shigella flexneri 2a str. 301] gi|30042957|gb|AAP18679.1| hypothetical protein S3635 [Shigella flexneri 2a str. 2457T] gi|73857992|gb|AAZ90699.1| conserved hypothetical protein [Shigella sonnei Ss046] gi|81247776|gb|ABB68484.1| conserved hypothetical protein [Shigella boydii Sb227] gi|110617419|gb|ABF06086.1| conserved hypothetical protein [Shigella flexneri 5 str. 8401] gi|187430711|gb|ACD09985.1| ribosomal large subunit pseudouridine synthase F [Shigella boydii CDC 3083-94] gi|194419492|gb|EDX35573.1| ribosomal large subunit pseudouridine synthase F [Shigella dysenteriae 1012] gi|281603406|gb|ADA76390.1| Ribosomal large subunit pseudouridine synthase F [Shigella flexneri 2002017] gi|313648678|gb|EFS13118.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri 2a str. 2457T] gi|320187140|gb|EFW61842.1| 23S rRNA pseudouridine synthase F [Shigella flexneri CDC 796-83] gi|332083850|gb|EGI89067.1| ribosomal large subunit pseudouridine synthase F [Shigella boydii 5216-82] gi|332084289|gb|EGI89492.1| ribosomal large subunit pseudouridine synthase F [Shigella dysenteriae 155-74] gi|332087766|gb|EGI92892.1| ribosomal large subunit pseudouridine synthase F [Shigella boydii 3594-74] gi|332752238|gb|EGJ82630.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri K-671] gi|332753238|gb|EGJ83619.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri 2747-71] gi|332764829|gb|EGJ95058.1| 23S rRNA pseudouridine synthase [Shigella flexneri 2930-71] gi|332998087|gb|EGK17691.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri VA-6] gi|332999015|gb|EGK18604.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri K-272] gi|333014244|gb|EGK33600.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri K-304] gi|333014452|gb|EGK33803.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri K-227] Length = 290 Score = 75.9 bits (185), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDIVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|293407757|ref|ZP_06651597.1| 23S rRNA pseudouridine synthase F [Escherichia coli B354] gi|301021535|ref|ZP_07185540.1| conserved hypothetical protein [Escherichia coli MS 69-1] gi|331665691|ref|ZP_08366585.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli TA143] gi|331675512|ref|ZP_08376260.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli TA280] gi|331685769|ref|ZP_08386350.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli H299] gi|291472008|gb|EFF14490.1| 23S rRNA pseudouridine synthase F [Escherichia coli B354] gi|300398018|gb|EFJ81556.1| conserved hypothetical protein [Escherichia coli MS 69-1] gi|331056742|gb|EGI28736.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli TA143] gi|331067286|gb|EGI38693.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli TA280] gi|331076966|gb|EGI48183.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli H299] Length = 290 Score = 75.9 bits (185), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|262045577|ref|ZP_06018597.1| ribosomal large subunit pseudouridine synthase F [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|259037074|gb|EEW38325.1| ribosomal large subunit pseudouridine synthase F [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] Length = 291 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 114/227 (50%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRFIEQGNVFING---KRATIGDQVKPGDLVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP+G+V+T D + R + D + + R+ +GRLD +++GL+ LTN G L Sbjct: 65 DDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLTGIPLGEWRDLT 225 >gi|256019605|ref|ZP_05433470.1| 23S rRNA pseudouridine synthase F [Shigella sp. D9] gi|332280733|ref|ZP_08393146.1| 23S rRNA pseudouridine synthase F [Shigella sp. D9] gi|332103085|gb|EGJ06431.1| 23S rRNA pseudouridine synthase F [Shigella sp. D9] Length = 290 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDIVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|325982095|ref|YP_004294497.1| pseudouridine synthase Rsu [Nitrosomonas sp. AL212] gi|325531614|gb|ADZ26335.1| pseudouridine synthase Rsu [Nitrosomonas sp. AL212] Length = 184 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 50/179 (27%), Positives = 89/179 (49%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP G++ + G ++ D +P F+ GRLD ++EGL+LLT++G L Sbjct: 3 RIILFNKPYGVICQFTPTCGHRSLQDFIP--FAGFYPAGRLDADSEGLVLLTDNGKLQDK 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------- 184 + P + + Y V+ G+ D LN +++GIV+ QV+L + Sbjct: 61 ICSPKYKLSKTYWVQVEGKPDDVALNAMRRGIVLSDFKTKSAQVSLMNEPSFIWDRQPPI 120 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+++ L+EGKNR+I+++ + RLIR + G L + G R ++ Sbjct: 121 RFRKSIPTTWLSLILKEGKNRQIRRMTAAVFFPTLRLIRYAIGLHTLKGIAPGEWRMLA 179 >gi|197284775|ref|YP_002150647.1| ribosomal large subunit pseudouridine synthase E [Proteus mirabilis HI4320] gi|227357781|ref|ZP_03842130.1| RluE protein [Proteus mirabilis ATCC 29906] gi|194682262|emb|CAR41996.1| ribosomal large subunit pseudouridine synthase E [Proteus mirabilis HI4320] gi|227162110|gb|EEI47124.1| RluE protein [Proteus mirabilis ATCC 29906] Length = 209 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 50/187 (26%), Positives = 89/187 (47%), Gaps = 17/187 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P R ++ +++KP ++ +D GR T+ D +P + + GRLD ++EGLL+LT Sbjct: 23 PSRPRGERKVIIFNKPFDVLVQFTDDSGRKTLKDFIP--IPDIYAAGRLDRDSEGLLVLT 80 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---------------I 170 NDG L L P+ + +VY + G + L ++G+ ++ Sbjct: 81 NDGKLQAKLTQPNKKTGKVYYAQVEGIPTEIALQQFREGLNLKDGKTLPAKIERVEQPTW 140 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + Q +W+ + L EGKNR+++++ + RLIR S G L LL Sbjct: 141 VWTRFPPIRERQSIPTSWLKITLFEGKNRQVRRMTAHIGYPTLRLIRFSMGNITLDNLLP 200 Query: 231 GSTREVS 237 G +E++ Sbjct: 201 GQWKEIN 207 >gi|120554678|ref|YP_959029.1| pseudouridine synthase [Marinobacter aquaeolei VT8] gi|120324527|gb|ABM18842.1| ribosomal large subunit pseudouridine synthase E [Marinobacter aquaeolei VT8] Length = 202 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 52/183 (28%), Positives = 93/183 (50%), Gaps = 23/183 (12%) Query: 74 RLWLYHKPIGLVTTHSDPDG---RSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP +++ +D R+T+ D + P ++ GRLD ++EGLLLLT+ G Sbjct: 3 KLILFNKPFHVLSQFTDERASHPRATLADWIDQPGVYP----AGRLDYDSEGLLLLTDQG 58 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT------ 181 L + P+ + + Y V+ G++ + L+ L+KG+V++ GI L+T Sbjct: 59 ALQHRIASPTNKMPKTYWVQVEGELTDEALHKLRKGVVLKDGITRPARAERLETPDLWPR 118 Query: 182 -------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 Q W+ + + EGKNR+++++ + RLIR+ G + L L G R Sbjct: 119 NPPVRFRQNVPTTWLALTITEGKNRQVRRMTAAVGYPTLRLIRVRIGDWTLDNLKPGEYR 178 Query: 235 EVS 237 V+ Sbjct: 179 SVT 181 >gi|126696606|ref|YP_001091492.1| pseudouridine synthase, Rsu [Prochlorococcus marinus str. MIT 9301] gi|126543649|gb|ABO17891.1| Pseudouridine synthase, Rsu [Prochlorococcus marinus str. MIT 9301] Length = 240 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 56/206 (27%), Positives = 106/206 (51%), Gaps = 8/206 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRRE +++I + +V +NG + E V D +EV G + K++R + Sbjct: 4 RINKYLSEVGYCSRREADKLILEGKVTINGEIPE-IGTKVEDNDQVEVKGQRIEKSKRQK 62 Query: 75 -LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++L ++KP+G+V T + V D + R+ +GRLD +EGL+ LTNDG + Sbjct: 63 NIYLAFNKPVGIVCTTDKKLEPNNVIDFI-KYPKRIFPIGRLDKLSEGLIFLTNDGDIVN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V+ + ++ + + + G+ I + V Q G + + Sbjct: 122 KILRARNNHEKEYIVKVNRPINSNFIKSMSNGVEILDTITKNCFV---EQLGPRNFKII- 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRI 218 L +G NR+I+++ E ++V L R+ Sbjct: 178 LTQGLNRQIRRMCEALGYRVRSLKRV 203 >gi|91214943|ref|ZP_01251915.1| putative ribosomal large subunit pseudouridine synthase [Psychroflexus torquis ATCC 700755] gi|91186548|gb|EAS72919.1| putative ribosomal large subunit pseudouridine synthase [Psychroflexus torquis ATCC 700755] Length = 272 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 56/226 (24%), Positives = 108/226 (47%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G+ SRR+ + I V VNG ++ +V D ++ DG + + Sbjct: 41 RLNKYISNSGVCSRRDADIYIKSGNVTVNGEVIIEMGHHVKLEDEVKFDGRRINPEPKAY 100 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP T S G+ T D + + S++ VG+LD + GL+L TNDG LA+ Sbjct: 101 VLL-NKPKSFYVTGSYEKGKLTALDLVQNASKSKLAPVGKLDTSAMGLILFTNDGTLAKK 159 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L ++Y+V + + L ++K G I+G + + N V + L Sbjct: 160 LSGHKNGIRQIYQVELTKPLRESDLEVIKDGPFIEGSKVKIEEAAFVDNRPKN-IVGLEL 218 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 R + ++++F+ +++ ++ R+ Y L G R ++++ Sbjct: 219 RSQRAHIVQRIFKKLGYEIEKMDRVIYANLDKKNLPRGHYRHLTRQ 264 >gi|238786961|ref|ZP_04630761.1| Ribosomal large subunit pseudouridine synthase F [Yersinia frederiksenii ATCC 33641] gi|238724749|gb|EEQ16389.1| Ribosomal large subunit pseudouridine synthase F [Yersinia frederiksenii ATCC 33641] Length = 289 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 61/227 (26%), Positives = 116/227 (51%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +RA + V + D ++V+G + R Sbjct: 7 RLNKYISESGICSRRDADRYIEQGNVFING---KRAVIGDQVYAGDVVKVNGQLIDARDE 63 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L + +KP+G+++T D + + V + + R+ +GRLD +++GL+ LTN G L Sbjct: 64 DDLVLIVLNKPVGIISTTEDSEHNNIV--DFVNHSKRIFPIGRLDKDSQGLIFLTNQGDL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V ++ + L G+ + G + +K S Sbjct: 122 VNKVLRAGNDHEKEYVVTVNKPVTEEFILGLGAGVPM----LGTVTKKCKVKKVSTFVFN 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ ++F ++V +L R L L G R+++ Sbjct: 178 ITLVQGLNRQIRRMCQYFGYEVTKLERTRIMNINLKGLPLGEWRDLN 224 >gi|53805209|ref|YP_113067.1| RNA pseudouridine synthase family protein [Methylococcus capsulatus str. Bath] gi|53758970|gb|AAU93261.1| RNA pseudouridine synthase family protein [Methylococcus capsulatus str. Bath] Length = 198 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 50/181 (27%), Positives = 92/181 (50%), Gaps = 18/181 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +R+ +++KP G++T +D + GR+T+ D +P V GRLD ++EGL++LT+DG L Sbjct: 2 SRIIVFNKPYGVLTQFTDREHGRATLADFIP--IPGVRPAGRLDRDSEGLIVLTDDGRLQ 59 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------- 184 + P + + YRV+ G D+ LN L++G+ + + + + Sbjct: 60 ARIADPRHKMAKTYRVQVEGLPDEAALNRLRRGVRLNDGLTLPAEANIIPEPAWLWPRDP 119 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+ + +REG+NR+++++ + RLIR + G + L L G RE+ Sbjct: 120 PVRFRATIPTTWLELVIREGRNRQVRRMTAAVGFPTLRLIRWAIGAWTLEGLAPGEWREL 179 Query: 237 S 237 Sbjct: 180 P 180 >gi|50121367|ref|YP_050534.1| putative RNA pseudouridylate synthase [Pectobacterium atrosepticum SCRI1043] gi|49611893|emb|CAG75342.1| putative RNA pseudouridylate synthase [Pectobacterium atrosepticum SCRI1043] Length = 218 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 51/179 (28%), Positives = 88/179 (49%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GRST+ D +P S + + GRLD ++EGL++LTNDG L Sbjct: 40 RIVLFNKPFDVLPQFTDEAGRSTLKDYIP--ISGIYAAGRLDRDSEGLMILTNDGKLQAQ 97 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKG--------------IVIQGICYGDMQVTL 179 L P+ + ++Y V+ G D L + G IV + + Sbjct: 98 LTQPTKKTAKIYYVQVEGIPDDAILTRFRTGLELNDGKTQPAGAEIVPEPDWLWPRNPPI 157 Query: 180 DTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +K + W+ + L EG+NR+++++ + RLIR S + LL G +E++ Sbjct: 158 RERKSIPDCWLKITLYEGRNRQVRRMTANIGYPTLRLIRYSMANQTVENLLPGEWKEIA 216 >gi|157163487|ref|YP_001460805.1| 23S rRNA pseudouridine synthase F [Escherichia coli HS] gi|300916198|ref|ZP_07132950.1| conserved hypothetical protein [Escherichia coli MS 115-1] gi|157069167|gb|ABV08422.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli HS] gi|300416478|gb|EFJ99788.1| conserved hypothetical protein [Escherichia coli MS 115-1] Length = 290 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|75762594|ref|ZP_00742444.1| Ribosomal large subunit pseudouridine synthase F [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|74489914|gb|EAO53280.1| Ribosomal large subunit pseudouridine synthase F [Bacillus thuringiensis serovar israelensis ATCC 35646] Length = 192 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 43/121 (35%), Positives = 71/121 (58%), Gaps = 10/121 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ + Sbjct: 2 KINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDVVTIDGQVIAKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 +++ +HKP+G+ T +D + DN+ R+ VGRLD +EGL+LLTNDG + Sbjct: 61 VYIAFHKPVGITCTAADH-----IEDNIIDYIHYPERIFPVGRLDKASEGLILLTNDGTI 115 Query: 131 A 131 A Sbjct: 116 A 116 >gi|206578740|ref|YP_002241036.1| ribosomal large subunit pseudouridine synthase F [Klebsiella pneumoniae 342] gi|290512420|ref|ZP_06551787.1| ribosomal large subunit pseudouridine synthase F [Klebsiella sp. 1_1_55] gi|206567798|gb|ACI09574.1| ribosomal large subunit pseudouridine synthase F [Klebsiella pneumoniae 342] gi|289775415|gb|EFD83416.1| ribosomal large subunit pseudouridine synthase F [Klebsiella sp. 1_1_55] Length = 291 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 114/227 (50%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRFIEQGNVFING---KRATIGDQVKPGDLVKVNGRLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP+G+V+T D + R + D + + R+ +GRLD +++GL+ LTN G L Sbjct: 65 DDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLTGIPLGEWRDLT 225 >gi|331644758|ref|ZP_08345875.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli H736] gi|331035733|gb|EGI07971.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli H736] Length = 227 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 62/207 (29%), Positives = 107/207 (51%), Gaps = 13/207 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + ++ + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIR 217 + L +G NR+I+++ E F ++V +L R Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLER 205 >gi|323975348|gb|EGB70451.1| RNA pseudouridylate synthase [Escherichia coli TW10509] Length = 290 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|289677892|ref|ZP_06498782.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae FF5] Length = 230 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 107/227 (47%), Gaps = 9/227 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R++V +A RV+V+G V + +D L+ + R Sbjct: 2 RLDRFLSNLPRFNRQQVRLALASGRVQVDGQATRDPHHEVREFSCVALDEEILQAGKVPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ SD TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPEGCVSATSDAQ-HPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ +G+ + + Q+TL + + + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAAKFAEGLYFAFENLTTQPAQLTLLGPQSARLSIV- 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 EG+ ++K++F F+ KV RL R + G L L GS R ++ Sbjct: 180 ---EGRYHQVKRMFGHFDNKVLRLHRETIGALALDPGLRPGSYRALN 223 >gi|188532201|ref|YP_001905998.1| 23S rRNA pseudouridine synthase F [Erwinia tasmaniensis Et1/99] gi|188027243|emb|CAO95082.1| Ribosomal large subunit pseudouridine synthase F [Erwinia tasmaniensis Et1/99] Length = 293 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 117/233 (50%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I +GI SRR+ +R I Q V +NG +RA+V V++ D ++V+G + R Sbjct: 8 RLNKYIGESGICSRRDADRYIEQGNVFING---KRASVGDRVLAGDVVKVNGQLIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E + +KP+G+V+T + + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVVIALNKPVGIVSTTEEGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V ++ + L G+ + G +V + S Sbjct: 123 VNKILRAGNDHEKEYLVTVNKPVTEEFIRGLGAGVPMLGTVTKKCKVKKE----STFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E F ++V +L R L L G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMSEHFGYEVTKLERTRIMNVSLKGLPPGEWRDLTDDELIE 231 >gi|152972885|ref|YP_001338031.1| 23S rRNA pseudouridine synthase F [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|238892493|ref|YP_002917227.1| 23S rRNA pseudouridine synthase F [Klebsiella pneumoniae NTUH-K2044] gi|288937681|ref|YP_003441740.1| pseudouridine synthase [Klebsiella variicola At-22] gi|150957734|gb|ABR79764.1| pseudouridine synthase [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|238544809|dbj|BAH61160.1| pseudouridine synthase [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] gi|288892390|gb|ADC60708.1| pseudouridine synthase [Klebsiella variicola At-22] Length = 291 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 114/227 (50%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRFIEQGNVFING---KRATIGDQVKPGDLVKVNGRLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP+G+V+T D + R + D + + R+ +GRLD +++GL+ LTN G L Sbjct: 65 DDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLTGIPLGEWRDLT 225 >gi|54296835|ref|YP_123204.1| hypothetical protein lpp0876 [Legionella pneumophila str. Paris] gi|53750620|emb|CAH12027.1| hypothetical protein lpp0876 [Legionella pneumophila str. Paris] Length = 200 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 54/180 (30%), Positives = 86/180 (47%), Gaps = 20/180 (11%) Query: 74 RLWLYHKPIGLVT--THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP G++T T P+ + F LP ++ GRLD +EGLL+LT+DG L Sbjct: 3 QLILFNKPYGILTQFTGELPEQTLSAFIKLPGFYA----AGRLDKQSEGLLILTDDGKLQ 58 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------- 184 L P + + Y V+ G L L+KG+VI+ I + + L ++ Sbjct: 59 HRLTHPKFEKKKHYWVQVEGVPTDKDLQPLRKGLVIKDITFLPAEARLISEPKIWPRIPP 118 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ + LREGKN +I+K+ + RLIR G + L L G + ++ Sbjct: 119 IRERKHIPTTWLEIILREGKNHQIRKMTAAIGFPTLRLIRYQIGDWHLDQLQPGEYKLIN 178 >gi|109898693|ref|YP_661948.1| pseudouridine synthase, Rsu [Pseudoalteromonas atlantica T6c] gi|109700974|gb|ABG40894.1| ribosomal large subunit pseudouridine synthase E [Pseudoalteromonas atlantica T6c] Length = 192 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 50/185 (27%), Positives = 90/185 (48%), Gaps = 16/185 (8%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P A RT++ L++KP ++T +D GR T+ D +P + + GRLD ++EGLL+LT Sbjct: 9 PKTPASRTKIVLFNKPFNVLTQFTDATGRQTLKDFIP--IPDIYASGRLDKDSEGLLVLT 66 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P + + Y V+ G + +L L+ G+ ++ +V + Sbjct: 67 NDGKLQSKLTDPKKKTSKTYWVQVEGIPQERQLQALRDGVELKDGLTRPAKVESMPEPAL 126 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +W+++ + EGKNR+++++ + RL+R G + L + G Sbjct: 127 WPRTPPVRFRQSIPTSWLSITISEGKNRQVRRMTAHIGFPTLRLVRYRIGNWTLDGIDTG 186 Query: 232 STREV 236 E+ Sbjct: 187 QYVEL 191 >gi|170682433|ref|YP_001746411.1| 23S rRNA pseudouridine synthase F [Escherichia coli SMS-3-5] gi|218702664|ref|YP_002410293.1| 23S rRNA pseudouridine synthase F [Escherichia coli IAI39] gi|300939713|ref|ZP_07154358.1| conserved hypothetical protein [Escherichia coli MS 21-1] gi|331660590|ref|ZP_08361522.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli TA206] gi|170520151|gb|ACB18329.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli SMS-3-5] gi|218372650|emb|CAR20525.1| 23S rRNA pseudouridine synthase [Escherichia coli IAI39] gi|284924116|emb|CBG37215.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 042] gi|300455410|gb|EFK18903.1| conserved hypothetical protein [Escherichia coli MS 21-1] gi|315300783|gb|EFU60008.1| conserved hypothetical protein [Escherichia coli MS 16-3] gi|323190114|gb|EFZ75392.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli RN587/1] gi|331051632|gb|EGI23671.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli TA206] Length = 290 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|239637925|ref|ZP_04678886.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus warneri L37603] gi|239596488|gb|EEQ79024.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus warneri L37603] Length = 230 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 63/217 (29%), Positives = 105/217 (48%), Gaps = 8/217 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++ + + VKVN +++ + + D I V+ + ++ Sbjct: 2 RLDKFLANMGVGTRNEVKQSLKKGYVKVNNEVIKSPKTQIDPNEDIITVNDEKIIYIDKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G+V+ D D TV D +P + VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPSGVVSATED-DKHQTVIDLIPEYQHLEIFPVGRLDKDTEGLLLITNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V V Q + K+G+ + Q+ + + S V Sbjct: 120 DLMSPNKHVPKTYEVVSKNDVTQSDVERFKEGLELSDGLVKPAQLEIIENRRSR----VT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + EGK ++K++F +V +L RI +L T L Sbjct: 176 IYEGKYHQVKRMFHEIENEVLQLKRIKIANLELDTSL 212 >gi|254412396|ref|ZP_05026170.1| conserved hypothetical protein [Microcoleus chthonoplastes PCC 7420] gi|196180706|gb|EDX75696.1| conserved hypothetical protein [Microcoleus chthonoplastes PCC 7420] Length = 189 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 53/178 (29%), Positives = 89/178 (50%), Gaps = 19/178 (10%) Query: 77 LYHKPIGLVTTHSDPDG--RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +++KP +++ +D + R T+ D +P S V VGRLD ++EGLLLLTN G L L Sbjct: 1 MFYKPYDVLSQFTDREDSPRRTLKDYIP--VSEVYPVGRLDRDSEGLLLLTNHGRLQHRL 58 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------- 184 P + R Y V+ D+ LN L++G+VI+ QV +Q+ Sbjct: 59 SNPRFRHPRTYWVQVERIPDEAALNQLRQGVVIKDYQTRKAQVQRLSQEPDLPPRDPPIR 118 Query: 185 -----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ + L EG+NR+++++ + RLIR++ +L L G R+++ Sbjct: 119 FRKTVPTCWLEITLTEGRNRQVRRMTAVVGFPTLRLIRVAIAHLRLDGLQPGQWRDLT 176 >gi|28378068|ref|NP_784960.1| pseudouridylate synthase [Lactobacillus plantarum WCFS1] gi|254556281|ref|YP_003062698.1| pseudouridylate synthase [Lactobacillus plantarum JDM1] gi|300769229|ref|ZP_07079117.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum ATCC 14917] gi|308180250|ref|YP_003924378.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum ST-III] gi|28270902|emb|CAD63807.1| pseudouridylate synthase [Lactobacillus plantarum WCFS1] gi|254045208|gb|ACT62001.1| pseudouridylate synthase [Lactobacillus plantarum JDM1] gi|300493258|gb|EFK28438.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum ATCC 14917] gi|308045741|gb|ADN98284.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum ST-III] Length = 246 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 62/231 (26%), Positives = 114/231 (49%), Gaps = 11/231 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG--ILLERAAVNVMSTDHIEVDGVPLRKAER 72 RV K + I +R +V R+I + NG ++ + +N S D + +D V +R ++ Sbjct: 2 RVDKFLHAMRIGTRTQVRRLIKDGHITANGEPVISGKQQINPGS-DTVFLDDVQVRY-QQ 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP+G++T +D + TV D N + VGRLD +TEG+L++TNDG L Sbjct: 60 YFYYVMNKPVGVITATTDSAAK-TVMDLFNTTDFRDDLFPVGRLDKDTEGILVITNDGAL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNA 187 + L P+ +VY G++ +L GI ++ + ++ + + Sbjct: 119 SHDLLSPNHHVTKVYEAEVTGEITAAQLANFNDGITLKDGTELQPAQAEIVQFHEIENFT 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 + + + EGK ++K++ +V L RI +G L LLAG+ R ++ Sbjct: 179 TIRIMIHEGKYHQVKRMVGTLGERVVGLRRIKFGSLTLPVGLLAGNYRALT 229 >gi|15804615|ref|NP_290656.1| 23S rRNA pseudouridine synthase F [Escherichia coli O157:H7 EDL933] gi|15834259|ref|NP_313032.1| 23S rRNA pseudouridine synthase F [Escherichia coli O157:H7 str. Sakai] gi|168750850|ref|ZP_02775872.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4113] gi|168755170|ref|ZP_02780177.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4401] gi|168760865|ref|ZP_02785872.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4501] gi|168766260|ref|ZP_02791267.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4486] gi|168774357|ref|ZP_02799364.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4196] gi|168780412|ref|ZP_02805419.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4076] gi|168784615|ref|ZP_02809622.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC869] gi|168798338|ref|ZP_02823345.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC508] gi|195935788|ref|ZP_03081170.1| 23S rRNA pseudouridine synthase F [Escherichia coli O157:H7 str. EC4024] gi|208808749|ref|ZP_03251086.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4206] gi|208811969|ref|ZP_03253298.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4045] gi|208821132|ref|ZP_03261452.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4042] gi|209400390|ref|YP_002273541.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4115] gi|209921498|ref|YP_002295582.1| 23S rRNA pseudouridine synthase F [Escherichia coli SE11] gi|217325648|ref|ZP_03441732.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. TW14588] gi|254796022|ref|YP_003080859.1| 23S rRNA pseudouridine synthase F [Escherichia coli O157:H7 str. TW14359] gi|261223462|ref|ZP_05937743.1| 23S rRNA pseudouridine synthase [Escherichia coli O157:H7 str. FRIK2000] gi|261256997|ref|ZP_05949530.1| 23S rRNA pseudouridine synthase [Escherichia coli O157:H7 str. FRIK966] gi|291285439|ref|YP_003502257.1| Ribosomal large subunit pseudouridine synthase F [Escherichia coli O55:H7 str. CB9615] gi|293417527|ref|ZP_06660149.1| 23S rRNA pseudouridine synthase F [Escherichia coli B185] gi|331655840|ref|ZP_08356828.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli M718] gi|34098615|sp|Q8X4L9|RLUF_ECO57 RecName: Full=Ribosomal large subunit pseudouridine synthase F; AltName: Full=rRNA pseudouridylate synthase F; AltName: Full=rRNA-uridine isomerase F gi|12518965|gb|AAG59221.1|AE005635_1 orf, hypothetical protein [Escherichia coli O157:H7 str. EDL933] gi|13364481|dbj|BAB38428.1| hypothetical protein [Escherichia coli O157:H7 str. Sakai] gi|187769953|gb|EDU33797.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4196] gi|188015005|gb|EDU53127.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4113] gi|189001699|gb|EDU70685.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4076] gi|189357499|gb|EDU75918.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4401] gi|189364343|gb|EDU82762.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4486] gi|189368503|gb|EDU86919.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4501] gi|189374896|gb|EDU93312.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC869] gi|189379218|gb|EDU97634.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC508] gi|208728550|gb|EDZ78151.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4206] gi|208733246|gb|EDZ81933.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4045] gi|208741255|gb|EDZ88937.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4042] gi|209161790|gb|ACI39223.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4115] gi|209751528|gb|ACI74071.1| hypothetical protein ECs5005 [Escherichia coli] gi|209751530|gb|ACI74072.1| hypothetical protein ECs5005 [Escherichia coli] gi|209751532|gb|ACI74073.1| hypothetical protein ECs5005 [Escherichia coli] gi|209751534|gb|ACI74074.1| hypothetical protein ECs5005 [Escherichia coli] gi|209751536|gb|ACI74075.1| hypothetical protein ECs5005 [Escherichia coli] gi|209914757|dbj|BAG79831.1| putative pseudouridine synthase [Escherichia coli SE11] gi|217321869|gb|EEC30293.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. TW14588] gi|254595422|gb|ACT74783.1| 23S rRNA pseudouridine synthase [Escherichia coli O157:H7 str. TW14359] gi|290765312|gb|ADD59273.1| Ribosomal large subunit pseudouridine synthase F [Escherichia coli O55:H7 str. CB9615] gi|291430245|gb|EFF03243.1| 23S rRNA pseudouridine synthase F [Escherichia coli B185] gi|320190877|gb|EFW65527.1| 23S rRNA pseudouridine synthase F [Escherichia coli O157:H7 str. EC1212] gi|320638776|gb|EFX08422.1| 23S rRNA pseudouridine synthase F [Escherichia coli O157:H7 str. G5101] gi|320644144|gb|EFX13209.1| 23S rRNA pseudouridine synthase F [Escherichia coli O157:H- str. 493-89] gi|320649463|gb|EFX17987.1| 23S rRNA pseudouridine synthase F [Escherichia coli O157:H- str. H 2687] gi|320654859|gb|EFX22820.1| 23S rRNA pseudouridine synthase F [Escherichia coli O55:H7 str. 3256-97 TW 07815] gi|320660707|gb|EFX28164.1| 23S rRNA pseudouridine synthase F [Escherichia coli O55:H7 str. USDA 5905] gi|320665636|gb|EFX32673.1| 23S rRNA pseudouridine synthase F [Escherichia coli O157:H7 str. LSU-61] gi|324017076|gb|EGB86295.1| hypothetical protein HMPREF9542_04288 [Escherichia coli MS 117-3] gi|326340567|gb|EGD64365.1| 23S rRNA pseudouridine synthase F [Escherichia coli O157:H7 str. 1125] gi|326342524|gb|EGD66299.1| 23S rRNA pseudouridine synthase F [Escherichia coli O157:H7 str. 1044] gi|331046194|gb|EGI18284.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli M718] Length = 290 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|157156860|ref|YP_001465515.1| 23S rRNA pseudouridine synthase F [Escherichia coli E24377A] gi|170021980|ref|YP_001726934.1| 23S rRNA pseudouridine synthase F [Escherichia coli ATCC 8739] gi|188492339|ref|ZP_02999609.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 53638] gi|191167475|ref|ZP_03029289.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli B7A] gi|218556572|ref|YP_002389486.1| 23S rRNA pseudouridine synthase F [Escherichia coli IAI1] gi|218697724|ref|YP_002405391.1| 23S rRNA pseudouridine synthase F [Escherichia coli 55989] gi|293476325|ref|ZP_06664733.1| 23S rRNA pseudouridine synthase F [Escherichia coli B088] gi|300817929|ref|ZP_07098142.1| conserved hypothetical protein [Escherichia coli MS 107-1] gi|300823552|ref|ZP_07103680.1| conserved hypothetical protein [Escherichia coli MS 119-7] gi|300924275|ref|ZP_07140255.1| hypothetical protein HMPREF9548_02431 [Escherichia coli MS 182-1] gi|301330618|ref|ZP_07223223.1| conserved hypothetical protein [Escherichia coli MS 78-1] gi|307312141|ref|ZP_07591778.1| pseudouridine synthase [Escherichia coli W] gi|309795820|ref|ZP_07690234.1| conserved hypothetical protein [Escherichia coli MS 145-7] gi|312974192|ref|ZP_07788363.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 1827-70] gi|331670876|ref|ZP_08371710.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli TA271] gi|331680144|ref|ZP_08380803.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli H591] gi|157078890|gb|ABV18598.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli E24377A] gi|169756908|gb|ACA79607.1| pseudouridine synthase [Escherichia coli ATCC 8739] gi|188487538|gb|EDU62641.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 53638] gi|190902517|gb|EDV62252.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli B7A] gi|218354456|emb|CAV01282.1| 23S rRNA pseudouridine synthase [Escherichia coli 55989] gi|218363341|emb|CAR00994.1| 23S rRNA pseudouridine synthase [Escherichia coli IAI1] gi|291320778|gb|EFE60220.1| 23S rRNA pseudouridine synthase F [Escherichia coli B088] gi|300419503|gb|EFK02814.1| hypothetical protein HMPREF9548_02431 [Escherichia coli MS 182-1] gi|300523884|gb|EFK44953.1| conserved hypothetical protein [Escherichia coli MS 119-7] gi|300529339|gb|EFK50401.1| conserved hypothetical protein [Escherichia coli MS 107-1] gi|300843430|gb|EFK71190.1| conserved hypothetical protein [Escherichia coli MS 78-1] gi|306907948|gb|EFN38449.1| pseudouridine synthase [Escherichia coli W] gi|308120481|gb|EFO57743.1| conserved hypothetical protein [Escherichia coli MS 145-7] gi|310331726|gb|EFP98982.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 1827-70] gi|315063343|gb|ADT77670.1| 23S rRNA pseudouridine synthase [Escherichia coli W] gi|320200854|gb|EFW75440.1| 23S rRNA pseudouridine synthase F [Escherichia coli EC4100B] gi|323182119|gb|EFZ67529.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 1357] gi|323380593|gb|ADX52861.1| pseudouridine synthase [Escherichia coli KO11] gi|323946150|gb|EGB42184.1| RNA pseudouridylate synthase [Escherichia coli H120] gi|324118589|gb|EGC12481.1| RNA pseudouridylate synthase [Escherichia coli E1167] gi|331061790|gb|EGI33715.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli TA271] gi|331071607|gb|EGI42943.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Escherichia coli H591] Length = 290 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|260858132|ref|YP_003232023.1| 23S rRNA pseudouridine synthase [Escherichia coli O26:H11 str. 11368] gi|260870735|ref|YP_003237137.1| 23S rRNA pseudouridine synthase [Escherichia coli O111:H- str. 11128] gi|257756781|dbj|BAI28283.1| 23S rRNA pseudouridine synthase [Escherichia coli O26:H11 str. 11368] gi|257767091|dbj|BAI38586.1| 23S rRNA pseudouridine synthase [Escherichia coli O111:H- str. 11128] gi|323155588|gb|EFZ41764.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli EPECa14] gi|323174457|gb|EFZ60082.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli LT-68] gi|323177584|gb|EFZ63169.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 1180] Length = 290 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDIVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|317054344|ref|YP_004118369.1| pseudouridine synthase [Pantoea sp. At-9b] gi|316952339|gb|ADU71813.1| pseudouridine synthase [Pantoea sp. At-9b] Length = 290 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 64/233 (27%), Positives = 113/233 (48%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +RA+V V + D ++V+G + R Sbjct: 8 RLNKYISESGICSRRDADRYIEQGNVFING---KRASVGAQVFAGDEVKVNGQLIEPRDE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G++TT +G + + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIITTME--EGERDNISDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ + G +V + S Sbjct: 123 VNKILRAGNNHEKEYVVTVDKPITDEFITGMGAGVPMLGTVTKKCKVKKE----STFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ + F ++V +L R L L G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMTKHFGYEVTKLERTRIMNVNLKGLPLGEWRDLTDDELIE 231 >gi|229060031|ref|ZP_04197402.1| Pseudouridine synthase [Bacillus cereus AH603] gi|228719250|gb|EEL70858.1| Pseudouridine synthase [Bacillus cereus AH603] Length = 227 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 112/227 (49%), Gaps = 11/227 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I +++V +NG + + V D + V+G LR A Sbjct: 2 RINKFISEAGKASRRGADKLINERKVIING-KVAKIGDQVNPGDDVRVNGEQLRIARDHV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP+G+ T S+ + + D N P R+ +GRLD +++GL+LLTNDG + Sbjct: 61 YIALNKPVGITCT-SEKAVKGNIIDLVNHPL---RINHIGRLDKDSDGLILLTNDGDIVN 116 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V + + L + G+ I ++T + S + Sbjct: 117 EILRAENKHEKEYIVSVDKPITPEFLEKMAAGVKILDTKTLPCEIT----QLSKYEFEII 172 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 L +G NR+I+++ E ++V L R +L L G R++SKK Sbjct: 173 LTQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKK 219 >gi|222032887|emb|CAP75627.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli LF82] gi|324005948|gb|EGB75167.1| hypothetical protein HMPREF9532_04391 [Escherichia coli MS 57-2] Length = 217 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 50/180 (27%), Positives = 89/180 (49%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQV------------ 177 L P + ++Y V+ G +D L L+ G+ + + G V Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTEDALEALRNGVTLNDGPTLPAGAEMVEEPEWLWPRNPP 156 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G R+ + Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGNYSLDNLANGEWRDAT 216 >gi|288936090|ref|YP_003440149.1| pseudouridine synthase [Klebsiella variicola At-22] gi|288890799|gb|ADC59117.1| pseudouridine synthase [Klebsiella variicola At-22] Length = 216 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 50/175 (28%), Positives = 87/175 (49%), Gaps = 17/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GRST+ D +P + V + GRLD ++EGLL+LTNDG L L Sbjct: 43 LFNKPYDVLPQFTDEAGRSTLKDFIP--VAGVYAAGRLDRDSEGLLVLTNDGALQAKLTQ 100 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL--------DT 181 P + ++Y V+ G+ + L L+ G+ + G+ + L + Sbjct: 101 PGKRTGKIYYVQVEGEPTPEALAALRDGVTLNDGPTLPAGVEVVEEPAWLWPRNPPIRER 160 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + W+ + L EG+NR+++++ + RLIR + G + L L G R+ Sbjct: 161 KSIPTRWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGGYTLDGLANGEWRKA 215 >gi|300716272|ref|YP_003741075.1| ribosomal large subunit pseudouridine synthase E [Erwinia billingiae Eb661] gi|299062108|emb|CAX59224.1| Ribosomal large subunit pseudouridine synthase E [Erwinia billingiae Eb661] Length = 210 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 50/182 (27%), Positives = 89/182 (48%), Gaps = 17/182 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ +++KP ++ SD GRST+ D +P + V + GRLD ++EGL++LTNDG L Sbjct: 29 RVIIFNKPFDVLPQFSDEAGRSTLKDFIP--VAGVYAAGRLDRDSEGLMVLTNDGALQAT 86 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------------- 179 L P + ++Y V+ G D + L+ G+ ++ L Sbjct: 87 LTQPGKRTGKIYYVQVEGIPDISHIQALRDGVNLKDGPTLPAGAELVAEPEWLWPRNPPI 146 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ + L EG+NR+++++ + RLIR + G L L G R+V+ Sbjct: 147 RERKAIPTSWLKITLYEGRNRQVRRMTAQIGFPTLRLIRFAMGTQMLQDLPPGEWRDVTA 206 Query: 239 KI 240 + Sbjct: 207 EF 208 >gi|302875820|ref|YP_003844453.1| pseudouridine synthase [Clostridium cellulovorans 743B] gi|307689254|ref|ZP_07631700.1| pseudouridine synthase [Clostridium cellulovorans 743B] gi|302578677|gb|ADL52689.1| pseudouridine synthase [Clostridium cellulovorans 743B] Length = 226 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 60/207 (28%), Positives = 106/207 (51%), Gaps = 14/207 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+++ G SRRE RMI + R+ VNG + V D I +D P+ E+ Sbjct: 2 RINKLLSNYGYCSRRETNRMIEENRITVNGQNCIKGQW-VEEDDIILIDNEPISLKEKIY 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGLA 131 + ++KP+G+ T TV +N+ + + VGRLD ++GL++LTNDG LA Sbjct: 61 I-AFNKPVGITCTLE-----KTVKNNIGDYINFSDYIFPVGRLDKESQGLIILTNDGDLA 114 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V + + +N + +G+ I G+ QV+ K S+ + Sbjct: 115 NKILESENKHEKEYIVTLNRPFNDSFINGMSEGVEICGVKTRKCQVS----KISDNVFRI 170 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRI 218 L +G N++I+++ + F + V +L RI Sbjct: 171 ILTQGLNKQIRRMSKTFGYTVIKLERI 197 >gi|320187862|gb|EFW62532.1| hypothetical protein ECoD_05570 [Escherichia coli O157:H7 str. EC1212] gi|326339414|gb|EGD63226.1| hypothetical protein ECoA_04444 [Escherichia coli O157:H7 str. 1044] gi|326341463|gb|EGD65254.1| hypothetical protein ECF_03320 [Escherichia coli O157:H7 str. 1125] Length = 177 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 51/177 (28%), Positives = 87/177 (49%), Gaps = 17/177 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L L Sbjct: 3 LFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQARLTQ 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL--------DT 181 P + ++Y V+ G QD L L+ G+ + G D L + Sbjct: 61 PGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPPIRER 120 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + +W+ + L EG+NR+++++ + RLIR + G + L L G RE ++ Sbjct: 121 KSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREATE 177 >gi|307244534|ref|ZP_07526639.1| pseudouridylate synthase [Peptostreptococcus stomatis DSM 17678] gi|306492061|gb|EFM64109.1| pseudouridylate synthase [Peptostreptococcus stomatis DSM 17678] Length = 244 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 67/240 (27%), Positives = 116/240 (48%), Gaps = 22/240 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K+++ G +R E+++M Q V VNG +++ ++ D + ++G +R E Sbjct: 2 RLDKMLSNLGYGTRSEIKKMCRQGMVTVNGQEVKKPDHHIDPDQDQVCLNGQAVRYREYI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 L + +KP G V+ D + TV D + P + VGRLD +TEGLL++TNDG L+ Sbjct: 62 YLMM-NKPAGCVSATYDKYDQ-TVIDLIDPEYLAFEPFPVGRLDKDTEGLLVITNDGQLS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT----------LDT 181 + P ++Y +V + KG+ I GD T + Sbjct: 120 HRVLSPKKHVPKIYYAEIDHEVLARDIEAFSKGVYI-----GDDYTTKPAKLEVIKSFEA 174 Query: 182 QKGS-NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 + G+ ++ + V + EGK ++K++FE V L RI G +L L G RE++++ Sbjct: 175 EDGAIHSEIYVTISEGKFHQVKRMFEAVGKSVLYLKRIQMGGLKLDESLGLGEYRELTEE 234 >gi|261868654|ref|YP_003256576.1| ribosomal small subunit pseudouridine synthase A [Aggregatibacter actinomycetemcomitans D11S-1] gi|261413986|gb|ACX83357.1| ribosomal small subunit pseudouridine synthase A [Aggregatibacter actinomycetemcomitans D11S-1] Length = 233 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 60/217 (27%), Positives = 102/217 (47%), Gaps = 4/217 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A +R + + + Q V +NG + + A V D I DG L + + Sbjct: 2 RLDKFLAEHTGLTRSQATKALRQSAVTINGKIEKSGATKVSPQDAIYFDGELLTWLDVGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +++KP G V +H + + S F + P + +R+ S GRLDI+T GL+LLT+DG + Sbjct: 62 YLMFNKPQGYVCSHDEDEHPSIYQFFDYP-LSARLHSAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ + + +GI+++G L+ N V + + Sbjct: 121 VTSPKHHQPKTYLVTLADPVEANYVQACAEGILLRGEKDPTKPAVLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EG+ ++K++F KV L R G L LA Sbjct: 179 SEGRYHQVKRMFAALGNKVLGLHRWKIGNLTLDDNLA 215 >gi|152976935|ref|YP_001376452.1| pseudouridine synthase [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|152025687|gb|ABS23457.1| pseudouridine synthase [Bacillus cytotoxicus NVH 391-98] Length = 229 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 64/235 (27%), Positives = 115/235 (48%), Gaps = 10/235 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++++ I+ A SRRE +R+I RV +N + + V D + VDG + K E+ + Sbjct: 2 KINQFISEALSCSRRETDRLIKAGRVAMNDKVCTHGVL-VKPDDVVTVDGKVIEKEEKEK 60 Query: 75 LWL-YHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +HKP+G+ T + +G + N P R+ VGRLD +EGL+LLTNDG +A Sbjct: 61 VYIAFHKPVGITCTAAKHIEGNIIAYINYPE---RIFPVGRLDKASEGLILLTNDGKIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V ++ + G+ I+ M + ++ + Sbjct: 118 QILHGDHGHEKEYVVTVDKSFTDGFIHGMSCGVKIK----DGMTKPCKVTRVDDSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 L +G NR+I+++ F + V +L R+ +LG L G R ++ + L+E G Sbjct: 174 LTQGMNRQIRRMSRAFGYTVTKLKRVRIMNIKLGELEVGKWRYLTDEELQELRGA 228 >gi|238796852|ref|ZP_04640357.1| Ribosomal small subunit pseudouridine synthase A [Yersinia mollaretii ATCC 43969] gi|238719340|gb|EEQ11151.1| Ribosomal small subunit pseudouridine synthase A [Yersinia mollaretii ATCC 43969] Length = 235 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 60/238 (25%), Positives = 110/238 (46%), Gaps = 7/238 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV ++G +++ A + + DG PL++ R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGATKLTPESDVRFDGNPLQQTLGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTVG 192 P + Y V V +D G+ + + + +T Q V + Sbjct: 122 TSPRHHCEKTYLVTLEHPVAEDTAQRFADGVQL----HNETSLTKPAQLEIIEPQLVRLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHL 249 L EG+ ++K++F +V L R G L LA G R ++ + + PHL Sbjct: 178 LSEGRYHQVKRMFGAVGNRVLALHRERIGAMILDDDLAPGEYRPLTAEEIASVGAPHL 235 >gi|219685350|ref|ZP_03540169.1| hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Borrelia garinii Far04] gi|219673123|gb|EED30143.1| hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Borrelia garinii Far04] Length = 249 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 66/225 (29%), Positives = 108/225 (48%), Gaps = 10/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-VPLRKAERT 73 RV +A G+ SRR E +I ++ ++VNG + + V D I + + K ++ Sbjct: 8 RVHVFLAEKGVGSRRFCEELIRKKLIRVNG-SIAKLGDKVSPGDRIIYKKQIYVFKDFQS 66 Query: 74 RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGG 129 + +Y +KP + ++ D +GR + +F R+ S+GRLD + GLLL TNDG Sbjct: 67 KNKIYLALNKPRNYLCSNFDVNGRKLAISLVQPLFKERIFSIGRLDFKSSGLLLFTNDGE 126 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P + R Y + +D++ L K GI ++ + ++ K S + Sbjct: 127 FANDIIHPRGKVEREYIIESKKDIDENLLISFKSGIKVKKEFF-KLKSYEILNKNSARLI 185 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 L EGKNREI+KVF N + ++ RI G L L G + Sbjct: 186 ---LDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDNLKEGQVK 227 >gi|213620819|ref|ZP_03373602.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 165 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 45/154 (29%), Positives = 75/154 (48%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 P + Y V V D KG+ + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLH 155 >gi|212634690|ref|YP_002311215.1| pseudouridine synthase Rsu [Shewanella piezotolerans WP3] gi|212556174|gb|ACJ28628.1| Pseudouridine synthase, Rsu [Shewanella piezotolerans WP3] Length = 226 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 48/174 (27%), Positives = 83/174 (47%), Gaps = 16/174 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P V + GRLD ++EGLLLLTNDG L + Sbjct: 48 LFNKPFDVLCQFTDEQGRKTLKDFIP--IQEVYAAGRLDRDSEGLLLLTNDGKLQAQITE 105 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P + + Y V+ G + L L+ G+ ++ +V + + Sbjct: 106 PKKKTFKTYWVQVEGAPSETDLEKLRTGVELKDGLTLPAKVNIMSNPAVWPRNPPIRERA 165 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+T+ + EG+NR+++++ + RLIR G + L L G R++ Sbjct: 166 NIPTTWLTIEICEGRNRQVRRMTANIGFPTLRLIRYKIGQWSLDDLPNGQYRKL 219 >gi|90420204|ref|ZP_01228112.1| ribosomal small subunit pseudouridine synthase A [Aurantimonas manganoxydans SI85-9A1] gi|90335538|gb|EAS49288.1| ribosomal small subunit pseudouridine synthase A [Aurantimonas manganoxydans SI85-9A1] Length = 251 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 70/241 (29%), Positives = 111/241 (46%), Gaps = 16/241 (6%) Query: 12 TP-QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE----VDGVP 66 TP R+ +++A G ASRRE++ + R++++G A + T +E VDG Sbjct: 4 TPTSRLDRLLANMGYASRREIQMLARNGRIQLDGAAFHDADKRIALTPDLETRLVVDGEA 63 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLL 122 L L L HKP+G+ +H + V+D LP + R + +VGRLD T GLL Sbjct: 64 LDPLPGFALML-HKPLGVTCSHKE--AGPLVYDLLPQRWRRRDPAISTVGRLDKETSGLL 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDT 181 L+T+DG L + P + YRV + D+ L G ++++G L+ Sbjct: 121 LMTDDGKLLHRIISPKRHVAKRYRVHLARSMTGDEAALFAAGTLMLEGEEKPLAPAELEV 180 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKI 240 A + V EG+ +++++F V L R S G L LA G+ R + Sbjct: 181 VGPQEALLEV--HEGRYHQVRRMFAATGNHVEALHRESVGGLSLPADLAPGAIRRLDDAD 238 Query: 241 L 241 L Sbjct: 239 L 239 >gi|332346017|gb|AEE59351.1| 23S rRNA pseudouridylate synthase F YjbC [Escherichia coli UMNK88] Length = 277 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|21283425|ref|NP_646513.1| hypothetical protein MW1696 [Staphylococcus aureus subsp. aureus MW2] gi|49486578|ref|YP_043799.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus MSSA476] gi|300911616|ref|ZP_07129060.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus TCH70] gi|21204866|dbj|BAB95561.1| MW1696 [Staphylococcus aureus subsp. aureus MW2] gi|49245021|emb|CAG43482.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus MSSA476] gi|300887037|gb|EFK82238.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus TCH70] Length = 231 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 62/224 (27%), Positives = 106/224 (47%), Gaps = 11/224 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 2 RIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKITVRGELIEYIENV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP ++ D + TV D +P + +VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPKDYISATEDHHSK-TVIDLIPEYQHLNIFTVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + +D + K+G+ + G + +D Q V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLSDGKVKPAILTYIDNQTSH-----V 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 + EGK ++K++F +V L RI +L + L +G R Sbjct: 175 TIYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYR 218 >gi|330981482|gb|EGH79585.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. aptata str. DSM 50252] Length = 230 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 107/227 (47%), Gaps = 9/227 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R++V +A RV+V+G V + +D L+ + R Sbjct: 2 RLDRFLSNLPRFNRQQVRLALASGRVQVDGQATRDPHHEVREFSCVALDEEILQAGKVPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ SD TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 HFMLHKPEGCVSATSDAQ-HPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ +G+ + + Q+TL + + + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAAKFAEGLYFAFENLTTQPAQLTLLGPQSARLSIV- 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 EG+ ++K++F F+ KV RL R + G L L GS R ++ Sbjct: 180 ---EGRYHQVKRMFGHFDNKVLRLHRETIGALALDPNLRPGSYRALN 223 >gi|114768970|ref|ZP_01446596.1| ribosomal large subunit pseudouridine synthase E [alpha proteobacterium HTCC2255] gi|114549887|gb|EAU52768.1| ribosomal large subunit pseudouridine synthase E [alpha proteobacterium HTCC2255] Length = 184 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 48/181 (26%), Positives = 93/181 (51%), Gaps = 25/181 (13%) Query: 77 LYHKPIGLVTTHSD----PDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L++KP +++ +D R T+ F ++P +++ GRLD ++EGLL+LTNDG L Sbjct: 6 LFNKPFNVLSQFTDKGTEASERKTLSEFIDMPGVYA----AGRLDKDSEGLLVLTNDGVL 61 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG----- 184 + + P +W + Y V+ G QD + +L+ G+ ++ GI +D +G Sbjct: 62 QQEISNPKHKWPKTYVVQVEGTPTQDDIKVLESGVTLKDGITKPAEAEIIDKPEGLWDRL 121 Query: 185 ---------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 ++W+ + + EG+NR+++++ + RLIR S G F + + G ++ Sbjct: 122 PPIRYRKAIPDSWLMITITEGRNRQVRRMTAAIGFPTLRLIRYSIGNFTIDDIPNGQWKQ 181 Query: 236 V 236 + Sbjct: 182 L 182 >gi|309788205|ref|ZP_07682811.1| ribosomal large subunit pseudouridine synthase E [Shigella dysenteriae 1617] gi|308924057|gb|EFP69558.1| ribosomal large subunit pseudouridine synthase E [Shigella dysenteriae 1617] gi|320175641|gb|EFW50733.1| 23S rRNA pseudouridine synthase E [Shigella dysenteriae CDC 74-1112] gi|323165643|gb|EFZ51430.1| ribosomal large subunit pseudouridine synthase E [Shigella sonnei 53G] gi|332094422|gb|EGI99471.1| ribosomal large subunit pseudouridine synthase E [Shigella boydii 3594-74] Length = 177 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 51/177 (28%), Positives = 87/177 (49%), Gaps = 17/177 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L L Sbjct: 3 LFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQARLTQ 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL--------DT 181 P + ++Y V+ G QD L L+ G+ + G D L + Sbjct: 61 PGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPPIRER 120 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + +W+ + L EG+NR+++++ + RLIR + G + L L G RE ++ Sbjct: 121 KSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLANGEWREATE 177 >gi|294667800|ref|ZP_06733010.1| pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] gi|292602426|gb|EFF45867.1| pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] Length = 190 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 54/176 (30%), Positives = 86/176 (48%), Gaps = 21/176 (11%) Query: 77 LYHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+++ SD P R+ LP V + GRLD ++EGLLLLT+DG LA Sbjct: 4 LLNKPYGVLSQFSDRSQPPKRTLAEFGLPP---DVYAAGRLDHDSEGLLLLTDDGALAHR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG-------- 184 L P + + Y V+ G ++L L+ G+V+ QV LD Sbjct: 61 LTDPRHKQPKTYWVQVEGAPQAEQLQALRDGVVLNDGPTRPAQVRMLDPAPQLWPRDPPV 120 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +AW+ + + EG+NR+++++ RL+R++ G ++L TL G R Sbjct: 121 RVRKTVPDAWLELQITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLETLAPGQWR 176 >gi|312945697|gb|ADR26524.1| 23S rRNA pseudouridine synthase E [Escherichia coli O83:H1 str. NRG 857C] Length = 207 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 50/180 (27%), Positives = 89/180 (49%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 29 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 86 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQV------------ 177 L P + ++Y V+ G +D L L+ G+ + + G V Sbjct: 87 RLTQPGKRTGKIYYVQVEGIPTEDALEALRNGVTLNDGPTLPAGAEMVEEPEWLWPRNPP 146 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + L EG+NR+++++ + RLIR + G + L L G R+ + Sbjct: 147 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGNYSLDNLANGEWRDAT 206 >gi|331646394|ref|ZP_08347497.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli M605] gi|331045146|gb|EGI17273.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Escherichia coli M605] Length = 217 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 49/180 (27%), Positives = 86/180 (47%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--IQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 L P + ++Y V+ G Q+ L L+ G+ + L + Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQEALEALRNGVTLNDGPTLPAGAELVEEPAWLWPRNPP 156 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR + G + L L G R+ + Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWRDAT 216 >gi|332752067|gb|EGJ82460.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri 4343-70] Length = 290 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 62/207 (29%), Positives = 106/207 (51%), Gaps = 13/207 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDIVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIR 217 + L +G NR+I+++ E F ++V +L R Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLER 205 >gi|320539063|ref|ZP_08038735.1| putative 23S rRNA U2604 pseudouridine synthase [Serratia symbiotica str. Tucson] gi|320030873|gb|EFW12880.1| putative 23S rRNA U2604 pseudouridine synthase [Serratia symbiotica str. Tucson] Length = 288 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 62/227 (27%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +R + V D ++V+G + R Sbjct: 8 RLNKYISESGICSRRDADRYIEQGNVFING---KRVTLGDRVFPGDVVKVNGQVIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP+G+V+T D + + V + + +R+ +GRLD +++GL+ LTN G L Sbjct: 65 DNLIFIALNKPVGIVSTTEDGEKDNIV--DFVNHSTRIFPIGRLDKDSQGLIFLTNQGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + YRV + + D + L G+ + G +V +T Sbjct: 123 VNKILRAGNGHEKEYRVTVNKPLTDDVIRGLGDGVPMLGTVTKKCKVKKETP----LVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E+F ++V +L R L L G R+++ Sbjct: 179 IVLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLIGLPLGEWRDLT 225 >gi|238764926|ref|ZP_04625865.1| Ribosomal large subunit pseudouridine synthase F [Yersinia kristensenii ATCC 33638] gi|238696867|gb|EEP89645.1| Ribosomal large subunit pseudouridine synthase F [Yersinia kristensenii ATCC 33638] Length = 256 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 68/234 (29%), Positives = 117/234 (50%), Gaps = 15/234 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K I+ +GI SRR+ +R I Q V +NG +RAAV V D ++V+G + + Sbjct: 8 RLNKYISESGICSRRDADRYIEQGNVFING---KRAAVGDQVYVGDVVKVNGQLIEPRDE 64 Query: 73 TRLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L +KP+G+++T D G S + + RV +GRLD +++GL+ LTN G L Sbjct: 65 NDLVLIALNKPVGIISTTED--GESDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV- 189 + + Y V + V + + L G+ + G +V + A+V Sbjct: 123 VNKILRAGNDHEKEYVVTVNKPVTDEFILGLGAGVPMLGTVTKKCKVKKEA-----AFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 ++ L +G NR+I+++ + F ++V +L R L L G R+++ L E Sbjct: 178 SITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNVNLKGLPQGEWRDLTDDELTE 231 >gi|75906581|ref|YP_320877.1| pseudouridine synthase, Rsu [Anabaena variabilis ATCC 29413] gi|75700306|gb|ABA19982.1| Pseudouridine synthase, Rsu [Anabaena variabilis ATCC 29413] Length = 204 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 53/179 (29%), Positives = 87/179 (48%), Gaps = 16/179 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++HKP G+++ + + + + V VGRLD ++EGLLLLTN+G L Sbjct: 6 RYIIFHKPYGVLSQFTQESPKHITLKDYIDV-PNVYPVGRLDWDSEGLLLLTNNGRLQHR 64 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--------------CYGDMQVTL 179 L P R Y V+ D++ +N L+ G+ IQ GD Q + Sbjct: 65 LSDPRFGHERTYWVQVERIPDEEAINRLQAGVEIQDYRTRPAKVRLLPEYPPVGDRQPPI 124 Query: 180 DTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +K AW+ + L EGKNR+++++ + RL+R+S G +L L G R+++ Sbjct: 125 RFRKNVPTAWLEMTLTEGKNRQVRRMTAAVGFPTLRLLRVSIGHLRLDGLALGEWRDLT 183 >gi|144900938|emb|CAM77802.1| Ribosomal small subunit pseudouridylate synthase [Magnetospirillum gryphiswaldense MSR-1] Length = 230 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 72/237 (30%), Positives = 110/237 (46%), Gaps = 21/237 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ ++IA G S+R++ ++ RV+ +G E + ++ D I VDG PL Sbjct: 2 RLVRLIANLGYGSQRDIRFLLRDGRVRHADG--RELVESDKVAHDDIRVDGEPLDPPAGL 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTNDGG 129 + L HKP G + SDP GR V++ LP F + VGRLD +T GLLLLT+DG Sbjct: 60 VIML-HKPAGYTCSSSDP-GR-IVYELLPPRFMHRNPVLAPVGRLDRDTTGLLLLTDDGK 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKG 184 L L P + Y V ++ + + G ++ + +QV Q Sbjct: 117 LLHRLTSPRHHVPKTYDVTLDRPLEGTEAEIFASGTLMLRSEKTPLAPAQLQVLGPNQ-- 174 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 A +T L EG+ ++K++F V L R GP LG L G R ++ + L Sbjct: 175 --ARLT--LHEGRYHQVKRMFAAVGNHVVSLHRAGLGPLTLGDLPEGQWRVMAAEEL 227 >gi|294627501|ref|ZP_06706084.1| pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] gi|292598132|gb|EFF42286.1| pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] Length = 190 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 54/176 (30%), Positives = 86/176 (48%), Gaps = 21/176 (11%) Query: 77 LYHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+++ SD P R+ LP V + GRLD ++EGLLLLT+DG LA Sbjct: 4 LLNKPYGVLSQFSDRSQPPKRTLAEFGLPP---DVYAAGRLDHDSEGLLLLTDDGALAHR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG-------- 184 L P + + Y V+ G ++L L+ G+V+ QV LD Sbjct: 61 LTDPRHKQPKTYWVQVEGAPQAEQLQALRDGVVLNDGPTRPAQVRMLDPAPQLWPRDPPV 120 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +AW+ + + EG+NR+++++ RL+R++ G ++L TL G R Sbjct: 121 RVRKTVPDAWLELQITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLETLAPGQWR 176 >gi|198244181|ref|YP_002215898.1| RNA pseudouridine synthase family protein [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|200390314|ref|ZP_03216925.1| RNA pseudouridine synthase family protein [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|197938697|gb|ACH76030.1| RNA pseudouridine synthase family protein [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|199602759|gb|EDZ01305.1| RNA pseudouridine synthase family protein [Salmonella enterica subsp. enterica serovar Virchow str. SL491] Length = 245 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 53/181 (29%), Positives = 88/181 (48%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 64 RVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLTNDGALQAR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + ++Y V+ G D L L+ G+ + GI + Sbjct: 122 LTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLWPRTPPI 181 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ V L EG+NR+++++ RLIR S G + L L G E+++ Sbjct: 182 RERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQWCEIAQ 241 Query: 239 K 239 + Sbjct: 242 E 242 >gi|238752726|ref|ZP_04614196.1| Ribosomal large subunit pseudouridine synthase F [Yersinia rohdei ATCC 43380] gi|238709057|gb|EEQ01305.1| Ribosomal large subunit pseudouridine synthase F [Yersinia rohdei ATCC 43380] Length = 290 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 70/254 (27%), Positives = 126/254 (49%), Gaps = 16/254 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R + Q V +NG +RAAV V + D ++V+G + R Sbjct: 8 RLNKYISESGICSRRDADRYVEQGNVFING---KRAAVGDQVYAGDVVKVNGQLIEPRDE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP+G+++T D + + V + + RV +GRLD +++GL+ LTN G L Sbjct: 65 DDLVLIALNKPVGIISTTEDGEHDNIV--DFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + L G+ + G +V + S Sbjct: 123 VNKILRAGNDHEKEYVVTVNKPVTDEFILGLGAGVPMLGTVTKKCKVKKE----STFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ + F ++V +L R L L G R+++ L E L+ Sbjct: 179 ITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNVTLKGLPQGEWRDLTDDELIELF--KLI 236 Query: 251 EEAQVNLDAPIYSS 264 E + + +AP+ S Sbjct: 237 ENSSSD-EAPVKKS 249 >gi|217969527|ref|YP_002354761.1| pseudouridine synthase [Thauera sp. MZ1T] gi|217506854|gb|ACK53865.1| pseudouridine synthase [Thauera sp. MZ1T] Length = 234 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 67/231 (29%), Positives = 105/231 (45%), Gaps = 22/231 (9%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 +A G+ SRRE + I + V V+G + V V + + R ++ L H Sbjct: 1 MAERGLCSRREADEFIERGWVFVDGRRVSELGVRVGQDARVTLAPEATRTQQQRATILLH 60 Query: 80 KPIGLVTTHSDPDGRSTVF----DNL----------PSIFSRVISVGRLDINTEGLLLLT 125 KP+G V+ +P V DN PS + GRLDI++ GLL+LT Sbjct: 61 KPVGYVSGQPEPGYSPAVSLIGPDNQADRDVAQRFHPSHLKNLAPAGRLDIDSTGLLVLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQK 183 DG +AR L ++ + Y VR G + ++ L LL G+ + + +++ D Q Sbjct: 121 QDGRIARQLIGEDSKVEKEYIVRVEGTLAENGLALLNHGLWLDDRPLRPAEVEWINDDQ- 179 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + LREG+ R+I+++ E KV L R+ G +LG L G R Sbjct: 180 -----LRFVLREGRKRQIRRMCELVGLKVVGLKRVRIGHVKLGDLPLGQWR 225 >gi|328554622|gb|AEB25114.1| 16S pseudouridylate synthase [Bacillus amyloliquefaciens TA208] Length = 239 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 67/232 (28%), Positives = 112/232 (48%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A +G SR++V++++ V ++G + ++V I V G P E Sbjct: 2 RLDKLLANSGFGSRKDVKKIVKAGAVMIDGEPAKDVKIHVDPDKQDITVYGEPAEYREFI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 + + +KP G+++ D + TV D L R GRLD +TEG LLLTNDG LA Sbjct: 62 YVMM-NKPQGVLSATED-SRQQTVVDLLTPEEQRFEPFPAGRLDKDTEGFLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P + Y VR + + + L++G+VI+ G V T+ + Sbjct: 120 HRLLSPKKHVPKTYEVRLTSPLSPEDIIDLERGVVIEGGYKTKPAAVKTITESPDETVIH 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + + EGK ++K + + +V L R+S G L L G RE++++ L Sbjct: 180 LTITEGKYHQVKLMAKAVGNEVAYLKRLSMGAVSLDPELKPGEFRELTEEEL 231 >gi|330910949|gb|EGH39459.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli AA86] Length = 207 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 49/180 (27%), Positives = 86/180 (47%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L Sbjct: 29 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--IQGVYAAGRLDRDSEGLLVLTNNGALQA 86 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 L P + ++Y V+ G Q+ L L+ G+ + L + Sbjct: 87 RLTQPGKRTGKIYYVQVEGIPTQEALEALRNGVTLNDGPTLPAGAELVEEPAWLWPRNPP 146 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR + G + L L G R+ + Sbjct: 147 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWRDAT 206 >gi|322514615|ref|ZP_08067646.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus ureae ATCC 25976] gi|322119449|gb|EFX91548.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus ureae ATCC 25976] Length = 230 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 62/235 (26%), Positives = 109/235 (46%), Gaps = 16/235 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + + V VNG + + + + TD I +G L + + Sbjct: 2 RLDKFIAENTGLTRSQAGKALKSGLVTVNGKIEKSGSAKISETDEICYEGECLEWVDEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V +H D + TVF + +++ + GRLD++T GL+LLT+DG + Sbjct: 62 YFMLYKPQGYVCSHDDGE-YPTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICY-GDMQVTLDTQKGSNAWV 189 + P + Y V V+ + L +GI+++G C M++ D V Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYVEKLAEGILLRGEREPCLPAQMEIIDDYN------V 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+ ++K++F KV L R G +L S E ++L EQ Sbjct: 175 NLTISEGRYHQVKRMFAALGNKVEALHRWRIGD----VVLDESLEEGEYRLLTEQ 225 >gi|113461776|ref|YP_719845.1| ribosomal large subunit pseudouridine synthase E [Haemophilus somnus 129PT] gi|112823819|gb|ABI25908.1| ribosomal large subunit pseudouridine synthase E [Haemophilus somnus 129PT] Length = 215 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 52/182 (28%), Positives = 90/182 (49%), Gaps = 20/182 (10%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +T++ L++KP ++ +D GR+T+ F +P I+ VGRLD ++EGLLLLTN+G Sbjct: 23 QTKVILFNKPFDVLCQFTDEQGRATLKDFIKIPHIYP----VGRLDRDSEGLLLLTNNGE 78 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG----- 184 L L P + + Y V+ G + L L+KGI + +V L ++ Sbjct: 79 LQHRLTNPKFKMEKTYWVQIEGIPVETDLAQLRKGIELNDGLTKPAKVRLISEPNIWQRH 138 Query: 185 ---------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 +W+ + + EG+NR+++++ + RLIR L L+ G RE Sbjct: 139 PPIRERKTVPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLIRYETAGLTLTNLVNGQFRE 198 Query: 236 VS 237 ++ Sbjct: 199 LT 200 >gi|323167301|gb|EFZ53010.1| ribosomal large subunit pseudouridine synthase F [Shigella sonnei 53G] Length = 291 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDIVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|297521296|ref|ZP_06939682.1| 16S rRNA pseudouridylate synthase A [Escherichia coli OP50] Length = 207 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 54/203 (26%), Positives = 93/203 (45%), Gaps = 2/203 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIR 217 EG+ ++K++F V L R Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHR 202 >gi|187935235|ref|YP_001886700.1| ribosomal large subunit pseudouridine synthase F [Clostridium botulinum B str. Eklund 17B] gi|187723388|gb|ACD24609.1| ribosomal large subunit pseudouridine synthase F [Clostridium botulinum B str. Eklund 17B] Length = 226 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 66/233 (28%), Positives = 114/233 (48%), Gaps = 14/233 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+ + GI SR++ ++I + R+ VNG + V D I +D PL ++ Sbjct: 2 RINKLFSNLGICSRKDTSKLIEENRIIVNGFPCIQGQW-VELEDEILLDNKPLPIKKKIY 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KPIG+ T +D + + F N P + VGRLD ++GL+LLTNDG LA Sbjct: 61 IVL-NKPIGITCTAADEVENNIINFMNYPE---YIFPVGRLDKASQGLILLTNDGDLANK 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + + + G+ I + +V ++ N +T GL Sbjct: 117 ILESENKHEKEYIVTLDKPFNDEFILGMTSGVEICNVKTRQCKVRRISEDTFNIVLTQGL 176 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 N++I+++ + F + V +L RI +LG L G R +L E+L Sbjct: 177 ----NKQIRRMSKTFGYTVKKLERIRIVNIELGDLEYGKWR----YLLEEELA 221 >gi|332999092|gb|EGK18679.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri K-218] Length = 291 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 62/207 (29%), Positives = 106/207 (51%), Gaps = 13/207 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDIVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIR 217 + L +G NR+I+++ E F ++V +L R Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLER 205 >gi|149370621|ref|ZP_01890310.1| ribosomal large subunit pseudouridine synthase F [unidentified eubacterium SCB49] gi|149356172|gb|EDM44729.1| ribosomal large subunit pseudouridine synthase F [unidentified eubacterium SCB49] Length = 291 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 63/237 (26%), Positives = 117/237 (49%), Gaps = 23/237 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K I+ +G SRR+ +++I + +V +NG L +RA M D I V+G + + Sbjct: 9 RLNKAISDSGYCSRRQADKLIEEGKVTLNGNPVSLGDRA----MPDDVIHVEGNLITENN 64 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP+G+ T +D V D + R+ VGRLD +EGLLL+TNDG + Sbjct: 65 NLVYIILNKPVGITCT-TDLRVEGNVVDYIDHK-ERIFHVGRLDKPSEGLLLMTNDGDIV 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI------CYGDMQVTLDTQKGS 185 + + Y V+ + + + + GI ++ + C+ ++ S Sbjct: 123 NKILRAGNSHEKEYFVKVDRPITTEFIRRMGNGIPLEELETTTKKCF--------VEQVS 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+++ E+ +++V L R +LG L G R+++K+ L+ Sbjct: 175 RFVFRIILVQGLNRQIRRMCEYLDYEVMELKRERIMNIELGDLPYGEWRDLTKEELQ 231 >gi|71280912|ref|YP_268861.1| ribosomal small subunit pseudouridine synthase A [Colwellia psychrerythraea 34H] gi|71146652|gb|AAZ27125.1| ribosomal small subunit pseudouridine synthase A [Colwellia psychrerythraea 34H] Length = 243 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 64/238 (26%), Positives = 116/238 (48%), Gaps = 17/238 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I ++ +R E ++++ V+VN + + AA+ V + I +DG L A +R Sbjct: 2 RLDKFICKSTELTRTEAKKVLKSGEVRVNNEVAKNAAMQVHENNLITIDGQQL-SARGSR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD-NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ HK + + ++ D S + + F I+ GRLD +T GL+L+T+DG + Sbjct: 61 YYILHKIVDTICSNVDEIYPSVLHSLEVDKAFDLHIA-GRLDADTTGLVLITDDGRWSHN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLL----KKGIVIQG---------ICYGDMQVTLD 180 + P Q + YRV ++D DKL+ L G+ +QG + ++ +D Sbjct: 120 VISPKKQCQKTYRVWLRSEIDDDKLSALVARFDSGLQLQGEDSLTRPAILTRVEIDNLVD 179 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + V + + EGK ++K++F +V L R G LG L G RE+++ Sbjct: 180 -EASYRSEVLLTITEGKYHQVKRMFAAVGNRVVGLHREQIGKITLGDLAPGEWRELTE 236 >gi|293391815|ref|ZP_06636149.1| ribosomal small subunit pseudouridine synthase A [Aggregatibacter actinomycetemcomitans D7S-1] gi|290952349|gb|EFE02468.1| ribosomal small subunit pseudouridine synthase A [Aggregatibacter actinomycetemcomitans D7S-1] Length = 233 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 60/217 (27%), Positives = 101/217 (46%), Gaps = 4/217 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A +R + + + Q V +NG + + A V D I DG L + + Sbjct: 2 RLDKFLAEHTGLTRSQATKALRQSAVTINGKIEKSGATKVSPQDAIYFDGELLTWLDVGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +++KP G V +H + + S F + P + +R+ S GRLDI+T GL+LLT+DG + Sbjct: 62 YLMFNKPQGYVCSHDEDEHPSIYQFFDYP-LSARLHSAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ + +GI+++G L+ N V + + Sbjct: 121 VTSPKHHQPKTYLVTLADPVEANYAQACAEGILLRGEKDPTKPAVLEILDNYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EG+ ++K++F KV L R G L LA Sbjct: 179 SEGRYHQVKRMFAALGNKVLGLHRWKIGNLTLDDNLA 215 >gi|323342596|ref|ZP_08082828.1| ribosomal small subunit pseudouridine synthase A [Erysipelothrix rhusiopathiae ATCC 19414] gi|322463708|gb|EFY08902.1| ribosomal small subunit pseudouridine synthase A [Erysipelothrix rhusiopathiae ATCC 19414] Length = 229 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 59/227 (25%), Positives = 117/227 (51%), Gaps = 8/227 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A G +R++V+ ++ + V VN ++ A + + + D + V G + ++ Sbjct: 2 RLDKFLAHNGFGTRKDVKILVKKGMVTVNHDVVRDAGMVLNLEKDEVFVKGESV-SYQKD 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G + H+ P+ +V + + S ++ VGRLD +TEGLLL+TNDG + Sbjct: 61 IYFMMNKPAGYICEHN-PEMYPSVLELIESYHRDLVFVGRLDADTEGLLLITNDGQFSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V D L+KG+++ QV + ++ + +T+G Sbjct: 120 VAHSKSNVHKQYYVELDKPFDLRFCEELEKGMMLGDELLKPAQVEVVGERAIH--LTIG- 176 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 EGK ++K++ + +V L RI G +L +L G+ R++S++ Sbjct: 177 -EGKYHQVKRMMHACDNEVTYLKRIKIGALELDSSLQPGAYRDLSEE 222 >gi|271500910|ref|YP_003333935.1| pseudouridine synthase [Dickeya dadantii Ech586] gi|270344465|gb|ACZ77230.1| pseudouridine synthase [Dickeya dadantii Ech586] Length = 232 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 58/226 (25%), Positives = 104/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR + R + QRV VNG +++ A ++ + DG L + R Sbjct: 2 RLDKFLSQQLGISRSLIVRELRAQRVTVNGEVVKSGAFKLLPEHEVAFDGNVLEQQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTILYFIDEPVAHKLHAAGRLDIDTSGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + D + G+ + TL+ S V + + Sbjct: 122 TSPKHHCEKTYLVTLEQPLAADTAEKFQAGVQLHNEKNLTRPATLEVL--SEHQVRLTIT 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 EG+ ++K++F V L R G L TL G R ++++ Sbjct: 180 EGRYHQVKRMFAAIGNHVVALHRERIGAITLDDTLEPGEYRPLTQE 225 >gi|254521474|ref|ZP_05133529.1| pseudouridylate synthase [Stenotrophomonas sp. SKA14] gi|219719065|gb|EED37590.1| pseudouridylate synthase [Stenotrophomonas sp. SKA14] Length = 179 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 51/178 (28%), Positives = 90/178 (50%), Gaps = 21/178 (11%) Query: 78 YHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++KP ++ +D P + LP RV + GRLD ++EGLLLLT++G LA L Sbjct: 5 FNKPFNVLCQFTDRSVPPRPTLAGFGLPP---RVYAAGRLDHDSEGLLLLTDNGTLAHKL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-------ICYGDMQVTLDTQKG--- 184 P + + Y V+ G ++L L+ G+++ I D +L T+ Sbjct: 62 TDPKHKADKTYWVQVEGTPSDEQLQQLRDGVLLNDGPTLPAKIERLDPAPSLWTRDPPVR 121 Query: 185 -----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +AW+ + +REG+NR+++++ N RL+R++ GP++L L G R++ Sbjct: 122 FRKTVPDAWLAITIREGRNRQVRRMTAAVNLPTLRLVRVAMGPYRLDDLQPGQWRQIG 179 >gi|315637055|ref|ZP_07892278.1| ribosomal small subunit pseudouridine synthase A [Arcobacter butzleri JV22] gi|315478591|gb|EFU69301.1| ribosomal small subunit pseudouridine synthase A [Arcobacter butzleri JV22] Length = 229 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 56/232 (24%), Positives = 112/232 (48%), Gaps = 14/232 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV ++ G +R E ++ + + +N + ++ D I+++G L + T Sbjct: 6 KRVDAHLSSLGYCTRSEAKKFLRMNEICINDNRVYNTSIKAYHDD-IKINGEVLD--DET 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTNDGG 129 L L +KP G + +H+D ++ LP ++R + ++GRLDI+T G++LLT+DG Sbjct: 63 LLILLNKPQGYICSHND--SGKLIYSLLPQRYNRRNPKISTIGRLDIDTTGVILLTDDGV 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNA 187 L L P ++Y + D++ + G ++ G+ + L + + Sbjct: 121 LNHKLTSPKKDISKIYEATLEKPLKGDEVEIFASGTLMLN---GEEKPLLPAKLEIITPT 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +V + + EGK ++K++F + KV +L R + F+L L G + + K Sbjct: 178 FVKIEIVEGKYHQVKRMFAAVSNKVIKLHRTKFADFELEDLKEGEFKIIKSK 229 >gi|156973850|ref|YP_001444757.1| hypothetical protein VIBHAR_01560 [Vibrio harveyi ATCC BAA-1116] gi|156525444|gb|ABU70530.1| hypothetical protein VIBHAR_01560 [Vibrio harveyi ATCC BAA-1116] Length = 176 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 49/174 (28%), Positives = 89/174 (51%), Gaps = 16/174 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP ++ +D DGR T+ D +P V + GRLD ++EGL++LTNDG L L Sbjct: 3 IFNKPYDTLSQFTDGDGRKTLADYIP--VKDVYAAGRLDRDSEGLMVLTNDGILQAKLTQ 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQ------------ 182 P ++ + Y V+ G ++ L L+KG+ ++ G+ ++V + + Sbjct: 61 PQSKSPKTYWVQVDGAPTEEDLEKLRKGVELKDGMTLPAKIEVMPEPEIWERTPPVRFRA 120 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+ + + EG+NR+++++ + RL+R S G L L G RE+ Sbjct: 121 NIPTTWLAITIIEGRNRQVRRMTAHIGFPTLRLVRYSMGGIALDDLKPGEWREI 174 >gi|283832379|ref|ZP_06352120.1| ribosomal small subunit pseudouridine synthase A [Citrobacter youngae ATCC 29220] gi|291072028|gb|EFE10137.1| ribosomal small subunit pseudouridine synthase A [Citrobacter youngae ATCC 29220] Length = 235 Score = 75.1 bits (183), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 54/211 (25%), Positives = 98/211 (46%), Gaps = 2/211 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ +A ++ +E DG L + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRANRVTVDGEIVKNSAFKLLPEHDVEYDGNSLIQQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V +D +G+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVAEDTAEQFARGVQLHN--EKDLTKPAVLEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EG+ ++K++F V L R G +L Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGAIKL 210 >gi|255084639|ref|XP_002508894.1| predicted protein [Micromonas sp. RCC299] gi|226524171|gb|ACO70152.1| predicted protein [Micromonas sp. RCC299] Length = 248 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 67/220 (30%), Positives = 103/220 (46%), Gaps = 30/220 (13%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-----VPLRKAERTRLWL----- 77 RRE + ++ RV+VNG L+ + + V S D + +DG P A + Sbjct: 1 RREADEAVSAGRVRVNGALV-KPSFRVRSGDVVTLDGKALDWEPFAAATEGSIGAHAGSN 59 Query: 78 ------YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 Y+KP G VT + R+ + S +RV VGRLD ++ GL+LLT+DG + Sbjct: 60 GFFYLKYNKPRG-VTCTMESSQRTKPAKGVGS--ARVFPVGRLDRDSSGLVLLTDDGRVP 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI------QGIC----YGDMQVTLDT 181 L PS + + Y V D + L+ G+VI G+ V L Sbjct: 117 EALLDPSRKAPKTYEVDVRPAPTPDAIEALRDGVVITTTQQRDGVTTTSPTAPCPVDLIK 176 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + ++A + LREG+NR+I+K+ E +V RL R+S G Sbjct: 177 KSETSATLRFELREGRNRQIRKMCEAVGVEVVRLHRVSVG 216 >gi|317491810|ref|ZP_07950245.1| RNA pseudouridylate synthase [Enterobacteriaceae bacterium 9_2_54FAA] gi|316920244|gb|EFV41568.1| RNA pseudouridylate synthase [Enterobacteriaceae bacterium 9_2_54FAA] Length = 293 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 64/233 (27%), Positives = 116/233 (49%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +RA + V + D ++V+G + R A Sbjct: 8 RLNKYISESGICSRRDADRYIEQGHVFING---KRAGIGDQVFAGDVVKVNGQLIEPRDA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP+G+V+T + + + V + + +RV +GRLD +++G++ LTN G L Sbjct: 65 DDLVLIALNKPVGIVSTTENGEKDNIV--DYVNHSTRVFPIGRLDKDSQGIIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + + G+ I G +V + Sbjct: 123 VNKILRAGNDHEKEYLVTVNKPVTDEFIRGMGAGVPILGTVTKKCKVKKEAP----FVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E F ++V +L R L L G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLSGLPLGEWRDLTDDELIE 231 >gi|56964562|ref|YP_176293.1| 16S pseudouridylate synthase [Bacillus clausii KSM-K16] gi|56910805|dbj|BAD65332.1| 16S pseudouridylate synthase [Bacillus clausii KSM-K16] Length = 243 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 72/228 (31%), Positives = 118/228 (51%), Gaps = 8/228 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A AG +R EV++ + Q V+V+G +++ ++V + G P+R Sbjct: 2 RLDKMLANAGYGTRNEVKKALKQGVVEVDGAVVKDGKLHVQPERQSVCYAGTPVRYKAEL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 L L +KP G+VT D + TV D + + + + VGRLD +T GLLLLT DG + Sbjct: 62 YLML-NKPAGVVTATEDAR-QKTVLDLMKNEWGHMKPFPVGRLDKDTTGLLLLTTDGAFS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + YR G+V Q + K G+V+ G C Q+ ++ + G + ++ Sbjct: 120 HELMAPKKHIAKEYRALVEGKVTQADVEAFKNGVVLDDGYCTKPAQLEIE-ESGPLSAIS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 + L EGK ++K++F KV +L RI G L +L G RE++ Sbjct: 179 LELTEGKFHQVKRMFAAVGKKVIKLERIRIGSLLLDSSLPKGGYRELT 226 >gi|295397550|ref|ZP_06807631.1| ribosomal small subunit pseudouridine synthase A [Aerococcus viridans ATCC 11563] gi|294974221|gb|EFG49967.1| ribosomal small subunit pseudouridine synthase A [Aerococcus viridans ATCC 11563] Length = 247 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 59/229 (25%), Positives = 113/229 (49%), Gaps = 9/229 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 + ++I AG +R+ +R++ V V+G ++ + A V S I VD + + + Sbjct: 3 LGQLIMDAGQVTRKACKRLLKDGHVTVDGQVVTQFATVVDPSWQEIAVDQIVIDRHFGHT 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISV-GRLDINTEGLLLLTNDGGLAR 132 +L HKP G ++ + D TV D + P+ +++ GRLD + GL+ +TN+G L Sbjct: 63 YYLVHKPKGYLSANKD-QTHPTVIDLIQPADNPGDLAITGRLDRDAHGLVFVTNNGQLHY 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGD-MQVTLDTQKGSNAWV 189 + + P + YR+ +G +D+ + + G++ Q IC +++ + + S V Sbjct: 122 IFQQPKFDIPKTYRITVNGLIDKKMVAQFQAGVIFQDGTICKAARLEIISASPQSSTGLV 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 T+ EG+ ++KK+F KV L R G ++ L G R +++ Sbjct: 182 TIS--EGRRHQVKKMFLACGVKVTDLYRQKIGDLRIDDLAVGDYRRLNE 228 >gi|308174693|ref|YP_003921398.1| 16S pseudouridylate synthase [Bacillus amyloliquefaciens DSM 7] gi|307607557|emb|CBI43928.1| putative 16S pseudouridylate synthase [Bacillus amyloliquefaciens DSM 7] gi|328913028|gb|AEB64624.1| putative 16S pseudouridylate synthase [Bacillus amyloliquefaciens LL3] Length = 240 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 67/232 (28%), Positives = 112/232 (48%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A +G SR++V++++ V ++G + ++V I V G P E Sbjct: 3 RLDKLLANSGFGSRKDVKKIVKAGAVMIDGEPAKDVKIHVDPDKQDITVYGEPAEYREFI 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 + + +KP G+++ D + TV D L R GRLD +TEG LLLTNDG LA Sbjct: 63 YVMM-NKPQGVLSATED-SRQQTVVDLLTPEEQRFEPFPAGRLDKDTEGFLLLTNDGQLA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P + Y VR + + + L++G+VI+ G V T+ + Sbjct: 121 HRLLSPKKHVPKTYEVRLTSPLSPEDIIDLERGVVIEGGYKTKPAAVKTITESPDETVIH 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + + EGK ++K + + +V L R+S G L L G RE++++ L Sbjct: 181 LTITEGKYHQVKLMAKAVGNEVAYLKRLSMGAVSLDPELKPGEFRELTEEEL 232 >gi|270263002|ref|ZP_06191272.1| ribosomal large subunit pseudouridine synthase F [Serratia odorifera 4Rx13] gi|270042690|gb|EFA15784.1| ribosomal large subunit pseudouridine synthase F [Serratia odorifera 4Rx13] Length = 287 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 63/233 (27%), Positives = 114/233 (48%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +R A+ V D ++V+G + R Sbjct: 8 RLNKYISESGICSRRDADRYIEQGNVFING---KRVALGDRVFPGDVVKVNGQLIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP+G+V+T + + + V + + +R+ +GRLD +++GL+ LTN G L Sbjct: 65 DNLIFIALNKPVGIVSTTEEGEKDNIV--DFVNHSTRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + YRV + V D + L G+ + G +V + Sbjct: 123 VNKILRAGNDHEKEYRVTVNKPVTDDFIRGLGAGVPMLGTVTKKCKVKKEAP----FVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E F ++V +L R + L G R+++ L E Sbjct: 179 IVLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSMAGLPPGEWRDLTDDELVE 231 >gi|255081278|ref|XP_002507861.1| predicted protein [Micromonas sp. RCC299] gi|226523137|gb|ACO69119.1| predicted protein [Micromonas sp. RCC299] Length = 257 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 68/243 (27%), Positives = 120/243 (49%), Gaps = 33/243 (13%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGIL--LERAAVNVMSTDHIEVDGVPLRKAE 71 QR+SK +A G+ASRR E +I RV+VNG+ + + AV+ S D I VDG ++ Sbjct: 4 QRLSKALAALGVASRRASEELIFAGRVQVNGVTVTMPQHAVST-SRDVIAVDGKVVQGGL 62 Query: 72 RTR------LWLYHKPIGLVTTHSDPDG---RSTVFDNL-----------------PSIF 105 + +L HKP G + + S P G R++ D L + Sbjct: 63 ESLGDGGHLYFLLHKPKGYLCS-SKPAGAGARASGQDRLVLDLFEDWREGWRKRHPGQLA 121 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 R+ +VGRLD+NT G+LL+T DG + + PS+Q + Y V + + ++ + +G Sbjct: 122 PRLFTVGRLDVNTTGMLLVTTDGQWCQRVAHPSSQIPKSYIVTAATRPTKAQIKKMAEGC 181 Query: 166 VIQGICYGDMQV-TLDTQK--GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP 222 + G+ ++V +++ + G + V + +G+NRE++ + V +L R+ G Sbjct: 182 EVDGVHVTPLRVESMEGARDGGPAHRILVDVVDGRNREVRVLSASAGVDVKKLKRVRVGG 241 Query: 223 FQL 225 ++ Sbjct: 242 LRM 244 >gi|328945586|gb|EGG39737.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1087] Length = 241 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 74/238 (31%), Positives = 124/238 (52%), Gaps = 14/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A A SR+++++ + Q+++ V+G + + NV I G + Sbjct: 2 RIDQLLA-ANHISRKKMKQSLLQKQILVDGKPACKLSQNVDTGLQQINFQGKHV-SGPAH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP G VT + D + + TV D L + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANRDAE-KLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVD-QDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWV 189 L P + Y V +G + QDK+ ++GI + G Q+++ + S + Sbjct: 119 FQLLHPQYHVEKTYYVEVNGPLTPQDKIA-FQEGIRFLDGTICQPAQLSILSTSSSLSRA 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLG 246 TV + EGK +IKK+F KV L RI +G F L LA G R ++ +E+LG Sbjct: 178 TVKISEGKFHQIKKMFLAIGVKVTYLKRIQFGDFTLDPDLAKGDYRALN----QEELG 231 >gi|320179014|gb|EFW53973.1| 23S rRNA pseudouridine synthase F [Shigella boydii ATCC 9905] Length = 290 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDIVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRVGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|91784948|ref|YP_560154.1| ribosomal small subunit pseudouridine synthase A [Burkholderia xenovorans LB400] gi|91688902|gb|ABE32102.1| ribosomal small subunit pseudouridine synthase A [Burkholderia xenovorans LB400] Length = 261 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 63/220 (28%), Positives = 98/220 (44%), Gaps = 9/220 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD---HIEVDGVPLRKAER 72 + ++ G SRR+ +IA RV + G + A + + D VDGV E Sbjct: 28 LESILFTQGFGSRRQCRALIADARVSIGGAVCTDADADFPTGDTTFSFTVDGVDWPYREH 87 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L L +KP G + DP +VF LP F+ V VGRLD +T GLLLL++DG Sbjct: 88 AYL-LLNKPAGYECSR-DPQHHLSVFSLLPPQFAGRGVQCVGRLDQDTTGLLLLSDDGKF 145 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + +VY +D +L+ L+ G+++ G V ++ + +T Sbjct: 146 VHLFTSPKRKVPKVYVATTRHPIDDAQLSALRDGVLLNGEARPIAAVDVEARGDHTLALT 205 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V EGK ++K++ + L R G L LA Sbjct: 206 V--MEGKYHQVKRMIAAAGNRCEALHRERIGGLALPEALA 243 >gi|319425419|gb|ADV53493.1| pseudouridine synthase [Shewanella putrefaciens 200] Length = 236 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 64/215 (29%), Positives = 105/215 (48%), Gaps = 12/215 (5%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTT 87 R+ V ++ RV+V+G +++ V HI++D L +A + HKP+G+V+ Sbjct: 20 RKLVRDLLLSGRVQVDGQIVKEMDRQVDEFSHIQLDDQVL-QANTPVYMMLHKPVGVVSA 78 Query: 88 HSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 D + TV D L + + + + GRLD+N+ GLLLLTND + L P+ + +VYR Sbjct: 79 TKD-NQHKTVIDLLDNEYRHELHIAGRLDLNSSGLLLLTNDSRWSEALMSPTEKVDKVYR 137 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK---GSNAWVTVGLREGKNREIKK 203 V + D + +G+ +G +T K + V L+EGK +IK+ Sbjct: 138 VTLANPLTHDYVTAFA-----EGMYFGFEDITTQPAKLVILDSHLAEVTLKEGKYHQIKR 192 Query: 204 VFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +F F V L R+S G L L G +R ++ Sbjct: 193 MFGRFRNPVIGLHRLSIGAIVLDEQLQPGESRTLT 227 >gi|322835106|ref|YP_004215133.1| pseudouridine synthase [Rahnella sp. Y9602] gi|321170307|gb|ADW76006.1| pseudouridine synthase [Rahnella sp. Y9602] Length = 290 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 114/233 (48%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG RAAV V + D ++V+G + R Sbjct: 8 RLNKYISESGICSRRDADRYIEQGNVFING---RRAAVGAQVFAGDVVKVNGQIIEPRDE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G++TT + G + + RV +GRLD +++GL+LLTN G L Sbjct: 65 EDLVLIALNKPVGIITTMEE--GERDNIRDFVNHSKRVFPIGRLDKDSQGLILLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + + G+ + G +V + + Sbjct: 123 VNKILRAGNDHEKEYIVTVNKPITDEFIAGMGAGVPMLGTVTKKCKVKKE----APMVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ + F + V +L R+ L L G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMTKHFGFDVTKLERVRIMNINLKGLPLGEWRDLTDDELIE 231 >gi|330964551|gb|EGH64811.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. actinidiae str. M302091] Length = 230 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 60/218 (27%), Positives = 104/218 (47%), Gaps = 8/218 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R+ V +A RV+V+G + +V + D L+ + R Sbjct: 2 RLDRFLSNLPRFNRKSVRLALASGRVQVDGQITTDPHYDVREFSCVAFDTEILQPGKAAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ +D +TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPQGCVSATTDAQ-HATVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ +G+ + I Q+T+ + + + Sbjct: 121 LTQPQTKMPKVYYVETEQLIDERYALTFAEGLFFSFENIITQPAQLTVLGPRSAR----L 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + EG+ ++K++F F+ KV +L R S G L L Sbjct: 177 SIIEGRYHQVKRMFGHFDNKVLQLHRESIGALILDPAL 214 >gi|315612784|ref|ZP_07887695.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis ATCC 49296] gi|315314894|gb|EFU62935.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis ATCC 49296] Length = 241 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 66/220 (30%), Positives = 109/220 (49%), Gaps = 7/220 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A+ + SR+ +++ + ++ + V+ A NV + G ++ E Sbjct: 2 RLDRLLAQEKV-SRKAMKQALLKKEILVDDCPASSLAQNVDTGLQKLVFQGRQIQGYEHN 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G VT D TV D LP ++ ++GRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPNGAVTASKD-KKLPTVMDLLPPDIQSDQLYAIGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + K+GIV + G Q+ + + S + + Sbjct: 119 FQLLHPQYHVNKSYQVVVNGPLTSDHIQSFKEGIVFLDGTTCKPAQLEILSSSPSESHAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + EGK +IKK+F KV L R+ +G F L LA Sbjct: 179 ITISEGKFHQIKKMFLSVGVKVTALKRVQFGDFTLDPELA 218 >gi|300982380|ref|ZP_07176078.1| hypothetical protein HMPREF9553_02183 [Escherichia coli MS 200-1] gi|300307217|gb|EFJ61737.1| hypothetical protein HMPREF9553_02183 [Escherichia coli MS 200-1] gi|324013228|gb|EGB82447.1| hypothetical protein HMPREF9533_02732 [Escherichia coli MS 60-1] Length = 217 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 49/180 (27%), Positives = 85/180 (47%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+L N+G L Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLANNGALQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 L P + ++Y V+ G QD L L+ G+ + L + Sbjct: 97 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPAWLWPRNPP 156 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR + G + L L G R+ + Sbjct: 157 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGNYSLDNLANGEWRDAT 216 >gi|168211270|ref|ZP_02636895.1| RNA pseudouridine synthase family protein [Clostridium perfringens B str. ATCC 3626] gi|169347003|ref|ZP_02865945.1| RNA pseudouridine synthase family protein [Clostridium perfringens C str. JGS1495] gi|169296686|gb|EDS78815.1| RNA pseudouridine synthase family protein [Clostridium perfringens C str. JGS1495] gi|170710722|gb|EDT22904.1| RNA pseudouridine synthase family protein [Clostridium perfringens B str. ATCC 3626] Length = 239 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 66/232 (28%), Positives = 115/232 (49%), Gaps = 11/232 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV++ G +R+E+++++ + V VN ++ + + + D I ++G + + Sbjct: 2 ERLDKVLSNLGYGTRKEIKQVVKKGFVTVNDEKVKDSGLQIDPEKDTIVINGEKVEYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + +KP G+++ D TV D L +F VGRLD +T GLLLLTNDG Sbjct: 62 IYLMM-NKPAGVISATYDKRDE-TVIDLLYMEDQVFEP-FPVGRLDKDTVGLLLLTNDGD 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNA 187 L L P +VY + + + + + G+ + Y M L + +A Sbjct: 119 LNHKLISPKYHVDKVYYAEINAPITEKDIKAFENGVTLDD-GYKCMSAKLKVIENLEDSA 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 V V ++EGK ++K++FE KV L R S+G L +L G +E+S+ Sbjct: 178 RVEVTVQEGKYHQVKRMFEARGKKVVYLKRTSFGNLPLDESLEEGEYKELSE 229 >gi|312135036|ref|YP_004002374.1| RNA-binding S4 domain-containing protein [Caldicellulosiruptor owensensis OL] gi|311775087|gb|ADQ04574.1| RNA-binding S4 domain protein [Caldicellulosiruptor owensensis OL] Length = 233 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 66/219 (30%), Positives = 107/219 (48%), Gaps = 18/219 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K + G SR +V+++I + V VNG + + D +EVDG R + + Sbjct: 2 RLDKFLTHCGFGSRTQVKKLIREGIVTVNGKQIVEVDFKINPEEDVVEVDG---RIVKFS 58 Query: 74 RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDG 128 R W+Y +KP G V ++ DP TVF + + +VGRLD + EGLL++T+DG Sbjct: 59 R-WIYIMMNKPKGYVCSNEDP-MSLTVFSLISDDLKHRDLHTVGRLDKDAEGLLIITDDG 116 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SN 186 + P + + Y VR +VD+++L + GI++ D TL + + Sbjct: 117 EYTHRVISPKKRIEKEYLVRLEKEVDEERLKEFENGIILD-----DGYKTLPAKYTIIDS 171 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + + EGK ++K++FE KV L R G L Sbjct: 172 TTVKLCIYEGKYHQVKRMFEAIGNKVVDLKRRRIGGLNL 210 >gi|146329452|ref|YP_001209494.1| ribosomal large subunit pseudouridine synthase, RluE [Dichelobacter nodosus VCS1703A] gi|146232922|gb|ABQ13900.1| ribosomal large subunit pseudouridine synthase, RluE [Dichelobacter nodosus VCS1703A] Length = 189 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 46/173 (26%), Positives = 88/173 (50%), Gaps = 16/173 (9%) Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 ++KP G++ SD GR T+ D +P + V GRLD ++EGL+LLT+DG L + P Sbjct: 17 FNKPYGVLCQFSDQQGRKTLKDFVP--VADVYPAGRLDYDSEGLVLLTDDGRLQARIAQP 74 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------- 184 ++ + Y V+ G + ++ + L G+ ++ + + T+ Sbjct: 75 HSKLPKTYWVQVEGMITENAVRQLAAGVRLKDGMTQPARARILTKPTLWAREPPVRFRKT 134 Query: 185 -SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 +W+ + L EG+NR+++++ + RL+R++ G ++L L G+ EV Sbjct: 135 IPTSWLELTLYEGRNRQVRRMTAAVGFPTLRLVRVAIGMWRLNDLALGAYEEV 187 >gi|171914565|ref|ZP_02930035.1| putative pseudouridylate synthase [Verrucomicrobium spinosum DSM 4136] Length = 235 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 68/233 (29%), Positives = 106/233 (45%), Gaps = 9/233 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 +S++IAR R + IA +RVKV ++ V + +D +++ E Sbjct: 3 LSRLIARHKGMGRTAAMQAIAGKRVKVEDQVVTDGQHEVDRFSTVWLDDTLVQEGESALY 62 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARVL 134 + HKP+G ++ DP TV D + + + GRLD ++ GLLLLTNDG +R L Sbjct: 63 IMLHKPVGYLSATRDPQ-HPTVIDLIDHPARETLHIAGRLDRSSSGLLLLTNDGRWSRRL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTVG 192 P + +VY V + + + L KG + + TL + G V Sbjct: 122 TEPGEKVDKVYLVETAEPIAPEAVELFAKGFYF----HTEDLTTLPAELGILGERLARVT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 L EG+ +IK++F +V L R S G L L G RE+ + +LR Q Sbjct: 178 LHEGRYHQIKRMFHRVGNRVISLHRESIGSLVLPVELFPGQWREIRRDVLRSQ 230 >gi|222109684|ref|YP_002551948.1| RNA-binding s4 domain-containing protein [Acidovorax ebreus TPSY] gi|221729128|gb|ACM31948.1| RNA-binding S4 domain protein [Acidovorax ebreus TPSY] Length = 248 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 79/249 (31%), Positives = 111/249 (44%), Gaps = 33/249 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A + SRRE + IAQ V+VNG + + V D I+VD + Sbjct: 2 RLNKRMADLRLCSRREADDWIAQGWVRVNGQVAA-MGLQVGPHDRIDVDRAAQGHQRQQV 60 Query: 75 LWLYHKPIGLVT-----------------THSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 L HKP+G V+ TH D T F P+ + GRLDI+ Sbjct: 61 TILLHKPMGYVSGQAEDGHTPAVALINPRTHWKDDESRTRF--APAQLKGLAPCGRLDID 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRF-HGQVDQD--------KLNLLKKGIVIQ 168 + GLL+LT DG +AR L + + Y VR +G QD KL LL G+ + Sbjct: 119 SVGLLVLTQDGRVARQLIGEDSTVDKEYLVRVQYGDRAQDVRAVFPADKLALLNHGLALD 178 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G ++ L + V LREGK R+I+++ E KV L RI G LG L Sbjct: 179 G---QQLKPALVEWQNPEQLRFV-LREGKKRQIRRMCELVGLKVVGLKRIRIGQVLLGKL 234 Query: 229 LAGSTREVS 237 G R ++ Sbjct: 235 PPGQWRYLA 243 >gi|168213173|ref|ZP_02638798.1| RNA pseudouridine synthase family protein [Clostridium perfringens CPE str. F4969] gi|170715238|gb|EDT27420.1| RNA pseudouridine synthase family protein [Clostridium perfringens CPE str. F4969] Length = 239 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 116/233 (49%), Gaps = 13/233 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ KV++ G +R+E+++++ + V VN ++ + + + D I ++G + + Sbjct: 2 ERLDKVLSNLGYGTRKEIKQVVKKGFVTVNDEKVKDSGLQIDPEKDTIVINGEKVEYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + +KP G+++ D TV D L +F +VGRLD +T GLLLLTNDG Sbjct: 62 IYLMM-NKPAGVISATYDKRDE-TVIDLLYMEDQVFEP-FTVGRLDKDTVGLLLLTNDGD 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSN 186 L L P +VY + + + + + G+ + ++V + + S Sbjct: 119 LNHKLISPKYHVDKVYYAEINAPITEKDIKAFENGVTLDDGYKCMSAKLKVIENLEDSSR 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 VTV +EGK ++K++FE KV L R S+G L +L G +E+S+ Sbjct: 179 VEVTV--QEGKYHQVKRMFEARGKKVVYLKRTSFGNLPLDESLEEGEYKELSE 229 >gi|170749852|ref|YP_001756112.1| pseudouridine synthase [Methylobacterium radiotolerans JCM 2831] gi|170656374|gb|ACB25429.1| pseudouridine synthase [Methylobacterium radiotolerans JCM 2831] Length = 246 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 112/235 (47%), Gaps = 15/235 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILL----ERAAVNVMSTDHIEVDGVPLRKA 70 R+ K++A G SRRE++ + ++++G L +R A+ + + VDG L Sbjct: 8 RLDKLLANLGYGSRREIQALARAGAIRLDGAELADAGDRVALAPDLPERLTVDGESLDPL 67 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTN 126 L L HKP+G+ +H + V+ LP + R + +VGRLD T GLLLLT+ Sbjct: 68 PGLCLML-HKPLGVTCSHKE--AGPLVYGLLPERWRRRDPPLSTVGRLDKETSGLLLLTD 124 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG L + P Q + YRV + + + G +V++G + V LD + + Sbjct: 125 DGALLHRIISPKAQVAKRYRVTLDRPLTGREAEVFAAGTLVLEGEERPLLPVRLDVEDAT 184 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 VT L EG+ +++++F V L R G L L AG+ R ++ + Sbjct: 185 RCAVT--LTEGRYHQVRRMFAAVGNHVAALHRDRVGGLALPADLPAGAHRVMTAE 237 >gi|313904278|ref|ZP_07837656.1| pseudouridine synthase [Eubacterium cellulosolvens 6] gi|313470828|gb|EFR66152.1| pseudouridine synthase [Eubacterium cellulosolvens 6] Length = 256 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 67/253 (26%), Positives = 113/253 (44%), Gaps = 27/253 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K ++ + +R+E++ I + VNGI + ++ + + DG P+R E Sbjct: 2 RLDKYLSDMNVGTRKELKTKIRKGAATVNGIRITDPGFSIKGDEDVTFDGKPIRYNE-YE 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G++T D + TV D L + + VGRLD NT GLLL+TNDG L Sbjct: 61 YYMLNKPAGVITATEDR-KQQTVLDLLGKDRRKDLFPVGRLDKNTVGLLLITNDGDLNHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----------------QGICYGDMQ 176 L P + Y + G+V + KG+ I + D + Sbjct: 120 LLSPKKHTDKKYYAKIDGRVTDADVEAFAKGLRIDDELTALPAKLEILSFRETATDADRE 179 Query: 177 VTLDTQKGSNAW------VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLL 229 L + ++ + V + EGK +IK++F +V L R+S G L +L Sbjct: 180 DLLTAEHPESSLSSGVSEICVTIHEGKFHQIKRMFHAVEKEVLYLKRLSMGSLVLDPSLP 239 Query: 230 AGSTREVSKKILR 242 GS R +++ +R Sbjct: 240 EGSWRPLTEDEIR 252 >gi|325925904|ref|ZP_08187273.1| ribosomal large subunit pseudouridine synthase E [Xanthomonas perforans 91-118] gi|325543735|gb|EGD15149.1| ribosomal large subunit pseudouridine synthase E [Xanthomonas perforans 91-118] Length = 190 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 52/176 (29%), Positives = 85/176 (48%), Gaps = 21/176 (11%) Query: 77 LYHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+++ SD P R+ LP V + GRLD ++EGLLLLT+DG LA Sbjct: 4 LLNKPYGVLSQFSDRSQPPKRTLAEFGLPP---DVYAAGRLDHDSEGLLLLTDDGALAHR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------- 184 L P + + Y V+ G ++L L+ G+V+ QV + Q Sbjct: 61 LTDPRHKQPKTYWVQVEGAPQPEQLQALRDGVVLNDGPTRPAQVRMLDQAPQLWPRDPPV 120 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +AW+ + + EG+NR+++++ RL+R++ G ++L L G R Sbjct: 121 RVRKTVPDAWLELQITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDALAPGQWR 176 >gi|94994641|ref|YP_602739.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS10750] gi|94548149|gb|ABF38195.1| Ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS10750] Length = 238 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 65/232 (28%), Positives = 111/232 (47%), Gaps = 14/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ + SR +V+++I Q V V+ + NV IEV G + + + Sbjct: 2 RLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQRVTHPKHS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLLLTND 127 + L +KP G+V+ D + TV D L P ++ VGRLD +TEGL+LLT++ Sbjct: 62 YIIL-NKPSGVVSAKKDTN-YLTVIDQLAEEDKSPDLYP----VGRLDRDTEGLVLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G L + P + Y V +G + +D + GI G Q+T+ Sbjct: 116 GPLGFRMLHPIHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQ 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + ++ + EGK ++KK+F + KV L R + +LG L +G R +++ Sbjct: 176 SQASLTISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLTE 227 >gi|77461162|ref|YP_350669.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas fluorescens Pf0-1] gi|77385165|gb|ABA76678.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas fluorescens Pf0-1] Length = 211 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 52/183 (28%), Positives = 92/183 (50%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP ++T SD +GR+T+ D ++P I+ GRLD ++EGLLLLTNDG L Sbjct: 33 KLILFNKPFDVLTQFSDGEGRATLKDYIDIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 88 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG------ 184 + P + + Y V+ G ++L L+ G+ + G+ LD + Sbjct: 89 ARIADPRHKLAKTYWVQVEGLPTAEQLQRLRDGVELNDGMTLPARARQLDEPELWPRNPP 148 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ + +REG+NR+++++ RL+R+ G + + L G +EV Sbjct: 149 VRFRATIPTTWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWTIEGLDQGQWKEVP 208 Query: 238 KKI 240 ++ Sbjct: 209 ARL 211 >gi|312622542|ref|YP_004024155.1| pseudouridine synthase [Caldicellulosiruptor kronotskyensis 2002] gi|312203009|gb|ADQ46336.1| pseudouridine synthase [Caldicellulosiruptor kronotskyensis 2002] Length = 233 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 63/218 (28%), Positives = 110/218 (50%), Gaps = 16/218 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K + G SR +V+++I + V VNG + + D +EVDG ++ +++ Sbjct: 2 RLDKFLTHCGFGSRSQVKKLIREGIVTVNGKQIVEVDFKINPEEDIVEVDGRVVKFSKQI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVF----DNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + +KP G V ++ + TVF D+L + + +VGRLD + EGLL++T+DG Sbjct: 62 YIMM-NKPKGYVCSNEEL-ASLTVFSLISDDLK--YRDLHTVGRLDKDAEGLLIITDDGE 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNA 187 + P + + Y VR +VD++KL + GI++ D TL + + Sbjct: 118 YTHRVISPKKRIEKEYLVRLEKEVDEEKLKEFENGIILD-----DGYKTLPAKYTIIDST 172 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + + EGK ++K++FE KV L R+ G L Sbjct: 173 TVKLCIYEGKYHQVKRMFEAIGNKVVDLKRLRIGGLNL 210 >gi|308187558|ref|YP_003931689.1| 16S pseudouridylate 516 synthase [Pantoea vagans C9-1] gi|308058068|gb|ADO10240.1| 16S pseudouridylate 516 synthase [Pantoea vagans C9-1] Length = 239 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 56/211 (26%), Positives = 95/211 (45%), Gaps = 2/211 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I++ SR R I QRV VNG ++ A ++ + DG L+ R Sbjct: 2 RLDKFISQQLEISRAIAHREIRGQRVTVNGEVVRDTAFKLLPDHEVAYDGNVLQMLTGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTILYFIEEPMSFKLHAAGRLDIDTTGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + YRV + D G+ + D+ + + V + L Sbjct: 122 TSPRHHCEKTYRVTLESPIGDDTAAQFTAGVQLHN--EKDLTKPAQLEVITPTDVRLTLS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EG+ ++K++F +V L R G L Sbjct: 180 EGRYHQVKRMFAAVGNRVIELHRERIGDIAL 210 >gi|213618826|ref|ZP_03372652.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 276 Score = 74.3 bits (181), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 61/221 (27%), Positives = 112/221 (50%), Gaps = 13/221 (5%) Query: 21 ARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKAERTRLW 76 + +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + R+A+ L Sbjct: 1 SESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDVVKVNGRLIEPREADDLVLI 57 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN G L + Sbjct: 58 ALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPIGRLDKDSQGLIFLTNHGDLVNKILR 115 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 + Y V + + + + G+ I G + +K + + L +G Sbjct: 116 AGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFRITLVQG 171 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 NR+I+++ E+F ++V +L R L + G R+++ Sbjct: 172 LNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLT 212 >gi|253732405|ref|ZP_04866570.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus USA300_TCH959] gi|297207533|ref|ZP_06923969.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus ATCC 51811] gi|253723857|gb|EES92586.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus USA300_TCH959] gi|296887869|gb|EFH26766.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus ATCC 51811] Length = 231 Score = 74.3 bits (181), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 62/224 (27%), Positives = 105/224 (46%), Gaps = 11/224 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 2 RIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKITVRGELIEYIENV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP ++ D + TV D +P + VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPKDYISATEDHHSK-TVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + +D + K+G+ + G + +D Q V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLSDGKVKPAILTYIDNQTSH-----V 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 + EGK ++K++F +V L RI +L + L +G R Sbjct: 175 TIYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYR 218 >gi|153814849|ref|ZP_01967517.1| hypothetical protein RUMTOR_01064 [Ruminococcus torques ATCC 27756] gi|317500363|ref|ZP_07958587.1| hypothetical protein HMPREF1026_00530 [Lachnospiraceae bacterium 8_1_57FAA] gi|331089629|ref|ZP_08338528.1| hypothetical protein HMPREF1025_02111 [Lachnospiraceae bacterium 3_1_46FAA] gi|145847880|gb|EDK24798.1| hypothetical protein RUMTOR_01064 [Ruminococcus torques ATCC 27756] gi|316898118|gb|EFV20165.1| hypothetical protein HMPREF1026_00530 [Lachnospiraceae bacterium 8_1_57FAA] gi|330404997|gb|EGG84535.1| hypothetical protein HMPREF1025_02111 [Lachnospiraceae bacterium 3_1_46FAA] Length = 261 Score = 74.3 bits (181), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 65/258 (25%), Positives = 116/258 (44%), Gaps = 39/258 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G +R +V++ I + V VNG + ++A V D I G + A Sbjct: 4 RLDKYLTEMGCGTRSQVKKEILKGSVSVNGEIAKKAERKVDTEKDEIIFKGEKIFYA-GY 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G+V+ D R+ + S + GRLD +TEGLLL+TNDG LA Sbjct: 63 EYFMLNKPAGVVSATEDKKERTVIDLIKESKRKDLFPAGRLDKDTEGLLLITNDGQLAHR 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------------- 179 L P ++Y + G V ++ + L +KG+ I GD + T+ Sbjct: 123 LLSPKKHVDKIYYAKIKGIVTEEDVRLFEKGVHI-----GDEKPTMPAALEILSVQKERR 177 Query: 180 -----------------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP 222 D ++ + + + ++EG+ ++K++F +V L RI +G Sbjct: 178 KEKIKEQKILPETKNETDEKEDGYSEIYLTIKEGRFHQVKRMFRAVGKEVVYLKRIQFGT 237 Query: 223 FQLG-TLLAGSTREVSKK 239 L +L G R+++++ Sbjct: 238 LTLDPSLKPGQYRKLTEE 255 >gi|108758119|ref|YP_629838.1| RsuA family pseudouridine synthase [Myxococcus xanthus DK 1622] gi|108461999|gb|ABF87184.1| pseudouridine synthase, RsuA family [Myxococcus xanthus DK 1622] Length = 266 Score = 74.3 bits (181), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 62/213 (29%), Positives = 102/213 (47%), Gaps = 12/213 (5%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 +++ + +AG+ R + E I + RV ++G + V + VDG+ +R E L Sbjct: 31 LARALGKAGVMPRAQAEAAIREGRVTLDGRVEHEPFAPVRPEMEVRVDGL-VRNLEAPVL 89 Query: 76 WL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV------ISVGRLDINTEGLLLLTNDG 128 L +HKP GLV SD +G TVF+ L ++ ++VGRLD +T GLLL TND Sbjct: 90 TLMFHKPAGLVVHGSDAEGVGTVFECLRERLTQPLRDYEWLAVGRLDRDTTGLLLFTNDE 149 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L + P + Y G +D L L++G+V++ G + + + Sbjct: 150 RLVQHGTSPERHLPKRYVAGVVGPPPEDALRRLREGLVLED---GPTRPAGARLRAPDV- 205 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 V + L EG+N ++K++ V L R + G Sbjct: 206 VELTLTEGRNHQVKRMLAAVGHPVRTLHREAVG 238 >gi|191173066|ref|ZP_03034599.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli F11] gi|190906611|gb|EDV66217.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli F11] Length = 207 Score = 74.3 bits (181), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 49/180 (27%), Positives = 85/180 (47%), Gaps = 17/180 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+L N+G L Sbjct: 29 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLANNGALQA 86 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 L P + ++Y V+ G QD L L+ G+ + L + Sbjct: 87 RLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPAWLWPRNPP 146 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR + G + L L G R+ + Sbjct: 147 IRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGNYSLDNLANGEWRDAT 206 >gi|332293444|ref|YP_004432053.1| pseudouridine synthase [Krokinobacter diaphorus 4H-3-7-5] gi|332171530|gb|AEE20785.1| pseudouridine synthase [Krokinobacter diaphorus 4H-3-7-5] Length = 260 Score = 74.3 bits (181), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 54/206 (26%), Positives = 99/206 (48%), Gaps = 11/206 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRR +++I Q RV +NG + E + D + V+G + Sbjct: 8 RINKYLSEVGYCSRRAADKLIEQGRVTINGRIPE-MGTKISQGDEVHVNGELISAPTEKP 66 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +++ ++KP+G+V T + + D N PS R+ +GRLD +EGL+ LTNDG + Sbjct: 67 VYIAFNKPVGIVCTTDTRVEKDNIIDYINYPS---RIFPIGRLDKPSEGLIFLTNDGDIV 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + + + G+ I + T ++ S + Sbjct: 124 NKILRARNNHEKEYEVWVDRPITPSFIQQMGNGVPI----LDTVTRTCHVEQLSRFSFKI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIR 217 L +G NR+I+++ E +++V RL R Sbjct: 180 ILTQGLNRQIRRMCEALDYEVTRLKR 205 >gi|221069503|ref|ZP_03545608.1| pseudouridine synthase [Comamonas testosteroni KF-1] gi|220714526|gb|EED69894.1| pseudouridine synthase [Comamonas testosteroni KF-1] Length = 221 Score = 74.3 bits (181), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 52/189 (27%), Positives = 90/189 (47%), Gaps = 23/189 (12%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLL 122 P + E TRL +HKP G+++ + P+G+ + P ++ GRLD ++EGLL Sbjct: 34 PAPRPEVTRLLCFHKPYGVLSQFT-PEGKWQGLKDWIDAPGVYV----AGRLDADSEGLL 88 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT 181 LLTNDG L + P + + Y V+ G D+ L L+ G+ + G ++ Sbjct: 89 LLTNDGQLQARIADPRHKMEKTYWVQVEGVPDEAALQRLRDGVELSDGKTLPARARLIEP 148 Query: 182 QKG--------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 Q + W+ + +REGKNR+++++ RL+R++ GP+ + Sbjct: 149 QPSMWPRNPPIRVRQNIPDCWIELIIREGKNRQVRRMTAAVGHPTLRLVRMAVGPYSIEG 208 Query: 228 LLAGSTREV 236 L G +V Sbjct: 209 LEPGQWLDV 217 >gi|170718088|ref|YP_001785122.1| pseudouridine synthase [Haemophilus somnus 2336] gi|168826217|gb|ACA31588.1| pseudouridine synthase [Haemophilus somnus 2336] Length = 227 Score = 74.3 bits (181), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 52/182 (28%), Positives = 89/182 (48%), Gaps = 20/182 (10%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +T++ L++KP ++ +D GR+T+ F +P I+ VGRLD ++EGLLLLTN+G Sbjct: 35 QTKVILFNKPFDVLCQFTDEQGRATLKDFIKIPHIYP----VGRLDRDSEGLLLLTNNGE 90 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG----- 184 L L P + + Y V+ G + L L+KGI + +V L ++ Sbjct: 91 LQHRLTNPKFKMEKTYWVQIEGIPVETDLAQLRKGIELNDGLTKPAKVRLISEPNIWQRH 150 Query: 185 ---------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 +W+ + + EG+NR+++++ + RLIR L L G RE Sbjct: 151 PPIRERKTVPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLIRYETAGLTLTNLANGQFRE 210 Query: 236 VS 237 ++ Sbjct: 211 LT 212 >gi|159028310|emb|CAO87208.1| unnamed protein product [Microcystis aeruginosa PCC 7806] Length = 194 Score = 74.3 bits (181), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 57/188 (30%), Positives = 93/188 (49%), Gaps = 32/188 (17%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA----- 131 L++KP ++ +D +GRST+ D +P + SVGRLD ++EGLLLLT++G L Sbjct: 6 LFYKPYDVLCQFTDENGRSTLKDYIP--IPNIYSVGRLDRDSEGLLLLTDNGQLQHRLGH 63 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-------ICYGDMQVTLDTQKG 184 R P T W++V R+ D + L L++G+ IQ + D + L ++ Sbjct: 64 RQFAHPRTYWVQVERI-----PDLNALEKLRQGLAIQDYRTRPAIVNILDFEPDLPPREP 118 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY-----GPFQLGTLLAG 231 AW+ + L EG+NR+++++ + RLIR + L L G Sbjct: 119 PIRYRKSIPTAWLEITLTEGRNRQVRRMTAAVGYPTLRLIRTAITIDKNNKLCLTGLQPG 178 Query: 232 STREVSKK 239 REV++K Sbjct: 179 QWREVTEK 186 >gi|120599941|ref|YP_964515.1| pseudouridine synthase [Shewanella sp. W3-18-1] gi|146292123|ref|YP_001182547.1| pseudouridine synthase [Shewanella putrefaciens CN-32] gi|120560034|gb|ABM25961.1| pseudouridine synthase [Shewanella sp. W3-18-1] gi|145563813|gb|ABP74748.1| pseudouridine synthase [Shewanella putrefaciens CN-32] Length = 236 Score = 74.3 bits (181), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 64/215 (29%), Positives = 105/215 (48%), Gaps = 12/215 (5%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTT 87 R+ V ++ RV+V+G +++ V HI++D L +A + HKP+G+V+ Sbjct: 20 RKLVRDLLLSGRVQVDGQIVKEMDRQVDEFSHIQLDDQVL-QANTPVYMMLHKPVGVVSA 78 Query: 88 HSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 D + TV D L + + + + GRLD+N+ GLLLLTND + L P+ + +VYR Sbjct: 79 TKD-NQHKTVIDLLDNEYRHELHIAGRLDLNSSGLLLLTNDSRWSEALMSPTEKVDKVYR 137 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK---GSNAWVTVGLREGKNREIKK 203 V + D + +G+ +G +T K + V L+EGK +IK+ Sbjct: 138 VTLANPLTHDYVTAFA-----EGMYFGFEDITTQPAKLVILDSHLAEVTLKEGKYHQIKR 192 Query: 204 VFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +F F V L R+S G L L G +R ++ Sbjct: 193 MFGRFRNPVIGLHRLSIGDIVLDEQLQPGESRTLT 227 >gi|330898470|gb|EGH29889.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. japonica str. M301072PT] Length = 230 Score = 74.3 bits (181), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 107/227 (47%), Gaps = 9/227 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R++V +A RV+V+G V + +D L+ + R Sbjct: 2 RLDRFLSNLPRFNRQQVRLALASGRVQVDGQATRDPHHEVREFSCVALDEEILQAGKVPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ SD TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPEGCVSATSDAQ-HPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ +G+ + + Q+TL + + + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAIKFAEGLYFAFENLTTQPAQLTLLGPQSARLSIV- 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 EG+ ++K++F F+ KV RL R + G L L GS R ++ Sbjct: 180 ---EGRYHQVKRMFGHFDNKVLRLHRETIGALALDPGLRPGSYRALN 223 >gi|78045854|ref|YP_362029.1| pseudouridylate synthase [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|78034284|emb|CAJ21929.1| pseudouridylate synthase [Xanthomonas campestris pv. vesicatoria str. 85-10] Length = 190 Score = 74.3 bits (181), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 53/176 (30%), Positives = 85/176 (48%), Gaps = 21/176 (11%) Query: 77 LYHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+++ SD P R+ LP V + GRLD ++EGLLLLT+DG LA Sbjct: 4 LLNKPYGVLSQFSDRSQPPKRTLAEFGLPP---DVYAAGRLDHDSEGLLLLTDDGALAHR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG-------- 184 L P + + Y V+ G ++L L+ G+V+ QV LD Sbjct: 61 LTDPRHKQPKTYWVQVEGAPQPEQLQALRDGVVLNDGPTRSAQVRMLDPAPQLWPRDPPV 120 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +AW+ + + EG+NR+++++ RL+R++ G ++L L G R Sbjct: 121 RVRKTVPDAWLELQITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDALAPGQWR 176 >gi|26250800|ref|NP_756840.1| 23S rRNA pseudouridine synthase F [Escherichia coli CFT073] gi|91213543|ref|YP_543529.1| 23S rRNA pseudouridine synthase F [Escherichia coli UTI89] gi|117626291|ref|YP_859614.1| 23S rRNA pseudouridine synthase F [Escherichia coli APEC O1] gi|191171992|ref|ZP_03033537.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli F11] gi|215489360|ref|YP_002331791.1| 23S rRNA pseudouridine synthase F [Escherichia coli O127:H6 str. E2348/69] gi|218561092|ref|YP_002394005.1| 23S rRNA pseudouridine synthase F [Escherichia coli S88] gi|218692307|ref|YP_002400519.1| 23S rRNA pseudouridine synthase F [Escherichia coli ED1a] gi|227886973|ref|ZP_04004778.1| RluF protein [Escherichia coli 83972] gi|300980609|ref|ZP_07175103.1| hypothetical protein HMPREF9553_01625 [Escherichia coli MS 200-1] gi|300992903|ref|ZP_07180085.1| conserved hypothetical protein [Escherichia coli MS 45-1] gi|306815865|ref|ZP_07450010.1| 23S rRNA pseudouridine synthase F [Escherichia coli NC101] gi|312965319|ref|ZP_07779552.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 2362-75] gi|34098551|sp|Q8FB47|RLUF_ECOL6 RecName: Full=Ribosomal large subunit pseudouridine synthase F; AltName: Full=rRNA pseudouridylate synthase F; AltName: Full=rRNA-uridine isomerase F gi|26111231|gb|AAN83414.1|AE016770_214 Hypothetical protein yjbC [Escherichia coli CFT073] gi|91075117|gb|ABE09998.1| putative 23S rRNA pseudouridine synthase subunit yjbC [Escherichia coli UTI89] gi|115515415|gb|ABJ03490.1| conserved hypothetical protein [Escherichia coli APEC O1] gi|190907757|gb|EDV67351.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli F11] gi|215267432|emb|CAS11885.1| 23S rRNA pseudouridine synthase [Escherichia coli O127:H6 str. E2348/69] gi|218367861|emb|CAR05656.1| 23S rRNA pseudouridine synthase [Escherichia coli S88] gi|218429871|emb|CAR10842.2| 23S rRNA pseudouridine synthase [Escherichia coli ED1a] gi|222035737|emb|CAP78482.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli LF82] gi|227836114|gb|EEJ46580.1| RluF protein [Escherichia coli 83972] gi|294492958|gb|ADE91714.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli IHE3034] gi|300307733|gb|EFJ62253.1| hypothetical protein HMPREF9553_01625 [Escherichia coli MS 200-1] gi|300406779|gb|EFJ90317.1| conserved hypothetical protein [Escherichia coli MS 45-1] gi|305850840|gb|EFM51296.1| 23S rRNA pseudouridine synthase F [Escherichia coli NC101] gi|307556168|gb|ADN48943.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli ABU 83972] gi|307629071|gb|ADN73375.1| 23S rRNA pseudouridine synthase F [Escherichia coli UM146] gi|312289993|gb|EFR17880.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 2362-75] gi|312948600|gb|ADR29427.1| 23S rRNA pseudouridine synthase F [Escherichia coli O83:H1 str. NRG 857C] gi|315287806|gb|EFU47208.1| conserved hypothetical protein [Escherichia coli MS 110-3] gi|315291492|gb|EFU50852.1| conserved hypothetical protein [Escherichia coli MS 153-1] gi|320193592|gb|EFW68228.1| 23S rRNA pseudouridine synthase F [Escherichia coli WV_060327] gi|323950434|gb|EGB46315.1| RNA pseudouridylate synthase [Escherichia coli H252] gi|323954517|gb|EGB50301.1| RNA pseudouridylate synthase [Escherichia coli H263] gi|324014259|gb|EGB83478.1| hypothetical protein HMPREF9533_01657 [Escherichia coli MS 60-1] Length = 290 Score = 74.3 bits (181), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R++ Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPRES 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|325529283|gb|EGD06232.1| putative RNA pseudouridylate synthase [Burkholderia sp. TJI49] Length = 306 Score = 74.3 bits (181), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 72/248 (29%), Positives = 113/248 (45%), Gaps = 30/248 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + HIE+D Sbjct: 59 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQHIEIDERAQAAQAAQV 118 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS-----RVISVGRLDINT 118 L HKP+G V+ ++ DG D P FS + GRLDI++ Sbjct: 119 TILLHKPVGYVSGQAE-DGYEPAAVLITRDNHWSGDRSPLRFSPQHLRTLAPAGRLDIDS 177 Query: 119 EGLLLLTNDGGLARVL--ELPSTQWLRVYRVRFHGQ---VDQ----DKLNLLKKGIVIQG 169 GLL+LT +G +A+ L E + RV+F + +DQ + L L+ G+ + G Sbjct: 178 TGLLVLTQNGRIAKQLIGEQSDVDKEYLVRVKFGERLTDIDQHFPAESLAKLRHGLELDG 237 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ Q G + LREG+ R+I+++ E +V L R+ G LG L Sbjct: 238 VALKPAMVSW--QNGEQ--LRFVLREGRKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 293 Query: 230 AGSTREVS 237 G R +S Sbjct: 294 QGQWRYLS 301 >gi|269120981|ref|YP_003309158.1| pseudouridine synthase [Sebaldella termitidis ATCC 33386] gi|268614859|gb|ACZ09227.1| pseudouridine synthase [Sebaldella termitidis ATCC 33386] Length = 233 Score = 74.3 bits (181), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 119/235 (50%), Gaps = 11/235 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A +GI +R+EV+ ++ ++R+ VN ++ A ++ D + DG + E Sbjct: 2 RIDKFLANSGIGTRKEVKELLKKKRISVNDEVVTEAKTHIDEDNDFVAFDGKRIEFKEFL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 + L +KP +++ D R TV D L ++V VGRLD +TEGLL+LTNDG +A Sbjct: 62 YIML-NKPQDVISATDDERHR-TVLDLLEEPLTKVGLFPVGRLDKDTEGLLVLTNDGKMA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V + +++ +L+ G+ ++ +V T+ V + Sbjct: 120 HELLSPKKHVPKRYYVELKKTLSKEEAAILENGVELETFTTKPAKVEFITED----KVYI 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQL 245 + EGK ++K++F+ +V L R G L LA G RE++ L EQL Sbjct: 176 IISEGKYHQVKRMFKCVGNRVLFLKRTGMGNLGLDENLAPGEYRELTSDEL-EQL 229 >gi|187924437|ref|YP_001896079.1| RNA-binding S4 domain protein [Burkholderia phytofirmans PsJN] gi|187715631|gb|ACD16855.1| RNA-binding S4 domain protein [Burkholderia phytofirmans PsJN] Length = 250 Score = 74.3 bits (181), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 71/248 (28%), Positives = 110/248 (44%), Gaps = 30/248 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ G+ SRRE + I + V V+G ++ V IE+D Sbjct: 3 RLSKLMSELGMCSRREADEWIEKGWVMVDGERIDTLGTKVRPDQRIEIDPAAEAAQMSQV 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS-----RVISVGRLDINT 118 L HKP+GLV+ ++ DG D+ FS ++ GRLDI++ Sbjct: 63 TVLIHKPVGLVSGQAE-DGYQPAITLVTPENRWEGDHADIRFSVAHLRQLAPAGRLDIDS 121 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT DG +A+ L ++ + Y VR + L LL G+ + Sbjct: 122 TGLLVLTQDGRIAKQLIGGHSEIDKEYLVRVAFGEHTTDVESHFPPESLELLCHGLSLDD 181 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + QV + Q G + LREGK R+I+++ E +V L R+ G LG L Sbjct: 182 VPLKPAQV--NWQNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 237 Query: 230 AGSTREVS 237 G R +S Sbjct: 238 PGQWRYLS 245 >gi|325688213|gb|EGD30232.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK72] Length = 241 Score = 74.3 bits (181), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 74/240 (30%), Positives = 127/240 (52%), Gaps = 13/240 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A A SR+++++ + Q+++ V+G + + NV I G + Sbjct: 2 RLDQLLA-ANHISRKKMKQSLLQKQILVDGKPAYKLSQNVDTGLQQITFQGKHV-SGPAH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP G VT + D + + TV D L + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPSGAVTANRDAE-KLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWV 189 L P + Y V +G + QDK+ ++GI + G Q+++ + S + Sbjct: 119 FQLLHPQYHVEKTYYVEVNGPLTSQDKIA-FQEGIRFLDGTICQPAQLSILSSSSSLSRA 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK---KILREQL 245 TV + EGK +IKK+F KV L RI +G F+LG L G R +++ +I++E L Sbjct: 178 TVKISEGKFHQIKKMFLAVGVKVIYLKRIRFGNFKLGPELTTGEYRPLNQEELEIIKEYL 237 >gi|148360539|ref|YP_001251746.1| pseudouridine synthase [Legionella pneumophila str. Corby] gi|148282312|gb|ABQ56400.1| pseudouridine synthase [Legionella pneumophila str. Corby] Length = 219 Score = 74.3 bits (181), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 54/186 (29%), Positives = 88/186 (47%), Gaps = 20/186 (10%) Query: 68 RKAERTRLWLYHKPIGLVT--THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 R + +L L++KP G++T T P+ + F P ++ GRLD +EGLL+LT Sbjct: 16 RNHKMPQLILFNKPYGVLTQFTGELPEQTLSAFIKFPGFYA----AGRLDKQSEGLLVLT 71 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 +DG L L P + + Y V+ G L L+KG+VI+ I + + L ++ Sbjct: 72 DDGKLQHRLTHPKFEKKKHYWVQVEGAPTDKDLQPLRKGLVIKDITFLPAEAKLISEPKI 131 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + LREGKN +I+K+ + RLIR G ++L L G Sbjct: 132 WPRIPPIRERKHIPTTWLEIILREGKNHQIRKMTAAIGFPTLRLIRHQIGDWRLDQLQPG 191 Query: 232 STREVS 237 + ++ Sbjct: 192 EYKLIN 197 >gi|57234401|ref|YP_181521.1| RsuA family pseudouridine synthase [Dehalococcoides ethenogenes 195] gi|57224849|gb|AAW39906.1| pseudouridine synthase, RsuA family [Dehalococcoides ethenogenes 195] Length = 249 Score = 74.3 bits (181), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 69/224 (30%), Positives = 112/224 (50%), Gaps = 5/224 (2%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLW 76 KV+ A + SRR++ I Q V +NG E + V D + +G P+ + R++ Sbjct: 13 KVLVEARLGSRRKMAEAIKQGLVTLNGQKAESYSQPVNTQQDKVTFEGKPVELSRIRRIY 72 Query: 77 LY-HKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP +V+T SD GR TV D L + + + VGRLD T GLLLLTNDG L Sbjct: 73 LMLNKPPEIVSTTSDELGRKTVMDLLHRRYEGAGLFPVGRLDETTTGLLLLTNDGELTNR 132 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + + Y + + Q L+KG+++ +++ T + + + + Sbjct: 133 LTHPSYEIEKEYLISIDAALTQADKESLEKGMLLDDGLTSPARLSRVTDEPPYNYKLI-I 191 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 EGK R ++++F +++ L R +LG L G TRE++ Sbjct: 192 HEGKKRIVRRMFAHLGYQIKALKRSRIATLRLGKLEEGKTRELT 235 >gi|46203293|ref|ZP_00208890.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Magnetospirillum magnetotacticum MS-1] Length = 187 Score = 74.3 bits (181), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 52/189 (27%), Positives = 98/189 (51%), Gaps = 22/189 (11%) Query: 73 TRLWLYHKPIGLVTTHSDPDG-RSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 TRL +++KP ++T +D +G R+T+ F N+P +++ GRLD ++EGLL+LT+ G Sbjct: 2 TRLIVFNKPYDVLTQFTDREGGRATLKDFINVPGVYA----AGRLDRDSEGLLVLTDSGP 57 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG---- 184 LA + P + + Y + G +D L+ L++G+V++ G T+ Sbjct: 58 LAARISDPKHKLAKTYWAQVEGIPSEDDLDKLRRGVVLKDGPTLPAGVRTMPEPDNLWPR 117 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +W+ + +REG+NR+++++ + RLIR + G + L L G R Sbjct: 118 DPPIRYRAAIPTSWIELTIREGRNRQVRRMTAAMGFPTLRLIRWAVGEWTLAGLAPGEWR 177 Query: 235 EVSKKILRE 243 + + L++ Sbjct: 178 DEPVRALKK 186 >gi|166714192|ref|ZP_02245399.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzicola BLS256] Length = 200 Score = 74.3 bits (181), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 52/176 (29%), Positives = 87/176 (49%), Gaps = 21/176 (11%) Query: 77 LYHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+++ SD P R+ LP V + GRLD ++EGLLLLT+DG LA Sbjct: 14 LLNKPYGVLSQFSDRSQPPKRTLAEFGLPP---DVYAAGRLDHDSEGLLLLTDDGALAHR 70 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG-------- 184 + P + + Y V+ G+ ++L L+ G+V+ QV +LD Sbjct: 71 VTDPRHKQPKTYWVQVEGEPQAEQLQALRDGVVLNDGPTRPAQVRSLDPAPPLWPRDPPV 130 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +AW+ + + EG+NR+++++ RL+R++ G ++L L G R Sbjct: 131 RVRKTVPDAWLELRITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDMLAPGQWR 186 >gi|71903794|ref|YP_280597.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS6180] gi|94988815|ref|YP_596916.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS9429] gi|94992701|ref|YP_600800.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS2096] gi|71802889|gb|AAX72242.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS6180] gi|94542323|gb|ABF32372.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS9429] gi|94546209|gb|ABF36256.1| Ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS2096] Length = 238 Score = 74.3 bits (181), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 65/231 (28%), Positives = 110/231 (47%), Gaps = 14/231 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ + SR +V+++I Q V V+ + NV IEV G + + + Sbjct: 2 RLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQRVTHPKHS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLLLTND 127 + L +KP G+V+ D + TV D L P ++ VGRLD +TEGL+LLT++ Sbjct: 62 YIIL-NKPSGVVSAKKDTN-YLTVIDQLAEEDKSPDLYP----VGRLDRDTEGLVLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G L + P + Y V +G + +D + GI G Q+T+ Sbjct: 116 GPLGFRMLHPIHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQ 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + ++ + EGK ++KK+F + KV L R + +LG L +G R ++ Sbjct: 176 SQASLTISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLT 226 >gi|157149724|ref|YP_001449971.1| ribosomal small subunit pseudouridine synthase A [Streptococcus gordonii str. Challis substr. CH1] gi|157074518|gb|ABV09201.1| Ribosomal small subunit pseudouridine synthase A [Streptococcus gordonii str. Challis substr. CH1] Length = 241 Score = 74.3 bits (181), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDG--VPLRKAE 71 R+ +++A+A I SR+ ++R + + + ++ + NV I D VP A Sbjct: 2 RLDRLLAQASI-SRKSMKRALLRGAILIDQTPARSLSQNVDTGLQEILFDKQKVP---AP 57 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGG 129 R ++ +KP G +T +SD + TV D + + S+GRLD +T GLLL+T++G Sbjct: 58 AHRYFMMNKPRGYITANSDA-SKETVIDLIQKEDYSGELYSIGRLDRDTTGLLLITDNGP 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y V+ +G ++ + ++G+ + G Q+T+ + + Sbjct: 117 LGFQLLHPQYHVDKTYYVQVNGLLNNQAIEAFQQGVRFLDGKVCKPAQLTIHSTTPVLST 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 +V + EGK ++KK+F KV L R +G FQL LA G R +++ L+ Sbjct: 177 ASVTISEGKFHQVKKMFLAIGVKVTYLKRTHFGDFQLDPSLAEGDYRSLNQDELK 231 >gi|268591199|ref|ZP_06125420.1| ribosomal small subunit pseudouridine synthase A [Providencia rettgeri DSM 1131] gi|291313360|gb|EFE53813.1| ribosomal small subunit pseudouridine synthase A [Providencia rettgeri DSM 1131] Length = 235 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 58/226 (25%), Positives = 103/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + V V+ +++ A V + DG L + R Sbjct: 2 RLDKFLSQQLGISRSLVARELRAGLVTVDDEIVKSGAFQVTIDHEVAYDGNVLVQVTGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ HKP G + + DP + +F + ++ S GRLDI+T GL+LLT+DG + + Sbjct: 62 YFMLHKPQGYICSTDDPTHPTILFFIDEPLAQKLHSAGRLDIDTTGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + YRV+ + D +G+++ G Y L+ + +T+ Sbjct: 122 TSPKHHCEKTYRVQLSDDIANDVAEQFAQGVMLNGEKYLTKPAKLEIISPRDVRLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EG+ ++K++F V L R G L TL G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVCGLHRERVGEIWLDETLEPGEYRPLTEE 225 >gi|251790037|ref|YP_003004758.1| 16S rRNA pseudouridylate synthase A [Dickeya zeae Ech1591] gi|247538658|gb|ACT07279.1| pseudouridine synthase [Dickeya zeae Ech1591] Length = 232 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 58/226 (25%), Positives = 104/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + QRV V+G +++ A ++ + D L + R Sbjct: 2 RLDKFLSQQLGISRSLVARELRAQRVTVDGEVIKNGAFKLLPEHEVAFDDNVLVQQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP+G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + + Sbjct: 62 YFMLNKPLGYVCSTDDPDHPTILYFIDEPVAHKLHAAGRLDIDTSGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + D + G+ + G TL+ S V + + Sbjct: 122 TSPKHHCEKTYLVTLDQPLAPDTAEKFQAGVQLHGEQSLTRPATLEII--SEHQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVSKK 239 EG+ ++K++F V L R G L L AG R ++ + Sbjct: 180 EGRYHQVKRMFAAVGNHVVALHRERIGAITLDDALEAGEYRPLTPE 225 >gi|20664188|pdb|1KSK|A Chain A, Structure Of Rsua gi|20664191|pdb|1KSL|A Chain A, Structure Of Rsua gi|20664194|pdb|1KSV|A Chain A, Structure Of Rsua Length = 234 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 100/226 (44%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + R Sbjct: 5 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGPR 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +KP G V + DPD + ++ + ++ + GRLDI+T GL+L T+DG + + Sbjct: 65 YFXLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLXTDDGQWSHRI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 125 TSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHN--EKDLTKPAVLEVITPTQVRLTIS 182 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K+ F V L R G L LA G R ++++ Sbjct: 183 EGRYHQVKRXFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEE 228 >gi|59712383|ref|YP_205159.1| 23S rRNA pseudouridine synthase [Vibrio fischeri ES114] gi|59480484|gb|AAW86271.1| 23S rRNA pseudouridine synthase [Vibrio fischeri ES114] Length = 206 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 46/175 (26%), Positives = 89/175 (50%), Gaps = 16/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP +++ +D R T+ D + V + GRLD ++EGLL+LTNDG L L Sbjct: 33 IFNKPFDVLSQFTDDQHRQTLADFI--SVKDVYAAGRLDRDSEGLLILTNDGVLQARLTQ 90 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P ++ + Y V+ G +D L+ L++G+ ++ +V + + Sbjct: 91 PESKSPKTYWVQVEGAPTEDDLDKLRQGVELKDGMTLPAKVEIIPEPNVWERNPPVRFRA 150 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+++ + EG+NR+++++ + RLIR S G + + + G+ +EVS Sbjct: 151 AIPTTWISITITEGRNRQVRRMTANIGFPTLRLIRYSMGDWTIKDVAHGTWKEVS 205 >gi|194437055|ref|ZP_03069154.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli 101-1] gi|194424038|gb|EDX40026.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli 101-1] Length = 177 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 50/177 (28%), Positives = 87/177 (49%), Gaps = 17/177 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L L Sbjct: 3 LFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQARLTQ 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL--------DT 181 P + ++Y V+ G QD + L+ G+ + G D L + Sbjct: 61 PGKRTGKIYYVQVEGFPTQDAIEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPPIRER 120 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + +W+ + L EG+NR+++++ + RLIR + G + L L G RE ++ Sbjct: 121 KSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLANGEWREATE 177 >gi|119511122|ref|ZP_01630240.1| Pseudouridine synthase, Rsu [Nodularia spumigena CCY9414] gi|119464217|gb|EAW45136.1| Pseudouridine synthase, Rsu [Nodularia spumigena CCY9414] Length = 208 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 60/184 (32%), Positives = 88/184 (47%), Gaps = 20/184 (10%) Query: 70 AERTRLWLYHKPIGLVT--THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 A R +++KP G+++ T P ST+ D +P V VGRLD ++EGLLLLTND Sbjct: 2 ANHYRYIIFYKPYGVLSQFTQETPK-HSTLKDYIP--VRDVYPVGRLDWDSEGLLLLTND 58 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQ-- 182 G L L P R Y V+ D D +N L+ G+ IQG +V L TQ Sbjct: 59 GQLQHRLAHPRFGHQRTYWVQVERIPDVDAINKLQTGVEIQGYRTQPAEVRLLLAATQLP 118 Query: 183 ----------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 AW+ + L EGKNR+++++ + RL+R++ L L G Sbjct: 119 ERNPPIRFRKNVPTAWLEMTLTEGKNRQVRRMTAAVGFPTLRLVRVNIAHLNLDGLDLGE 178 Query: 233 TREV 236 R++ Sbjct: 179 WRDL 182 >gi|238755840|ref|ZP_04617170.1| Ribosomal large subunit pseudouridine synthase F [Yersinia ruckeri ATCC 29473] gi|238705925|gb|EEP98312.1| Ribosomal large subunit pseudouridine synthase F [Yersinia ruckeri ATCC 29473] Length = 290 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 64/233 (27%), Positives = 114/233 (48%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +RAA+ V + D ++V+G + R Sbjct: 8 RLNKYISESGICSRRDADRYIEQGNVFING---KRAAIGDQVYAADVVKVNGQLIEPRDE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP+G+++T D + + V + + RV +GRLD +++GL+ LTN G L Sbjct: 65 DDLVLIALNKPVGIISTTEDGEQDNIV--DFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + L G+ + G + +K + Sbjct: 123 VNKILRAGNDHEKDYVVTVNKPVTDEFILGLSAGVPM----LGTVTKKCKVKKEATFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ F ++V +L R L L G R+ + L E Sbjct: 179 ITLVQGLNRQIRRMCSHFGYEVTKLERTRIMNINLKGLPQGEWRDFTDDELIE 231 >gi|300174214|ref|YP_003773380.1| ribosomal large subunit pseudouridine synthase E [Leuconostoc gasicomitatum LMG 18811] gi|299888593|emb|CBL92561.1| ribosomal large subunit pseudouridine synthase E [Leuconostoc gasicomitatum LMG 18811] Length = 177 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 50/175 (28%), Positives = 87/175 (49%), Gaps = 17/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++T +DPDGR T+ D + RV + GRLD+++EGLLLLT+ G L L Sbjct: 4 LFNKPYNVLTKFTDPDGRPTLADYID--IPRVYAAGRLDMDSEGLLLLTDSGKLNHDLTD 61 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----------ICYGDMQVTLDT----- 181 P + + Y V+ G + +L L++GI ++ I Y + Sbjct: 62 PENKAYKTYVVQVEGIPTKAQLKALEQGIELKDGMTLPAKVKRIPYPKWLWEREKPIRVR 121 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 Q +++ + ++EG+NR+++++ RLIR + +G L G R + Sbjct: 122 QNQPTSFLQIKIKEGRNRQVRRMTAAVGIPTLRLIRTHIDAYHIGDLKPGMYRVI 176 >gi|251811134|ref|ZP_04825607.1| pseudouridylate synthase [Staphylococcus epidermidis BCM-HMP0060] gi|282875829|ref|ZP_06284696.1| pseudouridylate synthase [Staphylococcus epidermidis SK135] gi|293366306|ref|ZP_06612986.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus epidermidis M23864:W2(grey)] gi|251805354|gb|EES58011.1| pseudouridylate synthase [Staphylococcus epidermidis BCM-HMP0060] gi|281294854|gb|EFA87381.1| pseudouridylate synthase [Staphylococcus epidermidis SK135] gi|291319544|gb|EFE59910.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus epidermidis M23864:W2(grey)] gi|329737233|gb|EGG73487.1| putative 16S pseudouridylate 516 synthase [Staphylococcus epidermidis VCU028] gi|329737517|gb|EGG73770.1| putative 16S pseudouridylate 516 synthase [Staphylococcus epidermidis VCU045] Length = 230 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 63/223 (28%), Positives = 111/223 (49%), Gaps = 9/223 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + VKVN +++ ++V ++D I V+ + ++ Sbjct: 2 RLDKFLANMGVGTRSEVKQLLKKGSVKVNQNIVKLPKLHVNPNSDEIMVNDEVVSYIDKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G ++ D + T+ D +P + VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPKGYISATED-EVHPTIIDLIPEYAHLNIFPVGRLDKDTEGLLLVTNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P+ + Y V + Q ++ K GI + G ++ + +K N V Sbjct: 120 EVMNPNKHVSKTYEVYSKHPITQFDIDKFKSGIELSD---GKLKPAI-LKKVDNYVSHVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 + EGK ++K++F +V L RI +L L GS R Sbjct: 176 IYEGKYHQVKRMFHSIENEVLELKRIKIAQLELDHNLDLGSYR 218 >gi|332993406|gb|AEF03461.1| ribosomal large subunit pseudouridine synthase E [Alteromonas sp. SN2] Length = 180 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 46/168 (27%), Positives = 89/168 (52%), Gaps = 20/168 (11%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTND 127 A +++ L++KP +++ +D DGR T+ D ++P +++ GRLD ++EGLL+LTND Sbjct: 2 ANESKIVLFNKPFQVLSQFTDADGRETLKDYIDIPGVYA----AGRLDRDSEGLLVLTND 57 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT----- 181 G L L P + + Y V+ G ++ L+ L+ G+ ++ G+ V +D Sbjct: 58 GKLQHKLAHPEAKTSKTYWVQVEGIPNEAALDALRNGVELKDGMTKPAKVVAIDPPELWD 117 Query: 182 --------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 Q +W+++ + EG+NR+++++ + RL+R G Sbjct: 118 RIPPVRFRQAIPTSWLSITISEGRNRQVRRMTAHIGFPTLRLVRYRVG 165 >gi|91793186|ref|YP_562837.1| pseudouridine synthase, Rsu [Shewanella denitrificans OS217] gi|91715188|gb|ABE55114.1| ribosomal large subunit pseudouridine synthase E [Shewanella denitrificans OS217] Length = 242 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 50/172 (29%), Positives = 82/172 (47%), Gaps = 16/172 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P V + GRLD ++EGLLLLTNDG L Sbjct: 48 LFNKPFDVLCQFTDEAGRKTLKDFIP--VPGVYAAGRLDRDSEGLLLLTNDGKFQSKLTE 105 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--------------DTQ 182 P + + Y V+ G+ +Q ++ L G+ ++ +V L + Q Sbjct: 106 PKQKTFKTYWVQVEGEPNQAAIDALCAGVELKDGMTLPAKVRLMATPDVWPRTPPVRERQ 165 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 AW+ V + EG+NR+++++ RLIR G + L L G + Sbjct: 166 SIPTAWLEVQICEGRNRQVRRMTAHVGHPTLRLIRYKIGQWSLDDLNNGDYK 217 >gi|166364490|ref|YP_001656763.1| ribosomal large subunit pseudouridine synthase E [Microcystis aeruginosa NIES-843] gi|166086863|dbj|BAG01571.1| ribosomal large subunit pseudouridine synthase E [Microcystis aeruginosa NIES-843] Length = 194 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 57/188 (30%), Positives = 93/188 (49%), Gaps = 32/188 (17%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA----- 131 L++KP ++ +D +GRST+ D +P + SVGRLD ++EGLLLLT++G L Sbjct: 6 LFYKPYDVLCQFTDENGRSTLKDYIP--IPNIYSVGRLDRDSEGLLLLTDNGQLQHRLGH 63 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-------ICYGDMQVTLDTQKG 184 R P T W++V R+ D + L L++G+ IQ + D + L ++ Sbjct: 64 RQFAHPRTYWVQVERI-----PDLNALEKLRQGLPIQDYRTRPAIVNLLDFEPDLPPREP 118 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY-----GPFQLGTLLAG 231 AW+ + L EG+NR+++++ + RLIR + L L G Sbjct: 119 PIRYRKSVPTAWLEITLTEGRNRQVRRMTAAVGYPTLRLIRTAITIDKNNKLCLTGLQPG 178 Query: 232 STREVSKK 239 REV++K Sbjct: 179 QWREVTEK 186 >gi|304397506|ref|ZP_07379384.1| pseudouridine synthase [Pantoea sp. aB] gi|304355124|gb|EFM19493.1| pseudouridine synthase [Pantoea sp. aB] Length = 239 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 54/203 (26%), Positives = 93/203 (45%), Gaps = 2/203 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I++ SR R I QRV VNG ++ A ++ + DG L+ R Sbjct: 2 RLDKFISQQLEISRAIAHREIRGQRVTVNGEVVRDTAFKLLPDHEVVYDGNVLQMQTGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTIIYFIEEPMSFKLHAAGRLDIDTTGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + YRV + D G+ + L+ ++ +T L Sbjct: 122 TSPRHHCEKTYRVTLESPISDDTAAQFTAGVQLHNEKSLTKPAQLEVITPTDVRLT--LS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIR 217 EG+ ++K++F +V L R Sbjct: 180 EGRYHQVKRMFAAVGNRVIELHR 202 >gi|304311203|ref|YP_003810801.1| Probable pseudouridine synthase [gamma proteobacterium HdN1] gi|301796936|emb|CBL45149.1| Probable pseudouridine synthase [gamma proteobacterium HdN1] Length = 254 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 50/175 (28%), Positives = 89/175 (50%), Gaps = 20/175 (11%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 T + L+HKP G++ S R T+ + +LP I++ GRLD ++EGLL+LTNDG L Sbjct: 77 TTILLFHKPFGVICQFSRDGTRPTLANYISLPDIYA----AGRLDQDSEGLLVLTNDGKL 132 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-------------IQGICYGDMQV 177 + + P + + Y + G + ++ L+ L+ GI I+ + + Sbjct: 133 QQRITHPKHKLEKTYLAQVEGIISEEALHQLRTGIALKDGKTLPAKAQRIEPPNFAERIP 192 Query: 178 TLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + +K +W+ + + EG+NR+++++ + RLIR G +QLG L G Sbjct: 193 PIRERKNIPTSWLELRICEGRNRQVRRMTAATGFPTLRLIRTRIGEWQLGELQPG 247 >gi|171058596|ref|YP_001790945.1| RNA-binding S4 domain-containing protein [Leptothrix cholodnii SP-6] gi|170776041|gb|ACB34180.1| RNA-binding S4 domain protein [Leptothrix cholodnii SP-6] Length = 416 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 73/245 (29%), Positives = 116/245 (47%), Gaps = 34/245 (13%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+SK +A G+ASRRE + I V+V+G +L +R V I VD ++ Sbjct: 173 ERLSKRMAALGLASRREADEWIEAGWVRVDGKMAVLGQR----VGPQAKIHVDPAAHKQQ 228 Query: 71 ERTRLWLYHKPIGLVTTHSD-----------PDGR----STVFDNLPSIFSRVISVGRLD 115 + L +KP+G V+ ++ P+ R S+ + P + GRLD Sbjct: 229 AQRVTILVNKPVGYVSGQAEDGYEPAAALIRPENRWSEDSSGVNWHPGQLRGLAPAGRLD 288 Query: 116 INTEGLLLLTNDGGLARVL----ELPSTQWLRVYRVRFHGQ--VDQDKLNLLKKGIVIQG 169 I++ GLL+LT DG +A++L L ++L RV + GQ + L LL G+ + G Sbjct: 289 IDSVGLLVLTQDGRVAKLLIGDESLVEKEYL--VRVAYQGQGRLPDSALALLNHGLELDG 346 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 +V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 347 QALRPAKVSWQNEDQ----LRFVLREGKKRQIRRMCEAVGLQVLGLKRVRIGSVSLGHLP 402 Query: 230 AGSTR 234 AG R Sbjct: 403 AGQWR 407 >gi|218709840|ref|YP_002417461.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio splendidus LGP32] gi|218322859|emb|CAV19036.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio splendidus LGP32] Length = 247 Score = 73.9 bits (180), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 60/227 (26%), Positives = 109/227 (48%), Gaps = 6/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +RRE ++ + V VN ++ + ++ V +E G L R Sbjct: 18 RLDKFLCDALGVTRREATHLLKSKAVTVNDVIQKSGSLKVTEECVVEWQGNEL-NVHGPR 76 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G V +H D R T F+ L I ++ GRLD++T GL+L+T+DG + Sbjct: 77 YIMLYKPEGFVCSHEDGSNR-TAFELLDEIKMDKLHFAGRLDVDTTGLVLMTDDGKWSHR 135 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + ++YRV V+ D + K+GI ++ + L+ + +T+ Sbjct: 136 ITSPKHKCEKMYRVWLVEPVEDDYVEKFKEGIQLKSEDGLTLPAHLEVRAEREVLLTI-- 193 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EGK ++K++F KV L R G ++ +L G R ++++ Sbjct: 194 HEGKYHQVKRMFAALGNKVEALHRERIGEIEMDESLELGEYRYLTQE 240 >gi|293395241|ref|ZP_06639526.1| ribosomal small subunit pseudouridine synthase A [Serratia odorifera DSM 4582] gi|291422198|gb|EFE95442.1| ribosomal small subunit pseudouridine synthase A [Serratia odorifera DSM 4582] Length = 237 Score = 73.9 bits (180), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 57/236 (24%), Positives = 109/236 (46%), Gaps = 3/236 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV V+G ++ A+ + + DG L + R Sbjct: 2 RLDKFLSQQLGISRALVARELRAKRVTVDGEVVRSGALKLTPETEVAFDGNVLEQLNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLEEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + D + G+ + D+ ++ V + + Sbjct: 122 TSPKHHCEKTYLVTLEQPLAADTASHFAAGVQLHN--EKDLTRPAQLEQLDEHRVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G +L LA G R ++++ + PHL Sbjct: 180 EGRYHQVKRMFAAVGNRVVDLHRERIGAIRLDDDLAPGEYRPLTEEEIASVGAPHL 235 >gi|86148075|ref|ZP_01066376.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio sp. MED222] gi|85834135|gb|EAQ52292.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio sp. MED222] Length = 231 Score = 73.9 bits (180), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 60/227 (26%), Positives = 109/227 (48%), Gaps = 6/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +RRE ++ + V VN ++ + ++ V +E G L R Sbjct: 2 RLDKFLCDALGVTRREATHLLKSKAVTVNDVIQKSGSLKVTEECVVEWQGNEL-NVHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G V +H D R T F+ L I ++ GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPEGFVCSHEDGSNR-TAFELLDEIKMDKLHFAGRLDVDTTGLVLMTDDGKWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + ++YRV V+ D + K+GI ++ + L+ + +T+ Sbjct: 120 ITSPKHKCEKMYRVWLVEPVEDDYVEKFKEGIQLKSEDGLTLPAHLEVRAEREVLLTI-- 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EGK ++K++F KV L R G ++ +L G R ++++ Sbjct: 178 HEGKYHQVKRMFAALGNKVEALHRERIGEIEMDESLELGEYRYLTQE 224 >gi|323187623|gb|EFZ72930.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli RN587/1] Length = 177 Score = 73.9 bits (180), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 49/176 (27%), Positives = 83/176 (47%), Gaps = 17/176 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L L Sbjct: 3 LFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQARLTQ 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P + ++Y V+ G QD L L+ G+ + L + Sbjct: 61 PGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPAWLWPRNPPIRER 120 Query: 185 ---SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 121 KSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREAT 176 >gi|226939304|ref|YP_002794375.1| pseudouridine synthase [Laribacter hongkongensis HLHK9] gi|226714228|gb|ACO73366.1| Probable pseudouridine synthase [Laribacter hongkongensis HLHK9] Length = 224 Score = 73.9 bits (180), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 51/201 (25%), Positives = 93/201 (46%), Gaps = 21/201 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL L +KP + S +T+ D +P + V GRLD ++EG++LLT+ G L Sbjct: 3 RLILLNKPFDTICQFSASPPHATLADWVP--VAGVYPAGRLDTDSEGMVLLTDHGPLQHA 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------- 184 + P+ + + Y V+ G + ++L L++G+ + V + + Sbjct: 61 IAHPAAKAPKTYWVQVEGTPEAEQLEQLRQGVDLGDFVTQPASVRILPEPELWPRQPPVR 120 Query: 185 -----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 W+ + + EGKNR+++++ RL+R++ G +LG L G RE++K Sbjct: 121 FRKTVPTHWLEIIISEGKNRQVRRMTAKVGLPTLRLVRVAVGSLKLGELQPGEWREIAKG 180 Query: 240 ILREQLGPHLLEEAQVNLDAP 260 L P + ++A AP Sbjct: 181 EL-----PAVWQQAWSQTAAP 196 >gi|54293791|ref|YP_126206.1| hypothetical protein lpl0847 [Legionella pneumophila str. Lens] gi|53753623|emb|CAH15081.1| hypothetical protein lpl0847 [Legionella pneumophila str. Lens] Length = 200 Score = 73.9 bits (180), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 53/180 (29%), Positives = 85/180 (47%), Gaps = 20/180 (11%) Query: 74 RLWLYHKPIGLVT--THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP G++T T P+ + F P ++ GRLD +EGLL+LT+DG L Sbjct: 3 QLILFNKPYGVLTQFTGELPEQTLSAFIKFPGFYA----AGRLDKQSEGLLILTDDGKLQ 58 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------- 184 L P + + Y V+ G L L+KG+VI+ I + + L ++ Sbjct: 59 HRLTHPKFEKKKHYWVQVEGVPTDKDLQPLRKGLVIKDITFLPAEAKLISEPKIWPRIPP 118 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ + LREGKN +I+K+ + RLIR G + L L G + ++ Sbjct: 119 IRERKHIPTTWLGIILREGKNHQIRKMTAAIGFPTLRLIRYQIGDWHLDQLQPGEYKLIN 178 >gi|330895553|gb|EGH27863.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. japonica str. M301072PT] Length = 190 Score = 73.9 bits (180), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 47/162 (29%), Positives = 84/162 (51%), Gaps = 20/162 (12%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP ++T SD +GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 KLILFNKPFDVLTQFSDEEGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ + ++L L+ G+ + G LD Sbjct: 88 ARIADPKHKLAKTYGVQVEGEPNDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPRNPP 147 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 + +W+ + ++EG+NR+++++ RL+R+S Sbjct: 148 VRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRLS 189 >gi|332292171|ref|YP_004430780.1| RNA-binding S4 domain protein [Krokinobacter diaphorus 4H-3-7-5] gi|332170257|gb|AEE19512.1| RNA-binding S4 domain protein [Krokinobacter diaphorus 4H-3-7-5] Length = 296 Score = 73.9 bits (180), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 105/230 (45%), Gaps = 12/230 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +GI SRRE + I+ +V VNG ++ V D + DG + + Sbjct: 66 RLNKYIANSGICSRREADMYISIGQVTVNGKVVNEMGYQVKLEDDVRFDGRRINPEAKAY 125 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP G TT S+ G +TV D + S SR+ +GRL N GLLL TND L + Sbjct: 126 VLL-NKPKGFATTTSNDKG-NTVMDLVAGSTKSRIQPIGRLGRNAMGLLLFTNDDELVQK 183 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----TQKGSNAWV 189 ++Y V + + + +G+ I G +T+D V Sbjct: 184 FTNSKKGVDKLYHVELSNNLKGADIERINEGLKIDG-----KTITVDEISYVDGAPKKEV 238 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + +R N I+ +FE N++V R+ ++ L G R ++K+ Sbjct: 239 GLRIRNTGNSVIRTIFEHLNYEVVRVDCVTIAGLTKKDLPRGHWRYLTKQ 288 >gi|187478145|ref|YP_786169.1| ribosomal large subunit pseudouridine synthase F [Bordetella avium 197N] gi|115422731|emb|CAJ49259.1| ribosomal large subunit pseudouridine synthase F (pseudouridylate synthase) [Bordetella avium 197N] Length = 243 Score = 73.9 bits (180), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 68/237 (28%), Positives = 112/237 (47%), Gaps = 23/237 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ G+ SRRE + I + V+V+G ++ I ++ +A +T Sbjct: 5 RISKLMSEQGLCSRREADSYIERGWVRVDGEVVSELGAKAYPHQKITLERAA--RAAQTS 62 Query: 75 LW--LYHKPIGLVTTHSDP---------DGRSTV-FDNLPSIFSR-----VISVGRLDIN 117 L L +KP+G V+ ++ D RS D F R + GRLDI+ Sbjct: 63 LATILINKPVGYVSGQAEDGYKPAVALVDARSQYEGDRSGRRFDRANLRGLAVAGRLDID 122 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 ++GLL+LT DG +A+ L + + Y VR G++ + L LL G+++ G V Sbjct: 123 SQGLLVLTQDGRVAKQLIGEDSLVDKEYLVRVEGRLSERGLALLNHGLMLDGKPLKPANV 182 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + LREGK R+I+++ E +V L R+ G +LG L G R Sbjct: 183 CWQNED----QLRFVLREGKKRQIRRMCELVGLRVVGLKRVRIGRVRLGDLPVGQWR 235 >gi|298492438|ref|YP_003722615.1| pseudouridine synthase ['Nostoc azollae' 0708] gi|298234356|gb|ADI65492.1| pseudouridine synthase ['Nostoc azollae' 0708] Length = 195 Score = 73.9 bits (180), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 53/179 (29%), Positives = 85/179 (47%), Gaps = 22/179 (12%) Query: 77 LYHKPIGLVTTHSDPDGRSTV---FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++HKP G+++ + + + ++P I+ VGRLD ++EGL+LLTNDG L Sbjct: 9 IFHKPYGVLSQFTQESPKHITLKDYIDVPEIYP----VGRLDWDSEGLMLLTNDGQLQHR 64 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS-------- 185 L P R Y V+ D + +N L G+ IQ QV L ++ + Sbjct: 65 LANPRFGHKRTYWVQLEHIPDGEAINKLCTGVEIQNYQTRPAQVKLFLEEPTVSERNPPI 124 Query: 186 -------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 AW+ + L EGKNR+++++ + RLIR+S QL L G R ++ Sbjct: 125 RFRKNIPTAWLEMTLTEGKNRQVRRMTAAVGFPTLRLIRVSITNLQLNGLQPGEWRYLT 183 >gi|329725501|gb|EGG61981.1| pseudouridylate synthase [Staphylococcus epidermidis VCU144] Length = 230 Score = 73.9 bits (180), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 64/224 (28%), Positives = 112/224 (50%), Gaps = 11/224 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + VKVN +++ ++V ++D I V+ + ++ Sbjct: 2 RLDKFLANMGVGTRSEVKQLLKKGSVKVNQNIVKLPKLHVNPNSDEIMVNDEVVSYIDKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G ++ D + T+ D LP + VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPKGYISATED-ELHPTIIDLLPEYAHLNIFPVGRLDKDTEGLLLVTNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT-V 191 + P+ + Y V + Q ++ K GI + D ++ K + +V+ V Sbjct: 120 EVMNPNKHVSKTYEVYSKHPITQFDIDKFKSGIEL-----SDGKLKPAILKKVDDYVSHV 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 + EGK ++K++F +V L RI +L L GS R Sbjct: 175 TIYEGKYHQVKRMFHSIENEVLELKRIKIAQLELDHNLDLGSYR 218 >gi|329767586|ref|ZP_08259107.1| hypothetical protein HMPREF0428_00804 [Gemella haemolysans M341] gi|328839213|gb|EGF88797.1| hypothetical protein HMPREF0428_00804 [Gemella haemolysans M341] Length = 235 Score = 73.9 bits (180), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K I+ SR E +++I ++ V +N IL++ V +D + V+G L + Sbjct: 2 RLDKFISTTTTLSRAEAKKII-KKGVLINNILVKSPDYKVDELSDQVIVNGERLVYQKYI 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +KP +V+ D TV D L +V VGRLD +TEGL+LLTNDG LA Sbjct: 61 YIMM-NKPKNVVSATEDA-VEKTVVDILEEKDRIHKVFPVGRLDKDTEGLMLLTNDGELA 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--IC-YGDMQVTLDTQKGSNAW 188 L P + Y V G++ + + L++ GI+I G C +++ ++ S A Sbjct: 119 HKLISPKKDVEKKYYVEVSGKLKDEYIELVENGIIIDGGYKCKSARLEILESNEEKSRA- 177 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 ++ + EGK ++K++ + V L R+S G +L L G R +++K L+ Sbjct: 178 -SIFITEGKFHQVKRMMKALGTTVTYLKRLSIGSLKLDENLKLGEYRYLTEKELK 231 >gi|294636775|ref|ZP_06715113.1| ribosomal large subunit pseudouridine synthase E [Edwardsiella tarda ATCC 23685] gi|291089990|gb|EFE22551.1| ribosomal large subunit pseudouridine synthase E [Edwardsiella tarda ATCC 23685] Length = 178 Score = 73.9 bits (180), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 47/175 (26%), Positives = 86/175 (49%), Gaps = 17/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP ++ +D GR+T+ +P + + + GRLD ++EGLL+LTNDG L L Sbjct: 3 IFNKPFDVLPQFTDEQGRTTLKQYIP--LTGIYAAGRLDRDSEGLLVLTNDGQLQAQLTQ 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV---------------TLDT 181 P + +VY V+ G+ + L ++G+ ++ Q + Sbjct: 61 PGKRTGKVYYVQVEGEPTEHDLARFRQGLTLKDGPTLPAQAERVAEPEWLWPRNPPIRER 120 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + +W+ + L EG+NR+++++ + RLIR S G L L +G RE+ Sbjct: 121 KSIPTSWLKITLYEGRNRQVRRMTAHIGYPTLRLIRYSMGSITLEDLASGCWREI 175 >gi|329118296|ref|ZP_08247005.1| ribosomal large subunit pseudouridine synthase F [Neisseria bacilliformis ATCC BAA-1200] gi|327465520|gb|EGF11796.1| ribosomal large subunit pseudouridine synthase F [Neisseria bacilliformis ATCC BAA-1200] Length = 245 Score = 73.9 bits (180), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 72/245 (29%), Positives = 109/245 (44%), Gaps = 30/245 (12%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRK 69 P R+SK +A G+ SRRE + I + V+VNG + AV V D I++ Sbjct: 6 PLRLSKRMAELGLCSRREADAYIERGWVRVNG----QTAVLGQKVSPADRIDLAREAHET 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTV-----------------FDNLPSIFSRVISVG 112 R L +KP+G V+ + R+ V FD P + G Sbjct: 62 QARRVTVLLNKPVGYVSGQPEKGYRAAVELFTPENRWEGDQSRIPFD--PRHLRGLAPAG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLDI++ GLL+LT DG A+ L + Y VR G++ ++ L LL G+ + G Sbjct: 120 RLDIDSVGLLVLTQDGRTAKQLVGADGGSEKEYLVRVRGRLKENGLALLNHGLSLDGEPL 179 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 +V + + LR+GK R+I+++ E V L RI G +LG L G Sbjct: 180 RPAKVEWQNRD----QLRFVLRQGKKRQIRRMCELVGLTVVGLKRIRIGRVKLGALPPGK 235 Query: 233 TREVS 237 R ++ Sbjct: 236 WRYLA 240 >gi|18311246|ref|NP_563180.1| 16S pseudouridylate synthase [Clostridium perfringens str. 13] gi|110800371|ref|YP_696936.1| 16S pseudouridylate synthase [Clostridium perfringens ATCC 13124] gi|168205092|ref|ZP_02631097.1| RNA pseudouridine synthase family protein [Clostridium perfringens E str. JGS1987] gi|168216772|ref|ZP_02642397.1| RNA pseudouridine synthase family protein [Clostridium perfringens NCTC 8239] gi|182625568|ref|ZP_02953339.1| RNA pseudouridine synthase family protein [Clostridium perfringens D str. JGS1721] gi|18145929|dbj|BAB81970.1| 16S pseudouridylate synthase [Clostridium perfringens str. 13] gi|110675018|gb|ABG84005.1| RNA pseudouridine synthase family protein [Clostridium perfringens ATCC 13124] gi|170663292|gb|EDT15975.1| RNA pseudouridine synthase family protein [Clostridium perfringens E str. JGS1987] gi|177909256|gb|EDT71721.1| RNA pseudouridine synthase family protein [Clostridium perfringens D str. JGS1721] gi|182381141|gb|EDT78620.1| RNA pseudouridine synthase family protein [Clostridium perfringens NCTC 8239] Length = 239 Score = 73.9 bits (180), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 115/233 (49%), Gaps = 13/233 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV++ G +R+E+++++ + V VN ++ + + + D I ++G + + Sbjct: 2 ERLDKVLSNLGYGTRKEIKQVVKKGFVTVNDEKVKDSGLQIDPEKDTIVINGEKVEYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + +KP G+++ D TV D L +F VGRLD +T GLLLLTNDG Sbjct: 62 IYLMM-NKPAGVISATYDKRDE-TVIDLLYMEDQVFEP-FPVGRLDKDTVGLLLLTNDGD 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSN 186 L L P +VY + + + + + G+ + ++V + + S Sbjct: 119 LNHKLISPKYHVDKVYYAEINAPITEKDIKAFENGVTLDDGYKCMSAKLKVIENLEDSSR 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 VTV +EGK ++K++FE KV L R S+G L +L G +E+S+ Sbjct: 179 VEVTV--QEGKYHQVKRMFEARGKKVVYLKRTSFGNLPLDESLEEGEYKELSE 229 >gi|187933363|ref|YP_001887508.1| RNA pseudouridine synthase family protein [Clostridium botulinum B str. Eklund 17B] gi|187721516|gb|ACD22737.1| RNA pseudouridine synthase family protein [Clostridium botulinum B str. Eklund 17B] Length = 264 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 67/256 (26%), Positives = 116/256 (45%), Gaps = 35/256 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM----STDHIEVDGVPLRKA 70 R+ K +A + + R+ V I VKVNG ++ ++++ +++E V K Sbjct: 2 RLDKFLAESAVGRRKIVRTYIKDGMVKVNGEIITEPSIDINEKLDDVEYLEKKVVHTGKV 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++++KP G +T D R TVFD + V VGRLD +TEGLLLLTNDG Sbjct: 62 ----YYMFNKPSGCITATKDNIHR-TVFDYFDEDMNGVFHVGRLDKDTEGLLLLTNDGEF 116 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---------------QGICYGDM 175 + P + Y G +D + L++G+ I + Y + Sbjct: 117 EHKVMHPEKHVEKTYFFWALGSLDDEDKKQLQEGVFIGSNEALTKPAKIDIHKSGSYIEF 176 Query: 176 QVTL--------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG- 226 + + D Q + ++T+ EG+ ++K++ + V L RIS G +L Sbjct: 177 KEEIPINSLKNKDHQPVVSGYLTIS--EGQKHQVKRMLKAVGCYVIYLKRISIGGLKLDE 234 Query: 227 TLLAGSTREVSKKILR 242 +L G R+++KK ++ Sbjct: 235 SLKMGDYRDLTKKEIK 250 >gi|162533084|ref|YP_001621408.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. tomato str. DC3000] gi|213971148|ref|ZP_03399267.1| Ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. tomato T1] gi|301381835|ref|ZP_07230253.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. tomato Max13] gi|302061563|ref|ZP_07253104.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. tomato K40] gi|302132803|ref|ZP_07258793.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. tomato NCPPB 1108] gi|118201622|gb|ABK79685.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. tomato str. DC3000] gi|213924137|gb|EEB57713.1| Ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. tomato T1] gi|331015567|gb|EGH95623.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. lachrymans str. M302278PT] Length = 230 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 58/210 (27%), Positives = 102/210 (48%), Gaps = 8/210 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R+ V +A RV+V+G + +V + D L+ + R Sbjct: 2 RLDRFLSNLPRFNRKSVRLALASGRVQVDGQITTDPHYDVREFSCVAFDMQILQPGKAAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ +D +TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPQGCVSATTDAQ-HATVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ +G+ + I Q+T+ + + + Sbjct: 121 LTQPHTKMPKVYYVETEQLIDERYALTFAEGLFFSFENIITQPAQLTVLGPRSAR----L 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + EG+ ++K++F F+ KV +L R S G Sbjct: 177 SIIEGRYHQVKRMFGHFDNKVLQLHRESIG 206 >gi|125717504|ref|YP_001034637.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK36] gi|125497421|gb|ABN44087.1| Ribosomal small subunit pseudouridine synthase A, putative [Streptococcus sanguinis SK36] Length = 241 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 74/240 (30%), Positives = 126/240 (52%), Gaps = 13/240 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A A SR+++++ + Q+++ V+G + + NV I G + Sbjct: 2 RLDQLLA-ANHISRKKMKQSLLQKQILVDGKPAYKLSQNVDTGLQQITFQGKHVSGPAH- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP G VT + D + + TV D L + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPSGAVTANRDAE-KLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWV 189 L P + Y V +G + QDK+ ++GI + G Q+++ + S + Sbjct: 119 FQLLHPQYHVEKTYYVEVNGPLTSQDKIA-FQEGIRFLDGTICQPAQLSILSSSSSLSRA 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK---KILREQL 245 TV + EGK +IKK+F KV L RI +G F L LA G R +++ +I++E L Sbjct: 178 TVKISEGKFHQIKKMFLAVGVKVTYLKRIQFGDFTLDPDLAKGDYRALNQEELEIIKEYL 237 >gi|148979672|ref|ZP_01815644.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrionales bacterium SWAT-3] gi|145961649|gb|EDK26947.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrionales bacterium SWAT-3] Length = 231 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 60/227 (26%), Positives = 109/227 (48%), Gaps = 6/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +R+E ++ + V VN ++ + +V V +E G L R Sbjct: 2 RLDKFLCDALGITRKEATHLLKTKTVTVNDVMQKSGSVKVTEQCVVEWQGNEL-NVHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G V +H D R T F+ L I ++ GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPEGFVCSHEDGSNR-TAFELLDEIKMDKLHFAGRLDVDTTGLVLITDDGKWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + ++YRV V+ D + K+GI ++ + L+ + +T+ Sbjct: 120 ITAPKHKCEKMYRVWLVDPVEPDYVEKFKEGIQLKSEDGLTLPAHLEVRAEREVLLTI-- 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EGK ++K++F KV L R G ++ +L G R ++++ Sbjct: 178 HEGKYHQVKRMFAALGNKVEALHRERIGEIEMDESLELGEYRYLTQE 224 >gi|269102224|ref|ZP_06154921.1| putative pseudouridine synthase family 1protein [Photobacterium damselae subsp. damselae CIP 102761] gi|268162122|gb|EEZ40618.1| putative pseudouridine synthase family 1protein [Photobacterium damselae subsp. damselae CIP 102761] Length = 215 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 49/179 (27%), Positives = 85/179 (47%), Gaps = 16/179 (8%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++T S G T+ D +P V GRLD ++EGLL+LTNDG L L Sbjct: 37 LFNKPFNVLTQFSGEPGDITLADFIP--VKDVYPAGRLDKDSEGLLVLTNDGILQARLTQ 94 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P ++ + Y V+ G ++ L L+KG+ ++ V + ++ Sbjct: 95 PKSKQPKTYWVQVEGAPSEESLQALRKGVELKDGMTLPAGVEVMSEPNIWPRNPPIRERK 154 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 W+ + L+EG+NR+++++ RLIR + + L G RE++ + L Sbjct: 155 NIPTTWLAITLKEGRNRQVRRMTAHIGHPTLRLIRYKMADWTVDDLEPGQWREITLETL 213 >gi|331006786|ref|ZP_08330052.1| Hypothetical pseudouridylate synthase [gamma proteobacterium IMCC1989] gi|330419404|gb|EGG93804.1| Hypothetical pseudouridylate synthase [gamma proteobacterium IMCC1989] Length = 239 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 61/231 (26%), Positives = 112/231 (48%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + I+R + + V ++ ++++ V+G + V + VDG +++ + Sbjct: 6 HRLDRFISRRLSVTNKAVRELLVRKKIIVDGEVASLMNQTVGPFTFVVVDGEVIQQRQPV 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLAR 132 L + +KP G+V+ D D + V D + + + GRLD NT GLLLLTNDG ++ Sbjct: 66 YLMM-NKPKGVVSATKD-DKHTIVLDLIDHPLKEELHIAGRLDFNTTGLLLLTNDGAWSK 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---DTQKGSNAWV 189 L LP ++ YRV + + + +K +G+ +T S+ V Sbjct: 124 QLSLPENNIMKKYRVTLKDHLFSSDVLIYQKKFS-EGVFLSSENITTRPATLLALSSNIV 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 + + EG+ ++K++F FF +V L R+S G ++ G L G R ++ K Sbjct: 183 ELSICEGRYHQVKRMFGFFQNEVLELHRLSVGSLEMEGGLALGRYRVLTPK 233 >gi|205373779|ref|ZP_03226581.1| ribosomal large subunit pseudouridine synthase B [Bacillus coahuilensis m4-4] Length = 125 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 39/100 (39%), Positives = 59/100 (59%), Gaps = 1/100 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA +GIASRR+ E +I + +VKVNG++++ V D +EV+GV + + E+ Sbjct: 2 ERLQKVIAHSGIASRRKSEELIVEGKVKVNGVIVKELGTKVGPNDTVEVEGVKVEREEKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 LY KP G+++ D R V D P I R+ GR Sbjct: 62 YFLLY-KPRGVISAVRDDKDRKVVTDFFPHIQERIYPXGR 100 >gi|251779990|ref|ZP_04822910.1| ribosomal large subunit pseudouridine synthase F [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|243084305|gb|EES50195.1| ribosomal large subunit pseudouridine synthase F [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 226 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 62/227 (27%), Positives = 114/227 (50%), Gaps = 8/227 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+ + GI SR++ ++I + R+ VNG+ + V D I +D L E+ Sbjct: 2 RINKLFSNLGICSRKDTSKLIEENRIIVNGLPCIQGQW-VELEDEILLDNKLLPIKEKIY 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L +KP+G+ T +D + + N + + VGRLD ++GL+LLTNDG LA + Sbjct: 61 IAL-NKPVGVTCTAADEVEHNII--NFMNYNEYIFPVGRLDKASQGLILLTNDGDLANKI 117 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + + ++ G+ I + +V ++ N +T GL Sbjct: 118 LESENEHEKEYIVTLDRPFNDEFILGMENGVEICNVKTRQCKVRRISEDTFNIILTQGL- 176 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 N++I+++ + F + V +L RI +LG L G R +S++ L Sbjct: 177 ---NKQIRRMSKAFGYNVEKLERIRIVNIELGDLEYGKWRYLSEEEL 220 >gi|228993274|ref|ZP_04153190.1| RNA pseudouridine synthase [Bacillus pseudomycoides DSM 12442] gi|228766342|gb|EEM14985.1| RNA pseudouridine synthase [Bacillus pseudomycoides DSM 12442] Length = 203 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 57/206 (27%), Positives = 106/206 (51%), Gaps = 10/206 (4%) Query: 42 VNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWL-YHKPIGLVTTHSDP-DGRSTVFD 99 +NG + + + V D + +DG + K ++ ++++ +HKP+G+ T +D DG + Sbjct: 3 INGEVCKHGTI-VTENDIVMIDGKTIEKEDKEKIYIAFHKPVGITCTAADHIDGNIIEYI 61 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 N P R+ VGRLD +EGL+LLTNDG +A + + + Y V ++ Sbjct: 62 NHPE---RIFPVGRLDKASEGLILLTNDGRIANQILHGDYEHEKEYIVTVDKPFTDWFID 118 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 + +G+ I+ +VT + +++ + L +G NR+I+++ F + V +L R+ Sbjct: 119 GMSRGVKIKDGITKQCKVT----RVNSSTFRIILTQGMNRQIRRMSRAFGYTVTKLKRVR 174 Query: 220 YGPFQLGTLLAGSTREVSKKILREQL 245 +L L AG R V+ + L+E L Sbjct: 175 IMNIKLDGLEAGEWRNVTVQELQELL 200 >gi|110802628|ref|YP_699525.1| 16S pseudouridylate synthase [Clostridium perfringens SM101] gi|110683129|gb|ABG86499.1| RNA pseudouridine synthase family protein [Clostridium perfringens SM101] Length = 239 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 115/233 (49%), Gaps = 13/233 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 +R+ KV++ G +R+E+++++ + V VN ++ + + + D I ++G + + Sbjct: 2 ERLDKVLSNLGYGTRKEIKQVVKKGFVTVNDEKVKDSGLQIDPEKDTIVINGEKVEYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + +KP G+++ D TV D L +F VGRLD +T GLLLLTNDG Sbjct: 62 IYLMM-NKPAGVISATYDKRDE-TVIDLLYMEDQVFEP-FPVGRLDKDTVGLLLLTNDGD 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSN 186 L L P +VY + + + + + G+ + ++V + + S Sbjct: 119 LNHKLISPKYHVDKVYYAEINAPITEKDIKAFENGVTLDDGYKCMSAKLKVIENLEDSSR 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 VTV +EGK ++K++FE KV L R S+G L +L G +E+S+ Sbjct: 179 VEVTV--QEGKYHQVKRMFEARGKKVIYLKRTSFGNLPLDESLEEGEYKELSE 229 >gi|325576785|ref|ZP_08147400.1| ribosomal large subunit pseudouridine synthase E [Haemophilus parainfluenzae ATCC 33392] gi|325160991|gb|EGC73109.1| ribosomal large subunit pseudouridine synthase E [Haemophilus parainfluenzae ATCC 33392] Length = 230 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 47/185 (25%), Positives = 94/185 (50%), Gaps = 17/185 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ L++KP ++T +D +GR+T+ D + I V + GRLD ++EGLL+LTN+G + Sbjct: 36 SQVILFNKPFDVLTQFTDENGRATLKDFI--IIPNVYAAGRLDRDSEGLLILTNNGEVQH 93 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------------- 179 L P + + Y + G ++ L+ L++G+ ++ +V L Sbjct: 94 RLADPKFKTEKTYFAQVEGIPEESDLDKLRQGVELKDGMTKPAKVRLISEPDFLWPRNPP 153 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + Q +W+ + + EG+NR+++++ + RLIR L L G R ++ Sbjct: 154 IRERQSIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLIRYQMSHLTLDGLSNGEYRRLN 213 Query: 238 KKILR 242 ++ +R Sbjct: 214 EEEMR 218 >gi|225568053|ref|ZP_03777078.1| hypothetical protein CLOHYLEM_04126 [Clostridium hylemonae DSM 15053] gi|225163149|gb|EEG75768.1| hypothetical protein CLOHYLEM_04126 [Clostridium hylemonae DSM 15053] Length = 256 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 67/237 (28%), Positives = 113/237 (47%), Gaps = 6/237 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A GI +R+EV++ I Q +VKV+ +++ V + + G + E Sbjct: 8 RLDKYLADMGIGTRQEVKKHIRQGKVKVDAAVVKSPEYKVNEKESTVLYGDSPVRYEAFV 67 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G+++ D + TV D + + + + GRLD +TEGLLL+TNDG LA Sbjct: 68 YYMLNKPAGVISATEDRREK-TVVDLIKTKERKDLFPAGRLDKDTEGLLLITNDGKLAHS 126 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---QVTLDTQKGSNAWVT 190 L P + Y R G V ++ +GI I + V G + V Sbjct: 127 LLSPKKHVDKTYYARVKGIVTEEDARAFAEGIDIGTSALPEWTRPAVLEIISSGQESAVR 186 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 + ++EGK ++K++F +V L R G L +L G R+++ + LR G Sbjct: 187 LTIQEGKFHQVKRMFLARGKEVVYLKRERMGGLVLDSSLKPGEYRKLTDEELRNIYG 243 >gi|146312421|ref|YP_001177495.1| 16S rRNA pseudouridylate synthase A [Enterobacter sp. 638] gi|145319297|gb|ABP61444.1| ribosomal small subunit pseudouridine synthase A [Enterobacter sp. 638] Length = 235 Score = 73.6 bits (179), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 55/211 (26%), Positives = 97/211 (45%), Gaps = 2/211 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ +A ++ +E DG L + +R Sbjct: 2 RLDKFIAQQLSVSRAIAGREIRASRVTVDGDIVRDSAFKLLPEHDVEFDGNTLTQQIGSR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLEEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVMLESPVADDTAEQFTKGVQLHN--EKDLTKPAVLEVITPTEVRLTII 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EG+ ++K++F +V L R G L Sbjct: 180 EGRYHQVKRMFAAVGNRVVGLHRERIGEIAL 210 >gi|160895691|ref|YP_001561273.1| pseudouridine synthase [Delftia acidovorans SPH-1] gi|160361275|gb|ABX32888.1| pseudouridine synthase [Delftia acidovorans SPH-1] Length = 211 Score = 73.6 bits (179), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 50/182 (27%), Positives = 91/182 (50%), Gaps = 23/182 (12%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRS---TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +RL ++KP G+++ + P+GR + ++P + + GRLD ++EGLLLLTNDG Sbjct: 32 SRLLCFNKPYGVLSQFT-PEGRWRGLKEYIDVPGVHA----AGRLDADSEGLLLLTNDGP 86 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT------- 181 L + P + + Y V+ G D+ L L++G+ + G+ L+ Sbjct: 87 LQARIADPRFKMEKTYWVQVEGLPDEAALQALRQGVQLNDGMTLPAQARRLEPPPVLWQR 146 Query: 182 -------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 Q + W+ + +REG+NR+++++ RL+R + GP+ L L G + Sbjct: 147 DPPIRVRQNIPDCWIELVIREGRNRQVRRMTAAIGHPTLRLVRAAIGPYTLDGLEPGQWK 206 Query: 235 EV 236 +V Sbjct: 207 DV 208 >gi|90021564|ref|YP_527391.1| ribosomal small subunit pseudouridine synthase A [Saccharophagus degradans 2-40] gi|89951164|gb|ABD81179.1| ribosomal small subunit pseudouridine synthase A [Saccharophagus degradans 2-40] Length = 242 Score = 73.6 bits (179), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 60/228 (26%), Positives = 112/228 (49%), Gaps = 17/228 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA SR EV+R+I + V V+ + + V + + + +DG + +A + Sbjct: 2 RLDKFIANNSSYSRTEVKRLIKNKTVCVDKKITTDPSFTVTNLNTVRIDG-EIIEAIKPL 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL------------PSIFSRVISV-GRLDINTEGL 121 + +KP G V + D + S V D + P ++ + + GRLD++T GL Sbjct: 61 YIMLNKPTGYVCANKD-NIHSPVVDLITEQHARQSDQTPPKYRAQSLQIAGRLDVDTTGL 119 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 +LLT++G + P+ + YRV+ +D + LL +G+++ G + T++ Sbjct: 120 VLLTDNGEWNHRVTSPNKACFKRYRVKLEKPLDDAAIKLLSEGVMLHGEKAATLPATVEL 179 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 SN V + ++EG+ ++K++F V +L R + G +L T L Sbjct: 180 I--SNTEVLLSIQEGRFHQVKRMFVKVGTCVVKLHREAIGAIELDTNL 225 >gi|296106395|ref|YP_003618095.1| ribosomal large subunit pseudouridine synthase E [Legionella pneumophila 2300/99 Alcoy] gi|295648296|gb|ADG24143.1| ribosomal large subunit pseudouridine synthase E [Legionella pneumophila 2300/99 Alcoy] gi|307609608|emb|CBW99110.1| hypothetical protein LPW_08951 [Legionella pneumophila 130b] Length = 200 Score = 73.6 bits (179), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 53/180 (29%), Positives = 86/180 (47%), Gaps = 20/180 (11%) Query: 74 RLWLYHKPIGLVT--THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP G++T T P+ + F P ++ GRLD +EGLL+LT+DG L Sbjct: 3 QLILFNKPYGVLTQFTGELPEQTLSAFIKFPGFYA----AGRLDKQSEGLLVLTDDGKLQ 58 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------- 184 L P + + Y V+ G L L+KG+VI+ I + + L ++ Sbjct: 59 HRLTHPKFEKKKHYWVQVEGAPTDKDLQPLRKGLVIKDITFLPAEAKLISEPKIWPRIPP 118 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ + LREGKN +I+K+ + RLIR G ++L L G + ++ Sbjct: 119 IRERKHIPTTWLEIILREGKNHQIRKMTAAIGFPTLRLIRHQIGDWRLDQLQPGEYKLIN 178 >gi|237749128|ref|ZP_04579608.1| RNA pseudouridine synthase [Oxalobacter formigenes OXCC13] gi|229380490|gb|EEO30581.1| RNA pseudouridine synthase [Oxalobacter formigenes OXCC13] Length = 242 Score = 73.6 bits (179), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 63/224 (28%), Positives = 104/224 (46%), Gaps = 10/224 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKAERT 73 + K++ R G SR+ ++ Q RV ++ TD H VDG E Sbjct: 8 LEKILQRQGFGSRKLCRTLVRQGRVHAGDVVCTDPDRR-FETDALHFSVDGEDWVYREHL 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 + L +KP G +H P S+VF P+ F + + VGRLD +T GLLLL++DG Sbjct: 67 YIVL-NKPSGFECSHQ-PQHHSSVFTLFPTQFIQRGLQCVGRLDQDTTGLLLLSDDGDFI 124 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 P + +VY + + ++D+ +L LK G+ ++ M L + + + Sbjct: 125 HRYTSPKKKVPKVYEISTNAEIDESQLEKLKNGVQLKD--ETGMTKALSCESFDEYRMRL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTR 234 + EGK ++K++ +V +L R + G F L +L AG R Sbjct: 183 VIAEGKYHQVKRMVAAAGNRVEKLHRSAIGGFALEESLPAGEWR 226 >gi|68250225|ref|YP_249337.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae 86-028NP] gi|68058424|gb|AAX88677.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae 86-028NP] Length = 232 Score = 73.6 bits (179), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 60/226 (26%), Positives = 106/226 (46%), Gaps = 5/226 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E + Sbjct: 2 RLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGAVQISQEDKIYFEDELLTWVEEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V ++ D D + F + P + ++ S GRLD++T G +LLT+DG + Sbjct: 62 YFMLHKPQGCVCSNDDGDYPTIYQFFDYP-LAGKLHSAGRLDVDTTGFVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+++ +GI+++ L+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRREKEPTKPAKLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 EG+ ++K++F KV L R G L +L G R +++ Sbjct: 179 SEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQ 224 >gi|257095422|ref|YP_003169063.1| RNA-binding S4 domain-containing protein [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] gi|257047946|gb|ACV37134.1| RNA-binding S4 domain protein [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] Length = 415 Score = 73.2 bits (178), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 62/239 (25%), Positives = 104/239 (43%), Gaps = 24/239 (10%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK++++ + SRRE + I V V+G+++ R V IE+ + Sbjct: 176 PPRLSKLVSQLALCSRREADEWIENGWVTVDGVVVTRLGARVSPKAKIEITNAASQHQTA 235 Query: 73 TRLWLYHKPIG-----------LVT-----THSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 + +++KPIG + T TH DG F S + G+LD Sbjct: 236 SVTIVFNKPIGDAAAPDAGLAAIATLIRPDTHWAEDGTCRRFQA--SHLRGLAVAGKLDT 293 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 G+L+ T DG +AR L + Y +R G++ D L LL+ G+ + + Q Sbjct: 294 EEHGMLVFTQDGSVARRLTGGGARLENEYHLRVQGELSPDGLQLLRHGLSLDNVRLERAQ 353 Query: 177 VT-LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V+ L Q+ + + E + R+I++ E +V + R+ G LG L G R Sbjct: 354 VSWLSEQQ-----LRFVVHENRKRQIQRQCELVGLQVTDIKRVRIGGVSLGKLPPGQWR 407 >gi|256424973|ref|YP_003125626.1| pseudouridine synthase [Chitinophaga pinensis DSM 2588] gi|256039881|gb|ACU63425.1| pseudouridine synthase [Chitinophaga pinensis DSM 2588] Length = 389 Score = 73.2 bits (178), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 65/231 (28%), Positives = 114/231 (49%), Gaps = 21/231 (9%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAER 72 ++K I+ G SRRE + +I RV +L +R A D +EVDG + A++ Sbjct: 7 LNKFISDTGYCSRREADNLITSGRV----LLNDRPAALGNRYKPGDTVEVDGSLITAAKK 62 Query: 73 -TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTND 127 R++L +KP G+ TT + DN+ S + R+ +GRLD ++EGL+ LTND Sbjct: 63 EKRVYLALNKPPGITTTTE-----LHIKDNIISFVNYPQRIFPIGRLDKDSEGLIFLTND 117 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + + Y VR + +D + L+ + +G+ I +V + ++ Sbjct: 118 GDIINKILRAANNHEKEYVVRVNKPIDTNFLHQMSQGVPILDTRTLPCKVQMTGRQTFRI 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +T GL NR+I+++ E+ + V L R+ +L L G R +S+ Sbjct: 178 TLTQGL----NRQIRRMCEYLGYTVVGLQRVRIMNVRLDKLPLGKWRYLSE 224 >gi|292486534|ref|YP_003529400.1| putative pseudouridylate synthase [Erwinia amylovora CFBP1430] gi|292897771|ref|YP_003537140.1| ribosomal large subunit pseudouridine synthase F [Erwinia amylovora ATCC 49946] gi|291197619|emb|CBJ44713.1| ribosomal large subunit pseudouridine synthase F [Erwinia amylovora ATCC 49946] gi|291551947|emb|CBA18984.1| putative pseudouridylate synthase [Erwinia amylovora CFBP1430] gi|312170602|emb|CBX78865.1| putative pseudouridylate synthase [Erwinia amylovora ATCC BAA-2158] Length = 288 Score = 73.2 bits (178), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 114/233 (48%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I +GI SRR+ +R I Q V +NG +RAAV V + D ++V+G + R Sbjct: 8 RLNKYIGESGICSRRDADRYIEQGNVFING---KRAAVGDRVFAGDVVKVNGQLIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + +KP+G+V+T ++ R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 DDLVIIALNKPVGIVST-TEGGERDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + L G+ + G +V + S Sbjct: 123 VNKILRAGNDHEKEYLVTVNKPVTAEFIRGLGAGVPMLGTVTKKCKVKKE----STFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E F + V +L R L L G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMSEHFGYDVTKLERTRIMNVSLKGLPPGEWRDLTDDELIE 231 >gi|110834141|ref|YP_693000.1| pseudouridylate synthase [Alcanivorax borkumensis SK2] gi|110647252|emb|CAL16728.1| pseudouridylate synthase [Alcanivorax borkumensis SK2] Length = 206 Score = 73.2 bits (178), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 51/180 (28%), Positives = 89/180 (49%), Gaps = 20/180 (11%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +L L +KP +++ SD GR T+ F +P ++ GRLD ++EGLLLLT+DG L Sbjct: 2 AQLILLNKPFRVLSQFSDDQGRRTLREFVCVPGVYP----AGRLDWDSEGLLLLTDDGAL 57 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-------------VIQGICYGDMQV 177 + P + + Y V+ GQ +L L++GI +I C Sbjct: 58 QARISDPRFKLPKTYLVQVEGQPGPQELQKLRQGIRLKDGPTRPAKVSLIDDPCLWPRTP 117 Query: 178 TLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + ++K ++W+++ + EG+NR+++++ RLIR G + L L G +R + Sbjct: 118 PVRSRKTVPDSWLSLTIDEGRNRQVRRMTAAIGHPTLRLIRWQIGDWSLADLAPGESRSM 177 >gi|16273162|ref|NP_439399.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae Rd KW20] gi|260581161|ref|ZP_05848981.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae RdAW] gi|1175857|sp|P45124|RSUA_HAEIN RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|1574175|gb|AAC22895.1| 16s pseudouridylate 516 synthase (rsuA) [Haemophilus influenzae Rd KW20] gi|260092189|gb|EEW76132.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae RdAW] Length = 232 Score = 73.2 bits (178), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 56/208 (26%), Positives = 100/208 (48%), Gaps = 4/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E + Sbjct: 2 RLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWIEEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V ++ D D + F + P + ++ S GRLD++T GL+LLT+DG + Sbjct: 62 YFMLNKPQGCVCSNDDGDYPTIYQFFDYP-LAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+++ +GI+++G L+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYSAACAEGILLRGEKEPTKPAKLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 EG+ ++K++F KV L R G Sbjct: 179 SEGRYHQVKRMFAALGNKVVGLHRWKIG 206 >gi|325478230|gb|EGC81349.1| putative 16S pseudouridylate 516 synthase [Anaerococcus prevotii ACS-065-V-Col13] Length = 232 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 65/228 (28%), Positives = 114/228 (50%), Gaps = 11/228 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+I +G+ +R+ ++R + + VNG +++ ++ V D + G + E Sbjct: 2 RLDKMIGNSGLDTRKNIKRNAKKGAILVNGEVIKDSSYQVDPEVDEVYYMGQFVDYFENI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV---GRLDINTEGLLLLTNDGGL 130 + + +KP G ++ D D TV D L F RV+ + GRLD +T GLLLL+ DG Sbjct: 62 YIMM-NKPQGYLSATEDKD--PTVIDLLDD-FYRVLDLSIAGRLDKDTTGLLLLSTDGKF 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P++ + Y + +D+ ++L K+G+ I+ Y L+ + A VT Sbjct: 118 IHRVTSPNSNIEKTYIAKTRDPIDESLIDLFKEGVYIKEDDYTARSAKLEIIGKNEAKVT 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 V EGK +K++F +V L R++ G +L + L G RE+S Sbjct: 178 V--TEGKFHLVKRLFSNSGNEVVDLKRVAIGDLKLDSHLGLGEYRELS 223 >gi|324993413|gb|EGC25333.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK405] gi|324995275|gb|EGC27187.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK678] gi|327461687|gb|EGF08018.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1] gi|327469033|gb|EGF14505.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK330] gi|327489540|gb|EGF21333.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1058] Length = 241 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 125/240 (52%), Gaps = 13/240 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A I SR+++++ + Q+++ V+G + + NV I G + Sbjct: 2 RLDQLLAANHI-SRKKMKQSLLQKQILVDGKPACKLSQNVDTGLQQITFQGKQVSGPAH- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G VT + D + + TV D L + + S+GRLD +TEGLLL+T++G L Sbjct: 60 HYYMLNKPAGAVTANRDAE-KLTVLDLLDKEVEKENLYSIGRLDRDTEGLLLITDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVD-QDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWV 189 L P + Y V +G + QDK+ ++GI + G Q+T+ + S + Sbjct: 119 FQLLHPQYHVEKTYYVEVNGPLTPQDKIA-FQEGIRFLDGTVCQPAQLTIFSSCFSLSRA 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK---KILREQL 245 +V + EGK +IKK+F K+ L RI +G F L LA G R +++ +I++E L Sbjct: 178 SVRISEGKFHQIKKMFLVVGVKIIYLKRIQFGNFTLDPDLATGDCRPLNQEELEIIKEYL 237 >gi|16760112|ref|NP_455729.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhi str. CT18] gi|29142117|ref|NP_805459.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|289828345|ref|ZP_06546258.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E98-3139] gi|34098637|sp|Q8Z7G6|RLUE_SALTI RecName: Full=Ribosomal large subunit pseudouridine synthase E; AltName: Full=rRNA pseudouridylate synthase E; AltName: Full=rRNA-uridine isomerase E gi|25324021|pir||AF0647 probable ribosomal large chain pseudouridine synthase B STY1277 [imported] - Salmonella enterica subsp. enterica serovar Typhi (strain CT18) gi|16502406|emb|CAD08361.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhi] gi|29137746|gb|AAO69308.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] Length = 221 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 52/181 (28%), Positives = 87/181 (48%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 40 RVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLTNDGALQAR 97 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + ++Y V+ G D L L+ G+ + GI + Sbjct: 98 LTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLWPRTPPI 157 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ V L EG+N +++++ RLIR S G + L L G E+++ Sbjct: 158 RERKNIPTSWLKVTLYEGRNHQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQWCEIAQ 217 Query: 239 K 239 + Sbjct: 218 E 218 >gi|228999324|ref|ZP_04158904.1| RNA pseudouridine synthase [Bacillus mycoides Rock3-17] gi|229006879|ref|ZP_04164511.1| RNA pseudouridine synthase [Bacillus mycoides Rock1-4] gi|228754372|gb|EEM03785.1| RNA pseudouridine synthase [Bacillus mycoides Rock1-4] gi|228760521|gb|EEM09487.1| RNA pseudouridine synthase [Bacillus mycoides Rock3-17] Length = 203 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 57/206 (27%), Positives = 105/206 (50%), Gaps = 10/206 (4%) Query: 42 VNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWL-YHKPIGLVTTHSDP-DGRSTVFD 99 +NG + + V D + +DG + K ++ ++++ +HKP+G+ T +D DG + Sbjct: 3 INGEVCTHGTI-VTENDIVTIDGKTIEKEDKEKIYIAFHKPVGITCTAADHIDGNIIEYI 61 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 N P R+ VGRLD +EGL+LLTNDG +A + + + Y V ++ Sbjct: 62 NHPE---RIFPVGRLDKASEGLILLTNDGRIANQILHGDHEHEKEYIVTVDKPFTDWFID 118 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 + +G+ I+ +VT + +++ + L +G NR+I+++ F + V +L R+ Sbjct: 119 GMSRGVKIKDGITKQCKVT----RVNSSTFRIILTQGMNRQIRRMSRAFGYTVTKLKRVR 174 Query: 220 YGPFQLGTLLAGSTREVSKKILREQL 245 +L L AG R V+ + L+E L Sbjct: 175 IMNIKLDGLEAGEWRNVTVQELQELL 200 >gi|163787355|ref|ZP_02181802.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Flavobacteriales bacterium ALC-1] gi|159877243|gb|EDP71300.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Flavobacteriales bacterium ALC-1] Length = 279 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 56/210 (26%), Positives = 102/210 (48%), Gaps = 8/210 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A +G+ SRRE + IA V VNG ++ V TD + DG + + Sbjct: 49 RLNKYVANSGMCSRREADENIAIGLVSVNGKVVTEMGYKVKRTDEVRFDGQRITPEAKVY 108 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP G TT ++ GR TV D + + + V +GRL N+ GLLL TND + + Sbjct: 109 VLL-NKPKGFATTTAEGKGR-TVMDLVANATNANVKPIGRLGRNSLGLLLFTNDDKIVQK 166 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 R+++V + + L +K+G ++G I D+ K + + Sbjct: 167 FTNSKNGVARLFQVELDKNLKYEDLKKIKEGFKVEGKLITVEDISYIEGESKNK---IGL 223 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYG 221 ++ N ++ +F+ FN+ + ++ ++ G Sbjct: 224 KIKNTGNTILRTIFDNFNYDIVKIDCVAIG 253 >gi|289422766|ref|ZP_06424605.1| RNA pseudouridine synthase family protein [Peptostreptococcus anaerobius 653-L] gi|289156821|gb|EFD05447.1| RNA pseudouridine synthase family protein [Peptostreptococcus anaerobius 653-L] Length = 244 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 72/236 (30%), Positives = 110/236 (46%), Gaps = 18/236 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ G +R E+++ Q V+VNG +++ V+V D I +G + E Sbjct: 2 RLDKLLGNLGYGTRSEIKKYCKQGFVRVNGAEAKKSDVHVDPENDEIVFNGELVNYREFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 L L +KP G V+ D TV D + + VGRLD +TEGLL++TNDG L+ Sbjct: 62 YLLL-NKPAGYVSATFDK-YDPTVIDLIGEEYLPFEPFPVGRLDKDTEGLLVITNDGKLS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---------DTQ 182 + P + Y +VD + + +KG+ I G Y L D Sbjct: 120 HRVLSPKNHVPKKYYAIIDKEVDDMDVRIFEKGVYI-GEDYTTKPSKLEVLNPFEFEDGS 178 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVS 237 GS VT+ EGK ++K++FE +V L RI G +L L G RE++ Sbjct: 179 LGSEVHVTIS--EGKFHQVKRMFEAVGKEVVYLQRIQMGGLELDEELDLGEYRELT 232 >gi|206576604|ref|YP_002237397.1| ribosomal small subunit pseudouridine synthase A [Klebsiella pneumoniae 342] gi|288934323|ref|YP_003438382.1| pseudouridine synthase [Klebsiella variicola At-22] gi|290508526|ref|ZP_06547897.1| ribosomal small subunit pseudouridine synthase A [Klebsiella sp. 1_1_55] gi|206565662|gb|ACI07438.1| ribosomal small subunit pseudouridine synthase A [Klebsiella pneumoniae 342] gi|288889052|gb|ADC57370.1| pseudouridine synthase [Klebsiella variicola At-22] gi|289777920|gb|EFD85917.1| ribosomal small subunit pseudouridine synthase A [Klebsiella sp. 1_1_55] Length = 239 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 56/216 (25%), Positives = 98/216 (45%), Gaps = 2/216 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ A+ + +E DG L + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGSRVTVDGDIVKDASFKLQPEHEVEYDGNTLTQQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTILYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + + L KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVELESPLAEGTAELFAKGVQLHN--EKDLTKPAVLEVITPTEVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EG+ ++K++F V L R G L LA Sbjct: 180 EGRYHQVKRMFAAVGNHVVGLHRERIGDILLDDALA 215 >gi|237732236|ref|ZP_04562717.1| 16S rRNA pseudouridylate synthase A [Citrobacter sp. 30_2] gi|226907775|gb|EEH93693.1| 16S rRNA pseudouridylate synthase A [Citrobacter sp. 30_2] Length = 235 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 57/226 (25%), Positives = 103/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ +A ++ +E DG L + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRANRVTVDGEIVKNSAFKLLPEHDVEYDGNSLVQQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D G+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVTLESPVADDTAEQFAHGVQLHN--EKDLTKPAVLEVITPTQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 EG+ ++K++F V L R G +L L G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGDIRLDDDLEPGEYRPLTEE 225 >gi|302879449|ref|YP_003848013.1| pseudouridine synthase [Gallionella capsiferriformans ES-2] gi|302582238|gb|ADL56249.1| pseudouridine synthase [Gallionella capsiferriformans ES-2] Length = 179 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 49/174 (28%), Positives = 84/174 (48%), Gaps = 17/174 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP G++ S T+ D +P GRLD ++EGLL+LT+DG L Sbjct: 3 RILLFNKPFGVICQFSQDGLHPTLADYIP--VPEFYPAGRLDTDSEGLLVLTDDGQLQHR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG-------- 184 + P + + Y V+ G D L+ L+ G++++ G+ +DT G Sbjct: 61 ITDPKHKLPKTYWVQVEGVPDSAALDALRAGVLLKDGMTQPAGAALIDTPPGLWPRTPPV 120 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 +W+ + +REGKNR+++++ + RLIR G + L L G+ Sbjct: 121 RARKAIPTSWLELTIREGKNRQVRRMTAAVGFPTLRLIRYRIGAWTLDGLDQGT 174 >gi|149917094|ref|ZP_01905594.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Plesiocystis pacifica SIR-1] gi|149822010|gb|EDM81403.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Plesiocystis pacifica SIR-1] Length = 210 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 51/185 (27%), Positives = 92/185 (49%), Gaps = 22/185 (11%) Query: 77 LYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L++KP G+++ + DG+ T+ F + P +++ GRLD ++EGLL+LT+DG L + Sbjct: 6 LFNKPCGVLSQFTAQDGQRTLAEFIDQPGVYA----AGRLDKDSEGLLVLTDDGALQHRI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT------------ 181 P ++ Y + G L+ L++G+ ++ G LD Sbjct: 62 ASPRHASVKRYWAQVEGTPTNAALDALREGVELKDGWTRPAGARRLDAPPLWPRDPPIRE 121 Query: 182 -QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK-- 238 + AW+ + L EG+NR+++++ + RL+R S GP+ L L G R ++ Sbjct: 122 RKSIPTAWIELSLSEGRNRQVRRMTAAVGFPTLRLVRWSVGPWDLEGLAPGELRVITAPD 181 Query: 239 KILRE 243 +LRE Sbjct: 182 SMLRE 186 >gi|197335196|ref|YP_002156597.1| ribosomal large subunit pseudouridine synthase E [Vibrio fischeri MJ11] gi|197316686|gb|ACH66133.1| ribosomal large subunit pseudouridine synthase E [Vibrio fischeri MJ11] Length = 206 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 46/175 (26%), Positives = 89/175 (50%), Gaps = 16/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP +++ +D R T+ D + V + GRLD ++EGLL+LTNDG L L Sbjct: 33 IFNKPFDVLSQFTDDQHRQTLADFIS--VKDVYAAGRLDRDSEGLLILTNDGVLQARLTQ 90 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P ++ + Y V+ G +D L+ L++G+ ++ +V + + Sbjct: 91 PESKSPKTYWVQVEGAPTEDDLDKLRQGVELKDGMTLPAKVEIIPEPNVWERNPPVRFRA 150 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+++ + EG+NR+++++ + RLIR S G + + + G+ +EVS Sbjct: 151 AIPTTWISITIIEGRNRQVRRMTANIGFPTLRLIRYSMGDWTIKDVAHGTWKEVS 205 >gi|40890007|pdb|1VIO|A Chain A, Crystal Structure Of Pseudouridylate Synthase gi|40890008|pdb|1VIO|B Chain B, Crystal Structure Of Pseudouridylate Synthase Length = 243 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 56/208 (26%), Positives = 100/208 (48%), Gaps = 4/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E + Sbjct: 4 RLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWIEEGQ 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V ++ D D + F + P + ++ S GRLD++T GL+LLT+DG + Sbjct: 64 YFMLNKPQGCVCSNDDGDYPTIYQFFDYP-LAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+++ +GI+++G L+ N V + + Sbjct: 123 ITSPKHHCEKTYLVTLADPVEENYSAACAEGILLRGEKEPTKPAKLEILDDYN--VNLTI 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 EG+ ++K++F KV L R G Sbjct: 181 SEGRYHQVKRMFAALGNKVVGLHRWKIG 208 >gi|327458771|gb|EGF05119.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1057] Length = 241 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 74/240 (30%), Positives = 127/240 (52%), Gaps = 13/240 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A I SR+++++ + Q+++ V+G + + NV + I G + Sbjct: 2 RLDQLLAANHI-SRKKMKQSLLQKQILVDGKPACKLSQNVDIGLQQITFQGKHV-SGPAH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP G VT + D + + TV D L + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANRDAE-KLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWV 189 L P + Y V +G + QDK+ ++GI + G Q+++ + S + Sbjct: 119 FQLLHPQYHVEKTYYVEVNGPLTSQDKIA-FQEGIRFLDGTICQPAQLSILSSSSSLSRA 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK---KILREQL 245 TV + EGK +IKK+F KV L RI +G F L LA G R +++ +I++E L Sbjct: 178 TVKISEGKFHQIKKMFLAVGVKVIYLKRIQFGDFTLDPDLAKGDYRALNQEELEIIKEYL 237 >gi|238920493|ref|YP_002934008.1| 16S rRNA pseudouridylate synthase A [Edwardsiella ictaluri 93-146] gi|238870062|gb|ACR69773.1| conserved hypothetical protein [Edwardsiella ictaluri 93-146] Length = 235 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 58/224 (25%), Positives = 101/224 (45%), Gaps = 3/224 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I++ SR V R + RV V+G++ ++ V + +G L R Sbjct: 2 RLDKFISQQLGISRSLVIRELRAARVTVDGVVARSGSLQVTPDQEVAYEGNVLTFITGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ HKP G V + DPD + ++ + ++ + GRLD++T GL+LLT+DG + + Sbjct: 62 YFMLHKPEGYVCSTDDPDHATILYFIDEPMAEKLHAAGRLDLDTTGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + L +GI++ G D+ + V + + Sbjct: 122 TSPRHHCEKSYLVTLEQPLAPQTAALFAQGIMLNGET--DLTKPAQLEAFDEHHVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 EG+ ++K++F +V L R G L LA G R +S Sbjct: 180 EGRYHQVKRMFAAVGNRVVGLHRERIGAIALDAALAPGEYRALS 223 >gi|190576318|ref|YP_001974163.1| putative pseudouridine synthase [Stenotrophomonas maltophilia K279a] gi|190014240|emb|CAQ47884.1| putative pseudouridine synthase [Stenotrophomonas maltophilia K279a] Length = 179 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 51/178 (28%), Positives = 89/178 (50%), Gaps = 21/178 (11%) Query: 78 YHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++KP ++ +D P + LP RV + GRLD ++EGLLLLT++G LA L Sbjct: 5 FNKPFNVLCQFTDRSVPARPTLAGFGLPP---RVYAAGRLDHDSEGLLLLTDNGTLAHKL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-------ICYGDMQVTLDTQKGS-- 185 P + + Y V+ G ++L L+ G+ + I D +L T+ Sbjct: 62 TDPRHKADKTYWVQVEGTPSDEQLQQLRDGVELNDGPTLPAKIERLDPAPSLWTRDPPVR 121 Query: 186 ------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +AW+ + +REG+NR+++++ N RL+R++ GP++L L G R++ Sbjct: 122 FRKTVPDAWLAITIREGRNRQVRRMTAAVNLPTLRLVRVAMGPYRLDDLQPGQWRQIG 179 >gi|46202419|ref|ZP_00053237.2| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Magnetospirillum magnetotacticum MS-1] Length = 236 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 70/233 (30%), Positives = 112/233 (48%), Gaps = 21/233 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ ++IA G S+R+V+ MI V + +G +L+ + ++ + I VDG PL Sbjct: 2 RLIRLIANLGYGSQRDVKAMIKDGLVTRADGSVLDD--TSKVAHEDIRVDGEPLDPPPGL 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTNDGG 129 L L +KP G + SDP GR V++ LP F V VGRLD ++ GLLLLT+DG Sbjct: 60 VLML-NKPEGYTCSTSDP-GR-VVYELLPPRFMHRNPIVAPVGRLDRDSSGLLLLTDDGP 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKG 184 LA + P + Y V + ++ + G ++ + ++ VT Sbjct: 117 LAHRVTSPKRHVPKTYEVTLARPLTGEEGAVFASGTLMLRSENTPLAPAELMVT----GP 172 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 A +T+ EG+ ++K++F V RL R + G LG L G R ++ Sbjct: 173 QTARITI--TEGRYHQVKRMFAAVGNHVERLHRAAIGGLDLGDLPEGQWRMLT 223 >gi|225075240|ref|ZP_03718439.1| hypothetical protein NEIFLAOT_00240 [Neisseria flavescens NRL30031/H210] gi|224953415|gb|EEG34624.1| hypothetical protein NEIFLAOT_00240 [Neisseria flavescens NRL30031/H210] Length = 227 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 57/225 (25%), Positives = 100/225 (44%), Gaps = 20/225 (8%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERA-------AVNVMSTDHIEVDGVPLRKA 70 K I G+ SR++ + +I + +NG + RA V+ +S D E+ VP+ Sbjct: 5 KYIQSQGLGSRKQCQWLIDNDCIAINGEIHNRAKDDIDPSQVHTLSVDGEEIAAVPMPHF 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDG 128 L HKP T+H P ++F P + +VGRLD +T G++L+TNDG Sbjct: 65 ----YILLHKPADYETSHK-PQQYPSIFSLFPDHMRNIDMQAVGRLDADTTGIILITNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSN 186 + P + ++YRV D LK G+++ + D + + Sbjct: 120 QFNHRVTSPKHKVPKLYRVTLKHPADDTLCTTLKNGVLL----HDDNETVAAAEAVLADP 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V +L R +G + + L AG Sbjct: 176 TTLMMTITEGKYHQVKRMIAAAGNRVEQLHREKFGDWNVDDLAAG 220 >gi|324112367|gb|EGC06345.1| RNA pseudouridylate synthase [Escherichia fergusonii B253] Length = 290 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 112/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRFIEQGNVFING---KRATIGDQVKPGDVVKVNGRLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +K +G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKSVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|261821431|ref|YP_003259537.1| pseudouridine synthase [Pectobacterium wasabiae WPP163] gi|261605444|gb|ACX87930.1| pseudouridine synthase [Pectobacterium wasabiae WPP163] Length = 209 Score = 73.2 bits (178), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 49/179 (27%), Positives = 87/179 (48%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P S + + GRLD ++EGL++LTNDG L Sbjct: 31 RIVLFNKPFDVLPQFTDEAGRRTLKDYIP--ISGIYAAGRLDRDSEGLMILTNDGKLQAR 88 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKG--------------IVIQGICYGDMQVTL 179 L P+ + ++Y V+ G D+ L + G IV + + Sbjct: 89 LTQPTEKTAKIYYVQVEGIPDEAALTHFRTGLELNDGKTLPAGAEIVPEPDWLWPRNPPI 148 Query: 180 DTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +K + W+ + L EG+NR+++++ + RLIR + LL G +E++ Sbjct: 149 RERKSIPDCWLKITLYEGRNRQVRRMTANIGYPTLRLIRYGMANQTVENLLPGEWKEIT 207 >gi|332534329|ref|ZP_08410172.1| 16S rRNA pseudouridylate synthase [Pseudoalteromonas haloplanktis ANT/505] gi|332036239|gb|EGI72712.1| 16S rRNA pseudouridylate synthase [Pseudoalteromonas haloplanktis ANT/505] Length = 232 Score = 73.2 bits (178), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 56/207 (27%), Positives = 99/207 (47%), Gaps = 7/207 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K I+ R + I ++ V VNG ++ + D + G PL + Sbjct: 4 PCRLDKFISHLAEIPRTQARASIKRKEVSVNGEVITSHNFQLAQQDEVLHQGTPLVFLGK 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R ++ +KP+G V +SD + TVFD L P++ S GRLDI+T GL+++TNDG Sbjct: 64 -RYYMLNKPVGYVCANSD-ELHKTVFDLLDEPNM-SDFHVAGRLDIDTTGLVIITNDGDW 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + P + Y V + + L L+ G+++ D+ ++ +N + Sbjct: 121 SHKITSPKNNKFKTYLVETQEPITDEALEQLRTGVMLHN--EKDLTRPAIAERLANYGLR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIR 217 + + EGK ++K++ + KV L R Sbjct: 179 LSISEGKYHQVKRMLYAVDNKVVELHR 205 >gi|237703577|ref|ZP_04534058.1| 23S rRNA pseudouridine synthase F [Escherichia sp. 3_2_53FAA] gi|226901489|gb|EEH87748.1| 23S rRNA pseudouridine synthase F [Escherichia sp. 3_2_53FAA] Length = 290 Score = 72.8 bits (177), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 64/227 (28%), Positives = 112/227 (49%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R++ Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPRES 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD + +GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDFQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ E F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLT 225 >gi|325920868|ref|ZP_08182763.1| ribosomal large subunit pseudouridine synthase E [Xanthomonas gardneri ATCC 19865] gi|325548620|gb|EGD19579.1| ribosomal large subunit pseudouridine synthase E [Xanthomonas gardneri ATCC 19865] Length = 190 Score = 72.8 bits (177), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 53/176 (30%), Positives = 86/176 (48%), Gaps = 21/176 (11%) Query: 77 LYHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+++ SD P R+ LP+ V + GRLD ++EGLLLLT+DG LA Sbjct: 4 LLNKPYGVLSQFSDRSQPPKRTLAEFGLPA---DVYAAGRLDHDSEGLLLLTDDGALAHR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG-------- 184 L P + + Y V+ G +L L+ G+V+ +V ++D Sbjct: 61 LTDPRHKQPKTYWVQVEGTPAPSQLQALRDGVVLNDGPTRPAKVRSIDPSPQVWPRDPPV 120 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +AW+ + + EG+NR+++++ RLIR++ G + L TL G R Sbjct: 121 RVRKTVPDAWLELQITEGRNRQVRRMTASVGLPTLRLIRVAIGDWTLDTLAPGQWR 176 >gi|254361964|ref|ZP_04978095.1| pseudouridylate synthase [Mannheimia haemolytica PHL213] gi|261493683|ref|ZP_05990202.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. BOVINE] gi|261494350|ref|ZP_05990844.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. OVINE] gi|153093511|gb|EDN74491.1| pseudouridylate synthase [Mannheimia haemolytica PHL213] gi|261309999|gb|EEY11208.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. OVINE] gi|261310683|gb|EEY11867.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. BOVINE] Length = 233 Score = 72.8 bits (177), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 53/204 (25%), Positives = 96/204 (47%), Gaps = 4/204 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + +++ V VNG + + A + D I + L E + Sbjct: 2 RLDKFIAENTGLTRSQAAKVLKSGVVTVNGNIEKSGAAKISQEDEIYYEDQKLEWVEEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G + +H D + TVF + +++ + GRLD++T GL+LLT+DG + Sbjct: 62 YFMLYKPQGYICSHDDGE-YPTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ L +GI+++G + L+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYAQRLAEGILLRGEKEPTLPAQLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIR 217 EG+ ++K++F KV L R Sbjct: 179 SEGRYHQVKRMFAALGNKVEALHR 202 >gi|329909999|ref|ZP_08275183.1| putative Pseudouridylate synthase [Oxalobacteraceae bacterium IMCC9480] gi|327546326|gb|EGF31346.1| putative Pseudouridylate synthase [Oxalobacteraceae bacterium IMCC9480] Length = 189 Score = 72.8 bits (177), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 52/181 (28%), Positives = 86/181 (47%), Gaps = 23/181 (12%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L++KP ++ S GR T+ D+L P I+ GRLD ++EGL+LLT+DG L Sbjct: 3 LILFNKPYLVLCQFSPQAGRRTLADHLAIPDIYP----AGRLDADSEGLMLLTDDGRLQH 58 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 + P+ + + Y V+ G D LN L+ G+ + +V Sbjct: 59 DISDPTHKQPKAYLVQIEGIPDPVALNTLRTGVFLGDFTSKAAKVIEVATPAWLWPRNPP 118 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTRE 235 W+ + + EGKNR+++++ RL+R++ GP+ L + LL G +R Sbjct: 119 IRQRAVTPTRWLLLTITEGKNRQVRRMTAAVGLPTLRLVRVAIGPYSLESHPLLPGESRV 178 Query: 236 V 236 V Sbjct: 179 V 179 >gi|119469122|ref|ZP_01612106.1| 16S rRNA pseudouridylate 516 synthase [Alteromonadales bacterium TW-7] gi|119447374|gb|EAW28642.1| 16S rRNA pseudouridylate 516 synthase [Alteromonadales bacterium TW-7] Length = 232 Score = 72.8 bits (177), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 60/220 (27%), Positives = 105/220 (47%), Gaps = 7/220 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K I+ R + I ++ V VNG ++ + D + +G PL + Sbjct: 4 PCRLDKFISHLAEVPRTQARASIKRKEVSVNGEVITAHNFQLAKDDVVLHNGEPLVFLGK 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R ++ +KP+G V +SD D TVFD L P++ S GRLDI+T GL+++TNDG Sbjct: 64 -RYFMLNKPVGYVCANSD-DLHKTVFDLLDEPNM-SDFHVAGRLDIDTTGLVIITNDGDW 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + P + + Y V + + L L++G+++ D ++ +N + Sbjct: 121 SHKITSPRSNKFKTYLVETQEPITDEALEQLREGVMLHN--EKDATRPAIAERLANYGLR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + EGK ++K++ + KV L R +L LA Sbjct: 179 LSISEGKYHQVKRMLYAVDNKVVELHREQIAGIKLDEDLA 218 >gi|332363998|gb|EGJ41777.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK355] Length = 241 Score = 72.8 bits (177), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 69/232 (29%), Positives = 119/232 (51%), Gaps = 8/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A I SR+++++ + Q+++ V+ + + NV S I G + Sbjct: 2 RLDQLLAANHI-SRKKMKQSLLQKQILVDDKPACKLSQNVDTSLQQITFQGKHVSGPAH- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP G VT + D + + TV D L + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANRDAE-KLTVLDLLDEEVEKENLYSIGRLDRDTEGLLLITDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V +G + + ++GI + G Q+++ + S + T Sbjct: 119 FQLLHPQYHVEKTYYVEVNGPLTPKDKSSFQEGIRFLDGTTCQPAQLSILSTSSSLSCAT 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 V + EGK +IKK+F KV L RI +G F L LA G R ++++ L Sbjct: 179 VKISEGKFHQIKKMFLAVGVKVTYLKRIQFGDFTLDPELATGDYRPLNQEEL 230 >gi|291518121|emb|CBK73342.1| ribosomal small subunit pseudouridine synthase A [Butyrivibrio fibrisolvens 16/4] Length = 234 Score = 72.8 bits (177), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 61/218 (27%), Positives = 105/218 (48%), Gaps = 14/218 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 R+ K++ I +R EV+ ++ + + V+G E+A D V + + E T Sbjct: 3 RLDKLLVELNIGTRSEVKALLKKGLIFVDG---EKATKPEQKVDENSVV-ITYQGKEYTY 58 Query: 74 ---RLWLYHKPIGLVTTHSDPDGRST--VFDNL-PSIFSRVISVGRLDINTEGLLLLTND 127 ++ +KP G++T D ++ VF +L P + VGRLD +T GLLL+TND Sbjct: 59 QKFSYYVINKPKGVITATEDAHEKTVMDVFYSLCPDAPKGLAPVGRLDKDTTGLLLITND 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA + P + Y V G++ ++ + L+ G+ I G T+ + G Sbjct: 119 GQLAHDMLSPKKHVDKTYFVTLDGELSEEDVAALEAGVHI-GEGEPTAPATVKYEGGKTC 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++T+ EGK ++K++F V L R ++GP L Sbjct: 178 YITI--HEGKFHQVKRMFFAVGKTVLELKRTAFGPLVL 213 >gi|213052785|ref|ZP_03345663.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E00-7866] gi|213423671|ref|ZP_03356651.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] gi|213428087|ref|ZP_03360837.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E02-1180] gi|213580467|ref|ZP_03362293.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] gi|213648218|ref|ZP_03378271.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhi str. J185] gi|213850125|ref|ZP_03381023.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhi str. M223] Length = 211 Score = 72.8 bits (177), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 52/181 (28%), Positives = 87/181 (48%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 30 RVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLTNDGALQAR 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + ++Y V+ G D L L+ G+ + GI + Sbjct: 88 LTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLWPRTPPI 147 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ V L EG+N +++++ RLIR S G + L L G E+++ Sbjct: 148 RERKNIPTSWLKVTLYEGRNHQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQWCEIAQ 207 Query: 239 K 239 + Sbjct: 208 E 208 >gi|241758832|ref|ZP_04756945.1| ribosomal small subunit pseudouridine synthase A [Neisseria flavescens SK114] gi|241321040|gb|EER57253.1| ribosomal small subunit pseudouridine synthase A [Neisseria flavescens SK114] Length = 227 Score = 72.8 bits (177), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 58/227 (25%), Positives = 102/227 (44%), Gaps = 24/227 (10%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-------MSTDHIEVDGVPLRKA 70 K I G+ SR++ + +I + +NG + RA N+ +S D E+ VP+ Sbjct: 5 KYIQSQGLGSRKQCQWLIDNDCIAINGEIHNRAKDNIDPSQVHTLSVDGEEIAAVPMPHF 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDG 128 L HKP T+H P ++F P + +VGRLD +T G++L+TNDG Sbjct: 65 ----YILLHKPADYETSHK-PQQYPSIFSLFPDHMRNIDMQAVGRLDADTTGIILITNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKG 184 + P + ++YRV D LK G+++ + + + +T T Sbjct: 120 QFNHRVTSPKHKVPKLYRVTLKHPADDTLCTTLKNGVLLHDDNETVAAAEAVLTDPTT-- 177 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V +L R +G + + L AG Sbjct: 178 ----LMMTITEGKYHQVKRMVAAAGNRVEQLHREKFGDWNVDDLAAG 220 >gi|34499118|ref|NP_903333.1| pseudouridine synthase [Chromobacterium violaceum ATCC 12472] gi|34104969|gb|AAQ61325.1| probable pseudouridine synthase [Chromobacterium violaceum ATCC 12472] Length = 248 Score = 72.8 bits (177), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 47/177 (26%), Positives = 88/177 (49%), Gaps = 16/177 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L L +KP G++ S+ T+ +P + V GRLD ++EGLLLLT DG L Sbjct: 26 QLILLNKPYGVICQFSEHPTHPTLKSCVPQ--AGVYPAGRLDTDSEGLLLLTGDGALQHR 83 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDT----------- 181 + P + + Y V+ G +++L +L++G+ + +V ++T Sbjct: 84 IADPRWKLPKTYWVQVEGDPKEEQLEMLRRGVDLGDFVTRPAEVRRIETPELWPRNPPVR 143 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + W+ + + EGKNR+++++ RL+R++ GP++L L G R + Sbjct: 144 FRKTVPDCWLEIIISEGKNRQVRRMTAKAGLPTLRLVRVAIGPWKLDGLQPGEMRAI 200 >gi|332288598|ref|YP_004419450.1| 23S rRNA pseudouridine synthase E [Gallibacterium anatis UMN179] gi|330431494|gb|AEC16553.1| 23S rRNA pseudouridine synthase E [Gallibacterium anatis UMN179] Length = 223 Score = 72.8 bits (177), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 52/206 (25%), Positives = 102/206 (49%), Gaps = 31/206 (15%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLL 123 P + E+ ++ L++KP ++T +D GR T+ F ++P I+ GRLD ++EGLLL Sbjct: 19 PKLQLEQIKVVLFNKPYDVLTQFTDEQGRKTLKNFIHIPDIYP----CGRLDRDSEGLLL 74 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---------------- 167 LTN G + L P+ + + Y V+ G + L L++G+++ Sbjct: 75 LTNCGEIQHRLTTPAFKSKKTYWVQVEGVPSEQDLEALRQGVILKDGKTLPALVKFIPPP 134 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS-------- 219 Q + D + + + +W+ + + EG+NR+++++ + RLIRI+ Sbjct: 135 QNLWQRDPPIR-ERKTIPTSWLEIAIHEGRNRQVRRMTAHIGYPTLRLIRIATAGLNLFD 193 Query: 220 YGPFQLGTLLAGSTREVSKKILREQL 245 + QLG + ++ E+ + + R +L Sbjct: 194 FPQLQLGCSYSLNSNEIEQLLTRLKL 219 >gi|166031891|ref|ZP_02234720.1| hypothetical protein DORFOR_01592 [Dorea formicigenerans ATCC 27755] gi|166028344|gb|EDR47101.1| hypothetical protein DORFOR_01592 [Dorea formicigenerans ATCC 27755] Length = 243 Score = 72.8 bits (177), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 68/239 (28%), Positives = 122/239 (51%), Gaps = 12/239 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERT 73 R+ K ++ G+ +R+EV++ I + +V+V+G + +R + V T ++ +DG + A Sbjct: 8 RLDKFLSEMGVGTRQEVKQYIRKGKVEVDGEIAKRPELKVDETKANVTLDGERIGYASYV 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G+V+ D TV D + + + VGRLD +T GLLL+TNDG LA Sbjct: 68 -YYMLNKPSGVVSATEDKR-EKTVIDLIKGQKRKDLFPVGRLDKDTVGLLLITNDGNLAH 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT----LDTQKGSN-A 187 L P + Y + G V +D +G+ I + ++T LD K + + Sbjct: 126 RLLSPKHHVDKCYFAKVQGNVTKDDAEKFAEGVNIG--TEDEPEITMPGKLDIIKSDDLS 183 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQL 245 + + ++EGK ++K++F+ +V L R G L LA G R ++++ L+ L Sbjct: 184 EIRLTIQEGKFHQVKRMFQAVGKEVVYLKRERMGSLILDDNLAEGEYRMLTEEELKNLL 242 >gi|27468344|ref|NP_764981.1| 16S pseudouridylate synthase [Staphylococcus epidermidis ATCC 12228] gi|57867194|ref|YP_188884.1| pseudouridine synthase family 1 protein [Staphylococcus epidermidis RP62A] gi|27315890|gb|AAO05025.1|AE016748_259 16S pseudouridylate synthase [Staphylococcus epidermidis ATCC 12228] gi|57637852|gb|AAW54640.1| pseudouridine synthase, family 1 [Staphylococcus epidermidis RP62A] Length = 230 Score = 72.8 bits (177), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 63/224 (28%), Positives = 112/224 (50%), Gaps = 11/224 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + VKVN +++ ++V ++D I V+ + ++ Sbjct: 2 RLDKFLANMGVGTRSEVKQLLKKGSVKVNQNIVKLPKLHVNPNSDEIMVNDEVVSYIDKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G ++ D + T+ D +P + VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPKGYISATED-ELHPTIIDLIPEYAHLNIFPVGRLDKDTEGLLLVTNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT-V 191 + P+ + Y V + Q ++ K GI + D ++ K + +V+ V Sbjct: 120 EVMNPNKHVSKTYEVYSKHPITQFDIDKFKSGIEL-----SDGKLKPAILKKVDDYVSHV 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 + EGK ++K++F +V L RI +L L GS R Sbjct: 175 TIYEGKYHQVKRMFHSIENEVLELKRIKIAQLELDHNLDLGSYR 218 >gi|330685516|gb|EGG97168.1| putative 16S pseudouridylate 516 synthase [Staphylococcus epidermidis VCU121] Length = 230 Score = 72.8 bits (177), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 64/217 (29%), Positives = 103/217 (47%), Gaps = 8/217 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A GI +R EV++ + + VKVN + + + D I V+G + ++ Sbjct: 2 RLDKFLANMGIGTRNEVKQSLKKGYVKVNDKVNKSPKTQINPDEDIITVNGEKIIYIDKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP +V+ D D TV D +P + VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPSDVVSATED-DKHQTVIDLIPEYKHLGIFPVGRLDKDTEGLLLITNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V V Q + K+G+ + Q+ + + S V Sbjct: 120 NLMSPNKHVPKTYEVVSKNDVTQSDVERFKEGLELSDGLLKPAQLEIIENRRSR----VT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + EGK ++K++F +V +L RI +L T L Sbjct: 176 IYEGKYHQVKRMFHEIENEVLQLKRIKIANLELDTSL 212 >gi|312963210|ref|ZP_07777694.1| ribosomal large subunit pseudouridine synthase [Pseudomonas fluorescens WH6] gi|311282476|gb|EFQ61073.1| ribosomal large subunit pseudouridine synthase [Pseudomonas fluorescens WH6] Length = 211 Score = 72.8 bits (177), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 51/183 (27%), Positives = 90/183 (49%), Gaps = 20/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP ++T SD GR+T+ F ++P I+ GRLD ++EGLLLLTNDG L Sbjct: 33 KLILFNKPFDVLTQFSDEGGRATLKDFIDIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 88 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG------ 184 + P + + Y V+ G+ ++ L L+ G+ + G LD + Sbjct: 89 ARIADPKHKLAKTYWVQVEGEPTEEHLQRLRDGVELNDGKTLPAEARRLDEPQLWPRNPP 148 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ + +REG+NR+++++ RL+R+ G + + L G + V Sbjct: 149 VRFRKNIPTYWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWTIDGLDQGQWKAVP 208 Query: 238 KKI 240 ++ Sbjct: 209 ARL 211 >gi|296112282|ref|YP_003626220.1| ribosomal small subunit pseudouridine synthase A [Moraxella catarrhalis RH4] gi|295919976|gb|ADG60327.1| ribosomal small subunit pseudouridine synthase A [Moraxella catarrhalis RH4] gi|326561792|gb|EGE12127.1| ribosomal small subunit pseudouridine synthase A [Moraxella catarrhalis 7169] gi|326562268|gb|EGE12594.1| ribosomal small subunit pseudouridine synthase A [Moraxella catarrhalis 103P14B1] gi|326563228|gb|EGE13495.1| ribosomal small subunit pseudouridine synthase A [Moraxella catarrhalis 46P47B1] gi|326564754|gb|EGE14967.1| ribosomal small subunit pseudouridine synthase A [Moraxella catarrhalis 12P80B1] gi|326568983|gb|EGE19052.1| ribosomal small subunit pseudouridine synthase A [Moraxella catarrhalis BC1] gi|326569283|gb|EGE19344.1| ribosomal small subunit pseudouridine synthase A [Moraxella catarrhalis BC7] gi|326571959|gb|EGE21964.1| ribosomal small subunit pseudouridine synthase A [Moraxella catarrhalis BC8] gi|326575471|gb|EGE25396.1| ribosomal small subunit pseudouridine synthase A [Moraxella catarrhalis 101P30B1] gi|326576441|gb|EGE26349.1| ribosomal small subunit pseudouridine synthase A [Moraxella catarrhalis CO72] gi|326577913|gb|EGE27777.1| ribosomal small subunit pseudouridine synthase A [Moraxella catarrhalis O35E] Length = 234 Score = 72.8 bits (177), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 62/227 (27%), Positives = 111/227 (48%), Gaps = 11/227 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +++A SR++ ++++ + VNG +++ ++ +V ++ D I G L A+ Sbjct: 2 RLDKFLSKATELSRKDAKKVLHAGEITVNGTIIKDSSHHVDLANDEILWAGEALSVADGN 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R L +KP G T P V D +P + + I+ GRLD++T G LLL++DG Sbjct: 62 RYILLYKPDGFECTLK-PKEYPMVTDLIAVPEVANLRIA-GRLDVDTTGALLLSDDGAWL 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQD----KLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 + P + Y++ +D+D + + GI+++G L ++A Sbjct: 120 HRVTSPKRHQPKQYQLTLADAMDKDAQAYAIKQIANGILLEGETEKTRPAVLSFIDETHA 179 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +T L EGK ++K++ +F KV +L R S G L L G R Sbjct: 180 VLT--LTEGKYHQVKRMMAYFGNKVIKLHRASIGHISLEGLQMGECR 224 >gi|291459824|ref|ZP_06599214.1| ribosomal small subunit pseudouridine synthase A [Oribacterium sp. oral taxon 078 str. F0262] gi|291417614|gb|EFE91333.1| ribosomal small subunit pseudouridine synthase A [Oribacterium sp. oral taxon 078 str. F0262] Length = 249 Score = 72.8 bits (177), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 65/223 (29%), Positives = 112/223 (50%), Gaps = 12/223 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----KA 70 R+ + ++ GI+SR E+++ I + +V +NG E A + D V R Sbjct: 2 RLDRFLSEMGISSRSELKKEIRRGQVLLNG---EEARDPSLFVDPENPPVVLYRGREFHY 58 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGG 129 E ++ +KP G+++ D +STV D + R + VGRLD + EGLLL++NDG Sbjct: 59 EAFSYYMMNKPAGILSASRD-KKQSTVLDLIQEDRRRDLFPVGRLDKDCEGLLLISNDGP 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAW 188 L+ L P + ++Y VR G++ + L ++G+ + + ++T+ + + + Sbjct: 118 LSHRLLRPKSHVPKLYFVRVSGRLTESDAELFRRGLRYDEDLTALPAELTILSAEDIISE 177 Query: 189 VTVGLREGKNREIKKVFEFFNWK--VNRLIRISYGPFQLGTLL 229 V + EGK +IKK+F K V L RI+ GP +L L Sbjct: 178 ACVRITEGKFHQIKKMFLALPKKKEVLFLKRIALGPLRLDEAL 220 >gi|187925109|ref|YP_001896751.1| pseudouridine synthase [Burkholderia phytofirmans PsJN] gi|187716303|gb|ACD17527.1| pseudouridine synthase [Burkholderia phytofirmans PsJN] Length = 236 Score = 72.8 bits (177), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 50/159 (31%), Positives = 76/159 (47%), Gaps = 7/159 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD---HIEVDGVPLRKAER 72 + ++ G SRR+ +IA RV + G+ A + + D VDGV E Sbjct: 3 LESILFTQGFGSRRQCRALIADARVSIGGVACTDADADFPTGDTAFFFSVDGVDWPYREH 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L L +KP G + DP +VF LP F+ V VGRLD +T GLLLL++DG Sbjct: 63 AYL-LLNKPAGYECSR-DPQHHLSVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGKF 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 + P + +VY +D +L+ L+ G+++ G Sbjct: 121 VHLFTSPKRKVPKVYIATTRHPLDDAQLSALRDGVLLHG 159 >gi|302871978|ref|YP_003840614.1| RNA-binding S4 domain protein [Caldicellulosiruptor obsidiansis OB47] gi|302574837|gb|ADL42628.1| RNA-binding S4 domain protein [Caldicellulosiruptor obsidiansis OB47] Length = 233 Score = 72.8 bits (177), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 68/233 (29%), Positives = 111/233 (47%), Gaps = 18/233 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K + G SR +V+++I + V VNG + + D +EVDG R + + Sbjct: 2 RLDKFLTHCGFGSRTQVKKLIREGIVTVNGKQIVEVDFKINPEEDVVEVDG---RVVKFS 58 Query: 74 RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDG 128 R W+Y +KP G V ++ DP TVF + + +VGRLD + EGLL++T++G Sbjct: 59 R-WIYIMMNKPKGYVCSNEDP-MSLTVFSLISDDLKHRDLHTVGRLDKDAEGLLIITDNG 116 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SN 186 + P + + Y VR +VD+++L + GI++ D TL + + Sbjct: 117 EYTHRVISPKKRIEKEYLVRLEKEVDEERLKEFENGIILD-----DGYKTLPAKYTIIDS 171 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + + EGK ++K++FE KV L R G L L V K+ Sbjct: 172 TTVKLCIYEGKYHQVKRMFEAIGNKVVDLKRRRIGGLNLDESLKPGEYRVMKE 224 >gi|188026122|ref|ZP_02960941.2| hypothetical protein PROSTU_02927 [Providencia stuartii ATCC 25827] gi|188021695|gb|EDU59735.1| hypothetical protein PROSTU_02927 [Providencia stuartii ATCC 25827] Length = 178 Score = 72.8 bits (177), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 48/176 (27%), Positives = 84/176 (47%), Gaps = 17/176 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ +P + V + GRLD ++EGLL+LTNDG L L Sbjct: 3 LFNKPFDVLPQFTDEQGRDTLKKYIP--ITDVYAAGRLDRDSEGLLILTNDGKLQARLTQ 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVTLDT 181 P +VY + G D L ++G+ ++ GI + + Sbjct: 61 PQKNTNKVYYAQVEGIPDDAALVKFRQGLTLKDGPTRPAGIERVNEPDWLWPRTPPIRER 120 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + L EG+NR+++++ + RLIR G + L L G +E++ Sbjct: 121 KNIPTSWLKITLSEGRNRQVRRMTAHIGYPTLRLIRYQIGEYTLNNLAPGEWKEIT 176 >gi|332362872|gb|EGJ40665.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK49] Length = 241 Score = 72.8 bits (177), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 74/238 (31%), Positives = 125/238 (52%), Gaps = 14/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A I SR+++++ + Q+++ V+G + + NV I G + Sbjct: 2 RLDQLLAANHI-SRKKMKQSLLQKQILVDGKPAYKLSQNVDTGLQQITFQGKHVSGPAH- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP G VT + D + + TV D L + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANRDAE-KLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVD-QDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWV 189 L P + Y V +G + QDK+ ++GI + G Q+T+ + + S + Sbjct: 119 FQLLHPQYHVEKTYYVEVNGPLTPQDKIAF-QEGIRFLDGTVCQPAQLTIFSSRSSLSRA 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLG 246 +V + EGK +IKK+F KV L RI +G F L LA G R ++ +E+LG Sbjct: 178 SVRISEGKFHQIKKMFLAVGVKVTYLKRIQFGDFTLDPDLAKGDYRALN----QEELG 231 >gi|149376381|ref|ZP_01894144.1| Pseudouridine synthase, Rsu [Marinobacter algicola DG893] gi|149359395|gb|EDM47856.1| Pseudouridine synthase, Rsu [Marinobacter algicola DG893] Length = 213 Score = 72.8 bits (177), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 51/185 (27%), Positives = 90/185 (48%), Gaps = 26/185 (14%) Query: 75 LWLYHKPIGLVTTHSDPDG------RSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTN 126 L L++KP G++ +D G R+T+ D +P+I+ GRLD ++EGLLLLT+ Sbjct: 4 LILFNKPFGVLCQFTDEKGGTNGNPRATLADWLTIPAIYP----AGRLDYDSEGLLLLTD 59 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT----- 181 +G L + P + + Y V+ G++++ L L++G+ ++ V T Sbjct: 60 NGQLQHRIASPRLKMPKTYWVQVEGEINESALTKLREGVELKDGKTRPADVATMTPPEIW 119 Query: 182 ---------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + +WV + + EGKNR+++++ + RLIR G + L L G Sbjct: 120 PRNPPVRYRESIPTSWVRITITEGKNRQVRRMTAAVGFPTLRLIRYGIGDWTLDGLTPGE 179 Query: 233 TREVS 237 R +S Sbjct: 180 YRAIS 184 >gi|154687141|ref|YP_001422302.1| YtzF [Bacillus amyloliquefaciens FZB42] gi|154352992|gb|ABS75071.1| YtzF [Bacillus amyloliquefaciens FZB42] Length = 239 Score = 72.8 bits (177), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 62/215 (28%), Positives = 103/215 (47%), Gaps = 6/215 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A +G SR++V++++ V ++G + +V I V G P E Sbjct: 2 RLDKLLANSGFGSRKDVKKIVKAGAVMIDGEPAKDVKTHVDPEKQDITVYGEPADYREFI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 + + +KP G+++ D + TV D L R GRLD +TEG LLLTNDG LA Sbjct: 62 YVMM-NKPQGVLSATED-SRQQTVVDLLTPEEQRFEPFPAGRLDKDTEGFLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P + Y VR + + + L++G+VI+ G V + T+ + Sbjct: 120 HRLLSPKKHVPKTYEVRLTSPLSPEDIVHLERGVVIEGGYKTKPAAVEIITESPDETVIH 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EGK ++K + + +V L R+S G L Sbjct: 180 LTITEGKYHQVKLMAKAVGNEVAYLKRLSMGAVSL 214 >gi|332519089|ref|ZP_08395556.1| RNA-binding S4 domain protein [Lacinutrix algicola 5H-3-7-4] gi|332044937|gb|EGI81130.1| RNA-binding S4 domain protein [Lacinutrix algicola 5H-3-7-4] Length = 285 Score = 72.8 bits (177), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 54/200 (27%), Positives = 100/200 (50%), Gaps = 7/200 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A AGI SRR+ + IA V VNG ++ V D + DG + E+ Sbjct: 56 RLNKYVANAGICSRRDADVHIATGLVTVNGKVVTEMGYKVKLEDEVRYDGARIN-PEKKA 114 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G TT S+ G+ TV D + + SR+ +GRL N+ GLLL TND + Sbjct: 115 YVLLNKPKGFATTTSEYKGK-TVMDLVANATSSRIKPIGRLGRNSTGLLLFTNDDKVVDR 173 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKGSNAWVTVG 192 + +R++ + + + L +++G+ I+G ++ +D +K + + Sbjct: 174 FTNSNKGVVRLFHLELDKNLKLEDLKKIREGLRIEGKQINVEEIDYVDNRKNE---IGIK 230 Query: 193 LREGKNREIKKVFEFFNWKV 212 ++ N + +F++F +++ Sbjct: 231 IKNTGNTILHTIFDYFKYEL 250 >gi|209559583|ref|YP_002286055.1| Putative 16S pseudouridylate synthase [Streptococcus pyogenes NZ131] gi|209540784|gb|ACI61360.1| Putative 16S pseudouridylate synthase [Streptococcus pyogenes NZ131] Length = 243 Score = 72.8 bits (177), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 66/240 (27%), Positives = 117/240 (48%), Gaps = 9/240 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ +R +V+ ++ ++ + VN + A ++ D + G PL E Sbjct: 2 RLDKFLVATGVGTRSQVKLLLKKKAIFVNQKVETSAKAHIDEYKDLVTYQGTPLV-YESF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G V+ D ++TV + L + V VGRLD +T GLLLLTN+G LA Sbjct: 61 VYYLLNKPSGYVSATQDRQ-QATVMELLDDTARQKAVFPVGRLDKDTRGLLLLTNNGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICY-GDMQVTLDTQKGSNAWV 189 L P + Y + G + + + +GI ++ C ++V + + V Sbjct: 120 HDLLSPKKHVTKEYLAKVAGIMTEADKDYFARGISLKDHQCLPAHLEVLASDLQQQTSLV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPH 248 + ++EGK ++K++ +V L R+S GP +L LA G R ++ + L + L P+ Sbjct: 180 KITIQEGKFHQVKRMVAACGKEVLDLQRLSMGPLKLDPSLAEGEFRRLTPEEL-QSLAPY 238 >gi|15675276|ref|NP_269450.1| putative 16S pseudouridylate synthase [Streptococcus pyogenes M1 GAS] gi|71910905|ref|YP_282455.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS5005] gi|94988765|ref|YP_596866.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS9429] gi|94992591|ref|YP_600690.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS2096] gi|139473614|ref|YP_001128330.1| ribosomal small subunit pseudouridine synthase B [Streptococcus pyogenes str. Manfredo] gi|13622451|gb|AAK34171.1| putative 16S pseudouridylate synthase [Streptococcus pyogenes M1 GAS] gi|71853687|gb|AAZ51710.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS5005] gi|94542273|gb|ABF32322.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS9429] gi|94546099|gb|ABF36146.1| Ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS2096] gi|134271861|emb|CAM30097.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus pyogenes str. Manfredo] Length = 244 Score = 72.8 bits (177), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 66/240 (27%), Positives = 117/240 (48%), Gaps = 9/240 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ +R +V+ ++ ++ + VN + A ++ D + G PL E Sbjct: 3 RLDKFLVATGVGTRSQVKLLLKKKAIFVNQKVETSAKAHIDEYKDLVTYQGTPLV-YESF 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G V+ D ++TV + L + V VGRLD +T GLLLLTN+G LA Sbjct: 62 VYYLLNKPSGYVSATQDRQ-QATVMELLDDTARQKAVFPVGRLDKDTRGLLLLTNNGQLA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICY-GDMQVTLDTQKGSNAWV 189 L P + Y + G + + + +GI ++ C ++V + + V Sbjct: 121 HDLLSPKKHVTKEYLAKVAGIMTEADKDYFARGISLKDHQCLPAHLEVLASDLQQQTSLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPH 248 + ++EGK ++K++ +V L R+S GP +L LA G R ++ + L + L P+ Sbjct: 181 KITIQEGKFHQVKRMVAACGKEVLDLQRLSMGPLKLDPSLAEGEFRRLTPEEL-QSLAPY 239 >gi|84625925|ref|YP_453297.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae MAFF 311018] gi|84369865|dbj|BAE71023.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae MAFF 311018] Length = 190 Score = 72.8 bits (177), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 52/176 (29%), Positives = 86/176 (48%), Gaps = 21/176 (11%) Query: 77 LYHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+++ SD P R+ LP V + GRLD ++EGLLLLT+DG LA Sbjct: 4 LLNKPYGVLSQFSDRSQPPKRTLAEFGLPP---DVYAAGRLDHDSEGLLLLTDDGALAHR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG-------- 184 + P + + Y V+ G+ +L L+ G+V+ QV +LD Sbjct: 61 VTDPRHKQPKTYWVQVEGEPQAGQLQALRDGVVLNDGPTRTAQVRSLDPAPPLWPREPPV 120 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +AW+ + + EG+NR+++++ RL+R++ G ++L L G R Sbjct: 121 RVRKTVPDAWLELRITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDMLAPGQWR 176 >gi|58584154|ref|YP_203170.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae KACC10331] gi|188579145|ref|YP_001916074.1| ribosomal large subunit pseudouridine synthase E [Xanthomonas oryzae pv. oryzae PXO99A] gi|58428748|gb|AAW77785.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae KACC10331] gi|188523597|gb|ACD61542.1| ribosomal large subunit pseudouridine synthase E [Xanthomonas oryzae pv. oryzae PXO99A] Length = 200 Score = 72.8 bits (177), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 52/176 (29%), Positives = 86/176 (48%), Gaps = 21/176 (11%) Query: 77 LYHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+++ SD P R+ LP V + GRLD ++EGLLLLT+DG LA Sbjct: 14 LLNKPYGVLSQFSDRSQPPKRTLAEFGLPP---DVYAAGRLDHDSEGLLLLTDDGALAHR 70 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG-------- 184 + P + + Y V+ G+ +L L+ G+V+ QV +LD Sbjct: 71 VTDPRHKQPKTYWVQVEGEPQAGQLQALRDGVVLNDGPTRTAQVRSLDPAPPLWPREPPV 130 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +AW+ + + EG+NR+++++ RL+R++ G ++L L G R Sbjct: 131 RVRKTVPDAWLELRITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDMLAPGQWR 186 >gi|312966391|ref|ZP_07780613.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli 2362-75] gi|312288844|gb|EFR16742.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli 2362-75] gi|325497563|gb|EGC95422.1| 23S rRNA pseudouridine synthase E [Escherichia fergusonii ECD227] Length = 177 Score = 72.8 bits (177), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 49/176 (27%), Positives = 86/176 (48%), Gaps = 17/176 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L L Sbjct: 3 LFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQARLTQ 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQV------------TLDT 181 P + ++Y V+ G +D L L+ G+ + + G V + Sbjct: 61 PGKRTGKIYYVQVEGIPTEDALEALRNGVTLNDGPTLPAGAEMVEEPEWLWPRNPPIRER 120 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + L EG+NR+++++ + RLIR + G + L L G RE + Sbjct: 121 KSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREAT 176 >gi|227501207|ref|ZP_03931256.1| pseudouridylate synthase [Anaerococcus tetradius ATCC 35098] gi|227216608|gb|EEI82012.1| pseudouridylate synthase [Anaerococcus tetradius ATCC 35098] Length = 232 Score = 72.8 bits (177), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 60/227 (26%), Positives = 116/227 (51%), Gaps = 9/227 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K+I +G+ +R+ ++R + ++VNG +++ ++ V D + + E Sbjct: 2 RLDKMIGNSGLDTRKNIKRNAKKGAIRVNGQVVKDTSIQVDPDLDEVYYMDQFVDYFENI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISV-GRLDINTEGLLLLTNDGGLA 131 + + +KP G ++ D D TV D L + + +S+ GRLD +T GL+LL+ DG Sbjct: 62 YIMM-NKPAGFLSATEDKD--PTVIDILDDFYKGLDLSIAGRLDKDTTGLILLSTDGKFI 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P++ + Y+V ++ D + + ++G+ I+ Y L+ + A V V Sbjct: 119 HKVTSPNSNIEKTYQVETRDEIKNDLIKIFEEGVYIKEDDYTARPAKLEILEEKKALVRV 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 EGK +K++F + +V +L R++ G +L + LA G RE+S Sbjct: 179 --TEGKFHLVKRLFANCDNEVLKLKRLAIGKLKLDSHLAEGEYRELS 223 >gi|254480519|ref|ZP_05093766.1| conserved hypothetical protein [marine gamma proteobacterium HTCC2148] gi|214039102|gb|EEB79762.1| conserved hypothetical protein [marine gamma proteobacterium HTCC2148] Length = 206 Score = 72.8 bits (177), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 48/172 (27%), Positives = 89/172 (51%), Gaps = 16/172 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP +++ SD +GR T+ D L + R + GRLD ++EGLLLLT++G L + + Sbjct: 15 LFNKPFRVLSQFSDTEGRRTLADFLSAPEFR--AAGRLDYDSEGLLLLTDNGQLQQQIAN 72 Query: 137 PSTQWLRVYRVRFHGQVD-------------QDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 P + + Y V+ G++D +D L L + I+ + +K Sbjct: 73 PRHKQWKTYLVQVEGELDDLSIAALCAPLKLKDGLTLPARARRIEPPALWPRHPPVRERK 132 Query: 184 G-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 ++W+ + +REG+NR+++++ + RL+R + G + LG + G R Sbjct: 133 SVPDSWLELSIREGRNRQVRRMTAAVGFPTLRLVRQAVGDWSLGDIAPGEYR 184 >gi|163751229|ref|ZP_02158457.1| ribosomal large subunit pseudouridine synthase E [Shewanella benthica KT99] gi|161328943|gb|EDQ00017.1| ribosomal large subunit pseudouridine synthase E [Shewanella benthica KT99] Length = 239 Score = 72.8 bits (177), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 47/172 (27%), Positives = 82/172 (47%), Gaps = 16/172 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D + V + GRLD ++EGLLLLTNDG L + Sbjct: 62 LFNKPFDVLCQFTDEQGRKTLKDFI--AVKDVYAAGRLDRDSEGLLLLTNDGKLQSKITE 119 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P+ + + Y V+ G DQ L L+ G+ ++ ++T ++ Sbjct: 120 PNKRTFKTYWVQVEGTPDQADLQALRDGVKLKDGMTLPAKITSISEPKVWDREPPIRERK 179 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 W+ + + EG+NR+++++ + RLIR G + L + G R Sbjct: 180 NIPTTWLEIQICEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDDIDIGQYR 231 >gi|19746315|ref|NP_607451.1| 16S pseudouridylate synthase [Streptococcus pyogenes MGAS8232] gi|21910554|ref|NP_664822.1| putative 16S pseudouridylate synthase [Streptococcus pyogenes MGAS315] gi|19748507|gb|AAL97950.1| putative 16S pseudouridylate synthase [Streptococcus pyogenes MGAS8232] gi|21904754|gb|AAM79625.1| putative 16S pseudouridylate synthase [Streptococcus pyogenes MGAS315] Length = 243 Score = 72.8 bits (177), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 66/240 (27%), Positives = 117/240 (48%), Gaps = 9/240 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ +R +V+ ++ ++ + VN + A ++ D + G PL E Sbjct: 2 RLDKFLVATGVGTRSQVKLLLKKKAIFVNQKVETSAKAHIDEYKDLVTYQGTPLV-YESF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G V+ D ++TV + L + V VGRLD +T GLLLLTN+G LA Sbjct: 61 VYYLLNKPSGYVSATQDRQ-QATVMELLDDTARQKTVFPVGRLDKDTRGLLLLTNNGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICY-GDMQVTLDTQKGSNAWV 189 L P + Y + G + + + +GI ++ C ++V + + V Sbjct: 120 HDLLSPKKHVTKEYLAKVAGIMTEADKDYFARGISLKDHQCLPAHLEVLASDLQQQTSLV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPH 248 + ++EGK ++K++ +V L R+S GP +L LA G R ++ + L + L P+ Sbjct: 180 KITIQEGKFHQVKRMVAACGKEVLDLQRLSMGPLKLDPSLAEGEFRRLTPEEL-QSLAPY 238 >gi|237732602|ref|ZP_04563083.1| RNA pseudouridine synthase [Mollicutes bacterium D7] gi|229384319|gb|EEO34410.1| RNA pseudouridine synthase [Coprobacillus sp. D7] Length = 155 Score = 72.4 bits (176), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 50/157 (31%), Positives = 86/157 (54%), Gaps = 10/157 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAER 72 R+ K++A GI +R+EV+ +I + VKVNG+++++ V DH E+D + + Sbjct: 3 MRLDKLLANYGIGTRKEVKSLIRKGFVKVNGMIIKKDDFKV---DH-EIDEIVFDDELIE 58 Query: 73 TRLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDG 128 R ++Y +KP G ++ D + TV + + + + VGRLD++TEGLLL+TNDG Sbjct: 59 YRPYVYIMLNKPAGYISATKD-NLHPTVLELIEGYENYDLFPVGRLDLDTEGLLLITNDG 117 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + L PS ++Y G +D+ + K G+ Sbjct: 118 DFSHKLLAPSRNHSKIYFANIAGVMDEQDIQAFKDGL 154 >gi|28895754|ref|NP_802104.1| 16S pseudouridylate synthase [Streptococcus pyogenes SSI-1] gi|50914410|ref|YP_060382.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS10394] gi|94994587|ref|YP_602685.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS10750] gi|28811003|dbj|BAC63937.1| putative 16S pseudouridylate synthase [Streptococcus pyogenes SSI-1] gi|50903484|gb|AAT87199.1| Ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS10394] gi|94548095|gb|ABF38141.1| Ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS10750] Length = 244 Score = 72.4 bits (176), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 66/240 (27%), Positives = 117/240 (48%), Gaps = 9/240 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ +R +V+ ++ ++ + VN + A ++ D + G PL E Sbjct: 3 RLDKFLVATGVGTRSQVKLLLKKKAIFVNQKVETSAKAHIDEYKDLVTYQGTPLV-YESF 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G V+ D ++TV + L + V VGRLD +T GLLLLTN+G LA Sbjct: 62 VYYLLNKPSGYVSATQDRQ-QATVMELLDDTARQKTVFPVGRLDKDTRGLLLLTNNGQLA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICY-GDMQVTLDTQKGSNAWV 189 L P + Y + G + + + +GI ++ C ++V + + V Sbjct: 121 HDLLSPKKHVTKEYLAKVAGIMTEADKDYFARGISLKDHQCLPAHLEVLASDLQQQTSLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPH 248 + ++EGK ++K++ +V L R+S GP +L LA G R ++ + L + L P+ Sbjct: 181 KITIQEGKFHQVKRMVAACGKEVLDLQRLSMGPLKLDPSLAEGEFRRLTPEEL-QSLAPY 239 >gi|187735933|ref|YP_001878045.1| pseudouridine synthase [Akkermansia muciniphila ATCC BAA-835] gi|187425985|gb|ACD05264.1| pseudouridine synthase [Akkermansia muciniphila ATCC BAA-835] Length = 230 Score = 72.4 bits (176), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 60/219 (27%), Positives = 98/219 (44%), Gaps = 10/219 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ +++R G SRRE I + + G + + + + I +DG P+ + Sbjct: 2 RLDALLSRYGYCSRREAPGWIKRHSITFKGKPCS-SPTDKVQAEGILLDGEPVEFPDGLY 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINTEGLLLLTNDGGL 130 LY KP G +H D +G + ++D LP + V SVGRLD T GLLLLT+DG Sbjct: 61 AALY-KPEGYTCSHDDGEG-NLIYDLLPFQWRHRNPAVSSVGRLDKETSGLLLLTDDGKF 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAWV 189 + P +VY + + + L G + + G L+ ++ A + Sbjct: 119 IHRMTSPRHHVAKVYEAVTEEDIPTEAVELFASGTLTLNGETRPCAPALLEIREPRRALL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 T L EGK +++++ V L R+S G L +L Sbjct: 179 T--LTEGKYHQVRRMLAAVGAPVLSLCRVSIGSLHLDSL 215 >gi|325694128|gb|EGD36046.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK150] Length = 241 Score = 72.4 bits (176), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 72/237 (30%), Positives = 120/237 (50%), Gaps = 12/237 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A I SR+++++ Q+++ V+G + + NV I G + Sbjct: 2 RLDQLLAANHI-SRKKMKQSHLQKQILVDGKPAYKLSQNVDTGLQQITFQGKHVSGPAH- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP G VT + D + + TV D L + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANHDAE-KLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVD-QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V +G + QDK+ + + G Q+++ + S + T Sbjct: 119 FQLLHPQYHVEKTYYVEVNGPLTPQDKIAFHEGIRFLDGTVCQPAQLSILSTSSSLSRAT 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLG 246 V + EGK +IKK+F KV L RI +G F L LA G R ++ +E+LG Sbjct: 179 VKISEGKFHQIKKMFLAVGVKVTYLKRIQFGDFTLDPDLAKGDYRALN----QEELG 231 >gi|227327062|ref|ZP_03831086.1| putative RNA pseudouridylate synthase [Pectobacterium carotovorum subsp. carotovorum WPP14] Length = 208 Score = 72.4 bits (176), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 49/179 (27%), Positives = 86/179 (48%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P S + + GRLD ++EGL++LTNDG L Sbjct: 30 RIVLFNKPFDVLPQFTDEAGRRTLKDYIP--VSGIYAAGRLDRDSEGLMILTNDGKLQAQ 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKG--------------IVIQGICYGDMQVTL 179 L P+ + ++Y V+ G D L + G IV + + Sbjct: 88 LTQPTKKTAKIYYVQVEGIPDDAALTRFRTGLDLNDGKTLPAGAEIVPEPDWLWPRNPPI 147 Query: 180 DTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +K + W+ + L EG+NR+++++ + RLIR + LL G +E++ Sbjct: 148 RERKSIPDCWLKITLNEGRNRQVRRMTANIGYPTLRLIRYGMANQTVENLLPGEWKEIT 206 >gi|221198326|ref|ZP_03571372.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD2M] gi|221182258|gb|EEE14659.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD2M] Length = 512 Score = 72.4 bits (176), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 73/248 (29%), Positives = 116/248 (46%), Gaps = 30/248 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 265 RLSKRMSELGLCSRREADEWIEKGWVIVDGERIDTLGTKVRADQRIEIDERAQAAQAAQV 324 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-----------FDNLPSIFS----RVIS-VGRLDINT 118 L HKP+G V+ ++ DG D P FS R ++ GRLDI++ Sbjct: 325 TILLHKPVGYVSGQAE-DGYEPASVLITRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 383 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQ---VDQ----DKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y RVRF + +DQ ++L L+ G+ + G Sbjct: 384 TGLLVLTQNGRIAKQLIGEQSDVDKEYLVRVRFGDRLTDIDQHFPAERLAQLRHGLELDG 443 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ Q G + LREG+ R+I+++ E +V L R+ G LG L Sbjct: 444 VALKPAMVSW--QNGEQ--LRFVLREGRKRQIRRMCELVGLEVIGLKRVRMGRVTLGALP 499 Query: 230 AGSTREVS 237 G R +S Sbjct: 500 QGQWRYLS 507 >gi|167586851|ref|ZP_02379239.1| Pseudouridine synthase, Rsu [Burkholderia ubonensis Bu] Length = 298 Score = 72.4 bits (176), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 69/247 (27%), Positives = 110/247 (44%), Gaps = 28/247 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 51 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDERASAAQAAQV 110 Query: 75 LWLYHKPIGLVTTHSDP---------------DGRSTVFDNLPSIFSRVISVGRLDINTE 119 L HKP+G V+ ++ G + P + GRLDI++ Sbjct: 111 TILLHKPVGYVSGQAEDGYEPATVLITRENHWSGDRSALRFSPQHLHSLAPAGRLDIDST 170 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQ---VDQ----DKLNLLKKGIVIQGI 170 GLL+LT +G +A+ L + + Y RVRF + +DQ + L L+ G+ + G+ Sbjct: 171 GLLVLTQNGRIAKQLIGEQSDIDKEYLVRVRFGERLIDIDQHFPAESLAKLRHGLELDGV 230 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V+ Q G + LREGK R+I+++ E +V L R+ G LG L Sbjct: 231 ALKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALPQ 286 Query: 231 GSTREVS 237 G R +S Sbjct: 287 GQWRYLS 293 >gi|330824860|ref|YP_004388163.1| pseudouridine synthase Rsu [Alicycliphilus denitrificans K601] gi|329310232|gb|AEB84647.1| pseudouridine synthase Rsu [Alicycliphilus denitrificans K601] Length = 188 Score = 72.4 bits (176), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 50/184 (27%), Positives = 91/184 (49%), Gaps = 25/184 (13%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRS---TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 R RL ++KP G+++ + P+GR F +LP ++ GRLD ++EGLLLLT+ G Sbjct: 4 RARLIRFNKPYGVLSQFT-PEGRWRGLKDFIDLPGVYV----AGRLDADSEGLLLLTDSG 58 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ----------------GICY 172 L + P + + Y V+ G D L L++GI + +C Sbjct: 59 PLQARISDPRHKMEKTYWVQVEGIPDDAALAALQRGITLNDGPTRPARVHRLEPPPALCP 118 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 D + + + ++W+ + +REG+NR+++++ RL+R + GP+ L L G+ Sbjct: 119 RDPPIRV-RRNIPDSWIELVIREGRNRQVRRMTAAVGHPTLRLVRTAIGPYTLDGLAPGA 177 Query: 233 TREV 236 ++ Sbjct: 178 WDDI 181 >gi|291320513|ref|YP_003515777.1| 16S rRNA uridine 516 pseudouridylate synthase [Mycoplasma agalactiae] gi|290752848|emb|CBH40823.1| 16S rRNA uridine 516 pseudouridylate synthaseand related pseudouridylate synthase [Mycoplasma agalactiae] Length = 232 Score = 72.4 bits (176), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 70/230 (30%), Positives = 119/230 (51%), Gaps = 17/230 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA SR EV+ + ++ +KVNG++L + D +E+D L K E+ + Sbjct: 5 RIEKYIADLTNLSRNEVKNKLKKKAIKVNGVILTKLIKIDPEKDVVELDNGIL-KYEKFQ 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++++KP + +SD + +T+FD LP+ + S GRLD +TEGLL+L+NDG + Sbjct: 64 YYMFNKPANFICANSDSE-EATIFDIVGLPA--EKFFSFGRLDKDTEGLLILSNDGQMCH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT---LDTQKGSNAWV 189 L P + Y V+ ++D + L L I I D V+ L+ + ++ Sbjct: 121 RLLSPKNHVPKKYYVKVDKKIDSEIL-LNNSPIKIN----DDFVVSKYILELIDDKSCFL 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 T+ EGK +IK++F + V L R+ +G +L L G R++S+ Sbjct: 176 TI--YEGKFHQIKRMFGSLGFSVLYLKRVEFGKLKLDNNLKLGQVRKLSE 223 >gi|118595184|ref|ZP_01552531.1| hypothetical protein MB2181_05910 [Methylophilales bacterium HTCC2181] gi|118440962|gb|EAV47589.1| hypothetical protein MB2181_05910 [Methylophilales bacterium HTCC2181] Length = 176 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 52/174 (29%), Positives = 90/174 (51%), Gaps = 20/174 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 L +++KP G++T S+ + V+ +L S V GRLD ++EGL++LT++G L Sbjct: 2 LIIFNKPYGVITQFSEHE----VYPSLKEFISHKNVYPAGRLDADSEGLVILTDNGALQN 57 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-----------DT 181 L P++ +VY V+ + L L+KG++I +V L Sbjct: 58 KLSDPTSNIEKVYVVQVENIPSSEDLAKLEKGVMISKYITKPAKVRLIEDPMLWERVPPI 117 Query: 182 QKGSN---AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 +K S+ AW+ + + EGKNR+++K+ + RLIR S G +++G L G+ Sbjct: 118 RKRSSIPTAWLEIRITEGKNRQVRKMTAAVGFPTLRLIRTSVGNYKIGDLEPGN 171 >gi|221215453|ref|ZP_03588417.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD1] gi|221164637|gb|EED97119.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD1] Length = 610 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 73/248 (29%), Positives = 116/248 (46%), Gaps = 30/248 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 363 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDERAQAAQAAQV 422 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDINT 118 L HKP+G V+ ++ DG D P FS R ++ GRLDI++ Sbjct: 423 TILLHKPVGYVSGQAE-DGYEPASVLITRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 481 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQ---VDQ----DKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y RVRF + +DQ ++L L+ G+ + G Sbjct: 482 TGLLVLTQNGRIAKQLIGEQSDVDKEYLVRVRFGDRLTDIDQHFPAERLAQLRHGLELDG 541 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ Q G + LREG+ R+I+++ E +V L R+ G LG L Sbjct: 542 VALKPAMVSW--QNGEQ--LRFVLREGRKRQIRRMCELVGLEVIGLKRVRMGRVTLGALP 597 Query: 230 AGSTREVS 237 G R +S Sbjct: 598 QGQWRYLS 605 >gi|253998302|ref|YP_003050365.1| pseudouridine synthase [Methylovorus sp. SIP3-4] gi|313200376|ref|YP_004039034.1| pseudouridine synthase [Methylovorus sp. MP688] gi|253984981|gb|ACT49838.1| pseudouridine synthase [Methylovorus sp. SIP3-4] gi|312439692|gb|ADQ83798.1| pseudouridine synthase [Methylovorus sp. MP688] Length = 178 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 46/175 (26%), Positives = 83/175 (47%), Gaps = 17/175 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L++KP G+V S + T+ D + V + GRLD ++EGLL+LT+DG L + Sbjct: 2 LILFNKPFGVVCQFSAHENHPTLKDYI--AMPDVYAAGRLDTDSEGLLILTDDGRLQHRI 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--------- 185 P + +++Y + G D + L+ L++G+ + QV + + + Sbjct: 60 AHPKHKEIKIYWAQVEGAPDDEALSPLRRGVDLGDFVTQPAQVKIIAEPANLWARVPPIR 119 Query: 186 ------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 W+ + + EGKNR+++++ + RLIR + G L L G + Sbjct: 120 ERKAIPTTWLEIRISEGKNRQVRRMTAKIGFPTLRLIRYAIGAHTLAGLQPGEFK 174 >gi|320195863|gb|EFW70488.1| Ribosomal large subunit pseudouridine synthase E [Escherichia coli WV_060327] Length = 177 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 48/176 (27%), Positives = 83/176 (47%), Gaps = 17/176 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L L Sbjct: 3 LFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQARLTQ 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P + ++Y V+ G QD L L+ G+ + L + Sbjct: 61 PGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPAWLWPRNPPIRER 120 Query: 185 ---SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR + G + L L G R+ + Sbjct: 121 KSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWRDAT 176 >gi|319762719|ref|YP_004126656.1| pseudouridine synthase [Alicycliphilus denitrificans BC] gi|317117280|gb|ADU99768.1| pseudouridine synthase [Alicycliphilus denitrificans BC] Length = 188 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 50/184 (27%), Positives = 91/184 (49%), Gaps = 25/184 (13%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRS---TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 R RL ++KP G+++ + P+GR F +LP ++ GRLD ++EGLLLLT+ G Sbjct: 4 RARLIRFNKPYGVLSQFT-PEGRWRGLKDFIDLPGVYV----AGRLDADSEGLLLLTDSG 58 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ----------------GICY 172 L + P + + Y V+ G D L L++GI + +C Sbjct: 59 PLQARISDPRHKMEKTYWVQVEGIPDDAALAALQRGITLNDGPTRPARVHRLEPPPALCP 118 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 D + + + ++W+ + +REG+NR+++++ RL+R + GP+ L L G+ Sbjct: 119 RDPPIRV-RRNIPDSWIELVIREGRNRQVRRMTAAVGHPTLRLVRAAIGPYTLDGLAPGA 177 Query: 233 TREV 236 ++ Sbjct: 178 WDDI 181 >gi|261253105|ref|ZP_05945678.1| ribosomal small subunit pseudouridine synthase A [Vibrio orientalis CIP 102891] gi|260936496|gb|EEX92485.1| ribosomal small subunit pseudouridine synthase A [Vibrio orientalis CIP 102891] Length = 233 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 62/227 (27%), Positives = 106/227 (46%), Gaps = 4/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A A+RRE R+I V VN ++ + +V V +E G L+K Sbjct: 2 RLDKYLCDALGATRREATRIIKSGDVTVNDVVQKSGSVKVTDGCTVEWQGRELQKPGPRY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ KP G V +H D + T F L + + GRLD++T GL+L+T+DG + Sbjct: 62 IMLF-KPDGFVCSHEDGFNQ-TAFMLLDEVKIEELHFAGRLDVDTTGLVLITDDGKWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + D + +GI ++ + L+ V + + Sbjct: 120 ITSPKHKCEKTYRVWLADPIQADYVEKFAEGIQLRNEKGLTLPAQLEIVDEEENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EGK ++K++F KV L R G +L +L G R ++++ Sbjct: 180 TEGKYHQVKRMFAALGNKVEHLHRERIGDIELCESLEPGEYRYLTEE 226 >gi|209517428|ref|ZP_03266269.1| pseudouridine synthase [Burkholderia sp. H160] gi|209502082|gb|EEA02097.1| pseudouridine synthase [Burkholderia sp. H160] Length = 236 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 60/220 (27%), Positives = 94/220 (42%), Gaps = 9/220 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD---HIEVDGVPLRKAER 72 + ++ G SRR+ +I RV ++G + A + VDGV E Sbjct: 3 LESILFTQGFGSRRQCRALIGDARVSIDGAICTDADADFAVESGALRFSVDGVEWPYREH 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L L +KP+G + DP +VF LP F+ V VGRLD +T GLLLL++DG Sbjct: 63 AYL-LLNKPVGYECSR-DPQHHLSVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGKF 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 P + ++Y +D +L L+ G+++ G LD Q + Sbjct: 121 VHQFTSPKRKVPKLYVATTRHPLDDAQLTALRHGVLLHG--ETRPSAALDAQARDTHTLA 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + EGK ++K++ + L R G L LA Sbjct: 179 LTVLEGKYHQVKRMIAASGNRCEALHRERIGGLALPATLA 218 >gi|114563729|ref|YP_751242.1| pseudouridine synthase, Rsu [Shewanella frigidimarina NCIMB 400] gi|114335022|gb|ABI72404.1| Pseudouridine synthase, Rsu [Shewanella frigidimarina NCIMB 400] Length = 229 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 68/218 (31%), Positives = 104/218 (47%), Gaps = 25/218 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + I ++ + + ++I V VNG+++ AV V + I ++G L A R Sbjct: 2 RLDRFICKSTELVKYDAIQLIHNGEVFVNGVVVRNEAVQVHENNDISLNGQKL-AARAFR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV---------GRLDINTEGLLLLT 125 L +KP T S+ DG PS+FS +I V GRLD NT GL+L+T Sbjct: 61 YMLINKPAN--TLCSNVDGV------YPSLFS-LIDVERPSELHIAGRLDANTTGLVLIT 111 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 +DG + PS Q +VYRV+ + D +GI +Q G+ ++TL Q Sbjct: 112 DDGRWTFAITSPSGQCHKVYRVKLAKPIAADAGESFLQGIALQ----GEQELTLPAQLQI 167 Query: 185 -SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + V + L EGK ++K++F KV L R S G Sbjct: 168 ITPQEVLLTLTEGKFHQVKRMFAAVGNKVVSLHRESIG 205 >gi|227111561|ref|ZP_03825217.1| putative RNA pseudouridylate synthase [Pectobacterium carotovorum subsp. brasiliensis PBR1692] Length = 208 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 49/178 (27%), Positives = 85/178 (47%), Gaps = 17/178 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P S + + GRLD ++EGL++LTNDG L Sbjct: 30 RIVLFNKPFDVLPQFTDEAGRRTLKDYIP--ISGIYAAGRLDRDSEGLMILTNDGKLQAR 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKG--------------IVIQGICYGDMQVTL 179 L P+ + ++Y V+ G D L + G IV + + Sbjct: 88 LTQPTQKTAKIYYVQVEGIPDAAALTRFRTGLDLNDGKTLPAGAEIVPEPSWLWPRNPPI 147 Query: 180 DTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 +K + W+ + L EG+NR+++++ + RLIR + LL G +E+ Sbjct: 148 RERKSIPDCWLKITLHEGRNRQVRRMTANIGYPTLRLIRYGMANQTVENLLPGEWKEI 205 >gi|264676389|ref|YP_003276295.1| Pseudouridine synthase, Rsu [Comamonas testosteroni CNB-2] gi|262206901|gb|ACY30999.1| Pseudouridine synthase, Rsu [Comamonas testosteroni CNB-2] Length = 223 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 49/182 (26%), Positives = 89/182 (48%), Gaps = 23/182 (12%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDN---LPSIFSRVISVGRLDINTEGLLLLTNDGG 129 TRL +HKP G+++ + P+G+ + +P ++ GRLD ++EGLLLLTNDG Sbjct: 41 TRLLCFHKPYGVLSQFT-PEGKWQGLKDWIDVPGVYV----AGRLDADSEGLLLLTNDGQ 95 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---------------QGICYGD 174 L + P + + Y V+ G D+ L L++G+ + Q + + Sbjct: 96 LQARIADPRHKMEKTYWVQVEGIPDEAALQRLREGVELSDGKTLPAKARLIEPQPLMWPR 155 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 Q + W+ + +REG+NR+++++ RL+R++ GP+ + L G Sbjct: 156 NPPIRVRQNIPDCWIELIIREGRNRQVRRMTAAVGHPTLRLVRMAVGPYSIEGLEPGQWL 215 Query: 235 EV 236 +V Sbjct: 216 DV 217 >gi|152999616|ref|YP_001365297.1| pseudouridine synthase [Shewanella baltica OS185] gi|151364234|gb|ABS07234.1| pseudouridine synthase [Shewanella baltica OS185] Length = 256 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 65/215 (30%), Positives = 106/215 (49%), Gaps = 12/215 (5%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTT 87 R+ V ++ RV+V+G++++ V HI++D L+ + L HKPIG+V+ Sbjct: 41 RKAVRELLLSGRVRVDGLIVKDMDRQVDEFSHIQLDEHILQANAPVYVML-HKPIGVVSA 99 Query: 88 HSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 D + TV D L + + GRLD+N+ GLLLLTND + L P+ + +VYR Sbjct: 100 TKDIQHK-TVIDLLDCEARDELHIAGRLDLNSSGLLLLTNDSRWSDALMSPTHKVDKVYR 158 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK---GSNAWVTVGLREGKNREIKK 203 V + ++ + +G+ +G +T K ++ V L EGK +IK+ Sbjct: 159 VTLANPITEEYIAAFAEGMY-----FGFEDITTQPAKLVILADNVAEVTLHEGKYHQIKR 213 Query: 204 VFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 +F F V L R+S G L LA G +R ++ Sbjct: 214 MFGRFRNPVVGLHRLSIGDIVLDEKLAPGESRALT 248 >gi|224824759|ref|ZP_03697866.1| pseudouridine synthase [Lutiella nitroferrum 2002] gi|224603252|gb|EEG09428.1| pseudouridine synthase [Lutiella nitroferrum 2002] Length = 225 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 51/183 (27%), Positives = 91/183 (49%), Gaps = 23/183 (12%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP G++ S + T+ D ++P ++ GRLD ++EGLLLLT DG L Sbjct: 3 QLILFNKPYGVICQFSQHELHPTLKDHIDIPGVYP----AGRLDTDSEGLLLLTGDGELQ 58 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------- 184 + P + + Y V+ G +++L L+ G+ + +V L ++ Sbjct: 59 HRISDPRWKQSKTYWVQVEGTPVEEQLEALRAGVNLGDFITQPAEVRLLSEPPQLWERKP 118 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR-- 234 +AW+ + + EGKNR+++++ RL+R++ GP++L L G R Sbjct: 119 PVRFRKTVPDAWLEIIISEGKNRQVRRMTAKVGLPTLRLVRVAVGPWRLDGLQPGEFRRL 178 Query: 235 EVS 237 EVS Sbjct: 179 EVS 181 >gi|332667990|ref|YP_004450778.1| pseudouridine synthase Rsu [Haliscomenobacter hydrossis DSM 1100] gi|332336804|gb|AEE53905.1| pseudouridine synthase Rsu [Haliscomenobacter hydrossis DSM 1100] Length = 197 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 55/182 (30%), Positives = 82/182 (45%), Gaps = 19/182 (10%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L HKP G ++ + +L V VGRLD ++EGLLLL+ND L L Sbjct: 6 LLHKPFGYLSQFTPETPGQLTLADLGPFPPEVYPVGRLDQDSEGLLLLSNDSRLNVQLLD 65 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQV---TLDTQKG------- 184 P R Y V+ G D+ L L+ G+ I+ Y + LD Q Sbjct: 66 PRHAHWRTYWVQVEGIPDEAALAHLRSGVEIRFNKKTYHTLPARAQLLDPQPTVAERNPP 125 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ + L+EGKNR+++++ + V RLIR++ QLG L G+ R + Sbjct: 126 IRYRANIPETWLELSLQEGKNRQVRRMCAKVGYPVLRLIRVNIENLQLGDLAVGAWRACT 185 Query: 238 KK 239 +K Sbjct: 186 QK 187 >gi|293394546|ref|ZP_06638842.1| ribosomal large subunit pseudouridine synthase F [Serratia odorifera DSM 4582] gi|291423011|gb|EFE96244.1| ribosomal large subunit pseudouridine synthase F [Serratia odorifera DSM 4582] Length = 289 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 63/233 (27%), Positives = 115/233 (49%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +R A+ V D ++V+G + R Sbjct: 8 RLNKYISESGICSRRDADRYIEQGNVFING---KRVALGDRVFPGDVVKVNGQLIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP+G+V+T D + + V + + +R+ +GRLD +++GL+ LTN G L Sbjct: 65 DNLIFIALNKPVGVVSTTEDGEKDNIV--DFVNHSTRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + ++ L G+ + G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVNKPVTDEFIHGLGAGVPM----LGTVTKKCKVKKVAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E F ++V +L R L L G R+++ L E Sbjct: 179 IVLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVGLAGLPLGEWRDLTDDELVE 231 >gi|254431844|ref|ZP_05045547.1| ribosomal large subunit pseudouridine synthase E [Cyanobium sp. PCC 7001] gi|197626297|gb|EDY38856.1| ribosomal large subunit pseudouridine synthase E [Cyanobium sp. PCC 7001] Length = 243 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 57/193 (29%), Positives = 95/193 (49%), Gaps = 24/193 (12%) Query: 70 AERTRLWLYHKPIGLVTTHS-DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 A R L+HKP G+++ + +P R + ++ V + GRLD ++EGLLLLT +G Sbjct: 10 ASRPTTLLFHKPYGVLSQFTPEPGSRWRCLADFIAVPG-VYAAGRLDADSEGLLLLTANG 68 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQ--DKLNLLKKGIVIQG--------ICYGDMQVT 178 L + L P+ R Y V+ G+ Q + L L++G+VIQG C D ++ Sbjct: 69 RLQQRLTDPAFGHWRTYWVQVEGEAGQRPEALQQLRQGVVIQGRLTRPALVRCLSDPKLP 128 Query: 179 LDT----QKGS--NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY------GPFQLG 226 Q+ + +W+ + L+EG+NR+++++ RLIR++ P L Sbjct: 129 ERDPPIRQRATIPVSWLELQLQEGRNRQVRRMTARVGLPTLRLIRVAIDLMDGEAPLSLS 188 Query: 227 TLLAGSTREVSKK 239 L G R VS + Sbjct: 189 GLKPGDWRRVSHR 201 >gi|325268067|ref|ZP_08134713.1| ribosomal small subunit pseudouridine synthase A [Kingella denitrificans ATCC 33394] gi|324980452|gb|EGC16118.1| ribosomal small subunit pseudouridine synthase A [Kingella denitrificans ATCC 33394] Length = 228 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 61/231 (26%), Positives = 105/231 (45%), Gaps = 22/231 (9%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILL--ERAAVNVMSTDHIEVDG-----VPLR 68 + K + GI +R+ + ++ V++NG + E+A + S + +DG +PL Sbjct: 3 IIKYLQAQGIDTRKGCQWLVKHGLVQINGATVPDEKADIAPDSVQTLTIDGEDAVVIPLP 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTN 126 L +KP G T+H P +VF LP + + +VGRLD +T G+LL+TN Sbjct: 63 YF----YILLNKPAGYETSHK-PRDYPSVFSLLPDQVRAADIQAVGRLDADTTGVLLITN 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-- 184 DG + P + ++YR D L+ G+++ D T+ Q Sbjct: 118 DGQFNHRMTSPKHKVDKIYRATLKHAADPSLCAQLQAGVLLH-----DDNETVSAQAAEL 172 Query: 185 -SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +REGK ++K++ +V L R+ +GP+ L AG R Sbjct: 173 HDAHTLILTIREGKYHQVKRMVAAAGNRVEHLHRLQFGPWDTQDLQAGEWR 223 >gi|167563192|ref|ZP_02356108.1| pseudouridine synthase family protein [Burkholderia oklahomensis EO147] Length = 321 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 74/246 (30%), Positives = 115/246 (46%), Gaps = 32/246 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 74 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSN-ARAAQAAQ 132 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS-----RVISVGRLDIN 117 + L HKP+G V+ ++ DG + D P FS + GRLDI+ Sbjct: 133 VTILLHKPVGYVSGQAE-DGYAPAVTLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 191 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRF---HGQVDQ----DKLNLLKKGIVIQ 168 + GLL+LT +G +A+ L + + Y RVRF +DQ + L L+ G+ + Sbjct: 192 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERMADIDQHFPAESLAKLRHGLELD 251 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G V+ Q G + LREGK R+I+++ E +V L R+ G LG L Sbjct: 252 GAPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGAL 307 Query: 229 LAGSTR 234 G R Sbjct: 308 PQGEWR 313 >gi|239994883|ref|ZP_04715407.1| ribosomal large subunit pseudouridine synthase E [Alteromonas macleodii ATCC 27126] Length = 180 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 47/172 (27%), Positives = 88/172 (51%), Gaps = 20/172 (11%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L++KP +++ +D DGR T+ D ++P +++ GRLD ++EGLL+LTNDG L L Sbjct: 9 LFNKPFQVLSQFTDADGRETLKDYIDVPGVYA----AGRLDRDSEGLLVLTNDGKLQHKL 64 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT------------ 181 P + + Y V+ G +D+ + L+ G+ ++ G+ ++ Sbjct: 65 ANPKAKTSKTYWVQVEGIMDEKAMQALRDGVELKDGMTRPAKVKAMEAPSVWPRNPPVRF 124 Query: 182 -QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 Q +WV + + EG+NR+++++ + RLIR G + + + GS Sbjct: 125 RQSIPTSWVEITITEGRNRQVRRMTANVGYPTLRLIRYRVGNWTIDGIDNGS 176 >gi|78778204|ref|YP_394519.1| pseudouridine synthase, Rsu [Sulfurimonas denitrificans DSM 1251] gi|78498744|gb|ABB45284.1| ribosomal small subunit pseudouridine synthase A [Sulfurimonas denitrificans DSM 1251] Length = 228 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 110/233 (47%), Gaps = 20/233 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV ++ G +R E +R + V V + V ++ I V+G L AER Sbjct: 6 KRVDAHLSSLGYCTRSEAKRFLTTNNVSVYNERIFDVTKKVHHSE-IRVNG-ELLDAERL 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTNDGG 129 + L +KP G+V +HSD ++ LP + R V ++GRLDI+T G +LL++DG Sbjct: 64 -VILMNKPHGVVCSHSDSG--VLIYSLLPPRWQRRNPKVSTIGRLDIDTTGAILLSDDGA 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQG----ICYGDMQVTLDTQKG 184 L L P ++ ++Y V + D+ + G +++ G + M+V Sbjct: 121 LNHKLTSPKSEVTKIYEVTLAQALRGDEAEIFASGELLLNGEKKPLLPAKMEVI------ 174 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V V + EG+ ++K++F +V L R S+G F + L RE+S Sbjct: 175 GPIHVRVEICEGRYHQVKRMFASVGNRVTALHRASFGDFSVEDLKPSEFREIS 227 >gi|300717592|ref|YP_003742395.1| ribosomal small subunit pseudouridine synthase A [Erwinia billingiae Eb661] gi|299063428|emb|CAX60548.1| Ribosomal small subunit pseudouridine synthase A [Erwinia billingiae Eb661] Length = 234 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 50/192 (26%), Positives = 92/192 (47%), Gaps = 4/192 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR R + +V V+G ++ + A + + +E DG PL R Sbjct: 2 RLDKFLSQQLEISRAIALRELRAHKVTVDGEVVRQGAFKLKPENQVEYDGNPLHLQFGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V + DPD + + F P+ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLEEPTAY-KLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + Y TL+ S V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPLADDTAAQFTAGVQLHNEKYLTKPATLEVV--SECQVRLTI 178 Query: 194 REGKNREIKKVF 205 EG+ ++K++F Sbjct: 179 SEGRYHQVKRMF 190 >gi|152971155|ref|YP_001336264.1| 16S rRNA pseudouridylate synthase A [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|238895743|ref|YP_002920479.1| 16S rRNA pseudouridylate synthase A [Klebsiella pneumoniae NTUH-K2044] gi|262040199|ref|ZP_06013451.1| ribosomal small subunit pseudouridine synthase A [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|150956004|gb|ABR78034.1| 16S pseudouridylate 516 synthase [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|238548061|dbj|BAH64412.1| 16S pseudouridylate 516 synthase [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] gi|259042436|gb|EEW43455.1| ribosomal small subunit pseudouridine synthase A [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] Length = 239 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 56/216 (25%), Positives = 98/216 (45%), Gaps = 2/216 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ A+ + +E DG L + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGSRVTVDGDIVKDASFKLQPEHEVEYDGNTLTQQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTILYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + + L KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVALESPLAEGTAELFAKGVQLHN--EKDLTKPALLEVITPTEVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EG+ ++K++F V L R G L LA Sbjct: 180 EGRYHQVKRMFAAVGNHVVGLHRERIGDILLDESLA 215 >gi|189350818|ref|YP_001946446.1| ribosomal large subunit pseudouridine synthase F [Burkholderia multivorans ATCC 17616] gi|189334840|dbj|BAG43910.1| ribosomal large subunit pseudouridine synthase F [Burkholderia multivorans ATCC 17616] Length = 612 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 73/248 (29%), Positives = 116/248 (46%), Gaps = 30/248 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 365 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDERAQAAQAAQV 424 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDINT 118 L HKP+G V+ ++ DG D P FS R ++ GRLDI++ Sbjct: 425 TILLHKPVGYVSGQAE-DGYEPASVLITRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 483 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQ---VDQ----DKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y RVRF + +DQ ++L L+ G+ + G Sbjct: 484 TGLLVLTQNGRIAKQLIGEQSDVDKEYLVRVRFGDRLTDIDQHFPAERLAQLRHGLELDG 543 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ Q G + LREG+ R+I+++ E +V L R+ G LG L Sbjct: 544 VALKPAMVSW--QNGEQ--LRFVLREGRKRQIRRMCELVGLEVIGLKRVRMGRVTLGALP 599 Query: 230 AGSTREVS 237 G R +S Sbjct: 600 QGQWRYLS 607 >gi|167570375|ref|ZP_02363249.1| pseudouridine synthase family protein [Burkholderia oklahomensis C6786] Length = 414 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 117/246 (47%), Gaps = 32/246 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 167 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSN-ARAAQAAQ 225 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 226 VTILLHKPVGYVSGQAE-DGYAPAVTLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 284 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFH---GQVDQ----DKLNLLKKGIVIQ 168 + GLL+LT +G +A+ L + + Y RVRF +DQ + L L+ G+ + Sbjct: 285 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERMADIDQHFPAESLAKLRHGLELD 344 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G V+ Q G + LREGK R+I+++ E +V L R+ G LG L Sbjct: 345 GAPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGAL 400 Query: 229 LAGSTR 234 G R Sbjct: 401 PQGEWR 406 >gi|260424785|ref|ZP_05733291.2| ribosomal small subunit pseudouridine synthase A [Dialister invisus DSM 15470] gi|260403192|gb|EEW96739.1| ribosomal small subunit pseudouridine synthase A [Dialister invisus DSM 15470] Length = 277 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 71/248 (28%), Positives = 111/248 (44%), Gaps = 27/248 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K ++ + +R E++R I + V+VNG + V D I G P+ R Sbjct: 19 RLDKFLSDMNMGTRTELKRDIRKGAVQVNGEKITDPGFMVNENDEIIFAGEPVPYF-RYE 77 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G++T D + TV D + +S VGRLD +T GLLL+TNDGG Sbjct: 78 YYMLNKPAGVITATEDR-YQKTVLDFFGERRRKDLSPVGRLDKDTVGLLLVTNDGGFHHR 136 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-----------YGDMQVTLDTQ 182 L P + Y R G+VD+ +KGI + I Y + + D Sbjct: 137 LLSPKKHIDKEYYARIDGRVDEADREKFEKGIYVDEIFTALPAKLMIDGYRENALESDFM 196 Query: 183 KGSN------------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLL 229 +N + + V ++EGK +IK++F +V L RI G L TL Sbjct: 197 DLANSRAPKSALENGVSEIRVVVQEGKFHQIKRMFHALGKEVIYLKRIRIGSVVLDPTLE 256 Query: 230 AGSTREVS 237 G+ R ++ Sbjct: 257 EGTYRRLT 264 >gi|170078980|ref|YP_001735619.1| RNA pseudouridine synthase [Synechococcus sp. PCC 7002] gi|169886649|gb|ACB00363.1| probable RNA pseudouridine synthase [Synechococcus sp. PCC 7002] Length = 223 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 51/164 (31%), Positives = 79/164 (48%), Gaps = 21/164 (12%) Query: 77 LYHKPIGLVTTHSD--PDG--RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L HKP ++ +D P G R T+ D +P + SVGRLD+++EGLLLLTND L Sbjct: 7 LLHKPYNVLCQFTDNSPQGSQRQTLKDFVP--VPDIYSVGRLDLDSEGLLLLTNDAPLKH 64 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS------- 185 L P R Y V+ D L L++G+++QG L T + + Sbjct: 65 YLCEPKFAHSRTYWVQVENIPDGQALEQLRQGVMVQGKKTRPAIANLLTPEPTVPAREPP 124 Query: 186 --------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 AW+ + L EG+NR+++++ RL+R++ G Sbjct: 125 IRFRKNVPTAWLELTLTEGRNRQVRRMTAAVGHPTLRLMRVAIG 168 >gi|157377068|ref|YP_001475668.1| pseudouridine synthase [Shewanella sediminis HAW-EB3] gi|157319442|gb|ABV38540.1| pseudouridine synthase [Shewanella sediminis HAW-EB3] Length = 261 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 63/232 (27%), Positives = 105/232 (45%), Gaps = 16/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG--------ILLERAAVNVMSTDHIEVDGVP 66 R++K +A G+ SRR R I + + G + L + ++ + + DG+ Sbjct: 24 RLAKYLALTGLCSRRAATRYIRDGLIMIEGRQANHIDTVTLIESPDGLICKELLLFDGMA 83 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + E + + +K +G PD ++ LP+ R+ VGRLD ++ GLLLLTN Sbjct: 84 VEGIEPKQYRMLNKCVG-TDCRLLPDDSDSLLHLLPA-SPRLYPVGRLDKDSRGLLLLTN 141 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KGS 185 DG L + L P + YRVR + L + QG+ Y D+ T + S Sbjct: 142 DGELTQHLMHPDFGHTKTYRVRVDRPYGDEFLQKMA-----QGVSYRDVTTLPCTMTRLS 196 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ + +KV L R+ L L G RE++ Sbjct: 197 EDQFEIVLTQGLNRQIRRMSQALGFKVIDLKRVKIQTLMLEDLNEGEMRELT 248 >gi|196233257|ref|ZP_03132103.1| pseudouridine synthase [Chthoniobacter flavus Ellin428] gi|196222728|gb|EDY17252.1| pseudouridine synthase [Chthoniobacter flavus Ellin428] Length = 188 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 54/177 (30%), Positives = 85/177 (48%), Gaps = 22/177 (12%) Query: 78 YHKPIGLVTTHSDPDG---RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +HKP G+++ + PDG R + P V +GRLD +EGLLLL+++ L L Sbjct: 5 FHKPYGVLSQFT-PDGSRHRPLAEFDFPK---GVYPLGRLDAESEGLLLLSDEAALNARL 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG--------- 184 P+ R Y + ++ L L++G+VI G +V LD Q Sbjct: 61 LHPTRGHYRTYWAQVERVPTREALTQLERGVVIGGRQTLPCRVWLLDPQPAVSPRVPPIR 120 Query: 185 -----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+ + L EGKN +++++ RL+R+ G F+LG+L AGS RE+ Sbjct: 121 FRKNVPETWIALELVEGKNHQVRRMTAAVGHPTLRLVRVKIGKFELGSLAAGSWREL 177 >gi|89069156|ref|ZP_01156529.1| RNA pseudouridine synthase family protein [Oceanicola granulosus HTCC2516] gi|89045329|gb|EAR51395.1| RNA pseudouridine synthase family protein [Oceanicola granulosus HTCC2516] Length = 180 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 50/183 (27%), Positives = 93/183 (50%), Gaps = 23/183 (12%) Query: 73 TRLWLYHKPIGLVTTHSD---PDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+ L++KP G+++ +D P R T+ + ++P+++ GRLD ++EGLL+LT+D Sbjct: 2 ARVILFNKPFGVLSQFTDTRSPTERPTLSRYVDVPAVYP----AGRLDRDSEGLLVLTDD 57 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-------------VIQGICYGD 174 G L + P + +VY + G D D L L++G+ +I+ + Sbjct: 58 GRLQARIASPKARTEKVYLAQVEGDPDDDALAPLRRGLELKDGPTRPAVARLIEPPALWE 117 Query: 175 MQVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + +K + WV V + EG+NR+++++ + V RL+R G + L L G+ Sbjct: 118 RDPPVRFRKSVPDRWVEVTITEGRNRQVRRMCAAIGFPVLRLVRWRVGDWTLEGLAPGAW 177 Query: 234 REV 236 R+ Sbjct: 178 RDA 180 >gi|260768154|ref|ZP_05877088.1| ribosomal large subunit pseudouridine synthase E [Vibrio furnissii CIP 102972] gi|260616184|gb|EEX41369.1| ribosomal large subunit pseudouridine synthase E [Vibrio furnissii CIP 102972] Length = 183 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 47/174 (27%), Positives = 84/174 (48%), Gaps = 16/174 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP ++ +D DGR T+ D +P V + GRLD ++EGL++LTNDG L L Sbjct: 10 IFNKPFDTLSQFTDGDGRKTLADFIP--VKEVYAAGRLDRDSEGLMVLTNDGILQAKLTQ 67 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P ++ + Y V+ G + L+ L+ G+ ++ V + + Sbjct: 68 PQSKSPKTYWVQVEGAPQEADLDKLRNGVELKDGPTLPAIVEIMPEPEVWERHPPVRFRA 127 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+ + + EG+NR+++++ + RLIR S G LG L G + + Sbjct: 128 AIPTTWLAITIIEGRNRQVRRMTANIGFPTLRLIRYSMGDIVLGDLQPGEWKHI 181 >gi|330015788|ref|ZP_08308280.1| 16S pseudouridylate 516 synthase [Klebsiella sp. MS 92-3] gi|328530489|gb|EGF57362.1| 16S pseudouridylate 516 synthase [Klebsiella sp. MS 92-3] Length = 239 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 58/225 (25%), Positives = 103/225 (45%), Gaps = 3/225 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ A+ + +E DG L + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGSRVTVDGDIVKDASFKLQPEHEVEYDGNTLTQQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTILYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + + L KG+ + D+ + + V + + Sbjct: 122 TSPRHHCEKTYLVALENPLAEGTAELFAKGVQLHN--EKDLTKPALLEVITPTEVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK 238 EG+ ++K++F V L R G L LA G R +++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVGLHRERIGDILLDESLAPGEYRPLTE 224 >gi|209695469|ref|YP_002263398.1| ribosomal small subunit pseudouridine synthase A (16S pseudouridine 516 synthase) [Aliivibrio salmonicida LFI1238] gi|208009421|emb|CAQ79703.1| ribosomal small subunit pseudouridine synthase A (16S pseudouridine 516 synthase) [Aliivibrio salmonicida LFI1238] Length = 234 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 58/213 (27%), Positives = 96/213 (45%), Gaps = 5/213 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A+R E R++ V VNG+ + +V V +E DG L K R Sbjct: 2 RLDKFLCETTGATRSEATRIVKSGTVTVNGVKTKVTSVKVTDDSTVEWDGREL-KFHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRS--TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + KP G V +H D S T+ D + ++ GRLD++T GL+L+T+DG + Sbjct: 61 YIMLFKPDGYVCSHEDSTHPSALTLLDEVN--LEKLHFAGRLDVDTTGLVLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + L +GI ++ M T++ + + Sbjct: 119 KITSPKRKCPKTYRVWLDEPIGAYYAEQLTEGIQLKSETGLIMPATMEVVNEEEHELLLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++EGK ++K++F KV L R G L Sbjct: 179 IQEGKYHQVKRMFAALGNKVEGLHRSQIGGLGL 211 >gi|325285743|ref|YP_004261533.1| RNA-binding S4 domain-containing protein [Cellulophaga lytica DSM 7489] gi|324321197|gb|ADY28662.1| RNA-binding S4 domain protein [Cellulophaga lytica DSM 7489] Length = 276 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 63/233 (27%), Positives = 104/233 (44%), Gaps = 17/233 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A +G+ SRRE + IA V VNG ++ V D ++ DG L +R Sbjct: 44 RLNKYVANSGVCSRREADVFIAAGSVTVNGKVVSEMGYKVKLDDVVKFDGRHLNPEKREY 103 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP TT + G+ V + S + ++ V ++ + GLLL TND L R Sbjct: 104 VLL-NKPKDFSTTVRNEHGKRNVAGLISSASKATLLPVDKMAKASTGLLLFTNDKELTRR 162 Query: 134 LELPSTQWLRVYRVRFHGQVD-------QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 L P ++Y V + QD L + +K + + I Y D Sbjct: 163 LLNPKNGLRKIYHVELSKALSPADLKKIQDGLAIDEKVVNVHDISYVD--------NAPK 214 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + L ++ + K+FE ++V +L R+ YG L G R ++K+ Sbjct: 215 NQVGIELFSSRSNIVTKIFEHLGYEVAKLDRVVYGGLTKKDLPRGHWRYLTKQ 267 >gi|161524427|ref|YP_001579439.1| RNA-binding S4 domain-containing protein [Burkholderia multivorans ATCC 17616] gi|160341856|gb|ABX14942.1| RNA-binding S4 domain protein [Burkholderia multivorans ATCC 17616] Length = 249 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 74/248 (29%), Positives = 118/248 (47%), Gaps = 30/248 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 2 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDERAQAAQAAQV 61 Query: 75 LWLYHKPIGLVTTHSDPDGR--STVF---------DNLPSIFS----RVIS-VGRLDINT 118 L HKP+G V+ ++ DG ++V D P FS R ++ GRLDI++ Sbjct: 62 TILLHKPVGYVSGQAE-DGYEPASVLITRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 120 Query: 119 EGLLLLTNDGGLARVL--ELPSTQWLRVYRVRFHGQ---VDQ----DKLNLLKKGIVIQG 169 GLL+LT +G +A+ L E + RVRF + +DQ ++L L+ G+ + G Sbjct: 121 TGLLVLTQNGRIAKQLIGEQSDVDKEYLVRVRFGDRLTDIDQHFPAERLAQLRHGLELDG 180 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ Q G + LREG+ R+I+++ E +V L R+ G LG L Sbjct: 181 VALKPAMVSW--QNGEQ--LRFVLREGRKRQIRRMCELVGLEVIGLKRVRMGRVTLGALP 236 Query: 230 AGSTREVS 237 G R +S Sbjct: 237 QGQWRYLS 244 >gi|253688258|ref|YP_003017448.1| pseudouridine synthase [Pectobacterium carotovorum subsp. carotovorum PC1] gi|251754836|gb|ACT12912.1| pseudouridine synthase [Pectobacterium carotovorum subsp. carotovorum PC1] Length = 218 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 49/179 (27%), Positives = 86/179 (48%), Gaps = 17/179 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P S + + GRLD ++EGL++LTNDG L Sbjct: 40 RIVLFNKPFDVLPQFTDEAGRRTLKDYIP--VSGIYAAGRLDRDSEGLMILTNDGKLQAR 97 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKG--------------IVIQGICYGDMQVTL 179 L P+ + ++Y V+ G D L + G IV + + Sbjct: 98 LTQPTQKTAKIYYVQVEGIPDDAALTRFRTGLDLNDGKTLPAGAEIVPEPSWLWPRNPPI 157 Query: 180 DTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +K + W+ + L EG+NR+++++ + RLIR + LL G +E++ Sbjct: 158 RERKSIPDCWLKITLYEGRNRQVRRMTANIGYPTLRLIRYGMANQTVENLLPGEWKEIA 216 >gi|152992340|ref|YP_001358061.1| ribosomal small subunit pseudouridine synthase A [Sulfurovum sp. NBC37-1] gi|151424201|dbj|BAF71704.1| ribosomal small subunit pseudouridine synthase A [Sulfurovum sp. NBC37-1] Length = 188 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 52/161 (32%), Positives = 80/161 (49%), Gaps = 10/161 (6%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L + +KP G V T SD GR TV+D LP + + +GRLD+ ++GLLL T DG + Sbjct: 6 KLLVLNKPKGYVVTRSDELGRKTVYDLLPDWAFHDGWMPIGRLDLESKGLLLFTTDGKIG 65 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P ++VY + G V + + K+G+ + + V G+ + + Sbjct: 66 DALTRPGNC-IKVYEIWVRGHVTDEHIAEAKRGVESKHGLLKALVVEKLGTGGAKTKLKI 124 Query: 192 GLREGKNREIKKVFEFFN-------WKVNRLIRISYGPFQL 225 + EGKNR I+++F KV L RIS G F+L Sbjct: 125 VIDEGKNRHIRRLFGALKDPKFGTPLKVLELKRISIGSFEL 165 >gi|217974432|ref|YP_002359183.1| pseudouridine synthase [Shewanella baltica OS223] gi|217499567|gb|ACK47760.1| pseudouridine synthase [Shewanella baltica OS223] Length = 235 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 65/215 (30%), Positives = 105/215 (48%), Gaps = 12/215 (5%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTT 87 R+ V ++ RV V+G++++ V HI++D L+ + L HKPIG+V+ Sbjct: 20 RKAVRELLLSGRVCVDGLIVKDMDRQVDEFSHIQLDEQILQANAPVYVML-HKPIGVVSA 78 Query: 88 HSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 D + TV D L + + GRLD+N+ GLLLLTND + L P+ + +VYR Sbjct: 79 TKDIQHK-TVIDLLDCEARDELHIAGRLDLNSSGLLLLTNDSRWSDALMSPTHKVDKVYR 137 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK---GSNAWVTVGLREGKNREIKK 203 V + ++ + +G+ +G +T K ++ V L EGK +IK+ Sbjct: 138 VTLANPITEEYIAAFAEGMY-----FGFEDITTQPAKLVILADNVAEVTLHEGKYHQIKR 192 Query: 204 VFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 +F F V L R+S G L LA G +R ++ Sbjct: 193 MFGRFRNPVVGLHRLSIGDIVLDEKLAPGESRALT 227 >gi|56808584|ref|ZP_00366315.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Streptococcus pyogenes M49 591] Length = 109 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 38/90 (42%), Positives = 56/90 (62%), Gaps = 1/90 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G P+ E+ Sbjct: 2 RINKYIAHAGIASRRKAEELIKQGLVTLNGQVIMDLATTVKSGDVVEIEGSPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 +L +KP G +++ SD GR TV D LP + Sbjct: 61 YYLLNKPRGAISSVSDDKGRKTVLDLLPQV 90 >gi|171060852|ref|YP_001793201.1| pseudouridine synthase [Leptothrix cholodnii SP-6] gi|170778297|gb|ACB36436.1| pseudouridine synthase [Leptothrix cholodnii SP-6] Length = 241 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 59/228 (25%), Positives = 102/228 (44%), Gaps = 26/228 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++S+V+ G +RRE E +I V V G+++E + V +G+ +T Sbjct: 2 KLSQVLFSQGFGARRECEGLICAGLVSVGGVVIEEPSHEVAP------EGLLFTVEGQT- 54 Query: 75 LWLYH--------KPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLL 124 W YH KP G + P ++++ LP+ F R + +VGRLD +T GLLL Sbjct: 55 -WAYHAKALIVMNKPAGFECS-KKPRHHPSIYNLLPAQFKRRDMQTVGRLDEDTTGLLLF 112 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-------IQGICYGDMQV 177 T+DG L P ++Y VD+ ++ L G+V +Q + Sbjct: 113 TDDGNLIHRWTSPKHHVPKIYEAGCKHPVDEAQVARLLAGVVLHDDPLPVQALAAEITGA 172 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G+ + + L EGK ++K++ + +V L R +G ++L Sbjct: 173 FEHPTHGTLHGLRLTLAEGKYHQVKRMLAAVSNRVETLHRSGFGAYRL 220 >gi|117617574|ref|YP_855956.1| ribosomal large subunit pseudouridine synthase E [Aeromonas hydrophila subsp. hydrophila ATCC 7966] gi|117558981|gb|ABK35929.1| ribosomal large subunit pseudouridine synthase E [Aeromonas hydrophila subsp. hydrophila ATCC 7966] Length = 313 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 51/184 (27%), Positives = 86/184 (46%), Gaps = 20/184 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L +KP ++ +D GR T+ D + P I++ GRLD ++EGLLLLTNDG L Sbjct: 58 KLLLLNKPYMVLCQFTDEAGRETLKDYITEPGIYA----AGRLDRDSEGLLLLTNDGKLQ 113 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG--------------IVIQGICYGDMQV 177 L P + + Y V+ G ++KL L G I+ + + Sbjct: 114 ARLTQPGEKTPKTYWVQVEGVPSEEKLAALCAGVELNDGMTLPAGARIMEEPAVWPRNPP 173 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + ++ W+ + + EG+NR+++++ RLIR + G + L L G +R + Sbjct: 174 IRERKEIPTCWLEIKIVEGRNRQVRRMTAHIGHPTLRLIRYAIGDWSLDGLAPGESRALP 233 Query: 238 KKIL 241 L Sbjct: 234 APEL 237 >gi|300714626|ref|YP_003739429.1| Pseudouridine synthase [Erwinia billingiae Eb661] gi|299060462|emb|CAX57569.1| Pseudouridine synthase [Erwinia billingiae Eb661] Length = 292 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 66/233 (28%), Positives = 113/233 (48%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I +GI SRR+ +R I Q V +NG +RAAV V + D ++V+G + R Sbjct: 8 RLNKYIGESGICSRRDADRYIEQGNVFING---KRAAVGDQVYAGDVVKVNGQLIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP+G+++T + + + V N + RV +GRLD ++GL+ LTN G L Sbjct: 65 DDLVLIALNKPVGIISTTEEGERDNIV--NFVNHSKRVFPIGRLDKESQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + L G+ + G +V + + Sbjct: 123 VNKILRAGNDHEKEYVVTVNKLVTDEFIAGLGAGVPMLGTVTKKCKVKKE----APFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ + F ++V +L R L L G RE + L E Sbjct: 179 ITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNVSLKGLPIGEWREFTDDELIE 231 >gi|308805586|ref|XP_003080105.1| unnamed protein product [Ostreococcus tauri] gi|116058564|emb|CAL53753.1| unnamed protein product [Ostreococcus tauri] Length = 405 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 65/231 (28%), Positives = 113/231 (48%), Gaps = 23/231 (9%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKA---- 70 ++K +A G+ASRR + +I RVKVNG + V ++TD + VDG + Sbjct: 145 LNKALASLGVASRRGADDLIFGGRVKVNGTTITAPQTKVNLNTDVVMVDGKVVEGGVSFV 204 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRS--TVFD-----------NLPS-IFSRVISVGRLD 115 E T ++ +KP G V + + P S TV D P + R+ +VGRLD Sbjct: 205 KEHT-YFMLNKPKGFVCS-ARPGSESGKTVLDLFEQWREEFRSEYPGKLPPRLFTVGRLD 262 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 + T GLLL+T DG ++ + PS++ ++ Y V + + + ++ + KG + G + Sbjct: 263 VATTGLLLVTTDGDWSQRVSHPSSEVVKQYVVTANAKPTRAQIVAMSKGTEVDGAHVVPV 322 Query: 176 QVTL-DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +V + G + V + +G+NRE++ + E +V L R G ++ Sbjct: 323 RVEVAGADGGPKNRIIVEVVDGRNREVRVLCESAGVEVKNLKRTRVGGLRM 373 >gi|332366092|gb|EGJ43848.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1059] Length = 241 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 73/237 (30%), Positives = 120/237 (50%), Gaps = 12/237 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A I SR+ +++ + Q+++ V+G + + NV I G + Sbjct: 2 RLEQLLAANHI-SRKNMKQSLLQKQILVDGKPAYKLSQNVDTGLQQITFQGKHVSGPAH- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP G VT + D + + TV D L + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANRDAE-KLTVLDLLDKEVEKENLYSIGRLDRDTEGLLLITDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V +G + K ++GI + G Q+++ + S + T Sbjct: 119 FQLLHPQYHVEKTYYVEVNGPLTSQKKISFQEGIRFLDGTVCQPAQLSILSTSSSLSRTT 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLG 246 V + EGK +IKK+F KV L RI +G F L LA G R ++K E+LG Sbjct: 179 VRISEGKFHQIKKMFLAVGVKVTYLKRIQFGDFTLDPDLAKGDYRALNK----EELG 231 >gi|75764639|ref|ZP_00744075.1| Ribosomal small subunit pseudouridine synthase A [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|74487875|gb|EAO51655.1| Ribosomal small subunit pseudouridine synthase A [Bacillus thuringiensis serovar israelensis ATCC 35646] Length = 188 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 56/167 (33%), Positives = 82/167 (49%), Gaps = 8/167 (4%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP G+++ D D TV D L +IF VGRLDI+TEG LL+TNDG L+ Sbjct: 9 LMMHKPQGVISATED-DNHETVIDLLELEDAIFDP-FPVGRLDIDTEGFLLITNDGKLSH 66 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTV 191 L P + Y G V ++ + KG+++ Y TL K + + + + Sbjct: 67 QLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDD-GYETKPGTLTILKSDDISEIEL 125 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 + EGK ++K++FE KV L R GP L L G RE++ Sbjct: 126 VITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELT 172 >gi|59711487|ref|YP_204263.1| 16S rRNA pseudouridylate 516 synthase [Vibrio fischeri ES114] gi|197335138|ref|YP_002155642.1| ribosomal small subunit pseudouridine synthase A [Vibrio fischeri MJ11] gi|59479588|gb|AAW85375.1| 16S rRNA pseudouridylate 516 synthase [Vibrio fischeri ES114] gi|197316628|gb|ACH66075.1| ribosomal small subunit pseudouridine synthase A [Vibrio fischeri MJ11] Length = 234 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 61/235 (25%), Positives = 106/235 (45%), Gaps = 6/235 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A+R+E R+I V V+G+ + +V V +E DG L K R Sbjct: 2 RLDKFLCETLGATRKEATRIIKSGTVTVDGVKTKVTSVKVTDDSTVEWDGREL-KFHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRS--TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + KP G V +H D S ++ D + ++ GRLD++T GL+L+T+DG + Sbjct: 61 YIMLFKPDGYVCSHEDSTHPSALSLLDEVN--LEKLHFAGRLDVDTTGLVLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D L+ GI ++ M ++ + + Sbjct: 119 KITSPKRKCAKTYRVWLADPIGADYAEKLEAGIQLKSEKDLTMPAVMEIVDEEEHELLLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + EGK ++K++F KV L R G L +L G R ++++ + G Sbjct: 179 IHEGKYHQVKRMFAALGNKVEGLHRAQIGGLGLDYSLEPGEYRYLTEEEVEAVFG 233 >gi|90415213|ref|ZP_01223147.1| ribosomal small subunit pseudouridine synthase A [marine gamma proteobacterium HTCC2207] gi|90332536|gb|EAS47706.1| ribosomal small subunit pseudouridine synthase A [marine gamma proteobacterium HTCC2207] Length = 235 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 110/235 (46%), Gaps = 6/235 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I+ A SR EV+R I V ++ A V + I ++G + AE R Sbjct: 3 RLDKYISNATDLSRVEVKRYIKYGDVTIDDEKAINGAQKVSGDETICIEGSAISFAEN-R 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ +KP G+V+ D + ST D + S + + GRLDI+T GLLL+T+DG Sbjct: 62 YFMLNKPAGVVSATKDSN-NSTALDLIFEHRSDELQIAGRLDIDTTGLLLITDDGQWNHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + ++YRV + D L G+ ++G + + T+ ++ + V + + Sbjct: 121 LTSPRSDCQKIYRVTLGIPITPDYAEKLANGVWLKGEKHPCLPATM--EQIDDETVLLSI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGP 247 EGK ++K++F V L R G L +L G R ++ + + P Sbjct: 179 AEGKYHQVKRMFAALGNHVEALHRTQVGGIILDESLEPGDYRALTDAEVASIMAP 233 >gi|311278834|ref|YP_003941065.1| pseudouridine synthase [Enterobacter cloacae SCF1] gi|308748029|gb|ADO47781.1| pseudouridine synthase [Enterobacter cloacae SCF1] Length = 235 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 54/211 (25%), Positives = 93/211 (44%), Gaps = 2/211 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ A + + DG L + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRASRVTVDGDIVKDTAFKLQPEHDVAYDGNSLVQQTGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + YRV + +D GI + L+ + +T+ Sbjct: 122 TSPRHHCEKTYRVTLESPLAEDTAEQFAHGIQLHNEKALTKPAQLEVITATEVRLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EG+ ++K++F V L R G L Sbjct: 180 EGRYHQVKRMFAAVGNHVVGLHRERIGAIAL 210 >gi|254507010|ref|ZP_05119148.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus 16] gi|219550005|gb|EED26992.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus 16] Length = 233 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 58/227 (25%), Positives = 106/227 (46%), Gaps = 4/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A A+R+E ++I V VN ++ + A V +E G ++K Sbjct: 2 RLDKYLCDALGATRKEATKIIKSGDVTVNDVMQKSGAFKVTDACVVEWQGREIQKPGPRY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ KP G V +H D T F L + + GRLD++T GL+L+T+DG + Sbjct: 62 IMLF-KPDGFVCSHEDG-FNQTAFALLDEVKMEDLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + D + L +G+ ++ + T++ + + + Sbjct: 120 ITSPKHKCEKTYRVWLVDPIGDDYADKLAQGVELRNEKEPTLPATMEVVNHDENELLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EGK ++K++F KV L R G +L +L G R ++++ Sbjct: 180 TEGKYHQVKRMFAALGNKVEHLHRERIGAIELDYSLEPGEYRYLTEE 226 >gi|325690206|gb|EGD32210.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK115] Length = 241 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 123/239 (51%), Gaps = 11/239 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A A SR+++++ Q+++ V+G + + NV I G + Sbjct: 2 RLDQLLA-ANHISRKKMKQSHLQKQILVDGKPAYKLSQNVDTGLQQITFQGKHVSGPAH- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP G VT + D + + TV D L + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANRDAE-KLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V +G + + + ++GI + G Q+++ + S + + Sbjct: 119 FQLLHPQYHVEKTYYVEVNGPLTPNDSSSFQEGIRFLDGTVCQPAQLSILSTSSSLSRAS 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK---ILREQL 245 V + EGK +IKK+F KV L RI +G F L LA G R +++K I++E L Sbjct: 179 VRISEGKFHQIKKMFLAVGVKVTYLKRIQFGDFTLDPDLAKGDYRALNQKELEIIKEYL 237 >gi|319761272|ref|YP_004125209.1| RNA-binding s4 domain protein [Alicycliphilus denitrificans BC] gi|330823139|ref|YP_004386442.1| pseudouridine synthase Rsu [Alicycliphilus denitrificans K601] gi|317115833|gb|ADU98321.1| RNA-binding S4 domain protein [Alicycliphilus denitrificans BC] gi|329308511|gb|AEB82926.1| pseudouridine synthase Rsu [Alicycliphilus denitrificans K601] Length = 306 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 75/245 (30%), Positives = 110/245 (44%), Gaps = 25/245 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ SRRE + IAQ V+VNG + + V D IEVD + + Sbjct: 60 RLNKRMADLGLCSRREADDWIAQGWVRVNG-QVAVMGLQVGPQDRIEVDRAAQGRQSQQV 118 Query: 75 LWLYHKPIG---------------LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 L HKP+G LV S G ++ P+ + GRLDI++ Sbjct: 119 TILLHKPMGYVSGQAEDGHTPAVALVNARSHWQGDASRMRFAPAQLKGLAPCGRLDIDSV 178 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRF-HGQVDQDKLNLLK--KGIVIQGICYGDMQ 176 GLL+LT DG +AR L + + Y VR +G+ QD + + ++ D Q Sbjct: 179 GLLVLTQDGRVARQLIGEDSAVDKEYLVRVQYGERTQDVRAVFPADRLALLCHGLLLDGQ 238 Query: 177 ----VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 +D Q + LREGK R+I+++ E KV L RI G LG L G Sbjct: 239 PLKPAQVDWQNPEQ--LRFVLREGKKRQIRRMCELVGLKVVGLKRIRIGRVLLGNLPVGQ 296 Query: 233 TREVS 237 R ++ Sbjct: 297 WRYLA 301 >gi|241766432|ref|ZP_04764306.1| pseudouridine synthase [Acidovorax delafieldii 2AN] gi|241363374|gb|EER58885.1| pseudouridine synthase [Acidovorax delafieldii 2AN] Length = 237 Score = 71.6 bits (174), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 76/249 (30%), Positives = 111/249 (44%), Gaps = 40/249 (16%) Query: 25 IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGL 84 + SRRE + IAQ VKVNG + + V +TD IEVD E+ L HKP+G Sbjct: 1 MCSRREADDWIAQGWVKVNGQVAP-MGLQVHATDRIEVDKKAQGFQEQRVTILLHKPMGY 59 Query: 85 VTTHSDPDGRSTVFDNL----------------PSIFSRVISVGRLDINTEGLLLLTNDG 128 V+ ++ DG + + P + GRLDI++ GLL+LT DG Sbjct: 60 VSGQAE-DGHTPAVALINPRTHWREDPSRNRFSPPQLRGLAPAGRLDIDSVGLLVLTQDG 118 Query: 129 GLARVLELPSTQWLRVYRVRF-HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 +AR + + + Y VR +G V + + + + +C+G ++LD Q A Sbjct: 119 RVARQIIGEDSSMDKEYLVRVQYGDVATNVQAVFPAQQLAR-LCHG---LSLDGQALKPA 174 Query: 188 ---W-----VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 W + L EGK R+I+++ E +V L RI G LG L G R Sbjct: 175 RVEWQNPEQLRFVLTEGKKRQIRRMCELVGLRVVGLKRIRIGRVTLGNLPVGQWR----- 229 Query: 240 ILREQLGPH 248 LGPH Sbjct: 230 ----YLGPH 234 >gi|171463163|ref|YP_001797276.1| pseudouridine synthase [Polynucleobacter necessarius subsp. necessarius STIR1] gi|171192701|gb|ACB43662.1| pseudouridine synthase [Polynucleobacter necessarius subsp. necessarius STIR1] Length = 241 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 58/228 (25%), Positives = 105/228 (46%), Gaps = 21/228 (9%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLER-----AAVNVMSTDHIEVDGVPL 67 P + K++ G +RR ++ + VKVNG+L E A N+M + V+G Sbjct: 4 PISLEKILFSQGFGTRRYCSDLVYAELVKVNGVLAEDPEERIATENLM----LNVEGKDW 59 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLT 125 E+ L ++KP +H +V+ LPS F + VGRLD +T GLLL++ Sbjct: 60 EYHEKAYL-AFNKPANYECSHKTIH-HPSVYSLLPSPFVERGLQCVGRLDYDTTGLLLIS 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQ 182 +DG + P +VYR+ + Q +++ L G+V+ C+ + Sbjct: 118 DDGQFIHKMTTPKKNIGKVYRITTSEPITQKQIDHLLNGVVLDDDPKPCFATA-----CK 172 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + S+ + + + +G+ ++K++ V +L R G +Q+ LA Sbjct: 173 QVSDHVLAMTIVDGRYHQVKRMMAAVGNHVTQLHRTEIGAYQMPVDLA 220 >gi|319952524|ref|YP_004163791.1| ribosomal large subunit pseudouridine synthase b [Cellulophaga algicola DSM 14237] gi|319421184|gb|ADV48293.1| ribosomal large subunit pseudouridine synthase B [Cellulophaga algicola DSM 14237] Length = 280 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 58/215 (26%), Positives = 101/215 (46%), Gaps = 17/215 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ +A +G+ SRRE + IA V VNG + V +D + DG L ++ Sbjct: 48 RLNRYVANSGVCSRREADIYIAAGSVTVNGKPVIEMGYKVQLSDEVRFDGRLLNPIKKEY 107 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP T+ D G T + + ++++ VG++D ++ GLLL TNDG L Sbjct: 108 VVL-NKPKDFATSTRDGAGNRTAMGLVSNASKAKLLPVGKMDKSSTGLLLFTNDGDLTAR 166 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-------IQGICYGDMQVTLDTQKGSN 186 L P +++ V + L +K+GI IQ I Y ++ TQ G Sbjct: 167 LNSPKNGLRKIFHVELTKPLKSTDLKRIKEGIEIEESVVRIQDISY--IENAPKTQVGVE 224 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + T +N ++++FE ++ V +L + Y Sbjct: 225 IFST------RNNIVRRLFEKLDYDVVKLDLVVYA 253 >gi|269139396|ref|YP_003296097.1| ribosomal large subunit pseudouridine synthase [Edwardsiella tarda EIB202] gi|267985057|gb|ACY84886.1| ribosomal large subunit pseudouridine synthase [Edwardsiella tarda EIB202] gi|304559292|gb|ADM41956.1| Ribosomal large subunit pseudouridine synthase E [Edwardsiella tarda FL6-60] Length = 213 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 51/182 (28%), Positives = 86/182 (47%), Gaps = 17/182 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R A ++ +++KP ++ +D GR+T+ D + + + GRLD ++EGLL+LTND Sbjct: 29 RPAAPRQVVIFNKPFDVLPQFTDEQGRATLKDYI--SLQGIYAAGRLDRDSEGLLVLTND 86 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLN------LLKKGIVIQGICYGDMQVTL-- 179 G L L P + +VY V+ G+ D+ L LK G + + Q Sbjct: 87 GRLQAQLTQPGKRTGKVYYVQVEGEPDEADLRRFCQGLTLKDGPTLPALAERVAQPEWLW 146 Query: 180 -------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ + L EG+NR+++++ + RLIR S G L L G Sbjct: 147 PRNPPIRERKNIPTSWLKITLYEGRNRQVRRMTAHIGYPTLRLIRYSMGSLTLQDLAPGE 206 Query: 233 TR 234 R Sbjct: 207 WR 208 >gi|254429033|ref|ZP_05042740.1| conserved hypothetical protein, putative [Alcanivorax sp. DG881] gi|196195202|gb|EDX90161.1| conserved hypothetical protein, putative [Alcanivorax sp. DG881] Length = 243 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 64/238 (26%), Positives = 118/238 (49%), Gaps = 10/238 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E P R+ +A + +R+E +++I+ V V +A + + + + G + Sbjct: 10 ETVLPMRLDYFLAHSAGLTRKEAKKLISGGAVTVADEAKPKANLQLRPDQVVMLHG-EVV 68 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 + R + HKP+ +V + DP+ R TV D LP++ ++V GRLD +T GL+LLT+D Sbjct: 69 QLPGHRYLMLHKPVDVVCSTDDPEHR-TVLDLLPAVLRTQVHPAGRLDRDTTGLVLLTSD 127 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGS 185 G + L P+ + YRV V + L L++GI+++ G+ TL ++ + Sbjct: 128 GQWSHRLTSPNHACGKCYRVICADPVSDEDLQALREGILLR----GEDSPTLPALAERVN 183 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + + + EG+ ++K++ KV L R G L LA G R ++++ +R Sbjct: 184 THTLRLTITEGRYHQVKRMLAARGNKVVGLHREQIGDIVLDADLAPGEFRALTEEEIR 241 >gi|119470121|ref|ZP_01612887.1| ribosomal large subunit pseudouridine synthase E [Alteromonadales bacterium TW-7] gi|119446542|gb|EAW27816.1| ribosomal large subunit pseudouridine synthase E [Alteromonadales bacterium TW-7] Length = 227 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 47/180 (26%), Positives = 86/180 (47%), Gaps = 16/180 (8%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P A+ ++ L++KP ++ +D R T+ + +P V + GRLD ++EGLLLLT Sbjct: 39 PQIDAKDKKIVLFNKPFDVLCQFTDDADRKTLAEFIP--IKDVYAAGRLDRDSEGLLLLT 96 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------ 179 N G L L P+ + + Y V+ G+ + + L KG+ ++ V + Sbjct: 97 NCGKLQNTLTAPNKKTNKTYWVQVEGEPSTESIQALCKGVELKDGLTLPANVKMIEEPNI 156 Query: 180 --------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + +W+++ + EGKNR+++++ RLIR S G + L + G Sbjct: 157 WQRTPPVRERKSIPTSWLSITINEGKNRQVRRMTAHIGHPTLRLIRYSIGNYTLDDINTG 216 >gi|152980789|ref|YP_001354207.1| pseudouridylate synthase family protein [Janthinobacterium sp. Marseille] gi|151280866|gb|ABR89276.1| pseudouridylate synthase family protein [Janthinobacterium sp. Marseille] Length = 211 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 50/182 (27%), Positives = 85/182 (46%), Gaps = 23/182 (12%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L++KP + S R ++ D ++P+I+ GRLD ++EGLLLL +DG L Sbjct: 27 LILFNKPFQTMCQFSPHPTRKSLADHIDIPNIYP----AGRLDADSEGLLLLNDDGKLQH 82 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV--------------- 177 + P + + Y V+ G D D L L+ + + + +V Sbjct: 83 AISHPDRKHTKTYLVQVEGVPDADALARLRAPLDLGDFVTQECEVKRVAEPDWLWPRNPP 142 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTRE 235 + +W+ + L EGKNR+++++ + RL+RI+ GP L + L G RE Sbjct: 143 IRERANAPTSWLAITLSEGKNRQVRRMTGAVGYPTLRLVRIAIGPVSLQSHPLWPGEWRE 202 Query: 236 VS 237 +S Sbjct: 203 IS 204 >gi|158338459|ref|YP_001519636.1| pseudouridine synthase family 1 protein [Acaryochloris marina MBIC11017] gi|158308700|gb|ABW30317.1| pseudouridine synthase family [Acaryochloris marina MBIC11017] Length = 198 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 55/180 (30%), Positives = 86/180 (47%), Gaps = 23/180 (12%) Query: 77 LYHKPIGLVTTHSDPDGRSTV----FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L++KP G+++ +D S F +P I+ VGRLD ++EGLLLL+N GGL Sbjct: 7 LFYKPYGVLSQFTDRQETSHPTLKEFIPIPDIYP----VGRLDRDSEGLLLLSNHGGLQH 62 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 L P R Y V+ DQ L LK+G+ I+ Q +L ++ Sbjct: 63 QLCNPKFGHPRTYWVQVENIPDQIALQKLKQGVTIRNYRTRPTQASLLSEPPLLPPRTPP 122 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 AW+T+ L EG+NR+++++ + RL+R++ QL L G R +S Sbjct: 123 VRFRKHIPTAWMTMTLYEGRNRQVRRMTAAVGFPTLRLVRVAIAHLQLQDLQPGQWRHLS 182 >gi|330957838|gb|EGH58098.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. maculicola str. ES4326] Length = 230 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 65/226 (28%), Positives = 104/226 (46%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ +R+ V +A VKV+G+ V + D L+ + R Sbjct: 2 RLDRFLSNLPRFNRKNVRLALAGGHVKVDGLTSTDPHHEVREFSCVVFDEEILQAGKPAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G V+ D TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 62 YFMLHKPQGCVSATVDAQ-HPTVIDLLDEPDRHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ +G+ + I Q+TL + + +T Sbjct: 121 LTQPQTRLAKVYYVETEQIIDERYAARFAEGLYFSFENITTQPAQLTLLGPRCARLSIT- 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 EG+ ++K++F F+ KV L R S G L TL G+ R + Sbjct: 180 ---EGRYHQVKRMFGHFDNKVVTLHRESVGELLLDPTLEPGNYRAL 222 >gi|323143095|ref|ZP_08077798.1| putative 16S pseudouridylate 516 synthase [Succinatimonas hippei YIT 12066] gi|322417145|gb|EFY07776.1| putative 16S pseudouridylate 516 synthase [Succinatimonas hippei YIT 12066] Length = 248 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 58/231 (25%), Positives = 112/231 (48%), Gaps = 20/231 (8%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 +V + +R+ K +++ SR+E +I + RV V+G AA+ + I +D Sbjct: 1 MVSDKVQKERLDKCVSKLTGLSRKEASALIKEGRVLVDGQAALEAALKIPVNSIITIDDD 60 Query: 66 PLRKAE---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI------SVGRLDI 116 + E + R+++ +KP +V D + R + S+F + GRLDI Sbjct: 61 EISLYEEGFKKRVYMLNKPSDMVCADRDRNHRI-----VTSLFVEELRPDTLHCAGRLDI 115 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--VIQGICYGD 174 +T GLL++T+DG L + P + ++YR + + ++ KGI + Y Sbjct: 116 DTTGLLIVTDDGELIHEITHPKKEITKLYRAVTDKPIPEKAVSAFLKGIKHPEEKFPYKS 175 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++T+++ +N + V ++EG+ E+K++FE +V L R+ G +L Sbjct: 176 AKLTIES---ANVGL-VEVKEGRFHEVKRLFECVGCEVIELTRLKIGSLEL 222 >gi|325914394|ref|ZP_08176741.1| ribosomal large subunit pseudouridine synthase E [Xanthomonas vesicatoria ATCC 35937] gi|325539402|gb|EGD11051.1| ribosomal large subunit pseudouridine synthase E [Xanthomonas vesicatoria ATCC 35937] Length = 191 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 55/190 (28%), Positives = 89/190 (46%), Gaps = 21/190 (11%) Query: 77 LYHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+++ SD P R+ LP V + GRLD ++EGLLLLT+DG LA Sbjct: 4 LLNKPYGVLSQFSDRSQPPKRTLAEFGLPP---DVYAAGRLDHDSEGLLLLTDDGALAHR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG-------- 184 L P + + Y V+ G+ + +L L+ G+V+ G LD Sbjct: 61 LTDPRHKQPKTYWVQVEGEPQEAQLQALRDGVVLNDGPTRPASVRMLDPAPELWPRTPPV 120 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +AW+ + + EG+NR+++++ RL+R++ G ++L L G R Sbjct: 121 RVRKTVPDAWLELQITEGRNRQVRRMTASVGLPTLRLVRVAIGDWRLDGLAPGQWRVDDA 180 Query: 239 KILREQLGPH 248 R+ G H Sbjct: 181 PSPRQGRGSH 190 >gi|221208265|ref|ZP_03581269.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD2] gi|221171913|gb|EEE04356.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD2] Length = 610 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 73/248 (29%), Positives = 116/248 (46%), Gaps = 30/248 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 363 RLSKRMSELGLCSRREADEWIEKGWVIVDGERIDTLGTKVRADQRIEIDERAQAAQAAQV 422 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-----------FDNLPSIFS----RVIS-VGRLDINT 118 L HKP+G V+ ++ DG D P FS R ++ GRLDI++ Sbjct: 423 TILLHKPVGYVSGQAE-DGYEPASVLITRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 481 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQ---VDQ----DKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y RVRF + +DQ ++L L+ G+ + G Sbjct: 482 TGLLVLTQNGRIAKQLIGEQSDVDKEYLVRVRFGDRLTDIDQHFPAERLAQLRHGLELDG 541 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ Q G + LREG+ R+I+++ E +V L R+ G LG L Sbjct: 542 VALKPAMVSW--QNGEQ--LRFVLREGRKRQIRRMCELVGLEVIGLKRVRMGRVTLGALP 597 Query: 230 AGSTREVS 237 G R +S Sbjct: 598 QGQWRYLS 605 >gi|260772636|ref|ZP_05881552.1| ribosomal large subunit pseudouridine synthase E [Vibrio metschnikovii CIP 69.14] gi|260611775|gb|EEX36978.1| ribosomal large subunit pseudouridine synthase E [Vibrio metschnikovii CIP 69.14] Length = 227 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 47/183 (25%), Positives = 87/183 (47%), Gaps = 16/183 (8%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R + ++ ++KP ++ +D GR T+ D + + + GRLD ++EGL++LTND Sbjct: 45 RSPDERKVIAFNKPYDTLSQFTDGQGRQTLADFI--TIKDIYAAGRLDRDSEGLMILTND 102 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQ--- 182 G L L P + + Y V+ G+ + L L++G+ ++ +++ Q Sbjct: 103 GVLQARLTQPKAKAPKTYWVQVEGEPQEADLEQLRRGVTLKDGPTLPAKVEIIKPPQVWE 162 Query: 183 ---------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 W+ + + EG+NR+++++ + RLIR S G L TL G Sbjct: 163 RNPPVRFRAAIPTTWLAMTIIEGRNRQVRRMTACIGFPTLRLIRYSIGNTTLETLQPGEW 222 Query: 234 REV 236 RE+ Sbjct: 223 REI 225 >gi|329907292|ref|ZP_08274608.1| putative pseudouridylate synthase [Oxalobacteraceae bacterium IMCC9480] gi|327547030|gb|EGF31918.1| putative pseudouridylate synthase [Oxalobacteraceae bacterium IMCC9480] Length = 238 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 62/236 (26%), Positives = 115/236 (48%), Gaps = 27/236 (11%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 ++ G+ SRRE + I + V+V+G ++ V+ + H+ ++ + + L + Sbjct: 1 MSELGLCSRREADVWIEKGWVRVDGKVVSELGSKVLPSQHVTIERQAAAEQSKLVTILIN 60 Query: 80 KPIGLVTTHSD-----------PDGR------STVFDNLPSIFSRVISVGRLDINTEGLL 122 KP+G V+ ++ P+ R +T F P+ ++ GRLDI++ GLL Sbjct: 61 KPMGYVSGQAEDGYQPAVTLIKPENRWAEDQATTQFH--PTQLRSLVPAGRLDIDSIGLL 118 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFH----GQVDQDKLNLLKKGIVIQGICYGDMQVT 178 +LT DG +A+ L +T+ + Y VR G++ +++L L+ G+ + G +V Sbjct: 119 VLTQDGRVAKQLIGETTEVEKEYLVRVQYDRPGRLPENQLLKLQHGLTMDGKELLPAKVR 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + ++ LREGK R+I+++ + KV L R+ G +LG L G R Sbjct: 179 WQNEDQ----LSFILREGKKRQIRRMCDMVGLKVLGLKRVRIGNIKLGDLPVGEWR 230 >gi|327396520|dbj|BAK13941.1| ribosomal large subunit pseudouridine synthase F [Pantoea ananatis AJ13355] Length = 290 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 61/227 (26%), Positives = 110/227 (48%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +RAAV V + D ++V+G + R Sbjct: 8 RLNKYISESGICSRRDADRFIEQGNVFING---KRAAVGAQVFAGDVVKVNGQLIEPRDE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP G++TT +G + + RV +GRLD +++GL+ LTN G L Sbjct: 65 DDLVLIALNKPTGIITTME--EGERDNISDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ + G +V + + Sbjct: 123 VNKILRAGNNHEKEYVVTVDKPVTDEFIAGMASGVPMLGTVTKKCKVKKE----APYVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ + F ++V +L R L + G R+++ Sbjct: 179 ITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNVNLKGIPLGEWRDLT 225 >gi|319947493|ref|ZP_08021725.1| ribosomal small subunit pseudouridine synthase A [Streptococcus australis ATCC 700641] gi|319746433|gb|EFV98694.1| ribosomal small subunit pseudouridine synthase A [Streptococcus australis ATCC 700641] Length = 240 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 63/226 (27%), Positives = 107/226 (47%), Gaps = 19/226 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-------TDHIEVDGVPL 67 R+ +++A I R+E+++ +A++++ V+G+ + + NV + D + D Sbjct: 2 RLDQLLAHYQIP-RKEIKQSLAKRQILVDGLAATKLSQNVDTGLQEVRWKDQVLTDC--- 57 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLT 125 +L HKP GLVT D STV D L + + +GRLD +T GLLLLT Sbjct: 58 ----SHHYFLLHKPQGLVTATKDAQ-HSTVLDLLRTEDRTPKTYPIGRLDRDTTGLLLLT 112 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKG 184 ++G L L P + Y +G ++ + ++GI + G ++ + + Sbjct: 113 DNGPLGFQLLHPQYHIEKEYAATVNGPLEPAHIEKFQEGITFLDGTTCKPAKLEILSSSL 172 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + V L EGK ++KK+ KV L RI +G F L LA Sbjct: 173 TESQALVTLSEGKFHQVKKMLLSVGVKVTSLKRIKFGDFSLDPNLA 218 >gi|257465344|ref|ZP_05629715.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus minor 202] gi|257451004|gb|EEV25047.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus minor 202] Length = 230 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 53/208 (25%), Positives = 98/208 (47%), Gaps = 4/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + + V VN + + +V + + D I DG L + + Sbjct: 2 RLDKFIAENTGLTRSQAAKALKSGLVTVNQKVEKSGSVKISAQDEIRYDGELLEWMDEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V +H D + TVF + +++ + GRLD++T GL+LLT+DG + Sbjct: 62 YFMLYKPQGYVCSHDDGE-YPTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ ++GI+++G + ++ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYAQRFEEGILLRGEREPCLPAKMEVLDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 EG+ ++K++F KV L R G Sbjct: 179 SEGRYHQVKRMFAALGNKVEALHRWRIG 206 >gi|114330041|ref|YP_746263.1| pseudouridine synthase, Rsu [Nitrosomonas eutropha C91] gi|114307055|gb|ABI58298.1| ribosomal large subunit pseudouridine synthase F [Nitrosomonas eutropha C91] Length = 243 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 67/242 (27%), Positives = 107/242 (44%), Gaps = 25/242 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ G+ SRRE + I Q V V+G + I +D K + Sbjct: 5 RLSKLMSAQGMCSRREADVYIEQGWVYVDGQPARELGTKIYPWQEITLDRTAQIKQNQQV 64 Query: 75 LWLYHKPIGLVTTHSD----PDGRSTVFDNLPSIFSR--------------VISVGRLDI 116 L +KP+G V+ + P D S F R + GRLDI Sbjct: 65 TILLNKPVGYVSGQPELGYKPAASLICHD---SRFHRDRSSLKFTSQHLKNLAPAGRLDI 121 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +++GLL+ T DG +A+ L ++ + Y VR G + + L LL G+ + G + Sbjct: 122 DSQGLLVFTQDGRVAKQLIGEYSRIEKEYLVRVIGNLTRKGLALLNHGLQLDGQVLKPAK 181 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V+L Q + L+EGK R+I+++ E V+ L R+ G +L L G R + Sbjct: 182 VSLLNQD----QLRFILQEGKKRQIRRMCELVGLNVSGLKRVRIGQIRLADLPEGKWRYL 237 Query: 237 SK 238 K Sbjct: 238 GK 239 >gi|317496566|ref|ZP_07954915.1| RNA pseudouridylate synthase [Gemella moribillum M424] gi|316913369|gb|EFV34866.1| RNA pseudouridylate synthase [Gemella moribillum M424] Length = 235 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 68/236 (28%), Positives = 118/236 (50%), Gaps = 14/236 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I + SR E +++I ++ V VNG +++ + D + + + K + Sbjct: 2 RLDKYIGHTTLLSRAESKKII-KKGVLVNGNIVKAPDFKI---DELNDEVIVNEKKLIYQ 57 Query: 75 LWLY---HKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDG 128 ++Y +KP G+++ D R TV D L IF VGRLD +TEGL+LLTNDG Sbjct: 58 KYIYIMMNKPKGVISATEDSISR-TVIDLLEEKDCIFEP-FPVGRLDKDTEGLMLLTNDG 115 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNA 187 L L P + Y V +G + + + LK+GI+++ G ++ + T S + Sbjct: 116 NLGHQLTSPKKDVEKQYYVEVNGVLKVEHIPYLKEGIILEDGYKCKSAKLDILTSDVSKS 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++ + +V L R+S G L TL G R ++++ L+ Sbjct: 176 TAYIYVTEGKFHQVKRMMKALGCEVTYLKRLSIGELVLDETLELGKYRYLTEQELK 231 >gi|242243012|ref|ZP_04797457.1| pseudouridylate synthase [Staphylococcus epidermidis W23144] gi|242233613|gb|EES35925.1| pseudouridylate synthase [Staphylococcus epidermidis W23144] Length = 230 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 63/224 (28%), Positives = 111/224 (49%), Gaps = 11/224 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R EV++++ + VKVN ++ ++V ++D I V+ + ++ Sbjct: 2 RLDKFLANMGVGTRSEVKQLLKKGAVKVNQNKVKSPKLHVNPNSDEIMVNDEVVSYIDKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G ++ D + T+ D +P + VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPKGYISATED-ELHPTIIDLIPEYAHLNIFPVGRLDKDTEGLLLVTNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT-V 191 + P+ + Y V + Q ++ K GI + D ++ K + +V+ V Sbjct: 120 EVMNPNKHVSKTYEVYSKHPITQFDIDEFKSGIEL-----SDGKLKPAILKKVDDYVSHV 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 + EGK ++K++F +V L RI +L L GS R Sbjct: 175 TIYEGKYHQVKRMFHSIENEVLELKRIKIAELELDHNLDLGSYR 218 >gi|163750086|ref|ZP_02157329.1| putative ribosomal small subunit pseudouridine synthase A [Shewanella benthica KT99] gi|161330143|gb|EDQ01125.1| putative ribosomal small subunit pseudouridine synthase A [Shewanella benthica KT99] Length = 233 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 69/229 (30%), Positives = 111/229 (48%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + I+ +R+ V ++A+ V+V+G + + + ++G L+ + Sbjct: 7 RLDRFISVKTGINRKNVRLLLAKGLVEVDGDIARNIDQIIDEFSDVSLEGEVLQSNSPSY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 + L HKP+G+V+ D D TV D L + VGRLD+NT GLLLLTNDG ++ Sbjct: 67 VML-HKPVGVVSATVD-DKHKTVIDLLTDKSKHDLHIVGRLDLNTSGLLLLTNDGRWSKK 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTV 191 L P + ++YRV +D + +GI + I Q+ L A VT Sbjct: 125 LMSPHHKVGKLYRVTLQNPIDDSYVKAFAEGIYFEFEDIITKPAQLAL--VDSHTALVT- 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 L EG+ +IK++F F V L RIS G L + L G +R ++ + Sbjct: 182 -LVEGRYHQIKRMFGRFRNPVIGLHRISVGKILLDSQLTPGMSRSLTAQ 229 >gi|315179854|gb|ADT86768.1| pseudouridine synthase family 1 protein [Vibrio furnissii NCTC 11218] Length = 183 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 47/174 (27%), Positives = 84/174 (48%), Gaps = 16/174 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP ++ +D DGR T+ D +P V + GRLD ++EGL++LTNDG L L Sbjct: 10 IFNKPFDTLSQFTDGDGRKTLADFIP--VKDVYAAGRLDRDSEGLMVLTNDGILQAKLTQ 67 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P ++ + Y V+ G + L+ L+ G+ ++ V + + Sbjct: 68 PQSKSPKTYWVQVEGAPQEADLDKLRNGVELKDGPTLPAIVEIMPEPEVWERHPPVRFRA 127 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+ + + EG+NR+++++ + RLIR S G LG L G + + Sbjct: 128 AIPTTWLAITIIEGRNRQVRRMTANIGFPTLRLIRYSMGDIVLGDLQPGEWKHI 181 >gi|324990675|gb|EGC22611.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK353] Length = 241 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 74/238 (31%), Positives = 124/238 (52%), Gaps = 14/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A I SR+++++ + Q+++ V+G + + NV I G + Sbjct: 2 RLDQLLAANHI-SRKKMKQSLLQKQILVDGKPAYKLSQNVDTGLQQITFQGKYVSGPAH- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP G VT + D + + TV D L + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANRDAE-KLTVLDLLDKEVEKENLYSIGRLDRDTEGLLLITDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWV 189 L P + Y V +G + QDK+ ++GI + G Q+++ + S + Sbjct: 119 FQLLHPQYHVEKTYYVEVNGPLTSQDKIA-FQEGIRFLDGTICQPAQLSILSSSSSLSRA 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLG 246 TV + EGK +IKK+F KV L RI +G F L LA G R ++ +E+LG Sbjct: 178 TVKISEGKFHQIKKMFLAVGVKVIYLKRIQFGDFTLDPDLAKGDYRALN----QEELG 231 >gi|294140594|ref|YP_003556572.1| ribosomal large subunit pseudouridine synthase E [Shewanella violacea DSS12] gi|293327063|dbj|BAJ01794.1| ribosomal large subunit pseudouridine synthase E [Shewanella violacea DSS12] Length = 239 Score = 71.6 bits (174), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 44/169 (26%), Positives = 82/169 (48%), Gaps = 16/169 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P V + GRLD ++EGLLLLTNDG L + Sbjct: 62 LFNKPFDVLCQFTDEQGRKTLKDFIP--VKDVYAAGRLDRDSEGLLLLTNDGKLQSKITE 119 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P + + Y V+ G ++ L L+ G+ ++ ++++ ++ Sbjct: 120 PKKKTFKTYWVQVEGAPNEAALQTLRNGVKLKDGMTLPAKISILSEPNIWDREPPIRERK 179 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RLIR G + L + G Sbjct: 180 NIPTTWLEIQICEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDDIDIG 228 >gi|240948999|ref|ZP_04753353.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus minor NM305] gi|240296586|gb|EER47204.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus minor NM305] Length = 230 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 53/208 (25%), Positives = 98/208 (47%), Gaps = 4/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + + V VN + + +V + + D I DG L + + Sbjct: 2 RLDKFIAENTGLTRSQAAKALKSGLVTVNQKVEKSGSVKISAQDEIRYDGELLEWMDEGQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V +H D + TVF + +++ + GRLD++T GL+LLT+DG + Sbjct: 62 YFMLYKPQGYVCSHDDGE-YPTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ ++GI+++G + ++ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYAQRFEEGILLRGEREPCLPAKMEVLDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 EG+ ++K++F KV L R G Sbjct: 179 SEGRYHQVKRMFAALGNKVEALHRWRIG 206 >gi|94990658|ref|YP_598758.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS10270] gi|306827141|ref|ZP_07460432.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes ATCC 10782] gi|94544166|gb|ABF34214.1| Ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS10270] gi|304430668|gb|EFM33686.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes ATCC 10782] Length = 244 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 66/240 (27%), Positives = 116/240 (48%), Gaps = 9/240 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ +R +V+ ++ ++ + VN + A ++ D + G PL E Sbjct: 3 RLDKFLVATGVGTRSQVKLLLKKKAIFVNQKVETSAKAHIDEYKDLVTYQGTPLV-YESF 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G V+ D ++TV + L + V VGRLD +T GLLLLTN+G LA Sbjct: 62 VYYLLNKPSGYVSATQDRQ-QATVMELLDDTARQKAVFPVGRLDKDTRGLLLLTNNGQLA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICY-GDMQVTLDTQKGSNAWV 189 L P + Y + G + + + +GI ++ C ++V + + V Sbjct: 121 HDLLSPKKHVTKEYLAKVAGIMTEADKDYFARGISLKDHQCLPAHLEVLASDLQQQTSLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPH 248 + ++EGK ++K++ V L R+S GP +L LA G R ++ + L + L P+ Sbjct: 181 KITIQEGKFHQVKRMVAACGKGVLDLQRLSMGPLKLDPSLAEGEFRRLTPEEL-QSLAPY 239 >gi|306825646|ref|ZP_07458985.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. oral taxon 071 str. 73H25AP] gi|304432007|gb|EFM34984.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. oral taxon 071 str. 73H25AP] Length = 241 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 67/220 (30%), Positives = 114/220 (51%), Gaps = 7/220 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A+ I SR+ +++ + ++ + V+ + NV + G ++ E Sbjct: 2 RLDRLLAQEKI-SRKAMKQALLKKEILVDECPARFLSQNVDTGLQKLVFQGRQIQGYEHN 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G+VT D + TV D L P I S ++ ++GRLD +T GLLLLT++G L Sbjct: 61 YLML-HKPNGVVTASRDKN-LPTVMDLLSPDIQSDQIYAIGRLDRDTTGLLLLTDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +G + D + K+GIV + G + + + S++ T Sbjct: 119 FQLLHPQYHVDKSYQVVVNGPLTPDHIQRFKEGIVFLDGTTCKPATLEILSSSPSSSQAT 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + EGK ++KK+F KV L R+ +G F L + LA Sbjct: 179 ITISEGKFHQVKKMFFSVGVKVVSLKRVQFGDFTLDSELA 218 >gi|289209534|ref|YP_003461600.1| pseudouridine synthase [Thioalkalivibrio sp. K90mix] gi|288945165|gb|ADC72864.1| pseudouridine synthase [Thioalkalivibrio sp. K90mix] Length = 180 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 47/176 (26%), Positives = 85/176 (48%), Gaps = 20/176 (11%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +R+ L+HKP G++ +DP+GR T+ D ++P ++ GRLD ++EGL++LT+DG L Sbjct: 2 SRIVLFHKPWGVLPQFTDPEGRPTLADYIDIPGVYP----AGRLDRDSEGLMVLTDDGRL 57 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------ 184 L P + + Y V+ G+ D L L+ G+ ++ +V T Sbjct: 58 NARLTQPRHKTSKTYWVQVEGEPDDAALEALRTGVDLKDGRTQPAKVERMTPPDLPERDP 117 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 W+ + L EG+NR+++++ RL+R + L + G+ Sbjct: 118 PVRFRKSVPTTWLALTLHEGRNRQVRRMTAAVGHPTLRLVRYRVASWTLDGVERGA 173 >gi|291619766|ref|YP_003522508.1| RluF [Pantoea ananatis LMG 20103] gi|291154796|gb|ADD79380.1| RluF [Pantoea ananatis LMG 20103] Length = 297 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 61/227 (26%), Positives = 110/227 (48%), Gaps = 13/227 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +RAAV V + D ++V+G + R Sbjct: 15 RLNKYISESGICSRRDADRFIEQGNVFING---KRAAVGAQVFAGDVVKVNGQLIEPRDE 71 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP G++TT +G + + RV +GRLD +++GL+ LTN G L Sbjct: 72 DDLVLIALNKPTGIITTME--EGERDNISDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 129 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ + G +V + + Sbjct: 130 VNKILRAGNNHEKEYVVTVDKPVTDEFIAGMASGVPMLGTVTKKCKVKKE----APYVFR 185 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ + F ++V +L R L + G R+++ Sbjct: 186 ITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNVNLKGIPLGEWRDLT 232 >gi|251789551|ref|YP_003004272.1| pseudouridine synthase [Dickeya zeae Ech1591] gi|247538172|gb|ACT06793.1| pseudouridine synthase [Dickeya zeae Ech1591] Length = 218 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 48/182 (26%), Positives = 88/182 (48%), Gaps = 17/182 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 A + R+ L++KP +++ +D R+T+ D +P + + GRLD ++EGL++LTNDG Sbjct: 36 AAQARIVLFNKPFDVLSQFTDEGSRATLKDYVP--LRDIYAAGRLDRDSEGLMILTNDGQ 93 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--------------VIQGICYGDM 175 L L P + ++Y + G D + L+ + G+ V + Sbjct: 94 LQARLTQPGKKTPKIYYAQVEGIPDDEALHAFRTGLQLNDGTTLPAGAERVEEPAWLWPR 153 Query: 176 QVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 Q + +K +W+ + L EG+NR+++++ + RLIR S L L G + Sbjct: 154 QPPIRERKNIPVSWLKITLYEGRNRQVRRMTAHIGYPTLRLIRYSMANQTLDGLSPGEWK 213 Query: 235 EV 236 E+ Sbjct: 214 EI 215 >gi|319957030|ref|YP_004168293.1| pseudouridine synthase [Nitratifractor salsuginis DSM 16511] gi|319419434|gb|ADV46544.1| pseudouridine synthase [Nitratifractor salsuginis DSM 16511] Length = 192 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 54/161 (33%), Positives = 78/161 (48%), Gaps = 10/161 (6%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L HKP G V T SD GR TV+D LP + + + VGRLD++++GLLL T DG + Sbjct: 10 KLLALHKPKGYVVTRSDELGRKTVYDLLPDWAFENGWMPVGRLDMDSKGLLLFTTDGKIG 69 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P +VY + G V + + KKG+ + + V G+ + V Sbjct: 70 DALTRPGNC-KKVYEIWVRGYVTDEHIAAAKKGVESKQGLLKALSVEKLGTGGAKTKLRV 128 Query: 192 GLREGKNREIKKVFEFFN-------WKVNRLIRISYGPFQL 225 + EGKNR I+++F KV L R+ G F L Sbjct: 129 VIDEGKNRHIRRLFGALKDPKFSTPLKVLDLKRVRIGTFDL 169 >gi|322412052|gb|EFY02960.1| Ribosomal small subunit pseudouridine synthase A [Streptococcus dysgalactiae subsp. dysgalactiae ATCC 27957] Length = 243 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 63/221 (28%), Positives = 104/221 (47%), Gaps = 7/221 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K + G+ SR +V+ ++ ++ + VN + V + D + G PL E Sbjct: 2 RLDKFLVETGVGSRSQVKSLLKKKAILVNQEVETSPKVQINEHKDVVTYLGKPL-TYEAF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G ++ D ++TV D L + V VGRLD +T GLLLLTN+G LA Sbjct: 61 VYYVLNKPAGFLSATKDR-AQATVIDLLDETARQKDVFPVGRLDKDTRGLLLLTNNGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAW-V 189 L P + Y + G + + + KGI ++ C LD V Sbjct: 120 HDLLSPKKHVTKEYLAKVAGIMTEADKDDFAKGISLKDYQCLPAKLEVLDKDVSQETCVV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 ++ ++EGK ++K++ +V L R+S GP +L LA Sbjct: 180 SITIQEGKFHQVKRMVAACGKEVLELQRLSMGPLRLDPSLA 220 >gi|218530506|ref|YP_002421322.1| pseudouridine synthase [Methylobacterium chloromethanicum CM4] gi|218522809|gb|ACK83394.1| pseudouridine synthase [Methylobacterium chloromethanicum CM4] Length = 242 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 68/230 (29%), Positives = 112/230 (48%), Gaps = 15/230 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTD---HIEVDGVPLRKA 70 R+ +++A G SRREVE + V+++G L A+ + + D + V G L Sbjct: 5 RLDRLLANLGYGSRREVEGLARAGLVRLDGQALRDASQRIPLEPDLSARMTVQGEALDPL 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTN 126 L L HKP+G+ +H + V+ LP + R + +VGRLD T GLLL+T+ Sbjct: 65 PGVCLML-HKPLGVTCSHKEVG--PLVYSLLPERWRRRDPALSTVGRLDKETSGLLLMTD 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG L + P + + YRV + D+ +L G ++++G + V ++T + Sbjct: 122 DGALLHRIISPKAKVSKRYRVTLARPLQGDETAILASGEMMLEGEDKPLLPVEMETDDPT 181 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 + VT L EG+ +++++F V+ L R G L T L AG R Sbjct: 182 HCTVT--LHEGRYHQVRRMFAALGNHVDALHRDRVGGLVLPTDLPAGEFR 229 >gi|170740346|ref|YP_001769001.1| pseudouridine synthase [Methylobacterium sp. 4-46] gi|168194620|gb|ACA16567.1| pseudouridine synthase [Methylobacterium sp. 4-46] Length = 244 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 62/220 (28%), Positives = 103/220 (46%), Gaps = 14/220 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD----HIEVDGVPLRKA 70 R+ +++A G SRRE++ + R++++G L A + +T + V G PL Sbjct: 8 RLDRLLANLGYGSRREIQALARAGRIRLDGEALREADGRIAATADLPARLTVSGEPLDPP 67 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTN 126 L L HKP G+ +H + V+ LP + R + +VGRLD +T GLLL+T+ Sbjct: 68 APLALML-HKPTGVTCSHKEAG--PLVYGLLPERWRRREPALSTVGRLDKDTSGLLLVTD 124 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG L + P + + YRV + D+ +L G ++++G + V Q Sbjct: 125 DGALLHRIISPKAKIEKQYRVELDRPLRGDEGAILVSGTLMLEGEEAPLLPVGFTAQGPR 184 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 A V L EG+ +++++F V L R G L Sbjct: 185 QARVV--LTEGRYHQVRRMFAALGNHVTALHRDRVGGLTL 222 >gi|163851700|ref|YP_001639743.1| pseudouridine synthase [Methylobacterium extorquens PA1] gi|163663305|gb|ABY30672.1| pseudouridine synthase [Methylobacterium extorquens PA1] Length = 242 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 68/230 (29%), Positives = 111/230 (48%), Gaps = 15/230 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTD---HIEVDGVPLRKA 70 R+ +++A G SRREVE + V+++G L A+ V + D + V G L Sbjct: 5 RLDRLLANLGYGSRREVEGLARAGLVRLDGQALRDASQRVPLEPDLSARMTVQGEALDPL 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTN 126 L L HKP+G+ +H + V+ LP + R + +VGRLD T GLLL+T+ Sbjct: 65 PGVCLML-HKPLGVTCSHKEVG--PLVYSLLPERWRRRDPALSTVGRLDKETSGLLLMTD 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG L + P + + YRV + D+ +L G ++++G + V ++T + Sbjct: 122 DGALLHRIISPKAKVSKRYRVTLARPLQGDETAILASGEMMLEGEDKPLLPVEMETDDPT 181 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTR 234 + VT L EG+ +++++F V+ L R G L L AG R Sbjct: 182 HCTVT--LHEGRYHQVRRMFAALGNHVDALHRDRVGGLALPADLPAGEFR 229 >gi|254487430|ref|ZP_05100635.1| ribosomal large subunit pseudouridine synthase E [Roseobacter sp. GAI101] gi|214044299|gb|EEB84937.1| ribosomal large subunit pseudouridine synthase E [Roseobacter sp. GAI101] Length = 187 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 47/182 (25%), Positives = 88/182 (48%), Gaps = 17/182 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 R+ L++KP G+++ +D + L GRLD ++EGL++LT++G L Sbjct: 3 RVILFNKPFGVLSQFTDKGTEGSPRPTLSGFIDEKGFYPAGRLDRDSEGLIVLTDNGALQ 62 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-DTQKG------ 184 + P + + Y V+ G D +N L++G+ ++ +V+L DT G Sbjct: 63 ARISHPKYKLAKTYWVQVEGTPDDAAINALRQGVTLKDGKTAPAKVSLIDTPAGLWDRDP 122 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 +AW+++ + EG+NR+++++ RLIR G +QL + G+ R Sbjct: 123 PVRFRKSVPDAWLSITITEGRNRQVRRMTAHVGLPTLRLIRAQIGDWQLNAMRPGTWRFS 182 Query: 237 SK 238 S+ Sbjct: 183 SE 184 >gi|318042073|ref|ZP_07974029.1| pseudouridine synthase, Rsu [Synechococcus sp. CB0101] Length = 232 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 57/191 (29%), Positives = 92/191 (48%), Gaps = 36/191 (18%) Query: 77 LYHKPIGLVTTHS-DPDGR-STVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L++KP G+++ + +P R + D++P V + GRLD ++EGLLLLT +G L + L Sbjct: 12 LFYKPYGVLSQFTPEPGSRWGCLADHIP--VPDVYTAGRLDADSEGLLLLTANGRLQQRL 69 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------------- 181 P+ R Y V+ G D +L L++G+VIQG Q TL Sbjct: 70 TDPAWGHWRRYWVQVEGIPDAAQLQQLEQGLVIQG------QRTLPARANAIADPDLPPR 123 Query: 182 -------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY------GPFQLGTL 228 Q+ +W+ V LREG+NR+++++ RL+R++ P L L Sbjct: 124 DPPIRSRQQIPTSWLAVELREGRNRQVRRMTAAVGLPTLRLLRVAIDLMDGGAPLSLDGL 183 Query: 229 LAGSTREVSKK 239 G R V+ + Sbjct: 184 EPGQWRAVTPE 194 >gi|303256317|ref|ZP_07342333.1| ribosomal small subunit pseudouridine synthase A [Burkholderiales bacterium 1_1_47] gi|330999012|ref|ZP_08322737.1| putative 16S pseudouridylate 516 synthase [Parasutterella excrementihominis YIT 11859] gi|302861046|gb|EFL84121.1| ribosomal small subunit pseudouridine synthase A [Burkholderiales bacterium 1_1_47] gi|329575754|gb|EGG57280.1| putative 16S pseudouridylate 516 synthase [Parasutterella excrementihominis YIT 11859] Length = 231 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 62/211 (29%), Positives = 99/211 (46%), Gaps = 7/211 (3%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTRLW 76 +++ G +R E +I Q R +VNG + ++ + D EVDGV E+ + Sbjct: 5 QILFSQGFGTRHECTGLIVQGRFRVNGTAVTDPDEDIPTEDLTFEVDGVQWPFFEKA-II 63 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP + P +V LP +V VGRLD +T GLLLLT+DG L L Sbjct: 64 LLNKPEHYECS-LKPIHHPSVLSLLPPPLRVRKVQPVGRLDEDTTGLLLLTDDGKLIHRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P ++YRV V + ++ L KG +Q D+ + K S + +G+ Sbjct: 123 THPKKHVTKIYRVTLKHPVTEKQIAQLLKG--VQLADSPDIVKAVSCDKVSELVIDLGIT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +GK ++K++ + +V L RI +G L Sbjct: 181 QGKYHQVKRMMAAVSNRVVALERIRFGNLSL 211 >gi|315126735|ref|YP_004068738.1| ribosomal large subunit pseudouridine synthase E [Pseudoalteromonas sp. SM9913] gi|315015249|gb|ADT68587.1| ribosomal large subunit pseudouridine synthase E [Pseudoalteromonas sp. SM9913] Length = 225 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 46/172 (26%), Positives = 82/172 (47%), Gaps = 16/172 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ L++KP ++ +D R T+ + +P V + GRLD ++EGLLLLTN G L Sbjct: 45 KVILFNKPYDVLCQFTDEQNRQTLANFIP--IKDVYAAGRLDRDSEGLLLLTNCGKLQNT 102 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------- 184 L P + + Y V+ G + ++ L +G+ ++ QV L + Sbjct: 103 LTAPGKKTNKTYWVQVEGVPTEASIDALSQGVELKDGLTLPAQVKLIDEPALWPRTPPVR 162 Query: 185 -----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +W+++ + EGKNR+++++ RLIR S G + L + G Sbjct: 163 ERKSIPTSWLSITINEGKNRQVRRMTAHIGHPTLRLIRYSIGKYTLDGIETG 214 >gi|319785914|ref|YP_004145389.1| pseudouridine synthase [Pseudoxanthomonas suwonensis 11-1] gi|317464426|gb|ADV26158.1| pseudouridine synthase [Pseudoxanthomonas suwonensis 11-1] Length = 236 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 70/233 (30%), Positives = 110/233 (47%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++ K +A G SR+EV M + RV +G +L + + + D++ VDG PL + Sbjct: 2 KLVKHLANLGYGSRKEVAWMFREGRVTDADGEVLYQD--DPLDHDNVRVDGEPLDPPQGL 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVIS-VGRLDINTEGLLLLTNDGG 129 L L HKP G + D GR V+D LP F V+S VGRLD T GLLL+T+DG Sbjct: 60 LLML-HKPAGYTCSTKD-KGR-IVYDLLPPRFRLRDPVLSTVGRLDRETTGLLLMTDDGQ 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAW 188 L + P ++ +VY + D+ L G ++++ + ++ A Sbjct: 117 LLHRIVSPKSKLAKVYEADLAEDLRGDEAQLFASGTLMLESETTPLLPAQMEVLGPRRAR 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ +++++F V L R G LG L G R++ + L Sbjct: 177 VV--LHEGRYHQVRRMFAAVGNNVVALHRPRIGGLALGDLAEGQWRQLGQDDL 227 >gi|206560456|ref|YP_002231220.1| putative RNA pseudouridylate synthase [Burkholderia cenocepacia J2315] gi|198036497|emb|CAR52394.1| putative RNA pseudouridylate synthase [Burkholderia cenocepacia J2315] Length = 625 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 73/248 (29%), Positives = 113/248 (45%), Gaps = 30/248 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 378 RLSKRMSELGMCSRREADEWIEKGWVLVDGERIDTLGTKVRADQKIEIDERASAAQAAQV 437 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS-----RVISVGRLDINT 118 L HKP+G V+ ++ DG D+ P FS + GRLDI++ Sbjct: 438 TILLHKPVGYVSGQAE-DGYEPAAVLITRANRWSGDHSPVRFSPQHLHALAPAGRLDIDS 496 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQ---VDQ----DKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y RVRF + +DQ + L L+ G+ + G Sbjct: 497 TGLLVLTQNGVIAKQLIGEQSDIDKEYLVRVRFGERLIDIDQHFPAESLAKLRHGLELDG 556 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ Q G + LREGK R+I+++ E V L R+ G LG L Sbjct: 557 VALKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLDVIGLKRVRMGRVMLGALP 612 Query: 230 AGSTREVS 237 G R +S Sbjct: 613 QGQWRYLS 620 >gi|170018060|ref|YP_001728979.1| 16S rRNA uridine-516 pseudouridylate synthase [Leuconostoc citreum KM20] gi|169804917|gb|ACA83535.1| 16S rRNA uridine-516 pseudouridylate synthase [Leuconostoc citreum KM20] Length = 177 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 47/173 (27%), Positives = 87/173 (50%), Gaps = 17/173 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++T +D +GR+T+ D + RV + GRLD+++EGLLLLT+ G L L Sbjct: 4 LFNKPYNVLTKFTDTEGRATLADYID--IPRVYAAGRLDMDSEGLLLLTDQGHLNHALTD 61 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GIC--------------YGDMQVTLDT 181 P + + Y V+ G + +L L++G+ ++ G+ + + Sbjct: 62 PDNKAYKTYVVQVEGIPTKAQLKQLEQGVDLKDGLTLPAKVKRIPYPKWLWAREKPIRTR 121 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 Q +++ + ++EG+NR+++++ RLIR G + L L G R Sbjct: 122 QNQPTSFIQLKIKEGRNRQVRRMTAAVGIPTLRLIRTHIGDYHLADLQPGQYR 174 >gi|167561885|ref|ZP_02354801.1| RNA pseudouridine synthase family protein [Burkholderia oklahomensis EO147] Length = 240 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 63/210 (30%), Positives = 94/210 (44%), Gaps = 7/210 (3%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTRLWLYHKPI 82 G SRR+ ++ RV V G A + + EVDGV R + L +KP Sbjct: 11 GFGSRRQCRALVEAGRVAVGGATCTDAHASFDTARLAFEVDGVAWPYHARAYVVL-NKPA 69 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 G + +P S+VF LP F+ V VGRLD +T GLLLL++DG P + Sbjct: 70 GYECSR-EPQHHSSVFRLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAYTSPKRK 128 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 + Y +D +L+ L+ G+++ G V + +TV EGK + Sbjct: 129 VPKTYVATVRHPLDDAQLDALRAGVLLHGEPKPIAAVAAHARGERLLEMTVA--EGKYHQ 186 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +K++ + +V L R S G F L LA Sbjct: 187 VKRMVAAASNRVEALHRASIGGFTLPADLA 216 >gi|134095624|ref|YP_001100699.1| putative pseudouridylate synthase [Herminiimonas arsenicoxydans] gi|133739527|emb|CAL62578.1| Ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Herminiimonas arsenicoxydans] Length = 186 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 55/187 (29%), Positives = 89/187 (47%), Gaps = 23/187 (12%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L++KP ++ S R+++ D ++P I+ GRLD ++EGLLLLT+DG L Sbjct: 3 LILFNKPFQVMCQFSPHPTRASLADYLDIPDIYP----AGRLDADSEGLLLLTDDGKLQH 58 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-----VIQGICYGDMQ----------V 177 + P + + Y + G + L L+ + + QG +Q Sbjct: 59 AISHPDHKQTKTYLAQVEGIPHTEALARLRAPLNLGDFITQGCEVKRVQEPDWLWPRNPP 118 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTRE 235 + + +W+ + L EGKNR+++++ RLIRI+ GP L + LL G RE Sbjct: 119 IRERAQVPTSWLAITLAEGKNRQVRRMTGAVGLPTLRLIRIAIGPISLQSHPLLPGQWRE 178 Query: 236 VSKKILR 242 VS LR Sbjct: 179 VSAAELR 185 >gi|90578741|ref|ZP_01234551.1| hypothetical 16S rRNA uridine-516 pseudouridylate synthase [Vibrio angustum S14] gi|90439574|gb|EAS64755.1| hypothetical 16S rRNA uridine-516 pseudouridylate synthase [Vibrio angustum S14] Length = 231 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 61/227 (26%), Positives = 110/227 (48%), Gaps = 6/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + +RRE +++ + ++V+G ++ A+ +V + +E +G PL K + R Sbjct: 2 RLDKFLGTTLGITRREAGKLLRDKMIEVDGEIVRSASFSVSDDNDVEFNGRPL-KLQGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V +H D D TVF + + V GRLD +T GL+LLT+DG + Sbjct: 61 YFMLNKPEGFVCSHVD-DFNPTVFVLFDEVSPEKMHVAGRLDGDTTGLVLLTDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + +D + + G+ ++ L+ A +T+ Sbjct: 120 ITSPRHLCSKTYFVEAADPITEDYIKQFEAGVQLRSEKELTRPAKLEILGEREALLTIS- 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EGK ++K++F KV L R G +L LA G R ++++ Sbjct: 179 -EGKYHQVKRMFAAMGNKVVGLHRERIGTVELDEDLAPGEYRPLTEE 224 >gi|21229751|ref|NP_635668.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66766627|ref|YP_241389.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. 8004] gi|34098585|sp|Q8PDR2|RLUE_XANCP RecName: Full=Ribosomal large subunit pseudouridine synthase E; AltName: Full=rRNA pseudouridylate synthase E; AltName: Full=rRNA-uridine isomerase E gi|21111241|gb|AAM39592.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66571959|gb|AAY47369.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. 8004] Length = 187 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 53/184 (28%), Positives = 89/184 (48%), Gaps = 21/184 (11%) Query: 77 LYHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+++ SD P R+ LP +V + GRLD ++EGLLLLT+DG LA Sbjct: 4 LLNKPYGVLSQFSDRSTPPKRTLAEFGLPP---QVYAAGRLDHDSEGLLLLTDDGPLAHR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTLDTQKG-- 184 L P + + Y V+ G D +L L G+++ + + TL + Sbjct: 61 LTDPRHKQPKTYWVQVEGDPDTSQLQALCDGVLLNDGPTRPANVRRLECAPTLWPRDPPV 120 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +AW+ V + EG+NR+++++ RL+R++ G + L +L G R Sbjct: 121 RVRKTVPDAWLEVQITEGRNRQVRRMTASVGLPTLRLVRVAIGAWSLASLQPGQWRVDDA 180 Query: 239 KILR 242 + +R Sbjct: 181 RAVR 184 >gi|71276521|ref|ZP_00652796.1| Pseudouridine synthase, Rsu [Xylella fastidiosa Dixon] gi|71900738|ref|ZP_00682860.1| Pseudouridine synthase, Rsu [Xylella fastidiosa Ann-1] gi|170729744|ref|YP_001775177.1| ribosomal small subunit pseudouridine synthase [Xylella fastidiosa M12] gi|71162698|gb|EAO12425.1| Pseudouridine synthase, Rsu [Xylella fastidiosa Dixon] gi|71729508|gb|EAO31617.1| Pseudouridine synthase, Rsu [Xylella fastidiosa Ann-1] gi|167964537|gb|ACA11547.1| ribosomal small subunit pseudouridine synthase [Xylella fastidiosa M12] Length = 236 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 72/236 (30%), Positives = 110/236 (46%), Gaps = 19/236 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-----VDGVPLRK 69 ++ K IA G SR+EV R+ + R+ NG + + DH++ DG PL Sbjct: 2 KLLKYIANLGYGSRKEVARIFREGRI-TNG-----EGEVLYADDHVQHTAVRFDGEPLDP 55 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVIS-VGRLDINTEGLLLLT 125 + L HKP G + + D GR V+D LP+ F S ++S VGRLD +T GLLLLT Sbjct: 56 PPGLMVML-HKPSGYICSTKDA-GR-LVYDLLPARFRLRSPLLSTVGRLDGDTSGLLLLT 112 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG L + P T +VY + D+ L G ++ +Q + G Sbjct: 113 DDGALLHRMISPKTHLPKVYEATLVQALRGDEATLFASGTLLLDGDTKPLQPAVLEVLGP 172 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + L EG+ +++++F +VN L R + G L L G R + + L Sbjct: 173 -CQVRLTLYEGRYHQVRRMFGATGNRVNTLHRSAIGGLVLDGLPEGQWRVLEAQDL 227 >gi|114562089|ref|YP_749602.1| pseudouridine synthase, Rsu [Shewanella frigidimarina NCIMB 400] gi|114333382|gb|ABI70764.1| Pseudouridine synthase, Rsu [Shewanella frigidimarina NCIMB 400] Length = 237 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 66/228 (28%), Positives = 112/228 (49%), Gaps = 10/228 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + IA ++ V ++ +V V+G + + V HIE +GV LR+ ++ + Sbjct: 7 RLDQFIAGTLQIPKKAVRLLLVTNKVLVDGQFAKSPDLQVDEFTHIECNGVVLRQYQK-Q 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ +KP G+V+ D D +T + + + ++ + GRLD+++ GLLLLTND + Sbjct: 66 YYMLNKPDGVVSATID-DKHATALGLITGVNTDMLHIAGRLDLHSTGLLLLTNDAKWSEA 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y V ++Q+ + KG+ + I Q+TL S+ V Sbjct: 125 LMDPQHKVDKQYLVTLANPLEQEYVEAFSKGMYFGFEDITTLPAQLTL----LSSHRARV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK 238 LREGK +IK++F F V L R S G L L G R ++K Sbjct: 181 VLREGKYHQIKRMFGRFRNPVVALHRESIGKIVLDKQLELGEFRSLTK 228 >gi|326692342|ref|ZP_08229347.1| ribosomal large subunit pseudouridine synthase E [Leuconostoc argentinum KCTC 3773] Length = 177 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 48/175 (27%), Positives = 85/175 (48%), Gaps = 17/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++T +D DGR T+ D + RV + GRLD+++EGLLLLT+ G L L Sbjct: 4 LFNKPYNVLTKFTDADGRPTLADYID--IPRVYAAGRLDMDSEGLLLLTDSGKLNHALTD 61 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----------ICYGDMQVTLDT----- 181 P + + Y V+ G + +L L+ G+ ++ I Y + Sbjct: 62 PENKAYKTYVVQVEGVPTKAQLKQLENGVELKDGWTLPAKAKRIPYPKWLWPRENPIRVR 121 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + +++ + ++EG+NR+++++ RLIR G + L L G R + Sbjct: 122 KNQPTSFIQLKIKEGRNRQVRRMTAAVGLPTLRLIRTHIGDYHLADLKPGEYRVI 176 >gi|261377760|ref|ZP_05982333.1| ribosomal small subunit pseudouridine synthase A [Neisseria cinerea ATCC 14685] gi|269146049|gb|EEZ72467.1| ribosomal small subunit pseudouridine synthase A [Neisseria cinerea ATCC 14685] Length = 230 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 57/226 (25%), Positives = 101/226 (44%), Gaps = 16/226 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV--MSTDHIEVDGVPLRKAER 72 ++ K + GI SR++ + +IA V +NG + A ++ S +++DG + Sbjct: 2 KLIKYLQYQGIGSRKQCQWLIAGGYVSINGTCMNDADADIDSASVHTLDIDGKAVTIIPE 61 Query: 73 TRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDGG 129 + L +KP T+H P ++F P + +VGRLD +T G+LL+TNDG Sbjct: 62 PYFYILLNKPADYETSHK-PKHYRSIFSLFPDNMRNIDMQAVGRLDADTTGVLLVTNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGS 185 L L PS + ++Y V D LK G+++ + +C D + S Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPADGILCETLKNGVLLHDENETVCAADANLE------S 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V L R + + L G Sbjct: 175 PTTLLLTITEGKYHQVKRMIAAAGNRVQHLHRRQFAHLETKNLKPG 220 >gi|322832033|ref|YP_004212060.1| pseudouridine synthase [Rahnella sp. Y9602] gi|321167234|gb|ADW72933.1| pseudouridine synthase [Rahnella sp. Y9602] Length = 235 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 50/207 (24%), Positives = 97/207 (46%), Gaps = 2/207 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV V+G +++ ++ + +E DG L + R Sbjct: 2 RLDKFLSQQLGVSRALVLRELRNKRVTVDGEIVKTGSMKISPEQRVEFDGNVLDQITGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLEEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + D + G+ + + +K + V + L Sbjct: 122 TSPRHHCEKTYLVTLEHPLADDTAAQFEAGVQLHN--EDSLTKPAQLEKIEDCLVRLTLS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYG 221 EG+ ++K++F +V L R G Sbjct: 180 EGRYHQVKRMFAAVGNRVVALHRERIG 206 >gi|260778847|ref|ZP_05887739.1| ribosomal small subunit pseudouridine synthase A [Vibrio coralliilyticus ATCC BAA-450] gi|260605011|gb|EEX31306.1| ribosomal small subunit pseudouridine synthase A [Vibrio coralliilyticus ATCC BAA-450] Length = 233 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 57/208 (27%), Positives = 97/208 (46%), Gaps = 3/208 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A A+R+E ++I V VN I+ + AV V +E G ++K Sbjct: 2 RLDKYLCDALGATRKEATKIIKSGDVTVNDIVQKSGAVKVTDDCIVEWQGREIQKPGPRY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ KP G V +H D T F L + + GRLD++T GL+L+T+DG + Sbjct: 62 IMLF-KPDGFVCSHEDG-FNQTAFMLLDEVKMEDLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV ++ D + ++GI ++ + L+ V + + Sbjct: 120 ITSPKHKCEKTYRVWLVDPIEADYVAQFEQGIELRNEKAATLPAKLEIVDEEEKEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 EGK ++K++F KV L R G Sbjct: 180 TEGKYHQVKRMFAALGNKVEHLHRERIG 207 >gi|87301078|ref|ZP_01083919.1| Pseudouridine synthase, Rsu [Synechococcus sp. WH 5701] gi|87284046|gb|EAQ75999.1| Pseudouridine synthase, Rsu [Synechococcus sp. WH 5701] Length = 224 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 57/182 (31%), Positives = 88/182 (48%), Gaps = 22/182 (12%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L HKP G+++ S P+ S P + V + GRLD ++EGLLLLT+DG L + L Sbjct: 18 LLHKPYGVLSQFS-PEPLSPWSTLAPLVPVPGVYAAGRLDADSEGLLLLTSDGPLQQRLT 76 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------ICYGDM----QVTLDTQK 183 P R Y V+ G L L++G+++QG I D +V Q+ Sbjct: 77 DPRWGHWRRYWVQVEGTPSDAALQQLREGVMVQGRRTLSAQAIALADPGLAERVPPIRQR 136 Query: 184 GS--NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY------GPFQLGTLLAGSTRE 235 S +W+ +GLREG+NR+++++ RL+R++ P L L G R Sbjct: 137 RSIPTSWLELGLREGRNRQVRRMTAAVGLPTLRLLRVAIDLMDGEPPLSLEGLAPGQWRP 196 Query: 236 VS 237 V+ Sbjct: 197 VT 198 >gi|332361775|gb|EGJ39579.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1056] Length = 241 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 74/240 (30%), Positives = 125/240 (52%), Gaps = 13/240 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ +++A A SR+++++ Q+++ V+G + + NV I G + Sbjct: 2 RLDQLLA-ANHISRKKMKQSHLQKQILVDGKPAYKLSQNVDTGLQQITFQGKHVSGPAH- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP G VT + D + + TV D L + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPSGAVTANRDAE-KLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWV 189 L P + Y V +G + QDK+ ++GI + G Q+++ + S + Sbjct: 119 FQLLHPQYHVEKTYYVEVNGPLTSQDKIA-FQEGIRFLDGTICQPAQLSILSSSSSLSRA 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSK---KILREQL 245 TV + EGK +IKK+F KV L RI +G F L LA G R +++ +I++E L Sbjct: 178 TVKISEGKFHQIKKMFLAVGVKVIYLKRIQFGNFTLDPDLAKGDCRPLNQEELEIIKESL 237 >gi|261414799|ref|YP_003248482.1| pseudouridine synthase [Fibrobacter succinogenes subsp. succinogenes S85] gi|261371255|gb|ACX74000.1| pseudouridine synthase [Fibrobacter succinogenes subsp. succinogenes S85] gi|302326658|gb|ADL25859.1| ribosomal large subunit pseudouridine synthase E [Fibrobacter succinogenes subsp. succinogenes S85] Length = 183 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 50/182 (27%), Positives = 89/182 (48%), Gaps = 21/182 (11%) Query: 77 LYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +++KP G+++ + G + F P +++ GRLD ++EG LLLT++G L + L Sbjct: 6 IFNKPFGVLSQFTPEAGHPALDSFGFPPGVYA----AGRLDHDSEGALLLTDNGKLIKKL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----CYGDMQVTLDTQKGSN---- 186 P + R Y + GQ+ ++ + L KG+ I+G C ++ + N Sbjct: 62 LDPKYEHPRTYLAQVDGQITEEAVCKLAKGVDIKGYHTKPCKAEIVEAPEWIWERNPPVR 121 Query: 187 -------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +WV + L EGKNR+++ + + RL+R+ G LG L G R V+ K Sbjct: 122 FRANIPTSWVKLTLIEGKNRQVRHMTAAVGFPTLRLVRVQIGNIPLGKLKPGEWRIVTDK 181 Query: 240 IL 241 ++ Sbjct: 182 VI 183 >gi|150017514|ref|YP_001309768.1| pseudouridine synthase [Clostridium beijerinckii NCIMB 8052] gi|149903979|gb|ABR34812.1| pseudouridine synthase [Clostridium beijerinckii NCIMB 8052] Length = 261 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 70/263 (26%), Positives = 120/263 (45%), Gaps = 36/263 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A A + SR+ V I + VKVN L+ A+ + + D IE + A + Sbjct: 2 RLDKFLAEAAVGSRKNVRIYIKEGMVKVNKELVTEPAIEIDENCDVIEYLNEIVSYAGKL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 ++++KP G +T +D + TVFD L ++ + VGRLD +TEGLLL TNDG Sbjct: 62 -YYMFNKPAGCITAKTD-EIHKTVFDFLGEAGTKGIFHVGRLDKDTEGLLLFTNDGEFEH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC----------------YGDMQ 176 + P + Y G + ++ L++G I G C Y +++ Sbjct: 120 KIMYPEKHVEKTYFFWALGSLSEEDKKQLEQGTYI-GQCKILTKPAKIEVDKFGIYEELK 178 Query: 177 VTLDTQKGSN------------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 + T +N ++T+ EG+ ++K++ + V L RIS G Sbjct: 179 HEMATDNVNNINSNHGTQPVVSGYLTI--SEGRKHQVKRMLKSVGCYVVYLKRISIGGLA 236 Query: 225 LG-TLLAGSTREVSKKILREQLG 246 L +L G R +++ +++ LG Sbjct: 237 LDKSLKKGQYRPLTELEIQKVLG 259 >gi|319794805|ref|YP_004156445.1| pseudouridine synthase [Variovorax paradoxus EPS] gi|315597268|gb|ADU38334.1| pseudouridine synthase [Variovorax paradoxus EPS] Length = 182 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 52/181 (28%), Positives = 88/181 (48%), Gaps = 23/181 (12%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRS---TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +RL ++KP G+++ + P+GR F ++P ++ GRLD ++EGLLLLTNDG Sbjct: 7 SRLIRFNKPYGVLSQFT-PEGRWRGLKDFIDIPDVYV----AGRLDADSEGLLLLTNDGQ 61 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG---- 184 L + P + + Y V+ G ++ L L++G+ + G+ LD Sbjct: 62 LQARIADPRFKMEKTYWVQVEGVPTEEALAALRQGVQLNDGLTRPARASLLDPPPDVWPR 121 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 AW+ + + EG+NR+++++ RLIR + GP L L G+ R Sbjct: 122 QPPIRERKSIPTAWLELAISEGRNRQVRRMTAAVGLPTLRLIRAAIGPHTLDGLAPGTWR 181 Query: 235 E 235 E Sbjct: 182 E 182 >gi|261380161|ref|ZP_05984734.1| ribosomal small subunit pseudouridine synthase A [Neisseria subflava NJ9703] gi|284796999|gb|EFC52346.1| ribosomal small subunit pseudouridine synthase A [Neisseria subflava NJ9703] Length = 227 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 56/223 (25%), Positives = 96/223 (43%), Gaps = 16/223 (7%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERA-------AVNVMSTDHIEVDGVPLRKA 70 K I G+ SR++ + +I + +NG + RA V+ +S D E+ VP+ Sbjct: 5 KYIQSQGLGSRKQCQWLIDNDCIAINGEIHNRAKDDIDPSQVHTLSVDGEEIAAVPMPHF 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDG 128 L HKP T+H P ++F P + +VGRLD +T G++L+TNDG Sbjct: 65 ----YILLHKPADYETSHK-PQQYPSIFSLFPDHMRNIDMQAVGRLDADTTGIILITNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + P + ++YRV D LK G+++ + Sbjct: 120 QFNHRVTSPKHKVPKLYRVTLKHPADDTLCTTLKNGVLLHDDNETVAAAEAVLAAPTTLM 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +T+ EGK ++K++ +V +L R +G + + L G Sbjct: 180 MTI--TEGKYHQVKRMVAAAGNRVEQLHREKFGDWNVDDLATG 220 >gi|154482916|ref|ZP_02025364.1| hypothetical protein EUBVEN_00613 [Eubacterium ventriosum ATCC 27560] gi|149736200|gb|EDM52086.1| hypothetical protein EUBVEN_00613 [Eubacterium ventriosum ATCC 27560] Length = 175 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 49/150 (32%), Positives = 80/150 (53%), Gaps = 4/150 (2%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLARVLE 135 + +KP G+++ SD + + TV D L + + VGRLD +TEGLLL+TNDG L+ L Sbjct: 1 MLNKPAGVLSAVSDNNCK-TVIDLLDVTPKKGLFPVGRLDKDTEGLLLITNDGELSHNLL 59 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 P+ + Y V +G + + L +KG+ I + +K S A +T+ E Sbjct: 60 SPAKHVDKTYYVELNGDLIDSDIELFEKGLDIGEKNLTKPAILKILEKRSTALITI--TE 117 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 GK ++K++F+ V L R++ GP +L Sbjct: 118 GKYHQVKRMFQAIGLTVTFLKRLTMGPLKL 147 >gi|160874235|ref|YP_001553551.1| pseudouridine synthase [Shewanella baltica OS195] gi|160859757|gb|ABX48291.1| pseudouridine synthase [Shewanella baltica OS195] gi|315266469|gb|ADT93322.1| pseudouridine synthase [Shewanella baltica OS678] Length = 256 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 65/215 (30%), Positives = 104/215 (48%), Gaps = 12/215 (5%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTT 87 R+ V ++ RV V+G++++ V HI++D L +A + HKPIG+V+ Sbjct: 41 RKAVRELLLSGRVCVDGLIVKDMDRQVDEFSHIQLDEQIL-QANVPVYVMLHKPIGVVSA 99 Query: 88 HSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 D + TV D L + + GRLD+N+ GLLLLTND + L P+ + +VYR Sbjct: 100 TKDTQHK-TVIDLLDCEARDELHIAGRLDLNSSGLLLLTNDSRWSDALMSPTHKVDKVYR 158 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK---GSNAWVTVGLREGKNREIKK 203 V + ++ + G+ +G +T K ++ V L EGK +IK+ Sbjct: 159 VTLANPITEEYIAAFAAGMY-----FGFEDITTQPAKLVILADNVAEVTLHEGKYHQIKR 213 Query: 204 VFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 +F F V L R+S G L LA G +R ++ Sbjct: 214 MFGRFRNPVVGLHRLSIGDIVLDEKLAPGESRALT 248 >gi|83951841|ref|ZP_00960573.1| RNA pseudouridylate synthase [Roseovarius nubinhibens ISM] gi|83836847|gb|EAP76144.1| RNA pseudouridylate synthase [Roseovarius nubinhibens ISM] Length = 186 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 50/184 (27%), Positives = 95/184 (51%), Gaps = 24/184 (13%) Query: 73 TRLWLYHKPIGLVTTHSD----PDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTN 126 +RL L++KP G+++ +D R+T+ D N+P ++ GRLD ++EGLLLLT+ Sbjct: 2 SRLLLFNKPFGVLSQFTDRGTADSPRATLSDHINIPGVYP----AGRLDRDSEGLLLLTD 57 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----------ICYGDM- 175 DG L + P + + Y V+ G+ D L L++G+ ++ I D+ Sbjct: 58 DGRLQARISHPKFKAPKTYLVQVEGEPDDAALAALRRGVTLKDGPTRPAQAERIAPPDLW 117 Query: 176 --QVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + +K ++W+ + + EG+NR+++++ + RL+R S G + L + G+ Sbjct: 118 PRDPPVRYRKSVPDSWLRLTITEGRNRQVRRMTAHVGYPTLRLVRWSVGDWTLDGIAPGT 177 Query: 233 TREV 236 +E Sbjct: 178 WQEA 181 >gi|107028798|ref|YP_625893.1| pseudouridine synthase, Rsu [Burkholderia cenocepacia AU 1054] gi|116690043|ref|YP_835666.1| pseudouridine synthase, Rsu [Burkholderia cenocepacia HI2424] gi|105897962|gb|ABF80920.1| Pseudouridine synthase, Rsu [Burkholderia cenocepacia AU 1054] gi|116648132|gb|ABK08773.1| Pseudouridine synthase, Rsu [Burkholderia cenocepacia HI2424] Length = 669 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 73/248 (29%), Positives = 113/248 (45%), Gaps = 30/248 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 422 RLSKRMSELGMCSRREADEWIEKGWVLVDGARIDTLGTKVRADQKIEIDERASAAQAAQV 481 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS-----RVISVGRLDINT 118 L HKP+G V+ ++ DG D+ P FS + GRLDI++ Sbjct: 482 TILLHKPVGYVSGQAE-DGYEPAAVLITRANRWSGDHSPVRFSPQHLHALAPAGRLDIDS 540 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQ---VDQ----DKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y RVRF + +DQ + L L+ G+ + G Sbjct: 541 TGLLVLTQNGVIAKQLIGEQSDIDKEYLVRVRFGERLIDIDQHFPAESLAKLRHGLELDG 600 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ Q G + LREGK R+I+++ E V L R+ G LG L Sbjct: 601 VALKPALVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLDVIGLKRVRMGRVMLGALP 656 Query: 230 AGSTREVS 237 G R +S Sbjct: 657 QGQWRYLS 664 >gi|240138865|ref|YP_002963340.1| 16S rRNA pseudouridylate 516 synthase [Methylobacterium extorquens AM1] gi|240008837|gb|ACS40063.1| 16S rRNA pseudouridylate 516 synthase [Methylobacterium extorquens AM1] Length = 242 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 67/230 (29%), Positives = 111/230 (48%), Gaps = 15/230 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTD---HIEVDGVPLRKA 70 R+ +++A G SRREVE + V+++G L A+ + + D + V G L Sbjct: 5 RLDRLLANLGYGSRREVEGLARAGLVRLDGQALRDASQRIPLEPDLSARMTVQGEALDPL 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTN 126 L L HKP+G+ +H + V+ LP + R + +VGRLD T GLLL+T+ Sbjct: 65 PGVCLML-HKPLGVTCSHKEVG--PLVYSLLPERWRRRDPALSTVGRLDKETSGLLLMTD 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG L + P + + YRV + D+ +L G ++++G + V ++T + Sbjct: 122 DGALLHRIISPKAKVSKRYRVTLARPLQGDETAILASGEMMLEGEDKPLLPVEMETDDPT 181 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTR 234 + VT L EG+ +++++F V+ L R G L L AG R Sbjct: 182 HCTVT--LHEGRYHQVRRMFAALGNHVDALHRDRVGGLALPADLPAGEFR 229 >gi|182417049|ref|ZP_02948427.1| ribosomal large subunit pseudouridine synthase B [Clostridium butyricum 5521] gi|237669150|ref|ZP_04529134.1| ribosomal large subunit pseudouridine synthase F [Clostridium butyricum E4 str. BoNT E BL5262] gi|182379058|gb|EDT76562.1| ribosomal large subunit pseudouridine synthase B [Clostridium butyricum 5521] gi|237657498|gb|EEP55054.1| ribosomal large subunit pseudouridine synthase F [Clostridium butyricum E4 str. BoNT E BL5262] Length = 270 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 71/269 (26%), Positives = 115/269 (42%), Gaps = 45/269 (16%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K+ + GI SR+E ++I Q+R+K+NG E + V D I DG ++ E+ Sbjct: 2 RINKLFSNLGICSRKETNKLIEQKRIKING---EYCVLGQWVEDNDEILFDGERVKSMEK 58 Query: 73 TRLWLYHKPIGLVTT-HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L Y KP G+ T + G + N V VGRLD ++EGL++LTNDG + Sbjct: 59 VYLAFY-KPKGITCTLEKNAQGNIGEYINYNQY---VFPVGRLDKDSEGLIILTNDGVFS 114 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--------------QGICYGDMQ- 176 + + + Y V+ D + L ++ G+ I +GI D + Sbjct: 115 NHILECDNKHEKEYIVKVDKPFDDNFLLSMRTGVEISAKSGSGVKRISDSEGIVIKDGKD 174 Query: 177 --VTLDTQKG------------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + LD K + + L +G NR+I+K+ +KV L Sbjct: 175 EIIMLDEAKNGKMKKDIVKTRPCKVERINEDTFKIILTQGLNRQIRKMSSVLGYKVISLK 234 Query: 217 RISYGPFQLGTLLAGSTREVSKKILREQL 245 RI L L G R + K+ + E + Sbjct: 235 RIRIMNIHLDYLECGEYRLIPKEHIDELM 263 >gi|21241064|ref|NP_640646.1| pseudouridylate synthase [Xanthomonas axonopodis pv. citri str. 306] gi|21106359|gb|AAM35182.1| pseudouridylate synthase [Xanthomonas axonopodis pv. citri str. 306] Length = 192 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 51/176 (28%), Positives = 83/176 (47%), Gaps = 21/176 (11%) Query: 77 LYHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+++ SD P R+ LP V + GRLD ++EGLL+LT+DG LA Sbjct: 6 LLNKPYGVLSQFSDRSQPPKRTLAEFGLPP---DVYAAGRLDHDSEGLLVLTDDGALAHR 62 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG-------- 184 L P + + Y V+ G + L L+ G+ + QV LD Sbjct: 63 LTDPRHKQPKTYWVQVEGAPQAEHLQALRDGVALNDGPTRPAQVRMLDPAPQLWPRDPPV 122 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +AW+ + + EG+NR+++++ RL+R++ G ++L L G R Sbjct: 123 RVRKTVPDAWLELQITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDALAPGQWR 178 >gi|238755438|ref|ZP_04616779.1| Ribosomal small subunit pseudouridine synthase A [Yersinia ruckeri ATCC 29473] gi|238706375|gb|EEP98751.1| Ribosomal small subunit pseudouridine synthase A [Yersinia ruckeri ATCC 29473] Length = 235 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 57/236 (24%), Positives = 108/236 (45%), Gaps = 3/236 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV V+G +++ A+ + + DG L++ R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTVDGEIVKTGALKLTPEQEVMFDGNLLQQQVGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D G+ + L+ + +T+ Sbjct: 122 TSPKHHCEKTYLVTLEHPVADDTAEQFAVGVQLHNEPTLTKPAQLEVIEPQQVRLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G + LA G R ++++ + PHL Sbjct: 180 EGRYHQVKRMFGAVGNRVVALHRERIGAIVMDDDLAPGEYRPLTEEEIASVGAPHL 235 >gi|83593274|ref|YP_427026.1| ribosomal large subunit pseudouridine synthase E [Rhodospirillum rubrum ATCC 11170] gi|83576188|gb|ABC22739.1| ribosomal large subunit pseudouridine synthase E [Rhodospirillum rubrum ATCC 11170] Length = 199 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 52/183 (28%), Positives = 90/183 (49%), Gaps = 18/183 (9%) Query: 74 RLWLYHKPIGLVTTHSD-PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 RL L +KP +++ +D +GR+T+ +P V GRLD ++EGLLLLT++G L Sbjct: 3 RLILLNKPYDVLSQFTDRAEGRATLASLVP--IPGVYVCGRLDRDSEGLLLLTDNGPLQH 60 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG------- 184 + P ++ + YR + G D+ L+ L++G+ ++ G +D G Sbjct: 61 HISHPRSKVPKTYRAQVEGVADKAALDRLRQGVTLRDGPARAVTVEAIDEPAGLWPRDPP 120 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + + EG+NR ++++ RLIR S G + L L GS RE + Sbjct: 121 IRWRANIPTSWIELTIDEGRNRMVRRMTAAVGLPTLRLIRWSIGDWTLENLPPGSWREET 180 Query: 238 KKI 240 + Sbjct: 181 ASL 183 >gi|84393834|ref|ZP_00992579.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio splendidus 12B01] gi|84375529|gb|EAP92431.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio splendidus 12B01] Length = 231 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 60/227 (26%), Positives = 107/227 (47%), Gaps = 6/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +RRE ++ + V VN ++ + ++ V +E G L R Sbjct: 2 RLDKFLCDALGVTRREATHLLKSKAVTVNDVIQKSGSLKVTEECVVEWQGNEL-NVHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G V +H D R F+ L I ++ GRLDI+T GL+L+T+DG + Sbjct: 61 YIMLYKPEGFVCSHEDGANR-IAFELLDEIKMDKLHFAGRLDIDTTGLVLITDDGKWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV V+ D + K+GI ++ + L+ + +T+ Sbjct: 120 ITSPKHKCEKTYRVWLVEPVEDDYVEKFKEGIQLKSEDGLTLPAHLEVRAEREVLLTI-- 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EGK ++K++F KV L R G ++ +L G R ++++ Sbjct: 178 HEGKYHQVKRMFAALGNKVEGLHRERIGEIEMDESLELGEYRYLTQE 224 >gi|332976275|gb|EGK13136.1| ribosomal small subunit pseudouridine synthase A [Psychrobacter sp. 1501(2011)] Length = 234 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 69/229 (30%), Positives = 116/229 (50%), Gaps = 15/229 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K I++A SR+E ++++ + VN +++ +++V + D + G PL A + Sbjct: 2 RLDKFISKATELSRKEAKKVLHASEITVNDEVVKDGSLHVDVLNDEVMWAGEPLSVATGS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R L +KP G T P V D +P + + I+ GRLD++T G LLL++DGG Sbjct: 62 RYLLLYKPEGFECT-LKPKEYPMVTDLIAVPELGNLRIA-GRLDVDTTGALLLSDDGGWL 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQ-DKLNLLKKGIVIQGICY-GDMQ----VTLDTQKGS 185 + P +VY + +D+ ++ + +KK V QGI GD + TL+ + Sbjct: 120 HRVTSPRHLHEKVYELTLAEPMDEAEQAHAVKK--VAQGILLDGDYEPTKPATLEFIDET 177 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +A + L EGK ++K++ +F KV L R S G L L G +R Sbjct: 178 HARLI--LTEGKYHQVKRMMGYFGNKVIELHRASIGGVTLEGLEKGESR 224 >gi|213024491|ref|ZP_03338938.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhi str. 404ty] Length = 182 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 51/174 (29%), Positives = 83/174 (47%), Gaps = 17/174 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 10 RVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLTNDGALQAR 67 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVT 178 L P + ++Y V+ G D L L+ G+ + GI + Sbjct: 68 LTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLWPRTPPI 127 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ V L EG+N +++++ RLIR S G + L L+ S Sbjct: 128 RERKNIPTSWLKVTLYEGRNHQVRRMTAHVGHPTLRLIRYSMGDYTLNGLIMDS 181 >gi|254457376|ref|ZP_05070804.1| ribosomal small subunit pseudouridine synthase A [Campylobacterales bacterium GD 1] gi|207086168|gb|EDZ63452.1| ribosomal small subunit pseudouridine synthase A [Campylobacterales bacterium GD 1] Length = 226 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 60/227 (26%), Positives = 107/227 (47%), Gaps = 14/227 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV ++ G SR E ++ + +V+VNG + V D I +D + L T Sbjct: 6 KRVDAHLSSLGYCSRSEAKKFLKIFQVRVNGERVFDTNKKVYHND-IIIDEIVLDPETLT 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTNDGG 129 L HKP G++ +H D ++ LP + + + ++GRLD +T G +LLT+DG Sbjct: 65 VLM--HKPSGIICSHDDVG--VLIYSLLPERWQKRNPKLSTIGRLDGDTTGAILLTDDGA 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNA 187 L L P + ++Y V + ++ + G + I G+ + L + S + Sbjct: 121 LNHRLTSPKSDISKLYEVTLAQPLKGNEAEIFTSGTL---ILRGEKKPLLPAKMNVISES 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V + + EGK ++K++F KV L R+S+G + + L G + Sbjct: 178 VVHLEISEGKYHQVKRMFAAVGNKVTALHRVSFGKYSIENLAIGEYK 224 >gi|229916458|ref|YP_002885104.1| pseudouridine synthase [Exiguobacterium sp. AT1b] gi|229467887|gb|ACQ69659.1| pseudouridine synthase [Exiguobacterium sp. AT1b] Length = 237 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 57/214 (26%), Positives = 109/214 (50%), Gaps = 12/214 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++A G SR++V+ ++ Q V+V+ L++ A +V S++ + V G + Sbjct: 2 RIDKLLANMGYGSRKDVKILLKQGAVRVDEALVKDAKRHVDPSSEKVTVFG----EVVEY 57 Query: 74 RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDG 128 R ++Y +KP G+++ D +TV + + S ++ + VGRLD +T GLLL+TNDG Sbjct: 58 RPYIYFMMNKPEGVISATED-QVETTVIELIDSEYAHYDLFPVGRLDKDTTGLLLITNDG 116 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNA 187 L P +VY G++ + + G+ ++ G ++ + ++ G + Sbjct: 117 AFNHALMSPRKHVDKVYIAEVDGEMTVEDIKTFANGVELEDGYTTKPARLEILSRSGRRS 176 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + + L EGK ++K++ V RL R+ G Sbjct: 177 VIRLTLSEGKYHQVKRMVAAVGKHVERLERVQIG 210 >gi|319796303|ref|YP_004157943.1| RNA-binding s4 domain protein [Variovorax paradoxus EPS] gi|315598766|gb|ADU39832.1| RNA-binding S4 domain protein [Variovorax paradoxus EPS] Length = 277 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 83/276 (30%), Positives = 119/276 (43%), Gaps = 50/276 (18%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P R++K +A + SRRE + IA VKVNG E V V +D IE+D + Sbjct: 10 APVRLNKRMAELKMCSRREADEWIANGWVKVNGKPAE-MGVKVTPSDRIEIDKAAKGQQA 68 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRS---TVF--------DNLPSIFSR-----VISVGRLD 115 L +KPIG V+ ++ DG T+F DN FS + GRLD Sbjct: 69 NQVTILINKPIGYVSGQAE-DGHEPAVTLFTPQNRWAEDNARFFFSPQQLRGLAPCGRLD 127 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHG-----------QVDQDKLNLLK 162 I++ GLL++T DG +AR L + + Y RV ++G ++D D Sbjct: 128 IDSIGLLVMTQDGRVARQLIGEDSVMEKEYLVRVAYYGPGQSAPTGQLIRMDDDDPVTQN 187 Query: 163 KGIVIQGICYGDMQ--VTLDTQKGSNA---W-----VTVGLREGKNREIKKVFEFFNWKV 212 V ++ ++LD Q+ A W + L EGK R+I+++ E KV Sbjct: 188 VQAVFPPAMLARLRHGLSLDGQQLKPARVEWQNPEQLRFVLTEGKKRQIRRMCELVGLKV 247 Query: 213 NRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 L R+ G LG L G R LGPH Sbjct: 248 VGLKRVRIGKVMLGNLPVGQWR---------YLGPH 274 >gi|167581475|ref|ZP_02374349.1| pseudouridine synthase family protein [Burkholderia thailandensis TXDOH] Length = 324 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 71/245 (28%), Positives = 112/245 (45%), Gaps = 30/245 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D + Sbjct: 77 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAEQAAQV 136 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDINT 118 L HKP+G V+ ++ DG + D P FS R ++ GRLDI++ Sbjct: 137 TILLHKPVGYVSGQAE-DGYAPAATLVTRENHWGGDRSPLRFSPQHLRALAPAGRLDIDS 195 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQ-------DKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y RVRF + + L L+ G+ + G Sbjct: 196 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTTDIERHFPAESLAKLRHGLELDG 255 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ Q G + LREGK R+I+++ E +V L R+ G LG L Sbjct: 256 VPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 311 Query: 230 AGSTR 234 G R Sbjct: 312 QGQWR 316 >gi|251782725|ref|YP_002997028.1| ribosomal small subunit pseudouridine synthaseA [Streptococcus dysgalactiae subsp. equisimilis GGS_124] gi|242391355|dbj|BAH81814.1| ribosomal small subunit pseudouridine synthaseA [Streptococcus dysgalactiae subsp. equisimilis GGS_124] Length = 245 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 67/227 (29%), Positives = 104/227 (45%), Gaps = 19/227 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K + G+ SR +V+ ++ ++ + VN + V + D + G PL E Sbjct: 4 RLDKFLVETGVGSRSQVKSLLKKKAILVNQEVETSPKVQINEHKDVVTYLGKPL-TYEAF 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G ++ D ++TV D L + V VGRLD +T GLLLLTN+G LA Sbjct: 63 VYYILNKPAGFLSATKDR-AQATVIDLLDETARQKDVFPVGRLDKDTRGLLLLTNNGQLA 121 Query: 132 RVLELPSTQWLRVYRVRFHG-QVDQDKLNLLKKGIVIQGICYGDMQV------TLDTQKG 184 L P + Y + G D DK + K GI D Q LD Sbjct: 122 HDLLSPKKHVTKEYLAKVAGIMTDADKDDFAK------GISLKDHQCLPAKLEVLDKDLS 175 Query: 185 SNAW-VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V++ ++EGK ++K++ +V L R+S GP +L LA Sbjct: 176 QETCVVSITIQEGKFHQVKRMVAACGKEVLELQRLSMGPLRLDPGLA 222 >gi|213028620|ref|ZP_03343067.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. 404ty] Length = 122 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 46/123 (37%), Positives = 75/123 (60%), Gaps = 9/123 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPL 67 T R++K I+ +GI SRRE +R I Q V +NG +RAA+ V++ D ++V+G + Sbjct: 5 TSTRLNKYISESGICSRREADRFIEQGNVFING---KRAAIGDQVVAGDVVKVNGRLIEP 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+A+ L +KP+G+V+T D + R + D + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGL 130 G L Sbjct: 120 GDL 122 >gi|28198396|ref|NP_778710.1| ribosomal small subunit pseudouridine synthase [Xylella fastidiosa Temecula1] gi|182681039|ref|YP_001829199.1| pseudouridine synthase [Xylella fastidiosa M23] gi|28056466|gb|AAO28359.1| ribosomal small subunit pseudouridine synthase [Xylella fastidiosa Temecula1] gi|182631149|gb|ACB91925.1| pseudouridine synthase [Xylella fastidiosa M23] gi|307579507|gb|ADN63476.1| ribosomal small subunit pseudouridylate synthase [Xylella fastidiosa subsp. fastidiosa GB514] Length = 236 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 71/231 (30%), Positives = 109/231 (47%), Gaps = 9/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++ K IA G SR+EV R+ + R+ + + A +V T + DG PL Sbjct: 2 KLLKYIANLGYGSRKEVARIFREGRITNDEGEVLYADDHVQHT-AVRFDGEPLDPPPGLM 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVIS-VGRLDINTEGLLLLTNDGGL 130 + L HKP G + + D GR V+D LP+ F S ++S VGRLD +T GLLLLT+DG L Sbjct: 61 VML-HKPSGYICSTKDA-GR-LVYDLLPARFRLRSPLLSTVGRLDGDTSGLLLLTDDGAL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P T +VY + D+ L G ++ +Q + G V Sbjct: 118 LHRMISPKTHLPKVYEATLVQALRGDEATLFASGTLLLDGDTKPLQPAVLEVLGP-CQVR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EG+ +++++F +VN L R + G L L G R + + L Sbjct: 177 LTLYEGRYHQVRRMFGATGNRVNTLHRSAIGGLVLDGLPEGQWRVLEAQDL 227 >gi|34098591|sp|Q8PQN3|RLUE_XANAC RecName: Full=Ribosomal large subunit pseudouridine synthase E; AltName: Full=rRNA pseudouridylate synthase E; AltName: Full=rRNA-uridine isomerase E Length = 190 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 51/176 (28%), Positives = 83/176 (47%), Gaps = 21/176 (11%) Query: 77 LYHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+++ SD P R+ LP V + GRLD ++EGLL+LT+DG LA Sbjct: 4 LLNKPYGVLSQFSDRSQPPKRTLAEFGLPP---DVYAAGRLDHDSEGLLVLTDDGALAHR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG-------- 184 L P + + Y V+ G + L L+ G+ + QV LD Sbjct: 61 LTDPRHKQPKTYWVQVEGAPQAEHLQALRDGVALNDGPTRPAQVRMLDPAPQLWPRDPPV 120 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +AW+ + + EG+NR+++++ RL+R++ G ++L L G R Sbjct: 121 RVRKTVPDAWLELQITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDALAPGQWR 176 >gi|167919518|ref|ZP_02506609.1| pseudouridine synthase family protein [Burkholderia pseudomallei BCC215] Length = 361 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 114 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEID-SNARAAQAAQ 172 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 173 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 231 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 232 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 290 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 291 DGVPLKPAMVSW--QNGEQ--LCFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 346 Query: 228 LLAGSTR 234 L G R Sbjct: 347 LPQGEWR 353 >gi|86132523|ref|ZP_01051117.1| pseudouridylate synthase [Dokdonia donghaensis MED134] gi|85817084|gb|EAQ38268.1| pseudouridylate synthase [Dokdonia donghaensis MED134] Length = 296 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 61/226 (26%), Positives = 103/226 (45%), Gaps = 4/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +G+ SRRE + I+ +V VNG ++ V D + DG + E Sbjct: 66 RLNKYIANSGVCSRREADMYISIGQVTVNGKVINEMGYQVKIEDDVRFDGRRI-NPEAKA 124 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G TT S+ G +TV D + S SR+ +GRL N GLLL TND L + Sbjct: 125 YVLLNKPKGFATTTSNDKG-NTVMDLVAGSTKSRIQPIGRLGRNAMGLLLFTNDDELVQR 183 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 ++Y + + +++G+ I G +++ V + + Sbjct: 184 FTNSKKGVDKLYHIELSNNLKAADAERIREGLKIGGKTIMVEEISF-VDGAPKKEVGLRI 242 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + N I+ +FE N++V R+ ++ L G R ++K+ Sbjct: 243 KNTGNSIIRTIFEHLNYEVVRVDCVTIAGLTKKDLPRGHWRHLTKQ 288 >gi|90408099|ref|ZP_01216269.1| hypothetical protein PCNPT3_08150 [Psychromonas sp. CNPT3] gi|90310785|gb|EAS38900.1| hypothetical protein PCNPT3_08150 [Psychromonas sp. CNPT3] Length = 209 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 51/173 (29%), Positives = 90/173 (52%), Gaps = 24/173 (13%) Query: 80 KPIGLVTTHSDPDGRS--TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 KP G ++ P+ R ++ L + ++++GRLD ++EGLLLLT DG ++ ++ Sbjct: 26 KPYGFLSQFV-PEKRKKKSLLGELFNFPENIMAIGRLDHDSEGLLLLTTDGMMS--YKIR 82 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKG--IVIQGICYG---------DMQVTL------- 179 S + Y V+ G++ ++LL+KG I I G Y D++ L Sbjct: 83 SKGIEKEYYVQVDGEITAQAMSLLQKGVEIAINGATYLTLPCKAFKLDVEPKLPTRGRKI 142 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 D + G +WV++ L EGKNR+I+K+ + RL+R+ G + +++AG Sbjct: 143 RDPRHGPTSWVSITLCEGKNRQIRKMTAAVGFATLRLVRVRIGDIHIDSMIAG 195 >gi|330840760|ref|XP_003292378.1| hypothetical protein DICPUDRAFT_157085 [Dictyostelium purpureum] gi|325077385|gb|EGC31101.1| hypothetical protein DICPUDRAFT_157085 [Dictyostelium purpureum] Length = 533 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 59/236 (25%), Positives = 113/236 (47%), Gaps = 11/236 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ ++++ GI R V R + ++RV ++G ++A ++ S D + +DG + Sbjct: 10 RIDRLLSNLGIVERSSVPRFLNEKRVTISG---KKATLSSKASPDEVRIDGKLIENPSAL 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISV-GRLDINTEGLLLLTNDGG 129 L L HKP G + + + V+D LP F + S+ GRLD GL++ + DG Sbjct: 67 HLAL-HKPSGYICSTVNDGDHKVVYDLLPKDFQSRKPIPSIAGRLDKWVTGLVIFSQDGK 125 Query: 130 LARVLELPSTQWL-RVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNA 187 L + P + Y V ++ D++ + + G ++++G L+ S Sbjct: 126 LVERIITPKDDGCGKDYEVVLKNKLGGDEIGVFESGGLMLRGEEAPCKPAKLEILDESKN 185 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V V L EG+ +++++F + K + R GP +LG L G R +++K +++ Sbjct: 186 KVKVTLFEGRYHQVRRMFAANDNKALEIHRTRIGPVELGDLPVGKWRHLTEKEIQD 241 >gi|229515031|ref|ZP_04404491.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae TMA 21] gi|229347736|gb|EEO12695.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae TMA 21] Length = 231 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 62/229 (27%), Positives = 108/229 (47%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +R+E +++ V V+ ++ + A + T +E G + R Sbjct: 2 RLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSRVEWQGREI-TLHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+V +H D + T F L + + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDGFNQ-TAFTLLDEVNIQDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + YRV + D +GI ++ G+ ++TL Q S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELR----GERELTLPAQLEVISETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F KV L R G L TL +G R ++++ Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLESGEYRYLTEE 224 >gi|167619584|ref|ZP_02388215.1| pseudouridine synthase family protein [Burkholderia thailandensis Bt4] Length = 364 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 110/245 (44%), Gaps = 30/245 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D + Sbjct: 117 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAEQAAQV 176 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS-----RVISVGRLDINT 118 L HKP+G V+ ++ DG + D P FS + GRLDI++ Sbjct: 177 TILLHKPVGYVSGQAE-DGYAPAATLVTRENHWGGDRSPLRFSPQHLRALAPAGRLDIDS 235 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQ-------DKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y RVRF + + L L+ G+ + G Sbjct: 236 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTTDIERHFPAESLAKLRHGLELDG 295 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ Q G + LREGK R+I+++ E +V L R+ G LG L Sbjct: 296 VPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 351 Query: 230 AGSTR 234 G R Sbjct: 352 QGQWR 356 >gi|17228041|ref|NP_484589.1| hypothetical protein alr0545 [Nostoc sp. PCC 7120] gi|17129890|dbj|BAB72503.1| alr0545 [Nostoc sp. PCC 7120] Length = 204 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 51/179 (28%), Positives = 87/179 (48%), Gaps = 16/179 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++HKP G+++ + + + + V VGRLD ++EGLLLLTN+G L Sbjct: 6 RYIIFHKPYGVLSQFTQESPKHITLKDYIDV-PDVYPVGRLDWDSEGLLLLTNNGRLQHR 64 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--------------CYGDMQVTL 179 L P R Y V+ D++ ++ L+ G+ I+ GD Q + Sbjct: 65 LSDPRFGHERTYWVQVERIPDEEAISKLQTGVEIRDYRTRPAKVGLLPEYPPVGDRQPPI 124 Query: 180 DTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +K AW+ + L EGKNR+++++ + RL+R+S G +L L G R+++ Sbjct: 125 RFRKNVPTAWLEMTLTEGKNRQVRRMTAAVGFPTLRLVRVSIGHLRLDGLALGEWRDLT 183 >gi|320539364|ref|ZP_08039033.1| putative 16S rRNA pseudouridylate 516 synthase [Serratia symbiotica str. Tucson] gi|320030489|gb|EFW12499.1| putative 16S rRNA pseudouridylate 516 synthase [Serratia symbiotica str. Tucson] Length = 239 Score = 70.5 bits (171), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 55/236 (23%), Positives = 110/236 (46%), Gaps = 3/236 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +R+ V+G +++ AV + ++ DG L + R Sbjct: 2 RLDKFLSQQLGISRALVARELRARRITVDGEVVKNGAVKLAVEQEVKFDGNLLAQQNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + + + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYNLHAAGRLDIDTTGLVLMTDDGQWSHRV 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + + G+ + + + +K ++ V + + Sbjct: 122 TSPKHHCEKTYLVTLEHSLAANTAQRFAAGVQLHN--EKSLTRPVQLEKINDRQVRLAIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G + LA G+ R ++ + + PHL Sbjct: 180 EGRYHQVKRMFAAIGNRVIALHRERIGTIVMDKDLASGAYRPLTAEEIASVGAPHL 235 >gi|304395011|ref|ZP_07376895.1| pseudouridine synthase [Pantoea sp. aB] gi|304357264|gb|EFM21627.1| pseudouridine synthase [Pantoea sp. aB] Length = 292 Score = 70.5 bits (171), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 62/233 (26%), Positives = 113/233 (48%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +RA+V V + D ++V+G + R Sbjct: 8 RLNKYISESGICSRRDADRYIEQGNVFING---KRASVGAQVFAGDVVKVNGQLIEPRDE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP+G++TT +G + + RV +GRLD +++GL+ LTN G L Sbjct: 65 DDLVLIALNKPVGIITTME--EGERDNISDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ + G + +K + Sbjct: 123 VNKILRAGNNHEKEYVVTVDKPITDEFIAGMSAGVPM----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ + F ++V +L R L L G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCKHFGFEVTKLERTRIMNVNLKGLPLGEWRDLTDDELVE 231 >gi|325915913|ref|ZP_08178209.1| ribosomal small subunit pseudouridine synthase A [Xanthomonas vesicatoria ATCC 35937] gi|325537880|gb|EGD09580.1| ribosomal small subunit pseudouridine synthase A [Xanthomonas vesicatoria ATCC 35937] Length = 237 Score = 70.5 bits (171), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 72/238 (30%), Positives = 110/238 (46%), Gaps = 13/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++ K IA G SR++V ++ Q V V G +L A + + D I +DG PL Sbjct: 2 KLVKHIANLGYGSRKQVTQLFRQGAVTDVQGEVLY--ADDQVEHDAIRIDGEPLDPPPGF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SR---VISVGRLDINTEGLLLLTNDGG 129 L L HKP G + D GR +++ LP F SR + VGRLD +T G+LL+T+DG Sbjct: 60 SLLL-HKPSGYTCSTKD-TGR-LIYELLPPRFRSRAPVLAPVGRLDRDTSGMLLMTDDGA 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAW 188 L + P + +VY V + D+ L G ++++G + L+ A Sbjct: 117 LLHRIISPKSALDKVYEVSLAEDLRGDEAALFASGTLLLEGETKPLLPAELEVLGPRQAR 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +T L EG+ +++++F V L R G L L AG R + L G Sbjct: 177 LT--LHEGRYHQVRRMFAAAGNHVAALHRSRIGGLSLDALPAGQWRALDASDLEVLFG 232 >gi|87118320|ref|ZP_01074219.1| hypothetical ribosomal small subunit pseudouridine synthase A [Marinomonas sp. MED121] gi|86165954|gb|EAQ67220.1| hypothetical ribosomal small subunit pseudouridine synthase A [Marinomonas sp. MED121] Length = 230 Score = 70.5 bits (171), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 55/219 (25%), Positives = 102/219 (46%), Gaps = 19/219 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I ++ ++ + + I VK+N ++ V + + + +D L R Sbjct: 2 RLDKFICKSTNLNKEQAQAQIQAGIVKINNDIVCDIKAQVHANNQVRLDN-RLLYLRPFR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--------RVISVGRLDINTEGLLLLTN 126 L+HKP + ++ D +N PS+F+ + VGRLD++T G++L+T+ Sbjct: 61 YILFHKPANTICSNLD--------ENYPSLFNFLDIEYLDELHIVGRLDVDTTGMVLITD 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + P Q ++ YRV +D+ + K G+ +QG + L N Sbjct: 113 DGHWSFNITRPEKQCVKEYRVSLSQTLDESAIEQFKYGLKLQGEAELTLPARLTFIDDKN 172 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V +G+ +GK ++K++F +V RL R + G L Sbjct: 173 --VVLGITQGKFHQVKRMFAALGNRVVRLHRQAIGSVTL 209 >gi|66811146|ref|XP_639281.1| hypothetical protein DDB_G0282961 [Dictyostelium discoideum AX4] gi|60467911|gb|EAL65924.1| hypothetical protein DDB_G0282961 [Dictyostelium discoideum AX4] Length = 571 Score = 70.5 bits (171), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 63/239 (26%), Positives = 114/239 (47%), Gaps = 17/239 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAERT 73 R+ ++++ G+ R V + + +RV V G + A N+ I++DG P+ E Sbjct: 10 RIERILSNLGVCERSRVPQFLRDKRVTVLGKKVTPATKANIKD---IQIDGEPIENGETL 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISV-GRLDINTEGLLLLTNDGG 129 + + HKP G + + + ++D LP F + +S+ GRLD GL++L+ DG Sbjct: 67 HIAV-HKPSGYICSTVNDHDHKIIYDILPKEFFKRKPTLSIAGRLDKWVTGLVVLSQDGK 125 Query: 130 LA-RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQG---ICYGDMQVTLDTQKG 184 L R++ + Y V ++ D+ + + G I+++G C LD +K Sbjct: 126 LVDRIISPKDDGCGKDYEVVLKDKLVGDEAEVFESGKIMLRGESTPCKPAKLQVLDKEKN 185 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V V L EG+ +I+++F K + R GP +LG L G R ++++ L+E Sbjct: 186 K---VKVTLYEGRYHQIRRMFASTENKAVEIHRTRIGPVELGDLGLGKWRHLTEQELKE 241 >gi|167646666|ref|YP_001684329.1| pseudouridine synthase [Caulobacter sp. K31] gi|167349096|gb|ABZ71831.1| pseudouridine synthase [Caulobacter sp. K31] Length = 245 Score = 70.5 bits (171), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 62/225 (27%), Positives = 110/225 (48%), Gaps = 14/225 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE----VDGVPLRKA 70 R+ +++A G SRR+V+ +++ +V ++G+ ++ A + T + + GVP+ Sbjct: 8 RLDRLLANLGYGSRRDVQALVSTGKVTLDGVAIKDAGQKIAVTADLPLRMRIRGVPVDPP 67 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----RVISVGRLDINTEGLLLLTN 126 L L HKP+G+V +H + DG ++D LP + + SVGRLD +T GLLL+T+ Sbjct: 68 APLVL-LMHKPLGVVCSHRE-DGER-IYDLLPKRWQIRDPALSSVGRLDKDTSGLLLITD 124 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG + P +VYR ++ + G ++++G + TLD Sbjct: 125 DGDFLHRVISPKRHVPKVYRATLDRPLNGTEGAAFASGALMLEGEEKPLLPATLDVLGDH 184 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 A +T+ EG+ +++++F V L R G L LA Sbjct: 185 EARLTI--TEGRYHQVRRMFAAVGNHVVGLHRERIGGIDLPEDLA 227 >gi|239617854|ref|YP_002941176.1| pseudouridine synthase [Kosmotoga olearia TBF 19.5.1] gi|239506685|gb|ACR80172.1| pseudouridine synthase [Kosmotoga olearia TBF 19.5.1] Length = 235 Score = 70.5 bits (171), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 70/242 (28%), Positives = 118/242 (48%), Gaps = 16/242 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRKAE 71 R+ ++R G SRR+ ++I RV+VNG + + I +DG VP K Sbjct: 2 RLDTFLSRFGGISRRQSRKLIKTGRVEVNGAKIRNPEFKIPENSSIFLDGNRIVPYGK-- 59 Query: 72 RTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGG 129 L++ +KP+G V + S +G S V+D + +FS +S+ GRLD N+ GLLLL+NDG Sbjct: 60 ---LYIAMNKPVGYVCSKSRTEGLS-VYDLINEVFSSKLSIAGRLDKNSRGLLLLSNDGN 115 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + P + + Y V+ ++ ++L +L + + I G+ Q Sbjct: 116 FVHEIISPRKKIEKEYIVKVEEKILPEQLQILLQHV---DIGKGEYARAESVQFIDIVTF 172 Query: 190 TVGLREGKNREIKKVFE-FFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 ++ L EGK EI+++ + V L RI G + L G L G R ++++ ++ G Sbjct: 173 SIVLTEGKYHEIRRMVKSALKNNVVDLKRIRIGGYHLPGDLHEGEWRILTEEEIKAATGK 232 Query: 248 HL 249 L Sbjct: 233 IL 234 >gi|320540370|ref|ZP_08040020.1| putative 16S RNA U516 pseudouridine synthase [Serratia symbiotica str. Tucson] gi|320029301|gb|EFW11330.1| putative 16S RNA U516 pseudouridine synthase [Serratia symbiotica str. Tucson] Length = 203 Score = 70.5 bits (171), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 54/180 (30%), Positives = 90/180 (50%), Gaps = 19/180 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR+T+ +P F+ V + GRLD ++EGLL+L N+G L Sbjct: 25 RVVLFNKPFDVLPQFTDAAGRTTLKAFIP--FTDVYAAGRLDRDSEGLLVLNNEGKLQAQ 82 Query: 134 LELPSTQWLRVYRVRFHGQVDQDK-LNLLKKGIVIQ-GICYGDMQVTLDTQKG------- 184 L P + +VY V+ G V QD+ L L+ G+ ++ G + +D + Sbjct: 83 LTQPGKRIGKVYFVQVEG-VPQDRDLTPLRHGVTLKDGPTLPAIVERVDEPQWLWPRNPP 141 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ + L EG+NR+I+++ + RLIR S G LG L G + + Sbjct: 142 IRERKSIPTTWLKITLFEGRNRQIRRMTAHIGFPTLRLIRYSMGNLSLGELQPGEWKNLD 201 >gi|119484911|ref|ZP_01619393.1| Pseudouridine synthase, Rsu [Lyngbya sp. PCC 8106] gi|119457729|gb|EAW38853.1| Pseudouridine synthase, Rsu [Lyngbya sp. PCC 8106] Length = 202 Score = 70.5 bits (171), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 52/184 (28%), Positives = 87/184 (47%), Gaps = 27/184 (14%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA--- 131 L++KP ++ +D D ++ L S V VGRLD ++EGLLLLTN G + Sbjct: 7 LFYKPYDVLCQFTDNDPTTSPRKTLKDFISIPGVYPVGRLDRDSEGLLLLTNQGKIQHRL 66 Query: 132 --RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS---- 185 R P T W++V + D+ LN L+ G+ I+ QV L + + Sbjct: 67 SHRKFNHPRTYWVQVEHI-----PDETALNALRAGVQIKDYQTRSAQVQLLPTEPALPPR 121 Query: 186 -----------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 AW+ + L EG+NR+I+++ + RL+R++ F+L L G R Sbjct: 122 DPPIRFRKTVPTAWLEITLTEGRNRQIRRMTAAVGFPTLRLVRVAIADFRLDGLKPGQWR 181 Query: 235 EVSK 238 ++++ Sbjct: 182 DLTQ 185 >gi|298717565|ref|YP_003730207.1| pseudouridylate synthase [Pantoea vagans C9-1] gi|298361754|gb|ADI78535.1| pseudouridylate synthase [Pantoea vagans C9-1] Length = 292 Score = 70.5 bits (171), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 62/233 (26%), Positives = 113/233 (48%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +RA+V V + D ++V+G + R Sbjct: 8 RLNKYISESGICSRRDADRYIEQGNVFING---KRASVGAQVFAGDVVKVNGQLIEPRDE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP+G++TT +G + + RV +GRLD +++GL+ LTN G L Sbjct: 65 DDLVLIALNKPVGIITTME--EGERDNISDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ + G + +K + Sbjct: 123 VNKILRAGNNHEKEYVVTVDKPITDEFIAGMSAGVPM----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ + F ++V +L R L L G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCKHFGFEVTKLERTRIMNVNLKGLPLGEWRDLTDDELVE 231 >gi|188989694|ref|YP_001901704.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. B100] gi|167731454|emb|CAP49629.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris] Length = 223 Score = 70.5 bits (171), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 52/182 (28%), Positives = 88/182 (48%), Gaps = 21/182 (11%) Query: 79 HKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +KP G+++ SD P R+ LP +V + GRLD ++EGLLLLT+DG LA L Sbjct: 42 NKPYGVLSQFSDRSTPPKRTLAEFGLPP---QVYAAGRLDHDSEGLLLLTDDGPLAHRLT 98 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTLDTQKG---- 184 P + + Y V+ G D +L L G+++ + + TL + Sbjct: 99 DPRHKQPKTYWVQVEGDPDTSQLQALCDGVLLNDGPTRPANVRRLECAPTLWPRDPPVRV 158 Query: 185 ----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +AW+ V + EG+NR+++++ RL+R++ G + L +L G R + Sbjct: 159 RKTVPDAWLEVQITEGRNRQVRRMTASVGLPTLRLVRVAIGAWSLASLQPGQWRVDDARA 218 Query: 241 LR 242 +R Sbjct: 219 VR 220 >gi|78066801|ref|YP_369570.1| pseudouridine synthase, Rsu [Burkholderia sp. 383] gi|77967546|gb|ABB08926.1| Pseudouridine synthase, Rsu [Burkholderia sp. 383] Length = 623 Score = 70.5 bits (171), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 73/248 (29%), Positives = 113/248 (45%), Gaps = 30/248 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 376 RLSKRMSELGMCSRREADEWIEKGWVLVDGERIDTLGTKVRADQKIEIDERASAAQAAQV 435 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS-----RVISVGRLDINT 118 L HKP+G V+ ++ DG D+ P FS + GRLDI++ Sbjct: 436 TILLHKPVGYVSGQAE-DGYEPAAVLITRANRWSGDHSPVRFSPQHLHALAPAGRLDIDS 494 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQ---VDQ----DKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y RVRF + +DQ + L L+ G+ + G Sbjct: 495 TGLLVLTQNGVVAKQLIGEQSDIDKEYLVRVRFGERLIDIDQHFPAESLAKLRHGLELDG 554 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ Q G + LREGK R+I+++ E V L R+ G LG L Sbjct: 555 VALKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLDVIGLKRVRMGRVMLGALP 610 Query: 230 AGSTREVS 237 G R +S Sbjct: 611 QGQWRYLS 618 >gi|209525302|ref|ZP_03273844.1| pseudouridine synthase [Arthrospira maxima CS-328] gi|209494317|gb|EDZ94630.1| pseudouridine synthase [Arthrospira maxima CS-328] Length = 193 Score = 70.5 bits (171), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 54/182 (29%), Positives = 85/182 (46%), Gaps = 21/182 (11%) Query: 74 RLWLYHKPIGLVTTHSDPDG----RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L++KP +++ +D D R T+ D +P V SVGRLD+++EGLLLLT+D Sbjct: 4 RYILFYKPYNVLSQFTDRDSHTPSRQTLKDYIP--IPSVYSVGRLDLDSEGLLLLTDDRK 61 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-------- 181 L L P R Y V+ L L++GI IQ +V L Sbjct: 62 LKYRLGQPEFAHPRTYWVQVERIPTTQALEQLRRGITIQNYRTRTARVQLLLTEPLLPPR 121 Query: 182 -------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 Q AW+ + L EG+NR+++++ + RL+R++ L +L G R Sbjct: 122 IPPIRFRQNVPTAWLEITLTEGRNRQVRRMTAAVGFPTLRLVRVAIAHLTLNSLQPGDWR 181 Query: 235 EV 236 ++ Sbjct: 182 DL 183 >gi|90412232|ref|ZP_01220237.1| hypothetical ribosomal small subunit pseudouridine synthase A [Photobacterium profundum 3TCK] gi|90326723|gb|EAS43116.1| hypothetical ribosomal small subunit pseudouridine synthase A [Photobacterium profundum 3TCK] Length = 232 Score = 70.5 bits (171), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 56/219 (25%), Positives = 101/219 (46%), Gaps = 19/219 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I ++ +R E ++I + VN ++ A V + + +DG+ L A +R Sbjct: 6 RLDKFICKSTDLTRTEATQLINAGNIIVNNEVVSNEATQVHENNDVLLDGIKL-IARASR 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS--------VGRLDINTEGLLLLTN 126 L HKP+ + ++ D + PS+F+ + GRLD +T GL+L+T+ Sbjct: 65 YILMHKPLNTICSNID--------EVYPSLFNYIDVEKADDLHIAGRLDADTTGLVLITD 116 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + P+ Q + YRV + +D +G+ +QG + LD + Sbjct: 117 DGRWSFNIITPNKQCEKTYRVGLRNPIAEDAAEKFAQGVKLQGEKQLTLPAKLDVVTSNE 176 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +T+ EGK ++K++F +V L R G +L Sbjct: 177 VLLTI--TEGKYHQVKRMFSAIGNRVVTLHREQIGNIKL 213 >gi|78485444|ref|YP_391369.1| pseudouridine synthase, Rsu [Thiomicrospira crunogena XCL-2] gi|78363730|gb|ABB41695.1| ribosomal large subunit pseudouridine synthase E [Thiomicrospira crunogena XCL-2] Length = 185 Score = 70.5 bits (171), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 50/182 (27%), Positives = 89/182 (48%), Gaps = 25/182 (13%) Query: 73 TRLWLYHKPIGLVTTHSDP----DGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTN 126 + L L++KP ++ +D D R T+ D N P ++ GRLD ++EGLLLLTN Sbjct: 2 SELLLFNKPFNVLCQFTDEPEFKDQRQTLADFINQPGFYA----AGRLDRDSEGLLLLTN 57 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG- 184 DG L + + P + + Y V+ G ++++ + L++G+ ++ G+ + K Sbjct: 58 DGKLQQHIANPKHKQPKTYLVQVEGDINKEAIKQLQQGVTLKDGLTRPAKARKIPEPKWL 117 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +WV + + EGKNR+++++ + RLIR G +QL L G Sbjct: 118 WPRNPPIRERKNIPTSWVELIITEGKNRQVRRMTAAVGFPTLRLIRTQIGDYQLKNLQPG 177 Query: 232 ST 233 + Sbjct: 178 ES 179 >gi|254226106|ref|ZP_04919703.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae V51] gi|125621341|gb|EAZ49678.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae V51] Length = 231 Score = 70.5 bits (171), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 63/229 (27%), Positives = 107/229 (46%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +R+E +++ V V+ ++ + A + T +E G + R Sbjct: 2 RLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREI-TLHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+V +H D + T F L + + GRLDI+T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDGFNQ-TAFTLLDEVNVEDLHFAGRLDIDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + YRV + D +GI ++ G+ ++TL Q S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELR----GERELTLPAQLEVISETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F KV L R G L TL G R ++++ Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRKRIGQITLDETLEPGEYRYLTEE 224 >gi|186475366|ref|YP_001856836.1| pseudouridine synthase [Burkholderia phymatum STM815] gi|184191825|gb|ACC69790.1| pseudouridine synthase [Burkholderia phymatum STM815] Length = 234 Score = 70.5 bits (171), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 50/157 (31%), Positives = 79/157 (50%), Gaps = 5/157 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + V+ G SRR+ MIA RV + G L+ ++V + + EVDG ER Sbjct: 3 LESVLFSQGFGSRRQCRAMIADGRVSIGGATLDDPDIDVDAKALVFEVDGTVWPYHERAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G + DP +VF+ LP+ F+ + VGRLD +T GLLLL++DG Sbjct: 63 V-LLNKPAGYECS-RDPQHHLSVFNLLPAQFATRGIQCVGRLDQDTTGLLLLSDDGQFVH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 P + + Y +D +L L++G+++ G Sbjct: 121 AYTSPKRKVPKRYLATTRHPLDDAQLAALREGVLLHG 157 >gi|296314515|ref|ZP_06864456.1| ribosomal small subunit pseudouridine synthase A [Neisseria polysaccharea ATCC 43768] gi|296838827|gb|EFH22765.1| ribosomal small subunit pseudouridine synthase A [Neisseria polysaccharea ATCC 43768] Length = 230 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 57/226 (25%), Positives = 102/226 (45%), Gaps = 16/226 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKAER 72 ++ K + GI SR++ + +IA V +NG ++ A ++ S +++DG + Sbjct: 2 KLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCIDDADADIHSASVHTLDIDGKAVTVIPE 61 Query: 73 TRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDGG 129 + L +KP T+H P ++F P + +VGRLD +T G+LL+TNDG Sbjct: 62 PYFYILLNKPADYETSHK-PKHYRSIFSLFPDNMRNIDMQAVGRLDADTTGVLLVTNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGS 185 L L PS + ++Y V D LK G+++ + +C D + S Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPADGILCETLKNGVLLHDENETVCAADANLE------S 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V L R + + L G Sbjct: 175 PTTLLLTITEGKYHQVKRMIAAAGNRVQHLHRRQFAHLETENLKPG 220 >gi|77360629|ref|YP_340204.1| ribosomal large subunit pseudouridine synthase E (pseudouridylate synthase) (Uracil hydrolyase) [Pseudoalteromonas haloplanktis TAC125] gi|76875540|emb|CAI86761.1| ribosomal large subunit pseudouridine synthase E (Pseudouridylate synthase) (Uracil hydrolyase) [Pseudoalteromonas haloplanktis TAC125] Length = 227 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 44/174 (25%), Positives = 83/174 (47%), Gaps = 16/174 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P A+ ++ L++KP ++ +D R T+ + +P V + GRLD ++EGLLLLT Sbjct: 39 PAIAAQDIKIVLFNKPFDVLCQFTDDANRKTLAEFIP--IKEVYAAGRLDRDSEGLLLLT 96 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 N G L L P + + Y V+ G+ + + L G+ ++ +V++ ++ Sbjct: 97 NCGKLQNTLTAPGKKTSKTYWVQVEGEPSSESIAALCTGVELKDGLTLPAKVSIISEPTV 156 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W+++ + EG+NR+++++ RLIR S G + L Sbjct: 157 WTRNPPVRERKLIPTTWLSITISEGRNRQVRRMTAHIGHPTLRLIRYSIGKYTL 210 >gi|256544407|ref|ZP_05471782.1| ribosomal small subunit pseudouridine synthase A [Anaerococcus vaginalis ATCC 51170] gi|256399939|gb|EEU13541.1| ribosomal small subunit pseudouridine synthase A [Anaerococcus vaginalis ATCC 51170] Length = 236 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 61/229 (26%), Positives = 117/229 (51%), Gaps = 9/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 RV K+I A + +R+ +++ + + +NG +++ ++V V + D + G + E Sbjct: 4 RVDKMIGNANLDTRKNIKKNAKKGGLVINGEIIKDSSVKVDPNIDEVIYMGELVDYFENI 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 + + +K GL+ ++ DG TV +L + + GRLD +T GLLL++ DG Sbjct: 64 YIMM-NKREGLICQSNELDG--TVMSDLDEFYLNLDLAIAGRLDKDTTGLLLMSTDGKFI 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P++ + Y V ++D D + + K+G+ I+ Y L+ + A+V V Sbjct: 121 HRVISPNSNIWKKYEVETSKKIDPDLVEIFKEGVYIKEDDYYARSAKLEIIEDKKAYVYV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EGK +K++F + +V +L R++ G QL TL G RE++++ Sbjct: 181 --TEGKFHLVKRLFSNNDNEVVKLKRLAIGKLQLDKTLNPGDYRELTQE 227 >gi|71901117|ref|ZP_00683224.1| Pseudouridine synthase, Rsu [Xylella fastidiosa Ann-1] gi|71729122|gb|EAO31246.1| Pseudouridine synthase, Rsu [Xylella fastidiosa Ann-1] Length = 236 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 72/236 (30%), Positives = 109/236 (46%), Gaps = 19/236 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-----VDGVPLRK 69 ++ K IA G SR+EV R+ R+ NG + + DH++ DG PL Sbjct: 2 KLLKYIANLGYGSRKEVARIFRDGRI-TNG-----EGEVLYADDHVQHTAVRFDGEPLDP 55 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVIS-VGRLDINTEGLLLLT 125 + L HKP G + + D GR V+D LP+ F S ++S VGRLD +T GLLLLT Sbjct: 56 PPGLMVML-HKPSGYICSTKDA-GR-LVYDLLPARFRLRSPLLSTVGRLDGDTSGLLLLT 112 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG L + P T +VY + D+ L G ++ +Q + G Sbjct: 113 DDGALLHRMISPKTHLPKVYEATLVQALRGDEATLFASGTLLLDGDTKPLQPAVLEVLGP 172 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + L EG+ +++++F +VN L R + G L L G R + + L Sbjct: 173 -CQVRLTLYEGRYHQVRRMFGATGNRVNTLHRSAIGGLVLDGLPEGQWRVLEAQDL 227 >gi|294155840|ref|YP_003560224.1| ribosomal small subunit pseudouridine synthase A [Mycoplasma crocodyli MP145] gi|291600207|gb|ADE19703.1| ribosomal small subunit pseudouridine synthase A [Mycoplasma crocodyli MP145] Length = 228 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 51/206 (24%), Positives = 106/206 (51%), Gaps = 6/206 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K ++ +R E++ ++ RV +NG L + + + + +DG+ + Sbjct: 2 RIEKWLSDVTDYTRSEIKNLLKNNRVYINGRLYDET-IKYNEFNSLRIDGIDYATDKYVY 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L +KP G +T++ D + +VF+ + +I+ GRLD++TEGLL+L+++ L L Sbjct: 61 IML-NKPQGYITSNKD-ELYPSVFNLIDVPRKNLIAYGRLDVDTEGLLVLSDNHKLCHEL 118 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V+ Q++ + +++ K+G I G + L+ ++T+ Sbjct: 119 LAPKKHVFKKYLVQVDKQLEPNLIDIFKQGFSI-GEDKNTLPSKLEIIDNFTCYLTIS-- 175 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISY 220 EGK ++K++F+ + V L R+S+ Sbjct: 176 EGKFHQVKRMFKTNGYNVIFLKRVSF 201 >gi|170692138|ref|ZP_02883301.1| RNA-binding S4 domain protein [Burkholderia graminis C4D1M] gi|170142568|gb|EDT10733.1| RNA-binding S4 domain protein [Burkholderia graminis C4D1M] Length = 346 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 69/248 (27%), Positives = 110/248 (44%), Gaps = 30/248 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ G+ SRRE + I + V V+G ++ V IE+D Sbjct: 99 RLSKLMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPDQRIEIDPAAEAVQASQV 158 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS-----RVISVGRLDINT 118 L HK +G V+ ++ DG D+ FS ++ GRLDI++ Sbjct: 159 TVLIHKTVGYVSGQAE-DGYQPAITLVTPENRWEGDHSDIRFSVAHLRQLAPAGRLDIDS 217 Query: 119 EGLLLLTNDGGLARVL-----ELPSTQWLRV----YRVRFHGQVDQDKLNLLKKGIVIQG 169 GLL+LT DG +A+ L E+ +RV + V + L LL+ G+ + Sbjct: 218 TGLLVLTQDGRIAKQLIGGHSEIDKEYLVRVAYGEHTVDVESHFPAESLELLRHGLSLDD 277 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + QV+ Q G + LREGK R+I+++ E +V L R+ G LG L Sbjct: 278 VPLKPAQVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVVLGALP 333 Query: 230 AGSTREVS 237 G R ++ Sbjct: 334 PGQWRYLA 341 >gi|319937261|ref|ZP_08011668.1| pseudouridine synthase [Coprobacillus sp. 29_1] gi|319807627|gb|EFW04220.1| pseudouridine synthase [Coprobacillus sp. 29_1] Length = 241 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 63/227 (27%), Positives = 105/227 (46%), Gaps = 20/227 (8%) Query: 19 VIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLY 78 ++ + + + E +I V+VN ++ V D I V G KA ++ ++Y Sbjct: 16 ILMKNNLGNMNECRTLIKHGFVEVNNQVINDHRYVVHDDDKINVFG----KAIHSQPFVY 71 Query: 79 H---KPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARV 133 + KP G + + D + V + R I VGRLD +T G LLLTND + + Sbjct: 72 YMMNKPKGYICANYDKNHLCVV-----DLIERNDCICVGRLDKDTTGFLLLTNDKSIVKA 126 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L LP + Y V +D++ + + GIVI Q IC + L+ ++T Sbjct: 127 LLLPQNHQPKTYLVTTRFPIDENSIYRFEMGIVIDQDICC--LPAQLELINTHQCYLT-- 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 L EGK ++KK+F +V L RI++ L +L G R++++ Sbjct: 183 LHEGKYHQVKKMFLSCQNEVVDLKRIAFAGLVLDASLGYGEYRQLNQ 229 >gi|297579215|ref|ZP_06941143.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae RC385] gi|297536809|gb|EFH75642.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae RC385] Length = 231 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 62/229 (27%), Positives = 107/229 (46%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +R+E +++ V V+ ++ + A + T +E G + R Sbjct: 2 RLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREI-TLHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+V +H D + T F L + + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDGFNQ-TAFTLLDEVNIQDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + YRV + D +GI ++ G+ ++TL Q S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELR----GERELTLPAQLDVISETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F KV L R G L TL G R ++++ Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEE 224 >gi|268680145|ref|YP_003304576.1| pseudouridine synthase [Sulfurospirillum deleyianum DSM 6946] gi|268618176|gb|ACZ12541.1| pseudouridine synthase [Sulfurospirillum deleyianum DSM 6946] Length = 194 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 51/161 (31%), Positives = 83/161 (51%), Gaps = 10/161 (6%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L++ +KP G + T SD GR TV+D LP + + +GRLD++++GLLL T +G ++ Sbjct: 13 KLFVLNKPKGYLVTRSDDLGRKTVYDLLPDWAFNEGWMPIGRLDLDSKGLLLFTTNGHIS 72 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + G V + + KG+ ++V G+ ++V Sbjct: 73 NALTTPK-KCTKVYEIWVRGHVMDEHIAEALKGVQTSQGLLKALEVKKIGMGGAKTKLSV 131 Query: 192 GLREGKNREIKKVFEFFN-------WKVNRLIRISYGPFQL 225 + EGKNR I+++F KV L RIS G F+L Sbjct: 132 VIDEGKNRHIRRLFGALKDPKFGTPLKVLELNRISIGDFKL 172 >gi|171322053|ref|ZP_02910927.1| RNA-binding S4 domain protein [Burkholderia ambifaria MEX-5] gi|171092644|gb|EDT37945.1| RNA-binding S4 domain protein [Burkholderia ambifaria MEX-5] Length = 249 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 73/248 (29%), Positives = 115/248 (46%), Gaps = 30/248 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V IE+D Sbjct: 2 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPDQKIEIDERASAAQAAQV 61 Query: 75 LWLYHKPIGLVTTHSDPDGR--STVF---------DNLPSIFS-----RVISVGRLDINT 118 L HKP+G V+ ++ DG ++V D P FS + GRLDI++ Sbjct: 62 TILLHKPVGYVSGQAE-DGYEPASVLITRANQWSGDRSPLRFSPQHLHALAPAGRLDIDS 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQ---VDQ----DKLNLLKKGIVIQG 169 G+L+LT +G +A+ L + + Y RVRF + +DQ + L L+ G+ + G Sbjct: 121 TGMLVLTQNGRIAKQLIGEQSDIDKEYLVRVRFGERLLDIDQHFPAESLAKLRHGLELDG 180 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ Q G + LREGK R+I+++ E +V L R+ G LG L Sbjct: 181 VALKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 236 Query: 230 AGSTREVS 237 G R +S Sbjct: 237 QGQWRYLS 244 >gi|257138757|ref|ZP_05587019.1| pseudouridine synthase family protein [Burkholderia thailandensis E264] Length = 547 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 113/246 (45%), Gaps = 32/246 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D + Sbjct: 300 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAEQAAQV 359 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDINT 118 L HKP+G V+ ++ DG + D P FS R ++ GRLDI++ Sbjct: 360 TILLHKPVGYVSGQAE-DGYAPAATLVTRENHWGGDRSPLRFSPQHLRALAPAGRLDIDS 418 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVIQ 168 GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 419 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTTDIERHFPAESLAKLRHGLELD 477 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG L Sbjct: 478 GVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGAL 533 Query: 229 LAGSTR 234 G R Sbjct: 534 PQGQWR 539 >gi|269139658|ref|YP_003296359.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Edwardsiella tarda EIB202] gi|267985319|gb|ACY85148.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Edwardsiella tarda EIB202] gi|304559528|gb|ADM42192.1| Ribosomal small subunit pseudouridine synthase A [Edwardsiella tarda FL6-60] Length = 235 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 57/224 (25%), Positives = 100/224 (44%), Gaps = 3/224 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I++ SR V R + RV V+G++ ++ V + +G L R Sbjct: 2 RLDKFISQQLGISRSLVIRELRASRVTVDGVVSRSGSLQVTPDQEVAYEGNVLAFITGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ HKP G V + DPD + ++ + ++ + GRLD++T GL+LLT+DG + + Sbjct: 62 YFMLHKPEGYVCSTDDPDHATILYFIDEPMAEKLHAAGRLDLDTTGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + +GI++ G D+ + V + + Sbjct: 122 TSPRHHCEKSYLVTLEQPLAPQTAAQFAEGILLNGET--DLTKPAQLEAFDEHHVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 EG+ ++K++F +V L R G L LA G R +S Sbjct: 180 EGRYHQVKRMFAAVGNRVVGLHRERIGAIALDAALAPGEYRALS 223 >gi|209695641|ref|YP_002263570.1| ribosomal large subunit pseudouridine synthase E [Aliivibrio salmonicida LFI1238] gi|208009593|emb|CAQ79889.1| ribosomal large subunit pseudouridine synthase E [Aliivibrio salmonicida LFI1238] Length = 210 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 48/186 (25%), Positives = 90/186 (48%), Gaps = 16/186 (8%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P E ++ +++KP +++ +D R T+ D + V + GRLD ++EGLL+LT Sbjct: 22 PRPAPEDRKVLIFNKPFDVLSQFTDDQHRQTLADFI--SVKDVYAAGRLDRDSEGLLILT 79 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 NDG L L P ++ + Y V+ G +D L L++G+ ++ +V + T+ Sbjct: 80 NDGVLQARLTQPESKSPKTYWVQVEGAPTEDDLEKLRQGVELKDGMTLPAKVEVMTEPEL 139 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ V + EG+NR+++++ + RLIR S G + + + Sbjct: 140 WERNPPVRFRAAIPTTWIAVTIIEGRNRQVRRMTAHIGFPTLRLIRYSMGDWTIKDVPHR 199 Query: 232 STREVS 237 +EV+ Sbjct: 200 EWKEVT 205 >gi|121601596|ref|YP_993376.1| RNA pseudouridine synthase family protein [Burkholderia mallei SAVP1] gi|121230406|gb|ABM52924.1| RNA pseudouridine synthase family protein [Burkholderia mallei SAVP1] Length = 559 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 312 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSN-ARAAQAAQ 370 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 371 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 429 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 430 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 488 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 489 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 544 Query: 228 LLAGSTR 234 L G R Sbjct: 545 LPQGEWR 551 >gi|238028391|ref|YP_002912622.1| Pseudouridine synthase, Rsu [Burkholderia glumae BGR1] gi|237877585|gb|ACR29918.1| Pseudouridine synthase, Rsu [Burkholderia glumae BGR1] Length = 239 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 58/220 (26%), Positives = 96/220 (43%), Gaps = 21/220 (9%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + ++ G SRR+ ++A RV + G + + + TD +E D + TR Sbjct: 3 LETILFSQGFGSRRQCRALVAAGRVAIGGAICDDPEQS-FPTDGLEFD------VDGTR- 54 Query: 76 WLY--------HKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLT 125 WLY +KP G + +P +VF LP + V VGRLD +T GLLLL+ Sbjct: 55 WLYRQHAYLVLNKPAGYECSR-EPQHHESVFALLPPQLATRGVQCVGRLDQDTTGLLLLS 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG P + + Y +D +L L+ G+++ G LD Q Sbjct: 114 DDGQFVHAYTSPKRKVPKTYLATLKHPLDAAQLTALRDGVLLHG--EPKPIAALDAQARG 171 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + ++EGK ++K++ + +L R G F L Sbjct: 172 THQLEMTVQEGKYHQVKRMIAAAGNRCEQLHRERIGGFAL 211 >gi|126449776|ref|YP_001080883.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10247] gi|126242646|gb|ABO05739.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10247] Length = 559 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 312 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSN-ARAAQAAQ 370 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 371 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 429 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 430 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 488 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 489 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 544 Query: 228 LLAGSTR 234 L G R Sbjct: 545 LPQGEWR 551 >gi|323494539|ref|ZP_08099644.1| ribosomal small subunit pseudouridine synthase A [Vibrio brasiliensis LMG 20546] gi|323311266|gb|EGA64425.1| ribosomal small subunit pseudouridine synthase A [Vibrio brasiliensis LMG 20546] Length = 233 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 60/227 (26%), Positives = 102/227 (44%), Gaps = 4/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A A+R+E ++I V VN ++ + +V V +E G + K Sbjct: 2 RLDKYLCDALGATRKEATKIIKSGDVTVNDVVQKSGSVKVTDDCTVEWQGREIHKPGPRY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ KP G V +H D T F L + + GRLD++T GL+L+T+DG + Sbjct: 62 IMLF-KPDGFVCSHEDG-FNQTAFMLLDEVKMEDLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV V D GI ++ + ++ V + + Sbjct: 120 ITSPKHKCEKTYRVWLADPVQDDYAEKFANGIQLRNEKDLTLPAQMELVDAQENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EGK ++K++F KV L R G +L TL G R ++++ Sbjct: 180 TEGKYHQVKRMFAALGNKVEHLHRERIGDIELCDTLEPGEYRYLTQQ 226 >gi|325181473|emb|CCA15907.1| ribosomal large subunit pseudouridine synthase F put [Albugo laibachii Nc14] Length = 241 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 58/222 (26%), Positives = 103/222 (46%), Gaps = 27/222 (12%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 +A + SRR+ ER I+ V VNG +++ + + +E G ++ ++ + + Sbjct: 1 MAERKMCSRRDAERYISAGDVYVNGEQIQQDWIKIPRDSCVEFSGKAVKAEKQKVSVILN 60 Query: 80 KPIGLVTTHSDPDGRSTV---------------FDNLPSIFSRVISVGRLDINTEGLLLL 124 KP+G V++ +P + + + P S++ GRLDIN+ GLLL Sbjct: 61 KPLGYVSSQPEPMRKPAIELLSIQNAFQLTARWYGKEPKSLSKLAVCGRLDINSTGLLLF 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK------LNLLKKGIVIQGICYGDMQV- 177 T DG LA+ + P+ + Y VR +++D ++ L++G + ICY V Sbjct: 121 TQDGVLAKQILDPNGGVEKEYLVRVDMDLERDTKQAEEVVDKLREGFIWNDICYRARSVR 180 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 L+ + + L EGK R I+ + E KV L R++ Sbjct: 181 VLNANQ-----LQFILTEGKKRHIRYMCEAVGIKVIALKRMN 217 >gi|299472407|emb|CBN77595.1| conserved unknown protein [Ectocarpus siliculosus] Length = 390 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 81/237 (34%), Positives = 114/237 (48%), Gaps = 21/237 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-----VPLRK 69 R+SK++A I +R EV+ ++ + RVKV+G +++ + IEV+G VPL Sbjct: 137 RLSKLLADRAIGTRSEVDTLVRRGRVKVDGAVVKSPKTKLPVDCVIEVNGEVHGPVPL-- 194 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDG 128 L +HKP G++TT SD R + D LP S+ + VGRLD ++ GLLLL++DG Sbjct: 195 -----LVAFHKPKGVITTLSDDWDREDLSDVLPKSLLLKHHPVGRLDADSSGLLLLSSDG 249 Query: 129 GLARVLELPSTQWLRVY----RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 L L P + R Y V G+ D L K +GI D D Sbjct: 250 ALTHRLLNPRFEVEREYVASVDVPPEGEEPGDSLVTALK----EGITTADGVYKADVPAI 305 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 S V V +REGKNR ++++ + V L R YG LG L G VS L Sbjct: 306 SGRDVGVVVREGKNRMVRRMLANAGYPVLELRRERYGKILLGDLPEGEHVPVSGDAL 362 >gi|307297760|ref|ZP_07577566.1| RNA-binding S4 domain protein [Thermotogales bacterium mesG1.Ag.4.2] gi|306917020|gb|EFN47402.1| RNA-binding S4 domain protein [Thermotogales bacterium mesG1.Ag.4.2] Length = 231 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 62/214 (28%), Positives = 107/214 (50%), Gaps = 10/214 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ ++R G SR E R+I V +NG+L + V TD + VDG PL Sbjct: 2 RLDAFVSRFGRFSRSESRRIIRSNGVSLNGVLTNNPSEVVDETDTVIVDGRPLEAFWNVY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 + L +KP G V + +GRS VF+ + + FS +S GRLD + GLL+L+NDG Sbjct: 62 IAL-NKPEGYVCSRERSEGRS-VFELIDANFSADLSTGGRLDKDATGLLILSNDGKFIHE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 + P + Y V ++ + +++++ +G+ I G+ + + T ++ + + + Sbjct: 120 VISPRKLVEKEYLVETAKEITKKEISMISQGLFI-----GNNEFSKPTHVEQIDHFHMRI 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 L EG+ E+K++ KV +L R G + L Sbjct: 175 VLTEGRYHEVKRLVSASGNKVIQLHRRRIGSYCL 208 >gi|254561472|ref|YP_003068567.1| 16S rRNA pseudouridylate 516 synthase [Methylobacterium extorquens DM4] gi|254268750|emb|CAX24711.1| 16S rRNA pseudouridylate 516 synthase [Methylobacterium extorquens DM4] Length = 242 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 67/230 (29%), Positives = 111/230 (48%), Gaps = 15/230 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTD---HIEVDGVPLRKA 70 R+ +++A G SRREVE + V+++G L A+ + + D + V G L Sbjct: 5 RLDRLLANLGYGSRREVEGLARAGLVRLDGQALRDASQRIPLEPDLSARMTVQGEALDPL 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTN 126 L L HKP+G+ +H + V+ LP + R + +VGRLD T GLLL+T+ Sbjct: 65 PGVCLML-HKPLGVTCSHKEVG--PLVYSLLPERWRRRDPALSTVGRLDKETSGLLLMTD 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG L + P + + YRV + D+ +L G ++++G + V ++T + Sbjct: 122 DGALLHRIISPKAKVSKRYRVTLARPLQGDETAILASGEMMLEGEDKPLLPVEMETDDPT 181 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTR 234 + VT L EG+ +++++F V+ L R G L L AG R Sbjct: 182 HCTVT--LHEGRYHQVRRMFAALGNHVDALHRDRVGGLVLPADLPAGEFR 229 >gi|170733378|ref|YP_001765325.1| RNA-binding S4 domain-containing protein [Burkholderia cenocepacia MC0-3] gi|169816620|gb|ACA91203.1| RNA-binding S4 domain protein [Burkholderia cenocepacia MC0-3] Length = 650 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 73/248 (29%), Positives = 113/248 (45%), Gaps = 30/248 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 403 RLSKRMSELGMCSRREADEWIEKGWVLVDGERIDTLGTKVRADQKIEIDERASAAQAAQV 462 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS-----RVISVGRLDINT 118 L HKP+G V+ ++ DG D+ P FS + GRLDI++ Sbjct: 463 TILLHKPVGYVSGQAE-DGYEPAAVLITRANRWSGDHSPVRFSPQHLHALAPAGRLDIDS 521 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQ---VDQ----DKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y RVRF + +DQ + L L+ G+ + G Sbjct: 522 TGLLVLTQNGVIAKQLIGEQSDIDKEYLVRVRFGERLIDIDQHFPAESLAKLRHGLELDG 581 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ Q G + LREGK R+I+++ E V L R+ G LG L Sbjct: 582 VALKPALVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLDVIGLKRVRMGRVMLGALP 637 Query: 230 AGSTREVS 237 G R +S Sbjct: 638 QGQWRYLS 645 >gi|167903268|ref|ZP_02490473.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei NCTC 13177] Length = 444 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 197 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSN-ARAAQAAQ 255 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 256 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 314 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 315 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 373 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 374 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 429 Query: 228 LLAGSTR 234 L G R Sbjct: 430 LPQGEWR 436 >gi|170727748|ref|YP_001761774.1| pseudouridine synthase [Shewanella woodyi ATCC 51908] gi|169813095|gb|ACA87679.1| pseudouridine synthase [Shewanella woodyi ATCC 51908] Length = 239 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 60/220 (27%), Positives = 102/220 (46%), Gaps = 12/220 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + ++ +R E +I +V VNG + + V +HI ++G A +R Sbjct: 2 RLDKFLCKSTQLTRHEACELILAGKVLVNGESVVSPSAQVHENNHIRLEGGQRLTARASR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP ++++ D D S F NL S + GRLD +T GLLL+T+DG + Sbjct: 62 YIMLHKPADTLSSNVDGDHPSVFNFINLEHT-SELHIAGRLDADTTGLLLITDDGRWSFN 120 Query: 134 LELPSTQWLRVYRVRFH--------GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 + P +VYRV G++D + K+G+ +QG + L+ Sbjct: 121 VFNPKYHCEKVYRVYLRDSIEGEIAGEIDAELKARFKQGLDLQGEQALTLPAKLEFVSPK 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +T+ EG+ ++K++F +VN L R G +L Sbjct: 181 EVLLTI--TEGRYHQMKRMFARVGNRVNALHREQVGKIKL 218 >gi|76810574|ref|YP_333978.1| pseudouridine synthase family protein [Burkholderia pseudomallei 1710b] gi|76580027|gb|ABA49502.1| pseudouridine synthase family protein [Burkholderia pseudomallei 1710b] Length = 585 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 338 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSN-ARAAQAAQ 396 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 397 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 455 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 456 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 514 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 515 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 570 Query: 228 LLAGSTR 234 L G R Sbjct: 571 LPQGEWR 577 >gi|83719576|ref|YP_442548.1| pseudouridine synthase family protein [Burkholderia thailandensis E264] gi|83653401|gb|ABC37464.1| pseudouridine synthase family protein [Burkholderia thailandensis E264] Length = 557 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 113/246 (45%), Gaps = 32/246 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D + Sbjct: 310 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAEQAAQV 369 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDINT 118 L HKP+G V+ ++ DG + D P FS R ++ GRLDI++ Sbjct: 370 TILLHKPVGYVSGQAE-DGYAPAATLVTRENHWGGDRSPLRFSPQHLRALAPAGRLDIDS 428 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVIQ 168 GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 429 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTTDIERHFPAESLAKLRHGLELD 487 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG L Sbjct: 488 GVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGAL 543 Query: 229 LAGSTR 234 G R Sbjct: 544 PQGQWR 549 >gi|116617531|ref|YP_817902.1| ribosomal large subunit pseudouridine synthase E [Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293] gi|116096378|gb|ABJ61529.1| ribosomal large subunit pseudouridine synthase E [Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293] Length = 177 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 48/175 (27%), Positives = 89/175 (50%), Gaps = 17/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++T +D +GR T+ D + RV + GRLD+++EGLLLLT+ G L L Sbjct: 4 LFNKPYNVLTKFTDAEGRPTLADYID--IPRVYAAGRLDMDSEGLLLLTDSGKLNHELTD 61 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----------ICYG----DMQVTLDTQ 182 P + + Y V+ G + +L L++G+ ++ I Y + + + + Sbjct: 62 PDNKAYKTYVVQVEGVPTKSQLKQLEQGVALKDGLTLPAKVKRIPYPKWLWEREKPIRIR 121 Query: 183 KGS-NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 K +++ + ++EG+NR+++++ RLIR G + + L G R V Sbjct: 122 KNQPTSFIQLKIKEGRNRQVRRMTAAVGIPTLRLIRTHIGEYHIADLKPGQYRIV 176 >gi|134296032|ref|YP_001119767.1| RNA-binding S4 domain-containing protein [Burkholderia vietnamiensis G4] gi|134139189|gb|ABO54932.1| RNA-binding S4 domain protein [Burkholderia vietnamiensis G4] Length = 249 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 69/247 (27%), Positives = 109/247 (44%), Gaps = 28/247 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I Q V V+G ++ V IE+D Sbjct: 2 RLSKRMSELGLCSRREADEWIEQGWVLVDGERIDTLGTKVRPDQKIEIDERASAAQAAQV 61 Query: 75 LWLYHKPIGLVTTHSDP---------------DGRSTVFDNLPSIFSRVISVGRLDINTE 119 L HKP+G V+ ++ G + P + GRLDI++ Sbjct: 62 TILLHKPVGYVSGQAEDGYEPAAVLITRANQWSGDRSQIRFSPQHLHALAPAGRLDIDST 121 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRF-HGQ----VDQ----DKLNLLKKGIVIQGI 170 GLL+LT +G +A+ L + + Y VR +G+ +DQ + L L+ G+ + G+ Sbjct: 122 GLLVLTQNGRIAKQLIGEQSDIDKEYLVRVRYGEHLIDIDQHFPAESLAKLRHGLELDGV 181 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V+ Q G + LREGK R+I+++ E +V L R+ G LG L Sbjct: 182 PLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCEMVGLEVIGLKRVRMGRVMLGALPQ 237 Query: 231 GSTREVS 237 G R +S Sbjct: 238 GQWRYLS 244 >gi|284052916|ref|ZP_06383126.1| pseudouridine synthase, Rsu [Arthrospira platensis str. Paraca] gi|291569841|dbj|BAI92113.1| probable pseudouridine synthase [Arthrospira platensis NIES-39] Length = 193 Score = 70.1 bits (170), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 54/185 (29%), Positives = 86/185 (46%), Gaps = 21/185 (11%) Query: 74 RLWLYHKPIGLVTTHSDPDG----RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L++KP +++ +D D R T+ D +P V SVGRLD+++EGLLLLT+D Sbjct: 4 RYILFYKPYNVLSQFTDRDSHAQSRQTLKDYIP--IPSVYSVGRLDLDSEGLLLLTDDRK 61 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-------- 181 L L P R Y V+ L L++GI IQ +V L Sbjct: 62 LKYRLGQPEFAHPRTYWVQVERIPTTQALEQLRQGITIQNYRTRTARVQLLLTEPLLPPR 121 Query: 182 -------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 Q AW+ + L EG+NR+++++ + RL+R++ L +L G R Sbjct: 122 IPPIRFRQNVPTAWLEITLTEGRNRQVRRMTAAVGFPTLRLVRVAIAHLTLNSLEPGHWR 181 Query: 235 EVSKK 239 ++ + Sbjct: 182 DLHPQ 186 >gi|299532986|ref|ZP_07046373.1| Pseudouridine synthase, Rsu [Comamonas testosteroni S44] gi|298719210|gb|EFI60180.1| Pseudouridine synthase, Rsu [Comamonas testosteroni S44] Length = 292 Score = 70.1 bits (170), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 77/249 (30%), Positives = 112/249 (44%), Gaps = 33/249 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA G+ SRRE + + V VNG + NV+ D IE+D + ++ Sbjct: 46 RINKRIADMGMCSRREADEWVENGWVTVNGEVATMGQ-NVVPGDRIEIDQKAQERQDQQV 104 Query: 75 LWLYHKPIGLVTTHSDPDG-----------------RSTVFDNLPSIFSRVISVGRLDIN 117 L +KP+G V+ ++ DG RS N S + GRLDI+ Sbjct: 105 TILLNKPMGYVSGQAE-DGHEPAVVLITNENRWNEDRSKTRFNF-SQLKGLAPCGRLDID 162 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRF-HGQVDQD--------KLNLLKKGIVIQ 168 + GLL+LT DG +AR + ++ + Y VR G D D KL LL+ G+ + Sbjct: 163 SVGLLVLTQDGRVARQIIGEDSEVDKEYLVRVTFGDRDVDVQSVFPEEKLALLRHGLSLD 222 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 QV D Q + L EGK R+I+++ E KV L RI G LG L Sbjct: 223 EQPLKPAQV--DWQNPEQ--LRFVLTEGKKRQIRRMCEQVGLKVVGLKRIRIGGVTLGNL 278 Query: 229 LAGSTREVS 237 G R ++ Sbjct: 279 PTGQWRYLA 287 >gi|237812812|ref|YP_002897263.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei MSHR346] gi|237503454|gb|ACQ95772.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei MSHR346] Length = 571 Score = 70.1 bits (170), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 324 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSN-ARAAQAAQ 382 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 383 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 441 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 442 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 500 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 501 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 556 Query: 228 LLAGSTR 234 L G R Sbjct: 557 LPQGEWR 563 >gi|167894879|ref|ZP_02482281.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 7894] Length = 307 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 60 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEID-SNARAAQAAQ 118 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 119 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 177 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 178 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 236 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 237 DGVPLKPAMVSW--QNGEQ--LCFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 292 Query: 228 LLAGSTR 234 L G R Sbjct: 293 LPQGEWR 299 >gi|330722223|gb|EGH00111.1| Ribosomal large subunit pseudouridine synthase E [gamma proteobacterium IMCC2047] Length = 220 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 45/174 (25%), Positives = 85/174 (48%), Gaps = 16/174 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L++KP +++ +D GR T+ D + V + GRLD N+EGLLLLT++G L + Sbjct: 4 LILFNKPYDVLSQFTDDKGRPTLADFITQ--KGVYAAGRLDYNSEGLLLLTDNGQLQHHI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------- 184 P + + Y V+ G + + + L+ GI ++ +V + Sbjct: 62 AHPRHKQEKTYWVQVEGDISEQAVKQLRTGIQLKDGLTRPAKVQKLPEPELWPRNPPVRF 121 Query: 185 ----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +WV + + EG+NR+++++ + RL+R++ G ++L L G + Sbjct: 122 RAEIPTSWVEIKISEGRNRQVRRMTAAVGFPTLRLVRVAIGNWELENLQPGEYK 175 >gi|162448036|ref|YP_001621168.1| ribosomal small subunit pseudouridine synthase [Acholeplasma laidlawii PG-8A] gi|161986143|gb|ABX81792.1| ribosomal small subunit pseudouridine synthase [Acholeplasma laidlawii PG-8A] Length = 231 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 66/239 (27%), Positives = 117/239 (48%), Gaps = 30/239 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K ++ SR+E++ M+ VKV + ++ + V + + D I V+G + E Sbjct: 2 RLDKFLSNLNYGSRKEIKLMVKNGLVKVGNLTVKSSDVKIDPNYDKIFVNGTEVIYKENV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---------VGRLDINTEGLLLL 124 L Y KP G +++H ++ ++ PS+F + + GRLD ++EGL++L Sbjct: 62 ILSFY-KPAGYLSSH-----KAEIY---PSLFELIGAPYNQYDLKIAGRLDYDSEGLVIL 112 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-DKLNLLKKGIVIQ---GICYGDMQVTLD 180 T G L + P + +VY + ++ KL LL +G+ I G+ Y + + LD Sbjct: 113 TTSGDLVHQITHPKKKIRKVYEAKLDKHFNESSKLKLL-QGVEIMGEDGMPY--IGIALD 169 Query: 181 TQ-KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 K A++T+ EGK ++KK+F + V L RI G L L G+ +E+ + Sbjct: 170 LHYKEDVAYITI--DEGKFHQVKKMFLEVGFLVTNLKRIQIGALTL-DLEPGTYKEIEE 225 >gi|119944741|ref|YP_942421.1| pseudouridine synthase [Psychromonas ingrahamii 37] gi|119863345|gb|ABM02822.1| ribosomal large subunit pseudouridine synthase E [Psychromonas ingrahamii 37] Length = 220 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 47/185 (25%), Positives = 91/185 (49%), Gaps = 21/185 (11%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLL 123 P+ A R ++ L++KP +++ +D D R T+ D ++P +++ GRLD ++EGLLL Sbjct: 39 PVSDATR-KILLFNKPFNVLSQFTDQDNRQTLKDYIDIPEVYA----AGRLDRDSEGLLL 93 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG L + P+ + + Y V+ G+ + L L+ G+ ++ + L Q Sbjct: 94 LTNDGKLQAKITEPNAKTSKTYWVQVEGRPTEADLQKLRDGVNLKDGLTLPAGIELMEQP 153 Query: 184 G--------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 W+++ + EG+NR+++++ + RLIR G + + + Sbjct: 154 AIWARVPPIRERANIPTTWLSITISEGRNRQVRRMTAHIGFPTLRLIRYRIGDWTIDDID 213 Query: 230 AGSTR 234 G + Sbjct: 214 NGQYK 218 >gi|71903738|ref|YP_280541.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS6180] gi|71802833|gb|AAX72186.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pyogenes MGAS6180] Length = 244 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 66/240 (27%), Positives = 116/240 (48%), Gaps = 9/240 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G+ +R +V+ ++ ++ + VN + A ++ D + G PL E Sbjct: 3 RLDKFLVATGVGTRSQVKLLLKKKAIFVNQKVETSAKAHIDEYKDLVTYQGTPLV-YESF 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G V+ D ++TV + L + V VGRLD +T GLLLLTN+G LA Sbjct: 62 VYYLLNKPSGYVSATQDRQ-QATVMELLDDTARQKAVFPVGRLDKDTRGLLLLTNNGQLA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICY-GDMQVTLDTQKGSNAWV 189 L P + Y + G + + + +GI ++ C ++V + + V Sbjct: 121 HDLLSPKKHVTKEYLAKVVGIMTEADKDYFARGISLKDHQCLPAHLEVLASDLQQRTSLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPH 248 + ++EGK ++K++ V L R+S GP +L LA G R ++ + L + L P+ Sbjct: 181 KITIQEGKFHQVKRMVAACGKGVLDLQRLSMGPLKLDPSLAEGEFRRLTPEEL-QSLAPY 239 >gi|67639490|ref|ZP_00438342.1| RNA pseudouridine synthase family protein [Burkholderia mallei GB8 horse 4] gi|238520037|gb|EEP83501.1| RNA pseudouridine synthase family protein [Burkholderia mallei GB8 horse 4] Length = 475 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 228 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSN-ARAAQAAQ 286 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 287 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 345 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 346 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 404 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 405 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 460 Query: 228 LLAGSTR 234 L G R Sbjct: 461 LPQGEWR 467 >gi|254261229|ref|ZP_04952283.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1710a] gi|254219918|gb|EET09302.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1710a] Length = 579 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 332 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSN-ARAAQAAQ 390 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 391 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 449 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 450 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 508 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 509 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 564 Query: 228 LLAGSTR 234 L G R Sbjct: 565 LPQGEWR 571 >gi|126451482|ref|YP_001066756.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106a] gi|242315358|ref|ZP_04814374.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106b] gi|126225124|gb|ABN88664.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106a] gi|242138597|gb|EES24999.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106b] Length = 571 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 324 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSN-ARAAQAAQ 382 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 383 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 441 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 442 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 500 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 501 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 556 Query: 228 LLAGSTR 234 L G R Sbjct: 557 LPQGEWR 563 >gi|222150708|ref|YP_002559861.1| tRNA pseudouridine synthase A homolog [Macrococcus caseolyticus JCSC5402] gi|222119830|dbj|BAH17165.1| tRNA pseudouridine synthase A homolog [Macrococcus caseolyticus JCSC5402] Length = 236 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 58/208 (27%), Positives = 108/208 (51%), Gaps = 13/208 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-VPLRKAERT 73 R++K ++ AGI SRR ++ I R+K+NG+ E + V D +EVD V ++ Sbjct: 2 RINKFLSEAGICSRRGADKWIEAGRIKINGVKAELGS-KVTEGDSVEVDNKVVTLNTDKG 60 Query: 74 RLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++ +KP G+ +T ++ + + D + R+ +GRLD ++EGL+LLTNDG + Sbjct: 61 YVYIKLNKPRGITST-TERHIKGNIVDFVGH-SERIFHIGRLDKDSEGLILLTNDGDIVN 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 + + + Y V + D + + +G+ I VTL + +K + Sbjct: 119 EILRKEGRHEKEYIVTVDKPITDDFVKQMSEGVAILD------TVTLPAEVEKLNTKTFK 172 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRI 218 + L +G NR+I+++ E ++V +L RI Sbjct: 173 IILTQGLNRQIRRMTEALGYEVKQLRRI 200 >gi|315125461|ref|YP_004067464.1| 16S rRNA pseudouridylate 516 synthase [Pseudoalteromonas sp. SM9913] gi|315013974|gb|ADT67312.1| 16S rRNA pseudouridylate 516 synthase [Pseudoalteromonas sp. SM9913] Length = 232 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 63/228 (27%), Positives = 102/228 (44%), Gaps = 8/228 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K I+ R + I Q VNG ++ V D + PL + Sbjct: 4 PCRLDKFISHLAELPRSKARAAIKSQAATVNGEVITAFDFQVSQQDDVLFYDEPLVFLGK 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R ++ +KP+G V +SD + TVFD L P++ S GRLDI+T GL+L+TNDG Sbjct: 64 -RYFMLNKPVGYVCANSD-ELHKTVFDLLDEPNL-SDFHVAGRLDIDTTGLVLITNDGDW 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + P + Y V + L L+ G+ + D+ ++ N + Sbjct: 121 SHKITSPKKNKFKTYLVETQEPITDAALQQLRDGVQLHN--EKDLTRPAIAERLGNYGLR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 + + EGK ++K++ + KV L R +LG L AG R ++ Sbjct: 179 LSISEGKYHQVKRMLAAVDNKVVELHREQIAGIKLGEDLAAGEYRPLT 226 >gi|254285421|ref|ZP_04960386.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae AM-19226] gi|150424693|gb|EDN16629.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae AM-19226] Length = 231 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 62/229 (27%), Positives = 107/229 (46%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +R+E +++ V V+ ++ + A + T +E G + R Sbjct: 2 RLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREI-TLHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+V +H D + T F L + + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDGFNQ-TAFTLLDEVNIQDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + YRV + D +GI ++ G+ ++TL Q S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELR----GERELTLPAQLEVISETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F KV L R G L TL G R ++++ Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEE 224 >gi|126439492|ref|YP_001059472.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 668] gi|126218985|gb|ABN82491.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 668] Length = 574 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 327 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSN-ARAAQAAQ 385 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 386 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 444 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 445 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 503 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 504 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 559 Query: 228 LLAGSTR 234 L G R Sbjct: 560 LPQGEWR 566 >gi|227432625|ref|ZP_03914601.1| ribosomal large subunit pseudouridine synthase E [Leuconostoc mesenteroides subsp. cremoris ATCC 19254] gi|227351595|gb|EEJ41845.1| ribosomal large subunit pseudouridine synthase E [Leuconostoc mesenteroides subsp. cremoris ATCC 19254] Length = 185 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 48/175 (27%), Positives = 89/175 (50%), Gaps = 17/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++T +D +GR T+ D + RV + GRLD+++EGLLLLT+ G L L Sbjct: 12 LFNKPYNVLTKFTDAEGRPTLADYID--IPRVYAAGRLDMDSEGLLLLTDSGKLNHGLTD 69 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----------ICYG----DMQVTLDTQ 182 P + + Y V+ G + +L L++G+ ++ I Y + + + + Sbjct: 70 PDNKAYKTYVVQVEGVPTKSQLKQLEQGVALKDGLTLPAKVKRIPYPKWLWEREKPIRIR 129 Query: 183 KGS-NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 K +++ + ++EG+NR+++++ RLIR G + + L G R V Sbjct: 130 KNQPTSFIQLKIKEGRNRQVRRMTAAVGIPTLRLIRTHIGEYHIADLKPGQYRIV 184 >gi|217421322|ref|ZP_03452826.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 576] gi|217395064|gb|EEC35082.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 576] Length = 574 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 327 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSN-ARAAQAAQ 385 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 386 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 444 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 445 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 503 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 504 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 559 Query: 228 LLAGSTR 234 L G R Sbjct: 560 LPQGEWR 566 >gi|254197891|ref|ZP_04904313.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei S13] gi|169654632|gb|EDS87325.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei S13] Length = 574 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 327 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSN-ARAAQAAQ 385 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 386 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 444 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 445 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 503 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 504 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 559 Query: 228 LLAGSTR 234 L G R Sbjct: 560 LPQGEWR 566 >gi|124384572|ref|YP_001029187.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10229] gi|254178102|ref|ZP_04884757.1| RNA pseudouridine synthase family protein [Burkholderia mallei ATCC 10399] gi|254358102|ref|ZP_04974375.1| RNA pseudouridine synthase family protein [Burkholderia mallei 2002721280] gi|124292592|gb|ABN01861.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10229] gi|148027229|gb|EDK85250.1| RNA pseudouridine synthase family protein [Burkholderia mallei 2002721280] gi|160699141|gb|EDP89111.1| RNA pseudouridine synthase family protein [Burkholderia mallei ATCC 10399] Length = 563 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 316 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSN-ARAAQAAQ 374 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 375 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 433 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 434 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 492 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 493 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 548 Query: 228 LLAGSTR 234 L G R Sbjct: 549 LPQGEWR 555 >gi|127512491|ref|YP_001093688.1| pseudouridylate synthase [Shewanella loihica PV-4] gi|126637786|gb|ABO23429.1| ribosomal large subunit pseudouridine synthase E [Shewanella loihica PV-4] Length = 264 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 45/169 (26%), Positives = 82/169 (48%), Gaps = 16/169 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P V + GRLD ++EGLLLLTNDG L + Sbjct: 90 LFNKPFDVLCQFTDEQGRQTLKDFIP--IQDVYAAGRLDRDSEGLLLLTNDGQLQSRITE 147 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIV----------IQGICYGDM----QVTLDTQ 182 P + + Y V+ G + + L+ G+ ++ I D+ + + Sbjct: 148 PKKKTDKTYWVQVEGIPSDEAIQALRDGVTLKDGPTLPAKVERIAEPDVWPRNPPVRERK 207 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + +W+ + + EG+NR+++++ + RLIR G + L + G Sbjct: 208 QIPTSWLAITICEGRNRQVRRMTAHVGYPTLRLIRYKIGQWSLNGVANG 256 >gi|89095415|ref|ZP_01168328.1| putative ribosomal small subunit pseudouridine synthase A [Oceanospirillum sp. MED92] gi|89080322|gb|EAR59581.1| putative ribosomal small subunit pseudouridine synthase A [Oceanospirillum sp. MED92] Length = 237 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 66/216 (30%), Positives = 98/216 (45%), Gaps = 6/216 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + IA+ S+ +V +IA+ RV VN + + D + +D L+K Sbjct: 7 RLDRFIAKHTDHSKNDVRILIAKGRVYVNQTVAVSVDQIIKQFDEVILDDEVLQKNTPIY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP G+V+ SDP +TV D L + + GRLD + GLLLLTNDG + L Sbjct: 67 LML-NKPAGVVSATSDPQ-HTTVIDLLDDHYKDLHIAGRLDRFSTGLLLLTNDGEWSNSL 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT-VGL 193 P + + Y V + + KG+ Y D+ K V V L Sbjct: 125 SHPDNRVAKRYIVELKEPITDAYGDAFAKGM---HFAYEDITTQPAQLKQLEPRVAEVTL 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 EG+ +IK++F F +V L R+S G L L Sbjct: 182 HEGRYHQIKRMFGRFRNQVLSLHRVSIGNLPLDDAL 217 >gi|314936152|ref|ZP_07843499.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus hominis subsp. hominis C80] gi|313654771|gb|EFS18516.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus hominis subsp. hominis C80] Length = 228 Score = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 65/231 (28%), Positives = 107/231 (46%), Gaps = 9/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K ++ G+ +R EV++++ + VKVN + + V D I VDG + Sbjct: 2 RLDKFLSNMGVGTRTEVKQLLKKNSVKVNDKVEKSPKSQVDPEQDEITVDGKIIEYINHV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G V+ D D TV D + + VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPKGYVSATYD-DINQTVIDLIADYCHLDLFPVGRLDKDTEGLLLITNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + Y+V + + + K GI + Q+ +K + V Sbjct: 120 NLMSPSKHVSKTYKVTSKYPIKNEDIIAFKNGIELSDGKVKPAQL----EKLDHNVSLVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++F + +V L R+ L L +G R ++ + L+ Sbjct: 176 IYEGKYHQVKRMFHSIDNEVLELKRLKIANLTLDENLKSGEYRLLTSEELK 226 >gi|323496683|ref|ZP_08101734.1| ribosomal small subunit pseudouridine synthase A [Vibrio sinaloensis DSM 21326] gi|323318265|gb|EGA71225.1| ribosomal small subunit pseudouridine synthase A [Vibrio sinaloensis DSM 21326] Length = 233 Score = 69.7 bits (169), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 57/212 (26%), Positives = 95/212 (44%), Gaps = 3/212 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A A+R+E ++I V VN + + A V +E G ++K Sbjct: 2 RLDKYLCDALGATRKEATKIIKSGDVTVNDAVQKSGAFKVTDECVVEWQGREIQKPGPRY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ KP G V +H D T F L + + GRLD++T GL+L+T+DG + Sbjct: 62 IMLF-KPDGFVCSHED-GFNQTAFALLDEVKMEDLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + +D +GI ++ + LD V + + Sbjct: 120 ITSPKHKCEKTYRVWLVDPIGEDYAEKFAQGIELRSEKEPTLPAQLDIVNQDENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EGK ++K++F KV L R G +L Sbjct: 180 TEGKYHQVKRMFAALGNKVEHLHRERIGAIEL 211 >gi|330752330|emb|CBL87284.1| RNA pseudouridine synthase family protein [uncultured Flavobacteria bacterium] Length = 195 Score = 69.7 bits (169), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 52/188 (27%), Positives = 90/188 (47%), Gaps = 19/188 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + ++ +KP G ++ S G+ + D +LP+ V VGRLD ++EGLLL++ND + Sbjct: 6 KYYIIYKPKGCLSQFSKEHGKRALGDVFDLPT---DVYPVGRLDEDSEGLLLISNDKSIN 62 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG--IVIQGICYGDMQ------------V 177 L P R Y V+ GQ+ + + L G IV++G + + + Sbjct: 63 SKLLNPLNGHWRTYWVQVSGQIHKSAIKALVNGVDIVVKGKIHSTLPARVKKGNPPKNIL 122 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L+ + +WV + L EGK R+++K+ + RL+R +LG L + + Sbjct: 123 PLNVSEKETSWVKISLCEGKYRQVRKMTAKVGFPTLRLVRTHIEELELGELKPSEFKSLD 182 Query: 238 KKILREQL 245 KK L +L Sbjct: 183 KKALFHKL 190 >gi|89092944|ref|ZP_01165896.1| RsuA protein [Oceanospirillum sp. MED92] gi|89082969|gb|EAR62189.1| RsuA protein [Oceanospirillum sp. MED92] Length = 223 Score = 69.7 bits (169), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 48/180 (26%), Positives = 87/180 (48%), Gaps = 20/180 (11%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L++KP ++T + D + T+ D LP ++ GRLD ++EGLL+LTNDG L Sbjct: 6 LFNKPFQVLTQFTTDDDKQTLADYIELPDYYA----AGRLDYDSEGLLILTNDGPTQHYL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY----------GDMQVTLDTQK 183 P + + Y + G+V ++ L L G+ ++ G+ Q T ++ Sbjct: 62 ANPQFKMEKTYWAQVEGEVTEEALETLSSGVELKDGMTRPAKAKKINEPAIWQRTPPIRE 121 Query: 184 GSN---AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 N +W+ + + EGKNR+++++ + RL+R + G + L L G + + I Sbjct: 122 RKNIPTSWIELKITEGKNRQVRRMTAAVGFPTLRLVRYAIGEWTLDNLKPGQSSLIESDI 181 >gi|167816387|ref|ZP_02448067.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 91] Length = 351 Score = 69.7 bits (169), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 104 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEID-SNARAAQAAQ 162 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 163 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 221 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 222 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 280 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 281 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 336 Query: 228 LLAGSTR 234 L G R Sbjct: 337 LPQGEWR 343 >gi|153216913|ref|ZP_01950677.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae 1587] gi|124114062|gb|EAY32882.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae 1587] Length = 229 Score = 69.7 bits (169), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 62/229 (27%), Positives = 107/229 (46%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +R+E +++ V V+ ++ + A + T +E G + R Sbjct: 2 RLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREI-TLHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+V +H D + T F L + + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDGFNQ-TAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + YRV + D +GI ++ G+ ++TL Q S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELR----GERELTLPAQLEVISETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F KV L R G L TL G R ++++ Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEE 224 >gi|298710181|emb|CBJ26256.1| pseudouridine synthase [Ectocarpus siliculosus] Length = 387 Score = 69.7 bits (169), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 61/205 (29%), Positives = 98/205 (47%), Gaps = 39/205 (19%) Query: 74 RLWLYHKPIGLVTTHSDPDGRS--TVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGL 130 R ++ HKP G VT+ D GR TV+D + VGRLD +T G+LL T+D L Sbjct: 2 RYFMLHKPRGCVTSTVDDTGRGRPTVYDVAKAAGVPNFGPVGRLDFDTSGVLLFTDDYKL 61 Query: 131 ARVLELPSTQ----------WLRVYRVRFHGQV-DQDK-LNLLKKGIVIQGICYGD---- 174 + + P+ + +VY + G + +DK ++LL++ + G Sbjct: 62 KKAISSPTYKGKAAVGTVPSMEKVYHLLVAGTITPEDKGMDLLQEPLHFSRKLDGPGGSW 121 Query: 175 ---------MQVTLDT--------QKGSNA---WVTVGLREGKNREIKKVFEFFNWKVNR 214 + T T + G+ A W+ V LREGKNR+I+++ +++ R Sbjct: 122 TKPAEARVLLTKTFKTGQPVPWRFKPGTVATITWIEVVLREGKNRQIRRLCRRSEFELTR 181 Query: 215 LIRISYGPFQLGTLLAGSTREVSKK 239 L RIS GP LG + GS RE++++ Sbjct: 182 LHRISVGPIVLGDVEEGSCRELTRQ 206 >gi|238760641|ref|ZP_04621767.1| Ribosomal large subunit pseudouridine synthase F [Yersinia aldovae ATCC 35236] gi|238701130|gb|EEP93721.1| Ribosomal large subunit pseudouridine synthase F [Yersinia aldovae ATCC 35236] Length = 290 Score = 69.7 bits (169), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 63/226 (27%), Positives = 112/226 (49%), Gaps = 13/226 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K I+ +GI SRR+ +R I Q V +NG +RAAV V + ++V+G + + Sbjct: 8 RLNKYISESGICSRRDADRYIEQGNVFING---KRAAVGDQVYVGNVVKVNGQLIEPRDE 64 Query: 73 TRLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L +KP+G+++T + G S + + RV +GRLD +++GL+LLTN G L Sbjct: 65 NDLVLIALNKPVGIISTTEE--GESDNIVDFVNHSKRVFPIGRLDKDSQGLILLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + L G+ + G + +K + Sbjct: 123 VNKILRAGNDHEKEYVVTVNKPVTDEFIVGLAAGVPMMGT----VTKKCKVKKIAPFVFN 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + L +G NR+I+++ + F ++V +L R L L G R++ Sbjct: 179 ITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNVTLKGLPQGEWRDL 224 >gi|319638371|ref|ZP_07993133.1| ribosomal small subunit pseudouridine synthase A [Neisseria mucosa C102] gi|317400120|gb|EFV80779.1| ribosomal small subunit pseudouridine synthase A [Neisseria mucosa C102] Length = 227 Score = 69.7 bits (169), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 56/225 (24%), Positives = 100/225 (44%), Gaps = 20/225 (8%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERA-------AVNVMSTDHIEVDGVPLRKA 70 K I G+ SR++ + +I + +NG + RA V+ +S D E+ VP+ Sbjct: 5 KYIQSQGLGSRKQCQWLIDNDCIAINGEIHNRAKDDIDPSQVHTLSVDGEEIAAVPMPYF 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDG 128 L HKP T+H P ++F P + +VGRLD +T G++L+TNDG Sbjct: 65 ----YILLHKPADYETSHK-PQQYPSIFSLFPDHMRNIDMQAVGRLDADTTGIILITNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSN 186 + P + ++YRV + LK G+++ + D + + Sbjct: 120 QFNHRVTSPKHKVPKLYRVTLKHPANDTLCATLKNGVLL----HDDNETVAAAEAVLADP 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V +L R +G + + L AG Sbjct: 176 TTLMMTITEGKYHQVKRMVAAAGNRVEQLHREKFGDWNVDDLAAG 220 >gi|134277960|ref|ZP_01764675.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 305] gi|134251610|gb|EBA51689.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 305] Length = 570 Score = 69.7 bits (169), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 323 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSN-ARAAQAAQ 381 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 382 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 440 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 441 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 499 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 500 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 555 Query: 228 LLAGSTR 234 L G R Sbjct: 556 LPQGEWR 562 >gi|157372205|ref|YP_001480194.1| 23S rRNA pseudouridine synthase F [Serratia proteamaculans 568] gi|157323969|gb|ABV43066.1| pseudouridine synthase [Serratia proteamaculans 568] Length = 286 Score = 69.7 bits (169), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 61/233 (26%), Positives = 113/233 (48%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRR+ +R I Q V +NG +R + V D ++V+G + R Sbjct: 8 RLNKYISESGICSRRDADRYIEQGNVFING---KRVTLGDQVFPGDVVKVNGQLIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP+G+V+T + + + V + + +R+ +GRLD +++GL+ LTN G L Sbjct: 65 DNLIFIALNKPVGIVSTTEEGEKDNIV--DFVNHSTRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V D + L G+ + G + +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVNKPVTDDFIRGLGAGVPM----LGTVTKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E F ++V +L R + L G R+++ L E Sbjct: 179 IVLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVGMAGLPPGEWRDLTDDELVE 231 >gi|224543154|ref|ZP_03683693.1| hypothetical protein CATMIT_02354 [Catenibacterium mitsuokai DSM 15897] gi|224523941|gb|EEF93046.1| hypothetical protein CATMIT_02354 [Catenibacterium mitsuokai DSM 15897] Length = 234 Score = 69.3 bits (168), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 59/180 (32%), Positives = 84/180 (46%), Gaps = 17/180 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ HKP G V + D + LP + VGRLD NT GL++LTND L + Sbjct: 58 KYYIIHKPSGYVCANKD-SHDPCLISLLPD--DNLHYVGRLDRNTTGLVILTNDLKLRKR 114 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV-TVG 192 L LP R Y F + K+GI I G D++ + ++ + + Sbjct: 115 LTLPEFHIPRTYA--FTCLNPLKDITPFKEGITIDG----DVKCLPAIVEMTSEYEGVIT 168 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS-------KKILREQL 245 L EG+ EIKK+F N K+ L RI YG LG L +G+ R ++ K I R QL Sbjct: 169 LEEGRYHEIKKMFLSLNNKITSLHRIMYGDISLGDLPSGTYRTLTQEEINHLKDITRRQL 228 >gi|83311571|ref|YP_421835.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Magnetospirillum magneticum AMB-1] gi|82946412|dbj|BAE51276.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Magnetospirillum magneticum AMB-1] Length = 196 Score = 69.3 bits (168), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 52/182 (28%), Positives = 93/182 (51%), Gaps = 22/182 (12%) Query: 73 TRLWLYHKPIGLVTTHSDPDG-RSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 TRL +++KP ++T +D +G R+T+ F +P +++ GRLD ++EGLL+LT+ G Sbjct: 16 TRLIVFNKPYDVLTQFTDREGGRATLKDFIKVPGVYA----AGRLDRDSEGLLVLTDSGP 71 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ----------GICYGDMQVTL 179 LA + P + + Y + G + L+ L++GIV++ + D Sbjct: 72 LAARISDPKHKLAKTYWAQVEGVPTEADLDRLRRGIVLKDGPTLPAGARAMAEPDNLWPR 131 Query: 180 DT-----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 D +W+ + LREG+NR+++++ + RLIR + G + L L G R Sbjct: 132 DPPIRYRAAIPTSWIELTLREGRNRQVRRMTAAMGFPTLRLIRWAVGEWNLEGLAPGEWR 191 Query: 235 EV 236 +V Sbjct: 192 DV 193 >gi|167846297|ref|ZP_02471805.1| pseudouridine synthase family protein [Burkholderia pseudomallei B7210] Length = 334 Score = 69.3 bits (168), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 87 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEID-SNARAAQAAQ 145 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 146 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 204 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 205 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 263 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 264 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 319 Query: 228 LLAGSTR 234 L G R Sbjct: 320 LPQGEWR 326 >gi|224008973|ref|XP_002293445.1| pseudouridylate synthase [Thalassiosira pseudonana CCMP1335] gi|220970845|gb|EED89181.1| pseudouridylate synthase [Thalassiosira pseudonana CCMP1335] Length = 253 Score = 69.3 bits (168), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 65/245 (26%), Positives = 112/245 (45%), Gaps = 39/245 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVN-------GILLERAAVN 53 + +KN+ F P R++KV + SRR+ ++++A R+ +N G + N Sbjct: 3 VSNKNVT---FQPIRINKVFKKT--HSRRQADQLVADGRITINDEPVHSAGQRVSNGGAN 57 Query: 54 VMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-------- 105 S+ + E + W KP+G+ T D R ++DNL Sbjct: 58 SESSTQV---------FEYIKYW---KPLGVTCT---TDRR--IYDNLIDALQQDGCRPK 100 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 SR+ VGRLD T G++L+T+DG L + + Y V+ + V D + L++G+ Sbjct: 101 SRIFPVGRLDKETSGIILMTSDGRLPNAALRGKYKHPKTYVVKANRPVANDDIKRLREGV 160 Query: 166 VIQG--ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 + + V L T S+ ++ + L EG+NR+I+K+ E ++V L R S+ Sbjct: 161 PLTAPTLPCKVKAVQLSTLDLSSRYLEITLVEGRNRQIRKMLEAIGYRVMELHRKSFMNL 220 Query: 224 QLGTL 228 L L Sbjct: 221 TLENL 225 >gi|262282747|ref|ZP_06060515.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. 2_1_36FAA] gi|262262038|gb|EEY80736.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. 2_1_36FAA] Length = 241 Score = 69.3 bits (168), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 58/218 (26%), Positives = 108/218 (49%), Gaps = 13/218 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK----A 70 R+ +++A+A I SR+ +++ + ++ + V+ + A N+ + + K A Sbjct: 2 RLDRLLAQASI-SRKSMKQALLRRAILVD----QTPARNLSQNVDTGLQDILFYKQKISA 56 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDG 128 R ++ +KP G +T +SD ++TV D + + S+GRLD +T GLLL+T++G Sbjct: 57 PAHRYFMMNKPRGYITANSDA-SKATVIDLIQKEDFSEELYSIGRLDRDTTGLLLITDNG 115 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNA 187 L L P + Y V+ +G +D + ++G+ + G Q+ + + + Sbjct: 116 PLGFQLLHPQYHVDKTYFVQVNGLLDNQAIEAFQQGVRFLDGKVCKPAQLIIHSATPVLS 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +V + EGK ++KK+F KV L R G FQL Sbjct: 176 TASVTISEGKFHQVKKMFLAIGVKVTYLKRTHLGDFQL 213 >gi|229048259|ref|ZP_04193827.1| RNA pseudouridine synthase [Bacillus cereus AH676] gi|228722984|gb|EEL74361.1| RNA pseudouridine synthase [Bacillus cereus AH676] Length = 203 Score = 69.3 bits (168), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 56/207 (27%), Positives = 103/207 (49%), Gaps = 10/207 (4%) Query: 42 VNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWL-YHKPIGLVTTHSDPDGRSTV-FD 99 +NG + A+ V D + +DG + K E+ ++++ +HKP+G+ T +D + + + Sbjct: 3 INGEICTHGAL-VSDGDRVTIDGQVIVKEEKEKVYIAFHKPVGITCTAADHIEDNIIDYI 61 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 N P R+ VGRLD +EGL+LLTNDGG+A + + + Y V ++ Sbjct: 62 NYPE---RIFPVGRLDKASEGLILLTNDGGIANQILHGDHEHEKEYVVTVDKPFTDWFID 118 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 + +G+ I+ +VT + + + L +G NR+I+++ F + V +L R+ Sbjct: 119 EMSRGVKIKDGMTKPCKVT----RVDQSTFRIVLTQGMNRQIRRMSRAFGFTVIKLKRVR 174 Query: 220 YGPFQLGTLLAGSTREVSKKILREQLG 246 +L L G R V+ + L +G Sbjct: 175 IMNIELNELEVGKWRSVTAEELEILIG 201 >gi|260584747|ref|ZP_05852492.1| ribosomal small subunit pseudouridine synthase A [Granulicatella elegans ATCC 700633] gi|260157404|gb|EEW92475.1| ribosomal small subunit pseudouridine synthase A [Granulicatella elegans ATCC 700633] Length = 237 Score = 69.3 bits (168), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 62/224 (27%), Positives = 107/224 (47%), Gaps = 15/224 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 R+ ++ + SR++++++I+ V ++ + NV I+V V + E Sbjct: 2 RLEHLLMKHFDISRKQMKKLISSGEVLIDSTPATHVSNNV--DPQIQVITVQGSRMEDNS 59 Query: 74 -RLWLYHKPIGLVTTHSDPDGRSTVFD-----NLPSIFSRVISVGRLDINTEGLLLLTND 127 + +L +KP G++T +D TV D N+ ++ +GRLD +TEGLL++TN+ Sbjct: 60 QKYYLLNKPKGVITATTDSQ-LPTVIDLFKNENIEGLYP----IGRLDRDTEGLLIITNN 114 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G L L P + Y V +G +D + GI+ G ++++ S Sbjct: 115 GPLGYRLLNPIQHIEKEYYVEVNGPLDNSCIQRFYDGIMFHDGTICKPAKLSILESSPSF 174 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + TV + EGK +IKK+F KV L RI +G F L L+ Sbjct: 175 SKATVTISEGKFHQIKKMFLCVGVKVTFLKRIRFGEFLLDESLS 218 >gi|167569105|ref|ZP_02361979.1| RNA pseudouridine synthase family protein [Burkholderia oklahomensis C6786] Length = 240 Score = 69.3 bits (168), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 63/210 (30%), Positives = 93/210 (44%), Gaps = 7/210 (3%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTRLWLYHKPI 82 G SRR+ ++ RV V G A + + EVDGV R + L +KP Sbjct: 11 GFGSRRQCRALVEAGRVAVGGATCTDAHASFDTARLAFEVDGVAWPYHARAYVVL-NKPA 69 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 G + +P S+VF LP F+ V VGRLD +T GLLLL++DG P + Sbjct: 70 GYECSR-EPQHHSSVFRLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAYTSPKRK 128 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 + Y +D L+ L+ G+++ G V + +TV EGK + Sbjct: 129 VPKTYVATVRHPLDDALLDALRAGVLLHGEPKPIAAVAAHARGERLLEMTVA--EGKYHQ 186 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +K++ + +V L R S G F L LA Sbjct: 187 VKRMVAAASNRVEALHRASIGGFTLPADLA 216 >gi|153801570|ref|ZP_01956156.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MZO-3] gi|124122897|gb|EAY41640.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MZO-3] Length = 231 Score = 69.3 bits (168), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 62/229 (27%), Positives = 107/229 (46%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +R+E +++ V V+ ++ + A + T +E G + R Sbjct: 2 RLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREI-TLHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+V +H D + T F L + + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDGFNQ-TAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + YRV + D +GI ++ G+ ++TL Q S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELR----GERELTLPAQLEVISETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F KV L R G L TL G R ++++ Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEE 224 >gi|255069983|ref|XP_002507073.1| pseudouridylate synthase [Micromonas sp. RCC299] gi|226522348|gb|ACO68331.1| pseudouridylate synthase [Micromonas sp. RCC299] Length = 334 Score = 69.3 bits (168), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 111/246 (45%), Gaps = 39/246 (15%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+SK+IA SRRE ER+I++ +V VNG+L+ + + E D Sbjct: 90 QRISKIIALREFCSRREAERLISRSQVVVNGVLIHQGS-------KAECDSEIQLAEIGD 142 Query: 74 RLWL-------YHKPIGLVT---THSDPDGRSTVFDNLPS-IFSRVIS------------ 110 ++W +KP G V+ +H + + S + S I S S Sbjct: 143 QVWFQSKSTVALNKPRGYVSNLPSHGEVEACSLLITTTGSHIHSSKWSSRTENDNGQLNV 202 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 GRLD N+ GLL+L+ DG LAR + + + Y V V Q+ L+ L G Sbjct: 203 CGRLDKNSRGLLVLSQDGVLAREV-IAGVFVSKTYLVEVDKMVTQNDLDRL------NGP 255 Query: 171 C--YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 C D+ + + + + LREGKNR+I+++ E V L R+ G +LG+L Sbjct: 256 CKFLTDVIRPIRVRLLAPTLLEFVLREGKNRQIRRMCEQMGLIVVDLFRVRLGKSELGSL 315 Query: 229 LAGSTR 234 GS R Sbjct: 316 PEGSWR 321 >gi|328947358|ref|YP_004364695.1| pseudouridine synthase Rsu [Treponema succinifaciens DSM 2489] gi|328447682|gb|AEB13398.1| pseudouridine synthase Rsu [Treponema succinifaciens DSM 2489] Length = 255 Score = 69.3 bits (168), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 64/241 (26%), Positives = 108/241 (44%), Gaps = 24/241 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGI-LLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ V R GI++ R V R++ + V VNG +LE ++TD + +DG+ A Sbjct: 7 ERLDTVFIRRGISTHRRVRRLLQKHNVCVNGTRVLESGFGLNLATDELSIDGIKKNLAPD 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---------SRVISVGRLDINTEGLLL 123 L + +K G + + D TV+ +P + ++ +VGRLD +TEGLL+ Sbjct: 67 IYLMM-NKKSGTICSTKDDGLYKTVYSFIPQKYFYYAKENSLQKIHTVGRLDTDTEGLLI 125 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC---------YGD 174 T +G + L P + Y V +++ L+K +G + Sbjct: 126 FTTNGDFSHSLANPLFHVKKTYYVELEKSEPEEQRKFLEKKFS-EGFFIPPEKNEREFIS 184 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GST 233 L+ ++ +T+ EGK ++K++F KV L RIS G L LA G + Sbjct: 185 RPAILEWNSANSCRLTI--TEGKFHQVKRMFSAQGNKVIFLKRISIGSLALDEKLAPGDS 242 Query: 234 R 234 R Sbjct: 243 R 243 >gi|148377816|ref|YP_001256692.1| 16S rRNA uridine-516 pseudouridylate synthaseand related pseudouridylate synthase [Mycoplasma agalactiae PG2] gi|148291862|emb|CAL59253.1| 16S rRNA uridine 516 pseudouridylate synthaseand related pseudouridylate synthase [Mycoplasma agalactiae PG2] Length = 232 Score = 69.3 bits (168), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 69/230 (30%), Positives = 117/230 (50%), Gaps = 17/230 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA SR EV+ + ++ +KVN ++L + D +E+D L K E+ + Sbjct: 5 RIEKYIADLTNLSRNEVKNKLKKKAIKVNRVILTKLIKIDSEKDVVELDNSIL-KYEKFQ 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++++KP + +SD + +T+FD LP+ + S GRLD +TEGLL+L+NDG + Sbjct: 64 YYMFNKPANFICANSDSE-EATIFDIVGLPA--EKFFSFGRLDKDTEGLLILSNDGQMCH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT---LDTQKGSNAWV 189 L P + Y V+ ++D + L L I I D V+ L+ ++ Sbjct: 121 RLLSPKNHVPKKYYVKVDKKIDSEIL-LNHSPIKIN----DDFIVSKYILELIDDKGCFL 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 T+ EGK +IK++F + V L R+ +G +L L G R++S+ Sbjct: 176 TI--YEGKFHQIKRMFGSLGFSVLYLKRVEFGKLKLDNNLKLGQVRKLSE 223 >gi|254468338|ref|ZP_05081744.1| ribosomal large subunit pseudouridine synthase E [beta proteobacterium KB13] gi|207087148|gb|EDZ64431.1| ribosomal large subunit pseudouridine synthase E [beta proteobacterium KB13] Length = 176 Score = 69.3 bits (168), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 47/174 (27%), Positives = 84/174 (48%), Gaps = 20/174 (11%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L++KP G+V S + T+ D N+P+I+ GRLD ++EGLL+LT++G + + Sbjct: 4 LFNKPFGVVCQFSKHEIHPTLKDYLNIPNIYP----AGRLDTDSEGLLVLTDNGKIQHEI 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------- 184 P++ + Y V+ G + + + L+ GI ++ +V + Sbjct: 60 SSPNSHKYKGYWVQVEGDIKNEAIQKLQNGIKLKDFTSLPARVEKINEPEIWERSTPIRF 119 Query: 185 ----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +WV + +REGKNR+++K+ + RLIR + L LL G + Sbjct: 120 RKNLPTSWVKIQIREGKNRQVRKMTAAVGFPTLRLIRYHVDDYYLNKLLPGDYQ 173 >gi|119947129|ref|YP_944809.1| pseudouridine synthase [Psychromonas ingrahamii 37] gi|119865733|gb|ABM05210.1| ribosomal small subunit pseudouridine synthase A [Psychromonas ingrahamii 37] Length = 230 Score = 69.3 bits (168), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 58/223 (26%), Positives = 99/223 (44%), Gaps = 19/223 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I + +R + +++I Q R+ +G ++ V+ I DG L TR Sbjct: 2 RLDKYICESTTMTRSQAKKVIIQGRITSDGTVMRNTGYKVLENTPICFDG-NLINVRGTR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--------RVISVGRLDINTEGLLLLTN 126 + +KP + STV + PSI + ++ GRLD +T GL L+T+ Sbjct: 61 YIMLNKPKDFIC--------STVDEQFPSIINLIKVDKPDQLCIAGRLDADTTGLALITD 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + P + YR V+Q+ + L K+GI ++ + TL+ + Sbjct: 113 DGQWSHKITSPRRNCSKRYRATLAQPVEQNAVTLFKEGIQLKSENVPCLPATLEILTDNE 172 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 +T+ EGK ++K++F V L R G +L T L Sbjct: 173 VLLTI--HEGKYHQVKRMFAAIGNLVVELHREQIGEIKLDTDL 213 >gi|86138278|ref|ZP_01056852.1| RNA pseudouridylate synthase [Roseobacter sp. MED193] gi|85824803|gb|EAQ45004.1| RNA pseudouridylate synthase [Roseobacter sp. MED193] Length = 241 Score = 69.3 bits (168), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 48/181 (26%), Positives = 90/181 (49%), Gaps = 25/181 (13%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV------FDNLPSIFSRVISVGRLDINTEGLLLLTN 126 TRL ++KP ++ +D + + + N P +++ GRLD ++EGL+LLT+ Sbjct: 2 TRLIRFNKPYDVLPQFTDSGSQGSARPTLSAYINCPGVYA----AGRLDRDSEGLMLLTD 57 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---------ICYGDMQV 177 +G L + P + + Y V+ G+ D L L++G+ ++ + Q+ Sbjct: 58 NGRLQAWISDPQHKMAKTYWVQVEGEPDSRALAALQQGVALKDGMTRPAKAHLMEAPAQL 117 Query: 178 -----TLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + T+K +W+++ L+EGKNR+++++ + RLIR S G + L L G Sbjct: 118 WQREPPIRTRKSIPTSWISLTLKEGKNRQVRRMTAAVGFPTLRLIRYSIGVWTLDGLPQG 177 Query: 232 S 232 S Sbjct: 178 S 178 >gi|121728919|ref|ZP_01681926.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae V52] gi|147673094|ref|YP_001217185.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae O395] gi|262169651|ref|ZP_06037342.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae RC27] gi|121628805|gb|EAX61267.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae V52] gi|146314977|gb|ABQ19516.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae O395] gi|227013543|gb|ACP09753.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae O395] gi|262021885|gb|EEY40595.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae RC27] Length = 231 Score = 69.3 bits (168), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 62/229 (27%), Positives = 107/229 (46%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +R+E +++ V V+ ++ + A + T +E G + R Sbjct: 2 RLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREIM-LHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+V +H D + T F L + + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDGFNQ-TAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + YRV + D +GI ++ G+ ++TL Q S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELR----GERELTLPAQLEVISETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F KV L R G L TL G R ++++ Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEE 224 >gi|167739176|ref|ZP_02411950.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 14] Length = 313 Score = 69.3 bits (168), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 66 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDS-NARAAQAAQ 124 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 125 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 183 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 184 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 242 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 243 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 298 Query: 228 LLAGSTR 234 L G R Sbjct: 299 LPQGEWR 305 >gi|145298401|ref|YP_001141242.1| ribosomal large subunit pseudouridine synthase E [Aeromonas salmonicida subsp. salmonicida A449] gi|142851173|gb|ABO89494.1| ribosomal large subunit pseudouridine synthase E [Aeromonas salmonicida subsp. salmonicida A449] Length = 321 Score = 69.3 bits (168), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 48/169 (28%), Positives = 83/169 (49%), Gaps = 20/169 (11%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L +KP ++ +D GR T+ D + P I++ GRLD ++EGLLLLTNDG L Sbjct: 58 KLLLLNKPYMVLCQFTDEAGRETLKDYIKEPGIYA----AGRLDRDSEGLLLLTNDGKLQ 113 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 L P + + Y V+ G +++L L+ G+ + G+ +D Sbjct: 114 ARLTQPGEKTPKTYWVQVEGIPSEEELAALRAGVELNDGLTLPAEARLMDEPNVWPRNPP 173 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 ++ W+ + + EG+NR+++++ RLIR + G + LG Sbjct: 174 IRERKEVPTRWLEIKIVEGRNRQVRRMTAHIGHPTLRLIRYAIGDWTLG 222 >gi|167470950|ref|ZP_02335654.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis FV-1] Length = 165 Score = 69.3 bits (168), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 39/151 (25%), Positives = 75/151 (49%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQMVGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + + Sbjct: 62 YFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRV 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 P + Y V + D G+ Sbjct: 122 TSPRHHCEKTYLVTLEHPLSDDTAQQFADGV 152 >gi|261346079|ref|ZP_05973723.1| ribosomal small subunit pseudouridine synthase A [Providencia rustigianii DSM 4541] gi|282565731|gb|EFB71266.1| ribosomal small subunit pseudouridine synthase A [Providencia rustigianii DSM 4541] Length = 234 Score = 69.3 bits (168), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 49/211 (23%), Positives = 98/211 (46%), Gaps = 2/211 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + + V+ +++ ++ + + + + DG L + R Sbjct: 2 RLDKFLSQQLGISRNLVARELRAGNITVDDKVVKSGSMQISADNEVSYDGNVLIQITGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ HKP G V + DP + ++ + ++ + GRLDI+T GL+LLT+DG + + Sbjct: 62 YFMLHKPEGYVCSTDDPTHPTILYFIDEPVTQKLHAAGRLDIDTTGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + YRV+ + D + + G+++ G L+ +T+ Sbjct: 122 TSPKHHCEKTYRVQLSEDITDDVIQKFEIGVMLNGEKSPTKPAQLEIISPREVLLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EG+ ++K++F V L R G +L Sbjct: 180 EGRYHQVKRMFAAVGNHVCGLHRERVGEIRL 210 >gi|294637088|ref|ZP_06715402.1| ribosomal small subunit pseudouridine synthase A [Edwardsiella tarda ATCC 23685] gi|291089716|gb|EFE22277.1| ribosomal small subunit pseudouridine synthase A [Edwardsiella tarda ATCC 23685] Length = 235 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 56/234 (23%), Positives = 103/234 (44%), Gaps = 3/234 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I++ SR V R + + V V+G++ ++ + + + G L R Sbjct: 2 RLDKFISQQLGISRALVARELRARYVTVDGVVARSGSLQITAEQEVAYQGNVLTFITGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLD++T GL+LLT+DG + + Sbjct: 62 YFMLNKPEGYVCSTDDPDHATILYFIDEPMAEKLHAAGRLDLDTTGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V +D +G+ + G D+ + V + + Sbjct: 122 TSPRHHCEKTYLVTLEQPLDPQTAEQFAQGVQLHG--EKDLTKPARLEALDEHQVRLTIS 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGP 247 EG+ ++K++F +V L R G L LA G R +S + L P Sbjct: 180 EGRYHQVKRMFAAVGNRVVALHRERIGAIALDAALAPGEYRALSDDEVASVLAP 233 >gi|167855378|ref|ZP_02478145.1| ribosomal large subunit pseudouridine synthase E [Haemophilus parasuis 29755] gi|219871231|ref|YP_002475606.1| pseudouridylate synthase [Haemophilus parasuis SH0165] gi|167853526|gb|EDS24773.1| ribosomal large subunit pseudouridine synthase E [Haemophilus parasuis 29755] gi|219691435|gb|ACL32658.1| pseudouridylate synthase [Haemophilus parasuis SH0165] Length = 220 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 45/178 (25%), Positives = 90/178 (50%), Gaps = 21/178 (11%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T + L +KP G+++ ++ T+ F ++P+++ +GRLD ++EGLLLLTN+G Sbjct: 23 DETIVVLVNKPYGVLSQFTNNQACKTLKEFISIPNVYP----IGRLDKDSEGLLLLTNNG 78 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--------- 179 + L P + + Y V+ G + LN L G++++ +V + Sbjct: 79 QIQHRLANPKFEKEKTYWVQIEGIPQPEDLNRLASGVILKDGLTKPAKVKIIPDPHFKWQ 138 Query: 180 ------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + +W+ + + EGKNR+++++ + RL+R+ F+LG+L G Sbjct: 139 SAPKIRERKNIPTSWIELKIVEGKNRQVRRMTAHIGFPTLRLVRVGVSYFKLGSLAPG 196 >gi|295677418|ref|YP_003605942.1| pseudouridine synthase [Burkholderia sp. CCGE1002] gi|295437261|gb|ADG16431.1| pseudouridine synthase [Burkholderia sp. CCGE1002] Length = 236 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 59/220 (26%), Positives = 94/220 (42%), Gaps = 9/220 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD---HIEVDGVPLRKAER 72 + ++ G SRR+ +I RV ++G + A + VDGV E Sbjct: 3 LESILFTQGFGSRRQCRALIGDGRVGIDGAICTDADADFAVDSGALRFSVDGVEWPYREH 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L L +KP+G + DP +VF LP F+ V VGRLD +T GLLLL++DG Sbjct: 63 AYL-LLNKPVGYECSR-DPQHHLSVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGKF 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 P + ++Y +D +L L+ G+++ G LD + + Sbjct: 121 VHQFTSPKRKVPKLYVATTRHPLDDAQLAALRDGVLLHG--ETKPSAALDAEARDTHTLA 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + EGK ++K++ + L R G L LA Sbjct: 179 LTVLEGKYHQVKRMIAASGNRCEALHRERIGGLVLPATLA 218 >gi|219122723|ref|XP_002181690.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217406966|gb|EEC46904.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 217 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 63/218 (28%), Positives = 101/218 (46%), Gaps = 20/218 (9%) Query: 27 SRREVERMIAQQRVKVNGILLE-RAAVNVMST-DHIEVDGVPLRKAERTRLWL----YHK 80 SRRE +++I RV VN I ++ + V+ D I +DG+P+ + Y K Sbjct: 1 SRREADKLIEAGRVSVNDIPVKSKGGFKVVPFHDKITLDGIPVTGTSDATINFDYVKYWK 60 Query: 81 PIGLVTTHSDPDGRSTVFDNLPSI----FSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 P+G VT +D + D L R+ VGRLD T GL+LLT+DG + + Sbjct: 61 PVG-VTCTTDRKIAGNIIDALEEAGFDSSKRIFPVGRLDKETSGLILLTSDGRVPNAVLR 119 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNAWVTVG-- 192 + ++Y+V V + L+ G++I + G+ L + S A +G Sbjct: 120 GRHKQPKIYQVWVDRPVLAKDVAQLRDGVIITTVAQRDGNRAEPLTARTKSCAVQVLGRE 179 Query: 193 -----LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 L EG+NR+I+K+ N+ V RL R+ + L Sbjct: 180 KLQLTLVEGRNRQIRKMLGALNYTVKRLHRVQFMELTL 217 >gi|167911508|ref|ZP_02498599.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 112] Length = 298 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 51 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDS-NARAAQAAQ 109 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 110 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 168 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 169 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 227 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 228 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 283 Query: 228 LLAGSTR 234 L G R Sbjct: 284 LPQGEWR 290 >gi|149917083|ref|ZP_01905583.1| ribosomal large subunit pseudouridine synthase B [Plesiocystis pacifica SIR-1] gi|149821999|gb|EDM81392.1| ribosomal large subunit pseudouridine synthase B [Plesiocystis pacifica SIR-1] Length = 238 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 55/173 (31%), Positives = 81/173 (46%), Gaps = 20/173 (11%) Query: 77 LYHKPIGLVTTHSDPDGRS----TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP G+VT +D GR + + P +F+ + +VGRLD++ GLLL T DG L Sbjct: 62 MLHKPHGVVTARAD--GRHPTAYALLEGAP-LFAELRAVGRLDLDAVGLLLWTTDGQLVH 118 Query: 133 VLELPSTQWLRVYRVRFHGQV------DQDKLNL-LKKGIVIQGICYGDM-----QVTLD 180 L P R Y V D + L L+ G+ + + G + L Sbjct: 119 ALTHPRRAVPRTYHVALAAPFEAPPRDDDGAVALELRDGLRPRVVALGALDEAAAHPALL 178 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGS 232 T G+ A TV L +G E+K++F V L R+ +GP +L TL AG+ Sbjct: 179 TPPGTEALATVTLLDGAYHEVKRIFAALGSHVLCLARVRHGPVELPRTLEAGA 231 >gi|188533404|ref|YP_001907201.1| 16S rRNA pseudouridylate synthase A [Erwinia tasmaniensis Et1/99] gi|188028446|emb|CAO96308.1| Ribosomal small subunit pseudouridine synthase A [Erwinia tasmaniensis Et1/99] Length = 234 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 56/227 (24%), Positives = 106/227 (46%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR R + ++V V+G ++ + + + IE DG L++ R Sbjct: 2 RLDKFLSQQLEVSRAIAARELRAKKVTVDGEVVRDGSYKLSADSAIEYDGNALQQQLGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP+G V + DPD + + F PS + ++ + GRLDI+T GL+L+T+DG + Sbjct: 62 YFMLNKPVGYVCSTDDPDHPTILYFLEEPSAY-KLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + L+ + + +T+ Sbjct: 121 ITSPRHHCEKTYLVTLESPIGHDTAQQFADGVQLHNEKTLTKPAALEVIEPNLVRLTIS- 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 EG+ ++K++F +V L R G L T + G R +S + Sbjct: 180 -EGRYHQVKRMFAAVGNRVVALHRERIGAILLDTGMQPGEYRPLSDE 225 >gi|172060970|ref|YP_001808622.1| RNA-binding S4 domain-containing protein [Burkholderia ambifaria MC40-6] gi|171993487|gb|ACB64406.1| RNA-binding S4 domain protein [Burkholderia ambifaria MC40-6] Length = 646 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 72/248 (29%), Positives = 112/248 (45%), Gaps = 30/248 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V IE+D Sbjct: 399 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPDQKIEIDERASAAQAAQV 458 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS-----RVISVGRLDINT 118 L HKP+G V+ ++ DG D P FS + GRLDI++ Sbjct: 459 TILLHKPVGYVSGQAE-DGYEPASVLITRANQWSGDRSPLRFSPQHLHALAPAGRLDIDS 517 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQ---VDQ----DKLNLLKKGIVIQG 169 G+L+LT +G +A+ L + + Y RVRF + +DQ + L L+ G+ + G Sbjct: 518 TGMLVLTQNGRIAKQLIGEQSDIDKEYLVRVRFGERLLDIDQHFPAESLAKLRHGLELDG 577 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ Q G + LREGK R+I+++ E +V L R+ G LG L Sbjct: 578 VALKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 633 Query: 230 AGSTREVS 237 G R +S Sbjct: 634 QGQWRYLS 641 >gi|167720171|ref|ZP_02403407.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei DM98] Length = 305 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 58 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEID-SNARAAQAAQ 116 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 117 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 175 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 176 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 234 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 235 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 290 Query: 228 LLAGSTR 234 L G R Sbjct: 291 LPQGEWR 297 >gi|325266582|ref|ZP_08133259.1| ribosomal large subunit pseudouridine synthase F [Kingella denitrificans ATCC 33394] gi|324982025|gb|EGC17660.1| ribosomal large subunit pseudouridine synthase F [Kingella denitrificans ATCC 33394] Length = 243 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 72/242 (29%), Positives = 115/242 (47%), Gaps = 24/242 (9%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKA 70 P R+SK +A+ G+ SRRE + I Q VKVNG E A + V+ D I++D ++ Sbjct: 4 PIRLSKQMAQLGLCSRREADHYIEQGWVKVNG---EVAVLGQKVLPGDRIDLDKNAHQQQ 60 Query: 71 ERTRLWLYHKPIG---------------LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 L +KP+G L+T + +G + P + GRLD Sbjct: 61 AGRVTVLLNKPVGYVSGQPEKGYKAAVELITPENHWEGDQSRIAFQPQHLRGLAPAGRLD 120 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 I++ GLL+LT DG +A+ L + Y VR G++ ++ LNLL G+ + G Sbjct: 121 IDSVGLLVLTQDGRVAKQLVGEQDSREKEYLVRVRGKIIENGLNLLNHGLHLDGQSLRPA 180 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 +V+ + +T +GK R+I+++ E +V L R+ G +LG L G R Sbjct: 181 KVSWQNEDQLRFILT----QGKKRQIRRMCELVGLRVVGLKRVRIGRIKLGALPPGKWRY 236 Query: 236 VS 237 +S Sbjct: 237 LS 238 >gi|304410386|ref|ZP_07392004.1| pseudouridine synthase [Shewanella baltica OS183] gi|307304478|ref|ZP_07584228.1| pseudouridine synthase [Shewanella baltica BA175] gi|304350870|gb|EFM15270.1| pseudouridine synthase [Shewanella baltica OS183] gi|306911880|gb|EFN42304.1| pseudouridine synthase [Shewanella baltica BA175] Length = 235 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 64/215 (29%), Positives = 104/215 (48%), Gaps = 12/215 (5%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTT 87 R+ V ++ RV V+G++++ V I++D L+ + L HKPIG+V+ Sbjct: 20 RKAVRELLLSGRVCVDGLIVKDMDRQVDEFSRIQLDEHILQANAPVYVML-HKPIGVVSA 78 Query: 88 HSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 D + TV D L + + GRLD+N+ GLLLLTND + L P+ + +VYR Sbjct: 79 TKDTQHK-TVIDLLDCEARDELHIAGRLDLNSSGLLLLTNDSRWSDALMSPTHKVDKVYR 137 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK---GSNAWVTVGLREGKNREIKK 203 V + ++ + +G+ +G +T K ++ V L EGK +IK+ Sbjct: 138 VTLANSITKEYIAAFA-----EGMYFGFEDITTQPAKLVILADNVAEVTLHEGKYHQIKR 192 Query: 204 VFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 +F F V L R+S G L LA G +R ++ Sbjct: 193 MFGRFRNPVVGLHRLSIGEIVLDEKLAPGESRALT 227 >gi|90023354|ref|YP_529181.1| pseudouridine synthase, Rsu [Saccharophagus degradans 2-40] gi|89952954|gb|ABD82969.1| Pseudouridine synthase, Rsu [Saccharophagus degradans 2-40] Length = 249 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 66/220 (30%), Positives = 96/220 (43%), Gaps = 9/220 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + I+ +RR+V IAQ+R+ VNG V HI D L+ Sbjct: 7 RLDRFISLNSNLNRRDVRLAIAQKRILVNGKHASTIHQVVSQFCHITFDNQTLQANAPVY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 + L +KP G V+ D TV LP I VGRLD N+ GL+LLTN+G +R Sbjct: 67 IML-NKPAGRVSATKD-STHPTVVGCLPQQLQANIHIVGRLDFNSTGLMLLTNNGAWSRH 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDK----LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L P + ++Y V ++ D+ ++ G+ L+ + A V Sbjct: 125 LTSPENKVNKIYEVELERTINDDEWPQYISAFASGMYFAFEDLTTQPAKLERLTATRARV 184 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 T L EG+ +IK++F F KV L R G L L Sbjct: 185 T--LVEGRYHQIKRMFGRFRNKVIALHRTQLGALPLDPAL 222 >gi|229520766|ref|ZP_04410189.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae TM 11079-80] gi|229342321|gb|EEO07316.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae TM 11079-80] Length = 231 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 62/229 (27%), Positives = 106/229 (46%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +R+E +++ V V+ ++ + A + T +E G + R Sbjct: 2 RLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREI-TLHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+V +H D + T F L + + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDGFNQ-TAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + YRV + D +GI ++ G+ ++TL Q S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELR----GERELTLPAQLEVISETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F KV L R G L TL G R ++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTAE 224 >gi|228475940|ref|ZP_04060649.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus hominis SK119] gi|228270011|gb|EEK11485.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus hominis SK119] Length = 228 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 65/231 (28%), Positives = 107/231 (46%), Gaps = 9/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K ++ G+ +R EV++++ + VKVN + + V D I VDG + Sbjct: 2 RLDKFLSNMGVGTRTEVKQLLKKNSVKVNDKVEKSPKSQVDPEQDEITVDGKIIEYINHV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G V+ D D TV D + + VGRLD +TEGLLL+TNDG Sbjct: 62 YIML-NKPKGYVSATYD-DINQTVIDLIADYRHLDLFPVGRLDKDTEGLLLITNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + Y+V + + + K GI + Q+ +K + V Sbjct: 120 NLMSPSKHVSKTYKVTSKYPIKNEDIIAFKNGIELSDGKVKPAQL----EKLDHNVSLVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++F + +V L R+ L L +G R ++ + L+ Sbjct: 176 IYEGKYHQVKRMFHSIDNEVLELKRLKISNLTLDENLKSGEYRLLTSEELK 226 >gi|149198178|ref|ZP_01875225.1| RsuA protein [Lentisphaera araneosa HTCC2155] gi|149138780|gb|EDM27186.1| RsuA protein [Lentisphaera araneosa HTCC2155] Length = 239 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 61/216 (28%), Positives = 102/216 (47%), Gaps = 11/216 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K+IA+ +R E R + VKVN I + + ++ D + DG L E T Sbjct: 9 RLDKMIAKCTDLTRSEATRALKNGFVKVNDIPQKVGKSTIDLANDVVTFDGEVLEYRE-T 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G V D + TV D LP + S GRLDI+T GL++LT+DG A Sbjct: 68 IYFMLNKPKGYVCAAKD-ERLKTVLDLLPPALASREPFSCGRLDIDTTGLVILTDDGTWA 126 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWV 189 + P + + Y V ++ + + L++G+ + GD ++T +K Sbjct: 127 HGITSPKRKCEKSYLVGSVSELSDEDMRNLEQGVYLD----GDDKITAPAKIEKIDEKTY 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + EG+ ++K++FE + V L R G L Sbjct: 183 RLKITEGRYHQVKRMFEAVDNMVKSLHREQIGGLSL 218 >gi|220921089|ref|YP_002496390.1| pseudouridine synthase [Methylobacterium nodulans ORS 2060] gi|219945695|gb|ACL56087.1| pseudouridine synthase [Methylobacterium nodulans ORS 2060] Length = 247 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 66/225 (29%), Positives = 104/225 (46%), Gaps = 14/225 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILL----ERAAVNVMSTDHIEVDGVPLRKA 70 R+ +++A G SRRE++ + + ++G L ER V + + V GV L Sbjct: 8 RLDRLLANLGYGSRREIQALARAGAIILDGARLRAADERIPVTRDLPERLTVGGVALDPP 67 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTN 126 L L HKP G+ +H + V+ LP + R + +VGRLD T GLLLLT+ Sbjct: 68 PGLVLML-HKPTGVTCSHKE--AGPLVYGLLPERWRRRDPPLSTVGRLDKETSGLLLLTD 124 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG L + P + + YRV + D+ L G ++++G + V L + + Sbjct: 125 DGALLHRIISPKAKVAKRYRVELARPLAGDEGALFASGTLMLEGEDKPLLPVELVAEGPT 184 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 A VT L EG+ +++++F V L R G L LA Sbjct: 185 RASVT--LTEGRYHQVRRMFAAVGNHVTALHRDRVGRLDLPADLA 227 >gi|167824765|ref|ZP_02456236.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 9] Length = 300 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 117/247 (47%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 53 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDS-NARAAQAAQ 111 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 112 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 170 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 171 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 229 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 230 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 285 Query: 228 LLAGSTR 234 L G R Sbjct: 286 LPQGEWR 292 >gi|52424446|ref|YP_087583.1| RsuA protein [Mannheimia succiniciproducens MBEL55E] gi|52306498|gb|AAU36998.1| RsuA protein [Mannheimia succiniciproducens MBEL55E] Length = 246 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 53/212 (25%), Positives = 101/212 (47%), Gaps = 4/212 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A +R + +++ Q V+VNG +++ ++ + D + +G L E Sbjct: 18 RLDKFLAENTGLTRSQAAKILRQGNVQVNGQVVKSGSLKITPQDEVLFEGESLEWLEDGV 77 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G V +H D + + F + P + ++ + GRLD +T GL+LLT+DG + Sbjct: 78 YIMLNKPQGYVCSHDDGEYPTVYQFFDYP-LAGKLHTAGRLDADTSGLVLLTDDGKWSHR 136 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ + ++GI+++G L+ N V + + Sbjct: 137 VTSPKYHCQKTYLVTLADPVESNYRQACEQGILLRGEKEPTKPAILEIIDDYN--VNLTI 194 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EG+ ++K++F KV L R G +L Sbjct: 195 SEGRYHQVKRMFAALGNKVVGLHRWKIGNIEL 226 >gi|326387279|ref|ZP_08208889.1| pseudouridine synthase [Novosphingobium nitrogenifigens DSM 19370] gi|326208460|gb|EGD59267.1| pseudouridine synthase [Novosphingobium nitrogenifigens DSM 19370] Length = 180 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 50/179 (27%), Positives = 89/179 (49%), Gaps = 23/179 (12%) Query: 78 YHKPIGLVTTHSDPD---GRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++KP G++ +D R T+ F ++P ++ GRLD+++EGLLLLT+DG L Sbjct: 5 FNKPYGVLCQFTDESTGPARPTLATFIDVPGVYP----AGRLDLDSEGLLLLTDDGRLQA 60 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-------------TL 179 + P + + Y V+ G+ D+D L L++G+ ++ QV + Sbjct: 61 RIADPRYKAPKTYLVQVEGEPDEDALAALRRGVRLKDGMTLPAQVERIEAPDLWPRNPPV 120 Query: 180 DTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +K + W+ + LREG+NR+++++ RL+R G + L + G REV Sbjct: 121 RFRKSVPDCWLKLILREGRNRQVRRMTAAVGHPTLRLVRWRIGDWTLEGIAPGEWREVP 179 >gi|254786016|ref|YP_003073445.1| ribosomal large subunit pseudouridine synthase E [Teredinibacter turnerae T7901] gi|237684616|gb|ACR11880.1| ribosomal large subunit pseudouridine synthase E [Teredinibacter turnerae T7901] Length = 206 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 49/182 (26%), Positives = 87/182 (47%), Gaps = 24/182 (13%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV------GRLDINTEGLLLLTN 126 R+ L +KP +++ +D + R+T L +F+ +V GRLD ++EGLLLLT+ Sbjct: 2 ARIILVNKPYNMLSQFTDSENRAT----LRQLFTDAAAVEGFYPAGRLDYDSEGLLLLTD 57 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------- 179 +G L + P + + Y V+ G+ D + L L+ G+ ++ QV L Sbjct: 58 EGSLQHRISEPKMKLAKTYWVQVEGEPDSEALAQLRGGVDLKDGRTHPAQVKLLETPTLW 117 Query: 180 -------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + +W+ + + EG+NR+++++ RLIR + G +QL L G Sbjct: 118 ERTPPVRHRAQIPTSWLELKISEGRNRQVRRMTAAVGHPTLRLIRYAIGSWQLAGLQPGE 177 Query: 233 TR 234 R Sbjct: 178 HR 179 >gi|169350969|ref|ZP_02867907.1| hypothetical protein CLOSPI_01746 [Clostridium spiroforme DSM 1552] gi|169292031|gb|EDS74164.1| hypothetical protein CLOSPI_01746 [Clostridium spiroforme DSM 1552] Length = 224 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 56/215 (26%), Positives = 98/215 (45%), Gaps = 22/215 (10%) Query: 23 AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPI 82 + + + + +I R++VN +++ V D I DGV L+ ++ +KP Sbjct: 3 CNLGNVNKCKNLIKSSRIRVNNQIIKDIRYQVDIDDVIVFDGVELKWP--FVYYMLNKPK 60 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 G + + D + + + R +GRLDI+T GLLL+TND L++ L LP Sbjct: 61 GYICANHDKKYKCVI-----DLIGRDDCYCLGRLDIDTTGLLLITNDKTLSKRLLLPENH 115 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-----TLDTQKGSNAWVTVGLRE 195 + Y V ++ D + + GI+I D +V L+ + ++T+ E Sbjct: 116 IDKKYYVTVKNKLTDDLIEIFNNGIII------DQKVKCKPSYLEIIDDYHCYLTIN--E 167 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 G+ +IKK+F N KV L R+ + L L+ Sbjct: 168 GRYHQIKKMFLSCNNKVLELKRVMFASINLDNNLS 202 >gi|262165811|ref|ZP_06033548.1| ribosomal small subunit pseudouridine synthase A [Vibrio mimicus VM223] gi|262025527|gb|EEY44195.1| ribosomal small subunit pseudouridine synthase A [Vibrio mimicus VM223] Length = 231 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 63/229 (27%), Positives = 107/229 (46%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +R+E +++ V V+ ++ + A + T IE G + A R Sbjct: 2 RLDKFLCDALGTTRKEATQLLKSGEVTVDDLVQKSGAFKLKETSRIEWQGREI-TAHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+V +H D + T F L + + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDGFNQ-TAFILLDEVNIQDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + YRV + D GI ++ G+ ++TL Q S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQVDYAEQFTNGIELR----GERELTLPAQLEVVSETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F KV L R G L +L G R ++++ Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDESLEPGEYRYLTEE 224 >gi|53719771|ref|YP_108757.1| pseudouridylate synthase-related protein [Burkholderia pseudomallei K96243] gi|53723742|ref|YP_103198.1| pseudouridine synthase family protein [Burkholderia mallei ATCC 23344] gi|251768207|ref|ZP_02269850.2| RNA pseudouridine synthase family protein [Burkholderia mallei PRL-20] gi|52210185|emb|CAH36164.1| conserved pseudouridylate synthase-related protein [Burkholderia pseudomallei K96243] gi|52427165|gb|AAU47758.1| pseudouridine synthase family protein [Burkholderia mallei ATCC 23344] gi|243060515|gb|EES42701.1| RNA pseudouridine synthase family protein [Burkholderia mallei PRL-20] Length = 249 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 74/247 (29%), Positives = 115/247 (46%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 2 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDS-NARAAQAAQ 60 Query: 75 L-WLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS-----RVISVGRLDIN 117 + L HKP+G V+ ++ DG + D P FS + GRLDI+ Sbjct: 61 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 119 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 120 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 178 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 179 DGVPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 234 Query: 228 LLAGSTR 234 L G R Sbjct: 235 LPQGEWR 241 >gi|15641640|ref|NP_231272.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121591192|ref|ZP_01678495.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae 2740-80] gi|153819727|ref|ZP_01972394.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae NCTC 8457] gi|153823785|ref|ZP_01976452.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae B33] gi|227081787|ref|YP_002810338.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae M66-2] gi|229508252|ref|ZP_04397757.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae BX 330286] gi|229511509|ref|ZP_04400988.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae B33] gi|229518648|ref|ZP_04408091.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae RC9] gi|229607826|ref|YP_002878474.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MJ-1236] gi|254848756|ref|ZP_05238106.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MO10] gi|255744936|ref|ZP_05418886.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholera CIRS 101] gi|262161779|ref|ZP_06030797.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae INDRE 91/1] gi|298498281|ref|ZP_07008088.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MAK 757] gi|34098734|sp|Q9KRK5|RSUA_VIBCH RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|9656147|gb|AAF94786.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121546947|gb|EAX57095.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae 2740-80] gi|126509718|gb|EAZ72312.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae NCTC 8457] gi|126518696|gb|EAZ75919.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae B33] gi|227009675|gb|ACP05887.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae M66-2] gi|229343337|gb|EEO08312.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae RC9] gi|229351474|gb|EEO16415.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae B33] gi|229355757|gb|EEO20678.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae BX 330286] gi|229370481|gb|ACQ60904.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MJ-1236] gi|254844461|gb|EET22875.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MO10] gi|255737407|gb|EET92802.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholera CIRS 101] gi|262028511|gb|EEY47166.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae INDRE 91/1] gi|297542614|gb|EFH78664.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MAK 757] Length = 231 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 61/230 (26%), Positives = 108/230 (46%), Gaps = 12/230 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +R+E +++ V V+ ++ + A + T +E G + R Sbjct: 2 RLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREI-TLHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRS--TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP G+V +H D ++ T+ D + + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDGFNQTALTLLDEVN--IQDLHFAGRLDVDTTGLLLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVT 190 + P + + YRV + D +GI ++ G+ ++TL Q S V Sbjct: 119 RVTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELR----GERELTLPAQLEVISETEVL 174 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + + EGK ++K++F KV L R G L TL G R ++++ Sbjct: 175 LTIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEE 224 >gi|292488789|ref|YP_003531676.1| putative 16S pseudouridylate 516 synthase [Erwinia amylovora CFBP1430] gi|292899940|ref|YP_003539309.1| ribosomal small subunit pseudouridine synthase A [Erwinia amylovora ATCC 49946] gi|291199788|emb|CBJ46909.1| ribosomal small subunit pseudouridine synthase A [Erwinia amylovora ATCC 49946] gi|291554223|emb|CBA21490.1| putative 16S pseudouridylate 516 synthase [Erwinia amylovora CFBP1430] gi|312172942|emb|CBX81197.1| putative 16S pseudouridylate 516 synthase [Erwinia amylovora ATCC BAA-2158] Length = 234 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 58/229 (25%), Positives = 105/229 (45%), Gaps = 9/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I+R SR R + ++V V+G ++ + + + + DG L + R Sbjct: 2 RLDKFISRQLEVSRAIAARELRARKVTVDGEVVREGSYQLSADSTVAYDGKVLEQQLGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP+G V + DPD + + F P F R+ + GRLDI+T GL+L+T+DG + Sbjct: 62 YFMLNKPVGYVCSTDDPDHPTILYFLEEPGAF-RLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA--WVTV 191 + P + Y V + D G+ + + + +T A V + Sbjct: 121 ITSPRHHCEKTYLVTLESAISDDTAQQFADGVQL----HNEKTLTKPAMLAVIAPNLVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 + EG+ ++K++F +V L R G +L + L G R +S + Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVALHRERIGAIRLDSDLQPGEYRPLSAE 225 >gi|256419723|ref|YP_003120376.1| pseudouridine synthase [Chitinophaga pinensis DSM 2588] gi|256034631|gb|ACU58175.1| pseudouridine synthase [Chitinophaga pinensis DSM 2588] Length = 194 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 53/185 (28%), Positives = 86/185 (46%), Gaps = 20/185 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ +KP ++T +G++++ D + S V VGRLD ++EGLL+LTND L Sbjct: 4 KYYIIYKPFQVLTRFGKEEGKASLADYF-DVPSDVYPVGRLDYDSEGLLILTNDKSLNHR 62 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKG--IVIQGICYGD--MQVTLDTQKG----- 184 L P R Y V+ G V+ + + LK+G I I G Y Q + ++ Sbjct: 63 LLDPKFSHEREYWVQVDGAVNAEAIQQLKQGVKIAIDGKPYQTRRCQAAIFEEEPPVPER 122 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 W+ + L EGKNR+++K+ + RLIR + L G R Sbjct: 123 NPPIRFRKLIPAPWIRLTLGEGKNRQVRKMTAAVGFPTLRLIRYRIARITVEGLEPGQMR 182 Query: 235 EVSKK 239 E+ +K Sbjct: 183 EMDRK 187 >gi|77359432|ref|YP_339007.1| 16S rRNA pseudouridylate 516 synthase [Pseudoalteromonas haloplanktis TAC125] gi|76874343|emb|CAI85564.1| 16S rRNA pseudouridylate 516 synthase [Pseudoalteromonas haloplanktis TAC125] Length = 232 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 61/227 (26%), Positives = 108/227 (47%), Gaps = 12/227 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K I+ R + I +Q VNG ++ + D + G L + Sbjct: 4 PCRLDKFISHLAELPRSKARASIKRQAALVNGEVVTAFDFQIKQQDEVVFQGEQLVFLGK 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R ++ +KP+G V+ +SD + TVFD + P++ S GRLDI+T GL++LTNDG Sbjct: 64 -RYFMLNKPVGYVSANSD-ELHKTVFDLIDEPNM-SDFHVAGRLDIDTTGLVILTNDGDW 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGSNAW 188 + + P + Y V + + L+ L++G+ + + + +T ++ +N Sbjct: 121 SHKITSPKNNKFKTYLVETQEPITDESLDALREGVQL----HNEKALTRPAKAERLANYG 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 + + + EGK ++K++ + KV L R G +L L AG R Sbjct: 177 LRLSICEGKYHQVKRMLAAVDNKVVELHREQIGNIKLDENLAAGEYR 223 >gi|89074204|ref|ZP_01160694.1| hypothetical 16S rRNA uridine-516 pseudouridylate synthase [Photobacterium sp. SKA34] gi|89049908|gb|EAR55442.1| hypothetical 16S rRNA uridine-516 pseudouridylate synthase [Photobacterium sp. SKA34] Length = 231 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 57/217 (26%), Positives = 103/217 (47%), Gaps = 5/217 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + +RRE +++ + ++V+G ++ A+ V + +E +G PL K + R Sbjct: 2 RLDKFLGTTLGITRREASKLLRDKMIEVDGEIVRSASFAVSDDNDVEFNGRPL-KLQGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V +H D D TVF + + V GRLD +T GL+L+T+DG + Sbjct: 61 YFMLNKPEGFVCSHVD-DFNPTVFVLFDEVSPEKMHVAGRLDGDTTGLVLVTDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + +D + + G+ ++ L+ A +T+ Sbjct: 120 ITSPRHLCSKTYFVEAADPITEDYIKQFEAGVQLRSEKELTRPAKLEILSEREALLTIS- 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EGK ++K++F +V L R G +L LA Sbjct: 179 -EGKYHQVKRMFAAMGNRVVGLHRERIGTVELDEDLA 214 >gi|308050789|ref|YP_003914355.1| ribosomal small subunit pseudouridine synthase A [Ferrimonas balearica DSM 9799] gi|307632979|gb|ADN77281.1| ribosomal small subunit pseudouridine synthase A [Ferrimonas balearica DSM 9799] Length = 230 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 62/229 (27%), Positives = 107/229 (46%), Gaps = 9/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ +++ + +RR V ++ Q RV VN +++ V + D + DG + + Sbjct: 2 RLDRLLCQHPKWNRRHVLGLLVQGRVTVNEVVVTNPTHEVSAFDTVHADGELCQAGKPAH 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG-RLDINTEGLLLLTNDGGLARV 133 + +KP G+++ SDP TV LP ++ + +G RLD + GL+LLTNDG +R Sbjct: 62 YLMLNKPAGILSATSDPV-HPTVMQLLPEALAKDLHIGGRLDRASTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTV 191 P + +VYRV + D + +GI + I Q+ ++ + Sbjct: 121 ATDPDKRSPKVYRVTLANPIHPDTEQVFAEGIYFPFEAITTSPAQL----ERLGECECRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EG+ +IK++F F V L R S G L TL G R ++ + Sbjct: 177 TIYEGRYHQIKRMFGRFRNPVVALHRESMGAITLDPTLAPGQYRALTAE 225 >gi|308389419|gb|ADO31739.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis alpha710] Length = 256 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 57/229 (24%), Positives = 104/229 (45%), Gaps = 16/229 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLER--AAVNVMSTDHIEVDGVPLRK 69 T ++ K + GI SR++ + +IA V +NG ++ A ++ S + +++DG + Sbjct: 25 TIMKLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTV 84 Query: 70 AERTRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTN 126 + + +KP T+H P +VF P + +VGRLD +T G+LL+TN Sbjct: 85 VPEPYFYIMLNKPEDYETSHK-PKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITN 143 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQ 182 DG L L PS + ++Y V + LK G+++ + +C D + T Sbjct: 144 DGKLNHSLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLKNPTT 203 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V L R + + L G Sbjct: 204 ------LLLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPG 246 >gi|148651853|ref|YP_001278946.1| pseudouridine synthase [Psychrobacter sp. PRwf-1] gi|148570937|gb|ABQ92996.1| ribosomal small subunit pseudouridine synthase A [Psychrobacter sp. PRwf-1] Length = 234 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 68/229 (29%), Positives = 115/229 (50%), Gaps = 15/229 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K I++A SR+E ++++ + VN +++ +V+V + D + G PL A + Sbjct: 2 RLDKFISKATELSRKEAKKVLHASEITVNDEVVKDGSVHVDVLNDEVMWAGEPLSVATGS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R L HKP G T P V + +P + + I+ GRLD++T G L+L++DG Sbjct: 62 RYILLHKPEGFECT-LKPKEYPIVTELIAVPELSNLRIA-GRLDVDTTGALILSDDGSWL 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQD-KLNLLKKGIVIQGICY-GDMQVT----LDTQKGS 185 + P +VY + +D++ + + +KK V QGI GD + T L+ + Sbjct: 120 HRVTSPRHLHEKVYELTLADAMDEEAQAHAIKK--VGQGILLDGDYEPTKPALLEFIDET 177 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +A + L EGK ++K++ +F KV L R S G L L G +R Sbjct: 178 HARLI--LTEGKYHQVKRMMAYFGNKVVELHRASIGGITLEGLEKGDSR 224 >gi|110679964|ref|YP_682971.1| RNA pseudouridylate synthase [Roseobacter denitrificans OCh 114] gi|109456080|gb|ABG32285.1| RNA pseudouridylate synthase [Roseobacter denitrificans OCh 114] Length = 187 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 44/183 (24%), Positives = 86/183 (46%), Gaps = 25/183 (13%) Query: 73 TRLWLYHKPIGLVTTHSD------PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 R+ L++KP G+++ +D P + F + P + GRLD ++EGL++LT+ Sbjct: 2 ARVILFNKPFGVLSQFTDKGSEGSPRPTLSAFIDAPGFYP----AGRLDRDSEGLMVLTD 57 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS- 185 DG L + P + + Y + G + + L+ G+ ++ QV++ T + Sbjct: 58 DGKLQARISNPKHKMTKTYLAQIEGTPEPQHIEALRAGVRLKDGMTRPAQVSVATPPDTL 117 Query: 186 --------------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +AW+ + + EG+NR+++++ RLIR+ G + L L+ G Sbjct: 118 WERSPPVRFRKTVPDAWLQISISEGRNRQVRRMCAHVGLPCLRLIRMRIGDWALNDLVPG 177 Query: 232 STR 234 + R Sbjct: 178 AWR 180 >gi|115352106|ref|YP_773945.1| pseudouridine synthase, Rsu [Burkholderia ambifaria AMMD] gi|115282094|gb|ABI87611.1| Pseudouridine synthase, Rsu [Burkholderia ambifaria AMMD] Length = 690 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 72/248 (29%), Positives = 112/248 (45%), Gaps = 30/248 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V IE+D Sbjct: 443 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPDQKIEIDERASAAQAAQV 502 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS-----RVISVGRLDINT 118 L HKP+G V+ ++ DG D P FS + GRLDI++ Sbjct: 503 TILLHKPVGYVSGQAE-DGYEPASVLITRANQWSGDRSPLRFSPQHLHALAPAGRLDIDS 561 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQ---VDQ----DKLNLLKKGIVIQG 169 G+L+LT +G +A+ L + + Y RVRF + +DQ + L L+ G+ + G Sbjct: 562 TGMLVLTQNGRIAKQLIGEQSDIDKEYLVRVRFGERLLDIDQHFPAESLAKLRHGLELDG 621 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ Q G + LREGK R+I+++ E +V L R+ G LG L Sbjct: 622 VALKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 677 Query: 230 AGSTREVS 237 G R +S Sbjct: 678 QGQWRYLS 685 >gi|254673145|emb|CBA07952.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis alpha275] Length = 256 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 57/229 (24%), Positives = 104/229 (45%), Gaps = 16/229 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLER--AAVNVMSTDHIEVDGVPLRK 69 T ++ K + GI SR++ + +IA V +NG ++ A ++ S + +++DG + Sbjct: 25 TIMKLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTV 84 Query: 70 AERTRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTN 126 + + +KP T+H P +VF P + +VGRLD +T G+LL+TN Sbjct: 85 VPEPYFYIMLNKPEDYETSHK-PKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITN 143 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQ 182 DG L L PS + ++Y V + LK G+++ + +C D + T Sbjct: 144 DGKLNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLENPTT 203 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V L R + + L G Sbjct: 204 ------LLLTITEGKYHQVKRMIAAVGNRVQHLHRRRFAHLETENLKPG 246 >gi|167837045|ref|ZP_02463928.1| pseudouridine synthase family protein [Burkholderia thailandensis MSMB43] Length = 325 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 116/247 (46%), Gaps = 34/247 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D R A+ + Sbjct: 78 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDS-NARAAQAAQ 136 Query: 75 LW-LYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS----RVIS-VGRLDIN 117 + L HKP+G V+ ++ DG + D P FS R ++ GRLDI+ Sbjct: 137 VTILLHKPVGYVSGQAE-DGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDID 195 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQVDQD--------KLNLLKKGIVI 167 + GLL+LT +G +A+ L + + Y RVRF G+ D L L+ G+ + Sbjct: 196 STGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRF-GERTADIERHFPAESLAKLRHGLEL 254 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G V+ Q G + LREGK R+I+++ E +V L R+ G LG Sbjct: 255 DGAPLKPAMVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGA 310 Query: 228 LLAGSTR 234 L G R Sbjct: 311 LPQGQWR 317 >gi|86607580|ref|YP_476342.1| RNA pseudouridine synthase family protein [Synechococcus sp. JA-2-3B'a(2-13)] gi|86556122|gb|ABD01079.1| RNA pseudouridine synthase family protein [Synechococcus sp. JA-2-3B'a(2-13)] Length = 226 Score = 68.6 bits (166), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 57/177 (32%), Positives = 95/177 (53%), Gaps = 19/177 (10%) Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLEL 136 ++KP G++T +D +GR T+ +P RV VGRLD ++EGLLLLT+DG L AR+++ Sbjct: 33 FYKPYGVLTQFTDREGRPTLQSFIP--VPRVYPVGRLDRDSEGLLLLTDDGRLNARLID- 89 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS----------- 185 P R+Y V+ G L L++G++IQG QV + ++ + Sbjct: 90 PKFGHERIYWVQVEGIPTPQALQQLQQGLIIQGRKTRPAQVKVLAEEPTLPPRDPPIRFR 149 Query: 186 ----NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 W+ + LREG+NR+++++ RL+R+ GP L L G +++S+ Sbjct: 150 RSIPTTWLELTLREGRNRQVRRMTAAVGIPTLRLVRVGLGPLSLAGLAPGQWQDLSE 206 >gi|320156638|ref|YP_004189017.1| ribosomal small subunit pseudouridine synthase A [Vibrio vulnificus MO6-24/O] gi|319931950|gb|ADV86814.1| ribosomal small subunit pseudouridine synthase A [Vibrio vulnificus MO6-24/O] Length = 233 Score = 68.6 bits (166), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 62/231 (26%), Positives = 107/231 (46%), Gaps = 12/231 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A A+R+E +++ V VN + + AV V IE G L + R Sbjct: 2 RLDKFLCDALGATRKEATKILKSGEVTVNEQVQKSGAVKVTEECVIEWQGREL-AMQGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G V +H D T F L + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPEGFVCSHEDG-FNHTAFVLLDEVKMDELHFAGRLDVDTTGLVLITDDGKWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----KGSNAWV 189 + P + + YRV + D L +G+ ++ + ++TL Q V Sbjct: 120 ITSPKHKCDKTYRVWLADPIGSDYAEKLAEGVQLR----NEKELTLPAQMSIVNADENEV 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + + EGK ++K++F KV +L R G +L +L G R ++++ Sbjct: 176 LLTIHEGKYHQVKRMFAALGNKVEQLHRERIGAIELDESLEPGEYRYLTQE 226 >gi|323341451|ref|ZP_08081692.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus ruminis ATCC 25644] gi|323091062|gb|EFZ33693.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus ruminis ATCC 25644] Length = 240 Score = 68.6 bits (166), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 61/221 (27%), Positives = 104/221 (47%), Gaps = 16/221 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLE--RAAVNVMSTDHIEVDGVPLRKAER 72 R+ K +A +R EV+ ++ +RV VNG+ + +N +S D + +D L + Sbjct: 2 RLDKFLAECNQGTRSEVKVLLKSKRVTVNGVTENSGKRQINEVS-DVVCLDEKKLT-YQS 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP ++T D + TV D + + VGRLD +T GL+LLTNDG L Sbjct: 60 FAYYMLNKPKDVITATEDS-VQKTVLDLIDKKDRIKGLFPVGRLDKDTTGLVLLTNDGAL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ------VTLDTQKG 184 A L P +VY + G V + ++ L K I ++ G++ V + Sbjct: 119 AHNLLAPKKHVEKVYEAKIEGIVTEAEVELFSKPIELKN---GEVTKPSRLVVKKADEDA 175 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + + + EGK +IK++F V L R+ G +L Sbjct: 176 GMSEIEITISEGKYHQIKRMFASTGMHVLELKRLKMGSLEL 216 >gi|325181474|emb|CCA15908.1| ribosomal large subunit pseudouridine synthase F put [Albugo laibachii Nc14] Length = 248 Score = 68.6 bits (166), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 54/209 (25%), Positives = 97/209 (46%), Gaps = 27/209 (12%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 +A + SRR+ ER I+ V VNG +++ + + +E G ++ ++ + + Sbjct: 1 MAERKMCSRRDAERYISAGDVYVNGEQIQQDWIKIPRDSCVEFSGKAVKAEKQKVSVILN 60 Query: 80 KPIGLVTTHSDPDGRSTV---------------FDNLPSIFSRVISVGRLDINTEGLLLL 124 KP+G V++ +P + + + P S++ GRLDIN+ GLLL Sbjct: 61 KPLGYVSSQPEPMRKPAIELLSIQNAFQLTARWYGKEPKSLSKLAVCGRLDINSTGLLLF 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK------LNLLKKGIVIQGICYGDMQV- 177 T DG LA+ + P+ + Y VR +++D ++ L++G + ICY V Sbjct: 121 TQDGVLAKQILDPNGGVEKEYLVRVDMDLERDTKQAEEVVDKLREGFIWNDICYRARSVR 180 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFE 206 L+ + + L EGK R I+ + E Sbjct: 181 VLNANQ-----LQFILTEGKKRHIRYMCE 204 >gi|285019777|ref|YP_003377488.1| ribosomal large subunit pseudouridine synthase e protein [Xanthomonas albilineans GPE PC73] gi|283474995|emb|CBA17494.1| probable ribosomal large subunit pseudouridine synthase e protein [Xanthomonas albilineans] Length = 178 Score = 68.6 bits (166), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 51/177 (28%), Positives = 83/177 (46%), Gaps = 21/177 (11%) Query: 78 YHKPIGLVTTHSDPDG---RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++KP ++ +D + R+ LP V GRLD ++EGLLLLT+DG LA L Sbjct: 5 FNKPFNVLCQFTDRNASPRRTLAGFGLPG---GVYVAGRLDYDSEGLLLLTDDGALAHRL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKG--------- 184 P + + Y V+ G ++L L G+ + QV+ LD Sbjct: 62 TDPRHKQPKTYWVQVEGVPQPEQLQRLGDGVALNDGPTAPAQVSRLDAAPALWPRDPPVR 121 Query: 185 -----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 +AW+ + LREG+NR+++++ RL+R++ G +L L GS R + Sbjct: 122 FRKTVPDAWLQIVLREGRNRQVRRMTAAVGLPTLRLVRVAMGTHRLDGLAPGSWRAL 178 >gi|227357716|ref|ZP_03842065.1| ribosomal small subunit pseudouridine synthase A [Proteus mirabilis ATCC 29906] gi|227162045|gb|EEI47059.1| ribosomal small subunit pseudouridine synthase A [Proteus mirabilis ATCC 29906] Length = 244 Score = 68.6 bits (166), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 56/226 (24%), Positives = 102/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + V ++G +++ A + + DG L + R Sbjct: 12 RLDKFLSQQLGISRNLVARELRAGLVTIDGEMVKTGATKITPEQEVAYDGNVLTQILGPR 71 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KPIG V + DP + ++ + ++ + GRLDI+T GL+LLT++G + + Sbjct: 72 YFMLNKPIGYVCSTDDPVNPTILYFIDEPLAHKLHAAGRLDIDTTGLVLLTDNGQWSHRI 131 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + D K G+ + G TL+ + +T+ Sbjct: 132 TAPKHHCEKTYVVTLEQPIATDVAEKFKTGVQLNGEKELTKPATLEVITPTEVKLTIS-- 189 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EGK ++K++F V L R G L LA G R ++++ Sbjct: 190 EGKYHQVKRMFAAVGNHVVALHRERIGDITLDDALAPGEYRPLTEE 235 >gi|197284712|ref|YP_002150584.1| 16S rRNA pseudouridylate synthase A [Proteus mirabilis HI4320] gi|194682199|emb|CAR41885.1| ribosomal small subunit pseudouridine synthase A [Proteus mirabilis HI4320] Length = 234 Score = 68.6 bits (166), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 56/226 (24%), Positives = 102/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + V ++G +++ A + + DG L + R Sbjct: 2 RLDKFLSQQLGISRNLVARELRAGLVTIDGEMVKTGATKITPEQEVAYDGNVLTQILGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KPIG V + DP + ++ + ++ + GRLDI+T GL+LLT++G + + Sbjct: 62 YFMLNKPIGYVCSTDDPVNPTILYFIDEPLAHKLHAAGRLDIDTTGLVLLTDNGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + D K G+ + G TL+ + +T+ Sbjct: 122 TAPKHHCEKTYVVTLEQPIATDVAEKFKTGVQLNGEKELTKPATLEVITPTEVKLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EGK ++K++F V L R G L LA G R ++++ Sbjct: 180 EGKYHQVKRMFAAVGNHVVALHRERIGDITLDDALAPGEYRPLTEE 225 >gi|167835760|ref|ZP_02462643.1| RNA pseudouridine synthase family protein [Burkholderia thailandensis MSMB43] Length = 240 Score = 68.6 bits (166), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 61/215 (28%), Positives = 97/215 (45%), Gaps = 8/215 (3%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTRLWLYHKPI 82 G SRR+ ++ RV G A + +T + EVDGV R + L +KP Sbjct: 11 GFGSRRQCRALVEAGRVAAVGATCTDAHASFDTTQLVFEVDGVAWPYRARAYVVL-NKPA 69 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 G + +P ++VF LP F+ V VGRLD +T GLLLL++DG P + Sbjct: 70 GYECSR-EPQHHASVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAYTSPKRK 128 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 + Y +D +L+ L+ G+++ G L + + + EGK + Sbjct: 129 TPKTYVATVRHPLDDAQLDALRAGVLLHG--EPKPVAALAAVARGERLLEMTIAEGKYHQ 186 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTR 234 +K++ + +V+ L R G F L G L G+ R Sbjct: 187 VKRMVAAASNRVDALHRSRIGGFALPGDLAEGAWR 221 >gi|15606012|ref|NP_213389.1| hypothetical protein aq_554 [Aquifex aeolicus VF5] gi|3915394|sp|O66829|Y554_AQUAE RecName: Full=Uncharacterized RNA pseudouridine synthase aq_554; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|2983194|gb|AAC06794.1| hypothetical protein aq_554 [Aquifex aeolicus VF5] Length = 238 Score = 68.6 bits (166), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 122/235 (51%), Gaps = 15/235 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K ++++ SR+E + +I + RVKV+G ++++A V + +EV+G ++ + Sbjct: 2 RLDKYLSKSLHISRKEAKELIREGRVKVSGKVVKQAEYRVKEGEEVEVEGKSVKPKKNVY 61 Query: 75 LWLYHKPIG-LVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L LY KP G L TT D P + ++ PS ++ S GRLD++ EGLLL+T+DG L Sbjct: 62 LMLY-KPKGYLSTTEEDKKYPSFLELIREHFPS--RKLFSAGRLDVDAEGLLLITDDGEL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-DTQKGSNAWV 189 A L P + + Y VR + ++L L + + + V L +K S V Sbjct: 119 AHRLTHPKWKVEKEYIVRLDRDIGDEELKKLYE------VKLEEKPVQLVKAEKLSGDTV 172 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 L EG++ +K++F+ V L R G +L + G RE++++ ++E Sbjct: 173 KAILTEGRHHVVKRLFKAVGHNVVYLKRTRVGNLRLDENMEPGEWRELTEEEVKE 227 >gi|310768104|gb|ADP13054.1| 16S rRNA pseudouridylate synthase A [Erwinia sp. Ejp617] Length = 234 Score = 68.6 bits (166), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 56/227 (24%), Positives = 105/227 (46%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I++ SR R + ++V V+G ++ + + + +E DG L + R Sbjct: 2 RLDKFISQQLEVSRAIAARELRARKVTVDGEVVREGSYKLNADSTVEYDGNVLEQQLGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP+G V + DPD + + F P + R+ + GRLDI+T GL+L+T+DG + Sbjct: 62 YFMLNKPVGYVCSTDDPDHPTILYFLEEPGAY-RLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + L+ + + +T+ Sbjct: 121 ITSPRHHCEKTYLVTLESAISDDNAQQFADGVQLHNEKTLTKPAALEVIEPNVVRLTIS- 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 EG+ ++K++F +V L R G +L + L G R +S + Sbjct: 180 -EGRYHQVKRMFAAVGNRVVGLHRERIGAIRLDSDLHPGEYRPLSAE 225 >gi|126173257|ref|YP_001049406.1| pseudouridine synthase [Shewanella baltica OS155] gi|125996462|gb|ABN60537.1| pseudouridine synthase [Shewanella baltica OS155] Length = 256 Score = 68.6 bits (166), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 64/215 (29%), Positives = 104/215 (48%), Gaps = 12/215 (5%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTT 87 R+ V ++ RV V+G++++ V I++D L+ + L HKPIG+V+ Sbjct: 41 RKAVRELLLSGRVCVDGLIVKDMDRQVDEFSRIQLDEQILQANAPVYVML-HKPIGVVSA 99 Query: 88 HSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 D + TV D L + + GRLD+N+ GLLLLTND + L P+ + +VYR Sbjct: 100 TKDTQHK-TVIDLLDCEARDELHIAGRLDLNSSGLLLLTNDSRWSDALMSPTHKVDKVYR 158 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK---GSNAWVTVGLREGKNREIKK 203 V + ++ + +G+ +G +T K ++ V L EGK +IK+ Sbjct: 159 VTLANPITEEYIAAFAEGMY-----FGFEDITTQPAKLVILADNVAEVTLHEGKYHQIKR 213 Query: 204 VFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 +F F V L R+S G L LA G +R ++ Sbjct: 214 MFGRFRNPVVGLHRLSIGDIVLDEKLAPGESRALT 248 >gi|296110743|ref|YP_003621124.1| pseudouridine synthase [Leuconostoc kimchii IMSNU 11154] gi|295832274|gb|ADG40155.1| pseudouridine synthase [Leuconostoc kimchii IMSNU 11154] Length = 177 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 47/175 (26%), Positives = 86/175 (49%), Gaps = 17/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++T +D GR+T+ D + RV + GRLD+++EGLLLLT++G L L Sbjct: 4 LFNKPYNVLTKFTDDQGRATLADFID--IPRVYAAGRLDMDSEGLLLLTDNGQLNHALTD 61 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----------ICYGDMQVTLDT----- 181 P + + Y V+ G + ++ L+ G+ ++ I Y + Sbjct: 62 PENKAYKTYIVQVEGVPTKAQIKTLETGVELKDGMTLPAKVKRIPYPKWLWEREKPIRVR 121 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 Q +++ + ++EG+NR+++++ RLIR G + + L G R V Sbjct: 122 QNKPTSFLQIKIKEGRNRQVRRMTAAVGVPTLRLIRTHIGDYHIADLKPGQYRVV 176 >gi|330751986|emb|CBL80499.1| ribosomal large subunit pseudouridine synthase F [uncultured Polaribacter sp.] Length = 164 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 50/161 (31%), Positives = 79/161 (49%), Gaps = 11/161 (6%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K I+ +G+ SRRE E+ I + R+ +NG + V D ++ DG R E + Sbjct: 11 LNKYISSSGVCSRREAEKFIKEGRITINGKKTQLGN-RVGKKDVVKFDG---RLVEPKNI 66 Query: 76 WLY---HKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 LY +KP+G+V+T D + + V N P R+ +GRLD +EGL+ LTNDG + Sbjct: 67 TLYIALNKPVGIVSTTDDREPNNIVQHVNYPE---RLFPIGRLDKPSEGLIFLTNDGDIV 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 + + Y V + D + + GI I CY Sbjct: 124 NKILRAGNNHEKEYFVSVDKSITDDFIASMGNGIPIFRNCY 164 >gi|78067288|ref|YP_370057.1| ribosomal small subunit pseudouridine synthase A [Burkholderia sp. 383] gi|77968033|gb|ABB09413.1| ribosomal small subunit pseudouridine synthase A [Burkholderia sp. 383] Length = 238 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 101/230 (43%), Gaps = 22/230 (9%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + ++ G SRR+ +I RV V G +A + +T + DG+ + Sbjct: 3 LESILYTQGFGSRRQCRGLIEAGRVTVAGA----SATDPDAT--FDTDGLVFSVDDTA-- 54 Query: 76 WLYH--------KPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLT 125 W +H KP G + DP ++VF LP+ + V VGRLD +T GLLLL+ Sbjct: 55 WPFHAHAYLALNKPAGYECSR-DPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLS 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG P + + Y +D +LN L+ G+ + G V D + Sbjct: 114 DDGQFVHAYTSPKRKVPKTYVATVRHPLDDTQLNTLRTGVQLHGEPKPIAAVAADARDTH 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTR 234 +TV EGK ++K++ + +V L R S G F L G L G+ R Sbjct: 174 ALALTV--LEGKYHQVKRMVAAASNRVEALHRESIGGFTLPGDLAPGAWR 221 >gi|21910600|ref|NP_664868.1| putative 16S pseudouridylate synthetase [Streptococcus pyogenes MGAS315] gi|21904801|gb|AAM79671.1| putative 16S pseudouridylate synthetase [Streptococcus pyogenes MGAS315] Length = 221 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 55/185 (29%), Positives = 90/185 (48%), Gaps = 13/185 (7%) Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGR 113 IEV G + + + + L +KP G+V+ D + TV D L P ++ VGR Sbjct: 31 IEVTGQRVTHPKHSYIIL-NKPSGVVSAKKDTN-YLTVIDQLAEEDKSPDLYP----VGR 84 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICY 172 LD +TEGL+LLT++G L + PS + Y V +G + +D + GI G Sbjct: 85 LDRDTEGLVLLTDNGPLGFRMLDPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQC 144 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 Q+T+ + ++ + EGK ++KK+F + KV L R + +LG L +G Sbjct: 145 QPAQLTILKADTDQSQASLTISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGE 204 Query: 233 TREVS 237 R ++ Sbjct: 205 YRYLT 209 >gi|325846912|ref|ZP_08169769.1| putative 16S pseudouridylate 516 synthase [Anaerococcus hydrogenalis ACS-025-V-Sch4] gi|325481154|gb|EGC84198.1| putative 16S pseudouridylate 516 synthase [Anaerococcus hydrogenalis ACS-025-V-Sch4] Length = 233 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 61/226 (26%), Positives = 112/226 (49%), Gaps = 9/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 RV K+I A + +R+ ++R + + +NG +++ ++V V + D + G + + Sbjct: 2 RVDKMIGNANLDTRKNIKRNAKKGELIINGQIVKDSSVKVDPNLDEVIYMGELVDYFDNI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 + + +K GL+ ++ DG TV +L + + GRLD +T GLLLL+ DG Sbjct: 62 YIMM-NKREGLICQSNELDG--TVMSDLDEFYLNLDLAIAGRLDKDTTGLLLLSTDGKFI 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P++ + Y V ++D + + K G+ I+ Y LD G A+V V Sbjct: 119 HKVISPNSHIWKKYEVETSKKIDPSLVEIFKDGVYIKEDDYYARSAKLDIIGGKKAYVYV 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 EGK +K++F + +V +L R++ G +L +L G RE+ Sbjct: 179 --TEGKFHLVKRLFSNNDNEVIKLKRLAIGDLELDQSLNPGQYREL 222 >gi|269102754|ref|ZP_06155451.1| ribosomal small subunit pseudouridine synthase A [Photobacterium damselae subsp. damselae CIP 102761] gi|268162652|gb|EEZ41148.1| ribosomal small subunit pseudouridine synthase A [Photobacterium damselae subsp. damselae CIP 102761] Length = 232 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 55/212 (25%), Positives = 102/212 (48%), Gaps = 5/212 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + +R+E +++ + V+VNG +++ A+ V +E G L + R Sbjct: 2 RLDKFLCTTLGITRKEAGKILKDKLVEVNGEIVKNGALKVTDDCDVEFSGRTL-SLQGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V +H D D TVF + R+ GRLD +T GL+L+T+DG + Sbjct: 61 YYMLNKPSGYVCSHVD-DFNPTVFILFDEVAPERMHVAGRLDGDTTGLVLVTDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V +++ + ++G+ ++G + L+ + A +T+ Sbjct: 120 ITSPRHVCEKTYYVETADPIEESYIQAFEEGVQLRGEKELTLPAKLEILEEKVALLTI-- 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EGK ++K++F KV L R G +L Sbjct: 178 TEGKYHQVKRMFAAMGNKVELLHRERVGAIEL 209 >gi|330818049|ref|YP_004361754.1| Pseudouridine synthase, Rsu [Burkholderia gladioli BSR3] gi|327370442|gb|AEA61798.1| Pseudouridine synthase, Rsu [Burkholderia gladioli BSR3] Length = 238 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 63/219 (28%), Positives = 103/219 (47%), Gaps = 9/219 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + ++ G SRR+ ++ RV ++GI+L+ A + + D H +VDG R R + Sbjct: 3 LETILYSQGFGSRRQCRALVEAGRVSIDGIVLDDADADFATDDLHFDVDGT--RWPYRAQ 60 Query: 75 LWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G + DP +VF LP F V VGRLD +T GLLLL++DG Sbjct: 61 AYLVLNKPAGYECSR-DPQHHLSVFSLLPPQFGARGVQCVGRLDQDTTGLLLLSDDGQFV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 P + + Y +D +L L++G+++ G V ++ + +TV Sbjct: 120 HAYTSPKKKVPKTYLAEVKHALDDRQLAALREGVLLHGEPKPIAAVAARARELRSLELTV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EGK ++K++ +V L R G + L LA Sbjct: 180 --LEGKYHQVKRMVAASGNRVEALHRERVGGYTLPADLA 216 >gi|149375301|ref|ZP_01893072.1| 16S rRNA pseudouridylate 516 synthase [Marinobacter algicola DG893] gi|149360337|gb|EDM48790.1| 16S rRNA pseudouridylate 516 synthase [Marinobacter algicola DG893] Length = 245 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 58/236 (24%), Positives = 109/236 (46%), Gaps = 4/236 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N ++S++++ SR+ +IA V V+G + A + + +G ++ Sbjct: 12 NIATMKLSRILSNQNGVSRKRANALIAAGTVTVDGCICRETAREIDRFSTVACNGRVIQH 71 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ + +KP G ++ +D ++ + P + + GRLD + GLL+LTNDG Sbjct: 72 GDQAHYLMLNKPAGYLSATADKVHKTVMELIDPELRKDLHIAGRLDRASTGLLILTNDGA 131 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 +R L P + +VYRV V + + +GI + L+ + + V Sbjct: 132 WSRRLTEPRIKLPKVYRVTTVEPVSTNAIERFAQGIWFEYERLTTSPARLEPLSANESRV 191 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV-SKKILRE 243 T+ EG+ +IK++F +V+ L R G L TL G +R + S++I+ E Sbjct: 192 TI--YEGRYHQIKRMFHATGNRVSSLHREQMGAITLDPTLEPGESRPLTSREIILE 245 >gi|219113879|ref|XP_002176126.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|219121877|ref|XP_002181284.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217402918|gb|EEC42877.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217407270|gb|EEC47207.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 286 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 80/280 (28%), Positives = 119/280 (42%), Gaps = 76/280 (27%) Query: 71 ERTRLWLYHKPIGLVTTHS--DPDGRSTVFDNL---------------------PSIF-- 105 ERT + LYHKPI +VTTH+ D GR V+D++ P+ F Sbjct: 29 ERTVVLLYHKPINVVTTHAANDVKGRMNVYDDVLSMKGFSGWNHVGKSADRERTPASFAE 88 Query: 106 -----SRVISVGRLDINTEGLLLLTNDGGLARVL--------ELPSTQWLRVYRVRFHGQ 152 S++ ++GRLD T GLLLLTNDGGL + + + Y G Sbjct: 89 ATQIRSKLHAIGRLDAETTGLLLLTNDGGLVHHVTNKDSVSHQHHGNPVFKTYEALVMGF 148 Query: 153 VDQDKLNLLKKGIVIQGICYGDM---------QVTLDTQKG-SNAWVTVGLREGKNREIK 202 D LL+K + QG+ GD ++ + T + V++ + EGKNR+I+ Sbjct: 149 YDNHS-PLLEK-MRTQGVNIGDKYGGTTRPVDELIVKTNPTLKSTLVSLTICEGKNRQIR 206 Query: 203 KVFEFFNWKVNRLIRISYG-PFQLGTL-LAGSTREVSKKILREQLGPHLLEEAQVNLDAP 260 ++F V RL R G L ++ +AG R +L E +V Sbjct: 207 RMFHALGSGVIRLCRTQIGRSLTLSSVPMAGQWR--------------ILTEKEV----- 247 Query: 261 IYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ET + RP I EV +R K + G S+++K Sbjct: 248 ----ETALDWRPRYIGEV-SALSRAGKTTKAVTGTSRRRK 282 >gi|298369360|ref|ZP_06980678.1| ribosomal small subunit pseudouridine synthase A [Neisseria sp. oral taxon 014 str. F0314] gi|298283363|gb|EFI24850.1| ribosomal small subunit pseudouridine synthase A [Neisseria sp. oral taxon 014 str. F0314] Length = 227 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 59/223 (26%), Positives = 101/223 (45%), Gaps = 14/223 (6%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLE--RAAVNVMSTDHIEVDGVPLRKAERTRL 75 K I G+ SR++ + +I + VNG + ++++ + + +DG P+ Sbjct: 5 KYIQAQGLGSRKQCQWLIDNGCIAVNGEIRSDAKSSIKPEEVETLAIDGEPIFAVPLPYF 64 Query: 76 W-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDGGLAR 132 + L +KP T+H P +VF P+ + +VGRLD +T G+LL+TNDG Sbjct: 65 YILLNKPANYETSHK-PQQYPSVFSLFPNHMRNIDMQAVGRLDADTTGVLLITNDGQFNH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++YRV D LK G+++ D T+ + TV Sbjct: 124 RVTSPKHKVPKLYRVTLKHAADNRLCETLKNGVLLH-----DDNETVAADEAVLEKPTVL 178 Query: 193 L---REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 L EGK ++K++ +V RL R +G + L +GS Sbjct: 179 LMTITEGKYHQVKRMVAAAGNRVERLHREKFGDWSADDLPSGS 221 >gi|254805100|ref|YP_003083321.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis alpha14] gi|254668642|emb|CBA06281.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis alpha14] Length = 256 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 57/229 (24%), Positives = 104/229 (45%), Gaps = 16/229 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLER--AAVNVMSTDHIEVDGVPLRK 69 T ++ K + GI SR++ + +IA V +NG ++ A ++ S + +++DG + Sbjct: 25 TIMKLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTV 84 Query: 70 AERTRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTN 126 + + +KP T+H P +VF P + +VGRLD +T G+LL+TN Sbjct: 85 VPEPYFYIMLNKPEDYETSHK-PKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITN 143 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQ 182 DG L L PS + ++Y V + LK G+++ + +C D + T Sbjct: 144 DGKLNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLENPTT 203 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V L R + + L G Sbjct: 204 ------LLLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPG 246 >gi|161870172|ref|YP_001599342.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis 053442] gi|161595725|gb|ABX73385.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis 053442] Length = 256 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 57/229 (24%), Positives = 104/229 (45%), Gaps = 16/229 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLER--AAVNVMSTDHIEVDGVPLRK 69 T ++ K + GI SR++ + +IA V +NG ++ A ++ S + +++DG + Sbjct: 25 TIMKLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTV 84 Query: 70 AERTRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTN 126 + + +KP T+H P +VF P + +VGRLD +T G+LL+TN Sbjct: 85 VPEPYFYIMLNKPEDYETSHK-PKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITN 143 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQ 182 DG L L PS + ++Y V + LK G+++ + +C D + T Sbjct: 144 DGKLNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLKNPTT 203 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V L R + + L G Sbjct: 204 ------LLLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPG 246 >gi|290475891|ref|YP_003468784.1| 16S rRNA pseudouridylate 516 synthase [Xenorhabdus bovienii SS-2004] gi|289175217|emb|CBJ82020.1| 16S rRNA pseudouridylate 516 synthase [Xenorhabdus bovienii SS-2004] Length = 235 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 57/225 (25%), Positives = 101/225 (44%), Gaps = 3/225 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR +V R + RV V+ +++ A + I +G L + +R Sbjct: 2 RLDKFLSQQLGISRNDVGRELRASRVTVDDEVIKSGAYKLKPDHQIAYEGSVLEQLGGSR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DP + ++ + ++ S GRLDI+T GL+LLT+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPTNPTILYFIDEPVAHKLHSAGRLDIDTTGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + D G+ + G L+ + V + +R Sbjct: 122 TSPKHHCEKTYLVTLEYPISDDTEMKFLAGVQLNGEKTLTKPAKLEIIEPHR--VRLSIR 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 EG+ ++K++F V L R G L TL G R ++K Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERVGQIYLDSTLEPGEYRALTK 224 >gi|53718572|ref|YP_107558.1| putative ribosomal small subunit pseudouridine synthase A [Burkholderia pseudomallei K96243] gi|53725922|ref|YP_103555.1| ribosomal small subunit pseudouridine synthase A [Burkholderia mallei ATCC 23344] gi|67643830|ref|ZP_00442573.1| RNA pseudouridine synthase family protein [Burkholderia mallei GB8 horse 4] gi|76808867|ref|YP_332565.1| ribosomal small subunit pseudouridine synthase A [Burkholderia pseudomallei 1710b] gi|121599028|ref|YP_992290.1| RNA pseudouridine synthase family protein [Burkholderia mallei SAVP1] gi|124385466|ref|YP_001026865.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10229] gi|126440770|ref|YP_001058044.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 668] gi|126450171|ref|YP_001079848.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10247] gi|126454957|ref|YP_001065281.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106a] gi|134281077|ref|ZP_01767786.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 305] gi|166999977|ref|ZP_02265806.1| RNA pseudouridine synthase family protein [Burkholderia mallei PRL-20] gi|167718484|ref|ZP_02401720.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei DM98] gi|167737534|ref|ZP_02410308.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 14] gi|167814653|ref|ZP_02446333.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 91] gi|167823121|ref|ZP_02454592.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 9] gi|167893211|ref|ZP_02480613.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 7894] gi|167901665|ref|ZP_02488870.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei NCTC 13177] gi|167909915|ref|ZP_02497006.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 112] gi|167917937|ref|ZP_02505028.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei BCC215] gi|217419721|ref|ZP_03451227.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 576] gi|226194533|ref|ZP_03790131.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei Pakistan 9] gi|242315027|ref|ZP_04814043.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106b] gi|254175384|ref|ZP_04882044.1| RNA pseudouridine synthase family protein [Burkholderia mallei ATCC 10399] gi|254190858|ref|ZP_04897365.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei Pasteur 52237] gi|254197033|ref|ZP_04903457.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei S13] gi|254202240|ref|ZP_04908603.1| RNA pseudouridine synthase family protein [Burkholderia mallei FMH] gi|254207573|ref|ZP_04913923.1| RNA pseudouridine synthase family protein [Burkholderia mallei JHU] gi|254262015|ref|ZP_04953069.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1710a] gi|52208986|emb|CAH34925.1| putative ribosomal small subunit pseudouridine synthase A [Burkholderia pseudomallei K96243] gi|52429345|gb|AAU49938.1| ribosomal small subunit pseudouridine synthase A [Burkholderia mallei ATCC 23344] gi|76578320|gb|ABA47795.1| ribosomal small subunit pseudouridine synthase A [Burkholderia pseudomallei 1710b] gi|121227838|gb|ABM50356.1| RNA pseudouridine synthase family protein [Burkholderia mallei SAVP1] gi|124293486|gb|ABN02755.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10229] gi|126220263|gb|ABN83769.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 668] gi|126228599|gb|ABN92139.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106a] gi|126243041|gb|ABO06134.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10247] gi|134247383|gb|EBA47468.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 305] gi|147746487|gb|EDK53564.1| RNA pseudouridine synthase family protein [Burkholderia mallei FMH] gi|147751467|gb|EDK58534.1| RNA pseudouridine synthase family protein [Burkholderia mallei JHU] gi|157938533|gb|EDO94203.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei Pasteur 52237] gi|160696428|gb|EDP86398.1| RNA pseudouridine synthase family protein [Burkholderia mallei ATCC 10399] gi|169653776|gb|EDS86469.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei S13] gi|217397025|gb|EEC37041.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 576] gi|225933618|gb|EEH29607.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei Pakistan 9] gi|238525270|gb|EEP88698.1| RNA pseudouridine synthase family protein [Burkholderia mallei GB8 horse 4] gi|242138266|gb|EES24668.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106b] gi|243064092|gb|EES46278.1| RNA pseudouridine synthase family protein [Burkholderia mallei PRL-20] gi|254220704|gb|EET10088.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1710a] Length = 240 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 60/210 (28%), Positives = 93/210 (44%), Gaps = 7/210 (3%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTRLWLYHKPI 82 G SRR+ ++ V V G A + +T + EVDGV R + L +KP Sbjct: 11 GFGSRRQCRALVEAGHVAVGGATCADAHASFDTTQLVFEVDGVAWPYRARAYVAL-NKPA 69 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 G + +P S+VF LP F+ V VGRLD +T GLLLL++DG P + Sbjct: 70 GYECSR-EPQHHSSVFALLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAYTSPKRK 128 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 + Y +D +L+ L+ G+++ G L + + + EGK + Sbjct: 129 VPKTYVATVRHPLDDAQLDALRAGVLLHG--EPKPVAALAAVARGERLLEMTIAEGKYHQ 186 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +K++ + +V L R G F L LA Sbjct: 187 VKRMVAAASNRVEALHRSRIGGFALPEDLA 216 >gi|258624941|ref|ZP_05719868.1| ribosomal small subunit pseudouridine synthase A [Vibrio mimicus VM603] gi|258582797|gb|EEW07619.1| ribosomal small subunit pseudouridine synthase A [Vibrio mimicus VM603] Length = 257 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 63/237 (26%), Positives = 109/237 (45%), Gaps = 10/237 (4%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +Q + R+ K + A +R+E ++ V V+ ++ + A + T +E G Sbjct: 20 LQADEVSMRLDKFLCDALGTTRKEATMLLKSGEVTVDDLVQKSGAFKLKETSRVEWQGRE 79 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 + A R + HKP G+V +H D + T F L + + GRLD++T GLLL+T Sbjct: 80 I-TAHGPRYIMMHKPDGVVCSHEDGFNQ-TAFILLDEVNIQDLHFAGRLDVDTTGLLLIT 137 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 +DG + + P + + YRV + D GI ++ G+ ++TL Q Sbjct: 138 DDGQWSHRVTSPKHKCEKTYRVWLADPIQADYAEQFTNGIELR----GERELTLPAQLEV 193 Query: 185 -SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 S V + + EGK ++K++F KV L R G L +L G R ++++ Sbjct: 194 VSETEVLLTIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDESLEPGEYRYLTEE 250 >gi|304410785|ref|ZP_07392402.1| pseudouridine synthase [Shewanella baltica OS183] gi|307305043|ref|ZP_07584793.1| pseudouridine synthase [Shewanella baltica BA175] gi|304350682|gb|EFM15083.1| pseudouridine synthase [Shewanella baltica OS183] gi|306912445|gb|EFN42869.1| pseudouridine synthase [Shewanella baltica BA175] Length = 233 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 66/219 (30%), Positives = 102/219 (46%), Gaps = 15/219 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER-T 73 R+ K + ++ +R I V VNG++ A+ V + + ++G PL A R + Sbjct: 2 RLDKFLCKSTDLNRDAASVAILSGSVTVNGVIATDCAMQVHENNAVSLNGKPL--APRPS 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTNDGGL 130 R ++ HKP T S+ DG +L I F I VGRLD +T GL+LLT+DG Sbjct: 60 RYFVLHKPAD--TLCSNVDGAYPSLFHLLDIERAFDLHI-VGRLDADTTGLVLLTDDGRW 116 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQD----KLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 + + P Q +VYRV+ +D + G+ +QG + TL Q+ + Sbjct: 117 SFNIISPQYQCKKVYRVQLRDPLDSEATAAIAATFAAGLQLQGETALTLPATL--QQVDD 174 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + L EGK ++K++F KV L R G L Sbjct: 175 KTVLLTLTEGKFHQVKRMFAAVGNKVVALHRAQIGAVTL 213 >gi|237811195|ref|YP_002895646.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei MSHR346] gi|237505702|gb|ACQ98020.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei MSHR346] Length = 240 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 60/210 (28%), Positives = 93/210 (44%), Gaps = 7/210 (3%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTRLWLYHKPI 82 G SRR+ ++ V V G A + +T + EVDGV R + L +KP Sbjct: 11 GFGSRRQCRALVEAGHVAVGGATCADAHASFDTTQLVFEVDGVAWPYRARAYVAL-NKPA 69 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 G + +P S+VF LP F+ V VGRLD +T GLLLL++DG P + Sbjct: 70 GYECSR-EPQHHSSVFALLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAYTSPKRK 128 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 + Y +D +L+ L+ G+++ G L + + + EGK + Sbjct: 129 VPKTYVATVRHPLDDAQLDALRAGVLLHG--EPKPVAALAAVARGERLLEMTIAEGKYHQ 186 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +K++ + +V L R G F L LA Sbjct: 187 VKRMVAAASNRVEALHRSRIGGFALPENLA 216 >gi|225419695|ref|ZP_03761998.1| hypothetical protein CLOSTASPAR_06033 [Clostridium asparagiforme DSM 15981] gi|225041659|gb|EEG51905.1| hypothetical protein CLOSTASPAR_06033 [Clostridium asparagiforme DSM 15981] Length = 300 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 67/268 (25%), Positives = 114/268 (42%), Gaps = 41/268 (15%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLE-----RAAVNVMSTDHI-------- 60 +R++K+++ G+ SRRE +R+I +V V+G+ + R V+ + Sbjct: 4 ERLNKLLSAMGVCSRREADRLIESGKVLVDGVPAKMGQKVRMDQTVVCRGKVVGRGEAAA 63 Query: 61 --------------EVDGVPLRKAE-----------RTRLWLYHKPIGLVTTHSDPDGRS 95 DG + A R L +KP G+V T SD D Sbjct: 64 GAGNGKTARRVGSGRADGTAAQDARPASLPRSMKKPRPVLLAVNKPKGVVCTASDKDKAP 123 Query: 96 TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 + D + RV VGRLD ++EGL+L+TN G L + + Y+V V Sbjct: 124 NIVDMIQYPV-RVYYVGRLDKDSEGLVLMTNQGDLVNKIMRSGNAHEKEYQVVVDRPVTA 182 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRL 215 + L ++KG+ ++ + + +K + ++ L +G NR+I+++ E V L Sbjct: 183 EFLARMEKGVRLKEL--DRTTLPCKVRKTGDKRFSIVLTQGLNRQIRRMCEACGCHVRSL 240 Query: 216 IRISYGPFQLGTLLAGSTREVSKKILRE 243 R+ LG L +G R+V RE Sbjct: 241 KRVRVMNICLGDLKSGEYRQVEGAEYRE 268 >gi|144897678|emb|CAM74542.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Magnetospirillum gryphiswaldense MSR-1] Length = 195 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 50/185 (27%), Positives = 90/185 (48%), Gaps = 22/185 (11%) Query: 74 RLWLYHKPIGLVTTHSDPD-GRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 RL L++KP ++T +D + GR+T+ D ++P ++ GRLD ++EGLL+L++DG L Sbjct: 3 RLILFNKPYDVLTQFTDREAGRATLADYVDVPGVYP----AGRLDRDSEGLLVLSDDGPL 58 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------ 184 + P + + Y + G L L++G++++ L + Sbjct: 59 IARIAQPRHKLAKTYFAQVEGIPTAAALAQLRQGVMLKDGPTLTAGAELVAEPDWLWPRH 118 Query: 185 ---------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 AWV + L EG+NR+++++ + RLIR + G + L L G RE Sbjct: 119 PPIRWRAAIPTAWVKLTLHEGRNRQVRRMTAAVGFPTLRLIRWAVGDWNLAGLAPGQWRE 178 Query: 236 VSKKI 240 V+ + Sbjct: 179 VTAPV 183 >gi|327484245|gb|AEA78652.1| Ribosomal small subunit pseudouridine synthase A [Vibrio cholerae LMA3894-4] Length = 231 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 61/229 (26%), Positives = 106/229 (46%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +R+E +++ V V+ ++ + A + +E G + R Sbjct: 2 RLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKEASRVEWQGREIM-LHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+V +H D + T F L + + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGIVCSHEDGFNQ-TAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + YRV + D +GI ++ G+ ++TL Q S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELR----GERELTLPAQLEVISETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F KV L R G L TL G R ++++ Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEE 224 >gi|229158156|ref|ZP_04286224.1| RNA pseudouridine synthase [Bacillus cereus ATCC 4342] gi|228625318|gb|EEK82077.1| RNA pseudouridine synthase [Bacillus cereus ATCC 4342] Length = 203 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 55/207 (26%), Positives = 101/207 (48%), Gaps = 10/207 (4%) Query: 42 VNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWL-YHKPIGLVTTHSDPDGRSTV-FD 99 +NG + A+ V D + +DG + K E+ ++++ +HKP+G+ T +D + + + Sbjct: 3 INGEICTHGAL-VSDGDRVTIDGQVIVKEEKEKVYIAFHKPVGITCTAADHIEDNIIDYI 61 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 N P R+ VGRLD +EGL+LLTNDG +A + + + Y V ++ Sbjct: 62 NYPE---RIFPVGRLDKASEGLILLTNDGAIANQILHGDHEHEKEYVVTVDKPFTDWFID 118 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 + G+ I+ +VT + + + L +G NR+I+++ F + V +L R+ Sbjct: 119 EMSSGVKIKDGMTKPCKVT----RVDQSTFRIVLTQGMNRQIRRMSRAFGFTVTKLKRVR 174 Query: 220 YGPFQLGTLLAGSTREVSKKILREQLG 246 +L L G R V+ + L +G Sbjct: 175 IMNIELNELEVGKWRSVTAEELEILIG 201 >gi|258545633|ref|ZP_05705867.1| ribosomal large subunit pseudouridine synthase E [Cardiobacterium hominis ATCC 15826] gi|258519100|gb|EEV87959.1| ribosomal large subunit pseudouridine synthase E [Cardiobacterium hominis ATCC 15826] Length = 189 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 47/180 (26%), Positives = 87/180 (48%), Gaps = 22/180 (12%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR+T+ D + RV G LD ++EGL++LT+DG L + Sbjct: 10 LFNKPFNVLCQFTDKSGRATLADFVD--VPRVYPAGLLDYDSEGLVVLTDDGRLQARIAD 67 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-------------- 182 P + ++ Y V+ G D+ L L+ G+ ++ + Q TL Sbjct: 68 PRFKLVKTYWVQVEGVPDEAALVQLRAGVWLKDKGKREAQRTLPAAVRVIAEPPLWPRVP 127 Query: 183 ------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 AW+ + +REG+NR+++++ RL+R+ G + L L +G+ ++V Sbjct: 128 PVRFRLSVPTAWLELSIREGRNRQVRRMTAAVGLPTLRLVRVQVGDWSLRGLQSGAWKKV 187 >gi|258621922|ref|ZP_05716952.1| ribosomal small subunit pseudouridine synthase A [Vibrio mimicus VM573] gi|258585860|gb|EEW10579.1| ribosomal small subunit pseudouridine synthase A [Vibrio mimicus VM573] Length = 257 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 63/237 (26%), Positives = 109/237 (45%), Gaps = 10/237 (4%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +Q + R+ K + A +R+E ++ V V+ ++ + A + T +E G Sbjct: 20 LQADEVSMRLDKFLCDALGTTRKEATMLLKSGEVTVDDLVQKSGAFKLKETSCVEWQGRE 79 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 + A R + HKP G+V +H D + T F L + + GRLD++T GLLL+T Sbjct: 80 I-TAHGPRYIMMHKPDGVVCSHEDGFNQ-TAFILLDEVNIQDLHFAGRLDVDTTGLLLIT 137 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 +DG + + P + + YRV + D GI ++ G+ ++TL Q Sbjct: 138 DDGQWSHRVTSPKHKCEKTYRVWLADPIQADYAEQFTNGIELR----GERELTLPAQLEI 193 Query: 185 -SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 S V + + EGK ++K++F KV L R G L +L G R ++++ Sbjct: 194 VSETEVLLTIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDESLEPGDYRYLTEE 250 >gi|331006652|ref|ZP_08329935.1| ribosomal large subunit pseudouridine synthase F [gamma proteobacterium IMCC1989] gi|330419541|gb|EGG93924.1| ribosomal large subunit pseudouridine synthase F [gamma proteobacterium IMCC1989] Length = 289 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 63/237 (26%), Positives = 106/237 (44%), Gaps = 29/237 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR------ 68 R++K I+ +G SRRE +++I V VNG D + V+G ++ Sbjct: 6 RLNKFISDSGYCSRREADKLIEDDLVLVNG-QPPTLGTRCHPGDVVYVEGKRIKSRANAG 64 Query: 69 -KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLL 124 +A+R + Y+KP TH + V N+ S R+ +GRLD +EGL+LL Sbjct: 65 SQADREYIA-YNKP-----THITCTTEADVVGNIISAVGYKKRIFPIGRLDKMSEGLILL 118 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----CYGDMQVTLD 180 T+DG + + + Y V + + + G+ I G C +MQ Sbjct: 119 TSDGDIVNKILRAENAHDKEYLVTVDKPITDKFIEKMGNGVPILGTKTLPCKINMQ---- 174 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L EG NR+I+++ E+F ++V +L R+ LG L G R+++ Sbjct: 175 ----GEFMFKIILTEGLNRQIRRMCEYFGYEVTKLKRVRIMNITLGNLKPGEWRKLT 227 >gi|329894884|ref|ZP_08270683.1| Ribosomal large subunit pseudouridine synthase E [gamma proteobacterium IMCC3088] gi|328922613|gb|EGG29948.1| Ribosomal large subunit pseudouridine synthase E [gamma proteobacterium IMCC3088] Length = 209 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 46/171 (26%), Positives = 82/171 (47%), Gaps = 16/171 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP+ +++ S + + L + R+ GRLD ++EGLL+LT+ G L L Sbjct: 4 LILLNKPMNMLSQFSSEGEKQGISTLLSAPGYRI--AGRLDSDSEGLLVLTSYGRLQAYL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------- 184 P + Y V+ GQ+D+ + L+ G+ ++ +V + Sbjct: 62 TAPKHNTWKYYYVQVEGQIDEQAVCRLQAGVQLKDGPTLPARVKVIEPPSLWQRTPPVRY 121 Query: 185 ----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +W+ +GL+EG+NR+I+++ + RL+R GPF+L L G Sbjct: 122 RAHIPTSWLEIGLQEGRNRQIRRMTAHVGYPTLRLVRFRSGPFKLADLGPG 172 >gi|222110563|ref|YP_002552827.1| pseudouridine synthase [Acidovorax ebreus TPSY] gi|221730007|gb|ACM32827.1| pseudouridine synthase [Acidovorax ebreus TPSY] Length = 216 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 47/179 (26%), Positives = 87/179 (48%), Gaps = 25/179 (13%) Query: 78 YHKPIGLVTTHSDPDGRS---TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++KP G+++ + P+GR F ++P ++ GRLD ++EGLLLLT+DG L + Sbjct: 33 FNKPYGVLSQFT-PEGRWRGLQDFIDVPGVYV----AGRLDADSEGLLLLTDDGALQARI 87 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----------------QGICYGDMQVT 178 P + + Y V+ G D+ L L++G+ + + D + Sbjct: 88 SDPRHKMEKTYWVQVEGIPDEAALQALRQGVQLGDGPTLPARVRRLEPPPALWERDPPIR 147 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + Q + W+ + +REG+NR+++++ RL+R + GP+ L L G + S Sbjct: 148 V-RQNIPDCWIELIIREGRNRQVRRMTAAVGHPTLRLVRAAIGPYALDGLEPGCWQPAS 205 >gi|73541573|ref|YP_296093.1| pseudouridine synthase, Rsu [Ralstonia eutropha JMP134] gi|72118986|gb|AAZ61249.1| Pseudouridine synthase, Rsu [Ralstonia eutropha JMP134] Length = 694 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 72/250 (28%), Positives = 118/250 (47%), Gaps = 36/250 (14%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKAERT 73 R+SK ++ G+ SRRE + I + V V+G + V + +IE+ + ER Sbjct: 443 RLSKRMSELGLCSRREADEWIPRGWVIVDGKPVTELGSRVRADANIEIHQAARSEQGERV 502 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS-----RVISVGRLDIN 117 + L HKP+G V+ ++ DG D F+ + GRLDI+ Sbjct: 503 TV-LLHKPMGYVSGQAE-DGYEPAAVLFTAENQWSEDPTRKRFAPWQRKSLAPAGRLDID 560 Query: 118 TEGLLLLTNDGGLARVL--ELPSTQWLRVYRVRFH---GQVDQ--------DKLNLLKKG 164 + GLL+LT DG +AR L E + + + RV++H G V++ DKL LL+ G Sbjct: 561 STGLLVLTQDGRVARALIGEDSNVEKEYLVRVQWHSPDGVVERNVSEVFPADKLELLRHG 620 Query: 165 IVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 + + G+ +V+ ++ + LREG+ R+I+++ E +V L R+ G Sbjct: 621 LSLDGVVLKPAKVSWQNEE----QLRFVLREGRKRQIRRMCEQVGLEVVGLKRVRMGRIV 676 Query: 225 LGTLLAGSTR 234 LG L G R Sbjct: 677 LGDLPPGQWR 686 >gi|319892809|ref|YP_004149684.1| Ribosomal small subunit pseudouridine synthase A [Staphylococcus pseudintermedius HKU10-03] gi|317162505|gb|ADV06048.1| Ribosomal small subunit pseudouridine synthase A [Staphylococcus pseudintermedius HKU10-03] gi|323464159|gb|ADX76312.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus pseudintermedius ED99] Length = 232 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 62/233 (26%), Positives = 117/233 (50%), Gaps = 12/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K +A+ G+ +R EV+ ++ + V NG ++ + + D +EV G + Sbjct: 2 RIDKFLAQMGVGTRTEVKALLKKGHVLHNGAKIKSSKTQIDPEHDVVEVKGRVIAYEPFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + +KP +++ D D TV D + + VGRLD +TEGLLL+TNDG Sbjct: 62 YLMM-NKPQNVISATVD-DQHQTVIDIIEGYRHLDLFPVGRLDKDTEGLLLITNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVT 190 L P+ + Y V+ + + ++GI ++ + +++ D+ A+VT Sbjct: 120 ALMNPNKHVSKTYWVKAKYALKTNDPKRFEEGITLKEGRLQPAHLEILDDSM---TAFVT 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + +EGK ++K++F + +V L R+S G L + L+ G+ R +++ L+ Sbjct: 177 I--QEGKYHQVKRMFHAIDNEVVGLKRVSIGDLTLDSSLSPGAYRSLTEDELK 227 >gi|289675786|ref|ZP_06496676.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae FF5] Length = 179 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 43/147 (29%), Positives = 77/147 (52%), Gaps = 20/147 (13%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP ++T SD +GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 KLILFNKPFDVLTQFSDEEGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--------- 181 + P + + Y V+ G+ ++L L+ G+ + G LD Sbjct: 88 SRIADPKHKLAKTYWVQVEGEPSDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPRNPP 147 Query: 182 ----QKGSNAWVTVGLREGKNREIKKV 204 + +W+ + ++EG+NR+++++ Sbjct: 148 VRFRKSVPTSWLELVIKEGRNRQVRRM 174 >gi|153826173|ref|ZP_01978840.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MZO-2] gi|153830671|ref|ZP_01983338.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae 623-39] gi|229523730|ref|ZP_04413135.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae bv. albensis VL426] gi|148873851|gb|EDL71986.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae 623-39] gi|149740114|gb|EDM54279.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MZO-2] gi|229337311|gb|EEO02328.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae bv. albensis VL426] Length = 231 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 61/229 (26%), Positives = 106/229 (46%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +R+E +++ V V+ ++ + A + +E G + R Sbjct: 2 RLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKEASRVEWQGREIM-LHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+V +H D + T F L + + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDGFNQ-TAFTLLDEVNIQDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + YRV + D +GI ++ G+ ++TL Q S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELR----GERELTLPAQLEVISETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F KV L R G L TL G R ++++ Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEE 224 >gi|27366125|ref|NP_761653.1| ribosomal small subunit pseudouridine synthase A [Vibrio vulnificus CMCP6] gi|37679610|ref|NP_934219.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio vulnificus YJ016] gi|34098531|sp|Q8D8X2|RSUA_VIBVU RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|27362325|gb|AAO11180.1| Ribosomal small subunit pseudouridine synthase A [Vibrio vulnificus CMCP6] gi|37198354|dbj|BAC94190.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio vulnificus YJ016] Length = 233 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 61/231 (26%), Positives = 107/231 (46%), Gaps = 12/231 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A A+R+E +++ V VN + + AV V +E G L + R Sbjct: 2 RLDKFLCDALGATRKEATKILKSGEVTVNEQVQKSGAVKVTEECVVEWQGREL-AMQGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G V +H D T F L + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPEGFVCSHEDG-FNHTAFVLLDEVKMDELHFAGRLDVDTTGLVLITDDGKWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----KGSNAWV 189 + P + + YRV + D L +G+ ++ + ++TL Q V Sbjct: 120 ITSPKHKCDKTYRVWLADPIGSDYAEKLAEGVQLR----NEKELTLPAQMTIVNADENEV 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + + EGK ++K++F KV +L R G +L +L G R ++++ Sbjct: 176 LLTIHEGKYHQVKRMFAALGNKVEQLHRERIGAIELDESLEPGEYRYLTQE 226 >gi|264680454|ref|YP_003280364.1| Pseudouridine synthase, Rsu [Comamonas testosteroni CNB-2] gi|262210970|gb|ACY35068.1| Pseudouridine synthase, Rsu [Comamonas testosteroni CNB-2] Length = 642 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 74/246 (30%), Positives = 110/246 (44%), Gaps = 33/246 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA G+ SRRE + + V VNG + NV+ D IE+D + ++ Sbjct: 396 RINKRIADMGMCSRREADEWVENGWVTVNGEVAT-MGQNVVPGDRIEIDQKAQERQDQQV 454 Query: 75 LWLYHKPIGLVTTHSDPDG-----------------RSTVFDNLPSIFSRVISVGRLDIN 117 L +KP+G V+ ++ DG RS N S + GRLDI+ Sbjct: 455 TILLNKPMGYVSGQAE-DGHEPAVVLITNENRWNEDRSKTRFNF-SQLKGLAPCGRLDID 512 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRF-HGQVD--------QDKLNLLKKGIVIQ 168 + GLL+LT DG +AR + ++ + Y VR G D ++KL LL+ G+ + Sbjct: 513 SVGLLVLTQDGRVARQIIGEDSEVDKEYLVRVTFGDRDVDVQSVFPEEKLALLRHGLSLD 572 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 QV + + L EGK R+I+++ E KV L RI G LG L Sbjct: 573 EQPLKPAQVDWQNPE----QLRFVLTEGKKRQIRRMCEQVGLKVVGLKRIRIGGVTLGNL 628 Query: 229 LAGSTR 234 G R Sbjct: 629 PTGQWR 634 >gi|225851129|ref|YP_002731363.1| RNA pseudouridine synthase family protein [Persephonella marina EX-H1] gi|225645852|gb|ACO04038.1| RNA pseudouridine synthase family protein [Persephonella marina EX-H1] Length = 180 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 55/169 (32%), Positives = 88/169 (52%), Gaps = 11/169 (6%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSR-VISVGRLDINTEGLLLLTNDGGLARVL 134 +++KP G +T D + TV D + FS+ + VGRLDI+TEGLL++T+DG LA + Sbjct: 1 MFNKPSGYITAVKD-ERYPTVMDFFADLPFSKKLFPVGRLDIDTEGLLIITDDGQLAHRI 59 Query: 135 ELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICY----GDMQVTLDTQKGSNAWV 189 P + + Y G + D D K+GIV++ Y + + +++ S ++ Sbjct: 60 AHPKWEIEKEYYAVVKGDISDLDLSRFEKEGIVLKKEKYRTKPFKINIISTSEERSEIYI 119 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 TV REGK +K++ E V L R+ GP +L L G RE++ Sbjct: 120 TV--REGKYHIVKRIMEELGHPVLYLKRVRIGPLRLDEDLEEGDFRELT 166 >gi|53725232|ref|YP_102288.1| pseudouridine synthase family protein [Burkholderia mallei ATCC 23344] gi|76811867|ref|YP_332519.1| pseudouridine synthase family protein [Burkholderia pseudomallei 1710b] gi|124383384|ref|YP_001027001.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10229] gi|254203982|ref|ZP_04910342.1| RNA pseudouridine synthase family protein [Burkholderia mallei FMH] gi|254208962|ref|ZP_04915310.1| RNA pseudouridine synthase family protein [Burkholderia mallei JHU] gi|52428655|gb|AAU49248.1| pseudouridine synthase family protein [Burkholderia mallei ATCC 23344] gi|76581320|gb|ABA50795.1| pseudouridine synthase family protein [Burkholderia pseudomallei 1710b] gi|124291404|gb|ABN00673.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10229] gi|147745494|gb|EDK52574.1| RNA pseudouridine synthase family protein [Burkholderia mallei FMH] gi|147750838|gb|EDK57907.1| RNA pseudouridine synthase family protein [Burkholderia mallei JHU] Length = 235 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 51/186 (27%), Positives = 86/186 (46%), Gaps = 25/186 (13%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL +KP G + S + R+++ D P ++ GRLD ++EGLLLLT+DG L Sbjct: 45 RLIALNKPFGTICQFSAHETRASLGDWVKTPGVYP----AGRLDADSEGLLLLTDDGALQ 100 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS------ 185 + P + ++ Y + G D L L++G+ + + T G+ Sbjct: 101 AKIAEPRHKLVKRYWAQVEGAPDAAALAALERGVDLGDYVSRPCRARFITPPGALWPRNP 160 Query: 186 ---------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP---FQLGTLLAGST 233 AW+ + + EGKNR+++++ + RL+R+ G F LG L G T Sbjct: 161 PIRHRAAIPTAWIELEIAEGKNRQVRRMTAAVGFPTLRLVRVGIGALDVFALG-LAPGET 219 Query: 234 REVSKK 239 RE+ + Sbjct: 220 RELPPR 225 >gi|86147718|ref|ZP_01066026.1| hypothetical ribosomal small subunit pseudouridine synthase A [Vibrio sp. MED222] gi|85834499|gb|EAQ52649.1| hypothetical ribosomal small subunit pseudouridine synthase A [Vibrio sp. MED222] Length = 232 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 63/232 (27%), Positives = 105/232 (45%), Gaps = 20/232 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + ++ ++ E I V VN + + V ++ I ++G PL+ E R Sbjct: 2 RLDKYLCKSTDLTKPEAIERIHNGEVNVNSETVTDESAQVHESNTILLNGTPLKLRE-FR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--------SRVISVGRLDINTEGLLLLTN 126 L HKP G + ++ D + PS+F S + GRLD +T GL+L+T+ Sbjct: 61 YLLMHKPAGTICSNID--------EVYPSLFNYIEIDKASELHIAGRLDADTTGLVLITD 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + LP+ +VYRV + D + K GI +QG L+ Sbjct: 113 DGRWSFNITLPTKSCKKVYRVTLSRGIKDDVADKFKAGIQLQGEQKPTRPAELEVITSKQ 172 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +T+ EGK ++K++F +V L R G +L + AG R ++K Sbjct: 173 VLLTI--TEGKFHQVKRMFAAVGNRVVGLHREQIGDVRLD-VEAGQWRYLTK 221 >gi|254293970|ref|YP_003059993.1| pseudouridine synthase [Hirschia baltica ATCC 49814] gi|254042501|gb|ACT59296.1| pseudouridine synthase [Hirschia baltica ATCC 49814] Length = 185 Score = 67.8 bits (164), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 46/184 (25%), Positives = 92/184 (50%), Gaps = 25/184 (13%) Query: 77 LYHKPIGLVTTHSDPDGRSTV------FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L++KP +++ +D ++ F ++P++++ GRLD ++EGLL+LT+DG L Sbjct: 6 LFNKPFNVLSQFTDAGNEASSRRTLSHFIDVPNVYA----AGRLDKDSEGLLVLTDDGKL 61 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS----- 185 + PS + + Y V+ G D+ L+LL+ G++++ +V L Q Sbjct: 62 QHRISDPSNKMEKSYWVQVEGIPDETALDLLRAGVLLKDGMTKPAKVKLMDQPVDLWVRE 121 Query: 186 ----------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 ++W+ + + EG+NR+++++ + RLIR G + + + +G Sbjct: 122 PPVRYRKSVPDSWIEITISEGRNRQVRRMTACVGFPTLRLIRYRVGNWTIDGIESGDWIM 181 Query: 236 VSKK 239 SKK Sbjct: 182 HSKK 185 >gi|15677165|ref|NP_274318.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis MC58] gi|218768321|ref|YP_002342833.1| putative ribosomal small subunit pseudouridine synthase [Neisseria meningitidis Z2491] gi|7226539|gb|AAF41674.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis MC58] gi|121052329|emb|CAM08659.1| putative ribosomal small subunit pseudouridine synthase [Neisseria meningitidis Z2491] gi|316984090|gb|EFV63068.1| conserved hypothetical protein [Neisseria meningitidis H44/76] gi|319410566|emb|CBY90934.1| ribosomal small subunit pseudouridine synthase A (16S pseudouridylate 516 synthase; 16S pseudouridine 516 synthase; rRNA-uridine isomerase A; rRNA pseudouridylate synthase A) [Neisseria meningitidis WUE 2594] gi|325140476|gb|EGC62997.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis CU385] gi|325200075|gb|ADY95530.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis H44/76] Length = 230 Score = 67.8 bits (164), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 56/226 (24%), Positives = 103/226 (45%), Gaps = 16/226 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLER--AAVNVMSTDHIEVDGVPLRKAER 72 ++ K + GI SR++ + +IA V +NG ++ A ++ S + +++DG + Sbjct: 2 KLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTVVPE 61 Query: 73 TRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDGG 129 + + +KP T+H P +VF P + +VGRLD +T G+LL+TNDG Sbjct: 62 PYFYIMLNKPEDYETSHK-PKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGS 185 L L PS + ++Y V + LK G+++ + +C D + T Sbjct: 121 LNHSLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLKNPTT--- 177 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V L R + + L G Sbjct: 178 ---LLLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPG 220 >gi|221064931|ref|ZP_03541036.1| RNA-binding S4 domain protein [Comamonas testosteroni KF-1] gi|220709954|gb|EED65322.1| RNA-binding S4 domain protein [Comamonas testosteroni KF-1] Length = 700 Score = 67.8 bits (164), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 74/246 (30%), Positives = 110/246 (44%), Gaps = 33/246 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA G+ SRRE + + V VNG + NV+ D IE+D + ++ Sbjct: 454 RINKRIADMGLCSRREADEWVENGWVTVNGEVAT-MGQNVVPGDRIEIDQKAQDRQDQQV 512 Query: 75 LWLYHKPIGLVTTHSDPDG-----------------RSTVFDNLPSIFSRVISVGRLDIN 117 L +KP+G V+ ++ DG RS N S + GRLDI+ Sbjct: 513 TILLNKPMGYVSGQAE-DGHEPAVVLITNENRWNEDRSKTRFNF-SQLKGLAPCGRLDID 570 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRF-HGQVD--------QDKLNLLKKGIVIQ 168 + GLL+LT DG +AR + ++ + Y VR G D ++KL LL+ G+ + Sbjct: 571 SVGLLVLTQDGRVARQIIGEDSEVDKEYLVRVTFGDRDVDVQSVFPEEKLALLRHGLSLD 630 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 QV + + L EGK R+I+++ E KV L RI G LG L Sbjct: 631 EQPLKPAQVDWQNPE----QLRFVLTEGKKRQIRRMCEQVGLKVVGLKRIRIGGVTLGNL 686 Query: 229 LAGSTR 234 G R Sbjct: 687 PTGQWR 692 >gi|157371821|ref|YP_001479810.1| pseudouridine synthase [Serratia proteamaculans 568] gi|157323585|gb|ABV42682.1| pseudouridine synthase [Serratia proteamaculans 568] Length = 266 Score = 67.8 bits (164), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 60/229 (26%), Positives = 109/229 (47%), Gaps = 15/229 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAER 72 R++K I+ +GI SRR+ +R I +V +N E A V D + V+G + R Sbjct: 8 RLNKYISDSGICSRRQADRYIKLGKVFINDNQAEVGAP-VFIGDVVSVNGQRIEPRNDAD 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGG 129 L +KP+G++T+ V +N+ + R VGRLD +++GL+ LTN G Sbjct: 67 LVLIALNKPVGIITSMG-----KHVPNNIGDFVNHSQRTFPVGRLDKDSQGLIFLTNRGE 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G QV ++ + + Sbjct: 122 LVNKILRAGNNHQKEYLVTVDKPLTDEFIQGMGAGVPILGKVTHKCQV----EQEAPQVL 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + L +G NR+I+++ ++F ++V +L R+ L L G R++S+ Sbjct: 178 RITLVQGLNRQIRRMCKYFGYQVTKLERVRIMNISLQGLALGEWRDLSE 226 >gi|229529332|ref|ZP_04418722.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae 12129(1)] gi|229333106|gb|EEN98592.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae 12129(1)] Length = 231 Score = 67.8 bits (164), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 61/229 (26%), Positives = 106/229 (46%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +R+E +++ V V+ ++ + A + +E G + R Sbjct: 2 RLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKEASRVEWQGREIM-LHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+V +H D + T F L + + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDGFNQ-TAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + YRV + D +GI ++ G+ ++TL Q S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELR----GERELTLPAQLEVISETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F KV L R G L TL G R ++++ Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEE 224 >gi|121635011|ref|YP_975256.1| putative ribosomal small subunit pseudouridine synthase [Neisseria meningitidis FAM18] gi|120866717|emb|CAM10469.1| putative ribosomal small subunit pseudouridine synthase [Neisseria meningitidis FAM18] gi|261392420|emb|CAX49965.1| ribosomal small subunit pseudouridine synthase A (16S pseudouridylate 516 synthase; 16S pseudouridine 516 synthase; rRNA-uridine isomerase A; rRNA pseudouridylate synthase A) [Neisseria meningitidis 8013] gi|325132500|gb|EGC55193.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis M6190] gi|325138274|gb|EGC60843.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis ES14902] gi|325142501|gb|EGC64904.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis 961-5945] gi|325198451|gb|ADY93907.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis G2136] Length = 230 Score = 67.8 bits (164), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 56/226 (24%), Positives = 103/226 (45%), Gaps = 16/226 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLER--AAVNVMSTDHIEVDGVPLRKAER 72 ++ K + GI SR++ + +IA V +NG ++ A ++ S + +++DG + Sbjct: 2 KLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTVVPE 61 Query: 73 TRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDGG 129 + + +KP T+H P +VF P + +VGRLD +T G+LL+TNDG Sbjct: 62 PYFYIMLNKPEDYETSHK-PKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGS 185 L L PS + ++Y V + LK G+++ + +C D + T Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLENPTT--- 177 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V L R + + L G Sbjct: 178 ---LLLTITEGKYHQVKRMIAAVGNRVQHLHRRRFAHLETENLKPG 220 >gi|238920207|ref|YP_002933722.1| ribosomal large subunit pseudouridine synthase E [Edwardsiella ictaluri 93-146] gi|238869776|gb|ACR69487.1| ribosomal large subunit pseudouridine synthase E [Edwardsiella ictaluri 93-146] Length = 175 Score = 67.8 bits (164), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 49/174 (28%), Positives = 80/174 (45%), Gaps = 17/174 (9%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS 138 +KP ++ +D GR+T+ D +P V + GRLD ++EGLL+LTNDG L L P Sbjct: 2 NKPFDVLPQFTDEQGRATLKDYIP--LQGVYAAGRLDRDSEGLLVLTNDGRLQAQLTQPG 59 Query: 139 TQWLRVYRVRFHGQVDQDKLN------LLKKGIVIQGICYGDMQVTL---------DTQK 183 + +VY V+ G+ + L LK G + + Q + + Sbjct: 60 KRTGKVYYVQVEGEPSEADLQRFCQGLTLKDGPTLPALAERVAQPDWLWPRNPPIRERKN 119 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EG+NR+++++ + RLIR S L L G R + Sbjct: 120 IPTSWLKITLYEGRNRQVRRMTAHIGYPTLRLIRYSMDSLTLQDLAPGEWRRID 173 >gi|253995971|ref|YP_003048035.1| pseudouridine synthase [Methylotenera mobilis JLW8] gi|253982650|gb|ACT47508.1| pseudouridine synthase [Methylotenera mobilis JLW8] Length = 184 Score = 67.8 bits (164), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 47/179 (26%), Positives = 84/179 (46%), Gaps = 23/179 (12%) Query: 77 LYHKPIGLVTTHS-----DPDGR-STVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L++KP +V S +PD R +T+ D +P V + GRLD ++EGLL+LT+DG L Sbjct: 4 LFNKPFNVVCQFSPHDSPNPDNRHATLKDFIP--IPDVYAAGRLDTDSEGLLILTDDGAL 61 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS----- 185 L P + ++ Y V+ G + L L+ G+ + +V++ + Sbjct: 62 QHRLSHPKHKEIKTYWVQVEGAPSDEALQPLRVGVDLGDFITQPAEVSVMNEPAGIWLRN 121 Query: 186 ----------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 W+ + + EGKNR+++++ + RLIR + G + L + G + Sbjct: 122 PPIRERKAIPTTWLQIKISEGKNRQVRRMTAKVGFPTLRLIRYAIGRYTLDGIANGEYK 180 >gi|84385630|ref|ZP_00988661.1| hypothetical ribosomal small subunit pseudouridine synthase A [Vibrio splendidus 12B01] gi|84379610|gb|EAP96462.1| hypothetical ribosomal small subunit pseudouridine synthase A [Vibrio splendidus 12B01] Length = 232 Score = 67.8 bits (164), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 61/232 (26%), Positives = 109/232 (46%), Gaps = 20/232 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + ++ ++ E I V VN + + V ++ I ++G PL+ E R Sbjct: 2 RLDKYLCKSTDLTKPEAIERIHNGEVNVNSETVTDESTQVHESNTILLNGTPLKLRE-FR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--------SRVISVGRLDINTEGLLLLTN 126 L HKP G + ++ D + PS+F S + GRLD +T GL+L+T+ Sbjct: 61 YLLMHKPAGTICSNVD--------EVYPSLFKYIEIDKASELHIAGRLDADTTGLVLITD 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + LP+ +VYRV + D + K G+ +QG ++ + + ++ Sbjct: 113 DGRWSFNITLPTKSCKKVYRVTLSRDIKDDVADKFKAGVKLQG--EQNLTRPAELEVITS 170 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 V + + EGK ++K++F +V L R G +L + AG R ++K Sbjct: 171 KEVLLTITEGKFHQVKRMFAAVGNRVVGLHREQIGDVRLD-VEAGQWRYLTK 221 >gi|332535580|ref|ZP_08411350.1| ribosomal large subunit pseudouridine synthase E [Pseudoalteromonas haloplanktis ANT/505] gi|332034998|gb|EGI71518.1| ribosomal large subunit pseudouridine synthase E [Pseudoalteromonas haloplanktis ANT/505] Length = 228 Score = 67.8 bits (164), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 49/202 (24%), Positives = 91/202 (45%), Gaps = 18/202 (8%) Query: 44 GILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 G R+A+N + E+ P ++ ++ L++KP ++ +D R T+ + +P Sbjct: 20 GRTYSRSALNKTPSGKREIK--PQIASKDRKIVLFNKPFDVLCQFTDDADRKTLAEFIP- 76 Query: 104 IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 V + GRLD ++EGLLLLTN G L L P + + Y + G+ + +N L Sbjct: 77 -IKEVYAAGRLDRDSEGLLLLTNCGKLQNSLTAPDKKTNKTYWAQVEGEPTSESINDLCN 135 Query: 164 G--------------IVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 G I+ + + + + W+++ + EG+NR+++++ Sbjct: 136 GVELKDGLTLPANVKIIDEPTIWARNPPVRERKAIPTTWLSITINEGRNRQVRRMTAHIG 195 Query: 210 WKVNRLIRISYGPFQLGTLLAG 231 RLIR S G + L + G Sbjct: 196 HPTLRLIRYSIGNYTLDDINCG 217 >gi|254181470|ref|ZP_04888067.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1655] gi|184212008|gb|EDU09051.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1655] Length = 240 Score = 67.8 bits (164), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 59/210 (28%), Positives = 93/210 (44%), Gaps = 7/210 (3%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTRLWLYHKPI 82 G SRR+ ++ V V G A + +T + EVDG+ R + L +KP Sbjct: 11 GFGSRRQCRALVEAGHVAVGGATCADAHASFDTTQLVFEVDGIAWPYRARAYVAL-NKPA 69 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 G + +P S+VF LP F+ V VGRLD +T GLLLL++DG P + Sbjct: 70 GYECSR-EPQHHSSVFALLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAYTSPKRK 128 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 + Y +D +L+ L+ G+++ G L + + + EGK + Sbjct: 129 VPKTYVATVRHPLDDAQLDALRAGVLLHG--EPKPVAALAAVARGERLLEMTIAEGKYHQ 186 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +K++ + +V L R G F L LA Sbjct: 187 VKRMVAAASNRVEALHRSRIGGFALPEDLA 216 >gi|149371928|ref|ZP_01891247.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [unidentified eubacterium SCB49] gi|149355068|gb|EDM43629.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [unidentified eubacterium SCB49] Length = 289 Score = 67.4 bits (163), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 57/202 (28%), Positives = 93/202 (46%), Gaps = 6/202 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +GI SRRE + I V VNG ++ V D + DG + T Sbjct: 61 RLNKYISNSGICSRREADTYIETGLVSVNGKIVNEMGYKVKLEDDVRFDGRRINPEPMTY 120 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLARV 133 + L +KP G TT S+ G +TV D + + SR+ +GRL N GLLL TND L Sbjct: 121 VLL-NKPKGFATTTSESKG-NTVMDLVANASNSRITPIGRLGRNATGLLLFTNDDKLKE- 177 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 +L R++ V + + +++G I G ++ K + + + + Sbjct: 178 -KLSKKGMSRLFHVELDKNLKAADIQKIREGFTIAGKKIEIEEINYVEGK-TKKEIGLKI 235 Query: 194 REGKNREIKKVFEFFNWKVNRL 215 + N I+ +F F + + RL Sbjct: 236 KNLGNSVIRDIFAHFEYDIVRL 257 >gi|330973498|gb|EGH73564.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. aceris str. M302273PT] Length = 173 Score = 67.4 bits (163), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 54/168 (32%), Positives = 84/168 (50%), Gaps = 9/168 (5%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLAR 132 R ++ HKP G V+ SD TV D L + + GRLD NT GL+L+TNDG +R Sbjct: 4 RYFMLHKPEGCVSATSDAQ-HPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSR 62 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--VIQGICYGDMQVTLDTQKGSNAWVT 190 L P ++ +VY V +D+ +G+ +GI Q+TL + + Sbjct: 63 RLTQPQSKMPKVYYVETEQPIDERYAAKFAEGLYFAFEGITTQPAQLTLLGPRRAR---- 118 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 + + EG+ ++K++F F+ KV RL R + G L L GS R ++ Sbjct: 119 LSIVEGRYHQVKRMFGHFDNKVLRLHRETIGALLLDPDLRPGSYRALN 166 >gi|87124863|ref|ZP_01080711.1| Pseudouridine synthase, Rsu [Synechococcus sp. RS9917] gi|86167742|gb|EAQ69001.1| Pseudouridine synthase, Rsu [Synechococcus sp. RS9917] Length = 212 Score = 67.4 bits (163), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 54/187 (28%), Positives = 86/187 (45%), Gaps = 25/187 (13%) Query: 77 LYHKPIGLVTTHS-DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L HKP G+++ + +P R +L + +V + GRLD ++EGLLLLT +G L + L Sbjct: 9 LLHKPYGVLSQFTPEPGSRWRCLADLVPV-PQVYAAGRLDADSEGLLLLTTEGRLQQRLT 67 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----------ICYGDMQVTLDT---- 181 P R Y V+ G +L L G+++QG + + +Q D Sbjct: 68 DPRFGHWRTYWVQVEGTATDKQLQQLCDGVLVQGRQTLPAQAQRLRHDQIQPWPDRVPPI 127 Query: 182 ---QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQLGTLLAGS 232 + W+ + LREG+NR+++++ RLIR + P L L GS Sbjct: 128 RERRSIPTDWLELSLREGRNRQVRRMTAAVGLPTLRLIRSAIDLMDGGLPLNLNGLAPGS 187 Query: 233 TREVSKK 239 R VS + Sbjct: 188 WRPVSTE 194 >gi|167561838|ref|ZP_02354754.1| pseudouridine synthase family protein [Burkholderia oklahomensis EO147] gi|167569061|ref|ZP_02361935.1| pseudouridine synthase family protein [Burkholderia oklahomensis C6786] Length = 192 Score = 67.4 bits (163), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 52/186 (27%), Positives = 84/186 (45%), Gaps = 25/186 (13%) Query: 79 HKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +KP G + S + R ++ D P ++ GRLD ++EGLLLLT+DG L + Sbjct: 7 NKPFGTICQFSPHETRGSLGDWVKTPGVYP----AGRLDADSEGLLLLTDDGALQAKIAE 62 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSNA----- 187 P + ++ Y + G D L L++G+ + C DT N Sbjct: 63 PRHKLVKRYWAQVEGAPDAGALATLERGVDLGDYVTRPCRARFVTPPDTLWPRNPPVRYR 122 Query: 188 ------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP---FQLGTLLAGSTREVSK 238 W+ + + EGKNR+++++ + RLIR+ G F LG L G TRE+ Sbjct: 123 AAIPTTWIELEIAEGKNRQVRRMTAAVGFPTLRLIRVGIGALDLFALG-LAPGETRELPP 181 Query: 239 KILREQ 244 + E+ Sbjct: 182 RAPWER 187 >gi|294788264|ref|ZP_06753507.1| ribosomal small subunit pseudouridine synthase A [Simonsiella muelleri ATCC 29453] gi|294483695|gb|EFG31379.1| ribosomal small subunit pseudouridine synthase A [Simonsiella muelleri ATCC 29453] Length = 227 Score = 67.4 bits (163), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 58/229 (25%), Positives = 104/229 (45%), Gaps = 22/229 (9%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILL--ERAAVNVMSTDHIEVDG-----VPLRKA 70 K + GI SR+ + +I V++NG ++ E+A + + + +DG +PL Sbjct: 5 KYLQAQGIGSRKMCQTLIRCGLVQINGEIINNEKAEITPENVQTMNIDGEDAVVIPLPY- 63 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDG 128 L +KP T+H P +VF P + + ++GRLD +T G+LL+TNDG Sbjct: 64 ---YYILLNKPENYETSHK-PRDYPSVFMLFPDHLRATDIQAIGRLDADTTGVLLITNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---S 185 + P + ++YRV ++ LK G+++ D T+ + S Sbjct: 120 QFNHKMTSPKHKVAKIYRVTLKHSANESICETLKNGVLLH-----DDNETVSAENAELTS 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + + EGK ++K++ +V L R+ +G + L AG R Sbjct: 175 PTELILTISEGKYHQVKRMVAAAGNRVEALHRLQFGDWGTEDLAAGEWR 223 >gi|160896616|ref|YP_001562198.1| pseudouridine synthase [Delftia acidovorans SPH-1] gi|160362200|gb|ABX33813.1| pseudouridine synthase [Delftia acidovorans SPH-1] Length = 591 Score = 67.4 bits (163), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 115/245 (46%), Gaps = 31/245 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ SRRE + + + V+VNG L NV++ D I V+ + ++ Sbjct: 345 RINKRLADMGLCSRREADEWVDKGWVRVNGELAV-MGQNVVAADRITVEREARERQDQQV 403 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFS-----RVISVGRLDINT 118 L HKP+G V+ ++ DG D + F+ + GRLDI++ Sbjct: 404 TILIHKPMGYVSGQAE-DGHEPAVVLVTPQNHWNQDTSRTRFNFAQLKGLAPCGRLDIDS 462 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRF-HGQVDQDKLNLLKKGIVIQGICYGDMQV 177 GLL++T DG +AR + ++ + Y VR +G D D ++ + + +C+G + Sbjct: 463 VGLLVMTQDGRVARQIIGEDSEMDKEYLVRVTYGDRDIDVQSVFPAEQLAR-LCHG---L 518 Query: 178 TLDTQKGSNAWVT--------VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 +LD + A V L EGK R+I+++ E +V L RI G LG L Sbjct: 519 SLDGEALKPAKVDWQNPEQLRFVLTEGKKRQIRRMCELVGLRVVGLKRIRIGRVTLGNLP 578 Query: 230 AGSTR 234 G R Sbjct: 579 VGQWR 583 >gi|167844683|ref|ZP_02470191.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei B7210] Length = 240 Score = 67.4 bits (163), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 60/210 (28%), Positives = 92/210 (43%), Gaps = 7/210 (3%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTRLWLYHKPI 82 G SRR+ ++ V V G A +T + EVDGV R + L +KP Sbjct: 11 GFGSRRQCRALVEAGHVAVGGATCADAHAPFDTTQLVFEVDGVAWPYRARAYVAL-NKPA 69 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 G + +P S+VF LP F+ V VGRLD +T GLLLL++DG P + Sbjct: 70 GYECSR-EPQHHSSVFALLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAYTSPKRK 128 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 + Y +D +L+ L+ G+++ G L + + + EGK + Sbjct: 129 VPKTYVATVRHPLDDAQLDALRAGVLLHG--EPKPVAALAAVARGERLLEMTIAEGKYHQ 186 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +K++ + +V L R G F L LA Sbjct: 187 VKRMVAAASNRVEALHRSRIGGFALPEDLA 216 >gi|261210699|ref|ZP_05924991.1| ribosomal large subunit pseudouridine synthase E [Vibrio sp. RC341] gi|260840184|gb|EEX66764.1| ribosomal large subunit pseudouridine synthase E [Vibrio sp. RC341] Length = 154 Score = 67.4 bits (163), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 42/144 (29%), Positives = 70/144 (48%), Gaps = 14/144 (9%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 V + GRLD ++EGLL+LTNDG L L P ++ + Y V+ G + L L+ G+ + Sbjct: 10 VYAAGRLDRDSEGLLILTNDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTL 69 Query: 168 QGICYGDMQVTLDTQKG--------------SNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + +V + + W+ + L EG+NR+++++ + Sbjct: 70 KDGPTLPAKVEIMPEPTLWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTL 129 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 RLIR S G + LG L G +EV+ Sbjct: 130 RLIRYSMGDWNLGDLQPGEWQEVT 153 >gi|145588562|ref|YP_001155159.1| pseudouridine synthase [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] gi|145046968|gb|ABP33595.1| ribosomal small subunit pseudouridine synthase A [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] Length = 241 Score = 67.4 bits (163), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 57/231 (24%), Positives = 100/231 (43%), Gaps = 27/231 (11%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P + K++ G +RR ++ VKVNG+L E + I +G+ L +R Sbjct: 4 PISLEKILFSQGFGTRRYCSDLVYADLVKVNGVLAEDPE------ERIATEGLVLTVEDR 57 Query: 73 TRLWLYH--------KPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLL 122 W YH KP +H +V+ LPS F + VGRLD +T GLL Sbjct: 58 D--WEYHEKAYIAFNKPENYECSHKTTH-HPSVYSLLPSPFVERGLQCVGRLDFDTTGLL 114 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTL 179 L+++DG + P +VY + + Q +++ L G+V+ C+ + Sbjct: 115 LISDDGQFIHKMTTPKKNIGKVYEITTPEPITQSQIDHLLNGVVLDDDPKPCFA-----V 169 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + + + + EG+ ++K++ V +L R G + + T LA Sbjct: 170 ACNQLTEYTLAMTIVEGRYHQVKRMMAAVGNHVAKLHRTEIGAYLMPTDLA 220 >gi|295134129|ref|YP_003584805.1| pseudouridylate synthase [Zunongwangia profunda SM-A87] gi|294982144|gb|ADF52609.1| pseudouridylate synthase [Zunongwangia profunda SM-A87] Length = 190 Score = 67.4 bits (163), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 50/187 (26%), Positives = 89/187 (47%), Gaps = 24/187 (12%) Query: 74 RLWLYHKPIGLVT---THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R + +KP G ++ T+ P + + L + ++VGRLD ++EGLLLLT +G Sbjct: 3 RYFKIYKPYGYLSQFITNEKPRKKKKLLGELGNFPEETMAVGRLDQDSEGLLLLTTNGKE 62 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG--IVIQGICYGDMQVTL--------- 179 + + S + + Y V+ G++ ++ + LLK G I I G Y + Sbjct: 63 SARITGSSVE--KEYYVQVDGEITEEAIALLKNGVEISINGTKYRSLPCKAFKLYTRPVF 120 Query: 180 --------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 D + G +W+++ L EGK R++KK+ + RL+R+ G +L + +G Sbjct: 121 PERAKKIRDERHGPTSWISITLTEGKFRQVKKMTAVVGFPTLRLVRVRIGNEKLEHMNSG 180 Query: 232 STREVSK 238 E+ K Sbjct: 181 EVIELEK 187 >gi|126667267|ref|ZP_01738240.1| Pseudouridine synthase, Rsu [Marinobacter sp. ELB17] gi|126628212|gb|EAZ98836.1| Pseudouridine synthase, Rsu [Marinobacter sp. ELB17] Length = 219 Score = 67.4 bits (163), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 49/177 (27%), Positives = 87/177 (49%), Gaps = 26/177 (14%) Query: 77 LYHKPIGLVTTHSD---PDG---RSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L++KP +++ +D P R+T+ D N P I+ GRLD ++EGLLLLT+DG Sbjct: 6 LFNKPFQVLSQFTDERRPTDKPRRATLADWINQPGIYP----AGRLDYDSEGLLLLTSDG 61 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT------ 181 L + P + + Y V+ G ++ L L++G+ ++ G+ + +D Sbjct: 62 QLQHCIASPRGKMEKTYWVQVEGTINPQTLRQLEQGVQLKDGLTRPALARAMDEPVIWLR 121 Query: 182 -------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 Q +W+ + + EG+NR+++++ + RLIR G + LG L G Sbjct: 122 TPPVRFRQNIPTSWLELTICEGRNRQVRRMTAALGFPTLRLIRYRIGDWSLGLLEPG 178 >gi|212637003|ref|YP_002313528.1| RNA pseudouridine synthase family protein [Shewanella piezotolerans WP3] gi|212558487|gb|ACJ30941.1| RNA pseudouridine synthase family protein [Shewanella piezotolerans WP3] Length = 210 Score = 67.4 bits (163), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 50/179 (27%), Positives = 85/179 (47%), Gaps = 22/179 (12%) Query: 79 HKPIGLVTTH-SDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 +KP G ++ + R + L S S+ +++GRLD ++EGLLLLT DG ++ ++ Sbjct: 24 YKPYGFLSQFLPEARKRKKLLGELFSFPSKTMAIGRLDHDSEGLLLLTTDGMMSH--QIR 81 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKG--IVIQGICYGDMQVTL---------------- 179 S + Y V+ G + + L+ G I I G Y + + Sbjct: 82 SKGIEKEYYVQVDGDITASAITALQLGVEIGINGEKYQTLPCNVFRLTEEPQLPVRGRKI 141 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 D + G +WV++ L EGKNR+I+K+ + RL+R+ G +G + AG +S Sbjct: 142 RDPRHGPTSWVSITLCEGKNRQIRKMTAAVGFATLRLVRVRIGNIFVGGMQAGDVTPLS 200 >gi|167582947|ref|ZP_02375821.1| ribosomal small subunit pseudouridine synthase A [Burkholderia thailandensis TXDOH] Length = 240 Score = 67.4 bits (163), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 59/210 (28%), Positives = 96/210 (45%), Gaps = 7/210 (3%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTRLWLYHKPI 82 G SRR+ ++ RV V G A + + + EVDGV R + L +KP Sbjct: 11 GFGSRRQCRALVEAGRVAVGGATCADAHTSFDTARLVFEVDGVAWPYRARAYVAL-NKPA 69 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 G + +P ++VF LP F+ V VGRLD +T GLLLL++DG P + Sbjct: 70 GYECSR-EPQHHASVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAYTSPKRK 128 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 + Y +D +L+ L+ G+++ G + +G + + + EGK + Sbjct: 129 VPKTYVAAVRHPLDDAQLDALRAGVLLHGE-PKPIAALAAAARGER-LLEMTIAEGKYHQ 186 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +K++ + +V+ L R G F L LA Sbjct: 187 VKRMVAAVSNRVDALHRSRIGGFALPEDLA 216 >gi|325134459|gb|EGC57104.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis M13399] gi|325144560|gb|EGC66859.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis M01-240013] gi|325205927|gb|ADZ01380.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis M04-240196] Length = 230 Score = 67.0 bits (162), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 56/226 (24%), Positives = 103/226 (45%), Gaps = 16/226 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLER--AAVNVMSTDHIEVDGVPLRKAER 72 ++ K + GI SR++ + +IA V +NG ++ A ++ S + +++DG + Sbjct: 2 KLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTVVPE 61 Query: 73 TRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDGG 129 + + +KP T+H P +VF P + +VGRLD +T G+LL+TNDG Sbjct: 62 PYFYIMLNKPEDYETSHK-PKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGS 185 L L PS + ++Y V + LK G+++ + +C D + T Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLKNPTT--- 177 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V L R + + L G Sbjct: 178 ---LLLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPG 220 >gi|119775917|ref|YP_928657.1| pseudouridine synthase, Rsu [Shewanella amazonensis SB2B] gi|119768417|gb|ABM00988.1| pseudouridine synthase, Rsu [Shewanella amazonensis SB2B] Length = 251 Score = 67.0 bits (162), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 58/219 (26%), Positives = 102/219 (46%), Gaps = 9/219 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ +A+ ++ V ++ +RV V+G + A+ + I + LR A+ R Sbjct: 7 RLDSFLAKTLNIPKKAVRELLKAERVTVDGKVALEMALQIGPFSQIYLGDTALR-ADTPR 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 + +KP+G+V+ D + + TV D +P + VGRLD+NT GL+LL+ND + Sbjct: 66 YLMLNKPVGVVSATKDKEHK-TVLDLIPEALRAGLHIVGRLDLNTSGLVLLSNDSRWSES 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V + +D + ++G +GI ++ + ++ + V Sbjct: 125 MMQPGAHVPKEYWVTLEHPLTEDYIAAFERGFYFETEGITTLPARLAILGEREAR----V 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 L EGK +IK++F F V L R G L LA Sbjct: 181 ELCEGKYHQIKRMFGRFQNPVVALHRHRIGALMLDPGLA 219 >gi|309379227|emb|CBX22184.1| unnamed protein product [Neisseria lactamica Y92-1009] Length = 230 Score = 67.0 bits (162), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 55/222 (24%), Positives = 101/222 (45%), Gaps = 8/222 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLER--AAVNVMSTDHIEVDGVPLRKAER 72 ++ K + GI SR++ + +I V +NGI ++ A ++ S + +++DG + Sbjct: 2 KLIKYLQYQGIGSRKQCQWLIRGGYVSINGICMDDTDADIDSSSVETLDIDGKAVTVIPE 61 Query: 73 TRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDGG 129 + L +KP T+H P +VF P + +VGRLD +T G+LL+TNDG Sbjct: 62 PYFYILLNKPTDYETSHK-PKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGH 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P+ + ++Y V + LK G+++ + D S + + Sbjct: 121 LNHKLTSPNHKIPKLYEVTLKHPAGETLCETLKNGVLLHD--ENETVYAADAVLESPSAL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + EGK ++K++ +V L R + + L G Sbjct: 179 LLTITEGKYHQVKRMVAAAGNRVQHLHRRRFAHLETENLKPG 220 >gi|15677349|ref|NP_274504.1| hypothetical protein NMB1496 [Neisseria meningitidis MC58] gi|7226738|gb|AAF41852.1| conserved hypothetical protein [Neisseria meningitidis MC58] gi|254672402|emb|CBA05707.1| probable pseudouridine synthase [Neisseria meningitidis alpha275] gi|316984641|gb|EFV63606.1| conserved hypothetical protein [Neisseria meningitidis H44/76] gi|325128549|gb|EGC51422.1| ribosomal large subunit pseudouridine synthase E [Neisseria meningitidis N1568] gi|325134592|gb|EGC57235.1| ribosomal large subunit pseudouridine synthase E [Neisseria meningitidis M13399] gi|325136615|gb|EGC59216.1| ribosomal large subunit pseudouridine synthase E [Neisseria meningitidis M0579] gi|325140627|gb|EGC63146.1| ribosomal large subunit pseudouridine synthase E [Neisseria meningitidis CU385] gi|325144767|gb|EGC67059.1| ribosomal large subunit pseudouridine synthase E [Neisseria meningitidis M01-240013] gi|325199899|gb|ADY95354.1| ribosomal large subunit pseudouridine synthase E [Neisseria meningitidis H44/76] Length = 186 Score = 67.0 bits (162), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 45/170 (26%), Positives = 81/170 (47%), Gaps = 23/170 (13%) Query: 78 YHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 ++KP G++ S + ++ F NLP + GRLD ++EGLLLLT+DG L + Sbjct: 7 FNKPYGVICQFSPHEKHKSLKDFINLPGFYP----AGRLDTDSEGLLLLTDDGRLQAQIT 62 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA-------- 187 P + + Y + G D+ +L L+KGI + G + + +++ Sbjct: 63 DPKFKHPKTYWAQLEGVPDESRLESLRKGIDLGGFVTRPASIRILKHGEADSLWERIPPI 122 Query: 188 ---------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RLIR++ G +L L Sbjct: 123 RVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLIRVASGRLKLFDL 172 >gi|282899316|ref|ZP_06307285.1| Pseudouridine synthase, Rsu [Cylindrospermopsis raciborskii CS-505] gi|281195773|gb|EFA70701.1| Pseudouridine synthase, Rsu [Cylindrospermopsis raciborskii CS-505] Length = 191 Score = 67.0 bits (162), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 53/179 (29%), Positives = 86/179 (48%), Gaps = 22/179 (12%) Query: 77 LYHKPIGLVT--THSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++HKP G+++ T P+ + + ++P ++ VGRLD ++EGLLLLTNDG L Sbjct: 9 IFHKPYGVLSQFTRELPEHVTLKDYIDVPDVYP----VGRLDWDSEGLLLLTNDGKLQHH 64 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------- 184 + P R Y V+ D + L +G+ IQ QV L ++ Sbjct: 65 IANPRFGHQRTYWVQVERIPDPVAIAKLGQGVEIQNYRTLPAQVKLLLEEPIVGERYPPI 124 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 AW+ + L+EGKNR+++++ + RLIR+ QL L G+ R +S Sbjct: 125 RFRKNVPTAWLEMTLKEGKNRQVRRMTAAVGFPTLRLIRVRIAQLQLDDLPVGTWRYLS 183 >gi|467162|gb|AAA50926.1| u0247g [Mycobacterium leprae] Length = 186 Score = 67.0 bits (162), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 53/169 (31%), Positives = 80/169 (47%), Gaps = 5/169 (2%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +KP G+ +T SD GR V D + ++ VGRLD +TEGL+LLTNDG LA L Sbjct: 12 NKPRGMYSTMSDDRGRPCVGDLIERRVRGNKKLFHVGRLDADTEGLILLTNDGELAHRLM 71 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVGLR 194 PS + + Y G V + L G+ + G + D +D G V + L Sbjct: 72 HPSHEVSKTYLATVKGAVPRGLGKKLSVGLELDDGPAHVDDFAVVDAIPGKT-LVRLTLH 130 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 EG+ R ++++ + V L+R G LG G R + + +R+ Sbjct: 131 EGRKRIVRRLLTAAGFPVEMLVRTDIGAVSLGDQRPGCLRALLRDEIRQ 179 >gi|88860124|ref|ZP_01134763.1| ribosomal large subunit pseudouridine synthase E [Pseudoalteromonas tunicata D2] gi|88818118|gb|EAR27934.1| ribosomal large subunit pseudouridine synthase E [Pseudoalteromonas tunicata D2] Length = 221 Score = 67.0 bits (162), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 46/179 (25%), Positives = 86/179 (48%), Gaps = 16/179 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ L++KP ++ +D GR T+ D + + + GRLD ++EGLL+LTNDG L Sbjct: 44 KIVLFNKPFDVLCQFTDEAGRQTLADFID--IKDIYAAGRLDRDSEGLLVLTNDGQLQNK 101 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------------- 179 L P + + Y V+ G + + L +G+ ++ QV L Sbjct: 102 LASPKHKTSKTYWVQVEGIPSAEAIKSLCQGVELKDGPTLPAQVELMHAPDIWPRNPPIR 161 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+++ L EG+NR+++++ RLIR G + + + G + V+K Sbjct: 162 ERKNIPTSWLSITLTEGRNRQVRRMTAHIGHPTLRLIRYRIGHWTIDGIENGQFKSVAK 220 >gi|83719779|ref|YP_441351.1| ribosomal small subunit pseudouridine synthase A [Burkholderia thailandensis E264] gi|83653604|gb|ABC37667.1| ribosomal small subunit pseudouridine synthase A [Burkholderia thailandensis E264] Length = 252 Score = 67.0 bits (162), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 62/222 (27%), Positives = 103/222 (46%), Gaps = 8/222 (3%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTRLWLYHKPI 82 G SRR+ ++ RV V G A + + + EVDGV R + L +KP Sbjct: 23 GFGSRRQCRALVEAGRVAVGGATCADAHTSFDTARLVFEVDGVAWPYRARAYVAL-NKPA 81 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 G + +P ++VF LP F+ V VGRLD +T GLLLL++DG P + Sbjct: 82 GYECSR-EPQHHASVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAYTSPKRK 140 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 + Y +D +L+ L+ G+++ G + +G + + + EGK + Sbjct: 141 VPKTYVATVRHPLDDAQLDALRAGVLLHGE-PKPIAALAAAARGERL-LEMTIAEGKYHQ 198 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 +K++ + +V+ L R G F L LA G+ R + ++ L Sbjct: 199 VKRMVAAASNRVDALHRSRIGGFALPEDLAEGAWRWLDERDL 240 >gi|255036743|ref|YP_003087364.1| pseudouridine synthase [Dyadobacter fermentans DSM 18053] gi|254949499|gb|ACT94199.1| pseudouridine synthase [Dyadobacter fermentans DSM 18053] Length = 201 Score = 67.0 bits (162), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 49/171 (28%), Positives = 77/171 (45%), Gaps = 18/171 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +L +KP +++ S T+ D + + VGRLD ++EGLLLLTND L Sbjct: 3 QYFLIYKPFNMLSQFSREGDHQTLADLGFTFAKDIYPVGRLDADSEGLLLLTNDNFLKTK 62 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKG--IVIQGICYGDMQVTLDT---------- 181 L P + R Y V+ G+V + L G I I G Y + + Sbjct: 63 LLEPRNRHTRTYYVQVEGEVTDEACRQLSAGVSISINGKQYKTLPAEIAKIAEPELPERN 122 Query: 182 ------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 + +W++V LREGKNR+++++ + RL+R S G L Sbjct: 123 PPIRFRKNIPTSWLSVTLREGKNRQVRRMTAAVGFPTLRLVRWSIGKISLA 173 >gi|254467319|ref|ZP_05080730.1| ribosomal large subunit pseudouridine synthase E [Rhodobacterales bacterium Y4I] gi|206688227|gb|EDZ48709.1| ribosomal large subunit pseudouridine synthase E [Rhodobacterales bacterium Y4I] Length = 217 Score = 67.0 bits (162), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 49/185 (26%), Positives = 88/185 (47%), Gaps = 25/185 (13%) Query: 73 TRLWLYHKPIGLVTTHSD------PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 TRL ++KP ++ +D P + + + P +++ GRLD ++EGLLLLT+ Sbjct: 2 TRLIRFNKPYDVLPQFTDSGSQDSPRATLSKYIDCPGVYA----AGRLDRDSEGLLLLTD 57 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-- 184 +G L + P + + Y V+ G DQ+ L L +G+ ++ +V L + Sbjct: 58 NGRLQAWITDPKHKMDKTYWVQVEGIPDQEALKNLAEGVELKDGITRPAKVRLMPEPTGL 117 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 ++W+ + LREG+NR+++++ RLIR S G + L L G Sbjct: 118 WARTPPVRVRKTVPDSWIALTLREGRNRQVRRMTAAVGHPTLRLIRYSIGAWTLDGLAQG 177 Query: 232 STREV 236 + +V Sbjct: 178 AWEDV 182 >gi|302670814|ref|YP_003830774.1| RNA pseudouridylate synthase [Butyrivibrio proteoclasticus B316] gi|302395287|gb|ADL34192.1| RNA pseudouridylate synthase [Butyrivibrio proteoclasticus B316] Length = 242 Score = 67.0 bits (162), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 78/244 (31%), Positives = 127/244 (52%), Gaps = 16/244 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + I +R++++ + R VNG ++ R ++V + D I DG LR + + Sbjct: 2 RLDKFLGLFDIGTRKQIKEYLKNGRCSVNGEVVTRPDIHVDENNDEISFDGKTLRYS-KY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGR-STVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ +D GR +TV D L + +S GRLDI+TEGLLLLT+DGGL Sbjct: 61 HYYMLYKPQGVVSATTD--GRNTTVLDLLQEENVKGLSPAGRLDIDTEGLLLLTDDGGLI 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTL-------DTQK 183 L P +VY V + + L+KG+ I G++ TL D Sbjct: 119 HRLLSPKKHVDKVYEVHLRKDLSDKDIESLEKGVNIGDTKDNGEIDYTLPARVVRMDEDD 178 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V + + EG+ ++K++ E +V L R+S GP L TL G R+++++ L+ Sbjct: 179 ENRPVVHLIIHEGRFHQVKRMMEAVGNEVLFLKRLSMGPLILDETLEPGEYRQLTQEELK 238 Query: 243 EQLG 246 QLG Sbjct: 239 -QLG 241 >gi|167618201|ref|ZP_02386832.1| ribosomal small subunit pseudouridine synthase A [Burkholderia thailandensis Bt4] gi|257139975|ref|ZP_05588237.1| ribosomal small subunit pseudouridine synthase A [Burkholderia thailandensis E264] Length = 240 Score = 67.0 bits (162), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 59/210 (28%), Positives = 96/210 (45%), Gaps = 7/210 (3%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTRLWLYHKPI 82 G SRR+ ++ RV V G A + + + EVDGV R + L +KP Sbjct: 11 GFGSRRQCRALVEAGRVAVGGATCADAHTSFDTARLVFEVDGVAWPYRARAYVAL-NKPA 69 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 G + +P ++VF LP F+ V VGRLD +T GLLLL++DG P + Sbjct: 70 GYECSR-EPQHHASVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAYTSPKRK 128 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 + Y +D +L+ L+ G+++ G + +G + + + EGK + Sbjct: 129 VPKTYVATVRHPLDDAQLDALRAGVLLHGE-PKPIAALAAAARGER-LLEMTIAEGKYHQ 186 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +K++ + +V+ L R G F L LA Sbjct: 187 VKRMVAAASNRVDALHRSRIGGFALPEDLA 216 >gi|91794227|ref|YP_563878.1| pseudouridine synthase, Rsu [Shewanella denitrificans OS217] gi|91716229|gb|ABE56155.1| Pseudouridine synthase, Rsu [Shewanella denitrificans OS217] Length = 234 Score = 67.0 bits (162), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 64/232 (27%), Positives = 106/232 (45%), Gaps = 20/232 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A R+ V M+ RV V+ ++++ + + + VDG L+ + Sbjct: 7 RLDQFLAGKLQVPRKSVRFMLLAGRVSVDNMIIKDMDLQLDEFSQVCVDGAALQNNQPCY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 L L +KP+G+V+ D D T + L I ++ + GRLD+N+ GLLL+TND + Sbjct: 67 LML-NKPVGVVSATKD-DIHKTALELLHGIKLEMLHIAGRLDLNSSGLLLITNDARWSEA 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--VIQGICYGDMQVTLDTQKG-----SN 186 L P + + Y V +D+ ++ G+ +GI TQ S Sbjct: 125 LMSPDNKVSKKYLVTLANPIDETYISAFAGGMYFAFEGIT---------TQAAGFEILSE 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 V L+EGK +IK++F F V L R + G L TL G R ++ Sbjct: 176 YQARVSLKEGKYHQIKRMFGRFRNPVIGLHREAIGELVLDETLAPGEFRHLT 227 >gi|85059548|ref|YP_455250.1| 16S rRNA pseudouridylate synthase A [Sodalis glossinidius str. 'morsitans'] gi|84780068|dbj|BAE74845.1| ribosomal small subunit pseudouridine synthase [Sodalis glossinidius str. 'morsitans'] Length = 235 Score = 67.0 bits (162), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 54/211 (25%), Positives = 97/211 (45%), Gaps = 2/211 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV V+G ++++ A + + DG L + R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTVDGEIIKQGAFQLRPEHQVRFDGNLLHQILTAR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + L Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTILYFIDEPVPDKLHAAGRLDIDTTGLVLLTDDGQWSYRL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + + GI+++G L T +T+ Sbjct: 122 TSPRHHCEKDYLVTLEQPLAAEITAQFAAGILLRGEKLPTRPARLATLSPLKVRLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EG+ ++K++F +V L R G L Sbjct: 180 EGRYHQVKRMFAAVGNRVVALHRERIGAIVL 210 >gi|119477504|ref|ZP_01617695.1| ribosomal small subunit pseudouridine synthase A [marine gamma proteobacterium HTCC2143] gi|119449430|gb|EAW30669.1| ribosomal small subunit pseudouridine synthase A [marine gamma proteobacterium HTCC2143] Length = 229 Score = 67.0 bits (162), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 62/218 (28%), Positives = 102/218 (46%), Gaps = 7/218 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR E +R+I RV+V G ++ NV + I V+G LR A R Sbjct: 2 RLDKYLSQVTDYSRSEGKRLIRSGRVRVAGHVVIDPRENVDNNAVIVVNGQQLRSAS-PR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ HKP G ++ D + + FD ++ GRLDI+T GLLL+++DG Sbjct: 61 YFMLHKPDGYISATKDRQHLTALELFDE--DNVDQLHIAGRLDIDTTGLLLVSDDGQWCH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + + + +++GI + + LD A +T+ Sbjct: 119 RVTSPKSDCKKTYRVEAVDPITPEAIKNIEQGIHLSQEKKPTLPADLDLLDEHTARLTI- 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EGK ++K++F KV L R G L LA Sbjct: 178 -TEGKYHQVKRMFAAVGNKVECLHRERIGNIVLDDDLA 214 >gi|71905658|ref|YP_283245.1| ribosomal small subunit pseudouridine synthase A [Dechloromonas aromatica RCB] gi|71845279|gb|AAZ44775.1| ribosomal small subunit pseudouridine synthase A [Dechloromonas aromatica RCB] Length = 235 Score = 67.0 bits (162), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 62/214 (28%), Positives = 100/214 (46%), Gaps = 7/214 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 ++ +++ + G SRRE +I + RV VNG + + V + + + VDGV AE Sbjct: 2 QLERILQKHGFGSRRECRGLIRRDRVAVNGQVCDDPFVELDTEGLVFTVDGVDWPYAEFA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 L L HKP G + P + V + LP V +GRLD +T GLLL+TNDG L Sbjct: 62 TLML-HKPAGYECSRK-PKHHAGVLELLPIPLRERDVQPIGRLDEDTTGLLLITNDGQLN 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L + +VY +DQ +++ L G+++ Y + G + + Sbjct: 120 HQLSSAKRKVPKVYLATTKHPLDQAQIDQLVAGVLLADE-YEPISAAAAEIVGEK-LLRL 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 L EGK ++K++ + +V L R + G L Sbjct: 178 TLTEGKYHQVKRMVAAVSNRVEALHREAVGELTL 211 >gi|114777044|ref|ZP_01452064.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Mariprofundus ferrooxydans PV-1] gi|114552565|gb|EAU55025.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Mariprofundus ferrooxydans PV-1] Length = 249 Score = 66.6 bits (161), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 54/217 (24%), Positives = 100/217 (46%), Gaps = 11/217 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+++ G +R++V I + V G E A V ++D + ++G PL + Sbjct: 7 ERLDKLLSNLGYGARKDVRHWIKAGWITVQGEAAESPAQKVFASD-VLLEGEPLDHPDGL 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINTEGLLLLTNDGG 129 + +YHKP+ V + + G ++D+LP+ + VGRLD +T GLL++T+DG Sbjct: 66 TI-IYHKPLDTVCSRKE--GGRLIYDDLPARWLDRKPPFSPVGRLDKDTSGLLIVTDDGQ 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y V + + ++ G ++++ + L + A Sbjct: 123 LNHCLTSPKQHISKTYSVTLAEPLQGREAEIMAAGTLLLENDDRPCLPAELIVHSPTQAS 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +T L EG+ + +++F V L R G L Sbjct: 183 LT--LHEGRYHQARRMFVALGNHVTALQRTHIGALAL 217 >gi|331004981|ref|ZP_08328391.1| pseudouridine synthase [gamma proteobacterium IMCC1989] gi|330421223|gb|EGG95479.1| pseudouridine synthase [gamma proteobacterium IMCC1989] Length = 237 Score = 66.6 bits (161), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 46/177 (25%), Positives = 83/177 (46%), Gaps = 18/177 (10%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVL 134 L H P + T + + D L S + V GRLD ++EGLLLLT+DG L + + Sbjct: 22 LQHAPTNITTPSNT--AEKPLKDTLASYIKQKHVYPAGRLDYDSEGLLLLTDDGALQQHI 79 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT------------ 181 P + + Y V+ G+ + + + L+KG+ ++ G+ + ++ Sbjct: 80 SHPQYKLPKTYWVQVEGEQNLEAIIALRKGVELKDGLTKPALVEAIEEPDLWPRNPPVRF 139 Query: 182 -QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 Q W+++ + EGKNR+++++ RL+R S G + L L G R ++ Sbjct: 140 RQSIPTHWLSITISEGKNRQVRRMTAAVGLPTLRLVRASIGDWTLEGLQPGEHRSIA 196 >gi|325921245|ref|ZP_08183105.1| ribosomal small subunit pseudouridine synthase A [Xanthomonas gardneri ATCC 19865] gi|325548212|gb|EGD19206.1| ribosomal small subunit pseudouridine synthase A [Xanthomonas gardneri ATCC 19865] Length = 237 Score = 66.6 bits (161), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 72/238 (30%), Positives = 109/238 (45%), Gaps = 13/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++ K IA G SR++V ++ Q V V G +L A + + D I +DG PL Sbjct: 2 KLVKHIANLGYGSRKQVTQLFRQGAVTDVQGEVL--YADDQVEHDAIRIDGEPLDPPSGF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SR---VISVGRLDINTEGLLLLTNDGG 129 L L HKP G + D GR +++ LP F SR + VGRLD T G+LL+T+DG Sbjct: 60 SLLL-HKPSGYTCSTKD-TGR-LIYELLPLRFRSRAPVLAPVGRLDRETSGMLLMTDDGA 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAW 188 L + P + +VY V + D+ L G ++++G + LD A Sbjct: 117 LLHRIISPKSALDKVYDVTLAEDLRGDEAALFSSGTLLLEGETKPLLPAELDVLGPREAR 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +T L EG+ +++++F V L R G L L +G R + L G Sbjct: 177 LT--LHEGRYHQVRRMFAAAGNHVVALHRSRIGGLSLEGLPSGQWRTLEAPDLEVLFG 232 >gi|282897768|ref|ZP_06305767.1| Pseudouridine synthase, Rsu [Raphidiopsis brookii D9] gi|281197447|gb|EFA72344.1| Pseudouridine synthase, Rsu [Raphidiopsis brookii D9] Length = 191 Score = 66.6 bits (161), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 53/176 (30%), Positives = 85/176 (48%), Gaps = 22/176 (12%) Query: 77 LYHKPIGLVT--THSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++HKP G+++ T P+ + + ++P ++ VGRLD ++EGLLLLTNDG L Sbjct: 9 IFHKPYGVLSQFTRELPEHVTLKDYIDVPDVYP----VGRLDWDSEGLLLLTNDGKLQHH 64 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS-------- 185 + P R Y V+ D + L +G+ IQ QV L ++ + Sbjct: 65 IANPRFGHQRTYWVQVERIPDPVAIAKLGQGVEIQNYRTLPAQVKLLLEEPTVGERHPPI 124 Query: 186 -------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 AW+ + L+EGKNR+++++ + RLIRI QL L G+ R Sbjct: 125 RYRKNVPTAWLEMTLKEGKNRQVRRMTAAVGFPTLRLIRIRIAQLQLDDLPVGTWR 180 >gi|42560927|ref|NP_975378.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma mycoides subsp. mycoides SC str. PG1] gi|42492424|emb|CAE77020.1| Ribosomal large subunit pseudouridine synthase B [Mycoplasma mycoides subsp. mycoides SC str. PG1] Length = 113 Score = 66.6 bits (161), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 39/110 (35%), Positives = 58/110 (52%), Gaps = 2/110 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAE 71 +R+ KVI+ G SRR E++I + RVKVN ++ V + I++D V Sbjct: 4 ERLQKVISSRGYCSRRAAEKLILENRVKVNDQIINTLGVKIDPKAEIKIDNRLVLSDSNN 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + +L++KP ++TT DP R TV D + RV VGRLD + GL Sbjct: 64 QKYYYLFYKPRLVLTTMYDPKKRKTVNDYFKDLNHRVYPVGRLDYDVSGL 113 >gi|259907987|ref|YP_002648343.1| 16S rRNA pseudouridylate synthase A [Erwinia pyrifoliae Ep1/96] gi|224963609|emb|CAX55102.1| Ribosomal small subunit pseudouridine synthase A [Erwinia pyrifoliae Ep1/96] gi|283477874|emb|CAY73790.1| putative 16S pseudouridylate 516 synthase [Erwinia pyrifoliae DSM 12163] Length = 234 Score = 66.6 bits (161), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 56/227 (24%), Positives = 104/227 (45%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I++ SR R + ++V V+G ++ A + + +E DG L + R Sbjct: 2 RLDKFISQQLEVSRAIAARELRARKVTVDGEVVREGAYKLSADSTVEYDGNVLEQQLGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP+G V + DPD + + F P + R+ + GRLD +T GL+L+T+DG + Sbjct: 62 YFMLNKPVGYVCSTDDPDHPTILYFLEEPGAY-RLHAAGRLDNDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + L+ + + +T+ Sbjct: 121 ITSPRHHCEKTYLVTLESAISDDNAQQFADGVQLHNEKTLTKPAMLEVIEPNVVRLTIS- 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 EG+ ++K++F +V L R G +L + L G R +S + Sbjct: 180 -EGRYHQVKRMFAAVGNRVVGLHRERIGAIRLDSDLQPGEYRPLSAE 225 >gi|297517087|ref|ZP_06935473.1| 23S rRNA pseudouridine synthase F [Escherichia coli OP50] Length = 147 Score = 66.6 bits (161), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 46/121 (38%), Positives = 71/121 (58%), Gaps = 9/121 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG +RA + V D ++V+G + R+A Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNG---KRATIGDQVKPGDVVKVNGQLIEPREA 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 A 131 Sbjct: 123 V 123 >gi|323527142|ref|YP_004229295.1| pseudouridine synthase [Burkholderia sp. CCGE1001] gi|323384144|gb|ADX56235.1| pseudouridine synthase [Burkholderia sp. CCGE1001] Length = 189 Score = 66.6 bits (161), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 49/173 (28%), Positives = 83/173 (47%), Gaps = 23/173 (13%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL- 130 RL +KP G + S + R+++ D +P ++ GRLD ++EGLLLLT+DG L Sbjct: 2 RLLALNKPFGTICQFSPHETRASLADWVKVPGVYP----AGRLDSDSEGLLLLTDDGALQ 57 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDT----- 181 AR+ E P + ++ Y + G VD L L +G+ + C D DT Sbjct: 58 ARIAE-PRHKLVKRYWAQVEGTVDAAALKKLARGVDLGDYVTKPCRADYVEPGDTLWTRT 116 Query: 182 ------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 +W+ + + EGKNR+++++ + RL+R+ G + +L Sbjct: 117 PPIRYRAAIPTSWIELSITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFSL 169 >gi|6689331|emb|CAB65436.1| hypothetical protein [Synechococcus elongatus PCC 6301] Length = 199 Score = 66.6 bits (161), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 56/188 (29%), Positives = 88/188 (46%), Gaps = 28/188 (14%) Query: 74 RLWLYHKPIGLVTTHSDPD--GRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L+HKP V S D + T+ D ++P ++ VGRLD ++EGLLLLTN+G Sbjct: 4 RYLLFHKPYDAVCQFSPSDRPDQQTLKDYIDVPEVYP----VGRLDRDSEGLLLLTNNGA 59 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQK----- 183 L L P R Y V+ + + L L++G+ IQ +V LD + Sbjct: 60 LQHRLCHPRFGHDRTYWVQVEREPTEAALQALRQGVQIQDYRTRPAKVQRLDDPQIPERD 119 Query: 184 --------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQLGTLL 229 AW+ + L+EG+NR+++++ RLIR + P QL L Sbjct: 120 PPIRFRKTVPTAWLALTLQEGRNRQVRRMTAAVGHPTLRLIRAAIATHPDQPPLQLQGLA 179 Query: 230 AGSTREVS 237 G+ R+++ Sbjct: 180 PGTWRDLT 187 >gi|332530024|ref|ZP_08405974.1| RNA-binding s4 domain protein [Hylemonella gracilis ATCC 19624] gi|332040497|gb|EGI76873.1| RNA-binding s4 domain protein [Hylemonella gracilis ATCC 19624] Length = 302 Score = 66.6 bits (161), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 72/267 (26%), Positives = 107/267 (40%), Gaps = 50/267 (18%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ SRRE + + VKVNG + E V D IEVD + Sbjct: 37 RLNKRMAELGLCSRREADAWVENGWVKVNGRVAEMGQ-QVSPADRIEVDPQAQNQQATQV 95 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIFSR-----VISVGRLDINT 118 L HKPIG V+ ++ DG D P F+ + GRLDI++ Sbjct: 96 TILLHKPIGYVSGQAE-DGHEPAVVLVQAQNRWREDRAPHRFNGGQLRGLAPAGRLDIDS 154 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR----------------------------FH 150 GLL+LT DG +AR L ++ + Y VR Sbjct: 155 TGLLVLTQDGRVARQLIGEDSEIEKEYLVRVVYLGTPAAASAPTELQPIHANDPVSANVQ 214 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 L L+ G+ + G +V + + + L+EGK R+I+++ E Sbjct: 215 AVFPPAMLAKLRHGLSLDGQALKPARVDWE----NTEQLRFVLKEGKKRQIRRMCELVGL 270 Query: 211 KVNRLIRISYGPFQLGTLLAGSTREVS 237 KV L R+ G LG L G R ++ Sbjct: 271 KVVGLKRVRIGRVMLGQLPQGQWRYLA 297 >gi|262404053|ref|ZP_06080608.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. RC586] gi|262349085|gb|EEY98223.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. RC586] Length = 231 Score = 66.6 bits (161), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 58/214 (27%), Positives = 99/214 (46%), Gaps = 9/214 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +R+E +++ + V V+ ++ + A + T +E + R Sbjct: 2 RLDKFLCDALGTTRKEATQLLKRGEVTVDDVVQKSGAFKLKETSRVEWQDREI-TLHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+V +H D + T F L + + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDGFNQ-TAFTLLDEVNIEDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + YRV + D KGI ++ G+ ++TL Q S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQGDYAEQFTKGIELR----GERELTLPAQLEVVSETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + EGK ++K++F KV L R G L Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITL 209 >gi|15837802|ref|NP_298490.1| ribosomal small subunit pseudouridine synthase [Xylella fastidiosa 9a5c] gi|9106172|gb|AAF84010.1|AE003954_7 ribosomal small subunit pseudouridine synthase [Xylella fastidiosa 9a5c] Length = 236 Score = 66.6 bits (161), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 74/237 (31%), Positives = 108/237 (45%), Gaps = 21/237 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD----HIEV--DGVPLR 68 ++ K IA G SR+EV R+ + R+ NG V+ D HI V DG PL Sbjct: 2 KLLKYIANLGYGSRKEVARIFREGRI-TNG------EGEVLYADDQVQHIAVRFDGEPLD 54 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVIS-VGRLDINTEGLLLL 124 + L HKP + + D GR V+D LP F S ++S VGRLD +T GLLLL Sbjct: 55 PPPGLMVML-HKPSDYICSTKDA-GR-LVYDLLPPRFRLRSPLLSTVGRLDGDTSGLLLL 111 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T+DG L + P T +VY + D+ L G ++ +Q + G Sbjct: 112 TDDGALLHRMISPKTHLPKVYEATLVQALRGDEATLFASGTLLLDGDTKPLQPAVLEVLG 171 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + L EG+ +++++F +VN L R + G L L G R + + L Sbjct: 172 P-CQVRLTLYEGRYHQVRRMFGATGNRVNTLHRSAIGGLVLDGLPEGQWRVLEAQDL 227 >gi|119503233|ref|ZP_01625317.1| pseudouridylate synthase [marine gamma proteobacterium HTCC2080] gi|119460879|gb|EAW41970.1| pseudouridylate synthase [marine gamma proteobacterium HTCC2080] Length = 208 Score = 66.6 bits (161), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 50/172 (29%), Positives = 85/172 (49%), Gaps = 19/172 (11%) Query: 77 LYHKPIGLVTTHSDPDG---RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP +++ SD D R T+ + L + RV GRLD ++EGL LLT+DG L + Sbjct: 28 LLNKPFRVLSQFSDRDNDPPRLTLANLLSAPEFRV--AGRLDYDSEGLTLLTDDGKLQQQ 85 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG-------- 184 + P + + Y V+ G Q + L G+V+ G+ +D Sbjct: 86 IANPKFKVWKTYWVQVEGAPKQQAIEQLTSGVVLNDGLTKPAKVRAIDPPDLWERSPSVR 145 Query: 185 -----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +AW+ + ++EG+NR+I+++ N RL+RI+ G +++G L G Sbjct: 146 FRAHIPDAWLEISIQEGRNRQIRRMTAAVNLPTLRLVRIAIGDWEIGNLQPG 197 >gi|326623646|gb|EGE29991.1| RNA pseudouridine synthase family protein [Salmonella enterica subsp. enterica serovar Dublin str. 3246] Length = 172 Score = 66.6 bits (161), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 49/171 (28%), Positives = 81/171 (47%), Gaps = 17/171 (9%) Query: 84 LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L L P + + Sbjct: 1 MLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLTNDGALQARLTQPGKRTGK 58 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVTLDTQKGSNAW 188 +Y V+ G D L L+ G+ + GI + + + +W Sbjct: 59 IYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLWPRTPPIRERKNIPTSW 118 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V L EG+NR+++++ RLIR S G + L L G E++++ Sbjct: 119 LKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQWCEIAQE 169 >gi|207728125|ref|YP_002256519.1| ribosomal small subunit pseudouridine synthase a protein [Ralstonia solanacearum MolK2] gi|206591370|emb|CAQ56982.1| ribosomal small subunit pseudouridine synthase a protein [Ralstonia solanacearum MolK2] Length = 278 Score = 66.6 bits (161), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 62/220 (28%), Positives = 97/220 (44%), Gaps = 15/220 (6%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTRLW 76 +++ G +RR + ++A V VNGI E V + + +VDG R A R + Sbjct: 38 RILQSQGFGTRRYCKDLVAAGLVHVNGIEAEDPDAQVDTAGLVLDVDGE--RWAYHARAY 95 Query: 77 LY-HKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARV 133 L HKP G + P +V+ LP V VGRLD +T GLLLLT+DG Sbjct: 96 LMLHKPAGFECSQK-PRHHPSVYTLLPVPLRERGVQCVGRLDQDTTGLLLLTDDGQFVHT 154 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---TQKGSNAWVT 190 L P Q +VY + V ++ L +G+++ D T+ ++ + Sbjct: 155 LTSPRHQVPKVYEITTADPVTDAQVAQLCRGVLLD-----DEDATVAAAWAERVDTCHLR 209 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + L +GK ++K++ V L R + G L LA Sbjct: 210 MALTQGKYHQVKRMVAAAGNHVTALHRSAIGALTLDAGLA 249 >gi|325136197|gb|EGC58805.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis M0579] gi|325201990|gb|ADY97444.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis M01-240149] gi|325208259|gb|ADZ03711.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis NZ-05/33] Length = 230 Score = 66.2 bits (160), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 55/222 (24%), Positives = 101/222 (45%), Gaps = 8/222 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLER--AAVNVMSTDHIEVDGVPLRKAER 72 ++ K + GI SR++ + +IA V +NG ++ A ++ S + +++DG + Sbjct: 2 KLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTVVPE 61 Query: 73 TRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDGG 129 + + +KP T+H P +VF P + +VGRLD +T G+LL+TNDG Sbjct: 62 PYFYIMLNKPEDYETSHK-PKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V + LK G+++ + D S + + Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPAGETLCETLKNGVLLHD--ENETVYAADAVLESPSAL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + EGK ++K++ +V L R + + L G Sbjct: 179 LLTITEGKYHQVKRMVAAAGNRVQHLHRRRFAHLETENLKPG 220 >gi|325524840|gb|EGD02796.1| ribosomal small subunit pseudouridine synthase A [Burkholderia sp. TJI49] Length = 238 Score = 66.2 bits (160), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 63/219 (28%), Positives = 95/219 (43%), Gaps = 9/219 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--EVDGVPLRKAERT 73 + ++ G SRR+ +I RV + G TD + VDG P R Sbjct: 3 LESILYTQGFGSRRQCRGLIDAGRVAIAGAPATDPDAR-FDTDGLVFTVDGTPWPFHARA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L +KP G + DP ++VF LP+ + V VGRLD +T GLLLL++DG Sbjct: 62 YLAL-NKPAGYECSR-DPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLSDDGQFV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 P + + Y +D +L+ L+ G+ + G V D + +TV Sbjct: 120 HAYTSPKRKVPKTYVATVRHPLDDAQLDALRTGVQLHGEPRPIAAVAADARDTHALALTV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EGK ++K++ + +V L R G F L LA Sbjct: 180 --LEGKYHQVKRMVAAASNRVEALHRERIGGFTLPDDLA 216 >gi|254453784|ref|ZP_05067221.1| ribosomal large subunit pseudouridine synthase E [Octadecabacter antarcticus 238] gi|198268190|gb|EDY92460.1| ribosomal large subunit pseudouridine synthase E [Octadecabacter antarcticus 238] Length = 206 Score = 66.2 bits (160), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 51/178 (28%), Positives = 84/178 (47%), Gaps = 21/178 (11%) Query: 77 LYHKPIGLVTTHSD---PDGRSTVFD-NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L++KP G++T +D P R T+ NLP V + GRLD ++EGLL+LT+DG L Sbjct: 32 LFNKPFGVLTQFTDAKSPTERPTLSGFNLPK---GVYAAGRLDRDSEGLLVLTDDGKLQA 88 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 L P+ + + Y V+ G L L+ + ++ QV L Sbjct: 89 QLSKPTFKTPKTYLVQIEGDPTDADLAPLRTRVTLKDGPTLPAQVRLIDPPDVWHRDPPV 148 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 +AW+ V + EG+NR+++++ + RL+R S G + L + G R + Sbjct: 149 RVRKSIPDAWIEVTITEGRNRQVRRMCAHIGFPCLRLVRWSVGAWTLDGIDQGQWRTI 206 >gi|254974047|ref|ZP_05270519.1| putative RNA pseudouridine synthase [Clostridium difficile QCD-66c26] gi|255091448|ref|ZP_05320926.1| putative RNA pseudouridine synthase [Clostridium difficile CIP 107932] gi|255313181|ref|ZP_05354764.1| putative RNA pseudouridine synthase [Clostridium difficile QCD-76w55] gi|255515866|ref|ZP_05383542.1| putative RNA pseudouridine synthase [Clostridium difficile QCD-97b34] gi|255648959|ref|ZP_05395861.1| putative RNA pseudouridine synthase [Clostridium difficile QCD-37x79] gi|306519077|ref|ZP_07405424.1| pseudouridine synthase [Clostridium difficile QCD-32g58] Length = 172 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 51/163 (31%), Positives = 84/163 (51%), Gaps = 6/163 (3%) Query: 79 HKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +KP G ++ +D TV D +L + VGRLD +TEGLL+LTNDG L+ + Sbjct: 2 NKPDGYISATTDK-YDPTVLDLIDLSYLAFEPFPVGRLDKDTEGLLVLTNDGKLSHRVLS 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTVGLRE 195 P + Y + G V ++ + +G+V+ Y M L+ K + + + + + E Sbjct: 61 PKKHVPKTYYAKIDGVVTEEDVEAFLEGVVLDD-GYKTMPSQLNILKSDDESEIELTIHE 119 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 GK ++K++FE KV L R+S G +L +L G RE++ Sbjct: 120 GKFHQVKRMFESVGKKVVYLKRLSMGNLKLDESLELGEYRELT 162 >gi|254514301|ref|ZP_05126362.1| ribosomal large subunit pseudouridine synthase E [gamma proteobacterium NOR5-3] gi|219676544|gb|EED32909.1| ribosomal large subunit pseudouridine synthase E [gamma proteobacterium NOR5-3] Length = 197 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 45/179 (25%), Positives = 85/179 (47%), Gaps = 20/179 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP +++ +D GR T+ F P + GRLD ++EGLLLL ++G L + Sbjct: 4 LILLNKPYQVLSQFTDSAGRDTLAKFIRTPGFYP----AGRLDYDSEGLLLLCDEGRLQQ 59 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-------------VIQGICYGDMQVTL 179 + P + + Y V+ G++ L LK G+ +Q + + + Sbjct: 60 RIADPHFKLWKTYCVQLEGEITAQALQSLKNGLNLKDGPTRPARVKTLQEPLFWERNPPI 119 Query: 180 DTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +K +W+ + + EG+NR+++++ + V RL+R G + + L G R ++ Sbjct: 120 RQRKHQPTSWIEISINEGRNRQVRRMCAAVGFPVLRLVRTRIGDWAIDGLQPGQHRRMT 178 >gi|293374527|ref|ZP_06620849.1| pseudouridylate synthase [Turicibacter sanguinis PC909] gi|325841216|ref|ZP_08167341.1| putative 16S pseudouridylate 516 synthase [Turicibacter sp. HGF1] gi|292646906|gb|EFF64894.1| pseudouridylate synthase [Turicibacter sanguinis PC909] gi|325490073|gb|EGC92419.1| putative 16S pseudouridylate 516 synthase [Turicibacter sp. HGF1] Length = 244 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 62/236 (26%), Positives = 114/236 (48%), Gaps = 11/236 (4%) Query: 15 RVSKVIARAGIASRREVERMI-AQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K++A G +R EV++++ +++ ++ + +S + V + E Sbjct: 2 RLDKLLAHTGYGTRTEVKKLLKSKEVKVDGVVVKDAKVKVDLSKQCVTVFDEVVEYREFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + +KP ++ D R+ + D+ +F V GRLD +TEGL+LLTNDG LA Sbjct: 62 YLMM-NKPQDCLSATRDQRYRTVIDLLDDYYLMFD-VAPAGRLDRDTEGLVLLTNDGKLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAW 188 + P + Y G++ +KLN L+ G+ I G + + + ++ W Sbjct: 120 HEIISPKKDVYKRYVAHVTGELTDEKLNQLETGVEILDGTGEVFSTKPAKVKILQKNDEW 179 Query: 189 --VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + + EGK ++K++F KV L R++ G +L +L G RE++ + L Sbjct: 180 TEVEICITEGKFHQVKRMFASVGGKVIYLKRLAIGGLELDESLELGEYRELTDEEL 235 >gi|209694915|ref|YP_002262843.1| ribosomal small subunit pseudouridine synthase A [Aliivibrio salmonicida LFI1238] gi|208008866|emb|CAQ79074.1| ribosomal small subunit pseudouridine synthase A [Aliivibrio salmonicida LFI1238] Length = 229 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 57/221 (25%), Positives = 106/221 (47%), Gaps = 23/221 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + ++ ++ E IA+ RVKVN ++ + V +H+ ++G L A R Sbjct: 2 RLDKFVCKSTTLTKNEALECIAEGRVKVNAKIVTVESTQVHENNHVTLNG-DLLTARPFR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--------SRVISVGRLDINTEGLLLLTN 126 L +KP + ++ D + PS+F S + GRLD +T GL+L+T+ Sbjct: 61 YLLMNKPANTICSNID--------EAYPSLFNYIKEGNNSELHIAGRLDSDTTGLVLITD 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-- 184 DG + + PS + +VYRV + + + ++ G+ +Q G++++T + Sbjct: 113 DGRWSYNIITPSKKCEKVYRVGLRNIITSEAIIKIELGVQLQ----GEVELTRPAKLKII 168 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + V + + EGK ++K++F KV L R +G L Sbjct: 169 TEREVLLTIIEGKFHQVKRMFSAVGNKVILLHREQFGEISL 209 >gi|291613437|ref|YP_003523594.1| pseudouridine synthase [Sideroxydans lithotrophicus ES-1] gi|291583549|gb|ADE11207.1| pseudouridine synthase [Sideroxydans lithotrophicus ES-1] Length = 180 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 50/175 (28%), Positives = 81/175 (46%), Gaps = 19/175 (10%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +R+ L++KP G++ S T+ D + V GRLD ++EGLLLLT+DG L Sbjct: 2 SRILLFNKPYGVICQFSRDGMHPTLADYI--AVPDVYPAGRLDTDSEGLLLLTDDGKLQH 59 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----------------QGICYGDMQ 176 + P + + Y V+ G D L L++GI + QG+ D Sbjct: 60 RITDPKHKQPKTYWVQVEGIPDATALEQLRRGIQLKDGMTLPAEANLMAEPQGLWLRDPP 119 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 V + W+ + + EGKNR+++++ + RLIR S G + + L G Sbjct: 120 VRF-RKDIPTCWLWLTIHEGKNRQVRRMTAAVGFPTLRLIRYSIGKWTIDGLAPG 173 >gi|254423571|ref|ZP_05037289.1| conserved hypothetical protein [Synechococcus sp. PCC 7335] gi|196191060|gb|EDX86024.1| conserved hypothetical protein [Synechococcus sp. PCC 7335] Length = 219 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 47/164 (28%), Positives = 83/164 (50%), Gaps = 24/164 (14%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R L +KP +++ +D GR T+ D +P++++ VGRLD ++EGLLLLT+DG + Sbjct: 4 RYLLLYKPYDVLSQFTDESGRRTLKDLVAVPNVYA----VGRLDRDSEGLLLLTDDGPMQ 59 Query: 132 RVLELPSTQWLRVYRVRFH----GQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------ 181 L P R Y V+ Q + ++ L+ G+ I+G QV++ Sbjct: 60 HRLSHPRFGHRRQYWVQVECGPKSQPIEAAIDQLRAGVTIRGYRTRPAQVSVIPDPDLPP 119 Query: 182 --------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 ++ + AW+ + L EGKNR+++++ + RL+R Sbjct: 120 RNPPIRYRKQIATAWLEIALTEGKNRQVRRMTAAVGFPTLRLVR 163 >gi|330818088|ref|YP_004361793.1| Pseudouridine synthase [Burkholderia gladioli BSR3] gi|327370481|gb|AEA61837.1| Pseudouridine synthase [Burkholderia gladioli BSR3] Length = 192 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 53/191 (27%), Positives = 87/191 (45%), Gaps = 27/191 (14%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLE 135 +KP G + S + R ++ D + P ++ GRLD ++EGLLLLT+DG L AR+ E Sbjct: 7 NKPFGTICQFSAHETRPSLGDWVRTPGVYP----AGRLDADSEGLLLLTDDGALQARIAE 62 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSNA---- 187 P + ++ Y + G D L L +G+ + C D +T N Sbjct: 63 -PRHKLVKRYWAQVEGTPDDAALKALARGVDLGDYVTRPCRADYVEPPETLWPRNPPVRF 121 Query: 188 -------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP---FQLGTLLAGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G F LG L G T + Sbjct: 122 RAAIPTTWIELSITEGKNRQVRRMTAAVGYPTLRLVRVGIGALDLFALG-LAPGDTLALP 180 Query: 238 KKILREQLGPH 248 + + PH Sbjct: 181 PRAPWDGFAPH 191 >gi|262365461|gb|ACY62018.1| putative RNA pseudouridylate synthase-family protein [Yersinia pestis D182038] Length = 194 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 34/96 (35%), Positives = 54/96 (56%) Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 +A L PS + R Y VR GQ+D DK+ L +G+ ++ ++ +G N W Sbjct: 1 MANRLMHPSREVEREYAVRVFGQIDDDKIKQLSRGVQLEDGPAAFRTISYQGGEGINQWY 60 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 61 NVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINL 96 >gi|53718535|ref|YP_107521.1| putative pseudouridine synthase [Burkholderia pseudomallei K96243] gi|67640945|ref|ZP_00439735.1| ribosomal large subunit pseudouridine synthase E [Burkholderia mallei GB8 horse 4] gi|121599756|ref|YP_992031.1| RNA pseudouridine synthase family protein [Burkholderia mallei SAVP1] gi|126439533|ref|YP_001058005.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 668] gi|126449425|ref|YP_001079713.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10247] gi|126453501|ref|YP_001065239.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106a] gi|134281043|ref|ZP_01767752.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 305] gi|166998439|ref|ZP_02264299.1| RNA pseudouridine synthase family protein [Burkholderia mallei PRL-20] gi|167718438|ref|ZP_02401674.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei DM98] gi|167737487|ref|ZP_02410261.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 14] gi|167814605|ref|ZP_02446285.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 91] gi|167823075|ref|ZP_02454546.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 9] gi|167844638|ref|ZP_02470146.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei B7210] gi|167893169|ref|ZP_02480571.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 7894] gi|167901623|ref|ZP_02488828.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei NCTC 13177] gi|167909870|ref|ZP_02496961.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 112] gi|167917895|ref|ZP_02504986.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei BCC215] gi|217420029|ref|ZP_03451535.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 576] gi|226193625|ref|ZP_03789229.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei Pakistan 9] gi|237811156|ref|YP_002895607.1| ribosomal large subunit pseudouridine synthase E [Burkholderia pseudomallei MSHR346] gi|242314224|ref|ZP_04813240.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106b] gi|254176988|ref|ZP_04883645.1| RNA pseudouridine synthase family protein [Burkholderia mallei ATCC 10399] gi|254187468|ref|ZP_04893980.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei Pasteur 52237] gi|254196524|ref|ZP_04902948.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei S13] gi|254261731|ref|ZP_04952785.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1710a] gi|254296413|ref|ZP_04963870.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 406e] gi|254298237|ref|ZP_04965689.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 406e] gi|254359979|ref|ZP_04976249.1| RNA pseudouridine synthase family protein [Burkholderia mallei 2002721280] gi|52208949|emb|CAH34888.1| putative pseudouridine synthase [Burkholderia pseudomallei K96243] gi|121228566|gb|ABM51084.1| RNA pseudouridine synthase family protein [Burkholderia mallei SAVP1] gi|126219026|gb|ABN82532.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 668] gi|126227143|gb|ABN90683.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106a] gi|126242295|gb|ABO05388.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10247] gi|134247349|gb|EBA47434.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 305] gi|148029219|gb|EDK87124.1| RNA pseudouridine synthase family protein [Burkholderia mallei 2002721280] gi|157805681|gb|EDO82851.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 406e] gi|157808309|gb|EDO85479.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 406e] gi|157935148|gb|EDO90818.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei Pasteur 52237] gi|160698029|gb|EDP87999.1| RNA pseudouridine synthase family protein [Burkholderia mallei ATCC 10399] gi|169653267|gb|EDS85960.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei S13] gi|217397333|gb|EEC37349.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 576] gi|225934328|gb|EEH30311.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei Pakistan 9] gi|237505123|gb|ACQ97441.1| ribosomal large subunit pseudouridine synthase E [Burkholderia pseudomallei MSHR346] gi|238521769|gb|EEP85218.1| ribosomal large subunit pseudouridine synthase E [Burkholderia mallei GB8 horse 4] gi|242137463|gb|EES23865.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106b] gi|243065495|gb|EES47681.1| RNA pseudouridine synthase family protein [Burkholderia mallei PRL-20] gi|254220420|gb|EET09804.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1710a] Length = 192 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 52/191 (27%), Positives = 88/191 (46%), Gaps = 25/191 (13%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL +KP G + S + R+++ D P ++ GRLD ++EGLLLLT+DG L Sbjct: 2 RLIALNKPFGTICQFSAHETRASLGDWVKTPGVYP----AGRLDADSEGLLLLTDDGALQ 57 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS------ 185 + P + ++ Y + G D L L++G+ + + T G+ Sbjct: 58 AKIAEPRHKLVKRYWAQVEGAPDAAALAALERGVDLGDYVSRPCRARFITPPGALWPRNP 117 Query: 186 ---------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP---FQLGTLLAGST 233 AW+ + + EGKNR+++++ + RL+R+ G F LG L G T Sbjct: 118 PIRHRAAIPTAWIELEIAEGKNRQVRRMTAAVGFPTLRLVRVGIGALDVFALG-LAPGET 176 Query: 234 REVSKKILREQ 244 RE+ + E+ Sbjct: 177 RELPPRAPWER 187 >gi|291336757|gb|ADD96295.1| hypothetical protein [uncultured organism MedDCM-OCT-S08-C1656] Length = 169 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 49/166 (29%), Positives = 84/166 (50%), Gaps = 8/166 (4%) Query: 10 NFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-- 64 NFT ++ K +A AG+ SRR+ E I V +NG + + +D ++V+G Sbjct: 2 NFTNSQRPKLQKFLADAGLCSRRKGEEWIEDGLVTINGENAKLGERVIPDSDIVKVNGKR 61 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLL 122 V +++ L L +KP G ++ D +F+ L S + R+ GRLD+++EG++ Sbjct: 62 VQVKRIPNITL-LVNKPKGYTCSNDDEYADRLIFELLESKYRSVRLFCAGRLDVDSEGMV 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 +LTN+G LA L PS + Y++ D L L G +++ Sbjct: 121 ILTNNGTLAHRLTHPSQMVRKKYKIEIDTPFDTKDLPSLINGELVE 166 >gi|254492373|ref|ZP_05105545.1| conserved hypothetical protein [Methylophaga thiooxidans DMS010] gi|224462265|gb|EEF78542.1| conserved hypothetical protein [Methylophaga thiooxydans DMS010] Length = 237 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 47/173 (27%), Positives = 83/173 (47%), Gaps = 16/173 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T+L L++KP ++T +D GR T+ D++ +V GRLD ++EGLLLLT+ G L Sbjct: 2 TQLILFNKPYDVLTQFTDSAGRRTLKDHID--LEQVYPAGRLDRDSEGLLLLTDSGPLQH 59 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG------- 184 ++ P + + Y V+ D+ L L+ G+ ++ G+ +D Sbjct: 60 LIANPKFKLEKTYWVQVENIPDETALQQLRDGVELKDGLTLPAKARLIDPPPVWPRTPPI 119 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + ++EG+NR+++++ RLIR S + L L G Sbjct: 120 RERKSIPTQWLELKIQEGRNRQVRRMTAAIGCPTLRLIRYSIDIWTLDNLSQG 172 >gi|285019685|ref|YP_003377396.1| ribosomal small subunit pseudouridine synthase a protein [Xanthomonas albilineans GPE PC73] gi|283474903|emb|CBA17402.1| probable ribosomal small subunit pseudouridine synthase a protein [Xanthomonas albilineans] Length = 232 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 70/228 (30%), Positives = 108/228 (47%), Gaps = 13/228 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++ K +A G SR++V M + R+ +G +L A + + I VDG L Sbjct: 2 KLVKHLANLGYGSRKQVALMFREGRITDADGDVLY--ADDQVPHAAIRVDGEVLDPPPGL 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVIS-VGRLDINTEGLLLLTNDGG 129 L L HKP+G + DP GR V+D LPS F S ++S VGRLD +T GLLL+T+DG Sbjct: 60 ILAL-HKPVGYTCSTKDP-GR-IVYDLLPSRFRLRSPLMSTVGRLDRDTSGLLLMTDDGA 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAW 188 L + P ++ ++Y + D+ G +++ G + V L+ Sbjct: 117 LLHRIVSPKSRLAKIYEATLAEDLRGDEAAQFASGTLLLDGETTPLLPVQLEVLGPRQ-- 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V V L EG+ +++++F V L R G L L AG R + Sbjct: 175 VRVVLHEGRYHQVRRMFAAVGNHVLALHRSRIGGLALDALPAGQWRAL 222 >gi|294650005|ref|ZP_06727393.1| ribosomal small subunit pseudouridine synthase A [Acinetobacter haemolyticus ATCC 19194] gi|292824098|gb|EFF82913.1| ribosomal small subunit pseudouridine synthase A [Acinetobacter haemolyticus ATCC 19194] Length = 238 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 62/222 (27%), Positives = 100/222 (45%), Gaps = 13/222 (5%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + K++ G SR+ +++I V ++ + N + D +V G + E Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGAVSIDSQTCDNPKQNFSTEDLSFQVFGEQYQYREYVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 + L HKP G +H RS VF LP I V VGRLD +T GLLLLT+DG + Sbjct: 63 IVL-HKPQGYECSHQATHHRS-VFSLLPEILVHRGVQCVGRLDQDTTGLLLLTDDGQYLQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWV 189 L P +VY V V ++ L+ G+ + +GI Y + L +++ + Sbjct: 121 ALTHPKKHVPKVYCVSTADPVTTEQKQQLELGVELRNEKGI-YAATDIKLISER----QL 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + +G ++K++ KV RL R G +L L G Sbjct: 176 AMTIHQGVYHQVKRMIAAVGNKVERLHRQQIGLLELPNLEEG 217 >gi|116073158|ref|ZP_01470420.1| Pseudouridine synthase, Rsu [Synechococcus sp. RS9916] gi|116068463|gb|EAU74215.1| Pseudouridine synthase, Rsu [Synechococcus sp. RS9916] Length = 229 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 53/185 (28%), Positives = 84/185 (45%), Gaps = 25/185 (13%) Query: 77 LYHKPIGLVTTHSDPDG-RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L +KP G+++ + G R + S+ V + GRLD ++EGLLLLT++G L + L Sbjct: 12 LLNKPYGVLSQFTREQGSRWGCLADWVSV-PEVYAAGRLDADSEGLLLLTSNGRLQQRLT 70 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA-------- 187 P R Y + G+ +L L++G+ IQG + + S+A Sbjct: 71 DPRFGHWRTYWAQVEGEATASQLTQLEQGVPIQGKLTLPARAQPLASQLSDALPPRDPPI 130 Query: 188 ---------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISY------GPFQLGTLLAGS 232 W+T+ LREG+NR+++++ RLIR + P L L AG Sbjct: 131 RTRATIPTSWITLSLREGRNRQVRRMTAAVGLPTLRLIRTTIDLMDGEAPLSLEGLSAGE 190 Query: 233 TREVS 237 R S Sbjct: 191 WRPAS 195 >gi|90410509|ref|ZP_01218525.1| hypothetical 16S rRNA uridine-516 pseudouridylate synthase [Photobacterium profundum 3TCK] gi|90328750|gb|EAS45034.1| hypothetical 16S rRNA uridine-516 pseudouridylate synthase [Photobacterium profundum 3TCK] Length = 232 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 56/212 (26%), Positives = 102/212 (48%), Gaps = 5/212 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A +R+E R+++ + ++VNG +++ A++ + +E +G L + + Sbjct: 2 RLDKFLATTLGITRKEAGRLLSNKMIEVNGNVVKSASLKITDDCDVEFNGKKL-ALQGPQ 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V +H D D TVF + + V GRLD +T GL LLT+DG + Sbjct: 61 YFMLNKPEGFVCSHVD-DHNPTVFVLFDEVSPEKMHVAGRLDGDTTGLTLLTDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P +VY V V ++ + +G+ ++G L+ A +T+ Sbjct: 120 VTSPRHVCEKVYHVELADPVPEETIQTFLEGVQLRGEKDITRPAKLEILSEREAILTI-- 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EGK ++K++F +V L R G L Sbjct: 178 TEGKYHQVKRMFAAVGNRVVGLHREQVGAVVL 209 >gi|330817442|ref|YP_004361147.1| Pseudouridine synthase, Rsu [Burkholderia gladioli BSR3] gi|327369835|gb|AEA61191.1| Pseudouridine synthase, Rsu [Burkholderia gladioli BSR3] Length = 736 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 70/247 (28%), Positives = 108/247 (43%), Gaps = 28/247 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V +IE+D Sbjct: 489 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPEQNIEIDQRAQAAQAAQV 548 Query: 75 LWLYHKPIGLVTTHSDP---------------DGRSTVFDNLPSIFSRVISVGRLDINTE 119 L HKP+G V+ ++ G + P + GRLDI++ Sbjct: 549 TILLHKPVGYVSGQAEDGYEPAVTLITRENHWSGDHSALRFSPQHLRTLAPAGRLDIDST 608 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQ---VDQ----DKLNLLKKGIVIQGI 170 GLL+LT DG +A+ L + + Y RVRF + +DQ + L L+ G+ + G Sbjct: 609 GLLVLTQDGRIAKQLIGEQSDIDKEYLVRVRFGERLTDIDQHFPAESLAKLRHGLELDGA 668 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V+ Q G LREGK R+I+++ E +V L R+ G LG L Sbjct: 669 PLKPAMVSW--QNGEQLRFV--LREGKKRQIRRMCELVGLEVIGLKRVRMGHVMLGALPQ 724 Query: 231 GSTREVS 237 G R +S Sbjct: 725 GEWRYLS 731 >gi|238026899|ref|YP_002911130.1| Pseudouridine synthase, Rsu [Burkholderia glumae BGR1] gi|237876093|gb|ACR28426.1| Pseudouridine synthase, Rsu [Burkholderia glumae BGR1] Length = 543 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 110/245 (44%), Gaps = 30/245 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G ++ V IE+D + Sbjct: 296 RLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPDQKIEIDDQAIAAQAAQV 355 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD---------------NLPSIFSRVIS-VGRLDINT 118 L HKP+G V+ ++ DG L + R ++ GRLDI++ Sbjct: 356 TILLHKPVGYVSGQAE-DGYEPAVTLITRENHWSGDRSALRLSPLHLRTLAPAGRLDIDS 414 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHGQ---VDQ----DKLNLLKKGIVIQG 169 GLL+LT DG +A+ L + + Y RVRF VDQ + L L+ G+ + G Sbjct: 415 TGLLVLTQDGRIAKQLIGEQSDIDKEYLVRVRFGEHVIDVDQHFPAESLAKLRHGLELDG 474 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ ++ + LREGK R+I+++ E +V L R+ G LG L Sbjct: 475 VPLKPAMVSWQ----NSEQLRFVLREGKKRQIRRMCELVGLEVVGLKRVRMGRVMLGALP 530 Query: 230 AGSTR 234 G R Sbjct: 531 QGQWR 535 >gi|56752508|ref|YP_173209.1| pseudouridine synthase [Synechococcus elongatus PCC 6301] gi|81300323|ref|YP_400531.1| pseudouridine synthase, Rsu [Synechococcus elongatus PCC 7942] gi|56687467|dbj|BAD80689.1| probable pseudouridine synthase [Synechococcus elongatus PCC 6301] gi|81169204|gb|ABB57544.1| Pseudouridine synthase, Rsu [Synechococcus elongatus PCC 7942] Length = 199 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 55/188 (29%), Positives = 89/188 (47%), Gaps = 28/188 (14%) Query: 74 RLWLYHKPIGLVTTHSDPD--GRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L+HKP ++ S D + T+ D ++P ++ VGRLD ++EGLLLLTN+G Sbjct: 4 RYLLFHKPYDVLCQFSPSDRPDQQTLKDYIDVPEVYP----VGRLDRDSEGLLLLTNNGA 59 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQK----- 183 L L P R Y V+ + + L L++G+ IQ +V LD + Sbjct: 60 LQHRLCHPRFGHDRTYWVQVEREPTEAALQALRQGVQIQDYRTRPAKVQRLDDPQIPERD 119 Query: 184 --------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQLGTLL 229 AW+ + L+EG+NR+++++ RLIR + P QL L Sbjct: 120 PPIRFRKTVPTAWLALTLQEGRNRQVRRMTAAVGHPTLRLIRAAIATHPDQPPLQLQGLA 179 Query: 230 AGSTREVS 237 G+ R+++ Sbjct: 180 PGTWRDLT 187 >gi|126735443|ref|ZP_01751189.1| Pseudouridine synthase, Rsu [Roseobacter sp. CCS2] gi|126715998|gb|EBA12863.1| Pseudouridine synthase, Rsu [Roseobacter sp. CCS2] Length = 180 Score = 66.2 bits (160), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 46/178 (25%), Positives = 90/178 (50%), Gaps = 23/178 (12%) Query: 74 RLWLYHKPIGLVTTHSD---PDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 R+ L++KP G+++ +D P R T+ F ++P ++ GRLD ++EGLL+LT+DG Sbjct: 3 RVILFNKPFGVLSQFTDAKSPTPRPTLSAFIDVPGVYP----AGRLDRDSEGLLVLTDDG 58 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-------------VIQGICYGDM 175 L + P + + Y V+ G+ + L+LL+ G+ +I D Sbjct: 59 KLQARIAAPKNKMSKTYFVQVEGEPTEKDLSLLRDGVTLKDGPTRPAKLRLIDPPQLWDR 118 Query: 176 QVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + +K + W+ + + EG+NR+++++ + RL+R G + L + +G+ Sbjct: 119 DPPVRFRKSVPDTWIEITISEGRNRQVRRMTAHIGFPTLRLVRWRIGNWTLDGIESGT 176 >gi|84516902|ref|ZP_01004260.1| RNA pseudouridine synthase family protein [Loktanella vestfoldensis SKA53] gi|84509370|gb|EAQ05829.1| RNA pseudouridine synthase family protein [Loktanella vestfoldensis SKA53] Length = 183 Score = 66.2 bits (160), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 47/182 (25%), Positives = 84/182 (46%), Gaps = 23/182 (12%) Query: 73 TRLWLYHKPIGLVTTHSD---PDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTND 127 +R+ L +KP G+++ +D P R T+ F +P ++ GRLD ++EGLL+LT+D Sbjct: 2 SRILLLNKPYGVLSQFTDARSPSPRPTLSGFVTVPGVYP----AGRLDRDSEGLLVLTDD 57 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--- 184 G L + P + + Y V+ G L LL+ G+ + QV Sbjct: 58 GALQARIADPRHKLPKTYLVQVEGAPTDADLALLRHGVTLNDGPTRPAQVQRIAPPALWE 117 Query: 185 -----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + W+ + + EG+NR+++++ + RL+R G + L L G+ Sbjct: 118 RDPPVRFRKSVPDQWIEITIHEGRNRQVRRMTAHIGFPTLRLVRWQIGDWTLDGLAPGAW 177 Query: 234 RE 235 R+ Sbjct: 178 RD 179 >gi|226952690|ref|ZP_03823154.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter sp. ATCC 27244] gi|226836558|gb|EEH68941.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter sp. ATCC 27244] Length = 238 Score = 66.2 bits (160), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 62/222 (27%), Positives = 100/222 (45%), Gaps = 13/222 (5%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + K++ G SR+ +++I V ++ + N + D +V G + E Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGAVSIDSQTCDHPKQNFSTEDLSFQVFGEQYQYREHIY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 + L HKP G +H RS VF LP I V VGRLD +T GLLLLT+DG + Sbjct: 63 IVL-HKPQGYECSHQATHHRS-VFSLLPEILIHRGVQCVGRLDQDTTGLLLLTDDGQYLQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWV 189 L P +VY V V ++ L+ G+ + +GI Y + L +++ + Sbjct: 121 ALTHPKKHVPKVYCVSTADPVTTEQKQQLELGVELRNEKGI-YAATDIKLISER----QL 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + +G ++K++ KV RL R G +L L G Sbjct: 176 EMTIHQGVYHQVKRMIAAVGNKVERLHRQQIGLLELPNLEEG 217 >gi|127511748|ref|YP_001092945.1| pseudouridine synthase [Shewanella loihica PV-4] gi|126637043|gb|ABO22686.1| pseudouridine synthase [Shewanella loihica PV-4] Length = 182 Score = 66.2 bits (160), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 44/165 (26%), Positives = 83/165 (50%), Gaps = 25/165 (15%) Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 R + L + + ++++GRLD ++EGLLLLT DG + + S + + Y ++ G++ Sbjct: 19 RKPLLGELANFPTGIMAIGRLDHDSEGLLLLTTDGKTSHAVRSKSIE--KEYYLQLDGEI 76 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTL---------------------DTQKGSNAWVTVG 192 + ++ L +G+ I GI G+ TL D + G +W+ + Sbjct: 77 TEQAISSLCEGVEI-GI-KGEKYRTLPCRARRLDQAPDLPPRGRKIRDARHGPTSWLAIT 134 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EGKNR+++K+ + RL+R+ G +LGTL G + ++ Sbjct: 135 ITEGKNRQLRKMTAAVGFATLRLVRVRIGDIRLGTLQPGEVKSLA 179 >gi|304387106|ref|ZP_07369355.1| ribosomal large subunit pseudouridine synthase E [Neisseria meningitidis ATCC 13091] gi|304338806|gb|EFM04911.1| ribosomal large subunit pseudouridine synthase E [Neisseria meningitidis ATCC 13091] Length = 186 Score = 65.9 bits (159), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 44/170 (25%), Positives = 80/170 (47%), Gaps = 23/170 (13%) Query: 78 YHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 ++KP G++ S + ++ F N P + GRLD ++EGLLLLT+DG L + Sbjct: 7 FNKPYGVICQFSPHEKHKSLKDFINFPGFYP----AGRLDTDSEGLLLLTDDGRLQAQIT 62 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA-------- 187 P + + Y + G D+ +L L+KGI + G + + +++ Sbjct: 63 DPKFKHPKTYWAQLEGVPDESRLESLRKGIDLGGFVTRPASIRILKHGEADSLWERIPPI 122 Query: 188 ---------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RLIR++ G +L L Sbjct: 123 RVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLIRVASGRLKLFDL 172 >gi|307153241|ref|YP_003888625.1| pseudouridine synthase [Cyanothece sp. PCC 7822] gi|306983469|gb|ADN15350.1| pseudouridine synthase [Cyanothece sp. PCC 7822] Length = 203 Score = 65.9 bits (159), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 57/196 (29%), Positives = 95/196 (48%), Gaps = 43/196 (21%) Query: 77 LYHKPIGLVTTHSDPDG----RSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L++KP ++ +D G R T+ F ++P ++S VGRLD+++EGLLLLT++G L Sbjct: 6 LFYKPYNVLCQFTDNSGDKTNRQTLKDFIDIPHVYS----VGRLDLDSEGLLLLTDNGPL 61 Query: 131 A-----RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKG 184 R P T W++V + D+ LN L++G+ I+ V L T+ Sbjct: 62 QHRLGHRQFAHPRTYWVQVENI-----PDEAALNRLREGVKIEDYWTRKASVIKLPTEPV 116 Query: 185 --------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQ 224 W+ + L EG+NR+++++ + RL+R++ G FQ Sbjct: 117 LPPRNPPIRYRKSIPTCWLEITLTEGRNRQVRRMTAAVGYPTLRLVRVAMGIGKGKNEFQ 176 Query: 225 LGT--LLAGSTREVSK 238 LG L G REV++ Sbjct: 177 LGLEGLEPGQWREVTE 192 >gi|270159867|ref|ZP_06188523.1| ribosomal large subunit pseudouridine synthase E [Legionella longbeachae D-4968] gi|289165378|ref|YP_003455516.1| 23S rRNA pseudouridine synthase [Legionella longbeachae NSW150] gi|269988206|gb|EEZ94461.1| ribosomal large subunit pseudouridine synthase E [Legionella longbeachae D-4968] gi|288858551|emb|CBJ12432.1| 23S rRNA pseudouridine synthase [Legionella longbeachae NSW150] Length = 183 Score = 65.9 bits (159), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 48/171 (28%), Positives = 81/171 (47%), Gaps = 20/171 (11%) Query: 77 LYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L++KP G+V+ S + T+ F ++P+ ++ GRLD N+EGLLLLT+ G L L Sbjct: 6 LFNKPYGVVSQFSGEEHEHTLAAFIDIPNFYA----AGRLDKNSEGLLLLTDSGALQHRL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------- 184 P + Y V+ G L++L+ G+V++ I + L + Sbjct: 62 TAPKFNKRKYYWVQVEGTPCNQDLDILRNGLVLKDISFLPAGARLIDEPHLWPRNPPIRF 121 Query: 185 ----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +W+ + L EGKN +I+K+ + RL+R ++L L G Sbjct: 122 RKNIPTSWLEIILSEGKNHQIRKMTAAIGFPTLRLVRHRISDWRLDNLQPG 172 >gi|121594837|ref|YP_986733.1| ribosomal large subunit pseudouridine synthase E [Acidovorax sp. JS42] gi|120606917|gb|ABM42657.1| ribosomal large subunit pseudouridine synthase E [Acidovorax sp. JS42] Length = 216 Score = 65.9 bits (159), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 46/179 (25%), Positives = 86/179 (48%), Gaps = 25/179 (13%) Query: 78 YHKPIGLVTTHSDPDGRS---TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++KP G+++ + P+GR F ++P ++ GRLD ++EGLLLLT+DG L + Sbjct: 33 FNKPYGVLSQFT-PEGRWRGLQDFIDVPGVYV----AGRLDADSEGLLLLTDDGALQARI 87 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----------------QGICYGDMQVT 178 P + + Y V+ G D+ L L+ G+ + + D + Sbjct: 88 SDPRHKMEKTYWVQVEGIPDEAALQALRHGVQLGDGPTLPARVRRLEPPPALWERDPPIR 147 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + Q + W+ + +REG+NR+++++ RL+R + GP+ L L G + + Sbjct: 148 V-RQNIPDCWIELIIREGRNRQVRRMTAAVGHPTLRLVRAAIGPYALDGLEPGCWQPAT 205 >gi|94495563|ref|ZP_01302143.1| Pseudouridine synthase, Rsu [Sphingomonas sp. SKA58] gi|94424951|gb|EAT09972.1| Pseudouridine synthase, Rsu [Sphingomonas sp. SKA58] Length = 182 Score = 65.9 bits (159), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 50/181 (27%), Positives = 87/181 (48%), Gaps = 19/181 (10%) Query: 74 RLWLYHKPIGLVTTHSDPD---GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 RL L++KP +++ +D R T+ D + RV GRLD ++EGLLLLT+DG L Sbjct: 3 RLILFNKPYDVLSQFTDSSIGADRRTLSDFI--DVPRVYPAGRLDRDSEGLLLLTDDGRL 60 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT-------- 181 + P + + Y V+ G V D L L+ G+ ++ G +D Sbjct: 61 QARISNPRFKTPKTYLVQVEGDVTSDALACLRAGVSLKDGPTLPAEAERIDPPALWPRDP 120 Query: 182 -----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + W+++ +REG+NR+++++ RL+R G + L + G+ R+ Sbjct: 121 PVRFRKTVPDCWISLTIREGRNRQVRRMTAAVGHPTLRLVRWRIGDWTLDGVAPGTWRDA 180 Query: 237 S 237 S Sbjct: 181 S 181 >gi|91784123|ref|YP_559329.1| pseudouridine synthase, Rsu [Burkholderia xenovorans LB400] gi|91688077|gb|ABE31277.1| Pseudouridine synthase, Rsu [Burkholderia xenovorans LB400] Length = 649 Score = 65.9 bits (159), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 68/245 (27%), Positives = 111/245 (45%), Gaps = 36/245 (14%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ G+ SRRE + I + V V+G ++ V IE+D P +A + Sbjct: 402 RLSKLMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPDQRIEID--PAAEAAQAS 459 Query: 75 --LWLYHKPIGLVTTHSDPDG-----------------RSTVFDNLPSIFSRVISVGRLD 115 L HK +G V+ ++ DG RS + ++ + ++ GRLD Sbjct: 460 QVTVLIHKTVGFVSGQAE-DGYQPAITLVTPENRWEGDRSNIRFSV-AHLRQLAPAGRLD 517 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIV 166 I++ GLL+LT DG +A+ L ++ + Y VR + L LL+ G+ Sbjct: 518 IDSTGLLVLTQDGRIAKRLVGGHSEIDKEYLVRVAFGEHTTDVESHFPPESLALLRHGLS 577 Query: 167 IQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 + + QV+ Q G LREGK R+I+++ E +V L R+ G LG Sbjct: 578 LDDVPLKPAQVSW--QNGEQLRFV--LREGKKRQIRRMCELVGLEVIGLKRVRMGHVMLG 633 Query: 227 TLLAG 231 L G Sbjct: 634 ALPPG 638 >gi|71908867|ref|YP_286454.1| ribosomal large subunit pseudouridine synthase E [Dechloromonas aromatica RCB] gi|71848488|gb|AAZ47984.1| ribosomal large subunit pseudouridine synthase E [Dechloromonas aromatica RCB] Length = 191 Score = 65.9 bits (159), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 46/175 (26%), Positives = 83/175 (47%), Gaps = 17/175 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 ++KP G+++ + P+G+ + ++ V GRLD ++EGLL+LT+DG L + Sbjct: 6 FFNKPYGVLSQFT-PEGKWRALNEFITV-KDVYVAGRLDADSEGLLILTDDGKLQAKIAD 63 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-DTQKG----------- 184 P + + Y + G D+ L+ L+ GI + +V L D G Sbjct: 64 PRHKLEKTYWAQVEGVPDEAALDRLRAGIELSDFTAKPAKVRLIDEPAGLWQRDPPIRFR 123 Query: 185 ---SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 +W+ + + EGKNR+++++ + RLIR + G L L G R++ Sbjct: 124 AAIPTSWLEIRISEGKNRQVRRMTAAIGYPTLRLIRAAIGAATLDGLALGQWRKI 178 >gi|126737772|ref|ZP_01753502.1| RNA pseudouridylate synthase [Roseobacter sp. SK209-2-6] gi|126721165|gb|EBA17869.1| RNA pseudouridylate synthase [Roseobacter sp. SK209-2-6] Length = 231 Score = 65.9 bits (159), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 48/180 (26%), Positives = 85/180 (47%), Gaps = 25/180 (13%) Query: 74 RLWLYHKPIGLVTTHSD----PDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTND 127 RL ++KP ++ +D R T+ D + P ++ GRLD ++EGL+LLT+ Sbjct: 3 RLIRFNKPYDVLPQFTDRGSQESSRKTLSDFIDCPGVYP----AGRLDRDSEGLMLLTDF 58 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---------------GICY 172 G L + PS + + Y V+ GQ D+ L L KG+ ++ + + Sbjct: 59 GRLQAWISDPSHKMAKTYWVQVEGQPDRAGLEALSKGVELKDGLTLPASAHLMEEPAMLW 118 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+++ ++EGKNR+++++ RLIR S G + L L GS Sbjct: 119 ARTPPIRERKNIPTSWISLTIKEGKNRQVRRMTAAIGHPTLRLIRYSIGTWTLEGLSQGS 178 >gi|194289795|ref|YP_002005702.1| 16S rRNA uridine-516 pseudouridylate synthase [Cupriavidus taiwanensis LMG 19424] gi|193223630|emb|CAQ69637.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Cupriavidus taiwanensis LMG 19424] Length = 607 Score = 65.9 bits (159), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 70/258 (27%), Positives = 118/258 (45%), Gaps = 52/258 (20%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA---- 70 R+SK ++ G+ SRRE + I + V V+G + + IE+ L++A Sbjct: 356 RLSKRMSELGLCSRREADEWIPRGWVLVDGKPVTELGSRIRPDAEIEI----LQEARSEQ 411 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--------------------RVI 109 ER + L +KP+G V+ ++ DG ++ ++F+ + Sbjct: 412 GERVTV-LLNKPVGYVSGQAE-DG----YEPAAALFAPENQWEGDPTRKRFAPWQRKNLA 465 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF-----HGQVDQ--------D 156 GRLDI++ GLL+LT DG +AR L + + Y VR HG V++ D Sbjct: 466 PAGRLDIDSTGLLVLTQDGRVARALIGEDSTVEKEYLVRVVWHSPHGPVERNISAEFPAD 525 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 L LL+ G+ + G+ +V+ ++ + LREG+ R+I+++ E +V L Sbjct: 526 DLELLRHGLSLDGVPLKPAKVSWQNEE----QLRFVLREGRKRQIRRMCEQVGLQVVGLK 581 Query: 217 RISYGPFQLGTLLAGSTR 234 R+ G LG L G R Sbjct: 582 RVRMGRVVLGDLPPGKWR 599 >gi|260549355|ref|ZP_05823574.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter sp. RUH2624] gi|260407464|gb|EEX00938.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter sp. RUH2624] Length = 234 Score = 65.9 bits (159), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 62/233 (26%), Positives = 106/233 (45%), Gaps = 14/233 (6%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--GVPLRKAERT 73 + K++ G SR+ +++I V + G ++ S +++E G R E+ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVSIEGEIVTDLKKQ-FSPENLEFSLFGETYRYREKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 L L KP G +H +P +VF LP I + V ++GRLD +T GLLLLT+DG Sbjct: 62 YLAL-KKPQGFECSH-NPQHHQSVFSLLPEIMIQRGVQAIGRLDQDTTGLLLLTDDGKYL 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + L P +VY V V +++ +L +G+ + D+ D + +T+ Sbjct: 120 QALTHPRKHVPKVYHVTTIDSVTPEQIEMLTQGVNLHQ--EKDVFAATDVALLGSHQLTM 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + +G ++K++ KV +L R Q+G L+ E L EQ Sbjct: 178 TIHQGVYHQVKRMIAAVGNKVEKLHR-----HQIGQLVLPEIEEGDWVYLSEQ 225 >gi|224826005|ref|ZP_03699108.1| pseudouridine synthase [Lutiella nitroferrum 2002] gi|224601642|gb|EEG07822.1| pseudouridine synthase [Lutiella nitroferrum 2002] Length = 236 Score = 65.9 bits (159), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 64/234 (27%), Positives = 112/234 (47%), Gaps = 9/234 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLE--RAAVNVMSTDHIEVDGVPLRKAER 72 + +++ + G SR+E +++ V+++G +++ R ++ + D + +DG P Sbjct: 2 ELYRLMQQQGFGSRKECRKLVEHGLVELDGAVVDDYRLEIDPAAIDELVIDGEPWEILML 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L HKP G T+H P +VF LP FS+ + +VGRLD++T GLLLLT DG Sbjct: 62 PLYILLHKPAGYETSHK-PMHNPSVFTLLPWQFSQLGIAAVGRLDVDTTGLLLLTTDGQF 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-TQKGSNAWV 189 L P + Y V V + + LK G+ ++ + +V D + + Sbjct: 121 VHALTSPKKHVPKCYEVTLKHPVSEALVKHLKAGVFLKD---DNEKVVADQVEVVDEITI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + +GK ++K++ +V L R++ G QLG L G R + L E Sbjct: 178 RMTITQGKYHQVKRMIAAAGNRVQELHRVALGTLQLGELDEGEWRHLDAAELAE 231 >gi|325204300|gb|ADY99753.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis M01-240355] Length = 230 Score = 65.9 bits (159), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 55/226 (24%), Positives = 102/226 (45%), Gaps = 16/226 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLER--AAVNVMSTDHIEVDGVPLRKAER 72 ++ K + GI SR++ + +I V +NG ++ A ++ S + +++DG + Sbjct: 2 KLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSSVETLDIDGEAVTVVPE 61 Query: 73 TRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDGG 129 + + +KP T+H P +VF P + +VGRLD +T G+LL+TNDG Sbjct: 62 PYFYIMLNKPEDYETSHK-PKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGS 185 L L PS + ++Y V + LK G+++ + +C D + T Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLKNPTT--- 177 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V L R + + L G Sbjct: 178 ---LLLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPG 220 >gi|308125708|ref|ZP_07663491.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus K5030] gi|308114211|gb|EFO51751.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus K5030] Length = 163 Score = 65.9 bits (159), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 43/136 (31%), Positives = 67/136 (49%), Gaps = 9/136 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K I+ G SRR +++I + RV +NG E V+ D + VDG P+ E+ Sbjct: 7 KRLNKFISETGFCSRRAADKLIEEGRVTINGKQPE-MGTKVLPGDDVCVDGKPVASKEKP 65 Query: 74 RLWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+ TT D G F R+ +GRLD ++GL+ LTNDG + Sbjct: 66 IYIALNKPTGITCTTERDIPGNIVDFIGHKK---RIFPIGRLDKPSDGLIFLTNDGDIV- 121 Query: 133 VLELPSTQWLRVYRVR 148 S +W ++R Sbjct: 122 ---TDSARWYNHEKIR 134 >gi|191637730|ref|YP_001986896.1| Pseudouridine synthase [Lactobacillus casei BL23] gi|190712032|emb|CAQ66038.1| Pseudouridine synthase [Lactobacillus casei BL23] gi|327381795|gb|AEA53271.1| Ribosomal small subunit pseudouridine synthase A [Lactobacillus casei LC2W] gi|327384957|gb|AEA56431.1| Ribosomal small subunit pseudouridine synthase A [Lactobacillus casei BD-II] Length = 236 Score = 65.9 bits (159), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 74/236 (31%), Positives = 111/236 (47%), Gaps = 26/236 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-----DGVPLRK 69 R+ K ++ SR+EV+ +I +RV+V G L+ NV+ +EV DG PL Sbjct: 2 RLDKYLSHLQFGSRKEVKALIRDKRVRVAGDLITDPGYNVLPGIAVEVNDAQADG-PLEV 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLL 123 +L +KP G++T DP +STV D + P ++ VGRLD +T GLLL Sbjct: 61 D-----YLMNKPAGVITATEDP-TQSTVLDLIRPHDYRPGLY----PVGRLDKDTTGLLL 110 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-VTLDTQ 182 LT DG L L P+ + Y + D L+ GI ++ Q V L Sbjct: 111 LTTDGNLGHALLSPNRHIAKTYAATLAKTLTADMKQQLETGIDLKDFTTAPAQVVVLPDT 170 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 G +T+ EGK ++K++ + +V L RI+ GP L L AG R ++ Sbjct: 171 DGKRIQITI--TEGKFHQVKRMLLAVDNEVTALTRIAMGPLSLPADLAAGEYRALT 224 >gi|149908051|ref|ZP_01896719.1| hypothetical ribosomal small subunit pseudouridine synthase A [Moritella sp. PE36] gi|149809057|gb|EDM68988.1| hypothetical ribosomal small subunit pseudouridine synthase A [Moritella sp. PE36] Length = 229 Score = 65.9 bits (159), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 60/221 (27%), Positives = 100/221 (45%), Gaps = 23/221 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + ++ +R + MI V VN ++ A V +HI +G L A +R Sbjct: 2 RLDKFVCKSTELTRVDATAMITGGCVSVNHDVILDVATQVHENNHISFNGEVL-TARPSR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--------SRVISVGRLDINTEGLLLLTN 126 L HKP + ++ D + PS+F S + GRLD +T GL+L+T+ Sbjct: 61 YILLHKPADTICSNID--------EAYPSLFNYIDVENASELHVAGRLDADTTGLVLVTD 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKG 184 DG + + P+ +VYRV + D + G+ +Q G+ Q+T + Sbjct: 113 DGRWSFNIITPTKHCQKVYRVGLSRPIGDDVVAKFAHGVQLQ----GEQQLTRPAILEVV 168 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 S+ V + + EGK ++K++F +V L R G QL Sbjct: 169 SSKEVLLTITEGKFHQVKRMFSAVGNRVVSLHREKIGAIQL 209 >gi|241889378|ref|ZP_04776679.1| ribosomal small subunit pseudouridine synthase A [Gemella haemolysans ATCC 10379] gi|241863921|gb|EER68302.1| ribosomal small subunit pseudouridine synthase A [Gemella haemolysans ATCC 10379] Length = 235 Score = 65.9 bits (159), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 60/219 (27%), Positives = 108/219 (49%), Gaps = 15/219 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K I+ SR E +++I ++ + +N L++ V D + +DG L + Sbjct: 2 RLDKFISTTTTLSRAEAKKVI-KKGILINDKLIKSPDYKVDEINDQVILDGKRLVYQKYV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +KP ++ D + TV D L +V VGRLD +TEGL+LLTNDG LA Sbjct: 61 YIMM-NKPQDTISATEDAIEK-TVVDILKEEDRIHKVFPVGRLDKDTEGLMLLTNDGELA 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDT---QKGSN 186 L P ++ Y V G++ ++ L +++ G+ ++ C L++ + +N Sbjct: 119 HRLISPKKDVVKKYYVEVSGELKEEHLPIIEAGVTLEDGYKCKAAKLEILESNEDESKAN 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++T EGK ++K++ + V L R+S G +L Sbjct: 179 IYIT----EGKFHQVKRMMKSLGTTVTYLKRLSIGSLKL 213 >gi|325205754|gb|ADZ01207.1| ribosomal large subunit pseudouridine synthase E [Neisseria meningitidis M04-240196] Length = 186 Score = 65.9 bits (159), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 44/170 (25%), Positives = 80/170 (47%), Gaps = 23/170 (13%) Query: 78 YHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 ++KP G++ S + ++ F N P + GRLD ++EGLLLLT+DG L + Sbjct: 7 FNKPYGVICQFSPHEKHKSLKDFINFPGFYP----AGRLDTDSEGLLLLTDDGRLQAQIT 62 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA-------- 187 P + + Y + G D+ +L L+KGI + G + + +++ Sbjct: 63 DPKFKHPKTYWAQLEGVPDESRLESLRKGIDLGGFVTRPASIRILKHGEADSLWERIPPI 122 Query: 188 ---------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RLIR++ G +L L Sbjct: 123 RVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLIRVASGRLKLFDL 172 >gi|325130337|gb|EGC53103.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis OX99.30304] Length = 230 Score = 65.9 bits (159), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 51/200 (25%), Positives = 95/200 (47%), Gaps = 16/200 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLER--AAVNVMSTDHIEVDGVPLRKAER 72 ++ K + GI SR++ + +IA V +NG ++ A ++ S + +++DG + Sbjct: 2 KLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTVVPE 61 Query: 73 TRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDGG 129 + + +KP T+H P +VF P + +VGRLD +T G+LL+TNDG Sbjct: 62 PYFYIMLNKPEDYETSHK-PKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGS 185 L L PS + ++Y V + LK G+++ + +C D + T Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLKNPTT--- 177 Query: 186 NAWVTVGLREGKNREIKKVF 205 + + + EGK ++K++ Sbjct: 178 ---LLLTITEGKYHQVKRMI 194 >gi|296136628|ref|YP_003643870.1| pseudouridine synthase [Thiomonas intermedia K12] gi|295796750|gb|ADG31540.1| pseudouridine synthase [Thiomonas intermedia K12] Length = 300 Score = 65.9 bits (159), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 71/254 (27%), Positives = 116/254 (45%), Gaps = 40/254 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+SK ++ G+ASRRE + I + V ++G +L + A N+ ++ + R+A Sbjct: 45 RLSKRMSELGLASRREADDWIERGWVLLDGTPAVLGTKVAGNLPASRIVIRKAAQHRQAA 104 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVF----------DNLPSIFS----RVISV-GRLDI 116 + + L HKP+G V+ ++ V P FS R ++V GRLDI Sbjct: 105 QVTI-LLHKPVGYVSAQAEHGYTPAVALIKAENRWAECEAPQPFSPAHLRHLAVAGRLDI 163 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF---------------HGQVDQDKLNLL 161 ++ GLL+LT DG +AR L + + Y VR + +L LL Sbjct: 164 DSTGLLVLTQDGRIARQLIGEDSAVEKEYLVRVSLTDAPARNGAEEDVQAAFPESRLALL 223 Query: 162 KKGIVIQGICYGDMQVT-LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 + G+ + QV ++ Q+ + LREGK R+I+++ E +V L R+ Sbjct: 224 RHGLKLDDQPLRPAQVEWINPQQ-----LRFVLREGKKRQIRRMCELVGLRVTGLKRVRI 278 Query: 221 GPFQLGTLLAGSTR 234 G +LG L G R Sbjct: 279 GGLRLGALPLGQWR 292 >gi|88809022|ref|ZP_01124531.1| Pseudouridine synthase, Rsu [Synechococcus sp. WH 7805] gi|88786964|gb|EAR18122.1| Pseudouridine synthase, Rsu [Synechococcus sp. WH 7805] Length = 171 Score = 65.9 bits (159), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 52/167 (31%), Positives = 77/167 (46%), Gaps = 30/167 (17%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 + + GRLD ++EGLL+LT +G L + L P R Y V+ G V+ +L L++G+VI Sbjct: 1 MYAAGRLDADSEGLLILTENGRLQQRLTDPRFGHWRTYWVQVEGLVEDSQLTALEQGVVI 60 Query: 168 QGICYGDMQVT-LDTQKGSN----------------AWVTVGLREGKNREIKKVFEFFNW 210 +G Q T LD + +W+++ LREG+NR+I+++ Sbjct: 61 KGQSTRPAQATFLDASHWRDLPERTPPIRVRRSIPTSWLSISLREGRNRQIRRMTAAVGL 120 Query: 211 KVNRLIRISYG------PFQLGTLLAGSTREVS-------KKILREQ 244 RLIR S P L L G R V K +LR Q Sbjct: 121 PTLRLIRRSIDLMDSEPPLSLEGLAPGQWRPVKPAEQERLKALLRNQ 167 >gi|187736067|ref|YP_001878179.1| pseudouridine synthase [Akkermansia muciniphila ATCC BAA-835] gi|187426119|gb|ACD05398.1| pseudouridine synthase [Akkermansia muciniphila ATCC BAA-835] Length = 188 Score = 65.9 bits (159), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 55/188 (29%), Positives = 89/188 (47%), Gaps = 22/188 (11%) Query: 78 YHKPIGLVT--THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 ++KP G+++ T P R+ P V VGRLD ++EGLLLL+++ GLA L Sbjct: 5 FNKPYGILSQFTKEAPHHRTLAEFGFPP---GVYPVGRLDADSEGLLLLSDEKGLADRLL 61 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLK-KGIVIQGICYGDMQVTLDTQKG---------- 184 PS + R Y + G + L L+ G+ I+G C + L ++ Sbjct: 62 NPSGRHPRTYWSQVEGTPSETDLRPLELGGLRIRGHCTLPCRARLMRREPDVPPRIPPVR 121 Query: 185 -----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +W+ + L EGKNR+++++ + RL+R G F L L G+ +E+ + Sbjct: 122 YRASIPTSWLELTLVEGKNRQVRRMTAAIGFPTLRLLRARIGNFSLAGLKPGAWKELDSR 181 Query: 240 ILREQLGP 247 R QL P Sbjct: 182 E-RRQLMP 188 >gi|157376397|ref|YP_001474997.1| putative ribosomal small subunit pseudouridine synthase A [Shewanella sediminis HAW-EB3] gi|157318771|gb|ABV37869.1| conserved hypothetical ribosomal small subunit pseudouridine synthase A [Shewanella sediminis HAW-EB3] Length = 232 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 54/211 (25%), Positives = 96/211 (45%), Gaps = 3/211 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + ++ +R E +I V VNG + A+ V + I +DG L +R Sbjct: 2 RLDKFLCKSTELTRIEATALIVAGEVLVNGQTVTSASTQVHENNRITLDGQVL-TPRASR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + HKP+ ++++ D D S + + GRLD +T GL+L+T+DG + + Sbjct: 61 YIMMHKPLDTLSSNVDGDYPSVMNCLDVDKVCDLHIAGRLDADTTGLVLVTDDGRWSFNI 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VYRV ++ D G+ +QG + L+ + +T+ Sbjct: 121 INPKYHCEKVYRVSLRDPINDDVAGKFACGVQLQGEASLTLPAKLEVVSPTEVLLTI--T 178 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EG+ ++K++F +VN L R G +L Sbjct: 179 EGRYHQVKRMFAAVGNRVNGLHRQQVGDIKL 209 >gi|217974985|ref|YP_002359736.1| pseudouridine synthase [Shewanella baltica OS223] gi|217500120|gb|ACK48313.1| pseudouridine synthase [Shewanella baltica OS223] Length = 233 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 64/218 (29%), Positives = 98/218 (44%), Gaps = 13/218 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + ++ R I V VNG + A+ V + + ++ PL +R Sbjct: 2 RLDKFLCKSTDLDRDAASVAIINGSVTVNGAIATDCAMQVHENNAVCLNEKPLMP-RPSR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ HKP T S+ DG +L I F I VGRLD++T GL+LLT+DG + Sbjct: 61 YFMLHKPAD--TLCSNVDGAYPSLFHLLDIERAFDLHI-VGRLDVDTTGLVLLTDDGRWS 117 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQD----KLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 + P Q +VYRV +D + G+ +QG + TL Q+ + Sbjct: 118 FNIISPQYQCKKVYRVTLRDPLDSEATAAIAATFAAGLQLQGETALTLPATL--QQVDDK 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + L EGK ++K++F KV L R G F L Sbjct: 176 TVLLTLTEGKFHQVKRMFAAVGNKVVALHRAQIGAFIL 213 >gi|226330601|ref|ZP_03806119.1| hypothetical protein PROPEN_04519 [Proteus penneri ATCC 35198] gi|225201396|gb|EEG83750.1| hypothetical protein PROPEN_04519 [Proteus penneri ATCC 35198] Length = 244 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 52/226 (23%), Positives = 104/226 (46%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR + R + V ++G +++ + + + DG L + R Sbjct: 12 RLDKFLSQQLGISRSLILRELRAGLVTIDGEMVKSGSTKIAPEQEVAYDGKVLTQILGPR 71 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KPIG V + DP + ++ + ++ + GRLDI+T GL+LLT++G + + Sbjct: 72 YFMLNKPIGYVCSTDDPVNPTILYFIDEPLAHKLHAAGRLDIDTTGLVLLTDNGQWSHRI 131 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + + +KG+ + G D+ + + V + + Sbjct: 132 TAPKHHCEKTYLVTLEEPIGEGVAEQFQKGVQLNG--EKDLTKPAKLEILTPTEVKLTIS 189 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EGK ++K++F V+ L R G L TL G R ++++ Sbjct: 190 EGKYHQVKRMFAAVGNHVSALHRERIGDITLDETLAEGEYRPLTEE 235 >gi|326796385|ref|YP_004314205.1| pseudouridine synthase Rsu [Marinomonas mediterranea MMB-1] gi|326547149|gb|ADZ92369.1| pseudouridine synthase Rsu [Marinomonas mediterranea MMB-1] Length = 228 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 57/224 (25%), Positives = 104/224 (46%), Gaps = 11/224 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-VPLRKAERT 73 R+ +A SR+E +R IA+ +++VNG ++ + +V +E G V L + E+ Sbjct: 2 RLDYFLAHTTSWSRKEAKRFIAKGKIRVNGDVVTKPNASVTEDCKVESHGEVILWRKEK- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP V+ D + S V +L P + VGRLD +T GL+ LT DG Sbjct: 61 -YFALYKPADYVSALEDSE--SPVLIDLIEPEERKNLKIVGRLDKDTTGLIFLTTDGQWL 117 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKGSNAWVT 190 + P + YRV + + L+ G+++ G D+ + ++ S+ + Sbjct: 118 HRITSPKHDCYKTYRVYCADPISEANCKSLETGVMLNG---EDLPTSPAKVERVSDTEIL 174 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + ++EGK ++K++ +V +L R + L L G R Sbjct: 175 LSIKEGKYHQVKRMLAAVGNRVEKLHREAISDVNLDGLQEGQYR 218 >gi|167622752|ref|YP_001673046.1| pseudouridine synthase [Shewanella halifaxensis HAW-EB4] gi|167352774|gb|ABZ75387.1| pseudouridine synthase [Shewanella halifaxensis HAW-EB4] Length = 203 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 52/185 (28%), Positives = 88/185 (47%), Gaps = 28/185 (15%) Query: 76 WLYHKPIGLVTTHSDPDGRST--VFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G ++ P+ R + + L + +++GRLD ++EGLLLLT DG + + Sbjct: 15 FLIYKPYGFLSQFV-PETRKSKPLLGQLYEFPEKTMAIGRLDHDSEGLLLLTTDGMQSHL 73 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------------- 179 + S + Y V+ G+V Q +L L++G+ I GI G +TL Sbjct: 74 IR--SKTIEKEYYVQVDGEVSQAQLAKLRQGVEI-GIS-GGKYLTLPCKVELLIHEPNLP 129 Query: 180 -------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 D + G W++V + EGKNR+++K+ RL+R+ G L + G Sbjct: 130 ARGKKIRDPRHGPTNWLSVTIDEGKNRQVRKMTAAVGLPTLRLVRVRIGAIHLKQMQPGE 189 Query: 233 TREVS 237 V+ Sbjct: 190 VIPVT 194 >gi|116494395|ref|YP_806129.1| 16S rRNA uridine-516 pseudouridylate synthase related pseudouridylate synthase [Lactobacillus casei ATCC 334] gi|239631097|ref|ZP_04674128.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus paracasei subsp. paracasei 8700:2] gi|301065904|ref|YP_003787927.1| 16S rRNA uridine-516 pseudouridylate synthase-like pseudouridylate synthase [Lactobacillus casei str. Zhang] gi|116104545|gb|ABJ69687.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus casei ATCC 334] gi|239525562|gb|EEQ64563.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus paracasei subsp. paracasei 8700:2] gi|300438311|gb|ADK18077.1| 16S rRNA uridine-516 pseudouridylate synthase related pseudouridylate synthase [Lactobacillus casei str. Zhang] Length = 236 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 74/236 (31%), Positives = 111/236 (47%), Gaps = 26/236 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-----DGVPLRK 69 R+ K ++ SR+EV+ +I +RV+V G L+ NV+ +EV DG PL Sbjct: 2 RLDKYLSHLQFGSRKEVKALIRDKRVRVAGDLITDPGYNVLPGIAVEVNDAQADG-PLEV 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLL 123 +L +KP G++T DP +STV D + P ++ VGRLD +T GLLL Sbjct: 61 D-----YLMNKPAGVITATEDP-TQSTVLDLIRPHDYRPGLY----PVGRLDKDTTGLLL 110 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-VTLDTQ 182 LT DG L L P+ + Y + D L+ GI ++ Q V L Sbjct: 111 LTTDGNLGHALLSPNRHIAKTYAATLAKTLTADMKQRLETGIDLKDFTTAPAQVVVLPDT 170 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 G +T+ EGK ++K++ + +V L RI+ GP L L AG R ++ Sbjct: 171 DGKRIQITI--TEGKFHQVKRMLLAVDNEVTALTRIAMGPLSLPADLAAGEYRALT 224 >gi|163731747|ref|ZP_02139194.1| RNA pseudouridylate synthase [Roseobacter litoralis Och 149] gi|161395201|gb|EDQ19523.1| RNA pseudouridylate synthase [Roseobacter litoralis Och 149] Length = 187 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 43/183 (23%), Positives = 87/183 (47%), Gaps = 25/183 (13%) Query: 73 TRLWLYHKPIGLVTTHSD------PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 R+ L++KP G+++ +D P + + + P + GRLD ++EGL++LT+ Sbjct: 2 ARVILFNKPYGVLSQFTDKGSEGSPRPTLSAYIDQPGFYP----AGRLDRDSEGLMVLTD 57 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS- 185 DG L + P + + Y V+ G + +L +L+ G+ ++ + TL + Sbjct: 58 DGKLQARISNPKHKMAKTYLVQVEGTPEPQQLEVLRAGVRLKDGMTKPAKATLACPPENL 117 Query: 186 --------------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 ++W+ + + EG+NR+++++ RLIR+ G + L L+ G Sbjct: 118 WERTPPVRYRKTVPDSWLQISISEGRNRQVRRMTAHVGLPCLRLIRMRVGDWALNDLVPG 177 Query: 232 STR 234 + R Sbjct: 178 AWR 180 >gi|304387404|ref|ZP_07369595.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis ATCC 13091] gi|304338497|gb|EFM04616.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis ATCC 13091] Length = 230 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 54/226 (23%), Positives = 102/226 (45%), Gaps = 16/226 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLER--AAVNVMSTDHIEVDGVPLRKAER 72 ++ K + GI SR++ + +I V +NG ++ A ++ S + +++DG + Sbjct: 2 KLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSSVETLDIDGEAVTVVPE 61 Query: 73 TRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDGG 129 + + +KP T+H P ++F P + +VGRLD +T G+LL+TNDG Sbjct: 62 PYFYIMLNKPEDYETSHK-PKHYRSIFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGS 185 L L PS + ++Y V + LK G+++ + +C D + T Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLENPTT--- 177 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V L R + + L G Sbjct: 178 ---LLLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPG 220 >gi|294340758|emb|CAZ89150.1| putative ribosomal large subunit pseudouridine synthase [Thiomonas sp. 3As] Length = 300 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 71/254 (27%), Positives = 116/254 (45%), Gaps = 40/254 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+SK ++ G+ASRRE + I + V ++G +L + A N+ ++ + R+A Sbjct: 45 RLSKRMSELGLASRREADDWIERGWVLLDGTPAVLGTKVAGNLPASRIVIRKAAQHRQAA 104 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVF----------DNLPSIFS----RVISV-GRLDI 116 + + L HKP+G V+ ++ V P FS R ++V GRLDI Sbjct: 105 QVTI-LLHKPVGYVSAQAEHGYTPAVALIKAENRWAECEAPQPFSPAHLRHLAVAGRLDI 163 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF---------------HGQVDQDKLNLL 161 ++ GLL+LT DG +AR L + + Y VR + +L LL Sbjct: 164 DSTGLLVLTQDGRIARQLIGEDSAVEKEYLVRVSLTDAPARNGAEEDVQAAFTESRLALL 223 Query: 162 KKGIVIQGICYGDMQVT-LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 + G+ + QV ++ Q+ + LREGK R+I+++ E +V L R+ Sbjct: 224 RHGLKLDDQPLRPAQVEWINPQQ-----LRFVLREGKKRQIRRMCELVGLRVTGLKRVRI 278 Query: 221 GPFQLGTLLAGSTR 234 G +LG L G R Sbjct: 279 GGLRLGALPLGQWR 292 >gi|229062234|ref|ZP_04199556.1| RNA pseudouridine synthase [Bacillus cereus AH603] gi|228717062|gb|EEL68741.1| RNA pseudouridine synthase [Bacillus cereus AH603] Length = 203 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 55/193 (28%), Positives = 97/193 (50%), Gaps = 12/193 (6%) Query: 58 DHIEVDGVPLRKAERTRLWL-YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLD 115 D + ++G + K E+ ++++ +HKP+G+ T +D + + + N P R+ VGRLD Sbjct: 18 DIVTINGQVIEKEEKEKVYIAFHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLD 74 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 +EGL+LLTNDG +A + + + Y V ++ + G+ I+ Sbjct: 75 KASEGLILLTNDGTIANQILHGDHEHEKEYVVTVDKPFTDWFIDEMSGGVKIKDGMTKPC 134 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 +VT Q + V L +G NR+I+++ F + V +L R+ +L L AG R+ Sbjct: 135 KVTRIDQ----STFRVVLTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEAGKWRD 190 Query: 236 VSKK---ILREQL 245 ++ K IL QL Sbjct: 191 ITPKELEILTGQL 203 >gi|325128404|gb|EGC51287.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis N1568] Length = 230 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 55/226 (24%), Positives = 102/226 (45%), Gaps = 16/226 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLER--AAVNVMSTDHIEVDGVPLRKAER 72 ++ K + GI SR++ + +I V +NG ++ A ++ S + +++DG + Sbjct: 2 KLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSSVETLDLDGEAVTVVPE 61 Query: 73 TRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDGG 129 + L +KP T+H P ++F P + +VGRLD +T G+LL+TNDG Sbjct: 62 PYFYILLNKPEDYETSHK-PKHYRSIFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGS 185 L L PS + ++Y V + LK G+++ + +C D + T Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLENPTT--- 177 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V L R + + L G Sbjct: 178 ---LLLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPG 220 >gi|300704912|ref|YP_003746515.1| 16S rRNA pseudouridylate 516 synthase [Ralstonia solanacearum CFBP2957] gi|299072576|emb|CBJ43926.1| 16S rRNA pseudouridylate 516 synthase [Ralstonia solanacearum CFBP2957] Length = 252 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 62/220 (28%), Positives = 96/220 (43%), Gaps = 15/220 (6%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTRLW 76 +++ G +RR + ++ V VNGI E V + + +VDG R A R + Sbjct: 12 RILQSQGFGTRRYCKDLVLAGLVHVNGIEAENPDAQVDTAGLVLDVDGE--RWAYHARAY 69 Query: 77 LY-HKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARV 133 L HKP G + P +V+ LP V VGRLD +T GLLLLT+DG Sbjct: 70 LMLHKPAGFECSQK-PRHHPSVYTLLPVPLRERGVQCVGRLDQDTTGLLLLTDDGQFVHT 128 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---TQKGSNAWVT 190 L P Q +VY + V +L L +G+++ D T+ ++ + Sbjct: 129 LTSPRHQVPKVYEITTADPVTDAQLAQLCQGVLLD-----DEDATVAAAWAERVDTCHLR 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + L +GK ++K++ V L R + G L LA Sbjct: 184 MALTQGKYHQVKRMVAAAGNHVTALHRSAIGALTLDAGLA 223 >gi|90409123|ref|ZP_01217244.1| hypothetical ribosomal small subunit pseudouridine synthase A [Psychromonas sp. CNPT3] gi|90309774|gb|EAS37938.1| hypothetical ribosomal small subunit pseudouridine synthase A [Psychromonas sp. CNPT3] Length = 230 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 57/228 (25%), Positives = 102/228 (44%), Gaps = 27/228 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAER 72 R+ K I + +R + +++I+Q R+ + ++ A I DG + +R Sbjct: 2 RLDKTICESTTLTRSQAKKVISQGRITCDDKIIRSCAFKPRKDAVIVFDGKTIAIRGP-- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--------ISVGRLDINTEGLLLL 124 R + +KP + ++ D + LPS+F+ V GRLD +T GL L+ Sbjct: 60 -RYMMLNKPENFICSNVD--------EQLPSLFNLVDVDKKELLFIAGRLDADTTGLTLI 110 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T+DG + + P + ++ YRV + +D + L K GI ++ + Q L + Sbjct: 111 TDDGKWSHKITSPRNKCIKRYRVGLDAPICEDAVALFKAGIQLK----SENQPCLPAELN 166 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 S+ V + + EGK ++K++F V L R G +L LA Sbjct: 167 ILSSTEVILSISEGKYHQVKRMFGAIGNVVIELHREKIGDIELDNTLA 214 >gi|91784984|ref|YP_560190.1| pseudouridine synthase, Rsu [Burkholderia xenovorans LB400] gi|91688938|gb|ABE32138.1| Pseudouridine synthase, Rsu [Burkholderia xenovorans LB400] Length = 189 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 48/173 (27%), Positives = 83/173 (47%), Gaps = 23/173 (13%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL- 130 RL +KP G + S + R+++ D +P+++ GRLD ++EGLLLLT+DG L Sbjct: 2 RLLALNKPFGTICQFSPHETRASLADWVKVPNVYP----AGRLDSDSEGLLLLTDDGALQ 57 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDT----- 181 AR+ E P + ++ Y + G VD L L +G+ + C + DT Sbjct: 58 ARIAE-PRHKLVKRYWAQVEGAVDAATLRKLARGVDLGDYVTRPCRAEYVEPTDTLWSRT 116 Query: 182 ------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R+ G + +L Sbjct: 117 PPIRYRAAIPTTWIELSITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDVFSL 169 >gi|254181510|ref|ZP_04888107.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1655] gi|184212048|gb|EDU09091.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1655] Length = 192 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 52/191 (27%), Positives = 88/191 (46%), Gaps = 25/191 (13%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL +KP G + S + R+++ D P ++ GRLD ++EGLLLLT+DG L Sbjct: 2 RLIALNKPFGTICQFSVHETRASLGDWVKTPGVYP----AGRLDADSEGLLLLTDDGALQ 57 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS------ 185 + P + ++ Y + G D L L++G+ + + T G+ Sbjct: 58 AKIAEPRHKLVKRYWAQVEGAPDAAALAALERGVDLGDYVSRPCRARFITPPGALWPRNP 117 Query: 186 ---------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP---FQLGTLLAGST 233 AW+ + + EGKNR+++++ + RL+R+ G F LG L G T Sbjct: 118 PIRHRAAIPTAWIELEIAEGKNRQVRRMTAAVGFPTLRLVRVGIGALDVFALG-LAPGET 176 Query: 234 REVSKKILREQ 244 RE+ + E+ Sbjct: 177 RELPPRAPWER 187 >gi|295677452|ref|YP_003605976.1| pseudouridine synthase [Burkholderia sp. CCGE1002] gi|295437295|gb|ADG16465.1| pseudouridine synthase [Burkholderia sp. CCGE1002] Length = 189 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 46/173 (26%), Positives = 81/173 (46%), Gaps = 23/173 (13%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL- 130 RL ++KP G + S + R+++ D +P ++ GRLD ++EGLLLLT+DG L Sbjct: 2 RLLAFNKPFGTICQFSPHETRASLADWVKVPGVYP----AGRLDSDSEGLLLLTDDGALQ 57 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS----- 185 AR+ E P + ++ Y + G +D L L +G+ + Q S Sbjct: 58 ARIAE-PRHKLVKRYWAQVEGALDDAALKKLARGVDLGDFVTRPCQANYVEPSSSLWTRT 116 Query: 186 ----------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R+ G + +L Sbjct: 117 PPIRYRAAIPTTWIELSITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFSL 169 >gi|73662319|ref|YP_301100.1| RNA pseudouridine synthase [Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305] gi|72494834|dbj|BAE18155.1| RNA pseudouridine synthase [Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305] Length = 232 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 63/239 (26%), Positives = 114/239 (47%), Gaps = 30/239 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGIL-----------LERAAVNVMSTDHIEVD 63 R+ K ++ G+ +R EV++ + +++V ++ + LE VN D + Sbjct: 2 RLDKFLSNMGVGTRTEVKQRLKKKQVTIDDKVETSPKKQINPELEIVKVNDQKIDFVN-- 59 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLL 122 + L L +KP ++ +D + TV D + + + VGRLD +TEGLL Sbjct: 60 --------KVYLML-NKPKDYISATTD-EQHKTVLDLIEDYRYLDLFPVGRLDKDTEGLL 109 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT 181 L+TNDG L P + Y V + ++ +N K GI + +G+ V D Sbjct: 110 LITNDGQFNHELMSPGKHVAKTYEVISQKNITKNDINAFKVGIELNEGLAKPAKLVQGD- 168 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 + + ++VT+ EG+ ++K++F + +V L RI G QL TL +G R ++++ Sbjct: 169 -ELNKSFVTI--YEGRYHQVKRMFHAIDNEVLALKRIRIGDLQLDSTLASGEYRHLTQQ 224 >gi|296157175|ref|ZP_06840011.1| pseudouridine synthase [Burkholderia sp. Ch1-1] gi|295892511|gb|EFG72293.1| pseudouridine synthase [Burkholderia sp. Ch1-1] Length = 189 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 48/173 (27%), Positives = 83/173 (47%), Gaps = 23/173 (13%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL- 130 RL +KP G + S + R+++ D +P+++ GRLD ++EGLLLLT+DG L Sbjct: 2 RLLALNKPFGTICQFSPHETRASLADWVKVPNVYP----AGRLDSDSEGLLLLTDDGALQ 57 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDT----- 181 AR+ E P + ++ Y + G VD L L +G+ + C + DT Sbjct: 58 ARIAE-PRHKLVKRYWAQVEGAVDAATLKKLARGVDLGDYVTRPCRAEYVEPTDTLWVRT 116 Query: 182 ------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R+ G + +L Sbjct: 117 PPIRYRAAIPTTWIELSITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDVFSL 169 >gi|261211757|ref|ZP_05926044.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. RC341] gi|260839107|gb|EEX65739.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. RC341] Length = 231 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 60/222 (27%), Positives = 103/222 (46%), Gaps = 17/222 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 R+ K + A +R+E +++ V V+ ++ + A + T +E ++ E T Sbjct: 2 RLDKFLCDALGTTRKESTQLLKSGEVTVDDVVQKSGAFKLKETSRVE-----WQEREITL 56 Query: 74 ---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 R + HKP G+V +H D + T F L + + GRLD++T GLLL+T+DG Sbjct: 57 HGPRYIMMHKPDGVVCSHEDGFNQ-TAFTLLDEVNIEDLHFAGRLDVDTTGLLLITDDGQ 115 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNA 187 + + P + + YRV + D + +GI ++ G+ ++TL Q S Sbjct: 116 WSHRVTSPKHKCEKTYRVWLADPIQADYADQFTQGIELR----GERELTLPAQLEVVSET 171 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V + + EGK ++K++F KV L R G L L Sbjct: 172 EVLLTIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDEAL 213 >gi|87201125|ref|YP_498382.1| ribosomal large subunit pseudouridine synthase E [Novosphingobium aromaticivorans DSM 12444] gi|87136806|gb|ABD27548.1| ribosomal large subunit pseudouridine synthase E [Novosphingobium aromaticivorans DSM 12444] Length = 182 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 48/180 (26%), Positives = 84/180 (46%), Gaps = 23/180 (12%) Query: 77 LYHKPIGLVTTHSDP---DGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L++KP G++ +D R T+ D++ P ++ GRLD ++EGLLLLT+DG L Sbjct: 5 LFNKPYGVLCQFTDERTGPPRPTLADHIHRPGVYP----AGRLDHDSEGLLLLTDDGRLQ 60 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------- 184 + P + + Y + G D+ L L+KG+ ++ + L Sbjct: 61 ARIADPRHKMPKTYLAQVEGVPDEAALASLRKGVRLKDGMTLPAEAALIEDPALWPRDPP 120 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++W+ + +REG+NR+++++ RL+R G + L L G REV Sbjct: 121 IRVRKTVPDSWLRLTIREGRNRQVRRMTAAVGHPTLRLVRWQVGDWSLDGLRPGEWREVE 180 >gi|313668119|ref|YP_004048403.1| pseudouridine synthase, Rsu [Neisseria lactamica ST-640] gi|313005581|emb|CBN87017.1| putative pseudouridine synthase, Rsu [Neisseria lactamica 020-06] Length = 186 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 46/173 (26%), Positives = 81/173 (46%), Gaps = 23/173 (13%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +++KP G++ S + ++ F NLP + GRLD ++EGLLLLT+DG L Sbjct: 4 LIIFNKPYGVICQFSPHEKHKSLKDFINLPGFYP----AGRLDTDSEGLLLLTDDGRLQA 59 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA----- 187 + P + + Y + G D+ +L L+KGI + V + +N Sbjct: 60 QITDPKFKHPKTYWAQLEGVPDETRLESLRKGIDLGDFVTRPASVRVLEHGETNPLWERI 119 Query: 188 ------------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R++ G +L L Sbjct: 120 PPIRVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLVRVASGRLKLFDL 172 >gi|71279927|ref|YP_269599.1| ribosomal large subunit pseudouridine synthase E [Colwellia psychrerythraea 34H] gi|71145667|gb|AAZ26140.1| ribosomal large subunit pseudouridine synthase E [Colwellia psychrerythraea 34H] Length = 201 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 44/174 (25%), Positives = 82/174 (47%), Gaps = 20/174 (11%) Query: 77 LYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L++KP ++ +D + R T+ F +P I++ GRLD ++EGLLLLTNDG L + Sbjct: 29 LFNKPFDVLCQFTDENNRRTLKDFITIPGIYA----AGRLDRDSEGLLLLTNDGKLQHQI 84 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------- 184 P + + Y V+ G + L L++G+ ++ +V + + Sbjct: 85 ANPVKKTEKTYWVQIEGAPSEQDLAKLRQGVELKDGMTKPAKVAIMLEPNVWPRNPPIRE 144 Query: 185 ----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 W+ + + EG+NR+++++ + RLIR G + L + G + Sbjct: 145 RASIPTTWLEITITEGRNRQVRRMTANIGFPTLRLIRYRIGNWTLDNINNGEYK 198 >gi|56808585|ref|ZP_00366316.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Streptococcus pyogenes M49 591] Length = 141 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 42/131 (32%), Positives = 67/131 (51%), Gaps = 8/131 (6%) Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---- 169 +D +T G+L+LTNDG + P + +VY R G ++ L L +GIVI G Sbjct: 1 MDWDTSGVLILTNDGDFTDTMIHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTK 60 Query: 170 -ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 Y ++V D + + V + + EG+N ++KK+FE V++L R +G L L Sbjct: 61 PARYNIVRVEADKNR---SIVELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGL 117 Query: 229 LAGSTREVSKK 239 G R ++KK Sbjct: 118 RPGEARRLNKK 128 >gi|307730777|ref|YP_003908001.1| pseudouridine synthase [Burkholderia sp. CCGE1003] gi|307585312|gb|ADN58710.1| pseudouridine synthase [Burkholderia sp. CCGE1003] Length = 189 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 50/176 (28%), Positives = 83/176 (47%), Gaps = 26/176 (14%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL- 130 RL +KP G + S + R+++ D ++P ++ GRLD ++EGLLLLT+DG L Sbjct: 2 RLLALNKPFGTICQFSAHETRASLADWVSVPGVYP----AGRLDSDSEGLLLLTDDGALQ 57 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLD------ 180 AR+ E P + ++ Y + G VD L L +G+ + C D D Sbjct: 58 ARIAE-PRHKLVKRYWAQVEGAVDAAALKKLARGVDLGDYVTKPCRADYVDPADRLWPRT 116 Query: 181 -----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP---FQLGTL 228 W+ + + EGKNR+++++ + RL+R+ G F LG + Sbjct: 117 PPIRYRAAIPTTWIELSIAEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFALGLM 172 >gi|83746231|ref|ZP_00943285.1| Ribosomal small subunit pseudouridine synthase A [Ralstonia solanacearum UW551] gi|207744140|ref|YP_002260532.1| ribosomal small subunit pseudouridine synthase a protein [Ralstonia solanacearum IPO1609] gi|83727197|gb|EAP74321.1| Ribosomal small subunit pseudouridine synthase A [Ralstonia solanacearum UW551] gi|206595544|emb|CAQ62471.1| ribosomal small subunit pseudouridine synthase a protein [Ralstonia solanacearum IPO1609] Length = 278 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 63/224 (28%), Positives = 95/224 (42%), Gaps = 23/224 (10%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTRLW 76 +++ G +RR + ++A V VNGI E V + + +VDG R L Sbjct: 38 RILQSQGFGTRRYCKDLVAAGLVHVNGIEAEDPDAQVDTAGLVLDVDGERWAYHARAYLM 97 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVL 134 LY KP G + P +V+ LP V VGRLD +T GLLLLT+DG L Sbjct: 98 LY-KPAGFECSQK-PRHHPSVYTLLPVPLRERGVQCVGRLDQDTTGLLLLTDDGQFVHTL 155 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT---- 190 P Q +VY + V ++ L +G+++ D T+ + AW Sbjct: 156 TSPRHQVPKVYEITTADPVTDAQVAQLCRGVLLD-----DEDATV-----AAAWAERVDT 205 Query: 191 ----VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + L +GK ++K++ V L R + G L LA Sbjct: 206 CDLRMALTQGKYHQVKRMVAAAGNHVTALHRSAIGALTLDAGLA 249 >gi|303286517|ref|XP_003062548.1| predicted protein [Micromonas pusilla CCMP1545] gi|226456065|gb|EEH53367.1| predicted protein [Micromonas pusilla CCMP1545] Length = 230 Score = 65.1 bits (157), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 59/201 (29%), Positives = 96/201 (47%), Gaps = 15/201 (7%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVT 86 SRR +R++A V VNG ++ A+ V D +E+ G +R E Y KP G VT Sbjct: 11 SRRNADRLVASGAVTVNGAVVAAGAM-VFPGDVVELRGERVR-WETLNYVKYWKPRG-VT 67 Query: 87 THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 +D R+ + D + +R+ VGRLD ++ GL+LLT+DG L + + Y Sbjct: 68 CTTDARDRTNIVDAVNYPDARLFPVGRLDKDSTGLILLTSDGRLPNAALRSGRKRDKKYL 127 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGD----------MQVTLDTQKGSNAWVTVGLREG 196 V V + + +L+ G+VI D + +D +T LREG Sbjct: 128 VVVDAVVRPEDVRMLRDGVVISTPVQRDRVDRVLTARTLPCEIDVVGARTLEIT--LREG 185 Query: 197 KNREIKKVFEFFNWKVNRLIR 217 +NR+I+++ + ++V L R Sbjct: 186 RNRQIRRMLDAVGYRVINLHR 206 >gi|83720677|ref|YP_441314.1| pseudouridine synthase family protein [Burkholderia thailandensis E264] gi|167580097|ref|ZP_02372971.1| pseudouridine synthase family protein [Burkholderia thailandensis TXDOH] gi|167618162|ref|ZP_02386793.1| pseudouridine synthase family protein [Burkholderia thailandensis Bt4] gi|257140011|ref|ZP_05588273.1| pseudouridine synthase family protein [Burkholderia thailandensis E264] gi|83654502|gb|ABC38565.1| pseudouridine synthase family protein [Burkholderia thailandensis E264] Length = 192 Score = 65.1 bits (157), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 53/191 (27%), Positives = 86/191 (45%), Gaps = 25/191 (13%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL +KP G + S + R+++ D P ++ GRLD ++EGLLLLT+DG L Sbjct: 2 RLIALNKPFGTICQFSPHEARASLGDWVKTPGVYP----AGRLDADSEGLLLLTDDGALQ 57 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDT------ 181 + P + ++ Y + G D L L++G+ + C DT Sbjct: 58 AKIAEPRHKLVKRYWAQVEGAPDAAALAALERGVDLGDYVSRPCRARFVTPPDTLWPRTP 117 Query: 182 -----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP---FQLGTLLAGST 233 W+ + + EGKNR+++++ + RLIR+ G F LG L G T Sbjct: 118 PIRYRAAIPTTWIELEIAEGKNRQVRRMTAAIGFPTLRLIRVGIGALDVFALG-LAPGET 176 Query: 234 REVSKKILREQ 244 RE+ + E+ Sbjct: 177 RELPPRAPWER 187 >gi|296314071|ref|ZP_06864012.1| ribosomal large subunit pseudouridine synthase E [Neisseria polysaccharea ATCC 43768] gi|296839324|gb|EFH23262.1| ribosomal large subunit pseudouridine synthase E [Neisseria polysaccharea ATCC 43768] Length = 186 Score = 65.1 bits (157), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 46/173 (26%), Positives = 82/173 (47%), Gaps = 23/173 (13%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +++KP G++ S + ++ F NLP + GRLD ++EGLLLLT+DG L Sbjct: 4 LIIFNKPYGVICQFSPHEKHKSLKDFINLPGFYP----AGRLDTDSEGLLLLTDDGRLQA 59 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA----- 187 + P + + Y + G D+ +L L+KGI + V L +++ Sbjct: 60 QITDPKFKHPKTYWAQLEGVPDETRLESLRKGIDLGDFVTRPASVRLLEHGEADSLWERI 119 Query: 188 ------------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R++ G +L L Sbjct: 120 PPIRVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLVRVASGRLKLFDL 172 >gi|293363560|ref|ZP_06610316.1| pseudouridylate synthase [Mycoplasma alligatoris A21JP2] gi|292552909|gb|EFF41663.1| pseudouridylate synthase [Mycoplasma alligatoris A21JP2] Length = 230 Score = 65.1 bits (157), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 55/234 (23%), Positives = 110/234 (47%), Gaps = 22/234 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++ K I+ +R ++++++ +++V +N L+ ++N + + +D + E Sbjct: 2 KLEKFISNVTDLTRSQIKKLLKEKKVFINDNLVTSDSIN-FKVEKLVIDQIAYNTDEYVY 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--------ISVGRLDINTEGLLLLTN 126 + L +KP +T+H D + PS+F+ V I+ GRLD++TEGLLL+++ Sbjct: 61 IML-NKPQNYITSHKD--------ELYPSLFNLVSDAKRKNLIAYGRLDVDTEGLLLISD 111 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 D + L P + Y V ++ + + G +I D + S+ Sbjct: 112 DTESSHKLLSPKHHVEKKYYVEVDKKIPTSLVEIFLNGFIIDK---NDKVLPSKLLIISD 168 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + ++EGK ++K++F+ V L RI + +L TL G R ++KK Sbjct: 169 NKCYLTIKEGKFHQVKRMFKTHYLNVTFLKRIEFNNLKLDETLKPGQWRYLTKK 222 >gi|291456799|ref|ZP_06596189.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium breve DSM 20213] gi|291382076|gb|EFE89594.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium breve DSM 20213] Length = 141 Score = 65.1 bits (157), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 43/137 (31%), Positives = 72/137 (52%), Gaps = 9/137 (6%) Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 +GRLD ++EGL+L+TNDG L++ + P + + Y G++ + + +V G+ Sbjct: 1 MGRLDYDSEGLILMTNDGELSQHVMHPKYEVEKTYIATLEGRIS----GTVCRRLVTTGV 56 Query: 171 CYGDMQVTLDTQKGSNA-----WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 D + LD ++ V V L GKNR ++++F + V RL+R GP +L Sbjct: 57 QLDDGWIKLDHCAIIDSSRDFTMVKVVLHSGKNRIVRRIFGSIGFPVKRLVRTQIGPIKL 116 Query: 226 GTLLAGSTREVSKKILR 242 G L GS R +S+ +R Sbjct: 117 GELKPGSYRVLSQAEVR 133 >gi|296273554|ref|YP_003656185.1| pseudouridine synthase [Arcobacter nitrofigilis DSM 7299] gi|296097728|gb|ADG93678.1| pseudouridine synthase [Arcobacter nitrofigilis DSM 7299] Length = 187 Score = 65.1 bits (157), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 54/161 (33%), Positives = 81/161 (50%), Gaps = 13/161 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + +KP G + T +D GR TV+D LP + + +GRLD+ ++GLLL T +G + Sbjct: 11 LLVLNKPKGYLVTRTDDLGRKTVYDLLPDWAFHEGWMPIGRLDLESKGLLLFTTNGKIGD 70 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 +L P ++VY V G V + + KG+ I G+ +V G+ + V Sbjct: 71 ILTKPGNC-IKVYEVWVRGFVTDEHIIQASKGVESIYGLL--KAKVVKVGIGGAKTKLLV 127 Query: 192 GLREGKNREIKKVFEFFN-------WKVNRLIRISYGPFQL 225 L EGKNR I+++F KV L RIS G F+L Sbjct: 128 ELEEGKNRHIRRLFGALKDPKFGTPLKVLTLNRISIGNFKL 168 >gi|259419278|ref|ZP_05743195.1| ribosomal large subunit pseudouridine synthase E [Silicibacter sp. TrichCH4B] gi|259345500|gb|EEW57354.1| ribosomal large subunit pseudouridine synthase E [Silicibacter sp. TrichCH4B] Length = 227 Score = 65.1 bits (157), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 47/185 (25%), Positives = 88/185 (47%), Gaps = 25/185 (13%) Query: 73 TRLWLYHKPIGLVTTHSD----PDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTN 126 +RL ++KP ++ +D R+T+ D + P ++ GRLD ++EGL+LLT+ Sbjct: 2 SRLIRFNKPFDVLPQFTDRGSEGSPRATLSDYVDCPGVYP----AGRLDRDSEGLMLLTD 57 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-- 184 +G L + P + + Y + G D+D LNLL++G+ ++ + L + Sbjct: 58 NGRLQAWISDPKHKLEKTYWAQVEGIPDEDALNLLRQGVELKDGMTRPAKARLINEPAQL 117 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 AW+ + + EGKNR+++++ RLIR + G + L L G Sbjct: 118 WARTPPIRERKSVPTAWLELKITEGKNRQVRRMTAAVGHPTLRLIRYAIGAWTLDGLAQG 177 Query: 232 STREV 236 +++ Sbjct: 178 KWQDL 182 >gi|54302702|ref|YP_132695.1| ribosomal small subunit pseudouridine synthase A [Photobacterium profundum SS9] gi|46916126|emb|CAG22895.1| hypothetical ribosomal small subunit pseudouridine synthase A [Photobacterium profundum SS9] Length = 228 Score = 65.1 bits (157), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 57/219 (26%), Positives = 96/219 (43%), Gaps = 19/219 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I ++ +R E +I V VN + A V + + +D L A +R Sbjct: 2 RLDKFICKSTDLTRNEATLLINAGNVTVNNEVASNEATQVHENNDVLLDEKKL-IARASR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS--------VGRLDINTEGLLLLTN 126 L HKP+G + ++ D + PS+F+ + GRLD +T GL+L+T+ Sbjct: 61 YILMHKPLGTICSNID--------EVYPSLFNYIDVEKADDLHIAGRLDADTTGLVLITD 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + P+ Q + YRV + +D G+ +QG LD + Sbjct: 113 DGRWSFNIITPNKQCEKTYRVGLRNPIAEDAAEKFALGVQLQGEKQLTFPAKLDVVTSNE 172 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +T+ EGK ++K++F +V L R G +L Sbjct: 173 VLLTI--TEGKFHQVKRMFSAIGNRVVTLHREQIGNIKL 209 >gi|329118041|ref|ZP_08246754.1| ribosomal small subunit pseudouridine synthase A [Neisseria bacilliformis ATCC BAA-1200] gi|327465929|gb|EGF12201.1| ribosomal small subunit pseudouridine synthase A [Neisseria bacilliformis ATCC BAA-1200] Length = 228 Score = 65.1 bits (157), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 59/228 (25%), Positives = 101/228 (44%), Gaps = 14/228 (6%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM--STDHIEVDGVPLRKAERTRL 75 K + G+ SRR+ ER+ V+VNG + A + S + + G + Sbjct: 5 KYLQAQGVGSRRQCERLAECGGVEVNGETVSGAKTEIAPDSVRTLRIGGAAVCVVPLPYF 64 Query: 76 WL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G T+H P VF P+ + +VGRLD +T G+LL+TNDG Sbjct: 65 YIVLNKPAGYETSHK-PRDWPGVFTLFPANLRNLDMQAVGRLDADTTGVLLITNDGQFNH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA---WV 189 + P ++YR D L+ G+++ + V D + ++ + Sbjct: 124 RMTSPKHHVAKLYRATLKHAADAALCETLQNGVLLHD---DNETVAADAAELADPHTLLL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 T+G EGK ++K++ +V +L R+ +G + L G R VS Sbjct: 181 TIG--EGKYHQVKRMVAAAGNRVEKLHRLRFGSWSAEDLAVGEWRFVS 226 >gi|309378696|emb|CBX22646.1| unnamed protein product [Neisseria lactamica Y92-1009] Length = 186 Score = 65.1 bits (157), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 46/173 (26%), Positives = 81/173 (46%), Gaps = 23/173 (13%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +++KP G++ S + ++ F NLP + GRLD ++EGLLLLT+DG L Sbjct: 4 LIVFNKPYGVICQFSPHEKHKSLKDFINLPGFYP----AGRLDTDSEGLLLLTDDGRLQA 59 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA----- 187 + P + + Y + G D+ +L L+KGI + V + +N Sbjct: 60 QITDPKFKHPKTYWAQLEGVPDETRLESLRKGIDLGDFVTRPASVRVLEHGETNPLWERI 119 Query: 188 ------------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R++ G +L L Sbjct: 120 PPIRVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLVRVASGRLKLFDL 172 >gi|212696672|ref|ZP_03304800.1| hypothetical protein ANHYDRO_01213 [Anaerococcus hydrogenalis DSM 7454] gi|212676403|gb|EEB36010.1| hypothetical protein ANHYDRO_01213 [Anaerococcus hydrogenalis DSM 7454] Length = 235 Score = 65.1 bits (157), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 61/229 (26%), Positives = 113/229 (49%), Gaps = 9/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 RV K+I A + +R+ ++R + + +NG +++ ++V V + D + G + + Sbjct: 4 RVDKMIGNANLDTRKNIKRNAKKGELIINGQIVKDSSVKVDPNLDEVIYMGELVDYFDNI 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 + + +K GL+ ++ DG TV +L + + GRLD +T GLLLL+ DG Sbjct: 64 YIMM-NKREGLICQSNELDG--TVMSDLDEFYLNLDLAIAGRLDKDTTGLLLLSTDGKFI 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P++ + Y V ++D + K G+ I+ Y LD A+V V Sbjct: 121 HKVISPNSHIWKKYEVETSKKIDPSLVENFKDGVYIKEDDYYARSAKLDIIGEKKAYVYV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EGK +K++F + +V +L R++ G +L +L G RE+S++ Sbjct: 181 --TEGKFHLVKRLFSNNDNEVIKLKRLAIGDLELDQSLNPGQYRELSEE 227 >gi|217978386|ref|YP_002362533.1| pseudouridine synthase [Methylocella silvestris BL2] gi|217503762|gb|ACK51171.1| pseudouridine synthase [Methylocella silvestris BL2] Length = 255 Score = 65.1 bits (157), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 62/225 (27%), Positives = 104/225 (46%), Gaps = 14/225 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH----IEVDGVPLRKA 70 R+ +++A G +R +++ M R+K++G L A+ V +T + ++G L Sbjct: 12 RLDRLLANLGYGTRTQMQAMAHAGRIKLDGAALRDPALRVAATPEFCARLSINGEALDPP 71 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINTEGLLLLTN 126 + L +KP G+ T S + VFD LP F + +VGRLD +T GLLL+T+ Sbjct: 72 PGMVIAL-NKPRGV--TCSRKEAGPLVFDLLPPRFRLREPALSTVGRLDKDTSGLLLITD 128 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG L L P + Y + + D+ + G +++ + L + Sbjct: 129 DGALLHRLISPKHNIAKRYCAKLARPLRGDEAEIFASGEMMLDDEAKPLLPAVLRVLSPT 188 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 A V+V EG+ +I+++F V L R+S G F L LA Sbjct: 189 EAEVSV--TEGRYHQIRRMFAATGNHVLELHRMSIGDFALPLTLA 231 >gi|170693552|ref|ZP_02884711.1| pseudouridine synthase [Burkholderia graminis C4D1M] gi|170141707|gb|EDT09876.1| pseudouridine synthase [Burkholderia graminis C4D1M] Length = 189 Score = 65.1 bits (157), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 48/173 (27%), Positives = 82/173 (47%), Gaps = 23/173 (13%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL- 130 RL +KP G + S + R+++ D +P ++ GRLD ++EGLLLLT+DG L Sbjct: 2 RLIALNKPFGTICQFSAHETRASLADWVKVPGVYP----AGRLDSDSEGLLLLTDDGALQ 57 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDT----- 181 AR+ E P + ++ Y + G VD L L +G+ + C + DT Sbjct: 58 ARIAE-PRHKLVKRYWAQVEGAVDSAALKKLARGVDLGDYVTKPCRAEYVEPGDTLWTRT 116 Query: 182 ------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R+ G + +L Sbjct: 117 PPIRYRAAIPTTWIELSITEGKNRQVRRMTAAVGFPTLRLVRVGMGALDIFSL 169 >gi|307545654|ref|YP_003898133.1| pseudouridine synthase [Halomonas elongata DSM 2581] gi|307217678|emb|CBV42948.1| pseudouridine synthase [Halomonas elongata DSM 2581] Length = 343 Score = 65.1 bits (157), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 34/98 (34%), Positives = 60/98 (61%), Gaps = 6/98 (6%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +RL+L+HKP ++ +D +GR+T+ +++ P I+ GRLD ++EGLLLL++DG L Sbjct: 2 SRLYLFHKPYRTLSQFTDSEGRATLAEHIDVPGIYP----AGRLDHDSEGLLLLSDDGEL 57 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + P + + Y V+ GQ + D L L+ G+ ++ Sbjct: 58 IHRISHPKHKQPKTYWVQVEGQPNDDALAALRDGVELK 95 >gi|187925144|ref|YP_001896786.1| pseudouridine synthase [Burkholderia phytofirmans PsJN] gi|187716338|gb|ACD17562.1| pseudouridine synthase [Burkholderia phytofirmans PsJN] Length = 189 Score = 65.1 bits (157), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 52/182 (28%), Positives = 86/182 (47%), Gaps = 27/182 (14%) Query: 79 HKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLE 135 +KP G + S + R+++ D +P ++ GRLD ++EGLLLLT+DG L AR+ E Sbjct: 7 NKPFGTICQFSPHETRASLADWVKVPDVYP----AGRLDSDSEGLLLLTDDGALQARIAE 62 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDT---------- 181 P + ++ Y + G VD L L +G+ + C + D Sbjct: 63 -PRHKLVKRYWAQVEGAVDAATLKKLARGVDLGDYVTRPCRAEYVEPTDALWTRTPPIRF 121 Query: 182 -QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP---FQLGTLLAGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G F LG L G + E+S Sbjct: 122 RAAIPTTWIELSITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFSLG-LQPGESVELS 180 Query: 238 KK 239 K Sbjct: 181 PK 182 >gi|313668437|ref|YP_004048721.1| ribosomal small subunit pseudouridine synthase [Neisseria lactamica ST-640] gi|313005899|emb|CBN87355.1| putative ribosomal small subunit pseudouridine synthase [Neisseria lactamica 020-06] Length = 230 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 54/222 (24%), Positives = 100/222 (45%), Gaps = 8/222 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLER--AAVNVMSTDHIEVDGVPLRKAER 72 ++ K + GI SR++ + +I V +NG ++ A ++ S + +++DG + Sbjct: 2 KLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSSVETLDIDGEAVTVVPE 61 Query: 73 TRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDGG 129 + L +KP T+H P +VF P + +VGRLD +T G+LL+TNDG Sbjct: 62 PYFYILLNKPEDYETSHK-PKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGH 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P+ + ++Y V + LK G+++ + D S + + Sbjct: 121 LNHKLTSPNHKIPKLYEVTLKHPAGETLCETLKNGVLLHD--ENETVYAADAVLESPSAL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + EGK ++K++ +V L R + + L G Sbjct: 179 LLTITEGKYHQVKRMVAAAGNRVQHLHRRRFAHLETENLKPG 220 >gi|258507847|ref|YP_003170598.1| pseudouridine synthase A [Lactobacillus rhamnosus GG] gi|257147774|emb|CAR86747.1| Pseudouridine synthase A [Lactobacillus rhamnosus GG] gi|259649175|dbj|BAI41337.1| pseudouridine synthase [Lactobacillus rhamnosus GG] Length = 236 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 71/237 (29%), Positives = 117/237 (49%), Gaps = 28/237 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-----DGVPLRK 69 R+ K ++ SR+EV+ +I +RV++ G L+ N++ +EV DG PL Sbjct: 2 RLDKYLSHLQFGSRKEVKALIRDKRVRIAGELVTDPGYNILPGVAVEVNDAQADG-PLEV 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLL 123 +L +KP G++T DP +STV D + P ++ VGRLD +T GLLL Sbjct: 61 D-----YLMNKPAGVITATEDP-TQSTVLDLIRPHDYRPGLY----PVGRLDKDTTGLLL 110 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDT 181 LT DG L L P+ + Y + + + + L++G+ ++ D+QV T Sbjct: 111 LTTDGNLGHTLLAPNHHVPKTYAAKLAKALTTEMKHQLEQGVALKDFTTAPADVQVVPAT 170 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 N + + + EGK +IK++ + +V L RI+ GP +L L AG R ++ Sbjct: 171 ---DNKEIHITITEGKYHQIKRMLLAVDNEVVALTRIAMGPLRLPEDLDAGEYRALT 224 >gi|17546120|ref|NP_519522.1| hypothetical protein RSc1401 [Ralstonia solanacearum GMI1000] gi|17428416|emb|CAD15103.1| hypothetical protein RSc1401 [Ralstonia solanacearum GMI1000] Length = 631 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 70/255 (27%), Positives = 115/255 (45%), Gaps = 46/255 (18%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G + V IE+ +P ++E+ Sbjct: 380 RLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVRPDAEIEI--LPAARSEQGE 437 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--------------------VISVG 112 L HKP+G V+ ++ DG ++ ++F+ + G Sbjct: 438 RVTVLLHKPVGYVSGQAE-DG----YEPAAALFTAENQWEEDPTRKHFAAWQHKGLAPAG 492 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF-----HGQVD--------QDKLN 159 RLDI++ GLL+LT DG +AR L + + Y VR G V+ +D L Sbjct: 493 RLDIDSTGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWNAPQGPVEHDISKVFPEDLLE 552 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 +L+ G+ + G +V+ ++ + LREGK R+I+++ E +V L RI Sbjct: 553 MLRHGLSLDGEALKPAKVSWQNEE----QLRFVLREGKKRQIRRMCEQVGLEVVGLKRIR 608 Query: 220 YGPFQLGTLLAGSTR 234 G LG L G R Sbjct: 609 MGSVVLGDLPVGKWR 623 >gi|255319548|ref|ZP_05360762.1| RNA pseudouridine synthase [Acinetobacter radioresistens SK82] gi|262378431|ref|ZP_06071588.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter radioresistens SH164] gi|255303488|gb|EET82691.1| RNA pseudouridine synthase [Acinetobacter radioresistens SK82] gi|262299716|gb|EEY87628.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter radioresistens SH164] Length = 235 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 57/221 (25%), Positives = 105/221 (47%), Gaps = 12/221 (5%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 + K++ G SR+ +++I + +N I + A + EV G E+ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKSGAISINHEICADTKAKFDLKNFTFEVHGEEFEYREKVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVI-SVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G +H +VFD P++ +R I VGRLD +T GLLLLT+DG + Sbjct: 63 IAL-NKPQGYECSHQ-AQYHFSVFDLFDPALLNRGIQCVGRLDQDTTGLLLLTDDGQFLQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKGSNAWVT 190 L P +VY + + +++ LL++G+ ++ GI + ++ S+ ++ Sbjct: 121 ALTHPRKHVAKVYDLITVDPITPEQIRLLEQGVELRNDGIFKAS-----NIKQTSSHQLS 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + +G ++K++ KV +L R G +L L G Sbjct: 176 LAIHQGVYHQVKRMLAAVGNKVEKLHRSKIGELELPMLAEG 216 >gi|163746241|ref|ZP_02153599.1| RNA pseudouridylate synthase [Oceanibulbus indolifex HEL-45] gi|161380126|gb|EDQ04537.1| RNA pseudouridylate synthase [Oceanibulbus indolifex HEL-45] Length = 188 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 48/181 (26%), Positives = 89/181 (49%), Gaps = 23/181 (12%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-----ISVGRLDINTEGLLLLTNDG 128 R+ L +KP G+++ +D + T + P++ + + GRLD ++EGLL+LT+ G Sbjct: 4 RVILLNKPYGVLSQFTD---KGTEGSSRPTLSTYIDEKGFYPAGRLDRDSEGLLVLTDHG 60 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKG--- 184 L + P + + Y V+ G D L L+KG+ ++ +V +D + Sbjct: 61 PLQARIAHPKYKRPKTYLVQVEGTPDAAALEALRKGVDLKDGLTKPAEVDQIDAPETLWP 120 Query: 185 -----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +AW+ + +REG+NR+++++ + RLIR S G ++L L G+ Sbjct: 121 RDPPVRFRKTVPDAWLRITIREGRNRQVRRMTAHVDLPTLRLIRASVGDWELAGLQPGAW 180 Query: 234 R 234 R Sbjct: 181 R 181 >gi|302847122|ref|XP_002955096.1| pseudouridine synthase mitochondrial precursor [Volvox carteri f. nagariensis] gi|300259624|gb|EFJ43850.1| pseudouridine synthase mitochondrial precursor [Volvox carteri f. nagariensis] Length = 564 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 69/244 (28%), Positives = 107/244 (43%), Gaps = 25/244 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILL---ERAAVNVMSTDHIEVDG-VPLRK 69 RV +++A G RRE + ++ + RV + +G L ++ + D ++D PL Sbjct: 80 RVERLLANLGYGKRRECQVLVKKGRVTRRDGGKLKVGDKVCWGDVVLDEEDLDPPSPL-- 137 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRS--TVFDNLPSIFSR----VISVGRLDINTEGLLL 123 L HKP G V T D + + V+D LP F+R + VGRLD +T GLLL Sbjct: 138 -----LLALHKPGGYVVTSPDDENITDPVVYDLLPYRFARRRPFLAPVGRLDKDTSGLLL 192 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFH-----GQVDQDKLNLLKKGIVIQGICYGDMQVT 178 LT+DG L + P +VY Q +V++G + Sbjct: 193 LTDDGALLHRINSPRRGIWKVYEATLAEPMSTNQAAAAARRFASGSLVLEGDHTPLLPAK 252 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 LD A V + EGK +++++F V L R+S G LG+L G R + Sbjct: 253 LDLIGARTARVAIC--EGKYHQVRRMFAAVGSHVVALHRVSVGGLTLGSLPEGEWRYLQP 310 Query: 239 KILR 242 + L+ Sbjct: 311 QELQ 314 >gi|71278155|ref|YP_267897.1| RNA pseudouridine synthase family protein [Colwellia psychrerythraea 34H] gi|71143895|gb|AAZ24368.1| RNA pseudouridine synthase family protein [Colwellia psychrerythraea 34H] Length = 209 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 49/174 (28%), Positives = 87/174 (50%), Gaps = 26/174 (14%) Query: 80 KPIGLVTTHSDPDGRST--VFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 KP G ++ P+ R + L + + +++GRLD ++EGLLLLT DG ++ ++ Sbjct: 26 KPYGFLSQFV-PESRKKKHLLGELFNFPDKTMAIGRLDHDSEGLLLLTTDGMMS--YKVR 82 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI---------CYG---DMQVTL------ 179 ++ Y V+ G++ D ++ L+ G+ I GI C D + L Sbjct: 83 DKSIVKEYYVQVDGEITTDAISQLQNGVEI-GINSTKYLTMPCKAFKLDCEPQLPARGRK 141 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 D + G +W+++ L EGKNR+I+K+ + RL+R+ G + L+AG Sbjct: 142 IRDPKHGPTSWISITLCEGKNRQIRKMTAAVGFATLRLVRVRIGNIGIDNLIAG 195 >gi|94500050|ref|ZP_01306585.1| ribosomal small subunit pseudouridine synthase [Oceanobacter sp. RED65] gi|94427908|gb|EAT12883.1| ribosomal small subunit pseudouridine synthase [Oceanobacter sp. RED65] Length = 236 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 65/231 (28%), Positives = 117/231 (50%), Gaps = 10/231 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A SR E + + Q+RV VNG L++ + V + D + +DG R+ E Sbjct: 2 RLDKFLANYSSLSRTEATKALKQKRVLVNGDLVKTGSHKVANDDQVWLDG---RRIEMNT 58 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-SVGRLDINTEGLLLLTNDGGLA 131 ++ +KP + ++DP + VFD + + V+ +VGRLD++T GLLL+T+DG + Sbjct: 59 AVYFMMNKPANYLCANADPQ-HALVFDLIDEASTYVLHTVGRLDLDTTGLLLITDDGQWS 117 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + YRV + D ++G++++ + L+ + +T+ Sbjct: 118 HRLTSPKHHIPKTYRVWLDEPLVADAEIQCEQGLLLRSESKPTLPAELNRITDTEVLITI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 EG+ ++K++F +V RL R GP +L LA G R ++++ L Sbjct: 178 S--EGRYHQVKRMFAAMGNRVVRLHRERIGPLELDPNLAPGEYRSLTQQEL 226 >gi|262171355|ref|ZP_06039033.1| ribosomal small subunit pseudouridine synthase A [Vibrio mimicus MB-451] gi|261892431|gb|EEY38417.1| ribosomal small subunit pseudouridine synthase A [Vibrio mimicus MB-451] Length = 231 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 57/214 (26%), Positives = 98/214 (45%), Gaps = 9/214 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +R+E +++ + V V+ ++ + A + T +E + R Sbjct: 2 RLDKFLCDALGTTRKEATQLLKRGEVTVDDVVQKSGAFKLKETSCVEWQDREI-TLHGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+V +H D + T F L + + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDGFNQ-TAFTLLDEVNIEDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + YRV + D GI ++ G+ ++TL Q S V + Sbjct: 120 VTSPKHKCEKTYRVWLAEPIQADYAEQFTNGIELR----GERELTLPAQLEIVSETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + EGK ++K++F KV L R G L Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITL 209 >gi|221133423|ref|ZP_03559728.1| pseudouridine synthase [Glaciecola sp. HTCC2999] Length = 226 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 51/219 (23%), Positives = 102/219 (46%), Gaps = 19/219 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K ++++ + + +V +IA+ + VN + + + V + + L + R Sbjct: 2 RLDKYVSKSTVLTAAQVLEVIARGEISVNDSVTDDPSYQVHKNNTVHWLDTRL-ECRPFR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--------ISVGRLDINTEGLLLLTN 126 + +KP ++ ++ D ++ PS+F+ V GRLD +T GL+L+T+ Sbjct: 61 YIMLNKPPNMICSNID--------EHYPSVFNLVDIPHQHELHIAGRLDADTTGLVLITD 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + L P +VYRV + D + L+KG+++QG + +D + Sbjct: 113 DGSWSYRLTHPDNHCPKVYRVCLAKPISDDMIMRLEKGVLLQGESAPTLPAAIDVVGANE 172 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +T+ +GK ++K++F +V L R + G L Sbjct: 173 VLLTI--TQGKFHQVKRMFAAVGNRVKALHREAIGEINL 209 >gi|160877136|ref|YP_001556452.1| pseudouridine synthase [Shewanella baltica OS195] gi|160862658|gb|ABX51192.1| pseudouridine synthase [Shewanella baltica OS195] gi|315269341|gb|ADT96194.1| pseudouridine synthase [Shewanella baltica OS678] Length = 233 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 66/219 (30%), Positives = 99/219 (45%), Gaps = 15/219 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER-T 73 R+ K + ++ R I V VNG + A+ V + + ++G PL A R + Sbjct: 2 RLDKFLCKSTDLDRDAASVAIINGSVTVNGTIATDCAMQVHENNAVCLNGKPL--APRPS 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTNDGGL 130 R ++ HKP T S+ DG +L I F I VGRLD +T GL+LLT+DG Sbjct: 60 RYFMLHKPAD--TLCSNVDGAYPSLFHLLDIEHAFDLHI-VGRLDADTTGLVLLTDDGRW 116 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQD----KLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 + + P Q +VYRV+ +D + G+ +QG + TL Q+ Sbjct: 117 SFNIISPQYQCEKVYRVQLRDPLDSEATAAIATTFAAGLQLQGETALTLPATL--QQVDE 174 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + L EGK ++K++F KV L R G L Sbjct: 175 KTVLLTLTEGKFHQVKRMFAAVGNKVIALHRAQIGAVVL 213 >gi|332185508|ref|ZP_08387256.1| hypothetical protein SUS17_591 [Sphingomonas sp. S17] gi|332014486|gb|EGI56543.1| hypothetical protein SUS17_591 [Sphingomonas sp. S17] Length = 182 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 48/182 (26%), Positives = 89/182 (48%), Gaps = 19/182 (10%) Query: 73 TRLWLYHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 RL L++KP G+++ +D P RST+ D + V GRLD ++EGLLLL +DG Sbjct: 2 ARLLLFNKPFGVLSQFTDRGSPTVRSTLSDFI--AVKGVYPAGRLDRDSEGLLLLCDDGR 59 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT------- 181 L + P + + Y V+ G + +L L++G+ ++ G+ +D Sbjct: 60 LQARIADPRFKMPKTYLVQVEGDPQEPELERLRQGVQLKDGMTLPADVARIDEPDLWLRD 119 Query: 182 ------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + W+ + +REG+NR+++++ RL+R S G + + + G + Sbjct: 120 PPIRQRKAIPDNWLKLTIREGRNRQVRRMTAAVGLPTLRLVRWSIGDWSVAGIAPGRFEQ 179 Query: 236 VS 237 +S Sbjct: 180 LS 181 >gi|149184681|ref|ZP_01862999.1| Pseudouridine synthase, Rsu [Erythrobacter sp. SD-21] gi|148832001|gb|EDL50434.1| Pseudouridine synthase, Rsu [Erythrobacter sp. SD-21] Length = 181 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 47/180 (26%), Positives = 87/180 (48%), Gaps = 18/180 (10%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 +RL L +KP G+++ + G+ V D L + V GRLD ++EGLLLLT+DG L Sbjct: 2 SRLILLNKPFGVLSQFTG--GKEGVEDTLAHLVDVPDVYPAGRLDKDSEGLLLLTDDGKL 59 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT-------- 181 + P + + Y V+ G+ D L L +G+ ++ G+ +D Sbjct: 60 QSRIAEPRYKIAKAYLVQVEGEPGDDALEKLSRGVELKDGMTRPARAKRIDPPPVWERDP 119 Query: 182 -----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + ++W+ + + EG+NR+++++ RLIR G + + + G+ R++ Sbjct: 120 PVRYRKSVPDSWIALEITEGRNRQVRRMTAAVGLPTLRLIRWRIGEWSVDGIAPGTYRKI 179 >gi|84622298|ref|YP_449670.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas oryzae pv. oryzae MAFF 311018] gi|84366238|dbj|BAE67396.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas oryzae pv. oryzae MAFF 311018] Length = 237 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 109/238 (45%), Gaps = 13/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++ K IA G SR++V ++ Q V G +L A + + D I +DG PL Sbjct: 2 KLVKHIANLGYGSRKQVTQLFRQGAVTDAQGEVL--YADDQVEHDAIRIDGEPLDPPPGF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SR---VISVGRLDINTEGLLLLTNDGG 129 L L HKP G + D GR +++ LP F SR + VGRLD T G+LL+T+DG Sbjct: 60 SLLL-HKPGGYTCSTKD-TGR-LIYELLPPRFRSRAPVLAPVGRLDRETSGMLLMTDDGA 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAW 188 L + P + +VY + ++ D+ L G ++++G + L+ A Sbjct: 117 LLHRIISPKSALDKVYDITLAEELRGDEAALFASGSLLLEGETKPLLPAELEVLGPREAR 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +T L EG+ +++++F V L R G L L +G R + L G Sbjct: 177 LT--LHEGRYHQVRRMFAAAGNHVVALHRSRIGGLSLDGLPSGQWRALEASDLEVLFG 232 >gi|254252056|ref|ZP_04945374.1| Pseudouridine synthase Rsu [Burkholderia dolosa AUO158] gi|124894665|gb|EAY68545.1| Pseudouridine synthase Rsu [Burkholderia dolosa AUO158] Length = 243 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 108/243 (44%), Gaps = 30/243 (12%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 ++ G+ SRRE + I + V V+G ++ V + IE+D L H Sbjct: 1 MSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDERAQAAQAAQVTILLH 60 Query: 80 KPIGLVTTHSDPDGR--STVF---------DNLPSIFS-----RVISVGRLDINTEGLLL 123 KP+G V+ ++ DG +TV D P FS + GRLDI++ GLL+ Sbjct: 61 KPVGYVSGQAE-DGYEPATVLITRENHWSGDRSPLRFSPQHLRTLAPAGRLDIDSTGLLV 119 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRF-HGQVDQD--------KLNLLKKGIVIQGICYGD 174 LT +G +A+ L + + Y VR +G + D L L+ G+ + G+ Sbjct: 120 LTQNGRIAKQLIGEQSDVDKEYLVRVRYGDMLTDIDRHFPAESLAKLRHGLELDGVALKP 179 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V+ Q G + LREG+ R+I+++ E V L R+ G LG L G R Sbjct: 180 AMVSW--QNGEQ--LRFVLREGRKRQIRRMCELVGLDVIGLKRVRMGRVMLGALPQGQWR 235 Query: 235 EVS 237 +S Sbjct: 236 YLS 238 >gi|330864071|emb|CBX74147.1| ribosomal large subunit pseudouridine synthase F [Yersinia enterocolitica W22703] Length = 162 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 43/121 (35%), Positives = 70/121 (57%), Gaps = 9/121 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPLRKAER 72 R++K I+ +GI SRR+ +R + Q V +NG +RAAV V D ++V+G + + Sbjct: 8 RLNKYISESGICSRRDADRYVEQGNVFING---KRAAVGDQVYVGDVVKVNGQLIEPRDE 64 Query: 73 TRLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L L +KP+G+++T D G S + + RV +GRLD +++GL+ LTN G L Sbjct: 65 SDLILIALNKPVGIISTTED--GESDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 A 131 Sbjct: 123 V 123 >gi|297537798|ref|YP_003673567.1| pseudouridine synthase [Methylotenera sp. 301] gi|297257145|gb|ADI28990.1| pseudouridine synthase [Methylotenera sp. 301] Length = 183 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 49/183 (26%), Positives = 84/183 (45%), Gaps = 27/183 (14%) Query: 77 LYHKPIGLVTTHS--DP----DGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L++KP +V S DP G T+ F +P +++ GRLD ++EGLL+LT+DG Sbjct: 4 LFNKPFNVVCQFSAHDPGNGKTGHPTLKDFIQIPDVYA----AGRLDTDSEGLLILTDDG 59 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--- 185 L L P + + Y V+ G + L L +GI + QV L + S Sbjct: 60 MLQHRLSDPKRKEFKTYWVQVEGTPSTEDLEPLIRGIDLSDFVAKPAQVRLIPEPESLWL 119 Query: 186 ------------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +W+ + + EGKNR+++++ + RLIR + G + + + G Sbjct: 120 RNPPIRERKAIPTSWLEIKISEGKNRQVRRMTAKIGFPTLRLIRYAIGQYTIDGIQNGQH 179 Query: 234 REV 236 + + Sbjct: 180 KVI 182 >gi|152995917|ref|YP_001340752.1| pseudouridine synthase [Marinomonas sp. MWYL1] gi|150836841|gb|ABR70817.1| pseudouridine synthase [Marinomonas sp. MWYL1] Length = 238 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 65/236 (27%), Positives = 107/236 (45%), Gaps = 24/236 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + ++ +R+E + I V VNG ++ A V + + ++G L K R Sbjct: 6 RLDKFVCKSTELTRKEAVQCIHSGEVCVNGEVVTSEATQVHENNTVLLNGDRL-KTRDFR 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--------SRVISVGRLDINTEGLLLLTN 126 L +KP G V ++ D + PS+F S + GRLD +T GL+L+T+ Sbjct: 65 YILMNKPAGTVCSNID--------EVYPSVFNYLDVDKASELHIAGRLDADTTGLVLITD 116 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDK----LNLLKKGIVIQGICYGDMQVTLDTQ 182 DG + + LPS +VYRV+ + ++ + K+G+ +QG LD Sbjct: 117 DGRWSFNITLPSNDCCKVYRVQLSQAIPAERSGELVTQFKQGLQLQGEQGLTRPAKLDII 176 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +T+ EGK ++K++F +V L R G L L G R +SK Sbjct: 177 TPKEVLLTI--TEGKFHQVKRMFSAVGNRVVGLHREQIGEVYLD-LDVGQWRYLSK 229 >gi|312795325|ref|YP_004028247.1| ribosomal small subunit pseudouridine synthase A [Burkholderia rhizoxinica HKI 454] gi|312167100|emb|CBW74103.1| Ribosomal small subunit pseudouridine synthase A (EC 4.2.1.70) [Burkholderia rhizoxinica HKI 454] Length = 258 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 64/231 (27%), Positives = 102/231 (44%), Gaps = 21/231 (9%) Query: 10 NFTPQRVSKVIARAGIASRREVERM-------IAQQRVKVNGILLERAAVNVMSTDHIEV 62 F + ++ G SRRE + I +QR + E A + V Sbjct: 22 EFQRMNLENILFSQGFGSRRECRALVIRGAVTIGEQRCDDPDAVFEPAGLV------FHV 75 Query: 63 DGVPLRKAERTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLP-SIFSR-VISVGRLDINTE 119 DGV R A R + +L HKP G +H+ P +V+ LP ++ +R V VGRLD +T Sbjct: 76 DGV--RWAYRHQAYLVLHKPPGYECSHA-PQHHPSVYSLLPPALITRGVQCVGRLDADTT 132 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLL++DG L P + + Y V +L+ L++G+ + G + V Sbjct: 133 GLLLLSDDGAFIHRLSSPKHKIPKTYVATTRHPVRDAQLDALRQGVQLHG--EPAVSVAR 190 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + + L EGK ++K++ +V +L R + G L LA Sbjct: 191 SARLRDEHTIELVLTEGKYHQVKRMIAAAGNRVEQLHREAIGALVLPAALA 241 >gi|227535644|ref|ZP_03965693.1| pseudouridylate synthase [Lactobacillus paracasei subsp. paracasei ATCC 25302] gi|227186774|gb|EEI66841.1| pseudouridylate synthase [Lactobacillus paracasei subsp. paracasei ATCC 25302] Length = 236 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 107/229 (46%), Gaps = 25/229 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-----DGVPLRK 69 R+ K ++ SR+EV+ +I +RV+V G L+ NV+ +EV DG PL Sbjct: 2 RLDKYLSHLQFGSRKEVKALIRDKRVRVAGDLITDPGYNVLPGIAVEVNDAQADG-PLEV 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLL 123 +L +KP G++T DP +STV D + P ++ VGRLD +T GLLL Sbjct: 61 D-----YLMNKPAGVITATEDP-TQSTVLDLIRPHDYRPGLY----PVGRLDKDTTGLLL 110 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-VTLDTQ 182 LT DG L L P+ + Y + D L+ GI ++ Q V L Sbjct: 111 LTTDGNLGHALLSPNRHIAKTYAATLAKTLTADMKQRLETGIDLKDFTTAPAQVVVLPDT 170 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 G +T+ EGK ++K++ + +V L RI+ GP L LA Sbjct: 171 DGKRIQITI--TEGKFHQVKRMLLAVDNEVTALTRIAMGPLSLPADLAA 217 >gi|268594989|ref|ZP_06129156.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae 35/02] gi|291043587|ref|ZP_06569303.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae DGI2] gi|293398899|ref|ZP_06643064.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae F62] gi|268548378|gb|EEZ43796.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae 35/02] gi|291012050|gb|EFE04039.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae DGI2] gi|291610313|gb|EFF39423.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae F62] Length = 241 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 56/229 (24%), Positives = 102/229 (44%), Gaps = 16/229 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLRK 69 T ++ K + GI SR++ + +I V +NG ++ ++ S+ + +++DG + Sbjct: 10 TIMKLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSYVETLDIDGEAVTV 69 Query: 70 AERTRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTN 126 + L +KP T+H P +VF P + +VGRLD +T G+LL+TN Sbjct: 70 VPEPYFYILLNKPEDYETSHK-PKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITN 128 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQ 182 DG L L PS + ++Y V + LK G+ + + +C D + T Sbjct: 129 DGKLNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVPLHDENETVCAADAVLENPTT 188 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V L R + + L G Sbjct: 189 ------LLLTITEGKYHQVKRMVAAAGNRVQHLHRRRFAHLETENLKPG 231 >gi|257453919|ref|ZP_05619196.1| RNA pseudouridine synthase family protein [Enhydrobacter aerosaccus SK60] gi|257448691|gb|EEV23657.1| RNA pseudouridine synthase family protein [Enhydrobacter aerosaccus SK60] Length = 234 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 51/187 (27%), Positives = 87/187 (46%), Gaps = 29/187 (15%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----RVISVGRLDINTEGLLLLTNDGGL 130 L L++KP G+++ D + F L F+ RV GRLD +EGLLLLT DG + Sbjct: 4 LILFNKPYGVLSQFRSDDNNN--FATLSDYFTDKSLRV--AGRLDATSEGLLLLTADGQV 59 Query: 131 ARVLELP-----STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-------GDMQV 177 + L P Q + Y ++ G +L L+ G+ ++ GI + Q+ Sbjct: 60 NKALTHPPKANAGKQQGKTYWIQVEGDASDAQLQQLQTGVPLKDGITLPAEVVRLSEAQI 119 Query: 178 TLDTQKGSN--------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + S+ W+ + + EGKNR+++++ RLIR++ F LG L Sbjct: 120 AEHIWQASDKIAKRKVTTWLAITIFEGKNRQVRRMAAHVGLPCLRLIRMASSGFSLGNLE 179 Query: 230 AGSTREV 236 G++ ++ Sbjct: 180 VGASTQI 186 >gi|84686403|ref|ZP_01014297.1| RNA pseudouridylate synthase [Maritimibacter alkaliphilus HTCC2654] gi|84665586|gb|EAQ12062.1| RNA pseudouridylate synthase [Rhodobacterales bacterium HTCC2654] Length = 181 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 45/180 (25%), Positives = 86/180 (47%), Gaps = 19/180 (10%) Query: 74 RLWLYHKPIGLVTTHSD---PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 RL L++KP +++ +D P R+T+ D + +V GRLD ++EGLLLLT+DG L Sbjct: 3 RLILFNKPFDVLSQFTDTKSPSPRATLSDYI--DVPKVYPAGRLDRDSEGLLLLTDDGRL 60 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------ 184 + P ++ + Y + G L+ L+KG+ ++ +V L Sbjct: 61 QARISSPKSRTPKTYLAQVEGAPTDADLDPLRKGVTLKDGLTRPAEVHLIDPPDLWERDP 120 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + W+ + + EG+NR+++++ + RL+R G + + + G+ R+ Sbjct: 121 PVRYRKSVPDRWIELTITEGRNRQVRRMTAAVGFPTLRLVRWRVGDWSVEGIAPGTWRDA 180 >gi|56807363|ref|ZP_00365352.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Streptococcus pyogenes M49 591] Length = 228 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 58/196 (29%), Positives = 95/196 (48%), Gaps = 8/196 (4%) Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLD 115 D + G PL E +L +KP G V+ D ++TV + L + V VGRLD Sbjct: 31 DLVTYQGTPLV-YESFVYYLLNKPSGYVSATQDRQ-QATVMELLDDTARQKAVFPVGRLD 88 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICY-G 173 +T GLLLLTN+G LA L P + Y + G + + + +GI ++ C Sbjct: 89 KDTRGLLLLTNNGQLAHDLLSPKKHVTKEYLAKVAGIMTEADKDYFARGISLKDHQCLPA 148 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GS 232 ++V + + V + ++EGK ++K++ +V L R+S GP +L LA G Sbjct: 149 HLEVLASDLQQQTSLVKITIQEGKFHQVKRMVAACGKEVLDLQRLSMGPLKLDPSLAEGE 208 Query: 233 TREVSKKILREQLGPH 248 R ++ + L + L P+ Sbjct: 209 FRRLTPEEL-QSLAPY 223 >gi|225023878|ref|ZP_03713070.1| hypothetical protein EIKCOROL_00744 [Eikenella corrodens ATCC 23834] gi|224943352|gb|EEG24561.1| hypothetical protein EIKCOROL_00744 [Eikenella corrodens ATCC 23834] Length = 186 Score = 64.3 bits (155), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 43/171 (25%), Positives = 81/171 (47%), Gaps = 23/171 (13%) Query: 77 LYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +++KP G++ S + ++ F LP ++ GRLD ++EGLLLLT +G L + Sbjct: 6 VFNKPYGVICQFSPHEKHRSLKEFIGLPDVYP----AGRLDTDSEGLLLLTANGRLQAKI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--------- 185 P + ++ Y + G D+ KL+LL+ G+ + Q+ L + + Sbjct: 62 ADPRHKTVKTYWAQLEGSPDEAKLDLLRHGVDLGDFVTRPAQIRLPEKSETDRLWSRVPP 121 Query: 186 --------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + W+ + + EGKNR+++++ + RL+R+ G L L Sbjct: 122 IRVRKSVPDFWLEIRISEGKNRQVRRMTAKAGYPCLRLVRVGIGRLDLWQL 172 >gi|21244403|ref|NP_643985.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas axonopodis pv. citri str. 306] gi|21110064|gb|AAM38521.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas axonopodis pv. citri str. 306] Length = 237 Score = 64.3 bits (155), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 68/238 (28%), Positives = 109/238 (45%), Gaps = 13/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++ K IA G SR++V ++ Q + G +L A + + D I +DG PL Sbjct: 2 KLVKHIANLGYGSRKQVTQLFRQGAITDAQGEVLY--ADDQVEHDAIRIDGEPLDPPAGL 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVIS-VGRLDINTEGLLLLTNDGG 129 L L HKP G + D GR +++ LP F + V++ VGRLD T GLLL+T+DG Sbjct: 60 SLLL-HKPSGYTCSTKD-TGR-LIYELLPPRFRLRAPVLAPVGRLDRETSGLLLMTDDGA 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAW 188 L + P + +VY + + D+ L G ++++G + L+ A Sbjct: 117 LLHRIISPKSALDKVYDITLAEDLRGDEAALFASGSLLLEGETKPLLPAELEVLGPRQAR 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +T L EG+ +++++F V L R G L L +G R + L G Sbjct: 177 LT--LHEGRYHQVRRMFAAAGSHVVALHRSRIGGLSLDGLPSGQWRALEASDLEVLFG 232 >gi|170725304|ref|YP_001759330.1| pseudouridine synthase [Shewanella woodyi ATCC 51908] gi|169810651|gb|ACA85235.1| pseudouridine synthase [Shewanella woodyi ATCC 51908] Length = 202 Score = 64.3 bits (155), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 49/180 (27%), Positives = 85/180 (47%), Gaps = 26/180 (14%) Query: 80 KPIGLVTTH-SDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS 138 KP G ++ + R + L +++GRLD ++EGLLLLT DG ++ ++ S Sbjct: 23 KPYGFLSQFVPETRKRKKLLAELADFPKGTMAIGRLDHDSEGLLLLTTDGMVSH--QVRS 80 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------------------- 179 + + Y V+ G + D + L+ G+ I GI GD +TL Sbjct: 81 KKVEKEYYVQLDGDITADAITQLQNGVEI-GI-KGDKYLTLPCRVFKLASEPNLPANGRK 138 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 D + G +W+++ + EGKNR+I+K+ + RL+R+ G + + AG +S Sbjct: 139 VRDLRHGPMSWISITISEGKNRQIRKMTAAAGFPTLRLVRVRIGNIDINEMQAGDVLPLS 198 >gi|172039623|ref|YP_001806124.1| pseudouridine synthase [Cyanothece sp. ATCC 51142] gi|171701077|gb|ACB54058.1| probable pseudouridine synthase [Cyanothece sp. ATCC 51142] Length = 206 Score = 64.3 bits (155), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 50/165 (30%), Positives = 79/165 (47%), Gaps = 19/165 (11%) Query: 74 RLWLYHKPIGLVTTHSD--PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R L++KP G++ +D + R T+ D +P V SVGRLD ++EGLL LTN+G L Sbjct: 7 RYLLFNKPYGVLCQFTDNTENPRPTLKDYIP--VPDVYSVGRLDRDSEGLLFLTNNGLLK 64 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------------ 179 L R Y V+ D+ LN L++G+ I+ +V L Sbjct: 65 HRLSHRQFAHPRTYLVQVERIPDETTLNQLRQGVAIKDYKTRPAKVKLLKSPPAIPPRDP 124 Query: 180 ---DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + AW+ + L EG+NR+++++ + RLIR + G Sbjct: 125 PIRYRKTVPTAWLAMTLTEGRNRQVRRMTAAVGYPTLRLIRTAIG 169 >gi|120436300|ref|YP_861986.1| pseudouridylate synthase [Gramella forsetii KT0803] gi|117578450|emb|CAL66919.1| pseudouridylate synthase [Gramella forsetii KT0803] Length = 194 Score = 64.3 bits (155), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 47/187 (25%), Positives = 87/187 (46%), Gaps = 24/187 (12%) Query: 74 RLWLYHKPIGLVT---THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R + +KP G ++ T+ P G+ + +L +S+GRLD ++EGLLLLT +G L Sbjct: 7 RHFKIYKPYGYLSQFITNQKPGGKHKLLGDLYDFPEGTMSIGRLDKDSEGLLLLTTNGKL 66 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTL--------- 179 + + + + Y + G + + + L+ G+ I G Y ++ Sbjct: 67 STKINRGGIE--KEYYAQVDGDITDEAMIKLQNGVEISIFGKAYKSLKCKAEKLKNRPSF 124 Query: 180 --------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 D + G +W+++ L EGK R++KK+ + RL+R+ G + + AG Sbjct: 125 PERAKKIRDERHGPTSWISISLTEGKFRQVKKMTSAVGFPTLRLVRVRIGNETIKNMDAG 184 Query: 232 STREVSK 238 E++K Sbjct: 185 EVIELNK 191 >gi|254229618|ref|ZP_04923030.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. Ex25] gi|262394552|ref|YP_003286406.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. Ex25] gi|151937901|gb|EDN56747.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. Ex25] gi|262338146|gb|ACY51941.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. Ex25] Length = 233 Score = 64.3 bits (155), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 60/223 (26%), Positives = 101/223 (45%), Gaps = 17/223 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA------VNVMSTDHIEVDGVPLR 68 R+ K + A A+R++ ++I + V+G + + A V VM D V G P Sbjct: 2 RLDKYLCDALGATRKQATKIIKSGDITVDGEVQKSGAFKVPEGVEVMWEDR--VIGAP-- 57 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTN 126 R + +KP V +H D + T F L P I + GRLD++T GL+L+T+ Sbjct: 58 ---GPRYIMLYKPADFVCSHEDGYNQ-TAFALLDEPKI-ENLHFAGRLDVDTTGLVLITD 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + P + + YRV + D L++GI+++ + L+ + Sbjct: 113 DGKWSHRITSPKHKCEKTYRVWLVDAIQPDYAEKLEQGIILRNESEATLPARLEIVNEAE 172 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V + + EGK ++K++F KV L R G +L L Sbjct: 173 NEVLLTIVEGKYHQVKRMFAALGNKVEYLHRERIGSIELDEAL 215 >gi|212712415|ref|ZP_03320543.1| hypothetical protein PROVALCAL_03504 [Providencia alcalifaciens DSM 30120] gi|212685161|gb|EEB44689.1| hypothetical protein PROVALCAL_03504 [Providencia alcalifaciens DSM 30120] Length = 235 Score = 64.3 bits (155), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 51/211 (24%), Positives = 95/211 (45%), Gaps = 2/211 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + V V+ +++ ++ V + + DG L + R Sbjct: 2 RLDKFLSQQLGISRSLVARELRAGNVTVDDEVVKSGSMQVGLDNEVAYDGNVLVQVTGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DP + ++ I + + GRLDI+T GL+LLT+DG + + Sbjct: 62 YFMLNKPEGYVCSTDDPTHPTILYFIDEPIAQNLHAAGRLDIDTTGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + YRV+ + D ++G+++ G L+ +T+ Sbjct: 122 TSPKHHCEKTYRVQLSEDIADDVTIQFEQGVMLNGEKSPTKPAQLEIISPREVLLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EG+ ++K++F V L R G L Sbjct: 180 EGRYHQVKRMFAAVGNHVCGLHRERVGEIHL 210 >gi|325122669|gb|ADY82192.1| 16S rRNA synthase [Acinetobacter calcoaceticus PHEA-2] Length = 234 Score = 64.3 bits (155), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 59/223 (26%), Positives = 104/223 (46%), Gaps = 15/223 (6%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--GVPLRKAERT 73 + K++ G SR+ +++I V ++G + + S++++E G + E+ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGYVSIDGEVADDLKKQ-FSSENLEFSLFGETYQYREKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 L L KP G +H P +VF LP I + V ++GRLD +T GLLLLT+DG Sbjct: 62 YLAL-KKPKGFECSHQ-PHHHQSVFSLLPEIMIQRGVQAIGRLDQDTTGLLLLTDDGKYL 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAW 188 + L P +VY V V +++ +L +G+ + +G+ L+T + Sbjct: 120 QALTHPRKHVPKVYHVTTIDPVTPEQIEMLSQGVSLHQEKGLFAATDVAILETHQ----- 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +T+ + +G ++K++ KV L R G L L G Sbjct: 175 LTMTIHQGVYHQVKRMIAAVGNKVEALHRHQVGQLVLPELEDG 217 >gi|313200941|ref|YP_004039599.1| pseudouridine synthase [Methylovorus sp. MP688] gi|312440257|gb|ADQ84363.1| pseudouridine synthase [Methylovorus sp. MP688] Length = 237 Score = 64.3 bits (155), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 60/220 (27%), Positives = 100/220 (45%), Gaps = 9/220 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLRKAER 72 + +++ G SR+ +I V VNG + + TD + V+ P E+ Sbjct: 2 HLERILHAQGFGSRKNCRILIRHHAVTVNGEPCDNPFAD-FDTDKLAFTVNDEPWEYREK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSR-VISVGRLDINTEGLLLLTNDGGL 130 L L +KP +H P +VF LP + R V +GRLD +T GL+LL++DG Sbjct: 61 AYLML-NKPANYECSHK-PQHHPSVFALLPHPLLERGVQCIGRLDEDTTGLILLSDDGQF 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + ++Y V VD D++ L++G +Q + L ++ S+ + Sbjct: 119 IHRMSSPKWKVPKIYEVGAKHAVDADQIRQLQEG--VQLVDEPAPIAALACEQISDQVLH 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + L EGK ++K++ +V L RI G L LA Sbjct: 177 LTLAEGKYHQVKRMLAAVGNRVESLKRIRIGELVLPDDLA 216 >gi|308813403|ref|XP_003084008.1| ribosomal small subunit pseudouridine synthase A (ISS) [Ostreococcus tauri] gi|116055890|emb|CAL57975.1| ribosomal small subunit pseudouridine synthase A (ISS) [Ostreococcus tauri] Length = 211 Score = 64.3 bits (155), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 45/155 (29%), Positives = 76/155 (49%), Gaps = 7/155 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV +++R G +R ++ + V+G + ++ + VDG L + Sbjct: 40 ERVDALLSRLGYCTRSTARAFASRHEIVVDGTRVRGVDAKARAST-LRVDGEALDHPDGV 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTNDGG 129 L HKP G V +H + +G + V++ LP + R + ++GRLD +T GLLLLT+DG Sbjct: 99 -LVAMHKPRGTVCSHDEREG-ANVYELLPERWRRRKPSIETIGRLDKDTSGLLLLTDDGA 156 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 L L P + YRVR G + + + + G Sbjct: 157 LNHALTSPKKDVGKWYRVRTDGPIPRACVEVFASG 191 >gi|294668516|ref|ZP_06733613.1| ribosomal large subunit pseudouridine synthase E [Neisseria elongata subsp. glycolytica ATCC 29315] gi|291309479|gb|EFE50722.1| ribosomal large subunit pseudouridine synthase E [Neisseria elongata subsp. glycolytica ATCC 29315] Length = 186 Score = 64.3 bits (155), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 42/166 (25%), Positives = 82/166 (49%), Gaps = 23/166 (13%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +++KP G++ S + ++ D++ P + GRLD ++EGLLLLT+DG L Sbjct: 4 LIIFNKPCGVICQFSPHEKHPSLKDHIDAPGFYP----AGRLDTDSEGLLLLTDDGQLQA 59 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA----- 187 + P + + Y + G D DKL LL++ + + ++ L +++ ++ Sbjct: 60 RITQPRFKVEKTYWAQLEGIPDTDKLQLLQRPMDLGDFTTRPAKIRLLSEEETDGLWPRN 119 Query: 188 ------------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 W+ + + EGKNR+++++ + RLIR++ G Sbjct: 120 PPVRVRKTVPDFWLEIKISEGKNRQVRRMTAKAGYPCLRLIRVAIG 165 >gi|253989148|ref|YP_003040504.1| 16S rRNA pseudouridylate synthase A [Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949] gi|253780598|emb|CAQ83760.1| ribosomal small subunit pseudouridine synthase A [Photorhabdus asymbiotica] Length = 233 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 53/226 (23%), Positives = 101/226 (44%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR EV R + R+ V+ +++ A + I DG L + + R Sbjct: 2 RLDKFLSQQLGISRNEVGRELRAGRITVDDEIIKTGAYKITPEQQIMFDGSLLEQQQGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DP + ++ ++ + GRLD++T GL+LLT+DG + + Sbjct: 62 YFMLNKPSGYVCSTDDPVNPTVLYFIDEPAAHKLHTAGRLDMDTTGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V + + G+ + G L+ + +T+ Sbjct: 122 TSPKHHCKKTYLVTLECPVAAETADKFLAGVQLHGEKTLTKPAQLEMLEPQVTRLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVSKK 239 EG+ ++K++F +V L R G L L G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNRVIELHRERIGEIILDPALEPGEYRPLTEQ 225 >gi|229551699|ref|ZP_04440424.1| pseudouridylate synthase [Lactobacillus rhamnosus LMS2-1] gi|258539094|ref|YP_003173593.1| pseudouridine synthase A [Lactobacillus rhamnosus Lc 705] gi|229314931|gb|EEN80904.1| pseudouridylate synthase [Lactobacillus rhamnosus LMS2-1] gi|257150770|emb|CAR89742.1| Pseudouridine synthase A [Lactobacillus rhamnosus Lc 705] Length = 236 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 71/237 (29%), Positives = 116/237 (48%), Gaps = 28/237 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-----DGVPLRK 69 R+ K ++ SR+EV+ +I +RV++ G L+ N++ +EV DG PL Sbjct: 2 RLDKYLSHLQFGSRKEVKALIRDKRVRIAGELVTDPGYNILPGVAVEVNDAQADG-PLEV 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLL 123 +L +KP G++T DP +STV D + P ++ VGRLD +T GLLL Sbjct: 61 D-----YLMNKPAGVITATEDP-TQSTVLDLIRPHDYRPGLY----PVGRLDKDTTGLLL 110 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDT 181 LT DG L L P+ + Y + + + + L+ G+ ++ D+QV T Sbjct: 111 LTTDGNLGHTLLAPNHHVPKTYAAKLAKALTTEMKHQLEHGVALKDFTTAPADVQVVPAT 170 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 N + + + EGK +IK++ + +V L RI+ GP +L L AG R ++ Sbjct: 171 ---DNKEIYITITEGKYHQIKRMLLAVDNEVVALTRIAMGPLRLPEDLDAGEYRALT 224 >gi|199599098|ref|ZP_03212503.1| 16S rRNA uridine-516 pseudouridylate synthase related pseudouridylate synthase [Lactobacillus rhamnosus HN001] gi|199589991|gb|EDY98092.1| 16S rRNA uridine-516 pseudouridylate synthase related pseudouridylate synthase [Lactobacillus rhamnosus HN001] gi|328467827|gb|EGF38871.1| pseudouridine synthase A [Lactobacillus rhamnosus MTCC 5462] Length = 236 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 71/237 (29%), Positives = 116/237 (48%), Gaps = 28/237 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-----DGVPLRK 69 R+ K ++ SR+EV+ +I +RV++ G L+ N++ +EV DG PL Sbjct: 2 RLDKYLSHLQFGSRKEVKALIRDKRVRIAGELVTDPGYNILPGVAVEVNDAQADG-PLEV 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLL 123 +L +KP G++T DP +STV D + P ++ VGRLD +T GLLL Sbjct: 61 D-----YLMNKPAGVITATEDP-TQSTVLDLIRPHDYRPGLY----PVGRLDKDTTGLLL 110 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDT 181 LT DG L L P+ + Y + + + + L+ G+ ++ D+QV T Sbjct: 111 LTTDGNLGHTLLAPNHHVPKTYAAKLAKALTTEMKHQLEHGVALKDFTTAPADVQVVPAT 170 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 N + + + EGK +IK++ + +V L RI+ GP +L L AG R ++ Sbjct: 171 ---DNKEIHITITEGKYHQIKRMLLAVDNEVVALTRIAMGPLRLPEDLDAGEYRALT 224 >gi|59801035|ref|YP_207747.1| hypothetical protein NGO0607 [Neisseria gonorrhoeae FA 1090] gi|194098870|ref|YP_002001934.1| Ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae NCCP11945] gi|254493930|ref|ZP_05107101.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae 1291] gi|260440294|ref|ZP_05794110.1| Ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae DGI2] gi|268599217|ref|ZP_06133384.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae MS11] gi|268601564|ref|ZP_06135731.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae PID18] gi|268603903|ref|ZP_06138070.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae PID1] gi|268684524|ref|ZP_06151386.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae SK-92-679] gi|268686834|ref|ZP_06153696.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae SK-93-1035] gi|59717930|gb|AAW89335.1| conserved hypothetical protein [Neisseria gonorrhoeae FA 1090] gi|193934160|gb|ACF29984.1| Ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae NCCP11945] gi|226512970|gb|EEH62315.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae 1291] gi|268583348|gb|EEZ48024.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae MS11] gi|268585695|gb|EEZ50371.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae PID18] gi|268588034|gb|EEZ52710.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae PID1] gi|268624808|gb|EEZ57208.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae SK-92-679] gi|268627118|gb|EEZ59518.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae SK-93-1035] gi|317164444|gb|ADV07985.1| hypothetical protein NGTW08_1017 [Neisseria gonorrhoeae TCDC-NG08107] Length = 230 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 55/226 (24%), Positives = 101/226 (44%), Gaps = 16/226 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLRKAER 72 ++ K + GI SR++ + +I V +NG ++ ++ S+ + +++DG + Sbjct: 2 KLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSYVETLDIDGEAVTVVPE 61 Query: 73 TRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDGG 129 + L +KP T+H P +VF P + +VGRLD +T G+LL+TNDG Sbjct: 62 PYFYILLNKPEDYETSHK-PKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGS 185 L L PS + ++Y V + LK G+ + + +C D + T Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVPLHDENETVCAADAVLENPTT--- 177 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V L R + + L G Sbjct: 178 ---LLLTITEGKYHQVKRMVAAAGNRVQHLHRRRFAHLETENLKPG 220 >gi|257091698|ref|YP_003165339.1| pseudouridine synthase [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] gi|257044222|gb|ACV33410.1| pseudouridine synthase [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] Length = 238 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 66/213 (30%), Positives = 90/213 (42%), Gaps = 10/213 (4%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTRLWL-YHKP 81 G SR E ++ RV V G + VDG P A R ++L +KP Sbjct: 11 GFGSRAECRGLVCTGRVSVEGRVCNDPLAQFEPEGLSFAVDGQPW--AYRRFVYLALNKP 68 Query: 82 IGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVLELPST 139 G + P +VF LP R V +VGRLD +T GLLLLT+DG P Sbjct: 69 AGHECSRR-PIHYPSVFSLLPIPLVRRGVQAVGRLDADTTGLLLLTDDGAFIHACTSPRR 127 Query: 140 QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNR 199 +VY V VD ++ L G+V+ M D Q + +TV L GK Sbjct: 128 MVPKVYEVSTRHAVDDGQVAALLSGVVLHDESQAIMAAACDRQGERSLRLTVTL--GKYH 185 Query: 200 EIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAG 231 +K++ +V L R++ G L TL AG Sbjct: 186 LVKRMVAAAGNRVEALHRVAIGGLALPATLAAG 218 >gi|56475798|ref|YP_157387.1| pseudouridine synthase [Aromatoleum aromaticum EbN1] gi|56311841|emb|CAI06486.1| Pseudouridine synthase [Aromatoleum aromaticum EbN1] Length = 230 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 49/180 (27%), Positives = 81/180 (45%), Gaps = 23/180 (12%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRST---VFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +RL L +KP G++ S DG F +P ++ GRLD ++EGLLLLT+DG Sbjct: 29 SRLILLNKPYGVICQFSG-DGVHVTLKAFVPVPGVYP----AGRLDTDSEGLLLLTDDGA 83 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLD----- 180 L + P + + Y + G+ + L L+ G+ + C D Sbjct: 84 LQHRIADPRHKLPKTYLAQVEGEPGETALTALRGGLDLGDFVTRPCSARRVAEPDWLWPR 143 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + L EGKNR+++++ + RLIR++ G + L L G R Sbjct: 144 DPPVRFRKNVPTSWLEIVLHEGKNRQVRRMTAKAGFPTLRLIRVAIGDWSLAGLAPGQWR 203 >gi|312885162|ref|ZP_07744842.1| ribosomal small subunit pseudouridine synthase A [Vibrio caribbenthicus ATCC BAA-2122] gi|309367175|gb|EFP94747.1| ribosomal small subunit pseudouridine synthase A [Vibrio caribbenthicus ATCC BAA-2122] Length = 233 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 59/227 (25%), Positives = 102/227 (44%), Gaps = 4/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A A+R+E ++I V VN + + A V +E G ++K Sbjct: 2 RLDKYLCDALGATRKEATKIIKSGDVTVNEQVQKSGAFKVDDHSIVEWQGREVQKPGPRY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ KP G V +H D T F L + + GRLD++T GL+L+T+DG + Sbjct: 62 IMLF-KPDGFVCSHED-GFNQTAFMLLDEVRIEDLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + + KGI ++ + L+ V + + Sbjct: 120 ITSPKHKCDKTYRVWLADPIQPHYADEFTKGIQLRNEKGLTLPAKLELVDAQENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EGK ++K++F KV L R G +L +L G R ++++ Sbjct: 180 NEGKYHQVKRMFAALGNKVEHLHRERIGQIELCESLEPGDYRYLTQE 226 >gi|91226537|ref|ZP_01261286.1| ribosomal small subunit pseudouridine synthase A [Vibrio alginolyticus 12G01] gi|91189169|gb|EAS75450.1| ribosomal small subunit pseudouridine synthase A [Vibrio alginolyticus 12G01] Length = 233 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 59/232 (25%), Positives = 105/232 (45%), Gaps = 14/232 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----EVDGVPLRKA 70 R+ K + A A+R++ ++I + V+G + + A V + V G P Sbjct: 2 RLDKYLCDALGATRKQATKIIKSGDITVDGEVQKSGAFKVPKGAEVMWEDRVIGAP---- 57 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDG 128 R + +KP V +H D + T F L P I + GRLD++T GL+L+T+DG Sbjct: 58 -GPRYIMLYKPADFVCSHEDGYNQ-TAFALLDEPKI-ENLHFAGRLDVDTTGLVLITDDG 114 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + P + + YRV + D L++GI+++ + L+ + Sbjct: 115 KWSHRITSPKHKCEKTYRVWLVDAIQPDYAEKLEQGIILRNESEATLPARLEIVNEAENE 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 V + + EGK ++K++F KV L R G +L L G R ++++ Sbjct: 175 VLLTIVEGKYHQVKRMFAALGNKVEYLHRERIGSIELDEALEPGDYRHLTQE 226 >gi|120555818|ref|YP_960169.1| pseudouridine synthase [Marinobacter aquaeolei VT8] gi|120325667|gb|ABM19982.1| ribosomal small subunit pseudouridine synthase A [Marinobacter aquaeolei VT8] Length = 230 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 56/215 (26%), Positives = 103/215 (47%), Gaps = 6/215 (2%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVT 86 SRR+ + ++A RV V+G +++ + VD ++ A + + +KP G ++ Sbjct: 14 SRRQAKALLAAGRVHVDGERCHDPDLDIPRFREVCVDQRIIQSAAPSYYLMLNKPSGYLS 73 Query: 87 THSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY 145 D D TV + + P + V GRLD + GLL+LT+DG +R L P+ + +VY Sbjct: 74 ATRD-DQHPTVMELIDPLLRPHVHIAGRLDRASTGLLILTSDGVWSRRLTEPAVKIPKVY 132 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKGSNAWVTVGLREGKNREIKKV 204 RV + + + ++GI + Y ++ + + V + + EG+ ++K++ Sbjct: 133 RVTTAYAISPETEDRFREGIWFE---YEQLRTSPASLEPLGEREVRLTIYEGRYHQVKRM 189 Query: 205 FEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 F +V L R S G + L GS R +S + Sbjct: 190 FHAVGNRVTSLHRESMGGLTVDGLEPGSYRHLSAQ 224 >gi|209517462|ref|ZP_03266303.1| pseudouridine synthase [Burkholderia sp. H160] gi|209502116|gb|EEA02131.1| pseudouridine synthase [Burkholderia sp. H160] Length = 204 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 45/168 (26%), Positives = 79/168 (47%), Gaps = 23/168 (13%) Query: 79 HKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLE 135 +KP G + S + R+++ D +P ++ GRLD ++EGL+LLT+DG L AR+ E Sbjct: 22 NKPFGTICQFSPHETRASLADWVKVPGVYP----AGRLDSDSEGLVLLTDDGALQARIAE 77 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS---------- 185 P + ++ Y + G VD L L +G+ + Q T S Sbjct: 78 -PRHKLVKRYWAQVEGAVDDAALKKLARGVDLGDYVTRPCQATYVEPDSSLWARTPPIRY 136 Query: 186 -----NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R+ G + +L Sbjct: 137 RAAIPTTWIELSITEGKNRQVRRMTAAVGFPTLRLVRVGVGALDIFSL 184 >gi|73540410|ref|YP_294930.1| ribosomal small subunit pseudouridine synthase A [Ralstonia eutropha JMP134] gi|72117823|gb|AAZ60086.1| ribosomal small subunit pseudouridine synthase A [Ralstonia eutropha JMP134] Length = 251 Score = 63.9 bits (154), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 62/220 (28%), Positives = 100/220 (45%), Gaps = 15/220 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLE--RAAVNVMSTDHIEVDGVPLRKA 70 P + +++ G +RR +IA V+VNG L E RA V + VDG Sbjct: 15 PMTLDRILQSQGFGTRRYCGDLIAAGLVEVNGELCEDPRAQFEVDGL-RLTVDGEEWLAC 73 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDG 128 + L L +KP G + P +V++ LP + V +VGRLD +T GLLLLT+DG Sbjct: 74 TKAYLML-NKPAGYECSQR-PRHHPSVYNLLPVPLRQREVQAVGRLDHDTTGLLLLTDDG 131 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---S 185 P + +VY V V Q++++ L+ G+ + D V + + Sbjct: 132 QFIHAQTSPKRKVPKVYEVTTAEPVTQEQVDALRTGVKLD-----DEPVPIAAEGCEITG 186 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + L +GK ++K++ VN L R + G +L Sbjct: 187 ECSLRLTLLQGKYHQVKRMVAAAGNHVNALHRSAVGGLRL 226 >gi|134296660|ref|YP_001120395.1| ribosomal small subunit pseudouridine synthase A [Burkholderia vietnamiensis G4] gi|134139817|gb|ABO55560.1| ribosomal small subunit pseudouridine synthase A [Burkholderia vietnamiensis G4] Length = 238 Score = 63.9 bits (154), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 63/219 (28%), Positives = 96/219 (43%), Gaps = 9/219 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--EVDGVPLRKAERT 73 + ++ G SRR+ +I RV V G TD + +DG R Sbjct: 3 LESILYTQGFGSRRQCRGLIESGRVTVAGASATDPDA-AFDTDGLVFTLDGTAWPYHARA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSR-VISVGRLDINTEGLLLLTNDGGLA 131 L L +KP G + DP ++VF LP+ + +R V VGRLD +T GLLLL++DG Sbjct: 62 YLAL-NKPAGYECSR-DPQHHASVFSLLPAPLLARGVQCVGRLDQDTTGLLLLSDDGQFV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 P + + Y +D+ +LN L+ G+ + G V + +TV Sbjct: 120 HAYTSPKRKVPKTYVATVRHPLDETQLNALRSGVQLHGEPKPIAAVAAVARDTHTLALTV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EGK ++K++ + +V L R G F L LA Sbjct: 180 --LEGKYHQVKRMVAAASNRVEALHRERIGGFALPAGLA 216 >gi|294788149|ref|ZP_06753392.1| ribosomal large subunit pseudouridine synthase E [Simonsiella muelleri ATCC 29453] gi|294483580|gb|EFG31264.1| ribosomal large subunit pseudouridine synthase E [Simonsiella muelleri ATCC 29453] Length = 184 Score = 63.9 bits (154), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 43/162 (26%), Positives = 78/162 (48%), Gaps = 23/162 (14%) Query: 79 HKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +KP G++ S + T+ F N+P+++ GRLD ++EGLLLLT+DG + Sbjct: 6 NKPYGVICQFSPHEKYRTLKDFVNVPNVYP----AGRLDTDSEGLLLLTDDGKQQARITD 61 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL----------------- 179 P + ++ Y + G D DKL L++ + + Q+ L Sbjct: 62 PRNKIVKTYWAQLEGSPDADKLARLQQPLDLGDFVAQPAQIRLLETNEIAQIWTRHPPIR 121 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + + + W+ + +REGKNR+++++ + RLIR+ G Sbjct: 122 ERKTVPDFWLQIQIREGKNRQVRRMTAKAGYPCLRLIRVGIG 163 >gi|113869011|ref|YP_727500.1| tRNA pseudouridine synthase A [Ralstonia eutropha H16] gi|113527787|emb|CAJ94132.1| tRNA pseudouridine synthase A [Ralstonia eutropha H16] Length = 220 Score = 63.9 bits (154), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 50/185 (27%), Positives = 84/185 (45%), Gaps = 23/185 (12%) Query: 79 HKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +KP G ++ S+ R T+ ++P ++ GRLD ++EGLLLLT+DG L + Sbjct: 7 NKPFGTMSQFSEHPTRPTLAACVSVPGVYP----AGRLDADSEGLLLLTDDGALQARIAD 62 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG----------- 184 P + + Y + G D L L+ G+ + +V +D Sbjct: 63 PRHKLEKTYLAQVEGIPDAAALARLRAGVDLGDFVTQPARVRAIDAPDWLWPRQPPVRFR 122 Query: 185 ---SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 AW+ + +REGKNR+++++ + RL+R+ GP L L G ++L Sbjct: 123 AAIPTAWLELKIREGKNRQVRRMTAAVGFPTLRLVRVGIGPLDLRAL--GLAPGACCEVL 180 Query: 242 REQLG 246 QLG Sbjct: 181 PAQLG 185 >gi|251793652|ref|YP_003008382.1| RNA pseudouridine synthase family protein [Aggregatibacter aphrophilus NJ8700] gi|247535049|gb|ACS98295.1| RNA pseudouridine synthase family protein [Aggregatibacter aphrophilus NJ8700] Length = 182 Score = 63.9 bits (154), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 46/177 (25%), Positives = 85/177 (48%), Gaps = 21/177 (11%) Query: 84 LVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQW 141 ++ +D GRST+ F N+ ++ +GRLD ++EGLLLLTN+G + L P + Sbjct: 1 MLCQFTDEAGRSTLKDFINVAGVYP----IGRLDRDSEGLLLLTNNGDIQHRLAEPKFKM 56 Query: 142 LRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------------SN 186 + Y V+ G D+ L L++G+ + +V L ++ Sbjct: 57 EKTYWVQVEGVPDEIALERLRRGVELNDGMTLPAKVRLISEPNFLWPRVPPIRERKNIPT 116 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 AW+ + + EG+NR+++++ + RLIR F L L + R +++ L++ Sbjct: 117 AWLEIKIYEGRNRQVRRMTAHIGFPTLRLIRYQQAGFSLQHLAPKTYRTLTQDELKQ 173 >gi|163743246|ref|ZP_02150627.1| RNA pseudouridylate synthase [Phaeobacter gallaeciensis 2.10] gi|161383434|gb|EDQ07822.1| RNA pseudouridylate synthase [Phaeobacter gallaeciensis 2.10] Length = 232 Score = 63.9 bits (154), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 47/185 (25%), Positives = 88/185 (47%), Gaps = 25/185 (13%) Query: 73 TRLWLYHKPIGLVTTH----SDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTN 126 TRL ++KP ++ SD R+T+ D +LP ++ GRLD ++EGL+LLT+ Sbjct: 2 TRLIRFNKPYDVLPQFTDRGSDSSPRATLSDWIDLPGVYP----AGRLDRDSEGLMLLTD 57 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG- 184 G L + P + + Y V+ G D + L G+ ++ G+ ++ +G Sbjct: 58 HGRLQAWISDPQHKMPKTYWVQVEGTPDAAAIQALANGVELKDGMTRPAKAALIEEPEGI 117 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 ++W+ + +REG+NR+++++ RLIR + G + L L G Sbjct: 118 WARNPPIRVRKSVPDSWIALTIREGRNRQVRRMTAAVGHPTLRLIRAAIGIWTLDGLSPG 177 Query: 232 STREV 236 + ++ Sbjct: 178 TWEDL 182 >gi|253998847|ref|YP_003050910.1| pseudouridine synthase [Methylovorus sp. SIP3-4] gi|253985526|gb|ACT50383.1| pseudouridine synthase [Methylovorus sp. SIP3-4] Length = 237 Score = 63.9 bits (154), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 60/220 (27%), Positives = 100/220 (45%), Gaps = 9/220 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLRKAER 72 + +++ G SR+ +I V VNG + + TD + V+ P E+ Sbjct: 2 HLERILHAQGFGSRKNCRILIRHHAVTVNGEPCDNPFAD-FDTDKLAFTVNEEPWEYREK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSR-VISVGRLDINTEGLLLLTNDGGL 130 L L +KP +H P +VF LP + R V +GRLD +T GL+LL++DG Sbjct: 61 AYLML-NKPANYECSHK-PQHHPSVFALLPHPLLERGVQCIGRLDEDTTGLILLSDDGQF 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + ++Y V VD D++ L++G +Q + L ++ S+ + Sbjct: 119 IHRMSSPKWKVPKIYEVGAKHAVDADQIRQLQEG--VQLVDEPAPIAALACEQISDQVLH 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + L EGK ++K++ +V L RI G L LA Sbjct: 177 LTLAEGKYHQVKRMLAAVGNRVESLKRIRIGELVLPDDLA 216 >gi|58580326|ref|YP_199342.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas oryzae pv. oryzae KACC10331] gi|166713553|ref|ZP_02244760.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas oryzae pv. oryzicola BLS256] gi|188578738|ref|YP_001915667.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas oryzae pv. oryzae PXO99A] gi|58424920|gb|AAW73957.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas oryzae pv. oryzae KACC10331] gi|188523190|gb|ACD61135.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas oryzae pv. oryzae PXO99A] Length = 237 Score = 63.9 bits (154), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 108/238 (45%), Gaps = 13/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++ K IA G SR++V ++ Q V G +L A + + D I +DG PL Sbjct: 2 KLVKHIANLGYGSRKQVTQLFRQGAVTDAQGEVLY--ADDQVEHDAIRIDGEPLDPPPGF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SR---VISVGRLDINTEGLLLLTNDGG 129 L L HKP G + D GR +++ LP F SR + VGRLD T G+LL+T+DG Sbjct: 60 SLLL-HKPGGYTCSTKD-TGR-LIYELLPPRFRSRAPVLAPVGRLDRETSGMLLMTDDGA 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAW 188 L + P + +VY + + D+ L G ++++G + L+ A Sbjct: 117 LLHRIISPKSALDKVYDITLAEDLRGDEAALFASGSLLLEGETKPLLPAELEVLGPREAR 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +T L EG+ +++++F V L R G L L +G R + L G Sbjct: 177 LT--LHEGRYHQVRRMFAAAGNHVVALHRSRIGGLSLDGLPSGQWRALEASDLEVLFG 232 >gi|17545393|ref|NP_518795.1| ribosomal small subunit pseudouridine synthase A protein [Ralstonia solanacearum GMI1000] gi|17427685|emb|CAD14204.1| probable ribosomal small subunit pseudouridine synthase a protein [Ralstonia solanacearum GMI1000] Length = 252 Score = 63.9 bits (154), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 61/218 (27%), Positives = 98/218 (44%), Gaps = 11/218 (5%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTRLW 76 +++ G +RR + ++ V VNG+ E V + + +VDG R A R + Sbjct: 12 RILQSQGFGTRRYCKDLVFAGLVHVNGVEAEDPDAQVDTAGLVLDVDGE--RWAYHARAY 69 Query: 77 LY-HKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARV 133 L HKP G + P +V+ LP V VGRLD +T GLLLLT+DG Sbjct: 70 LMLHKPTGFECSQK-PRHHPSVYTLLPVPLRERGVQCVGRLDQDTTGLLLLTDDGQFVHT 128 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNAWVTVG 192 L P Q +VY + V ++ L +G++++ D+ V ++ + + Sbjct: 129 LTSPRHQVPKVYEITTAEPVTDAQVTQLCQGVLLED---EDVPVAAAWAERADACHLRMA 185 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 L +GK ++K++ V L R + G LG LA Sbjct: 186 LTQGKYHQVKRMVAAAGNHVAALHRSAIGGLTLGADLA 223 >gi|260772944|ref|ZP_05881860.1| ribosomal small subunit pseudouridine synthase A [Vibrio metschnikovii CIP 69.14] gi|260612083|gb|EEX37286.1| ribosomal small subunit pseudouridine synthase A [Vibrio metschnikovii CIP 69.14] Length = 231 Score = 63.5 bits (153), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 57/212 (26%), Positives = 94/212 (44%), Gaps = 5/212 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A +R+E +++ V V+GI+ + + V +E G L + R Sbjct: 2 RLDKFLCDALGTTRKESTQLLKSGDVTVDGIVRKSGSCQVTELSQVEWQGRALTLS-GPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 + HKP G V +H D + T F L R + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLHKPQGYVCSHEDSFNQ-TAFVLLDEANQRDLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + YRV + + KGI ++G D+ + V + + Sbjct: 120 VTSPKHHCEKTYRVWLADPIAAEYTEQFAKGIELRG--ERDLTRPAQLEIIDQQQVLLTI 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EGK ++K++F KV L R G L Sbjct: 178 HEGKYHQVKRMFAALGNKVVGLHRERVGDIVL 209 >gi|28897989|ref|NP_797594.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus RIMD 2210633] gi|153838627|ref|ZP_01991294.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus AQ3810] gi|260364226|ref|ZP_05776929.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus K5030] gi|260877145|ref|ZP_05889500.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus AN-5034] gi|260898993|ref|ZP_05907434.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus Peru-466] gi|260902058|ref|ZP_05910453.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus AQ4037] gi|34098481|sp|Q87QD4|RSUA_VIBPA RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|28806203|dbj|BAC59478.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus RIMD 2210633] gi|149747999|gb|EDM58859.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus AQ3810] gi|308088663|gb|EFO38358.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus Peru-466] gi|308093845|gb|EFO43540.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus AN-5034] gi|308109089|gb|EFO46629.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus AQ4037] gi|308111860|gb|EFO49400.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus K5030] gi|328473055|gb|EGF43903.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus 10329] Length = 233 Score = 63.5 bits (153), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 57/227 (25%), Positives = 105/227 (46%), Gaps = 4/227 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A A+R++ ++I V V+G + + + V +E DG + A R Sbjct: 2 RLDKYLCDALGATRKQATKIIKSGEVLVDGEVQKSGSFKVPEGGVVEWDGREV-GAPGPR 60 Query: 75 LWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP V +H D + + V + P + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPADFVCSHEDGYNPTAFVLLDEPKV-ENLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + D + +GI ++ + L+ + V + + Sbjct: 120 ITSPKHKCKKTYRVWLADAIQPDYVEKFAQGIELRNEREATLPAHLEIVNEAENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 EGK ++K++F KV L R G L TL G R ++++ Sbjct: 180 VEGKYHQVKRMFAALGNKVELLHRERIGDIVLDDTLEPGDYRYLTQE 226 >gi|163748446|ref|ZP_02155700.1| RNA pseudouridine synthase family protein [Shewanella benthica KT99] gi|161332024|gb|EDQ02701.1| RNA pseudouridine synthase family protein [Shewanella benthica KT99] Length = 210 Score = 63.5 bits (153), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 51/192 (26%), Positives = 95/192 (49%), Gaps = 28/192 (14%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRST--VFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 +E R + KP G ++ P+ R + + L + ++++GRLD ++EGLLLLT D Sbjct: 19 SEPHRHFKIFKPHGFLSQFV-PETRKSKKLLGELALFPTGIMAIGRLDHDSEGLLLLTTD 77 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------- 179 G ++ + S + + Y V+ G +D + + L+ G+ I GI G+ +TL Sbjct: 78 GMVSHRVR--SKKVEKEYYVQVDGDIDDEAIIRLRLGVEI-GI-KGEKYLTLPCKVFKLD 133 Query: 180 -------------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 D + G +W+++ + EGKNR+I+K+ ++ RL+R+ G L Sbjct: 134 GEPELPSNGRKIRDPRHGPMSWISITISEGKNRQIRKMTAAADFPTMRLVRVRIGNIMLD 193 Query: 227 TLLAGSTREVSK 238 + G E+++ Sbjct: 194 NMQPGKVIELTE 205 >gi|260222138|emb|CBA31404.1| hypothetical protein Csp_F37360 [Curvibacter putative symbiont of Hydra magnipapillata] Length = 282 Score = 63.5 bits (153), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 79/287 (27%), Positives = 117/287 (40%), Gaps = 81/287 (28%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ASRRE + IA+ VKVNG + E + V+ IE+D + Sbjct: 2 RLNKRMADLGMASRREADEWIAKGWVKVNGKVAE-MGMQVLPDVRIEIDKQAQGQQANQV 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF-----------DNLPSIF-----SRVISVGRLDINT 118 L +KP+G+V+ ++ DG DN F ++ GRLDI++ Sbjct: 61 TILLNKPLGIVSGQAE-DGHEPAIKLIQPQNRWRDDNARFFFHGSQLKSLVPAGRLDIDS 119 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVY--RVRFHG------------------------- 151 GLL+LT DG +AR L + + Y RV + G Sbjct: 120 TGLLVLTQDGRVARQLIGEDSVMEKEYLVRVAYTGVENPGAANSPAATYPALAGRGKPQQ 179 Query: 152 --QVDQD--------------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNA---W---- 188 ++D D KL LL+ G++ LD Q+ A W Sbjct: 180 LIRLDDDDPVTSDVQSVFPPEKLQLLRHGLI------------LDDQRLKPAKVEWQNPE 227 Query: 189 -VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGK R+I+++ E KV L R+ G LG L G R Sbjct: 228 QLRFVLTEGKKRQIRRMCELVGLKVVGLKRVRVGKVMLGNLPVGQWR 274 >gi|227550851|ref|ZP_03980900.1| possible pseudouridylate synthase [Enterococcus faecium TX1330] gi|227179949|gb|EEI60921.1| possible pseudouridylate synthase [Enterococcus faecium TX1330] Length = 135 Score = 63.5 bits (153), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 50/135 (37%), Positives = 76/135 (56%), Gaps = 6/135 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ K+I +R+E++R+ A ++V V+G + R NV S H IEV G L E Sbjct: 2 RLDKLIEEKLETTRKEMKRLFALKQVMVDGTVEFRQNRNVDSLLHRIEVAGEHLETNES- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP VT SDP+ ++TV D + S F + VGRLD +T GLLL+T++G L Sbjct: 61 -YYLLNKPKKAVTAVSDPE-KTTVIDLIASADRFQPLYPVGRLDRDTTGLLLITSNGQLG 118 Query: 132 RVLELPSTQWLRVYR 146 + LP + R+ + Sbjct: 119 YEMLLPEKRSQRLIK 133 >gi|46205033|ref|ZP_00209673.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Magnetospirillum magnetotacticum MS-1] Length = 228 Score = 63.5 bits (153), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 55/204 (26%), Positives = 97/204 (47%), Gaps = 24/204 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV---------MSTDHIEVDGV 65 R+ +++A G SRREVE + V+++G L AA + M+ +D + Sbjct: 6 RLDRLLANLGYGSRREVEGLAWAGLVRLDGETLTDAAQRIPLDPDLSARMTIQGQLLDPL 65 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGL 121 P + HKP+G+ +H + V+ LP + R + +VGRLD T GL Sbjct: 66 P------GLCLMLHKPLGVTCSHKE--AGPLVYSLLPERWRRRDPALSTVGRLDKETSGL 117 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLD 180 LLLT+DG L + P + + YRV + D+ ++L G +++ G + V ++ Sbjct: 118 LLLTDDGALLHRIISPKAKVAKRYRVTLARPLQGDETSILASGELMLDGEDKPLLPVEME 177 Query: 181 TQKGSNAWVTVGLREGKNREIKKV 204 ++ TV L EG+ +++ + Sbjct: 178 ADDATH--CTVTLHEGRYHKVRAL 199 >gi|268596631|ref|ZP_06130798.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae FA19] gi|268550419|gb|EEZ45438.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae FA19] Length = 241 Score = 63.5 bits (153), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 51/202 (25%), Positives = 94/202 (46%), Gaps = 16/202 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLRK 69 T ++ K + GI SR++ + +I V +NG ++ ++ S+ + +++DG + Sbjct: 10 TIMKLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSYVETLDIDGEAVTV 69 Query: 70 AERTRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTN 126 + L +KP T+H P +VF P + +VGRLD +T G+LL+TN Sbjct: 70 VPEPYFYILLNKPEDYETSHK-PKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITN 128 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQ 182 DG L L PS + ++Y V + LK G+ + + +C D + T Sbjct: 129 DGKLNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVPLHDENETVCAADAVLENPTT 188 Query: 183 KGSNAWVTVGLREGKNREIKKV 204 + + + EGK ++K++ Sbjct: 189 ------LLLTITEGKYHQVKRM 204 >gi|261400746|ref|ZP_05986871.1| ribosomal large subunit pseudouridine synthase E [Neisseria lactamica ATCC 23970] gi|269209518|gb|EEZ75973.1| ribosomal large subunit pseudouridine synthase E [Neisseria lactamica ATCC 23970] Length = 186 Score = 63.5 bits (153), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 44/170 (25%), Positives = 85/170 (50%), Gaps = 23/170 (13%) Query: 78 YHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 ++KP G++ S + ++ F +LPS + GRLD ++EGLLLLT+DG L + Sbjct: 7 FNKPYGVICQFSPHEKHKSLKDFIDLPSFYP----AGRLDTDSEGLLLLTDDGWLQAKIT 62 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----------VIQGICYGDMQVTLD----- 180 P + + Y + G D+ +L L+KGI +++ + G+ + + Sbjct: 63 DPKFKHPKTYWAQLEGLPDESRLESLRKGIDLGDFVTRPALVRVLNPGEAERLWERVPPI 122 Query: 181 --TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + + W+ + + EGKNR+++++ + RL+R++ G +L L Sbjct: 123 RVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLVRVASGRLKLFDL 172 >gi|84499356|ref|ZP_00997644.1| RNA pseudouridylate synthase [Oceanicola batsensis HTCC2597] gi|84392500|gb|EAQ04711.1| RNA pseudouridylate synthase [Oceanicola batsensis HTCC2597] Length = 182 Score = 63.5 bits (153), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 46/181 (25%), Positives = 83/181 (45%), Gaps = 25/181 (13%) Query: 77 LYHKPIGLVTTHSDPDGRSTV------FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L++KP +++ +D T F +LP ++ GRLD ++EGL++LT+DG L Sbjct: 6 LFNKPFDVLSQFTDAGTAGTPRRTLSDFIDLPGVYP----AGRLDRDSEGLMILTDDGRL 61 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG----- 184 + P + + Y + G D L L++G+ ++ +V +D + Sbjct: 62 QARIAHPRYKAAKTYLAQVEGLPDHAALEALRRGVTLKDGPTRPARVRRIDVPEDLWDRD 121 Query: 185 ---------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + W+ + L EG+NR+++++ RLIRI G +QL L G R+ Sbjct: 122 PPVRYRKSVPDCWIELTLTEGRNRQVRRMTAHVGHPTLRLIRIRIGDWQLDHLPPGHWRD 181 Query: 236 V 236 Sbjct: 182 A 182 >gi|149913759|ref|ZP_01902291.1| Pseudouridine synthase, Rsu [Roseobacter sp. AzwK-3b] gi|149812043|gb|EDM71874.1| Pseudouridine synthase, Rsu [Roseobacter sp. AzwK-3b] Length = 195 Score = 63.5 bits (153), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 49/189 (25%), Positives = 92/189 (48%), Gaps = 24/189 (12%) Query: 73 TRLWLYHKPIGLVTTHSDP----DGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTN 126 RL L++KP G+++ +D R+T+ D +LP ++ GRLD ++EGLLLLT+ Sbjct: 2 ARLILFNKPYGVLSQFTDKGMADSKRATLSDHIDLPGVYP----AGRLDRDSEGLLLLTD 57 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----------ICYGDM- 175 DG L + P + ++Y V+ D + L +G+ ++ I D+ Sbjct: 58 DGKLQERIASPRFKTEKIYLVQVERIPDDAAIEALCRGVTLKDGPTRPARVSRIAPPDLW 117 Query: 176 --QVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + +K + W+++ + EG+NR+++++ RL+R G + L L G+ Sbjct: 118 ERDPPVRFRKSVPDCWLSITISEGRNRQVRRMTAHVGHPTLRLVRWRIGAWSLDGLAPGT 177 Query: 233 TREVSKKIL 241 R+ + L Sbjct: 178 WRDAPPETL 186 >gi|332520335|ref|ZP_08396797.1| pseudouridine synthase [Lacinutrix algicola 5H-3-7-4] gi|332043688|gb|EGI79883.1| pseudouridine synthase [Lacinutrix algicola 5H-3-7-4] Length = 179 Score = 63.5 bits (153), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 46/162 (28%), Positives = 75/162 (46%), Gaps = 21/162 (12%) Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 R L S + +GRLD +EGLLLLT DG L+ + S+ + Y G + Sbjct: 14 RKRFLGELGSFPQGTMPIGRLDEKSEGLLLLTTDGKLSDYVN--SSGIEKEYYALVDGDI 71 Query: 154 DQDKLNLLKKGIVI--QGICYGDMQVTL-----------------DTQKGSNAWVTVGLR 194 Q++++ LKKG+ I G Y + D + G +W+++ L Sbjct: 72 SQEEISSLKKGVEIGFDGKKYQTKPCKVFKLDNAPLLPERGKKIRDARHGPVSWISITLT 131 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 EGK R+++K+ RL+R+ G QLG L +G+ + + Sbjct: 132 EGKFRQVRKMTSAVGCPTLRLVRVRVGNIQLGNLESGAVKPI 173 >gi|172061447|ref|YP_001809099.1| pseudouridine synthase [Burkholderia ambifaria MC40-6] gi|171993964|gb|ACB64883.1| pseudouridine synthase [Burkholderia ambifaria MC40-6] Length = 238 Score = 63.5 bits (153), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 61/225 (27%), Positives = 93/225 (41%), Gaps = 21/225 (9%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + ++ G SRR+ +I RV V G A + DG+ + Sbjct: 3 LESILYTQGFGSRRQCRGLIETGRVSVAG------ASATDPDASFDTDGLVFTVDDTA-- 54 Query: 76 WLYH--------KPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLT 125 W +H KP G + DP ++VF LP+ + V VGRLD +T GLLLL+ Sbjct: 55 WPFHARAYLALNKPAGYECSR-DPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLS 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG P + + Y +D +LN L+ G+ + G V + Sbjct: 114 DDGQFVHAYTSPKRKVPKTYVATVRHPLDDTQLNALRAGVQLHGEPKPIAAVAAHARDTH 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +TV EGK ++K++ + +V L R S G F L LA Sbjct: 174 ALALTV--LEGKYHQVKRMVAAASNRVEALHRESIGGFTLPVDLA 216 >gi|330873630|gb|EGH07779.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. glycinea str. race 4] Length = 129 Score = 63.5 bits (153), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 35/96 (36%), Positives = 57/96 (59%), Gaps = 6/96 (6%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L+L++KP ++T SD GR+T+ F +P I+ GRLD ++EGLLLLTNDG L Sbjct: 32 KLFLFNKPFDVLTQFSDEGGRATLKDFIKIPGIYP----AGRLDRDSEGLLLLTNDGQLQ 87 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 + P + + Y V+ G+ ++L L+ G+ + Sbjct: 88 ARIADPKHKLAKTYWVQVEGEPTDEQLQQLRDGVQL 123 >gi|91786512|ref|YP_547464.1| ribosomal large subunit pseudouridine synthase F [Polaromonas sp. JS666] gi|91695737|gb|ABE42566.1| ribosomal large subunit pseudouridine synthase F [Polaromonas sp. JS666] Length = 266 Score = 63.5 bits (153), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 73/250 (29%), Positives = 112/250 (44%), Gaps = 35/250 (14%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV---NVMSTDHIEVDGVPLRKAE 71 R++K +A G+ SRRE + IA+ V VNG AV V IEVD ++ Sbjct: 20 RLNKRMAELGLCSRREADDWIARGWVLVNGA----PAVMGQPVAPDARIEVDRQAEQQQR 75 Query: 72 RTRLWLYHKPIGLVTTHSD-----------PDGRSTVFDNL----PSIFSRVISVGRLDI 116 + L +KP+G V+ ++ P R ++ P + GRLDI Sbjct: 76 QQVTILINKPVGYVSGQAEDGHEPAVVLVQPQNRWRECNSRMRWGPEQLRGLAPAGRLDI 135 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVI 167 ++ GLL+LT DG +AR L +++ + Y VR ++KL LL+ G+ + Sbjct: 136 DSIGLLVLTQDGRVARQLIGENSEIEKEYLVRVSYGAETSNVQAVFPREKLALLRHGLSL 195 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G QV D Q + L+EGK R+I+++ E V L R+ G LG Sbjct: 196 DGQALRPAQV--DWQNPEQ--LRFVLKEGKKRQIRRMCEQVGLFVTGLKRVRIGRVNLGH 251 Query: 228 LLAGSTREVS 237 L G R ++ Sbjct: 252 LPVGQWRYLA 261 >gi|91776490|ref|YP_546246.1| ribosomal large subunit pseudouridine synthase E [Methylobacillus flagellatus KT] gi|91710477|gb|ABE50405.1| ribosomal large subunit pseudouridine synthase E [Methylobacillus flagellatus KT] Length = 176 Score = 63.5 bits (153), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 46/177 (25%), Positives = 82/177 (46%), Gaps = 17/177 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L++KP G++ S + T+ D + V + GRLD ++EGLL+LT+DG L + Sbjct: 2 LILFNKPYGVICQFSPHEKHKTLKDYI--AVPGVYAAGRLDTDSEGLLILTDDGRLQHRI 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG--------- 184 P + + Y V+ G + L L+ G+ + +V ++ G Sbjct: 60 SHPRHKEFKTYWVQVEGDPSDEALEPLRHGMDLGDFVTQPAKVRRIEEPAGLWPRHPPIR 119 Query: 185 -----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 AW+ V + EGKNR+++++ + RL+R + G L + G R++ Sbjct: 120 ERKAIPTAWLEVIIAEGKNRQVRRMTAKAGFPTLRLVRYAVGQHTLEGIAPGEWRQL 176 >gi|328870986|gb|EGG19358.1| hypothetical protein DFA_02145 [Dictyostelium fasciculatum] Length = 534 Score = 63.5 bits (153), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 70/255 (27%), Positives = 119/255 (46%), Gaps = 28/255 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLE-RAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K+++ G+ +R +V++ I +V G + +A V+V + I V G RK + Sbjct: 6 RLDKLLSNLGLCTRSKVQQFINANKVTYQGQKVSPKAKVDV---EDIRVMG---RKVDHP 59 Query: 74 RLWL--YHKPIGLVTTHSDPDG-RSTVFDNLPSIF---SRVISV-GRLDINTEGLLLLTN 126 L HKPIG V ++S DG ++D LP F S +S+ GRLD GL++++ Sbjct: 60 ELLTIAVHKPIGYVCSNSREDGDHKIIYDLLPKEFADRSPTLSIAGRLDKWVTGLVVMSQ 119 Query: 127 DGGLA-RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDT 181 +G + R++ + +VY V + + + + + G V G C +D Sbjct: 120 NGKIVERIITPKDDKMGKVYEVVCESKFNGTEADEMASGRVQLRSEDGPCKPAHFEVVDQ 179 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + N + L EGK +++++ K + R GP QLG L G R +SK+ + Sbjct: 180 E---NKMARLTLYEGKYHQVRRMMSAVGNKAIGIHRTQVGPIQLGDLEVGKWRILSKEEM 236 Query: 242 REQLGPHLLEEAQVN 256 LLE QV+ Sbjct: 237 ------ELLEAIQVS 245 >gi|254670490|emb|CBA06210.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis alpha153] Length = 256 Score = 63.5 bits (153), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 55/229 (24%), Positives = 102/229 (44%), Gaps = 16/229 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLER--AAVNVMSTDHIEVDGVPLRK 69 T ++ K + GI SR++ + +I V +NG ++ A ++ S + +++D + Sbjct: 25 TIMKLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSSVETLDIDEEAVTV 84 Query: 70 AERTRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTN 126 + + +KP T+H P +VF P + +VGRLD +T G+LL+TN Sbjct: 85 VPEPYFYIMLNKPEDYETSHK-PKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITN 143 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQ 182 DG L L PS + ++Y V + LK G+++ + +C D + T Sbjct: 144 DGKLNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLKNPTT 203 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + EGK ++K++ +V L R + + L G Sbjct: 204 ------LLLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPG 246 >gi|16126081|ref|NP_420645.1| ribosomal small subunit pseudouridine synthase A [Caulobacter crescentus CB15] gi|13423277|gb|AAK23813.1| ribosomal small subunit pseudouridine synthase A [Caulobacter crescentus CB15] Length = 241 Score = 63.5 bits (153), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 59/240 (24%), Positives = 111/240 (46%), Gaps = 14/240 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLE----RAAVNVMSTDHIEVDGVPLRKA 70 R+ +++A G SR+EV+ ++A +V ++G +L+ R AV+ + + + G P+ Sbjct: 3 RLDRLLANLGYGSRKEVQALVAGGKVVLDGAILKDAGARIAVDATLPERMTIRGAPVDPP 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINTEGLLLLTN 126 L + HKP+G+V +H + DG ++D LP + + +VGRLD +T GL+L+T+ Sbjct: 63 APLVL-IMHKPLGVVCSHKE-DGEK-IYDLLPRRWRLRDPGLSTVGRLDKDTSGLILITD 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG + P + Y ++ + + G +++ + LD Sbjct: 120 DGDFLHRVISPKRHVPKTYLATLDRPLNGSEGEVFAAGTLMLDSEEKPLLPARLDVVNAH 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 A +T+ EG+ +++++F V L R G L LA + EQ+ Sbjct: 180 AARLTI--TEGRYHQVRRMFAAVGNHVVALHRERIGGIALPDDLAAGQHRILTAAAAEQV 237 >gi|270264704|ref|ZP_06192969.1| ribosomal large subunit pseudouridine synthase F [Serratia odorifera 4Rx13] gi|270041387|gb|EFA14486.1| ribosomal large subunit pseudouridine synthase F [Serratia odorifera 4Rx13] Length = 253 Score = 63.5 bits (153), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 59/225 (26%), Positives = 105/225 (46%), Gaps = 9/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAER 72 R++K I+ +GI SRR +R I V +N L A V S D + V+ + R A+ Sbjct: 8 RLNKYISDSGICSRRHADRHIKLGNVFINDRLAAVGA-QVFSGDRVRVNDRQIAPRDADD 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G++T+ + R + D + R +GRLD ++GL+ LTN G L Sbjct: 67 LVLIALNKPVGVLTSMGKHE-RDNIGD-FVNHSQRTFPIGRLDKASQGLIFLTNQGELVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + + + + G+ I G V +K ++ + Sbjct: 125 KILRAGNNHEKEYLVTVNKPLTDAFIQGMGAGVPILGKVTHPCLV----EKEASQVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L +G NR+I+++ ++F ++V +L R+ L L G R+ + Sbjct: 181 LVQGLNRQIRRMCKYFGYEVTKLERVRIMNVDLTGLALGEWRDFT 225 >gi|329849476|ref|ZP_08264322.1| hypothetical protein ABI_23690 [Asticcacaulis biprosthecum C19] gi|328841387|gb|EGF90957.1| hypothetical protein ABI_23690 [Asticcacaulis biprosthecum C19] Length = 233 Score = 63.2 bits (152), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 67/230 (29%), Positives = 110/230 (47%), Gaps = 21/230 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++ K++A G SR+E++++I + + G L+ + ++ D I + G PL A+ Sbjct: 2 KLIKLLANLGYGSRKEMQQLIRRGTITDAAGQPLDDD--SAIAHDDIRLRGKPLDPAQGM 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVIS-VGRLDINTEGLLLLTNDGG 129 L L HKP G V + D GR V++ LP FS VIS VGRLD +T GLLL+T+DG Sbjct: 60 ILLL-HKPTGFVCSTKD-RGR-LVYELLPERFSLRKPVISTVGRLDSDTSGLLLMTDDGD 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKG 184 + P ++Y V + + + G ++ + + M++T +T Sbjct: 117 FLHKVISPRNHVAKIYEVTTARPISPTYVPVFASGELMLESEKEPLKPAQMEITGET--- 173 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 A +T L EG+ +++++F V L R G L L G R Sbjct: 174 -TARLT--LYEGRYHQVRRMFAAVGNHVEALHRAQMGELTLDDLAPGKWR 220 >gi|167835720|ref|ZP_02462603.1| pseudouridine synthase family protein [Burkholderia thailandensis MSMB43] Length = 192 Score = 63.2 bits (152), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 53/189 (28%), Positives = 87/189 (46%), Gaps = 21/189 (11%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL +KP G + S + R+++ D + + V GRLD ++EGLLLLT+DG L Sbjct: 2 RLIALNKPFGTICQFSPHETRASLGDWVKT--PDVYPAGRLDADSEGLLLLTDDGALQAK 59 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSNA-- 187 + P + ++ Y + G D L L++G+ + C +T N Sbjct: 60 IAEPRHKLVKRYWAQVEGAPDAAALAALERGVDLGDYVSRPCRARFVTPPETLWPRNPPV 119 Query: 188 ---------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP---FQLGTLLAGSTRE 235 W+ + + EGKNR+++++ + RLIR+ G F LG L G TRE Sbjct: 120 RYRAAIPTTWIELEIAEGKNRQVRRMTAAVGFPTLRLIRVGIGALDVFALG-LSPGETRE 178 Query: 236 VSKKILREQ 244 + + E+ Sbjct: 179 LPPRAPWER 187 >gi|116071100|ref|ZP_01468369.1| Pseudouridine synthase, Rsu [Synechococcus sp. BL107] gi|116066505|gb|EAU72262.1| Pseudouridine synthase, Rsu [Synechococcus sp. BL107] Length = 210 Score = 63.2 bits (152), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 52/189 (27%), Positives = 85/189 (44%), Gaps = 31/189 (16%) Query: 77 LYHKPIGLVTTHSDPDGRSTV----FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L HKP G+++ + D F ++P +++ GRLD ++EGLL+LT++G L + Sbjct: 2 LLHKPYGVLSQFTPEDNSRWDCLRDFVDIPDVYA----AGRLDADSEGLLVLTSNGRLQQ 57 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----------------CYGDMQ 176 L P R Y V+ G +L L+ GI IQG G+ Sbjct: 58 QLTNPRFGHWRTYWVQVEGSPQPHQLQQLRDGITIQGYRTRPAKAAWLNAEAIPTIGERI 117 Query: 177 VTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQLGTLL 229 + + W+ + L+EG+NR+++++ RLIR + PF L L Sbjct: 118 PPIRVRAAIPTHWLEISLQEGRNRQVRRMTAAVGLPTLRLIRHTIDLMDGDTPFTLKGLE 177 Query: 230 AGSTREVSK 238 G+ R V+K Sbjct: 178 PGAWRTVTK 186 >gi|332971549|gb|EGK10499.1| ribosomal large subunit pseudouridine synthase E [Kingella kingae ATCC 23330] Length = 203 Score = 63.2 bits (152), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 43/162 (26%), Positives = 77/162 (47%), Gaps = 23/162 (14%) Query: 79 HKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +KP G++ S + T+ D N+P+++ GRLD ++EGLLLLT+DG + Sbjct: 25 NKPYGIICQFSPHEKHRTLKDLVNVPNVYP----AGRLDTDSEGLLLLTDDGKQQARIAD 80 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL----------------- 179 P + + Y + G D DKL L++ + + Q+ L Sbjct: 81 PRNKITKTYWAQLEGSPDADKLARLQQPLDLGDFVAQPAQIRLLNENEIAQIWTRNPPIR 140 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + + + W+ + +REGKNR+++++ + RLIR+ G Sbjct: 141 ERKTVPDFWLQIQIREGKNRQVRRMTAKAGYPCLRLIRVGIG 182 >gi|221234852|ref|YP_002517288.1| ribosomal small subunit pseudouridine synthase A [Caulobacter crescentus NA1000] gi|220964024|gb|ACL95380.1| ribosomal small subunit pseudouridine synthase A [Caulobacter crescentus NA1000] Length = 246 Score = 63.2 bits (152), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 59/240 (24%), Positives = 111/240 (46%), Gaps = 14/240 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLE----RAAVNVMSTDHIEVDGVPLRKA 70 R+ +++A G SR+EV+ ++A +V ++G +L+ R AV+ + + + G P+ Sbjct: 8 RLDRLLANLGYGSRKEVQALVAGGKVVLDGAILKDAGARIAVDATLPERMTIRGAPVDPP 67 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINTEGLLLLTN 126 L + HKP+G+V +H + DG ++D LP + + +VGRLD +T GL+L+T+ Sbjct: 68 APLVL-IMHKPLGVVCSHKE-DGEK-IYDLLPRRWRLRDPGLSTVGRLDKDTSGLILITD 124 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG + P + Y ++ + + G +++ + LD Sbjct: 125 DGDFLHRVISPKRHVPKTYLATLDRPLNGSEGEVFAAGTLMLDSEEKPLLPARLDVVNAH 184 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 A +T+ EG+ +++++F V L R G L LA + EQ+ Sbjct: 185 AARLTI--TEGRYHQVRRMFAAVGNHVVALHRERIGGIALPDDLAAGQHRILTAAAAEQV 242 >gi|238028429|ref|YP_002912660.1| Pseudouridine synthase [Burkholderia glumae BGR1] gi|237877623|gb|ACR29956.1| Pseudouridine synthase [Burkholderia glumae BGR1] Length = 192 Score = 63.2 bits (152), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 50/190 (26%), Positives = 86/190 (45%), Gaps = 27/190 (14%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLE 135 +KP G + S + R ++ D + P ++ GRLD ++EGLLLLT+DG L AR+ E Sbjct: 7 NKPFGTICQFSPHETRPSLGDWVRAPGVYP----AGRLDADSEGLLLLTDDGALQARIAE 62 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS---------- 185 P + ++ Y + G D L L +G+ + + +L + Sbjct: 63 -PRHKLVKRYWAQVEGAPDAAALKALARGVDLGDYVTRPCRASLVEPPATLWPRTPPVRF 121 Query: 186 -----NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP---FQLGTLLAGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G F LG L G T E+ Sbjct: 122 RAAIPTTWIELAISEGKNRQVRRMTAAVGFPTLRLVRVGIGALDLFALG-LAPGETIELP 180 Query: 238 KKILREQLGP 247 + + P Sbjct: 181 PRAPWDGFAP 190 >gi|115352585|ref|YP_774424.1| pseudouridine synthase, Rsu [Burkholderia ambifaria AMMD] gi|115282573|gb|ABI88090.1| ribosomal small subunit pseudouridine synthase A [Burkholderia ambifaria AMMD] Length = 238 Score = 63.2 bits (152), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 61/225 (27%), Positives = 93/225 (41%), Gaps = 21/225 (9%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + ++ G SRR+ +I RV V G A + DG+ + Sbjct: 3 LESILYTQGFGSRRQCRGLIETGRVTVAG------ASATDPDASFDTDGLVFTVDDTA-- 54 Query: 76 WLYH--------KPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLT 125 W +H KP G + DP ++VF LP+ + V VGRLD +T GLLLL+ Sbjct: 55 WPFHARAYLALNKPAGYECSR-DPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLS 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG P + + Y +D +LN L+ G+ + G V + Sbjct: 114 DDGQFVHAYTSPKRKVPKTYVATVRHPLDDTQLNALRAGVQLHGEPKPIAAVAAHARDTH 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +TV EGK ++K++ + +V L R S G F L LA Sbjct: 174 ALALTV--LEGKYHQVKRMVAAASNRVEALHRESIGGFTLPEDLA 216 >gi|170697674|ref|ZP_02888762.1| pseudouridine synthase [Burkholderia ambifaria IOP40-10] gi|170137422|gb|EDT05662.1| pseudouridine synthase [Burkholderia ambifaria IOP40-10] Length = 238 Score = 63.2 bits (152), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 61/225 (27%), Positives = 93/225 (41%), Gaps = 21/225 (9%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + ++ G SRR+ +I RV V G A + DG+ + Sbjct: 3 LESILYTQGFGSRRQCRGLIETGRVSVAG------ASATDPDASFDTDGLVFTVDDTA-- 54 Query: 76 WLYH--------KPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLT 125 W +H KP G + DP ++VF LP+ + V VGRLD +T GLLLL+ Sbjct: 55 WPFHARAYLALNKPAGYECSR-DPQHHASVFSLLPTPLVARGVQCVGRLDQDTTGLLLLS 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG P + + Y +D +LN L+ G+ + G V + Sbjct: 114 DDGQFVHAYTSPKRKVPKTYVATVRHPLDDTQLNALRAGVQLHGEPKPIAAVAAHARDTH 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +TV EGK ++K++ + +V L R S G F L LA Sbjct: 174 ALALTV--LEGKYHQVKRMVAAASNRVEALHRESIGGFTLPDDLA 216 >gi|218709591|ref|YP_002417212.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio splendidus LGP32] gi|218322610|emb|CAV18769.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio splendidus LGP32] Length = 241 Score = 63.2 bits (152), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 62/234 (26%), Positives = 112/234 (47%), Gaps = 24/234 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + ++ ++ E + I V VN +++ + V ++ I ++G L E R Sbjct: 11 RLDKYLCKSTELTKLEAVQRIQNGEVSVNSVVVLDESTQVHESNAILLNGDALTLRE-FR 69 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--------SRVISVGRLDINTEGLLLLTN 126 L HKP G + ++ D + PS+F S + GRLD +T GL+L+T+ Sbjct: 70 YILMHKPAGTICSNID--------EVYPSLFNYLELEKASELHIAGRLDADTTGLVLITD 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKG 184 DG + + LP+ +VYRV + D + K GI +Q G+ ++T + + Sbjct: 122 DGRWSFNITLPTKSCKKVYRVILSRDIKDDVADKFKAGIQLQ----GEQKLTRPAELEVI 177 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 ++ V + + EGK ++K++F +V L R G +L + AG R ++K Sbjct: 178 TSKEVLLTITEGKFHQVKRMFAAVGNRVVGLHREQIGDVRLD-VEAGQWRYLTK 230 >gi|94310374|ref|YP_583584.1| pseudouridine synthase, Rsu [Cupriavidus metallidurans CH34] gi|93354226|gb|ABF08315.1| 16S rRNA uridine-516 pseudouridylate synthase [Cupriavidus metallidurans CH34] Length = 610 Score = 63.2 bits (152), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 67/250 (26%), Positives = 108/250 (43%), Gaps = 36/250 (14%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKAERT 73 R+SK ++ G+ SRRE + I + V V+G + + IE+ + ER Sbjct: 359 RLSKRMSELGLCSRREADEWIPRGWVLVDGKPVTELGTRIRPEAEIEILQAARSEQGERV 418 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV-----------FDNLPSIFS-----RVISVGRLDIN 117 + L +KP+G V+ ++ DG D F+ + GRLDI+ Sbjct: 419 TV-LLNKPVGYVSGQAE-DGYEPAAVLFAPENQWELDPTRKRFAPWQRKNLAPAGRLDID 476 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------------DKLNLLKKG 164 + GLL+LT DG +AR L + + Y VR + Q D L L+ G Sbjct: 477 STGLLVLTQDGRVARALIGDDSNVEKEYLVRVEWESPQGLVERNISAVFPDDLLERLRHG 536 Query: 165 IVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 + + G+ +V+ ++ + LREG+ R+I+++ E KV L R+ G Sbjct: 537 LSLDGVALKPAKVSWQNEE----QLRFVLREGRKRQIRRMCEQVGLKVVGLKRVRMGRVV 592 Query: 225 LGTLLAGSTR 234 LG L G R Sbjct: 593 LGDLPPGQWR 602 >gi|269968137|ref|ZP_06182172.1| ribosomal small subunit pseudouridine synthase A [Vibrio alginolyticus 40B] gi|269827268|gb|EEZ81567.1| ribosomal small subunit pseudouridine synthase A [Vibrio alginolyticus 40B] Length = 233 Score = 63.2 bits (152), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 57/221 (25%), Positives = 99/221 (44%), Gaps = 13/221 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----EVDGVPLRKA 70 R+ K + A A+R++ ++I + V+G + + A V + V G P Sbjct: 2 RLDKYLCDALGATRKQATKIIKSGDITVDGEVQKSGAFKVPKGAEVMWEDRVIGAP---- 57 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDG 128 R + +KP V +H D + T F L P I + GRLD++T GL+L+T+DG Sbjct: 58 -GPRYIMLYKPADFVCSHEDGYNQ-TAFALLDEPKI-ENLHFAGRLDVDTTGLVLITDDG 114 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + P + + YRV + D L++GI+++ + L+ + Sbjct: 115 KWSHRITSPKHKCEKTYRVWLVDAIQPDYAEKLEQGIILRNESEATLPARLEIVNEAENE 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V + + EGK ++K++F KV L R G +L L Sbjct: 175 VLLTIVEGKYHQVKRMFAALGNKVEYLHRERIGSIELDEAL 215 >gi|260549672|ref|ZP_05823889.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter sp. RUH2624] gi|260407189|gb|EEX00665.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter sp. RUH2624] Length = 262 Score = 63.2 bits (152), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 46/181 (25%), Positives = 88/181 (48%), Gaps = 21/181 (11%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ + +KP +++ + TV D + R+ GRLD+++EGL+ LT+ GGL + Sbjct: 2 KIVILNKPYDVLSQFRKDEAHMTVSDFIDDPTLRI--AGRLDMDSEGLVFLTDHGGLNQF 59 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--------QGICYGDMQVTLDTQKG- 184 + P+ + + Y V+ G V ++ L L+KG+ + + I + + D Sbjct: 60 ITNPANKKYKTYLVQVDGDVTEEALEQLRKGVELNDGMTLPAKAIKVSEPEWLWDRDPPV 119 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF---QLGTLLAGSTRE 235 +W+ + + EG+NR+++++ + RLIR G QLG L G T+E Sbjct: 120 RYRASIPTSWIEISICEGRNRQVRRMTSAVGFPTLRLIRTKIGSIDLVQLG-LQPGETKE 178 Query: 236 V 236 + Sbjct: 179 I 179 >gi|207723350|ref|YP_002253749.1| ribosomal small subunit pseudouridine synthase a protein [Ralstonia solanacearum MolK2] gi|206588549|emb|CAQ35512.1| ribosomal small subunit pseudouridine synthase a protein [Ralstonia solanacearum MolK2] Length = 253 Score = 63.2 bits (152), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 73/251 (29%), Positives = 113/251 (45%), Gaps = 38/251 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G + V IE+ +P ++E+ Sbjct: 2 RLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVRPDAEIEI--LPAARSEQGE 59 Query: 75 --LWLYHKPIGLVTTHSDPDGR---STVF--------DNLPSIFSR-----VISVGRLDI 116 L HKP+G V+ ++ DG +T+F D F+ + GRLDI Sbjct: 60 RVTVLLHKPMGYVSGQAE-DGYEPAATLFTAENQWEEDPTHKRFAAWQHKGLAPAGRLDI 118 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF-----HGQVDQD--------KLNLLKK 163 ++ GLL+LT DG +AR L + + Y VR G V+ D L L+ Sbjct: 119 DSTGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWDAPQGPVEHDISKVFPEELLEKLRH 178 Query: 164 GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 G+ + G +V+ ++ + LREGK R+I+++ E V L RI G Sbjct: 179 GLSLDGEALKPAKVSWQNEEQ----LRFVLREGKKRQIRRMCEQVGLTVVGLKRIRMGSV 234 Query: 224 QLGTLLAGSTR 234 LG L G R Sbjct: 235 VLGDLPVGKWR 245 >gi|331006460|ref|ZP_08329763.1| Ribosomal small subunit pseudouridine synthase A [gamma proteobacterium IMCC1989] gi|330419760|gb|EGG94123.1| Ribosomal small subunit pseudouridine synthase A [gamma proteobacterium IMCC1989] Length = 235 Score = 63.2 bits (152), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 60/225 (26%), Positives = 103/225 (45%), Gaps = 27/225 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + ++ ++ + + I V VNG ++ + V + + + GV L A R Sbjct: 2 RLDKFVCKSTQLTKADAVQCIHLGEVGVNGEVITSESTQVHENNTVTLRGVKL-IARDFR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--------SRVISVGRLDINTEGLLLLTN 126 L HKP G + ++ D + PS+F S + GRLD++T GL+L+T+ Sbjct: 61 YILMHKPAGTICSNID--------EVYPSLFNSLDVENVSELHIAGRLDVDTTGLVLITD 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL----KKGIVIQGICYGDMQVTLDT- 181 DG + +PS Q + YRV + D ++ L G+ +Q G+ Q+TL Sbjct: 113 DGRWTFDITVPSKQCAKTYRVTLSRGIAADGVDDLVSRFAAGVKLQ----GEQQLTLPAT 168 Query: 182 -QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 Q + V + + EGK ++K++F +V L R G L Sbjct: 169 LQVITPTEVLLTITEGKFHQVKRMFAAVGHRVVALHRERIGDICL 213 >gi|304311685|ref|YP_003811283.1| Ribosomal small subunit pseudouridine synthase A [gamma proteobacterium HdN1] gi|301797418|emb|CBL45638.1| Ribosomal small subunit pseudouridine synthase A [gamma proteobacterium HdN1] Length = 248 Score = 63.2 bits (152), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 62/229 (27%), Positives = 104/229 (45%), Gaps = 12/229 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKAE 71 QR+ + ++++G SR + I V +NG L A+ + D H D V A Sbjct: 15 QRLDRFLSQSGRLSRSMARKAILAGEVTINGTLCRDASTKIGPNDTVHHHHDIV---VAP 71 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRS-TVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGG 129 + HKP G+V + DGR TV D L + + + GRLDI+T GL+LLT+DG Sbjct: 72 SHHYLMLHKPEGVVC--ATEDGRHRTVIDLLGEPWRSDLHIAGRLDIDTTGLVLLTSDGD 129 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + P + Y V + ++G+++ G L+ +A Sbjct: 130 WSHRVTSPRHNKAKRYHVTTADPIASSWCASFEQGVMLDGETKLTRPAQLEILDEFHA-- 187 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 + L+EG+ ++K++F +V +L R + G L TL G R ++ Sbjct: 188 NLCLQEGRYHQVKRMFAAMGTRVVKLHRYAIGELILDNTLPLGHYRALT 236 >gi|262279508|ref|ZP_06057293.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter calcoaceticus RUH2202] gi|262259859|gb|EEY78592.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter calcoaceticus RUH2202] Length = 234 Score = 63.2 bits (152), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 57/222 (25%), Positives = 101/222 (45%), Gaps = 13/222 (5%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + K++ G SR+ +++I V V+G + + S +++E R ++ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVSVDGEIADDLKKQ-FSPENLEFSLFGQTYQYREQV 61 Query: 76 WL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 ++ KP G +H P +VF LP I V ++GRLD +T GLLLLT+DG + Sbjct: 62 YIALKKPKGFECSHQ-PQHHQSVFSLLPEIMIHRGVQAIGRLDQDTTGLLLLTDDGKYLQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWV 189 L P +VY V V +++ +L +G+ + +GI L+T + + Sbjct: 121 ALTHPRKHVPKVYHVTTLDPVTPEQIAMLSEGVSLHQEKGIFAATDVAMLETHQ-----L 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 T+ + +G ++K++ KV L R G L + G Sbjct: 176 TMTIHQGVYHQVKRMIAAVGNKVEALHRHQVGQLVLPEIADG 217 >gi|288575200|ref|ZP_05976507.2| ribosomal large subunit pseudouridine synthase E [Neisseria mucosa ATCC 25996] gi|288568153|gb|EFC89713.1| ribosomal large subunit pseudouridine synthase E [Neisseria mucosa ATCC 25996] Length = 188 Score = 63.2 bits (152), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 48/173 (27%), Positives = 82/173 (47%), Gaps = 26/173 (15%) Query: 80 KPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 KP G++ S + + D +LP + GRLD ++EGLLLLTNDG L + P Sbjct: 11 KPYGVICQFSAHEKYGCLKDYVSLPDFYP----AGRLDTDSEGLLLLTNDGRLQARIADP 66 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGS----------- 185 + + Y + G D+ KL++L++G+ + +V L+T + Sbjct: 67 KFKLEKTYWAQVEGSPDEAKLDMLRRGVDLGDFVTRPAKVRVLETGEADVLWQRVPPIRV 126 Query: 186 -----NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG---PFQLGTLLA 230 + WV + + EGKNR+++++ + RL+R++ G F LG L Sbjct: 127 RKSVPDFWVEIRISEGKNRQVRRMTAKAGFPCLRLVRVAIGRLNLFDLGLALG 179 >gi|268682366|ref|ZP_06149228.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae PID332] gi|268622650|gb|EEZ55050.1| ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae PID332] Length = 230 Score = 63.2 bits (152), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 50/199 (25%), Positives = 93/199 (46%), Gaps = 16/199 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLRKAER 72 ++ K + GI SR++ + +I V +NG ++ ++ S+ + +++DG + Sbjct: 2 KLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSYVETLDIDGEAVTVVPE 61 Query: 73 TRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDGG 129 + L +KP T+H P +VF P + +VGRLD +T G+LL+TNDG Sbjct: 62 PYFYILLNKPEDYETSHK-PKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGS 185 L L PS + ++Y V + LK G+ + + +C D + T Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVPLHDENETVCAADAVLENPTT--- 177 Query: 186 NAWVTVGLREGKNREIKKV 204 + + + EGK ++K++ Sbjct: 178 ---LLLTITEGKYHQVKRM 193 >gi|300311490|ref|YP_003775582.1| RNA pseudouridylate synthase [Herbaspirillum seropedicae SmR1] gi|300074275|gb|ADJ63674.1| RNA pseudouridylate synthase protein [Herbaspirillum seropedicae SmR1] Length = 248 Score = 63.2 bits (152), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 65/242 (26%), Positives = 113/242 (46%), Gaps = 25/242 (10%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVPLRKAE 71 P R+SK ++ G+ SRRE + I + V+V+G+++ V+ + V+ +A+ Sbjct: 4 PVRLSKRMSELGLCSRREADEWIEKGWVRVDGVVVSVLGSKVLPHQKVTVERQASAEQAQ 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVF----------DNL-----PSIFSRVISVGRLDI 116 R + L +KP+G V+ ++ + V D P ++ GRLDI Sbjct: 64 RVTI-LLNKPMGYVSGQAEDGYKPAVVLVNEQSRWAEDQTEMRFHPRQLKSLVPAGRLDI 122 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH----GQVDQDKLNLLKKGIVIQGICY 172 ++ GLL+LT DG +A+ L + + Y VR G++ + L L G+++ G Sbjct: 123 DSVGLLVLTQDGRIAKQLIGEDSAVDKEYLVRVQYTRPGKLPESDLKRLNHGLIMDGKPL 182 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 +V + + LREGK R+I+++ + KV L R+ G +LG L G Sbjct: 183 RPAKVVWQNEDQ----LRFTLREGKKRQIRRMCDMVGLKVIGLKRVRIGGVKLGELPTGQ 238 Query: 233 TR 234 R Sbjct: 239 WR 240 >gi|262372211|ref|ZP_06065490.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter junii SH205] gi|262312236|gb|EEY93321.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter junii SH205] Length = 237 Score = 63.2 bits (152), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 60/240 (25%), Positives = 107/240 (44%), Gaps = 16/240 (6%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--EVDGVPLRKAERT 73 + K++ G SR+ +++I V + + + N T+H+ EV G E Sbjct: 3 LEKILQSQGFGSRKYCQQIIKNGSVTIENQICDNPKQN-FPTEHLCFEVFGEEYLFRENV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 + L +KP G +H +S VF P I + VGRLD +T GLLLLT+DG Sbjct: 62 YIVL-NKPKGYECSHQATHHKS-VFSLFPEILLHRGIQCVGRLDQDTTGLLLLTDDGQYL 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + L P +VY V + Q++ L++G+ ++ + D S +++ Sbjct: 120 QALTNPRKHVPKVYHVTTADPITQEQKQALEQGVELRN--EKGIYAATDVHLFSEHQLSM 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL-------LAGSTREVSKKILREQ 244 + +G ++K++ KV L R G F+L + L+ + +++S I E+ Sbjct: 178 TIHQGIYHQVKRMLAAVGNKVEDLHRHQVGLFELPKIPEGEWLYLSATQKQLSHNIALEK 237 >gi|239501492|ref|ZP_04660802.1| hypothetical protein AbauAB_04211 [Acinetobacter baumannii AB900] Length = 234 Score = 63.2 bits (152), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 60/235 (25%), Positives = 106/235 (45%), Gaps = 18/235 (7%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + K++ G SR+ +++I V ++G ++ S ++ E R ++ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVSIDGEVVGDLKKQ-FSPENFEFSVFGQNYQYREKI 61 Query: 76 WL-YHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ KP G +H P +VF LP I V +VGRLD +T GLLLLT+DG + Sbjct: 62 YIALRKPQGFECSHH-PQHHQSVFSLLPETMIHRGVQAVGRLDQDTTGLLLLTDDGKYLQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWV 189 L P +VY V + V +++ +L +G+ + +G+ L T + + Sbjct: 121 ALTHPRKHVPKVYHVTTYDPVTPEQIEMLTQGVNLHQEKGVFAATDVALLGTHQ-----L 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 T+ + +G ++K++ KV +L R Q+G L+ E L EQ Sbjct: 176 TMTIHQGVYHQVKRMIAAVGNKVEKLHR-----HQIGQLVLPEIEEGGWVYLSEQ 225 >gi|330446105|ref|ZP_08309757.1| 16S rRNA pseudouridine 516 synthase [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|328490296|dbj|GAA04254.1| 16S rRNA pseudouridine 516 synthase [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 231 Score = 63.2 bits (152), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 55/212 (25%), Positives = 98/212 (46%), Gaps = 5/212 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + +R+E +++ + V+VNG ++ +V V +E +G L + R Sbjct: 2 RLDKFLGTTLGITRKEAGKILKDRMVEVNGEVVRNGSVQVSDDCDVEFNGRSL-SLQGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V +H D D T+F I + V GRLD +T GL+L+T+DG + Sbjct: 61 YYMLNKPQGFVCSHVD-DFNPTIFVLFDEISPEKMHVAGRLDGDTTGLVLVTDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + +D + G+ ++ L+ + A +T+ Sbjct: 120 ITSPRHVCEKTYYVETADPITEDYIQQFADGVQLRSEKELTRPAKLEILGENEALLTI-- 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EGK ++K++F KV L R G +L Sbjct: 178 TEGKYHQVKRMFAAMGNKVVGLHRERVGAVEL 209 >gi|223940798|ref|ZP_03632631.1| pseudouridine synthase [bacterium Ellin514] gi|223890528|gb|EEF57056.1| pseudouridine synthase [bacterium Ellin514] Length = 192 Score = 63.2 bits (152), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 49/174 (28%), Positives = 77/174 (44%), Gaps = 26/174 (14%) Query: 78 YHKPIGLVT--THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 ++KP G+++ T R P V +GRLD ++EGLLLL+++ L L Sbjct: 5 FNKPYGVLSQFTRDGSPNRPLAHFGFPK---NVYPIGRLDADSEGLLLLSDEAALNERLL 61 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----ICYGDMQVTLDTQKG------- 184 P Q R+Y + + L L+KG+++Q C + +D Q Sbjct: 62 HPRQQHGRIYWAQVEHVPSPEVLTRLEKGVIVQARRTLPCKAWL---IDPQPAVPPRVPP 118 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 WV + L EGKNR+++++ RL+R+ G FQL L AG Sbjct: 119 IRERKSIPAVWVGLELVEGKNRQVRRMTAAVGHPTLRLMRMQIGKFQLADLPAG 172 >gi|126732067|ref|ZP_01747869.1| RNA pseudouridylate synthase [Sagittula stellata E-37] gi|126707356|gb|EBA06420.1| RNA pseudouridylate synthase [Sagittula stellata E-37] Length = 181 Score = 63.2 bits (152), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 45/180 (25%), Positives = 85/180 (47%), Gaps = 16/180 (8%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 R+ L++KP+G+++ +D + L V GRLD ++EGLL+LT+DG L Sbjct: 2 ARVILFNKPMGVLSQFTDKGNADSPRSTLSEFVDVKGVYPAGRLDRDSEGLLVLTDDGRL 61 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT-------- 181 + P + + Y V+ G +D++ L+ G+ + G V +D Sbjct: 62 QARIASPKFKRPKTYLVQVEGTPSEDQIRALRAGVDLNDGPTRRAECVAIDPPDLWPRNP 121 Query: 182 -----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + +AW+++ + EG+NR+++++ RL+R S G + + L G R+ Sbjct: 122 PVRFRKSVPDAWLSLTISEGRNRQVRRMTAHVGLPCLRLVRWSVGDWSVEGLAPGEWRDA 181 >gi|307294620|ref|ZP_07574462.1| pseudouridine synthase [Sphingobium chlorophenolicum L-1] gi|306879094|gb|EFN10312.1| pseudouridine synthase [Sphingobium chlorophenolicum L-1] Length = 180 Score = 63.2 bits (152), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 46/179 (25%), Positives = 82/179 (45%), Gaps = 23/179 (12%) Query: 77 LYHKPIGLVTTHSD-----PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L++KP G++ +D P F P ++ GRLD+++EGLLLLT+DG L Sbjct: 5 LFNKPYGVLCQFTDESTGPPRPTLAAFIKRPGVYP----AGRLDLDSEGLLLLTDDGRLQ 60 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDT--------- 181 + P + + Y + G D+ L L++G+ ++ QV +D Sbjct: 61 AQIADPRFKTPKTYLAQVEGDPDEAALEALRRGVKLKDGPTLPAQVERIDDPALWPRDPP 120 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + W+ + +REG+NR+++++ RL+R G + L + G RE Sbjct: 121 VRFRKSVPDCWLRLTIREGRNRQVRRMTAAVGHPTLRLVRWRIGDWTLDGIAQGQWREA 179 >gi|169632786|ref|YP_001706522.1| putative pseudouridine synthase [Acinetobacter baumannii SDF] gi|169151578|emb|CAP00355.1| putative pseudouridine synthase [Acinetobacter baumannii] Length = 262 Score = 63.2 bits (152), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 46/181 (25%), Positives = 88/181 (48%), Gaps = 21/181 (11%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ + +KP +++ + TV D + R+ GRLD+++EGL+ LT+ GGL + Sbjct: 2 KIVILNKPYDVLSQFRKDEAHMTVSDFVDDPTLRI--AGRLDMDSEGLVFLTDHGGLNQF 59 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--------QGICYGDMQVTLDTQKG- 184 + P+ + + Y V+ G V ++ L L+KG+ + + I + + D Sbjct: 60 ITNPANKKYKTYLVQVDGDVTEEALEQLRKGVELNDGMTLPAKAIKVSEPEWLWDRDPPV 119 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF---QLGTLLAGSTRE 235 +W+ + + EG+NR+++++ + RLIR G QLG L G T+E Sbjct: 120 RYRASIPTSWIEISICEGRNRQVRRMTSAVGFPTLRLIRTKIGTIDLVQLG-LQPGETKE 178 Query: 236 V 236 + Sbjct: 179 I 179 >gi|169795136|ref|YP_001712929.1| putative pseudouridine synthase [Acinetobacter baumannii AYE] gi|184159008|ref|YP_001847347.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter baumannii ACICU] gi|239501106|ref|ZP_04660416.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter baumannii AB900] gi|260556624|ref|ZP_05828842.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter baumannii ATCC 19606] gi|301348363|ref|ZP_07229104.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter baumannii AB056] gi|301511564|ref|ZP_07236801.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter baumannii AB058] gi|301596990|ref|ZP_07241998.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter baumannii AB059] gi|332853984|ref|ZP_08435100.1| pseudouridylate synthase [Acinetobacter baumannii 6013150] gi|332869736|ref|ZP_08438924.1| pseudouridylate synthase [Acinetobacter baumannii 6013113] gi|332874787|ref|ZP_08442657.1| pseudouridylate synthase [Acinetobacter baumannii 6014059] gi|169148063|emb|CAM85926.1| putative pseudouridine synthase [Acinetobacter baumannii AYE] gi|183210602|gb|ACC58000.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter baumannii ACICU] gi|193077980|gb|ABO12894.2| putative pseudouridine synthase [Acinetobacter baumannii ATCC 17978] gi|260409883|gb|EEX03183.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter baumannii ATCC 19606] gi|332728266|gb|EGJ59648.1| pseudouridylate synthase [Acinetobacter baumannii 6013150] gi|332732638|gb|EGJ63871.1| pseudouridylate synthase [Acinetobacter baumannii 6013113] gi|332737048|gb|EGJ68005.1| pseudouridylate synthase [Acinetobacter baumannii 6014059] Length = 262 Score = 62.8 bits (151), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 46/181 (25%), Positives = 88/181 (48%), Gaps = 21/181 (11%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ + +KP +++ + TV D + R+ GRLD+++EGL+ LT+ GGL + Sbjct: 2 KIVILNKPYDVLSQFRKDEAHMTVSDFVDDPTLRI--AGRLDMDSEGLVFLTDHGGLNQF 59 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--------QGICYGDMQVTLDTQKG- 184 + P+ + + Y V+ G V ++ L L+KG+ + + I + + D Sbjct: 60 ITNPANKKYKTYLVQVDGDVTEEALEQLRKGVELNDGMTLPAKAIKVSEPEWLWDRDPPV 119 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF---QLGTLLAGSTRE 235 +W+ + + EG+NR+++++ + RLIR G QLG L G T+E Sbjct: 120 RYRASIPTSWIEISICEGRNRQVRRMTSAVGFPTLRLIRTKIGTIDLVQLG-LQPGETKE 178 Query: 236 V 236 + Sbjct: 179 I 179 >gi|299067456|emb|CBJ38655.1| Pseudouridine synthase [Ralstonia solanacearum CMR15] Length = 687 Score = 62.8 bits (151), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 69/255 (27%), Positives = 115/255 (45%), Gaps = 46/255 (18%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G + V +E+ +P ++E+ Sbjct: 436 RLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVRPDAEVEI--LPAARSEQGE 493 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--------------------VISVG 112 L HKP+G V+ ++ DG ++ ++F+ + G Sbjct: 494 RVTVLLHKPVGYVSGQAE-DG----YEPAAALFTAENQWEEDPTRKHFAAWQHKGLAPAG 548 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF-----HGQVD--------QDKLN 159 RLDI++ GLL+LT DG +AR L + + Y VR G V+ +D L Sbjct: 549 RLDIDSTGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWNAPQGPVEHDISKVFPEDLLE 608 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 +L+ G+ + G +V+ ++ + LREGK R+I+++ E +V L RI Sbjct: 609 MLRHGLSLDGEALKPAKVSWQNEE----QLRFVLREGKKRQIRRMCEQVGLEVVGLKRIR 664 Query: 220 YGPFQLGTLLAGSTR 234 G LG L G R Sbjct: 665 MGSIVLGDLPVGKWR 679 >gi|163736511|ref|ZP_02143930.1| hypothetical protein RGBS107_15306 [Phaeobacter gallaeciensis BS107] gi|161390381|gb|EDQ14731.1| hypothetical protein RGBS107_15306 [Phaeobacter gallaeciensis BS107] Length = 232 Score = 62.8 bits (151), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 47/185 (25%), Positives = 88/185 (47%), Gaps = 25/185 (13%) Query: 73 TRLWLYHKPIGLVTTH----SDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTN 126 TRL ++KP ++ SD R+T+ D +LP ++ GRLD ++EGL+LLT+ Sbjct: 2 TRLIRFNKPYDVLPQFTDRGSDSSPRATLSDWIDLPGVYP----AGRLDRDSEGLMLLTD 57 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG- 184 G L + P + + Y V+ G D + L G+ ++ G+ ++ +G Sbjct: 58 HGRLQAWISDPQHKMPKTYWVQVEGTPDAAAIQALANGVELKDGMTRPAKAALIEEPEGI 117 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 ++W+ + +REG+NR+++++ RLIR + G + L L G Sbjct: 118 WARNPPIRVRKSVPDSWIALTIREGRNRQVRRMTAAVGHPTLRLIRAAIGIWTLDGLSPG 177 Query: 232 STREV 236 + ++ Sbjct: 178 TWEDL 182 >gi|94311828|ref|YP_585038.1| ribosomal large subunit pseudouridine synthase E [Cupriavidus metallidurans CH34] gi|93355680|gb|ABF09769.1| 23S rRNA pseudouridine synthase [Cupriavidus metallidurans CH34] Length = 214 Score = 62.8 bits (151), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 47/173 (27%), Positives = 80/173 (46%), Gaps = 33/173 (19%) Query: 79 HKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +KP ++ S R+T+ D ++P ++ GRLD ++EGLLLLT+DG L + Sbjct: 7 NKPYQTMSQFSAHPSRATLADCVDVPGVYP----AGRLDADSEGLLLLTDDGALQARIAD 62 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P + ++ Y + G D+ L L+ G+ + GD + TL + Sbjct: 63 PRHKLVKTYLAQVEGVPDEAALATLRTGVDL-----GDFK-TLPAKARVVDEPAWLWERH 116 Query: 185 ---------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + +REGKNR+++++ RL+RIS G +L L Sbjct: 117 PPIRYRAAIPTTWIELSIREGKNRQVRRMTAAVGLPTLRLVRISIGNLKLPEL 169 >gi|51244311|ref|YP_064195.1| pseudouridine synthase [Desulfotalea psychrophila LSv54] gi|50875348|emb|CAG35188.1| related to pseudouridine synthase [Desulfotalea psychrophila LSv54] Length = 230 Score = 62.8 bits (151), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 57/221 (25%), Positives = 105/221 (47%), Gaps = 13/221 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDGVPL--RKA 70 R+ K ++ G SR + E +I ++++ VNG ++A + V + I ++G L +K Sbjct: 2 RLQKFLSDIGYCSRGQAEDLIRKRKIMVNG---KQATLGDKVRGNEKIVIEGRLLERKKG 58 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ L+HKP + + + T+ D RV VG LD +EG+LLLTNDG + Sbjct: 59 PAKKVLLFHKPEAVDCSLAPSKTTKTLLD-FDFGTDRVFPVGYLDQASEGILLLTNDGEI 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L LP + Y + ++D + + L Q + +D ++ + Sbjct: 118 ANKLSLPEFRPEDEYLLTSPEEIDAEMIEKL-----TQARKAEKNKSVVDIEQIDAKHLR 172 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + G++++IKK+ E + +L+R+ G L L G Sbjct: 173 ILQQGGRSKDIKKMCEAVELVIEQLVRVRVGNITLEGLEKG 213 >gi|331005142|ref|ZP_08328543.1| Ribosomal small subunit pseudouridine synthase A [gamma proteobacterium IMCC1989] gi|330421061|gb|EGG95326.1| Ribosomal small subunit pseudouridine synthase A [gamma proteobacterium IMCC1989] Length = 232 Score = 62.8 bits (151), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 54/218 (24%), Positives = 102/218 (46%), Gaps = 6/218 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K ++ SR EV+R++ + VN + + AA+ + D I + PL A Sbjct: 2 RLDKYVSSVTDYSRAEVKRLLKNGSITVNDVSTKNAALQLDTQKDIICLFDEPL-SAPAP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLAR 132 R ++ +KPI + D TV D L ++ + + GRLD +T GL+L+T+DG + Sbjct: 61 RYFMLNKPIDTICATED-SMHPTVIDLLDEPNTQQLHIAGRLDKDTTGLVLITDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P+ ++ YRV + L++G+++ T++ + + + Sbjct: 120 QITSPNKHCIKTYRVELEEAFTETAKKALEEGVLLHNEKKPTRSSTVNI--INKYCIELA 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + EGK ++K++ V +L R G QL + L+ Sbjct: 178 ISEGKYHQVKRMLAAVGNHVKQLHRQQIGHIQLDSSLS 215 >gi|294142340|ref|YP_003558318.1| ribosomal large subunit pseudouridine synthase family protein [Shewanella violacea DSS12] gi|293328809|dbj|BAJ03540.1| ribosomal large subunit pseudouridine synthase family protein [Shewanella violacea DSS12] Length = 210 Score = 62.8 bits (151), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 44/152 (28%), Positives = 79/152 (51%), Gaps = 25/152 (16%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 ++++GRLD ++EGLLLLT DG ++ + S + + Y V+ G +D + + L++G+ I Sbjct: 58 IMAIGRLDHDSEGLLLLTTDGMVSHRVR--SKKVEKEYYVQVDGIIDDEAIIRLQQGVEI 115 Query: 168 QGICYGDMQVTL---------------------DTQKGSNAWVTVGLREGKNREIKKVFE 206 GI G+ +TL D + G +WV++ + EGKNR+I+K+ Sbjct: 116 -GI-KGEKYLTLPCKVVKLDGEPNLPDNGRRVRDPRHGPLSWVSITISEGKNRQIRKMTA 173 Query: 207 FFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + RL+R+ G L + G E+++ Sbjct: 174 AAGFPTMRLVRVRIGNIHLSDMQPGEVFELTQ 205 >gi|300692311|ref|YP_003753306.1| 16S rRNA pseudouridylate 516 synthase [Ralstonia solanacearum PSI07] gi|299079371|emb|CBJ52043.1| 16S rRNA pseudouridylate 516 synthase [Ralstonia solanacearum PSI07] Length = 252 Score = 62.8 bits (151), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 62/225 (27%), Positives = 98/225 (43%), Gaps = 25/225 (11%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTRLW 76 +++ G +RR + ++ V VNG+ E V + + +VDG R A R + Sbjct: 12 RILQSQGFGTRRYCKDLVFAGLVHVNGVEAEDPDTQVDTAGLVLDVDGE--RWAYHARAY 69 Query: 77 LY-HKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARV 133 L HKP G + P +V+ LP+ V VGRLD +T GLLLLT+DG Sbjct: 70 LMLHKPAGFECSQK-PRHHPSVYTLLPAPLRERGVQCVGRLDQDTTGLLLLTDDGQFVHT 128 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT--- 190 L P Q +VY + V ++ L +G+++ D V++ + AW Sbjct: 129 LTSPRHQVPKVYEITTAEPVTDAQVAQLCQGVLLD-----DEDVSV-----AAAWAERVD 178 Query: 191 -----VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + L +GK ++K++ V L R + G L LA Sbjct: 179 ALHLRMALTQGKYHQVKRMVAAAGNHVAALHRSAIGALTLDAGLA 223 >gi|299769553|ref|YP_003731579.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter sp. DR1] gi|298699641|gb|ADI90206.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter sp. DR1] Length = 234 Score = 62.8 bits (151), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 59/223 (26%), Positives = 103/223 (46%), Gaps = 15/223 (6%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--GVPLRKAERT 73 + K++ G SR+ +++I V ++G + + S +++E G + E+ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVSIDGEVADDLKKQ-FSPENLEFSLFGETYQYREKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 L L KP G +H P +VF LP I + V ++GRLD +T GLLLLT+DG Sbjct: 62 YLAL-KKPKGFECSHQ-PHHHQSVFSLLPEILIQRGVQAIGRLDQDTTGLLLLTDDGKYL 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAW 188 + L P +VY V V +++ +L +G+ + +G+ L+T + Sbjct: 120 QALTHPRKHVPKVYHVTTIDPVTPEQIEMLSQGVSLHQEKGVFAATDVKILETHQ----- 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +T+ + +G ++K++ KV L R G L L G Sbjct: 175 LTMTIHQGVYHQVKRMIAAVGNKVEALHRHQVGQLVLPELEDG 217 >gi|169633279|ref|YP_001707015.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter baumannii SDF] gi|169152071|emb|CAP00958.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter baumannii] Length = 234 Score = 62.8 bits (151), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 53/209 (25%), Positives = 96/209 (45%), Gaps = 7/209 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + K++ G SR+ +++I V ++G ++ S ++ E R ++ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVSIDGEVVSDLKKQ-FSPENFEFSVFGQNYQYREKI 61 Query: 76 WL-YHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ KP G +H P +VF LP I V +VGRLD +T GLLLLT+DG + Sbjct: 62 YIALRKPQGFECSHH-PQHHQSVFSLLPETMIHRGVQAVGRLDQDTTGLLLLTDDGKYLQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 VL P +VY V + V +++ +L +G+ + ++ D +T+ Sbjct: 121 VLTHPRKHVPKVYHVTTYDPVTPEQIEMLIQGVNLHQ--EKEVFAATDVALLGTHQLTMT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYG 221 + +G ++K++ KV +L R G Sbjct: 179 IHQGVYHQVKRMIAAVGNKVEKLHRHQIG 207 >gi|113476033|ref|YP_722094.1| pseudouridine synthase, Rsu [Trichodesmium erythraeum IMS101] gi|110167081|gb|ABG51621.1| Pseudouridine synthase, Rsu [Trichodesmium erythraeum IMS101] Length = 201 Score = 62.8 bits (151), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 52/182 (28%), Positives = 86/182 (47%), Gaps = 19/182 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDG---RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R L++KP +++ +D RS+ S+ S V VGRLD ++EGLLLLTN G L Sbjct: 7 RYILFNKPYNVLSQFTDNRNVKHRSSTLKEYISVDS-VYPVGRLDQDSEGLLLLTNHGQL 65 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------ 184 L P R Y V+ D L L++G++I+ +V L + + Sbjct: 66 QYRLSDPKFAHPRTYWVQVERIPDTIALKQLQEGVMIKNYQTRPAKVKLLSNEPLLPSRH 125 Query: 185 ---------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 AW+ + L EG+NR+++++ + RL+RI+ +L L G R+ Sbjct: 126 PPIRFRKTVPTAWLEITLTEGRNRQVRRMTAAVGFPTLRLVRIAIANLRLEGLKPGEWRD 185 Query: 236 VS 237 ++ Sbjct: 186 LN 187 >gi|37526757|ref|NP_930101.1| 16S rRNA pseudouridylate synthase A [Photorhabdus luminescens subsp. laumondii TTO1] gi|36786189|emb|CAE15241.1| ribosomal small subunit pseudouridine synthase A (16S pseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (uracil hydrolyase) [Photorhabdus luminescens subsp. laumondii TTO1] Length = 233 Score = 62.8 bits (151), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 52/226 (23%), Positives = 102/226 (45%), Gaps = 3/226 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR +V R + R+ V+ +++ A + + DG L + + R Sbjct: 2 RLDKFLSQQLGISRNDVGRELRAGRITVDDEIVKTGAYKLTPEQQVMFDGSLLEQQQGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DP + ++ ++ + GRLD++T GL+LLT+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPINPTVLYFIDEPAAHKLHTAGRLDMDTTGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V + + G+ + G L+ + A +T+ Sbjct: 122 TSPKHHCKKTYLVTLECPVAAETADKFLAGVQLNGEKTVTKPAQLEILEPQIARLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 EG+ ++K++F +V L R G L L G R ++++ Sbjct: 180 EGRYHQVKRMFAAVGNRVTALHRERIGEIILAPELEPGEYRSLTEQ 225 >gi|299067788|emb|CBJ38998.1| 16S rRNA pseudouridylate 516 synthase [Ralstonia solanacearum CMR15] Length = 239 Score = 62.8 bits (151), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 62/212 (29%), Positives = 96/212 (45%), Gaps = 11/212 (5%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTRLWLY-HKP 81 G +RR + ++ V VNG+ E V + + +VDG R A R +L HKP Sbjct: 5 GFGTRRYCKDLVFAGLVHVNGVEAEDPDAQVDTAGLVLDVDGE--RWAYHARAYLMLHKP 62 Query: 82 IGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVLELPST 139 G + P +V+ LP V VGRLD +T GLLLLT+DG L P Sbjct: 63 TGFECSQK-PRHHPSVYTLLPVPLRERGVQCVGRLDQDTTGLLLLTDDGQFVHTLTSPRH 121 Query: 140 QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW-VTVGLREGKN 198 Q +VY + V ++ L +G++++ D+ V + +A + + L +GK Sbjct: 122 QVPKVYEITTAEPVTDAQVTQLCQGVLLED---EDVPVVAAWAERVDACHLRMALTQGKY 178 Query: 199 REIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 ++K++ V L R + G LG LA Sbjct: 179 HQVKRMVAAAGNHVVALHRSAIGGLTLGADLA 210 >gi|163801131|ref|ZP_02195031.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. AND4] gi|159175480|gb|EDP60277.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. AND4] Length = 233 Score = 62.8 bits (151), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 53/216 (24%), Positives = 97/216 (44%), Gaps = 3/216 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A+R++ ++I V V+G + + + V +E +G L A R Sbjct: 2 RLDKYLCDGLGATRKQATKIIKSGDVTVDGEVQKSGSFKVPEAGVVEWEG-RLVGAPGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRST-VFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP V +H D + V + P + ++ GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPADFVCSHEDGHNPTAFVLLDEPKV-EKLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + D + +GI ++ + L+ + V + + Sbjct: 120 ITSPKHKCEKTYRVWLADAIQPDYIEKFAEGIELRNESGPTLPAHLEIVNEAENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 EGK ++K++F KV L R G L L Sbjct: 180 VEGKYHQVKRMFAALGNKVEYLHRERIGSIVLDEAL 215 >gi|262375434|ref|ZP_06068667.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter lwoffii SH145] gi|262309688|gb|EEY90818.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter lwoffii SH145] Length = 262 Score = 62.8 bits (151), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 40/143 (27%), Positives = 70/143 (48%), Gaps = 17/143 (11%) Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-G 169 GRLD+++EGL+ LT+ GGL + + P+ + + Y V+ G V ++ L L+KG+ ++ G Sbjct: 37 AGRLDMDSEGLVFLTDHGGLNQYITNPANKKFKTYMVQVEGDVTEEALEQLRKGVELKDG 96 Query: 170 ICYGDMQVTLDTQKG--------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRL 215 I + + +WV + + EG+NR+++++ + RL Sbjct: 97 ITLPARAEKVSEPEWLWERNPPVRFRASVPTSWVEISICEGRNRQVRRMTSAVGFPTLRL 156 Query: 216 IRISYGPFQL--GTLLAGSTREV 236 IR G L L G TRE+ Sbjct: 157 IRTKIGEIDLVRMGLQPGETREI 179 >gi|74316797|ref|YP_314537.1| ribosomal small subunit pseudouridine synthase A [Thiobacillus denitrificans ATCC 25259] gi|74056292|gb|AAZ96732.1| pseudouridine synthase, Rsu [Thiobacillus denitrificans ATCC 25259] Length = 240 Score = 62.8 bits (151), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 57/221 (25%), Positives = 92/221 (41%), Gaps = 21/221 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++ + + G+ SRR ++ V NG+ + EVD V L Sbjct: 2 KLYRALQSQGLGSRRGCAALVRAGAVLANGL--------ACADPEAEVDPVGLELTVDGT 53 Query: 75 LWLY--------HKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLL 124 +W Y HKP G +H P +VF LP+ + V VGRLD +T GLLL Sbjct: 54 VWAYRDKAYLVMHKPEGYECSHH-PRHHPSVFSLLPAPLVQRGVQCVGRLDQDTTGLLLF 112 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 ++DG + P + +VYR R V+ L L+ G+ + L + Sbjct: 113 SDDGQFIHRMTSPKKRVGKVYRARCAEPVNAATLAALRAGVQLND--EPAPLAALACEAV 170 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + + L EGK +++++ V RL R + G + L Sbjct: 171 DDRTLRLVLAEGKYHQVRRMIAAAGNHVARLHREAVGEYPL 211 >gi|332522623|ref|ZP_08398875.1| pseudouridylate synthase [Streptococcus porcinus str. Jelinkova 176] gi|332313887|gb|EGJ26872.1| pseudouridylate synthase [Streptococcus porcinus str. Jelinkova 176] Length = 239 Score = 62.8 bits (151), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 73/230 (31%), Positives = 117/230 (50%), Gaps = 10/230 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G SR +V+ ++ ++V VNG +A + + D +EV+G + E Sbjct: 2 RLDKFLAETGFGSRTQVKSLLKTKKVCVNGKKESQAKKQINPNLDRVEVEGQEVLYEEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ D TV D L + + V VGRLD +T GLLLLTN+G LA Sbjct: 62 -YYMLNKPKGVVSATQDK-VHQTVLDLLDATAKQKEVFPVGRLDKDTHGLLLLTNNGNLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICYGDMQ--VTLDTQKGSNAW 188 L P +VY G + + KKGI + C + + LD +K S + Sbjct: 120 HRLLSPKKHVNKVYVADVDGLMTNQDIEAFKKGIHLSDHQCQPALLEILALDYEK-SQSR 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 V + ++EGK ++K++ +V L R+ GP QL + LA G+ R++ Sbjct: 179 VKIVIKEGKFHQVKRMVLACGKEVRDLQRLEMGPLQLDSKLALGAFRKLE 228 >gi|296158908|ref|ZP_06841736.1| RNA-binding S4 domain protein [Burkholderia sp. Ch1-1] gi|295890783|gb|EFG70573.1| RNA-binding S4 domain protein [Burkholderia sp. Ch1-1] Length = 243 Score = 62.8 bits (151), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 61/242 (25%), Positives = 102/242 (42%), Gaps = 28/242 (11%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 ++ G+ SRRE + I + V V+G ++ V IE+D L H Sbjct: 1 MSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPDQRIEIDPAAEAAQASQVTVLIH 60 Query: 80 KPIGLVTTHSDPDGRSTVFDNLP---------------SIFSRVISVGRLDINTEGLLLL 124 K +G V+ ++ + + P + ++ GRLDI++ GLL+L Sbjct: 61 KTVGFVSGQAEDGYQPAITLVTPENRWEGDRSNIRFSVAHLRQLAPAGRLDIDSTGLLVL 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQGICYGDM 175 T DG +A+ L ++ + Y VR + L LL+ G+ + + Sbjct: 121 TQDGRIAKQLIGGHSEIDKEYLVRVAFGEHTTEVESHFPPESLALLRHGLSLDDVPLKPA 180 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 QV+ Q G + LREGK R+I+++ E +V L R+ G LG L G R Sbjct: 181 QVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGHVMLGALPPGQWRY 236 Query: 236 VS 237 ++ Sbjct: 237 LA 238 >gi|323526492|ref|YP_004228645.1| pseudouridine synthase [Burkholderia sp. CCGE1001] gi|323383494|gb|ADX55585.1| pseudouridine synthase [Burkholderia sp. CCGE1001] Length = 243 Score = 62.8 bits (151), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 62/239 (25%), Positives = 101/239 (42%), Gaps = 28/239 (11%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 ++ G+ SRRE + I + V V+G ++ V IE+D L H Sbjct: 1 MSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPDQRIEIDPAAEAAQASQVTVLIH 60 Query: 80 KPIGLVTTHSDPDGRSTVFDNLP---------------SIFSRVISVGRLDINTEGLLLL 124 K +G V+ ++ + + P + ++ GRLDI++ GLL+L Sbjct: 61 KTVGYVSGQAEDGYQPAITLVTPENRWEGDRSDIRFSVAHLRQLAPAGRLDIDSTGLLVL 120 Query: 125 TNDGGLARVL-----ELPSTQWLRV----YRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 T DG +A+ L E+ +RV + V + L LL+ G+ + + Sbjct: 121 TQDGRIAKQLIGGHSEIDKEYLVRVAYGEHTVDVESHFPPESLALLRHGLSLDDVPLKPA 180 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 QV+ Q G + LREGK R+I+++ E +V L R+ G LG L G R Sbjct: 181 QVSW--QNGEQ--LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALPPGQWR 235 >gi|187927714|ref|YP_001898201.1| pseudouridine synthase [Ralstonia pickettii 12J] gi|187724604|gb|ACD25769.1| pseudouridine synthase [Ralstonia pickettii 12J] Length = 248 Score = 62.8 bits (151), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 60/229 (26%), Positives = 99/229 (43%), Gaps = 25/229 (10%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTRLW 76 +++ G +RR + ++ V +NG+ +E V + + +VDG R A R + Sbjct: 11 RILQSQGFGTRRYCKDLVLAGLVFINGVEMESPDALVDTAGLVLDVDGE--RWAYHARAY 68 Query: 77 LY-HKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G V P +V+ LP V VGRLD +T GLLLLT+DG Sbjct: 69 LMLNKPAG-VECSQKPKHHPSVYTLLPVPLRERAVQCVGRLDQDTTGLLLLTDDGQFVHT 127 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT--- 190 + P Q +VY + V + ++ L G+++ + + + AW Sbjct: 128 ITSPRHQVPKVYEITTAEPVTEAQIAQLYAGVLLAD----------ENENVAAAWAERVD 177 Query: 191 -----VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L +GK ++K++ V+ L R + G LG L G R Sbjct: 178 THHLRMALTQGKYHQVKRMVAAAGNHVDGLHRSAIGGLSLGDLAPGEWR 226 >gi|319939885|ref|ZP_08014240.1| pseudouridine synthase [Streptococcus anginosus 1_2_62CV] gi|319810896|gb|EFW07215.1| pseudouridine synthase [Streptococcus anginosus 1_2_62CV] Length = 225 Score = 62.8 bits (151), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 65/213 (30%), Positives = 107/213 (50%), Gaps = 7/213 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K + G SR EV+R++ +++V VNG + A + + + D I V+ L +R Sbjct: 6 RLDKFLVEMGFGSRTEVKRLLKKKQVLVNGKIETSAKIQIDENQDEISVNNQVLI-YKRF 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D D TV D L V VG LDI+T GLLLLTN+G LA Sbjct: 65 VYYLLNKPKGVISATED-DKHRTVLDLLDENARQKEVFPVGWLDIDTHGLLLLTNNGTLA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWV 189 + P +VYR + G + + + + GI ++ ++T+ ++ + V Sbjct: 124 HAMLSPKKHAAKVYRAKVDGIITEKDVEHFEAGIELKDFTCRPAKLTILEVNEEPQTSLV 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGP 222 + + EGK + K++ + KV L R S GP Sbjct: 184 EITISEGKFHQEKRMVQACGKKVTDLERFSMGP 216 >gi|238021999|ref|ZP_04602425.1| hypothetical protein GCWU000324_01904 [Kingella oralis ATCC 51147] gi|237866613|gb|EEP67655.1| hypothetical protein GCWU000324_01904 [Kingella oralis ATCC 51147] Length = 230 Score = 62.8 bits (151), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 56/231 (24%), Positives = 105/231 (45%), Gaps = 22/231 (9%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNG--ILLERAAVNVMSTDHIEVDG-----VPLR 68 + K + GI +R+ + ++ Q V++NG I ++A V + + ++G +PL Sbjct: 3 IIKYLQAQGIDTRKGCQWLVKHQLVQINGDTIASDKAEVQPENVRSLSIEGEDALIIPLP 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTN 126 L +KP +H P +VF LP + + ++GRLD +T G+LL+TN Sbjct: 63 HF----YILLNKPADYEVSHK-PRDYPSVFTLLPDQIRAADIQAIGRLDADTTGVLLITN 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-- 184 DG + P + ++YR+ + LK G+++ D T+ Q+ Sbjct: 118 DGQFNHRMTSPKHKVAKIYRITLKHPASDTLCSSLKNGVLLH-----DDNETVAAQEAIL 172 Query: 185 -SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + + + EGK ++K++ +V +L R +G + L AG R Sbjct: 173 QTPTTLLMTISEGKYHQVKRMIAAAGNRVAQLHRQQFGDWDTQDLAAGEWR 223 >gi|238898376|ref|YP_002924057.1| 16S rRNA pseudouridylate 516 synthase [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] gi|229466135|gb|ACQ67909.1| 16S rRNA pseudouridylate 516 synthase [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] Length = 240 Score = 62.8 bits (151), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 52/230 (22%), Positives = 104/230 (45%), Gaps = 11/230 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ SR++V R + ++RV ++ ++ AV ++ + D L+ R Sbjct: 2 RLDRFLSHQLGKSRKQVTRALKEKRVILDSKVITNGAVKLLPEQKVLFDQQLLKYPITGR 61 Query: 75 LWLYHKPIGLVTTHSDPDGR--STVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G + + DP + FD ++ + + GRLDI+ GL+L+T+DG + Sbjct: 62 YFMLNKPKGYLCSTRDPHHPVVNDFFDE--TVSGELHAAGRLDIDATGLVLMTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVT 190 L P + Y V + D G+ ++ Q+ + T + +T Sbjct: 120 RLTSPKYHCKKTYWVTLASPISHDPTQNFLDGLRLKNEKTLTRPAQLKIVTPQSMELTIT 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 EG+ ++K++F V L R+ G +L L+ G R ++K+ Sbjct: 180 ----EGRYHQVKRMFAAIGHHVTELHRMQIGSIKLDEALMPGQYRLLTKQ 225 >gi|193077698|gb|ABO12547.2| 16S rRNA pseudouridylate 516 synthase [Acinetobacter baumannii ATCC 17978] Length = 234 Score = 62.8 bits (151), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 61/236 (25%), Positives = 107/236 (45%), Gaps = 20/236 (8%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + K++ G SR+ +++I V ++G ++ S ++ E R ++ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVIIDGEVVSDLKKQ-FSPENFEFSVFGQNYQYREKI 61 Query: 76 WL-YHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ KP G +H P +VF LP I V +VGRLD +T GLLLLT+DG + Sbjct: 62 YIALRKPQGFECSHH-PQHHQSVFSLLPETMIHRGVQAVGRLDQDTTGLLLLTDDGKYLQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ----GICYGDMQVTLDTQKGSNAW 188 L P +VY V + V +++ +L +G+ + G D+ + L T + Sbjct: 121 ALTHPRKHVPKVYHVTTYDPVTPEQIEMLTQGVNLHQEKGGFAATDVAL-LGTHQ----- 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +T+ + +G ++K++ KV +L R Q+G L+ E L EQ Sbjct: 175 LTMTIHQGVYHQVKRMIAAVGNKVEKLHR-----HQIGQLVLPEIEEGGWVYLSEQ 225 >gi|153002415|ref|YP_001368096.1| pseudouridine synthase [Shewanella baltica OS185] gi|151367033|gb|ABS10033.1| pseudouridine synthase [Shewanella baltica OS185] Length = 233 Score = 62.8 bits (151), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 63/218 (28%), Positives = 97/218 (44%), Gaps = 13/218 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + ++ R I V VNG++ A+ V + + +G L +R Sbjct: 2 RLDKFLCKSTDLDRDAASVAILSGSVTVNGVIATDCAMQVHENNAVCFNGKSLVP-RPSR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ HKP T S+ DG +L I F I VGRLD +T GL+LLT+DG + Sbjct: 61 YFMLHKPAD--TLCSNVDGAYPSLFHLLDIERAFDLHI-VGRLDADTTGLVLLTDDGRWS 117 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQD----KLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 + P Q +VYRV+ +D + G+ +QG + TL Q+ + Sbjct: 118 FNIISPQYQCKKVYRVQLRDPLDSEATAAIAATFTAGLQLQGETALTLPATL--QQVDDK 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + L EGK ++K++F KV L R G L Sbjct: 176 TVLLTLTEGKFHQVKRMFAAVGNKVVALHRAQIGAVTL 213 >gi|260425703|ref|ZP_05779683.1| ribosomal large subunit pseudouridine synthase E [Citreicella sp. SE45] gi|260423643|gb|EEX16893.1| ribosomal large subunit pseudouridine synthase E [Citreicella sp. SE45] Length = 179 Score = 62.8 bits (151), Expect = 9e-08, Method: Compositional matrix adjust. Identities = 47/176 (26%), Positives = 85/176 (48%), Gaps = 20/176 (11%) Query: 77 LYHKPIGLVTTHSDPDG----RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G+++ +D R+T+ D + RV GRLD ++EGLLLLT+DG L Sbjct: 4 LLNKPYGVLSQFTDKGNADSPRATLSDYV--EVPRVYPAGRLDRDSEGLLLLTDDGALQA 61 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----------VIQGICYGDMQVTLDT- 181 + P + + Y V+ G D+L L++G+ ++ + D+ + Sbjct: 62 RIAHPKFRKPKTYLVQVEGDPTDDQLAQLRRGVSLNDGPTRPATVRRLPPPDLWPRVPPV 121 Query: 182 ---QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ + + EG+NR+++++ RL+R S G + + L G R Sbjct: 122 RFRKSVPDAWLELTITEGRNRQVRRMTAHVGLPCLRLVRWSIGDWSVAGLAPGEWR 177 >gi|260554617|ref|ZP_05826838.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter baumannii ATCC 19606] gi|260411159|gb|EEX04456.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter baumannii ATCC 19606] Length = 234 Score = 62.8 bits (151), Expect = 9e-08, Method: Compositional matrix adjust. Identities = 60/235 (25%), Positives = 106/235 (45%), Gaps = 18/235 (7%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + K++ G SR+ +++I V ++G ++ S ++ E R ++ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVIIDGEVVSDLKKQ-FSPENFEFSVFGQNYQYREKI 61 Query: 76 WL-YHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ KP G +H P +VF LP I V +VGRLD +T GLLLLT+DG + Sbjct: 62 YIALRKPQGFECSHH-PQHHQSVFSLLPETMIHRGVQAVGRLDQDTTGLLLLTDDGKYLQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWV 189 L P +VY V + V +++ +L +G+ + +G+ L T + + Sbjct: 121 ALTHPRKHVPKVYHVTTYDPVTPEQIEMLTQGVNLHQEKGVFAATDVALLGTHQ-----L 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 T+ + +G ++K++ KV +L R Q+G L+ E L EQ Sbjct: 176 TMTIHQGVYHQVKRMIAAVGNKVEKLHR-----HQIGQLVLPEIEEGGWVYLSEQ 225 >gi|169795557|ref|YP_001713350.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter baumannii AYE] gi|213158501|ref|YP_002319800.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter baumannii AB0057] gi|215483044|ref|YP_002325249.1| hypothetical protein ABBFA_001346 [Acinetobacter baumannii AB307-0294] gi|301347860|ref|ZP_07228601.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter baumannii AB056] gi|301597806|ref|ZP_07242814.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter baumannii AB059] gi|332850625|ref|ZP_08432872.1| pseudouridylate synthase [Acinetobacter baumannii 6013150] gi|332867094|ref|ZP_08437391.1| pseudouridylate synthase [Acinetobacter baumannii 6013113] gi|169148484|emb|CAM86350.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter baumannii AYE] gi|213057661|gb|ACJ42563.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter baumannii AB0057] gi|213985713|gb|ACJ56012.1| conserved hypothetical protein [Acinetobacter baumannii AB307-0294] gi|332730462|gb|EGJ61778.1| pseudouridylate synthase [Acinetobacter baumannii 6013150] gi|332734287|gb|EGJ65416.1| pseudouridylate synthase [Acinetobacter baumannii 6013113] Length = 234 Score = 62.8 bits (151), Expect = 9e-08, Method: Compositional matrix adjust. Identities = 60/235 (25%), Positives = 106/235 (45%), Gaps = 18/235 (7%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + K++ G SR+ +++I V ++G ++ S ++ E R ++ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVIIDGEVVSDLKKQ-FSPENFEFSVFGQNYQYREKI 61 Query: 76 WL-YHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ KP G +H P +VF LP I V +VGRLD +T GLLLLT+DG + Sbjct: 62 YIALRKPQGFECSHQ-PQHHQSVFSLLPETMIHRGVQAVGRLDQDTTGLLLLTDDGKYLQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWV 189 L P +VY V + V +++ +L +G+ + +G+ L T + + Sbjct: 121 ALTHPRKHVPKVYHVTTYDPVTPEQIEMLTQGVNLHQEKGVFAATDVALLGTHQ-----L 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 T+ + +G ++K++ KV +L R Q+G L+ E L EQ Sbjct: 176 TMTIHQGVYHQVKRMIAAVGNKVEKLHR-----HQIGQLVLPEIEEGGWVYLSEQ 225 >gi|167625202|ref|YP_001675496.1| pseudouridine synthase [Shewanella halifaxensis HAW-EB4] gi|167355224|gb|ABZ77837.1| pseudouridine synthase [Shewanella halifaxensis HAW-EB4] Length = 238 Score = 62.4 bits (150), Expect = 9e-08, Method: Compositional matrix adjust. Identities = 62/236 (26%), Positives = 105/236 (44%), Gaps = 25/236 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I ++ +R + I + VNG + + V ++ + G L A +R Sbjct: 2 RLDKFICKSTELNRAQASECIECAEISVNGETITEVSFQVHESNSVVFKGQRL-VARPSR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---------VGRLDINTEGLLLLT 125 + HKPI ++++ D D PS+F R I+ VGRLD +T GL+LLT Sbjct: 61 YIMLHKPIHTLSSNVDGD--------YPSLF-RCINIERAEELHIVGRLDADTTGLVLLT 111 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK---GIVIQGICYGDMQVTLDTQ 182 +DG + + P Q + YRV + D +++ + G+ +Q + L+ Sbjct: 112 DDGRWSFDIIRPDKQCEKTYRVTLRDAIRDDVADMVARFAHGLQLQNEPALTLPAKLEVV 171 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +T+ EGK ++K++F +VN L R G L L G R +S+ Sbjct: 172 TEKEVLLTIT--EGKYHQVKRMFAAVGNRVNGLHRERIGGLSL-ELDVGCWRHLSE 224 >gi|296273383|ref|YP_003656014.1| pseudouridine synthase [Arcobacter nitrofigilis DSM 7299] gi|296097557|gb|ADG93507.1| pseudouridine synthase [Arcobacter nitrofigilis DSM 7299] Length = 229 Score = 62.4 bits (150), Expect = 9e-08, Method: Compositional matrix adjust. Identities = 57/232 (24%), Positives = 112/232 (48%), Gaps = 20/232 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST----DHIEVDGVPLRK 69 +R+ ++ G +R + A++ +K+N +L+ V ST D I ++G L Sbjct: 6 KRIDAHLSSLGYCTRGD-----AKKFLKINELLVNENRVFNPSTKAYHDDITINGEKLDP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----RVISVGRLDINTEGLLLLT 125 T L +KP G++ +H+D ++ LP ++ ++ +VGRLD++T G ++LT Sbjct: 61 --ETLTILLNKPSGVICSHND--AGVLIYSLLPYRWTQRNPKISTVGRLDVDTTGAIILT 116 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKG 184 +DG L L P + ++Y + D+ + G +++ G + L+ Sbjct: 117 DDGTLNHKLANPKKEISKIYEAHLKVPLKGDEEKIFASGELLLNGEDKPLLPAKLEVL-- 174 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 S V + + EGK ++K++F + +V +L RIS+ F + L G + + Sbjct: 175 SPTCVRLEIVEGKYHQVKRMFAAVDNRVVKLHRISFDNFTVEDLKEGEYKSI 226 >gi|284035455|ref|YP_003385385.1| pseudouridine synthase [Spirosoma linguale DSM 74] gi|283814748|gb|ADB36586.1| pseudouridine synthase [Spirosoma linguale DSM 74] Length = 198 Score = 62.4 bits (150), Expect = 9e-08, Method: Compositional matrix adjust. Identities = 52/187 (27%), Positives = 85/187 (45%), Gaps = 21/187 (11%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP +++ S +G + NL F + V VGRLD ++EGLLLLTND L L Sbjct: 8 FLIYKPYLMLSQFSK-EGDKSTLANLDFDFPTDVYPVGRLDADSEGLLLLTNDKQLNHRL 66 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSN------ 186 P + R Y V+ G + + L G+ I G Y + + N Sbjct: 67 LNPKFRHNRTYYVQVDGALTDEACQQLSAGVTISVDGKAYDTLPAKAILIEAPNLPERNP 126 Query: 187 ----------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 +W+++ L EGKNR+++K+ + RL+R + + G R + Sbjct: 127 PIRFRASIPTSWLSITLHEGKNRQVRKMTAAVGFPTLRLVRWAIESLTAEEMAPGEVRLL 186 Query: 237 SK-KILR 242 S+ ++LR Sbjct: 187 SRAEVLR 193 >gi|182415617|ref|YP_001820683.1| pseudouridine synthase [Opitutus terrae PB90-1] gi|177842831|gb|ACB77083.1| pseudouridine synthase [Opitutus terrae PB90-1] Length = 188 Score = 62.4 bits (150), Expect = 9e-08, Method: Compositional matrix adjust. Identities = 53/181 (29%), Positives = 81/181 (44%), Gaps = 21/181 (11%) Query: 75 LWLYHKPIGLVTTHSDPDG---RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP G+++ + G R+ LP V +GRLD ++EGLLLL+++ GL Sbjct: 2 LCALHKPYGVLSQFTPEPGSRWRTLAEFGLPPA---VYPLGRLDADSEGLLLLSDEPGLN 58 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----CYG---DMQVTLDTQKG 184 L P R Y V+ L L++G+ I C D TL + Sbjct: 59 TRLLNPDQAHRREYWVQVERVPTDAALAQLQRGVKIGDYATRPCAARRLDPAPTLPPRDP 118 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + W+ + L EGKNR+++++ RL+R+ G F LG L G RE+ Sbjct: 119 PIRARKNVPDCWLALELIEGKNRQVRRMTAAIGHPTLRLVRVRIGDFALGKLAVGQWREL 178 Query: 237 S 237 + Sbjct: 179 T 179 >gi|293609407|ref|ZP_06691709.1| conserved hypothetical protein [Acinetobacter sp. SH024] gi|292827859|gb|EFF86222.1| conserved hypothetical protein [Acinetobacter sp. SH024] Length = 234 Score = 62.4 bits (150), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 60/223 (26%), Positives = 102/223 (45%), Gaps = 15/223 (6%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--GVPLRKAERT 73 + K++ G SR+ +++I V V+G + + S +++E G + E+ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVSVDGEVADDLKKQ-FSPENLEFSLFGETYQYREKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 L L KP G +H P +VF LP I + V ++GRLD +T GLLLLT+DG Sbjct: 62 YLAL-KKPKGFECSHQ-PHHHQSVFSLLPEIMIQRGVQAIGRLDQDTTGLLLLTDDGKYL 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAW 188 + L P +VY V V +++ +L +G+ + +GI L+ + Sbjct: 120 QALTHPRKHVPKVYHVTTIDPVTPEQIEMLSQGVSLHQEKGIFAATDVAILEMHQ----- 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +T+ + +G ++K++ KV L R G L L G Sbjct: 175 LTMTIHQGVYHQVKRMIAAVGNKVEALHRHQVGQLVLPELEDG 217 >gi|319944626|ref|ZP_08018893.1| ribosomal large subunit pseudouridine synthase E [Lautropia mirabilis ATCC 51599] gi|319742065|gb|EFV94485.1| ribosomal large subunit pseudouridine synthase E [Lautropia mirabilis ATCC 51599] Length = 193 Score = 62.4 bits (150), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 53/186 (28%), Positives = 88/186 (47%), Gaps = 27/186 (14%) Query: 78 YHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVL 134 ++KP G++ S + ++ D++ P + GRLD ++EGLLLLTNDG L AR+ Sbjct: 10 FNKPCGVICQFSPHETHPSLKDHIDAPGFYP----AGRLDTDSEGLLLLTNDGRLQARIA 65 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKK----GIVIQGICYGDMQVTLDTQK------- 183 E P + Y + G D+ KL LL++ G I + +T++ Sbjct: 66 E-PRHGKEKTYWAQVEGAPDEHKLALLRRPMDLGDFITQPARTRLLAADETERLWPRQPP 124 Query: 184 ------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTRE 235 + W+ + ++EGKNR+++++ + RL+RI+ G L L G R Sbjct: 125 VRVRKTVPDFWLEIRIQEGKNRQVRRMTAKAGYPCLRLVRIAVGALNLWDLGLAPGEWRF 184 Query: 236 VSKKIL 241 VS L Sbjct: 185 VSPAAL 190 >gi|302327988|gb|ADL27189.1| ribosomal small subunit pseudouridine synthase A [Fibrobacter succinogenes subsp. succinogenes S85] Length = 231 Score = 62.4 bits (150), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 58/218 (26%), Positives = 106/218 (48%), Gaps = 18/218 (8%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERTR 74 + +++A G SR++ ++ V+++G +L+ + + + I V+G E+ Sbjct: 3 LERLLASMGFGSRKDARGLVRMGLVELDGKVLDDPFMEFKTRPEFITVNGEEAPTVEKLY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 + LY KP + +H+ D + V+D LP F+ + SVGRLD ++ GLLLL+N G Sbjct: 63 VMLY-KPTDVECSHNARDHKP-VYDLLPERFTAMGIQSVGRLDADSSGLLLLSNQGDFIH 120 Query: 133 VLELPSTQWLRVYRVRFHGQ-VDQDKLNLLKKGIVIQG----ICYGDMQVTLDTQKGSNA 187 +E P + YRV D K LL G++++ + +++V+ D Sbjct: 121 KVESPKKGLWKKYRVTLARPFTDAQKAELL-AGVMLKDERRPVLAREIEVSGDA------ 173 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + + EG +++++F V L RI+ GP L Sbjct: 174 -VDISIGEGLYHQVRRMFAAVGNHVETLERIAIGPVVL 210 >gi|149377680|ref|ZP_01895416.1| pseudouridylate synthase [Marinobacter algicola DG893] gi|149358033|gb|EDM46519.1| pseudouridylate synthase [Marinobacter algicola DG893] Length = 234 Score = 62.4 bits (150), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 66/233 (28%), Positives = 112/233 (48%), Gaps = 10/233 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R+ +A A SRR+ ++ I+ RV+V+G + A V + +D PL Sbjct: 2 YLSMRLDYFVANATTLSRRDAKKAISAGRVRVDGETCRKPASPVAKDTRVSLDDQPLSLP 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGG 129 E L LY KP G+++ +D + T D LP+ + + GRLD +T GLLLLT DG Sbjct: 62 EERYLMLY-KPAGVISATTDSQ-QPTALDLLPADVRHGLHIAGRLDADTTGLLLLTTDGQ 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGSNA 187 + + P + + YRV +D + L++G+++ +G+ + T D + Sbjct: 120 WSHRITSPRLKCHKTYRVTLAEPIDDFAITQLQQGVLL----HGESRPTRPADVHLLNAG 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 + + L EG+ ++K++ V L R GP L LA G RE++ + Sbjct: 176 EIDLTLSEGRYHQVKRMLAAVGNHVTGLHRWRVGPLILDDSLAPGDYRELTAE 228 >gi|261415072|ref|YP_003248755.1| pseudouridine synthase [Fibrobacter succinogenes subsp. succinogenes S85] gi|261371528|gb|ACX74273.1| pseudouridine synthase [Fibrobacter succinogenes subsp. succinogenes S85] Length = 234 Score = 62.4 bits (150), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 58/218 (26%), Positives = 106/218 (48%), Gaps = 18/218 (8%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERTR 74 + +++A G SR++ ++ V+++G +L+ + + + I V+G E+ Sbjct: 6 LERLLASMGFGSRKDARGLVRMGLVELDGKVLDDPFMEFKTRPEFITVNGEEAPTVEKLY 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 + LY KP + +H+ D + V+D LP F+ + SVGRLD ++ GLLLL+N G Sbjct: 66 VMLY-KPTDVECSHNARDHKP-VYDLLPERFTAMGIQSVGRLDADSSGLLLLSNQGDFIH 123 Query: 133 VLELPSTQWLRVYRVRFHGQ-VDQDKLNLLKKGIVIQG----ICYGDMQVTLDTQKGSNA 187 +E P + YRV D K LL G++++ + +++V+ D Sbjct: 124 KVESPKKGLWKKYRVTLARPFTDAQKAELL-AGVMLKDERRPVLAREIEVSGDA------ 176 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + + EG +++++F V L RI+ GP L Sbjct: 177 -VDISIGEGLYHQVRRMFAAVGNHVETLERIAIGPVVL 213 >gi|54308737|ref|YP_129757.1| hypothetical protein PBPRA1544 [Photobacterium profundum SS9] gi|46913167|emb|CAG19955.1| hypothetical 16S rRNA uridine-516 pseudouridylate synthase [Photobacterium profundum SS9] Length = 232 Score = 62.4 bits (150), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 55/212 (25%), Positives = 100/212 (47%), Gaps = 5/212 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A +R+E R++ + ++VNG +++ ++ + +E +G L + + Sbjct: 2 RLDKFLATTLGITRKEAGRLLNNKMIEVNGDVVKSISLKITDDCDVEFNGKKL-TLQGPQ 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V +H D D TVF + + V GRLD +T GL LLT+DG + Sbjct: 61 YFMLNKPEGFVCSHVD-DHNPTVFVLFDEVSPEKMHVAGRLDGDTTGLTLLTDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P +VY V V ++ + +G+ ++G L+ A +T+ Sbjct: 120 VTSPRHVCEKVYHVELADPVPEETIQTFLEGVQLRGEKDITRPAKLEILGEREAILTI-- 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EGK ++K++F +V L R G L Sbjct: 178 TEGKYHQVKRMFAAVGNRVVGLHREQVGAVVL 209 >gi|150026033|ref|YP_001296859.1| pseudouridylate synthase [Flavobacterium psychrophilum JIP02/86] gi|149772574|emb|CAL44057.1| Pseudouridylate synthase [Flavobacterium psychrophilum JIP02/86] Length = 206 Score = 62.4 bits (150), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 47/182 (25%), Positives = 87/182 (47%), Gaps = 22/182 (12%) Query: 76 WLYHKPIGLVTTHS-DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ HKP G ++ + + + L ++++GRLD ++EGLLLLT DG ++ ++ Sbjct: 14 FIIHKPYGYLSQFKYELKRKKKLLGELYDFPEGIMAIGRLDEDSEGLLLLTTDGKMSEIV 73 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICY----------------GDMQ 176 S + + Y V+ G + Q+ + +K G+ I +G Y G+ Sbjct: 74 R--SKKVEKEYYVQVDGLITQEAIEKMKNGVEIGFEGTKYMTKPCKAFIVNEIPNFGERG 131 Query: 177 VTL-DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + D + G +W ++ + EGK R+++K+ + RL+R+ G LG L A E Sbjct: 132 KKIRDERHGPTSWASIVVTEGKFRQVRKMTAAVGFPTLRLVRVRVGNIHLGNLQAREVLE 191 Query: 236 VS 237 S Sbjct: 192 TS 193 >gi|91229061|ref|ZP_01262887.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 12G01] gi|91187454|gb|EAS73794.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 12G01] Length = 177 Score = 62.4 bits (150), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 32/95 (33%), Positives = 56/95 (58%), Gaps = 2/95 (2%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +++KP ++ +D DGR T+ D +P V + GRLD ++EGL++LTNDG L Sbjct: 57 KVIIFNKPYDTLSQFTDGDGRKTLADYIP--IKNVYAAGRLDRDSEGLMVLTNDGILQAK 114 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 L P ++ + Y V+ G + L L+KG+ ++ Sbjct: 115 LTQPKSKSPKTYWVQVDGAPQEQDLEKLRKGVELK 149 >gi|50084378|ref|YP_045888.1| putative pseudouridine synthase [Acinetobacter sp. ADP1] gi|49530354|emb|CAG68066.1| putative pseudouridine synthase [Acinetobacter sp. ADP1] Length = 264 Score = 62.4 bits (150), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 40/167 (23%), Positives = 80/167 (47%), Gaps = 17/167 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +++KP +++ + TV + R+ GRLD+++EGL+ LT+ GGL + Sbjct: 2 KIVVFNKPYDVLSQFREDSAHLTVSSFIADPELRI--AGRLDLDSEGLMFLTDHGGLNQY 59 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKG-------- 184 + PS + + Y V+ G + +D L L+KG+ + G+ ++ + Sbjct: 60 ITHPSNKKYKTYLVQVDGDITEDALEKLRKGVELADGLTLPAQATKVEEPEWLWERNPPV 119 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +WV + + EG+NR+++++ + RLIR G L Sbjct: 120 RFRASIPTSWVEISICEGRNRQVRRMTATVGFPTLRLIRTQIGSINL 166 >gi|184158637|ref|YP_001846976.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter baumannii ACICU] gi|332874333|ref|ZP_08442245.1| pseudouridylate synthase [Acinetobacter baumannii 6014059] gi|183210231|gb|ACC57629.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter baumannii ACICU] gi|322507599|gb|ADX03053.1| rsuA [Acinetobacter baumannii 1656-2] gi|323518555|gb|ADX92936.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter baumannii TCDC-AB0715] gi|332737461|gb|EGJ68376.1| pseudouridylate synthase [Acinetobacter baumannii 6014059] Length = 234 Score = 62.4 bits (150), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 53/212 (25%), Positives = 99/212 (46%), Gaps = 13/212 (6%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + K++ G SR+ +++I V ++G ++ + ++ E R ++ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVSIDGEVVSDLKKQ-FAPENFEFSVFGQNYQYREKI 61 Query: 76 WL-YHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ KP G +H P +VF LP I V +VGRLD +T GLLLLT+DG + Sbjct: 62 YIALRKPQGFECSHH-PQHHQSVFSLLPETMIHRGVQAVGRLDQDTTGLLLLTDDGKYLQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWV 189 L P +VY V + V +++ +L +G+ + +G+ L+T + + Sbjct: 121 ALTHPRKHVPKVYHVTTYDPVTPEQIEMLIQGVNLHQEKGVFAATDVALLETHQ-----L 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 T+ + +G ++K++ KV +L R G Sbjct: 176 TMTIHQGVYHQVKRMIAAVGNKVEKLHRHQIG 207 >gi|15675319|ref|NP_269493.1| putative 16S pseudouridylate synthetase [Streptococcus pyogenes M1 GAS] gi|13622499|gb|AAK34214.1| putative 16S pseudouridylate synthetase [Streptococcus pyogenes M1 GAS] Length = 194 Score = 62.4 bits (150), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 57/199 (28%), Positives = 95/199 (47%), Gaps = 14/199 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K++ + SR +V+++I Q V V+ + NV IEV G + + + Sbjct: 2 RLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQRVTHPKHS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLLLTND 127 + L +KP G+V+ D + TV D L P ++ VGRLD +TEGL+LLT++ Sbjct: 62 YIIL-NKPSGVVSAKKDTN-YLTVIDQLAEEDKSPDLYP----VGRLDRDTEGLVLLTDN 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G L + PS + Y V +G + +D + GI G Q+T+ Sbjct: 116 GPLGFRMLHPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQ 175 Query: 187 AWVTVGLREGKNREIKKVF 205 + ++ + EGK ++KK F Sbjct: 176 SQASLTISEGKFHQVKKCF 194 >gi|148242785|ref|YP_001227942.1| pseudouridine synthase [Synechococcus sp. RCC307] gi|147851095|emb|CAK28589.1| Pseudouridine synthase [Synechococcus sp. RCC307] Length = 205 Score = 62.4 bits (150), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 54/186 (29%), Positives = 82/186 (44%), Gaps = 27/186 (14%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L HKP G+++ + G + +D L S+ V + GRLD ++EGLLLLT+DG L L Sbjct: 10 LLHKPYGVLSQFTPEVG--SRWDCLASLVPIKGVYAAGRLDADSEGLLLLTSDGALQHQL 67 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNA------ 187 P R YR + G + L L++GI ++ G LD + Sbjct: 68 TNPRFGHWRQYRAQVEGAPTEADLEPLRRGIQLKDGPSRPARAQLLDPSVAAGIAERNPP 127 Query: 188 ----------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQLGTLLAG 231 W+ + L EG+NR+++++ + RLIR S P L + G Sbjct: 128 IRHRLSVPTRWLELELTEGRNRQVRRMTAAIGFPTLRLIRWSLDLMDGQPPLNLDGMEPG 187 Query: 232 STREVS 237 R VS Sbjct: 188 QWRWVS 193 >gi|294901663|ref|XP_002777463.1| ribosomal large subunit pseudouridine synthase b, putative [Perkinsus marinus ATCC 50983] gi|239885100|gb|EER09279.1| ribosomal large subunit pseudouridine synthase b, putative [Perkinsus marinus ATCC 50983] Length = 322 Score = 62.4 bits (150), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 64/278 (23%), Positives = 122/278 (43%), Gaps = 45/278 (16%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLRKAERT 73 +++ I+ +G SR + E I V V+G ++ NV +DH +V P+ Sbjct: 24 LARRISLSGQMSRSQAEVAIRNGEVVVDGQVVRH---NVQVSDHCDVICRDQPVEPPGDP 80 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD------------------NLPSIFSRVISVGRLD 115 ++WL +KP G+V + + G +T+ D N+ I I + + Sbjct: 81 KVWLINKPRGVVCSATRIRGLTTLPDLFEIWHKRRANELSHNINNVDLIPPHFIVINPIP 140 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYG 173 + GL++LTNDG A + P ++ L V+ VR G++ +D+ ++ G+ + + YG Sbjct: 141 VMCSGLVILTNDGEFAHNMAHPRSKVLSVFLVRVKGRLPEDRFKSWRRREGVKVGNVDYG 200 Query: 174 DMQVTLDTQKGSNA-WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + V +D + + W+ V L + + V ++ S+GP++ T Sbjct: 201 QVFVGIDKRPSEDVTWLRVRLVMTNEKNL----------VTKINSSSFGPYRSSTAYV-- 248 Query: 233 TREVSKKILREQLGPHL--LEEAQVNLDAPIYSSETLV 268 I + + PH+ L ++ DA + + TLV Sbjct: 249 -----DYICPQPVSPHVRHLAPRRIARDAIMAAKGTLV 281 >gi|51244671|ref|YP_064555.1| ribosomal large subunit pseudouridine synthase B [Desulfotalea psychrophila LSv54] gi|50875708|emb|CAG35548.1| probable ribosomal large subunit pseudouridine synthase B [Desulfotalea psychrophila LSv54] Length = 130 Score = 62.4 bits (150), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 31/101 (30%), Positives = 53/101 (52%) Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 PS + + Y G + KL L++GI+++G +V + +QK + V + + EG Sbjct: 18 PSYETFKTYEADLSGTPSRAKLQRLEQGILLEGKPTAPARVKILSQKKHSTKVAITIHEG 77 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + ++KK+F VN L RI+YG +L TL G + +S Sbjct: 78 RKHQVKKMFAAIGHPVNHLKRIAYGKLELQTLATGQFKRLS 118 >gi|241759766|ref|ZP_04757866.1| ribosomal large subunit pseudouridine synthase E [Neisseria flavescens SK114] gi|241319774|gb|EER56170.1| ribosomal large subunit pseudouridine synthase E [Neisseria flavescens SK114] Length = 186 Score = 62.4 bits (150), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 44/173 (25%), Positives = 82/173 (47%), Gaps = 23/173 (13%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + +KP G++ S + + D + P + GRLD ++EGLLLLTN+G L Sbjct: 4 LIILNKPYGVICQFSAHEKHQCLKDFVEKPGFYP----AGRLDTDSEGLLLLTNNGRLQA 59 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA----- 187 + P + ++ Y + G D+ KL+LL++G+ + +V + + ++ Sbjct: 60 QIADPKFKQIKTYWAQVEGSPDEAKLDLLRRGVDLGDFVTHPAEVRVLEEGEADVLWPRV 119 Query: 188 ------------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 WV + + EGKNR+++++ + RL+R++ G L L Sbjct: 120 PPIRVRKSVPDFWVEIKISEGKNRQVRRMTAKAGFPCLRLVRVAIGRLNLFDL 172 >gi|161523988|ref|YP_001579000.1| pseudouridine synthase [Burkholderia multivorans ATCC 17616] gi|189351251|ref|YP_001946879.1| ribosomal small subunit pseudouridine synthase A [Burkholderia multivorans ATCC 17616] gi|160341417|gb|ABX14503.1| pseudouridine synthase [Burkholderia multivorans ATCC 17616] gi|189335273|dbj|BAG44343.1| ribosomal small subunit pseudouridine synthase A [Burkholderia multivorans ATCC 17616] Length = 238 Score = 62.4 bits (150), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 62/219 (28%), Positives = 96/219 (43%), Gaps = 9/219 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--EVDGVPLRKAERT 73 + ++ G SRR+ +I RV + G + + TD + VDG P R Sbjct: 3 LESILYTQGFGSRRQCRGLIEAGRVAIGGAPATDPDAD-LDTDGLVFTVDGTPWPFHARA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L +KP G + DP +VF LP+ + V VGRLD +T GLLLL++DG Sbjct: 62 YVAL-NKPAGYECSR-DPQHHPSVFSLLPAPLVARGVQCVGRLDQDTTGLLLLSDDGQFV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 P + + Y +D +L+ L+ G+ + G V D + +TV Sbjct: 120 HAYTSPKRKVPKTYVATVRHALDAAQLDALRGGVQLHGEPKPVAAVAADARDPHTLALTV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EGK ++K++ + +V L R S G L LA Sbjct: 180 --LEGKYHQVKRMVAAASNRVEALHRESVGGLALPADLA 216 >gi|124022563|ref|YP_001016870.1| pseudouridine synthase [Prochlorococcus marinus str. MIT 9303] gi|123962849|gb|ABM77605.1| possible pseudouridine synthase [Prochlorococcus marinus str. MIT 9303] Length = 203 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 51/186 (27%), Positives = 82/186 (44%), Gaps = 27/186 (14%) Query: 79 HKPIGLVTTHSDPDGRS--TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +KP G+++ + G + D +P RV + GRLD ++EGLL+LT G L L Sbjct: 2 NKPYGVLSQFTPEPGSQWRCLADLIP--IPRVYAAGRLDADSEGLLVLTAHGRLQHRLTN 59 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS----------- 185 P RVY V+ G + +L L G++IQG V+ K + Sbjct: 60 PHLSHWRVYWVQVEGSPSESQLQKLASGVIIQGKRTRPALVSWLKGKAAPIVRERDPPIR 119 Query: 186 ------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRI------SYGPFQLGTLLAGST 233 +W+ + L+EG+NR+++++ RLIR P + L G Sbjct: 120 VRQSIPTSWLELKLKEGRNRQVRRMTAAVGLPTLRLIRHRIELMDGEPPLSIEGLDPGQW 179 Query: 234 REVSKK 239 R+VS + Sbjct: 180 RQVSSR 185 >gi|227486208|ref|ZP_03916524.1| pseudouridylate synthase [Anaerococcus lactolyticus ATCC 51172] gi|227235839|gb|EEI85854.1| pseudouridylate synthase [Anaerococcus lactolyticus ATCC 51172] Length = 232 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 61/229 (26%), Positives = 107/229 (46%), Gaps = 9/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 RV K+I G+ +R+ ++R + + +NG +++ ++V V D + G + E Sbjct: 1 MRVDKMIGNTGLDTRKNIKRNAKKGALVINGEIVKDSSVKVDPLVDEVFYMGHFVEYIEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISV-GRLDINTEGLLLLTNDGGL 130 L L +KP G+++ + D TV D L + +S+ GRLD +T GL++L+ DG Sbjct: 61 LYLIL-NKPSGVLS--ATQDAEETVIDLLDDFYKNYDLSIAGRLDKDTTGLIILSTDGKF 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P++ + Y V+ + ++ KKG+ I+ Y L A V Sbjct: 118 IHKITSPNSHITKTYEVKTRDPIAENLKEEFKKGVYIKEDDYTARPAELTITGEKEAIVK 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVSK 238 V EGK +K++F +V L R + G L L G RE+++ Sbjct: 178 V--TEGKYHLVKRLFSNLGNEVVGLKRTAIGKLVLDPYLKEGDYRELTE 224 >gi|90415925|ref|ZP_01223858.1| Pseudouridine synthase, Rsu [marine gamma proteobacterium HTCC2207] gi|90332299|gb|EAS47496.1| Pseudouridine synthase, Rsu [marine gamma proteobacterium HTCC2207] Length = 208 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 40/176 (22%), Positives = 83/176 (47%), Gaps = 16/176 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++L L++KP +++ +D + R T+ + + V GRLD ++EGLLLLT+DG L Sbjct: 2 SKLLLFNKPFHVLSQFTDSEARKTLSEFIE--IKGVYPAGRLDYDSEGLLLLTDDGQLQA 59 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------------- 179 + P + + Y + G + L G+ ++ + L Sbjct: 60 QISNPKFKLNKTYWAQVEGTATETHCLELIAGVSLKDGPAAAVACKLMDPPNLWPRIPPI 119 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + Q +++W+ + + EG+NR+++++ RL+R + G +++ + G R Sbjct: 120 RERQNVADSWIELTINEGRNRQVRRMTAAVGLPTLRLVRAAIGDWKVTDIAPGEHR 175 >gi|152995450|ref|YP_001340285.1| pseudouridine synthase [Marinomonas sp. MWYL1] gi|150836374|gb|ABR70350.1| pseudouridine synthase [Marinomonas sp. MWYL1] Length = 229 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 66/217 (30%), Positives = 108/217 (49%), Gaps = 10/217 (4%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVT 86 +R+ + ++ RV VNG ++++A V D I +D + L +L HKP G V Sbjct: 14 ARKAAKIAASKGRVTVNGEVVKKANYTVQEGDQICLDDILLAWPSEG-YYLLHKPAGYVC 72 Query: 87 THSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY 145 DPD TV D LPS + + VGRLD +T GLLLLT DG + P + Y Sbjct: 73 ATQDPD-HPTVLDLLPSHLGQELKIVGRLDKDTTGLLLLTTDGQWLHRITSPRNACNKRY 131 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTVGLREGKNREIKK 203 R+ + + L L++G+++ G+ Q TL ++ S+ + + ++EGK ++K+ Sbjct: 132 RMMLADPISDEDLKQLEEGVMLN----GESQPTLPAIAERISDCDIYLTIQEGKYHQVKR 187 Query: 204 VFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 + KV L R G L + AG RE++++ Sbjct: 188 MLAAVGNKVEELHRDQIGLLSLDADIQAGEFRELTEE 224 >gi|309780778|ref|ZP_07675519.1| ribosomal small subunit pseudouridine synthase A [Ralstonia sp. 5_7_47FAA] gi|308920460|gb|EFP66116.1| ribosomal small subunit pseudouridine synthase A [Ralstonia sp. 5_7_47FAA] Length = 248 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 61/229 (26%), Positives = 98/229 (42%), Gaps = 25/229 (10%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTRLW 76 +++ G +RR + ++ V VNG+ +E V + + +VDG R A R + Sbjct: 11 RILQSQGFGTRRYCKDLVLAGLVFVNGVEMESPDALVDTAGLVLDVDGE--RWAYHARAY 68 Query: 77 LY-HKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G V P +V+ LP V VGRLD +T GLLLLT+DG Sbjct: 69 LMLNKPAG-VECSQKPKHHPSVYTLLPVPLRERAVQCVGRLDQDTTGLLLLTDDGQFVHT 127 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT--- 190 + P Q +VY + V + ++ L G+++ + + + AW Sbjct: 128 ITSPRHQVPKVYEITTAEPVTEAQIAQLCAGVLLAD----------ENENVAAAWAERVG 177 Query: 191 -----VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L +GK ++K++ V L R + G LG L G R Sbjct: 178 THHLRMALTQGKYHQVKRMVAAAGNHVAGLHRSAIGGLSLGDLAPGEWR 226 >gi|87122220|ref|ZP_01078103.1| Pseudouridine synthase, Rsu [Marinomonas sp. MED121] gi|86162540|gb|EAQ63822.1| Pseudouridine synthase, Rsu [Marinomonas sp. MED121] Length = 242 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 38/169 (22%), Positives = 85/169 (50%), Gaps = 16/169 (9%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP +++ + + ++T+ + + GRLD ++EGLLLLT+ G L ++ Sbjct: 6 VFNKPFQVLSQFTTDEEKATLSSFIDK--ANFYPAGRLDYDSEGLLLLTDHGALQHLIAS 63 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDTQKG---------- 184 P + + Y V+ G++ ++ + L+ G+ ++ G+ + ++ D + Sbjct: 64 PQHKMPKTYLVQVEGELTKEAVEQLRVGVELKDGLTKPAEAKIASDFEPWPRHPPIRERK 123 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +W+ + + EGKNR+++++ + RLIR GP+ L + G Sbjct: 124 NIPTSWLELTITEGKNRQVRRMTAAVGFPTLRLIRTQIGPYSLTDIELG 172 >gi|224824940|ref|ZP_03698046.1| RNA-binding S4 domain protein [Lutiella nitroferrum 2002] gi|224602611|gb|EEG08788.1| RNA-binding S4 domain protein [Lutiella nitroferrum 2002] Length = 244 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 64/240 (26%), Positives = 116/240 (48%), Gaps = 21/240 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAERT 73 R+SK + G+ SRRE + I VKV+G+++ V IE+ + +AER Sbjct: 6 RLSKRMTELGLCSRREADEFIEMGLVKVDGVVVNVLGSRVRPEQTIELTRQAMALQAERV 65 Query: 74 RLWLYHKPIGLVTTHSD-----------PDGRS----TVFDNLPSIFSRVISVGRLDINT 118 +L +KP+G + S+ P+ RS + + L + + G+LD+++ Sbjct: 66 -TFLLNKPVGYGSGPSEAGERPAWQLIKPETRSPRDRSGYTFLKKHLNYLAPAGKLDVDS 124 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLL+LT DG +AR L + + + + V G+V L L+ G+ + G ++V+ Sbjct: 125 SGLLVLTQDGRIARALMAKAADFEQEFLVWVEGEVSDAMLEQLRHGLSLDGEALKPVKVS 184 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + S++ + LR+ R+I+++ E +V + RI G LG L G R +++ Sbjct: 185 ----RQSDSQLRFVLRDPVRRQIRRMAELVGLRVTAVRRIRIGRIALGDLEQGQWRYLTE 240 >gi|225076235|ref|ZP_03719434.1| hypothetical protein NEIFLAOT_01272 [Neisseria flavescens NRL30031/H210] gi|224952359|gb|EEG33568.1| hypothetical protein NEIFLAOT_01272 [Neisseria flavescens NRL30031/H210] Length = 186 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 44/173 (25%), Positives = 82/173 (47%), Gaps = 23/173 (13%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + +KP G++ S + + D + P + GRLD ++EGLLLLTN+G L Sbjct: 4 LIILNKPYGVICQFSAHEKHQCLKDFVEKPGFYP----AGRLDTDSEGLLLLTNNGRLQA 59 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA----- 187 + P + ++ Y + G D+ KL+LL++G+ + +V + + ++ Sbjct: 60 QIADPKFKQVKTYWAQVEGSPDEAKLDLLRRGVDLGDFVTHPAEVRVLEEGEADVLWPRV 119 Query: 188 ------------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 WV + + EGKNR+++++ + RL+R++ G L L Sbjct: 120 PPIRVRKSVPDFWVEIKISEGKNRQVRRMTAKAGFPCLRLVRVAIGRLNLFDL 172 >gi|326802921|ref|YP_004320739.1| putative 16S pseudouridylate 516 synthase [Aerococcus urinae ACS-120-V-Col10a] gi|326650345|gb|AEA00528.1| putative 16S pseudouridylate 516 synthase [Aerococcus urinae ACS-120-V-Col10a] Length = 248 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 46/150 (30%), Positives = 75/150 (50%), Gaps = 6/150 (4%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +Y+K G V+ D T +D+LP + VGRLD + EGLLLLT++G L LE Sbjct: 65 VYNKAAGQVSAKKDAH-WPTPYDHLPECYQGTSIVGRLDRDVEGLLLLTDNGQLHYFLEH 123 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVGLRE 195 + Y+V +G + D + + G+ G Q+ + + A++T+ + Sbjct: 124 ARFHIPKTYQVTVNGDLGADLVEKFQAGVTFADGTTCRPAQLEIIGPR--QAYLTI--DQ 179 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G ++KK+F KV+ L R+S GP +L Sbjct: 180 GMRHQVKKMFLANGLKVSYLKRLSLGPLRL 209 >gi|254511085|ref|ZP_05123152.1| ribosomal large subunit pseudouridine synthase E [Rhodobacteraceae bacterium KLH11] gi|221534796|gb|EEE37784.1| ribosomal large subunit pseudouridine synthase E [Rhodobacteraceae bacterium KLH11] Length = 201 Score = 62.0 bits (149), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 47/185 (25%), Positives = 86/185 (46%), Gaps = 25/185 (13%) Query: 78 YHKPIGLVTTHSD----PDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++KP ++ +D RST+ D +LP ++ GRLD ++EGL++LT+ G L Sbjct: 7 FNKPYDVLPQFTDRANADSPRSTLSDFIDLPGVYP----AGRLDRDSEGLMVLTDHGRLQ 62 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG------ 184 + P + + Y V+ G+ D L L+ G+ ++ G+ + ++ KG Sbjct: 63 AQISDPRHKMAKTYWVQVEGRPDAAALKALQDGVELKDGLTRPAKALMINEPKGLWPRNP 122 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 ++W+ + LREG+NR+++++ RLIR G + L L G + Sbjct: 123 PIRVRQTIPDSWIELTLREGRNRQVRRMTAAVGHPTLRLIRARIGDWSLDGLAPGQWESL 182 Query: 237 SKKIL 241 L Sbjct: 183 PMPAL 187 >gi|221211505|ref|ZP_03584484.1| pseudouridine synthase, Rsu [Burkholderia multivorans CGD1] gi|221168866|gb|EEE01334.1| pseudouridine synthase, Rsu [Burkholderia multivorans CGD1] Length = 238 Score = 62.0 bits (149), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 62/219 (28%), Positives = 96/219 (43%), Gaps = 9/219 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--EVDGVPLRKAERT 73 + ++ G SRR+ +I RV + G + + TD + VDG P R Sbjct: 3 LESILYTQGFGSRRQCRGLIEAGRVAIGGAPATDPDAD-LDTDGLVFTVDGTPWPFHARA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L +KP G + DP +VF LP+ + V VGRLD +T GLLLL++DG Sbjct: 62 YVVL-NKPAGYECSR-DPQHHPSVFSLLPAPLVARGVQCVGRLDQDTTGLLLLSDDGQFV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 P + + Y +D +L+ L+ G+ + G V D + +TV Sbjct: 120 HAYTSPKRKVPKTYVATVRHALDAAQLDALRGGVQLHGEPKPVAAVAADARDPHTLALTV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EGK ++K++ + +V L R S G L LA Sbjct: 180 --LEGKYHQVKRMVAAASNRVEALHRESVGGLALPADLA 216 >gi|261380459|ref|ZP_05985032.1| ribosomal large subunit pseudouridine synthase E [Neisseria subflava NJ9703] gi|284796701|gb|EFC52048.1| ribosomal large subunit pseudouridine synthase E [Neisseria subflava NJ9703] Length = 186 Score = 61.6 bits (148), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 44/173 (25%), Positives = 82/173 (47%), Gaps = 23/173 (13%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + +KP G++ S + + D + P + GRLD ++EGLLLLTN+G L Sbjct: 4 LIILNKPYGVICQFSAHEKHQCLKDFVEKPGFYP----AGRLDTDSEGLLLLTNNGRLQA 59 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA----- 187 + P + ++ Y + G D+ KL+LL++G+ + +V + + ++ Sbjct: 60 QIADPKFKQVKTYWAQVEGSPDEAKLDLLRRGVDLGDFVTRPAEVRVLEEGEADVLWPRV 119 Query: 188 ------------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 WV + + EGKNR+++++ + RL+R++ G L L Sbjct: 120 PPIRVRKSVPDFWVEIKISEGKNRQVRRMTAKAGFPCLRLVRVAIGRLNLFDL 172 >gi|121606483|ref|YP_983812.1| pseudouridine synthase [Polaromonas naphthalenivorans CJ2] gi|120595452|gb|ABM38891.1| pseudouridine synthase [Polaromonas naphthalenivorans CJ2] Length = 278 Score = 61.6 bits (148), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 69/244 (28%), Positives = 105/244 (43%), Gaps = 29/244 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ SRRE + IA+ V+VNG L V + IEV ++ + Sbjct: 32 RLNKRMADLGLCSRREADDWIARGWVRVNG-LPAVMGQPVAANARIEVAREAEQQQRQQV 90 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---------------VISVGRLDINTE 119 L +KP+G V+ ++ V P R + GRLDI++ Sbjct: 91 TILINKPVGYVSGQAEDGHEPAVALVQPENRWRECNSRMRWGFEQLRGLAPAGRLDIDSI 150 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQGI 170 GLL+LT DG +AR L + + Y VR ++KL LL G+ + G Sbjct: 151 GLLVLTQDGRVARQLIGEDSDMEKEYLVRVSYGAENVNVQAAFPREKLALLCHGLSLDGQ 210 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 QV+ + + L+EGK R+I+++ E V L R+ G LG L Sbjct: 211 LLRPAQVSWQNPEQ----LRFVLKEGKKRQIRRMCEQVGLFVTGLKRVRIGRVNLGHLPI 266 Query: 231 GSTR 234 G R Sbjct: 267 GQWR 270 >gi|319638581|ref|ZP_07993343.1| pseudouridine synthase [Neisseria mucosa C102] gi|317400330|gb|EFV80989.1| pseudouridine synthase [Neisseria mucosa C102] Length = 186 Score = 61.6 bits (148), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 44/173 (25%), Positives = 82/173 (47%), Gaps = 23/173 (13%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + +KP G++ S + + D + P + GRLD ++EGLLLLTN+G L Sbjct: 4 LIILNKPYGVICQFSAHEKHPCLKDFVEKPGFYP----AGRLDTDSEGLLLLTNNGRLQA 59 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA----- 187 + P + ++ Y + G D+ KL+LL++G+ + +V + + ++ Sbjct: 60 QIADPKFKQVKTYWAQVEGSPDEAKLDLLRRGVDLGDFVTRPAEVRVLEEGEADVLWPRV 119 Query: 188 ------------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 WV + + EGKNR+++++ + RL+R++ G L L Sbjct: 120 PPIRVRKSVPDFWVEIKISEGKNRQVRRMTAKAGFPCLRLVRVAIGRLNLFDL 172 >gi|261377574|ref|ZP_05982147.1| ribosomal large subunit pseudouridine synthase E [Neisseria cinerea ATCC 14685] gi|269146318|gb|EEZ72736.1| ribosomal large subunit pseudouridine synthase E [Neisseria cinerea ATCC 14685] Length = 186 Score = 61.6 bits (148), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 43/171 (25%), Positives = 84/171 (49%), Gaps = 23/171 (13%) Query: 77 LYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +++KP G++ S + ++ F +LP + GRLD ++EGLLLLT+DG L + Sbjct: 6 IFNKPYGVICQFSPHEKHKSLKDFIDLPGFYP----AGRLDTDSEGLLLLTDDGWLQAKI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----------VIQGICYGDMQVTLD---- 180 P + + Y + G D+ +L L+KGI ++ + +G+ + Sbjct: 62 TDPKFKHPKTYWAQLEGVPDETRLERLRKGIDLGDFVTRPATVRILKHGETDPLWERIPP 121 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + + W+ + + EGKNR+++++ + RL+R++ G +L L Sbjct: 122 IRVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLVRVASGRLKLFDL 172 >gi|171316750|ref|ZP_02905962.1| pseudouridine synthase [Burkholderia ambifaria MEX-5] gi|171098100|gb|EDT42915.1| pseudouridine synthase [Burkholderia ambifaria MEX-5] Length = 238 Score = 61.6 bits (148), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 61/225 (27%), Positives = 93/225 (41%), Gaps = 21/225 (9%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + ++ G SRR+ +I RV V G A + DG+ + Sbjct: 3 LESILYTQGFGSRRQCRGLIETGRVNVAG------ASATDPDASFDTDGLVFTVDDTA-- 54 Query: 76 WLYH--------KPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLT 125 W +H KP G + DP ++VF LP+ + V VGRLD +T GLLLL+ Sbjct: 55 WPFHAHAYLALNKPAGYECSR-DPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLS 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG P + + Y +D +LN L+ G+ + G V + Sbjct: 114 DDGQFVHGYTSPKRKVPKTYVATVRHPLDDTQLNALRAGVQLHGEPKPIAAVAAHARDTH 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +TV EGK ++K++ + +V L R S G F L LA Sbjct: 174 ALALTV--LEGKYHQVKRMVAAASNRVEALHRESIGGFTLPDDLA 216 >gi|300928307|ref|ZP_07143843.1| RNA pseudouridine synthase [Escherichia coli MS 187-1] gi|300463693|gb|EFK27186.1| RNA pseudouridine synthase [Escherichia coli MS 187-1] Length = 167 Score = 61.6 bits (148), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 36/102 (35%), Positives = 58/102 (56%), Gaps = 4/102 (3%) Query: 68 RKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 RK E TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LT Sbjct: 32 RKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLT 89 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 N+G L L P + ++Y V+ G QD + L+ G+ + Sbjct: 90 NNGALQARLTQPGKRTGKIYYVQVEGFPTQDAIEALRNGVTL 131 >gi|260433638|ref|ZP_05787609.1| ribosomal large subunit pseudouridine synthase E [Silicibacter lacuscaerulensis ITI-1157] gi|260417466|gb|EEX10725.1| ribosomal large subunit pseudouridine synthase E [Silicibacter lacuscaerulensis ITI-1157] Length = 205 Score = 61.6 bits (148), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 48/185 (25%), Positives = 85/185 (45%), Gaps = 25/185 (13%) Query: 78 YHKPIGLVTTHSD----PDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++KP ++ +D RST+ D +LP ++ GRLD ++EGL+LLT++G L Sbjct: 11 FNKPFDVLPQFTDRQNTDSPRSTLSDFIDLPGVYP----AGRLDRDSEGLMLLTDNGRLQ 66 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG------ 184 + P + + Y V+ G D + L+ G+ + G+ +D +G Sbjct: 67 SHISDPKHKMPKTYWVQVEGIPDAAAIRALRDGVELNDGMTRPAKARLIDEPEGLWPRTP 126 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + W+ + LREG+NR+++++ RLIR G + L L GS + Sbjct: 127 PIRERKTVPDCWLELTLREGRNRQVRRMTAAVGHPTLRLIRARIGDWTLDDLAPGSWDSL 186 Query: 237 SKKIL 241 +L Sbjct: 187 PMPVL 191 >gi|21233067|ref|NP_638984.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66770007|ref|YP_244769.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas campestris pv. campestris str. 8004] gi|188993219|ref|YP_001905229.1| Ribosomal small subunit pseudouridylate synthase [Xanthomonas campestris pv. campestris str. B100] gi|21114919|gb|AAM42908.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66575339|gb|AAY50749.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas campestris pv. campestris str. 8004] gi|167734979|emb|CAP53191.1| Ribosomal small subunit pseudouridylate synthase [Xanthomonas campestris pv. campestris] Length = 237 Score = 61.6 bits (148), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 67/243 (27%), Positives = 104/243 (42%), Gaps = 23/243 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH------IEVDGVPLR 68 ++ K IA G SR++V ++ Q + AA V+ D I +DG PL Sbjct: 2 KLVKHIANLGYGSRKQVTQLFRQGAIT-------DAAGEVLYADDQVDHAAIRIDGEPLD 54 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINTEGLLLL 124 + L HKP G + D GR +++ LP F + VGRLD T G+LL+ Sbjct: 55 PPPGFSVLL-HKPSGYTCSTKD-TGR-LIYELLPPRFRLRAPVLAPVGRLDRETSGMLLM 111 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQK 183 T+DG L + P + +VY V + D+ L G ++++G + L+ Sbjct: 112 TDDGALLHRIISPKSALDKVYDVTLAEDLRGDEAALFASGTLLLEGETKPLLPAELEVLG 171 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 A +T L EG+ +++++F V L R G L L AG R + L Sbjct: 172 ARQARLT--LHEGRYHQVRRMFAAAGNHVVALHRSRIGGLSLDGLDAGHWRPLGPDDLEV 229 Query: 244 QLG 246 G Sbjct: 230 LFG 232 >gi|225164908|ref|ZP_03727125.1| RNA-binding S4 domain protein [Opitutaceae bacterium TAV2] gi|224800485|gb|EEG18864.1| RNA-binding S4 domain protein [Opitutaceae bacterium TAV2] Length = 253 Score = 61.6 bits (148), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 52/179 (29%), Positives = 79/179 (44%), Gaps = 27/179 (15%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINTEGLLLLTNDGGL 130 L + HKP G V +H + +G V+D LP + +V S+GRLD +T GLL+LT+ L Sbjct: 84 LLMLHKPTGFVCSHDEREG-PRVYDLLPPRWRARNPQVTSIGRLDKDTSGLLILTDRTEL 142 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 P + ++YR V ++L G + LD +K A T Sbjct: 143 VHTYTSPRHKVPKLYRATLDRDVPASLVDLFAAGT-----------LQLDGEKAPCAPAT 191 Query: 191 VGLR----------EGKNREIKKVF-EFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + L EGK +++++F V L R +G LG L G RE+S+ Sbjct: 192 LRLPAPRVAELVLVEGKYHQVRRMFAAAAGATVLTLHRECFGRLTLGDLKPGEYREISE 250 >gi|213423650|ref|ZP_03356630.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] Length = 165 Score = 61.6 bits (148), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 34/119 (28%), Positives = 58/119 (48%) Query: 47 LERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 L+ AA ++ + DG PL + R ++ +KP G V + DPD + ++ + Sbjct: 24 LKNAAFKLLPEHAVAYDGNPLAQQHGPRYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAY 83 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 ++ + GRLDI+T GL+L+T+DG + + P + Y V V D KG+ Sbjct: 84 KLHAAGRLDIDTTGLVLMTDDGQWSHRITSPRHHCEKTYLVTLESPVADDTAAQFAKGV 142 >gi|298208646|ref|YP_003716825.1| RNA pseudouridine synthase family protein [Croceibacter atlanticus HTCC2559] gi|83848569|gb|EAP86438.1| RNA pseudouridine synthase family protein [Croceibacter atlanticus HTCC2559] Length = 195 Score = 61.6 bits (148), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 40/143 (27%), Positives = 71/143 (49%), Gaps = 21/143 (14%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG--I 165 +S+GRLD +EGLLLLT DG ++ + S+++ + Y V+ G + + +N ++ G I Sbjct: 46 TMSIGRLDEMSEGLLLLTTDGKVSAAVT--SSKYEKEYIVQVSGDITEGAINEMRNGLTI 103 Query: 166 VIQGICYGDMQVTL-----------------DTQKGSNAWVTVGLREGKNREIKKVFEFF 208 I G Y T ++ G +W+++ +REGK R+++K+ Sbjct: 104 PINGKQYDTKPCTAFKLNKTPQFPERQKAIRSSRHGETSWLSISIREGKFRQVRKMTAKV 163 Query: 209 NWKVNRLIRISYGPFQLGTLLAG 231 + RL+RI G + L + G Sbjct: 164 GFPTLRLVRIRIGNYHLEDMQPG 186 >gi|221134604|ref|ZP_03560907.1| RNA pseudouridine synthase family protein [Glaciecola sp. HTCC2999] Length = 211 Score = 61.6 bits (148), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 46/176 (26%), Positives = 86/176 (48%), Gaps = 7/176 (3%) Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + V K++R + LYHKP+G+ T ++ + + D + +R+ VGRLD +EGL Sbjct: 26 ISAVAADKSDRVYV-LYHKPVGITCT-TERHIKGNIIDAIGH-KTRIFPVGRLDKPSEGL 82 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 ++LT+DG + + ++YRV + + ++ G+ I +V Sbjct: 83 IILTSDGDIVNKILRAENAHDKLYRVTVDKPITSKFIEIMSGGVPILDTVTKPCKV---K 139 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 Q G ++ + L +G NR+I+++ E+ + V RL+R L L G R ++ Sbjct: 140 QIGKFSF-DITLTQGLNRQIRRMCEYCGYDVKRLVRTRIMHLTLAKLPVGQWRNLT 194 >gi|241662183|ref|YP_002980543.1| pseudouridine synthase [Ralstonia pickettii 12D] gi|240864210|gb|ACS61871.1| pseudouridine synthase [Ralstonia pickettii 12D] Length = 248 Score = 61.6 bits (148), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 60/229 (26%), Positives = 98/229 (42%), Gaps = 25/229 (10%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTRLW 76 +++ G +RR + ++ V +NG+ +E V + + +VDG R A R + Sbjct: 11 RILQSQGFGTRRYCKDLVLAGLVCINGVEMESPDALVDTAGLVLDVDGE--RWAYHARAY 68 Query: 77 LY-HKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G V P +V+ LP V VGRLD +T GLLLLT+DG Sbjct: 69 LMLNKPAG-VECSQKPKHHPSVYTLLPVPLRERAVQCVGRLDQDTTGLLLLTDDGQFVHT 127 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT--- 190 + P Q +VY + V + ++ L G+++ + + + AW Sbjct: 128 ITSPRHQVPKVYEITTAEPVTEAQIAQLCAGVLLAD----------ENENVAAAWAERVG 177 Query: 191 -----VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L +GK ++K++ V L R + G LG L G R Sbjct: 178 THHLRMALTQGKYHQVKRMVAAAGNHVVGLHRSAIGGLSLGDLAPGEWR 226 >gi|113868037|ref|YP_726526.1| 16S rRNA uridine-516 pseudouridylate synthase [Ralstonia eutropha H16] gi|113526813|emb|CAJ93158.1| 16S rRNA uridine-516 pseudouridylate synthase [Ralstonia eutropha H16] Length = 583 Score = 61.6 bits (148), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 66/249 (26%), Positives = 109/249 (43%), Gaps = 34/249 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKAERT 73 R+SK ++ G+ SRRE + I V V+G + + IE+ + ER Sbjct: 332 RLSKRMSELGLCSRREADEWIPHGWVLVDGKPVTELGSRIRPDAEIEIMQEARSEQGERV 391 Query: 74 RLWLYHKPIGLVTTHSDP---------------DGRSTVFDNLPSIFSRVISVGRLDINT 118 + L +KP+G V+ ++ +G T P + GRLDI++ Sbjct: 392 TV-LLNKPVGYVSGQAEDGYEPAAVLFTPENQWEGDPTRKRFAPWQRKSLAPAGRLDIDS 450 Query: 119 EGLLLLTNDGGLARVL--ELPSTQWLRVYRVRFH-----------GQVDQDKLNLLKKGI 165 GLL+LT DG +AR L E + + + RV +H + D L LL+ G+ Sbjct: 451 TGLLVLTQDGRVARALIGEDSTVEKEYLVRVIWHSPQGVVERNISAEFPADDLELLRHGL 510 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G+ +V+ ++ + LREG+ R+I+++ E +V L R+ G L Sbjct: 511 SLDGVPLKPAKVSWQNEE----QLRFVLREGRKRQIRRMCEQVGLQVVGLKRVRMGRVVL 566 Query: 226 GTLLAGSTR 234 G L G R Sbjct: 567 GDLPPGKWR 575 >gi|300724003|ref|YP_003713317.1| 16S rRNA pseudouridylate 516 synthase [Xenorhabdus nematophila ATCC 19061] gi|297630534|emb|CBJ91199.1| 16S rRNA pseudouridylate 516 synthase [Xenorhabdus nematophila ATCC 19061] Length = 235 Score = 61.6 bits (148), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 53/224 (23%), Positives = 98/224 (43%), Gaps = 3/224 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR +V R + V V+ +++ A + + DG ++ R Sbjct: 2 RLDKFLSQQLGISRNDVGRELRAGLVTVDNEVIKTGAYKLKLDQQVAYDGTIFQQLNGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V + DP + ++ + ++ S GRLDI+T GL+LLT+DG + + Sbjct: 62 YFMLNKPQGYVCSTDDPSNPTVLYFIDEPVAHKLHSAGRLDIDTTGLVLLTDDGQWSHRI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + ++ GI + G L+ + +T+ Sbjct: 122 TSPKHHCEKTYLVTLEQPISEETEEKFLAGIQLNGEKTLTKPAKLEIIEPQIVRLTIS-- 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVS 237 EG+ ++K++F V L R G L L AG R ++ Sbjct: 180 EGRYHQVKRMFAAVGNHVVELHRERIGEIYLDPALEAGEYRALT 223 >gi|311694975|gb|ADP97848.1| RNA pseudouridylate synthase [marine bacterium HP15] Length = 175 Score = 61.6 bits (148), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 39/152 (25%), Positives = 71/152 (46%), Gaps = 18/152 (11%) Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 ++P I+ GRLD ++EGLLLLT +G L + PS + + Y V+ G + ++ L Sbjct: 2 HIPGIYP----AGRLDYDSEGLLLLTAEGSLQHRIASPSLKMPKTYWVQVEGNISEEALR 57 Query: 160 LLKKGIVIQG--------------ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 L G+ ++ + + +W+ + + EGKNR+++++ Sbjct: 58 HLASGVQLKDGLTRPAKADRMPAPTVWPRVPPVRHRDNIPTSWIELTITEGKNRQVRRMT 117 Query: 206 EFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + RLIR G + L L +G+ R V+ Sbjct: 118 AAVGFPTLRLIRYRIGDWTLDGLESGAHRTVT 149 >gi|289665491|ref|ZP_06487072.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas campestris pv. vasculorum NCPPB702] gi|289668330|ref|ZP_06489405.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas campestris pv. musacearum NCPPB4381] Length = 237 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 68/238 (28%), Positives = 109/238 (45%), Gaps = 13/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++ K IA G SR++V ++ Q V G ++ A + + D I +DG PL Sbjct: 2 KLVKHIANLGYGSRKQVTQLFRQGAVTDAQGEVVY--ADDQVEHDAIRIDGEPLDPPPGF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SR---VISVGRLDINTEGLLLLTNDGG 129 L L HKP G + D GR +++ LP F SR + VGRLD +T G+LL+T+DG Sbjct: 60 SLLL-HKPSGYTCSTKD-TGR-LIYELLPPRFRSRAPVLAPVGRLDRDTSGMLLMTDDGA 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAW 188 L + P + +VY + + D+ L G ++++G + L+ A Sbjct: 117 LLHRIISPKSALDKVYDITLAEDLRGDEAALFASGTLLLEGETKPLLPAELEVLGLREAR 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +T L EG+ +++++F V L R G L L +G R + L G Sbjct: 177 LT--LHEGRYHQVRRMFAAAGNHVVALHRSRIGGLLLDGLPSGQWRALEASDLEVLFG 232 >gi|167585734|ref|ZP_02378122.1| Pseudouridine synthase, Rsu [Burkholderia ubonensis Bu] Length = 238 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 67/223 (30%), Positives = 99/223 (44%), Gaps = 10/223 (4%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERTRLWLYHKP 81 G SRR+ ++ RV V G TD + VDGV R L L +KP Sbjct: 11 GFGSRRQCRGLVDAARVAVAGAPCTDPDAE-FDTDGLVVSVDGVAWPFHARAYLAL-NKP 68 Query: 82 IGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPST 139 G + DP ++VF LP+ + V VGRLD +T GLLLL++DG P Sbjct: 69 AGYECSR-DPQHHASVFSLLPTPLVARGVQCVGRLDQDTTGLLLLSDDGQFVHAYTSPKR 127 Query: 140 QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNR 199 + + Y +D +L+ L+ G+ + G V D + +TV EGK Sbjct: 128 KVPKTYVATVRHPLDDAQLHALRTGVQLHGEPKPIAAVAADARDAHVLALTV--LEGKYH 185 Query: 200 EIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 ++K++ + +V L R S G F L L G+ R +S+ L Sbjct: 186 QVKRMVAAASNRVEALHRESIGGFALPADLEPGAWRWLSEADL 228 >gi|99081002|ref|YP_613156.1| ribosomal large subunit pseudouridine synthase E [Ruegeria sp. TM1040] gi|99037282|gb|ABF63894.1| ribosomal large subunit pseudouridine synthase E [Ruegeria sp. TM1040] Length = 221 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 46/180 (25%), Positives = 87/180 (48%), Gaps = 25/180 (13%) Query: 73 TRLWLYHKPIGLVTTHSD--PDG--RSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTN 126 +RL ++KP ++ +D +G R+T+ D + P ++ GRLD ++EGL+LLT+ Sbjct: 2 SRLIRFNKPFDVLPQFTDRGSEGSPRATLSDYVDCPGVYP----AGRLDRDSEGLMLLTD 57 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-- 184 +G L + P + + Y V+ G +D L L++G+ ++ + L ++ Sbjct: 58 NGRLQAWISDPKHKLEKTYWVQVEGIPTEDALKALRQGVDLKDGMTRPAKAELISEPAQL 117 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 AW+ + + EGKNR+++++ + RLIR + G + L L G Sbjct: 118 WARTPPIRERKSVPTAWLELKISEGKNRQVRRMTAAMGYPTLRLIRYAIGAWTLDGLAQG 177 >gi|226330251|ref|ZP_03805769.1| hypothetical protein PROPEN_04164 [Proteus penneri ATCC 35198] gi|225201046|gb|EEG83400.1| hypothetical protein PROPEN_04164 [Proteus penneri ATCC 35198] Length = 104 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 35/92 (38%), Positives = 59/92 (64%), Gaps = 9/92 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGI---LLERAAVNVMSTDHIEVDG--VPLR 68 +++ K++AR+G SRRE+E + + R+ ++G L +R ++V ST I +DG + +R Sbjct: 9 EKLQKILARSGHGSRREIEGYLQEGRISIDGTKAKLGDR--IDVTSTAKIRLDGRILNIR 66 Query: 69 KAER--TRLWLYHKPIGLVTTHSDPDGRSTVF 98 +A++ R+ Y+KP G + T SDP GR TVF Sbjct: 67 EAQKDVCRVLAYYKPEGELCTRSDPQGRPTVF 98 >gi|126642512|ref|YP_001085496.1| putative pseudouridine synthase [Acinetobacter baumannii ATCC 17978] gi|213158201|ref|YP_002320252.1| pseudouridine synthase, Rsu [Acinetobacter baumannii AB0057] gi|215482683|ref|YP_002324879.1| Ribosomal large subunit pseudouridine synthase E [Acinetobacter baumannii AB307-0294] gi|213057361|gb|ACJ42263.1| pseudouridine synthase, Rsu [Acinetobacter baumannii AB0057] gi|213985967|gb|ACJ56266.1| Ribosomal large subunit pseudouridine synthase E [Acinetobacter baumannii AB307-0294] gi|322508988|gb|ADX04442.1| Pseudouridine synthase [Acinetobacter baumannii 1656-2] gi|323518972|gb|ADX93353.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter baumannii TCDC-AB0715] Length = 240 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 40/144 (27%), Positives = 72/144 (50%), Gaps = 19/144 (13%) Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--- 167 GRLD+++EGL+ LT+ GGL + + P+ + + Y V+ G V ++ L L+KG+ + Sbjct: 15 AGRLDMDSEGLVFLTDHGGLNQFITNPANKKYKTYLVQVDGDVTEEALEQLRKGVELNDG 74 Query: 168 -----QGICYGDMQVTLDTQKG-------SNAWVTVGLREGKNREIKKVFEFFNWKVNRL 215 + I + + D +W+ + + EG+NR+++++ + RL Sbjct: 75 MTLPAKAIKVSEPEWLWDRDPPVRYRASIPTSWIEISICEGRNRQVRRMTSAVGFPTLRL 134 Query: 216 IRISYGPF---QLGTLLAGSTREV 236 IR G QLG L G T+E+ Sbjct: 135 IRTKIGTIDLVQLG-LQPGETKEI 157 >gi|303285788|ref|XP_003062184.1| predicted protein [Micromonas pusilla CCMP1545] gi|226456595|gb|EEH53896.1| predicted protein [Micromonas pusilla CCMP1545] Length = 244 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 59/244 (24%), Positives = 110/244 (45%), Gaps = 33/244 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILL--ERAAVNVMSTDHIEVDGVPLRKAER 72 R+ K +A+ G+ASRR E +I RV VNG+++ + V + V E Sbjct: 1 RLGKALAQLGVASRRASEDLIFAGRVAVNGVVVTAPQHHVVLADDVVAVDGKVIQGGVEE 60 Query: 73 TRLWLY---HKPIGLVTTHSD----PDGRST------------VFDNLPSIF-------- 105 TR LY +KP G + ++ P G+ +FD + + Sbjct: 61 TREHLYFLLNKPKGYICANAKSPNKPPGKGERGGGASGKLVMDLFDEWKAAWRKKHPKRL 120 Query: 106 -SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 R+ +VGRLD+NT G+LL+T DG + + P ++ ++ Y + + + ++ + G Sbjct: 121 PPRLFTVGRLDVNTTGMLLVTTDGQWCQRVAHPKSEVVKSYVLTASARPTKAQIRAMAAG 180 Query: 165 IVIQGICYGDMQV-TLDTQK--GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + G + V ++D + G V V + +G+NRE++++ +L R+ G Sbjct: 181 AEVDGAFVKPVNVRSMDNDRDGGPPNRVLVEVVDGRNREVRQLASSAGVDCKKLKRVRVG 240 Query: 222 PFQL 225 ++ Sbjct: 241 GLRM 244 >gi|103487783|ref|YP_617344.1| pseudouridine synthase, Rsu [Sphingopyxis alaskensis RB2256] gi|98977860|gb|ABF54011.1| ribosomal large subunit pseudouridine synthase E [Sphingopyxis alaskensis RB2256] Length = 185 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 47/186 (25%), Positives = 88/186 (47%), Gaps = 27/186 (14%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV---------FDNLPSIFSRVISVGRLDINTEGLLLL 124 RL L++KP G+++ +D G + ++P ++ GRLD ++EGLL+L Sbjct: 3 RLILFNKPYGVLSQFTDRGGADGTGGGRATLSDYIDVPGVYP----AGRLDKDSEGLLVL 58 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-------------IQGIC 171 T+DG L + P + + Y + G+ D L+ L +G+ I Sbjct: 59 TDDGALQARISSPKHKMPKTYLAQVEGEPDDAALDALARGVTLNDGPTRPATVRRIGAPK 118 Query: 172 YGDMQVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 D + +K ++W+ + + EG+NR+++++ RL+R G +++G L Sbjct: 119 LWDRDPPVRYRKSVPDSWLELTITEGRNRQVRRMTAAVGHPTLRLVRWRIGGWEIGDLAV 178 Query: 231 GSTREV 236 G+ REV Sbjct: 179 GAWREV 184 >gi|126172676|ref|YP_001048825.1| pseudouridine synthase [Shewanella baltica OS155] gi|125995881|gb|ABN59956.1| pseudouridine synthase [Shewanella baltica OS155] Length = 233 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 63/218 (28%), Positives = 95/218 (43%), Gaps = 13/218 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + ++ R I V VNG + A+ V + + ++ PL +R Sbjct: 2 RLDKFLCKSTDLDRDAASVAIINGSVTVNGAIATDCAMQVHENNAVCLNEKPLMP-RPSR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ HKP T S+ DG +L I F I VGRLD +T GL+LLT+DG + Sbjct: 61 YFMLHKPAD--TLCSNVDGAYPSLFHLLDIEHAFDLHI-VGRLDADTTGLVLLTDDGRWS 117 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQD----KLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 + P Q +VYRV +D + G+ +QG + TL Q+ Sbjct: 118 FNIISPQYQCEKVYRVTLRDPLDSEATAAIAATFAAGLQLQGETALTLPATL--QQVDEK 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V + L EGK ++K++F KV L R G L Sbjct: 176 TVLLTLTEGKFHQVKRMFAAVGNKVVALHRAQIGAVTL 213 >gi|300691607|ref|YP_003752602.1| pseudouridine synthase [Ralstonia solanacearum PSI07] gi|299078667|emb|CBJ51325.1| Pseudouridine synthase [Ralstonia solanacearum PSI07] Length = 641 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 70/255 (27%), Positives = 113/255 (44%), Gaps = 46/255 (18%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G + V IE+ +P ++E+ Sbjct: 390 RLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVRPDAEIEI--LPAARSEQGE 447 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--------------------VISVG 112 L HKP+G V+ ++ DG ++ ++F+ + G Sbjct: 448 RVTVLLHKPVGYVSGQAE-DG----YEPAAALFTAENQWEEDPTHKRFAAWQHKGLAPAG 502 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF-----HGQVDQDK--------LN 159 RLDI++ GLL+LT DG +AR L + + Y VR G V+ D L Sbjct: 503 RLDIDSTGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWDAPQGPVEHDVSKVFPEELLE 562 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 L+ G+ + G +V+ ++ + LREGK R+I+++ E +V L RI Sbjct: 563 KLRHGLSLDGEALKPAKVSWQNEE----QLRFVLREGKKRQIRRMCEQVGLEVVGLKRIR 618 Query: 220 YGPFQLGTLLAGSTR 234 G LG L G R Sbjct: 619 MGRVVLGDLPVGKWR 633 >gi|194290617|ref|YP_002006524.1| 23S rRNA pseudouridine synthase [Cupriavidus taiwanensis LMG 19424] gi|193224452|emb|CAQ70463.1| 23S rRNA pseudouridine synthase [Cupriavidus taiwanensis LMG 19424] Length = 220 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 44/167 (26%), Positives = 75/167 (44%), Gaps = 21/167 (12%) Query: 79 HKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +KP G ++ S+ R T+ ++P ++ GRLD ++EGLLLLT+DG L + Sbjct: 7 NKPFGTMSQFSEHPTRPTLASCVSVPGVYP----AGRLDADSEGLLLLTDDGVLQARIAD 62 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------------ 184 P + + Y + G D D L L+ G+ + +V Sbjct: 63 PRHKLEKTYLAQVEGIPDADALARLRAGVDLGDFVTRPAKVRAVEAPDWLWPRHPPVRFR 122 Query: 185 ---SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 +W+ + +REGKNR+++++ RLIR+ G L +L Sbjct: 123 AAIPTSWLELKIREGKNRQVRRMTAAVGLPTLRLIRVGIGALDLRSL 169 >gi|255654429|ref|ZP_05399838.1| putative RNA pseudouridine synthase [Clostridium difficile QCD-23m63] Length = 141 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 48/136 (35%), Positives = 69/136 (50%), Gaps = 10/136 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 QR+ K+++ G SR E+++ Q V VNG + V D I +G + E Sbjct: 5 QRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYREY 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + +KP G V+ +D TV D +L + VGRLD +TEGLL+LTNDG L Sbjct: 65 IYLMM-NKPDGYVSATTD-KYDPTVLDLIDLSYLAFEPFPVGRLDKDTEGLLVLTNDGKL 122 Query: 131 A-RVL----ELPSTQW 141 + RVL +P T + Sbjct: 123 SHRVLSPKKHVPKTYY 138 >gi|221199286|ref|ZP_03572330.1| pseudouridine synthase, Rsu [Burkholderia multivorans CGD2M] gi|221205812|ref|ZP_03578827.1| pseudouridine synthase, Rsu [Burkholderia multivorans CGD2] gi|221174650|gb|EEE07082.1| pseudouridine synthase, Rsu [Burkholderia multivorans CGD2] gi|221180571|gb|EEE12974.1| pseudouridine synthase, Rsu [Burkholderia multivorans CGD2M] Length = 238 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 62/219 (28%), Positives = 95/219 (43%), Gaps = 9/219 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--EVDGVPLRKAERT 73 + ++ G SRR+ +I RV + G + TD + VDG P R Sbjct: 3 LESILYTQGFGSRRQCRGLIEAGRVAIGGAPATDPDAE-LDTDGLVFTVDGTPWPFHARA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L +KP G + DP +VF LP+ + V VGRLD +T GLLLL++DG Sbjct: 62 YVVL-NKPAGYECSR-DPQHHPSVFSLLPAPLVARGVQCVGRLDQDTTGLLLLSDDGQFV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 P + + Y +D +L+ L+ G+ + G V D + +TV Sbjct: 120 HAYTSPKRKVPKTYVATVRHALDAAQLDALRGGVQLHGEPKPVAAVAADARDPHTLALTV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EGK ++K++ + +V L R S G L LA Sbjct: 180 --LEGKYHQVKRMVAAASNRVEALHRESVGGLALPADLA 216 >gi|325929292|ref|ZP_08190423.1| ribosomal small subunit pseudouridine synthase A [Xanthomonas perforans 91-118] gi|325929321|ref|ZP_08190452.1| ribosomal small subunit pseudouridine synthase A [Xanthomonas perforans 91-118] gi|325540314|gb|EGD11925.1| ribosomal small subunit pseudouridine synthase A [Xanthomonas perforans 91-118] gi|325540343|gb|EGD11954.1| ribosomal small subunit pseudouridine synthase A [Xanthomonas perforans 91-118] Length = 237 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 66/238 (27%), Positives = 108/238 (45%), Gaps = 13/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++ K IA G SR++V ++ Q + G +L A + + D I +DG PL Sbjct: 2 KLVKHIANLGYGSRKQVTQLFRQGAITDAQGEVLY--ADDQVEHDAIRIDGEPLDPPAGL 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVIS-VGRLDINTEGLLLLTNDGG 129 L L HKP G + D GR +++ LP F + V++ VGRLD T G+LL+T+DG Sbjct: 60 SLLL-HKPSGYTCSTKD-TGR-LIYELLPPRFRLRAPVLAPVGRLDRETSGMLLMTDDGA 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAW 188 L + P + +VY + + ++ L G +++ G + L+ A Sbjct: 117 LLHRIISPKSALDKVYDITLAEDLHGEEAALFASGSLLLDGETKPLLPAELEVLGPRQAR 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +T L EG+ +++++F V L R G L L +G R + L G Sbjct: 177 LT--LHEGRYHQVRRMFAAAGNHVVALHRSRIGGLSLDGLPSGQWRALEANDLEVLFG 232 >gi|307545292|ref|YP_003897771.1| pseudouridine synthase [Halomonas elongata DSM 2581] gi|307217316|emb|CBV42586.1| pseudouridine synthase [Halomonas elongata DSM 2581] Length = 233 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 65/241 (26%), Positives = 108/241 (44%), Gaps = 30/241 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A + +R +R + + V VNG L ++AA +V TD I G L TR Sbjct: 2 RLDRFLAESTELTRGLAKRALIRGEVSVNGELEKKAARHVQETDRITWLGERLSLVG-TR 60 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+ T R+ ++P + R+ VGRLD+ T GLLL+T+DG + Sbjct: 61 YIMLHKPEGVECTARRGLYPRAVDLLDVPKV-ERLQPVGRLDVETTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDK----LNLLKKGIVIQG----------ICYGDMQVTL 179 + P + + Y R ++ D+ + +GIV++G C D +V L Sbjct: 120 ITSPRRRCPKAYVARLARPLEGDEARRAMQAFAEGIVLEGEDAPTRPAELTCLDDHRVRL 179 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 + EG+ +++++ V L R S G L TL G RE++ Sbjct: 180 ------------VIDEGRYHQVRRMLAAIGNHVETLHRESVGALVLDDTLEPGEWRELTP 227 Query: 239 K 239 + Sbjct: 228 E 228 >gi|262274514|ref|ZP_06052325.1| putative pseudouridine synthase family 1 protein [Grimontia hollisae CIP 101886] gi|262221077|gb|EEY72391.1| putative pseudouridine synthase family 1 protein [Grimontia hollisae CIP 101886] Length = 170 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 44/162 (27%), Positives = 75/162 (46%), Gaps = 16/162 (9%) Query: 93 GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 G +T+ D +P V GRLD ++EGLL+LTNDG L L P ++ + Y V+ G Sbjct: 9 GDATLADFIP--VKDVYPAGRLDKDSEGLLVLTNDGILQARLTQPKSKSAKTYWVQVEGI 66 Query: 153 VDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQ-------------KGSNAWVTVGLREGKN 198 ++ L L+ G+ ++ G + +D W+++ L EG+N Sbjct: 67 PSENALKSLRNGVELKDGWTLPAIVEIMDEPAIWDRNPPIRHRPSVPTTWLSITLTEGRN 126 Query: 199 REIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 R+++++ RL+R G + + L G REV + Sbjct: 127 RQVRRMTAAVGHPTLRLVRYQMGHWTVDGLQPGEWREVPPPV 168 >gi|78184255|ref|YP_376690.1| pseudouridine synthase, Rsu [Synechococcus sp. CC9902] gi|78168549|gb|ABB25646.1| Pseudouridine synthase, Rsu [Synechococcus sp. CC9902] Length = 213 Score = 61.2 bits (147), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 52/195 (26%), Positives = 86/195 (44%), Gaps = 41/195 (21%) Query: 77 LYHKPIGLVTTHSDPDGRSTV----FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L HKP G+++ + + F + P +++ GRLD ++EGLL+LT++G L + Sbjct: 5 LLHKPYGVLSQFTREENSRWASLQDFVDTPDVYA----AGRLDADSEGLLVLTSNGRLQQ 60 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----------------ICYGD-- 174 L P R Y V+ G +L L+ GI +QG GD Sbjct: 61 QLTDPRFGHWRTYWVQVEGTPQPHQLQQLRDGITVQGHRTRPAKAAWLKAEAIPTIGDRV 120 Query: 175 ----MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQ 224 + T+ T W+ + L EG+NR+++++ RL+R + P Sbjct: 121 PPIRYRATIPTH-----WLEISLTEGRNRQVRRMTAAVGLPTLRLVRHTIDLMDGGTPLT 175 Query: 225 LGTLLAGSTREVSKK 239 L L G++R VSK+ Sbjct: 176 LTGLEPGASRAVSKE 190 >gi|62179758|ref|YP_216175.1| putative ribosomal large subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|62127391|gb|AAX65094.1| putative ribosomal large subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|322714228|gb|EFZ05799.1| putative ribosomal large subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] Length = 219 Score = 61.2 bits (147), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 51/169 (30%), Positives = 80/169 (47%), Gaps = 21/169 (12%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L Sbjct: 66 RVVLFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDCDSEGLLVLTNDGVL--- 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWVT 190 Q LR V + L GI I + + + +W+ Sbjct: 121 ------QALRT-------GVTLNDGPTLPAGIEIVAEPDWLWPRTPPIRERKNIPTSWLK 167 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V L EG+NR+++++ RLIR S G + L L G RE++++ Sbjct: 168 VTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQWREIAQE 216 >gi|262370314|ref|ZP_06063640.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter johnsonii SH046] gi|262314656|gb|EEY95697.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter johnsonii SH046] Length = 262 Score = 60.8 bits (146), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 39/144 (27%), Positives = 71/144 (49%), Gaps = 19/144 (13%) Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 GRLD+++EGL+ LT+ GGL + + P+ + + Y V+ G V ++ L L+KG+ ++ Sbjct: 37 AGRLDMDSEGLVFLTDHGGLNQYITNPANKKFKTYLVQVDGDVTEEALEQLRKGVELKDG 96 Query: 171 CYGDMQVTLDTQKG---------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRL 215 + + Q +WV + + EG+NR+++++ + RL Sbjct: 97 MTLPAEASKVEQPEWLWERDPPVRFRASVPTSWVEISICEGRNRQVRRMTAAVGFPTLRL 156 Query: 216 IRISYGPF---QLGTLLAGSTREV 236 IR G Q+G L G T+E+ Sbjct: 157 IRTKIGAIDLVQMG-LQPGETKEI 179 >gi|261856640|ref|YP_003263923.1| pseudouridine synthase [Halothiobacillus neapolitanus c2] gi|261837109|gb|ACX96876.1| pseudouridine synthase [Halothiobacillus neapolitanus c2] Length = 180 Score = 60.8 bits (146), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 39/139 (28%), Positives = 66/139 (47%), Gaps = 15/139 (10%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 V + GRLD ++EGLLLLT+DG L L P + + Y + G V L L+ G+V+ Sbjct: 35 VYAAGRLDRDSEGLLLLTDDGRLQAQLTQPDAKQPKTYLAQVDGDVTAQALAQLRAGVVL 94 Query: 168 QGICYGDMQVTLDTQKG---------------SNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + +W+ + + EGKNR+++++ + Sbjct: 95 KDGKTRPAEAHVVPEPDWLWPRTPPIRVRKNIPTSWIELTITEGKNRQVRRMTAAVGFPT 154 Query: 213 NRLIRISYGPFQLGTLLAG 231 RLIR++ G LG+L G Sbjct: 155 LRLIRVAVGSHNLGSLQPG 173 >gi|295425099|ref|ZP_06817804.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus amylolyticus DSM 11664] gi|295065158|gb|EFG56061.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus amylolyticus DSM 11664] Length = 173 Score = 60.8 bits (146), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 36/129 (27%), Positives = 63/129 (48%), Gaps = 13/129 (10%) Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 + + VG LD +T GLLLLTNDG L L P ++YR + G ++++ + G Sbjct: 29 YQGISPVGCLDKDTTGLLLLTNDGQLNHELLAPGKHVDKIYRAKIAGPINEETVKTFASG 88 Query: 165 IVIQGICYGD--------MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + + GD +++ +K + + + ++EGK +IK++F K L Sbjct: 89 MTL-----GDDTKLKPATLKILSQDEKEDTSQIEIKIQEGKYHQIKRIFAAVGMKAIELD 143 Query: 217 RISYGPFQL 225 RI+ G +L Sbjct: 144 RIAMGNLRL 152 >gi|262370359|ref|ZP_06063685.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter johnsonii SH046] gi|262314701|gb|EEY95742.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter johnsonii SH046] Length = 244 Score = 60.8 bits (146), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 50/213 (23%), Positives = 99/213 (46%), Gaps = 7/213 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 + K++ G SR+ +++I ++++G ++ + + + +V G E+ Sbjct: 3 LEKMLQSQGFGSRKHCQQLIKNAAIEIDGQIITDPKYKLKLDALNYKVHGKSFEYREKVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G +H +VFD + + VGRLD +T GLLLLT+DG + Sbjct: 63 IAL-NKPQGYECSHQ-ATHHFSVFDLFDDVLLNRGIQCVGRLDQDTTGLLLLTDDGQFLQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VYR++ V +++ L++G+ ++ G T D ++ + + + Sbjct: 121 ALTHPKKHVAKVYRMKTADPVTDEQVQQLEQGVELRNE-KGSFAAT-DVKRLAECELQMT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G ++K++ KV L R G L Sbjct: 179 VHQGVYHQVKRMLAAVGNKVESLHRQQIGALDL 211 >gi|74316871|ref|YP_314611.1| ribosomal large subunit pseudouridine synthase E [Thiobacillus denitrificans ATCC 25259] gi|74056366|gb|AAZ96806.1| pseudouridine synthase, Rsu [Thiobacillus denitrificans ATCC 25259] Length = 180 Score = 60.8 bits (146), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 51/187 (27%), Positives = 88/187 (47%), Gaps = 33/187 (17%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDN---LPSIFSRVISVGRLDINTEGLLLLTNDGG 129 RL L++KP G+++ + P+GR + LP +++ GRLD ++EGLL+LT+DG Sbjct: 2 ARLILFNKPYGVLSQFT-PEGRWQGLRDHLALPGVYA----AGRLDADSEGLLILTDDGP 56 Query: 130 L-ARVLE----LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 AR+ + LP T W +V G L L++G+ + + + Sbjct: 57 TQARIADPRHKLPKTYWAQV-----EGAPADADLEPLRRGVDLGDFVTRPAGARIIAEPP 111 Query: 185 S---------------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 S AW+ + + EGKNR+++++ + RLIR + G + L L Sbjct: 112 SLWPRNPPIRFRANIPTAWIELVIAEGKNRQVRRMTAKVGFPTLRLIRAAVGEWNLNGLQ 171 Query: 230 AGSTREV 236 G +E+ Sbjct: 172 PGQWKEL 178 >gi|226330250|ref|ZP_03805768.1| hypothetical protein PROPEN_04163 [Proteus penneri ATCC 35198] gi|225201045|gb|EEG83399.1| hypothetical protein PROPEN_04163 [Proteus penneri ATCC 35198] Length = 176 Score = 60.8 bits (146), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 31/89 (34%), Positives = 50/89 (56%) Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 PS + R Y VR G++D K+ L +G+ ++ V+ +G N W V L EG Sbjct: 3 PSREVEREYAVRVFGEIDDAKIRQLTRGVQLEDGPASFRSVSYRGGEGINQWYNVSLTEG 62 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +NRE+++++E +V+RLIR+ YG L Sbjct: 63 RNREVRRMWEAVGVQVSRLIRVRYGDIDL 91 >gi|220936136|ref|YP_002515035.1| pseudouridine synthase [Thioalkalivibrio sp. HL-EbGR7] gi|219997446|gb|ACL74048.1| pseudouridine synthase [Thioalkalivibrio sp. HL-EbGR7] Length = 180 Score = 60.8 bits (146), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 46/173 (26%), Positives = 81/173 (46%), Gaps = 17/173 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L +KP ++ +D +GR T+ +P V + GRLD ++EGL++LT+DG L Sbjct: 3 RIILLNKPFDVLCQFTDREGRRTLAVYVPE--PGVYAAGRLDRDSEGLVVLTDDGRLQAR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG-------- 184 + P + + Y V+ G D L L +G+ ++ G+ +D G Sbjct: 61 ISDPKHKMSKTYWVQVEGVPDAQALKALAEGVELKDGLTLPARVKIIDEPPGLWPRDPPI 120 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +W+ + + EG+NR+++++ RLIR G + L L G Sbjct: 121 RVRQSIPTSWLELTISEGRNRQVRRMTAAVGHPTLRLIRYRVGSWTLDGLGPG 173 >gi|148653886|ref|YP_001280979.1| pseudouridine synthase [Psychrobacter sp. PRwf-1] gi|148572970|gb|ABQ95029.1| ribosomal large subunit pseudouridine synthase E [Psychrobacter sp. PRwf-1] Length = 203 Score = 60.8 bits (146), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 48/180 (26%), Positives = 86/180 (47%), Gaps = 27/180 (15%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLARVL 134 L++KP G+ + SD + F L F+ + GRLD +EGLLLLT+DG + + + Sbjct: 8 LFNKPYGVQSQFSD--DANNKFAPLSQFFTDKSLRVAGRLDATSEGLLLLTSDGQVNKAI 65 Query: 135 ELPST-----QWLRVYRVRFHGQVDQDKLNLLKKGIV----------IQGICYGDMQVTL 179 P + + Y V+ G ++L L++G++ ++ I D+ + L Sbjct: 66 THPPKANAGRKQGKTYLVQVEGIPSNEQLEQLRQGVLLKDGQTLPAEVKHISEEDLPMPL 125 Query: 180 --------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + ++W+ + + EGKNR+++++ RLIR S F+LG L G Sbjct: 126 WQRDPPIRERKSVPDSWLMMTIYEGKNRQVRRMTAHVGLPCLRLIRWSAAGFELGNLAVG 185 >gi|33863440|ref|NP_895000.1| pseudouridine synthase [Prochlorococcus marinus str. MIT 9313] gi|33640889|emb|CAE21345.1| possible pseudouridine synthase [Prochlorococcus marinus str. MIT 9313] Length = 215 Score = 60.8 bits (146), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 45/160 (28%), Positives = 75/160 (46%), Gaps = 21/160 (13%) Query: 77 LYHKPIGLVTTHSDPDGRS--TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G ++ + G + D +P RV + GRLD ++EGLL+LT+ G L L Sbjct: 12 LLNKPYGFLSQFTPEPGSQWRCLADLIP--IPRVYAAGRLDADSEGLLVLTSHGRLQHRL 69 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---------ICYGDMQVTLDT---- 181 P RVY V+ G + +L L G++I+G G++ + Sbjct: 70 TNPHLSHWRVYWVQVEGSPSESQLQKLASGVIIKGKRTRPALASWLKGNVAPIVREREPP 129 Query: 182 ----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 Q +W+ + L+EG+NR+++++ RLIR Sbjct: 130 IRVRQSIPTSWLELKLKEGRNRQVRRMTAAVGLPTLRLIR 169 >gi|153853944|ref|ZP_01995277.1| hypothetical protein DORLON_01268 [Dorea longicatena DSM 13814] gi|149753326|gb|EDM63257.1| hypothetical protein DORLON_01268 [Dorea longicatena DSM 13814] Length = 216 Score = 60.8 bits (146), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 55/188 (29%), Positives = 86/188 (45%), Gaps = 28/188 (14%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARVL 134 +++HKP G VT D D TV D + + R+ VGRLD T GLLL+T+DG + L Sbjct: 26 YMFHKPFGCVTARRD-DRYPTVMDYFEELQNDRLSPVGRLDRETTGLLLITDDGIFNQKL 84 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---------------ICYGDMQVTL 179 PS + Y G + + ++ L+ G++++G D+ TL Sbjct: 85 THPSYHKEKTYEFTLLGDLTPELVHKLETGVILKGADTLTAPAKITVTGHAVMSDILSTL 144 Query: 180 ------DTQKG-SNAWVTVG---LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TL 228 D K + +T G + EGK R+I+++ + + V L RIS G L L Sbjct: 145 PEEIQKDIHKNRPDHPITYGIITISEGKKRQIRRMMKSVHCCVIELKRISIGDIVLDKAL 204 Query: 229 LAGSTREV 236 G +E+ Sbjct: 205 CPGEWKEI 212 >gi|299769196|ref|YP_003731222.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter sp. DR1] gi|298699284|gb|ADI89849.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter sp. DR1] Length = 262 Score = 60.8 bits (146), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 45/181 (24%), Positives = 87/181 (48%), Gaps = 21/181 (11%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ + +KP +++ + TV D + R+ GRLD+++EGL+ LT+ GGL + Sbjct: 2 KIVILNKPYDVLSQFRKDEAHMTVSDFVDDPTLRL--AGRLDMDSEGLVFLTDHGGLNQF 59 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG-------- 184 + P+ + + Y V+ G V ++ L L+KG+ + G+ + + + Sbjct: 60 ITNPANKKYKTYLVQVDGDVTEEALEQLRKGVELNDGMTLPATAIKVSEPEWLWERNPPV 119 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF---QLGTLLAGSTRE 235 +WV + + EG+NR+++++ + RLIR G QLG L G +E Sbjct: 120 RYRANIPTSWVEISICEGRNRQVRRMTSAVGFPTLRLIRTKIGSIDLVQLG-LRPGDVKE 178 Query: 236 V 236 + Sbjct: 179 I 179 >gi|126661900|ref|ZP_01732899.1| RNA pseudouridine synthase family protein [Flavobacteria bacterium BAL38] gi|126625279|gb|EAZ95968.1| RNA pseudouridine synthase family protein [Flavobacteria bacterium BAL38] Length = 188 Score = 60.8 bits (146), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 49/182 (26%), Positives = 83/182 (45%), Gaps = 22/182 (12%) Query: 76 WLYHKPIGLVTTHSDPDGR-STVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L HKP G ++ R + L +++GRLD ++EGLLLLT DG ++ ++ Sbjct: 5 FLIHKPYGYLSQFIYELKRPKKLLGELYDFPGNTMAIGRLDEDSEGLLLLTTDGMMSEIV 64 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--------QGICYGDMQVTL------- 179 S + + Y + G + ++ + LK + I C + T+ Sbjct: 65 R--SKKVEKEYYAQVDGLITEEAIEKLKNRVEIGFNGKKYLTKKCNAFILETIPNLGERG 122 Query: 180 ----DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 D + G +WV++ L EGK R+++K+ + RL+R+ G L L AG E Sbjct: 123 KKIRDERHGPTSWVSITLTEGKFRQVRKMTSAVGFPTLRLVRVRVGNIHLNDLKAGEVLE 182 Query: 236 VS 237 VS Sbjct: 183 VS 184 >gi|293394908|ref|ZP_06639198.1| ribosomal large subunit pseudouridine synthase F [Serratia odorifera DSM 4582] gi|291422659|gb|EFE95898.1| ribosomal large subunit pseudouridine synthase F [Serratia odorifera DSM 4582] Length = 217 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 54/213 (25%), Positives = 100/213 (46%), Gaps = 10/213 (4%) Query: 54 VMSTDHIEVDGVPL--RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V D + V+G P+ RKAE L +KP+G++T+ R+ + D + + R + Sbjct: 8 VFVGDSVSVNGQPIAPRKAEDLVLIALNKPVGVITSMGK-QVRNNIGDWV-NHSQRTFPI 65 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD +++GL+ LTN G L + + Y V + + + + G+ I G Sbjct: 66 GRLDKDSQGLIFLTNHGELVNKILRAGNNHQKEYLVSVDRPITDEFIQAMGAGVPILGTV 125 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 V +K ++ + + L +G NR+I+++ ++F ++V +L R+ L L G Sbjct: 126 TKPCLV----EKIASQILRITLVQGLNRQIRRMCKYFGYQVTKLERVRIMNINLHGLALG 181 Query: 232 STREVSKKILREQLGPHLLEEAQVNLDAPIYSS 264 R+ + + RE L+E + P +S Sbjct: 182 EWRDFTDEERRELF--RLIEHSSSEASQPATTS 212 >gi|148239973|ref|YP_001225360.1| pseudouridine synthase [Synechococcus sp. WH 7803] gi|147848512|emb|CAK24063.1| Pseudouridine synthase [Synechococcus sp. WH 7803] Length = 171 Score = 60.5 bits (145), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 47/153 (30%), Positives = 72/153 (47%), Gaps = 23/153 (15%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 + + GRLD ++EGLL+LT +G L + L P R Y V+ G D L L++G+VI Sbjct: 1 MYAAGRLDADSEGLLILTENGRLQQRLTDPRFGHWRTYWVQVEGLADHGHLAALEQGVVI 60 Query: 168 QGICYGDMQVT-LDT----------------QKGSNAWVTVGLREGKNREIKKVFEFFNW 210 +G + T LD+ + +W+++ LREG+NR+I+++ Sbjct: 61 KGQRTRPARATSLDSSFWFDLPERTPPIRERRTIPTSWLSISLREGRNRQIRRMTAAVGL 120 Query: 211 KVNRLIRISYG------PFQLGTLLAGSTREVS 237 RLIR S P L L G R V+ Sbjct: 121 PTLRLIRRSIDLMDGGPPLSLEGLAPGQWRPVN 153 >gi|256423976|ref|YP_003124629.1| pseudouridine synthase [Chitinophaga pinensis DSM 2588] gi|256038884|gb|ACU62428.1| pseudouridine synthase [Chitinophaga pinensis DSM 2588] Length = 212 Score = 60.5 bits (145), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 51/186 (27%), Positives = 82/186 (44%), Gaps = 21/186 (11%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP +V+ PD + D +VGRLD N+EGLLLLT + + R+ Sbjct: 7 RYFAINKPYNMVSQFISPDKVRLLGDLDFDFPEGTHAVGRLDNNSEGLLLLTTNKRVTRL 66 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------- 184 L R Y V V Q+ + L+ G+ I+ I G VT + Sbjct: 67 LFESEQPHKRAYLVMVKNIVTQETIEKLRNGVTIR-IKGGVDWVTTPCEAEIVEKPAYIA 125 Query: 185 -----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 ++W+ + L EGK +++K+ + +RLIR+S +LG L G Sbjct: 126 PREHHPVKEFLPHSWLLITLTEGKFHQVRKMTSAIHHHCDRLIRVSIEDMELGDLPPGGV 185 Query: 234 REVSKK 239 RE+ ++ Sbjct: 186 REIEEE 191 >gi|148981446|ref|ZP_01816412.1| hypothetical ribosomal small subunit pseudouridine synthase A [Vibrionales bacterium SWAT-3] gi|145960868|gb|EDK26199.1| hypothetical ribosomal small subunit pseudouridine synthase A [Vibrionales bacterium SWAT-3] Length = 229 Score = 60.5 bits (145), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 59/221 (26%), Positives = 100/221 (45%), Gaps = 23/221 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG--ILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ K + ++ ++ E I V VN +L E V+ +T + D + LR Sbjct: 2 RLDKYLCKSTDLTKSEAIERIHNGEVSVNSEFVLDESTQVHESNTILLNGDALTLRAF-- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--------SRVISVGRLDINTEGLLLL 124 R L HKP G + ++ D + PS+F S + GRLD +T GL+L+ Sbjct: 60 -RYILMHKPAGTICSNID--------EVYPSLFNYLELDKVSELHIAGRLDADTTGLVLI 110 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T+DG + + LP+ +VYRV + D + K G+ +QG ++ + + Sbjct: 111 TDDGRWSFNITLPTKSCKKVYRVTLSRDIKDDVADKFKAGVPLQG--EKNLTRPAELEVI 168 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 S V + + EGK ++K++F +V L R G +L Sbjct: 169 SPKEVLLTITEGKFHQVKRMFAAVGNRVVGLHREQIGDVRL 209 >gi|88858554|ref|ZP_01133196.1| 16S rRNA pseudouridylate 516 synthase [Pseudoalteromonas tunicata D2] gi|88820171|gb|EAR29984.1| 16S rRNA pseudouridylate 516 synthase [Pseudoalteromonas tunicata D2] Length = 233 Score = 60.5 bits (145), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 59/213 (27%), Positives = 97/213 (45%), Gaps = 19/213 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-------HIEVDGV 65 P R+ K I+ R + + I ++ KVNG ++ V +D +EV G Sbjct: 4 PCRLDKFISHLTELPRTKTKAGIKRKYAKVNGTVITSFDYQVTESDVVLWQDKQLEVLG- 62 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLL 124 R ++ +KP G V SD + TV + L + S++ GRLD++T GL+L+ Sbjct: 63 -------DRYFMLNKPEGYVCATSD-ELHQTVLELLDEPVMSKLHIAGRLDLDTTGLVLI 114 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG + + P Q + Y V + D L L+ G+ + G G Q + + Sbjct: 115 TNDGEWSHKVTSPKYQKYKTYLVETLEPMTDDALQELRDGVQLHGE-KGLTQPAI-VELL 172 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 + V + + EGK ++K++F KV L R Sbjct: 173 AEYSVRISICEGKYHQVKRMFAAVGNKVEVLHR 205 >gi|253996871|ref|YP_003048935.1| pseudouridine synthase [Methylotenera mobilis JLW8] gi|253983550|gb|ACT48408.1| pseudouridine synthase [Methylotenera mobilis JLW8] Length = 245 Score = 60.5 bits (145), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 51/213 (23%), Positives = 94/213 (44%), Gaps = 7/213 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 + +++ G SR+ ++ + V VNG L + + H + G E++ Sbjct: 10 IERILHNQGFGSRKLCRILVINEEVTVNGELCDDPDTTFELENLHYTIKGEAWVYHEKSY 69 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 L + HKP +H T++ LP V +GRLD +T GL+L+++DG Sbjct: 70 L-MMHKPSNYECSHK-TQHHPTIYSLLPHPLVERGVQCIGRLDEDTTGLILISDDGQFIH 127 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY V V +++ + KG +Q + L K ++ + + Sbjct: 128 RMSSPKHKVPKVYEVTCKHAVSDEQIAHILKG--VQLVDEDAPIAALACTKINDHVIHMT 185 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 L EGK ++K++ + +V L RI G +L Sbjct: 186 LAEGKYHQVKRMVAAISNRVEALKRIKIGRLEL 218 >gi|83942369|ref|ZP_00954830.1| RNA pseudouridylate synthase [Sulfitobacter sp. EE-36] gi|83846462|gb|EAP84338.1| RNA pseudouridylate synthase [Sulfitobacter sp. EE-36] Length = 187 Score = 60.5 bits (145), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 45/185 (24%), Positives = 87/185 (47%), Gaps = 23/185 (12%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-----ISVGRLDINTEGLLLLTNDG 128 R+ L++KP G+++ +D + T P++ + + GRLD ++EGL++LT+ G Sbjct: 3 RVILFNKPFGVLSQFTD---KGTEGSPRPTLSAYIDEKGFYPAGRLDRDSEGLMVLTDSG 59 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG--- 184 L + P + + Y V+ G D+ L L+ G+ ++ G +D + Sbjct: 60 PLQARISHPKYKLAKTYWVQVEGTPDEQALAALRSGVTLKDGKTAPAKARLMDPPEPLWD 119 Query: 185 -----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +AW+ + + EG+NR+++++ RLIR G ++L L G+ Sbjct: 120 RDPPVRFRKSVPDAWLEITITEGRNRQVRRMTAHVGLPTLRLIRARVGDWELHKLQPGAW 179 Query: 234 REVSK 238 R S+ Sbjct: 180 RFSSE 184 >gi|303275424|ref|XP_003057006.1| predicted protein [Micromonas pusilla CCMP1545] gi|226461358|gb|EEH58651.1| predicted protein [Micromonas pusilla CCMP1545] Length = 305 Score = 60.5 bits (145), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 71/242 (29%), Positives = 116/242 (47%), Gaps = 13/242 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P+R+ ++++R G +R E +R RV ++G + RA V D + +DG P +A Sbjct: 53 APERLDRLLSRLGYCTRAEAKRWARDGRVLLHGEPVARAEAKVTPRD-VLIDGEPA-EAP 110 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTND 127 L L HKP G V H +G S V+D LP + V ++GRLD +T GLLLLT+D Sbjct: 111 DGLLALMHKPRGRVCGHDASEGPS-VYDLLPERWRARRPGVETIGRLDKDTTGLLLLTDD 169 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQG---ICYGDMQVTLDTQK 183 G L L P + +VY + + +D ++L G + + G C + + Sbjct: 170 GDLLHRLASPKKRVEKVYELVVDAPIPRDAVDLFASGSLTLTGEKKPCLPAKLIVSERAD 229 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKIL 241 + ++ + EGK ++K++ +V L R S+G L L G R +S++ Sbjct: 230 HNRTRASLSVTEGKFHQVKRMMRAVGCEVTALHRESFGGMALSRMELREGEVRVLSRETA 289 Query: 242 RE 243 E Sbjct: 290 LE 291 >gi|218439161|ref|YP_002377490.1| pseudouridine synthase [Cyanothece sp. PCC 7424] gi|218171889|gb|ACK70622.1| pseudouridine synthase [Cyanothece sp. PCC 7424] Length = 203 Score = 60.5 bits (145), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 57/205 (27%), Positives = 97/205 (47%), Gaps = 39/205 (19%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV-------FDNLPSIFSRVISVGRLDINTEGLLLLTN 126 R +++KP ++ +D +G ST + N+P+++ VGRLD+++EGLLLLT+ Sbjct: 4 RYIVFYKPYNVLCQFTD-EGNSTTSRQTLKDYINIPNVYP----VGRLDLDSEGLLLLTD 58 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-- 184 DG L L R Y V+ D+ LN L++G+ I+ V + + Sbjct: 59 DGQLQHRLAHRKFAHPRTYWVQVENIPDEPALNRLREGVKIKDYQTRKAWVKVFPTEPPL 118 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQL 225 W+ + L EG+NR+++++ + RL+R++ G FQL Sbjct: 119 PPRNPPIRYRKNIPTCWLEITLTEGRNRQVRRMTAAVGYPTLRLVRVAMGIGKGKNGFQL 178 Query: 226 GT--LLAGSTREVS---KKILREQL 245 L G R+V+ +K+L EQL Sbjct: 179 DLKGLEPGQWRDVTDIERKVL-EQL 202 >gi|254474543|ref|ZP_05087929.1| ribosomal large subunit pseudouridine synthase E [Ruegeria sp. R11] gi|214028786|gb|EEB69621.1| ribosomal large subunit pseudouridine synthase E [Ruegeria sp. R11] Length = 251 Score = 60.5 bits (145), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 46/180 (25%), Positives = 85/180 (47%), Gaps = 25/180 (13%) Query: 73 TRLWLYHKPIGLVTTHSD----PDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTN 126 TRL ++KP ++ +D R+T+ D +LP ++ GRLD ++EGL+LLT+ Sbjct: 2 TRLIRFNKPYDVLPQFTDRGSTDSPRATLSDWIDLPGVYP----AGRLDRDSEGLMLLTD 57 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG- 184 G L + P + + Y V+ G D + L +G+ ++ G+ + +G Sbjct: 58 QGRLQAWISDPQHKMPKTYWVQVEGTPDAAAITALAEGVELKDGLTRPAKARLIAEPEGL 117 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 ++W+ + +REG+NR+++++ RLIR + G + L L G Sbjct: 118 WARNPPIRVRKSVPDSWIELTIREGRNRQVRRMTAAVGHPTLRLIRAAIGAWTLNGLGQG 177 >gi|83748810|ref|ZP_00945823.1| Ribosomal large subunit pseudouridine synthase F [Ralstonia solanacearum UW551] gi|207743247|ref|YP_002259639.1| hypothetical protein RSIPO_01416 [Ralstonia solanacearum IPO1609] gi|83724502|gb|EAP71667.1| Ribosomal large subunit pseudouridine synthase F [Ralstonia solanacearum UW551] gi|206594644|emb|CAQ61571.1| hypothetical protein RSIPO_01416 [Ralstonia solanacearum IPO1609] Length = 677 Score = 60.5 bits (145), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 73/251 (29%), Positives = 113/251 (45%), Gaps = 38/251 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G + V IE+ +P ++E+ Sbjct: 426 RLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVRPDAEIEI--LPAARSEQGE 483 Query: 75 --LWLYHKPIGLVTTHSDPDG---RSTVF--------DNLPSIFSR-----VISVGRLDI 116 L HKP+G V+ ++ DG +T+F D F+ + GRLDI Sbjct: 484 RVTVLLHKPMGYVSGQAE-DGYEPAATLFTAENQWEEDPTHKRFAAWQHKGLAPAGRLDI 542 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF-----HGQVDQD--------KLNLLKK 163 ++ GLL+LT DG +AR L + + Y VR G V+ D L L+ Sbjct: 543 DSTGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWDAPQGPVEHDISKVFPEELLEKLRH 602 Query: 164 GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 G+ + G +V+ ++ + LREGK R+I+++ E V L RI G Sbjct: 603 GLSLDGEALKPAKVSWQNEE----QLRFVLREGKKRQIRRMCEQVGLTVVGLKRIRMGSV 658 Query: 224 QLGTLLAGSTR 234 LG L G R Sbjct: 659 VLGDLPVGKWR 669 >gi|300704234|ref|YP_003745837.1| pseudouridine synthase [Ralstonia solanacearum CFBP2957] gi|299071898|emb|CBJ43227.1| Pseudouridine synthase [Ralstonia solanacearum CFBP2957] Length = 677 Score = 60.5 bits (145), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 73/251 (29%), Positives = 113/251 (45%), Gaps = 38/251 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G + V IE+ +P ++E+ Sbjct: 426 RLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVRPDAEIEI--LPAARSEQGE 483 Query: 75 --LWLYHKPIGLVTTHSDPDG---RSTVF--------DNLPSIFSR-----VISVGRLDI 116 L HKP+G V+ ++ DG +T+F D F+ + GRLDI Sbjct: 484 RVTVLLHKPMGYVSGQAE-DGYEPAATLFTAENQWEEDPTHKRFAAWQHKGLAPAGRLDI 542 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF-----HGQVDQD--------KLNLLKK 163 ++ GLL+LT DG +AR L + + Y VR G V+ D L L+ Sbjct: 543 DSTGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWDAPQGPVEHDISKVFPEELLEKLRH 602 Query: 164 GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 G+ + G +V+ ++ + LREGK R+I+++ E V L RI G Sbjct: 603 GLSLDGEALKPAKVSWQNEE----QLRFVLREGKKRQIRRMCEQVGLTVVGLKRIRMGSV 658 Query: 224 QLGTLLAGSTR 234 LG L G R Sbjct: 659 VLGDLPVGKWR 669 >gi|297538780|ref|YP_003674549.1| pseudouridine synthase [Methylotenera sp. 301] gi|297258127|gb|ADI29972.1| pseudouridine synthase [Methylotenera sp. 301] Length = 245 Score = 60.5 bits (145), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 55/219 (25%), Positives = 100/219 (45%), Gaps = 9/219 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLRKAERT 73 + ++I G +R+ +I Q V VNG + + V T++++ V G E++ Sbjct: 11 LERIICNQGFGARKLCRILILNQEVTVNGEICDDPDA-VFDTENLQYTVKGEAWDYREKS 69 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP +H T++ LP + V +GRLD +T GL+L+++DG Sbjct: 70 YLML-HKPSNYECSHKT-QHHPTIYSLLPHPLVVRDVQCIGRLDEDTTGLILISDDGQFI 127 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + +VY V + +++ + KG +Q + L + + + + Sbjct: 128 HRMSSPKHKVPKVYEVTCKHPMSDEQIAHILKG--VQLVDEDAPIAALACTRITQNIIHM 185 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 L EGK ++K++ + +V L RI G +L LA Sbjct: 186 TLAEGKYHQVKRMVAAISNRVEGLKRIQIGEVKLPDDLA 224 >gi|157963031|ref|YP_001503065.1| pseudouridine synthase [Shewanella pealeana ATCC 700345] gi|157848031|gb|ABV88530.1| pseudouridine synthase [Shewanella pealeana ATCC 700345] Length = 239 Score = 60.5 bits (145), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 60/224 (26%), Positives = 97/224 (43%), Gaps = 25/224 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I ++ +R+ I + V VNG ++ V ++ + G L A +R Sbjct: 2 RLDKFICKSTELNRKHASDCIERAEVSVNGEVITDVRFQVHESNEVRYKGQRL-VARPSR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---------VGRLDINTEGLLLLT 125 + HKPI ++++ D D PS+F R I VGRLD +T GL+LLT Sbjct: 61 YIMLHKPIHTLSSNVDGD--------YPSLF-RCIDIDRVEDLHIVGRLDADTTGLVLLT 111 Query: 126 NDGGLARVLELPSTQWLRVYRVRFH----GQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 +DG + + P Q + YRV G V D + + G+ +Q + L+ Sbjct: 112 DDGRWSFDIIRPDKQCAKTYRVMLRDPIAGDVAADVIARFEAGLQLQNEQALTLPAKLEI 171 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +T+ EGK ++K++F +V L R G L Sbjct: 172 VAPREVLLTIT--EGKYHQVKRMFAAVGNRVIGLHREQIGDLSL 213 >gi|254441719|ref|ZP_05055212.1| conserved hypothetical protein [Octadecabacter antarcticus 307] gi|198251797|gb|EDY76112.1| conserved hypothetical protein [Octadecabacter antarcticus 307] Length = 179 Score = 60.1 bits (144), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 49/177 (27%), Positives = 83/177 (46%), Gaps = 23/177 (12%) Query: 77 LYHKPIGLVTTHSD---PDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L++KP G++T +D P R T+ FD LP V + GRLD ++EGLL+LT+DG L Sbjct: 5 LFNKPFGVLTQFTDAKCPTERPTLSGFD-LPK---GVYAAGRLDRDSEGLLVLTDDGKLQ 60 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------- 184 L P + + Y V+ G L+ ++ + ++ +V L Sbjct: 61 AQLSSPKFKTPKTYLVQVEGDTTDADLDPMRASLSLKDGPTLPARVHLIDPPDLWLRDPP 120 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + W+ V + EG+NR+++++ + RL+R S G + L + G R Sbjct: 121 VRVRKSIPDTWIKVTITEGRNRQVRRMCAALGFPCLRLVRWSVGSWTLDGISQGQWR 177 >gi|33865219|ref|NP_896778.1| pseudouridine synthase [Synechococcus sp. WH 8102] gi|33638903|emb|CAE07200.1| possible pseudouridine synthase [Synechococcus sp. WH 8102] Length = 225 Score = 60.1 bits (144), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 48/170 (28%), Positives = 81/170 (47%), Gaps = 39/170 (22%) Query: 77 LYHKPIGLVTTHSDPDGRS-----TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L++KP G+++ + P+ S F N+P +++ GRLD ++EGLLLL++ G L Sbjct: 13 LFNKPYGVLSQFT-PETASRWRCLAEFINVPGVYA----AGRLDADSEGLLLLSDQGRLQ 67 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----KGSN- 186 + L P R Y V+ G D +L L++GI IQ Q TL + +G + Sbjct: 68 QRLTDPRCGHWRSYWVQVEGHPDDPQLQKLREGIEIQ------HQRTLPARARWLQGEDI 121 Query: 187 ------------------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 +W+ + LREG+NR+++++ RL+R Sbjct: 122 PLLPERDPPIRVRATIPTSWLELSLREGRNRQVRRMTAAVGLPTLRLVRC 171 >gi|78049355|ref|YP_365530.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|78037785|emb|CAJ25530.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas campestris pv. vesicatoria str. 85-10] Length = 237 Score = 60.1 bits (144), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 64/228 (28%), Positives = 106/228 (46%), Gaps = 13/228 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++ K IA G SR++V ++ Q + G +L A + + D I +DG PL Sbjct: 2 KLVKHIANLGYGSRKQVTQLFRQGAITDAQGEVLY--ADDQVEHDAIRIDGEPLDPPAGL 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVIS-VGRLDINTEGLLLLTNDGG 129 L L HKP G + D GR +++ LP F + V++ VGRLD T G+LL+T+DG Sbjct: 60 SLLL-HKPSGYTCSTKD-TGR-LIYELLPPRFRLRAPVLAPVGRLDRETSGMLLMTDDGA 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAW 188 L + P + +VY + + ++ L G +++ G + L+ A Sbjct: 117 LLHRIISPKSALDKVYDITLAEDLRGEEAALFASGSLLLDGETKPLLPAELEVLGPRQAR 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 +T L EG+ +++++F V L R G L L +G R + Sbjct: 177 LT--LHEGRYHQVRRMFAAAGNHVVALHRSRIGGLSLDGLSSGQWRAL 222 >gi|332527599|ref|ZP_08403646.1| ribosomal small subunit pseudouridine synthase A [Rubrivivax benzoatilyticus JA2] gi|332112002|gb|EGJ11979.1| ribosomal small subunit pseudouridine synthase A [Rubrivivax benzoatilyticus JA2] Length = 232 Score = 60.1 bits (144), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 61/223 (27%), Positives = 97/223 (43%), Gaps = 15/223 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDG--VPLRKAE 71 ++ +++ G +RR ++ V+V G +++ + + + + EVDG P R+ Sbjct: 2 KLEQILFTQGFGTRRVCAGLVDCGAVRVGGQVVDDPSADFDTAGLVFEVDGREWPFRQPA 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGG 129 L + HKP G + P +V LP V VGRLD +T GLLL T+DG Sbjct: 62 ---LVMLHKPAGYECSQK-PRHHPSVMSLLPPPLRTRGVQPVGRLDEDTTGLLLFTDDGK 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV--TLDTQKGSNA 187 L L P +VY VD+ + L G+V+ D Q L Q Sbjct: 118 LIHRLTSPKHHVPKVYEATTKHPVDEAVVQRLLAGVVLD----DDPQPVRALQAQCTGPN 173 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + L EGK ++K++ +V L R ++G L LA Sbjct: 174 TLRLVLAEGKYHQVKRMVAAAGNRVEALHRSAFGALTLPADLA 216 >gi|294146965|ref|YP_003559631.1| ribosomal large subunit pseudouridine synthase E [Sphingobium japonicum UT26S] gi|292677382|dbj|BAI98899.1| ribosomal large subunit pseudouridine synthase E [Sphingobium japonicum UT26S] Length = 179 Score = 60.1 bits (144), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 45/179 (25%), Positives = 79/179 (44%), Gaps = 23/179 (12%) Query: 77 LYHKPIGLVTTHSD-----PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L++KP G++ SD P + + P + GRLD+++EGLLLLT+DG L Sbjct: 5 LFNKPYGVLCQFSDERTGPPRPTLAAYIDRPGFYP----AGRLDLDSEGLLLLTDDGRLQ 60 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------- 184 + P + + Y V+ G D+ L L+ G+ ++ QV Sbjct: 61 ARIADPRFKMPKTYLVQVEGDPDEAALAALRHGVRLKDGPTLPAQVERIEAPALWPRDPP 120 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + W+ + +REG+NR+++++ RL+R G + L + G R+ Sbjct: 121 VRFRKSVPDRWLRLTIREGRNRQVRRMTAAIGHPTLRLVRWRIGDWTLDGIPQGQWRDA 179 >gi|156974936|ref|YP_001445843.1| ribosomal small subunit pseudouridine synthase A [Vibrio harveyi ATCC BAA-1116] gi|156526530|gb|ABU71616.1| hypothetical protein VIBHAR_02655 [Vibrio harveyi ATCC BAA-1116] Length = 233 Score = 60.1 bits (144), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 52/216 (24%), Positives = 96/216 (44%), Gaps = 3/216 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A+R++ ++I + V+G + + A V +E +G + A R Sbjct: 2 RLDKYLCDGLGATRKQATKIIKSGEITVDGEVQKSGAFKVPEGGVVEWEGREV-GAPGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRST-VFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP V +H D + V + P + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPADFVCSHEDGHNPTAFVLLDEPKV-ENLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + D + +GI ++ + L+ + V + + Sbjct: 120 ITSPKHKCEKTYRVWLVDAIQPDYVEKFAEGIELRNEREPTLPAHLEIVNEAENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 EGK ++K++F KV L R G L L Sbjct: 180 VEGKYHQVKRMFAALGNKVEHLHRERIGSIVLDEAL 215 >gi|298368975|ref|ZP_06980293.1| ribosomal large subunit pseudouridine synthase E [Neisseria sp. oral taxon 014 str. F0314] gi|298282978|gb|EFI24465.1| ribosomal large subunit pseudouridine synthase E [Neisseria sp. oral taxon 014 str. F0314] Length = 186 Score = 60.1 bits (144), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 42/164 (25%), Positives = 79/164 (48%), Gaps = 25/164 (15%) Query: 78 YHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 ++KP G++ S+ + + D + P + GRLD ++EGLLLLT++G L + Sbjct: 7 FNKPCGVICQFSEHEKHPCLKDYVDRPGFYP----AGRLDTDSEGLLLLTDNGVLQAQIA 62 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS---------- 185 P + + Y + G D++KL+LL G+ + G +V L + G Sbjct: 63 DPKFKREKTYWAQVEGSPDEEKLDLLCNGMDLGGFVTRPAKVRL-LEAGEADILWPRNPP 121 Query: 186 --------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + W+ + + EGKNR+++++ + RL+R++ G Sbjct: 122 VRMRKTVPDFWLEIRIAEGKNRQVRRMTAKAGYPCLRLVRVAVG 165 >gi|83953590|ref|ZP_00962311.1| RNA pseudouridylate synthase [Sulfitobacter sp. NAS-14.1] gi|83841535|gb|EAP80704.1| RNA pseudouridylate synthase [Sulfitobacter sp. NAS-14.1] Length = 187 Score = 60.1 bits (144), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 44/185 (23%), Positives = 85/185 (45%), Gaps = 23/185 (12%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-----ISVGRLDINTEGLLLLTNDG 128 R+ L++KP G+++ +D + T P++ + + GRLD ++EGL++LT+ G Sbjct: 3 RVILFNKPFGVLSQFTD---KGTEGSPRPTLSAYIDEKGFYPAGRLDRDSEGLMVLTDSG 59 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L + P + + Y V+ G D+ L L+ G+ ++ + L Sbjct: 60 PLQARISHPKYKLAKTYWVQVEGTPDEQALAALRSGVTLKDGKTAPARARLMDPPDPLWD 119 Query: 185 -----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +AW+ + + EG+NR+++++ RLIR G ++L L G+ Sbjct: 120 RDPPVRFRKSVPDAWLEITITEGRNRQVRRMTAHVGLPTLRLIRARVGDWELHKLQPGAW 179 Query: 234 REVSK 238 R S+ Sbjct: 180 RFSSE 184 >gi|91775308|ref|YP_545064.1| pseudouridine synthase, Rsu [Methylobacillus flagellatus KT] gi|91775452|ref|YP_545208.1| ribosomal small subunit pseudouridine synthase A [Methylobacillus flagellatus KT] gi|91709295|gb|ABE49223.1| Pseudouridine synthase, Rsu [Methylobacillus flagellatus KT] gi|91709439|gb|ABE49367.1| ribosomal small subunit pseudouridine synthase A [Methylobacillus flagellatus KT] gi|167042455|gb|ABZ07181.1| putative RNA pseudouridylate synthase [uncultured marine microorganism HF4000_ANIW133B20] gi|167042899|gb|ABZ07615.1| putative RNA pseudouridylate synthase [uncultured marine microorganism HF4000_ANIW137K11] Length = 237 Score = 60.1 bits (144), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 63/238 (26%), Positives = 101/238 (42%), Gaps = 22/238 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++ +++ G SR+ MI V VNG V E D L R Sbjct: 2 QLERILHSQGFGSRKICRSMIRHGEVAVNG--------EVCDFPFTEFDPEHLVFTVRGE 53 Query: 75 LWLY--------HKPIGLVTTHSDPDGRSTVFDNLPS-IFSR-VISVGRLDINTEGLLLL 124 W Y +KP +H P ++F LP+ + R V S+GRLD +T GLLLL Sbjct: 54 TWTYREKAYLMLNKPAHYECSHK-PQHHPSIFSLLPAPLLERGVQSIGRLDEDTTGLLLL 112 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 ++DG + P + +VY V +D+ ++ L G +Q + L + Sbjct: 113 SDDGQFIHRMSSPKWKVPKVYEVTTKHPLDETQVTSLLSG--VQLLDEPAPVAALSAKIV 170 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKIL 241 + + + L EGK ++K++ + +V L RI G L LA G+ R + +L Sbjct: 171 GDHVLHLTLAEGKYHQVKRMLAAVSNRVEALKRIRIGSLDLPEDLAPGAWRWLDAAML 228 >gi|262278236|ref|ZP_06056021.1| conserved hypothetical protein [Acinetobacter calcoaceticus RUH2202] gi|262258587|gb|EEY77320.1| conserved hypothetical protein [Acinetobacter calcoaceticus RUH2202] Length = 262 Score = 60.1 bits (144), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 44/181 (24%), Positives = 87/181 (48%), Gaps = 21/181 (11%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ + +KP +++ + TV D + R+ GRLD+++EGL+ LT+ GGL + Sbjct: 2 KIVILNKPYDVLSQFRKDEAHMTVSDFVDDPTLRL--AGRLDMDSEGLVFLTDHGGLNQF 59 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG-------- 184 + P+ + + Y V+ G V ++ L L+KG+ + G+ + + + Sbjct: 60 ITNPANKKYKTYLVQVDGDVTEEALEQLRKGVELNDGMTLPATAIKVSEPEWLWERNPPV 119 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF---QLGTLLAGSTRE 235 +W+ + + EG+NR+++++ + RLIR G QLG L G +E Sbjct: 120 RFRANIPTSWIEISICEGRNRQVRRMTSAVGFPTLRLIRTKIGSIDLVQLG-LKPGDVKE 178 Query: 236 V 236 + Sbjct: 179 I 179 >gi|295689516|ref|YP_003593209.1| pseudouridine synthase [Caulobacter segnis ATCC 21756] gi|295431419|gb|ADG10591.1| pseudouridine synthase [Caulobacter segnis ATCC 21756] Length = 246 Score = 59.7 bits (143), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 55/216 (25%), Positives = 103/216 (47%), Gaps = 14/216 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLE----RAAVNVMSTDHIEVDGVPLRKA 70 R+ +++A G SR+EV+ ++A +V ++G L+ R AV+ + + + GV + Sbjct: 8 RLDRLLANLGYGSRKEVQALVAAGKVVLDGKPLKDAGLRIAVDATLPERMTIRGVAVDPP 67 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINTEGLLLLTN 126 L + HKP+G+V +H + DG ++D LP + + +VGRLD T GL+L+T+ Sbjct: 68 APLVLMM-HKPLGVVCSHKE-DGEK-IYDLLPRRWRLRDPALSTVGRLDKETSGLILITD 124 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG + P + Y R + + G ++++G + L+ Sbjct: 125 DGDFLHRVISPKRHVPKTYLARLDRPLSGSEGETFAAGTLMLEGEEKPLLPARLEIVDER 184 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 A +T+ EG+ +++++F V L R G Sbjct: 185 TARLTI--TEGRYHQVRRMFAAVGNHVTDLHRERIG 218 >gi|157373982|ref|YP_001472582.1| RNA pseudouridine synthase family protein [Shewanella sediminis HAW-EB3] gi|157316356|gb|ABV35454.1| RNA pseudouridine synthase family protein [Shewanella sediminis HAW-EB3] Length = 218 Score = 59.7 bits (143), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 43/145 (29%), Positives = 74/145 (51%), Gaps = 25/145 (17%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 +++GRLD ++EGLLLLT DG ++ ++ S + + Y V+ G +D + L+ G+ I Sbjct: 67 TMAIGRLDHDSEGLLLLTTDGMVSH--QVRSKKVEKEYYVQVDGDIDDAAILKLQTGVEI 124 Query: 168 QGICYGDMQVTL---------------------DTQKGSNAWVTVGLREGKNREIKKVFE 206 GI G+ +TL D + G +WV++ + EGKNR+I+K+ Sbjct: 125 -GI-KGEKYLTLPCKVFKLENEPELPSNGRKPRDPKHGPMSWVSITIGEGKNRQIRKMTA 182 Query: 207 FFNWKVNRLIRISYGPFQLGTLLAG 231 + RL+R+ G L + +G Sbjct: 183 AAGFPTLRLVRVRIGNIHLDRMQSG 207 >gi|68068209|ref|XP_676014.1| hypothetical protein [Plasmodium berghei strain ANKA] gi|56495510|emb|CAH96878.1| conserved hypothetical protein [Plasmodium berghei] Length = 360 Score = 59.7 bits (143), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 33/121 (27%), Positives = 60/121 (49%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 +I V LD + EG++LLTNDG A L+ + L Y ++ ++ +K+ LL+KG I Sbjct: 226 LIIVNSLDSDMEGIILLTNDGDFANKLKDINNNILTTYLIKTQEELTNEKIELLRKGCTI 285 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 GI +++ + W+ + E + +F +N + + R S+GP++ Sbjct: 286 GGITIRPLELKIIKPNFLYKWIKLTYVEKSQTHLNLLFSKYNMTIRKCKRYSFGPYKSSD 345 Query: 228 L 228 L Sbjct: 346 L 346 Score = 38.5 bits (88), Expect = 1.5, Method: Compositional matrix adjust. Identities = 22/68 (32%), Positives = 39/68 (57%), Gaps = 3/68 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKV-NGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+SK+++ + + SR + + +I VKV N I+ + ++V S IEV+G + T Sbjct: 14 RLSKILSLSSVVSRNKAQELIRSGNVKVDNQIVKQNTVIDVNS--KIEVNGCEINVDITT 71 Query: 74 RLWLYHKP 81 +LW +KP Sbjct: 72 KLWGIYKP 79 >gi|311744891|ref|ZP_07718676.1| ribosomal large subunit pseudouridine synthase E [Algoriphagus sp. PR1] gi|311302306|gb|EAZ81613.2| ribosomal large subunit pseudouridine synthase E [Algoriphagus sp. PR1] Length = 209 Score = 59.7 bits (143), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 54/204 (26%), Positives = 89/204 (43%), Gaps = 22/204 (10%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +R ++ +KP G+++ S G +L V VGRLD ++EGLLL+T+D L Sbjct: 2 SRYFIIYKPFGVLSQFS---GEGQTLASLFDFPKEVYPVGRLDKDSEGLLLITDDKWLNH 58 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICY----------------GD 174 L PS R Y + G + L L G+ I+ G Y D Sbjct: 59 HLLNPSFGHQRTYWAQVEGIPTPESLKALGNGVKIKVDGKEYLTKPSIAKLLSESPELPD 118 Query: 175 MQVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + +K ++W+ + L EGKNR+++K+ + RL R S + G Sbjct: 119 RDPPIRYRKNVPDSWIELTLIEGKNRQVRKMTAAVGFPTLRLARKSMEKINIIGFKVGEV 178 Query: 234 REVSKKILREQLGPHLLEEAQVNL 257 +E+ ++ + QLG +E+ N Sbjct: 179 QELDRETVYHQLGLTGFKESAKNF 202 >gi|325204476|gb|ADY99929.1| ribosomal large subunit pseudouridine synthase E [Neisseria meningitidis M01-240355] Length = 185 Score = 59.7 bits (143), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 43/170 (25%), Positives = 79/170 (46%), Gaps = 24/170 (14%) Query: 78 YHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 ++KP G++ S + ++ F N P + GRLD ++EGLLL T+DG L + Sbjct: 7 FNKPYGVICQFSPHEKHKSLKDFINFPGFYP----AGRLDTDSEGLLL-TDDGRLQAQIT 61 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA-------- 187 P + + Y + G D+ +L L+KGI + G + + +++ Sbjct: 62 DPKFKHPKTYWAQLEGVPDESRLESLRKGIDLGGFVTRPASIRILKHGEADSLWERIPPI 121 Query: 188 ---------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RLIR++ G +L L Sbjct: 122 RVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLIRVASGRLKLFDL 171 >gi|293609786|ref|ZP_06692088.1| conserved hypothetical protein [Acinetobacter sp. SH024] gi|292828238|gb|EFF86601.1| conserved hypothetical protein [Acinetobacter sp. SH024] gi|325123010|gb|ADY82533.1| putative pseudouridine synthase [Acinetobacter calcoaceticus PHEA-2] Length = 262 Score = 59.7 bits (143), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 44/181 (24%), Positives = 87/181 (48%), Gaps = 21/181 (11%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ + +KP +++ + TV D + R+ GRLD+++EGL+ LT+ GGL + Sbjct: 2 KIVILNKPYDVLSQFRKDEAHMTVSDFVDDPTLRL--AGRLDMDSEGLVFLTDHGGLNQF 59 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG-------- 184 + P+ + + Y V+ G V ++ L L+KG+ + G+ + + + Sbjct: 60 ITNPANKKYKTYLVQVDGDVTEEALEQLRKGVELNDGMTLPAKAIKVSEPEWLWERNPPV 119 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF---QLGTLLAGSTRE 235 +W+ + + EG+NR+++++ + RLIR G QLG L G +E Sbjct: 120 RYRANIPTSWIEISICEGRNRQVRRMTSAVGFPTLRLIRTKIGSIDLVQLG-LRPGDVKE 178 Query: 236 V 236 + Sbjct: 179 I 179 >gi|114798241|ref|YP_760095.1| RNA pseudouridine synthase family protein [Hyphomonas neptunium ATCC 15444] gi|114738415|gb|ABI76540.1| RNA pseudouridine synthase family protein [Hyphomonas neptunium ATCC 15444] Length = 178 Score = 59.7 bits (143), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 45/180 (25%), Positives = 85/180 (47%), Gaps = 22/180 (12%) Query: 75 LWLYHKPIGLVTTHSDP-DGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L++KP G+++ +D G+ T+ F LP ++ GRLD ++EGLL+LT+DG Sbjct: 3 LILFNKPYGVLSQFTDEGSGKRTLKEFIALPGVYP----AGRLDFDSEGLLILTDDGREQ 58 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS------ 185 + P + + Y + G ++ L L+KG+ ++ L + + Sbjct: 59 ARIADPKHKIPKTYLAQVEGIPSEEALQALRKGVDLKDGRTRPATARLAAEPENLWPRDP 118 Query: 186 ---------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + W+ + + EG+NR+++++ RLIR+ G + L L G+ R+ Sbjct: 119 PIRYRKSVPDTWIELTITEGRNRQVRRMTAAAGHPTLRLIRLRIGDWDLENLPPGAWRKA 178 >gi|254292636|ref|YP_003058659.1| pseudouridine synthase [Hirschia baltica ATCC 49814] gi|254041167|gb|ACT57962.1| pseudouridine synthase [Hirschia baltica ATCC 49814] Length = 247 Score = 59.3 bits (142), Expect = 8e-07, Method: Compositional matrix adjust. Identities = 56/225 (24%), Positives = 104/225 (46%), Gaps = 14/225 (6%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE----VDGV 65 N P R+ K+++ G +R+E++ + QR+ + + + V + ++ +D Sbjct: 4 NAKPVRLDKLLSNMGYGTRKEIDALARYQRILLGDKGFKSGSDKVTPNEDLQNRLTIDDK 63 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGL 121 P+ + L +KP G+ T S D + + + PS + + + +GRLD T GL Sbjct: 64 PVDPLPGFAVML-NKPAGV--TCSRKDSGTLITELFPSRWDKRDPLLSPIGRLDKETSGL 120 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLD 180 LLLT+DG L + P TQ + Y V ++ D+ ++ G ++++ + L Sbjct: 121 LLLTDDGQLNHRVSSPKTQTPKRYHVILDRDLNGDEDSIFAAGELMLESETKPLLPAELS 180 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 A +T L EG+ +++++F VN L R S G L Sbjct: 181 ALGKREAILT--LHEGRYHQVRRMFAAVGNHVNALHRESIGGLTL 223 >gi|213620882|ref|ZP_03373665.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 153 Score = 59.3 bits (142), Expect = 8e-07, Method: Compositional matrix adjust. Identities = 41/143 (28%), Positives = 70/143 (48%), Gaps = 17/143 (11%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ D +P V + GRLD ++EGLL+LTNDG L L Sbjct: 3 LFNKPYDVLPQFTDEAGRRTLKDFIP--VQGVYAAGRLDRDSEGLLVLTNDGALQARLTQ 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------GI--------CYGDMQVTLDT 181 P + ++Y V+ G D L L+ G+ + GI + + Sbjct: 61 PGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLWPRTPPIRER 120 Query: 182 QKGSNAWVTVGLREGKNREIKKV 204 + +W+ V L EG+N +++++ Sbjct: 121 KNIPTSWLKVTLYEGRNHQVRRM 143 >gi|225847909|ref|YP_002728072.1| ribosomal small subunit pseudouridine synthase A [Sulfurihydrogenibium azorense Az-Fu1] gi|225644186|gb|ACN99236.1| putative ribosomal small subunit pseudouridine synthase A [Sulfurihydrogenibium azorense Az-Fu1] Length = 200 Score = 59.3 bits (142), Expect = 8e-07, Method: Compositional matrix adjust. Identities = 50/180 (27%), Positives = 84/180 (46%), Gaps = 21/180 (11%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---------RVISVGRLDINTEGLLLLTN 126 ++ +KP+G +T D +N P++ S ++ +GRLD++TEGLL+LT Sbjct: 20 FMLNKPLGYITATYD--------ENFPTVISLLDDETVKDKLFPIGRLDLDTEGLLILTT 71 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQ-DKLNLLKKGIVIQGICYGD--MQVTLDTQK 183 DG LA L P + Y G V + D K+GI ++ Y +V + + Sbjct: 72 DGQLAHRLAHPKWNIEKEYYAIVEGDVSKIDFSPFEKEGIYLKKDKYKTKPFKVKVLSAL 131 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V + + EGK +KK+ E V L R+ G +L L G R ++++ +R Sbjct: 132 EEESKVLITVSEGKYHIVKKIMESLGHPVKYLKRVRMGNLKLDENLQPGDYRPLTEEEIR 191 >gi|237746975|ref|ZP_04577455.1| ribosomal small subunit pseudouridine synthase A protein [Oxalobacter formigenes HOxBLS] gi|229378326|gb|EEO28417.1| ribosomal small subunit pseudouridine synthase A protein [Oxalobacter formigenes HOxBLS] Length = 239 Score = 59.3 bits (142), Expect = 8e-07, Method: Compositional matrix adjust. Identities = 61/231 (26%), Positives = 102/231 (44%), Gaps = 8/231 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + K++ G SR+ ++ RV++ G + + + D VDG E+ Sbjct: 5 LEKILQSQGFGSRKFCRNLVLGHRVEIAGKICTDPDRKLETDDLAFRVDGETWEYREKLY 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP G + P +VF LP F + + VGRLD +T GLLLLT+DG Sbjct: 65 LVL-NKPAGYECSRQ-PQHHPSVFALLPEPFVQRGLQCVGRLDQDTTGLLLLTDDGHFIH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P + ++Y V + +L L G+ ++ + L Q + + Sbjct: 123 QYTSPRKKVPKIYTVTGVSPFEATQLEKLVTGVQLKD--EKTLTSALACQLIDEYRLRLS 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + EGK ++K++ +V L R + G F L TLL G R +++ L+ Sbjct: 181 ITEGKYHQVKRMIAAAGNRVETLHRSAIGGFTLEETLLPGHWRFLNENDLK 231 >gi|153813881|ref|ZP_01966549.1| hypothetical protein RUMTOR_00087 [Ruminococcus torques ATCC 27756] gi|145848277|gb|EDK25195.1| hypothetical protein RUMTOR_00087 [Ruminococcus torques ATCC 27756] Length = 194 Score = 59.3 bits (142), Expect = 8e-07, Method: Compositional matrix adjust. Identities = 46/167 (27%), Positives = 83/167 (49%), Gaps = 22/167 (13%) Query: 79 HKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 +KP G+V T + S V F N P RV GRLD ++ GLLL+TN+G + + Sbjct: 30 NKPKGIVCTEDQRERDSIVRFLNYPV---RVTYAGRLDKDSRGLLLMTNNGDIINQMMRA 86 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-------QKGSNAWVT 190 + + + Y+V ++ + + + +G+ I LDT +K + Sbjct: 87 ANRHEKEYKVTVDKEITEQFIKKMSEGVPI-----------LDTVTRPCTVKKIGKYTFS 135 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L +G NR+I+++ F ++V L+RI +LG+L G+ R+++ Sbjct: 136 IILTQGLNRQIRRMCAAFGYEVKDLVRIRIMNIRLGSLKEGAYRKLT 182 >gi|114765384|ref|ZP_01444499.1| Pseudouridine synthase, Rsu [Pelagibaca bermudensis HTCC2601] gi|114542227|gb|EAU45257.1| Pseudouridine synthase, Rsu [Roseovarius sp. HTCC2601] Length = 179 Score = 59.3 bits (142), Expect = 8e-07, Method: Compositional matrix adjust. Identities = 46/178 (25%), Positives = 86/178 (48%), Gaps = 20/178 (11%) Query: 77 LYHKPIGLVTTHSDP----DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G+++ +D R+T+ D + +V GRLD ++EGLLLLT+DG L Sbjct: 4 LLNKPYGVLSQFTDKGTADSPRATLSDYV--DVPKVYPAGRLDRDSEGLLLLTDDGRLQA 61 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-------------TL 179 + P + + Y V+ G +++ L++G+ ++ QV + Sbjct: 62 RIAHPKFKKPKTYLVQVEGDPSDEQIARLRRGVTLKDGPTRPAQVRRLPPPDLWPRVPPV 121 Query: 180 DTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 +K +AW+ + + EG+NR+++++ RL+R S G + + L G R + Sbjct: 122 RFRKSVPDAWLEMTITEGRNRQVRRMTAHVGLPCLRLVRWSIGDWSVEGLAPGEWRNI 179 >gi|296505025|ref|YP_003666725.1| tRNA pseudouridine synthase A [Bacillus thuringiensis BMB171] gi|296326078|gb|ADH09006.1| tRNA pseudouridine synthase A [Bacillus thuringiensis BMB171] Length = 169 Score = 59.3 bits (142), Expect = 8e-07, Method: Compositional matrix adjust. Identities = 47/170 (27%), Positives = 83/170 (48%), Gaps = 8/170 (4%) Query: 78 YHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +HKP+G+ T +D + + + N P R+ VGRLD +EGL+LLTNDGG+A + Sbjct: 5 FHKPVGITCTAADHIEDNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIANQILH 61 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 + + Y V ++ + +G+ I+ +VT + + + L +G Sbjct: 62 GDHEHEKEYVVTVDKPFTDWFIDEMSRGVKIKDGMTKPCKVT----RVDQSTFRIVLTQG 117 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 118 MNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 167 >gi|157960587|ref|YP_001500621.1| pseudouridine synthase [Shewanella pealeana ATCC 700345] gi|157845587|gb|ABV86086.1| pseudouridine synthase [Shewanella pealeana ATCC 700345] Length = 197 Score = 59.3 bits (142), Expect = 8e-07, Method: Compositional matrix adjust. Identities = 55/187 (29%), Positives = 90/187 (48%), Gaps = 26/187 (13%) Query: 76 WLYHKPIGLVTTHSDPDGRST--VFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G ++ P+ R + + L + +++GRLD ++EGLLLLT DG + + Sbjct: 15 FLIYKPYGFLSQFV-PETRKSKPLLGQLYDFPDKTMAIGRLDHDSEGLLLLTTDGMQSHL 73 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD-----MQVTL--------- 179 + S + + Y V+ G V Q +L L++G+ I GI G QV L Sbjct: 74 IRSKSIE--KEYYVQVDGLVSQAQLLQLQQGVEI-GISGGKYLTLPCQVELLTTEPNLPA 130 Query: 180 ------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 D + G +W++V + EGKNR+++K+ RL+R+ G L + G Sbjct: 131 RGKKIRDPRHGPTSWLSVTIAEGKNRQVRKMTAAVGLPTLRLVRVRIGHICLKQMQPGEV 190 Query: 234 REVSKKI 240 VS I Sbjct: 191 LPVSSFI 197 >gi|289807291|ref|ZP_06537920.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 153 Score = 59.3 bits (142), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 42/147 (28%), Positives = 69/147 (46%), Gaps = 15/147 (10%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 V + GRLD ++EGLL+LTNDG L L P + ++Y V+ G D L L+ G+ + Sbjct: 4 VYAAGRLDRDSEGLLVLTNDGALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTL 63 Query: 168 Q-------GI--------CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 GI + + + +W+ V L EG+N +++++ Sbjct: 64 NDGPTLPAGIEIVAEPDWLWPRTPPIRERKNIPTSWLKVTLYEGRNHQVRRMTAHVGHPT 123 Query: 213 NRLIRISYGPFQLGTLLAGSTREVSKK 239 RLIR S G + L L G E++++ Sbjct: 124 LRLIRYSMGDYTLNGLDNGQWCEIAQE 150 >gi|50085470|ref|YP_046980.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter sp. ADP1] gi|49531446|emb|CAG69158.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter sp. ADP1] Length = 239 Score = 59.3 bits (142), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 54/224 (24%), Positives = 100/224 (44%), Gaps = 16/224 (7%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + K++ G SR+ +++I V + + + + R ++ Sbjct: 7 LEKMLQSQGFGSRKYCQQLIKNGAVSIQDEIQKDLKYRIHDLTDFNFQVFDQNYVYREKV 66 Query: 76 WL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G +H P +VF LP + + + +VGRLD +T GLLLLT+DG Sbjct: 67 YIILNKPKGFECSHQ-PHHHQSVFSLLPDLLIQRNIAAVGRLDQDTTGLLLLTDDGQYLH 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---GICYGDMQVTL--DTQKGSNA 187 L P +VY V + D+++ L++G+ + G+ + VTL +TQ Sbjct: 126 TLTHPKKHVPKVYHVATIDPITVDQMHQLEQGVELHNEKGV-FAATNVTLLNETQ----- 179 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +++ + +G ++K++ KV L R G +L L G Sbjct: 180 -LSMTIHQGVYHQVKRMIAAVGNKVTALHRHKIGQLELPNLAEG 222 >gi|296113684|ref|YP_003627622.1| ribosomal large subunit pseudouridine synthase E [Moraxella catarrhalis RH4] gi|295921378|gb|ADG61729.1| ribosomal large subunit pseudouridine synthase E [Moraxella catarrhalis RH4] gi|326562427|gb|EGE12746.1| ribosomal large subunit pseudouridine synthase E [Moraxella catarrhalis 7169] gi|326563200|gb|EGE13468.1| ribosomal large subunit pseudouridine synthase E [Moraxella catarrhalis 12P80B1] gi|326563484|gb|EGE13747.1| ribosomal large subunit pseudouridine synthase E [Moraxella catarrhalis 103P14B1] gi|326569135|gb|EGE19197.1| ribosomal large subunit pseudouridine synthase E [Moraxella catarrhalis BC1] gi|326570621|gb|EGE20657.1| ribosomal large subunit pseudouridine synthase E [Moraxella catarrhalis BC7] gi|326571328|gb|EGE21345.1| ribosomal large subunit pseudouridine synthase E [Moraxella catarrhalis BC8] gi|326572977|gb|EGE22956.1| ribosomal large subunit pseudouridine synthase E [Moraxella catarrhalis CO72] gi|326573792|gb|EGE23749.1| ribosomal large subunit pseudouridine synthase E [Moraxella catarrhalis 101P30B1] gi|326574785|gb|EGE24719.1| ribosomal large subunit pseudouridine synthase E [Moraxella catarrhalis O35E] Length = 250 Score = 59.3 bits (142), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 53/193 (27%), Positives = 88/193 (45%), Gaps = 36/193 (18%) Query: 73 TRLWLYHKPIGLVTTHS----DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 T+L L++KP G+ HS D DG T+ D + RV GRLD ++EGLLLLT++G Sbjct: 2 TKLVLFNKPYGV---HSQFKKDHDGMITLADFIDDKTMRV--AGRLDKDSEGLLLLTDNG 56 Query: 129 GLARVLELPST---------QWLRVYRVRFHGQVDQDKLNLLKKGIV----------IQG 169 L + P T + + Y V+ ++ L++G++ +Q Sbjct: 57 RLNHAITTPPTAKNAKDKYTKCAKTYLVQVENIATNVQIQALEQGVMLKDGKTLPAKVQK 116 Query: 170 ICYGDMQVTLDTQKGS--------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + ++ + L + W+ + + EGKNR+I+++ RLIR G Sbjct: 117 LDENELPIRLWQRNPPVRQRVNIPTTWLKITIVEGKNRQIRRMVAHVGLPCLRLIRSQIG 176 Query: 222 PFQLGTLLAGSTR 234 +QL L G +R Sbjct: 177 IWQLNGLAVGESR 189 >gi|294624624|ref|ZP_06703296.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] gi|294667289|ref|ZP_06732509.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] gi|292601059|gb|EFF45124.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] gi|292602961|gb|EFF46392.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] Length = 237 Score = 59.3 bits (142), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 104/233 (44%), Gaps = 13/233 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++ K IA G SR++V ++ Q + G +L A + + I VDG PL Sbjct: 2 KLVKHIANLGYGSRKQVTQLFRQGAITDAQGEVLY--ADDQVEHGAIRVDGEPLDPPAGF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINTEGLLLLTNDGG 129 L L HKP G + D GR +++ LP F + VGRLD T G+LL+T+DG Sbjct: 60 SLLL-HKPGGYTCSTKD-TGR-LIYELLPPRFRLRAPVLAPVGRLDRETSGMLLMTDDGA 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAW 188 L + P + +VY V ++ D+ L G ++++G + L+ Sbjct: 117 LLHRIISPKSALDKVYDVTLAEELRGDEAALFASGSLLLEGETKPLLPAELEVLGPRQTR 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +T L EG+ +++++F V L R G L L +G R + L Sbjct: 177 LT--LHEGRYHQVRRMFAAAGNHVVALHRSRIGGLSLDGLPSGQWRALEASDL 227 >gi|254462214|ref|ZP_05075630.1| ribosomal large subunit pseudouridine synthase E [Rhodobacterales bacterium HTCC2083] gi|206678803|gb|EDZ43290.1| ribosomal large subunit pseudouridine synthase E [Rhodobacteraceae bacterium HTCC2083] Length = 181 Score = 59.3 bits (142), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 48/180 (26%), Positives = 84/180 (46%), Gaps = 16/180 (8%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 +R+ L +KP G+++ +D T L + +V GRLD ++EGLL+LT+DG L Sbjct: 2 SRVILLNKPFGVLSQFTDKGLEGTTRPTLSAYVDVPQVYPAGRLDRDSEGLLVLTDDGRL 61 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV------------- 177 + P + + Y V +D L L+KGI ++ QV Sbjct: 62 QAQIADPKFKKPKTYLVLVERIPSEDALQSLRKGITLKDGMTRPAQVERVEPPELWERDP 121 Query: 178 TLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + +K + W+ +REG+NR+++++ RL+R S G + L + +G R+ Sbjct: 122 PVRFRKSVPDCWLKFTIREGRNRQVRRMTAAVGHPTLRLVRWSVGEWTLDGIASGVWRDA 181 >gi|90408077|ref|ZP_01216248.1| ribosomal large subunit pseudouridine synthase E [Psychromonas sp. CNPT3] gi|90310834|gb|EAS38948.1| ribosomal large subunit pseudouridine synthase E [Psychromonas sp. CNPT3] Length = 214 Score = 59.3 bits (142), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 43/166 (25%), Positives = 82/166 (49%), Gaps = 19/166 (11%) Query: 77 LYHKPIGLVTTHSDP---DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L++KP ++ +D R T+ D + V + GRLD ++EGLLLLTNDG L Sbjct: 40 LFNKPFDVLCQFTDDAEQGQRRTLADYIEE--KEVYAAGRLDRDSEGLLLLTNDGKLQAQ 97 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY-GDMQVTLDT---------- 181 + P+ + + Y V+ G L+ L++G++++ G+ ++ D Sbjct: 98 ITQPNKKTDKTYWVQVEGAPTDADLDKLRQGVILKDGLTLPAKIEFLKDAKIWPRVPPIR 157 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + W+++ + EG+NR+++++ + RLIR S G + + Sbjct: 158 QRENIPTTWLSITICEGRNRQVRRMTANIGFPTLRLIRYSIGQWNI 203 >gi|326562796|gb|EGE13091.1| ribosomal large subunit pseudouridine synthase E [Moraxella catarrhalis 46P47B1] Length = 250 Score = 59.3 bits (142), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 51/190 (26%), Positives = 87/190 (45%), Gaps = 30/190 (15%) Query: 73 TRLWLYHKPIGLVTTHS-DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 T+L L++KP G+ + D DG T+ D + RV GRLD ++EGLLLLT++G L Sbjct: 2 TKLVLFNKPYGVHSQFKKDHDGMITLADFIDDKTMRV--AGRLDKDSEGLLLLTDNGRLN 59 Query: 132 RVLELPST---------QWLRVYRVRFHGQVDQDKLNLLKKGIV----------IQGICY 172 + P T + + Y V+ ++ L++G++ +Q + Sbjct: 60 HAITTPPTAKNAKDKYTKCAKTYLVQVENIATNVQIQALEQGVMLKDGKTLPAKVQKLDE 119 Query: 173 GDMQVTLDTQKGS--------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 ++ + L + W+ + + EGKNR+I+++ RLIR G +Q Sbjct: 120 NELPIRLWQRNPPVRQRVNIPTTWLKITIVEGKNRQIRRMVAHVGLPCLRLIRSQIGIWQ 179 Query: 225 LGTLLAGSTR 234 L L G +R Sbjct: 180 LNGLAVGESR 189 >gi|255264737|ref|ZP_05344079.1| ribosomal large subunit pseudouridine synthase E [Thalassiobium sp. R2A62] gi|255107072|gb|EET49746.1| ribosomal large subunit pseudouridine synthase E [Thalassiobium sp. R2A62] Length = 178 Score = 59.3 bits (142), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 45/177 (25%), Positives = 79/177 (44%), Gaps = 15/177 (8%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R+ L +KP G+++ +D + I V + GRLD ++EGLL+LT+DG L Sbjct: 2 ARVILLNKPFGVLSQFTDEGTNHPTLKDYVKIPG-VYAAGRLDRDSEGLLVLTDDGRLQN 60 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-------------VIQGICYGDMQVTL 179 + P + + Y + G D L L+ G+ +I + + Sbjct: 61 RIASPKFKQPKTYWAQVEGTPDDAALEALRAGVKLKDGMTKPARARIIDAPDVWERDPPI 120 Query: 180 DTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 +K + W+ + L EG+NR+++++ RLIR S G + + L G R+ Sbjct: 121 RVRKAIPDTWIELVLTEGRNRQVRRMTAAVGHPTLRLIRYSIGDWTIDNLALGQWRD 177 >gi|222151679|ref|YP_002560835.1| 16S pseudouridylate synthase homolog [Macrococcus caseolyticus JCSC5402] gi|222120804|dbj|BAH18139.1| 16S pseudouridylate synthase homolog [Macrococcus caseolyticus JCSC5402] Length = 234 Score = 59.3 bits (142), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 64/230 (27%), Positives = 113/230 (49%), Gaps = 11/230 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEV-DGVPLRKAE 71 R+ K + G +R+EV+ ++ + VKVN ++++++ + ++ D + V D V + E Sbjct: 1 MRLDKFLGNHGFGTRKEVKLLVKRGAVKVNDVVVKKSDIKIVPENDTVTVYDEVVMY--E 58 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGG 129 + +KP G +++ D + + L F + VGRLD +TEGLL+LTNDG Sbjct: 59 PFVYIMLNKPAGYISSTKDYKDETVL--ELIEGFEHYDLHPVGRLDKDTEGLLILTNDGQ 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-TQKGSNAW 188 + + P + Y R G V D + L K GI + Y M L G + Sbjct: 117 FSHDVLSPRKHVNKTYFARVDGYVTDDTVELFKAGITLDD-GYKAMPAELQIISAGEISE 175 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 + + ++EGK ++K++F + V L RI G L +L G+ R+++ Sbjct: 176 IELVIQEGKFHQVKRMFIAVDMIVIYLKRIKMGGLPLDESLTPGAYRKLT 225 >gi|78067326|ref|YP_370095.1| pseudouridine synthase, Rsu [Burkholderia sp. 383] gi|77968071|gb|ABB09451.1| Pseudouridine synthase, Rsu [Burkholderia sp. 383] Length = 192 Score = 59.3 bits (142), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 45/166 (27%), Positives = 77/166 (46%), Gaps = 19/166 (11%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLELP 137 +KP G + S + R ++ D + + V + GRLD ++EGLLLLT+DG L AR+ E P Sbjct: 7 NKPFGTICQFSAHETRPSLGDWVKT--PGVYAAGRLDADSEGLLLLTDDGALQARIAE-P 63 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSNA------ 187 + ++ Y + G L L +G+ + C + DT N Sbjct: 64 RHKLVKRYWAQVEGAPGPTDLKALARGVDLGDYVTRPCRAEFIEPPDTLWPRNPPIRYRA 123 Query: 188 -----WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R+ G + L Sbjct: 124 AIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGVGALDIFAL 169 >gi|159045448|ref|YP_001534242.1| ribosomal large subunit pseudouridine synthase E [Dinoroseobacter shibae DFL 12] gi|157913208|gb|ABV94641.1| ribosomal large subunit pseudouridine synthase E [Dinoroseobacter shibae DFL 12] Length = 178 Score = 59.3 bits (142), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 40/145 (27%), Positives = 68/145 (46%), Gaps = 15/145 (10%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 V + GRLD ++EGLLLLT+DG L + P + + Y G+ QD +N L +G+ + Sbjct: 33 VYAAGRLDRDSEGLLLLTDDGRLQARITDPRAKMPKTYYALVEGRPSQDAINRLCEGVSL 92 Query: 168 Q----------GICYGDMQVTLDT-----QKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + D D + +AW+ + + EG+NR+++++ Sbjct: 93 KDGPTRPAKVAAVPAPDWLWPRDPPVRLRKTVPDAWLRLTITEGRNRQVRRMCAAVGLPC 152 Query: 213 NRLIRISYGPFQLGTLLAGSTREVS 237 RLIR G + L L G R ++ Sbjct: 153 LRLIRTQIGDWTLDGLAPGQWRRIA 177 >gi|319792471|ref|YP_004154111.1| pseudouridine synthase [Variovorax paradoxus EPS] gi|315594934|gb|ADU36000.1| pseudouridine synthase [Variovorax paradoxus EPS] Length = 249 Score = 59.3 bits (142), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 58/234 (24%), Positives = 93/234 (39%), Gaps = 30/234 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 + ++ G +RR ++ Q V ++G + +V + V G P E+ Sbjct: 2 HLQDILYTQGFGTRRVCAGLVQQGHVTIDGKAVTDPFADVDPEGLLYTVQGTPWAYHEKA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---------SRVISVGRLDINTEGLLLL 124 L L HKP G + P +++ LPS V ++GRLD +T GLLL+ Sbjct: 62 YLML-HKPAGTECSQK-PSTYPSIYTLLPSPLRLRPNKGAVQGVQAIGRLDQDTTGLLLM 119 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--------GICYGDMQ 176 T+DG + P +VY V VD+ ++ L G+V+ C D Sbjct: 120 TDDGQFIHKMGSPKHHVPKVYEVTAKHPVDEAQIAKLLAGVVLDDDPKPVRAAACESDSP 179 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + L + L EGK ++K++ +V L R G L LA Sbjct: 180 LHL----------RLTLTEGKYHQVKRMLAAVGNRVEGLHRSRIGELSLPADLA 223 >gi|84517063|ref|ZP_01004419.1| ribosomal small subunit pseudouridine synthase A [Loktanella vestfoldensis SKA53] gi|84508958|gb|EAQ05419.1| ribosomal small subunit pseudouridine synthase A [Loktanella vestfoldensis SKA53] Length = 244 Score = 59.3 bits (142), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 61/220 (27%), Positives = 99/220 (45%), Gaps = 14/220 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----PLRKA 70 R+ +++ G SR ++ RM + ++ + A + T + V PL Sbjct: 8 RIDQLLGSLGYGSRGDIARMAKSGWITLDDARIWDATTRIAVTPDLPARMVVSREPLDPL 67 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VIS-VGRLDINTEGLLLLTN 126 + L HKP+G+ +H + DG V+D LP + R VIS VGRLD T GLLLLT+ Sbjct: 68 AGMVI-LLHKPLGMTCSHKE-DG-PLVYDILPDRWKRRQPVISTVGRLDKQTSGLLLLTD 124 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG L + P + YR ++ ++ + G +V+QG L + Sbjct: 125 DGPLLHRIISPKQHIKKTYRATLARPLEGNEAAIFAAGDLVLQGEDKPLAPAELRVISPT 184 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 A +TV EG+ +++++F V L R + G L Sbjct: 185 EAVLTV--TEGRYHQVRRMFAATGNHVTALHRDALGGLVL 222 >gi|262372034|ref|ZP_06065313.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter junii SH205] gi|262312059|gb|EEY93144.1| 16S rRNA uridine-516 pseudouridylate synthase [Acinetobacter junii SH205] Length = 267 Score = 59.3 bits (142), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 33/130 (25%), Positives = 64/130 (49%), Gaps = 15/130 (11%) Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQG 169 GRLD+++EGL+ LT+ GGL + + P+ + + Y + G V ++ L L+KG+ + G Sbjct: 37 AGRLDLDSEGLMFLTDHGGLNQYITNPTNKKFKTYLAQVDGDVTEEALEQLRKGVELADG 96 Query: 170 ICYGDMQVTLDTQKG--------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRL 215 + + +D + +W+ + + EG+NR+++++ + RL Sbjct: 97 MTLPAKAIKVDQPEWLWDRDPPVRFRANIPTSWIELQICEGRNRQVRRMTAAVGFPTLRL 156 Query: 216 IRISYGPFQL 225 IR G L Sbjct: 157 IRTKIGAIDL 166 >gi|239814633|ref|YP_002943543.1| pseudouridine synthase [Variovorax paradoxus S110] gi|239801210|gb|ACS18277.1| pseudouridine synthase [Variovorax paradoxus S110] Length = 249 Score = 58.9 bits (141), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 61/239 (25%), Positives = 94/239 (39%), Gaps = 31/239 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 + ++ G +RR ++ Q V + G + ++ D + V G E+ Sbjct: 2 HLQDILYSQGFGTRRVCAGLVQQGHVSIAGAAVTDPFADLDPEDLLFTVQGTEWAYHEKA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---------SRVISVGRLDINTEGLLLL 124 L L HKP G + P +++ LPS V ++GRLD +T GLLLL Sbjct: 62 YLML-HKPAGTECSQK-PSTYPSIYTLLPSPLRLRPNKGAVQGVQAIGRLDQDTTGLLLL 119 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--------GICYGDMQ 176 T+DG + P +VY V VD ++ L G+V+ C D Sbjct: 120 TDDGQFIHKMGSPKHHVPKVYEVTAKHPVDAAQIEKLLAGVVLDDDPKPVRAAACESDSP 179 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTR 234 + L + L EGK ++K++ +V L R G L G L AG R Sbjct: 180 LHL----------RLTLTEGKYHQVKRMLAAVGNRVEGLHRSRIGDLALPGDLAAGQWR 228 >gi|170733848|ref|YP_001765795.1| pseudouridine synthase [Burkholderia cenocepacia MC0-3] gi|169817090|gb|ACA91673.1| pseudouridine synthase [Burkholderia cenocepacia MC0-3] Length = 238 Score = 58.9 bits (141), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 49/165 (29%), Positives = 74/165 (44%), Gaps = 13/165 (7%) Query: 76 WLYH--------KPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLT 125 W +H KP G + DP ++VF LP+ + V VGRLD +T GLLLL+ Sbjct: 55 WPFHARAYLALNKPAGYECS-RDPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLS 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG P + + Y +D +L+ L+ G+ + G V D + Sbjct: 114 DDGQFVHAYTSPKRKVPKTYVATVRHPLDDTQLHALRTGVQLHGEPKPIAAVAADARDTH 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +TV EGK ++K++ + +V L R S G F L LA Sbjct: 174 ALALTV--LEGKYHQVKRMVAAASNRVELLHRESIGGFALPADLA 216 >gi|315179963|gb|ADT86877.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio furnissii NCTC 11218] Length = 233 Score = 58.9 bits (141), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 55/212 (25%), Positives = 93/212 (43%), Gaps = 3/212 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A ++R+E +++ V V+G + + +V V + L Sbjct: 2 RLDKFLCDALGSTRKEATQILKSGDVTVDGKVQKSGSVQVTEASVVAWQERQLSLTGPRY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 + LY KP G V +H D + T F L + R + GRLD++T GL+L+T+DG + Sbjct: 62 IMLY-KPEGFVCSHEDGFNQ-TAFVLLDEVNMRGLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV V D L GI ++ + ++ V + + Sbjct: 120 ITSPKHKCDKTYRVWLADAVQADYAEQLAHGIELRNERELTLPAHMELVNADENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EGK ++K++F KV L R G L Sbjct: 180 HEGKYHQVKRMFAALGNKVEALHRERVGEIVL 211 >gi|148263668|ref|YP_001230374.1| pseudouridine synthase [Geobacter uraniireducens Rf4] gi|146397168|gb|ABQ25801.1| ribosomal large subunit pseudouridine synthase E [Geobacter uraniireducens Rf4] Length = 195 Score = 58.9 bits (141), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 46/177 (25%), Positives = 85/177 (48%), Gaps = 20/177 (11%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L++KP ++ ++P R T+ D ++P +++ GRLD ++EGLL+LT+ G + + + Sbjct: 17 LFNKPFNILCQFTEPGKRLTLADYISIPGVYA----AGRLDYDSEGLLVLTDTGRIQQRI 72 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDM-------QVTLDT----- 181 P + Y V+ G + L G++++ G+ + V L T Sbjct: 73 ADPRADMAKSYWVQVEGVPTLAAIQQLTCGVLLEDGLTLPAIVEQIKPPSVWLRTPQIRE 132 Query: 182 -QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++ W+ + L E +NR I+++ RLIR + GP+QL L G + S Sbjct: 133 RRQIPTTWLAITLTEDRNRLIRRMTAAVGLPTLRLIRQAVGPWQLNKLQPGDWKVAS 189 >gi|254247451|ref|ZP_04940772.1| 16S pseudouridylate synthase [Burkholderia cenocepacia PC184] gi|124872227|gb|EAY63943.1| 16S pseudouridylate synthase [Burkholderia cenocepacia PC184] Length = 238 Score = 58.9 bits (141), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 49/165 (29%), Positives = 74/165 (44%), Gaps = 13/165 (7%) Query: 76 WLYH--------KPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLT 125 W +H KP G + DP ++VF LP+ + V VGRLD +T GLLLL+ Sbjct: 55 WPFHARAYLALNKPAGYECS-RDPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLS 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG P + + Y +D +L+ L+ G+ + G V D + Sbjct: 114 DDGQFVHAYTSPKRKVPKTYVATVRHPLDDTQLHALRTGVQLHGEPKPIAAVAADARDTH 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +TV EGK ++K++ + +V L R S G F L LA Sbjct: 174 ALALTV--LEGKYHQVKRMVAAASNRVELLHRESIGGFALPADLA 216 >gi|268318226|ref|YP_003291945.1| pseudouridine synthase [Rhodothermus marinus DSM 4252] gi|262335760|gb|ACY49557.1| pseudouridine synthase [Rhodothermus marinus DSM 4252] Length = 201 Score = 58.9 bits (141), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 55/178 (30%), Positives = 89/178 (50%), Gaps = 21/178 (11%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L+ KP G+++ +D +GR T+ D ++P ++ VGRLD+++EGLLLLTNDG L L Sbjct: 9 LFWKPYGVLSQFTDREGRPTLKDYIDVPDVYP----VGRLDMDSEGLLLLTNDGLLKYRL 64 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVTLD 180 P R Y + D + L L +G+VI G V + Sbjct: 65 LHPRYGHWRTYWAQVERIPDDEALRRLAEGVVIAGGYRTRPARVRRIEPPELPPRPVPIR 124 Query: 181 TQKG-SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +K W+ + +REGKNR+++++ RL+R++ GP +L L G R ++ Sbjct: 125 YRKTVPTYWLEISIREGKNRQVRRMTAAVGHPTLRLVRVAIGPLRLDGLEPGHWRPLT 182 >gi|254251614|ref|ZP_04944932.1| 16S rRNA uridine-516 pseudouridylate synthase [Burkholderia dolosa AUO158] gi|124894223|gb|EAY68103.1| 16S rRNA uridine-516 pseudouridylate synthase [Burkholderia dolosa AUO158] Length = 192 Score = 58.9 bits (141), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 45/166 (27%), Positives = 76/166 (45%), Gaps = 19/166 (11%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLELP 137 +KP G + S + R ++ D + + V GRLD ++EGLLLLT+DG L AR+ E P Sbjct: 7 NKPFGTICQFSAHETRPSLGDWVKT--PGVYPAGRLDADSEGLLLLTDDGALQARIAE-P 63 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSNA------ 187 + ++ Y + G L L +G+ + C + DT N Sbjct: 64 RHKLVKRYWAQVEGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPDTLWPRNPPIRYRA 123 Query: 188 -----WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R+ G + L Sbjct: 124 AIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFAL 169 >gi|124806291|ref|XP_001350682.1| RNA pseudouridylate synthase, putative [Plasmodium falciparum 3D7] gi|23496808|gb|AAN36362.1| RNA pseudouridylate synthase, putative [Plasmodium falciparum 3D7] Length = 409 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 32/118 (27%), Positives = 58/118 (49%) Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 +I + L+ +EGLLLLTNDG A+ L+ L Y ++ + DK+ LL+KG Sbjct: 225 HLIIINSLNSGSEGLLLLTNDGDFAKNLKDIQNNILTTYLIKVQEDLCIDKIKLLRKGCF 284 Query: 167 IQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 I + + + K ++ W+ E + + +F +N + + R S+GP++ Sbjct: 285 INNQHIYPVNIEIIKSKHTSKWIKFTYVEKSHNYLLYLFSKYNITIRKCKRFSFGPYK 342 >gi|260768255|ref|ZP_05877189.1| ribosomal small subunit pseudouridine synthase A [Vibrio furnissii CIP 102972] gi|260616285|gb|EEX41470.1| ribosomal small subunit pseudouridine synthase A [Vibrio furnissii CIP 102972] Length = 233 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 55/212 (25%), Positives = 93/212 (43%), Gaps = 3/212 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + A ++R+E +++ V V+G + + +V V + L Sbjct: 2 RLDKFLCDALGSTRKEATQILKSGDVTVDGKVQKSGSVQVTEASVVAWQERQLSLTGPRY 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 + LY KP G V +H D + T F L + R + GRLD++T GL+L+T+DG + Sbjct: 62 IMLY-KPEGFVCSHEDGFNQ-TAFVLLDEVNMRGLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV V D L GI ++ + ++ V + + Sbjct: 120 ITSPKHKCDKTYRVWLADAVQADYAEKLAHGIELRNERELTLPAHMELVNADENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EGK ++K++F KV L R G L Sbjct: 180 HEGKYHQVKRMFAALGNKVEALHRERVGDIVL 211 >gi|330955284|gb|EGH55544.1| pseudouridine synthase, Rsu [Pseudomonas syringae Cit 7] Length = 132 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 40/114 (35%), Positives = 57/114 (50%), Gaps = 2/114 (1%) Query: 35 IAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGR 94 +A RV+V+G V + +D L+ + R ++ HKP G V+ SD Sbjct: 18 LASGRVQVDGQATRDPHHEVREFSCVALDEEILQAGKAARYFMLHKPEGCVSATSDAQ-H 76 Query: 95 STVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRV 147 TV D L + + GRLD NT GL+L+TNDG +R L P T+ +VY V Sbjct: 77 PTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRRLTQPQTKMPKVYYV 130 >gi|206561075|ref|YP_002231840.1| putative pseudouridine synthase [Burkholderia cenocepacia J2315] gi|198037117|emb|CAR53038.1| putative pseudouridine synthase [Burkholderia cenocepacia J2315] Length = 192 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 45/166 (27%), Positives = 77/166 (46%), Gaps = 19/166 (11%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLELP 137 +KP G + S + R ++ D + + V + GRLD ++EGLLLLT+DG L AR+ E P Sbjct: 7 NKPFGTICQFSAHETRPSLGDWVKT--PGVYAAGRLDADSEGLLLLTDDGALQARIAE-P 63 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSNA------ 187 + ++ Y + G L L +G+ + C + DT N Sbjct: 64 RHKLVKRYWAQVDGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPDTLWPRNPPIRYRA 123 Query: 188 -----WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R+ G + L Sbjct: 124 AIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFAL 169 >gi|332968985|gb|EGK08027.1| ribosomal large subunit pseudouridine synthase E [Psychrobacter sp. 1501(2011)] Length = 201 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 49/180 (27%), Positives = 84/180 (46%), Gaps = 27/180 (15%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLARVL 134 L++KP G+ + SD + F L F+ + GRLD +EGLLLLT+DG + + + Sbjct: 6 LFNKPYGVQSQFSD--DANNKFAPLSQFFTDKSLRVAGRLDATSEGLLLLTSDGRVNKAI 63 Query: 135 ELPST-----QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG----- 184 P + + Y V+ G+ ++L L +G+V++ +V T+K Sbjct: 64 THPPKANAGRKQGKTYLVQVEGEPTAEQLEQLCQGVVLKDGKTLPAEVKHLTEKELPMPL 123 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 ++W+ + + EGKNR+++++ RLIR S F+LG L G Sbjct: 124 WQRDPPIRERKNIPDSWLMMTIYEGKNRQVRRMTAHVGLPCLRLIRWSVAGFELGDLGVG 183 >gi|126642165|ref|YP_001085149.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter baumannii ATCC 17978] Length = 201 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 51/171 (29%), Positives = 80/171 (46%), Gaps = 18/171 (10%) Query: 80 KPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 KP G +H P +VF LP I V +VGRLD +T GLLLLT+DG + L P Sbjct: 34 KPQGFECSHH-PQHHQSVFSLLPETMIHRGVQAVGRLDQDTTGLLLLTDDGKYLQALTHP 92 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ----GICYGDMQVTLDTQKGSNAWVTVGL 193 +VY V + V +++ +L +G+ + G D+ + L T + +T+ + Sbjct: 93 RKHVPKVYHVTTYDPVTPEQIEMLTQGVNLHQEKGGFAATDVAL-LGTHQ-----LTMTI 146 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +G ++K++ KV +L R Q+G L+ E L EQ Sbjct: 147 HQGVYHQVKRMIAAVGNKVEKLHR-----HQIGQLVLPEIEEGGWVYLSEQ 192 >gi|307102233|gb|EFN50580.1| hypothetical protein CHLNCDRAFT_14498 [Chlorella variabilis] Length = 183 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 50/175 (28%), Positives = 83/175 (47%), Gaps = 25/175 (14%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLWLY 78 IA AG+ASRR + +I +VKVNG ++ V + D + V G + A R + + Sbjct: 1 IAAAGVASRRGADDLIFGGQVKVNGKVVTEPGTQVDLRKDRVAVSGREISAAAVQRKYYF 60 Query: 79 --HKPIGLVTT----HSDP-DGRSTV--FDNLPSIFSR---------------VISVGRL 114 +KP G + + H D +GR + FD+ + + + + +VGRL Sbjct: 61 ALNKPKGYICSNKSEHEDGGEGRLVISLFDDWLARWRQRQARPGGGGGGLPPRLFTVGRL 120 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 D+ + GL+ +TNDG A + PST + Y V + Q++L + G + G Sbjct: 121 DVASIGLIFVTNDGDWAHKVMHPSTGITKEYSVTLDCKPRQEELQAMAAGCDMGG 175 >gi|255037074|ref|YP_003087695.1| pseudouridine synthase [Dyadobacter fermentans DSM 18053] gi|254949830|gb|ACT94530.1| pseudouridine synthase [Dyadobacter fermentans DSM 18053] Length = 225 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 44/148 (29%), Positives = 69/148 (46%), Gaps = 18/148 (12%) Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ- 168 +VGRLD +EGLL+LT + + +L L R Y V V + + LL+ GI I+ Sbjct: 47 AVGRLDSMSEGLLILTTNKKVTNLLFLGEVPHTRTYWVNVGHIVPPETVQLLRTGIPIRV 106 Query: 169 --GICYGDMQVTLDT--------------QKG-SNAWVTVGLREGKNREIKKVFEFFNWK 211 G Y ++ Q G N W+++ L EGK +++K+ N + Sbjct: 107 KGGGYYTTAPCEVEVIERPAILPWHQSEGQPGVPNTWLSITLTEGKYHQVRKMVREANHR 166 Query: 212 VNRLIRISYGPFQLGTLLAGSTREVSKK 239 RL+R S +LG L G RE+ ++ Sbjct: 167 CKRLVRASIEDLELGDLPPGGVREIGEE 194 >gi|87120569|ref|ZP_01076463.1| hypothetical 16S rRNA uridine-516 pseudouridylate synthase [Marinomonas sp. MED121] gi|86164212|gb|EAQ65483.1| hypothetical 16S rRNA uridine-516 pseudouridylate synthase [Marinomonas sp. MED121] Length = 230 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 66/225 (29%), Positives = 106/225 (47%), Gaps = 6/225 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ +A A SR+E + IA+ RV VNG +A V + +D PL ++ R Sbjct: 2 RLDYYLAHAANLSRKEAKIAIAKGRVLVNGESKLKANSPVTDLCDVILDKSPLS-FQQNR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G+V D D V D LP + + VGRLD +T GLLLLT DG Sbjct: 61 YYMMYKPAGVVCALQD-DEHDVVLDLLPHEIQKELKIVGRLDKDTTGLLLLTTDGQWLHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V ++ +D + L+KG++++G D+ + +++ + Sbjct: 120 ITSPKHDCPKTYLVDLADEITKDAIEALEKGVLLKGEI--DLTKPAKVVSHTEKQISLTI 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 EGK ++K++ KV L R G L +A G E+S Sbjct: 178 SEGKYHQVKRMLAAVGNKVEALHRTQIGEVCLSQDMALGEFTELS 222 >gi|294649789|ref|ZP_06727191.1| ribosomal large subunit pseudouridine synthase E family protein [Acinetobacter haemolyticus ATCC 19194] gi|292824272|gb|EFF83073.1| ribosomal large subunit pseudouridine synthase E family protein [Acinetobacter haemolyticus ATCC 19194] Length = 267 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 38/167 (22%), Positives = 80/167 (47%), Gaps = 17/167 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +++KP +++ + + TV + R+ GRLD+++EGL+ LT+ GGL + Sbjct: 2 KIVVFNKPYDVLSQFREDEAHLTVSSFIKDPELRI--AGRLDLDSEGLMFLTDHGGLNQF 59 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKG-------- 184 + PS + + Y + G V ++ L L+ G+ + G+ + +D + Sbjct: 60 ITHPSNKKYKTYLAQVDGDVTEEALEQLRNGVELADGMTLPAKAMKVDEPEWLWDRDPPV 119 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +W+ + + EG+NR+++++ + RLIR G L Sbjct: 120 RYRASIPTSWIELQICEGRNRQVRRMTAAVGFPTLRLIRTQIGSINL 166 >gi|163750021|ref|ZP_02157265.1| hypothetical ribosomal small subunit pseudouridine synthase A [Shewanella benthica KT99] gi|161330295|gb|EDQ01276.1| hypothetical ribosomal small subunit pseudouridine synthase A [Shewanella benthica KT99] Length = 239 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 57/223 (25%), Positives = 101/223 (45%), Gaps = 23/223 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + ++ +R E +I +V+VNGI++ V + I + G L A +R Sbjct: 2 RLDKFLCKSTDFTRVESIDLIEAGKVRVNGIVIITPQTQVHENNSIMLSGQRL-VARPSR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS--------VGRLDINTEGLLLLTN 126 + HKPI + ++ D D PS+ + + GRLD +T GLLLLT+ Sbjct: 61 YIMLHKPINTLCSNVDGD--------YPSVMNYIHMDRAEDLHITGRLDADTTGLLLLTD 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL----KKGIVIQGICYGDMQVTLDTQ 182 DG + + P + YRV ++++ ++ L ++G+ +QG + L+ Sbjct: 113 DGRWSFNIINPKYHCEKTYRVTLRDPIEEEDIDELVSRFEQGLQLQGEKSLTLAAKLEVI 172 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +T L EG+ ++K++F +V L R G L Sbjct: 173 APHQVLLT--LSEGRYHQVKRMFFTVGNRVVGLHRQQVGKLSL 213 >gi|171320855|ref|ZP_02909856.1| pseudouridine synthase [Burkholderia ambifaria MEX-5] gi|171093881|gb|EDT39011.1| pseudouridine synthase [Burkholderia ambifaria MEX-5] Length = 192 Score = 58.5 bits (140), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 45/168 (26%), Positives = 76/168 (45%), Gaps = 23/168 (13%) Query: 79 HKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLE 135 +KP G + S + R ++ D PS++ GRLD ++EGLLLLT+DG L AR+ E Sbjct: 7 NKPFGTICQFSAHETRPSLGDWVKTPSVYP----AGRLDADSEGLLLLTDDGALQARIAE 62 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSNA---- 187 P + ++ Y + G L L +G+ + C + D N Sbjct: 63 -PHHKLVKRYWAQVDGAPGPADLKALTRGVDLGDYVTRPCRAEFIEPPDALWPRNPPIRY 121 Query: 188 -------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R+ G + L Sbjct: 122 RAAIPTTWIELAITEGKNRQVRRMTAAIGFPTLRLVRVGIGALDIFAL 169 >gi|107023425|ref|YP_621752.1| pseudouridine synthase, Rsu [Burkholderia cenocepacia AU 1054] gi|116690507|ref|YP_836130.1| pseudouridine synthase, Rsu [Burkholderia cenocepacia HI2424] gi|105893614|gb|ABF76779.1| ribosomal small subunit pseudouridine synthase A [Burkholderia cenocepacia AU 1054] gi|116648596|gb|ABK09237.1| ribosomal small subunit pseudouridine synthase A [Burkholderia cenocepacia HI2424] Length = 238 Score = 58.5 bits (140), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 49/165 (29%), Positives = 74/165 (44%), Gaps = 13/165 (7%) Query: 76 WLYH--------KPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLT 125 W +H KP G + DP ++VF LP+ + V VGRLD +T GLLLL+ Sbjct: 55 WPFHARAYLALNKPAGYECS-RDPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLS 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG P + + Y +D +L+ L+ G+ + G V D + Sbjct: 114 DDGQFVHAYTSPKRKVPKTYVATVRHPLDDTQLHALRTGVQLHGEPKPIAAVAADARDTH 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +TV EGK ++K++ + +V L R S G F L LA Sbjct: 174 ALALTV--LEGKYHQVKRMVAAASNRVELLHRESIGGFALPADLA 216 >gi|170702500|ref|ZP_02893380.1| pseudouridine synthase [Burkholderia ambifaria IOP40-10] gi|170132591|gb|EDT01039.1| pseudouridine synthase [Burkholderia ambifaria IOP40-10] Length = 192 Score = 58.5 bits (140), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 45/166 (27%), Positives = 76/166 (45%), Gaps = 19/166 (11%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLELP 137 +KP G + S + R ++ D + + V GRLD ++EGLLLLT+DG L AR+ E P Sbjct: 7 NKPFGTICQFSAHETRPSLGDWVKT--PGVYPAGRLDADSEGLLLLTDDGALQARIAE-P 63 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSN------- 186 + ++ Y + G L L +G+ + C + D N Sbjct: 64 RHKLVKRYWAQVDGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPDALWPRNPPIRYRA 123 Query: 187 ----AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R+ G + TL Sbjct: 124 AIPTTWIELAITEGKNRQVRRMTAAIGFPTLRLVRVGIGALDIFTL 169 >gi|308050759|ref|YP_003914325.1| ribosomal small subunit pseudouridine synthase A [Ferrimonas balearica DSM 9799] gi|307632949|gb|ADN77251.1| ribosomal small subunit pseudouridine synthase A [Ferrimonas balearica DSM 9799] Length = 232 Score = 58.5 bits (140), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 56/226 (24%), Positives = 103/226 (45%), Gaps = 6/226 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + +R ++++ + V+ +G +++ V + ++GVPL TR Sbjct: 2 RLDKYLCSCTDLTRSMAKKLLHKGEVQCDGEVVKDPGFKVTDDTQVVLEGVPLGPV-ATR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP + ++ D S + LP + I+ GRLD++T GL+LL+ DG Sbjct: 61 YIMLHKPAEFLCSNVDELYPSVLNLIELPKRETLRIA-GRLDVDTTGLVLLSEDGQWCHQ 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P Q + YR + D L +G+ + + + + S+ V + + Sbjct: 120 ITSPRRQCSKRYRAWLAEPLVADAEQQLAQGVQLHN--EEGLTRPAELVRISDTEVLLTI 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 EGK ++K++F KV L R + G +L TL G R +S+ Sbjct: 178 EEGKYHQVKRMFAALGNKVVALHREAIGAIELDETLEPGEWRLLSE 223 >gi|301510575|ref|ZP_07235812.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter baumannii AB058] Length = 210 Score = 58.5 bits (140), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 50/170 (29%), Positives = 78/170 (45%), Gaps = 16/170 (9%) Query: 80 KPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 KP G +H P +VF LP I V +VGRLD +T GLLLLT+DG + L P Sbjct: 43 KPQGFECSHQ-PQHHQSVFSLLPETMIHRGVQAVGRLDQDTTGLLLLTDDGKYLQALTHP 101 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---GICYGDMQVTLDTQKGSNAWVTVGLR 194 +VY V + V +++ +L +G+ + G+ L T + +T+ + Sbjct: 102 RKHVPKVYHVTTYDPVTPEQIEMLTQGVNLHQEKGVFAATDVALLGTHQ-----LTMTIH 156 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +G ++K++ KV +L R Q+G L+ E L EQ Sbjct: 157 QGVYHQVKRMIAAVGNKVEKLHR-----HQIGQLVLPEIEEGGWVYLSEQ 201 >gi|330752219|emb|CBL87177.1| ribosomal large subunit pseudouridine synthase B [uncultured Sphingobacteria bacterium] Length = 230 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 57/240 (23%), Positives = 106/240 (44%), Gaps = 15/240 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +RRE R++A+ +KVN +++ + VM D + PL++ R Sbjct: 2 RLNKYIAHTRYCTRREASRLLARGEIKVNNKVVKEESYRVMEGDEVTHLNKPLQEQLLYR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP T D D + + + +I+V + + GLLLLT+D L L Sbjct: 62 YLLINKPKHFTTDIGDKDSKYIMGLIKKEDPTGLIAVDHMGPKSVGLLLLTSDKALVEKL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLL---KKGIVIQGICYGDMQVTLDTQKGSNA-WVT 190 + + RVY + + +++ +N L +K I I+ + D G A ++ Sbjct: 122 NQKNRKVRRVYLIELNKDIEKKDINKLLKDRKTIKIESASHVD---------GYQANYIG 172 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + G +K V +++ R+ R Y L G R + + + E++ H + Sbjct: 173 LEMTIGSENILKGVINRMGFEIERIDRSYYAGLTKKDLKRGWIRPLQE--MEERMMKHFI 230 >gi|315498660|ref|YP_004087464.1| pseudouridine synthase [Asticcacaulis excentricus CB 48] gi|315416672|gb|ADU13313.1| pseudouridine synthase [Asticcacaulis excentricus CB 48] Length = 233 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 62/225 (27%), Positives = 96/225 (42%), Gaps = 11/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+EV++ I V G LL A + + I + PL A Sbjct: 2 RLIKLLANLGYGSRKEVQKYIRMGIVTDAEGNLLNDDAKT--AHEDIRFNERPLDPAHGV 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTNDGG 129 L L +KP G V + D V++ LP FS + +VGRLD +T GLLL T+DG Sbjct: 60 VLML-NKPTGYVCSLKDTG--KLVYELLPHRFSERKPVLSTVGRLDADTSGLLLFTDDGD 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + P ++Y V + + + G ++ ++ Q G Sbjct: 117 YLHRIISPKNHVAKIYEVTLARPLQGHEAAIFASGELMLESEKTPLKPAAMEQTGEKT-A 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EG+ +++++F V L R G LG L G R Sbjct: 176 RLTLYEGRYHQVRRMFAAVGNHVEALHRSQMGDLTLGELRPGKWR 220 >gi|161523949|ref|YP_001578961.1| pseudouridine synthase [Burkholderia multivorans ATCC 17616] gi|160341378|gb|ABX14464.1| pseudouridine synthase [Burkholderia multivorans ATCC 17616] Length = 228 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 43/161 (26%), Positives = 74/161 (45%), Gaps = 23/161 (14%) Query: 79 HKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLE 135 +KP G + S + R ++ D P ++ GRLD ++EGLLLLT+DG L AR+ E Sbjct: 43 NKPFGTICQFSAHETRPSLGDWVKTPGVYP----AGRLDADSEGLLLLTDDGALQARIAE 98 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSNA---- 187 P + ++ Y + G L L +G+ + C + +T N Sbjct: 99 -PRHKLVKRYWAQVEGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPETLWPRNPPIRY 157 Query: 188 -------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 W+ + + EGKNR+++++ + RL+R+ G Sbjct: 158 RAAIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIG 198 >gi|226952496|ref|ZP_03822960.1| pseudouridine synthase [Acinetobacter sp. ATCC 27244] gi|226836767|gb|EEH69150.1| pseudouridine synthase [Acinetobacter sp. ATCC 27244] Length = 267 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 38/167 (22%), Positives = 80/167 (47%), Gaps = 17/167 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +++KP +++ + + TV + R+ GRLD+++EGL+ LT+ GGL + Sbjct: 2 KIVVFNKPYDVLSQFREDEAHLTVSSFIKDPELRI--AGRLDLDSEGLMFLTDHGGLNQF 59 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKG-------- 184 + PS + + Y + G V ++ L L+ G+ + G+ + +D + Sbjct: 60 ITHPSNKKYKTYLAQVDGDVTEEALEQLRNGVELADGMTLPAKAMKVDEPEWLWDRDPPV 119 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +W+ + + EG+NR+++++ + RLIR G L Sbjct: 120 RYRASIPTSWIELQICEGRNRQVRRMTAAVGFPTLRLIRTQIGSINL 166 >gi|291326167|ref|ZP_06573862.1| ribosomal large subunit pseudouridine synthase E [Providencia rettgeri DSM 1131] gi|291315271|gb|EFE55724.1| ribosomal large subunit pseudouridine synthase E [Providencia rettgeri DSM 1131] Length = 182 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 31/95 (32%), Positives = 54/95 (56%), Gaps = 2/95 (2%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T++ L++KP ++ +D GR T+ +P + V + GRLD ++EGLL+LTNDG L Sbjct: 39 TKIILFNKPFDVLPQFTDEQGRDTLKKYIP--ITDVYAAGRLDRDSEGLLILTNDGKLQA 96 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 L P + ++Y + G +D L ++G+ + Sbjct: 97 RLTQPQKKTGKIYYAQVEGIPSEDALLKFRRGLTL 131 >gi|171909920|ref|ZP_02925390.1| Pseudouridine synthase, Rsu [Verrucomicrobium spinosum DSM 4136] Length = 189 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 44/167 (26%), Positives = 77/167 (46%), Gaps = 20/167 (11%) Query: 79 HKPIGLVT--THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 HKP G+++ T P R+ LP+ V +GRLD ++EGLLLL+++ + L Sbjct: 6 HKPYGVLSQFTKEHPSHRTLAEFGLPA---GVYPIGRLDSDSEGLLLLSDEARWNQQLLH 62 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---------------DT 181 P+ R Y V+ G + + L +G+ + +V L + Sbjct: 63 PTRGHERTYHVQVEGIPTAEAITRLTRGVQLPDFYTLACKVQLLEPAPLYPARVPPIRER 122 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + +W+ + L EGKNR+++++ + RLIR + G +L L Sbjct: 123 KSIPTSWLAMKLVEGKNRQVRRMTAAVGYPTLRLIRAAMGRLELARL 169 >gi|255068178|ref|ZP_05320033.1| ribosomal small subunit pseudouridine synthase A [Neisseria sicca ATCC 29256] gi|255047605|gb|EET43069.1| ribosomal small subunit pseudouridine synthase A [Neisseria sicca ATCC 29256] Length = 227 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 41/156 (26%), Positives = 71/156 (45%), Gaps = 6/156 (3%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLE--RAAVNVMSTDHIEVDGVPLRKAERTRL 75 K + GI SR++ + +I V++N + +A ++ + +DG + Sbjct: 5 KYLQSQGIGSRKQCQWLIQNDCVEINDTIRNDTKADIDPAEVQTLRIDGEDIVVVPMPYF 64 Query: 76 W-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDGGLAR 132 + L +KP T+H P +VF P + +VGRLD +T G+LL+TNDG Sbjct: 65 YILLNKPADYETSHK-PQQYPSVFSLFPDHMRNIDMQAVGRLDADTTGVLLITNDGQFNH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + P + ++YRV D LK G+++ Sbjct: 124 RVTSPKHKVPKIYRVTLKHPADDSLCETLKNGVLLH 159 >gi|167585691|ref|ZP_02378079.1| Pseudouridine synthase, Rsu [Burkholderia ubonensis Bu] Length = 192 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 44/166 (26%), Positives = 76/166 (45%), Gaps = 19/166 (11%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLELP 137 +KP G + S + R ++ D + + V + GRLD ++EGLLLLT+DG L AR+ E P Sbjct: 7 NKPFGTICQFSAHETRPSLGDWVKT--PGVYAAGRLDADSEGLLLLTDDGALQARIAE-P 63 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSN------- 186 + ++ Y + G L L +G+ + C + D N Sbjct: 64 RHKLVKRYWAQVEGAPGPADLKALARGVDLGDYVTRACRAEFIEPPDALWPRNPPIRYRA 123 Query: 187 ----AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R+ G + L Sbjct: 124 AKPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGSLDIFAL 169 >gi|325268091|ref|ZP_08134737.1| ribosomal large subunit pseudouridine synthase E [Kingella denitrificans ATCC 33394] gi|324980476|gb|EGC16142.1| ribosomal large subunit pseudouridine synthase E [Kingella denitrificans ATCC 33394] Length = 184 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 47/179 (26%), Positives = 82/179 (45%), Gaps = 23/179 (12%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS 138 +KP G++ S + ++ D +P V GRLD ++EGLLLLT+DG + P Sbjct: 6 NKPYGVICQFSPHEKHRSLKDFVP--VPNVYPAGRLDTDSEGLLLLTDDGRQQARIANPR 63 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGS------------ 185 + + Y + G D ++L LL++ + + ++ LD + + Sbjct: 64 FKLTKTYWAQLEGSPDDERLALLQRPLDLGDFVAQPARIRLLDEHETARIWQRDPPIRVR 123 Query: 186 ----NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP---FQLGTLLAGSTREVS 237 + W+ + + EGKNR+++++ + RLIR+ G F LG L G RE Sbjct: 124 KSVPDFWLQIQICEGKNRQVRRMTAKAGYPCLRLIRVGIGRVNLFDLGIEL-GQWRECP 181 >gi|126659424|ref|ZP_01730558.1| Pseudouridine synthase, Rsu [Cyanothece sp. CCY0110] gi|126619260|gb|EAZ89995.1| Pseudouridine synthase, Rsu [Cyanothece sp. CCY0110] Length = 208 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 49/166 (29%), Positives = 80/166 (48%), Gaps = 25/166 (15%) Query: 77 LYHKPIGLVTTHSD----PDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L++KP ++ +D + R T+ D +P ++S VGRLD ++EGLL LTN+ L Sbjct: 10 LFNKPYNVLCQFTDNSNLENPRPTLKDYIKVPDVYS----VGRLDKDSEGLLFLTNNAQL 65 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDT-------- 181 L R Y V+ DQ LN L++G+ I+ +V LD+ Sbjct: 66 KHRLSHRQFAHPRTYLVQVERIPDQVALNQLRQGVRIKDYKTRPAKVKLLDSPPSVPPRD 125 Query: 182 ------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + AW+ + L EG+NR+++++ + RLIRI+ G Sbjct: 126 PPIRYRKTVPTAWLEMTLTEGRNRQVRRMTAAVGYPTLRLIRIAIG 171 >gi|269468805|gb|EEZ80409.1| 16S rRNA uridine-516 pseudouridylate synthase [uncultured SUP05 cluster bacterium] Length = 174 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 40/170 (23%), Positives = 78/170 (45%), Gaps = 19/170 (11%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP G++ S + + ++ +I+ GRLD ++EGL++LT+DG L + Sbjct: 4 LFNKPFGVLCQFSGEGKTLSDYIDIKNIYP----AGRLDKDSEGLIVLTDDGKLQHQISH 59 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--------------- 181 P + Y V+ G + + + L +G+ ++ + + T Sbjct: 60 PKFDKEKTYVVQVEGSITDNAITQLCRGVALKDGMTKPAKAKIITKPSWVWDRIPPIRKR 119 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 Q +W+ + + EGKNR+++++ + RLIR G + L L G Sbjct: 120 QNIPTSWIELSITEGKNRQVRRMSAHVGFPTLRLIRTEIGSWSLKRLPLG 169 >gi|261365024|ref|ZP_05977907.1| ribosomal small subunit pseudouridine synthase A [Neisseria mucosa ATCC 25996] gi|288566613|gb|EFC88173.1| ribosomal small subunit pseudouridine synthase A [Neisseria mucosa ATCC 25996] Length = 227 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 52/222 (23%), Positives = 96/222 (43%), Gaps = 14/222 (6%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLE--RAAVNVMSTDHIEVDGVPLRKAERTRL 75 K + GI SR++ + +I V++N + +A ++ + +DG + Sbjct: 5 KYLQSQGIGSRKQCQWLIQNDCVEINDTVRNDTKADIDPAEVQTLRIDGEDIVVVPMPYF 64 Query: 76 W-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--SVGRLDINTEGLLLLTNDGGLAR 132 + L +KP T+H P +VF P + +VGRLD +T G+LL+TNDG Sbjct: 65 YILLNKPADYETSHK-PQQYPSVFSLFPDHMRNIDMQAVGRLDADTTGVLLITNDGQFNH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---SNAWV 189 + P + ++YRV D LK G+++ D T+ + + + Sbjct: 124 RVTSPKHKVPKIYRVTLKHPADDSLCETLKNGVLLH-----DDNETVHAAEAVLENPTTL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + EGK ++K++ +V L R + + L +G Sbjct: 179 LMTITEGKYHQVKRMVAAAGNRVEHLHRDEFNGRTVENLASG 220 >gi|221211463|ref|ZP_03584442.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Burkholderia multivorans CGD1] gi|221168824|gb|EEE01292.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Burkholderia multivorans CGD1] Length = 192 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 45/166 (27%), Positives = 76/166 (45%), Gaps = 19/166 (11%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLELP 137 +KP G + S + R ++ D + + V GRLD ++EGLLLLT+DG L AR+ E P Sbjct: 7 NKPFGTICQFSAHETRPSLGDWVKT--PGVYPAGRLDADSEGLLLLTDDGALQARIAE-P 63 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSNA------ 187 + ++ Y + G L L +G+ + C + +T N Sbjct: 64 RHKLVKRYWAQVEGAPGPADLKALARGVDLGDYVSRPCRAEFIEPPETLWPRNPPIRYRA 123 Query: 188 -----WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 WV + + EGKNR+++++ + RL+R+ G + L Sbjct: 124 AIPTTWVELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFAL 169 >gi|163788440|ref|ZP_02182886.1| RNA pseudouridine synthase family protein [Flavobacteriales bacterium ALC-1] gi|159876760|gb|EDP70818.1| RNA pseudouridine synthase family protein [Flavobacteriales bacterium ALC-1] Length = 186 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 43/167 (25%), Positives = 78/167 (46%), Gaps = 22/167 (13%) Query: 79 HKPIGLVT---THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +KP G ++ H + + L + V++VGRLD +EGLLLLT DG + + Sbjct: 9 YKPYGYLSQFINHQNKRRNKKLLSELYTFSDNVMAVGRLDEKSEGLLLLTTDGKFSNYI- 67 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKG--IVIQGICYGDMQVTL-------------- 179 S++ + Y V G + ++ + L+ G I ++G Y Sbjct: 68 -TSSKIEKEYHVMVDGVITEEAVLKLQNGVEISVEGKPYKTKNCKAKILRDTSHIVERFV 126 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 D + G +W+++ L EGK R+++K+ + RL+R+ G ++L Sbjct: 127 RDERHGITSWLSITLAEGKFRQVRKMTAKVGFPTLRLVRVRIGDYKL 173 >gi|254251646|ref|ZP_04944964.1| Pseudouridine synthase [Burkholderia dolosa AUO158] gi|124894255|gb|EAY68135.1| Pseudouridine synthase [Burkholderia dolosa AUO158] Length = 238 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 63/222 (28%), Positives = 95/222 (42%), Gaps = 9/222 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--EVDGVPLRKAERT 73 + ++ G SRR+ +I RV V G TD + VDG R Sbjct: 3 LESILYTQGFGSRRQCRGLIEAGRVAVGGATATDPD-TAFDTDGLVFTVDGTAWPFHARA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L +KP G + DP ++VF LP+ + V VGRLD +T GLLLL++DG Sbjct: 62 YLTL-NKPAGYECS-RDPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLSDDGQFV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 P + + Y + +L+ L+ G+ + G V D + +TV Sbjct: 120 HAYTSPKRKVPKTYVATVRHPLSDTQLHTLRTGVQLHGEPKPIAAVAADARDAHTLVLTV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 EGK ++K++ + +V+ L R S G L LA T Sbjct: 180 --VEGKYHQVKRMVAAVSNRVDALHRESIGGLTLPDNLAPGT 219 >gi|134296698|ref|YP_001120433.1| pseudouridine synthase [Burkholderia vietnamiensis G4] gi|134139855|gb|ABO55598.1| pseudouridine synthase [Burkholderia vietnamiensis G4] Length = 192 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 47/180 (26%), Positives = 82/180 (45%), Gaps = 23/180 (12%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLELP 137 +KP G + S + R ++ D + + V + GRLD ++EGLLLLT+DG L AR+ E P Sbjct: 7 NKPFGTICQFSAHETRPSLGDWVKT--PGVYAAGRLDADSEGLLLLTDDGALQARIAE-P 63 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS------------ 185 + ++ Y + G D L L +G+ + + + Sbjct: 64 RHKLVKRYWAQVDGAPDAADLKALARGVDLGDYVTRPCRAEFIEPPAALWPRTPPIRYRA 123 Query: 186 ---NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP---FQLGTLLAGSTREVSKK 239 W+ + + EGKNR+++++ + RL+R+ G F LG + G T E+ + Sbjct: 124 AIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGVLDIFALG-IAPGETIELPPR 182 >gi|26247383|ref|NP_753423.1| hypothetical protein c1514 [Escherichia coli CFT073] gi|26107784|gb|AAN79983.1|AE016759_257 Hypothetical protein c1514 [Escherichia coli CFT073] Length = 118 Score = 57.8 bits (138), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 32/91 (35%), Positives = 52/91 (57%), Gaps = 2/91 (2%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L L Sbjct: 3 LFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQARLTQ 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 P + ++Y V+ G QD L L+ G+ + Sbjct: 61 PGKRTGKIYYVQVEGIPTQDALEALRNGVTL 91 >gi|212636851|ref|YP_002313376.1| ribosomal small subunit pseudouridine synthase A [Shewanella piezotolerans WP3] gi|212558335|gb|ACJ30789.1| Ribosomal small subunit pseudouridine synthase A, putative [Shewanella piezotolerans WP3] Length = 228 Score = 57.8 bits (138), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 56/224 (25%), Positives = 94/224 (41%), Gaps = 19/224 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + ++ +R ++A V VNG ++ A V + + G L A +R Sbjct: 2 RLDKFLCKSTKLTRSAATEVLALGEVSVNGSIVTEARFQVHENNSVLWRGERL-IARPSR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS--------VGRLDINTEGLLLLTN 126 + HKP+ ++++ D D PS+F + VGRLD +T GL+LLT+ Sbjct: 61 YIMLHKPLNTLSSNVDGD--------YPSLFHCIDIERAEDLHIVGRLDADTSGLVLLTD 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + P + YRV + D G+ +Q L Sbjct: 113 DGRWSFEIIRPDKLCPKTYRVTLRDPIAADVAEKFNVGVQLQNESKLTAPAMLKVINERE 172 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +T+ EG+ ++K++F +VN L R G QL +L Sbjct: 173 VLLTI--TEGRYHQVKRMFAAVGNRVNGLHREQIGDLQLDVVLG 214 >gi|120610961|ref|YP_970639.1| ribosomal large subunit pseudouridine synthase E [Acidovorax citrulli AAC00-1] gi|120589425|gb|ABM32865.1| ribosomal large subunit pseudouridine synthase E [Acidovorax citrulli AAC00-1] Length = 219 Score = 57.8 bits (138), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 57/189 (30%), Positives = 93/189 (49%), Gaps = 23/189 (12%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRS---TVFDNLPSIFSRVISVGRLDINTEGLL 122 P+ +A +RL +HKP G+++ + P+GR F +LP ++ GRLD ++EGLL Sbjct: 20 PVERAGPSRLLRFHKPYGVLSQFT-PEGRWRGLKDFIDLPGVY----VAGRLDADSEGLL 74 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT 181 LLT+DGGL + P + + Y V+ G D L L++G+ + G LD Sbjct: 75 LLTDDGGLQARIADPRFKMEKTYWVQVEGVPDAAALQALERGVQLNDGPTLPARARRLDV 134 Query: 182 --------------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 Q + W+ + +REG+NR+++++ RL+R + GPF L Sbjct: 135 PPPVGEREPPIRVRQHIPDTWIELVIREGRNRQVRRMTAAVGHPTLRLVRAAIGPFALDG 194 Query: 228 LLAGSTREV 236 L G+ E Sbjct: 195 LAPGTWAEA 203 >gi|91787681|ref|YP_548633.1| ribosomal small subunit pseudouridine synthase A [Polaromonas sp. JS666] gi|91696906|gb|ABE43735.1| ribosomal small subunit pseudouridine synthase A [Polaromonas sp. JS666] Length = 239 Score = 57.8 bits (138), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 59/230 (25%), Positives = 92/230 (40%), Gaps = 33/230 (14%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERT 73 ++ ++ G +RR +I Q V V GI A+ ++ D V GV E+ Sbjct: 2 QLQDILFSQGFGTRRVCAGLIQQGFVAVAGIPCTEPAMEFVAEDLRFTVQGVAWEYHEKA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG--------RLDINTEGLLLLT 125 L L HKP G + P +++ LPS + RLD +T GLLLL+ Sbjct: 62 YLML-HKPAGYECSQK-PSTYPSIYTLLPSPIRQRGGGAAAGVQAVGRLDQDTTGLLLLS 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--------GIC--YGDM 175 +DG + P +VY V VD ++ L G+V+ C G++ Sbjct: 120 DDGKFIHRMSSPRHHVPKVYEVTAKHAVDDRQVQKLLAGVVLDDDPKPVRAAACEKTGEL 179 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 Q++L L EGK ++K++ +V L R G L Sbjct: 180 QLSLT------------LTEGKYHQVKRMIAAVGNRVEDLHRSQLGGLML 217 >gi|323253055|gb|EGA36888.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008282] Length = 171 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 42/167 (25%), Positives = 77/167 (46%), Gaps = 3/167 (1%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 1 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + D+ + + V + + Sbjct: 61 ITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHN--EKDLTKPATLEVITPVQVRLTI 118 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 EG+ ++K++F +V L R G L LA G R ++++ Sbjct: 119 SEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEE 165 >gi|307946012|ref|ZP_07661347.1| ribosomal small subunit pseudouridine synthase A [Roseibium sp. TrichSKD4] gi|307769676|gb|EFO28902.1| ribosomal small subunit pseudouridine synthase A [Roseibium sp. TrichSKD4] Length = 233 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 64/234 (27%), Positives = 100/234 (42%), Gaps = 29/234 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-----DHIEVDGVPLRK 69 R+ K+IA G SR+E++ I NG + +R + +T + I D PL Sbjct: 2 RLVKLIANLGYGSRKEIQTAIK------NGWVTDRDGNTLKATSQTPHEDILFDDEPLDP 55 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLT 125 A L + +KP+G T S D V+D LP + + ++GRLD T GLLL T Sbjct: 56 APGMVLAM-NKPLGY--TCSTNDQGKLVYDLLPDRYRMRKPVLSTIGRLDKETSGLLLFT 112 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLD 180 +DG + P +VY V + ++ L G ++ + + ++V D Sbjct: 113 DDGTFLHKVISPKANVGKVYEVTLDRPMKGNETALFASGEMMLESEDKPLKPAMLEVLDD 172 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 T V L EG+ +++++F V L R G LG L G R Sbjct: 173 TH------ARVILHEGRYHQVRRMFAATGNHVTNLSRTQIGGLSLGCLEDGQWR 220 >gi|11967881|emb|CAC19451.1| hypothetical pseudouridine synthase [Streptococcus pneumoniae] Length = 75 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 29/73 (39%), Positives = 47/73 (64%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E+ Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPIYNEEKV- 60 Query: 75 LWLYHKPIGLVTT 87 +L +KP G++++ Sbjct: 61 YYLLNKPRGVISS 73 >gi|90577330|ref|ZP_01233141.1| hypothetical ribosomal small subunit pseudouridine synthase A [Vibrio angustum S14] gi|90440416|gb|EAS65596.1| hypothetical ribosomal small subunit pseudouridine synthase A [Vibrio angustum S14] Length = 231 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 55/219 (25%), Positives = 97/219 (44%), Gaps = 19/219 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I ++ ++ E I + VN ++ A V ++ + +DG L A R Sbjct: 2 RLDKFICKSTQLTKAEAIERIHDGDISVNDAVIINEATQVHESNTVIMDGKRL-IAREFR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--------SRVISVGRLDINTEGLLLLTN 126 L HKP G + ++ D + PS+F + + GRLD +T G++L+T+ Sbjct: 61 YILMHKPAGTICSNID--------EVYPSLFNYLDIENTAELHIAGRLDADTTGMVLITD 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + P+ + +VYRV ++ D K GI +QG L Sbjct: 113 NGRWSFNITSPNQKCSKVYRVGLSREIAADVAEKFKAGIKLQGEQKLTAPALLTVISAKE 172 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +T+ EGK ++K++F +V L R + G +L Sbjct: 173 VLLTI--TEGKFHQVKRMFAAVGNRVVSLHREAIGEVRL 209 >gi|172061486|ref|YP_001809138.1| pseudouridine synthase [Burkholderia ambifaria MC40-6] gi|171994003|gb|ACB64922.1| pseudouridine synthase [Burkholderia ambifaria MC40-6] Length = 192 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 44/168 (26%), Positives = 75/168 (44%), Gaps = 23/168 (13%) Query: 79 HKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLE 135 +KP G + S + R ++ D P ++ GRLD ++EGLLLLT+DG L AR+ E Sbjct: 7 NKPFGTICQFSAHETRPSLGDWVKTPGVYP----AGRLDADSEGLLLLTDDGALQARIAE 62 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSNA---- 187 P + ++ Y + G L L +G+ + C + D N Sbjct: 63 -PRHKLVKRYWAQVDGAPGPADLKALARGVDLGDCVTRPCRAEFIEPPDALWPRNPPIRY 121 Query: 188 -------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R+ G + L Sbjct: 122 RAAIPTTWIELAITEGKNRQVRRMTAAIGFPTLRLVRVGIGALDIFAL 169 >gi|241662940|ref|YP_002981300.1| RNA-binding S4 domain-containing protein [Ralstonia pickettii 12D] gi|240864967|gb|ACS62628.1| RNA-binding S4 domain protein [Ralstonia pickettii 12D] Length = 627 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 70/249 (28%), Positives = 110/249 (44%), Gaps = 34/249 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKAERT 73 R+SK ++ G+ SRRE + I + V V+G + V IE+ + ER Sbjct: 376 RLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVKPDAIIEIHQSARSEQGERV 435 Query: 74 RLWLYHKPIGLVTTHSDP---------------DGRSTVFDNLPSIFSRVISVGRLDINT 118 + L HKP+G V+ ++ +G T P + GRLDI++ Sbjct: 436 TV-LMHKPVGYVSGQAEDGYQPAVSLFVPENQWEGDPTRKRFAPWQRRALAPAGRLDIDS 494 Query: 119 EGLLLLTNDGGLARVL--ELPSTQWLRVYRVRFH---GQVDQD--------KLNLLKKGI 165 GLL+LT DG +AR L E + + + RV +H G V+ D + L+ G+ Sbjct: 495 TGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWHSPDGVVEHDISKVFPEELMEKLRFGL 554 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G +V+ ++ + LREGK R+I+++ E +V L RI G L Sbjct: 555 SLDGEALKPAKVSWQNEE----QLRFVLREGKKRQIRRMCEQVGLEVVGLKRIRMGSIVL 610 Query: 226 GTLLAGSTR 234 G L G R Sbjct: 611 GDLPVGQWR 619 >gi|226943478|ref|YP_002798551.1| Pseudouridine synthase, Rsu A [Azotobacter vinelandii DJ] gi|226718405|gb|ACO77576.1| Pseudouridine synthase, Rsu A [Azotobacter vinelandii DJ] Length = 230 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 61/212 (28%), Positives = 101/212 (47%), Gaps = 4/212 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + + +RR ++A RV+V+G ++ + IEVDG L+ Sbjct: 2 RLDRFLGNLPDFNRRNSRLLLASGRVRVDGQVVRDGCSEIREFSRIEVDGRILQPGRAAL 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 ++ HKP G+V+ R TV D L + + + GRLD+ T GLLLLTNDG +R Sbjct: 62 YFMLHKPAGVVSATRHERHR-TVLDLLDEPDRQGLHLAGRLDLGTTGLLLLTNDGHWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + +VY V + ++ + +G+ L+ +A +T L Sbjct: 121 ITHPRYKLAKVYYVETAEPIGEEYIETFARGLYFAFEDLVTQPAHLELLGSHSARLT--L 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EG+ ++K++F +F V RL R S GP +L Sbjct: 179 FEGRYHQVKRMFGYFRNPVLRLHRESMGPLRL 210 >gi|328544686|ref|YP_004304795.1| 16S rRNA uridine-516 pseudouridylate synthase-related pseudouridylate synthase [polymorphum gilvum SL003B-26A1] gi|326414428|gb|ADZ71491.1| 16S rRNA uridine-516 pseudouridylate synthase-related pseudouridylate synthase [Polymorphum gilvum SL003B-26A1] Length = 243 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 66/244 (27%), Positives = 109/244 (44%), Gaps = 21/244 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS---TDHIEV--DGVPLR 68 R+ +++A G +R+EV I NG + +RA + + T H ++ D PL Sbjct: 1 MRLVRLLANLGYGTRKEVALAIR------NGWVTDRAGRPLTADARTPHEDILFDDEPLD 54 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINTEGLLLL 124 A L L +KP+G + D GR V+D LP F + +VGRLD +T G LL Sbjct: 55 PAPGMVL-LLNKPVGYTCSTKD-RGR-LVYDLLPDRFRLRKPVLSTVGRLDRDTSGALLF 111 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQK 183 T+DG L + P ++ +VY + D+ G +++ G L+ Sbjct: 112 TDDGVLLHRIIAPKSEVPKVYEAELDRPLKGDEAAQFASGTLMLDGEDKPLKPAELEVLG 171 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 A +T L EG+ +++++F V L RI G L L G+ R + ++ + + Sbjct: 172 ERRARLT--LHEGRYHQVRRMFAATGNHVTALARIRIGALTLDGLAEGTWRLLDERDVAK 229 Query: 244 QLGP 247 P Sbjct: 230 IFAP 233 >gi|291545735|emb|CBL18843.1| pseudouridine synthase family [Ruminococcus sp. SR1/5] Length = 610 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 43/142 (30%), Positives = 73/142 (51%), Gaps = 7/142 (4%) Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 R+ +GRLD ++EGLLLLTN+G L + + Y+V + V ++ + + G+ Sbjct: 12 RIYPIGRLDKDSEGLLLLTNEGDLVNRIMKAGNYHEKEYQVTVNKPVTEEFIRGMGGGVP 71 Query: 167 IQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 I +V T+ G N++ + L +G NR+I+++ E+F +KV L R+ + Sbjct: 72 ILDTVTRPCKV---TKTGKNSFRII-LTQGLNRQIRRMCEYFGYKVVTLKRVRIMNLYID 127 Query: 227 TLLAGSTREV---SKKILREQL 245 L G RE+ +K L E L Sbjct: 128 GLEEGKYREIRPEERKELEEML 149 >gi|121593595|ref|YP_985491.1| ribosomal small subunit pseudouridine synthase A [Acidovorax sp. JS42] gi|120605675|gb|ABM41415.1| ribosomal small subunit pseudouridine synthase A [Acidovorax sp. JS42] Length = 245 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 57/227 (25%), Positives = 100/227 (44%), Gaps = 20/227 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK----- 69 ++ ++ G +RR +I Q RV ++ + +T I+V+G+ LR Sbjct: 2 QLQDILYSQGFGTRRICAGLIQQGRVAIHATGTLEPTICQDATQDIDVEGLVLRVQGVDW 61 Query: 70 AERTRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---------VISVGRLDINTE 119 + R + + HKP G + P +++ LP+ + V +VGRLD +T Sbjct: 62 PYQPRAYVMLHKPAGTECSQK-PSAYPSIYTLLPAPLRQRPSKGSVDGVQAVGRLDQDTT 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLL++DG + P +VYRV V +++++ L +G+V+ V Sbjct: 121 GLLLLSDDGQFIHRMSSPKKHVPKVYRVTAKHPVTKEQIDRLLEGVVLDD---DPRPVRA 177 Query: 180 DTQKGSNAWV-TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +A V + L EGK ++K++ +V L R G L Sbjct: 178 AACALVDAHVLDLTLTEGKYHQVKRMIAAVGNRVEALHRSHIGRLAL 224 >gi|78213500|ref|YP_382279.1| pseudouridine synthase, Rsu [Synechococcus sp. CC9605] gi|78197959|gb|ABB35724.1| Pseudouridine synthase, Rsu [Synechococcus sp. CC9605] Length = 230 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 53/204 (25%), Positives = 93/204 (45%), Gaps = 34/204 (16%) Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRS----TVFDNLPSIFSRVISVGRLDIN 117 G +A+ T L L +KP G+++ + +G + F ++P +++ GRLD + Sbjct: 6 CGGCAKTQADLTTL-LLNKPYGVLSQFTSEEGSRWRCLSDFVDVPQVYA----AGRLDAD 60 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-------- 169 +EGLL+LT++G L + L P R Y + G + ++L L G+V+QG Sbjct: 61 SEGLLILTSNGRLQQRLTDPRFGHWRSYWAQVEGTPNTEQLQQLCDGVVVQGRRTLPAKA 120 Query: 170 --ICYGDM--------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 + D+ Q+ +N W+ + L EG+NR+++++ RL+R Sbjct: 121 RWLQGQDLPQLPERTPQIRFRAAIPTN-WLQLSLSEGRNRQVRRMTAAVGLPTLRLVRCC 179 Query: 220 YG------PFQLGTLLAGSTREVS 237 P L L GS R V+ Sbjct: 180 IDLMDNGPPLDLTGLQPGSWRTVT 203 >gi|56696990|ref|YP_167352.1| RNA pseudouridylate synthase [Ruegeria pomeroyi DSS-3] gi|56678727|gb|AAV95393.1| RNA pseudouridylate synthase [Ruegeria pomeroyi DSS-3] Length = 200 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 44/175 (25%), Positives = 82/175 (46%), Gaps = 25/175 (14%) Query: 78 YHKPIGLVTTHSD----PDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++KP +++ +D R+T+ D +LP ++ GRLD ++EGL+LLT+ G L Sbjct: 7 FNKPYDVLSQFTDRGSADSPRATLSDHIDLPGVYP----AGRLDRDSEGLMLLTDVGRLQ 62 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG------ 184 + P + + Y V+ G D L L +G+ ++ G+ + G Sbjct: 63 ARIADPRHKLAKTYWVQVEGVPDAAALRALAEGVELKDGLTRPARARAMPEPPGLWPRNP 122 Query: 185 --------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 ++W+ + +REG+NR+++++ RLIR G + L L+ G Sbjct: 123 PIRERKSVPDSWIELTIREGRNRQVRRMTAAVGHPTLRLIRARIGDWTLDGLVPG 177 >gi|189351290|ref|YP_001946918.1| ribosomal large subunit pseudouridine synthase E [Burkholderia multivorans ATCC 17616] gi|189335312|dbj|BAG44382.1| ribosomal large subunit pseudouridine synthase E [Burkholderia multivorans ATCC 17616] Length = 192 Score = 57.4 bits (137), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 44/168 (26%), Positives = 76/168 (45%), Gaps = 23/168 (13%) Query: 79 HKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLE 135 +KP G + S + R ++ D P ++ GRLD ++EGLLLLT+DG L AR+ E Sbjct: 7 NKPFGTICQFSAHETRPSLGDWVKTPGVYP----AGRLDADSEGLLLLTDDGALQARIAE 62 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSNA---- 187 P + ++ Y + G L L +G+ + C + +T N Sbjct: 63 -PRHKLVKRYWAQVEGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPETLWPRNPPIRY 121 Query: 188 -------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R+ G + L Sbjct: 122 RAAIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGSLDIFAL 169 >gi|221199240|ref|ZP_03572284.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Burkholderia multivorans CGD2M] gi|221205858|ref|ZP_03578873.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Burkholderia multivorans CGD2] gi|221174696|gb|EEE07128.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Burkholderia multivorans CGD2] gi|221180525|gb|EEE12928.1| ribosomal large subunit pseudouridine synthase E (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) [Burkholderia multivorans CGD2M] Length = 192 Score = 57.4 bits (137), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 44/166 (26%), Positives = 76/166 (45%), Gaps = 19/166 (11%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLELP 137 +KP G + S + R ++ D + + V GRLD ++EGLLLLT+DG L AR+ E P Sbjct: 7 NKPFGTICQFSAHETRPSLGDWVKA--PGVYPAGRLDADSEGLLLLTDDGALQARIAE-P 63 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSNA------ 187 + ++ Y + G L L +G+ + C + +T N Sbjct: 64 RHKLVKRYWAQVEGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPETLWPRNPPIRYRA 123 Query: 188 -----WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R+ G + L Sbjct: 124 AIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFAL 169 >gi|309782139|ref|ZP_07676869.1| ribosomal large subunit pseudouridine synthase F [Ralstonia sp. 5_7_47FAA] gi|308919205|gb|EFP64872.1| ribosomal large subunit pseudouridine synthase F [Ralstonia sp. 5_7_47FAA] Length = 613 Score = 57.0 bits (136), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 70/249 (28%), Positives = 110/249 (44%), Gaps = 34/249 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKAERT 73 R+SK ++ G+ SRRE + I + V V+G + V IE+ + ER Sbjct: 362 RLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVKPDAIIEIHQSARSEQGERV 421 Query: 74 RLWLYHKPIGLVTTHSDP---------------DGRSTVFDNLPSIFSRVISVGRLDINT 118 + L HKP+G V+ ++ +G T P + GRLDI++ Sbjct: 422 TV-LMHKPVGYVSGQAEDGYQPAVSLFVPENQWEGDPTRKRFAPWQRRALAPAGRLDIDS 480 Query: 119 EGLLLLTNDGGLARVL--ELPSTQWLRVYRVRFH---GQVDQD--------KLNLLKKGI 165 GLL+LT DG +AR L E + + + RV +H G V+ D + L+ G+ Sbjct: 481 TGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWHSPDGVVEHDISKVFPEELMEKLRFGL 540 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G +V+ ++ + LREGK R+I+++ E +V L RI G L Sbjct: 541 SLDGEALKPAKVSWQNEE----QLRFVLREGKKRQIRRMCEQVGLEVVGLKRIRMGSIVL 596 Query: 226 GTLLAGSTR 234 G L G R Sbjct: 597 GDLPVGQWR 605 >gi|303286639|ref|XP_003062609.1| pseudouridylate synthase [Micromonas pusilla CCMP1545] gi|226456126|gb|EEH53428.1| pseudouridylate synthase [Micromonas pusilla CCMP1545] Length = 386 Score = 57.0 bits (136), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 73/262 (27%), Positives = 117/262 (44%), Gaps = 43/262 (16%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG---------------------------IL 46 QRVSK++++ G+ASRRE E +I + V VNG L Sbjct: 92 QRVSKLMSQRGMASRREAEALIDRGDVIVNGGEVATRGMKVAIDATIDIAGDSDGGANAL 151 Query: 47 LERAAVNVMSTDHIEVDGVPLRKAERT-------RLWLYHKPIGLVTTHSDPDGRSTVFD 99 L + V++ V +P R ER R +YH G D + Sbjct: 152 LAKKVTVVLNKPPGYVSNLPSR-GEREASELITPRNAIYHHSTGGGVVGGGADADAATRR 210 Query: 100 NLPSIF--SRVISV-GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 L + +R ++V GRLD ++ GLL+LT DG LAR + + + +VY V ++ Sbjct: 211 KLEDVCRDARALNVCGRLDKDSRGLLVLTTDGVLARAI-VGGNEIPKVYEVVVDAIATRE 269 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 +L L + + G M+V +T +G+ + LR+GK R+I+++ E +V L Sbjct: 270 QLAALNGPVALDGERLLPMRV--ETLEGTT--LRFELRQGKKRQIRRLCEGLALRVLDLR 325 Query: 217 RISYGPFQLGTLLAGSTREVSK 238 R+ G +G L G R +S+ Sbjct: 326 RVHVGTCDVGDLPEGRWRLMSE 347 >gi|260220876|emb|CBA28881.1| hypothetical protein Csp_A09350 [Curvibacter putative symbiont of Hydra magnipapillata] Length = 201 Score = 57.0 bits (136), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 48/170 (28%), Positives = 76/170 (44%), Gaps = 19/170 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKV-------NGILLERAAVNVMSTD-HIEVDGVP 66 ++ +++ G +RR +I Q V+V + + +AA ++ V GV Sbjct: 2 QLQEILYTQGFGTRRVCAGLIQQGLVQVYMPNEGPAPVTIAQAATEFVAEGLRFRVQGVD 61 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---------SRVISVGRLDIN 117 AER L L HKP G + P +++ LPS V +VGRLD + Sbjct: 62 WPYAERAYLML-HKPAGTECSQK-PSTYPSIYTLLPSPLRLRPQKAAVQGVQAVGRLDQD 119 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 T G+LLLT+DG + P +VY V +D ++N L G+V+ Sbjct: 120 TTGMLLLTDDGKFIHRMSSPKHHVPKVYEVTVKHPLDDKQVNKLLSGVVL 169 >gi|225012606|ref|ZP_03703041.1| RNA-binding S4 domain protein [Flavobacteria bacterium MS024-2A] gi|225003139|gb|EEG41114.1| RNA-binding S4 domain protein [Flavobacteria bacterium MS024-2A] Length = 255 Score = 57.0 bits (136), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 64/229 (27%), Positives = 100/229 (43%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ AG+ SRRE + I V VNG ++ V TD ++ DG +++ Sbjct: 24 RLNKFLSNAGLCSRREADSHIEMGLVHVNGKIITEMGYQVKPTDEVKFDGARVQQTPPVY 83 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L +KP G V T +V D + S + + V +VG + GLL TND L + Sbjct: 84 LLL-NKPKGFVATSQGGKIVKSVQDLIRSAVKTPVPAVGDMGRPMTGLLFFTNDEVLRKK 142 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK---GSNAWVT 190 L S +Y+V V D + LK+G ++ + MQ + S V Sbjct: 143 LN-NSKSIPMIYQVLLDKNVTTDMMRQLKEGQMV----FEKMQKINEVSHMDGKSKKEVG 197 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + I K+F KV L RI+Y L G+ R ++ K Sbjct: 198 IEVHSLSPAIIVKLFAAVGCKVVLLDRITYAGLTKKELPRGNWRRLNTK 246 >gi|146297843|ref|YP_001192434.1| pseudouridine synthase [Flavobacterium johnsoniae UW101] gi|146152261|gb|ABQ03115.1| pseudouridine synthase [Flavobacterium johnsoniae UW101] Length = 190 Score = 57.0 bits (136), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 42/148 (28%), Positives = 73/148 (49%), Gaps = 21/148 (14%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI- 167 +++GRLD ++EGLLLLT DG ++ ++ S + + Y V+ G + + + L+KG+ I Sbjct: 39 MAIGRLDEDSEGLLLLTTDGKVSE--QIRSKKVDKEYYVQVDGIITPEAIEKLQKGVEIG 96 Query: 168 -QGICYGDMQVTL-----------------DTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 +G Y T D + G +W ++ + EGK R+++K+ Sbjct: 97 FEGGKYKTKPCTAFIVTEIPDFGPRAKKIRDERHGPTSWASITVNEGKFRQVRKMTAAVG 156 Query: 210 WKVNRLIRISYGPFQLGTLLAGSTREVS 237 + RL+R+ G L L AG EV+ Sbjct: 157 FPTLRLVRVRIGNVYLQNLKAGEVLEVN 184 >gi|115352624|ref|YP_774463.1| pseudouridine synthase, Rsu [Burkholderia ambifaria AMMD] gi|115282612|gb|ABI88129.1| Pseudouridine synthase, Rsu [Burkholderia ambifaria AMMD] Length = 192 Score = 57.0 bits (136), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 44/166 (26%), Positives = 75/166 (45%), Gaps = 19/166 (11%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLELP 137 +KP G + S + R ++ D + + V GRLD ++EGLLLLT+DG L AR+ E P Sbjct: 7 NKPFGTICQFSAHETRPSLGDWVKT--PGVYPAGRLDADSEGLLLLTDDGALQARIAE-P 63 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSNA------ 187 + ++ Y + G L L +G+ + C + D N Sbjct: 64 RHKLVKRYWAQVDGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPDALWPRNPPIRYRA 123 Query: 188 -----WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R+ G + L Sbjct: 124 AIPTTWIELAITEGKNRQVRRMTAAIGFPTLRLVRVGIGALDIFAL 169 >gi|145309058|gb|ABP57738.1| 16S rRNA pseudouridine synthase [Chromobacterium violaceum] Length = 150 Score = 57.0 bits (136), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 33/103 (32%), Positives = 57/103 (55%), Gaps = 8/103 (7%) Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 +T G LA + PS + R Y VR G++ + + + G+ ++ G+ + QK Sbjct: 1 ITTSGELANRMMHPSFEVEREYSVRVLGELTPEIMKQMVAGVELED---GEARFDRVFQK 57 Query: 184 G-----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 G +N W V ++EG+NRE++++FE F V+RLIR+ +G Sbjct: 58 GGPEEAANQWFNVVIKEGRNREVRRMFEHFGLTVSRLIRVRFG 100 >gi|149928218|ref|ZP_01916462.1| pseudouridine synthase, Rsu [Limnobacter sp. MED105] gi|149823024|gb|EDM82265.1| pseudouridine synthase, Rsu [Limnobacter sp. MED105] Length = 214 Score = 56.6 bits (135), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 55/204 (26%), Positives = 97/204 (47%), Gaps = 17/204 (8%) Query: 43 NGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 +GI ++ + D + +DG + + + L HKP G T+H P +VFD LP Sbjct: 4 DGIQIDPEIDEISLGDTLLIDGKSF-EITQYKYVLMHKPAGYETSHL-PSHNPSVFDLLP 61 Query: 103 SIFSR--VISVGRLDINTEGLLLLTNDGGLARVL---ELPSTQWL-RVYRVRFHGQVDQD 156 + + + + GRLD++T GLLL ++DG L ++ + Q + ++Y V Sbjct: 62 KHYIKRGLQAAGRLDVDTTGLLLFSDDGQFIHRLISGKVGTKQEIEKIYEVTGARPFSDL 121 Query: 157 KLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +L L +G+ + I Y L ++ + +G+ GK ++K++ V+ Sbjct: 122 QLQRLLEGVDLDDEPEIIYASRATLL-----ADGRLELGITTGKYHQVKRMVAAVGNHVD 176 Query: 214 RLIRISYGPFQL-GTLLAGSTREV 236 L R S GP++L L AGS E+ Sbjct: 177 GLHRRSVGPYELPADLAAGSYIEI 200 >gi|70936161|ref|XP_739065.1| hypothetical protein [Plasmodium chabaudi chabaudi] gi|56515775|emb|CAH84527.1| hypothetical protein PC301089.00.0 [Plasmodium chabaudi chabaudi] Length = 189 Score = 56.6 bits (135), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 31/118 (26%), Positives = 58/118 (49%) Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 +I V LD + EG++LLTNDG A L+ + L Y ++ ++ +K+ LL+KG Sbjct: 12 HLIIVNSLDSDMEGIILLTNDGDFANKLKDINNNILTTYLIKTQEELTNEKVELLRKGCT 71 Query: 167 IQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 I I +++ + W+ + E + +F +N + + R S+GP++ Sbjct: 72 IDDIHIRPLELKIIKPNLLYKWLKLTYVEKSQTHLNLLFSKYNMTIRKCKRYSFGPYK 129 >gi|262375390|ref|ZP_06068623.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter lwoffii SH145] gi|262309644|gb|EEY90774.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter lwoffii SH145] Length = 235 Score = 56.6 bits (135), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 54/230 (23%), Positives = 98/230 (42%), Gaps = 27/230 (11%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + K++ G SR+ +++I V + +++ + + +H+ + + R ++ Sbjct: 3 LEKMLQSQGFGSRKHCQQLIKNGAVSIQDEVIDNPK-HKLDLNHLNFEVYGKSQTYREKV 61 Query: 76 WL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G +H S VFD I + VGRLD +T GLLLLT+DG + Sbjct: 62 YIALNKPQGYECSHQATHHFS-VFDLFDDILLNRGIQCVGRLDHDTTGLLLLTDDGQFLQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY+++ V +++ L++G V L +KG A V Sbjct: 121 ALTHPKKHVAKVYQMQTADPVTDEQIQQLEQG------------VELRNEKGIFAATEVA 168 Query: 193 ----------LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + +G ++K++ KV +L R G L L G Sbjct: 169 RLAENRLQMTIHQGVYHQVKRMLAAVGNKVEQLHRAQIGALALPELAEGE 218 >gi|89072330|ref|ZP_01158909.1| hypothetical ribosomal small subunit pseudouridine synthase A [Photobacterium sp. SKA34] gi|89051862|gb|EAR57314.1| hypothetical ribosomal small subunit pseudouridine synthase A [Photobacterium sp. SKA34] Length = 231 Score = 56.6 bits (135), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 59/232 (25%), Positives = 101/232 (43%), Gaps = 20/232 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I ++ ++ E I + VN ++ A V ++ + +DG L A R Sbjct: 2 RLDKFICKSTQLTKAEAIERIHAGDINVNSAVIINEATQVHESNTVIMDGKRL-IAREFR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--------SRVISVGRLDINTEGLLLLTN 126 L HKP G + ++ D + PS+F + + GRLD +T G++L+T+ Sbjct: 61 YILIHKPAGTICSNID--------EVYPSLFNYLDVDNIAELHIAGRLDADTMGMVLITD 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + P+ + +VYRV + D K GI +QG L Sbjct: 113 NGRWSFNITSPNQKCSKVYRVGLSRDITADVAEKFKAGIKLQGAQKLTAPALLTIISAKE 172 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +T+ EGK ++K++F +V L R + G L L G R ++K Sbjct: 173 VLLTI--TEGKFHQVKRMFASVGNRVVSLHREAIGEVTLD-LEVGQWRYLTK 221 >gi|187928364|ref|YP_001898851.1| RNA-binding S4 domain-containing protein [Ralstonia pickettii 12J] gi|187725254|gb|ACD26419.1| RNA-binding S4 domain protein [Ralstonia pickettii 12J] Length = 674 Score = 56.6 bits (135), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 72/250 (28%), Positives = 113/250 (45%), Gaps = 36/250 (14%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK ++ G+ SRRE + I + V V+G + V IE+ R + R Sbjct: 423 RLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVKPDAIIEIHQA-ARSEQGER 481 Query: 75 LW-LYHKPIGLVTTHSDPDGRST-----VFDN-----------LPSIFSRVISVGRLDIN 117 + L HKP+G V+ ++ DG V +N P + GRLDI+ Sbjct: 482 VTVLMHKPVGYVSGQAE-DGYQPAVSLFVPENQWEADPTRKRFAPWQRRALAPAGRLDID 540 Query: 118 TEGLLLLTNDGGLARVL--ELPSTQWLRVYRVRFH---GQVDQD--------KLNLLKKG 164 + GLL+LT DG +AR L E + + + RV +H G V++D + L+ G Sbjct: 541 STGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWHSPDGVVERDISKVFPEELMEKLRFG 600 Query: 165 IVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 + + G +V+ ++ + LREGK R+I+++ E +V L RI G Sbjct: 601 LSLDGEALKPAKVSWQNEE----QLRFVLREGKKRQIRRMCEQVGLEVVGLKRIRMGSIV 656 Query: 225 LGTLLAGSTR 234 LG L G R Sbjct: 657 LGDLPVGQWR 666 >gi|254500656|ref|ZP_05112807.1| conserved hypothetical protein [Labrenzia alexandrii DFL-11] gi|222436727|gb|EEE43406.1| conserved hypothetical protein [Labrenzia alexandrii DFL-11] Length = 232 Score = 56.2 bits (134), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 66/239 (27%), Positives = 111/239 (46%), Gaps = 26/239 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS---TDHIEV--DGVPLRK 69 R+ K++A G SR+E+++ I +G + +R + + TDH ++ D PL Sbjct: 2 RLVKLLANLGYGSRKEMQQAIR------HGWVTDRKGNQLKADAKTDHKDILFDDEPLDP 55 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLT 125 A+ + L +KP+G V + D GR V+D LP F + ++GRLD T G LL T Sbjct: 56 AQGVVI-LMNKPLGYVCSTKD-QGR-LVYDLLPDRFRMRKPVLSTIGRLDKETSGALLFT 112 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKG 184 +DG + P + +VY V ++ + L G ++++ LD Sbjct: 113 DDGTFLHQVISPKSNVPKVYEVTLDRPMNGSEAALFASGEMMLENEQKPLKPAELDVIDE 172 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 ++A +T L EG+ +++++F V L R ++GTL E KIL E Sbjct: 173 THARLT--LHEGRYHQVRRMFAATGNHVTDLAR-----SRIGTLTLEGVDEGQWKILSE 224 >gi|93005144|ref|YP_579581.1| pseudouridine synthase, Rsu [Psychrobacter cryohalolentis K5] gi|92392822|gb|ABE74097.1| ribosomal large subunit pseudouridine synthase E [Psychrobacter cryohalolentis K5] Length = 208 Score = 56.2 bits (134), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 48/188 (25%), Positives = 87/188 (46%), Gaps = 31/188 (16%) Query: 73 TRLWLYHKPIGLVTTHSDP--DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L L++KP G+ + D + +T+ + R+ GRLD +EGLL+LT+DG + Sbjct: 4 SSLILFNKPYGVQSQFRDESNNDHTTLSEYFTDKSLRI--AGRLDATSEGLLILTSDGRI 61 Query: 131 ARVLELPST---------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----------IC 171 + + P + + + Y V+ G V +L L G+V++ + Sbjct: 62 NKAITQPPSAKGFAQNKQKQGKTYLVQVEGMVTSVQLKALASGVVLKDGKTLPASAVLVD 121 Query: 172 YGDMQVTL--------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 D+ +TL + + +W+ + + EGKNR+++++ RLIR S F Sbjct: 122 EVDLPITLWEREPPIRERKNIPTSWLMLTIYEGKNRQVRRMTAHVGLPCLRLIRWSVAGF 181 Query: 224 QLGTLLAG 231 +LG L G Sbjct: 182 ELGELGVG 189 >gi|325287743|ref|YP_004263533.1| pseudouridine synthase Rsu [Cellulophaga lytica DSM 7489] gi|324323197|gb|ADY30662.1| pseudouridine synthase Rsu [Cellulophaga lytica DSM 7489] Length = 191 Score = 56.2 bits (134), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 45/184 (24%), Positives = 83/184 (45%), Gaps = 30/184 (16%) Query: 79 HKPIGLVTTHSDPDGRS------TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+++ + D + F N P ++ +GRLD +EGLLLLT DG L+ Sbjct: 12 YKPYGVLSQLASNDNNQVKKKFLSEFYNFPQ---GIMPIGRLDEKSEGLLLLTTDGKLSD 68 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVT---LDTQKG--- 184 + + + Y + G + + L+ ++KG+VI G Y ++T K Sbjct: 69 TINRAGIE--KEYYAQLDGIITNEALHKIEKGVVIGLNGTTYTTKTCIVKHIETPKNIPE 126 Query: 185 -----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 N+W+++ + EGK R+++K+ + RL+R+ L L G+ Sbjct: 127 PSTKIRLGRHRPNSWISICITEGKFRQVRKMTAAVGFPTLRLVRVRIHNITLDNLTLGAV 186 Query: 234 REVS 237 ++ Sbjct: 187 TPIN 190 >gi|3915395|sp|P72581|Y612_SYNY3 RecName: Full=Uncharacterized RNA pseudouridine synthase slr0612; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase Length = 261 Score = 56.2 bits (134), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 42/160 (26%), Positives = 74/160 (46%), Gaps = 22/160 (13%) Query: 77 LYHKPIGLVTTHSDPDG--RSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++KP G++ +D R T+ D NLP ++ VGRLD ++EGLLLLT++G L Sbjct: 43 VFYKPYGVLCQFTDNSAHPRPTLKDYINLPDLYP----VGRLDQDSEGLLLLTSNGKLQH 98 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 L R Y + G + L L++GI + T+ Sbjct: 99 RLAHREFAHQRTYFAQVEGSPTDEDLEPLRRGITFADYPTRPAIAKIITEPDFPPRNPPI 158 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 +W+++ L EG+NR+++++ + RL+R+ Sbjct: 159 RYRASIPTSWLSITLTEGRNRQVRRMTAAVGFPTLRLVRV 198 >gi|83315526|ref|XP_730831.1| pseudouridylate synthase [Plasmodium yoelii yoelii str. 17XNL] gi|23490677|gb|EAA22396.1| Predicted pseudouridylate synthase [Plasmodium yoelii yoelii] Length = 412 Score = 56.2 bits (134), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 32/122 (26%), Positives = 59/122 (48%) Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 +I V LD + EG++LLTNDG A L+ + L Y ++ ++ +K+ LL+KG Sbjct: 235 HLIIVNSLDSDMEGIILLTNDGDFANKLKDINNNILTTYLIKTQEELTNEKIELLRKGCT 294 Query: 167 IQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 I I +++ + W+ + E + +F +N + + R S+GP++ Sbjct: 295 IGDIIIRPLELKIIKPNFLYKWLKLTYVEKSQTHLNLLFSKYNMTIRKCKRYSFGPYKSS 354 Query: 227 TL 228 L Sbjct: 355 DL 356 Score = 38.9 bits (89), Expect = 1.1, Method: Compositional matrix adjust. Identities = 23/72 (31%), Positives = 40/72 (55%), Gaps = 3/72 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKV-NGILLERAAVNVMSTDHIEVDGVPLRK 69 F R+SK+++ + + SR + + +I VKV N I+ + ++V S IEV+G + Sbjct: 25 FIFLRLSKILSLSSVVSRNKAQELIRSGNVKVDNQIVKQNTVIDVNSK--IEVNGCEINV 82 Query: 70 AERTRLWLYHKP 81 T+LW +KP Sbjct: 83 DITTKLWGIYKP 94 >gi|149203717|ref|ZP_01880686.1| RNA pseudouridylate synthase [Roseovarius sp. TM1035] gi|149142834|gb|EDM30876.1| RNA pseudouridylate synthase [Roseovarius sp. TM1035] Length = 180 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 49/181 (27%), Positives = 81/181 (44%), Gaps = 24/181 (13%) Query: 74 RLWLYHKPIGLVTTHSD------PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 RL L++KP +++ +D P + F ++P RV GRLD ++EGLLLLT+D Sbjct: 3 RLILFNKPYDVLSQFTDRGSEGSPRATLSDFIDIP----RVYPAGRLDRDSEGLLLLTDD 58 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV------TLDT 181 G L + P + + Y + G D L L+ G+ + +V TL Sbjct: 59 GQLQARIANPRFKTEKTYYAQVEGLPDDTALAALRAGVTLSDGPTRPARVERTEPPTLWP 118 Query: 182 QKG--------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + + W+ + + EG+NR+++++ RLIR G + L L G Sbjct: 119 RTPPVRFRKSVPDCWLKLTISEGRNRQVRRMTAHIGHPTLRLIRWRIGDWTLDGLGPGEW 178 Query: 234 R 234 R Sbjct: 179 R 179 >gi|325526198|gb|EGD03833.1| pseudouridine synthase [Burkholderia sp. TJI49] Length = 192 Score = 55.8 bits (133), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 45/166 (27%), Positives = 75/166 (45%), Gaps = 19/166 (11%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLELP 137 +KP G + S + R ++ D + + V GRLD ++EGLLLLT+DG L AR+ E P Sbjct: 7 NKPFGTICQFSAHETRPSLGDWVKT--PGVYPAGRLDADSEGLLLLTDDGALQARIAE-P 63 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSNA------ 187 + ++ Y + G L L +G+ + C + DT N Sbjct: 64 RHKLVKRYWAQVDGAPGAADLKALARGVDLGDYVTRPCRAEFIEPPDTLWPRNPPIRYRA 123 Query: 188 -----WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+ +++ + RL+R+ G + L Sbjct: 124 AIPTTWIELAITEGKNRQGRRMTAAVGFPTLRLVRVGIGALDIFAL 169 >gi|156103361|ref|XP_001617373.1| hypothetical protein [Plasmodium vivax SaI-1] gi|148806247|gb|EDL47646.1| hypothetical protein, conserved [Plasmodium vivax] Length = 409 Score = 55.8 bits (133), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 34/134 (25%), Positives = 63/134 (47%), Gaps = 13/134 (9%) Query: 104 IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 I +I V L ++EGL+LLTNDG AR L+ + Y ++ ++ +K+ L+++ Sbjct: 219 IPEHLIVVNSLSASSEGLVLLTNDGDFARNLKDAHNNIITTYIIKVKEELTNEKIKLIER 278 Query: 164 GIVIQGICY-GDMQV------TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 G C+ GD+ + + S W+ E + + +F +N + + Sbjct: 279 G------CHVGDLHIRPLTVHVIKPNCASPKWIKFTYVEKSHTHLDLLFSKYNLTIRKCK 332 Query: 217 RISYGPFQLGTLLA 230 R S+GP++ L A Sbjct: 333 RFSFGPYKASDLSA 346 Score = 40.4 bits (93), Expect = 0.46, Method: Compositional matrix adjust. Identities = 22/68 (32%), Positives = 42/68 (61%), Gaps = 3/68 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+SK+++ + + SR + + +I +VKVN ++ + AV++ S IE++G P+ T Sbjct: 14 RLSKILSLSAVTSRGKAQELIKNGKVKVNNQVVRQNVAVDINSA--IELEGKPILVDVTT 71 Query: 74 RLWLYHKP 81 +LW +KP Sbjct: 72 KLWGIYKP 79 >gi|319763700|ref|YP_004127637.1| pseudouridine synthase [Alicycliphilus denitrificans BC] gi|330824037|ref|YP_004387340.1| pseudouridine synthase Rsu [Alicycliphilus denitrificans K601] gi|317118261|gb|ADV00750.1| pseudouridine synthase [Alicycliphilus denitrificans BC] gi|329309409|gb|AEB83824.1| pseudouridine synthase Rsu [Alicycliphilus denitrificans K601] Length = 245 Score = 55.8 bits (133), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 58/233 (24%), Positives = 99/233 (42%), Gaps = 22/233 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++ ++ G +RR +I Q V V+ V + +++ G+ LR + Sbjct: 2 QLQDILYSQGFGTRRICAGLIQQGWVAVHSAGSLEPVVCLEPAQNLKEQGLVLRVQGQD- 60 Query: 75 LWLYH--------KPIGLVTTHSDPDGRSTVFDNLP---------SIFSRVISVGRLDIN 117 W YH KP G + P +V+ LP S S V +VGRLD + Sbjct: 61 -WPYHAKAYVMLNKPAGTECSQK-PSAYPSVYTLLPAPLRQRPGKSAVSGVQAVGRLDQD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLLL++DG + P +VY+V VD ++ L G+V+ ++ Sbjct: 119 TTGLLLLSDDGQFIHRMSSPKKHVPKVYQVTVRHPVDAAQVECLLAGVVLDDD-PKPVRA 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 Q+ ++ + + L EGK ++K++ +V L R G +L +A Sbjct: 178 VACVQRDAHR-IDLTLTEGKYHQVKRMIAAVGNRVEALHRARIGGLELPADMA 229 >gi|70947937|ref|XP_743537.1| hypothetical protein [Plasmodium chabaudi chabaudi] gi|56523079|emb|CAH75054.1| conserved hypothetical protein [Plasmodium chabaudi chabaudi] Length = 348 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 32/121 (26%), Positives = 59/121 (48%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 +I V LD + EG++LLTNDG A L+ + L Y ++ ++ +K+ LL+KG I Sbjct: 216 LIIVNSLDSDMEGIILLTNDGDFANKLKDINNNILTTYLIKTQEELTNEKVELLRKGCTI 275 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 I +++ + W+ + E + +F +N + + R S+GP++ Sbjct: 276 DDIHIRPLELKIIKPNLLYKWLKLTYVEKSQTHLNLLFSKYNMTIRKCKRYSFGPYKSSD 335 Query: 228 L 228 L Sbjct: 336 L 336 Score = 38.5 bits (88), Expect = 1.7, Method: Compositional matrix adjust. Identities = 22/68 (32%), Positives = 39/68 (57%), Gaps = 3/68 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKV-NGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+SK+++ + + SR + + +I VKV N I+ + ++V S IEV+G + T Sbjct: 14 RLSKILSLSSVVSRNKAQELIRSGNVKVDNQIVKQNTVIDVNS--KIEVNGCEINVDITT 71 Query: 74 RLWLYHKP 81 +LW +KP Sbjct: 72 KLWGIYKP 79 >gi|149908911|ref|ZP_01897570.1| hypothetical 16S rRNA uridine-516 pseudouridylate synthase [Moritella sp. PE36] gi|149807922|gb|EDM67865.1| hypothetical 16S rRNA uridine-516 pseudouridylate synthase [Moritella sp. PE36] Length = 229 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 49/199 (24%), Positives = 94/199 (47%), Gaps = 19/199 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I ++ +R +R IA+ VK+NG ++ +A V + + G L + R Sbjct: 2 RLDKFICQSTNLTRTLAKREIARSNVKINGEVVRKADHKVTADMDVWFSGKSLSQ-RAPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS--------VGRLDINTEGLLLLTN 126 + HKP+ ++ STV + PS+ + + + GRLD++T GL+L+T+ Sbjct: 61 YIMMHKPLDVIC--------STVDEEHPSVMNLIEADKREELHIAGRLDVDTTGLVLITD 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + P + YRV+ + + + GI ++ + L+ S Sbjct: 113 DGKWSHRVTSPKRACNKRYRVQLAEAIAPTAVADFEAGIHLRSEDKPCLPAKLEIL--SE 170 Query: 187 AWVTVGLREGKNREIKKVF 205 V + ++EGK ++K++F Sbjct: 171 KEVLLTIQEGKYHQVKRMF 189 >gi|149370420|ref|ZP_01890109.1| RNA pseudouridine synthase family protein [unidentified eubacterium SCB49] gi|149355971|gb|EDM44528.1| RNA pseudouridine synthase family protein [unidentified eubacterium SCB49] Length = 172 Score = 55.1 bits (131), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 41/156 (26%), Positives = 76/156 (48%), Gaps = 24/156 (15%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG--I 165 ++++GRLD +EGL+LLT +G A + ++ + Y + G + + ++ +L+KG I Sbjct: 23 IMAIGRLDETSEGLILLTTNG--AYSYHVNNSNIEKEYYAQVDGIITEKEIKILQKGLPI 80 Query: 166 VIQGICYGDM----------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 I G Y Q D + G +WV++ + EGK R+++K+ Sbjct: 81 SINGSIYHTKPCKAKRIDTPLLPPTRQRIRDDRHGPTSWVSITVTEGKFRQVRKMTAAVG 140 Query: 210 WKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + RL R+ G +++ + G S+KI+ E L Sbjct: 141 FPTLRLARVRIGEYKIEQMQPGD----SEKIVVEAL 172 >gi|71064863|ref|YP_263590.1| ribosomal large subunit pseudouridine synthase E [Psychrobacter arcticus 273-4] gi|71037848|gb|AAZ18156.1| ribosomal large subunit pseudouridine synthase E [Psychrobacter arcticus 273-4] Length = 208 Score = 55.1 bits (131), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 47/188 (25%), Positives = 87/188 (46%), Gaps = 31/188 (16%) Query: 73 TRLWLYHKPIGLVTTHSDP--DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L L++KP G+ + D + +T+ + R+ GRLD +EGLL+LT+DG + Sbjct: 4 SSLILFNKPYGVQSQFRDDSNNDHTTLSEYFTDKSLRI--AGRLDATSEGLLILTSDGRI 61 Query: 131 ARVLELPST---------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----------IC 171 + + P + + + Y V+ G V +L L G++++ + Sbjct: 62 NKAITQPPSAKNFAQNKQKQGKTYLVQVEGVVTAVQLKELASGVILKDGKTLPASATLLD 121 Query: 172 YGDMQVTL--------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 D+ +TL + + +W+ + + EGKNR+++++ RLIR S F Sbjct: 122 EADLPITLWQRDPPIRERKNIPTSWLMLTIYEGKNRQVRRMTAHVGLPCLRLIRWSVAGF 181 Query: 224 QLGTLLAG 231 +LG L G Sbjct: 182 ELGELGVG 189 >gi|94311676|ref|YP_584886.1| ribosomal small subunit pseudouridine synthase A [Cupriavidus metallidurans CH34] gi|93355528|gb|ABF09617.1| 16S rRNA pseudouridylate 516 synthase [Cupriavidus metallidurans CH34] Length = 238 Score = 55.1 bits (131), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 47/160 (29%), Positives = 71/160 (44%), Gaps = 19/160 (11%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + +++ G +RR ++A V+VNG L E EVDG LR Sbjct: 5 LDRILQSQGFGTRRYCGDLVAAGLVEVNGELCEDPGAR------FEVDG--LRLMVDGEE 56 Query: 76 WL--------YHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLT 125 WL +KP G + P +V++ LP + V +VGRLD +T GLLLLT Sbjct: 57 WLACTKAYVMLNKPTGYECSQR-PRHHPSVYNLLPVPLRQREVQAVGRLDHDTTGLLLLT 115 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 +DG P Q ++Y V V +++ L+ G+ Sbjct: 116 DDGQFIHAQTSPKKQVPKIYEVTTFDPVTPEQVEALRTGV 155 >gi|326317655|ref|YP_004235327.1| pseudouridine synthase Rsu [Acidovorax avenae subsp. avenae ATCC 19860] gi|323374491|gb|ADX46760.1| pseudouridine synthase Rsu [Acidovorax avenae subsp. avenae ATCC 19860] Length = 199 Score = 55.1 bits (131), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 56/182 (30%), Positives = 89/182 (48%), Gaps = 23/182 (12%) Query: 74 RLWLYHKPIGLVTTHSDPDGRS---TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 RL +HKP G+++ + P+GR F +LP ++ GRLD ++EGLLLLT+DGGL Sbjct: 8 RLLRFHKPYGVLSQFT-PEGRWRGLKDFIDLPGVY----VAGRLDADSEGLLLLTDDGGL 62 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT-------- 181 + P + + Y V+ G D L L++G+ + G LD Sbjct: 63 QARIANPRFKMEKTYWVQVEGVPDAAALQALERGVQLNDGPTLPARARRLDAPPPVGERE 122 Query: 182 ------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 Q + W+ + +REG+NR+++++ RL+R + GPF L L G+ E Sbjct: 123 PPIRVRQHIPDTWIELVIREGRNRQVRRMTAAVGHPTLRLVRAAIGPFPLDGLAPGTWAE 182 Query: 236 VS 237 V Sbjct: 183 VE 184 >gi|332298341|ref|YP_004440263.1| pseudouridine synthase Rsu [Treponema brennaborense DSM 12168] gi|332181444|gb|AEE17132.1| pseudouridine synthase Rsu [Treponema brennaborense DSM 12168] Length = 249 Score = 55.1 bits (131), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 78/249 (31%), Positives = 118/249 (47%), Gaps = 29/249 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDG--VPLRKA 70 +R+ K+++ G SR++V +++ V VNG + V+V D + VDG VP+R Sbjct: 4 ERLDKILSHHGFGSRKDVRKLLHAGSVAVNGTVCVSPDVHVDPDADELTVDGSSVPMR-- 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR------VISVGRLDINTEGLLLL 124 R + +K G+V + D R TVFD L + + + VGRLDI+TEGLLLL Sbjct: 62 -RHIYIMMNKCAGVVCSARDGLHR-TVFDLLDDSYRQEFLGGSLHMVGRLDIDTEGLLLL 119 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK----GIVIQGICYGDMQVTLD 180 T DG L L P T + Y +R V + L+ + GI I GD D Sbjct: 120 TTDGTLTHRLTSPKTHVTKTYTIRLKNCVPDEAQPLITRRFSDGIHIAP--DGD-DGEYD 176 Query: 181 TQKGSNAW-----VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTR 234 + W ++ + EG+ ++K++ +V L RI+ G L L G+ R Sbjct: 177 CKPADLHWFSGTECSLVITEGRFHQVKRMIAAAGNEVVYLKRIAIGALLLDPALENGAYR 236 Query: 235 EVSKKILRE 243 E+S LRE Sbjct: 237 ELS---LRE 242 >gi|110637422|ref|YP_677629.1| RNA pseudouridylate synthase small subunit [Cytophaga hutchinsonii ATCC 33406] gi|110280103|gb|ABG58289.1| RNA pseudouridylate synthase, small subunit [Cytophaga hutchinsonii ATCC 33406] Length = 224 Score = 55.1 bits (131), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 49/187 (26%), Positives = 85/187 (45%), Gaps = 20/187 (10%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGL 130 + R ++ +KP +V+ D + + NL F +VGRLD +EGLL+LT + + Sbjct: 27 KNRYFIINKPFNMVSQFISSDAVN-LLGNLDFTFPEGTHAVGRLDNESEGLLILTTNKKV 85 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI---------VIQGICYGDM------ 175 R+L + + R Y V +V ++ L L+ GI I C + Sbjct: 86 TRLLFQGTKKHTRTYLVLVKNKVSEETLKQLQTGISIRVKGGGNYISSPCEASIVTDAKA 145 Query: 176 --QVTLDTQKGS-NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 DT++ + W+ + L EGK +++K+ N + RLIR+S L L G+ Sbjct: 146 IYSYAADTRENYPHTWLLLTLTEGKFHQVRKMVLAVNHRCLRLIRVSIENMLLHDLQPGA 205 Query: 233 TREVSKK 239 +E ++ Sbjct: 206 VKEFEEE 212 >gi|119775746|ref|YP_928486.1| pseudouridine synthase, Rsu [Shewanella amazonensis SB2B] gi|119768246|gb|ABM00817.1| ribosomal small subunit pseudouridine synthase A [Shewanella amazonensis SB2B] Length = 230 Score = 55.1 bits (131), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 53/224 (23%), Positives = 95/224 (42%), Gaps = 19/224 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A SR ++ I V +G++++ A V + G L R Sbjct: 2 RLDKYLAETTALSRGLAKKAINSGDVSCDGVVMKDPAFKVPQGARVCFQGEVLALV-GVR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--------RVISVGRLDINTEGLLLLTN 126 + HKP+ + + D + PS+ S ++ GRLD +T GL+L+T+ Sbjct: 61 YLMLHKPVDTICSTQD--------EYYPSVLSLLDIARPDKLHIAGRLDADTTGLVLITD 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + P + YRV+ + D + +G+ + G L+ + Sbjct: 113 DGLWSHKVTSPKRDCAKRYRVQLAESLTDDLIAQFAEGVQLNGEDGLTKPAKLELLSDTE 172 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 A +++ EGK ++K++F KV L R + G +L LA Sbjct: 173 ALLSI--TEGKYHQVKRMFAAVGNKVIGLHREAVGAIELDPQLA 214 >gi|269963430|ref|ZP_06177757.1| ribosomal small subunit pseudouridine synthase A [Vibrio harveyi 1DA3] gi|269831830|gb|EEZ85962.1| ribosomal small subunit pseudouridine synthase A [Vibrio harveyi 1DA3] Length = 225 Score = 55.1 bits (131), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 53/208 (25%), Positives = 91/208 (43%), Gaps = 5/208 (2%) Query: 23 AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPI 82 A +ASR+ R V V+G + + A V +E +G + A R + +KP Sbjct: 4 ARLASRQR--RSYKSGEVTVDGEVQKSGAFKVPEGGVVEWEGREV-GAPGPRYIMLYKPA 60 Query: 83 GLVTTHSDPDGRST-VFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQW 141 V +H D + V + P + + GRLD++T GL+L+T+DG + + P + Sbjct: 61 DFVCSHEDGHNPTAFVLLDEPKV-ENLHFAGRLDVDTTGLVLITDDGQWSHRITSPKHKC 119 Query: 142 LRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREI 201 + YRV + D + +GI ++ + L+ + V + + EGK ++ Sbjct: 120 EKTYRVWLVDAIQPDYVEKFAEGIELRNEREATLPAHLEIVNEAENEVLLTIVEGKYHQV 179 Query: 202 KKVFEFFNWKVNRLIRISYGPFQLGTLL 229 K++F KV L R G L L Sbjct: 180 KRMFAALGNKVEHLHRERIGSIVLDEAL 207 >gi|76665077|emb|CAJ17986.1| rRNA pseudouridylate synthase [Candidatus Phytoplasma solani] Length = 96 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 34/88 (38%), Positives = 49/88 (55%), Gaps = 5/88 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A A + SRR+ E +I Q+RVKVN ++ V +D I VD + K T Sbjct: 2 ERLQKVLAAANLVSRRKAETLILQKRVKVNNQIVYELGTKVSPSDVITVDNTLITK---T 58 Query: 74 RLWLY--HKPIGLVTTHSDPDGRSTVFD 99 L+ Y +KP G ++T D R TV D Sbjct: 59 PLFYYLLNKPQGYLSTAKDNKTRQTVLD 86 >gi|290977401|ref|XP_002671426.1| predicted protein [Naegleria gruberi] gi|284084995|gb|EFC38682.1| predicted protein [Naegleria gruberi] Length = 244 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 65/250 (26%), Positives = 118/250 (47%), Gaps = 31/250 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV----KVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ +V++ GI SR +V I + V K IL + ++ + + V+G P Sbjct: 3 RIDRVLSGMGICSRSDVIHYIRKNEVMDTIKKQRILSLKHKISEHQLESLMVNGKPFPFP 62 Query: 71 ERTRLWLYHKPIG-LVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINTEGLLLLT 125 +KP L +T + ++D LP F + +VGRLD+++ GLL++T Sbjct: 63 TLNLTIALNKPESYLCSTQRESSNHKIIYDLLPPEFLNRNPTLGNVGRLDLDSCGLLIMT 122 Query: 126 NDGGL-ARVLELPSTQWLRVYRVRFHGQVDQD-KLNLLKKGIVIQGICYGDMQV-----T 178 DG L R+L S + Y V F ++ D +LN +K+ GD+Q+ T Sbjct: 123 QDGDLHHRIL---SADVEKTYLVEFVPPIESDVELNQMKELFF-----SGDLQLRSEDST 174 Query: 179 L----DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL---LAG 231 L + + + + +++ + EGK +++++F + +V L RI G L L +G Sbjct: 175 LKPITNFEYINPSTISISIVEGKYHQVRRMFAACSKRVVGLKRIKIGDLTLEGLNIETSG 234 Query: 232 STREVSKKIL 241 + +SK++L Sbjct: 235 AWCVLSKEVL 244 >gi|114046295|ref|YP_736845.1| ribosomal small subunit pseudouridine synthase A [Shewanella sp. MR-7] gi|113887737|gb|ABI41788.1| ribosomal small subunit pseudouridine synthase A [Shewanella sp. MR-7] Length = 235 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 51/229 (22%), Positives = 102/229 (44%), Gaps = 25/229 (10%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K I + +R ++ + + + +G++++ + V+ + +DG P+ Sbjct: 6 PVRLDKFICESTSLTRSLAKKALHRGEITCDGVVVKDSGFKVLEGMQVCLDGEPISLVGE 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--------RVISVGRLDINTEGLLLL 124 R + +KP+ + ST+ + PS+ S + GRLD +T GL+L+ Sbjct: 66 -RYLMLNKPVDTIC--------STIDEAYPSVLSLLDIEKPETLHIAGRLDADTTGLVLI 116 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---GICYGDMQVTLDT 181 T+DG + + P + Y V VD+ + + G+ ++ G+ + ++ Sbjct: 117 TSDGQWSHRITSPKKDCGKRYLVALADPVDESLVGIFAAGVELRNEDGLTKPAVLEIIEP 176 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 Q V + + EGK ++K++F V L R S G +L + LA Sbjct: 177 Q-----LVRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGRIELDSDLA 220 >gi|221061573|ref|XP_002262356.1| hypothetical protein, conserved in Plasmodium species [Plasmodium knowlesi strain H] gi|193811506|emb|CAQ42234.1| hypothetical protein, conserved in Plasmodium species [Plasmodium knowlesi strain H] Length = 414 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 33/138 (23%), Positives = 69/138 (50%), Gaps = 4/138 (2%) Query: 92 DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG 151 + ++ + +++P +I V L ++EGL+LLTNDG AR L+ + Y V+ Sbjct: 211 ETKNNIANDIPE---HLIVVNSLSASSEGLVLLTNDGDFARNLKGIENNIITSYIVKVKE 267 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA-WVTVGLREGKNREIKKVFEFFNW 210 ++ +K+ L++KG + + + V + Q S+ W+ + E + + +F + Sbjct: 268 ELTNEKIKLIEKGCNVGDVHIRPLDVHVIKQHSSSPKWIKLTYVEKSHTYLNLLFSKYGL 327 Query: 211 KVNRLIRISYGPFQLGTL 228 + + R S+GP++ L Sbjct: 328 TIRKCKRFSFGPYKASDL 345 >gi|237735675|ref|ZP_04566156.1| pseudouridine synthase [Mollicutes bacterium D7] gi|229381420|gb|EEO31511.1| pseudouridine synthase [Coprobacillus sp. D7] Length = 235 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 54/224 (24%), Positives = 101/224 (45%), Gaps = 16/224 (7%) Query: 19 VIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLY 78 V+ + + + + + +I ++VN ++ V + D I + L A+ ++ Sbjct: 12 VLMKNKLGNHKICKTLIRHGEIRVNDQVITDVRYPVKADDIIMYHHIQLN-AQPFVYYMM 70 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVLEL 136 +KP + + D + + + R +GRLDI+T GLL++TND L++ L L Sbjct: 71 NKPADYLCANHDKYHQCVI-----DLIGREDCYCLGRLDIDTTGLLIITNDTSLSKKLLL 125 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + + + G+VI C + LD + VT+ Sbjct: 126 PQNHVNKKYYVTTKFPLKDELIKKFSDGVVIDHKVQCLPSLLEILDE---YHCLVTIN-- 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 EG+ +IKK+F+ +V L RI++ +L LA G R+++ Sbjct: 181 EGRYHQIKKMFKSCQNEVCTLKRIAFAGIELDQKLALGEYRDLT 224 >gi|312795285|ref|YP_004028207.1| ribosomal large subunit pseudouridine synthase E [Burkholderia rhizoxinica HKI 454] gi|312167060|emb|CBW74063.1| Ribosomal large subunit pseudouridine synthase E (EC 4.2.1.70) [Burkholderia rhizoxinica HKI 454] Length = 189 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 48/174 (27%), Positives = 82/174 (47%), Gaps = 25/174 (14%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL- 130 RL +KP G + S + R+++ + N+P ++ GRLD ++EGLLLLT+DG L Sbjct: 2 RLIALNKPYGTICQFSAHETRASLATWVNVPDVYP----AGRLDADSEGLLLLTDDGALQ 57 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----------------QGICYGD 174 AR+ E P + ++ Y + G L L++G+ + G+ D Sbjct: 58 ARIAE-PRHKLVKRYWAQLDGAAPASALAALERGVDLGDYVSRPCRARFIEPPSGLWQRD 116 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 V + W+ + L EG+NR+++++ + RLIR+ G L L Sbjct: 117 PPVRYRAAIPTT-WIELALGEGRNRQVRRMTAAVGFPTLRLIRVGIGALDLFAL 169 >gi|319955563|ref|YP_004166830.1| pseudouridine synthase rsu [Cellulophaga algicola DSM 14237] gi|319424223|gb|ADV51332.1| pseudouridine synthase Rsu [Cellulophaga algicola DSM 14237] Length = 191 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 45/182 (24%), Positives = 87/182 (47%), Gaps = 27/182 (14%) Query: 79 HKPIGLVT---THSDPDGRSTVF-DNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+++ ++ + + R F L ++ VGRLD +EGLLLLT DG L+ + Sbjct: 10 YKPFGMLSQFISNDEKEARKKHFLGELYDFPEGIMPVGRLDEKSEGLLLLTTDGKLSDTI 69 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICY------------------GD 174 + + Y + G++ + + L++G++I G Y D Sbjct: 70 NQSGIE--KEYYAQLDGEIPHEDILQLERGVLIGLSGKKYITKPCRVKALLDPPLLTDPD 127 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 ++ + T + N+W+++ + EGK R+++K+ + RLIR+ G L L G+ Sbjct: 128 KKLRIGTHR-PNSWISITITEGKFRQVRKMTAAVGFPTLRLIRVRIGTQILEDLQPGTVA 186 Query: 235 EV 236 ++ Sbjct: 187 QI 188 >gi|269214548|ref|ZP_06158643.1| ribosomal small subunit pseudouridine synthase A [Neisseria lactamica ATCC 23970] gi|269209595|gb|EEZ76050.1| ribosomal small subunit pseudouridine synthase A [Neisseria lactamica ATCC 23970] Length = 246 Score = 54.3 bits (129), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 40/136 (29%), Positives = 67/136 (49%), Gaps = 9/136 (6%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLER--AAVNVMSTDHIEVDGVPLRKAERTRL 75 K + GI SR++ + +I V +NG ++ A ++ S + +++DG + Sbjct: 5 KYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSSVETLDIDGKAVTVIPEPYF 64 Query: 76 W-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP T+H P ++F P + +VGRLD +T G+LL+TNDG L Sbjct: 65 YILLNKPTDYETSHK-PKHYRSIFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGHLNH 123 Query: 133 VLELP---STQWLRVY 145 L P + Q +R Y Sbjct: 124 KLTSPNHKNPQTVRSY 139 >gi|326316292|ref|YP_004233964.1| pseudouridine synthase Rsu [Acidovorax avenae subsp. avenae ATCC 19860] gi|323373128|gb|ADX45397.1| pseudouridine synthase Rsu [Acidovorax avenae subsp. avenae ATCC 19860] Length = 248 Score = 54.3 bits (129), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 61/246 (24%), Positives = 104/246 (42%), Gaps = 22/246 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++ +++ G +RR +I V++ + V + +++D L + + Sbjct: 2 QLQEILYSQGFGTRRVCAGLIQHGHVQLRK-KNDTGDAWVCTDASLDIDPEGLTFHVQGK 60 Query: 75 LWLYH--------KPIGLVTTHSDPDGRSTVFDNLPSIFSR---------VISVGRLDIN 117 +W +H KP V P +V+ LP + V ++GRLD + Sbjct: 61 VWQWHERAYVMMNKPAA-VECSQKPSTYPSVYTLLPDPLRQRPGPGKILGVQTIGRLDQD 119 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLLL++DG + P Q + YRV + Q + + L KG+V+ + Sbjct: 120 TTGLLLLSDDGSFIHRVSSPKKQIQKTYRVHAKYDLSQQQKDQLLKGVVLNDDPKPVIAA 179 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 Q+GS +TV EGK +IK++ +V +L RI G L L AG R + Sbjct: 180 DCVLQEGSVFDLTV--TEGKYHQIKRMVAAVGNRVEQLHRIRIGGLHLPDDLQAGDWRWL 237 Query: 237 SKKILR 242 +R Sbjct: 238 GDDDVR 243 >gi|89891482|ref|ZP_01202987.1| ribosomal pseudouridylate synthase [Flavobacteria bacterium BBFL7] gi|89516256|gb|EAS18918.1| ribosomal pseudouridylate synthase [Flavobacteria bacterium BBFL7] Length = 200 Score = 54.3 bits (129), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 44/154 (28%), Positives = 72/154 (46%), Gaps = 20/154 (12%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 ++VGRLD ++EGLLL+T DG L+ + S + Y G + + + L+ G+ I Sbjct: 40 AMAVGRLDEHSEGLLLITTDGQLSHHIN-KSGIVDKEYAALVDGLITEQAIEQLQNGVTI 98 Query: 168 --QGICYG-------------DM----QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 G Y D+ Q D + G +WV V L EGK R+++K+ Sbjct: 99 SINGSTYDTKPCQVQKPNQIPDLPETKQKIRDERHGPTSWVNVTLSEGKFRQVRKMTGVV 158 Query: 209 NWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + RL R+ GP+ + +L E+S + +R Sbjct: 159 GFPTLRLARVRIGPYNVLSLRNQQVIELSDQEIR 192 >gi|291550526|emb|CBL26788.1| pseudouridine synthase family [Ruminococcus torques L2-14] Length = 194 Score = 54.3 bits (129), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 33/95 (34%), Positives = 52/95 (54%), Gaps = 2/95 (2%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARVL 134 ++++KP G VT D TV D + + ++ VGRLD T GLLL+T+DG + L Sbjct: 5 YMFNKPFGCVTARRD-SLYPTVMDYFSELNNDNLNPVGRLDRETTGLLLITDDGVFNQKL 63 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 PS + Y G + +D+ L+KGI+++G Sbjct: 64 THPSYHKEKTYHFTVLGDLTEDRCQQLEKGILLKG 98 >gi|311696250|gb|ADP99123.1| pseudouridine synthase, Rsu [marine bacterium HP15] Length = 230 Score = 54.3 bits (129), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 60/229 (26%), Positives = 110/229 (48%), Gaps = 10/229 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + IA + SR+E +R I + V +N + + A + + + + G PL R Sbjct: 2 RLDQFIANSTELSRKEAKRAIGRGEVTINEQICKGANTRLAGDERVALSGTPL-SLPGER 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 + +KP G+V+ +D D T D LP+ +R + + GRLD +T GLLLLT DG + Sbjct: 61 YLMMNKPAGVVSATTDSD-HPTALDLLPAEITRHLHIAGRLDADTTGLLLLTTDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P T + YRV + + L++G+ + + D + T + + + + Sbjct: 120 VTSPRTDCPKTYRVTLNEPLSDAAAQQLERGVDL----HNDPRPTRPARVHFLEDRIIEL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 + EG+ ++K++ V L R+ G +L L+ G RE++ + Sbjct: 176 TISEGRYHQVKRMMAAVGNHVEALHRVRIGQVELDDALMPGEYRELTAE 224 >gi|194290486|ref|YP_002006393.1| 16S rRNA pseudouridylate 516 synthase [Cupriavidus taiwanensis LMG 19424] gi|193224321|emb|CAQ70332.1| 16S rRNA pseudouridylate 516 synthase [Cupriavidus taiwanensis LMG 19424] Length = 235 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 60/223 (26%), Positives = 98/223 (43%), Gaps = 17/223 (7%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLE--RAAVNVMSTDHIEVDGVPLRKAERT 73 + +++ G +RR +IA V+VNG L E RA V + VDG + Sbjct: 3 LDRILQSQGFGTRRYCGDLIAAGLVEVNGELCEDPRAQFEVDGL-RLTVDGEEWLACTKA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 L L +KP G + P +V++ LP + V +VGRLD +T GLLLLT+DG Sbjct: 62 YLML-NKPAGYECSQR-PRHHPSVYNLLPVPLRQREVQAVGRLDHDTTGLLLLTDDGQFI 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGSNA 187 P + ++Y V V ++ L+ G+ + I ++T + Sbjct: 120 HAQTSPKRKVPKIYEVTTAEPVTPEQAEALRSGVQLLDEPAPIAAEACEITGERS----- 174 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + L +GK ++K++ V+ L R + G L LA Sbjct: 175 -LRLTLVQGKYHQVKRMVVAAGNHVDALHRSAIGSLPLDPALA 216 >gi|114562021|ref|YP_749534.1| pseudouridine synthase, Rsu [Shewanella frigidimarina NCIMB 400] gi|114333314|gb|ABI70696.1| ribosomal small subunit pseudouridine synthase A [Shewanella frigidimarina NCIMB 400] Length = 229 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 51/227 (22%), Positives = 100/227 (44%), Gaps = 21/227 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + +R +R + + V +G++++ + V+ + +DG L Sbjct: 1 MRLDKFICESTELTRSLAKRALHRGDVTCDGVVVKNSGFKVLPQMAVHLDGT-LISVIGE 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV---------GRLDINTEGLLLL 124 R + +KP+ + ST+ + PS+ S +I + GRLD++T GL+L+ Sbjct: 60 RYIMLNKPVDTIC--------STIDEEYPSVLS-LIDIEKMDTLHIAGRLDVDTTGLVLI 110 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T+DG + + P + Y V +D + + G+ ++ LD Sbjct: 111 TSDGQWSHKITSPKKDCGKRYWVELAEPIDDSLIQVFADGVELRNEDGLTKPALLDIIDS 170 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 ++ +T+ EGK ++K++F +V L R + G +L LA Sbjct: 171 THVRLTIS--EGKYHQVKRMFAAVGNRVVNLHREAVGAIELNADLAA 215 >gi|223994405|ref|XP_002286886.1| hypothetical protein THAPSDRAFT_261040 [Thalassiosira pseudonana CCMP1335] gi|220978201|gb|EED96527.1| hypothetical protein THAPSDRAFT_261040 [Thalassiosira pseudonana CCMP1335] Length = 221 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 44/151 (29%), Positives = 69/151 (45%), Gaps = 25/151 (16%) Query: 104 IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQW-----LRVYRVRFHG-----QV 153 + S++ ++GRLD +T GLLLLTNDGGL + P+++ + Y G Q Sbjct: 1 VHSKLHAIGRLDADTTGLLLLTNDGGLVHWITNPTSKQDSDPIPKTYEAVIMGHHYLPQC 60 Query: 154 DQDKLN----------LLKKGIVIQGICYG-----DMQVTLDTQKGSNAWVTVGLREGKN 198 D N L++ G ++ G D L S V++ + EGKN Sbjct: 61 DGPFTNNDNNTYPLMTLIQNGALLPQKYGGHTRPVDRLSVLSHPTRSTTRVSITISEGKN 120 Query: 199 REIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 R+I+++F V +L R+S G L L+ Sbjct: 121 RQIRRMFHAIGSGVMKLHRVSVGDLNLSGLM 151 >gi|167757241|ref|ZP_02429368.1| hypothetical protein CLORAM_02791 [Clostridium ramosum DSM 1402] gi|167703416|gb|EDS17995.1| hypothetical protein CLORAM_02791 [Clostridium ramosum DSM 1402] Length = 235 Score = 53.9 bits (128), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 54/224 (24%), Positives = 101/224 (45%), Gaps = 16/224 (7%) Query: 19 VIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLY 78 V+ + + + + + +I ++VN ++ V + D I + L A+ ++ Sbjct: 12 VLMKNKLGNHKICKTLIRHGEIRVNDQVITDVRYPVKADDIIMYHHIQLN-AQPFVYYMM 70 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVLEL 136 +KP + + D + + + R +GRLDI+T GLL++TND L++ L L Sbjct: 71 NKPADYLCANHDKYHQCVI-----DLIGREDCYCLGRLDIDTTGLLIITNDTSLSKKLLL 125 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V + + + G+VI C + LD + VT+ Sbjct: 126 PQNHVNKKYYVTTKFPLKDELIKKFFDGVVIDHKVQCLPSLLEILDE---YHCLVTIN-- 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVS 237 EG+ +IKK+F+ +V L RI++ +L LA G R+++ Sbjct: 181 EGRYHQIKKMFKSCQNEVCTLKRIAFAGIELDQKLALGEYRDLT 224 >gi|254471903|ref|ZP_05085304.1| ribosomal small subunit pseudouridylate synthase [Pseudovibrio sp. JE062] gi|211959105|gb|EEA94304.1| ribosomal small subunit pseudouridylate synthase [Pseudovibrio sp. JE062] Length = 232 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 66/241 (27%), Positives = 110/241 (45%), Gaps = 28/241 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD----HIEV--DGVPLR 68 R+ K++A G SR+E++ I NG + ++ N + D H E+ D PL Sbjct: 2 RLVKLLANLGYGSRKEMQAAIR------NGWITDKDG-NAIKADSKLPHEEILFDDEPLD 54 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINTEGLLLL 124 E + + L +KP+G + D GR VFD LP + + VGRLD +T GLLL Sbjct: 55 PPEGSVI-LLNKPLGYTCSMKD-RGR-LVFDLLPDRYRVRKPALSFVGRLDKDTTGLLLF 111 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQK 183 T+DG L + P ++Y V + + +L G ++++ L+ Sbjct: 112 TDDGKLLHRIISPKADVAKIYEVELDRPMTGGEGDLFASGEMMLENETNPLKPAELEVLS 171 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 ++A +T L EG+ +++++F V L R QLG L E + K+L + Sbjct: 172 ETSARLT--LHEGRYHQVRRMFAATGNHVTNLHRA-----QLGGLTLEGVEEGTWKLLAQ 224 Query: 244 Q 244 + Sbjct: 225 E 225 >gi|241765880|ref|ZP_04763813.1| pseudouridine synthase [Acidovorax delafieldii 2AN] gi|241364178|gb|EER59374.1| pseudouridine synthase [Acidovorax delafieldii 2AN] Length = 249 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 58/241 (24%), Positives = 99/241 (41%), Gaps = 37/241 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++ ++ G +RR ++ Q V+ + AA + + E D LR + Sbjct: 2 QLQDILYSQGFGTRRVCAGLVQQGWVETASGDPD-AAFSACTEASAEFDVDDLRLKVQGV 60 Query: 75 LWLYH--------KPIGLVTTHSDPDGRSTVFDNLPSIFSR---------VISVGRLDIN 117 LW YH KP G + P +++ LP+ + V +VGRLD + Sbjct: 61 LWPYHAKAYIMLHKPAGTECSQK-PSTYPSIYTLLPAPLRQRPCKGAIQGVQAVGRLDQD 119 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--------G 169 T GLLLL++DG + P +VY+V VD+ ++ L G+V+ Sbjct: 120 TTGLLLLSDDGQFIHRMSSPKKHVPKVYQVTTKHPVDERQIAALLAGVVLDDDPKPVRAA 179 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 C +D+ + +++ L EGK ++K++ +V L R G L L Sbjct: 180 AC-----SVVDSHR-----LSLTLTEGKYHQVKRMLAAVGNRVEALHRSRIGTLDLPADL 229 Query: 230 A 230 A Sbjct: 230 A 230 >gi|222110316|ref|YP_002552580.1| pseudouridine synthase [Acidovorax ebreus TPSY] gi|221729760|gb|ACM32580.1| pseudouridine synthase [Acidovorax ebreus TPSY] Length = 245 Score = 53.5 bits (127), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 55/227 (24%), Positives = 96/227 (42%), Gaps = 20/227 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR------ 68 ++ ++ G +RR +I Q RV ++ + +T I+V+ + LR Sbjct: 2 QLQDILYSQGFGTRRICAGLIQQGRVAMHATGTLEPTICQDATQDIDVESLVLRVQGVDW 61 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---------VISVGRLDINTE 119 + + HKP G + P +++ LP+ + V +VGRLD +T Sbjct: 62 PYQPKAYVMLHKPAGTECSQK-PSAYPSIYTLLPAPLRQRPSKGAVDGVQAVGRLDQDTT 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLL++DG + P +VYRV V +++++ L G+V+ V Sbjct: 121 GLLLLSDDGQFIHRMSSPKKHVPKVYRVTAKHPVTKEQVDRLLAGVVLDD---DPRPVRA 177 Query: 180 DTQKGSNAWV-TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +A V + L EGK ++K++ +V L R G L Sbjct: 178 AACALVDAHVLDLTLTEGKYHQVKRMIAAVGNRVEALHRSHIGRLAL 224 >gi|113868872|ref|YP_727361.1| 16S rRNA uridine-516 pseudouridylate synthase [Ralstonia eutropha H16] gi|113527648|emb|CAJ93993.1| 16S rRNA uridine-516 pseudouridylate synthase [Ralstonia eutropha H16] Length = 235 Score = 53.5 bits (127), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 60/223 (26%), Positives = 98/223 (43%), Gaps = 17/223 (7%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLE--RAAVNVMSTDHIEVDGVPLRKAERT 73 + +++ G +RR +IA V+VNG L E RA V + VDG + Sbjct: 3 LDRILQSQGFGTRRYCGDLIAAGLVEVNGELCEDPRAQFEVDGL-RLTVDGEEWLACTKA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 L L +KP G + P +V++ LP + V +VGRLD +T GLLLLT+DG Sbjct: 62 YLML-NKPTGYECSQR-PRHHPSVYNLLPVPLRQREVQAVGRLDHDTTGLLLLTDDGQFI 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGSNA 187 P + ++Y V V ++ L G+ + I ++T + Sbjct: 120 HAQTSPKRKVPKIYEVTTAEPVTPEQAEALCSGVQLLDEPAPIAAEACEITGERS----- 174 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + L +GK ++K++ V+ L R + G +L LA Sbjct: 175 -LRLTLVQGKYHQVKRMVAAAGNHVSALHRSAIGGLRLDPALA 216 >gi|329119600|ref|ZP_08248281.1| ribosomal large subunit pseudouridine synthase E [Neisseria bacilliformis ATCC BAA-1200] gi|327464197|gb|EGF10501.1| ribosomal large subunit pseudouridine synthase E [Neisseria bacilliformis ATCC BAA-1200] Length = 186 Score = 53.5 bits (127), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 38/166 (22%), Positives = 74/166 (44%), Gaps = 23/166 (13%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +++KP G+V + ++ F + P + GRLD ++EGLLLLT +G + Sbjct: 4 LIVFNKPCGVVCQFGAHEKHRSLKDFIDAPGFYP----AGRLDTDSEGLLLLTCNGRMQA 59 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA----- 187 + P + + Y + G DKL L++ + + ++ L ++A Sbjct: 60 RIAHPKFKLEKTYWAQLEGSPQADKLAALQRPMDLGDFVARPAKIRLPDAGETDALWPRV 119 Query: 188 ------------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 W+ + + EGKNR+++++ + RL+R+ G Sbjct: 120 PPVRLRKTVPDFWLEIKIAEGKNRQVRRMTAKAGYPCLRLVRVGIG 165 >gi|197302089|ref|ZP_03167150.1| hypothetical protein RUMLAC_00817 [Ruminococcus lactaris ATCC 29176] gi|197298898|gb|EDY33437.1| hypothetical protein RUMLAC_00817 [Ruminococcus lactaris ATCC 29176] Length = 195 Score = 53.1 bits (126), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 53/191 (27%), Positives = 86/191 (45%), Gaps = 36/191 (18%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-----RVISVGRLDINTEGLLLLTNDGGLA 131 +++KP G VT R T++ + FS R+ VGRLD T GLLL+T+DG Sbjct: 1 MFNKPFGCVTAR-----RDTLYPTVMDYFSELHNDRLNPVGRLDRETTGLLLITDDGNWN 55 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTL---DTQKG-- 184 + L P+ + Y G + +D+ L+ GI+++G + ++TL DT Sbjct: 56 QQLTHPAYHKKKTYLFTVLGDLTEDRRQFLENGILLKGSPVPTSPAKITLFKKDTLANIL 115 Query: 185 ---------------SNAWVTVG---LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 + VT G + EG+ R+I+++ + + V L RIS L Sbjct: 116 DTLHPEVRNAVRTNLPSHPVTYGEITISEGRKRQIRRMMKAVHCCVIELKRISIDDIHLD 175 Query: 227 TLLA-GSTREV 236 LA G +E+ Sbjct: 176 ESLAPGKWKEI 186 >gi|163747964|ref|ZP_02155293.1| ribosomal small subunit pseudouridine synthase A [Oceanibulbus indolifex HEL-45] gi|161378761|gb|EDQ03201.1| ribosomal small subunit pseudouridine synthase A [Oceanibulbus indolifex HEL-45] Length = 248 Score = 53.1 bits (126), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 54/220 (24%), Positives = 97/220 (44%), Gaps = 14/220 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIE---VDGVPLRKA 70 R+ +++ G SR E+ ++ +R+ ++G + A + MS D E V G PL Sbjct: 8 RIDRLLGSLGYGSRGEIAQIARARRIVLDGARVANVAKRIPMSPDLTERMTVHGAPL-DP 66 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTN 126 + + +KP G + + D V+D LP + + VGRLD T GLLLLT+ Sbjct: 67 LLGMVVMMNKPAGYICSRKD--SGPLVYDLLPDRWRHRKPMLSPVGRLDKETSGLLLLTD 124 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 G L + P+ + YR ++ ++N+ G +++ G L + Sbjct: 125 HGDLLHRITSPNLAVEKTYRASLARPLEGHEVNVFASGELMLSGEKKPLHPAKLSVLSPT 184 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 A + + EG+ +++++F V L R + G L Sbjct: 185 EARLNI--TEGRYHQVRRMFAAVGNHVEALHREALGDLTL 222 >gi|289807462|ref|ZP_06538091.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 74 Score = 53.1 bits (126), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 27/74 (36%), Positives = 43/74 (58%) Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 R GQVD+ KL L +G+ ++ + +G N W V L EG+NRE+++++E Sbjct: 1 RVFGQVDESKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQWYNVTLTEGRNREVRRLWEA 60 Query: 208 FNWKVNRLIRISYG 221 +V+RLIR+ YG Sbjct: 61 VGVQVSRLIRVRYG 74 >gi|262038667|ref|ZP_06012031.1| ribosomal large subunit pseudouridine synthase B [Leptotrichia goodfellowii F0264] gi|261747309|gb|EEY34784.1| ribosomal large subunit pseudouridine synthase B [Leptotrichia goodfellowii F0264] Length = 112 Score = 53.1 bits (126), Expect = 7e-05, Method: Composition-based stats. Identities = 34/94 (36%), Positives = 53/94 (56%), Gaps = 3/94 (3%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLARVL 134 + +KP G++++ D + R TV D L + + V +GRLDI+TEGLL+LTNDG L L Sbjct: 17 MMNKPDGVISSTEDDEHR-TVIDLLENKYRTYSVFPIGRLDIDTEGLLILTNDGILTHKL 75 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 P+ + Y V V + + L+ GI ++ Sbjct: 76 LAPNKHVDKKYYVELKNPVLKSDIEKLENGIELE 109 >gi|305666906|ref|YP_003863193.1| RNA pseudouridine synthase family protein [Maribacter sp. HTCC2170] gi|88709133|gb|EAR01367.1| RNA pseudouridine synthase family protein [Maribacter sp. HTCC2170] Length = 196 Score = 52.8 bits (125), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 41/173 (23%), Positives = 74/173 (42%), Gaps = 25/173 (14%) Query: 79 HKPIGLVTTHSDPDGRST----VFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+++ + + R L + VGRLD +EGLLL+T DG L+ + Sbjct: 12 YKPFGMLSQLASNEERQIRSKRFLSELHEFPEGTMPVGRLDEKSEGLLLMTTDGKLSDTI 71 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLD------------ 180 + + Y + G + + +L G+ I +GI Y T+ Sbjct: 72 NRKGIE--KEYYAQLDGDISPKAIEILATGVEIGFEGIRYTTKPCTVQKINFKPSLPAPD 129 Query: 181 -----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + N+W+++ + EGK R+++K+ + RL+R+ G L L Sbjct: 130 KRIRLARHRPNSWISIVITEGKFRQVRKMTAAVGFPTLRLVRVRIGALILDDL 182 >gi|94499667|ref|ZP_01306204.1| Pseudouridine synthase, Rsu [Oceanobacter sp. RED65] gi|94428421|gb|EAT13394.1| Pseudouridine synthase, Rsu [Oceanobacter sp. RED65] Length = 210 Score = 52.8 bits (125), Expect = 8e-05, Method: Compositional matrix adjust. Identities = 51/179 (28%), Positives = 90/179 (50%), Gaps = 16/179 (8%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 RL L++KP +++ SD +G+ T+ D + + V GRLD ++EGLLLLT+DG L Sbjct: 2 ARLILFNKPYQVISQFSDSEGKKTLADFIDT--KNVYPAGRLDFDSEGLLLLTDDGLLQH 59 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-----------DT 181 + P + + Y V+ G D + L G+ ++ +V + Sbjct: 60 RISDPKHKSYKTYWVQVEGIPDNLAIQHLVNGVDLKDGKTLPAKVNIIDEPNLWDRHPPI 119 Query: 182 QKGSN---AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++ SN +W+ + + EGKNR+++++ RL+R+S G + L L G +E+S Sbjct: 120 RQRSNDVTSWLEIQIMEGKNRQVRRMTAAVGHPTLRLVRVSIGQWHLEQLKPGEFKELS 178 >gi|332293351|ref|YP_004431960.1| pseudouridine synthase [Krokinobacter diaphorus 4H-3-7-5] gi|332171437|gb|AEE20692.1| pseudouridine synthase [Krokinobacter diaphorus 4H-3-7-5] Length = 191 Score = 52.8 bits (125), Expect = 9e-05, Method: Compositional matrix adjust. Identities = 41/165 (24%), Positives = 68/165 (41%), Gaps = 25/165 (15%) Query: 80 KPIGLVTTHSDPDGRST----VFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 KP G ++ D R L +++GRLD +EGLLL+T DG L+ + Sbjct: 10 KPYGFISQLLSNDERQARKKKFLSELHDFPEGTMAIGRLDEKSEGLLLMTTDGKLSDTIN 69 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTL-------------- 179 + + Y V+ G + D ++ + G+ I G Y + Sbjct: 70 RSGIE--KEYYVQVDGMITDDAIDQMAAGVEIGFDGKKYQTKPCKVRRLIENPTLPERSK 127 Query: 180 ---DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 D + G W+ V + EGK R+++K+ + RL+RI G Sbjct: 128 KIRDARHGPTPWIAVTITEGKFRQVRKMTSAVGFPTLRLVRIRIG 172 >gi|255318391|ref|ZP_05359624.1| putative pseudouridine synthase [Acinetobacter radioresistens SK82] gi|262378621|ref|ZP_06071778.1| conserved hypothetical protein [Acinetobacter radioresistens SH164] gi|255304383|gb|EET83567.1| putative pseudouridine synthase [Acinetobacter radioresistens SK82] gi|262299906|gb|EEY87818.1| conserved hypothetical protein [Acinetobacter radioresistens SH164] Length = 274 Score = 52.8 bits (125), Expect = 9e-05, Method: Compositional matrix adjust. Identities = 31/130 (23%), Positives = 61/130 (46%), Gaps = 15/130 (11%) Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQG 169 GRLD+++EGL+ LT+ GGL + + P + + Y + G + ++ L L++G+ + G Sbjct: 37 AGRLDLDSEGLMFLTDHGGLNQFITNPKNKKFKTYLAQVDGDITEEALEQLRRGVELADG 96 Query: 170 ICYGDMQVTLDTQKG--------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRL 215 + ++ + WV + + EG+NR+++++ + RL Sbjct: 97 MTLPAKARKVEQPEWLWDRDPPVRFRASIPTTWVELQICEGRNRQVRRMTAAVGFPTLRL 156 Query: 216 IRISYGPFQL 225 IR G L Sbjct: 157 IRTQIGTIDL 166 >gi|121605680|ref|YP_983009.1| pseudouridine synthase [Polaromonas naphthalenivorans CJ2] gi|120594649|gb|ABM38088.1| ribosomal small subunit pseudouridine synthase A [Polaromonas naphthalenivorans CJ2] Length = 244 Score = 52.4 bits (124), Expect = 9e-05, Method: Compositional matrix adjust. Identities = 53/222 (23%), Positives = 92/222 (41%), Gaps = 17/222 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERT 73 ++ +++ G +RR ++ Q V V G+ A+ ++ V GV E+ Sbjct: 2 QLQEILFSQGFGTRRVCAGLVQQGFVTVAGVPCTEPAMEFIAVGLRFTVQGVAWEYHEKA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG--------RLDINTEGLLLLT 125 L L HKP G + P +++ LP+ + RLD +T GLLLL+ Sbjct: 62 YLML-HKPAGHECSQK-PSTYPSIYTLLPAPIRQRGGGAAAGVQAVGRLDQDTTGLLLLS 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV--TLDTQK 183 +DG + P +VY V VD ++ L G+V+ D + ++ Sbjct: 120 DDGKFIHRMSSPRHHVPKVYEVTAKHPVDAQQVQKLLAGVVLD----DDPKPVRAAACEQ 175 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 S +++ L EGK ++K++ +V L R G L Sbjct: 176 TSELQLSLTLTEGKYHQVKRMIAAVGNRVEGLHRSRIGSLAL 217 >gi|255018863|ref|ZP_05290989.1| hypothetical protein LmonF_16091 [Listeria monocytogenes FSL F2-515] Length = 128 Score = 52.4 bits (124), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 32/110 (29%), Positives = 56/110 (50%), Gaps = 2/110 (1%) Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNA 187 A +L P + + Y R G +++ + L++G+VI G ++V + A Sbjct: 1 FANLLMHPKNEVSKTYIARIKGIPEREVIRQLERGVVIDGRKTAPAKVKVRSSDKTKDKA 60 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 V + + EG+NR+++K+FE ++V +L R Y L L AG RE+S Sbjct: 61 IVEITIHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELS 110 >gi|120600175|ref|YP_964749.1| pseudouridine synthase [Shewanella sp. W3-18-1] gi|146291897|ref|YP_001182321.1| pseudouridine synthase [Shewanella putrefaciens CN-32] gi|120560268|gb|ABM26195.1| ribosomal small subunit pseudouridine synthase A [Shewanella sp. W3-18-1] gi|145563587|gb|ABP74522.1| ribosomal small subunit pseudouridine synthase A [Shewanella putrefaciens CN-32] gi|319425188|gb|ADV53262.1| pseudouridine synthase [Shewanella putrefaciens 200] Length = 229 Score = 52.4 bits (124), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 52/227 (22%), Positives = 101/227 (44%), Gaps = 25/227 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I + +R ++ + + + +G++++ A V I ++G P+ R Sbjct: 2 RLDKFICESTSLTRSLAKKALHRGDITCDGVVIKDAGFKVTEGMQICLEGEPIVLVGE-R 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--------RVISVGRLDINTEGLLLLTN 126 + +KP+ + ST+ + PS+ S + GRLD +T GL+L+T+ Sbjct: 61 YVMLNKPVDTIC--------STIDEAYPSVLSLLDIPKPETLHIAGRLDADTTGLVLITS 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---GICYGDMQVTLDTQK 183 DG + + P + + Y V+ VD + + KG+ ++ G+ + +D Q+ Sbjct: 113 DGQWSHKITSPKKECGKRYLVQLADPVDDGLIEVFAKGVALRNEDGLTKPAVLEIIDPQQ 172 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + + EGK ++K++F V L R G +L LA Sbjct: 173 -----VRLTITEGKYHQVKRMFAAVGNLVVGLHRERIGQIELDPDLA 214 >gi|120610123|ref|YP_969801.1| ribosomal small subunit pseudouridine synthase A [Acidovorax citrulli AAC00-1] gi|120588587|gb|ABM32027.1| ribosomal small subunit pseudouridine synthase A [Acidovorax citrulli AAC00-1] Length = 253 Score = 52.4 bits (124), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 45/142 (31%), Positives = 69/142 (48%), Gaps = 3/142 (2%) Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 P V ++GRLD +T GLLLL++DG + P Q + YRV + Q + + L Sbjct: 109 PGKILGVQTIGRLDQDTTGLLLLSDDGSFIHRVSSPKKQIQKTYRVHAKYDLSQQQKDQL 168 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 KG+V+ + V Q+G +TV EGK +IK++ +V +L RI G Sbjct: 169 LKGVVLNDDPKPVIAVDCVLQEGPVFDLTV--TEGKYHQIKRMVAAVGNRVEQLHRIRIG 226 Query: 222 PFQL-GTLLAGSTREVSKKILR 242 L L AG R + ++ +R Sbjct: 227 GLHLPDDLQAGDWRWLREEDVR 248 >gi|206561035|ref|YP_002231800.1| putative ribosomal small subunit pseudouridine synthase A [Burkholderia cenocepacia J2315] gi|198037077|emb|CAR52998.1| putative ribosomal small subunit pseudouridine synthase A [Burkholderia cenocepacia J2315] Length = 238 Score = 52.4 bits (124), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 49/165 (29%), Positives = 74/165 (44%), Gaps = 13/165 (7%) Query: 76 WLYH--------KPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLT 125 W +H KP G + DP ++VF LP+ + V VGRLD +T GLLLL+ Sbjct: 55 WPFHARAYLALNKPAGYECS-RDPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLS 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG P + + Y +D +L+ L+ G+ + G V D + Sbjct: 114 DDGQFVHAYTSPKRKVPKTYVATVRHPLDDTQLHALRTGVQLHGEPKPIAAVAADARAPH 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +TV EGK ++K++ + +V L R S G F L LA Sbjct: 174 ALALTV--LEGKYHQVKRMVAAASNRVELLHRESIGGFTLPADLA 216 >gi|255066492|ref|ZP_05318347.1| ribosomal large subunit pseudouridine synthase E [Neisseria sicca ATCC 29256] gi|255049372|gb|EET44836.1| ribosomal large subunit pseudouridine synthase E [Neisseria sicca ATCC 29256] Length = 149 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 31/93 (33%), Positives = 51/93 (54%), Gaps = 6/93 (6%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + +KP G++ S + + D +LP + GRLD ++EGLLLLTNDG L Sbjct: 6 LIVLNKPYGVICQFSAHEKYGCLKDYVSLPDFYP----AGRLDTDSEGLLLLTNDGRLQA 61 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + P + + Y + G D+ KL++L++G+ Sbjct: 62 RIADPKFKLEKTYWAQVEGSPDEAKLDMLRRGV 94 >gi|124268226|ref|YP_001022230.1| ribosomal small subunit pseudouridine synthase A [Methylibium petroleiphilum PM1] gi|124261001|gb|ABM95995.1| ribosomal small subunit pseudouridine synthase A [Methylibium petroleiphilum PM1] Length = 233 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 58/228 (25%), Positives = 96/228 (42%), Gaps = 11/228 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 R+S+V+ G +RR+ +I V+V G +++ + + D + V G ++ Sbjct: 2 RISQVLFSQGFGTRRDCAGLIHAGAVEVAGRVVDDPDEELPTEDLVFSVQGRAWPFHDKA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 L L HKP + P V LP+ + VGRLD +T G LLLT+DG L Sbjct: 62 -LVLLHKPTHYECSQK-PRHHPGVLSLLPTPLRVRGLQPVGRLDEDTTGALLLTDDGTLI 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV--TLDTQKGSNAWV 189 L P +VY + + +++ L +G+V+ D Q ++ + Sbjct: 120 HRLTSPKHHVPKVYEITAKHALADEQIARLTEGVVLD----DDPQPVRAAAAERTGEFTL 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L EGK ++K++ + L R G L L G R V Sbjct: 176 RLTLTEGKYHQVKRMLAAVGNRCEALHRSRIGALALDDLPVGQWRWVG 223 >gi|113971512|ref|YP_735305.1| ribosomal small subunit pseudouridine synthase A [Shewanella sp. MR-4] gi|113886196|gb|ABI40248.1| ribosomal small subunit pseudouridine synthase A [Shewanella sp. MR-4] Length = 235 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 51/229 (22%), Positives = 101/229 (44%), Gaps = 25/229 (10%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K I + +R ++ + + + +GI+++ + V+ + ++G P+ Sbjct: 6 PVRLDKFICESTSLTRSLAKKALHRGEITCDGIVVKDSGFKVLEGMQVCLEGEPISLVGE 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--------RVISVGRLDINTEGLLLL 124 R + +KP+ + ST+ + PS+ S + GRLD +T GL+L+ Sbjct: 66 -RYLMLNKPVDTIC--------STIDEAYPSVLSLLDIEKPETLHIAGRLDADTTGLVLI 116 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---GICYGDMQVTLDT 181 T+DG + + P + Y V VD + + G+ ++ G+ + ++ Sbjct: 117 TSDGQWSHRITSPKKDCGKRYLVTLADPVDGSLVGIFAAGVELRNEDGLTKPAVLEIIEP 176 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 Q V + + EGK ++K++F V L R S G +L + LA Sbjct: 177 Q-----LVRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGRIELDSDLA 220 >gi|241767931|ref|ZP_04765482.1| pseudouridine synthase [Acidovorax delafieldii 2AN] gi|241360905|gb|EER57713.1| pseudouridine synthase [Acidovorax delafieldii 2AN] Length = 142 Score = 51.6 bits (122), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 41/144 (28%), Positives = 68/144 (47%), Gaps = 23/144 (15%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV---FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 RL ++KP G+++ + +GR + +LP ++ GRLD ++EGLLLLT+DG L Sbjct: 4 RLIRFNKPYGVLSQFTA-EGRWQGLKDYIDLPGVYV----AGRLDADSEGLLLLTSDGKL 58 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG----- 184 + P + + Y V+ G D+ L L+ G+V+ G L+ Sbjct: 59 QARIADPRFKMEKTYWVQVEGIPDEAALAALRHGVVLNDGPTLPARARLLEPAPAVWPRN 118 Query: 185 ---------SNAWVTVGLREGKNR 199 AW+ + +REG+NR Sbjct: 119 PPIRERKAIPTAWIELAIREGRNR 142 >gi|188495145|ref|ZP_03002415.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli 53638] gi|188490344|gb|EDU65447.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli 53638] Length = 104 Score = 51.6 bits (122), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 28/67 (41%), Positives = 45/67 (67%), Gaps = 3/67 (4%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL-A 131 TR+ L++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTN+G L A Sbjct: 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQA 96 Query: 132 RVLELPS 138 R++ LP+ Sbjct: 97 RLVMLPT 103 >gi|182412551|ref|YP_001817617.1| RNA-binding S4 domain-containing protein [Opitutus terrae PB90-1] gi|177839765|gb|ACB74017.1| RNA-binding S4 domain protein [Opitutus terrae PB90-1] Length = 237 Score = 51.6 bits (122), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 65/228 (28%), Positives = 103/228 (45%), Gaps = 10/228 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ +++A G SRRE I RV + G + + D + +DG PL + Sbjct: 2 RRLDQLLANLGYCSRREARSWIEAGRVTIGGEAANDSGQKAAAAD-VRIDGEPLDHPDGL 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTNDGG 129 L L+ +GLV +H + +G ++ LP + R V SVGRLD T GLLLLT+ Sbjct: 61 LLLLHKP-LGLVCSHDEREG-PNIYSLLPERWRRRNPAVTSVGRLDKETSGLLLLTDQSL 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAW 188 L L P + +VYR + D + L G + ++G + L A Sbjct: 119 LVHRLTSPKHKVPKVYRASVDRDLSPDLVPLFASGTLQLEGEAHPCAPAELRLLGPREAE 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 +T L EG+ +++++ V L R +G L L G+ RE+ Sbjct: 179 LT--LTEGRYHQVRRMLAACGLTVLTLHRARFGHLALDDLAPGAWREL 224 >gi|328463102|gb|EGF34868.1| 16S pseudouridylate synthase [Lactobacillus helveticus MTCC 5463] Length = 170 Score = 51.6 bits (122), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 42/151 (27%), Positives = 72/151 (47%), Gaps = 4/151 (2%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 +KP G+++T + R+ + P + ++ VGRLD +T LLLLTNDG L L P Sbjct: 2 NKPKGVLSTTENRSQRTVISLLDPQDRYQGIVPVGRLDKDTTDLLLLTNDGQLNHELLAP 61 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNA--WVTVGLR 194 + ++Y + G D + + G+ + G + + Q N + + + Sbjct: 62 NKHVAKIYHAKIAGVADSNTVKTFATGMTLGDGTKLKTVTFNVLKQDVENGSSEIEIEIS 121 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EGK +IK++F +V L R+S G +L Sbjct: 122 EGKYHQIKRMFSVVGMEVVELERVSMGKLRL 152 >gi|167944991|ref|ZP_02532065.1| ribosomal large subunit pseudouridine synthase B [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 88 Score = 51.6 bits (122), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 29/79 (36%), Positives = 47/79 (59%), Gaps = 5/79 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A AG+ SRRE+E I++ R++VNG + V+ +D I +DG P + Sbjct: 10 ERLQKVLANAGVGSRREIEGWISEGRIEVNGETA-KLGQRVVGSDRIRIDGRPFSQKRME 68 Query: 70 AERTRLWLYHKPIGLVTTH 88 A R+ +Y+KP G + T Sbjct: 69 APERRVLVYNKPEGELVTR 87 >gi|284007248|emb|CBA72545.1| ribosomal small subunit pseudouridine synthase A [Arsenophonus nasoniae] Length = 231 Score = 51.6 bits (122), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 55/227 (24%), Positives = 103/227 (45%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +V V+ +++ + + + DGV L+ R Sbjct: 3 RLDKFLSQQLTISRGLVIRELRAGKVMVDNEIIKTGSYQITPEMIVSYDGVVLQHIIGPR 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V + D + + F + P+I +++ GRLDI+T GL+++T+DG Sbjct: 63 YFMLNKPQGYVCSTVDSVNLTILSFIDEPAI-TKLHIAGRLDIDTTGLVIITDDGKWTHK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V + + GI ++G L S+ V + + Sbjct: 122 MISPKHHCEKTYLVTLAQPVSTELADKFLAGIWLKGEKLPTKPAKLSIV--SSKQVRLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVSKK 239 EG+ ++K++F V L R G L L AG R ++++ Sbjct: 180 SEGRYHQVKRMFAAVGNHVCALHRERIGGIYLDPALRAGEYRSLTQE 226 >gi|217974709|ref|YP_002359460.1| pseudouridine synthase [Shewanella baltica OS223] gi|217499844|gb|ACK48037.1| pseudouridine synthase [Shewanella baltica OS223] Length = 250 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 51/227 (22%), Positives = 99/227 (43%), Gaps = 25/227 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I + +R ++ + + + +GI+++ + V + ++G P+ R Sbjct: 23 RLDKFICESTPLTRSLAKKALHRGDITCDGIVVKDSGFKVTEGMRVCLEGEPIALV-GVR 81 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS--------VGRLDINTEGLLLLTN 126 + +KP+ + ST+ + PS+ S V GRLD +T GL+L+T Sbjct: 82 YLMLNKPVDTIC--------STIDETYPSVLSLVDVPKPETLHIAGRLDADTTGLVLITT 133 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---GICYGDMQVTLDTQK 183 DG + + P + + Y V+ VD + + G+ ++ G+ + ++ Q Sbjct: 134 DGQWSHKITSPKKECGKRYLVQLADPVDASLIAIFAAGVELRGEDGLTKPALLEIIEPQ- 192 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + + EGK ++K++F V L R S G +L LA Sbjct: 193 ----LVRLTITEGKYHQVKRMFAAVGNHVQGLHRESVGQIELDPALA 235 >gi|281202742|gb|EFA76944.1| hypothetical protein PPL_09696 [Polysphondylium pallidum PN500] Length = 614 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 40/170 (23%), Positives = 78/170 (45%), Gaps = 12/170 (7%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISV-GRLDINTEGLLLLTNDGGLA-RV 133 HKP G + +++ ++D LP F++ +SV GRLD GL+L++ DG + R+ Sbjct: 180 HKPNGYICSNAREGDHKIIYDLLPPEFAKRLPTLSVAGRLDKWVTGLVLMSQDGKIVERI 239 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGSNAWV 189 + + ++Y V ++ + G ++ + C LD + Sbjct: 240 ITPKDDSFGKIYDVVCKAPFKGNEAEAFESGTMMLRSEEEPCKAAKFEVLDNDRN---LA 296 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + L EG+ +++++ + K + RI GP LG L AG R ++++ Sbjct: 297 RLTLYEGRYHQVRRMMAALDNKAMEIHRIKVGPIDLGDLPAGKWRYLTEE 346 >gi|294141981|ref|YP_003557959.1| ribosomal small subunit pseudouridine synthase A [Shewanella violacea DSS12] gi|293328450|dbj|BAJ03181.1| ribosomal small subunit pseudouridine synthase A [Shewanella violacea DSS12] Length = 238 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 55/223 (24%), Positives = 99/223 (44%), Gaps = 23/223 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K + ++ SR E +I +V+VN +++ A V + I + G L A +R Sbjct: 2 RLDKFLCKSTDFSRAESIDLIEAGQVRVNELVIVTAQTQVHENNCIMLAGRRL-VARPSR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS--------VGRLDINTEGLLLLTN 126 + HKPI + ++ D D PS+ + + GRLD +T GL+L+T+ Sbjct: 61 YIMLHKPIDTLCSNVDGD--------YPSVMNYIQVDRAEDLHITGRLDADTTGLVLITD 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL----KKGIVIQGICYGDMQVTLDTQ 182 DG + + P + YRV ++ ++ L ++G+ +QG + L+ Sbjct: 113 DGRWSFNIINPKYHCEKTYRVTLRDPIEDGDIDELVSRFEQGLQLQGEKKLTLAAKLEVI 172 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 +T L EG+ ++K++F +V L R G L Sbjct: 173 TPHQVLLT--LSEGRYHQVKRMFFTVGNRVVGLHRQQVGKLSL 213 >gi|303289291|ref|XP_003063933.1| predicted protein [Micromonas pusilla CCMP1545] gi|226454249|gb|EEH51555.1| predicted protein [Micromonas pusilla CCMP1545] Length = 126 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 39/126 (30%), Positives = 61/126 (48%), Gaps = 16/126 (12%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 V VGRLD +++GL+LLT+DG + L P+ + + Y V +++L L+ G+VI Sbjct: 1 VFPVGRLDRDSDGLVLLTDDGRVPDALLDPTRKATKTYHVDVRPAPSEEELRRLRGGVVI 60 Query: 168 Q------GICY---------GDMQVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWK 211 + G+ GD Q+G N + EG+NR+I+K+ E Sbjct: 61 ETTQQRGGVSTTAPTVRARRGDSLSNPTRQRGLPNHIARIRDAEGRNRQIRKMCEAIGVD 120 Query: 212 VNRLIR 217 V RL R Sbjct: 121 VLRLRR 126 >gi|307304763|ref|ZP_07584513.1| pseudouridine synthase [Shewanella baltica BA175] gi|306912165|gb|EFN42589.1| pseudouridine synthase [Shewanella baltica BA175] Length = 250 Score = 51.2 bits (121), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 51/227 (22%), Positives = 99/227 (43%), Gaps = 25/227 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I + +R ++ + + + +GI+++ + V + ++G P+ R Sbjct: 23 RLDKFICESTPLTRSLAKKALHRGDITCDGIVVKDSGFKVTEGMRVCLEGEPIALV-GVR 81 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS--------VGRLDINTEGLLLLTN 126 + +KP+ + ST+ + PS+ S V GRLD +T GL+L+T Sbjct: 82 YLMLNKPVDTIC--------STIDETYPSVLSLVDVPKPDTLHIAGRLDADTTGLVLITT 133 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---GICYGDMQVTLDTQK 183 DG + + P + + Y V+ VD + + G+ ++ G+ + ++ Q Sbjct: 134 DGQWSHKITSPKKECGKRYLVQLADPVDAGLIAIFAAGVELRGEDGLTKPALLEIIEPQ- 192 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + + EGK ++K++F V L R S G +L LA Sbjct: 193 ----LVRLTITEGKYHQVKRMFAAVGNHVQGLHRESVGQIELDPALA 235 >gi|126172935|ref|YP_001049084.1| pseudouridine synthase [Shewanella baltica OS155] gi|125996140|gb|ABN60215.1| ribosomal small subunit pseudouridine synthase A [Shewanella baltica OS155] Length = 246 Score = 50.8 bits (120), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 51/227 (22%), Positives = 99/227 (43%), Gaps = 25/227 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I + +R ++ + + + +GI+++ + V + + G P+ R Sbjct: 19 RLDKFICESTPLTRSLAKKALHRGDITCDGIVVKDSGFKVTEGMRVCLQGEPIALV-GVR 77 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS--------VGRLDINTEGLLLLTN 126 + +KP+ + ST+ + PS+ S V GRLD +T GL+L+T+ Sbjct: 78 YLMLNKPVDTIC--------STIDETYPSVLSLVDVPKPETLHIAGRLDADTTGLVLVTS 129 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---GICYGDMQVTLDTQK 183 DG + + P + + Y V+ VD + + G+ ++ G+ + ++ Q Sbjct: 130 DGQWSHKITSPKKECGKRYLVQLADPVDAGLIAIFAAGVELRGEDGLTKPALLEIIEPQ- 188 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + + EGK ++K++F V L R S G +L LA Sbjct: 189 ----LVRLTITEGKYHQVKRMFAAVGNHVQELHRESVGQIELDPALA 231 >gi|160876850|ref|YP_001556166.1| pseudouridine synthase [Shewanella baltica OS195] gi|160862372|gb|ABX50906.1| pseudouridine synthase [Shewanella baltica OS195] Length = 256 Score = 50.8 bits (120), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 51/227 (22%), Positives = 99/227 (43%), Gaps = 25/227 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I + +R ++ + + + +GI+++ + V + ++G P+ R Sbjct: 29 RLDKFICESTPLTRSLAKKALHRGDITCDGIVVKDSGFKVTEGMRVCLEGEPIALV-GVR 87 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS--------VGRLDINTEGLLLLTN 126 + +KP+ + ST+ + PS+ S V GRLD +T GL+L+T Sbjct: 88 YLMLNKPVDTIC--------STIDETYPSVLSLVDVPKPETLHIAGRLDADTTGLVLITT 139 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---GICYGDMQVTLDTQK 183 DG + + P + + Y V+ VD + + G+ ++ G+ + ++ Q Sbjct: 140 DGQWSHKITSPKKECGKRYLVQLADPVDAGLIAVFAAGVELRGEDGLTKPALLEIIEPQ- 198 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + + EGK ++K++F V L R S G +L LA Sbjct: 199 ----LVRLTITEGKYHQVKRMFAAVGNHVQGLHRESVGQIELDPALA 241 >gi|91214888|ref|ZP_01251861.1| RNA pseudouridine synthase family protein [Psychroflexus torquis ATCC 700755] gi|91187315|gb|EAS73685.1| RNA pseudouridine synthase family protein [Psychroflexus torquis ATCC 700755] Length = 187 Score = 50.8 bits (120), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 39/136 (28%), Positives = 61/136 (44%), Gaps = 26/136 (19%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 ++SVGRLD ++EGLL LT DG + + S+ + Y V+ G ++ + L KG+ I Sbjct: 39 IMSVGRLDQDSEGLLFLTTDGKFSH--HITSSGMEKEYWVQVDGIAKKEHVEKLSKGLKI 96 Query: 168 QGICYGDMQVTLDTQ----------------------KGSNAWVTVGLREGKNREIKKVF 205 YG TL Q G +W+++ L EGK R+++K+ Sbjct: 97 S--IYGKPYQTLACQVKLMEPPQDLPKRAKDIRNENDHGVTSWLSITLTEGKFRQVRKMT 154 Query: 206 EFFNWKVNRLIRISYG 221 RL+R G Sbjct: 155 AKIGLPTLRLVRYRIG 170 >gi|239999156|ref|ZP_04719080.1| Ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae 35/02] gi|240113135|ref|ZP_04727625.1| Ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae MS11] gi|240115891|ref|ZP_04729953.1| Ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae PID18] gi|240118189|ref|ZP_04732251.1| Ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae PID1] gi|240125928|ref|ZP_04738814.1| Ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae SK-92-679] gi|240128440|ref|ZP_04741101.1| Ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae SK-93-1035] Length = 197 Score = 50.8 bits (120), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 46/189 (24%), Positives = 81/189 (42%), Gaps = 14/189 (7%) Query: 50 AAVNVMSTDHIEVDGVPLRKAERTRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 A ++ + +++DG + + L +KP T+H P +VF P + Sbjct: 6 ADIDSSYVETLDIDGEAVTVVPEPYFYILLNKPEDYETSHK-PKHYRSVFSLFPDNMRNI 64 Query: 109 I--SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 +VGRLD +T G+LL+TNDG L L PS + ++Y V + LK G+ Sbjct: 65 DMQAVGRLDADTTGVLLITNDGKLNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVP 124 Query: 167 I----QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP 222 + + +C D + T + + + EGK ++K++ +V L R + Sbjct: 125 LHDENETVCAADAVLENPTT------LLLTITEGKYHQVKRMVAAAGNRVQHLHRRRFAH 178 Query: 223 FQLGTLLAG 231 + L G Sbjct: 179 LETENLKPG 187 >gi|315269053|gb|ADT95906.1| pseudouridine synthase [Shewanella baltica OS678] Length = 250 Score = 50.8 bits (120), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 51/227 (22%), Positives = 99/227 (43%), Gaps = 25/227 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I + +R ++ + + + +GI+++ + V + ++G P+ R Sbjct: 23 RLDKFICESTPLTRSLAKKALHRGDITCDGIVVKDSGFKVTEGMRVCLEGEPIALV-GVR 81 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS--------VGRLDINTEGLLLLTN 126 + +KP+ + ST+ + PS+ S V GRLD +T GL+L+T Sbjct: 82 YLMLNKPVDTIC--------STIDETYPSVLSLVDVPKPETLHIAGRLDADTTGLVLITT 133 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---GICYGDMQVTLDTQK 183 DG + + P + + Y V+ VD + + G+ ++ G+ + ++ Q Sbjct: 134 DGQWSHKITSPKKECGKRYLVQLADPVDAGLIAVFAAGVELRGEDGLTKPALLEIIEPQ- 192 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + + EGK ++K++F V L R S G +L LA Sbjct: 193 ----LVRLTITEGKYHQVKRMFAAVGNHVQGLHRESVGQIELDPALA 235 >gi|328462442|gb|EGF34470.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus rhamnosus MTCC 5462] Length = 102 Score = 50.8 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 30/77 (38%), Positives = 40/77 (51%) Query: 93 GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 GR V D + R+ VGRLD +T GLL++TNDG LA L P + Y + G Sbjct: 3 GRKVVTDYFEDVQERLYPVGRLDYDTSGLLVMTNDGELANHLMHPRYALEKKYVAKVEGI 62 Query: 153 VDQDKLNLLKKGIVIQG 169 ++ L LK G+ I G Sbjct: 63 PNRPALAPLKTGVSIDG 79 >gi|153002130|ref|YP_001367811.1| pseudouridine synthase [Shewanella baltica OS185] gi|151366748|gb|ABS09748.1| pseudouridine synthase [Shewanella baltica OS185] Length = 246 Score = 50.8 bits (120), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 51/227 (22%), Positives = 99/227 (43%), Gaps = 25/227 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I + +R ++ + + + +GI+++ + V + ++G P+ R Sbjct: 19 RLDKFICESTPLTRSLAKKALHRGDITCDGIVVKDSGFKVTEGMRVCLEGEPIALV-GVR 77 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS--------VGRLDINTEGLLLLTN 126 + +KP+ + ST+ + PS+ S V GRLD +T GL+L+T Sbjct: 78 YLMLNKPVDTIC--------STIDETYPSVLSLVDVPKPETLHIAGRLDADTTGLVLITT 129 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---GICYGDMQVTLDTQK 183 DG + + P + + Y V+ VD + + G+ ++ G+ + ++ Q Sbjct: 130 DGQWSHKITSPKKECGKRYLVQLADPVDAGLIAVFAAGVELRGEDGLTKPALLEIIEPQ- 188 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + + EGK ++K++F V L R S G +L LA Sbjct: 189 ----LVRLTITEGKYHQVKRMFAAVGNHVQGLHRESVGQIELDPALA 231 >gi|85703587|ref|ZP_01034691.1| RNA pseudouridylate synthase [Roseovarius sp. 217] gi|85672515|gb|EAQ27372.1| RNA pseudouridylate synthase [Roseovarius sp. 217] Length = 180 Score = 50.4 bits (119), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 46/181 (25%), Positives = 81/181 (44%), Gaps = 24/181 (13%) Query: 74 RLWLYHKPIGLVT------THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 RL L++KP +++ + P + F ++P RV GRLD ++EGLL+LT+D Sbjct: 3 RLILFNKPYDVLSQFTGRGSADSPRATLSDFIDVP----RVYPAGRLDRDSEGLLVLTDD 58 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV------TLDT 181 G L + P + + Y + G D L L++G+ + +V TL Sbjct: 59 GQLQARIANPRFKTEKTYFAQVEGLPDDATLAALRQGVTLNDGPTRPARVDRMEPPTLWP 118 Query: 182 QKG--------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + + W+ + + EG+NR+++++ RLIR G + L + G Sbjct: 119 RTPPVRFRKSVPDCWLKLTISEGRNRQVRRMTAHIGHPTLRLIRWRIGDWTLDGIGPGQW 178 Query: 234 R 234 R Sbjct: 179 R 179 >gi|92114073|ref|YP_574001.1| ribosomal small subunit pseudouridine synthase A [Chromohalobacter salexigens DSM 3043] gi|91797163|gb|ABE59302.1| ribosomal small subunit pseudouridine synthase A [Chromohalobacter salexigens DSM 3043] Length = 232 Score = 50.4 bits (119), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 55/227 (24%), Positives = 109/227 (48%), Gaps = 5/227 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ + +R ++ + + V+VNG +++ AA + + G PL + R Sbjct: 2 RLDRFLSESTELTRSLAKKALHRGEVEVNGDVVKNAAFKLGDEHVVRWLGEPLARIG-VR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G T + P +V + L + R+ GRLD++T GL+L+T DG + Sbjct: 61 YLMLNKPAGYECT-TRPGRYPSVIELLDVAKRGRLHIAGRLDVDTTGLVLITEDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW-VTVG 192 L P + + Y V + + L +G++++G + L+ ++ V + Sbjct: 120 LTSPRRRCDKHYLVTLARPLAEGAETALAEGLMLEGEDKPTLPARLERLDDADGVRVRLV 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 ++EG+ +IK++F + +V L R G L L AG RE+++ Sbjct: 180 IQEGRFHQIKRMFAALDNEVVALHRERIGEIALDPALAAGEWRELTQ 226 >gi|145348269|ref|XP_001418577.1| predicted protein [Ostreococcus lucimarinus CCE9901] gi|144578806|gb|ABO96870.1| predicted protein [Ostreococcus lucimarinus CCE9901] Length = 230 Score = 50.4 bits (119), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 114/234 (48%), Gaps = 27/234 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG--ILLERAAVNVMSTDHIEVDGVPLRKA-- 70 R+SK +A G+ASRR + +I RVKVNG + + VN ++ D + VDG + Sbjct: 1 RLSKALASLGVASRRGADDLIFGGRVKVNGETVTAPQTKVN-LNADVVMVDGKIVEGGVN 59 Query: 71 --ERTRLWLYHKPIGLV-TTHSDPDGRSTVFD---------------NLPSIFSRVISVG 112 + ++ +KP G V +T S+ TV+D LP R+ +VG Sbjct: 60 FVKEHAYFMLNKPKGFVCSTKSNSAQGKTVYDLFEQWRDEFKAAYPGKLP---PRLFTVG 116 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLD+ T GLLLLT DG ++ + PS++ ++ Y V + + + ++ + KG + G Sbjct: 117 RLDVATTGLLLLTTDGDWSQRVAHPSSEVVKQYVVTANNKPTRAQIAAMAKGTEVDGARV 176 Query: 173 GDMQV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++V ++ G + V + +G+NRE++ + V L R G ++ Sbjct: 177 VPVRVESMGADGGPANRILVEVVDGRNREVRVLCADAGVDVKNLKRTRVGGLRM 230 >gi|205373780|ref|ZP_03226582.1| ribosomal large subunit pseudouridine synthaseB (pseudouridylate synthase) (uracil hydrolyase) [Bacillus coahuilensis m4-4] Length = 131 Score = 50.4 bits (119), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 31/116 (26%), Positives = 58/116 (50%), Gaps = 2/116 (1%) Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 +TNDG + +L P + + Y + G + +L L++GI ++ +V + Sbjct: 1 MTNDGEFSNLLTHPKYEIDKTYIAKIKGIPTRQELTKLQRGIKLEDGMTAPAKVKFISAD 60 Query: 184 GS--NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 S V + + EG+NR+++++FE + V +L R +G L L AG RE++ Sbjct: 61 RSKNTCIVELTIHEGRNRQVRRMFEALGFPVMKLRRERFGTLTLKGLNAGEARELT 116 >gi|304410666|ref|ZP_07392284.1| pseudouridine synthase [Shewanella baltica OS183] gi|304351150|gb|EFM15550.1| pseudouridine synthase [Shewanella baltica OS183] Length = 250 Score = 50.4 bits (119), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 51/227 (22%), Positives = 99/227 (43%), Gaps = 25/227 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I + +R ++ + + + +GI+++ + V + + G P+ R Sbjct: 23 RLDKFICESTPLTRSLAKKALHRGDITCDGIVVKDSGFKVTEGMRVYLQGEPIALV-GVR 81 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS--------VGRLDINTEGLLLLTN 126 + +KP+ + ST+ + PS+ S V GRLD +T GL+L+T+ Sbjct: 82 YLMLNKPVDTIC--------STIDETYPSVLSLVDVPKPETLHIAGRLDADTTGLVLVTS 133 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---GICYGDMQVTLDTQK 183 DG + + P + + Y V+ VD + + G+ ++ G+ + ++ Q Sbjct: 134 DGQWSHKITSPKKECGKRYLVQLADPVDAGLIAIFAAGVELRGEDGLTKPALLEIIEPQ- 192 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + + EGK ++K++F V L R S G +L LA Sbjct: 193 ----LVRLTITEGKYHQVKRMFAAVGNHVQGLHRESVGQIELDPALA 235 >gi|323435911|ref|ZP_01048953.2| pseudouridylate synthase [Dokdonia donghaensis MED134] gi|321496226|gb|EAQ40187.2| pseudouridylate synthase [Dokdonia donghaensis MED134] Length = 190 Score = 50.1 bits (118), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 35/133 (26%), Positives = 63/133 (47%), Gaps = 21/133 (15%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG--I 165 ++VGRLD ++EGLL +T DG L+ + + + Y + G + + + L +G I Sbjct: 41 TMAVGRLDEHSEGLLFMTTDGKLSHTINTSGVE--KEYYAQVDGAITDEAILALTQGVEI 98 Query: 166 VIQGICY-----------GD------MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 ++G Y GD + D + G W+++ + EGK R+++K+ Sbjct: 99 SVEGKKYITKPCKARRIDGDPGFPERSKKIRDLRHGPAPWISITITEGKFRQVRKMTSAV 158 Query: 209 NWKVNRLIRISYG 221 + RL+RI G Sbjct: 159 GFATLRLVRIKIG 171 >gi|127513903|ref|YP_001095100.1| pseudouridine synthase [Shewanella loihica PV-4] gi|126639198|gb|ABO24841.1| ribosomal small subunit pseudouridine synthase A [Shewanella loihica PV-4] Length = 230 Score = 50.1 bits (118), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 52/224 (23%), Positives = 98/224 (43%), Gaps = 19/224 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I+ + +R ++ + + V V+G +++ + + + + +DG P+ R Sbjct: 2 RLDKFISESTQLTRSLAKKALHRGEVTVDGQVIKDGSFKLNESQQVCLDGEPISLI-GPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--------RVISVGRLDINTEGLLLLTN 126 + HKP + STV + PS+ + + GRLD +T GL+L+T+ Sbjct: 61 FIMLHKPADTLC--------STVDEVYPSVLNLLDLPHKEDLHIAGRLDADTTGLVLITS 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + P + + Y V+ + + + G+ ++ TL+ Sbjct: 113 DGQWSHRVTSPKRECGKTYLVQLADPLKAEWVEQFATGLALRSEEGLTKPATLELLGSHE 172 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 A +T+ EGK ++K++F KV L R S G L LA Sbjct: 173 ARLTI--TEGKYHQVKRMFAAVGNKVVGLHRESVGEIVLDESLA 214 >gi|149191532|ref|ZP_01869780.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio shilonii AK1] gi|148834657|gb|EDL51646.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio shilonii AK1] Length = 164 Score = 49.7 bits (117), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 42/159 (26%), Positives = 73/159 (45%), Gaps = 5/159 (3%) Query: 83 GLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQW 141 G V +H D T F L + + GRLD++T GL+L+T+DG + + P + Sbjct: 1 GFVCSHEDG-FNHTAFVLLDEVKMENLHFAGRLDVDTTGLVLITDDGQWSHRITSPKHKC 59 Query: 142 LRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREI 201 + YRV V + + ++GI ++ + L+ +T+ EGK ++ Sbjct: 60 AKTYRVWLADPVQDNYIKAFEEGIELRNEKAPTLPAQLEIIDEKEVLLTI--HEGKYHQV 117 Query: 202 KKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKK 239 K++F KV L R S G L +L G R ++++ Sbjct: 118 KRMFAALGNKVEGLHRESVGDIVLDEMLEPGEYRYLTQE 156 >gi|113955440|ref|YP_730120.1| pseudouridine synthase [Synechococcus sp. CC9311] gi|113882791|gb|ABI47749.1| possible pseudouridine synthase [Synechococcus sp. CC9311] Length = 160 Score = 49.7 bits (117), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 41/141 (29%), Positives = 66/141 (46%), Gaps = 23/141 (16%) Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---------IC 171 +LLLT++G L + L P R Y V+ G ++ +LN L++G+ IQG I Sbjct: 1 MLLLTDNGRLQQRLTDPRFGHWRQYWVQVEGCANEVQLNQLQRGVTIQGRLTRPAKARIL 60 Query: 172 YGDMQVTLDTQKG--------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG-- 221 D + T+ +K W+ + LREG+NR+++++ RLIR S Sbjct: 61 SDDERQTISDRKPPIRERRSIPTCWLCLELREGRNRQVRRMTAAVGLPTLRLIRHSIDLM 120 Query: 222 ----PFQLGTLLAGSTREVSK 238 + L AG REV++ Sbjct: 121 DGEIVLSIKDLSAGMWREVTR 141 >gi|258544931|ref|ZP_05705165.1| RNA pseudouridine synthase family protein [Cardiobacterium hominis ATCC 15826] gi|258519851|gb|EEV88710.1| RNA pseudouridine synthase family protein [Cardiobacterium hominis ATCC 15826] Length = 141 Score = 49.7 bits (117), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 29/93 (31%), Positives = 53/93 (56%), Gaps = 6/93 (6%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFD--NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L +KP ++ +D GR+T+ D ++P+++ G LD ++EGL++LT+DG L Sbjct: 30 LILLNKPFNVLCQFTDKSGRATLADYVDVPNVYP----AGLLDFDSEGLVVLTDDGRLQA 85 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + P + + Y V+ G+ D+ L L+ G+ Sbjct: 86 RIADPRFKLAKRYWVQVEGEADEAALVQLRAGV 118 >gi|89901747|ref|YP_524218.1| pseudouridine synthase Rsu [Rhodoferax ferrireducens T118] gi|89346484|gb|ABD70687.1| ribosomal small subunit pseudouridine synthase A [Rhodoferax ferrireducens T118] Length = 247 Score = 49.3 bits (116), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 60/235 (25%), Positives = 98/235 (41%), Gaps = 25/235 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKV-------NGILLERAAVNVMSTD-HIEVDGVP 66 ++ ++ G +RR MI Q V V ++ +AA ++ + V GV Sbjct: 2 QLQDILYSQGFGTRRVCAGMIQQGLVGVYESNQALAPVIYTQAATEFIAEGLRLRVQGVD 61 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---------SRVISVGRLDIN 117 E+ + L HKP + P +V+ LPS V +VGRLD + Sbjct: 62 WPYHEKAYVML-HKPSATECSQK-PSTYPSVYTLLPSALRLRPQKGAVQGVQAVGRLDQD 119 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLLLT+DG + P +VY V +D ++ L G+V+ D + Sbjct: 120 TTGLLLLTDDGQFIHRMNSPRHHVPKVYEVTVKHPLDDTQVARLLAGVVLD----DDPKP 175 Query: 178 --TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + S+ + + L EGK ++K++ + +V L R G +L LA Sbjct: 176 VRAAAAEAVSSHHLRLTLTEGKYHQVKRMVAAVSNRVEALHRSQIGGLRLPDDLA 230 >gi|302879744|ref|YP_003848308.1| pseudouridine synthase [Gallionella capsiferriformans ES-2] gi|302582533|gb|ADL56544.1| pseudouridine synthase [Gallionella capsiferriformans ES-2] Length = 241 Score = 49.3 bits (116), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 48/219 (21%), Positives = 91/219 (41%), Gaps = 13/219 (5%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + +++ G +R+ ++IA +++ G + + TD +E R R+ Sbjct: 6 LDRILHTQGFGTRKYCRQLIAAGAIRIGGDTITDTNTPI-ETDGLEFSVDDEHCIYRERI 64 Query: 76 WL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP + + P V LP F+R V VGRLD +T GLLL+++DG Sbjct: 65 YVALNKPANIECSRK-PSHHPGVLSILPDQFTRRDVQPVGRLDHDTTGLLLMSDDGAFIH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---GICYGDMQVTLDTQKGSNAWV 189 P +VY + V + + L G+ + G ++ +D + Sbjct: 124 TQSSPKHHVPKVYVATTYAPVTGELIERLLAGVKLHDEPGTLAAEICRMIDDHH-----L 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + L +GK ++K++ + L R G +L L Sbjct: 179 EIVLEQGKYHQVKRMLAAADNHCTALNRSQIGNLKLAEL 217 >gi|291336629|gb|ADD96175.1| hypothetical protein [uncultured organism MedDCM-OCT-S05-C185] Length = 74 Score = 49.3 bits (116), Expect = 9e-04, Method: Compositional matrix adjust. Identities = 21/37 (56%), Positives = 29/37 (78%) Query: 209 NWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + +VNRLIR+++GPFQLG L AG+ EV + L+EQL Sbjct: 5 DLQVNRLIRVAFGPFQLGNLSAGAVEEVPENKLKEQL 41 >gi|240013936|ref|ZP_04720849.1| Ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae DGI18] gi|240016378|ref|ZP_04722918.1| Ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae FA6140] gi|240080497|ref|ZP_04725040.1| Ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae FA19] gi|240121505|ref|ZP_04734467.1| Ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae PID24-1] gi|240123737|ref|ZP_04736693.1| Ribosomal small subunit pseudouridine synthase A [Neisseria gonorrhoeae PID332] Length = 197 Score = 49.3 bits (116), Expect = 9e-04, Method: Compositional matrix adjust. Identities = 45/189 (23%), Positives = 80/189 (42%), Gaps = 14/189 (7%) Query: 50 AAVNVMSTDHIEVDGVPLRKAERTRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 A ++ + +++DG + + L +KP T+H P +VF P + Sbjct: 6 ADIDSSYVETLDIDGEAVTVVPEPYFYILLNKPEDYETSHK-PKHYRSVFSLFPDNMRNI 64 Query: 109 I--SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 +VGRLD +T G+LL+TNDG L L PS + ++Y V + LK G+ Sbjct: 65 DMQAVGRLDADTTGVLLITNDGKLNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVP 124 Query: 167 I----QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP 222 + + +C D + T + + + EGK ++K++ + L R + Sbjct: 125 LHDENETVCAADAVLENPTT------LLLTITEGKYHQVKRMVAAAGNRAQHLHRRRFAH 178 Query: 223 FQLGTLLAG 231 + L G Sbjct: 179 LETENLKPG 187 >gi|325115730|emb|CBZ51285.1| pseudouridine synthase, related [Neospora caninum Liverpool] Length = 567 Score = 49.3 bits (116), Expect = 0.001, Method: Compositional matrix adjust. Identities = 31/122 (25%), Positives = 59/122 (48%), Gaps = 1/122 (0%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIV 166 +I V L + +G +LLTNDG A ++ P + V+ VR G + ++ + G+ Sbjct: 253 LIVVRPLPVEADGFVLLTNDGDFAHAVQKPENRVQSVFDVRVSGTLPSYRVWESWRCGVA 312 Query: 167 IQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 G +G + V L + AW+ + L E +++ + K+ RL R + GP++ Sbjct: 313 SGGFDFGPVWVELLRAWHNAAWLRLHLVERPGMDLRMLLSSIGLKLRRLRRYAIGPYRAS 372 Query: 227 TL 228 ++ Sbjct: 373 SI 374 >gi|56477113|ref|YP_158702.1| ribosomal small subunit pseudouridine synthase A protein [Aromatoleum aromaticum EbN1] gi|56313156|emb|CAI07801.1| ribosomal small subunit pseudouridine synthase A protein [Aromatoleum aromaticum EbN1] Length = 239 Score = 49.3 bits (116), Expect = 0.001, Method: Compositional matrix adjust. Identities = 53/220 (24%), Positives = 95/220 (43%), Gaps = 11/220 (5%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + +++ G SR+ +I RV ++G + + ++ + D + VD R ++ Sbjct: 3 IERILHSQGFGSRKVCRALIRAGRVTISGQIQDNPFADLPTADLVFTVDRETWRFRDKAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L HKP G + P + VF LP + V +GRLD +T GLLLL++DG Sbjct: 63 LML-HKPSGYECSRQ-PQFHAPVFALLPEPLVNRGVQPIGRLDQDTTGLLLLSDDGQFIH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVT 190 V + ++Y V V++ L G+ + + D + ++ + Sbjct: 121 VWSSGRKRVPKIYEVAVRHPVNETMTEALLAGVQL----HDDPEPVAAAACERTGERSLK 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + EGK ++K++ +V L R G L LA Sbjct: 177 LTITEGKYHQVKRMVAAAGNRVESLHRSGIGGLMLPDDLA 216 >gi|169837001|ref|ZP_02870189.1| pseudouridylate synthase [candidate division TM7 single-cell isolate TM7a] Length = 92 Score = 48.9 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 27/71 (38%), Positives = 37/71 (52%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 + +KPI V + T++ LP F + VGRLD N+ GLLLLTNDG A + Sbjct: 1 MLNKPINYVCSRKQQGKTPTIYSLLPDKFHNLKPVGRLDANSSGLLLLTNDGDFAFRMTH 60 Query: 137 PSTQWLRVYRV 147 P + + Y V Sbjct: 61 PKFKKNKQYNV 71 >gi|160897953|ref|YP_001563535.1| pseudouridine synthase [Delftia acidovorans SPH-1] gi|160363537|gb|ABX35150.1| pseudouridine synthase [Delftia acidovorans SPH-1] Length = 249 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 60/237 (25%), Positives = 93/237 (39%), Gaps = 40/237 (16%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 ++ ++ G RR ++ Q V++ + ST I+ +G LR + Sbjct: 4 QLQDILYSQGFGIRRVCSGLVQQGWVELWDTEANDWVRCLDSTQDIDPEG--LRYRVQGV 61 Query: 75 LWLYHKPIGLVTTHSDPDGR--STVFDNLPSIFSR----------------VISVGRLDI 116 W YH +G V H P G S PSI+S V +VGRLD Sbjct: 62 EWAYHA-LGYVLLHK-PAGTECSQKPSTYPSIYSLLPLPLRLRPNKGAVQGVQAVGRLDQ 119 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-------- 168 +T GLLLL++DG + P ++YRV VD ++ L G+V+ Sbjct: 120 DTTGLLLLSDDGQFIHRMSSPKKHVPKIYRVTTKHPVDASQVQRLLDGVVLDDDPKPVKA 179 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 C + LD + L EGK ++K++ +V L R G +L Sbjct: 180 AACEQVSEHVLD----------LTLTEGKYHQVKRMIAAVGNRVEGLHRWKIGELEL 226 >gi|317969165|ref|ZP_07970555.1| pseudouridine synthase [Synechococcus sp. CB0205] Length = 178 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 39/136 (28%), Positives = 60/136 (44%), Gaps = 20/136 (14%) Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTL 179 +LLT++G L + L PS R Y + G +D LN L+ G+VIQG Q Sbjct: 1 MLLTSNGRLQQRLTDPSWGHWRRYWSQVEGVPSEDALNALRSGLVIQGQRTLPAQAQALQ 60 Query: 180 DT------------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------ 221 D Q +W+ + LREG+NR+++++ RL+R++ Sbjct: 61 DPGWPERDPPIRVRQSIPTSWLQLELREGRNRQVRRMTAAVGLPTLRLLRVAMDLMDGGP 120 Query: 222 PFQLGTLLAGSTREVS 237 P L L G R V+ Sbjct: 121 PLSLDGLAPGQWRSVN 136 >gi|167625168|ref|YP_001675462.1| pseudouridine synthase [Shewanella halifaxensis HAW-EB4] gi|167355190|gb|ABZ77803.1| pseudouridine synthase [Shewanella halifaxensis HAW-EB4] Length = 230 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 50/219 (22%), Positives = 92/219 (42%), Gaps = 19/219 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I + SR ++ + + V NG +++ + V I +DG L R Sbjct: 2 RLDKFICESTSHSRVSAKKALHRGDVTCNGEVVKNSGFKVTDEHEIRLDGEVLTII-GPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV--------GRLDINTEGLLLLTN 126 + +KP+ + ST+ + PS+ S + + GRLD +T GL+L+T Sbjct: 61 FIMLNKPVDTIC--------STIDEEYPSVISLLDVIRPEDLHIAGRLDADTTGLVLITT 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + P + + Y + + D + G+ + L+ + Sbjct: 113 DGQWSHKITSPKKECGKRYLLETAESLSDDLVQQFVDGLQLNNEDGLTKPAELEILAPNQ 172 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 A +T+ EGK ++K++ KV +L R S G +L Sbjct: 173 ARLTI--TEGKYHQVKRMLAAVGNKVTKLHRESVGAIEL 209 >gi|170728059|ref|YP_001762085.1| pseudouridine synthase [Shewanella woodyi ATCC 51908] gi|169813406|gb|ACA87990.1| pseudouridine synthase [Shewanella woodyi ATCC 51908] Length = 230 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 51/224 (22%), Positives = 96/224 (42%), Gaps = 19/224 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I + +R ++ + + V +G +++ + V I ++G PL R Sbjct: 2 RLDKYICESTSLTRSLAKKALHRGDVTCDGKVIKDSGFKVTDKQVICLEGEPL-SVIGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV--------GRLDINTEGLLLLTN 126 + +KP+ + ST+ + PS+ + V GRLD++T GL+L+TN Sbjct: 61 FIMLNKPLDTIC--------STIDEEYPSVLGLLDVVKADELHIAGRLDVDTTGLVLITN 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + P + + Y + + Q+ + G+ + TL+ Sbjct: 113 DGQWSHKITSPKKECGKRYLLETAEPLKQEWVEEFAAGLQLNNEDGLTKPATLEILGSHQ 172 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 A +T+ EGK ++K++ V +L R S G +L LA Sbjct: 173 ARLTI--TEGKYHQVKRMLAAVGNCVTQLHRESVGEIELDESLA 214 >gi|91792450|ref|YP_562101.1| pseudouridine synthase, Rsu [Shewanella denitrificans OS217] gi|91714452|gb|ABE54378.1| ribosomal small subunit pseudouridine synthase A [Shewanella denitrificans OS217] Length = 229 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 54/226 (23%), Positives = 97/226 (42%), Gaps = 21/226 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I A SR ++ + + V +G++++ + V + ++G L Sbjct: 1 MRLDKFITEASELSRSLAKKALHRGDVTCDGVIVKDSGFKVEPGTKVCLEGREL-SLFGV 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV---------GRLDINTEGLLLL 124 R + +KP+ + ST+ + PS+ S +I V GRLD +T GL+L+ Sbjct: 60 RYLMLNKPVDTIC--------STIDEVYPSVLS-LIDVEKASNLHIAGRLDADTTGLVLI 110 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T+DG + P + Y V +D+ + +GI ++ TL+ Sbjct: 111 TSDGQWSHRATSPKKDCGKRYLVEVAEPLDESLIETFAEGIALRNEDGLTKPATLEIIDS 170 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +A +T+ EGK ++K++F V L R G +L LA Sbjct: 171 HHARLTI--TEGKYHQVKRMFAATGNAVINLHRECVGSIELDPGLA 214 >gi|218184438|gb|EEC66865.1| hypothetical protein OsI_33363 [Oryza sativa Indica Group] Length = 513 Score = 48.5 bits (114), Expect = 0.002, Method: Compositional matrix adjust. Identities = 35/104 (33%), Positives = 53/104 (50%), Gaps = 2/104 (1%) Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 P V ++GRLD +T GLLLL++DG + P Q + YRV + Q + + L Sbjct: 44 PGKILGVQTIGRLDQDTTGLLLLSDDGSFIHRVSSPKKQIQKTYRVHAKYDLSQQQKDQL 103 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 KG+V+ + Q+GS +TV EGK +IK++F Sbjct: 104 LKGVVLNDDPKPVIAADCVLQEGSIFDLTV--TEGKYHQIKRMF 145 >gi|270587172|ref|ZP_06221422.1| ribosomal large subunit pseudouridine synthase E [Haemophilus influenzae HK1212] gi|270318484|gb|EFA29582.1| ribosomal large subunit pseudouridine synthase E [Haemophilus influenzae HK1212] Length = 91 Score = 48.5 bits (114), Expect = 0.002, Method: Compositional matrix adjust. Identities = 23/60 (38%), Positives = 43/60 (71%), Gaps = 6/60 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T++ L++KP ++T +D GR+T+ F ++P++++ GRLD ++EGLL+LTN+G Sbjct: 36 DETKVVLFNKPFDVLTQFTDEQGRATLKDFISIPNVYA----AGRLDRDSEGLLILTNNG 91 >gi|190572631|ref|YP_001970476.1| putative ribosomal small subunit pseudouridine synthase A [Stenotrophomonas maltophilia K279a] gi|190010553|emb|CAQ44162.1| putative ribosomal small subunit pseudouridine synthase A [Stenotrophomonas maltophilia K279a] Length = 233 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 73/243 (30%), Positives = 116/243 (47%), Gaps = 21/243 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++ K+IA G SR++V+ M + RV +G +L A + + + I VDG PL Sbjct: 2 KLVKLIANLGYGSRKQVQWMFREGRVTDADGEVL--YADDQVPHEAIRVDGEPLDPPVGL 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVIS-VGRLDINTEGLLLLTNDGG 129 + L HKP G + D GR ++D LP F V+S VGRLD T GLLLLT+DGG Sbjct: 60 SIAL-HKPAGYTCSTKD-TGR-LIYDLLPPRFRDRDPVLSTVGRLDRETSGLLLLTDDGG 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKG 184 L + P ++ +VY V + D++ L G ++ + +++V LD ++ Sbjct: 117 LLHRIISPKSKLPKVYEVELSDDLRGDEVALFASGTLMLESEKTPLLPAELEV-LDARRA 175 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L EG+ +++++F V L R G L L G R+++ L Sbjct: 176 R-----LVLHEGRYHQVRRMFAATGNHVQALHRSRVGGLDLQGLDEGQWRQLTSTDLDTL 230 Query: 245 LGP 247 P Sbjct: 231 FAP 233 >gi|134094904|ref|YP_001099979.1| 16S rRNA pseudouridylate 516 synthase [Herminiimonas arsenicoxydans] gi|133738807|emb|CAL61854.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Herminiimonas arsenicoxydans] Length = 244 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 48/221 (21%), Positives = 90/221 (40%), Gaps = 17/221 (7%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + +++ G +R+ +I V +NG++++ V +TD ++ + R R Sbjct: 6 LDRILQSQGFGTRKYCRGLIEDGEVSINGVVVDNFKTAVDTTD---LEFTIFDEVWRYRE 62 Query: 76 WLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 +Y +KP + P V LP F+ + VGRLD +T G+LL+++DG Sbjct: 63 HVYIVLNKPANFECSRK-PSHHPGVLTLLPEQFTWRDLQPVGRLDHDTTGMLLMSDDGPF 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---SNA 187 P ++Y H V + + L G+ + D L Q + Sbjct: 122 IHAQSSPKRHIPKIYVATTHDPVTPELIAQLLGGVQLH-----DEPAPLAAQTCRMLAEH 176 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + + L +GK ++K++ + L R G L +L Sbjct: 177 QIEIVLEQGKYHQVKRMLAAAGNHCSALNRAEIGELTLESL 217 >gi|238021932|ref|ZP_04602358.1| hypothetical protein GCWU000324_01836 [Kingella oralis ATCC 51147] gi|237866546|gb|EEP67588.1| hypothetical protein GCWU000324_01836 [Kingella oralis ATCC 51147] Length = 184 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 36/160 (22%), Positives = 72/160 (45%), Gaps = 19/160 (11%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS 138 +KP G + S P + L ++ RV GRLD ++EGLLLLT++G + P Sbjct: 6 NKPYGYICQFS-PHEKHPNLKELVNV-PRVYPAGRLDTDSEGLLLLTDNGQQQARIASPK 63 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS------------- 185 + ++ Y + G + +++ L++ + + + L T + Sbjct: 64 FKLIKTYWAQLEGTPNPEQIAQLEQPMDLGDFIARPAKTRLLTPAETARIWPRNPPVRYR 123 Query: 186 ----NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + W+ + + EGKNR+++++ ++ RL+R G Sbjct: 124 KTVPDFWLEIQIAEGKNRQVRRMAAKAHYPCLRLVRTGIG 163 >gi|325568386|ref|ZP_08144753.1| ribosomal small subunit pseudouridine synthase A [Enterococcus casseliflavus ATCC 12755] gi|325158155|gb|EGC70308.1| ribosomal small subunit pseudouridine synthase A [Enterococcus casseliflavus ATCC 12755] Length = 138 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 37/131 (28%), Positives = 68/131 (51%), Gaps = 2/131 (1%) Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICY 172 +D +TEGL+L+T +G L L P+ + + Y V + V + + GI G+ Sbjct: 1 MDRDTEGLVLVTTNGQLGYDLLHPTKKVTKRYEVVVNDLVTPEDVAAFAAGITFHGGVTC 60 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-G 231 +T+ + +++V++ + EGK ++KK+F KV +L R + G L LA G Sbjct: 61 KPAALTIIDARADHSFVSLEIAEGKFHQVKKMFLARGKKVIQLKRTAMGSLVLPDDLAVG 120 Query: 232 STREVSKKILR 242 S R ++++ L+ Sbjct: 121 SYRSLTQEELK 131 >gi|332530792|ref|ZP_08406718.1| pseudouridine synthase [Hylemonella gracilis ATCC 19624] gi|332039704|gb|EGI76104.1| pseudouridine synthase [Hylemonella gracilis ATCC 19624] Length = 261 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 61/247 (24%), Positives = 99/247 (40%), Gaps = 30/247 (12%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGI-LLERAAVNVMSTDHIEVDGVPLRK 69 P ++ ++ G +RR ++ Q RV V G ++ A H+ V+G+ R Sbjct: 1 MPPMQLQDILFGQGFGARRVCAGLVQQGRVSVAGAACIDPLAEFEPEGLHLRVEGLEGRT 60 Query: 70 AER----------TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP------------SIFSR 107 R + L + +KP G + P +V+ LP + Sbjct: 61 GLREGGLDWVCHLSALIMLNKPAGYECSQK-PSAWPSVYTLLPLPLRQRPAQGKKGATAG 119 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV----DQDKLNLLKK 163 V +VGRLD +T GLLLLT+DG L L P + +VY V V + + L Sbjct: 120 VQAVGRLDQDTTGLLLLTDDGQLIHKLASPRHKVSKVYEVGLKHPVPSPAEASFVQRLLD 179 Query: 164 GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 G+V+ + + + +T L +GK ++K++ +V L R G Sbjct: 180 GVVLDDDPHPVRAAACELLTPQHLRLT--LTDGKYHQVKRMVAAVGNRVETLHRSRIGAL 237 Query: 224 QLGTLLA 230 QL LA Sbjct: 238 QLPDDLA 244 >gi|112490799|pdb|2GML|A Chain A, Crystal Structure Of Catalytic Domain Of E.Coli Rluf gi|112490800|pdb|2GML|B Chain B, Crystal Structure Of Catalytic Domain Of E.Coli Rluf Length = 237 Score = 47.4 bits (111), Expect = 0.004, Method: Compositional matrix adjust. Identities = 41/163 (25%), Positives = 75/163 (46%), Gaps = 6/163 (3%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP+G+V+T D + R + D + RV +GRLD +++GL+ LTN G L + Sbjct: 16 LIALNKPVGIVSTTEDGE-RDNIVD-FVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVNKI 73 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V + ++ + G+ I G +V + + + L Sbjct: 74 LRAGNDHEKEYLVTVDKPITEEFIRGXSAGVPILGTVTKKCKVKKE----APFVFRITLV 129 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +G NR+I++ E F ++V +L R L + G R+++ Sbjct: 130 QGLNRQIRRXCEHFGYEVKKLERTRIXNVSLSGIPLGEWRDLT 172 >gi|194364229|ref|YP_002026839.1| pseudouridine synthase [Stenotrophomonas maltophilia R551-3] gi|194347033|gb|ACF50156.1| pseudouridine synthase [Stenotrophomonas maltophilia R551-3] Length = 233 Score = 47.4 bits (111), Expect = 0.004, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 117/243 (48%), Gaps = 21/243 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++ K+IA G SR++V+ M + RV +G +L A + + + + VDG PL Sbjct: 2 KLVKLIANLGYGSRKQVQWMFREGRVTDADGEVL--YADDQVPHEAVRVDGEPLDPPVGL 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVIS-VGRLDINTEGLLLLTNDGG 129 + L HKP G + D GR ++D LP + V+S VGRLD +T GLLLLT+DGG Sbjct: 60 SIAL-HKPAGYTCSTKD-KGR-LIYDLLPPRYRDRDPVLSTVGRLDRDTSGLLLLTDDGG 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKG 184 L + P ++ +VY V + D++ L G ++ + +++V LD ++ Sbjct: 117 LLHRIISPKSKLPKVYEVELSDDLRGDEVALFASGTLMLESEKTPLLPAELEV-LDARRA 175 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L EG+ +++++F V L R G L L G R+++ L Sbjct: 176 R-----LVLHEGRYHQVRRMFAATGNHVQALHRSRVGGLDLQGLDEGQWRQLTPTDLDTL 230 Query: 245 LGP 247 P Sbjct: 231 FAP 233 >gi|226939001|ref|YP_002794072.1| RsuA [Laribacter hongkongensis HLHK9] gi|226713925|gb|ACO73063.1| RsuA [Laribacter hongkongensis HLHK9] Length = 231 Score = 47.0 bits (110), Expect = 0.004, Method: Compositional matrix adjust. Identities = 60/238 (25%), Positives = 100/238 (42%), Gaps = 23/238 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---KAE 71 ++ +++ R G +SR+ +I Q RV V G + + + V E +G+ +A Sbjct: 2 QLERLLHREGWSSRKGCRILINQGRVCVAGEVADDPGLEV------EPEGLAYSVDDEAA 55 Query: 72 RTRLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTN 126 R LY +KP+ L + P R+ V P +S V VGRLD +T GLLLL++ Sbjct: 56 IAREHLYLILNKPLDLECSRK-PTVRTGVLTLFPPRYSERGVQPVGRLDADTSGLLLLSD 114 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---GICYGDMQVTLDTQK 183 DG + P + Y V+ + L L G+V+ TLD Sbjct: 115 DGQFIHRITSPKHLVPKTYVATCARPVEPEHLRQLLAGVVLNDDPAPVVARSARTLDEHT 174 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + EG+ +++++ + L R G L L G RE++ L Sbjct: 175 -----LELVVTEGRYHQVRRMIAAVGNHCDALHRSRIGELVLDGLAPGQWRELTAAEL 227 >gi|82523723|emb|CAI78504.1| S4 domain protein [uncultured beta proteobacterium] Length = 240 Score = 47.0 bits (110), Expect = 0.004, Method: Compositional matrix adjust. Identities = 55/232 (23%), Positives = 94/232 (40%), Gaps = 17/232 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK +A SRRE E++I V+V+G+++E V S IE+D Sbjct: 6 RLSKRVAELRACSRREAEQIITGGWVRVDGVVIEEPQFRVAS-QRIEIDPQADPSQIEPV 64 Query: 75 LWLYHKPIGLVTTHSDP------------DGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 L HKP G+ + D + T L + F+++ + L+ + GL+ Sbjct: 65 TLLLHKPAGVRISDDDKTALQLLRADSLWEHDGTGISPLKAHFTQLTACVPLEADASGLV 124 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T D + R L + V G++ + L L KGI G ++V+ + Sbjct: 125 VFTQDWRIVRKLTDDAATLEHEVIVEVSGELIPNGLKRLNKGIPYHGHTPAAIKVSWQNE 184 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + V L+ + +I + E +V + RI G L + G R Sbjct: 185 TR----LRVALKGCQIGQIAHLCEAVGLQVVSMKRIRLGGIPLAKVPPGQWR 232 >gi|329906588|ref|ZP_08274441.1| putative ribosomal large subunit pseudouridine synthase [Oxalobacteraceae bacterium IMCC9480] gi|327547243|gb|EGF32094.1| putative ribosomal large subunit pseudouridine synthase [Oxalobacteraceae bacterium IMCC9480] Length = 241 Score = 47.0 bits (110), Expect = 0.005, Method: Compositional matrix adjust. Identities = 59/235 (25%), Positives = 95/235 (40%), Gaps = 22/235 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLRKAER 72 R++K +A SR E E+ I + V+G+L E A V I + D VP Sbjct: 6 RLAKRVAEELGCSRTEAEQFIEGGWITVDGVLTEEAGARVAPEQAIVLLPDAVPAPLDPV 65 Query: 73 TRLWLYHKPIGLVTTHS-------------DPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 T L HKP G+ T + PD RS L + L+ + Sbjct: 66 TIL--LHKPAGMRTIDAIDPEQSWITPATLGPDDRSG-LRFLRRHTKALTLTNPLEDSAS 122 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT D + R L +++ + + V G +D L LL+KG+ G M+V+ Sbjct: 123 GLLVLTQDWRIERALVQEASRIEQEFVVEVTGTLDAAGLELLQKGLKWNGKPIASMKVSW 182 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 ++ + ++ + +I + E +V + RI G + L G R Sbjct: 183 QSEHK----LRFAIKAAERGQIPYLCEKVGLQVVSIKRIRIGRMSMAALPVGQWR 233 >gi|152981396|ref|YP_001353640.1| ribosomal small subunit pseudouridine synthase A protein [Janthinobacterium sp. Marseille] gi|151281473|gb|ABR89883.1| ribosomal small subunit pseudouridine synthase A protein [Janthinobacterium sp. Marseille] Length = 238 Score = 47.0 bits (110), Expect = 0.005, Method: Compositional matrix adjust. Identities = 53/224 (23%), Positives = 91/224 (40%), Gaps = 23/224 (10%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNG--ILLERAAVNVMSTDHIEVDGVPLRKAERT 73 + +++ G +R+ +I V +NG + RAA + + D V R Sbjct: 6 LDRILQSQGFGTRKYCRNLIEDGEVSINGESVTDYRAAFDTSDLEFTIFDEV-----WRY 60 Query: 74 RLWLY---HKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDG 128 R +Y +KP + P V LP F+ + VGRLD +T G+LL+++DG Sbjct: 61 RQHVYIVLNKPANFECSRK-PSHHPGVLTLLPEQFTWRELQPVGRLDHDTTGMLLMSDDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----G 184 P +VY H V + + L G+ + D L Q G Sbjct: 120 PFIHAQSSPKRHIPKVYVATTHDPVTPELIAQLLGGVQLH-----DEPAPLAAQTCRMLG 174 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 +N + + L +GK ++K++ + L R++ G L +L Sbjct: 175 ANE-LEIVLEQGKYHQVKRMLAAAGNHCSALRRVAIGALTLESL 217 >gi|255066323|ref|ZP_05318178.1| ribosomal large subunit pseudouridine synthase B [Neisseria sicca ATCC 29256] gi|255049533|gb|EET44997.1| ribosomal large subunit pseudouridine synthase B [Neisseria sicca ATCC 29256] Length = 106 Score = 47.0 bits (110), Expect = 0.005, Method: Compositional matrix adjust. Identities = 20/67 (29%), Positives = 42/67 (62%) Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 +L ++G++++ ++ +G+N W V ++EG+NRE++++FE V+RL+R+ Sbjct: 3 SLTEEGVMLEDGLAKVERIYEQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRV 62 Query: 219 SYGPFQL 225 +GP L Sbjct: 63 GFGPIGL 69 >gi|118587632|ref|ZP_01545042.1| ribosomal small subunit pseudouridylate synthase [Stappia aggregata IAM 12614] gi|118439254|gb|EAV45885.1| ribosomal small subunit pseudouridylate synthase [Stappia aggregata IAM 12614] Length = 234 Score = 46.6 bits (109), Expect = 0.005, Method: Compositional matrix adjust. Identities = 56/209 (26%), Positives = 96/209 (45%), Gaps = 13/209 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K++A G SR+E++ I V + G L+ A + + I D PL A Sbjct: 2 RLVKLLANLGYGSRKEMQVAIRNGWVTDLKGNRLKADAKT--AHEDILFDDEPLDPAHGV 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTNDGG 129 + L +KP+G + D GR V+D LP F + ++GRLD T G LL T+DG Sbjct: 60 VI-LMNKPLGYTCSIKD-QGR-LVYDLLPDRFRMRKPVLSTIGRLDKETSGALLFTDDGT 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAW 188 + P ++ ++Y V + D+ L G ++++ L+ ++A Sbjct: 117 FLHRVISPKSEVPKIYEVALDRPMKGDEGALFASGDMMLESEDKPLKPAELEVIDETHAR 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIR 217 +T L EG+ +++++F V L R Sbjct: 177 LT--LHEGRYHQVRRMFAATGNHVTDLTR 203 >gi|192361547|ref|YP_001983032.1| pseudouridylate synthase [Cellvibrio japonicus Ueda107] gi|190687712|gb|ACE85390.1| pseudouridylate synthase [Cellvibrio japonicus Ueda107] Length = 258 Score = 46.6 bits (109), Expect = 0.005, Method: Compositional matrix adjust. Identities = 44/176 (25%), Positives = 86/176 (48%), Gaps = 20/176 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L++KP G+++ + + R T+ + +P+++ GRLD ++EGLLLLT+DG L Sbjct: 9 LILFNKPYGVLSQFTAKEERPTLAQYIRIPNVY----PAGRLDHDSEGLLLLTDDGDLQH 64 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------------- 179 ++ P+ + + Y V+ G + L L++G+ + +V L Sbjct: 65 LISHPAHKQPKTYWVQVEGAPNSYALTKLRQGVELNDGMTQPAEVRLIPAPKLWERKPPI 124 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + W+ + + EG+NR+++++ RL+R+ GP+ L + G R Sbjct: 125 RERANIPTQWLEIVITEGRNRQVRRMTAAVGHPTLRLVRVKIGPWTLEGIEPGKYR 180 >gi|221068469|ref|ZP_03544574.1| pseudouridine synthase [Comamonas testosteroni KF-1] gi|220713492|gb|EED68860.1| pseudouridine synthase [Comamonas testosteroni KF-1] Length = 248 Score = 46.6 bits (109), Expect = 0.006, Method: Compositional matrix adjust. Identities = 49/187 (26%), Positives = 82/187 (43%), Gaps = 22/187 (11%) Query: 56 STDHIEVDGVPLRKAERTRLWLYH--------KPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 ST ++ +G LR + W YH KP G + P +++ LP+ + Sbjct: 43 STQQVDPEG--LRFRVQGVEWEYHELGYVLLNKPAGTECSQK-PSAYPSIYTLLPAPLRQ 99 Query: 108 ---------VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 V +VGRLD +T G+LLL++DG + P +VYRV VD ++ Sbjct: 100 RPNKGAVQGVQAVGRLDQDTTGMLLLSDDGQFIHRMSSPKKHVSKVYRVTCKHPVDAKQI 159 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 L G+V+ ++ Q S+ + + L EGK ++K++ + +V L R Sbjct: 160 QRLLDGVVLDDD-PKPVKAAACEQVDSHV-LDLTLTEGKYHQVKRMIAAVSNRVEGLHRR 217 Query: 219 SYGPFQL 225 G +L Sbjct: 218 RIGGMEL 224 >gi|163750152|ref|ZP_02157395.1| ribosomal small subunit pseudouridine synthase A [Shewanella benthica KT99] gi|161330209|gb|EDQ01191.1| ribosomal small subunit pseudouridine synthase A [Shewanella benthica KT99] Length = 241 Score = 46.6 bits (109), Expect = 0.006, Method: Compositional matrix adjust. Identities = 54/220 (24%), Positives = 97/220 (44%), Gaps = 11/220 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I + +R ++ + + V +G +++ + V I +DG + R Sbjct: 14 RLDKFICESTELTRSFAKKALHRGDVTCDGEVVKNSGFKVKVGQTICLDG-KVISVVGPR 72 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLARV 133 + +KP + D TV D L + + + GRLDI+T GL+L+T DG + Sbjct: 73 FLMLNKPADTICATFDI-VHPTVIDLLDIEKADTLHIAGRLDIDTTGLVLITTDGQWSHK 131 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ---GICYGDMQVTLDTQKGSNAWVT 190 + P + Y V+ ++D + +G+ ++ G+ + +DT A +T Sbjct: 132 ITSPKKDCSKCYLVKLTDELDASLVETFAQGVELRNEDGLTKPAVLEIIDTH---TARLT 188 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + EGK ++K++F KV L R S G L LA Sbjct: 189 I--TEGKYHQVKRMFAAVGNKVVGLHRESVGKIVLDDDLA 226 >gi|254522077|ref|ZP_05134132.1| ribosomal small subunit pseudouridylate synthase [Stenotrophomonas sp. SKA14] gi|219719668|gb|EED38193.1| ribosomal small subunit pseudouridylate synthase [Stenotrophomonas sp. SKA14] Length = 233 Score = 46.6 bits (109), Expect = 0.006, Method: Compositional matrix adjust. Identities = 73/243 (30%), Positives = 115/243 (47%), Gaps = 21/243 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++ K IA G SR++V+ M + RV +G +L A + + + I VDG PL Sbjct: 2 KLVKHIANLGYGSRKQVQWMFREGRVTDADGEVL--YADDQVPHEAIRVDGEPLDPPVGL 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVIS-VGRLDINTEGLLLLTNDGG 129 + L HKP G + D GR ++D LP F V+S VGRLD T GLLLLT+DGG Sbjct: 60 SIAL-HKPAGYTCSTKD-TGR-LIYDLLPPRFRDRDPVLSTVGRLDRETSGLLLLTDDGG 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKG 184 L + P ++ +VY V + D++ L G ++ + +++V LD ++ Sbjct: 117 LLHRIISPKSKLPKVYEVELSEDLRGDEVALFASGTLMLESEKTPLLPAELEV-LDARRA 175 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L EG+ +++++F V L R G L L G R+++ L Sbjct: 176 R-----LVLHEGRYHQVRRMFAATGNHVQALHRSRVGGLDLQGLDEGQWRQLTSTDLDTL 230 Query: 245 LGP 247 P Sbjct: 231 FAP 233 >gi|16329172|ref|NP_439900.1| hypothetical protein slr0612 [Synechocystis sp. PCC 6803] gi|1651652|dbj|BAA16580.1| slr0612 [Synechocystis sp. PCC 6803] Length = 185 Score = 46.2 bits (108), Expect = 0.007, Method: Compositional matrix adjust. Identities = 31/122 (25%), Positives = 55/122 (45%), Gaps = 14/122 (11%) Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 +GRLD ++EGLLLLT++G L L R Y + G + L L++GI Sbjct: 1 MGRLDQDSEGLLLLTSNGKLQHRLAHREFAHQRTYFAQVEGSPTDEDLEPLRRGITFADY 60 Query: 171 CYGDMQVTLDTQKG--------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + T+ +W+++ L EG+NR+++++ + RL+ Sbjct: 61 PTRPAIAKIITEPDFPPRNPPIRYRASIPTSWLSITLTEGRNRQVRRMTAAVGFPTLRLV 120 Query: 217 RI 218 R+ Sbjct: 121 RV 122 >gi|264677343|ref|YP_003277249.1| Pseudouridine synthase, Rsu [Comamonas testosteroni CNB-2] gi|262207855|gb|ACY31953.1| Pseudouridine synthase, Rsu [Comamonas testosteroni CNB-2] Length = 248 Score = 46.2 bits (108), Expect = 0.007, Method: Compositional matrix adjust. Identities = 49/187 (26%), Positives = 82/187 (43%), Gaps = 22/187 (11%) Query: 56 STDHIEVDGVPLRKAERTRLWLYH--------KPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 ST ++ +G LR + W YH KP G + P +++ LP+ + Sbjct: 43 STQQVDPEG--LRFRVQGVEWEYHELGYVLLNKPAGTECSQK-PSAYPSIYTLLPAPLRQ 99 Query: 108 ---------VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 V +VGRLD +T G+LLL++DG + P +VYRV VD ++ Sbjct: 100 RPNKGAVQGVQAVGRLDQDTTGMLLLSDDGQFIHRMSSPKKHVSKVYRVTCKHPVDAKQI 159 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 L G+V+ ++ Q S+ + + L EGK ++K++ + +V L R Sbjct: 160 QRLLDGVVLDDD-PKPVRAAACEQVDSHV-LDLTLTEGKYHQVKRMIAAVSNRVEGLHRR 217 Query: 219 SYGPFQL 225 G +L Sbjct: 218 RIGGMEL 224 >gi|299533039|ref|ZP_07046425.1| Pseudouridine synthase, Rsu [Comamonas testosteroni S44] gi|298718924|gb|EFI59895.1| Pseudouridine synthase, Rsu [Comamonas testosteroni S44] Length = 250 Score = 46.2 bits (108), Expect = 0.007, Method: Compositional matrix adjust. Identities = 44/167 (26%), Positives = 73/167 (43%), Gaps = 20/167 (11%) Query: 76 WLYH--------KPIGLVTTHSDPDGRSTVFDNLPSIFSR---------VISVGRLDINT 118 W YH KP G + P +++ LP+ + V +VGRLD +T Sbjct: 63 WEYHELGYVLLNKPAGTECSQK-PSAYPSIYTLLPAPLRQRPNKGAVQGVQAVGRLDQDT 121 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 G+LLL++DG + P +VYRV VD ++ L G+V+ ++ Sbjct: 122 TGMLLLSDDGQFIHRMSSPKKHVSKVYRVTCKHPVDAKQIQRLLDGVVLDDD-PKPVKAA 180 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 Q S+ + + L EGK ++K++ + +V L R G +L Sbjct: 181 ACEQVDSHV-LDLTLTEGKYHQVKRMIAAVSNRVEGLHRRRIGGMEL 226 >gi|219124843|ref|XP_002182704.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217406050|gb|EEC45991.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 151 Score = 46.2 bits (108), Expect = 0.008, Method: Compositional matrix adjust. Identities = 40/127 (31%), Positives = 60/127 (47%), Gaps = 8/127 (6%) Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 VGRLD +T GLLL ++ G L + L P + + Y G V +D+L + + G+ Sbjct: 4 VGRLDYDTSGLLLFSSSGALTQRLLHPKHEVEKEYVAVVTGIVVEDEL----RATLAAGV 59 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 G + V D Q S +TV EGK+R ++++ V L R G L L A Sbjct: 60 -RGYLNV-FDAQALSTVRLTVS--EGKHRMVRRILANCGHPVVSLHRDRLGAVALNDLPA 115 Query: 231 GSTREVS 237 G R ++ Sbjct: 116 GEYRPLT 122 >gi|294142202|ref|YP_003558180.1| ribosomal small subunit pseudouridine synthase A [Shewanella violacea DSS12] gi|293328671|dbj|BAJ03402.1| ribosomal small subunit pseudouridine synthase A [Shewanella violacea DSS12] Length = 229 Score = 46.2 bits (108), Expect = 0.008, Method: Compositional matrix adjust. Identities = 52/218 (23%), Positives = 95/218 (43%), Gaps = 5/218 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + +R ++ + + V +G +++ ++ V + I +DG + Sbjct: 1 MRLDKFICESTELTRSFAKKALHRGDVTCDGEVVKSSSFKVKAGQIICLDG-KVISVVGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-GRLDINTEGLLLLTNDGGLAR 132 R + +KP + D TV D L + + + GRLDI+T GL+L+T DG + Sbjct: 60 RFLMLNKPADTICATFDI-VHPTVIDLLDIEKADTLHIAGRLDIDTTGLVLITTDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V ++D + +G+ ++ L+ +A +T+ Sbjct: 119 KITSPKKDCGKCYLVTLTDELDASLVETFAQGVELRNEDGLTKPAVLEIIDSHHARLTI- 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 EGK ++K++F KV L R S G L LA Sbjct: 178 -TEGKYHQVKRMFAAVGNKVVGLHRESVGKIVLDDDLA 214 >gi|289806402|ref|ZP_06537031.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 100 Score = 46.2 bits (108), Expect = 0.008, Method: Composition-based stats. Identities = 26/84 (30%), Positives = 43/84 (51%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + R Sbjct: 2 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF 98 ++ +KP G V + DPD + ++ Sbjct: 62 YFMLNKPQGYVCSTDDPDHPTVLY 85 >gi|217968594|ref|YP_002353828.1| pseudouridine synthase [Thauera sp. MZ1T] gi|217505921|gb|ACK52932.1| pseudouridine synthase [Thauera sp. MZ1T] Length = 245 Score = 46.2 bits (108), Expect = 0.008, Method: Compositional matrix adjust. Identities = 60/228 (26%), Positives = 95/228 (41%), Gaps = 19/228 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA--VNVMSTD-----HIEVDGVPL 67 ++ +++ G SR++ +I V V G + + + S D VD P Sbjct: 2 QLERLLHAQGFGSRKDCRALIRAGYVSVAGEVCDDPTEEFDPGSRDGSPGLEFTVDDQPW 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSR-VISVGRLDINTEGLLLLT 125 R + + L HKP G + P +VF LP + +R V VGRLD +T GLLLL+ Sbjct: 62 RFRAQAYVVL-HKPAGYECSQK-PTFHPSVFTLLPPQLLARGVQCVGRLDQDTTGLLLLS 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 +DG + +VY V V+QD + L G+ + D V + Sbjct: 120 DDGQFIHQWSSGKKRTPKVYEVTLKHAVEQDFADRLVAGVELN-----DEPVPIAAAACE 174 Query: 185 --SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 S + + + EGK ++K++ +V L R G L LA Sbjct: 175 LLSPTTLRLTICEGKYHQVKRMVGAAGNRVEVLHRSRVGGLDLPAGLA 222 >gi|319788649|ref|YP_004148124.1| pseudouridine synthase [Pseudoxanthomonas suwonensis 11-1] gi|317467161|gb|ADV28893.1| pseudouridine synthase [Pseudoxanthomonas suwonensis 11-1] Length = 206 Score = 45.8 bits (107), Expect = 0.010, Method: Compositional matrix adjust. Identities = 57/184 (30%), Positives = 91/184 (49%), Gaps = 26/184 (14%) Query: 78 YHKPIGLV---TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++KP G++ T S P + LP V + GRLD ++EGLLLLT+DGGLA L Sbjct: 26 FNKPYGVLCQFTDRSQPPRPTLAGFGLPK---DVYAAGRLDHDSEGLLLLTDDGGLAHRL 82 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKG--------- 184 P + + Y V+ G +++L L+ G+V+ +V LD Sbjct: 83 TDPLHKQPKTYWVQVEGDPREEQLQALRDGVVLNDGPTRPAKVRRLDPVPALWPRDPPVR 142 Query: 185 -----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL----GTLLA-GSTR 234 ++W+ V + EG+NR+++++ RL+R++ GP +L GT LA G R Sbjct: 143 FRKTVPDSWLEVVIIEGRNRQVRRMTAAAGLPTLRLVRVAMGPHRLHDRDGTPLAPGEWR 202 Query: 235 EVSK 238 EV + Sbjct: 203 EVGR 206 >gi|255523816|ref|ZP_05390781.1| pseudouridine synthase [Clostridium carboxidivorans P7] gi|255512519|gb|EET88794.1| pseudouridine synthase [Clostridium carboxidivorans P7] Length = 180 Score = 45.8 bits (107), Expect = 0.011, Method: Compositional matrix adjust. Identities = 26/60 (43%), Positives = 33/60 (55%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 V VGRLD +TEGLLLLTNDG L P + Y G +D++ L++GI I Sbjct: 12 VFHVGRLDKDTEGLLLLTNDGEFEHKLMHPQEHIEKTYFFWALGSLDEENRKQLEQGIYI 71 >gi|166712972|ref|ZP_02244179.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzicola BLS256] Length = 236 Score = 45.8 bits (107), Expect = 0.011, Method: Compositional matrix adjust. Identities = 45/164 (27%), Positives = 70/164 (42%), Gaps = 9/164 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K +A A SR E +R I V V+G+++E + D L E Sbjct: 4 PIRLDKCVAAAFGCSRGEAQRYIEGGWVSVDGVVVEEPQAPATAAQITLADDAVLSPVEP 63 Query: 73 TRLWLYHKPIGL----VTTHSDPDGRSTVFDN----LPSIFSRVISVGRLDINTEGLLLL 124 L L HKP G+ + P RS + + L F R+ + L+ GLL+L Sbjct: 64 ATL-LLHKPAGVSAEAALALATPTTRSALDQSDIRVLKRHFLRLTAPLPLEEAASGLLIL 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 ++DG + R L ++ + + V G V + L G+V Q Sbjct: 123 SHDGRVLRRLSADASSIEQEFLVEVQGDVRPYGMARLAHGLVYQ 166 >gi|300311054|ref|YP_003775146.1| ribosomal small subunit pseudouridine synthase A [Herbaspirillum seropedicae SmR1] gi|300073839|gb|ADJ63238.1| ribosomal small subunit pseudouridine synthase A protein [Herbaspirillum seropedicae SmR1] Length = 240 Score = 45.8 bits (107), Expect = 0.011, Method: Compositional matrix adjust. Identities = 51/220 (23%), Positives = 86/220 (39%), Gaps = 15/220 (6%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + +++ G SR+ +I V +NG +++ + D + L E Sbjct: 6 LDRILQSQGFGSRKYCRELIEDGEVVINGEVVDDYRATPDTKDLV------LTIFEEEWE 59 Query: 76 WLYHKPIGL-----VTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDG 128 + H I + + P V LP F+ V VGRLD +T GLLL+++DG Sbjct: 60 YREHVYIAINKPPNIECSRKPSHHPGVLTLLPEQFTWRDVQPVGRLDHDTTGLLLMSDDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 P +VY V + + LK G+ + + T Q G N Sbjct: 120 AFIHAQSSPKRHVPKVYAATTAEPVTEALIAQLKAGVQLHDE-PAPLAATRCRQLGEN-L 177 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + + L +GK ++K++ + L R + G QL L Sbjct: 178 LEIVLEQGKYHQVKRMLAAAGNHCSALQRTAIGGLQLEAL 217 >gi|294670035|ref|ZP_06734992.1| ribosomal small subunit pseudouridine synthase A [Neisseria elongata subsp. glycolytica ATCC 29315] gi|291308156|gb|EFE49399.1| ribosomal small subunit pseudouridine synthase A [Neisseria elongata subsp. glycolytica ATCC 29315] Length = 135 Score = 45.8 bits (107), Expect = 0.011, Method: Compositional matrix adjust. Identities = 33/133 (24%), Positives = 62/133 (46%), Gaps = 8/133 (6%) Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 +VGRLD +T G+LL+TNDG + P + ++YR D+ LK G+++ Sbjct: 8 AVGRLDADTTGVLLITNDGQFNHRMTSPKYKAAKLYRAGLKHPADETFCQSLKNGVLLH- 66 Query: 170 ICYGDMQVTLDTQKG---SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 D T+ + + + + + EGK ++K++ +V L R+ +G + Sbjct: 67 ----DDDETVQAAEAVLENPHTLLLTITEGKYHQVKRMVAAAGNRVETLHRLKFGEWSAE 122 Query: 227 TLLAGSTREVSKK 239 L G + ++ K Sbjct: 123 HLAPGEWQFITIK 135 >gi|157962993|ref|YP_001503027.1| pseudouridine synthase [Shewanella pealeana ATCC 700345] gi|157847993|gb|ABV88492.1| pseudouridine synthase [Shewanella pealeana ATCC 700345] Length = 230 Score = 45.4 bits (106), Expect = 0.011, Method: Compositional matrix adjust. Identities = 49/219 (22%), Positives = 93/219 (42%), Gaps = 19/219 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I + SR ++ + + V NG +++ + V I ++G L R Sbjct: 2 RLDKFICESTSHSRVSAKKALHRGDVTCNGEVVKNSGFKVTDEHEIRLEGEVLTII-GPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-IS-------VGRLDINTEGLLLLTN 126 + +KP+ + ST+ + PS+ S + +S GRLD +T GL+L+T Sbjct: 61 FIMLNKPVDTIC--------STIDEEYPSVISLLDVSRPEDLHIAGRLDADTTGLVLITT 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + P + + Y + + + + G+ + L+ + Sbjct: 113 DGQWSHKITSPKKECGKRYLLETADPLSEALVQQFADGLQLNNEDGLTKPAELEMLGSNQ 172 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 A +T+ EGK ++K++ KV +L R S G +L Sbjct: 173 ARLTI--TEGKYHQVKRMLAAVGNKVTKLHRESVGAIEL 209 >gi|224003727|ref|XP_002291535.1| predicted protein [Thalassiosira pseudonana CCMP1335] gi|220973311|gb|EED91642.1| predicted protein [Thalassiosira pseudonana CCMP1335] Length = 441 Score = 45.4 bits (106), Expect = 0.013, Method: Compositional matrix adjust. Identities = 48/177 (27%), Positives = 78/177 (44%), Gaps = 28/177 (15%) Query: 98 FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV---- 153 FD + S + GRLDI++ G+++ T G +AR L P T+ + Y V+ V Sbjct: 254 FDE--ATLSGYATAGRLDIDSTGVIIFTRAGIMARRLIAPDTKIPKEYIVKVQPAVQPTT 311 Query: 154 ---DQDKLNLLKKGIVIQGICYGDMQVTLDTQK----------GSNAWVTVG------LR 194 + L+L + + G ++ D + N ++ G L+ Sbjct: 312 HEKEAGLLSLPSPTRNLTSLLRGGKRLWNDKKALKPVLEAEWLEENPVLSNGGTLRLVLQ 371 Query: 195 EGKNREIKKVF-EFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG--PH 248 EGK R+I+++ E V L+R S GP QL TL G R + ++ +RE PH Sbjct: 372 EGKKRQIRRMCREILGMHVVSLVRKSIGPIQLDTLPEGKWRPLKEQEVREIFADTPH 428 >gi|89054176|ref|YP_509627.1| ribosomal large subunit pseudouridine synthase E [Jannaschia sp. CCS1] gi|88863725|gb|ABD54602.1| ribosomal large subunit pseudouridine synthase E [Jannaschia sp. CCS1] Length = 188 Score = 45.4 bits (106), Expect = 0.013, Method: Compositional matrix adjust. Identities = 43/145 (29%), Positives = 73/145 (50%), Gaps = 15/145 (10%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 V + GRLD ++EGLLLLT+DGGL + P + +VY G D L+ L++G+ + Sbjct: 43 VYAAGRLDRDSEGLLLLTDDGGLQARISSPKYRSPKVYFALVEGVPDDAALDHLRRGVTL 102 Query: 168 Q----GICYGDMQVTLDT-----------QKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + C + D + ++ W+ + L EG+NR+++++ + V Sbjct: 103 KDGQTAPCEAEAVAAPDWIWDRDPPVRIRKSITDTWLKLTLTEGRNRQVRRMCAGVGFPV 162 Query: 213 NRLIRISYGPFQLGTLLAGSTREVS 237 RL+R S GP + L G RE++ Sbjct: 163 IRLVRFSIGPHDIRDLPPGMWRELA 187 >gi|229016829|ref|ZP_04173757.1| Pseudouridine synthase [Bacillus cereus AH1273] gi|228744390|gb|EEL94464.1| Pseudouridine synthase [Bacillus cereus AH1273] Length = 96 Score = 45.1 bits (105), Expect = 0.015, Method: Compositional matrix adjust. Identities = 21/80 (26%), Positives = 49/80 (61%), Gaps = 2/80 (2%) Query: 160 LLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 +L++G++++ ++++T ++ A V + + EG+NR+++++FE + KV +L R Sbjct: 1 MLERGVMLEDGKTAPANVKITSWDKRKETAIVQLTIHEGRNRQVRRMFEALDCKVVKLKR 60 Query: 218 ISYGPFQLGTLLAGSTREVS 237 Y ++G+L G RE++ Sbjct: 61 ERYAFLEVGSLRPGDARELT 80 >gi|126727906|ref|ZP_01743733.1| RNA pseudouridylate synthase [Rhodobacterales bacterium HTCC2150] gi|126702798|gb|EBA01904.1| RNA pseudouridylate synthase [Rhodobacterales bacterium HTCC2150] Length = 102 Score = 45.1 bits (105), Expect = 0.015, Method: Compositional matrix adjust. Identities = 28/89 (31%), Positives = 55/89 (61%), Gaps = 15/89 (16%) Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDG----RSTV--FDNLPSIFSRVISVGRLDINTEG 120 R +++ L++KP G+++ +D R+T+ F ++P++++ GRLD ++EG Sbjct: 18 FRAVAMSQVILFNKPFGVLSQFTDKGTQGSERATLSKFIDVPNVYA----AGRLDRDSEG 73 Query: 121 LLLLTNDGGL-ARVL----ELPSTQWLRV 144 LL+LT+DG L A++ ++P T W++V Sbjct: 74 LLVLTDDGKLQAKIAHPKNKMPKTYWVQV 102 >gi|119896376|ref|YP_931589.1| pseudouridylate synthase [Azoarcus sp. BH72] gi|119668789|emb|CAL92702.1| pseudouridylate synthase [Azoarcus sp. BH72] Length = 248 Score = 45.1 bits (105), Expect = 0.016, Method: Compositional matrix adjust. Identities = 38/127 (29%), Positives = 60/127 (47%), Gaps = 19/127 (14%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLE--RAAVNVMSTDHIEVDGVP-LRKAE 71 ++ +++ G SR++ ++ V V G+ + RA + S D G P L Sbjct: 5 QIERLLHSQGFGSRKDCRALLRAGYVSVAGVPCDDPRAEFDPGSKD-----GSPGLEFTV 59 Query: 72 RTRLW--------LYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSR-VISVGRLDINTEGL 121 +W + HKP G +H P +VF LP + +R V +GRLD +T GL Sbjct: 60 DDEIWHFRAQAYLMLHKPAGYECSHK-PTFHPSVFTLLPPQLLNRGVQCIGRLDQDTTGL 118 Query: 122 LLLTNDG 128 LLL++DG Sbjct: 119 LLLSDDG 125 >gi|117919212|ref|YP_868404.1| ribosomal small subunit pseudouridine synthase A [Shewanella sp. ANA-3] gi|117611544|gb|ABK46998.1| ribosomal small subunit pseudouridine synthase A [Shewanella sp. ANA-3] Length = 235 Score = 45.1 bits (105), Expect = 0.018, Method: Compositional matrix adjust. Identities = 49/226 (21%), Positives = 96/226 (42%), Gaps = 19/226 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K I + +R ++ + + + +G +++ A V+ + ++G + Sbjct: 6 PVRLDKFICESTSLTRSLAKKALHRGDITCDGAVIKDAGFKVLEGMQVCLEGEFISLVGE 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--------RVISVGRLDINTEGLLLL 124 R + +KP+ + ST+ + PS+ S + GRLD +T GL+L+ Sbjct: 66 -RYLMLNKPVDTIC--------STIDEVYPSVLSLLDIEKPETLHIAGRLDADTTGLVLI 116 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T+DG + + P + Y V VD+ + + G+ ++ L+ + Sbjct: 117 TSDGQWSHRITSPKKDCGKRYLVTLAEPVDESLIGVFAAGVELRNEDCLTKPALLEIIEP 176 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +T+ EGK ++K++F V L R S G +L LA Sbjct: 177 QLVRLTI--TEGKYHQVKRMFAAVGNHVVGLHRESIGKIELDAELA 220 >gi|332531387|ref|ZP_08407292.1| RNA-binding S4 domain protein [Hylemonella gracilis ATCC 19624] gi|332039171|gb|EGI75592.1| RNA-binding S4 domain protein [Hylemonella gracilis ATCC 19624] Length = 245 Score = 45.1 bits (105), Expect = 0.018, Method: Compositional matrix adjust. Identities = 26/73 (35%), Positives = 41/73 (56%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR++KV+A SRRE E+ IAQ V V+G ++ V V ++ +++D +A Sbjct: 13 QRLAKVVAALVPCSRREAEQYIAQGWVSVDGQCVDAPQVRVTTSQRVQIDPQARLQAVVP 72 Query: 74 RLWLYHKPIGLVT 86 +L HKP G+ T Sbjct: 73 ATFLVHKPAGMET 85 >gi|237800196|ref|ZP_04588657.1| S4 domain-containing protein [Pseudomonas syringae pv. oryzae str. 1_6] gi|331023053|gb|EGI03110.1| S4 domain-containing protein [Pseudomonas syringae pv. oryzae str. 1_6] Length = 236 Score = 44.7 bits (104), Expect = 0.020, Method: Compositional matrix adjust. Identities = 57/237 (24%), Positives = 100/237 (42%), Gaps = 17/237 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK + SRRE E I V V+G+++E V ST IE+ P KA+ Sbjct: 4 PIRLSKRLIELVGCSRREAELFIEGGWVTVDGVVIEEPHFKV-STQKIELS--PDAKADS 60 Query: 73 TR--LWLYHKP--------IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + HKP + ++T + + S L F R+ ++ L N GL+ Sbjct: 61 PEPVTIILHKPASASAESALQMITPGTLSEEHSYSKRPLKGHFMRLEAISSLQANASGLM 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + + D + R L ++ + Y V G++ LN L G+ +G ++ + Sbjct: 121 VFSQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKG---KELPAVKASW 177 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + N + ++ + I ++ E K+ + RI G +G L G R ++ K Sbjct: 178 QNENR-LRFAMKNPQPGIIAQLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTTK 233 >gi|329891024|ref|ZP_08269367.1| hypothetical protein BDIM_27350 [Brevundimonas diminuta ATCC 11568] gi|328846325|gb|EGF95889.1| hypothetical protein BDIM_27350 [Brevundimonas diminuta ATCC 11568] Length = 246 Score = 44.7 bits (104), Expect = 0.021, Method: Compositional matrix adjust. Identities = 66/231 (28%), Positives = 107/231 (46%), Gaps = 24/231 (10%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS---------TDHIEVDG 64 RV +++ G SR E+ R+ K GI+L+ A + +S +E+DG Sbjct: 8 SRVDQLLGSMGYGSRAEMARL-----GKAGGIVLDGADLTDVSKRIPVTPDLPGRMEIDG 62 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEG 120 PL + L +KP+G+ +H + DG + V+D LP + R + ++GRLD T G Sbjct: 63 EPLDPVAGL-VVLLNKPLGMTCSHKE-DG-ALVYDVLPDRWRRRDPAISTIGRLDKQTSG 119 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTL 179 LLLLT+DG L + P +VYR ++ + L G +V++G L Sbjct: 120 LLLLTDDGDLLHRVISPKRHVAKVYRATLARPLNGTEGALFASGELVLEGEDKPLAPAVL 179 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + A +TV EG+ +++++F V L R G L LA Sbjct: 180 EVVSPTEALLTV--TEGRYHQVRRMFAAAGNHVEALHRERLGGLVLPDELA 228 >gi|84623215|ref|YP_450587.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae MAFF 311018] gi|84367155|dbj|BAE68313.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzae MAFF 311018] Length = 236 Score = 44.3 bits (103), Expect = 0.026, Method: Compositional matrix adjust. Identities = 45/164 (27%), Positives = 70/164 (42%), Gaps = 9/164 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K +A A SR E + I V V+G+++E + D L AE Sbjct: 4 PIRLDKCVAAAFGCSRGEAQHYIEGGWVSVDGVVVEEPQALATAAQITLADDAVLSPAEP 63 Query: 73 TRLWLYHKPIGL----VTTHSDPDGRSTVFDN----LPSIFSRVISVGRLDINTEGLLLL 124 L L HKP G+ + P RS + + L F R+ + L+ GLL+L Sbjct: 64 ATL-LLHKPAGVSVEAALALATPTTRSALDQSDIRVLKRHFLRLTAPLPLENAASGLLIL 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 ++DG + R L ++ + + V G V + L G+V Q Sbjct: 123 SHDGRVLRRLSADASSIEQEFLVEVQGDVRPYGMARLAHGLVYQ 166 >gi|218674542|ref|ZP_03524211.1| RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli GR56] Length = 110 Score = 44.3 bits (103), Expect = 0.026, Method: Composition-based stats. Identities = 21/61 (34%), Positives = 38/61 (62%) Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 Q N+W+ V L EG+NR+I+++ E + RL+R++ G +LG L G+ R +++ L Sbjct: 37 QGDRNSWIEVELDEGRNRQIRRMLEALGAECLRLVRVAIGGLELGELPKGAVRALTEAEL 96 Query: 242 R 242 + Sbjct: 97 Q 97 >gi|157376639|ref|YP_001475239.1| pseudouridine synthase [Shewanella sediminis HAW-EB3] gi|157319013|gb|ABV38111.1| pseudouridine synthase [Shewanella sediminis HAW-EB3] Length = 256 Score = 44.3 bits (103), Expect = 0.031, Method: Compositional matrix adjust. Identities = 47/219 (21%), Positives = 89/219 (40%), Gaps = 19/219 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I + +R ++ + + V +G +++ + V I +DG L R Sbjct: 28 RLDKFICESTSLTRSLAKKAMHRGDVTCDGEIIKNSGFKVTDAHTICLDGEVLSII-GPR 86 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV--------GRLDINTEGLLLLTN 126 + +KP+ + ST+ + PS+ + + GRLD +T GL+L+TN Sbjct: 87 FIMINKPVDTIC--------STIDEEYPSVLGLIDVIKPEELHIAGRLDADTTGLVLITN 138 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + P + + Y + + + G+ + LD Sbjct: 139 DGQWSHKITSPKKECGKRYLLETAEPLADSLVEQFATGLQLNNEDGLTKPAILDILGAHE 198 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 A +T+ EGK ++K++ +V RL R G +L Sbjct: 199 ARLTI--TEGKYHQVKRMLAAVGNRVTRLHRECVGTIEL 235 >gi|34499601|ref|NP_903816.1| pseudouridylate synthase [Chromobacterium violaceum ATCC 12472] gi|34105452|gb|AAQ61807.1| pseudouridylate synthase [Chromobacterium violaceum ATCC 12472] Length = 233 Score = 44.3 bits (103), Expect = 0.032, Method: Compositional matrix adjust. Identities = 39/136 (28%), Positives = 59/136 (43%), Gaps = 9/136 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK + G+ SRRE + I Q VKV+G ++ V I + G P A Sbjct: 7 RLSKRMVELGLCSRREADACIEQGLVKVDGKVVNTLGARVRPEQQITLAGKPQAMATLPV 66 Query: 75 LWLYHKPIGLVTTHSD---PDGRSTVFDNLPSIF-----SRVISVGRLDINTEGLLLLTN 126 L ++P G + PD R+ D ++ + +VG +D GLL+LT Sbjct: 67 TMLLNRPAGEEAPPAQLLGPDSRAPQ-DGAEQVWLARHRQHLTAVGAVDERCHGLLVLTQ 125 Query: 127 DGGLARVLELPSTQWL 142 D L R L ++L Sbjct: 126 DKKLPRHLAECEMEFL 141 >gi|237835269|ref|XP_002366932.1| 16S pseudouridylate synthase, putative [Toxoplasma gondii ME49] gi|211964596|gb|EEA99791.1| 16S pseudouridylate synthase, putative [Toxoplasma gondii ME49] Length = 286 Score = 44.3 bits (103), Expect = 0.033, Method: Compositional matrix adjust. Identities = 26/78 (33%), Positives = 41/78 (52%), Gaps = 1/78 (1%) Query: 94 RSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 R V NL P+ ++++ GRLD+++ GL + T DG LA L P + + Y V Sbjct: 52 RREVKSNLSPAKCNKLVCAGRLDVDSTGLTVFTQDGRLASQLVGPGKRVSKEYHVEVDLP 111 Query: 153 VDQDKLNLLKKGIVIQGI 170 V L LL+ G+ + G+ Sbjct: 112 VSAGALTLLRHGLSLDGL 129 >gi|134094298|ref|YP_001099373.1| putative ribosomal large subunit pseudouridine synthase [Herminiimonas arsenicoxydans] gi|133738201|emb|CAL61246.1| putative ribosomal large subunit pseudouridine synthase [Herminiimonas arsenicoxydans] Length = 237 Score = 43.9 bits (102), Expect = 0.033, Method: Compositional matrix adjust. Identities = 56/231 (24%), Positives = 91/231 (39%), Gaps = 18/231 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A A SRRE E+ I V V+G+++E V I + A Sbjct: 6 RLAKRVADAVPCSRREAEQYIEGGWVTVDGVVIEEPGHRVSPQQAIHLSPDATLVAINPV 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-----------IFSRVISVGRLDINTEGLLL 123 L HKP G+ +D R +NL + S + V L+ GL++ Sbjct: 66 TILLHKPAGI---DADAALRLITPENLYAEDRSGIRFLKKHTSELKPVDVLETYASGLMV 122 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T D +AR L + + Y G + + L LL G+ G ++V+ + Sbjct: 123 FTQDWHVARKLVDDAATVEQEYIAEVSGDLIPNGLALLNHGLNFNGKPLAPIKVSWQNET 182 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L+ G+ +I + E K+ L RI + +L AG R Sbjct: 183 R----LRFALKAGRRGQIAHMCEMVGLKLLNLKRIRIARLPMASLPAGQWR 229 >gi|229894383|ref|ZP_04509566.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Pestoides A] gi|229703781|gb|EEO90797.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Pestoides A] Length = 112 Score = 43.9 bits (102), Expect = 0.034, Method: Composition-based stats. Identities = 22/84 (26%), Positives = 45/84 (53%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ R Sbjct: 2 RLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQMVGPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVF 98 ++ +KP G V + DPD + ++ Sbjct: 62 YFMLNKPQGYVCSTEDPDHPTVLY 85 >gi|319788193|ref|YP_004147668.1| RNA-binding S4 domain protein [Pseudoxanthomonas suwonensis 11-1] gi|317466705|gb|ADV28437.1| RNA-binding S4 domain protein [Pseudoxanthomonas suwonensis 11-1] Length = 270 Score = 43.9 bits (102), Expect = 0.038, Method: Compositional matrix adjust. Identities = 40/170 (23%), Positives = 77/170 (45%), Gaps = 13/170 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+++ +A SR E E+ I VKV+G ++E ++++++ +E+D + Sbjct: 34 PIRLARRVAELAQCSRSEAEQYIEGGWVKVDGQVVELPG-HMVTSERVEIDPKARLQPVE 92 Query: 73 TRLWLYHKPIG------------LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +L HKP G L+ +G ++ L F R+ S+ L+ G Sbjct: 93 PATFLLHKPAGVDLEAVADTLATLLPPQERWEGDTSNIRTLRKNFQRLASLVPLEPEASG 152 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 L++L+ DG + R L + + V G ++ L+ L G+ +G+ Sbjct: 153 LVVLSQDGRVRRRLVEDFATIEQEFVVEVEGSLEPWGLSRLSHGLTFEGL 202 >gi|255550684|ref|XP_002516391.1| ribosomal large subunit pseudouridine synthase B, putative [Ricinus communis] gi|223544489|gb|EEF46008.1| ribosomal large subunit pseudouridine synthase B, putative [Ricinus communis] Length = 315 Score = 43.5 bits (101), Expect = 0.045, Method: Compositional matrix adjust. Identities = 22/38 (57%), Positives = 28/38 (73%), Gaps = 2/38 (5%) Query: 9 ENF--TPQRVSKVIARAGIASRREVERMIAQQRVKVNG 44 ENF PQR+SKV+A +G+ASRR E +I Q +V VNG Sbjct: 144 ENFREPPQRLSKVLAASGVASRRNSEELIFQGKVTVNG 181 >gi|221485770|gb|EEE24040.1| 16S pseudouridylate synthase, putative [Toxoplasma gondii GT1] gi|221503852|gb|EEE29536.1| 16S pseudouridylate synthase, putative [Toxoplasma gondii VEG] Length = 285 Score = 43.5 bits (101), Expect = 0.046, Method: Compositional matrix adjust. Identities = 26/78 (33%), Positives = 41/78 (52%), Gaps = 1/78 (1%) Query: 94 RSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 R V NL P+ ++++ GRLD+++ GL + T DG LA L P + + Y V Sbjct: 52 RREVKSNLSPAKCNKLVCAGRLDVDSTGLTVFTQDGRLASQLVGPGKRVSKEYHVEVDLP 111 Query: 153 VDQDKLNLLKKGIVIQGI 170 V L LL+ G+ + G+ Sbjct: 112 VSAGALTLLRHGLSLDGL 129 >gi|212636604|ref|YP_002313129.1| pseudouridine synthase Rsu [Shewanella piezotolerans WP3] gi|212558088|gb|ACJ30542.1| Pseudouridine synthase, Rsu [Shewanella piezotolerans WP3] Length = 230 Score = 43.5 bits (101), Expect = 0.047, Method: Compositional matrix adjust. Identities = 48/223 (21%), Positives = 93/223 (41%), Gaps = 19/223 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K I + SR ++ + + V NG +++ + V I ++G L K R Sbjct: 2 RLDKFICESTSHSRVSAKKALHRGDVTCNGEVVKTSGFKVTDEHEIRLEGEVL-KVIGPR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV--------GRLDINTEGLLLLTN 126 + +KP+ + ST+ + PS+ + + GRLD +T GL+L+T Sbjct: 61 FIMLNKPVDTIC--------STIDEEYPSVIGLLDVIRPEDLHIAGRLDADTTGLVLITT 112 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + P + + Y + + ++ + G+ + L+ Sbjct: 113 DGKWSHKITSPKKECGKRYLLETADPLTEELIGKFATGLQLNNEDGLTKPAKLELLGTHQ 172 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 A +T+ EGK ++K++ KV +L R G +L + L Sbjct: 173 ARLTI--TEGKYHQVKRMLAAVGNKVTKLHREVVGEIELDSSL 213 >gi|20451741|emb|CAD30266.1| ribosomal small chain pseudouridine synthase A [Listonella anguillarum] Length = 109 Score = 43.5 bits (101), Expect = 0.048, Method: Composition-based stats. Identities = 28/98 (28%), Positives = 47/98 (47%), Gaps = 12/98 (12%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV------GRLDINTEGLLLLTND 127 R + HKP G V +H D F++ I ++V GRLD++T GL+L+T+D Sbjct: 17 RYIMLHKPTGYVCSHEDG------FNHTAFILLDEVNVQDLHFAGRLDVDTTGLVLITDD 70 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 G + + P + + YRV ++ + + GI Sbjct: 71 GQWSHRITSPKHKCDKTYRVWLADPIEANYVEQFLTGI 108 >gi|268611607|ref|ZP_06145334.1| RNA pseudouridine synthase family protein [Ruminococcus flavefaciens FD-1] Length = 201 Score = 43.5 bits (101), Expect = 0.048, Method: Compositional matrix adjust. Identities = 56/178 (31%), Positives = 79/178 (44%), Gaps = 24/178 (13%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARVL 134 ++++KP VT D R TV D P+ S R+ VGRLD +T GLLLLT+DG L + Sbjct: 7 YMFNKPQNCVTAKRDAVHR-TVMDFFPADLSERLHPVGRLDKDTCGLLLLTDDGDLDFRI 65 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-----------YGDMQV------ 177 P + Y G +D +K+ L+KGI + G Y Q+ Sbjct: 66 MQPDRHVSKTYFFYAIGTMDDEKIRSLEKGISMVGFTSRPASFRLIRKYRISQLEEFFPS 125 Query: 178 -----TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 L G + + EGK E+K++ E + K+ L RIS G L LA Sbjct: 126 ERRERYLKNPDGPAFAAELTIHEGKKHEVKRMLEAVHCKIFYLKRISIGGLSLDDSLA 183 >gi|317052412|ref|YP_004113528.1| pseudouridine synthase, RluA family [Desulfurispirillum indicum S5] gi|316947496|gb|ADU66972.1| pseudouridine synthase, RluA family [Desulfurispirillum indicum S5] Length = 313 Score = 43.5 bits (101), Expect = 0.051, Method: Compositional matrix adjust. Identities = 44/166 (26%), Positives = 79/166 (47%), Gaps = 26/166 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-----------STDHIEVD 63 R+ + +A + SR ++++AQ V+VNG ++E+A+ ++ DH V Sbjct: 15 RLDQFLAATELFSRSMAQKLVAQGHVQVNGTVIEKASYSLQPGDLVCVQQPAPVDHATVV 74 Query: 64 G--VPLRK-AERTRLWLYHKPIGLVTTHSDPDGRSTVF--------DNLPSIFS--RVIS 110 G +PL E L + +KP G+V + + +T+ D LP+I R Sbjct: 75 GQEIPLNIWYEDESLLVVNKPAGMVVHPAAGNYDATLVNALVHYLGDGLPAIGGVLRPGI 134 Query: 111 VGRLDINTEGLLLLT-NDGGLARVLELPSTQWL-RVYRVRFHGQVD 154 V RLD +T GL+L+ + R++ + + + + R Y HG +D Sbjct: 135 VHRLDKDTSGLMLVAKTEVAHQRLVSMFAAKEIDRCYLALCHGSLD 180 >gi|294893081|ref|XP_002774329.1| hypothetical protein Pmar_PMAR007910 [Perkinsus marinus ATCC 50983] gi|239879651|gb|EER06145.1| hypothetical protein Pmar_PMAR007910 [Perkinsus marinus ATCC 50983] Length = 100 Score = 43.1 bits (100), Expect = 0.060, Method: Compositional matrix adjust. Identities = 25/91 (27%), Positives = 48/91 (52%), Gaps = 3/91 (3%) Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDM 175 GL++LTNDG A + P ++ L V+ VR G++ +D+ ++ G+ + + YG + Sbjct: 2 CSGLVILTNDGEFAHNMAHPRSKVLSVFLVRVKGRLPEDRFKSWRRREGVKVGNVAYGQV 61 Query: 176 QVTLDTQKGSNA-WVTVGLREGKNREIKKVF 205 V +D + + W+ V L + + K+F Sbjct: 62 FVGIDKRPSEDVTWLRVRLVMTNEKNLVKLF 92 >gi|229023034|ref|ZP_04179549.1| Pseudouridine synthase [Bacillus cereus AH1272] gi|228738257|gb|EEL88738.1| Pseudouridine synthase [Bacillus cereus AH1272] Length = 90 Score = 43.1 bits (100), Expect = 0.061, Method: Compositional matrix adjust. Identities = 19/65 (29%), Positives = 40/65 (61%) Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 ++++T ++ A V + + EG+NR+++++FE + KV +L R Y ++G+L G Sbjct: 10 ANVKITSWDKRKETAIVQLTIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGD 69 Query: 233 TREVS 237 RE++ Sbjct: 70 ARELT 74 >gi|323210422|gb|EFZ95309.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] Length = 127 Score = 43.1 bits (100), Expect = 0.071, Method: Compositional matrix adjust. Identities = 19/49 (38%), Positives = 30/49 (61%) Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +G N W V L EG+NRE+++++E +V+RLIR+ YG L Sbjct: 8 IKFSGGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 56 >gi|302879321|ref|YP_003847885.1| RNA-binding S4 domain-containing protein [Gallionella capsiferriformans ES-2] gi|302582110|gb|ADL56121.1| RNA-binding S4 domain protein [Gallionella capsiferriformans ES-2] Length = 232 Score = 42.7 bits (99), Expect = 0.081, Method: Compositional matrix adjust. Identities = 47/166 (28%), Positives = 68/166 (40%), Gaps = 15/166 (9%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV---MSTDHIEVDGVPLRK 69 P R++K + SRRE E IA V V+G ++E V + H D P+ Sbjct: 4 PVRLAKRLVELVACSRREAELYIAGGWVMVDGQIVEEPQFMVSEQLVELHPNADLTPIEP 63 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI------FSRVISVGRLDINTEGLLL 123 A L+H TT RS D+L I F ++ L+ N GL + Sbjct: 64 AT----LLFHHLNATNTTAICAGTRSA--DDLSGIHLLRQHFFKLTPCTPLERNASGLTV 117 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 LT D + R L+ + + Y V G++ D L LL G+ G Sbjct: 118 LTQDFRIIRKLKDEAATIEQEYIVEIAGEIMADGLKLLNHGLKFNG 163 >gi|212703202|ref|ZP_03311330.1| hypothetical protein DESPIG_01244 [Desulfovibrio piger ATCC 29098] gi|212673468|gb|EEB33951.1| hypothetical protein DESPIG_01244 [Desulfovibrio piger ATCC 29098] Length = 119 Score = 42.7 bits (99), Expect = 0.082, Method: Compositional matrix adjust. Identities = 29/102 (28%), Positives = 48/102 (47%), Gaps = 1/102 (0%) Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVGLRE 195 P + Y V G V L +++G+ + +G ++V Q + + + L + Sbjct: 3 PRHHQPKTYDVLVRGIVPASALATMRRGMTLAEGEQLRPVEVESRLQANGHTRLRMVLHQ 62 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 G NR+I+++ + RL RIS GP LG L GS R +S Sbjct: 63 GVNRQIRRMCRDLGLTILRLKRISLGPIGLGDLPVGSCRFLS 104 >gi|330959244|gb|EGH59504.1| S4 domain-containing protein [Pseudomonas syringae pv. maculicola str. ES4326] Length = 236 Score = 42.7 bits (99), Expect = 0.086, Method: Compositional matrix adjust. Identities = 53/235 (22%), Positives = 95/235 (40%), Gaps = 13/235 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK + SRRE E I V V+G+++E V ST +E+ + Sbjct: 4 PIRLSKRLIELVGCSRREAELFIEGGWVTVDGVVIEEPHFKV-STQKVELSPDAKADSPE 62 Query: 73 TRLWLYHKP--------IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + HKP + ++T + + S L F R+ + L N GL++ Sbjct: 63 AVTIILHKPASASAESALQMITPGTLSEEHSYSKRPLKGHFMRLEPISSLQANASGLMVF 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 + D + R L ++ + Y V G + LN L G+ +G ++ + + Sbjct: 123 SQDWKILRKLTDDRSKIEQEYVVEITGDMVAHGLNRLNHGLTYKG---KELPAVKASWQN 179 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 N + ++ + I ++ E K+ + RI G +G L G R ++ K Sbjct: 180 ENR-LRFAMKNPQPGIIAQLCEAVGLKIVSIRRIRIGGVSMGKLPEGQWRYMTSK 233 >gi|91787026|ref|YP_547978.1| RNA-binding S4 [Polaromonas sp. JS666] gi|91696251|gb|ABE43080.1| RNA-binding S4 [Polaromonas sp. JS666] Length = 248 Score = 42.4 bits (98), Expect = 0.098, Method: Compositional matrix adjust. Identities = 61/245 (24%), Positives = 95/245 (38%), Gaps = 30/245 (12%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAE 71 P R++K +A SRRE E+ I V V+G+++E V+ T + D L A Sbjct: 3 PVRLAKRLAEMLSCSRREAEQYIEGGWVTVDGVVVEEPQFRVLDQTIELSKDASLLALAP 62 Query: 72 RTRLWLYHKPIG-------------------LVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 T L HKP G LV + PD RS + L FS V Sbjct: 63 VT--LLLHKPAGHEAGLDAPAGRGVPSAAELLVAANQSPDDRSGI-RPLKKHFSAAELVT 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---DKLNLLKKGIVIQG 169 L GL++ T D +AR L + V G++ ++LN + G G Sbjct: 120 PLATAASGLVVFTQDWRVARKLREDAGVLEHEVIVEVTGEIKPGGLERLNRIDHGFTFNG 179 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + +V+ S A + L+ + +I + E +V + R+ G + L Sbjct: 180 VLLPPAKVSWQ----SEARLRFALKGERPGQIAYMCESVGLRVEAMKRLRIGRVPMSNLQ 235 Query: 230 AGSTR 234 +G R Sbjct: 236 SGRWR 240 >gi|291336627|gb|ADD96173.1| hypothetical protein [uncultured organism MedDCM-OCT-S05-C185] Length = 59 Score = 42.4 bits (98), Expect = 0.099, Method: Composition-based stats. Identities = 21/43 (48%), Positives = 30/43 (69%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV 54 T +R+SK +ARAG+ SRRE ER I RV ++ ++ AA+NV Sbjct: 13 TEERISKRLARAGLCSRREAERWINAGRVSIDNEVINTAAINV 55 >gi|329902666|ref|ZP_08273221.1| 16S rRNA pseudouridylate 516 synthase [Oxalobacteraceae bacterium IMCC9480] gi|327548656|gb|EGF33305.1| 16S rRNA pseudouridylate 516 synthase [Oxalobacteraceae bacterium IMCC9480] Length = 239 Score = 42.4 bits (98), Expect = 0.10, Method: Compositional matrix adjust. Identities = 50/222 (22%), Positives = 90/222 (40%), Gaps = 33/222 (14%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH---IEVDGVPLRKAER 72 + +++ G +R+ ++I V V G ++ TD+ E DG+ R + Sbjct: 6 LDRLLQSQGFGTRKWCRQLIDDGEVSVAGTVV---------TDYRTAFEPDGLTFRLFDE 56 Query: 73 TRLWLYHKPIGLVTTHSDPDGRST--------VFDNLPSIFS--RVISVGRLDINTEGLL 122 W +H+ + V H P+ + V LP F+ V VGRLD +T GLL Sbjct: 57 D--WDFHEHV-FVALHKPPNFECSRKPSHHPGVLSILPENFTWRDVQPVGRLDHDTTGLL 113 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L+++ G P + +VY V + + LL G+ + D L Sbjct: 114 LMSDHGPFIHAQSSPKSHIPKVYIATTAEAVTPELVALLLAGVQLH-----DEPAPLAAV 168 Query: 183 KGS---NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + S + + + L +GK ++K++ L R++ G Sbjct: 169 RCSMVDSHRIEIVLEQGKYHQVKRMLAAAGNHCAALQRVAIG 210 >gi|302384331|ref|YP_003820154.1| pseudouridine synthase [Brevundimonas subvibrioides ATCC 15264] gi|302194959|gb|ADL02531.1| pseudouridine synthase [Brevundimonas subvibrioides ATCC 15264] Length = 243 Score = 42.4 bits (98), Expect = 0.11, Method: Compositional matrix adjust. Identities = 36/112 (32%), Positives = 57/112 (50%), Gaps = 11/112 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILL----ERAAVNVMSTDHIEVDGVPLRKA 70 RV K++ G SR E+ R+ + ++G+ L +R AV ++VDG PL Sbjct: 7 RVDKLLGSMGYGSRSEIARLGKVGGIVLDGVDLTDVSKRIAVTPDLPSRMQVDGRPLDPP 66 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINT 118 L L +KP+G+ +H + DG V+D LP + R + ++GRLD T Sbjct: 67 AGVVLIL-NKPLGMTCSHKE-DG-DLVYDVLPDRWRRRDPAISTIGRLDKQT 115 >gi|163858109|ref|YP_001632407.1| hypothetical protein Bpetpseudo_11 [Bordetella petrii DSM 12804] gi|163261837|emb|CAP44139.1| pseudogene [Bordetella petrii] Length = 217 Score = 42.4 bits (98), Expect = 0.11, Method: Compositional matrix adjust. Identities = 27/65 (41%), Positives = 37/65 (56%), Gaps = 2/65 (3%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L + +KP + SD GR+T+ D + S GRLD ++EGLLLLTNDG R L Sbjct: 128 LLMLNKPFDALAQLSDDQGRATLKDFVD--VSDFYPAGRLDRDSEGLLLLTNDGRCNREL 185 Query: 135 ELPST 139 ++ T Sbjct: 186 QILGT 190 >gi|325116556|emb|CBZ52110.1| putative 16S pseudouridylate synthase [Neospora caninum Liverpool] Length = 255 Score = 42.0 bits (97), Expect = 0.13, Method: Compositional matrix adjust. Identities = 40/186 (21%), Positives = 71/186 (38%), Gaps = 53/186 (28%) Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 P+ ++++ GRLD+++ GL + T DG LA + P + + Y V V L LL Sbjct: 61 PAKCNKLVCAGRLDVDSTGLTVFTQDGRLASQIVGPGKRVSKEYYVEVDLPVSVGALTLL 120 Query: 162 KKGIVIQGICYGDMQVTL------------------------------------------ 179 + G+ + G+ +V L Sbjct: 121 RHGLSLDGLELLPAKVRLLPPLRDAFFASLPPSGVSTSAPSSPTSLASYAFAEEKRVGSA 180 Query: 180 -----DTQKGSNAWV------TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + + S WV ++ L EG++R+I+++ E +V ++ R+ G LG L Sbjct: 181 EDTGAEGKDESEIWVGRTTRLSIELLEGRHRQIRRMCELVGLRVLKIHRVRIGKISLGAL 240 Query: 229 LAGSTR 234 G R Sbjct: 241 PQGRWR 246 >gi|188495586|ref|ZP_03002856.1| RNA pseudouridylate synthase family protein [Escherichia coli 53638] gi|188490785|gb|EDU65888.1| RNA pseudouridylate synthase family protein [Escherichia coli 53638] Length = 127 Score = 42.0 bits (97), Expect = 0.14, Method: Compositional matrix adjust. Identities = 28/110 (25%), Positives = 49/110 (44%), Gaps = 15/110 (13%) Query: 143 RVYRVRFHGQVDQDKLNLLKKGIVIQ-------GICYGDMQVTL--------DTQKGSNA 187 ++Y V+ G QD L L+ G+ + G D L + + + Sbjct: 17 KIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPPIRERKSIPTS 76 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ + L EG+NR+++++ + RLIR + G + L L G REV+ Sbjct: 77 WLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREVT 126 >gi|197105762|ref|YP_002131139.1| ribosomal small subunit pseudouridine synthase A [Phenylobacterium zucineum HLK1] gi|196479182|gb|ACG78710.1| ribosomal small subunit pseudouridine synthase A [Phenylobacterium zucineum HLK1] Length = 242 Score = 42.0 bits (97), Expect = 0.15, Method: Compositional matrix adjust. Identities = 34/112 (30%), Positives = 54/112 (48%), Gaps = 11/112 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----EVDGVPLRKA 70 R+ K++A G SRREV+ + + ++G + +A + T + +VDG PL Sbjct: 6 RLDKLLANMGYGSRREVQALARAGAITLDGAPVPKADTRIALTPDLPARMQVDGRPLDPL 65 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINT 118 L L HKP G+ +H + V+ LPS + + +VGRLD T Sbjct: 66 PGMALML-HKPTGVTCSHKETG--ELVYSLLPSRWRMREPPLSTVGRLDKET 114 >gi|254418383|ref|ZP_05032107.1| conserved hypothetical protein, putative [Brevundimonas sp. BAL3] gi|196184560|gb|EDX79536.1| conserved hypothetical protein, putative [Brevundimonas sp. BAL3] Length = 244 Score = 42.0 bits (97), Expect = 0.15, Method: Compositional matrix adjust. Identities = 64/230 (27%), Positives = 105/230 (45%), Gaps = 24/230 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS---------TDHIEVDGV 65 RV +++ G SR E+ RM K GI+L+ A + +S +E+DG Sbjct: 8 RVDRLLGSMGYGSRAEMARM-----AKAGGIVLDGADLTDVSRRIPVTRDLPTRMEIDGE 62 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----SRVISVGRLDINTEGL 121 PL + + L +KP+G+ +H + + V+D LP + + ++GRLD T GL Sbjct: 63 PLDPVQGL-VILLNKPLGMTCSHKEEG--ALVYDILPGRWRSRDPAISTIGRLDKQTTGL 119 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLD 180 LLLT+DG L + P +VYR + + +L G +V++G L+ Sbjct: 120 LLLTDDGDLLHRVISPKRHVAKVYRAGLARPLMGTEGDLFASGELVLEGEDKPLAPAVLE 179 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + A +TV EG+ +++++F V L R G L LA Sbjct: 180 VVSPTEALLTV--TEGRYHQVRRMFAAAGNHVETLHRERLGGLVLPADLA 227 >gi|213969165|ref|ZP_03397304.1| S4 domain protein [Pseudomonas syringae pv. tomato T1] gi|301383941|ref|ZP_07232359.1| S4 domain protein [Pseudomonas syringae pv. tomato Max13] gi|302064174|ref|ZP_07255715.1| S4 domain protein [Pseudomonas syringae pv. tomato K40] gi|302134741|ref|ZP_07260731.1| S4 domain protein [Pseudomonas syringae pv. tomato NCPPB 1108] gi|213926163|gb|EEB59719.1| S4 domain protein [Pseudomonas syringae pv. tomato T1] Length = 236 Score = 41.6 bits (96), Expect = 0.18, Method: Compositional matrix adjust. Identities = 41/165 (24%), Positives = 70/165 (42%), Gaps = 9/165 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK + SRRE E I V V+G++++ V ST IE+ + Sbjct: 4 PIRLSKRLIELVGCSRREAELFIEGGWVTVDGVVIDEPHFKV-STQKIELSPEAKADSPE 62 Query: 73 TRLWLYHKP--------IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + HKP + ++T + S L F R+ ++ L N GL++ Sbjct: 63 SVTIILHKPASASAESALQMITPGTLSAEHSYSKRPLKGHFMRLEAISSLQANASGLMVF 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 + D + R L ++ + Y V G++ LN L G+ +G Sbjct: 123 SQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKG 167 >gi|296390524|ref|ZP_06879999.1| hypothetical protein PaerPAb_20321 [Pseudomonas aeruginosa PAb1] Length = 236 Score = 41.6 bits (96), Expect = 0.19, Method: Compositional matrix adjust. Identities = 47/169 (27%), Positives = 71/169 (42%), Gaps = 17/169 (10%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK +A SRRE E I V V+G ++E V+ V+ +P +AE Sbjct: 4 PIRLSKRLAELTACSRREAELYIEGGWVSVDGEVIEEPQFKVLDQ---RVELLPGARAET 60 Query: 73 TR--LWLYHKPIGLVTTHSDPDGRSTV---FDNLPSI-------FSRVISVGRLDINTEG 120 L HKP G H D +G + + PS F+R LD G Sbjct: 61 IEPATLLLHKPAGW--RHDDFEGLLAAGRRWSDDPSPLRALKKHFARQRPTLALDSEASG 118 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 L++ + G+ R L + + Y V G++ L L++G+ QG Sbjct: 119 LVVFSQQHGVLRKLVDDGARLEQEYLVEVTGELAAGGLERLRQGLAYQG 167 >gi|71737151|ref|YP_275932.1| S4 domain-containing protein [Pseudomonas syringae pv. phaseolicola 1448A] gi|71557704|gb|AAZ36915.1| S4 domain protein [Pseudomonas syringae pv. phaseolicola 1448A] Length = 236 Score = 41.6 bits (96), Expect = 0.19, Method: Compositional matrix adjust. Identities = 56/237 (23%), Positives = 97/237 (40%), Gaps = 17/237 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK + SRRE E I V V+G+++E V ST IE+ P KA+ Sbjct: 4 PIRLSKRLIELVGCSRREAELFIEGGWVTVDGVVIEEPHFKV-STQKIELS--PDAKADS 60 Query: 73 TR--LWLYHKP--------IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + HKP + ++T + S L F R+ ++ L N GL+ Sbjct: 61 PEPVTIILHKPASASAEEALQMITPGTLSVEHSYSKRPLKGHFMRLEAISSLQANASGLM 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + + D + R L ++ + Y V G++ LN L G+ +G ++ + + Sbjct: 121 VFSQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKGKELPSVKASWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + ++ + I + E K+ + RI G +G L G R ++ K Sbjct: 181 NR----LRFAMKNPQPGIIALLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTTK 233 >gi|330956144|gb|EGH56404.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae Cit 7] Length = 75 Score = 41.6 bits (96), Expect = 0.20, Method: Compositional matrix adjust. Identities = 30/74 (40%), Positives = 43/74 (58%), Gaps = 8/74 (10%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG---ILLERAAVNVMST 57 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG L +R ++ Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATLGQRVDLH---- 59 Query: 58 DHIEVDGVPLRKAE 71 D I VDG +++ E Sbjct: 60 DAISVDGRVIKREE 73 >gi|28871164|ref|NP_793783.1| S4 domain-containing protein [Pseudomonas syringae pv. tomato str. DC3000] gi|28854414|gb|AAO57478.1| S4 domain protein [Pseudomonas syringae pv. tomato str. DC3000] gi|330872678|gb|EGH06827.1| S4 domain-containing protein [Pseudomonas syringae pv. morsprunorum str. M302280PT] gi|330967892|gb|EGH68152.1| S4 domain-containing protein [Pseudomonas syringae pv. actinidiae str. M302091] gi|331016415|gb|EGH96471.1| S4 domain protein [Pseudomonas syringae pv. lachrymans str. M302278PT] Length = 236 Score = 41.2 bits (95), Expect = 0.22, Method: Compositional matrix adjust. Identities = 41/165 (24%), Positives = 70/165 (42%), Gaps = 9/165 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK + SRRE E I V V+G++++ V ST IE+ + Sbjct: 4 PIRLSKRLIELVGCSRREAELFIEGGWVTVDGVVIDEPHFKV-STQKIELSPDAKADSPE 62 Query: 73 TRLWLYHKP--------IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + HKP + ++T + S L F R+ ++ L N GL++ Sbjct: 63 SVTIILHKPASASAESALQMITPGTLSAEHSYSKRPLKGHFMRLEAISSLQANASGLMVF 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 + D + R L ++ + Y V G++ LN L G+ +G Sbjct: 123 SQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKG 167 >gi|289625988|ref|ZP_06458942.1| S4 domain-containing protein [Pseudomonas syringae pv. aesculi str. NCPPB3681] gi|289651496|ref|ZP_06482839.1| S4 domain-containing protein [Pseudomonas syringae pv. aesculi str. 2250] gi|298488229|ref|ZP_07006264.1| S4 domain protein [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|298157237|gb|EFH98322.1| S4 domain protein [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|320323074|gb|EFW79163.1| S4 domain-containing protein [Pseudomonas syringae pv. glycinea str. B076] gi|320329654|gb|EFW85643.1| S4 domain-containing protein [Pseudomonas syringae pv. glycinea str. race 4] gi|330868588|gb|EGH03297.1| S4 domain-containing protein [Pseudomonas syringae pv. aesculi str. 0893_23] gi|330878026|gb|EGH12175.1| S4 domain-containing protein [Pseudomonas syringae pv. glycinea str. race 4] gi|330985156|gb|EGH83259.1| S4 domain-containing protein [Pseudomonas syringae pv. lachrymans str. M301315] Length = 236 Score = 41.2 bits (95), Expect = 0.22, Method: Compositional matrix adjust. Identities = 45/167 (26%), Positives = 72/167 (43%), Gaps = 13/167 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK + SRRE E I V V+G+++E V ST IE+ P KA+ Sbjct: 4 PIRLSKRLIELVGCSRREAELFIEGGWVTVDGVVIEEPHFKV-STQKIELS--PDAKADS 60 Query: 73 TR--LWLYHKP--------IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + HKP + ++T + S L F R+ ++ L N GL+ Sbjct: 61 PEPVTIILHKPASASAEEALQMITPGTLSVEHSYSKRPLKGHFMRLEAISSLQANASGLM 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 + + D + R L ++ + Y V G++ LN L G+ +G Sbjct: 121 VFSQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKG 167 >gi|257487032|ref|ZP_05641073.1| S4 domain-containing protein [Pseudomonas syringae pv. tabaci ATCC 11528] gi|330894641|gb|EGH27302.1| S4 domain-containing protein [Pseudomonas syringae pv. mori str. 301020] gi|331009326|gb|EGH89382.1| S4 domain-containing protein [Pseudomonas syringae pv. tabaci ATCC 11528] Length = 236 Score = 41.2 bits (95), Expect = 0.23, Method: Compositional matrix adjust. Identities = 42/165 (25%), Positives = 69/165 (41%), Gaps = 9/165 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK + SRRE E I V V+G+++E V ST IE+ + Sbjct: 4 PIRLSKRLIELVGCSRREAELFIEGGWVTVDGVVIEEPHFKV-STQKIELSPDAKANSPE 62 Query: 73 TRLWLYHKP--------IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + HKP + ++T + S L F R+ ++ L N GL++ Sbjct: 63 PVTIILHKPASASAEEALQMITPGTLSVEHSYSKRPLKGHFMRLEAISSLQANASGLMVF 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 + D + R L ++ + Y V G++ LN L G+ +G Sbjct: 123 SQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKG 167 >gi|330807854|ref|YP_004352316.1| RNA-binding S4 domain-containing protein [Pseudomonas brassicacearum subsp. brassicacearum NFM421] gi|327375962|gb|AEA67312.1| Conserved hypothetical protein; putative RNA-binding S4 domain-containing protein [Pseudomonas brassicacearum subsp. brassicacearum NFM421] Length = 236 Score = 41.2 bits (95), Expect = 0.23, Method: Compositional matrix adjust. Identities = 45/165 (27%), Positives = 68/165 (41%), Gaps = 9/165 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK + SRRE E I V V+G +++ V +T +E+D A Sbjct: 4 PIRLSKRLIELVGCSRREAELFIEGGWVTVDGEVIDEPQFKV-TTQKVELDPEAKATAPE 62 Query: 73 TRLWLYHKPIGL-VTTHSDPDGRSTVFDN-------LPSIFSRVISVGRLDINTEGLLLL 124 L + P G V T G T+ + L F R+ + L N GLL+ Sbjct: 63 PVTLLLNVPAGTDVDTAMASLGPQTLSEEHRFGKRPLKGHFLRLTASADLQANASGLLVF 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 T D + R L + + + Y V G++ LN L G+ +G Sbjct: 123 TQDWKILRKLTADAAKIEQEYVVEVEGEMVAHGLNRLNHGLTYKG 167 >gi|255024632|ref|ZP_05296618.1| RNA pseudouridine synthase family protein [Listeria monocytogenes FSL J1-208] Length = 105 Score = 41.2 bits (95), Expect = 0.26, Method: Compositional matrix adjust. Identities = 32/104 (30%), Positives = 49/104 (47%), Gaps = 5/104 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K+++ G SR+EV+ ++ V VNG + + + V D + V G P+ E Sbjct: 2 RLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGTPVVYQEFV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLD 115 L HKP +V+ D + TV D L + VGRLD Sbjct: 62 YFML-HKPQNVVSATED-NVSETVIDLLAQEDTLTNPFPVGRLD 103 >gi|159486376|ref|XP_001701217.1| hypothetical protein CHLREDRAFT_179001 [Chlamydomonas reinhardtii] gi|158271917|gb|EDO97727.1| predicted protein [Chlamydomonas reinhardtii] Length = 235 Score = 40.8 bits (94), Expect = 0.29, Method: Compositional matrix adjust. Identities = 22/49 (44%), Positives = 32/49 (65%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEV 62 R++KV+A G+ASRR E +IA RV+VNG L++ V + D +EV Sbjct: 48 RLAKVLAACGVASRRACEGLIADGRVRVNGNLVKEQGTTVDPARDKVEV 96 >gi|289667011|ref|ZP_06488086.1| pseudouridylate synthase [Xanthomonas campestris pv. musacearum NCPPB4381] Length = 236 Score = 40.8 bits (94), Expect = 0.30, Method: Compositional matrix adjust. Identities = 42/164 (25%), Positives = 70/164 (42%), Gaps = 9/164 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K +A A SR E ++ I V V+G+++E + + L AE Sbjct: 4 PIRLDKCVAAAFGCSRGEAQQYIEGGWVSVDGVVVEEPQALATAGQVTLAEDAVLAPAEP 63 Query: 73 TRLWLYHKPIGL----VTTHSDPDGRSTVFDN----LPSIFSRVISVGRLDINTEGLLLL 124 L L HKP G+ + P RS ++ + L F R+ + L+ GLL+L Sbjct: 64 ATL-LLHKPAGVSAEAALALATPTTRSALYPSDIRVLKRHFLRLTAPLPLEDAASGLLIL 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + DG + R L + + + V ++ + L G+V Q Sbjct: 123 SQDGRVLRRLSAEARSIEQEFLVEVQCELRPYGMARLAHGLVYQ 166 >gi|218506712|ref|ZP_03504590.1| RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli Brasil 5] Length = 102 Score = 40.8 bits (94), Expect = 0.30, Method: Compositional matrix adjust. Identities = 27/77 (35%), Positives = 43/77 (55%), Gaps = 2/77 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 + + +++ G SR + ER+IA+ RV ++G + + V + T I VDG + AE Sbjct: 27 LPRALSKLGYCSRTQAERLIAESRVSIDGRTVNDPSAWVDLVTAKIRVDGHVI-AAEAKI 85 Query: 75 LWLYHKPIGLVTTHSDP 91 + +KP GLVTT DP Sbjct: 86 YLILNKPRGLVTTRHDP 102 >gi|302187180|ref|ZP_07263853.1| RNA-binding S4 [Pseudomonas syringae pv. syringae 642] Length = 236 Score = 40.8 bits (94), Expect = 0.32, Method: Compositional matrix adjust. Identities = 57/237 (24%), Positives = 98/237 (41%), Gaps = 17/237 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK + SRRE E I V V+G ++E V ST IE+ P KA+ Sbjct: 4 PIRLSKRLIELVGCSRREAELFIEGGWVTVDGEVIEEPHFKV-STQKIELS--PDAKADS 60 Query: 73 TR--LWLYHKP--------IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + HKP + ++T + S + L F R+ ++ L N GL+ Sbjct: 61 PEPVTIILHKPASASAEEALQMITPGTLSVEHSYIKRPLKGHFMRLEAISSLQANASGLM 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + + D + R L ++ + Y V G++ LN L G+ +G ++ + Sbjct: 121 VFSQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKG---KELPAVKASW 177 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + N + ++ + I + E K+ + RI G +G L G R ++ K Sbjct: 178 QNENR-LRFAMKNPQPGIIALLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTAK 233 >gi|289661981|ref|ZP_06483562.1| pseudouridylate synthase [Xanthomonas campestris pv. vasculorum NCPPB702] Length = 236 Score = 40.4 bits (93), Expect = 0.37, Method: Compositional matrix adjust. Identities = 43/164 (26%), Positives = 70/164 (42%), Gaps = 9/164 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K +A A SR E ++ I V V+G+++E + + L AE Sbjct: 4 PIRLDKCVAAAFGCSRGEAQQYIEGGWVSVDGVVVEEPQALATAGQVTLAEDAVLAPAEP 63 Query: 73 TRLWLYHKPIGL----VTTHSDPDGRSTVFDN----LPSIFSRVISVGRLDINTEGLLLL 124 L L HKP G+ + P RS + + L F R+ + L+ GLL+L Sbjct: 64 ATL-LLHKPAGVSAEAALALATPTTRSALDPSDIRVLKRHFLRLTAPLPLEDAASGLLIL 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + DG + R L + + + V G++ + L G+V Q Sbjct: 123 SQDGRVLRRLSAEARSIEQEFLVEVQGELRPYGMARLAHGLVYQ 166 >gi|291613717|ref|YP_003523874.1| pseudouridine synthase [Sideroxydans lithotrophicus ES-1] gi|291583829|gb|ADE11487.1| pseudouridine synthase [Sideroxydans lithotrophicus ES-1] Length = 241 Score = 40.4 bits (93), Expect = 0.38, Method: Compositional matrix adjust. Identities = 54/225 (24%), Positives = 87/225 (38%), Gaps = 25/225 (11%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLRKAERT 73 + +++ G +R+ +I V V G + + TD++E V G R E Sbjct: 6 LDRILQSQGFGTRKWCRELIEDGEVLVAGDSITDYR-HAFETDNLEFSVYGESWRFREHV 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 + L +KP + P V LP F+ V VGRLD +T GLLL+++DG Sbjct: 65 YIAL-NKPADYECSRK-PSHHPGVLSLLPEQFALRDVQPVGRLDHDTTGLLLMSDDGAFI 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------ICYGDMQVTLDTQK 183 P +VY H V + L G+ + +C LDT + Sbjct: 123 HAQSSPKRHIPKVYVATTHDPVTPQLVRQLMSGVKLHDEPAPLAAVVCN-----MLDTCQ 177 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + + L +GK ++K++ L R G +L L Sbjct: 178 -----LKIVLEQGKYHQVKRMLAAAGNHCTALRRTEIGKLRLEAL 217 >gi|152985556|ref|YP_001349615.1| hypothetical protein PSPA7_4261 [Pseudomonas aeruginosa PA7] gi|150960714|gb|ABR82739.1| hypothetical protein PSPA7_4261 [Pseudomonas aeruginosa PA7] Length = 236 Score = 40.4 bits (93), Expect = 0.39, Method: Compositional matrix adjust. Identities = 54/233 (23%), Positives = 93/233 (39%), Gaps = 19/233 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+S+ + SRRE E I V V+G ++E V+ V+ +P + E Sbjct: 4 PIRLSRRLVELIACSRREAELYIEGGWVSVDGTVVEEPQFKVLDQ---RVELLPGARPEP 60 Query: 73 TR--LWLYHKPIG---------LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 L HKP G LV H + ++V L F+R + LD GL Sbjct: 61 LAPVTLLLHKPAGCREDEAARLLVAAHRW-EADASVLRPLKKHFARQRATLPLDTEASGL 119 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 L+ + G+ R L + + Y V G++ L L+ G+ +G +V+ Sbjct: 120 LVFSQQHGVLRKLVEDGARIEQEYLVEVAGELPPGGLERLRHGLAYRGRALPPCKVSWQN 179 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + L+ + +++ + E +V + R+ G L L +G R Sbjct: 180 ENH----LRFALKGAQPGQLRFMCESEGLEVRGIRRLRIGALSLARLPSGEWR 228 >gi|319940718|ref|ZP_08015060.1| pseudouridine synthase [Sutterella wadsworthensis 3_1_45B] gi|319805869|gb|EFW02636.1| pseudouridine synthase [Sutterella wadsworthensis 3_1_45B] Length = 235 Score = 40.4 bits (93), Expect = 0.44, Method: Compositional matrix adjust. Identities = 36/137 (26%), Positives = 55/137 (40%), Gaps = 4/137 (2%) Query: 91 PDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 P +V + LP V VGRLD +T GLLL T++G L L P +VYR Sbjct: 77 PSAHPSVMNLLPGPLRTRGVQPVGRLDWDTTGLLLFTDNGALLHRLTHPKKHVNKVYRAT 136 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 L G+V+ + +T+ +GK ++K++ Sbjct: 137 LSHPAANGTCEKLLSGVVLDDDPKPVFAKAAELMAPDVLMLTI--SQGKYHQVKRMVAAC 194 Query: 209 NWKVNRLIRISYGPFQL 225 +V L RI G ++L Sbjct: 195 GNRVVALHRIKVGAYEL 211 >gi|213858018|ref|ZP_03384989.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. M223] Length = 82 Score = 40.4 bits (93), Expect = 0.45, Method: Composition-based stats. Identities = 20/66 (30%), Positives = 34/66 (51%) Query: 33 RMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPD 92 R I RV V+G ++ AA ++ + DG PL + R ++ +KP G V + DPD Sbjct: 6 REIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGPRYFMLNKPQGYVCSTDDPD 65 Query: 93 GRSTVF 98 + ++ Sbjct: 66 HPTVLY 71 >gi|330950630|gb|EGH50890.1| RNA-binding S4 [Pseudomonas syringae Cit 7] Length = 236 Score = 40.0 bits (92), Expect = 0.51, Method: Compositional matrix adjust. Identities = 55/235 (23%), Positives = 94/235 (40%), Gaps = 13/235 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK + SRRE E I V V+G ++E V ST IE+ A Sbjct: 4 PIRLSKRLIELVGCSRREAELFIEGGWVTVDGEVIEEPHFKV-STQKIELSPDAKADAPE 62 Query: 73 TRLWLYHKP--------IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + HKP + ++T + S L F R+ ++ L N GL++ Sbjct: 63 PVTIILHKPASASAEEALQMITPGTLSVEHSYSKRPLKGHFMRLEAISSLQANASGLMVF 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 + D + R L ++ + Y V G++ LN L G+ +G ++ + + Sbjct: 123 SQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKG---KELPAVKASWQN 179 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 N + ++ + I + E K+ + RI G +G L G R ++ K Sbjct: 180 ENR-LRFAMKNPQPGIIALLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTAK 233 >gi|107100561|ref|ZP_01364479.1| hypothetical protein PaerPA_01001586 [Pseudomonas aeruginosa PACS2] gi|218892926|ref|YP_002441795.1| hypothetical protein PLES_42111 [Pseudomonas aeruginosa LESB58] gi|313106072|ref|ZP_07792330.1| hypothetical protein PA39016_000160009 [Pseudomonas aeruginosa 39016] gi|218773154|emb|CAW28966.1| hypothetical protein PLES_42111 [Pseudomonas aeruginosa LESB58] gi|310878832|gb|EFQ37426.1| hypothetical protein PA39016_000160009 [Pseudomonas aeruginosa 39016] Length = 236 Score = 40.0 bits (92), Expect = 0.51, Method: Compositional matrix adjust. Identities = 47/169 (27%), Positives = 69/169 (40%), Gaps = 17/169 (10%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK +A SRRE E I V V+G ++E V+ V+ +P +AE Sbjct: 4 PIRLSKRLAELTACSRREAELYIEGGWVSVDGEVIEEPQFKVLDQ---RVELLPGARAET 60 Query: 73 TR--LWLYHKPIGLVTTHSDPDGRSTV---FDNLPSI-------FSRVISVGRLDINTEG 120 L HKP G H D +G + + PS F+R LD G Sbjct: 61 IEPATLLLHKPAGW--RHDDFEGLLAAGRRWSDDPSPLRALKKHFARQRPTLALDSEASG 118 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 L++ + G+ R L + + Y V G + L L+ G+ QG Sbjct: 119 LVVFSQQHGVLRKLVDDGARLEQEYLVEVAGDLAAGGLERLRHGLAYQG 167 >gi|254234244|ref|ZP_04927567.1| hypothetical protein PACG_00081 [Pseudomonas aeruginosa C3719] gi|126166175|gb|EAZ51686.1| hypothetical protein PACG_00081 [Pseudomonas aeruginosa C3719] Length = 236 Score = 40.0 bits (92), Expect = 0.51, Method: Compositional matrix adjust. Identities = 46/169 (27%), Positives = 67/169 (39%), Gaps = 17/169 (10%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK +A SRRE E I V V+G ++E V+ V+ +P +AE Sbjct: 4 PIRLSKRLAELTACSRREAELYIEGGWVSVDGEVIEEPQFKVLDQ---RVELLPGARAET 60 Query: 73 TR--LWLYHKPIGLVTTHSDPDG----------RSTVFDNLPSIFSRVISVGRLDINTEG 120 L HKP G H D +G + L F+R LD G Sbjct: 61 IEPATLLLHKPAGW--RHDDLEGLLAAGRRWSDDPSPLRALKKHFARQRPTLALDSEASG 118 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 L++ + G+ R L + + Y V G + L L+ G+ QG Sbjct: 119 LVVFSQQHGVLRKLVDDGARLEQEYLVEVAGDLAAGGLERLRHGLAYQG 167 >gi|116049039|ref|YP_792159.1| hypothetical protein PA14_50030 [Pseudomonas aeruginosa UCBPP-PA14] gi|115584260|gb|ABJ10275.1| hypothetical protein PA14_50030 [Pseudomonas aeruginosa UCBPP-PA14] Length = 236 Score = 40.0 bits (92), Expect = 0.51, Method: Compositional matrix adjust. Identities = 47/169 (27%), Positives = 69/169 (40%), Gaps = 17/169 (10%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK +A SRRE E I V V+G ++E V+ V+ +P +AE Sbjct: 4 PIRLSKRLAELTACSRREAELYIEGGWVSVDGEVIEEPQFKVLDQ---RVELLPGARAET 60 Query: 73 TR--LWLYHKPIGLVTTHSDPDGRSTV---FDNLPSI-------FSRVISVGRLDINTEG 120 L HKP G H D +G + + PS F+R LD G Sbjct: 61 IEPATLLLHKPAGW--RHDDFEGLLAAGRRWSDDPSPLRALKKHFARQRPTLALDSEASG 118 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 L++ + G+ R L + + Y V G + L L+ G+ QG Sbjct: 119 LVVFSQQHGVLRKLVDDGARLEQEYLVEVAGDLAAGGLERLRHGLAYQG 167 >gi|254239479|ref|ZP_04932801.1| hypothetical protein PA2G_00092 [Pseudomonas aeruginosa 2192] gi|126192857|gb|EAZ56920.1| hypothetical protein PA2G_00092 [Pseudomonas aeruginosa 2192] Length = 236 Score = 40.0 bits (92), Expect = 0.52, Method: Compositional matrix adjust. Identities = 47/169 (27%), Positives = 69/169 (40%), Gaps = 17/169 (10%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK +A SRRE E I V V+G ++E V+ V+ +P +AE Sbjct: 4 PIRLSKRLAELTACSRREAELYIEGGWVSVDGEVIEEPQFKVLDQ---RVELLPGARAET 60 Query: 73 TR--LWLYHKPIGLVTTHSDPDGRSTV---FDNLPSI-------FSRVISVGRLDINTEG 120 L HKP G H D +G + + PS F+R LD G Sbjct: 61 IEPATLLLHKPAGW--RHDDFEGLLAAGRRWSDDPSPLRALKKHFARQRPTLALDSEASG 118 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 L++ + G+ R L + + Y V G + L L+ G+ QG Sbjct: 119 LVVFSQQHGVLRKLVDDGARLEQEYLVEVTGDLAAGGLERLRHGLAYQG 167 >gi|15596307|ref|NP_249801.1| hypothetical protein PA1110 [Pseudomonas aeruginosa PAO1] gi|9947028|gb|AAG04499.1|AE004541_4 hypothetical protein PA1110 [Pseudomonas aeruginosa PAO1] Length = 236 Score = 40.0 bits (92), Expect = 0.53, Method: Compositional matrix adjust. Identities = 46/169 (27%), Positives = 67/169 (39%), Gaps = 17/169 (10%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK +A SRRE E I V V+G ++E V+ V+ +P +AE Sbjct: 4 PIRLSKRLAELTACSRREAELYIEGGWVSVDGEVIEEPQFKVLDQ---RVELLPGARAET 60 Query: 73 TR--LWLYHKPIGLVTTHSDPDG----------RSTVFDNLPSIFSRVISVGRLDINTEG 120 L HKP G H D +G + L F+R LD G Sbjct: 61 IEPATLLLHKPAGW--RHDDFEGLLAAGRRWSDDPSPLRALKKHFARQRPTLALDSEASG 118 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 L++ + G+ R L + + Y V G + L L+ G+ QG Sbjct: 119 LVVFSQQHGVLRKLVDDGARLEQEYLVEVAGDLAAGGLERLRHGLAYQG 167 >gi|21232382|ref|NP_638299.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66767486|ref|YP_242248.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. 8004] gi|21114159|gb|AAM42223.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66572818|gb|AAY48228.1| pseudouridylate synthase [Xanthomonas campestris pv. campestris str. 8004] Length = 236 Score = 40.0 bits (92), Expect = 0.54, Method: Compositional matrix adjust. Identities = 45/165 (27%), Positives = 72/165 (43%), Gaps = 11/165 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAE 71 P R+ K +A SR E ++ I V V+G+++E + + D V L +AE Sbjct: 4 PIRLDKHVAAVFGCSRGEAQQYIEGGWVSVDGVVVEEPQAPITGQQVSLAADAV-LGQAE 62 Query: 72 RTRLWLYHKPIGL----VTTHSDPDGRSTVFDN----LPSIFSRVISVGRLDINTEGLLL 123 L L +KP G+ + P RS++ L F R+ + LD GLL+ Sbjct: 63 PATL-LLNKPAGMSCEAAVALATPQSRSSLDQTEIRVLKRHFLRLSAPMPLDDEASGLLV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 L+ DG + R L + + Y V G++ + L G+V Q Sbjct: 122 LSQDGRILRRLTADAATIEQEYLVEVRGELRPYGMARLASGLVYQ 166 >gi|15618318|ref|NP_224603.1| pseudouridine synthetase family protein [Chlamydophila pneumoniae CWL029] gi|15835936|ref|NP_300460.1| pseudouridine synthetase family protein [Chlamydophila pneumoniae J138] gi|33241749|ref|NP_876690.1| pseudouridine synthetase [Chlamydophila pneumoniae TW-183] gi|4376683|gb|AAD18547.1| predicted pseudouridine synthetase family [Chlamydophila pneumoniae CWL029] gi|8978775|dbj|BAA98611.1| pseudouridine synthetase family [Chlamydophila pneumoniae J138] gi|33236258|gb|AAP98347.1| pseudouridine synthetase [Chlamydophila pneumoniae TW-183] Length = 232 Score = 40.0 bits (92), Expect = 0.61, Method: Compositional matrix adjust. Identities = 28/104 (26%), Positives = 44/104 (42%), Gaps = 19/104 (18%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLW------LYHK 80 S++E+ I Q R +VNG + + V D + + +P K + + LW +Y K Sbjct: 40 SKQEILASIRQHRCRVNGFIERFESYKVQPGDRVSLSLIPSTKQQPSILWEDDYSIIYEK 99 Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P L T + +R +V RLD T G LL+ Sbjct: 100 PPHLTTEQM-------------AHMTRFFTVHRLDKGTSGCLLM 130 >gi|66044638|ref|YP_234479.1| RNA-binding S4 [Pseudomonas syringae pv. syringae B728a] gi|63255345|gb|AAY36441.1| RNA-binding S4 [Pseudomonas syringae pv. syringae B728a] Length = 236 Score = 39.7 bits (91), Expect = 0.62, Method: Compositional matrix adjust. Identities = 56/237 (23%), Positives = 97/237 (40%), Gaps = 17/237 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK + SRRE E I V V+G ++E V ST IE+ P KA+ Sbjct: 4 PIRLSKRLIELVGCSRREAELFIEGGWVTVDGEVIEEPHFKV-STQKIELS--PDAKADS 60 Query: 73 TR--LWLYHKP--------IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + HKP + ++T + S L F R+ ++ L N GL+ Sbjct: 61 PEPVTIILHKPASASAEEALQMITPGTLSVEHSYSKRPLKGHFMRLEAISSLQANASGLM 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + + D + R L ++ + Y V G++ LN L G+ +G ++ + + Sbjct: 121 VFSQDWKILRKLTDDRSKIEQEYVVEISGEMAAHGLNRLNHGLTYKGKELPAVKASWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + ++ + I + E K+ + RI G +G L G R ++ K Sbjct: 181 ----SRLRFAMKNPQPGIIALLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTAK 233 >gi|325914184|ref|ZP_08176537.1| pseudouridylate synthase, 16S rRNA uridine-516 [Xanthomonas vesicatoria ATCC 35937] gi|325539687|gb|EGD11330.1| pseudouridylate synthase, 16S rRNA uridine-516 [Xanthomonas vesicatoria ATCC 35937] Length = 236 Score = 39.7 bits (91), Expect = 0.64, Method: Compositional matrix adjust. Identities = 45/165 (27%), Positives = 74/165 (44%), Gaps = 11/165 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERA-AVNVMSTDHIEVDGVPLRKAE 71 P R+ K +A SR E ++ I V VNG+++E A+ + + D V L AE Sbjct: 4 PIRLDKCVAAQFGCSRGEAQQYIEGGWVSVNGVVVEEPQALATAAQVELAADAV-LEPAE 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRS---TVFDN-----LPSIFSRVISVGRLDINTEGLLL 123 L L HKP G+ + + + DN L F R+ + L+ + GLL+ Sbjct: 63 PATL-LLHKPAGMTAAAAVALAKPASRSELDNAELRVLKRHFLRLNAPLPLEDDASGLLV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 L+ DG + R L ++ + + V G++ + L G+V Q Sbjct: 122 LSQDGRVLRRLTADASSIEQEFLVEVRGELRPYGMARLAHGLVYQ 166 >gi|49081944|gb|AAT50372.1| PA1110 [synthetic construct] Length = 237 Score = 39.7 bits (91), Expect = 0.70, Method: Compositional matrix adjust. Identities = 46/169 (27%), Positives = 67/169 (39%), Gaps = 17/169 (10%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK +A SRRE E I V V+G ++E V+ V+ +P +AE Sbjct: 4 PIRLSKRLAELTACSRREAELHIEGGWVSVDGEVIEEPQFKVLDQ---RVELLPGARAET 60 Query: 73 TR--LWLYHKPIGLVTTHSDPDG----------RSTVFDNLPSIFSRVISVGRLDINTEG 120 L HKP G H D +G + L F+R LD G Sbjct: 61 IEPATLLLHKPAGW--RHDDFEGLLAAGRRWSDDPSPLRALKKHFARQRPTLALDSEASG 118 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 L++ + G+ R L + + Y V G + L L+ G+ QG Sbjct: 119 LVVFSQQHGVLRKLVDDGARLEQEYLVEVAGDLAAGGLERLRHGLAYQG 167 >gi|269303280|gb|ACZ33380.1| RNA pseudouridine synthase family protein [Chlamydophila pneumoniae LPCoLN] Length = 283 Score = 39.7 bits (91), Expect = 0.74, Method: Compositional matrix adjust. Identities = 28/104 (26%), Positives = 44/104 (42%), Gaps = 19/104 (18%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLW------LYHK 80 S++E+ I Q R +VNG + + V D + + +P K + + LW +Y K Sbjct: 26 SKQEILASIRQHRCRVNGFIERFESYKVQPGDRVSLSLIPSTKQQPSILWEDDYSIIYEK 85 Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P L T + +R +V RLD T G LL+ Sbjct: 86 PPHLTTEQM-------------AHMTRFFTVHRLDKGTSGCLLM 116 >gi|289674640|ref|ZP_06495530.1| RNA-binding S4 [Pseudomonas syringae pv. syringae FF5] Length = 236 Score = 39.7 bits (91), Expect = 0.75, Method: Compositional matrix adjust. Identities = 57/237 (24%), Positives = 97/237 (40%), Gaps = 17/237 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK + SRRE E I V V+G ++E V ST IE+ P KA+ Sbjct: 4 PIRLSKRLIELVGCSRREAELFIEGGWVTVDGEVIEEPHFKV-STQKIELS--PDAKADS 60 Query: 73 TR--LWLYHKP--------IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + HKP + ++T + S L F R+ ++ L N GL+ Sbjct: 61 PEPVTIILHKPASASAEEALQMITPGTLSVDHSYSKRPLKGHFMRLEAISSLQANASGLM 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + + D + R L ++ + Y V G++ LN L G+ +G ++ + Sbjct: 121 VFSQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKG---KELPAVKASW 177 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + N + ++ + I + E K+ + RI G +G L G R ++ K Sbjct: 178 QNENR-LRFAMKNPQPGIIALLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTAK 233 >gi|281342232|gb|EFB17816.1| hypothetical protein PANDA_004950 [Ailuropoda melanoleuca] Length = 532 Score = 39.7 bits (91), Expect = 0.77, Method: Compositional matrix adjust. Identities = 72/312 (23%), Positives = 120/312 (38%), Gaps = 64/312 (20%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK----- 69 R K+I R + +V ++ Q + G LL + +V + +++E D L + Sbjct: 64 REIKIIRRLDHDNIVKVYEVLGPQGTDLQGELL-KFSVAYIVQEYMETDLARLLEQGTLT 122 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E +L++Y GL HS ++ R + + I+TE L+L D G Sbjct: 123 EEHAKLFMYQLLRGLKYIHS------------ANVLHRDLKPANIFISTEDLVLKIGDFG 170 Query: 130 LARVL-----------ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG----- 173 LAR++ E T+W R R+ +++ G ++ + G Sbjct: 171 LARIVDQHYSHKGYLSEGLVTKWYRSPRLLLSPNNYTKAIDMWAAGCILAEMLTGRMLFA 230 Query: 174 ------DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF---NWKVNRLIRISYGPFQ 224 MQ+ L+T + V +RE E+ +V F +W+V R +R Q Sbjct: 231 GAHELEQMQLILET-------IPV-IREEDKEELLRVMPSFVSGSWEVKRPLR------Q 276 Query: 225 LGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNI-----ISEVP 279 L + G + +KIL P A++ L P S + D P I + Sbjct: 277 LLPEVNGEAIDFLEKIL--TFNPMDRLTAEMGLQHPYMSPYSCPEDEPTSQHPFRIEDEI 334 Query: 280 DDFTRMKKNSSQ 291 DD M N SQ Sbjct: 335 DDILLMAANQSQ 346 >gi|223992791|ref|XP_002286079.1| predicted protein [Thalassiosira pseudonana CCMP1335] gi|220977394|gb|EED95720.1| predicted protein [Thalassiosira pseudonana CCMP1335] Length = 370 Score = 39.3 bits (90), Expect = 0.87, Method: Compositional matrix adjust. Identities = 63/274 (22%), Positives = 108/274 (39%), Gaps = 47/274 (17%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRV----KVNGILLERAAVN-----VMSTDHIEVDG 64 QR+ KV+A G+ +R + + +R+ + ER + V S + +DG Sbjct: 90 QRIDKVLADRGVGTRSQTFDLAKAKRITWSTSPDATHEERTRIKGPSEKVPSNASLFLDG 149 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDP-----DGRSTVFDNLPSIFSR--VISVGRLDIN 117 L A L +YHKP +++ D R + L ++R + VGRLD + Sbjct: 150 N-LLPAPTPLLLVYHKPKFVLSVMEDDKKYQDQQRKHLGHILEPRYARSGMHPVGRLDYD 208 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVIQGICY---- 172 T GL+L ++DG L + L P + Y G+V+ +L +L G+ + Sbjct: 209 TTGLILFSSDGKLTQRLLHPRRGVEKEYVATVQGEVNASELREMLANGVETTDGTFAANL 268 Query: 173 -------------------------GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 G + T + G + V + + EGK R ++++ Sbjct: 269 IAVTSSNGPSEVSEEDLNNVPEEDEGGDETTDEPYNGPYSDVRLVVSEGKYRMVRRILAN 328 Query: 208 FNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L R +G L L G R+V+ + L Sbjct: 329 SGHPVVELRRERHGEILLDDLPVGKFRDVTPEEL 362 >gi|301762832|ref|XP_002916837.1| PREDICTED: mitogen-activated protein kinase 4-like [Ailuropoda melanoleuca] Length = 547 Score = 39.3 bits (90), Expect = 0.88, Method: Compositional matrix adjust. Identities = 72/312 (23%), Positives = 120/312 (38%), Gaps = 64/312 (20%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK----- 69 R K+I R + +V ++ Q + G LL + +V + +++E D L + Sbjct: 64 REIKIIRRLDHDNIVKVYEVLGPQGTDLQGELL-KFSVAYIVQEYMETDLARLLEQGTLT 122 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E +L++Y GL HS ++ R + + I+TE L+L D G Sbjct: 123 EEHAKLFMYQLLRGLKYIHS------------ANVLHRDLKPANIFISTEDLVLKIGDFG 170 Query: 130 LARVL-----------ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG----- 173 LAR++ E T+W R R+ +++ G ++ + G Sbjct: 171 LARIVDQHYSHKGYLSEGLVTKWYRSPRLLLSPNNYTKAIDMWAAGCILAEMLTGRMLFA 230 Query: 174 ------DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF---NWKVNRLIRISYGPFQ 224 MQ+ L+T + V +RE E+ +V F +W+V R +R Q Sbjct: 231 GAHELEQMQLILET-------IPV-IREEDKEELLRVMPSFVSGSWEVKRPLR------Q 276 Query: 225 LGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNI-----ISEVP 279 L + G + +KIL P A++ L P S + D P I + Sbjct: 277 LLPEVNGEAIDFLEKIL--TFNPMDRLTAEMGLQHPYMSPYSCPEDEPTSQHPFRIEDEI 334 Query: 280 DDFTRMKKNSSQ 291 DD M N SQ Sbjct: 335 DDILLMAANQSQ 346 >gi|89902224|ref|YP_524695.1| RNA-binding S4 [Rhodoferax ferrireducens T118] gi|89346961|gb|ABD71164.1| RNA-binding S4 [Rhodoferax ferrireducens T118] Length = 262 Score = 39.3 bits (90), Expect = 0.93, Method: Compositional matrix adjust. Identities = 54/243 (22%), Positives = 95/243 (39%), Gaps = 26/243 (10%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVPLRKAER 72 +R++K +A SRRE E+ I V VNG ++E V S +EVD L + Sbjct: 16 ERLAKRVAEMVPCSRREAEQYIEGGWVSVNGQVVEEPMFRV-SDQRVEVDPDASLLELSA 74 Query: 73 TRLWLYHKPIGL---------------------VTTHSDPDGRSTVFDNLPSIFSRVISV 111 L L HKP G TH+ D L F+++ + Sbjct: 75 VTL-LLHKPPGFDAMAAPGQANRHVKSAQQLLSAATHATDDASGVRL--LKRHFAKLTAC 131 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 L+ GL++ T D + R L + + V G+V L + +G+ + G Sbjct: 132 VPLETAASGLVVFTQDWRVLRKLTEDAQLMEQEVIVEVAGEVPAQSLQRINQGLAVDGQP 191 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 ++V+L++ +++ + L+ I + E ++ + R+ G + L G Sbjct: 192 LPAVKVSLNSTGETSSKLRFALKGSHPGLIAYLCERLGLQIVSMKRLRIGRVSMTQLPLG 251 Query: 232 STR 234 R Sbjct: 252 QWR 254 >gi|146281832|ref|YP_001171985.1| S4 domain-containing protein [Pseudomonas stutzeri A1501] gi|145570037|gb|ABP79143.1| S4 domain protein [Pseudomonas stutzeri A1501] Length = 241 Score = 39.3 bits (90), Expect = 0.94, Method: Compositional matrix adjust. Identities = 59/235 (25%), Positives = 91/235 (38%), Gaps = 18/235 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A SRRE E I V V+G L+E + V IE+ K Sbjct: 4 PVRLAKRVAEQFGCSRREAELYIEGGWVTVDGELVEAPFLKVGPQQRIELQPGATAKEIA 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVF-------------DNLPSIFSRVISVGRLDINTE 119 L HKP L SD DG + L R + LD + Sbjct: 64 PVTLLLHKPAEL-PIDSDNDGPRRALQASEHWADDPSRTEPLQRHLLRHTLLLPLDADAS 122 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GL +L+ + R+L + + Y V G+ ++ L LL KGI +G +V+ Sbjct: 123 GLSVLSQQREVIRLLGDTRNKLEQEYVVEVSGEAEEGGLALLAKGIGHRGRILPKAKVSW 182 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 ++ + V ++E E++ + E +V RI G + L G R Sbjct: 183 QSENR----LRVVVKEPAPGEVRMLCEAIGLRVVASKRIRIGRLSMAKLPVGHWR 233 >gi|262277480|ref|ZP_06055273.1| ribosomal large subunit pseudouridine synthase D [alpha proteobacterium HIMB114] gi|262224583|gb|EEY75042.1| ribosomal large subunit pseudouridine synthase D [alpha proteobacterium HIMB114] Length = 325 Score = 39.3 bits (90), Expect = 0.96, Method: Compositional matrix adjust. Identities = 44/172 (25%), Positives = 76/172 (44%), Gaps = 26/172 (15%) Query: 6 IVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +V ENF +R+ +V+A+ SR +V ++I + +K+NG +L+ + V S D IE + Sbjct: 7 VVDENFDQKRIDQVVAKQYPKISRSKVSKIIKTELLKLNGQILKDPSHKVKSGDQIEFEN 66 Query: 65 --------VPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS- 110 +P + E + + KPIG+V + T+ + L +S Sbjct: 67 LIEETINLIPKKMDLNIIFEDQDIIIIDKPIGMVVHPGAGNYEDTMVNGLLYHCKNNLSG 126 Query: 111 ---------VGRLDINTEGLLLLT-NDGGLARVL-ELPSTQWLRVYRVRFHG 151 V R+D +T GLL++ ND A + + R Y V +G Sbjct: 127 MNGEDRPGIVHRIDKDTSGLLVVAKNDQAHAFIAKQFEEHSIKRSYLVFVYG 178 >gi|330936760|gb|EGH40926.1| RNA-binding S4 [Pseudomonas syringae pv. pisi str. 1704B] gi|330968912|gb|EGH68978.1| RNA-binding S4 [Pseudomonas syringae pv. aceris str. M302273PT] gi|330975346|gb|EGH75412.1| RNA-binding S4 [Pseudomonas syringae pv. aptata str. DSM 50252] Length = 236 Score = 39.3 bits (90), Expect = 0.98, Method: Compositional matrix adjust. Identities = 57/237 (24%), Positives = 97/237 (40%), Gaps = 17/237 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK + SRRE E I V V+G ++E V ST IE+ P KA+ Sbjct: 4 PIRLSKRLIELVGCSRREAELFIEGGWVTVDGEVIEEPHFKV-STQKIELS--PDAKADS 60 Query: 73 TR--LWLYHKP--------IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + HKP + ++T + S L F R+ ++ L N GL+ Sbjct: 61 PEPVTIILHKPASASAEEALQMITPGTLSVEHSYSKRPLKGHFMRLEAISSLQANASGLM 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + + D + R L ++ + Y V G++ LN L G+ +G ++ + Sbjct: 121 VFSQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKG---KELPAVKASW 177 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + N + ++ + I + E K+ + RI G +G L G R ++ K Sbjct: 178 QNENR-LRFAMKNPQPGIIALLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTAK 233 >gi|313885861|ref|ZP_07819602.1| S4 domain protein [Porphyromonas asaccharolytica PR426713P-I] gi|332300689|ref|YP_004442610.1| RNA-binding S4 domain protein [Porphyromonas asaccharolytica DSM 20707] gi|312924690|gb|EFR35458.1| S4 domain protein [Porphyromonas asaccharolytica PR426713P-I] gi|332177752|gb|AEE13442.1| RNA-binding S4 domain protein [Porphyromonas asaccharolytica DSM 20707] Length = 154 Score = 39.3 bits (90), Expect = 1.0, Method: Compositional matrix adjust. Identities = 27/69 (39%), Positives = 41/69 (59%), Gaps = 7/69 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K+++ AGI SRREVE+ I RV +NG ERA + V+ D + +DG +P+ Sbjct: 4 RINKLLSDAGIGSRREVEKYIVAGRVMLNG---ERAELTDIVVEDDIVTLDGEELPVNDI 60 Query: 71 ERTRLWLYH 79 R L + H Sbjct: 61 LREALSMKH 69 >gi|254448899|ref|ZP_05062354.1| ribosomal small subunit pseudouridine synthase A [gamma proteobacterium HTCC5015] gi|198261436|gb|EDY85726.1| ribosomal small subunit pseudouridine synthase A [gamma proteobacterium HTCC5015] Length = 231 Score = 38.9 bits (89), Expect = 1.2, Method: Compositional matrix adjust. Identities = 53/212 (25%), Positives = 97/212 (45%), Gaps = 5/212 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + I +RREV+ ++ + VN + + +++ D + V G + + + R Sbjct: 4 RLDRYIGNNTELTRREVKFLLKAGEITVNDEVPSKPGLHLKEGDVVAVQGR-VVEPRQPR 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 ++ HKP ++ S + D + F + VGRLD++T GLLL+T+DG ++ Sbjct: 63 YFMLHKPPECISARSTEEHLGA-LDLIEEPFHDELHIVGRLDLDTTGLLLVTDDGQWSQR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + +VY V + + GI ++ + LD A +T+ Sbjct: 122 LRSPRHKVPKVYWVTTAKPIASTVAARFEAGIYLKTEDHTTAPAQLDVVAECRARLTIT- 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 EGK ++K++F + +V L R S G L Sbjct: 181 -EGKFHQVKRMFAAVDNEVTALHRASVGEIVL 211 >gi|113460583|ref|YP_718647.1| ribosomal small subunit pseudouridine synthase A [Haemophilus somnus 129PT] gi|112822626|gb|ABI24715.1| ribosomal small subunit pseudouridine synthase A [Haemophilus somnus 129PT] Length = 119 Score = 38.9 bits (89), Expect = 1.3, Method: Compositional matrix adjust. Identities = 32/112 (28%), Positives = 53/112 (47%), Gaps = 2/112 (1%) Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 +DI+T GL+LLT+DG + + P + Y V V+ ++KGI+++G Sbjct: 1 MDIDTTGLVLLTDDGQWSHRVTSPKHLCDKTYLVTLADPVEDFYQAEIEKGILLRGEKTP 60 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 TL+ N V + + EG+ ++K++F KV L R G L Sbjct: 61 TKPATLEILDDYN--VNLTISEGRYHQVKRMFAALGNKVVDLHRWKIGVIML 110 >gi|228470101|ref|ZP_04055010.1| S4 domain protein [Porphyromonas uenonis 60-3] gi|228308239|gb|EEK17094.1| S4 domain protein [Porphyromonas uenonis 60-3] Length = 153 Score = 38.9 bits (89), Expect = 1.3, Method: Compositional matrix adjust. Identities = 27/69 (39%), Positives = 41/69 (59%), Gaps = 7/69 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDHIEVDG--VPLRKA 70 R++K+++ AGI SRREVE+ I RV +NG ERA + V+ D + +DG +P+ Sbjct: 4 RINKLLSDAGIGSRREVEKYIVAGRVMLNG---ERAELTDIVVEDDIVTLDGEELPVNDI 60 Query: 71 ERTRLWLYH 79 R L + H Sbjct: 61 LREALSMKH 69 >gi|82539753|ref|XP_724240.1| hypothetical protein [Plasmodium yoelii yoelii str. 17XNL] gi|23478823|gb|EAA15805.1| putative RNA-binding protein [Plasmodium yoelii yoelii] Length = 539 Score = 38.9 bits (89), Expect = 1.3, Method: Compositional matrix adjust. Identities = 32/125 (25%), Positives = 54/125 (43%), Gaps = 5/125 (4%) Query: 111 VGRLDINTEGLLLLTNDG-GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 GRLD N+ GLL+ T D + +L Q + Y + ++++ L +LK + + Sbjct: 410 CGRLDANSSGLLIYTQDSIASSYLLNKYKYQVEKEYIITTFNEINECHLKMLKDNLFVD- 468 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 G + Q + + L +G ++ I+K+ N K+ L RI G L L Sbjct: 469 ---GKLIYKCHIQYVDSFTLIFKLYQGFHKIIRKICLLSNIKIRSLHRIRIGKIHLNNLP 525 Query: 230 AGSTR 234 G R Sbjct: 526 LGKWR 530 >gi|327480070|gb|AEA83380.1| S4 domain-containing protein [Pseudomonas stutzeri DSM 4166] Length = 241 Score = 38.5 bits (88), Expect = 1.5, Method: Compositional matrix adjust. Identities = 59/235 (25%), Positives = 90/235 (38%), Gaps = 18/235 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A SRRE E I V V+G L+E + V IE+ K Sbjct: 4 PVRLAKRVAEQFGCSRREAELYIEGGWVTVDGELVEAPFLKVGPQQRIEMQPGATAKEIA 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVF-------------DNLPSIFSRVISVGRLDINTE 119 L HKP L SD DG + L R + LD Sbjct: 64 PVTLLLHKPAEL-PIDSDNDGPRRALQASEHWADDPSRTEPLQRHLLRHTLLLPLDAGAS 122 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GL +L+ + R+L + + Y V G+ ++ L LL KGI +G +V+ Sbjct: 123 GLSVLSQQREVIRLLGDTRNKLEQEYVVEVSGEAEEGGLALLAKGIGHRGRILPKAKVSW 182 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 ++ + V ++E E++ + E +V RI G + L G R Sbjct: 183 QSENR----LRVVVKEPAPGEVRMLCEAIGLRVVASKRIRIGRLSMAKLPVGHWR 233 >gi|229588738|ref|YP_002870857.1| hypothetical protein PFLU1201 [Pseudomonas fluorescens SBW25] gi|229360604|emb|CAY47461.1| conserved hypothetical protein [Pseudomonas fluorescens SBW25] Length = 236 Score = 38.5 bits (88), Expect = 1.5, Method: Compositional matrix adjust. Identities = 41/165 (24%), Positives = 64/165 (38%), Gaps = 9/165 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK + SRRE E I V V+G +++ V +T +E+D Sbjct: 4 PIRLSKRLIELVGCSRREAELFIEGGWVSVDGEVIDEPQFKV-TTQKVELDPEAKATVPE 62 Query: 73 TRLWLYHKPIGL------VTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLL 124 L H P G+ + ++ F P F R+ + L GLL+ Sbjct: 63 PVTILMHAPAGMDAETAMASISAETLSEEHRFSKRPLKGHFLRLTASADLQAKASGLLVF 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 T D + R L + + + Y V G + LN L G+ +G Sbjct: 123 TQDWKILRKLTADAAKIEQEYVVEVEGDMVAHGLNRLNHGLTYKG 167 >gi|229495257|ref|ZP_04388992.1| ribosomal large subunit pseudouridine synthase F [Porphyromonas endodontalis ATCC 35406] gi|229317700|gb|EEN83598.1| ribosomal large subunit pseudouridine synthase F [Porphyromonas endodontalis ATCC 35406] Length = 168 Score = 38.5 bits (88), Expect = 1.7, Method: Compositional matrix adjust. Identities = 23/56 (41%), Positives = 37/56 (66%), Gaps = 3/56 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 R++K+++ G+ SRREVE +I + RV +NG E + V V D +E+DG +P+R Sbjct: 4 RINKLLSDTGLGSRREVEALIEEGRVWINGDRAELSDV-VSEDDVVELDGEELPVR 58 >gi|323969847|gb|EGB65128.1| RNA pseudouridylate synthase [Escherichia coli TA007] Length = 191 Score = 38.1 bits (87), Expect = 2.1, Method: Compositional matrix adjust. Identities = 30/130 (23%), Positives = 60/130 (46%), Gaps = 4/130 (3%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 + +GRLD +++GL+ LTN G L + + Y V + ++ + + G+ I Sbjct: 1 MFPIGRLDKDSQGLIFLTNHGDLVNKILRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPI 60 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G +V + + + L +G NR+I+++ E F ++V +L R L Sbjct: 61 LGTVTKKCKVKKE----APFVFRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSG 116 Query: 228 LLAGSTREVS 237 + G R+++ Sbjct: 117 IPLGEWRDLT 126 >gi|78048815|ref|YP_364990.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|78037245|emb|CAJ24990.1| ribosomal small subunit pseudouridylate synthase [Xanthomonas campestris pv. vesicatoria str. 85-10] Length = 236 Score = 38.1 bits (87), Expect = 2.1, Method: Compositional matrix adjust. Identities = 42/164 (25%), Positives = 68/164 (41%), Gaps = 9/164 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K IA A SR E ++ I V V+G+++E + + L AE Sbjct: 4 PIRLDKCIAAAFGCSRGEAQQYIEGGWVSVDGVVVEEPQTLATAAQVTLAENAVLAPAEP 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRS---TVFDN-----LPSIFSRVISVGRLDINTEGLLLL 124 L L HKP G+ + + D L F R+ + L+ GLL+L Sbjct: 64 ATL-LLHKPAGICVDAALALATPATRSALDQADVRVLKRHFLRLHAPLPLEDAASGLLIL 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + DG + R L ++ + + V G++ + L G+V Q Sbjct: 123 SQDGRVLRRLSADASAIEQEFLVEVRGELRPYGMARLAHGLVYQ 166 >gi|312959321|ref|ZP_07773838.1| ribosomal large subunit pseudouridine synthase F [Pseudomonas fluorescens WH6] gi|311286038|gb|EFQ64602.1| ribosomal large subunit pseudouridine synthase F [Pseudomonas fluorescens WH6] Length = 235 Score = 38.1 bits (87), Expect = 2.2, Method: Compositional matrix adjust. Identities = 41/165 (24%), Positives = 64/165 (38%), Gaps = 9/165 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+SK + SRRE E I V V+G +++ V +T +E+D Sbjct: 4 PIRLSKRLIELVGCSRREAELFIEGGWVSVDGEVIDEPQFKV-TTQKVELDPEAKATVPE 62 Query: 73 TRLWLYHKPIG------LVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLL 124 L H P G + + ++ F P F R+ + L GLL+ Sbjct: 63 PVTILLHAPAGVDAETAMASISAETLSEEHRFSKRPLKGHFLRLTASADLQAKASGLLVF 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 T D + R L + + + Y V G + LN L G+ +G Sbjct: 123 TQDWKILRKLTADAAKIEQEYVVEVEGDMVAHGLNRLNHGLTYKG 167 >gi|221061561|ref|XP_002262350.1| rna pseudouridylate synthase [Plasmodium knowlesi strain H] gi|193811500|emb|CAQ42228.1| rna pseudouridylate synthase, putative [Plasmodium knowlesi strain H] Length = 469 Score = 38.1 bits (87), Expect = 2.3, Method: Compositional matrix adjust. Identities = 32/130 (24%), Positives = 60/130 (46%), Gaps = 5/130 (3%) Query: 106 SRVISVGRLDINTEGLLLLTNDGGLA-RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 +++ GRLD N+ GLL+ T + L +L Q + Y ++ +++ + LL+K Sbjct: 334 NKLYVCGRLDANSTGLLVFTQNTLLCSYLLNKHKHQVEKEYMIKTAEPIEEVHMELLRKN 393 Query: 165 IVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 I++ G + Q + ++ L +G ++ I+K+ N K+ L R+ G Sbjct: 394 ILVD----GKLIYKCRIQYVDSFTLSFTLYQGFHKIIRKLCLLSNIKIKALHRVRIGGIH 449 Query: 225 LGTLLAGSTR 234 L L G R Sbjct: 450 LKGLPLGKWR 459 >gi|20093836|ref|NP_613683.1| RNA-binding protein [Methanopyrus kandleri AV19] gi|19886762|gb|AAM01613.1| Predicted RNA-binding protein containing the S4 domain [Methanopyrus kandleri AV19] Length = 79 Score = 37.7 bits (86), Expect = 2.5, Method: Compositional matrix adjust. Identities = 23/56 (41%), Positives = 34/56 (60%), Gaps = 1/56 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 +R+ + G+A SRRE +R++ RV+VNG L+ + V D IEVDGV +R Sbjct: 5 RRLDAFLRDVGLAESRREAKRLVESGRVRVNGKLVRKPWWLVSPGDEIEVDGVTVR 60 >gi|261867443|ref|YP_003255365.1| RNA pseudouridine synthase family protein [Aggregatibacter actinomycetemcomitans D11S-1] gi|293391454|ref|ZP_06635788.1| RNA pseudouridine synthase family protein [Aggregatibacter actinomycetemcomitans D7S-1] gi|261412775|gb|ACX82146.1| RNA pseudouridine synthase family protein [Aggregatibacter actinomycetemcomitans D11S-1] gi|290951988|gb|EFE02107.1| RNA pseudouridine synthase family protein [Aggregatibacter actinomycetemcomitans D7S-1] Length = 91 Score = 37.7 bits (86), Expect = 2.6, Method: Compositional matrix adjust. Identities = 18/58 (31%), Positives = 32/58 (55%) Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 AW+ V + EG+NR+++++ + RLIR F L L+ + R +++ LRE Sbjct: 25 TAWLEVKIDEGRNRQVRRMTAHIGFPTLRLIRYQLAGFNLQNLMPKTYRTLTQNELRE 82 >gi|34540882|ref|NP_905361.1| S4 domain-containing protein [Porphyromonas gingivalis W83] gi|34397197|gb|AAQ66260.1| S4 domain protein [Porphyromonas gingivalis W83] Length = 150 Score = 37.7 bits (86), Expect = 2.7, Method: Compositional matrix adjust. Identities = 16/30 (53%), Positives = 24/30 (80%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG 44 R++K+I+ AG+ SRRE E+ I + RVK+NG Sbjct: 4 RINKLISDAGLGSRREAEKYITEGRVKING 33 >gi|116333694|ref|YP_795221.1| 16S rRNA uridine-516 pseudouridylate synthase related pseudouridylate synthase [Lactobacillus brevis ATCC 367] gi|116099041|gb|ABJ64190.1| 16S rRNA uridine-516 pseudouridylate synthase related pseudouridylate synthase [Lactobacillus brevis ATCC 367] Length = 229 Score = 37.7 bits (86), Expect = 2.7, Method: Compositional matrix adjust. Identities = 49/206 (23%), Positives = 86/206 (41%), Gaps = 18/206 (8%) Query: 30 EVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVT--T 87 ++ R++ Q RVKVN L++ V ++D + VDG+ + R + +++KP+G+ T T Sbjct: 17 QIFRLLRQGRVKVNDRLIDSPRETVDTSDQVTVDGLAV-TGRRPQYLVFNKPVGVQTDLT 75 Query: 88 HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRV 147 P ++ + L S I + L GL L+T+D + E+ W RV Sbjct: 76 PVVPHSLGSMLNALDQQQSLQI-LADLPRTIAGLTLVTDDNTF--LTEVQGQTWPSTLRV 132 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + G L + I + + QV + W + L+ + E Sbjct: 133 QLTGTTPLT----LPQNIAAEVVEQRPDQV--------HQWTMLTLQTTALDSVTAWLES 180 Query: 208 FNWKVNRLIRISYGPFQLGTLLAGST 233 + + RI +GP +L LA T Sbjct: 181 LSRVSGAINRIGWGPIKLSPDLAVGT 206 >gi|237749595|ref|ZP_04580075.1| pseudouridine synthase [Helicobacter bilis ATCC 43879] gi|229374808|gb|EEO25199.1| pseudouridine synthase [Helicobacter bilis ATCC 43879] Length = 92 Score = 37.7 bits (86), Expect = 2.8, Method: Compositional matrix adjust. Identities = 19/61 (31%), Positives = 35/61 (57%), Gaps = 1/61 (1%) Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 ++LD +K + V + + EG+NR+++++FE +V +L R Y L L G RE+ Sbjct: 15 LSLDKKK-QTSIVQITIHEGRNRQVRRMFEAIGHEVLKLKREEYAFLNLAGLKTGEKREL 73 Query: 237 S 237 + Sbjct: 74 T 74 >gi|121607091|ref|YP_994898.1| RluA family pseudouridine synthase [Verminephrobacter eiseniae EF01-2] gi|121551731|gb|ABM55880.1| ribosomal large subunit pseudouridine synthase D [Verminephrobacter eiseniae EF01-2] Length = 344 Score = 37.7 bits (86), Expect = 2.8, Method: Compositional matrix adjust. Identities = 49/214 (22%), Positives = 86/214 (40%), Gaps = 39/214 (18%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--------------ER 72 SR +++++AQ V +NG + +AA V + D + ++ P ++ E Sbjct: 63 SRSYLQQLLAQGGVSLNGRPVRKAASRVNAGDRVVLEMRPTVQSQAFRPQPMDIDVVYED 122 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS------IFSRVISVGRLDINTEGLLLLTN 126 L + +KP GLV + +T+ + L + + R V RLD +T GL+++ Sbjct: 123 AHLLVLNKPAGLVVHPAPGHWSATLLNGLLARDANALLLPRAGIVHRLDKDTSGLMVVAR 182 Query: 127 DGGL--ARVLELPSTQWLRVYRVRFHGQ------------VDQDKLNLLKKGIV----IQ 168 D A V ++ Q R Y HG + +D N L+ +V Sbjct: 183 DRATMDALVAQIARRQVQRQYLALAHGAWSGPRSRSVQAPIGRDPRNRLRMAVVDLARHA 242 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 G C + LD W+ L G+ +I+ Sbjct: 243 GKCARTDVLCLDATP-QGCWLQCRLHTGRTHQIR 275 >gi|188995120|ref|YP_001929372.1| hypothetical protein PGN_1256 [Porphyromonas gingivalis ATCC 33277] gi|188594800|dbj|BAG33775.1| conserved hypothetical protein [Porphyromonas gingivalis ATCC 33277] Length = 150 Score = 37.7 bits (86), Expect = 2.9, Method: Compositional matrix adjust. Identities = 16/30 (53%), Positives = 24/30 (80%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNG 44 R++K+I+ AG+ SRRE E+ I + RVK+NG Sbjct: 4 RINKLISDAGLGSRREAEKYITEGRVKING 33 >gi|237746066|ref|ZP_04576546.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s) [Oxalobacter formigenes HOxBLS] gi|229377417|gb|EEO27508.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s) [Oxalobacter formigenes HOxBLS] Length = 1049 Score = 37.4 bits (85), Expect = 3.1, Method: Compositional matrix adjust. Identities = 37/144 (25%), Positives = 62/144 (43%), Gaps = 14/144 (9%) Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST-----REVSKKILR 242 W+ L E + +K E F W+ + ++ + +G + S E S+++L Sbjct: 415 WMQDFLHEPAMKHWQKHIEHFKWRSSAILPLHRNGNVIGVMFFYSNVLNAFTESSQRLLL 474 Query: 243 EQLG------PHLLEEAQVNLDAPIY--SSETLVRDRPNI-ISEVPDDFTRMKKNSSQKN 293 E + H +E Q+ L A I+ SSE ++ PN I V FT + S ++ Sbjct: 475 ELVEDIDFALEHFEKEEQLQLSAQIFAQSSEGIMLLDPNCHIVMVNSAFTHITGYSEEET 534 Query: 294 GLSKQKKLATPVHRRNLASNVWMA 317 K LA+ H RN + +W A Sbjct: 535 LGRNPKMLASGQHDRNFYATMWEA 558 >gi|294626845|ref|ZP_06705437.1| pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] gi|292598859|gb|EFF43004.1| pseudouridylate synthase [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] Length = 236 Score = 37.4 bits (85), Expect = 3.2, Method: Compositional matrix adjust. Identities = 43/164 (26%), Positives = 70/164 (42%), Gaps = 9/164 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K +A A SR E + I V V+G+++E + + L AE Sbjct: 4 PIRLDKCVAAAFGCSRGEAQHYIEGGWVSVDGVVVEEPQALATAAQVTLAENAVLAPAEP 63 Query: 73 TRLWLYHKPIGLVT----THSDPDGRSTVFDN----LPSIFSRVISVGRLDINTEGLLLL 124 L L HKP G+ + P RS + + L F R+ + L+ GLL+L Sbjct: 64 ATL-LLHKPAGICVDAALALATPATRSALDQSDLRVLKRHFLRLQAPLPLEDAASGLLIL 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + DG + R L ++ + + V G++ + L G+V Q Sbjct: 123 SQDGRVLRRLSADASAIEQEFLVEVQGELRPYGMARLAHGLVYQ 166 >gi|313884116|ref|ZP_07817882.1| pseudouridine synthase, RluA family [Eremococcus coleocola ACS-139-V-Col8] gi|312620563|gb|EFR31986.1| pseudouridine synthase, RluA family [Eremococcus coleocola ACS-139-V-Col8] Length = 314 Score = 37.4 bits (85), Expect = 3.3, Method: Compositional matrix adjust. Identities = 55/229 (24%), Positives = 91/229 (39%), Gaps = 40/229 (17%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD------------HIEV 62 R+ KV+ SR +++ +I Q V VNG +E+A + + IE Sbjct: 22 RLDKVLVEESELSRTQIQSLIKQGLVTVNG-QVEKANYKLSGQELIEMQVPEEEVLEIEA 80 Query: 63 DGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG--------- 112 +PL E L + +K G+V S R T+ + L F ++ G Sbjct: 81 QAIPLDIIYEDDDLLVINKEAGMVVHPSKGHPRDTLVNALVYHFGNHLAAGSDSYRPGLV 140 Query: 113 -RLDINTEGLLLLTNDGGLARVL--ELPSTQWLRVYRVRFHGQVD-----------QDKL 158 R+D +T GLL++ + R L +L R+Y GQ++ +D Sbjct: 141 HRIDKDTSGLLVVAKNNESHRYLSQQLMDHTLGRIYYCLVEGQMEVKQGSIEIPLARDPK 200 Query: 159 NLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 N LK QG + D +V S + + L+ G+ +I+ FE Sbjct: 201 NRLKYHADAQGKPAWTDFEVL--ESYPSASLIQAELKTGRTHQIRAHFE 247 >gi|290891290|ref|ZP_06554352.1| hypothetical protein AWRIB429_1742 [Oenococcus oeni AWRIB429] gi|290479254|gb|EFD87916.1| hypothetical protein AWRIB429_1742 [Oenococcus oeni AWRIB429] Length = 336 Score = 37.4 bits (85), Expect = 3.3, Method: Compositional matrix adjust. Identities = 31/113 (27%), Positives = 50/113 (44%), Gaps = 7/113 (6%) Query: 39 RVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVT------THSDPD 92 +VK N +L+E + TDH +G+P A + L H+ G+V+ T Sbjct: 24 QVKANEVLIETKYAGICGTDHALYNGLPGSAAAVPPIVLGHENSGVVSEVGEKVTSVKVG 83 Query: 93 GRSTVFDNLPSIFSRVISVGRLDI-NTEGLLLLTNDGGLARVLELPSTQWLRV 144 R TV N+ GR ++ + + +T +GGL + PSTQ +V Sbjct: 84 DRVTVDPNIYCGHCFYCRTGRPELCDNLSAVGVTRNGGLEQYFTAPSTQVYKV 136 >gi|116491674|ref|YP_811218.1| threonine dehydrogenase or related Zn-dependent dehydrogenase [Oenococcus oeni PSU-1] gi|116092399|gb|ABJ57553.1| Threonine dehydrogenase-like Zn-dependent dehydrogenase [Oenococcus oeni PSU-1] Length = 336 Score = 37.4 bits (85), Expect = 3.7, Method: Compositional matrix adjust. Identities = 31/113 (27%), Positives = 50/113 (44%), Gaps = 7/113 (6%) Query: 39 RVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVT------THSDPD 92 +VK N +L+E + TDH +G+P A + L H+ G+V+ T Sbjct: 24 QVKANEVLIETKYAGICGTDHALYNGLPGSAAAVPPIVLGHENSGVVSEVGEKVTSVKVG 83 Query: 93 GRSTVFDNLPSIFSRVISVGRLDI-NTEGLLLLTNDGGLARVLELPSTQWLRV 144 R TV N+ GR ++ + + +T +GGL + PSTQ +V Sbjct: 84 DRVTVDPNIYCGHCFYCRTGRPELCDNLSAVGVTRNGGLEQYFTAPSTQVYKV 136 >gi|145633751|ref|ZP_01789476.1| hypothetical protein CGSHi3655_04589 [Haemophilus influenzae 3655] gi|144985410|gb|EDJ92237.1| hypothetical protein CGSHi3655_04589 [Haemophilus influenzae 3655] Length = 131 Score = 37.4 bits (85), Expect = 3.8, Method: Compositional matrix adjust. Identities = 24/109 (22%), Positives = 50/109 (45%), Gaps = 14/109 (12%) Query: 143 RVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------------SNAW 188 + Y V+ G ++ L L+KG+ ++ +V L ++ +W Sbjct: 10 KTYWVQVEGIPEETDLAQLRKGVELKDGMTKPAKVRLISEPNLWERNPPIRERKNIPTSW 69 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + EG+NR+++++ + RL+R+S G + L GS R +S Sbjct: 70 LEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSINGLENGSFRLLS 118 >gi|188990595|ref|YP_001902605.1| Ribosomal small subunit pseudouridylate synthase [Xanthomonas campestris pv. campestris str. B100] gi|167732355|emb|CAP50547.1| Ribosomal small subunit pseudouridylate synthase [Xanthomonas campestris pv. campestris] Length = 236 Score = 37.0 bits (84), Expect = 4.1, Method: Compositional matrix adjust. Identities = 43/165 (26%), Positives = 72/165 (43%), Gaps = 11/165 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAE 71 P R+ K +A SR E ++ I V V+G+++E + + D V L +A+ Sbjct: 4 PIRLDKHVAAVFGCSRGEAQQYIEGGWVSVDGVVVEEPQAPITGQQVSLAADAV-LGQAK 62 Query: 72 RTRLWLYHKPIGL----VTTHSDPDGRSTVFDN----LPSIFSRVISVGRLDINTEGLLL 123 L L +KP G+ + P RS++ L F R+ + LD GLL+ Sbjct: 63 PATL-LLNKPAGMSCEAAVALATPQSRSSLDQTEIRVLKRHFLRLSAPMPLDDEASGLLV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 L+ DG + R L + + Y V G++ + L G++ Q Sbjct: 122 LSQDGRILRRLTADAATIEQEYLVEVRGELRPYGMARLASGLLYQ 166 >gi|325929346|ref|ZP_08190476.1| pseudouridylate synthase, 16S rRNA uridine-516 family [Xanthomonas perforans 91-118] gi|325540258|gb|EGD11870.1| pseudouridylate synthase, 16S rRNA uridine-516 family [Xanthomonas perforans 91-118] Length = 236 Score = 37.0 bits (84), Expect = 4.2, Method: Compositional matrix adjust. Identities = 41/164 (25%), Positives = 68/164 (41%), Gaps = 9/164 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K +A A SR E ++ I V V+G+++E + + L AE Sbjct: 4 PIRLDKCVAAAFGCSRGEAQQYIEGGWVSVDGVVVEEPQTLATAAQVTLAENAVLAPAEP 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRS---TVFDN-----LPSIFSRVISVGRLDINTEGLLLL 124 L L HKP G+ + + D L F R+ + L+ GLL+L Sbjct: 64 ATL-LLHKPAGICVDAALALATPATRSALDQADVRVLKRHFLRLHAPLPLEDAASGLLIL 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + DG + R L ++ + + V G++ + L G+V Q Sbjct: 123 SQDGRVLRRLSADASAIEQEFLVEVRGELRPYGMARLAHGLVYQ 166 >gi|291545734|emb|CBL18842.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Ruminococcus sp. SR1/5] Length = 68 Score = 37.0 bits (84), Expect = 4.3, Method: Composition-based stats. Identities = 18/58 (31%), Positives = 34/58 (58%), Gaps = 1/58 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K ++ G+ SRRE +R+ RV VNG L+ + ++ I +DG P++ ++ Sbjct: 6 RINKYLSDIGVCSRREADRLTEAGRVTVNGELVS-TGMKILPDAEICIDGKPVKNRKK 62 >gi|224418218|ref|ZP_03656224.1| ribosomal large subunit pseudouridine synthase A [Helicobacter canadensis MIT 98-5491] Length = 340 Score = 37.0 bits (84), Expect = 4.7, Method: Compositional matrix adjust. Identities = 39/167 (23%), Positives = 78/167 (46%), Gaps = 32/167 (19%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 VQ+ T R+ K + + SR ++ ++I ++++ +NG+ +++ ++ D I + +P Sbjct: 15 VQQEETKMRLDKFLTQKLGLSRNQISKIIQEKQITLNGVFIQKNGTSLNFNDQI-ILTLP 73 Query: 67 LRKAERTR--------------LWLYHKPIGLVT--THSDPDGRSTVFD----------N 100 K E+++ L + +KPI L+ TH D D + T+ D N Sbjct: 74 -NKQEKSKPNHLNIPILYEDEDLLILNKPINLIVHQTHQD-DSQYTLQDWLQENNFSLSN 131 Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL--ELPSTQWLRVY 145 L + + I + RLD T G +++ + +L +L S + R Y Sbjct: 132 LGDSYRQGI-IHRLDKTTSGAIVIAKNNYAHEILSQQLKSKEMGRYY 177 >gi|294905868|ref|XP_002777696.1| Ribosomal large subunit pseudouridine synthase E, putative [Perkinsus marinus ATCC 50983] gi|239885587|gb|EER09512.1| Ribosomal large subunit pseudouridine synthase E, putative [Perkinsus marinus ATCC 50983] Length = 85 Score = 37.0 bits (84), Expect = 5.0, Method: Composition-based stats. Identities = 18/58 (31%), Positives = 31/58 (53%) Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 GRLD + GLL+ T DG +A+ + + Y V D++++L +G++I G Sbjct: 11 GRLDSDCSGLLVYTQDGRIAKAISDRYSSIPMEYEVALKAPCTDDQMSMLSQGMLIDG 68 >gi|46191229|ref|ZP_00206720.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Bifidobacterium longum DJO10A] Length = 329 Score = 36.6 bits (83), Expect = 5.5, Method: Compositional matrix adjust. Identities = 21/59 (35%), Positives = 33/59 (55%), Gaps = 1/59 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDG 64 Q++ R+ K++A+AG SRR+ E MI + RV+V+G L+ V + VDG Sbjct: 11 AQDDSNSIRLQKLLAQAGFGSRRKCEDMITEGRVEVDGELVTELGTRVDPHKQQVRVDG 69 >gi|268610335|ref|ZP_06144062.1| pseudouridine synthase rRNA-specific [Ruminococcus flavefaciens FD-1] Length = 108 Score = 36.6 bits (83), Expect = 5.7, Method: Composition-based stats. Identities = 24/84 (28%), Positives = 44/84 (52%), Gaps = 2/84 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K I+ +R +++ + A+ V VNG ++R+ + D + V G + +ER Sbjct: 5 RLDKFISERTEYTRSQIKSLCAKGSVTVNGSPVKRSDTKIDTGADDVTVCGNAI-SSERF 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV 97 R L +KP G V++ D DG + + Sbjct: 64 RYILLNKPKGYVSSTDDKDGETVI 87 >gi|73542442|ref|YP_296962.1| pseudouridine synthase, Rsu [Ralstonia eutropha JMP134] gi|72119855|gb|AAZ62118.1| Pseudouridine synthase, Rsu [Ralstonia eutropha JMP134] Length = 219 Score = 36.6 bits (83), Expect = 5.8, Method: Compositional matrix adjust. Identities = 44/163 (26%), Positives = 74/163 (45%), Gaps = 27/163 (16%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS 138 +KP G ++ S+ R T+ + + + V GRLD ++EGLLLLT+DGGL + P Sbjct: 7 NKPFGTMSQFSEHPSRPTLAEWIAT--PGVYPAGRLDADSEGLLLLTDDGGLQARIADPR 64 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------------- 184 + + Y + G D+ L L+ QGI GD + Sbjct: 65 HKLAKTYFAQVEGIPDEAALARLR-----QGIDLGDFHTLPAKVRAVEEPSWLWPRNPPV 119 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 +W+ + +REGKNR+++++ + RL+R + G Sbjct: 120 RFRAAIPTSWLELQIREGKNRQVRRMTAAVGFPTLRLLRATIG 162 >gi|25453489|gb|AAL25966.2| probable pseudouridylate synthase [Azotobacter vinelandii] Length = 152 Score = 36.2 bits (82), Expect = 6.9, Method: Compositional matrix adjust. Identities = 31/117 (26%), Positives = 55/117 (47%), Gaps = 3/117 (2%) Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG +R + P + +VY V + ++ + +G+ L+ Sbjct: 33 LTNDGHWSRRITHPRYKLAKVYYVETAEPIGEEYIETFARGLYFAFEDLVTQPAHLELLG 92 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 +A +T L EG+ ++K++F +F V RL R S GP +L + L G R ++ + Sbjct: 93 SHSARLT--LFEGRYHQVKRMFGYFRNPVLRLHRESMGPLRLESELPPGHYRPLTSE 147 >gi|11967875|emb|CAC19446.1| putative pseudouridine synthase [Streptococcus mitis] Length = 46 Score = 36.2 bits (82), Expect = 6.9, Method: Compositional matrix adjust. Identities = 19/44 (43%), Positives = 27/44 (61%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 R++K IA AG+ASRR+ E +I Q V VN ++ A + S D Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNSQVVRELATTIKSGD 45 >gi|170733886|ref|YP_001765833.1| pseudouridine synthase [Burkholderia cenocepacia MC0-3] gi|169817128|gb|ACA91711.1| pseudouridine synthase [Burkholderia cenocepacia MC0-3] Length = 192 Score = 36.2 bits (82), Expect = 7.2, Method: Compositional matrix adjust. Identities = 46/166 (27%), Positives = 78/166 (46%), Gaps = 19/166 (11%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLELP 137 +KP G + S + R ++ D + + V + GRLD ++EGLLLLT+DGGL AR+ E P Sbjct: 7 NKPFGTICQFSAHETRPSLGDWVKT--PGVYAAGRLDADSEGLLLLTDDGGLQARIAE-P 63 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSN------- 186 + ++ Y + G L L +G+ + C + DT N Sbjct: 64 RHKLVKRYWAQVDGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPDTLWPRNPPIRYRA 123 Query: 187 ----AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EGKNR+++++ + RL+R+ G + L Sbjct: 124 AIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFAL 169 >gi|46908075|ref|YP_014464.1| ribosomal large subunit pseudouridine synthase D [Listeria monocytogenes serotype 4b str. F2365] gi|47094208|ref|ZP_00231922.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Listeria monocytogenes str. 4b H7858] gi|226224446|ref|YP_002758553.1| hypothetical protein Lm4b_01859 [Listeria monocytogenes Clip81459] gi|254826115|ref|ZP_05231116.1| ribosomal large subunit pseudouridine synthase D [Listeria monocytogenes FSL J1-194] gi|254852749|ref|ZP_05242097.1| ribosomal large subunit pseudouridine synthase D [Listeria monocytogenes FSL R2-503] gi|254931987|ref|ZP_05265346.1| ribosomal large subunit pseudouridine synthase D [Listeria monocytogenes HPB2262] gi|300763844|ref|ZP_07073841.1| RluA family ribosomal large subunit pseudouridine synthase [Listeria monocytogenes FSL N1-017] gi|46881345|gb|AAT04641.1| ribosomal large subunit pseudouridine synthase, RluA family [Listeria monocytogenes serotype 4b str. F2365] gi|47017415|gb|EAL08234.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Listeria monocytogenes str. 4b H7858] gi|225876908|emb|CAS05617.1| unnamed protein product [Listeria monocytogenes serotype 4b str. CLIP 80459] gi|258606073|gb|EEW18681.1| ribosomal large subunit pseudouridine synthase D [Listeria monocytogenes FSL R2-503] gi|293583538|gb|EFF95570.1| ribosomal large subunit pseudouridine synthase D [Listeria monocytogenes HPB2262] gi|293595355|gb|EFG03116.1| ribosomal large subunit pseudouridine synthase D [Listeria monocytogenes FSL J1-194] gi|300515580|gb|EFK42630.1| RluA family ribosomal large subunit pseudouridine synthase [Listeria monocytogenes FSL N1-017] gi|328466193|gb|EGF37350.1| hypothetical protein LM1816_11407 [Listeria monocytogenes 1816] gi|328473565|gb|EGF44402.1| hypothetical protein LM220_09240 [Listeria monocytogenes 220] gi|332312284|gb|EGJ25379.1| Pseudouridylate synthase [Listeria monocytogenes str. Scott A] Length = 303 Score = 36.2 bits (82), Expect = 7.5, Method: Compositional matrix adjust. Identities = 49/177 (27%), Positives = 77/177 (43%), Gaps = 27/177 (15%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLE-RAAVNVMSTDHIEV-- 62 I++E+ +RV KVIA SR ++ M+ + VNG L + V V H EV Sbjct: 7 IIEESHARERVDKVIAEMMGKSRSAIQLMLKNGDITVNGELAKPNYKVQVGDEIHYEVRE 66 Query: 63 --------DGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVF-------DNLPSIFS 106 + +PL E + + +KP G+V S T+ D+L I Sbjct: 67 PEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCDDLSGING 126 Query: 107 RVIS--VGRLDINTEGLLLLT-NDGG---LARVLELPSTQWLRVYRVRFHGQVDQDK 157 ++ V R+D +T GLL++ ND LA+ L+ ++ R Y HG + K Sbjct: 127 KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSD--REYIALVHGDIVHQK 181 >gi|255522642|ref|ZP_05389879.1| hypothetical protein LmonocFSL_15771 [Listeria monocytogenes FSL J1-175] Length = 279 Score = 36.2 bits (82), Expect = 7.6, Method: Compositional matrix adjust. Identities = 48/173 (27%), Positives = 76/173 (43%), Gaps = 27/173 (15%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLE-RAAVNVMSTDHIEV-- 62 I++E+ +RV KVIA SR ++ M+ + VNG L + V V H EV Sbjct: 7 IIEESHARERVDKVIAEMMGKSRSAIQLMLKNGDITVNGELAKPNYKVQVGDEIHYEVRE 66 Query: 63 --------DGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVF-------DNLPSIFS 106 + +PL E + + +KP G+V S T+ D+L I Sbjct: 67 PEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCDDLSGING 126 Query: 107 RVIS--VGRLDINTEGLLLLT-NDGG---LARVLELPSTQWLRVYRVRFHGQV 153 ++ V R+D +T GLL++ ND LA+ L+ ++ R Y HG + Sbjct: 127 KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSD--REYIALVHGDI 177 >gi|255022986|ref|ZP_05294972.1| hypothetical protein LmonocyFSL_05005 [Listeria monocytogenes FSL J1-208] Length = 302 Score = 36.2 bits (82), Expect = 7.7, Method: Compositional matrix adjust. Identities = 48/173 (27%), Positives = 76/173 (43%), Gaps = 27/173 (15%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLE-RAAVNVMSTDHIEV-- 62 I++E+ +RV KVIA SR ++ M+ + VNG L + V V H EV Sbjct: 7 IIEESHARERVDKVIAEMMGKSRSAIQLMLKNGDITVNGELAKPNYKVQVGDEIHYEVRE 66 Query: 63 --------DGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVF-------DNLPSIFS 106 + +PL E + + +KP G+V S T+ D+L I Sbjct: 67 PEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCDDLSGING 126 Query: 107 RVIS--VGRLDINTEGLLLLT-NDGG---LARVLELPSTQWLRVYRVRFHGQV 153 ++ V R+D +T GLL++ ND LA+ L+ ++ R Y HG + Sbjct: 127 KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSD--REYIALVHGDI 177 >gi|21243856|ref|NP_643438.1| pseudouridylate synthase [Xanthomonas axonopodis pv. citri str. 306] gi|21109456|gb|AAM37974.1| pseudouridylate synthase [Xanthomonas axonopodis pv. citri str. 306] Length = 236 Score = 36.2 bits (82), Expect = 7.7, Method: Compositional matrix adjust. Identities = 43/165 (26%), Positives = 72/165 (43%), Gaps = 11/165 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERA-AVNVMSTDHIEVDGVPLRKAE 71 P R+ K +A A SR E + I V V+G+++E A+ ++ + + V L AE Sbjct: 4 PIRLDKCVAAAFGCSRGEAQHYIEGGWVSVDGVVVEEPQALATVAQVTLAANAV-LAPAE 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRS---TVFDN-----LPSIFSRVISVGRLDINTEGLLL 123 L L HKP G+ + + D L F R+ + L+ GLL+ Sbjct: 63 PATL-LLHKPAGICADAALALATPATRSALDQSDLRVLKRHFLRLQAPLPLEDAASGLLI 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 L+ DG + R L ++ + + V G++ + L G+V Q Sbjct: 122 LSQDGRVLRRLSADASAIEQEFLVEVQGELRPYGMARLAHGLVYQ 166 >gi|16803883|ref|NP_465368.1| hypothetical protein lmo1843 [Listeria monocytogenes EGD-e] gi|47097693|ref|ZP_00235203.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Listeria monocytogenes str. 1/2a F6854] gi|224500073|ref|ZP_03668422.1| hypothetical protein LmonF1_10499 [Listeria monocytogenes Finland 1988] gi|224501356|ref|ZP_03669663.1| hypothetical protein LmonFR_02345 [Listeria monocytogenes FSL R2-561] gi|254829161|ref|ZP_05233848.1| ribosomal large subunit pseudouridine synthase [Listeria monocytogenes FSL N3-165] gi|254831556|ref|ZP_05236211.1| hypothetical protein Lmon1_09383 [Listeria monocytogenes 10403S] gi|254899460|ref|ZP_05259384.1| hypothetical protein LmonJ_06589 [Listeria monocytogenes J0161] gi|254912401|ref|ZP_05262413.1| conserved hypothetical protein [Listeria monocytogenes J2818] gi|254936728|ref|ZP_05268425.1| ribosomal large subunit pseudouridine synthase [Listeria monocytogenes F6900] gi|255027649|ref|ZP_05299635.1| hypothetical protein LmonocytFSL_17157 [Listeria monocytogenes FSL J2-003] gi|284802289|ref|YP_003414154.1| hypothetical protein LM5578_2045 [Listeria monocytogenes 08-5578] gi|284995431|ref|YP_003417199.1| hypothetical protein LM5923_1996 [Listeria monocytogenes 08-5923] gi|16411297|emb|CAC99921.1| lmo1843 [Listeria monocytogenes EGD-e] gi|47013931|gb|EAL04954.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Listeria monocytogenes str. 1/2a F6854] gi|258601571|gb|EEW14896.1| ribosomal large subunit pseudouridine synthase [Listeria monocytogenes FSL N3-165] gi|258609325|gb|EEW21933.1| ribosomal large subunit pseudouridine synthase [Listeria monocytogenes F6900] gi|284057851|gb|ADB68792.1| hypothetical protein LM5578_2045 [Listeria monocytogenes 08-5578] gi|284060898|gb|ADB71837.1| hypothetical protein LM5923_1996 [Listeria monocytogenes 08-5923] gi|293590383|gb|EFF98717.1| conserved hypothetical protein [Listeria monocytogenes J2818] Length = 303 Score = 36.2 bits (82), Expect = 7.7, Method: Compositional matrix adjust. Identities = 49/177 (27%), Positives = 77/177 (43%), Gaps = 27/177 (15%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLE-RAAVNVMSTDHIEV-- 62 I++E+ +RV KVIA SR ++ M+ + VNG L + V V H EV Sbjct: 7 IIEESHARERVDKVIAEMMGKSRSAIQLMLKNGDITVNGELAKPNYKVQVGDEIHYEVRE 66 Query: 63 --------DGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVF-------DNLPSIFS 106 + +PL E + + +KP G+V S T+ D+L I Sbjct: 67 PEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCDDLSGING 126 Query: 107 RVIS--VGRLDINTEGLLLLT-NDGG---LARVLELPSTQWLRVYRVRFHGQVDQDK 157 ++ V R+D +T GLL++ ND LA+ L+ ++ R Y HG + K Sbjct: 127 KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSD--REYIALVHGDIVHQK 181 >gi|254994200|ref|ZP_05276390.1| hypothetical protein LmonocytoFSL_15395 [Listeria monocytogenes FSL J2-064] Length = 296 Score = 36.2 bits (82), Expect = 7.8, Method: Compositional matrix adjust. Identities = 49/177 (27%), Positives = 77/177 (43%), Gaps = 27/177 (15%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLE-RAAVNVMSTDHIEV-- 62 I++E+ +RV KVIA SR ++ M+ + VNG L + V V H EV Sbjct: 7 IIEESHARERVDKVIAEMMGKSRSAIQLMLKNGDITVNGELAKPNYKVQVGDEIHYEVRE 66 Query: 63 --------DGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVF-------DNLPSIFS 106 + +PL E + + +KP G+V S T+ D+L I Sbjct: 67 PEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCDDLSGING 126 Query: 107 RVIS--VGRLDINTEGLLLLT-NDGG---LARVLELPSTQWLRVYRVRFHGQVDQDK 157 ++ V R+D +T GLL++ ND LA+ L+ ++ R Y HG + K Sbjct: 127 KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSD--REYIALVHGDIVHQK 181 >gi|325568385|ref|ZP_08144752.1| ribosomal small subunit pseudouridine synthase A [Enterococcus casseliflavus ATCC 12755] gi|325158154|gb|EGC70307.1| ribosomal small subunit pseudouridine synthase A [Enterococcus casseliflavus ATCC 12755] Length = 90 Score = 36.2 bits (82), Expect = 8.2, Method: Compositional matrix adjust. Identities = 28/84 (33%), Positives = 46/84 (54%), Gaps = 3/84 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERT 73 R+ KVI + SR+E++R+ Q +V V+ + R NV S+ H I V G L E Sbjct: 2 RLDKVIEQQLNTSRKEMKRLFQQGKVFVDHRIERRPERNVDSSLHQIMVAGRQLETQE-- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV 97 R ++ +KP G+VT + D ++ + Sbjct: 60 RYYIVNKPKGVVTANLDQQHQTVI 83 >gi|217964005|ref|YP_002349683.1| ribosomal large subunit pseudouridine synthase D [Listeria monocytogenes HCC23] gi|290893028|ref|ZP_06556017.1| ribosomal large subunit pseudouridine synthase [Listeria monocytogenes FSL J2-071] gi|217333275|gb|ACK39069.1| ribosomal large subunit pseudouridine synthase D [Listeria monocytogenes HCC23] gi|290557388|gb|EFD90913.1| ribosomal large subunit pseudouridine synthase [Listeria monocytogenes FSL J2-071] gi|307571425|emb|CAR84604.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Listeria monocytogenes L99] gi|313608111|gb|EFR84172.1| ribosomal large subunit pseudouridine synthase D [Listeria monocytogenes FSL F2-208] Length = 302 Score = 36.2 bits (82), Expect = 8.3, Method: Compositional matrix adjust. Identities = 48/173 (27%), Positives = 76/173 (43%), Gaps = 27/173 (15%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLE-RAAVNVMSTDHIEV-- 62 I++E+ +RV KVIA SR ++ M+ + VNG L + V V H EV Sbjct: 7 IIEESHARERVDKVIAEMMGKSRSAIQLMLKSGDITVNGELAKPNYKVQVGDEIHYEVRE 66 Query: 63 --------DGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVF-------DNLPSIFS 106 + +PL E + + +KP G+V S T+ D+L I Sbjct: 67 PEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCDDLSGING 126 Query: 107 RVIS--VGRLDINTEGLLLLT-NDGG---LARVLELPSTQWLRVYRVRFHGQV 153 ++ V R+D +T GLL++ ND LA+ L+ ++ R Y HG + Sbjct: 127 KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSD--REYIALVHGDI 177 >gi|124806269|ref|XP_001350676.1| RNA pseudouridylate synthase, putative [Plasmodium falciparum 3D7] gi|23496802|gb|AAN36356.1|AE014848_32 RNA pseudouridylate synthase, putative [Plasmodium falciparum 3D7] Length = 564 Score = 36.2 bits (82), Expect = 8.6, Method: Compositional matrix adjust. Identities = 32/126 (25%), Positives = 55/126 (43%), Gaps = 7/126 (5%) Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQW--LRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD N+ GLL+ T L+ L ++ + Y ++ + + Q+ + LLK+ + Sbjct: 435 CGRLDANSSGLLIFT-QNTLSNNYLLYRYKYNIEKEYVIKTYNSITQENMKLLKEHFYVD 493 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G + Q N + + +G ++ I+K+ N K+ L RI G L L Sbjct: 494 ----GKLIYKCHIQYVDNFTLIFKIYQGFHKIIRKMCMLSNIKIKSLHRIRIGNIHLNDL 549 Query: 229 LAGSTR 234 G R Sbjct: 550 PIGKWR 555 >gi|152990499|ref|YP_001356221.1| ribosomal large subunit pseudouridine synthase D [Nitratiruptor sp. SB155-2] gi|151422360|dbj|BAF69864.1| ribosomal large subunit pseudouridine synthase D [Nitratiruptor sp. SB155-2] Length = 319 Score = 36.2 bits (82), Expect = 8.9, Method: Compositional matrix adjust. Identities = 54/226 (23%), Positives = 95/226 (42%), Gaps = 39/226 (17%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +A+ R ++E++I Q V++NG + ++A + S D +EV +P K + Sbjct: 12 ERLDKALAKKLQKPRNQIEQLIKQGYVRINGKIEKKAGSKLKSGDLVEVT-IPEPKVSQP 70 Query: 74 R--------------LWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVIS------- 110 + + + +KP GLV + T+ D L + I +S Sbjct: 71 KDVHFDVERIYEDEDILVLNKPAGLVVHPAPSVKEPTLVDWLKANDISLSTLSGEERHGI 130 Query: 111 VGRLDINTEGLLLLTNDGGLARVL--ELPSTQWLRVYRVRFHGQVDQDKL---------- 158 V RLD T GL+++ + + L +L R Y + +D + Sbjct: 131 VHRLDKETSGLIVIAKNNETHQALSKQLQDKSMGRYYLAIVEPPLKEDLIIEKPIARNPK 190 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG--LREGKNREIK 202 N LK G+V G V L T K +N + +G L G+ +I+ Sbjct: 191 NRLKMGVVEGGRYAKSAFVKLTTSK-NNKYELIGAKLFTGRTHQIR 235 >gi|107023463|ref|YP_621790.1| pseudouridine synthase, Rsu [Burkholderia cenocepacia AU 1054] gi|116690545|ref|YP_836168.1| pseudouridine synthase, Rsu [Burkholderia cenocepacia HI2424] gi|105893652|gb|ABF76817.1| Pseudouridine synthase, Rsu [Burkholderia cenocepacia AU 1054] gi|116648634|gb|ABK09275.1| Pseudouridine synthase, Rsu [Burkholderia cenocepacia HI2424] Length = 192 Score = 35.8 bits (81), Expect = 9.4, Method: Compositional matrix adjust. Identities = 51/188 (27%), Positives = 86/188 (45%), Gaps = 23/188 (12%) Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL-ARVLELP 137 +KP G + S + R ++ D + + V + GRLD ++EGLLLLT+DGGL AR+ E P Sbjct: 7 NKPFGTICQFSAHETRPSLGDWVKT--PGVYAAGRLDADSEGLLLLTDDGGLQARIAE-P 63 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGI----VIQGICYGDMQVTLDTQKGSNA------ 187 + ++ Y + G L L +G+ + C + DT N Sbjct: 64 RHKLVKRYWAQVDGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPDTLWPRNPPIRYRA 123 Query: 188 -----WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP---FQLGTLLAGSTREVSKK 239 W+ + + EGKNR+++++ + RL+R+ G F LG + G T + + Sbjct: 124 AIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFALG-IAPGETIALPPR 182 Query: 240 ILREQLGP 247 + P Sbjct: 183 APWDGFAP 190 Searching..................................................done Results from round 2 >gi|254780406|ref|YP_003064819.1| putative ribosomal large subunit pseudouridine synthase B [Candidatus Liberibacter asiaticus str. psy62] gi|254040083|gb|ACT56879.1| putative ribosomal large subunit pseudouridine synthase B [Candidatus Liberibacter asiaticus str. psy62] Length = 354 Score = 475 bits (1223), Expect = e-132, Method: Composition-based stats. Identities = 354/354 (100%), Positives = 354/354 (100%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI Sbjct: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG Sbjct: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD Sbjct: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI Sbjct: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK Sbjct: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK Sbjct: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 >gi|315122182|ref|YP_004062671.1| putative ribosomal large subunit pseudouridine synthase B [Candidatus Liberibacter solanacearum CLso-ZC1] gi|313495584|gb|ADR52183.1| putative ribosomal large subunit pseudouridine synthase B [Candidatus Liberibacter solanacearum CLso-ZC1] Length = 393 Score = 374 bits (962), Expect = e-102, Method: Composition-based stats. Identities = 246/362 (67%), Positives = 292/362 (80%), Gaps = 15/362 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +KD IV E+ P+RVSKVIARAGIASRREVERMI Q+RVKVNG+ LERAAVNV+STD I Sbjct: 8 LKDGQIVPEDLMPERVSKVIARAGIASRREVERMITQKRVKVNGVCLERAAVNVISTDCI 67 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 EVD VPLRKAERTRLWLYHKP+GLVTTHSDP GRSTVFDN+PSI SRV+SVGRLDINTEG Sbjct: 68 EVDDVPLRKAERTRLWLYHKPVGLVTTHSDPTGRSTVFDNVPSIVSRVVSVGRLDINTEG 127 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLLLTNDGGLAR+LELPSTQWLRVYRVR +GQ+DQ+KL+LLK+GIVI+GI Y MQVT+D Sbjct: 128 LLLLTNDGGLARILELPSTQWLRVYRVRAYGQIDQEKLDLLKEGIVIKGIHYRGMQVTID 187 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +QKG+N W+TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG LL G TREV+KK+ Sbjct: 188 SQKGANVWLTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGELLEGDTREVAKKV 247 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 LREQLG +LL+EA+VNL+ +YSSET +RD + + DD ++ K S+ +G +K+K Sbjct: 248 LREQLGANLLKEARVNLEGLVYSSETPIRDHSKMKVKS-DDISKTKNKKSKVHGFNKKKH 306 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDS--------------GQREENHRRSPSFPSKRS 346 + P+ RRN +SNVWMA+GIHSS + +R+ +H+R+ K Sbjct: 307 VDFPIQRRNRSSNVWMAQGIHSSLPYEKQGEKDYQSMHDTGFKKRKYSHKRNKKLHKKSP 366 Query: 347 LR 348 L Sbjct: 367 LD 368 >gi|319403673|emb|CBI77258.1| Pseudouridine synthase [Bartonella rochalimae ATCC BAA-1498] Length = 492 Score = 340 bits (873), Expect = 2e-91, Method: Composition-based stats. Identities = 171/382 (44%), Positives = 221/382 (57%), Gaps = 29/382 (7%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +++ V E +R++K +ARAG+ASRR+ E MIA R+ VNG ++ A NV +D I Sbjct: 29 RNEKRVSEKSESERIAKRLARAGLASRRDAEMMIAAGRIVVNGAVVTTPAFNVTRSDVIM 88 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VDG PL ERTRLWLY+KPIG VTT+ DP GR TVFDNLP RV+SVGRLDINTEGL Sbjct: 89 VDGKPLPPIERTRLWLYYKPIGFVTTNRDPQGRPTVFDNLPKGMPRVLSVGRLDINTEGL 148 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDGGLARVLELP T W+R YRVR HG+V Q L LK GI + GI YG ++ +++ Sbjct: 149 LLLTNDGGLARVLELPLTGWVRKYRVRAHGKVKQSALQDLKNGIAVNGIFYGSIEASIER 208 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++GSN W++V LREGKNREIK V VNRLIR+SYGPFQL L G+ RE+ ++L Sbjct: 209 EQGSNVWLSVALREGKNREIKNVLGALGLSVNRLIRVSYGPFQLSDLKEGAVRELKGRML 268 Query: 242 REQLGPHLLEEAQVNLDAPIYS--SETLVRDRPNIISEV--------------------- 278 R+QLG L+ +A + DAPI S + V ++ NI Sbjct: 269 RDQLGERLIMQANADFDAPILKPFSNSAVSEKQNITKPPVIKDNWIVSSKENLSYGKKSR 328 Query: 279 ---PDDFTRMKKNSSQKNGL-SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREEN 334 KK + G + R+ SNVWMA G + + + Sbjct: 329 FLGHSQVRLSKKIDEKLRGKEQNKGGKEERAFLRSRCSNVWMAPGACPKIVRKKSYSDTD 388 Query: 335 H--RRSPSFPSKRSLRRTSAKK 354 + R ++ KRS R K+ Sbjct: 389 NYYDRKSNWVGKRSTDRGKEKR 410 >gi|319405144|emb|CBI78750.1| Pseudouridine synthase [Bartonella sp. AR 15-3] Length = 459 Score = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 168/377 (44%), Positives = 215/377 (57%), Gaps = 29/377 (7%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + E +R++K +ARAG+ASRR+ E MIA R+ VNG ++ NV +D I VD Sbjct: 1 MSEKSESERIAKRLARAGLASRRDAEMMIAAGRIVVNGAVVTTPVFNVTRSDVITVDNKS 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L ERTRLWLY+KP G +TT+ DP GR TVFDNLP RV+SVGRLDINTEGLLLLTN Sbjct: 61 LPPIERTRLWLYYKPTGFITTNRDPQGRPTVFDNLPKDMPRVLSVGRLDINTEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLARVLELP T W+R YRVR HG+V Q L LK GI + GI YG ++ +++ +GSN Sbjct: 121 DGGLARVLELPLTGWVRKYRVRAHGKVKQSALQDLKNGIAVNGIFYGSIEASIERDQGSN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W++V LREGKNREIK V VNRLIR+SYGPFQL L G+ RE+ ++LREQLG Sbjct: 181 VWLSVALREGKNREIKNVLGALGLSVNRLIRVSYGPFQLSDLKEGAVRELKGRVLREQLG 240 Query: 247 PHLLEEAQVNLDAPI---YSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL-------- 295 L+ +A N DAPI +S+ T+V + + + V D + S G Sbjct: 241 ERLILQANANFDAPILKPFSNSTVVEKQNSTKAPVIKDSWIISSKESLLYGKKRKFSGHS 300 Query: 296 ----------------SKQKKLATPVHRRNLASNVWMAKGIHSSFLSD--SGQREENHRR 337 + R+ SNVWMA G S +H R Sbjct: 301 QAQLSKKIDEKLRGKDQNKGGKEERAFLRSRCSNVWMAPGACPQITRKKSSSNANNHHDR 360 Query: 338 SPSFPSKRSLRRTSAKK 354 ++ K+S R K+ Sbjct: 361 KSNWIDKKSTDRGKEKR 377 >gi|319406590|emb|CBI80232.1| Pseudouridine synthase [Bartonella sp. 1-1C] Length = 493 Score = 339 bits (871), Expect = 3e-91, Method: Composition-based stats. Identities = 170/381 (44%), Positives = 221/381 (58%), Gaps = 29/381 (7%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 ++ V E +R++K +ARAG+ASRR+ E MI R+ VNG ++ A NV +D I V Sbjct: 31 NEKRVSEKSESERIAKRLARAGLASRRDAEMMIVAGRIVVNGTVVTTPAFNVSRSDVIMV 90 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG PL ERTRLWLY+KPIG VTT+ DP GR TVFDNLP RV+SVGRLDINTEGLL Sbjct: 91 DGKPLPPIERTRLWLYYKPIGFVTTNRDPQGRPTVFDNLPKGMPRVLSVGRLDINTEGLL 150 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTNDGGLARVLELP T W+R YRVR HG+V Q L LK GI + GI YG ++ +++ + Sbjct: 151 LLTNDGGLARVLELPLTGWVRKYRVRAHGKVKQSALQDLKNGIAVNGIFYGSIEASIERE 210 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +GSN W++V LREGKNREIK V VNRLIR+SYGPFQL L G+ RE+ ++LR Sbjct: 211 QGSNVWLSVALREGKNREIKNVLGALGLSVNRLIRVSYGPFQLSDLKEGAVRELKGRMLR 270 Query: 243 EQLGPHLLEEAQVNLDAPI---YSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS--- 296 +QLG L+ +A + DAPI +S+ +V + S V +D + + G Sbjct: 271 DQLGERLIVQANADFDAPILKPFSNSAVVAKQNITKSSVIEDSWIVSSKENLLYGRKSRF 330 Query: 297 ---------------------KQKKLATPVHRRNLASNVWMAKGIHSSFLSD--SGQREE 333 + R+ SNVWMA G S + Sbjct: 331 LGHSQVRLSKKIDTKLRAKDHNKGGKEERAFLRSRCSNVWMAPGACPQIARKKSSSDADN 390 Query: 334 NHRRSPSFPSKRSLRRTSAKK 354 ++ R ++ KRS R K+ Sbjct: 391 HYDRKSNWVGKRSTDRGKEKR 411 >gi|49473909|ref|YP_031951.1| hypothetical protein BQ02470 [Bartonella quintana str. Toulouse] gi|49239412|emb|CAF25750.1| hypothetical protein BQ02470 [Bartonella quintana str. Toulouse] Length = 467 Score = 339 bits (869), Expect = 5e-91, Method: Composition-based stats. Identities = 174/377 (46%), Positives = 224/377 (59%), Gaps = 30/377 (7%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + EN +R++K +ARAGIASRR+ E MI R+ +N ++ A NV +D I+VDG P Sbjct: 1 MNENSKGERIAKRLARAGIASRRDAEMMIIAGRIVINDTVVTTPAFNVTRSDVIKVDGKP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L ERTRLWLYHKP GLVTTH DP+GR TVF+NLP RV+SVGRLDINTEGLLLLTN Sbjct: 61 LSPIERTRLWLYHKPAGLVTTHRDPEGRPTVFNNLPKGMPRVLSVGRLDINTEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLARVLELP T W+R YRVR HG+V Q L+ LK GI I+GI YG ++ +++ ++GSN Sbjct: 121 DGGLARVLELPLTGWVRKYRVRAHGRVKQSALDNLKNGIAIEGIFYGSIEASIEREQGSN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W++V LREGKNREIK V VNRLIR+SYGPFQL L G+ RE+ ++LR+QLG Sbjct: 181 IWLSVALREGKNREIKNVLGALGLSVNRLIRVSYGPFQLSDLEEGAVRELKGRMLRDQLG 240 Query: 247 PHLLEEAQVNLDAPIYSS--------------ETLVRDRPNIISEVPDDFTRMKKNSSQK 292 L+ +A N DAPI S + + + I S + D R + S++ Sbjct: 241 ERLIMQANANFDAPILKSFSNSVVVAEKQNHKDLAITNDGWIFSSIGDVQRRRRGGFSER 300 Query: 293 NG-----------LSKQKKLATPVHR---RNLASNVWMAKGIHSSFLSDSG--QREENHR 336 + + ++K R R+ SNVWMA G + H Sbjct: 301 SRARLSTKPGEKFMRQEKSEGGKAERFLPRSRRSNVWMAPGARPQSTRKKSFYSEDTPHD 360 Query: 337 RSPSFPSKRSLRRTSAK 353 + KRSL R K Sbjct: 361 YKSNLAGKRSLHRGKEK 377 >gi|163867551|ref|YP_001608750.1| ribosomal large subunit pseudouridine synthase B [Bartonella tribocorum CIP 105476] gi|161017197|emb|CAK00755.1| ribosomal large subunit pseudouridine synthase B [Bartonella tribocorum CIP 105476] Length = 466 Score = 337 bits (864), Expect = 2e-90, Method: Composition-based stats. Identities = 171/380 (45%), Positives = 222/380 (58%), Gaps = 35/380 (9%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + EN +R++K +ARAG+ASRR+ E MI RV VNG ++ A NV +D I+VDG P Sbjct: 1 MNENNESERIAKRLARAGVASRRDAEMMIVAGRVSVNGTVVTTPAFNVSRSDVIKVDGKP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L ERTRLWLYHKP GLVTT+ DP+GR TVF +LP RV+SVGRLDINTEGLLLLTN Sbjct: 61 LSPIERTRLWLYHKPAGLVTTNRDPEGRPTVFSHLPKGMPRVVSVGRLDINTEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLARVLELP T W+R YRVR HG+V Q L+ LK GI I GI YG ++ +++ ++G+N Sbjct: 121 DGGLARVLELPVTGWVRKYRVRAHGRVKQSALDNLKNGIAINGIFYGSIEASIEREQGAN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W+++ LREGKNREIK V VNRLIR+SYGPF L L G+ +E+ ++LR+QLG Sbjct: 181 IWLSIALREGKNREIKNVLGALGLSVNRLIRVSYGPFHLSDLKEGAVQELKGRMLRDQLG 240 Query: 247 PHLLEEAQVNLDAPI---------------------------YSSETLVRDRPNIISEVP 279 L+ +A + DAPI +SSE ++R R N S Sbjct: 241 ERLIMQANADFDAPILKPFSNSPVIAEKQSQKDVSVANDGWVFSSERVIRRRSNDGSVEH 300 Query: 280 DDFTRMKKNSSQKNGLSKQKKLATPVHR---RNLASNVWMAKGIHSSFLSDSGQREE--N 334 D R + + ++K K R R+ +NVWMA G E + Sbjct: 301 D---RARLRAKSHENMNKGKSEEGKAERFLPRSRRANVWMAPGARPQSARRKPSYNEEKS 357 Query: 335 HRRSPSFPSKRSLRRTSAKK 354 H K+S R K+ Sbjct: 358 HDHKGDTADKKSFYRGKEKR 377 >gi|15964554|ref|NP_384907.1| hypothetical protein SMc00904 [Sinorhizobium meliloti 1021] gi|307314744|ref|ZP_07594340.1| RNA-binding S4 domain protein [Sinorhizobium meliloti BL225C] gi|15073732|emb|CAC45373.1| Hypothetical protein SMc00904 [Sinorhizobium meliloti 1021] gi|306898968|gb|EFN29614.1| RNA-binding S4 domain protein [Sinorhizobium meliloti BL225C] Length = 573 Score = 336 bits (863), Expect = 3e-90, Method: Composition-based stats. Identities = 182/372 (48%), Positives = 238/372 (63%), Gaps = 28/372 (7%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 PQR+SK+++RAG+ASRR+VERMI + RV +NG++L+ VN D IEVDG P+R Sbjct: 44 DEPQRISKILSRAGVASRRDVERMIMEGRVSLNGVVLDTPVVNATLADRIEVDGHPIRGI 103 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ERTRLWLYHKP GLVTT++DP+GR TVF+NLP RV+SVGRLDINTEGLLLLTNDGGL Sbjct: 104 ERTRLWLYHKPGGLVTTNADPEGRPTVFENLPEELPRVLSVGRLDINTEGLLLLTNDGGL 163 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ARVLELPST WLR YRVR HG++DQ+ L+ LK+GI + G+ YG ++ TLD +GSN W+T Sbjct: 164 ARVLELPSTGWLRRYRVRAHGEIDQEALDRLKEGIAVDGVLYGAIEATLDRVQGSNVWIT 223 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 +GLREGKNREIK V VNRLIRISYGPFQLG L G +E+ + LREQLGP L+ Sbjct: 224 MGLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGELPIGQVQEIRGRTLREQLGPRLI 283 Query: 251 EEAQVNLDAPIYSS-----------------------ETLVRDRPNIISEVPDDFTRMKK 287 +++ N DAPIY+ E R ++ + + Sbjct: 284 ADSKANFDAPIYNDQPAAAEPEAEPADHGKAEWGSKREKAEDKRERALARLDTRRDDGRP 343 Query: 288 NSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREEN-----HRRSPSFP 342 + ++ +++ A P RRN +SNVWMA G + E++ RR+P+ Sbjct: 344 SERGRSRGKPEERPARPPVRRNRSSNVWMAPGARPTVEKKPKAAEDDLSPKGARRAPAEG 403 Query: 343 SKRSLRRTSAKK 354 +R + +A K Sbjct: 404 KRRDRPKDAAAK 415 >gi|307320038|ref|ZP_07599459.1| RNA-binding S4 domain protein [Sinorhizobium meliloti AK83] gi|306894253|gb|EFN25018.1| RNA-binding S4 domain protein [Sinorhizobium meliloti AK83] Length = 573 Score = 336 bits (863), Expect = 3e-90, Method: Composition-based stats. Identities = 182/372 (48%), Positives = 238/372 (63%), Gaps = 28/372 (7%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 PQR+SK+++RAG+ASRR+VERMI + RV +NG++L+ VN D IEVDG P+R Sbjct: 44 DEPQRISKILSRAGVASRRDVERMIMEGRVSLNGVVLDTPVVNATLADRIEVDGHPIRGI 103 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ERTRLWLYHKP GLVTT++DP+GR TVF+NLP RV+SVGRLDINTEGLLLLTNDGGL Sbjct: 104 ERTRLWLYHKPGGLVTTNADPEGRPTVFENLPEELPRVLSVGRLDINTEGLLLLTNDGGL 163 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ARVLELPST WLR YRVR HG++DQ+ L+ LK+GI + G+ YG ++ TLD +GSN W+T Sbjct: 164 ARVLELPSTGWLRRYRVRAHGEIDQEALDRLKEGIAVDGVLYGAIEATLDRVQGSNVWIT 223 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 +GLREGKNREIK V VNRLIRISYGPFQLG L G +E+ + LREQLGP L+ Sbjct: 224 MGLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGELPIGQVQEIRGRTLREQLGPRLI 283 Query: 251 EEAQVNLDAPIYSS-----------------------ETLVRDRPNIISEVPDDFTRMKK 287 +++ N DAPIY+ E R ++ + + Sbjct: 284 ADSKANFDAPIYNDQPAAAEPEAEPADHDKAEWGSKREKAEDKRERALARLDTRRDDGRP 343 Query: 288 NSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREEN-----HRRSPSFP 342 + ++ +++ A P RRN +SNVWMA G + E++ RR+P+ Sbjct: 344 SERGRSRGKPEERPARPPVRRNRSSNVWMAPGARPTVEKKPKAAEDDLSPKGARRAPAEG 403 Query: 343 SKRSLRRTSAKK 354 +R + +A K Sbjct: 404 KRRDRPKDAAAK 415 >gi|319898380|ref|YP_004158473.1| Pseudouridine synthase [Bartonella clarridgeiae 73] gi|319402344|emb|CBI75883.1| Pseudouridine synthase [Bartonella clarridgeiae 73] Length = 496 Score = 336 bits (862), Expect = 4e-90, Method: Composition-based stats. Identities = 163/377 (43%), Positives = 217/377 (57%), Gaps = 29/377 (7%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + E +R++K +ARAG+ASRR+ E MI R+ VNG ++ NV +D I VDG P Sbjct: 34 MSEKSESERIAKRLARAGVASRRDAEMMIFAGRIVVNGAIIATPVFNVTRSDVITVDGKP 93 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L ERTRLWLYHKP+G VTT+ DP GR TVFDNLP RV+SVGRLD+NTEGLLLLTN Sbjct: 94 LPPIERTRLWLYHKPVGFVTTNRDPQGRPTVFDNLPKDMPRVLSVGRLDMNTEGLLLLTN 153 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLARVLELP T W+R YRVR HG+V Q L LK GI + GI YG ++ +++ ++GSN Sbjct: 154 DGGLARVLELPLTGWVRKYRVRAHGKVKQSALQDLKNGIAVNGIFYGSIEASIEREQGSN 213 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W++V LREGKNREIK V VNRLIR+SYGPFQL L G+ RE+ ++LR+QLG Sbjct: 214 VWLSVALREGKNREIKNVLGALGLSVNRLIRVSYGPFQLSDLKEGAVRELKGRMLRDQLG 273 Query: 247 PHLLEEAQVNLDAPI---YSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL-------- 295 L+ +A + +API +S+ ++ + + V + + + S G Sbjct: 274 ERLILQANADFNAPIIKPFSNSAVIEKQNSTKPPVMKNSWIVSRKESILRGKKGRFPGHS 333 Query: 296 ----------------SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ--REENHRR 337 + V R+ SNVWMA G + ++ R Sbjct: 334 QVRLSKKFDEKLRVKDQNKSGKEERVFLRSRCSNVWMAPGACPQIARKKPSSVADNHYGR 393 Query: 338 SPSFPSKRSLRRTSAKK 354 ++ KR R K+ Sbjct: 394 KINWVGKRFTDRGKEKR 410 >gi|49475072|ref|YP_033113.1| hypothetical protein BH02610 [Bartonella henselae str. Houston-1] gi|49237877|emb|CAF27073.1| hypothetical protein BH02610 [Bartonella henselae str. Houston-1] Length = 465 Score = 335 bits (859), Expect = 7e-90, Method: Composition-based stats. Identities = 178/378 (47%), Positives = 226/378 (59%), Gaps = 30/378 (7%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + EN +R++K +ARAGIASRR+ E MI R+ VNG ++ A+NV +D I+VDG P Sbjct: 1 MNENSESERIAKRLARAGIASRRDAEMMILAGRIVVNGTVVTTPALNVTRSDVIKVDGKP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L ERTRLWLYHKP GLVTTH DP+GR TVF NLP RV+SVGRLDINTEGLLLLTN Sbjct: 61 LSPIERTRLWLYHKPAGLVTTHRDPEGRPTVFSNLPKEMPRVLSVGRLDINTEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLARVLELP T W+R YRVR HG+V Q L+ LK GI I GI YG ++ +++ ++GSN Sbjct: 121 DGGLARVLELPLTGWVRKYRVRAHGRVKQSALDNLKNGIAIDGIFYGSIEASIEREQGSN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W++V LREGKNREIK + VNRLIRISYGPFQL L G+ RE+ ++LR+QLG Sbjct: 181 IWLSVALREGKNREIKNILGALGLSVNRLIRISYGPFQLSDLEEGAVREIKGRMLRDQLG 240 Query: 247 PHLLEEAQVNLDAPI---YSSETLVRDRPN----------IISEVPDDFTRMKKNSSQKN 293 L+ +A + DAPI +S+ +V ++ + IS D R ++ SS + Sbjct: 241 ERLIMQANADFDAPILKPFSNTAVVAEKRSHKDLTVANDGWISSHGGDLRRRQRKSSAER 300 Query: 294 GL------------SKQKKLATPVHR---RNLASNVWMAKGIHSSFLSDSGQREE--NHR 336 G K+K + R R+ SNVWMA G E +H Sbjct: 301 GRTRLSTKLDKKFMGKEKSEEGKIERFLPRSRHSNVWMAPGARPQSAHRKSFYSEGIHHA 360 Query: 337 RSPSFPSKRSLRRTSAKK 354 RS R K Sbjct: 361 HKSDLSVNRSFHRAKQSK 378 >gi|240849922|ref|YP_002971311.1| ribosomal large subunit pseudouridine synthase B [Bartonella grahamii as4aup] gi|240267045|gb|ACS50633.1| ribosomal large subunit pseudouridine synthase B [Bartonella grahamii as4aup] Length = 466 Score = 334 bits (858), Expect = 9e-90, Method: Composition-based stats. Identities = 170/379 (44%), Positives = 223/379 (58%), Gaps = 35/379 (9%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + EN +R++K +ARAG+ASRR+ E MI R+ VNG ++ A NV +D I+VDG P Sbjct: 1 MNENNESERIAKRLARAGVASRRDAEMMIVAGRISVNGTVVTTPAFNVSRSDVIKVDGKP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L ERTRLWLYHKP GLVTT+ DP+GR TVF NLP RV+SVGRLDINTEGLLLLTN Sbjct: 61 LPPIERTRLWLYHKPAGLVTTNRDPEGRPTVFSNLPKGMPRVLSVGRLDINTEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLARVLELP T W+R YRVR HG+V + L+ LK GI I GI YG ++ +++ ++GSN Sbjct: 121 DGGLARVLELPVTGWVRKYRVRAHGRVKKSALDNLKNGIAINGIFYGSIEASIEREQGSN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W++V LREGKNREIK V VNRLIR+SYGPF L L G+ +E+ ++LR+QLG Sbjct: 181 IWLSVALREGKNREIKNVLGALGLSVNRLIRVSYGPFHLSDLEEGAVQELKGRMLRDQLG 240 Query: 247 PHLLEEAQVNLDAPI---------------------------YSSETLVRDRPNIISEVP 279 L+ +A + DAPI +SSE +R RP S Sbjct: 241 ERLIMQANADFDAPILKPFSNSAVVAEKQSQKDLSVANDGWVFSSERAIRRRPRDGSV-- 298 Query: 280 DDFTRMKKNSSQKNGLSKQKKLATPVHR---RNLASNVWMAKGIHSSFLSDSGQR--EEN 334 + +R + ++ + K+K R R+ +NVWMA G E++ Sbjct: 299 -EHSRARLSTKSHENVKKEKSEEGKAERFLPRSRRANVWMAPGARPQSTRRKPSYSEEKS 357 Query: 335 HRRSPSFPSKRSLRRTSAK 353 H ++S R K Sbjct: 358 HDHKSDLDGRKSFHRGKEK 376 >gi|121601745|ref|YP_989462.1| RNA pseudouridine synthase [Bartonella bacilliformis KC583] gi|120613922|gb|ABM44523.1| RNA pseudouridine synthase [Bartonella bacilliformis KC583] Length = 499 Score = 334 bits (857), Expect = 1e-89, Method: Composition-based stats. Identities = 173/378 (45%), Positives = 229/378 (60%), Gaps = 25/378 (6%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +++ V N +R++K +ARAGIASRR+ E MI R+ VNG ++ +NV+ +DHI Sbjct: 33 QNEEDVYTNCDSERIAKRLARAGIASRRDAEMMIIAGRIAVNGTVVTTPVLNVIPSDHIT 92 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VD +P+ ERTRLWLYHKP GLVTT+ DP+GR TVFDNLP RV+SVGRLDINTEGL Sbjct: 93 VDEIPIPPIERTRLWLYHKPSGLVTTNRDPEGRPTVFDNLPKEMPRVVSVGRLDINTEGL 152 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDGGLARVLELP T W+R YRVR HG++ Q +L+ LK GI I GI YG + ++D Sbjct: 153 LLLTNDGGLARVLELPLTGWVRKYRVRAHGKIKQSELDKLKNGIAIDGIFYGSIDASIDR 212 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++GSN W++V LREGKNREIK VNRLIR+SYGPFQL L G+ RE+ + L Sbjct: 213 EQGSNVWLSVALREGKNREIKNFLGALGLSVNRLIRVSYGPFQLSDLEEGAVRELKGRTL 272 Query: 242 REQLGPHLLEEAQVNLDAPI----YSSETLVRDRP-NIISEVPDDFTRMKKNSSQKNGLS 296 R+QLG L+ +A N DAPI +S +V+ + +S+ D++ + Q+N Sbjct: 273 RDQLGERLIMQANANFDAPILKPFSNSAVVVKQQSNKKLSQANDEWISSSGHHKQRNKKD 332 Query: 297 ----------KQKKLATPVHRRN--------LASNVWMAKGIHSSFLSDSGQR--EENHR 336 +K P+ +R SNVWMA G E+N Sbjct: 333 GFIEHNRAQLSKKPNEQPIEQRKTERFSSRSRRSNVWMASGARPQITRKRPYYGEEDNQD 392 Query: 337 RSPSFPSKRSLRRTSAKK 354 RS F ++ L + K+ Sbjct: 393 RSRVFAGEKFLYKNKEKQ 410 >gi|227820997|ref|YP_002824967.1| pseudouridylate synthase, subunit B protein [Sinorhizobium fredii NGR234] gi|227339996|gb|ACP24214.1| pseudouridylate synthase, subunit B protein [Sinorhizobium fredii NGR234] Length = 607 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 180/369 (48%), Positives = 233/369 (63%), Gaps = 29/369 (7%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 PQR+SK+++RAG+ASRR++ERMI + RVK+NG++LE VN D IEVDG P+R Sbjct: 44 DEPQRISKILSRAGVASRRDIERMIMEGRVKLNGVVLETPVVNATLADQIEVDGHPIRGI 103 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ERTRLWLY+KP GLVTT+SDP+GR TVFDNLP RV+SVGRLDINTEGLLLLTNDGGL Sbjct: 104 ERTRLWLYYKPAGLVTTNSDPEGRPTVFDNLPDELPRVLSVGRLDINTEGLLLLTNDGGL 163 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 AR LELPST WLR YRVR HG++DQ+ L+ LK+GI + G+ YG ++ TLD +GSN W+T Sbjct: 164 ARALELPSTGWLRRYRVRAHGEIDQEALDRLKEGIAVDGVLYGAIEATLDRVQGSNVWIT 223 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 +GLREGKNREIK V VNRLIRISYGPFQLG L G +E+ + LR+QLGP L+ Sbjct: 224 MGLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGELPEGHVQEIRGRTLRDQLGPRLI 283 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPD-----DFTRMKKNSSQKNGLSK-------- 297 E++ N DAP+Y+ + +R P+ R K ++ L++ Sbjct: 284 AESKANFDAPLYNDQPAAPEREAHNEVAPEWGKERSARREKPEDKRERALARLDTQRDDS 343 Query: 298 -------------QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 + + A P +R+ +NVWMA G EE+ P+ + Sbjct: 344 RSRDRRERPREKFEDRPARPPAKRSRTANVWMAPGARPVAEKKPKGAEEDTSPKPA---R 400 Query: 345 RSLRRTSAK 353 R + K Sbjct: 401 RERPEGAPK 409 >gi|319408053|emb|CBI81707.1| Pseudouridine synthase [Bartonella schoenbuchensis R1] Length = 486 Score = 332 bits (851), Expect = 6e-89, Method: Composition-based stats. Identities = 170/375 (45%), Positives = 222/375 (59%), Gaps = 23/375 (6%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 ++K + EN +R++K +ARAG+ASRR+ E MI RV VNG ++ NVM +D I Sbjct: 29 QNKKKIDENSESERIAKRLARAGVASRRDAEMMIIAGRVVVNGAVVTTPVFNVMRSDVIT 88 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 +DG L ERTRLWLYHKP G VTT+ DP+GR TVFDNLP RV+SVGRLDINTEGL Sbjct: 89 IDGKSLPPMERTRLWLYHKPAGFVTTNRDPEGRPTVFDNLPKEMPRVLSVGRLDINTEGL 148 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDGGLAR+LELP T W+R YRVR HG++ Q KL+ LK GI I+G+ YG ++ +++ Sbjct: 149 LLLTNDGGLARILELPITGWVRKYRVRAHGKIKQSKLDSLKNGIAIKGVFYGSIEASIER 208 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++G+N W++V LREGKNREIK V VNRLIRISYGPFQL L G+ RE+ ++L Sbjct: 209 EQGANIWLSVALREGKNREIKNVLGALGLSVNRLIRISYGPFQLADLDKGAVRELKGRVL 268 Query: 242 REQLGPHLLEEAQVNLDAPI-----YSSETLVRDRPNIISEVPDDF-------TRMKKNS 289 R+QLG L+ +A + D+PI S ++ + + DD TR +K S Sbjct: 269 RDQLGERLIAQANADFDSPILKPFSNSVVSVKKQNSKKLFVAGDDEVVSRVNGTRHEKQS 328 Query: 290 SQKNGLSKQKKLATPVHR---------RNLASNVWMAKGIHSSFLSDSGQREEN--HRRS 338 G + + R+ SNVWMA G E H RS Sbjct: 329 GFCEGRRARLNTKSDEQSMGKTKNLSLRSRHSNVWMAPGARPQVERKKFCYNEGSYHNRS 388 Query: 339 PSFPSKRSLRRTSAK 353 + K+ R K Sbjct: 389 SDYVGKKFSGREKEK 403 >gi|150395641|ref|YP_001326108.1| pseudouridine synthase [Sinorhizobium medicae WSM419] gi|150027156|gb|ABR59273.1| pseudouridine synthase [Sinorhizobium medicae WSM419] Length = 576 Score = 329 bits (844), Expect = 5e-88, Method: Composition-based stats. Identities = 182/370 (49%), Positives = 236/370 (63%), Gaps = 29/370 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 PQR+SK+++RAG+ASRR+VERMI + RV +NG++L+ VN D IEVDG P+R E Sbjct: 46 QPQRISKILSRAGVASRRDVERMIMEGRVSLNGLVLDTPVVNATLADRIEVDGHPIRGIE 105 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RTRLWLYHKP GLVTT++DP+GR TVF+NLP RV+S+GRLDINTEGLLLLTNDGGLA Sbjct: 106 RTRLWLYHKPGGLVTTNADPEGRPTVFENLPEDLPRVLSIGRLDINTEGLLLLTNDGGLA 165 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 RVLELPST WLR YRVR HG++DQ L+ LK+GI ++G+ YG ++ TLD +GSN W+T+ Sbjct: 166 RVLELPSTGWLRRYRVRAHGEIDQAALDRLKEGIAVEGVLYGAIEATLDRVQGSNVWITM 225 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 GLREGKNREIK V VNRLIRISYGPFQLG L G +E+ + LREQLGP L+ Sbjct: 226 GLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGELPIGQVQEIRGRTLREQLGPRLIA 285 Query: 252 EAQVNLDAPIYSS------------------------ETLVRDRPNIISEVPDDFTRMKK 287 +A+ N DAPIY+ E R ++ + + Sbjct: 286 DAKANFDAPIYNDQSTAAEPEAEPVADHGKAEWGSKREKAGDKRERALARLDTRRDDGRP 345 Query: 288 NSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREE-----NHRRSPSFP 342 N ++ +++ A P RRN +SNVWMA G + E+ + RR+P+ Sbjct: 346 NDRGRSRGKAEERPARPPLRRNRSSNVWMAPGARPTVEKKPKAAEDELSPKSTRRAPADV 405 Query: 343 SKRSLRRTSA 352 +R + A Sbjct: 406 KRRDRAKDPA 415 >gi|254711457|ref|ZP_05173268.1| hypothetical protein BpinB_14632 [Brucella pinnipedialis B2/94] Length = 611 Score = 324 bits (831), Expect = 1e-86, Method: Composition-based stats. Identities = 171/350 (48%), Positives = 223/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G+ ++ + + P +K S Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGVRPKGEKEAAKPARVEHQQPHRSAKFS 448 >gi|256014991|ref|YP_003105000.1| RNA pseudouridylate synthase family protein [Brucella microti CCM 4915] gi|255997651|gb|ACU49338.1| RNA pseudouridylate synthase family protein [Brucella microti CCM 4915] Length = 611 Score = 324 bits (830), Expect = 2e-86, Method: Composition-based stats. Identities = 170/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I V+G PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVNGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 448 >gi|237816712|ref|ZP_04595704.1| conserved hypothetical protein [Brucella abortus str. 2308 A] gi|254691364|ref|ZP_05154618.1| hypothetical protein Babob68_14690 [Brucella abortus bv. 6 str. 870] gi|254731879|ref|ZP_05190457.1| hypothetical protein Babob42_11997 [Brucella abortus bv. 4 str. 292] gi|237787525|gb|EEP61741.1| conserved hypothetical protein [Brucella abortus str. 2308 A] Length = 611 Score = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 171/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 448 >gi|294853220|ref|ZP_06793892.1| ribosomal large subunit pseudouridine synthase B [Brucella sp. NVSL 07-0026] gi|294818875|gb|EFG35875.1| ribosomal large subunit pseudouridine synthase B [Brucella sp. NVSL 07-0026] Length = 611 Score = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 169/350 (48%), Positives = 221/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MI R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIVAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+R+LELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRILELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 448 >gi|148558125|ref|YP_001257253.1| RNA pseudouridylate synthase family protein [Brucella ovis ATCC 25840] gi|148369410|gb|ABQ62282.1| RNA pseudouridylate synthase family protein [Brucella ovis ATCC 25840] Length = 598 Score = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 170/350 (48%), Positives = 221/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 86 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 145 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ER RLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 146 QTERNRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 205 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 206 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 265 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 266 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 325 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 326 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 385 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 386 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 435 >gi|256111893|ref|ZP_05452849.1| hypothetical protein Bmelb3E_04410 [Brucella melitensis bv. 3 str. Ether] Length = 611 Score = 323 bits (828), Expect = 3e-86, Method: Composition-based stats. Identities = 170/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V + +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTRQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 448 >gi|161620283|ref|YP_001594169.1| hypothetical protein BCAN_B0204 [Brucella canis ATCC 23365] gi|161337094|gb|ABX63398.1| conserved hypothetical protein [Brucella canis ATCC 23365] Length = 611 Score = 323 bits (828), Expect = 3e-86, Method: Composition-based stats. Identities = 171/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIATGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 448 >gi|306840967|ref|ZP_07473708.1| conserved hypothetical protein [Brucella sp. BO2] gi|306289024|gb|EFM60289.1| conserved hypothetical protein [Brucella sp. BO2] Length = 614 Score = 323 bits (828), Expect = 3e-86, Method: Composition-based stats. Identities = 167/350 (47%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGEPPQEGERRRAPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 448 >gi|221090247|ref|YP_002519390.1| RNA pseudouridylate synthase family protein [Brucella suis 1330] gi|54112368|gb|AAV28863.1| RNA pseudouridylate synthase family protein [Brucella suis 1330] Length = 598 Score = 323 bits (828), Expect = 3e-86, Method: Composition-based stats. Identities = 171/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 86 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 145 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 146 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 205 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 206 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 265 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 266 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 325 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 326 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 385 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 386 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 435 >gi|256158081|ref|ZP_05455999.1| hypothetical protein BcetM4_04490 [Brucella ceti M490/95/1] Length = 611 Score = 322 bits (827), Expect = 3e-86, Method: Composition-based stats. Identities = 170/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + RTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTARTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRTPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G+ ++ + + P +K S Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGVRPKGEKEAAKPARVEHQQPHRSAKFS 448 >gi|225628667|ref|ZP_03786701.1| conserved hypothetical protein [Brucella ceti str. Cudo] gi|225616513|gb|EEH13561.1| conserved hypothetical protein [Brucella ceti str. Cudo] Length = 611 Score = 322 bits (827), Expect = 4e-86, Method: Composition-based stats. Identities = 170/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + RTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QTARTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G+ ++ + + P +K S Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGVRPKGEKETAKPARVEHQQPHRSAKFS 448 >gi|256043125|ref|ZP_05446067.1| hypothetical protein Bmelb1R_01497 [Brucella melitensis bv. 1 str. Rev.1] Length = 611 Score = 322 bits (826), Expect = 5e-86, Method: Composition-based stats. Identities = 170/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 99 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 158 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 159 QKERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 218 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V + +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 219 GLSRVLELPSTGWLRRYRVRAHGKVTRQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 278 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 279 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 338 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 448 >gi|189425784|ref|YP_001952961.1| pseudouridine synthase [Geobacter lovleyi SZ] gi|189422043|gb|ACD96441.1| pseudouridine synthase [Geobacter lovleyi SZ] Length = 274 Score = 322 bits (826), Expect = 6e-86, Method: Composition-based stats. Identities = 96/261 (36%), Positives = 138/261 (52%), Gaps = 1/261 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K+I+ AGI SRR E MI RV VNG ++ D I +DG P++ AE Sbjct: 3 ERLQKIISAAGITSRRAAEEMILAGRVTVNGQVVTELGSKADPAKDLIALDGQPVKPAET 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L HKP G VT+ DP GR V + + + R+ VGRLD N+EGLLLLTNDG A Sbjct: 63 FYYVLLHKPAGYVTSLKDPQGRQLVTELVKDVGERLFPVGRLDYNSEGLLLLTNDGAWAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P Q + Y VR G++D ++ L G+ ++ G V L SN W++V Sbjct: 123 RLMHPRHQVDKEYHVRVRGKIDPQQIKKLADGVELEDGPTGATTVRLLKNDQSNDWLSVT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 +REG+NR+++++ V RL RI YG LG L G R +S++ + P +++ Sbjct: 183 IREGRNRQVRRMCAAVGLFVVRLRRIRYGNLTLGGLQPGEYRLLSREEAQALDAPPPVKQ 242 Query: 253 AQVNLDAPIYSSETLVRDRPN 273 + + AP+ SS T P Sbjct: 243 REQRMAAPVKSSTTPQSQTPG 263 >gi|254712060|ref|ZP_05173871.1| RNA pseudouridylate synthase family protein [Brucella ceti M644/93/1] gi|254715130|ref|ZP_05176941.1| RNA pseudouridylate synthase family protein [Brucella ceti M13/05/1] gi|261216838|ref|ZP_05931119.1| RNA-binding S4 domain-containing protein [Brucella ceti M13/05/1] gi|260921927|gb|EEX88495.1| RNA-binding S4 domain-containing protein [Brucella ceti M13/05/1] Length = 581 Score = 322 bits (825), Expect = 7e-86, Method: Composition-based stats. Identities = 171/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 369 REEKTEKVEPRRRSNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 418 >gi|297249906|ref|ZP_06933607.1| ribosomal large subunit pseudouridine synthase B [Brucella abortus bv. 5 str. B3196] gi|297173775|gb|EFH33139.1| ribosomal large subunit pseudouridine synthase B [Brucella abortus bv. 5 str. B3196] Length = 598 Score = 322 bits (825), Expect = 7e-86, Method: Composition-based stats. Identities = 171/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 86 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 145 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 146 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 205 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 206 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 265 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 266 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 325 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 326 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 385 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 386 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 435 >gi|256059561|ref|ZP_05449760.1| RNA pseudouridylate synthase family protein [Brucella neotomae 5K33] gi|261323529|ref|ZP_05962726.1| RNA-binding S4 domain-containing protein [Brucella neotomae 5K33] gi|261299509|gb|EEY03006.1| RNA-binding S4 domain-containing protein [Brucella neotomae 5K33] Length = 581 Score = 321 bits (823), Expect = 1e-85, Method: Composition-based stats. Identities = 171/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 369 REEKAEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 418 >gi|256029912|ref|ZP_05443526.1| RNA pseudouridylate synthase family protein [Brucella pinnipedialis M292/94/1] gi|261319066|ref|ZP_05958263.1| RNA-binding S4 domain-containing protein [Brucella pinnipedialis B2/94] gi|265986930|ref|ZP_06099487.1| RNA-binding S4 domain-containing protein [Brucella pinnipedialis M292/94/1] gi|261298289|gb|EEY01786.1| RNA-binding S4 domain-containing protein [Brucella pinnipedialis B2/94] gi|264659127|gb|EEZ29388.1| RNA-binding S4 domain-containing protein [Brucella pinnipedialis M292/94/1] Length = 581 Score = 320 bits (822), Expect = 1e-85, Method: Composition-based stats. Identities = 171/350 (48%), Positives = 223/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G+ ++ + + P +K S Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGVRPKGEKEAAKPARVEHQQPHRSAKFS 418 >gi|254706249|ref|ZP_05168077.1| RNA pseudouridylate synthase family protein [Brucella pinnipedialis M163/99/10] Length = 581 Score = 320 bits (822), Expect = 1e-85, Method: Composition-based stats. Identities = 171/350 (48%), Positives = 223/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G+ ++ + + P +K S Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGVRPKGEKEAAKPARVEHQQPHRSAKFS 418 >gi|254719940|ref|ZP_05181751.1| RNA pseudouridylate synthase family protein [Brucella sp. 83/13] gi|265984948|ref|ZP_06097683.1| RNA-binding S4 domain-containing protein [Brucella sp. 83/13] gi|264663540|gb|EEZ33801.1| RNA-binding S4 domain-containing protein [Brucella sp. 83/13] Length = 577 Score = 320 bits (822), Expect = 2e-85, Method: Composition-based stats. Identities = 165/343 (48%), Positives = 219/343 (63%), Gaps = 12/343 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGEPPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSP 339 +++K RR +NVWMA G ++ + + P Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQP 411 >gi|163844393|ref|YP_001622048.1| hypothetical protein BSUIS_B0209 [Brucella suis ATCC 23445] gi|163675116|gb|ABY39226.1| conserved hypothetical protein [Brucella suis ATCC 23445] Length = 598 Score = 320 bits (822), Expect = 2e-85, Method: Composition-based stats. Identities = 169/350 (48%), Positives = 220/350 (62%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 86 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 145 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVG LDINTEGLLLLTNDG Sbjct: 146 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGHLDINTEGLLLLTNDG 205 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ + +N W Sbjct: 206 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQDANVW 265 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 266 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 325 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 326 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 385 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 386 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 435 >gi|225686060|ref|YP_002734032.1| hypothetical protein BMEA_B0205 [Brucella melitensis ATCC 23457] gi|225642165|gb|ACO02078.1| conserved hypothetical protein [Brucella melitensis ATCC 23457] Length = 598 Score = 320 bits (821), Expect = 2e-85, Method: Composition-based stats. Identities = 170/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 86 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 145 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 146 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 205 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V + +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 206 GLSRVLELPSTGWLRRYRVRAHGKVTRQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 265 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 266 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 325 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 326 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 385 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 386 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 435 >gi|254699496|ref|ZP_05161324.1| RNA pseudouridylate synthase family protein [Brucella suis bv. 5 str. 513] gi|261749951|ref|ZP_05993660.1| RNA-binding S4 domain-containing protein [Brucella suis bv. 5 str. 513] gi|261739704|gb|EEY27630.1| RNA-binding S4 domain-containing protein [Brucella suis bv. 5 str. 513] Length = 581 Score = 320 bits (821), Expect = 2e-85, Method: Composition-based stats. Identities = 171/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 418 >gi|62317153|ref|YP_223006.1| RNA pseudouridylate synthase family protein [Brucella abortus bv. 1 str. 9-941] gi|83269136|ref|YP_418427.1| high mobility group protein HMG-I-like protein [Brucella melitensis biovar Abortus 2308] gi|254695336|ref|ZP_05157164.1| high mobility group proteins HMG-I and HMG-Y:pseudouridine synthase, Rsu:RNA-binding S4:pseudouridine synthase [Brucella abortus bv. 3 str. Tulya] gi|254698432|ref|ZP_05160260.1| high mobility group proteins HMG-I and HMG-Y:pseudouridine synthase, Rsu:RNA-binding S4:pseudouridine synthase [Brucella abortus bv. 2 str. 86/8/59] gi|256256549|ref|ZP_05462085.1| high mobility group proteins HMG-I and HMG-Y:pseudouridine synthase, Rsu:RNA-binding S4:pseudouridine synthase [Brucella abortus bv. 9 str. C68] gi|260544386|ref|ZP_05820207.1| RNA pseudouridylate synthase [Brucella abortus NCTC 8038] gi|260756976|ref|ZP_05869324.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 6 str. 870] gi|260759650|ref|ZP_05871998.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 4 str. 292] gi|260762893|ref|ZP_05875225.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 2 str. 86/8/59] gi|260882787|ref|ZP_05894401.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 9 str. C68] gi|261215707|ref|ZP_05929988.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 3 str. Tulya] gi|62197346|gb|AAX75645.1| RNA pseudouridylate synthase family protein [Brucella abortus bv. 1 str. 9-941] gi|82939410|emb|CAJ12364.1| High mobility group proteins HMG-I and HMG-Y:Pseudouridine synthase, Rsu:RNA-binding S4:Pseudouridine synthase [Brucella melitensis biovar Abortus 2308] gi|260097657|gb|EEW81531.1| RNA pseudouridylate synthase [Brucella abortus NCTC 8038] gi|260669968|gb|EEX56908.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 4 str. 292] gi|260673314|gb|EEX60135.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 2 str. 86/8/59] gi|260677084|gb|EEX63905.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 6 str. 870] gi|260872315|gb|EEX79384.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 9 str. C68] gi|260917314|gb|EEX84175.1| RNA-binding S4 domain-containing protein [Brucella abortus bv. 3 str. Tulya] Length = 581 Score = 320 bits (821), Expect = 2e-85, Method: Composition-based stats. Identities = 171/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 418 >gi|265993341|ref|ZP_06105898.1| RNA-binding S4 domain-containing protein [Brucella melitensis bv. 3 str. Ether] gi|262764211|gb|EEZ10243.1| RNA-binding S4 domain-containing protein [Brucella melitensis bv. 3 str. Ether] Length = 581 Score = 320 bits (820), Expect = 2e-85, Method: Composition-based stats. Identities = 170/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V + +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTRQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 418 >gi|254702620|ref|ZP_05164448.1| hypothetical protein Bsuib36_01462 [Brucella suis bv. 3 str. 686] Length = 581 Score = 320 bits (820), Expect = 3e-85, Method: Composition-based stats. Identities = 171/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIATGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 418 >gi|261319705|ref|ZP_05958902.1| RNA-binding S4 domain-containing protein [Brucella ceti M644/93/1] gi|261292395|gb|EEX95891.1| RNA-binding S4 domain-containing protein [Brucella ceti M644/93/1] Length = 565 Score = 319 bits (819), Expect = 3e-85, Method: Composition-based stats. Identities = 171/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 53 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 112 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 113 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 172 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 173 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 232 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 233 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 292 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 293 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 352 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 353 REEKTEKVEPRRRSNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 402 >gi|256252964|ref|ZP_05458500.1| RNA pseudouridylate synthase family protein [Brucella ceti B1/94] gi|261220057|ref|ZP_05934338.1| RNA-binding S4 domain-containing protein [Brucella ceti B1/94] gi|265996596|ref|ZP_06109153.1| RNA-binding S4 domain-containing protein [Brucella ceti M490/95/1] gi|260918641|gb|EEX85294.1| RNA-binding S4 domain-containing protein [Brucella ceti B1/94] gi|262550893|gb|EEZ07054.1| RNA-binding S4 domain-containing protein [Brucella ceti M490/95/1] Length = 581 Score = 319 bits (819), Expect = 3e-85, Method: Composition-based stats. Identities = 170/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + RTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTARTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRTPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G+ ++ + + P +K S Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGVRPKGEKEAAKPARVEHQQPHRSAKFS 418 >gi|260568472|ref|ZP_05838941.1| RNA pseudouridylate synthase [Brucella suis bv. 4 str. 40] gi|260155137|gb|EEW90218.1| RNA pseudouridylate synthase [Brucella suis bv. 4 str. 40] Length = 581 Score = 319 bits (819), Expect = 4e-85, Method: Composition-based stats. Identities = 171/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIATGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 418 >gi|260166986|ref|ZP_05753797.1| RNA pseudouridylate synthase family protein [Brucella sp. F5/99] gi|261756373|ref|ZP_06000082.1| RNA pseudouridylate synthase [Brucella sp. F5/99] gi|261736357|gb|EEY24353.1| RNA pseudouridylate synthase [Brucella sp. F5/99] Length = 581 Score = 319 bits (819), Expect = 4e-85, Method: Composition-based stats. Identities = 170/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + RTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTARTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G+ ++ + + P +K S Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGVRPKGEKETAKPARVEHQQPHRSAKFS 418 >gi|265999201|ref|ZP_05465351.2| RNA pseudouridylate synthase [Brucella melitensis bv. 2 str. 63/9] gi|263092640|gb|EEZ16861.1| RNA pseudouridylate synthase [Brucella melitensis bv. 2 str. 63/9] gi|326410384|gb|ADZ67448.1| RNA-binding S4 domain-containing protein [Brucella melitensis M28] gi|326553677|gb|ADZ88316.1| RNA-binding S4 domain-containing protein [Brucella melitensis M5-90] Length = 581 Score = 319 bits (818), Expect = 5e-85, Method: Composition-based stats. Identities = 170/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V + +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTRQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 418 >gi|260564347|ref|ZP_05834832.1| RNA pseudouridylate synthase [Brucella melitensis bv. 1 str. 16M] gi|265989557|ref|ZP_06102114.1| RNA-binding S4 domain-containing protein [Brucella melitensis bv. 1 str. Rev.1] gi|260151990|gb|EEW87083.1| RNA pseudouridylate synthase [Brucella melitensis bv. 1 str. 16M] gi|263000226|gb|EEZ12916.1| RNA-binding S4 domain-containing protein [Brucella melitensis bv. 1 str. Rev.1] Length = 581 Score = 319 bits (817), Expect = 6e-85, Method: Composition-based stats. Identities = 170/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 69 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 128 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 129 QKERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 188 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V + +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 189 GLSRVLELPSTGWLRRYRVRAHGKVTRQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 248 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 249 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 308 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 418 >gi|306845522|ref|ZP_07478091.1| conserved hypothetical protein [Brucella sp. BO1] gi|306273843|gb|EFM55670.1| conserved hypothetical protein [Brucella sp. BO1] Length = 567 Score = 319 bits (817), Expect = 6e-85, Method: Composition-based stats. Identities = 171/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 53 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 112 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 113 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 172 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 173 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 232 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 233 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 292 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 293 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 352 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 353 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 402 >gi|306838529|ref|ZP_07471367.1| conserved hypothetical protein [Brucella sp. NF 2653] gi|306406396|gb|EFM62637.1| conserved hypothetical protein [Brucella sp. NF 2653] Length = 561 Score = 318 bits (816), Expect = 6e-85, Method: Composition-based stats. Identities = 165/343 (48%), Positives = 219/343 (63%), Gaps = 12/343 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 53 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 112 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 113 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 172 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 173 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 232 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 233 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 292 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 293 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGEPPQEGERRRAPREREWISSTGERRRG 352 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSP 339 +++K RR +NVWMA G ++ + + P Sbjct: 353 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQP 395 >gi|189022412|ref|YP_001932153.1| RNA pseudouridylate synthase family protein [Brucella abortus S19] gi|189020986|gb|ACD73707.1| RNA pseudouridylate synthase family protein [Brucella abortus S19] Length = 565 Score = 318 bits (816), Expect = 8e-85, Method: Composition-based stats. Identities = 171/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 53 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 112 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 113 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 172 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 173 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 232 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 233 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 292 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 293 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 352 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 353 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 402 >gi|261753204|ref|ZP_05996913.1| RNA-binding S4 domain-containing protein [Brucella suis bv. 3 str. 686] gi|261742957|gb|EEY30883.1| RNA-binding S4 domain-containing protein [Brucella suis bv. 3 str. 686] Length = 565 Score = 318 bits (815), Expect = 1e-84, Method: Composition-based stats. Identities = 171/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 53 EEETSERIAKRLARAGIASRREAETMIATGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 112 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 113 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 172 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 173 GLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 232 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 233 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 292 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 293 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 352 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 353 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 402 >gi|17989384|ref|NP_542017.1| tRNA pseudouridine synthase A [Brucella melitensis bv. 1 str. 16M] gi|17985257|gb|AAL54281.1| tRNA pseudouridine synthase a [Brucella melitensis bv. 1 str. 16M] Length = 565 Score = 316 bits (811), Expect = 3e-84, Method: Composition-based stats. Identities = 170/350 (48%), Positives = 222/350 (63%), Gaps = 12/350 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PLR Sbjct: 53 EEETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLR 112 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 113 QKERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTNDG 172 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V + +L+ LK GI + G+ YG ++ L+ +G+N W Sbjct: 173 GLSRVLELPSTGWLRRYRVRAHGKVTRQQLDELKNGIAVDGVFYGSVEAELERVQGANVW 232 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+QLG Sbjct: 233 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRDQLGDK 292 Query: 249 LLEEAQVNLDAPIYS--SETLVRDR----------PNIISEVPDDFTRMKKNSSQKNGLS 296 L+EE+ + DAP+ + S V+ R P R +S+ + Sbjct: 293 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 352 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 +++K RR +NVWMA G ++ + + P +K S Sbjct: 353 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAKFS 402 >gi|146278267|ref|YP_001168426.1| RNA-binding S4 domain-containing protein [Rhodobacter sphaeroides ATCC 17025] gi|145556508|gb|ABP71121.1| RNA-binding S4 domain protein [Rhodobacter sphaeroides ATCC 17025] Length = 466 Score = 315 bits (807), Expect = 8e-84, Method: Composition-based stats. Identities = 151/311 (48%), Positives = 191/311 (61%), Gaps = 8/311 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + ++ +R++KV++RAG+ASRR+ ERMI RV VNG ++ A+NV D I VDG P Sbjct: 1 MTDSTDGERIAKVLSRAGVASRRDAERMIELGRVAVNGRTIDSPALNVGPKDRITVDGQP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L + RLWLY+KP GLVT+ +D GR TVFD+LP RV+SVGRLD+N+EGLLLLTN Sbjct: 61 LAPPQPARLWLYYKPEGLVTSAADEKGRETVFDHLPEDLPRVMSVGRLDLNSEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L R LELPST WLR YRVR G L L+KGI ++G + M VTLD +G+N Sbjct: 121 DGELKRRLELPSTGWLRKYRVRVKGNPTDPDLEPLRKGITVEGERFQPMTVTLDRVQGAN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 AW+TVGLREGKNREI++ VNRLIRISYGPF+L L G EV K+LR+QLG Sbjct: 181 AWLTVGLREGKNREIRRAMSAIGLTVNRLIRISYGPFRLNELQPGMVEEVRPKVLRDQLG 240 Query: 247 PHLLEE-------AQVNLDAPIYSSETLVRDRPNIISEVPDDFTR-MKKNSSQKNGLSKQ 298 EE A+ A S + RP+ +P D R K + + G Sbjct: 241 LDPREEDGRPPKAARPPRGAGAASGRSHPGARPSGSKPLPPDEARGGSKGAPRGRGAGAA 300 Query: 299 KKLATPVHRRN 309 K A P RR+ Sbjct: 301 PKSAGPARRRD 311 >gi|239833548|ref|ZP_04681876.1| conserved hypothetical protein [Ochrobactrum intermedium LMG 3301] gi|239821611|gb|EEQ93180.1| conserved hypothetical protein [Ochrobactrum intermedium LMG 3301] Length = 562 Score = 315 bits (807), Expect = 9e-84, Method: Composition-based stats. Identities = 167/355 (47%), Positives = 224/355 (63%), Gaps = 12/355 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +N + +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VD Sbjct: 52 RNAEAQEDASERIAKRMARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVD 111 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G PL++ ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP+ RV+SVGRLDINTEGLLL Sbjct: 112 GKPLKQTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPAEMPRVLSVGRLDINTEGLLL 171 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDGGL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ L+ + Sbjct: 172 LTNDGGLSRVLELPSTGWLRRYRVRAHGKVTQQQLDELKNGIAVDGVFYGSVEAELERVQ 231 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 G+N W+++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ + LR+ Sbjct: 232 GANVWISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRTLRD 291 Query: 244 QLGPHLLEEAQVNLDAPI----YSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS--- 296 QLG L+EE+ + DAP+ ++ R R + P+ ++ ++ +S Sbjct: 292 QLGDKLIEESGADFDAPVLNEFSNAAVQGRTRREMEEGQPEQDGETRRAPREREWISSRP 351 Query: 297 -----KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 ++ K RR +NVWMA G + + + P +K S Sbjct: 352 ERRRGREDKTEKVEPRRRGNANVWMAPGARPKGEKAAAKPPRVEHQVPHRSAKFS 406 >gi|307941691|ref|ZP_07657046.1| ribosomal large subunit pseudouridine synthase B [Roseibium sp. TrichSKD4] gi|307775299|gb|EFO34505.1| ribosomal large subunit pseudouridine synthase B [Roseibium sp. TrichSKD4] Length = 380 Score = 314 bits (805), Expect = 1e-83, Method: Composition-based stats. Identities = 158/327 (48%), Positives = 200/327 (61%), Gaps = 10/327 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 F +R++KV+ARAG+ SRRE E IA RV+VNG L+ A+ V + D + VDG PL Sbjct: 13 FEGERIAKVMARAGLCSRREAETWIAAGRVEVNGKKLDTPAITVGAKDKVLVDGNPLPTR 72 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ERTRLWLYHKP GLVTT+ DP+GR TVFD LP RV++VGRLDINTEGLLLLTNDGGL Sbjct: 73 ERTRLWLYHKPRGLVTTNKDPEGRKTVFDRLPKDLPRVLTVGRLDINTEGLLLLTNDGGL 132 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ARVLELP+T WLR YRVR G+V Q L+ L G+ I G+ YG ++ +LD ++G N W+T Sbjct: 133 ARVLELPATGWLRRYRVRAFGKVTQADLDTLADGVAIDGVLYGGIEASLDKEQGDNVWLT 192 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 VGLREGKNRE+K+V E VNRLIR+S+GPFQL + G RE+ ++LR+QLG L Sbjct: 193 VGLREGKNREVKRVLEHLGLSVNRLIRLSFGPFQLQDIAEGEVREIRGRVLRDQLGDKLA 252 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 EEA + DAPI + + ++P V + P R Sbjct: 253 EEAGADFDAPILN-QPKQDEQPKKKKSVGQKGGGSEARWMSSRDGEAAVNRKKPGTR--- 308 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRR 337 KG S R++ R Sbjct: 309 ------DKGAKSYRDQQRPSRDQRPSR 329 >gi|39996504|ref|NP_952455.1| ribosomal large subunit pseudouridine synthase B [Geobacter sulfurreducens PCA] gi|39983385|gb|AAR34778.1| ribosomal large subunit pseudouridine synthase B [Geobacter sulfurreducens PCA] gi|298505521|gb|ADI84244.1| 23S rRNA pseudouridine 2605 synthase [Geobacter sulfurreducens KN400] Length = 247 Score = 314 bits (804), Expect = 2e-83, Method: Composition-based stats. Identities = 88/234 (37%), Positives = 132/234 (56%), Gaps = 1/234 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++++AG+ASRRE ER I + RV VNG ++ D I VDG P+R AE+ Sbjct: 3 ERLQKLLSQAGVASRREAERFITEGRVAVNGTVVTELGSKADPERDRITVDGQPVRPAEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP+G +TT DP+GR V D L + RV VGRLD NTEGLLLLTNDG A Sbjct: 63 KVYLILNKPVGYMTTLRDPEGRPIVTDLLKGLDVRVFPVGRLDYNTEGLLLLTNDGAWAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y VR G V ++++ L G+ + +V + +Q +N W+++ Sbjct: 123 RLAHPRHEVDKEYLVRVRGAVAKEQIRRLATGVELDDGPTAPAKVEVSSQSDNNTWLSIV 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EG+ R+++++ E + V RL R+ YG LG L G R +S + G Sbjct: 183 IHEGRYRQVRRMCEAVSLSVVRLRRVRYGAVSLGDLKPGEYRPLSPTEVAALAG 236 >gi|27262400|gb|AAN87481.1| Ribosomal large subunit pseudouridine synthase B [Heliobacillus mobilis] Length = 253 Score = 312 bits (801), Expect = 4e-83, Method: Composition-based stats. Identities = 86/234 (36%), Positives = 132/234 (56%), Gaps = 1/234 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 T +R+ KV+A G+ASRRE E I RV+VNG ++ + V D I+VDG PL Sbjct: 9 TAERLQKVLAAHGLASRREAEDWIRAGRVQVNGTVVTELGLRVEEGKDVIQVDGKPLTVR 68 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ER + +L +KP G VTT DP+GR TV D L + +R+ VGRLD +TEGLLLLTNDG L Sbjct: 69 ERHQYFLLYKPRGFVTTRKDPEGRPTVIDLLKDVPARIYPVGRLDQDTEGLLLLTNDGEL 128 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y R G V + +G++++ +V + ++G W+ Sbjct: 129 AYRLTHPKYGVEKTYHARMRGNVPDPVIKAFAEGVMLEDGLTAPAKVKVLDREGGATWIE 188 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+++++ + + V L R+S+GP + L G+ R + + +R Sbjct: 189 LTIHEGRNRQVRRMGDAVGYPVVHLTRVSFGPLTISGLKPGAYRPLKPQEVRAL 242 >gi|83313225|ref|YP_423489.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Magnetospirillum magneticum AMB-1] gi|82948066|dbj|BAE52930.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Magnetospirillum magneticum AMB-1] Length = 348 Score = 312 bits (800), Expect = 6e-83, Method: Composition-based stats. Identities = 153/306 (50%), Positives = 197/306 (64%), Gaps = 4/306 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 Q +R++K +ARAG+ SRRE ER I RV VNG L A V D + VDG+PL Sbjct: 46 QTKSEGERIAKRLARAGLCSRREAERWIEDGRVTVNGHRLSSPACVVGPGDIVIVDGIPL 105 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + E+TRLW YHKP GLVTTH DP+GR TVFD+LP RVISVGRLD+N+EGLLLLTND Sbjct: 106 SEPEKTRLWRYHKPAGLVTTHKDPEGRPTVFDHLPEGMPRVISVGRLDLNSEGLLLLTND 165 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LAR LELPS WLR YRVR HG+V +D L L+ GI I G+ YG + TLD ++G+NA Sbjct: 166 GELARKLELPSNAWLRRYRVRVHGEVSEDALARLENGITIDGMAYGPISATLDRRQGANA 225 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W++V LREGKNREI++V E+ W V+RLIR+SYGPFQLGTL G+ EV+ K+LREQ+G Sbjct: 226 WLSVSLREGKNREIRRVMEYLGWPVSRLIRVSYGPFQLGTLEEGAADEVAGKVLREQMGE 285 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS-KQKKLATPVH 306 +A + A S+ +++ K+ +S K + ++ P Sbjct: 286 ---GKAVLKPKAETKSAGEREKEQRVAAKARKQKLAEDKRAASAKKDKPYEARQAGKPDA 342 Query: 307 RRNLAS 312 R +S Sbjct: 343 HRRRSS 348 >gi|170744111|ref|YP_001772766.1| RNA-binding S4 domain-containing protein [Methylobacterium sp. 4-46] gi|168198385|gb|ACA20332.1| RNA-binding S4 domain protein [Methylobacterium sp. 4-46] Length = 609 Score = 312 bits (800), Expect = 6e-83, Method: Composition-based stats. Identities = 153/350 (43%), Positives = 198/350 (56%), Gaps = 18/350 (5%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + E P+R++KV+ARAG+ASRR+ E MI + RV +NG L AV V D I Sbjct: 28 PARPAPSETAEPERIAKVMARAGVASRRDAEAMILEGRVSLNGETLTTPAVTVGPGDRIV 87 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VDG PL ERTRLW++HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGL Sbjct: 88 VDGEPLPVRERTRLWIFHKPRGVVTTARDPEGRQTVFDILPEDLPRVVAIGRLDINTEGL 147 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDGGLA+V+ P T WLR YRVR +G VDQ L+ L+ G+ I G+ YG ++ ++D Sbjct: 148 LLLTNDGGLAKVIAHPETGWLRRYRVRAYGDVDQAALDRLRGGVTIDGMEYGPVEASIDR 207 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 Q+G N W+T+GLREGKNRE+K++ E VNRLIR+S+GPFQLG L G EV K+L Sbjct: 208 QQGDNVWLTLGLREGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEVRTKVL 267 Query: 242 REQLGPHLLEEAQVNLDAPIY---------------SSETLVRDRPNIISEVPDDFTRMK 286 +EQLG L E+A V+ +P+ + T R E PD R Sbjct: 268 KEQLGRSLAEQAGVDFTSPVREPIAPFGSPKPPAPAAGRTGAPGRDRPRGERPDRSARPD 327 Query: 287 KNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHR 336 + G + P + A G R Sbjct: 328 RGERLDRGERPARPGRDPARPQFARPP---APGARPERDRKPATGPALRR 374 >gi|153010359|ref|YP_001371573.1| RNA-binding S4 domain-containing protein [Ochrobactrum anthropi ATCC 49188] gi|151562247|gb|ABS15744.1| RNA-binding S4 domain protein [Ochrobactrum anthropi ATCC 49188] Length = 576 Score = 311 bits (798), Expect = 8e-83, Method: Composition-based stats. Identities = 169/354 (47%), Positives = 228/354 (64%), Gaps = 11/354 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 ++ + T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VD Sbjct: 48 RDAEGQEDTGERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVD 107 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G PL++ ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP+ RV+SVGRLDINTEGLLL Sbjct: 108 GKPLKQTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPAEMPRVLSVGRLDINTEGLLL 167 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDGGL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ TL+ ++ Sbjct: 168 LTNDGGLSRVLELPSTGWLRRYRVRAHGKVTQVQLDELKNGIAVDGVFYGSIEATLEREQ 227 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 G+N W+++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ +ILR+ Sbjct: 228 GANVWISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRILRD 287 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK-----------NSSQK 292 QLG L+E++ + DAP+ + + + +V D+ ++ +S Q+ Sbjct: 288 QLGDKLIEDSGADFDAPVLNEFSNAAVQGRTRRDVEDEGEEGERRRGPREREWISSSPQR 347 Query: 293 NGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 K RR +NVWMA G + + + R+ P +K S Sbjct: 348 RRGRDDKGAEKVEPRRRGNANVWMAPGARPKGENAAAKPARVERQVPHRSAKFS 401 >gi|220929165|ref|YP_002506074.1| pseudouridine synthase [Clostridium cellulolyticum H10] gi|219999493|gb|ACL76094.1| pseudouridine synthase [Clostridium cellulolyticum H10] Length = 235 Score = 311 bits (797), Expect = 1e-82, Method: Composition-based stats. Identities = 82/232 (35%), Positives = 121/232 (52%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ K IA AG+ASRR E MI Q RV VN +++ V + D + VDG P++ Sbjct: 1 MLGIRLQKFIAHAGVASRRTAEEMIKQGRVAVNNTVVQDMGFTVSNDDFVTVDGKPVKIE 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E + HKP+G V+T D GR TV D + R+ VGRLD +T GL+LLTNDG Sbjct: 61 EEKVYIMLHKPVGYVSTSQDQFGRPTVVDLVKDAGKRLYPVGRLDYDTSGLILLTNDGDF 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + +VY G +++++ + G+ I+ + + ++G N V Sbjct: 121 TYRLTHPKHEINKVYEAVISGFPEKNEIKSFESGLKIENYQTSPAEFVVLEKQGINTLVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EGKNR+++K+ E KV L RI GP L L G R +S + L+ Sbjct: 181 ITIHEGKNRQVRKMCEAIGHKVLTLKRIQIGPIALDNLPVGKWRHLSLRELK 232 >gi|326202112|ref|ZP_08191982.1| pseudouridine synthase [Clostridium papyrosolvens DSM 2782] gi|325987907|gb|EGD48733.1| pseudouridine synthase [Clostridium papyrosolvens DSM 2782] Length = 235 Score = 310 bits (796), Expect = 2e-82, Method: Composition-based stats. Identities = 81/232 (34%), Positives = 119/232 (51%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R+ K +A AG+ASRR+ E MI Q RV VN +++E V D + VDG P+ Sbjct: 1 MSEIRLQKYLAHAGVASRRKAEEMIKQGRVAVNNVIIENMGATVTCNDVVTVDGKPVTTE 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E + +KP+G V+T D GR V D + R+ VGRLD +T GL+LLTNDG Sbjct: 61 EAKVYIMLNKPVGYVSTSKDQFGRPAVIDLVKDAGKRLYPVGRLDYDTSGLILLTNDGDF 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + +VY G D++++ + G+ I + + +KG N V Sbjct: 121 TYRLTHPKHEVNKVYEAVISGFPDKNEITRFETGLKIDDYQTSPAEFEVLNKKGINTLVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EGKNR+++K+ E KV L RI GP L L G R +S ++ Sbjct: 181 ITIHEGKNRQVRKMCEAIGHKVLTLKRIQIGPIALENLPEGKWRHLSDNEVK 232 >gi|170746519|ref|YP_001752779.1| RNA-binding S4 domain-containing protein [Methylobacterium radiotolerans JCM 2831] gi|170653041|gb|ACB22096.1| RNA-binding S4 domain protein [Methylobacterium radiotolerans JCM 2831] Length = 601 Score = 310 bits (795), Expect = 2e-82, Method: Composition-based stats. Identities = 148/347 (42%), Positives = 203/347 (58%), Gaps = 2/347 (0%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 D + E +R++K +ARAGIASRR+ E MI RV VNG L A NV D I + Sbjct: 75 DTEGLIETPPGERIAKAMARAGIASRRDAETMIVAGRVSVNGETLTSPARNVTENDRILI 134 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG P+ ER+RLW++HKP G+VTT DP+GR TVFD LP RV++VGRLDINTEGLL Sbjct: 135 DGEPMPSRERSRLWIFHKPRGVVTTARDPEGRQTVFDVLPEDLPRVVAVGRLDINTEGLL 194 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTNDGGLA+V+ P T WLR YRVR HG DQ +L+ L KG+ I G+ YG ++ TLD Sbjct: 195 LLTNDGGLAKVIAHPDTGWLRRYRVRAHGDTDQAQLDRLAKGVTIDGMEYGPVEATLDRV 254 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G N W+T+GLREGKNRE+K++ E VNRLIR+S+GPFQLG L G EV ++L+ Sbjct: 255 QGDNVWLTLGLREGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEVRTRVLK 314 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 +QLG L E+A V+ D+P+ + + ++ + + + Sbjct: 315 DQLGKSLAEQAGVDFDSPVREPIAPFGGTRPADRDAKSAQPAPARRNAARPAPAPRVSTG 374 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 S+ W + + +R + R + + ++R R Sbjct: 375 GAGP--GPRSSTWRDEDAAKPRGTRVPRRGADPRTAQAAAAERGRER 419 >gi|222147689|ref|YP_002548646.1| ribosomal large subunit pseudouridine synthase B [Agrobacterium vitis S4] gi|221734677|gb|ACM35640.1| ribosomal large subunit pseudouridine synthase B [Agrobacterium vitis S4] Length = 704 Score = 310 bits (794), Expect = 3e-82, Method: Composition-based stats. Identities = 176/406 (43%), Positives = 224/406 (55%), Gaps = 57/406 (14%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ P+R+SK++ARAGIASRR+VERMI + RV VNG +L+ +N D IEVD Sbjct: 73 KTGSEDTLKPERISKLLARAGIASRRDVERMIMEGRVAVNGKVLDSPVLNATLADRIEVD 132 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G P+R ERTRLWLYHKP GLVTT+SDP+GR TVFDNLP RV+S+GRLDINTEGLLL Sbjct: 133 GEPIRGIERTRLWLYHKPSGLVTTNSDPEGRPTVFDNLPEELPRVMSIGRLDINTEGLLL 192 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDGGLARVLELP+T WLR YRVR +G++DQ KL+ LK GI + G+ YG + LD + Sbjct: 193 LTNDGGLARVLELPTTGWLRRYRVRAYGEIDQAKLDTLKDGIAVDGVLYGAIDAVLDRSQ 252 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 G N W+T+GLREGKNREIK V +VNRLIRISYGPFQLG L +EV ++LR+ Sbjct: 253 GHNVWITMGLREGKNREIKNVLGALGLEVNRLIRISYGPFQLGDLPESQVQEVRGRMLRD 312 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT---RMKKNSSQKNGLSKQKK 300 QLGP L+EE++ N DAP+YS+ + + ++ G ++ Sbjct: 313 QLGPRLIEESKANFDAPLYSNAPAEEEDAPAPKAKAKAEEGNWKKDTRPAKPRGFDNRED 372 Query: 301 LATPVHRR--------------------------------------------------NL 310 R + Sbjct: 373 AREKALSRLDTRRDGAKPAFGSKPGFGGKPGFKGKPAAGRDGDDAARDGKPKRMPLGQSR 432 Query: 311 ASNVWMAKGIHS----SFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 +NVWMA G SD ++ R P + RT Sbjct: 433 TANVWMAPGARPVSEKKTASDEARKSGPRARPDGAPQTKRYGRTKD 478 >gi|323703049|ref|ZP_08114704.1| pseudouridine synthase [Desulfotomaculum nigrificans DSM 574] gi|323531943|gb|EGB21827.1| pseudouridine synthase [Desulfotomaculum nigrificans DSM 574] Length = 238 Score = 309 bits (793), Expect = 4e-82, Method: Composition-based stats. Identities = 89/232 (38%), Positives = 128/232 (55%), Gaps = 1/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ KV+ARAGIASRR E +I +VKVNG + V + D IEV+G P+ ++ Sbjct: 3 ERLQKVLARAGIASRRRCEELIVAGKVKVNGKAVTALGTKVDAAKDKIEVNGQPVTASQP 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G VTT D GR TV D L I RV VGRLD ++EGLLLLTNDG L Sbjct: 63 KVYFMLNKPRGYVTTLHDERGRKTVIDLLEGIEQRVYPVGRLDYDSEGLLLLTNDGELTN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y VR G + KL + +G+V+ QV L + + A + + Sbjct: 123 ALTHPKHKVPKTYLVRVEGVPEPAKLKAMARGLVLADGPTAPAQVRLAGVRDNRALLEIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++ E V RL RI GP L L G R +++ L++ Sbjct: 183 IHEGRNRQVRRMCEHIGHPVLRLKRIRVGPLVLEGLKPGQFRPLTEVELKKL 234 >gi|15888032|ref|NP_353713.1| ribosomal large subunit pseudouridine synthase B [Agrobacterium tumefaciens str. C58] gi|15155650|gb|AAK86498.1| ribosomal large subunit pseudouridine synthase B [Agrobacterium tumefaciens str. C58] Length = 669 Score = 309 bits (792), Expect = 5e-82, Method: Composition-based stats. Identities = 183/386 (47%), Positives = 235/386 (60%), Gaps = 46/386 (11%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+SK++ARAG+ASRR+VERMI + RV +NG+LL+ VN +D IEVDG+P+R AER Sbjct: 56 PERISKIMARAGVASRRDVERMIMEGRVSLNGVLLDTPVVNATLSDKIEVDGMPIRGAER 115 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TRLWLYHKP GLVTT+SDP+GR TVFDNLP RV+S+GRLDINTEGLLLLTNDGGL+R Sbjct: 116 TRLWLYHKPAGLVTTNSDPEGRPTVFDNLPGELPRVLSIGRLDINTEGLLLLTNDGGLSR 175 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 VLELP+T WLR YRVR HG+VDQ L+ LK GI + G+ YG + TLD +G N W+T+G Sbjct: 176 VLELPTTGWLRRYRVRAHGEVDQAALDKLKDGIAVDGVLYGAIDATLDRTQGHNVWITMG 235 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 LREGKNREIK V +VNRLIRISYGPFQLG L G EV ++LR+QLGP L+EE Sbjct: 236 LREGKNREIKNVLGALGLEVNRLIRISYGPFQLGDLPEGKVLEVRGRMLRDQLGPRLIEE 295 Query: 253 AQVNLDAPIYSS-----ETLVRDRPN---IISEVPDDFTRMKKNSSQKNGLSKQ------ 298 A N DAPIY++ E R S+ P+ R +K + + ++ Sbjct: 296 AGANFDAPIYNTSVDDEEEAPAKRAKSEWAKSDAPEGKPRFEKAAGKPEDRREKALGRLD 355 Query: 299 ------------------------------KKLATPVHRRNLASNVWMAKGIHSSFLSDS 328 + P + +NVWMA G + D Sbjct: 356 TKRSDKPAGKFGAKPAGKFGGKGRNDDEGDDRRPRPPAGTSRTANVWMAPGAKPTR--DG 413 Query: 329 GQREENHRRSPSFPSKRSLRRTSAKK 354 +R+ + R K+ + A++ Sbjct: 414 KERKSSARAEAESLFKKPSAQDEARR 439 >gi|325292073|ref|YP_004277937.1| ribosomal large subunit pseudouridine synthase B [Agrobacterium sp. H13-3] gi|325059926|gb|ADY63617.1| ribosomal large subunit pseudouridine synthase B [Agrobacterium sp. H13-3] Length = 658 Score = 309 bits (791), Expect = 5e-82, Method: Composition-based stats. Identities = 179/389 (46%), Positives = 234/389 (60%), Gaps = 49/389 (12%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+SK++ARAG+ASRR++ERMI + RV +NG+ L+ +N +D IEVDG+P+R AER Sbjct: 52 PERISKIMARAGVASRRDIERMIMEGRVSLNGVKLDTPVMNATLSDKIEVDGMPIRGAER 111 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TRLWLYHKP GLVTT+SDP+GR TVFDNLP RV+S+GRLDINTEGLLLLTNDGGL+R Sbjct: 112 TRLWLYHKPAGLVTTNSDPEGRPTVFDNLPGELPRVLSIGRLDINTEGLLLLTNDGGLSR 171 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 VLELP+T WLR YRVR HG+VDQ L+ LK+GI + G+ YG + TLD +G N W+T+G Sbjct: 172 VLELPTTGWLRRYRVRAHGEVDQAALDKLKEGIAVDGVLYGAIDATLDRTQGHNVWITMG 231 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 LREGKNREIK V +VNRLIRISYGPFQLG L G EV ++LR+QLGP L+E+ Sbjct: 232 LREGKNREIKNVLGALGLEVNRLIRISYGPFQLGDLPEGKVLEVRGRMLRDQLGPRLIEQ 291 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPD-------------------------------- 280 + N DAPIY + + N P Sbjct: 292 SGANFDAPIYDAPVADDEEENTPKRAPRSEWAKSDAPEGKPRFDRAAGKPEDRREKALGR 351 Query: 281 -DFTRMKKNSSQKNGLS--------------KQKKLATPVHRRNLASNVWMAKGIHSSFL 325 D R K + + G ++++ A P + +NVWMA G + Sbjct: 352 LDTKRGDKPAGKFGGKPAGKFGAKTRGEEDGEERRPARPPAGTSRTANVWMAPGAKPTR- 410 Query: 326 SDSGQREENHRRSPSFPSKRSLRRTSAKK 354 D +R+ + R K+ + A++ Sbjct: 411 -DGKERKFSARAEAESLFKKPSAQAEARR 438 >gi|118580486|ref|YP_901736.1| pseudouridine synthase [Pelobacter propionicus DSM 2379] gi|118503196|gb|ABK99678.1| ribosomal large subunit pseudouridine synthase B [Pelobacter propionicus DSM 2379] Length = 271 Score = 309 bits (791), Expect = 6e-82, Method: Composition-based stats. Identities = 98/259 (37%), Positives = 142/259 (54%), Gaps = 2/259 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K+I++AGIASRR E MI RV VNG+++ T D I VDG P++ A + Sbjct: 3 ERLQKLISQAGIASRRAAEEMILAGRVTVNGLVVTELGSKADPTVDSIAVDGRPVKPASQ 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G +TT DP+GR V D LP I RV VGRLD NTEGLLLLTNDG A Sbjct: 63 HLYILLNKPAGFMTTLDDPEGRQVVTDLLPEIKERVYPVGRLDYNTEGLLLLTNDGDWAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y VR G+V Q +++ LK G+ + G QV L N W+++ Sbjct: 123 KLMHPRHEIEKEYHVRVRGKVHQSQIDQLKNGVDLDGRPTAPAQVRLIKDGEQNDWLSIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP-HLLE 251 + EG+NR+++++ E + V RL R+ YG ++ L G R +++ R L P L Sbjct: 183 IHEGRNRQVRRMCEAVSLSVVRLKRVRYGALEMRGLKPGQHRLLTEAEARALLTPGAGLR 242 Query: 252 EAQVNLDAPIYSSETLVRD 270 A+ + ++ R+ Sbjct: 243 SAEAPREKRARNAGQPPRE 261 >gi|86356481|ref|YP_468373.1| pseudouridylate synthase, subunit B protein [Rhizobium etli CFN 42] gi|86280583|gb|ABC89646.1| pseudouridylate synthase, subunit B protein [Rhizobium etli CFN 42] Length = 628 Score = 308 bits (789), Expect = 1e-81, Method: Composition-based stats. Identities = 176/341 (51%), Positives = 219/341 (64%), Gaps = 30/341 (8%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+SKV+ARAG+ASRR++ERMI + RV +NG +L+ VNV D IEVDGVP+R Sbjct: 48 EAKAERISKVMARAGVASRRDIERMIMEGRVTLNGKVLDTPVVNVTLADRIEVDGVPIRG 107 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ERTRLWLYHKP GLVTT++DP+GR TVFDNLP RV+S+GRLDINTEGLLLLTNDGG Sbjct: 108 IERTRLWLYHKPAGLVTTNADPEGRPTVFDNLPEELPRVMSIGRLDINTEGLLLLTNDGG 167 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LAR LELP+T WLR YRVR HG++DQ+ L+ LK GI + G+ YG ++ TLD +GSN W+ Sbjct: 168 LARALELPATGWLRRYRVRAHGEIDQEALDKLKDGIAVDGVLYGSIEATLDRTQGSNVWI 227 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 T+GLREGKNREIK V VNRLIRISYGPFQLG L G EV + LR+QLGP L Sbjct: 228 TMGLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGDLPEGHVVEVRGRTLRDQLGPRL 287 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS------------- 296 +EEA+ N DAPIY++ + + + + ++ LS Sbjct: 288 IEEAKANFDAPIYNAPAVAAEEETEAAAPEKRERPRRDEDKRERALSRLDTKRDDRRGAG 347 Query: 297 ---------------KQKKLATPVHRRNLASNVWMAKGIHS 322 K K+ P RR+ +NVWMA G Sbjct: 348 RRDDDRRDGGRKDDDKPKRSQPPGQRRS--ANVWMAPGARP 386 >gi|222056371|ref|YP_002538733.1| pseudouridine synthase [Geobacter sp. FRC-32] gi|221565660|gb|ACM21632.1| pseudouridine synthase [Geobacter sp. FRC-32] Length = 240 Score = 307 bits (787), Expect = 2e-81, Method: Composition-based stats. Identities = 91/232 (39%), Positives = 133/232 (57%), Gaps = 1/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K++++AGIASRRE E++I RV VNG ++ +D I +DG P+R+ R Sbjct: 3 ERLQKILSQAGIASRREAEKIITAGRVAVNGQVVTELGSKADAESDRITLDGKPIRQESR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R L +KP+G +TT DP+GR V D L + RV VGRLD NTEGLLLLTNDG LA Sbjct: 63 KRYLLLYKPVGYMTTMKDPEGRPIVTDLLKDVKERVYPVGRLDYNTEGLLLLTNDGALAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y VR GQ +L L+ G+ ++ QV+L + N W+++ Sbjct: 123 RLAHPSHEVDKGYLVRIRGQASPSQLKHLQMGVDLEDGMTAPAQVSLVRESDHNCWISIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+ R+++++ E V RL R YG ++G L G RE+S + Sbjct: 183 IHEGRYRQVRRMCEAVGLTVVRLKRSRYGFLEIGELKPGQYRELSSTEVERL 234 >gi|163745924|ref|ZP_02153283.1| RNA pseudouridylate synthase family protein, putative [Oceanibulbus indolifex HEL-45] gi|161380669|gb|EDQ05079.1| RNA pseudouridylate synthase family protein, putative [Oceanibulbus indolifex HEL-45] Length = 354 Score = 307 bits (787), Expect = 2e-81, Method: Composition-based stats. Identities = 138/326 (42%), Positives = 183/326 (56%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV++RAG+ASRRE ERMI RV+VNG ++ A+NV D I VD P+ E R Sbjct: 26 RIAKVLSRAGVASRREAERMIEAGRVRVNGEQIDSPALNVTPEDKITVDNTPVGAPEPPR 85 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +WLYHKP GLVTT D GR T+FD+LP RV+++GRLD+N+EGLLLLTNDGG+ R L Sbjct: 86 MWLYHKPAGLVTTARDEKGRETIFDDLPEDMPRVMTIGRLDLNSEGLLLLTNDGGVKRKL 145 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YR R +G+ + L L++GI ++G + M VTLD Q+G+NAW+T+GLR Sbjct: 146 ELPSTGWLRRYRARVNGRPTDEMLEPLRRGITVEGENFLPMDVTLDRQQGANAWLTIGLR 205 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EG+NREI++ E VNRLIR SYGPFQLG L G E+ +KI+R+QLG L + Sbjct: 206 EGRNREIRRAMEAVGLTVNRLIRTSYGPFQLGELKTGEVEELRRKIVRDQLGLELEDPTG 265 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNV 314 + P R + + K + A Sbjct: 266 TAVKKPTAVRRPPRRKPGGFGGAGQPGMPVQRGEDDEPPPRRGGGKAKNAPRGKAAAGRT 325 Query: 315 WMAKGIHSSFLSDSGQREENHRRSPS 340 G + + R P Sbjct: 326 ADKPGARPGSRTGGKPAGKPGSRGPK 351 >gi|222085015|ref|YP_002543544.1| pseudouridylate synthase [Agrobacterium radiobacter K84] gi|221722463|gb|ACM25619.1| pseudouridylate synthase [Agrobacterium radiobacter K84] Length = 680 Score = 307 bits (786), Expect = 2e-81, Method: Composition-based stats. Identities = 177/370 (47%), Positives = 228/370 (61%), Gaps = 31/370 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+SKV+ARAG+ASRR++ERMI RV++NG+LL+ VNV D IEVDG+P+R ERT Sbjct: 52 ERISKVMARAGVASRRDIERMIMDGRVRLNGVLLDSPVVNVTLADKIEVDGMPIRGIERT 111 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLYHKP GLVTT++DP+GR TVFDNLP RV+S+GRLDINTEGLLLLTNDGGLARV Sbjct: 112 RLWLYHKPAGLVTTNADPEGRPTVFDNLPEELPRVMSIGRLDINTEGLLLLTNDGGLARV 171 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T WLR YRVR HG++DQD L+ LK+GI + G+ YG ++ TLD +GSN W+T+GL Sbjct: 172 LELPTTGWLRRYRVRAHGEIDQDALDKLKEGIAVDGVLYGSIEATLDRTQGSNVWITMGL 231 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNREIK V +VNRLIRISYGPFQLG L G EV + LR+QLGP L+E+A Sbjct: 232 REGKNREIKNVLGALGLEVNRLIRISYGPFQLGDLPEGRVLEVRGRTLRDQLGPRLVEDA 291 Query: 254 QVNLDAPIYSSETLV--------------------------RDRPNIISEVPDDFTRMKK 287 + N DAP+Y++ R + + + Sbjct: 292 KANFDAPLYNASAPAGEDEAEAKPERAAKEERPRRDRERPEDKRERALGRLDTKRDDRRD 351 Query: 288 NSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRS-----PSFP 342 ++ G + + P +NVWMA G + + +N R + P P Sbjct: 352 EGRREGGHKEDDRPKRPPLGARRNANVWMAPGARPLGEKAAAKAAKNTRTAAKRGEPERP 411 Query: 343 SKRSLRRTSA 352 + R Sbjct: 412 QRSGFDRPDE 421 >gi|302036776|ref|YP_003797098.1| 23S rRNA pseudouridylate synthase B [Candidatus Nitrospira defluvii] gi|190343191|gb|ACE75579.1| ribosomal large subunit pseudouridine synthase B [Candidatus Nitrospira defluvii] gi|300604840|emb|CBK41172.1| 23S rRNA pseudouridylate synthase B (modular protein) [Candidatus Nitrospira defluvii] Length = 420 Score = 306 bits (785), Expect = 3e-81, Method: Composition-based stats. Identities = 98/347 (28%), Positives = 165/347 (47%), Gaps = 11/347 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K+IA G+ASRR+ E +I RV +NG +++ V DH++VDG LR A+ Sbjct: 4 RLQKLIAGTGLASRRKAEELITSGRVTINGSVVKELGTKVDPARDHVKVDGKHLRAAQPY 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP +++T DP+GR TV D L + RV VGRLD ++EGL+LLTN G LA+ Sbjct: 64 VYLILNKPKNVMSTLDDPEGRPTVKDLLHGVTVRVFPVGRLDFDSEGLMLLTNHGDLAQA 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y ++ G +D K+ L++G+ ++ +V ++ SN+W+ V + Sbjct: 124 LLHPRYHVPKTYLIKVKGVLDDAKIEALERGVKLEDGFTAPAKVKKVSRAESNSWLEVTI 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI---LREQLGPHLL 250 EG+ ++K++ E V +L+R+ GP LG L R ++ + LRE + + Sbjct: 184 HEGRKHQVKRMVEAVGHSVIKLVRVRMGPLLLGDLAPREYRFLTDREANRLRELVEDRVA 243 Query: 251 EEAQVNLDAPIYSSE-TLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 + LDA + + P+ R K+ + G Q+ LA R+ Sbjct: 244 RAERPELDASGKPTRWMPPTEPAPPRPPKPERSGRGPKSQRSERGPRSQRSLAGSKPSRS 303 Query: 310 LASNVW--MAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 N M+ G + +R+ + P + R + Sbjct: 304 GRGNTRRPMSPGAK----FRRPAKGVGFQRTQAGPIPQGADRGPGSR 346 >gi|159045330|ref|YP_001534124.1| RNA pseudouridine synthase [Dinoroseobacter shibae DFL 12] gi|157913090|gb|ABV94523.1| RNA pseudouridine synthase [Dinoroseobacter shibae DFL 12] Length = 322 Score = 306 bits (784), Expect = 3e-81, Method: Composition-based stats. Identities = 147/333 (44%), Positives = 190/333 (57%), Gaps = 16/333 (4%) Query: 7 VQENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + +N TP R++KV+ARAGIASRRE ER+IA+ RV VNG ++ A+NV D I DG Sbjct: 1 MADNTTPPGDRIAKVLARAGIASRREAERLIAEGRVAVNGKTVDSPALNVTEADKITFDG 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P+ + E RLW YHKP+GLVTT D GR TVFD LP+ RV+SVGRLD+N+EGLLLL Sbjct: 61 TPIAEPEPPRLWRYHKPVGLVTTAKDEKGRETVFDALPADLPRVMSVGRLDLNSEGLLLL 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG + R LELP+T WLR YRVR G +D L L+ GI ++G + M+ LD +G Sbjct: 121 TNDGEIKRRLELPTTGWLRRYRVRVKGAPTEDDLAPLRAGIEVEGERFKPMEARLDRLQG 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +NAW+T+GLREG+NREI++ VNRLIRISYGPF+LG L G E+ +ILREQ Sbjct: 181 ANAWLTLGLREGRNREIRRAMGALGLVVNRLIRISYGPFRLGELKPGEVEEIKGRILREQ 240 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 LG E P+ +++ + P K S N K P Sbjct: 241 LGLESPEP-------PVGTAQARPKRGPGRKPGATPGGKPTGKPSRAPNARPGAKPGGKP 293 Query: 305 VHRRNLASNVWMAKGIH-SSFLSDSGQREENHR 336 + + G S + R R Sbjct: 294 GAKPDPK------PGARAGSARRKAPARPRPER 320 >gi|254502639|ref|ZP_05114790.1| conserved hypothetical protein, putative [Labrenzia alexandrii DFL-11] gi|222438710|gb|EEE45389.1| conserved hypothetical protein, putative [Labrenzia alexandrii DFL-11] Length = 498 Score = 306 bits (784), Expect = 4e-81, Method: Composition-based stats. Identities = 169/359 (47%), Positives = 215/359 (59%), Gaps = 24/359 (6%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + + + +R++KV+ARAG+ SRRE E + RV+VNG +L AV V S D + VDG Sbjct: 51 TIPDTASGERIAKVMARAGLCSRREAETWVMDGRVEVNGKVLTTPAVTVTSNDKVLVDGE 110 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL ERTRLWLYHKP GLVTT+ DP+GR TVFD LP RV++VGRLDINTEGLLLLT Sbjct: 111 PLPMRERTRLWLYHKPRGLVTTNKDPEGRPTVFDRLPDDLPRVLTVGRLDINTEGLLLLT 170 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDGGLARVLELP+T WLR YRVR G++ Q +L+ L G+ I G+ YG ++ TLD ++G Sbjct: 171 NDGGLARVLELPATGWLRRYRVRAFGKITQAELDTLNDGVAIDGVLYGAIEATLDKEQGG 230 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 N W+TVGLREGKNRE+K+V E VNRLIR+SYGPFQL L G RE+ ++LR+QL Sbjct: 231 NVWMTVGLREGKNREVKRVLEHLGMSVNRLIRLSYGPFQLMDLAEGDVREIRGRVLRDQL 290 Query: 246 GPHLLEEAQVNLDAPIYS--SETLVRDRPNIISEVPD-----------------DFTRMK 286 G L EEA + DAPI+ + + RP D T K Sbjct: 291 GDALAEEAGADFDAPIFHMPKQEEEKKRPGPRGGSRDSSSEKGQGKWLTAREGKSATDRK 350 Query: 287 KNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 K + +G KQ K RR S S+ R++ + PS P +R Sbjct: 351 KAARSDDGGPKQGKRRNEGPRREKVS-----PRSKFRMTSEPRFRKDYNEERPSPPQRR 404 >gi|303242311|ref|ZP_07328797.1| pseudouridine synthase [Acetivibrio cellulolyticus CD2] gi|302590150|gb|EFL59912.1| pseudouridine synthase [Acetivibrio cellulolyticus CD2] Length = 237 Score = 305 bits (783), Expect = 5e-81, Method: Composition-based stats. Identities = 80/231 (34%), Positives = 122/231 (52%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ K IA G+ASRR+ E +I Q VKVNGI++ + V S+D +EV+G ++ Sbjct: 1 MEMTRLQKYIADCGVASRRKAEELIQQGSVKVNGIVVSEMGIKVSSSDRVEVNGSVIKPE 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP G VTT D R TV D L + RV VGRLD T GLL+LTNDG Sbjct: 61 SKKVYILLNKPSGYVTTVKDQFRRPTVIDLLKGVDERVFPVGRLDYETTGLLVLTNDGDF 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + + Y+ G +D+++ + G+ I+ ++ + + K + Sbjct: 121 THKMTHPRHEIEKTYQATIAGTPTKDEIHSFESGLEIEDYVTSPAKLKIISTKERTCVIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + EG+NR+++K+ E V L RIS G LG L GS RE+++ + Sbjct: 181 VTIHEGRNRQVRKMCEAIGHPVLALKRISLGKVTLGNLPEGSWRELTRDEV 231 >gi|220926361|ref|YP_002501663.1| RNA-binding S4 domain-containing protein [Methylobacterium nodulans ORS 2060] gi|219950968|gb|ACL61360.1| RNA-binding S4 domain protein [Methylobacterium nodulans ORS 2060] Length = 576 Score = 305 bits (783), Expect = 5e-81, Method: Composition-based stats. Identities = 153/339 (45%), Positives = 202/339 (59%), Gaps = 12/339 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KVIARAGIASRR+ E MI + RV +NG L AVNV D I VDG PL ERTR Sbjct: 36 RIAKVIARAGIASRRDAEAMILEGRVTLNGETLTSPAVNVGPNDRITVDGEPLPVRERTR 95 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW++HKP G+VTT DP+GR TVF+ LP RV++VGRLDINTEGLLLLTNDGGLA+V+ Sbjct: 96 LWIFHKPRGVVTTARDPEGRQTVFEILPEDLPRVVAVGRLDINTEGLLLLTNDGGLAKVI 155 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P T WLR YRVR +G +DQ +L+ L+ G+ I G+ YG ++ ++D Q+G N W+T+GLR Sbjct: 156 AHPETGWLRRYRVRAYGDIDQAQLDRLRDGVTIDGMEYGPIEASIDRQQGDNVWLTLGLR 215 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNRE+K++ E VNRLIR+S+GPFQLG L G EV K+L+EQLG L E+A Sbjct: 216 EGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEVRTKVLKEQLGTALAEQAG 275 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNV 314 V+ +P+ P + + Q G + + P + Sbjct: 276 VDFTSPV-----REPIAPFGSPKGARKTAAATAQAPQGRGEGRPARGERPAW---GERPM 327 Query: 315 WMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 W G + R + R+P ++ RT Sbjct: 328 W---GERPARGGRDPARPQ-FGRAPGPGTRPERSRTPEA 362 >gi|296133130|ref|YP_003640377.1| pseudouridine synthase [Thermincola sp. JR] gi|296031708|gb|ADG82476.1| pseudouridine synthase [Thermincola potens JR] Length = 244 Score = 305 bits (783), Expect = 5e-81, Method: Composition-based stats. Identities = 82/235 (34%), Positives = 131/235 (55%), Gaps = 1/235 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 QR+ K +A AG+ASRR+ E +IA +VKVNG ++ V + D +EV G+ + Sbjct: 1 MERQRLQKFMAHAGVASRRKCEELIAAGKVKVNGKVVTEMGYTVDPSVDRVEVAGLGIIV 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ L +KP G++++ SD GR TV D + + +R+ VGRLD +TEGL+LLTNDG Sbjct: 61 HEKKEYILLYKPAGVLSSASDDRGRKTVVDLIKNAKTRLYPVGRLDYDTEGLILLTNDGR 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L +L P + + YR G +DKL L+ GI+++ +V + Q N V Sbjct: 121 LTNLLIHPRYKVDKTYRAVVQGIPGEDKLAALRNGIMLEDGPTYPARVKMLKQINGNGLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+++++F+ V +L R +G +LG L G R +S + + Sbjct: 181 EITIHEGRNRQVRRMFDAIGHPVLKLKRTRFGFLELGNLQPGQYRALSAAEVAKL 235 >gi|51892921|ref|YP_075612.1| ribosomal large subunit pseudouridine synthase B [Symbiobacterium thermophilum IAM 14863] gi|51856610|dbj|BAD40768.1| ribosomal large subunit pseudouridine synthase B [Symbiobacterium thermophilum IAM 14863] Length = 254 Score = 305 bits (783), Expect = 5e-81, Method: Composition-based stats. Identities = 91/234 (38%), Positives = 132/234 (56%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ KV+ARAG+ASRR E +I RV VNG ++ + V+ D IEVDG PL E Sbjct: 3 ERLQKVMARAGVASRRHCEALIQAGRVTVNGQVVTQLGTKVVPGKDVIEVDGRPLGTPET 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G V+T DP GR V D L + RV VGRLD +TEGLLLLTNDG LA Sbjct: 63 KVYVMLNKPKGYVSTLYDPQGRPKVIDLLGDEVAQRVYPVGRLDFDTEGLLLLTNDGDLA 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKGSNAWVT 190 L PS + Y V+ G KL L++GI ++ +V LD + ++A ++ Sbjct: 123 HGLMHPSRMVKKTYIVKVRGVPGPAKLRALQEGIELEDGPTAPAEVKMLDVRPPNSATLS 182 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V + EG+NR+++++F +V L R + GP +LG L G R ++ + + + Sbjct: 183 VRIHEGRNRQVRRMFAALGHEVIHLRRTTLGPLKLGDLSVGEWRYLTDQEVADL 236 >gi|77462817|ref|YP_352321.1| pseudouridine synthase [Rhodobacter sphaeroides 2.4.1] gi|77387235|gb|ABA78420.1| Pseudouridine synthase, (predicted) [Rhodobacter sphaeroides 2.4.1] Length = 508 Score = 305 bits (783), Expect = 5e-81, Method: Composition-based stats. Identities = 146/348 (41%), Positives = 195/348 (56%), Gaps = 4/348 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + ++ +R++KV++RAGIASRR+ ERMI R+ VNG ++ A+NV D I VDG P Sbjct: 1 MTDSKDGERIAKVLSRAGIASRRDAERMIELGRIAVNGRTIDSPALNVGPKDRITVDGQP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L E RLWLY+KP GLVT+ SD GR TVFD+LP RV+SVGRLD+N+EGLLLLTN Sbjct: 61 LAPPEPARLWLYYKPEGLVTSASDEKGRETVFDHLPEGMPRVMSVGRLDLNSEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L R LELPST WLR YRVR G L L+KGI ++G + M V+LD +G+N Sbjct: 121 DGELKRRLELPSTGWLRKYRVRVKGNPTDADLEPLRKGITVEGESFQPMTVSLDRVQGAN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 AW+TVGLREGKNREI++ VNRLIR+SYGPF+L L G EV KILR+QLG Sbjct: 181 AWLTVGLREGKNREIRRAMSALGLTVNRLIRVSYGPFRLNELEPGMVEEVRPKILRDQLG 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRP-NIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 + + P + RP ++ G ++ ++ A P Sbjct: 241 LDPHADGEAR---PARGRKPEGAARPARSEGAARPARAEGGARPARAEGAARSERTARPP 297 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 +G S + + H + + + R++ K Sbjct: 298 RGAAAEGPARAGRGAGSEGAAGPAKGRSPHGAARRAGAPKDSARSAGK 345 >gi|239827574|ref|YP_002950198.1| pseudouridine synthase [Geobacillus sp. WCH70] gi|239807867|gb|ACS24932.1| pseudouridine synthase [Geobacillus sp. WCH70] Length = 243 Score = 305 bits (782), Expect = 6e-81, Method: Composition-based stats. Identities = 81/238 (34%), Positives = 137/238 (57%), Gaps = 3/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E++I Q +VKVNG ++ V V D +EVDG+P+ + E Sbjct: 2 ERLQKVIAHAGIASRRKAEQLILQGKVKVNGKVVTELGVKVGPQDKVEVDGIPVEREE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G++++ D GR V D + R+ +GRLD +T G+LLLTNDG A + Sbjct: 61 VYYLFYKPRGVISSVKDDKGRKVVTDFFKDVDKRIYPIGRLDYDTSGILLLTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G +++L L++GI+++ +V L + ++ A + + Sbjct: 121 LMHPRYEIEKVYIAKVKGIPTREQLKQLERGIMLEDGMTAPAKVKLLSHNKQKQTAIIEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + EG+NR+++++FE KV +L R Y L L G R+++ +++ L Sbjct: 181 RIHEGRNRQVRRMFEAIGCKVMKLKRERYAFLDLKGLNPGEYRKLTPHEVKQLRALAL 238 >gi|125973211|ref|YP_001037121.1| ribosomal large subunit pseudouridine synthase B [Clostridium thermocellum ATCC 27405] gi|256003686|ref|ZP_05428674.1| pseudouridine synthase [Clostridium thermocellum DSM 2360] gi|281417410|ref|ZP_06248430.1| pseudouridine synthase [Clostridium thermocellum JW20] gi|125713436|gb|ABN51928.1| ribosomal large subunit pseudouridine synthase B [Clostridium thermocellum ATCC 27405] gi|255992247|gb|EEU02341.1| pseudouridine synthase [Clostridium thermocellum DSM 2360] gi|281408812|gb|EFB39070.1| pseudouridine synthase [Clostridium thermocellum JW20] gi|316940559|gb|ADU74593.1| pseudouridine synthase [Clostridium thermocellum DSM 1313] Length = 239 Score = 305 bits (782), Expect = 7e-81, Method: Composition-based stats. Identities = 82/235 (34%), Positives = 119/235 (50%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ K +A G+ASRR+ E +I+Q RVKVNG + + V D +EVDG ++ Sbjct: 1 MKEMRLQKYLAECGVASRRKAEELISQGRVKVNGETVTQMGKKVSQNDVVEVDGKLVKME 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +R +KP+G +++ D GR TV D + I R+ VGRLD +T GLLLLTNDG Sbjct: 61 KRKVYIALNKPVGYISSVKDQFGRKTVMDLVKDIKERIFPVGRLDYDTSGLLLLTNDGDF 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + +VY G +D + K G+ I + G V Sbjct: 121 AYRLTHPKHEIKKVYEADLLGVPSKDDIMRFKNGLWIDDYFTSPADFEILKSDGKTTKVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + + EGKNR+++K+ V RL RIS G LG L GS R ++++ + L Sbjct: 181 ITIHEGKNRQVRKMCNKIGCPVIRLKRISIGEVSLGDLKEGSWRNLTEREINSFL 235 >gi|328545045|ref|YP_004305154.1| RNA pseudouridylate synthase family protein [polymorphum gilvum SL003B-26A1] gi|326414786|gb|ADZ71849.1| RNA pseudouridylate synthase family protein [Polymorphum gilvum SL003B-26A1] Length = 562 Score = 305 bits (781), Expect = 8e-81, Method: Composition-based stats. Identities = 162/350 (46%), Positives = 210/350 (60%), Gaps = 8/350 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R++KV+ARAG+ SRR+ E I RV VNG +LE A+ V D I VDG PL + E Sbjct: 85 DGERIAKVMARAGLCSRRDAEAWILAGRVAVNGKILESPALTVTYDDEIVVDGQPLPQKE 144 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RTRLWLYHKP GLVTT DP+GR TVFD+LP RV++VGRLDINTEGLLLLTNDGGLA Sbjct: 145 RTRLWLYHKPRGLVTTARDPEGRPTVFDSLPKDLPRVLAVGRLDINTEGLLLLTNDGGLA 204 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 RVLELP+T WLR YRVR +G+++Q +L+ L GI I GI YG ++ LD Q+G N W+TV Sbjct: 205 RVLELPATGWLRRYRVRAYGKIEQSQLDSLADGIAIDGILYGTIEAVLDKQQGDNVWLTV 264 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 GLREGKNRE+K+V E VNRLIR+S+GPFQL L G RE+ ++LR+QLG L E Sbjct: 265 GLREGKNREVKRVLEHLGLSVNRLIRLSFGPFQLADLGEGEVREIRGRVLRDQLGDKLAE 324 Query: 252 EAQVNLDAPI---YSSETLVRDRPNIISEVP--DDFTRMKKNSSQKNGLSKQKKLATPVH 306 A + +AP+ + ++ + NI + + + ++ + G + P Sbjct: 325 AAGADFEAPVLTQAEPDKPLKKKENIQKSRAGGEWMSAREGAAATRTGGRRSASDEAPER 384 Query: 307 RRNLASN---VWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 RR A N G D Q+ R R R + Sbjct: 385 RRKGAGNPPETRRPSGKSQDRPQDRPQKVSPRSRFRLTSEPRPRSRAPER 434 >gi|220931567|ref|YP_002508475.1| ribosomal large subunit pseudouridine synthase B [Halothermothrix orenii H 168] gi|219992877|gb|ACL69480.1| ribosomal large subunit pseudouridine synthase B [Halothermothrix orenii H 168] Length = 237 Score = 305 bits (781), Expect = 9e-81, Method: Composition-based stats. Identities = 82/232 (35%), Positives = 130/232 (56%), Gaps = 2/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K +A AG+ASRR+ E++I Q RVKVNG ++ + D +EVDG + K E+ Sbjct: 2 ERLQKYMAHAGVASRRKSEKIITQGRVKVNGKIVTELGTKIDPDKDIVEVDGRVISK-EK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G +T+ SDP GR TV + + R+ VGRLD +T GLL+LTNDG L Sbjct: 61 YVYILLNKPVGYITSVSDPHGRKTVTGLIKGVSQRIYPVGRLDYDTSGLLILTNDGELTY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 VL PS + YRV G + L L+ G+ ++ +V+ +K N + Sbjct: 121 VLTHPSHMVEKTYRVEVKGFPSDEVLKKLETGVKLKDGLTAPARVSAVKRKEKNTIFNLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++ + + V L RI++GP L L G R +++K ++ Sbjct: 181 IHEGRNRQVRRMCDKIGFPVVNLKRIAFGPLNLKGLKTGQYRFLTEKEVKAL 232 >gi|221638684|ref|YP_002524946.1| Pseudouridine synthase [Rhodobacter sphaeroides KD131] gi|221159465|gb|ACM00445.1| Pseudouridine synthase [Rhodobacter sphaeroides KD131] Length = 491 Score = 305 bits (781), Expect = 9e-81, Method: Composition-based stats. Identities = 152/372 (40%), Positives = 198/372 (53%), Gaps = 28/372 (7%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + ++ +R++KV++RAGIASRR+ ERMI R+ VNG ++ A+NV D I VDG P Sbjct: 1 MTDSKDGERIAKVLSRAGIASRRDAERMIELGRIAVNGRTIDSPALNVGPKDRITVDGQP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L E RLWLY+KP GLVT+ SD GR TVFD+LP RV+SVGRLD+N+EGLLLLTN Sbjct: 61 LAPPEPARLWLYYKPEGLVTSASDEKGRETVFDHLPEGMPRVMSVGRLDLNSEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L R LELPST WLR YRVR G L L+KGI ++G + M V+LD +G+N Sbjct: 121 DGELKRRLELPSTGWLRKYRVRVKGNPTDADLEPLRKGITVEGESFQPMTVSLDRVQGAN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 AW+TVGLREGKNREI++ VNRLIR+SYGPF+L L G EV KILR+QLG Sbjct: 181 AWLTVGLREGKNREIRRAMSALGLTVNRLIRVSYGPFRLNELEPGMVEEVRPKILRDQLG 240 Query: 247 --PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL--- 301 PH EA+ + R + R +K + G + + Sbjct: 241 LDPHADGEARPAKGRKPEGAARPARSESAARRARAEGGARSEKPARSPRGAAAEGPTRPA 300 Query: 302 -----------------------ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRS 338 A + A+G + S G E + R Sbjct: 301 RGAGSEGSAGATRGRSPQGAAPKAGAPKDGARFAGKGPAEGARPARASRPGGAEASGRTR 360 Query: 339 PSFPSKRSLRRT 350 P+ + R+ Sbjct: 361 PADGKSAAAGRS 372 >gi|148264550|ref|YP_001231256.1| pseudouridine synthase [Geobacter uraniireducens Rf4] gi|146398050|gb|ABQ26683.1| ribosomal large subunit pseudouridine synthase B [Geobacter uraniireducens Rf4] Length = 239 Score = 304 bits (780), Expect = 1e-80, Method: Composition-based stats. Identities = 89/232 (38%), Positives = 127/232 (54%), Gaps = 1/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K++++AGIASRRE ER+I RV VNG ++ D I VDG P+R Sbjct: 3 ERLQKILSQAGIASRREAERIITDGRVAVNGQVVTELGTKADAEKDRITVDGRPIRVEAN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G +TT DP+GR V D L I RV VGRLD NTEGLLLLTNDG LA Sbjct: 63 KLYVLLYKPVGYMTTMKDPEGRPIVTDLLKGIKERVYPVGRLDYNTEGLLLLTNDGALAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y VR G+V +L L G+ ++ V+L + N W+++ Sbjct: 123 RLAHPSHEVDKGYLVRVRGKVTPAQLKHLAVGVDLEDGRTAPAVVSLVRESEQNCWISIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+ R+++++ E V RL R YG ++G L G R ++ + Sbjct: 183 IHEGRYRQVRRMCEAVGLTVVRLKRSRYGFLEIGELKPGEYRLLTPAEVERL 234 >gi|209548084|ref|YP_002280001.1| RNA-binding S4 domain protein [Rhizobium leguminosarum bv. trifolii WSM2304] gi|209533840|gb|ACI53775.1| RNA-binding S4 domain protein [Rhizobium leguminosarum bv. trifolii WSM2304] Length = 689 Score = 304 bits (780), Expect = 1e-80, Method: Composition-based stats. Identities = 174/362 (48%), Positives = 223/362 (61%), Gaps = 27/362 (7%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + +R+SKV+ARAG+ASRR++ERMI + RV +NG +L+ VNV D IEVDGVP Sbjct: 41 TEGEAKAERISKVMARAGVASRRDIERMIMEGRVTLNGAVLDTPVVNVTLADRIEVDGVP 100 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R ERTRLWLYHKP GLVTT++DP+GR+TVFDNLP RV+S+GRLDINTEGLLLLTN Sbjct: 101 IRGIERTRLWLYHKPAGLVTTNADPEGRATVFDNLPEELPRVMSIGRLDINTEGLLLLTN 160 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLAR LELP+T WLR YRVR HG +DQD L+ LK GI + G+ YG ++ TLD +GSN Sbjct: 161 DGGLARALELPATGWLRRYRVRAHGDIDQDALDKLKDGIAVDGVLYGSIEATLDRTQGSN 220 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W+T+GLREGKNREIK V VNRLIRISYGPFQLG L G EV + LR+QLG Sbjct: 221 VWITMGLREGKNREIKNVMGALGLDVNRLIRISYGPFQLGDLPEGHVIEVRGRTLRDQLG 280 Query: 247 PHLLEEAQVNLDAPIYSSETL---------------------VRDRPNIISEVPDDFTRM 285 P L+EEA+ N DAPIY++ + R +S + Sbjct: 281 PRLIEEAKANFDAPIYNAPAVAAEEEAEAPVPERREQRPRRDEDKRERALSRLDTKRDDR 340 Query: 286 KKNSSQKNGLSKQKKLATPVHRR------NLASNVWMAKGIHSSFLSDSGQREENHRRSP 339 + + + + +R ++NVWMA G + + +N + + Sbjct: 341 RGGGRRDDDRRDGGRFDDDKPKRPQPLGQRRSANVWMAPGARPLGEKAAAKAAKNEQTAR 400 Query: 340 SF 341 Sbjct: 401 RG 402 >gi|134299005|ref|YP_001112501.1| pseudouridine synthase [Desulfotomaculum reducens MI-1] gi|134051705|gb|ABO49676.1| ribosomal large subunit pseudouridine synthase B [Desulfotomaculum reducens MI-1] Length = 309 Score = 304 bits (779), Expect = 1e-80, Method: Composition-based stats. Identities = 98/300 (32%), Positives = 155/300 (51%), Gaps = 5/300 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A+AG+ASRR E +I +VKVNG + + V T D IEV G PL E+ Sbjct: 3 ERLQKILAKAGVASRRHSEELIISGQVKVNGKTVTEMGLKVDPTKDKIEVKGKPLPPLEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G VTT SD R TV D L + RV VGRLD ++EGLLLLTNDG L + Sbjct: 63 KVYLLMNKPRGYVTTLSDERDRKTVVDLLKGVEQRVYPVGRLDYDSEGLLLLTNDGELTQ 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y + G + ++L + KG+V++ V L + A + + Sbjct: 123 ALTHPKHKVKKTYLAKVDGIPETEELKAMAKGLVLEDGPTAPADVRLAGTGDNRALLEIS 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+NR+++++ E +KV RL R G +LG+L +G R ++KK LRE L++ Sbjct: 183 IHEGRNRQVRRMCEHIGYKVLRLRRTRIGTLELGSLKSGEVRALTKKELRELASLVGLKQ 242 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 + + + + + +P+ V ++ + S ++ SK + R S Sbjct: 243 NYND----MQLTTEVQKKKPSPCGRVGRIKGKVSEQKSNRSAKSKVNEFFEKGTLRGKNS 298 >gi|190890544|ref|YP_001977086.1| RNA-pseudouridine synthase, ribosomal large subunit B [Rhizobium etli CIAT 652] gi|190695823|gb|ACE89908.1| probable RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli CIAT 652] Length = 645 Score = 304 bits (779), Expect = 1e-80, Method: Composition-based stats. Identities = 175/372 (47%), Positives = 230/372 (61%), Gaps = 33/372 (8%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + +R+SKV+ARAG+ASRR++ERMI + RV +NG +LE VNV D IEVDG+P Sbjct: 45 TESEAKAERISKVMARAGVASRRDIERMIMEGRVTLNGKVLETPVVNVTLADRIEVDGMP 104 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R ERTRLWLYHKP GLVTT++DP+GR TVFDNLP RV+S+GRLDINTEGLLLLTN Sbjct: 105 VRGIERTRLWLYHKPAGLVTTNADPEGRPTVFDNLPEELPRVMSIGRLDINTEGLLLLTN 164 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLAR LELP+T WLR YRVR HG++DQ+ L+ LK GI + G+ YG ++ TLD +GSN Sbjct: 165 DGGLARALELPATGWLRRYRVRAHGEIDQEALDKLKDGIAVDGVLYGSIEATLDRTQGSN 224 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W+T+GLREGKNREIK V VNRLIRISYGPFQLG L G EV + LR+QLG Sbjct: 225 VWITMGLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGDLPEGHVIEVRGRTLRDQLG 284 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK--------- 297 P L+EEA+ N DAPIY++ + + ++ + ++ LS+ Sbjct: 285 PRLIEEAKANFDAPIYNAPAVAAEEEAEVAAPEKRERPRRDEDKRERALSRLDTKRDDRR 344 Query: 298 -----------------------QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREEN 334 + K + P+ +R ++NVWMA G + + +N Sbjct: 345 GDDRRGGARRDDDRRDGGRRDDEKPKRSEPLGQR-RSANVWMAPGARPLGEKAAAKAAKN 403 Query: 335 HRRSPSFPSKRS 346 + + + Sbjct: 404 AQTARRRGEQAP 415 >gi|126461709|ref|YP_001042823.1| RNA-binding S4 domain-containing protein [Rhodobacter sphaeroides ATCC 17029] gi|126103373|gb|ABN76051.1| RNA-binding S4 domain protein [Rhodobacter sphaeroides ATCC 17029] Length = 489 Score = 304 bits (779), Expect = 1e-80, Method: Composition-based stats. Identities = 153/362 (42%), Positives = 198/362 (54%), Gaps = 15/362 (4%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + ++ +R++KV++RAGIASRR+ ERMI R+ VNG ++ A+NV D I VDG P Sbjct: 1 MTDSKDGERIAKVLSRAGIASRRDAERMIELGRIAVNGRTIDSPALNVGPKDRITVDGQP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L E RLWLY+KP GLVT+ SD GR TVFD+LP RV+SVGRLD+N+EGLLLLTN Sbjct: 61 LAPPEPARLWLYYKPEGLVTSASDEKGRETVFDHLPEGMPRVMSVGRLDLNSEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L R LELPST WLR YRVR G L L+KGI ++G + M V+LD +G+N Sbjct: 121 DGELKRRLELPSTGWLRKYRVRVKGNPTDADLEPLRKGITVEGESFQPMTVSLDRVQGAN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 AW+TVGLREGKNREI++ VNRLIR+SYGPF+L L G EV KILR+QLG Sbjct: 181 AWLTVGLREGKNREIRRAMSALGLTVNRLIRVSYGPFRLNELEPGMVEEVRPKILRDQLG 240 Query: 247 --PHLLEEAQVNL---------DAPIYSSETLVRDRPNIISEVPDDFTRM---KKNSSQK 292 PH EA+ SE R +E P R + ++ Sbjct: 241 LDPHADGEARPARGRKPEGAARAEGAARSERTARPPRGAAAEGPTRPARAAGSEGSAGAT 300 Query: 293 NGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 G S Q ++ A + + S + P+ RT+ Sbjct: 301 RGRSPQGAAPKAGAPKDGARFAGKGP-AEGARPARSAATDPARASRPASTETTGRTRTAE 359 Query: 353 KK 354 + Sbjct: 360 GR 361 >gi|295399019|ref|ZP_06809001.1| pseudouridine synthase [Geobacillus thermoglucosidasius C56-YS93] gi|312110375|ref|YP_003988691.1| pseudouridine synthase [Geobacillus sp. Y4.1MC1] gi|294978485|gb|EFG54081.1| pseudouridine synthase [Geobacillus thermoglucosidasius C56-YS93] gi|311215476|gb|ADP74080.1| pseudouridine synthase [Geobacillus sp. Y4.1MC1] Length = 243 Score = 304 bits (778), Expect = 2e-80, Method: Composition-based stats. Identities = 85/238 (35%), Positives = 136/238 (57%), Gaps = 3/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIARAGIASRR+ E++I Q +VKVNG ++ V V D +EVDG+P+ K E Sbjct: 2 ERLQKVIARAGIASRRKAEQLILQGKVKVNGKIVTELGVKVGPRDKVEVDGIPVEKEE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G++++ D GR V D I R+ VGRLD +T G+LLLTNDG A + Sbjct: 61 VYYLFYKPRGVISSVKDDKGRKVVTDFFKDIDKRIYPVGRLDYDTSGILLLTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + +++L L+KGI+++ +V L + ++ A + + Sbjct: 121 LMHPRYEIEKVYIAKVKKIPTREQLKQLEKGIMLEDGMTAPAKVKLLSHDKQKQTAIIEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + EG+NR+++++FE V +L R Y L L G RE++ +++ L Sbjct: 181 RIHEGRNRQVRRMFEAIGCNVMKLKRERYAFLDLKGLNPGEYRELTPHEVKQLRALAL 238 >gi|83944513|ref|ZP_00956965.1| RNA pseudouridylate synthase family protein [Sulfitobacter sp. EE-36] gi|83844619|gb|EAP82504.1| RNA pseudouridylate synthase family protein [Sulfitobacter sp. EE-36] Length = 335 Score = 304 bits (778), Expect = 2e-80, Method: Composition-based stats. Identities = 143/283 (50%), Positives = 184/283 (65%), Gaps = 3/283 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV++RAGIASRRE ERMI RV+VNG ++ A+NV +D I VDG P+ + E R Sbjct: 19 RIAKVLSRAGIASRREAERMIEAGRVRVNGAQIDSPALNVTPSDAITVDGKPVGEPEPPR 78 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +WL+HKP GLVTT+ D GR T+FD+LP RV+S+GRLD+N+EGLLLLTNDG + R L Sbjct: 79 VWLFHKPTGLVTTNRDEKGRGTIFDDLPEDMPRVMSIGRLDLNSEGLLLLTNDGEVKRRL 138 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPS WLR YRVR +G+ D L L+KGI + G + M VTLD Q+G+NAW+TVGLR Sbjct: 139 ELPSNGWLRRYRVRVNGRPTDDMLEPLRKGITVDGEDFQPMTVTLDRQQGANAWLTVGLR 198 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNREI++ E N VNRLIR SYGPFQLG L G E+ +K++R+QLG LE A Sbjct: 199 EGKNREIRRAMEAVNLSVNRLIRTSYGPFQLGELKTGEVEELKRKVVRDQLG---LEIAD 255 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 A +++ + E + K K K Sbjct: 256 TTGTAIKKKPARIIKRKARKPGEPGPGRPGLPKEPGDKTATGK 298 >gi|83955333|ref|ZP_00963988.1| RNA pseudouridylate synthase family protein [Sulfitobacter sp. NAS-14.1] gi|83840326|gb|EAP79500.1| RNA pseudouridylate synthase family protein [Sulfitobacter sp. NAS-14.1] Length = 335 Score = 303 bits (776), Expect = 3e-80, Method: Composition-based stats. Identities = 143/283 (50%), Positives = 184/283 (65%), Gaps = 3/283 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV++RAGIASRRE ERMI RV+VNG ++ A+NV +D I VDG P+ + E R Sbjct: 19 RIAKVLSRAGIASRREAERMIEAGRVRVNGAQIDSPALNVTPSDAITVDGKPVGEPEPPR 78 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +WL+HKP GLVTT+ D GR T+FD+LP RV+S+GRLD+N+EGLLLLTNDG + R L Sbjct: 79 VWLFHKPTGLVTTNRDEKGRGTIFDDLPEDMPRVMSIGRLDLNSEGLLLLTNDGEVKRRL 138 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPS WLR YRVR +G+ D L L+KGI + G + M VTLD Q+G+NAW+TVGLR Sbjct: 139 ELPSNGWLRRYRVRVNGRPTDDMLEPLRKGITVDGEDFQPMTVTLDRQQGANAWLTVGLR 198 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNREI++ E N VNRLIR SYGPFQLG L G E+ +K++R+QLG LE A Sbjct: 199 EGKNREIRRAMEAVNLSVNRLIRTSYGPFQLGELKTGEVEELKRKVVRDQLG---LEIAD 255 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 A +++ + E + K K K Sbjct: 256 TTGTAVKKKPARIIKRKARKPGEPGPGRPGLPKEPGDKTATGK 298 >gi|116250666|ref|YP_766504.1| ribosomal large subunit pseudouridine synthase B [Rhizobium leguminosarum bv. viciae 3841] gi|115255314|emb|CAK06389.1| putative ribosomal large subunit pseudouridine synthase B [Rhizobium leguminosarum bv. viciae 3841] Length = 701 Score = 303 bits (776), Expect = 4e-80, Method: Composition-based stats. Identities = 177/368 (48%), Positives = 227/368 (61%), Gaps = 26/368 (7%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + +R+SKV+ARAG+ASRR++ERMI + RV +NG +LE VNV D IEVDGVP Sbjct: 45 TEGEAKAERISKVMARAGVASRRDIERMIMEGRVTLNGRVLETPVVNVTLADRIEVDGVP 104 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R ERTRLWLYHKP GLVTT++DP+GRSTVFDNLP RV+S+GRLDINTEGLLLLTN Sbjct: 105 IRGIERTRLWLYHKPAGLVTTNADPEGRSTVFDNLPEELPRVMSIGRLDINTEGLLLLTN 164 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLAR LELP+T WLR YRVR HG++DQD L+ LK GI + G+ YG ++ TLD +GSN Sbjct: 165 DGGLARALELPATGWLRRYRVRAHGEIDQDALDKLKDGIAVDGVLYGSIEATLDRTQGSN 224 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W+T+GLREGKNREIK V VNRLIRISYGPFQLG L G EV + LR+QLG Sbjct: 225 VWITMGLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGDLPEGHVVEVRGRTLRDQLG 284 Query: 247 PHLLEEAQVNLDAPIYSSETL--------------------VRDRPNIISEVPDDFTRMK 286 P L+EEA+ N DAPIY++ + R +S + Sbjct: 285 PRLIEEAKANFDAPIYNAAAVAAEEEAEPAAAERRERPRRDEDKRERALSRLDTKRDDRH 344 Query: 287 KNSSQKNGLSKQKKLATPVHRR------NLASNVWMAKGIHSSFLSDSGQREENHRRSPS 340 + +++ + +R ++NVWMA G + + +N + + Sbjct: 345 GGARKEDDRRDGGRRDDERPKRPQPLGQRRSANVWMAPGARPLGEKAAAKAAKNAQTARK 404 Query: 341 FPSKRSLR 348 + R Sbjct: 405 RGEQSPAR 412 >gi|322420558|ref|YP_004199781.1| pseudouridine synthase [Geobacter sp. M18] gi|320126945|gb|ADW14505.1| pseudouridine synthase [Geobacter sp. M18] Length = 262 Score = 302 bits (775), Expect = 4e-80, Method: Composition-based stats. Identities = 86/232 (37%), Positives = 132/232 (56%), Gaps = 1/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K++++AGIASRRE E +IA+ RV VNG ++ TD I VDG P+ AE+ Sbjct: 3 ERLQKILSQAGIASRRESETIIAEGRVAVNGTVVTELGTKADPDTDTITVDGKPITIAEQ 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G +TT DP+GR V D L I RV +GRLD NTEGLLLLTNDG LA Sbjct: 63 RVYLLLYKPVGYMTTMKDPEGRPIVSDLLKGISERVYPIGRLDYNTEGLLLLTNDGALAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y VR G V ++ L +G+ ++ +V ++ +N+W+++ Sbjct: 123 TLMHPSHEVDKGYLVRVSGHVSPAQIQELSEGVKLEDGMTAPAKVLPVSESENNSWISIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+ R+++++ E V RL R Y +G + G R ++ + + Sbjct: 183 IHEGRYRQVRRMCEAVGLNVVRLKRSRYDFLVIGEMKPGDFRHLTADEVAKL 234 >gi|260574583|ref|ZP_05842586.1| RNA-binding S4 domain protein [Rhodobacter sp. SW2] gi|259023000|gb|EEW26293.1| RNA-binding S4 domain protein [Rhodobacter sp. SW2] Length = 358 Score = 302 bits (775), Expect = 5e-80, Method: Composition-based stats. Identities = 147/338 (43%), Positives = 190/338 (56%), Gaps = 12/338 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV++RAGIASRRE ERMI +V VNG ++ A+NV + D I VDG P+ E R Sbjct: 19 RIAKVLSRAGIASRREAERMIELGQVAVNGKVITSPALNVTAKDRITVDGKPVAAPEPAR 78 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LWLY+KP GLVT+ +D GR T++D +P RV++VGRLD+N+EGLLLLTNDG L R L Sbjct: 79 LWLYYKPEGLVTSDNDEKGRETIYDQMPEDLPRVMAVGRLDLNSEGLLLLTNDGELKRRL 138 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR G L L+ GI ++G + M V +D +G+NAW+TVGLR Sbjct: 139 ELPSTGWLRKYRVRIKGNPTDPDLEPLRAGITVEGERFQPMLVVIDRIQGANAWLTVGLR 198 Query: 195 EGKNREIKK-VFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 EGKNREI++ +F N VNRLIRISYGPF+LG L G EV K+LR+QLG E Sbjct: 199 EGKNREIRRAMF-ALNLTVNRLIRISYGPFRLGDLQPGEVAEVRGKVLRDQLGFDPRAE- 256 Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASN 313 D + +S +P + P + K K A R Sbjct: 257 ----DEELSTSGKPAPKKPATRTLAPRTPAKPGAKPGAKPSRGVAKPAAEAPVARAKPVK 312 Query: 314 -----VWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 G S + R E + +P P +R Sbjct: 313 PGPGWAKAQPGGKSGPGPKATSRNEGAKPAPRSPGRRP 350 >gi|196248745|ref|ZP_03147445.1| pseudouridine synthase [Geobacillus sp. G11MC16] gi|196211621|gb|EDY06380.1| pseudouridine synthase [Geobacillus sp. G11MC16] Length = 243 Score = 302 bits (774), Expect = 5e-80, Method: Composition-based stats. Identities = 88/231 (38%), Positives = 134/231 (58%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIARAGIASRR+ E MI Q RVKVNG ++ V V D +EVDG+P+ + E Sbjct: 2 ERLQKVIARAGIASRRKAEEMILQGRVKVNGRVVTELGVKVGPRDDVEVDGIPVEREE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ D GR V D I R+ +GRLD +T GLLLLTNDG A + Sbjct: 61 VYYLLYKPRGVISSVKDEKGRKVVTDFFKDIHQRIYPIGRLDYDTSGLLLLTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G +++L L+KG++++ +V L + +K A V + Sbjct: 121 LMHPRYEIEKVYVAKVKGIPTREQLKQLEKGVLLEDGITAPAKVKLLSADRKKRTAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+++++FE +V +L R Y L L G RE+S ++ Sbjct: 181 SIHEGRNRQVRRMFEAIGCEVLKLKRERYAFLDLKGLRPGEYRELSPHEVK 231 >gi|56697819|ref|YP_168190.1| RNA pseudouridylate synthase family protein [Ruegeria pomeroyi DSS-3] gi|56679556|gb|AAV96222.1| RNA pseudouridylate synthase family protein [Ruegeria pomeroyi DSS-3] Length = 387 Score = 302 bits (774), Expect = 5e-80, Method: Composition-based stats. Identities = 145/349 (41%), Positives = 196/349 (56%), Gaps = 1/349 (0%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + +R++K+++RAG+ASRRE ERMI RV VNG +++ A+NV D + VDG Sbjct: 1 MSNTPPPGERIAKILSRAGVASRREAERMIEAGRVAVNGKVIDSPALNVTERDRVTVDGA 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL AE RLWLYHKP GLVTT D GR T+FD+LP RV+SVGRLD+N+EGLLLLT Sbjct: 61 PLADAEPARLWLYHKPSGLVTTARDEKGRKTIFDDLPEDMPRVMSVGRLDLNSEGLLLLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + R LELPST WLR YRVR G + L++G+VI+G + M V++D Q+G+ Sbjct: 121 NDGAVKRQLELPSTGWLRRYRVRIKGTPKDEDFAPLRQGLVIEGERFQPMIVSIDRQQGA 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 NAW+TVGLREGKNREI++ E + VNRLIRISYGPFQLGTL G EV +++LR+QL Sbjct: 181 NAWLTVGLREGKNREIRRAIEDIGFIVNRLIRISYGPFQLGTLAPGKVEEVRRRVLRDQL 240 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 G ++ A P R ++ ++ + + + P Sbjct: 241 GLDGEDQPTDERPARPERKRKPGASAPATPRGGTTAKARPGGAAAGRSDAASKPRSGAPA 300 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R+ G S + + + R S + Sbjct: 301 KSRSG-DPAKQRSGAPPRTRSGDPVKARTDGPARARADGPGKPRGSGPR 348 >gi|197119460|ref|YP_002139887.1| 23S rRNA pseudouridine 2605 synthase [Geobacter bemidjiensis Bem] gi|197088820|gb|ACH40091.1| 23S rRNA pseudouridine 2605 synthase [Geobacter bemidjiensis Bem] Length = 266 Score = 302 bits (774), Expect = 5e-80, Method: Composition-based stats. Identities = 83/232 (35%), Positives = 132/232 (56%), Gaps = 1/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K++++AG+ASRRE E +IA RV VNG ++ TD I +DG P+ E+ Sbjct: 3 ERLQKILSQAGVASRRESEGIIAAGRVAVNGTVVTELGTKADPDTDTITLDGKPITIEEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G +TT DP+GR V D L + RV +GRLD NTEGLLLLTNDG LA Sbjct: 63 RVYILLYKPVGYMTTMKDPEGRPIVSDLLNGVKERVYPIGRLDYNTEGLLLLTNDGALAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y VR GQV ++ L +G+ ++ +V ++ +N+W+++ Sbjct: 123 SLMHPSHEVDKGYLVRVSGQVSPLQIKKLSEGVKLEDGMTAPAKVLPVSESENNSWISIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+ R+++++ E V RL R Y ++G + G R ++ + + Sbjct: 183 IHEGRYRQVRRMCEAVGLNVVRLKRARYDFLEIGDMKPGEYRHLAPEEVTRL 234 >gi|304406989|ref|ZP_07388643.1| pseudouridine synthase [Paenibacillus curdlanolyticus YK9] gi|304343976|gb|EFM09816.1| pseudouridine synthase [Paenibacillus curdlanolyticus YK9] Length = 445 Score = 302 bits (774), Expect = 5e-80, Method: Composition-based stats. Identities = 95/334 (28%), Positives = 146/334 (43%), Gaps = 8/334 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN-VMSTDHIEVDGVPLRKAER 72 +R+ K++A+AGIASRR+ E +I +V+VNG+ + D I V G P+ +E Sbjct: 5 ERLQKILAQAGIASRRKCEELIISGQVEVNGVPVTTLGAKADPEEDVITVGGKPIV-SEN 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++T+ SDP GR V D L I RV +GRLD +TEGLLLLTNDG A Sbjct: 64 KLYIMLNKPKGVITSASDPQGRKVVSDFLTGIKQRVYPIGRLDYDTEGLLLLTNDGEFAN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 +L P + Y G DKL+ L+KGI ++ +V + S+ + + Sbjct: 124 LLTHPKHHVPKTYWATVKGVPHGDKLDKLRKGIELEDGMTSPAEVEYQDIEPSDKESTIR 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG+NR+++++F+ V RL R+ +G L L G R + ++E L Sbjct: 184 ITIYEGRNRQVRRMFDAIGHPVIRLKRVKFGELGLQNLKRGGWRPLKPHEVQELL----Q 239 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 E A+ + S P T + + R Sbjct: 240 EAAKAEGKSSYVPSGKPATKPEWKPKPKPKHLTASGDKNHSNGQKEGGSETGRKPFRSKQ 299 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 ASN G S E + + K Sbjct: 300 ASNAAATTGSRKGKRSRQSYAESVLGAAAATQGK 333 >gi|260432945|ref|ZP_05786916.1| ribosomal large subunit pseudouridine synthase B [Silicibacter lacuscaerulensis ITI-1157] gi|260416773|gb|EEX10032.1| ribosomal large subunit pseudouridine synthase B [Silicibacter lacuscaerulensis ITI-1157] Length = 291 Score = 302 bits (774), Expect = 5e-80, Method: Composition-based stats. Identities = 141/277 (50%), Positives = 182/277 (65%), Gaps = 8/277 (2%) Query: 1 MKDKNIVQENFTP-QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ + P R++KV+ARAGIASRRE ERMI RV VNG ++ A+NV +D Sbjct: 16 MRYAQGMSNTPPPGDRIAKVLARAGIASRREAERMIEAGRVTVNGKTIDSPALNVTPSDR 75 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I VDG P+ + E RLWLYHKP GLVTT+ D GR T+FDNLP RV+SVGRLD+N+E Sbjct: 76 ITVDGKPVAEPEPARLWLYHKPTGLVTTNRDEKGRPTIFDNLPEDMPRVMSVGRLDLNSE 135 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLTNDG + R LELPST WLR YRVR +G+ + L++G+VI+G + M VTL Sbjct: 136 GLLLLTNDGTIKRKLELPSTGWLRKYRVRINGRPKDEDFAPLRQGLVIEGERFQPMTVTL 195 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 D Q+G+NAW+T+GLREGKNREI++ E + VNRL+R+SYGPFQLG L G E+ ++ Sbjct: 196 DRQQGANAWLTIGLREGKNREIRRAIEDIGFTVNRLLRVSYGPFQLGNLKPGEVEEIRRR 255 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIIS 276 +LR+QLG D P + R + Sbjct: 256 VLRDQLGLGP-------EDKPTPAKRPARPQRSRKPA 285 >gi|253699802|ref|YP_003020991.1| pseudouridine synthase [Geobacter sp. M21] gi|251774652|gb|ACT17233.1| pseudouridine synthase [Geobacter sp. M21] Length = 266 Score = 302 bits (774), Expect = 5e-80, Method: Composition-based stats. Identities = 83/232 (35%), Positives = 132/232 (56%), Gaps = 1/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K++++AG+ASRRE E +IA RV VNG ++ TD I +DG P+ E+ Sbjct: 3 ERLQKILSQAGVASRRESEGIIAAGRVAVNGTVVTELGTKADPDTDTITLDGKPITIEEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G +TT DP+GR V D L + RV +GRLD NTEGLLLLTNDG LA Sbjct: 63 RVYILLYKPVGYMTTMKDPEGRPIVSDLLKGVKERVYPIGRLDYNTEGLLLLTNDGALAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y VR GQV ++ L +G+ ++ +V ++ +N+W+++ Sbjct: 123 SLMHPSHEVDKGYLVRVSGQVSPLQIKKLSEGVKLEDGMTAPAKVLPMSESENNSWISIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+ R+++++ E V RL R Y ++G + G R ++ + + Sbjct: 183 IHEGRYRQVRRMCEAVGLNVVRLKRARYDFLEIGDMKPGEYRHLAPEEVTRL 234 >gi|259416443|ref|ZP_05740363.1| pseudouridine synthase, Rsu [Silicibacter sp. TrichCH4B] gi|259347882|gb|EEW59659.1| pseudouridine synthase, Rsu [Silicibacter sp. TrichCH4B] Length = 410 Score = 302 bits (774), Expect = 6e-80, Method: Composition-based stats. Identities = 144/335 (42%), Positives = 194/335 (57%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + R++KV++RAG+ASRRE ERMI + RV VNG +++ A+NV +D I VDG PL Sbjct: 57 PSAEGDRIAKVLSRAGVASRREAERMITEGRVAVNGAVIDSPALNVTGSDRIVVDGTPLP 116 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +AE RLWLY+KP GLVTT+SD GR T+FD LP RV++VGRLD+N+EGLLLLTNDG Sbjct: 117 EAEAPRLWLYYKPTGLVTTNSDEKGRRTIFDELPEDLPRVMTVGRLDLNSEGLLLLTNDG 176 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 G+ R LELPST WLR YRVR +G+ + ++L+KG+VI G + M V LD Q+G+NAW Sbjct: 177 GVKRQLELPSTGWLRRYRVRINGRPQDHEFDVLRKGVVIDGERFQPMTVNLDRQQGANAW 236 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +T+GLREGKNREI++ E + VNRL+RISYGPFQLGTL G E+ +++R+QLG Sbjct: 237 LTIGLREGKNREIRRAMEEVGYPVNRLLRISYGPFQLGTLKEGEVEELRPRVVRDQLGLA 296 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 E P ++ K S G K Sbjct: 297 APEGDGEAKKKPTRPGRGPRNPGGTPGAQPTGKGGSAPKGRSIGKGAGKGSGKPFEGKTF 356 Query: 309 NLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPS 343 + ++ S G + + + Sbjct: 357 SGKASAGKPGAGKPSGTKSFGSKPASGAGARKTGG 391 >gi|326791357|ref|YP_004309178.1| pseudouridine synthase Rsu [Clostridium lentocellum DSM 5427] gi|326542121|gb|ADZ83980.1| pseudouridine synthase Rsu [Clostridium lentocellum DSM 5427] Length = 240 Score = 302 bits (773), Expect = 6e-80, Method: Composition-based stats. Identities = 81/239 (33%), Positives = 133/239 (55%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A GIASRR+ E +I + +V VNG +++ V D + + ++ E+ Sbjct: 1 MRLQKYLASCGIASRRKCEELILEGKVSVNGQIIQTLGTQVEEDDEVYYNHKRVQLEEKH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G VTT D R+TV D + + +R+ VGRLD NT GLLLLT+DG L Sbjct: 61 VYYMLNKPAGYVTTVQDEKQRATVLDLMKGVKTRIFPVGRLDYNTSGLLLLTSDGALTYG 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y V+ G+V + L++L+KG++I +V + Q + W+ + + Sbjct: 121 LTHPKHHVNKTYEVKLSGKVTERSLDMLRKGVMIDHRKTYPAEVEVVKQNAKHTWLKITI 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 EG+NR+I+K+ E + V +L R+S G QLG+L G R ++K+ + ++EE Sbjct: 181 HEGRNRQIRKMCEAVGYPVVQLKRLSVGSIQLGSLKVGEYRALTKEEVDYLKSIAIIEE 239 >gi|90961915|ref|YP_535831.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus salivarius UCC118] gi|301299322|ref|ZP_07205607.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus salivarius ACS-116-V-Col5a] gi|90821109|gb|ABD99748.1| Ribosomal large subunit pseudouridine synthase B [Lactobacillus salivarius UCC118] gi|300214638|gb|ADJ79054.1| Pseudouridine synthase [Lactobacillus salivarius CECT 5713] gi|300853062|gb|EFK80661.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus salivarius ACS-116-V-Col5a] Length = 242 Score = 302 bits (773), Expect = 6e-80, Method: Composition-based stats. Identities = 84/234 (35%), Positives = 132/234 (56%), Gaps = 2/234 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR E++I + RV VNG+++ V S D I VDG L+K E+ Sbjct: 3 ERLQKVMANAGVASRRASEKLIQEGRVMVNGVVVTELGTKVESDDSISVDGKLLKKDEKK 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D GR V D L + R+ VGRLD +T GLL+LTNDG A Sbjct: 63 VYYLLYKPRGVISAAKDNKGREVVTDYLKDVPERLYPVGRLDYDTSGLLILTNDGDFANQ 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + + Y + G + D + L+ G+VI G + + ++ K + + V++ Sbjct: 123 MMHPRYKVDKTYVAKVEGLITPDSIKKLRNGVVIDGKPTSRARAKILSRDAKKNTSIVSL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+ ++KK+F+ KV +L R +YG L L +G RE+S +RE L Sbjct: 183 TIHEGRYHQVKKMFDAVGHKVQKLSRTTYGTLTLDGLTSGEYRELSHNEVRELL 236 >gi|254466733|ref|ZP_05080144.1| RNA pseudouridine synthase family protein [Rhodobacterales bacterium Y4I] gi|206687641|gb|EDZ48123.1| RNA pseudouridine synthase family protein [Rhodobacterales bacterium Y4I] Length = 355 Score = 302 bits (773), Expect = 6e-80, Method: Composition-based stats. Identities = 146/341 (42%), Positives = 204/341 (59%), Gaps = 11/341 (3%) Query: 2 KDKNIVQENFTPQ--RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + + E P+ R++KV++RAG+ASRRE ERMIA+ RV VNG ++ A+NV + D Sbjct: 23 RKAPAIPEGAAPEGDRIAKVLSRAGVASRREAERMIAEGRVSVNGKKIDSPALNVTARDR 82 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I +DG PL +AE R+WLY+KPIGLVT++SD GR T+FD LP RV++VGRLD+N+E Sbjct: 83 ISIDGQPLPEAEGPRMWLYYKPIGLVTSNSDEKGRKTIFDELPEDMPRVMTVGRLDLNSE 142 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLTNDGG+ R LELP+T WLR YRVR +G+ + L+KG+VI+G + M V+L Sbjct: 143 GLLLLTNDGGIKRKLELPATGWLRRYRVRINGRPKDEDFAPLRKGLVIEGERFQPMTVSL 202 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 D Q+G+NAW+TVGLREGKNREI++ E + VNRL+R+SYGPFQLG L G E+ + Sbjct: 203 DRQQGANAWLTVGLREGKNREIRRAMEDIGFSVNRLLRVSYGPFQLGNLKPGEVEELRPR 262 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 ++R+QLG L EE ++ P + +P + + + K Sbjct: 263 VVRDQLG--LAEEEEIPAARPTRARGGKPAGKP-MGKPAGKPMGKPAGKPAGKQAAQPSG 319 Query: 300 KLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPS 340 K P A + G + ++P Sbjct: 320 KQGNPG------RTAGKAPPARGTRPDQRGGGKRPAGKNPR 354 >gi|227890935|ref|ZP_04008740.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus salivarius ATCC 11741] gi|227867344|gb|EEJ74765.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus salivarius ATCC 11741] Length = 242 Score = 302 bits (773), Expect = 7e-80, Method: Composition-based stats. Identities = 84/234 (35%), Positives = 132/234 (56%), Gaps = 2/234 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR E++I + RV VNG+++ V S D I VDG L+K E+ Sbjct: 3 ERLQKVMANAGVASRRASEKLIQEGRVMVNGVVVTELGTKVESDDSISVDGKLLKKDEKK 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D GR V D L + R+ VGRLD +T GLL+LTNDG A Sbjct: 63 VYYLLYKPRGVISAAKDNKGREVVTDYLKDVPERLYPVGRLDYDTSGLLILTNDGDFANQ 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + + Y + G + D + L+ G+VI G + + ++ K + + V++ Sbjct: 123 MMHPRYKVDKTYVAKVEGLITPDSIKKLRNGVVIDGKPTSRARAKIISRDAKKNTSIVSL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+ ++KK+F+ KV +L R +YG L L +G RE+S +RE L Sbjct: 183 TIHEGRYHQVKKMFDAVGHKVQKLSRTTYGTLTLDGLTSGEYRELSHNEVRELL 236 >gi|254486476|ref|ZP_05099681.1| ribosomal large subunit pseudouridine synthase B [Roseobacter sp. GAI101] gi|214043345|gb|EEB83983.1| ribosomal large subunit pseudouridine synthase B [Roseobacter sp. GAI101] Length = 336 Score = 302 bits (773), Expect = 7e-80, Method: Composition-based stats. Identities = 148/338 (43%), Positives = 196/338 (57%), Gaps = 9/338 (2%) Query: 1 MKDKNIVQENFT----PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS 56 M +N Q T R++KV++RAG+ASRRE ERMI RV+VNG+ ++ A+NV + Sbjct: 1 MSQENPTQPPKTDTPPGDRIAKVLSRAGLASRREAERMIEAGRVRVNGVQIDSPALNVTA 60 Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 D+I VDG P+ E R+WLYHKP GLVTT+ D GR T+FD+LP RV+S+GRLD+ Sbjct: 61 ADNITVDGKPVGDPEPPRMWLYHKPTGLVTTNRDEKGRGTIFDDLPEDMPRVMSIGRLDL 120 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 N+EGLLLLTNDG + R LELPS WLR YRVR +G+ + L L++GI + G + M Sbjct: 121 NSEGLLLLTNDGDVKRKLELPSNGWLRRYRVRVNGRPSDEVLEPLRRGITVDGEEFQPMT 180 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 VTLD Q+G+NAW+TVGLREGKNREI++ E N VNRLIR SYGPFQLG L G E+ Sbjct: 181 VTLDRQQGANAWLTVGLREGKNREIRRAMEAVNLSVNRLIRTSYGPFQLGELKPGEVEEL 240 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 +K++R+QLG +E A +V+ +P + K +K Sbjct: 241 KRKVVRDQLG---IEIEDNTGTAVKKKPSHIVKRKPRKPGAPGPGRPGLPKEPGEKTATG 297 Query: 297 K--QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQRE 332 K K + A G R+ Sbjct: 298 KVIPGKPKPGYGKSKAPRPPSDAPGPRKFGTRVKSTRK 335 >gi|253576375|ref|ZP_04853705.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14] gi|251844268|gb|EES72286.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14] Length = 256 Score = 301 bits (772), Expect = 8e-80, Method: Composition-based stats. Identities = 83/235 (35%), Positives = 131/235 (55%), Gaps = 4/235 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 N +R+ K++A AG+ASRR+ E +I +V+VNG + + D I V+G P+ Sbjct: 6 NANMERLQKILAAAGVASRRKCEELILSGKVQVNGETVTTLGTKADPSVDVITVEGKPI- 64 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 AE+ +++KP G++T+ SDP GR V D L I RV VGRLD +TEGLLLLTNDG Sbjct: 65 GAEKKLYLMFNKPKGVITSASDPQGRKIVTDYLKGIKERVYPVGRLDYDTEGLLLLTNDG 124 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSN 186 A +L P + Y G L+ LK+G++++ +V + Sbjct: 125 EFAHLLTHPKHHVPKTYLATVKGVPHGTALDKLKQGVMLEDGMTAPAEVEYYDIDPEEKY 184 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 A +++ + EG+NR+++++F+ + V RL RIS+G LG L G R ++K+ + Sbjct: 185 ATISITIHEGRNRQVRRMFDAISHPVTRLKRISFGDLVLGNLKRGLYRHLTKEEV 239 >gi|254473658|ref|ZP_05087054.1| pseudouridylate synthase, subunit B protein [Pseudovibrio sp. JE062] gi|211957370|gb|EEA92574.1| pseudouridylate synthase, subunit B protein [Pseudovibrio sp. JE062] Length = 681 Score = 301 bits (772), Expect = 8e-80, Method: Composition-based stats. Identities = 161/383 (42%), Positives = 213/383 (55%), Gaps = 33/383 (8%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K K T +R++K +ARAG+ SRRE E I RV VNG +L+ A V D + Sbjct: 25 KKKQEETVTVTGERIAKAMARAGLCSRREAETWIEAGRVSVNGNVLDTPAFTVTQKDKVY 84 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VDG PL ERTRLWL+HKP G VTT+ DP+GR TVFD LP RV++VGRLDINTEGL Sbjct: 85 VDGKPLPTRERTRLWLFHKPRGTVTTNKDPEGRKTVFDILPKDMPRVVTVGRLDINTEGL 144 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDGGL+RV+ELP+T WLR YRVR G+V Q++L+ LK G+ I G+ YG ++ TLDT Sbjct: 145 LLLTNDGGLSRVIELPATGWLRRYRVRAFGKVTQEQLDALKDGVAIDGVLYGAIEATLDT 204 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +KG N W+T+GLREGKNRE+K++ E + VNRLIRIS+GPFQLG L G +E+ ++L Sbjct: 205 EKGDNVWLTIGLREGKNREVKRILEHLDLSVNRLIRISFGPFQLGDLGEGELQEIRGRVL 264 Query: 242 REQLGPHLLEEAQVNLDAPI-------------------------------YSSETLVRD 270 R+QLG L+ EA ++ DAPI + ++ Sbjct: 265 RDQLGERLVSEADLDFDAPIINQMDARTSKKAEMKKKKKSSGGAGGGWISAKDAAAVLAK 324 Query: 271 RPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ 330 +D S++N +K++ + S G D G+ Sbjct: 325 HNKKPMRHGEDKRDGDGEGSERNPFGDRKRVGVKPTFGDRKS-FGDRDGGERKSFGDRGE 383 Query: 331 REENHRRSPSFPSKRSLRRTSAK 353 R+ R K R K Sbjct: 384 RKSFGDRD-RGDRKPFGDRGERK 405 >gi|126732069|ref|ZP_01747871.1| RNA pseudouridylate synthase family protein [Sagittula stellata E-37] gi|126707358|gb|EBA06422.1| RNA pseudouridylate synthase family protein [Sagittula stellata E-37] Length = 341 Score = 301 bits (771), Expect = 1e-79, Method: Composition-based stats. Identities = 153/342 (44%), Positives = 192/342 (56%), Gaps = 5/342 (1%) Query: 9 ENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +N TP R++KVIARAG ASRRE ERMIA+ RV VNG +++ A+NV D I VD P Sbjct: 2 DNKTPPGDRIAKVIARAGRASRREAERMIAEGRVAVNGTVIDSPALNVTDKDRITVDDTP 61 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L E RLWLYHK GLVTT D GR T++D+LP RV+SVGRLD+N+EGLLLLTN Sbjct: 62 LDGPEEARLWLYHKSTGLVTTTKDEQGRPTIYDDLPDDLPRVMSVGRLDLNSEGLLLLTN 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGL R LELPST WLR YRVR +G+ L L+ G+ + G + M V+LD Q+G+N Sbjct: 122 DGGLKRRLELPSTGWLRRYRVRINGRPTDPMLQPLRDGLTVDGQTFQPMIVSLDRQQGAN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 AW+TVGLREGKNREI++ VNRLIRISYGPFQLG + G +EV +KILR+QLG Sbjct: 182 AWLTVGLREGKNREIRRAMADLGLSVNRLIRISYGPFQLGQMKPGEVQEVRRKILRDQLG 241 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 L E + P + R + R + +K +P Sbjct: 242 LGLDAEPEAE-AKPKPGLQPRTRKSRAAPTSAKPVPARSGAGGGKSVTGGPARKSTSPGA 300 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + S G + R R + R Sbjct: 301 KPAGKS--GPKPGGRAGPAKGKPTRSAPSRPGAGHGPSKPRR 340 >gi|307267525|ref|ZP_07549006.1| pseudouridine synthase [Thermoanaerobacter wiegelii Rt8.B1] gi|326391079|ref|ZP_08212626.1| pseudouridine synthase [Thermoanaerobacter ethanolicus JW 200] gi|306917457|gb|EFN47750.1| pseudouridine synthase [Thermoanaerobacter wiegelii Rt8.B1] gi|325992864|gb|EGD51309.1| pseudouridine synthase [Thermoanaerobacter ethanolicus JW 200] Length = 236 Score = 301 bits (771), Expect = 1e-79, Method: Composition-based stats. Identities = 76/229 (33%), Positives = 122/229 (53%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K +A GIASRR+ E I Q RVKVNG +++ V + D IE D +R+ ++ Sbjct: 2 ERLQKYLAECGIASRRKCEEYILQGRVKVNGKVVKELGVKINPDVDIIEFDDKIVRREKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ D GR TV D + + R+ VGRLD +T GLLLLTNDG +A Sbjct: 62 KVYIMLNKPTGYITSVKDQFGRPTVMDLV-KVKERIYPVGRLDYDTSGLLLLTNDGEIAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +L P + ++ Y + G Q++L + G++I ++ + K + V + Sbjct: 121 ILMHPRHEIVKTYIAKIKGIPTQEELERFRNGLLIGDYLTSKAEIEILAVKNGTSVVEIK 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGKNR+++++ E V L R G L L G R +++K + Sbjct: 181 IHEGKNRQVRRMCEAIGHPVISLTRTKIGELSLEGLKPGEWRYLTQKEI 229 >gi|46201216|ref|ZP_00208014.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Magnetospirillum magnetotacticum MS-1] Length = 294 Score = 301 bits (771), Expect = 1e-79, Method: Composition-based stats. Identities = 156/300 (52%), Positives = 195/300 (65%), Gaps = 9/300 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R++K +ARAG+ SRRE ER I RV VNG L+ A V D I VDG PL + Sbjct: 3 EEKGERIAKRLARAGLCSRREAERWIEMGRVSVNGKTLDSPACVVGPGDIILVDGTPLSE 62 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+TRLW YHKP GLVTTH DP+GR TVFD+LP RVISVGRLD+N+EGLLLLTNDG Sbjct: 63 PEKTRLWRYHKPAGLVTTHKDPEGRPTVFDHLPEGMPRVISVGRLDLNSEGLLLLTNDGE 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LAR LELPS WLR YRVR HG+V +D L L+ GI I G+ YG + TLD ++G+NAW+ Sbjct: 123 LARKLELPSNAWLRRYRVRVHGEVSEDALARLENGITIDGMAYGPISATLDRRQGANAWL 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 +V LREGKNREI++V EF W V+RLIR+SYGPFQLGTL G+ EV+ K+LREQ+G Sbjct: 183 SVSLREGKNREIRRVMEFLGWPVSRLIRVSYGPFQLGTLEEGAADEVAGKVLREQMG--- 239 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 E V P S + ++ R +K + K+ S +K + RR+ Sbjct: 240 -EGKAVLKPRPENKSAGEREKEQRVAAKA-----RKQKLADDKHAASAKKAKSDAHRRRS 293 >gi|86140014|ref|ZP_01058578.1| RNA pseudouridylate synthase family protein [Roseobacter sp. MED193] gi|85823264|gb|EAQ43475.1| RNA pseudouridylate synthase family protein [Roseobacter sp. MED193] Length = 394 Score = 301 bits (771), Expect = 1e-79, Method: Composition-based stats. Identities = 148/352 (42%), Positives = 202/352 (57%), Gaps = 12/352 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV++RAG+ASRRE ERMIA+ RVKVNG ++ A+NV D I VDG PL +AE R Sbjct: 42 RIAKVLSRAGVASRREAERMIAEGRVKVNGTKIDSPALNVTERDRIIVDGKPLPQAEAPR 101 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LWLY+KP GLVT++SD GR T+FD LP RV++VGRLD+N+EGLLLLTNDGG+ R L Sbjct: 102 LWLYNKPTGLVTSNSDEKGRRTIFDELPEDLPRVMTVGRLDLNSEGLLLLTNDGGIKRRL 161 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR +G+ + L+KG+VI+G + M V LD Q+G+NAW+T+GLR Sbjct: 162 ELPSTGWLRRYRVRINGRPKDEDFEPLRKGMVIEGERFQPMTVALDRQQGANAWLTIGLR 221 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP-----HL 249 EGKNREI++ E + VNRL+R+SYGPFQLG+L G E+ +++R+QLG Sbjct: 222 EGKNREIRRALEDIGFNVNRLLRLSYGPFQLGSLKLGEVEELRPRVVRDQLGLEAEDMEE 281 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 A+ P +P + K + G + P + + Sbjct: 282 TPAARPTRGRPGAKPGQKPSGKPGSKTAPKSGGMTFGKPKGKPTGRPADESTGRPTGKSS 341 Query: 310 LASNVWMA--KGIHSS-----FLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + G S+ SG N + P S ++ + Sbjct: 342 GKPGGKPSGKPGTRSAGSFNDKPGGSGAASRNGKPGPRGASSKARPMGKNPR 393 >gi|294501116|ref|YP_003564816.1| pseudouridine synthase [Bacillus megaterium QM B1551] gi|295706463|ref|YP_003599538.1| pseudouridine synthase [Bacillus megaterium DSM 319] gi|294351053|gb|ADE71382.1| pseudouridine synthase [Bacillus megaterium QM B1551] gi|294804122|gb|ADF41188.1| pseudouridine synthase [Bacillus megaterium DSM 319] Length = 241 Score = 300 bits (770), Expect = 1e-79, Method: Composition-based stats. Identities = 84/233 (36%), Positives = 133/233 (57%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I Q RVKVNG ++ V D IEVD VP+ +E Sbjct: 2 ERLQKVIAHAGVASRRKAEELIGQGRVKVNGKVVRELGTKVGPNDKIEVDEVPVE-SEAP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G+++ +D GR TV D P + R+ +GRLD +T GLLLLTNDG A Sbjct: 61 VYFMLYKPRGVISAANDDKGRKTVVDFFPHVEERIYPIGRLDYDTSGLLLLTNDGEFANQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 L P + +VY + G ++K+ L++G++++ + + + S A V + Sbjct: 121 LMHPKFEVDKVYVAKIKGIPSREKIRQLQRGVMLEDGKTAPARAKVLSIDKSKQTAIVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EGKNR+++++F+ V +L R YGP L L AG RE++ +++ Sbjct: 181 TIHEGKNRQVRRMFDAIGHSVLKLKRERYGPLDLRGLNAGEARELTAHEVKQL 233 >gi|110632789|ref|YP_672997.1| pseudouridine synthase, Rsu [Mesorhizobium sp. BNC1] gi|110283773|gb|ABG61832.1| Pseudouridine synthase, Rsu [Chelativorans sp. BNC1] Length = 466 Score = 300 bits (770), Expect = 1e-79, Method: Composition-based stats. Identities = 160/361 (44%), Positives = 215/361 (59%), Gaps = 10/361 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 KD+ +R++K +ARAG+ASRR+ E MI RVKVNG +L A NV +D IE Sbjct: 37 KDEIREDGRTDGERIAKRLARAGLASRRDAEAMIEAGRVKVNGRVLSSPAFNVRPSDRIE 96 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VD PL AERTRL+L+HKP G+VTT DP+GR T+FD LP R+I+VGRLDINTEGL Sbjct: 97 VDDEPLPAAERTRLFLFHKPAGVVTTTRDPEGRRTIFDTLPEGLPRLITVGRLDINTEGL 156 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 +LLTNDGGLAR LELPST WLR YRVR HG+VD L L+KGI + G+ YG + +LD Sbjct: 157 ILLTNDGGLARALELPSTGWLRRYRVRVHGKVDPKALAELEKGIAVDGVFYGAITASLDR 216 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 Q+GSNAW+T+GLREGKNRE+K V +V RLIR+SYGPFQLG L G+ EV + L Sbjct: 217 QQGSNAWLTLGLREGKNREVKNVLGALGLEVTRLIRVSYGPFQLGDLPEGAVLEVKGRTL 276 Query: 242 REQLGPHLLEEAQVNLDAPIY--------SSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 R+QLG L+E+A + +API +E + + + ++ R ++ + + Sbjct: 277 RDQLGERLIEQAGADFEAPIAIPFANKPVRAERRKPEEEKRKTGLEENAGRQERKPANRR 336 Query: 294 GLSKQKKLATPVHRRNLASNVWMAKG--IHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 ++K + + + KG H + + R S + S + Sbjct: 337 KSREEKHEEARDRLQTKRPDDFKGKGSAAHKGKDQRPPRISKTARPEKSGQERMSGDSKA 396 Query: 352 A 352 Sbjct: 397 E 397 >gi|212638876|ref|YP_002315396.1| Pseudouridine synthase [Anoxybacillus flavithermus WK1] gi|212560356|gb|ACJ33411.1| Pseudouridine synthase [Anoxybacillus flavithermus WK1] Length = 255 Score = 300 bits (770), Expect = 2e-79, Method: Composition-based stats. Identities = 83/245 (33%), Positives = 135/245 (55%), Gaps = 3/245 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 E +R+ KVIA AG+ASRR+ E++I + +VKVNG ++ V V D IEVDG+PL Sbjct: 6 SEVNEMERLQKVIAHAGVASRRKAEQLIVEGKVKVNGKVVTELGVKVSPQDRIEVDGIPL 65 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + E +L +KP G++++ D GR V D + R+ +GRLD +T GLLLLTND Sbjct: 66 EREE-PVYYLLYKPRGVISSVKDEKGRKVVTDFFKHVNKRIYPIGRLDYDTSGLLLLTND 124 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGS 185 G A +L P + +VY + G ++K+ L+KG++++ + + + ++ Sbjct: 125 GEFANILMHPRYEIEKVYIAKVKGIPAREKVKQLEKGVMLEDGVTAPAKAKVLSIDKRKQ 184 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 A V + + EG+NR+++++FE V +L R Y L L G RE+S +++ Sbjct: 185 TAIVELRIHEGRNRQVRRMFEAIGHPVLKLKRERYAFLDLKGLNPGDYRELSPHEVKQLR 244 Query: 246 GPHLL 250 L Sbjct: 245 ALALA 249 >gi|254509889|ref|ZP_05121956.1| ribosomal large subunit pseudouridine synthase [Rhodobacteraceae bacterium KLH11] gi|221533600|gb|EEE36588.1| ribosomal large subunit pseudouridine synthase [Rhodobacteraceae bacterium KLH11] Length = 298 Score = 300 bits (770), Expect = 2e-79, Method: Composition-based stats. Identities = 145/278 (52%), Positives = 186/278 (66%), Gaps = 5/278 (1%) Query: 1 MKDKNIVQENFTP-QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ + P R++KV+ARAGIASRRE ERMI RV VNG + A+NV D Sbjct: 22 MRYGRGMSNTPPPGDRIAKVLARAGIASRREAERMIEAGRVAVNGKPINSPALNVTGKDK 81 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I VDG P+ + E +RLWLYHKP GLVTT D GR+T+FD LP RV+SVGRLD+N+E Sbjct: 82 ITVDGKPVSEPEPSRLWLYHKPPGLVTTARDEKGRTTIFDKLPENMPRVMSVGRLDLNSE 141 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLTNDGG+ R LELPST WLR YRVR +G+ + L+KG+VI G + M VTL Sbjct: 142 GLLLLTNDGGIKRKLELPSTGWLRKYRVRVNGRPRDEDFAPLRKGLVIDGERFQPMTVTL 201 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 D Q+G+NAW+T+GLREGKNREI++ E + VNRL+R+SYGPFQLG L G E+ ++ Sbjct: 202 DRQQGANAWLTIGLREGKNREIRRAIEDIGYVVNRLLRVSYGPFQLGDLKPGEVEEIRRR 261 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 ++R+QLG +A+ + AP R RP I + Sbjct: 262 VMRDQLGL----DAEGDGKAPAKRPARPQRKRPAIGKK 295 >gi|167037554|ref|YP_001665132.1| pseudouridine synthase [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|167040216|ref|YP_001663201.1| pseudouridine synthase [Thermoanaerobacter sp. X514] gi|300914300|ref|ZP_07131616.1| pseudouridine synthase [Thermoanaerobacter sp. X561] gi|307724464|ref|YP_003904215.1| pseudouridine synthase [Thermoanaerobacter sp. X513] gi|320115969|ref|YP_004186128.1| pseudouridine synthase [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|166854456|gb|ABY92865.1| pseudouridine synthase [Thermoanaerobacter sp. X514] gi|166856388|gb|ABY94796.1| pseudouridine synthase [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|300889235|gb|EFK84381.1| pseudouridine synthase [Thermoanaerobacter sp. X561] gi|307581525|gb|ADN54924.1| pseudouridine synthase [Thermoanaerobacter sp. X513] gi|319929060|gb|ADV79745.1| pseudouridine synthase [Thermoanaerobacter brockii subsp. finnii Ako-1] Length = 236 Score = 300 bits (770), Expect = 2e-79, Method: Composition-based stats. Identities = 76/229 (33%), Positives = 122/229 (53%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K +A GIASRR+ E I Q RVKVNG +++ V + D IE D +R+ ++ Sbjct: 2 ERLQKYLAECGIASRRKCEEYILQGRVKVNGKVVKELGVKINPDVDIIEFDDKIVRREKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ D GR TV D + + R+ VGRLD +T GLLLLTNDG +A Sbjct: 62 KVYIMLNKPTGYITSVKDQFGRPTVMDLV-KVKERIYPVGRLDYDTSGLLLLTNDGEIAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +L P + ++ Y + G Q++L + G++I ++ + K + V + Sbjct: 121 ILMHPRHEIVKTYIAKIKGIPTQEELERFRNGLLIGDYLTSKAEIEILAVKNGTSVVEIK 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGKNR+++++ E V L R G L L G R +++K + Sbjct: 181 IHEGKNRQVRRMCEAIGHPVISLTRTKIGDLSLEGLKPGKWRYLTQKEI 229 >gi|332557705|ref|ZP_08412027.1| RNA-binding S4 domain-containing protein [Rhodobacter sphaeroides WS8N] gi|332275417|gb|EGJ20732.1| RNA-binding S4 domain-containing protein [Rhodobacter sphaeroides WS8N] Length = 385 Score = 300 bits (770), Expect = 2e-79, Method: Composition-based stats. Identities = 139/304 (45%), Positives = 177/304 (58%), Gaps = 1/304 (0%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + ++ +R++KV++RAGIASRR+ ERMI R+ VNG ++ A+NV D I VDG P Sbjct: 1 MTDSKDGERIAKVLSRAGIASRRDAERMIELGRIAVNGRTIDSPALNVGPKDRITVDGQP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L E RLWLY+KP GLVT+ SD GR TVFD+LP RV+SVGRLD+N+EGLLLLTN Sbjct: 61 LAPPEPARLWLYYKPEGLVTSASDEKGRETVFDHLPEGMPRVMSVGRLDLNSEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L R LELPST WLR YRVR G L L+KGI ++G + M V+LD +G+N Sbjct: 121 DGELKRRLELPSTGWLRKYRVRVKGNPTDADLEPLRKGITVEGESFQPMTVSLDRVQGAN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 AW+TVGLREGKNREI++ VNRLIR+SYGPF+L L G EV KILR+QLG Sbjct: 181 AWLTVGLREGKNREIRRAMSALGLTVNRLIRVSYGPFRLNELEPGMVEEVRPKILRDQLG 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK-QKKLATPV 305 + + + + G + A P Sbjct: 241 LDPHADGEARPARGRKPEGAARAEGAARSERAARPPRGAAAEGPARAGRGAGSEGAAGPA 300 Query: 306 HRRN 309 R+ Sbjct: 301 KGRS 304 >gi|228990582|ref|ZP_04150547.1| Pseudouridine synthase [Bacillus pseudomycoides DSM 12442] gi|228996683|ref|ZP_04156320.1| Pseudouridine synthase [Bacillus mycoides Rock3-17] gi|229004333|ref|ZP_04162121.1| Pseudouridine synthase [Bacillus mycoides Rock1-4] gi|228756916|gb|EEM06173.1| Pseudouridine synthase [Bacillus mycoides Rock1-4] gi|228763002|gb|EEM11912.1| Pseudouridine synthase [Bacillus mycoides Rock3-17] gi|228769108|gb|EEM17706.1| Pseudouridine synthase [Bacillus pseudomycoides DSM 12442] Length = 244 Score = 300 bits (770), Expect = 2e-79, Method: Composition-based stats. Identities = 83/236 (35%), Positives = 138/236 (58%), Gaps = 3/236 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ KVIA+AGIASRR+ E +I Q +VKVNG ++ V D +EV+ +PL K Sbjct: 1 MEMERLQKVIAQAGIASRRKAEELIQQGKVKVNGKVVTELGTKVTPQDKVEVNNIPLEKE 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +L +KP G++++ SD GR V D P I R+ +GRLD +T G+LL+TNDG Sbjct: 61 E-PIYFLLYKPTGVISSVSDDKGRKVVTDFFPEITQRLFPIGRLDYDTSGVLLMTNDGDF 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A +L P + + Y + G + +K+ +L+KG+V++ +V + + ++ A Sbjct: 120 ANILMHPKYKVEKTYVAKVKGPLTGEKIRMLEKGVVLEDGKTAPARVKILSWDKRKEMAI 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V + + EG+NR+++++FE KV +L R Y ++G+L G RE+S +++ Sbjct: 180 VQLTIHEGRNRQVRRMFEALGCKVMKLKRERYAFLEVGSLRPGDARELSPHEVKQL 235 >gi|126739258|ref|ZP_01754952.1| RNA pseudouridylate synthase family protein [Roseobacter sp. SK209-2-6] gi|126719875|gb|EBA16583.1| RNA pseudouridylate synthase family protein [Roseobacter sp. SK209-2-6] Length = 377 Score = 300 bits (769), Expect = 2e-79, Method: Composition-based stats. Identities = 143/312 (45%), Positives = 191/312 (61%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + + T R++KV++RAG+ASRRE ERMIA+ R+ VNG +++ A+NV + I Sbjct: 57 SNDKVDHPPSTGDRIAKVLSRAGVASRREAERMIAEGRISVNGTVIDSPALNVTGQERIL 116 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VDG PL +AE RLWLYHKP GLVTT+ D GR T+FD+LP RV++VGRLD+N+EGL Sbjct: 117 VDGAPLPQAEAPRLWLYHKPSGLVTTNRDEKGRKTIFDDLPETLPRVMTVGRLDLNSEGL 176 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDGG+ R LELPST WLR YRVR +G+ ++ L+KG+VI G + M V LD Sbjct: 177 LLLTNDGGIKRKLELPSTGWLRRYRVRINGRPKEEDFAPLRKGLVIDGERFQPMIVDLDR 236 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 Q+G+NAW+TVGLREGKNREI++ E + VNRL+R+SYGPFQLG L G E+ ++L Sbjct: 237 QQGANAWLTVGLREGKNREIRRAMEDIGYNVNRLLRVSYGPFQLGDLKPGEVEELRPRVL 296 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R+QLG E S + R K +S+ + K Sbjct: 297 RDQLGLEAETEESTPKPRAQRSRGPAPSKGKSDAVRAGAKPGRGKPLASRNSSEGAAKAG 356 Query: 302 ATPVHRRNLASN 313 P ++ Sbjct: 357 GKPRQGQSRKKP 368 >gi|90419975|ref|ZP_01227884.1| pseudouridine synthase, rRNA [Aurantimonas manganoxydans SI85-9A1] gi|90336016|gb|EAS49764.1| pseudouridine synthase, rRNA [Aurantimonas manganoxydans SI85-9A1] Length = 497 Score = 300 bits (769), Expect = 2e-79, Method: Composition-based stats. Identities = 163/394 (41%), Positives = 222/394 (56%), Gaps = 59/394 (14%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +ARAGIASRR+ E MIA RVK+NG +L+ AV V ++D IE+D PL ERT Sbjct: 69 MRIAKRLARAGIASRRDAEGMIADGRVKLNGKVLDTPAVVVTASDRIEIDNAPLPAIERT 128 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWL+HK G VTT+ DP+GR T+FD LPS RV++VGRLDINTEGLLLLTNDGGLAR+ Sbjct: 129 RLWLFHKAAGTVTTNRDPEGRPTIFDRLPSDMPRVLTVGRLDINTEGLLLLTNDGGLARI 188 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T WLR YRVR HG + Q +L+ L++GI I G+ YG ++ T+D ++GSN W+T+GL Sbjct: 189 LELPATGWLRRYRVRAHGAITQARLDELRQGIAIDGVFYGAIEATMDREQGSNVWLTLGL 248 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE+KKV +VNRLIR+S+GPFQLG L GS +E+ ++LR+QLG L+EE+ Sbjct: 249 REGKNREVKKVLAHLGLEVNRLIRLSFGPFQLGDLKEGSVQEIKGRMLRDQLGERLIEES 308 Query: 254 QVNLDAPIY------------------------SSETLVRDRPNIISEVPDDFTRMKKNS 289 + DAP+ +SET + ++ D R+ + Sbjct: 309 GADFDAPVAKPFSNRPVEAERTERPKKADEWISASETAPNKKRVREAKREDALGRLDTRA 368 Query: 290 SQKNGLSKQKK-------------LATPVHRRN--------------------LASNVWM 316 + + + P R+ ++NVWM Sbjct: 369 GRPERNDRGDRKPYGERPAKRFEGPKKPYGDRDAAGGRDDAASPPKRPIDAPKRSANVWM 428 Query: 317 AKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 A G + + R PS+ Sbjct: 429 APGARPQGTKKALGSQAG--RPDRGPSRGERPSG 460 >gi|260425745|ref|ZP_05779725.1| ribosomal large subunit pseudouridine synthase B [Citreicella sp. SE45] gi|260423685|gb|EEX16935.1| ribosomal large subunit pseudouridine synthase B [Citreicella sp. SE45] Length = 316 Score = 300 bits (768), Expect = 2e-79, Method: Composition-based stats. Identities = 139/263 (52%), Positives = 177/263 (67%), Gaps = 3/263 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV+ARAG+ASRRE E+MI RV VNG ++ RAA+NV D + VDG P+ E R Sbjct: 56 RIAKVLARAGVASRREAEKMIEMGRVAVNGEIITRAALNVTDKDKVTVDGKPVDAPEDPR 115 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +WLYHKP GLVTT D GR T++D+LP RV+SVGRLD+N+EGLLLLTNDG + R L Sbjct: 116 IWLYHKPAGLVTTTKDEQGRPTIYDDLPEELPRVMSVGRLDLNSEGLLLLTNDGSIKRRL 175 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR +G+ D L L+ GIV+ G + M+VTLD Q+G+NAW+T+GLR Sbjct: 176 ELPSTGWLRKYRVRVNGKPSDDMLAPLRAGIVVDGQAFQPMEVTLDRQQGANAWLTIGLR 235 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNREI++ VNRLIR+SYGPFQLG L G +EV +++R+QLG LE A+ Sbjct: 236 EGKNREIRRAMTDIGLTVNRLIRVSYGPFQLGQLKQGEVQEVRSRVVRDQLG---LEGAK 292 Query: 255 VNLDAPIYSSETLVRDRPNIISE 277 N P + Sbjct: 293 SNRPQPTRRRKPAPDGAKQSPKR 315 >gi|99081768|ref|YP_613922.1| pseudouridine synthase, Rsu [Ruegeria sp. TM1040] gi|99038048|gb|ABF64660.1| Pseudouridine synthase Rsu [Ruegeria sp. TM1040] Length = 422 Score = 300 bits (768), Expect = 3e-79, Method: Composition-based stats. Identities = 145/323 (44%), Positives = 194/323 (60%), Gaps = 5/323 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV++RAG+ASRRE ERMIA+ RV VNG +++ A+NV + D I VDG PL +AE R Sbjct: 63 RIAKVLSRAGVASRREAERMIAEGRVAVNGKVIDSPALNVTNLDRIVVDGNPLPEAEAPR 122 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LWLY+KP GLVTT SD GR T+FD LP RV++VGRLD+N+EGLLLLTNDGG+ R L Sbjct: 123 LWLYYKPNGLVTTTSDEKGRKTIFDALPEDLPRVMTVGRLDLNSEGLLLLTNDGGVKRQL 182 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR +G+ + ++L+KG+VI G + M ++LD Q+G+NAW+T+GLR Sbjct: 183 ELPSTGWLRRYRVRINGRPQDHEFDVLRKGVVIDGERFQPMTISLDRQQGANAWLTIGLR 242 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNREI++ E + VNRL+RISYGPFQLGTL G E+ +++R+QLG E Sbjct: 243 EGKNREIRRAMEEVGYPVNRLLRISYGPFQLGTLKEGEVEELRPRVVRDQLGLAAPEGDG 302 Query: 255 VNLDAPIYSSETLVRDRPNIISE---VPDDFTRMKKNSSQKNGL--SKQKKLATPVHRRN 309 P + P+ K G S + + Sbjct: 303 EAKKKPTRPGRGPRNPGAKTAGKGIGAPNARPTGKGAVKAPEGRVFSGKTFSGKTTGKTA 362 Query: 310 LASNVWMAKGIHSSFLSDSGQRE 332 +G S G ++ Sbjct: 363 GKPAAHKGQGGKPSGPKSFGTKQ 385 >gi|256752042|ref|ZP_05492910.1| pseudouridine synthase [Thermoanaerobacter ethanolicus CCSD1] gi|256749052|gb|EEU62088.1| pseudouridine synthase [Thermoanaerobacter ethanolicus CCSD1] Length = 236 Score = 300 bits (768), Expect = 3e-79, Method: Composition-based stats. Identities = 76/229 (33%), Positives = 122/229 (53%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K +A GIASRR+ E I Q RVKVNG +++ V + D IE D +R+ ++ Sbjct: 2 ERLQKYLAECGIASRRKCEEYILQGRVKVNGKVVKELGVKINPDVDIIEFDDKIVRREKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ D GR TV D + + R+ VGRLD +T GLLLLTNDG +A Sbjct: 62 KVYIILNKPTGYITSVKDQFGRPTVMDLV-KVKERIYPVGRLDYDTSGLLLLTNDGEIAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +L P + ++ Y + G Q++L + G++I ++ + K + V + Sbjct: 121 ILMHPRHEIVKTYIAKIKGIPTQEELERFRNGLLIGDYLTSKAEIEILAVKNGTSVVEIK 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGKNR+++++ E V L R G L L G R +++K + Sbjct: 181 IHEGKNRQVRRMCEAIGHPVISLTRTKIGDLSLEGLKPGKWRYLTQKEI 229 >gi|188583517|ref|YP_001926962.1| RNA-binding S4 domain protein [Methylobacterium populi BJ001] gi|179347015|gb|ACB82427.1| RNA-binding S4 domain protein [Methylobacterium populi BJ001] Length = 577 Score = 299 bits (767), Expect = 3e-79, Method: Composition-based stats. Identities = 151/352 (42%), Positives = 201/352 (57%), Gaps = 13/352 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R++K IARAGIASRR+ E MI RV +NG +L A+NV +D I +DG PL E Sbjct: 24 EGERIAKAIARAGIASRRDAEAMIEAGRVSLNGKILTSPAINVTESDRIAIDGEPLPARE 83 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RTRLWL HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGLLLLTNDGGLA Sbjct: 84 RTRLWLLHKPRGVVTTARDPEGRQTVFDGLPDDLPRVVAIGRLDINTEGLLLLTNDGGLA 143 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 +V+ P T WLR YRVR G + Q L+ LKKG+ + G+ YG ++ TLD +G N W+T+ Sbjct: 144 KVIAHPDTGWLRRYRVRAFGDITQADLDRLKKGVTVDGMEYGPVEATLDRVQGDNLWLTL 203 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 GLREGKNRE+K++ E VNRLIR+S+GPFQLG L G E+ K+L+EQLG L E Sbjct: 204 GLREGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEIRTKVLKEQLGKSLAE 263 Query: 252 EAQVNLD-------APIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 +A V+ + AP S + R + +E P + + + Sbjct: 264 QAGVDFESPVREAIAPFGSPKKAARAAQSPRAEAPAGRGGRQGAHDEGRSEPRSGARGGA 323 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSG------QREENHRRSPSFPSKRSLRRT 350 R A + + +E R+ P + + +T Sbjct: 324 AGRPPRDPARPAAPRAGARPAQRAPSPTVWRADDETRPRASKVPRRGTDPKT 375 >gi|254453766|ref|ZP_05067203.1| ribosomal large subunit pseudouridine synthase [Octadecabacter antarcticus 238] gi|198268172|gb|EDY92442.1| ribosomal large subunit pseudouridine synthase [Octadecabacter antarcticus 238] Length = 328 Score = 299 bits (767), Expect = 4e-79, Method: Composition-based stats. Identities = 140/304 (46%), Positives = 188/304 (61%), Gaps = 1/304 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV+ARAG+ASRRE E++I RV VNG + A+NV D I VDG PL + E R Sbjct: 24 RIAKVLARAGVASRREAEKIIEAGRVTVNGKTILTPALNVTDKDRIVVDGKPLAEPEPPR 83 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +WLY+KPIGLVT+ D GR TVFD LP RV+SVGRLDIN+EGLLLLTNDG L R + Sbjct: 84 IWLYYKPIGLVTSERDEKGRETVFDTLPDDMPRVVSVGRLDINSEGLLLLTNDGELKRKM 143 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR +G + + KL+ L+ GI I G+ Y ++V D Q+G+NAW+T+GLR Sbjct: 144 ELPSTGWLRRYRVRINGSLSEAKLDELRAGIQIDGVHYAPVEVKFDRQQGANAWLTMGLR 203 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNREI+K+ E VNRL+RISYGPFQLGTL G EV ++I+R+Q+G + Sbjct: 204 EGKNREIRKLMEAMGVVVNRLLRISYGPFQLGTLKPGKVEEVKQRIVRDQMGLRETPKPT 263 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNV 314 + A + ++ D + + + K ++ + P + + Sbjct: 264 MVGKAAEKGKRPPPKRGTAASAKRFTDPEK-RNSDPTKRNTGAVERNSGPTSGHSAGRSA 322 Query: 315 WMAK 318 Sbjct: 323 GKPP 326 >gi|304393184|ref|ZP_07375112.1| ribosomal large subunit pseudouridine synthase B [Ahrensia sp. R2A130] gi|303294191|gb|EFL88563.1| ribosomal large subunit pseudouridine synthase B [Ahrensia sp. R2A130] Length = 344 Score = 299 bits (766), Expect = 4e-79, Method: Composition-based stats. Identities = 148/325 (45%), Positives = 201/325 (61%), Gaps = 2/325 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 ++ +R++K +ARAG+ SRR+ ER I RVKVNG LL A V D IEVD L Sbjct: 13 EKPADAERIAKRMARAGLCSRRDAERWIEAGRVKVNGKLLTTPAHTVTPRDRIEVDDKLL 72 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ERTRLWL +K GLVTT+ DP+GR+T+F+ LP RV+SVGRLDINTEGLLLLTND Sbjct: 73 GGPERTRLWLLNKRSGLVTTNKDPEGRTTIFERLPDDLPRVLSVGRLDINTEGLLLLTND 132 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGLARVLELP+T WLR YRVR HGQ Q++L+ L GI + G+ YG ++ L+ Q+G+N Sbjct: 133 GGLARVLELPTTGWLRRYRVRAHGQTTQEELDKLADGIAVDGVLYGAIEAELERQQGTNV 192 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+T +REGKNRE+K V +VNRLIRISYGPFQLG L +G +EV ++LR+QLG Sbjct: 193 WLTFAMREGKNREVKNVLSALGLEVNRLIRISYGPFQLGDLASGEVQEVRGRMLRQQLGA 252 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 L+ + + DAP+ + T ++ P + N+ +K ++ P + Sbjct: 253 KLISASGADFDAPLAA--TAPKNNPVGEKIEKARPNKRGTNTPRKADPLERLTTQKPTQK 310 Query: 308 RNLASNVWMAKGIHSSFLSDSGQRE 332 + +G + G ++ Sbjct: 311 PGTKPSDGRGRGAKDKSSNKPGNKQ 335 >gi|86605480|ref|YP_474243.1| RNA pseudouridine synthase family protein [Synechococcus sp. JA-3-3Ab] gi|86554022|gb|ABC98980.1| RNA pseudouridine synthase family protein [Synechococcus sp. JA-3-3Ab] Length = 272 Score = 299 bits (766), Expect = 5e-79, Method: Composition-based stats. Identities = 89/248 (35%), Positives = 134/248 (54%), Gaps = 12/248 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 TPQR+ K++A+ G+ASRR+VE I R++VNG ++ D +EVDG + Sbjct: 3 TPQRLQKLLAQQGLASRRQVEAWILAGRIRVNGKVVTELGFKADPERDRVEVDGRVIPFG 62 Query: 71 ERTRL-WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTN 126 + R L HKP+G+++T DP GR TV D LP ++R + VGRLD ++ G LLLTN Sbjct: 63 DPARYVLLLHKPLGVLSTCKDPWGRKTVLDLLPPPWNRQIRLYPVGRLDADSSGALLLTN 122 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------- 179 DG L L P ++YRV+ G+ + L + G+ ++G +V Sbjct: 123 DGDLTLKLTHPRYHLPKIYRVQVQGRPSRATLQQWRDGVNLEGYTTLPAEVEFCPAPNFG 182 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 Q +++W+ V L EG+NR+I++V E V RL R + GP LG L AG R + + Sbjct: 183 YRQDANSSWLRVVLFEGRNRQIRRVAEQLGHPVLRLHREAIGPLHLGNLKAGQFRLLEPQ 242 Query: 240 ILREQLGP 247 ++ L P Sbjct: 243 EVQALLAP 250 >gi|78222432|ref|YP_384179.1| ribosomal large subunit pseudouridine synthase B [Geobacter metallireducens GS-15] gi|78193687|gb|ABB31454.1| ribosomal large subunit pseudouridine synthase B [Geobacter metallireducens GS-15] Length = 258 Score = 299 bits (766), Expect = 5e-79, Method: Composition-based stats. Identities = 92/256 (35%), Positives = 139/256 (54%), Gaps = 5/256 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++++AGIASRRE ERMI RV VNG + S+ D I VDG P+ E+ Sbjct: 3 ERLQKILSQAGIASRREAERMITDGRVAVNGKPVIELGAKADSSRDAITVDGKPVTVDEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G VTT DP+GR V + L + RV VGRLD NTEGLLLLTNDG A Sbjct: 63 RVYILLNKPVGYVTTLKDPEGRPIVTELLKGLGVRVFPVGRLDYNTEGLLLLTNDGEWAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y VR G V ++++ L++GI ++ +V++ Q +N WV++ Sbjct: 123 RLAHPRHEVDKEYLVRVRGTVAREQITRLEQGIELEDGKAAPARVSVTKQSDNNTWVSIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ----LGPH 248 + EG+ R+++++ E + V RL R+ YG +G L G+ R ++ + +G Sbjct: 183 IHEGRYRQVRRMCEAVSLSVVRLRRVRYGALSMGDLKIGAYRHLTSGEVAALSDGKIGAR 242 Query: 249 LLEEAQVNLDAPIYSS 264 + AP Sbjct: 243 GGAPRRRGPSAPPRKG 258 >gi|118590702|ref|ZP_01548103.1| pseudouridylate synthase, subunit B protein [Stappia aggregata IAM 12614] gi|118436678|gb|EAV43318.1| pseudouridylate synthase, subunit B protein [Stappia aggregata IAM 12614] Length = 520 Score = 299 bits (766), Expect = 5e-79, Method: Composition-based stats. Identities = 160/346 (46%), Positives = 205/346 (59%), Gaps = 2/346 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + N +R++KV+AR G+ SRRE E I RV++NG LL AV V D + VDG PL Sbjct: 97 EANDRGERIAKVMARVGLCSRREAEVWIENGRVELNGKLLTTPAVTVTPDDKVVVDGQPL 156 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV++VGRLDINTEGLLLLTND Sbjct: 157 PMRERTRLWLYHKPRGLVTTNKDPEGRPTVFERLPDDLPRVLTVGRLDINTEGLLLLTND 216 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGLARVLELP+T WLR YRVR G+V Q L+ LK GI I+G+ YG ++ TLD ++G+N Sbjct: 217 GGLARVLELPATGWLRRYRVRAFGKVTQPDLDTLKDGIAIEGVLYGAIEATLDKEQGNNV 276 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+TVGLREGKNRE+K+V E VNRLIR+SYGPFQL L G RE+ ++LR+QLG Sbjct: 277 WMTVGLREGKNREVKRVLEHLGLAVNRLIRLSYGPFQLMDLPEGDVREIRGRVLRDQLGD 336 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 L EEA + DAPI+ + ++ + + + Sbjct: 337 ALAEEAGADFDAPIFHAPKPEAEK-KPAGAKRGGSRDGGNREGRDRDGGGRDGGGRDGGK 395 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R WM +D + +N R K+ + K Sbjct: 396 REGGQGRWMTA-REGRSETDRKRAAKNERNEQREERKKGAGKGPRK 440 >gi|56420818|ref|YP_148136.1| ribosomal large subunit pseudouridine synthase B [Geobacillus kaustophilus HTA426] gi|261417880|ref|YP_003251562.1| pseudouridine synthase [Geobacillus sp. Y412MC61] gi|297529548|ref|YP_003670823.1| pseudouridine synthase [Geobacillus sp. C56-T3] gi|319767308|ref|YP_004132809.1| pseudouridine synthase [Geobacillus sp. Y412MC52] gi|56380660|dbj|BAD76568.1| ribosomal large subunit pseudouridine synthaseB (pseudouridylate synthase) (uracil hydrolyase) [Geobacillus kaustophilus HTA426] gi|261374337|gb|ACX77080.1| pseudouridine synthase [Geobacillus sp. Y412MC61] gi|297252800|gb|ADI26246.1| pseudouridine synthase [Geobacillus sp. C56-T3] gi|317112174|gb|ADU94666.1| pseudouridine synthase [Geobacillus sp. Y412MC52] Length = 243 Score = 299 bits (765), Expect = 5e-79, Method: Composition-based stats. Identities = 84/231 (36%), Positives = 133/231 (57%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIARAGIASRR+ E +I Q RVKVNG +++ V V D +EVDG+P+ + E Sbjct: 2 ERLQKVIARAGIASRRKAEELILQGRVKVNGRVVKELGVKVGPRDDVEVDGIPIEREE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ D GR V D + R+ +GRLD +T GLLLLTNDG A + Sbjct: 61 VYYLLYKPRGVISSVKDDRGRKVVTDFFKDLDKRIYPIGRLDYDTSGLLLLTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G ++L L++G+ ++ +V L + +K A V + Sbjct: 121 LMHPRYEIEKVYIAKVKGIPTHEQLKRLEQGVQLEDGMTAPAKVKLLSADRKKGTAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+++++FE +V +L R Y L L G RE++ ++ Sbjct: 181 RIHEGRNRQVRRMFEAIGCEVLKLKRERYAFLDLKGLRPGEYRELTPHEVK 231 >gi|254441794|ref|ZP_05055287.1| conserved hypothetical protein, putative [Octadecabacter antarcticus 307] gi|198251872|gb|EDY76187.1| conserved hypothetical protein, putative [Octadecabacter antarcticus 307] Length = 308 Score = 299 bits (765), Expect = 7e-79, Method: Composition-based stats. Identities = 141/297 (47%), Positives = 187/297 (62%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 N + ++ R++KV+ARAG+ASRRE E++I RV VNG + A+NV D I VDG Sbjct: 12 NAIAKSVPGDRIAKVLARAGVASRRESEKIIEAGRVTVNGKTILTPALNVTDKDRIVVDG 71 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL + E R+WLY+KPIGLVT+ D GR TVFD LP RV+SVGRLDIN+EGLLLL Sbjct: 72 KPLAEPEPPRIWLYYKPIGLVTSERDEKGRETVFDTLPDDMPRVVSVGRLDINSEGLLLL 131 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG L R +ELPST WLR YRVR +G + + KL+ L+ GI I G+ Y ++V D Q+G Sbjct: 132 TNDGELKRKMELPSTGWLRRYRVRINGSLSEAKLDELRAGIQIDGVHYAPVEVKFDRQQG 191 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +NAW+T+GLREGKNREI+K+ E VNRL+RISYGPFQLGTL G EV ++I+R+Q Sbjct: 192 ANAWLTMGLREGKNREIRKLMEAMGVAVNRLLRISYGPFQLGTLKPGKVEEVKQRIVRDQ 251 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 +G + + P + ++ D + + N K + Sbjct: 252 MGLRETPKPTMVRKGPEKGKRPPPKRGTAASAKRHTDPAKRNSGPTSGNSAGKPPRR 308 >gi|260893153|ref|YP_003239250.1| pseudouridine synthase [Ammonifex degensii KC4] gi|260865294|gb|ACX52400.1| pseudouridine synthase [Ammonifex degensii KC4] Length = 251 Score = 298 bits (763), Expect = 1e-78, Method: Composition-based stats. Identities = 95/232 (40%), Positives = 138/232 (59%), Gaps = 1/232 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 +R+ KV+ARAGIASRR+ E +I RVKVNG ++++ V V D IEVDG P++ Sbjct: 1 MPEERLQKVLARAGIASRRKAEELIVAGRVKVNGQVVDKLGVKVDPERDSIEVDGKPVKL 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ER +HKP G+VTT DP GR V D L I RV VGRLD ++EGLLLLTNDG Sbjct: 61 PERLVYLAFHKPRGVVTTLHDPQGRPKVADFLKGIKERVFPVGRLDYDSEGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P + Y V G+V ++KLNLL++GI ++ +V + + + Sbjct: 121 LAHRLLHPRFHVPKTYLVWVKGEVGKEKLNLLRRGIKLEDGPTLPAEVRVLRRARGETVL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + +REG+ R+I+++ + +V RL R++ GP +LG L G R ++ + + Sbjct: 181 QLTIREGRKRQIRRMLKALGCEVLRLKRVAVGPVRLGPLRPGEYRHLTPREV 232 >gi|241203270|ref|YP_002974366.1| RNA-binding S4 domain protein [Rhizobium leguminosarum bv. trifolii WSM1325] gi|240857160|gb|ACS54827.1| RNA-binding S4 domain protein [Rhizobium leguminosarum bv. trifolii WSM1325] Length = 698 Score = 298 bits (763), Expect = 1e-78, Method: Composition-based stats. Identities = 176/372 (47%), Positives = 229/372 (61%), Gaps = 28/372 (7%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + +R+SKV+ARAG+ASRR++ERMI + RV +NG +L+ VNV D IEVDGVP Sbjct: 45 TDSDAKAERISKVMARAGVASRRDIERMIMEGRVTLNGRVLDTPVVNVTLADRIEVDGVP 104 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R ERTRLWLYHKP GLVTT++DP+GRSTVFDNLP RV+S+GRLDINTEGLLLLTN Sbjct: 105 IRGIERTRLWLYHKPTGLVTTNADPEGRSTVFDNLPEELPRVMSIGRLDINTEGLLLLTN 164 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLAR LELP+T WLR YRVR HG++DQD L+ LK GI + G+ YG ++ TLD +GSN Sbjct: 165 DGGLARALELPATGWLRRYRVRAHGEIDQDALDKLKDGIAVDGVLYGSIEATLDRTQGSN 224 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W+T+GLREGKNREIK V VNRLIRISYGPFQLG L EV + LR+QLG Sbjct: 225 VWITMGLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGDLPESHVVEVRGRTLRDQLG 284 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK--------- 297 P L+EEA+ N DAPIY++ + + + + ++ LS+ Sbjct: 285 PRLIEEAKANFDAPIYNTTAVAAEEEAEPAAPEKRERPRRDEDKRERALSRLDTKRDDRH 344 Query: 298 ------------------QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSP 339 + K P+ +R ++NVWMA G + + +N + + Sbjct: 345 GGARKEDDRRDGGRRDDEKPKRPQPLGQR-RSANVWMAPGARPLGEKAAAKAAKNAQTAR 403 Query: 340 SFPSKRSLRRTS 351 + + Sbjct: 404 RRGEQAPAKNDR 415 >gi|229822888|ref|ZP_04448958.1| hypothetical protein GCWU000282_00178 [Catonella morbi ATCC 51271] gi|229787701|gb|EEP23815.1| hypothetical protein GCWU000282_00178 [Catonella morbi ATCC 51271] Length = 290 Score = 298 bits (763), Expect = 1e-78, Method: Composition-based stats. Identities = 97/288 (33%), Positives = 136/288 (47%), Gaps = 6/288 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KV+A AGIASRR+ E +I + RV VNG + V S D IEVDGVP+ E R Sbjct: 3 RLQKVMAHAGIASRRKCESLITEGRVSVNGQTVRELGTQVSSKDRIEVDGVPI-YREEPR 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP +++ SD R + D + I R+ VGRLD +T GLLLLTNDG A L Sbjct: 62 YILINKPRHVISAVSDDKNRQVILDYIQGIEERIYPVGRLDYDTTGLLLLTNDGAFANQL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVG 192 P Q +VY + G + L L+ GIV+ G + L +Q N A V + Sbjct: 122 MHPRHQIDKVYVAKVKGIPSEKSLARLEAGIVLDGKKTAKAKAQLLSQNLDNQTAIVELT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI---LREQLGPHL 249 +REG N ++K++FE VN+L R Y LG LL G RE++ L++ Sbjct: 182 IREGWNHQVKRMFEAVGHPVNKLKRERYAFLTLGKLLPGEWRELTAHEVNKLKQMSQSEG 241 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + P +P+ S + +K S+ Sbjct: 242 QAGQEARKAKPKRIMGRPTGQKPSRKSSASSSARKARKGQSKPKPARN 289 >gi|20807779|ref|NP_622950.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Thermoanaerobacter tengcongensis MB4] gi|254478705|ref|ZP_05092076.1| conserved hypothetical protein, putative [Carboxydibrachium pacificum DSM 12653] gi|20516335|gb|AAM24554.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Thermoanaerobacter tengcongensis MB4] gi|214035392|gb|EEB76095.1| conserved hypothetical protein, putative [Carboxydibrachium pacificum DSM 12653] Length = 236 Score = 297 bits (762), Expect = 1e-78, Method: Composition-based stats. Identities = 77/229 (33%), Positives = 123/229 (53%), Gaps = 2/229 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A GIASRR+ E I Q RVKVNG +++ + D IE D +R+ E+ Sbjct: 3 RLQKYLAECGIASRRKCEEYILQGRVKVNGKVVKELGTKIDPDVDIIEFDDKIVRREEKK 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G +T+ DP GR TV D + + R+ VGRLD +T GLLLLTNDG LA + Sbjct: 63 VYIMLYKPAGYITSVKDPFGRPTVLDLV-KVKERIYPVGRLDFDTSGLLLLTNDGELANI 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + ++ Y + G ++++ + G++I G ++ + K + V + + Sbjct: 122 LMHPKHEIVKTYVAKIKGIPTKEEMERFENGLIIDGRKTAKAKIRILNVKNGTSVVEIQI 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+NR++KK+ + V L R G +L L G R +++ +R Sbjct: 182 HEGRNRQVKKMCKAIGHPVIALKRTKIGELELKGLKPGEWRYLTEDEIR 230 >gi|163758412|ref|ZP_02165500.1| putative ribosomal large subunit pseudouridine synthase B [Hoeflea phototrophica DFL-43] gi|162284701|gb|EDQ34984.1| putative ribosomal large subunit pseudouridine synthase B [Hoeflea phototrophica DFL-43] Length = 520 Score = 297 bits (762), Expect = 1e-78, Method: Composition-based stats. Identities = 169/403 (41%), Positives = 222/403 (55%), Gaps = 64/403 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K++AR G+ASRR+VERM+A+ R++VNG LL+ AV V +D IEVDG + ERTR Sbjct: 42 RIAKILARVGVASRRDVERMVAEGRIRVNGKLLDSPAVVVSLSDRIEVDGEEVAGIERTR 101 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW+YHKP GLVTT+ DP+GR TVF+ LP RV+S+GRLDINTEGLLLLTNDGGLAR L Sbjct: 102 LWIYHKPAGLVTTNRDPEGRRTVFETLPKHLPRVLSIGRLDINTEGLLLLTNDGGLARTL 161 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELP T WLR YRVR +G +DQ++L+ LK GI + G+ YG ++ TLD ++G N W+T+GLR Sbjct: 162 ELPETGWLRRYRVRAYGDIDQNRLDTLKDGIAVDGVLYGAIEATLDRKQGHNVWITMGLR 221 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNREIK V VNRLIRIS+GPFQLG + G E+ + LREQLG L+EE+ Sbjct: 222 EGKNREIKNVLSALGLDVNRLIRISFGPFQLGDVREGDVVEIKSRTLREQLGVRLIEESG 281 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTR------------------------------ 284 N DAP+ S + Sbjct: 282 ANFDAPLNDSAPASKKEAKPSPAAKPAQREWISSSEKVERARARFDTKPGRPDRDGKPGE 341 Query: 285 ---------------------MKKNSSQKNGLSKQKKLATPVHR----RNLASNVWMAKG 319 + S G ++ A P R R+ ASNVWMA G Sbjct: 342 RRSEWGPGKERGERKSSGDKASRPRSGGPEGKRNEEPGAKPAKRGFIQRSRASNVWMAPG 401 Query: 320 IHSSFLSDSGQ-----REENHRRSPSFP----SKRSLRRTSAK 353 +D + + H+++ + P + S + AK Sbjct: 402 ARPVADADKPEGGRGGAKSGHKKADADPRAETRRGSFPKGRAK 444 >gi|300024100|ref|YP_003756711.1| RNA-binding S4 domain protein [Hyphomicrobium denitrificans ATCC 51888] gi|299525921|gb|ADJ24390.1| RNA-binding S4 domain protein [Hyphomicrobium denitrificans ATCC 51888] Length = 302 Score = 297 bits (762), Expect = 1e-78, Method: Composition-based stats. Identities = 127/263 (48%), Positives = 165/263 (62%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 N + P R++K +ARAG+ SRRE ER IA RV VNG LL+ A V D + VDG Sbjct: 29 NTAETRDGPMRIAKAMARAGLCSRREAERWIADGRVSVNGKLLKTPACEVGPKDKVIVDG 88 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL A +LW YHKP G+VTTHSDP GR TVF+ LP RVIS+GRLD NTEGLLLL Sbjct: 89 KPLPAASTPQLWRYHKPKGVVTTHSDPQGRPTVFEKLPPEMPRVISIGRLDFNTEGLLLL 148 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T DG LAR ELP+ W+R YRVR G+V L LK G+ I G+ YG ++ ++DT +G Sbjct: 149 TTDGALARHFELPANGWVRRYRVRAKGRVTPADLAKLKDGVEIDGVSYGPIEASVDTVQG 208 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +N+W+++ +REGKNRE++ V + VNRLIR+S+GPFQL L G+ V +++L Q Sbjct: 209 ANSWLSISIREGKNREVRNVLAYLGLTVNRLIRVSFGPFQLLDLAPGAVEAVRRRVLVAQ 268 Query: 245 LGPHLLEEAQVNLDAPIYSSETL 267 LGP ++ Sbjct: 269 LGPKAAASLGLSESQEERKERHA 291 >gi|295112967|emb|CBL31604.1| ribosomal large subunit pseudouridine synthase B [Enterococcus sp. 7L76] Length = 238 Score = 297 bits (762), Expect = 2e-78, Method: Composition-based stats. Identities = 83/234 (35%), Positives = 126/234 (53%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA AG+ SRR+ E +I + RVKVNG +++ V D +EVDGVP+ E Sbjct: 2 ERLQKAIAHAGVTSRRKAEELIVKGRVKVNGQVVKELGTQVSKQDTVEVDGVPI-YQEEY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+++ SD GR V D + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 61 GYYLFYKPKGVISAVSDDKGRKVVTDYFTDVTERIYPVGRLDYDTSGLLLLTNDGSFSQK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + +VY + G + L L KGI I G + + + V + Sbjct: 121 LTHPKHEVDKVYVAKIKGVPTKRDLLPLAKGIRIDGKRTAPANFQILSADIKTGSSVVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+N ++KK+F+ + V +L R YG L L G R+++KK + + L Sbjct: 181 TIHEGRNHQVKKMFQAVGFPVQKLKRERYGELTLQGLRPGQYRDLTKKEISQLL 234 >gi|302392426|ref|YP_003828246.1| ribosomal large subunit pseudouridine synthase B [Acetohalobium arabaticum DSM 5501] gi|302204503|gb|ADL13181.1| ribosomal large subunit pseudouridine synthase B [Acetohalobium arabaticum DSM 5501] Length = 244 Score = 297 bits (761), Expect = 2e-78, Method: Composition-based stats. Identities = 81/232 (34%), Positives = 124/232 (53%), Gaps = 2/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+++AG+ASRR+ E +I RV+VNG ++ V D I+VDG +++ E+ Sbjct: 2 ERLQKVMSQAGVASRRKSEDIITAGRVEVNGEVVTELGTKVDPEQDTIKVDGQQIKR-EK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G +TT DP R TV D + + V VGRLD +TEGLLLLTNDG L Sbjct: 61 LVYLLLNKPQGYITTVDDPHNRRTVIDLIQDVSQAVHPVGRLDKDTEGLLLLTNDGDLTY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + Y G +Q K+ L+KGI ++ + L + A V++ Sbjct: 121 ALTHPSHGIDKTYMATVKGVPNQSKIEALEKGIKLKDGWTAPAEAKLVAELAERAVVSLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+ ++K++ + V L RI +GP L L G R ++ ++E Sbjct: 181 IHEGRKHQVKRMLKSVGHPVEELKRIKFGPLDLTGLSPGEYRHLTNSEIKEL 232 >gi|257063679|ref|YP_003143351.1| ribosomal large subunit pseudouridine synthase B [Slackia heliotrinireducens DSM 20476] gi|256791332|gb|ACV22002.1| ribosomal large subunit pseudouridine synthase B [Slackia heliotrinireducens DSM 20476] Length = 249 Score = 297 bits (761), Expect = 2e-78, Method: Composition-based stats. Identities = 78/246 (31%), Positives = 123/246 (50%), Gaps = 5/246 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 M + +E P RV K +ARAG+ASRR E ++ RV VNG ++ V D Sbjct: 1 MPQQ---EERIVPMRVQKFLARAGVASRRRSEDLMTAGRVCVNGEVVTELGAKVDPRVDT 57 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINT 118 + VDG +R + + +KP G +TT SDP GR+ V + +P + + VGRLD +T Sbjct: 58 VTVDGREVRLTDGPVTIMLNKPCGFITTMSDPYGRACVAELVPSDDYPGLFPVGRLDTDT 117 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLL + DG L L P + Y G++ + L L+ G+ + VT Sbjct: 118 SGLLLFSTDGELGNSLLHPRHHVDKTYEACVQGRISDEALQTLRDGVELDDGVTSPAAVT 177 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L ++ + +T+ + EG+ R+++++ + V L R +GP LG L GS RE++K Sbjct: 178 LVSRSKEKSRITLVIHEGRTRQVRRMCQKVGHPVLELHRAQFGPLTLGDLPEGSWRELTK 237 Query: 239 KILREQ 244 + Sbjct: 238 AEVESL 243 >gi|229084572|ref|ZP_04216842.1| Pseudouridine synthase [Bacillus cereus Rock3-44] gi|228698722|gb|EEL51437.1| Pseudouridine synthase [Bacillus cereus Rock3-44] Length = 242 Score = 297 bits (761), Expect = 2e-78, Method: Composition-based stats. Identities = 83/233 (35%), Positives = 137/233 (58%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG ++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKVVTELGTKVTPQDKVEVNNIPLEKEE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR V D P I R+ +GRLD +T G+LL+TNDG A + Sbjct: 61 IYFLLYKPTGVISSVSDDKGRKVVTDFFPEIRQRLFPIGRLDYDTSGVLLMTNDGDFANI 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L+KG+V++ +V + + ++ A V + Sbjct: 121 LMHPKYKVEKTYVAKVKGPLTGEKIRMLEKGVVLEDGKTAPARVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE KV +L R Y + G+L G RE+S +++ Sbjct: 181 TIHEGRNRQVRRMFEALGCKVMKLKRERYAFLEAGSLRPGDARELSPHEVKQL 233 >gi|85705167|ref|ZP_01036267.1| RNA pseudouridylate synthase family protein [Roseovarius sp. 217] gi|85670489|gb|EAQ25350.1| RNA pseudouridylate synthase family protein [Roseovarius sp. 217] Length = 269 Score = 297 bits (761), Expect = 2e-78, Method: Composition-based stats. Identities = 141/266 (53%), Positives = 177/266 (66%), Gaps = 2/266 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + + + +R++KVIARAGIASRRE ER+I RV VNG + RAA+NV D + VD Sbjct: 5 RRMNTKTPEGERIAKVIARAGIASRREAERLIEAGRVTVNGQKVLRAALNVTPADKVVVD 64 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G L E RLWLYHKP GLVTT D GRST++D+LP RV+SVGRLD+N+EGLLL Sbjct: 65 GRALDAPEPARLWLYHKPTGLVTTTRDEQGRSTIYDDLPEDMPRVMSVGRLDLNSEGLLL 124 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG L R LELPST WLR YRVR +G+ L+KG+V+ G + M VTLD Q+ Sbjct: 125 LTNDGELKRKLELPSTGWLRRYRVRVNGRPTDGTFEPLRKGLVVDGEAFQPMMVTLDRQQ 184 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 G+NAW+TV +REGKNREI++ E VNRLIR+SYGPFQLG L G+ E+ ++LR+ Sbjct: 185 GANAWITVSIREGKNREIRRAMEAVGLVVNRLIRLSYGPFQLGQLKPGAVEEIRPRVLRD 244 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVR 269 QLG + EE + P R Sbjct: 245 QLG--MKEEPEAEQPKPARPKPQRRR 268 >gi|229029250|ref|ZP_04185341.1| Pseudouridine synthase [Bacillus cereus AH1271] gi|229172210|ref|ZP_04299774.1| Pseudouridine synthase [Bacillus cereus MM3] gi|228611198|gb|EEK68456.1| Pseudouridine synthase [Bacillus cereus MM3] gi|228732063|gb|EEL82954.1| Pseudouridine synthase [Bacillus cereus AH1271] Length = 242 Score = 297 bits (760), Expect = 2e-78, Method: Composition-based stats. Identities = 84/233 (36%), Positives = 140/233 (60%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GRS V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 61 VYFLLYKPTGVISSVSDDKGRSVVTDFFPEIRQRLFPIGRLDYDTSGVLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ QV + + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVALEDGKTAPAQVKIISWDKRKETAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE + KV +L R Y ++G+L G RE+S +++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELSPHEVKQL 233 >gi|13476819|ref|NP_108388.1| hypothetical protein mlr8253 [Mesorhizobium loti MAFF303099] gi|14027580|dbj|BAB53849.1| mlr8253 [Mesorhizobium loti MAFF303099] Length = 546 Score = 297 bits (760), Expect = 2e-78, Method: Composition-based stats. Identities = 148/307 (48%), Positives = 200/307 (65%), Gaps = 3/307 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + +R++K +ARAG+ASRR+ E +IA RVKVNG L A NVM D I +D Sbjct: 88 RPAEATEEAGERIAKRLARAGLASRRDAEELIAAGRVKVNGRALTSPAFNVMPGDIIHLD 147 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G+ + ERTRL+L+HKP G+VTT+ DP+GR TVFD LP+ R++++GRLDINTEGLLL Sbjct: 148 GMEIPPIERTRLFLFHKPAGVVTTNRDPEGRKTVFDVLPAELPRLMTIGRLDINTEGLLL 207 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDGGL+RVLELP+T WLR YRVR HG+V++ L L++GI + G+ YG ++ +LD ++ Sbjct: 208 LTNDGGLSRVLELPATGWLRRYRVRVHGKVEESALAGLREGIAVDGVFYGAIEASLDREQ 267 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 GSNAW+T+GLREGKNRE+K + V RLIRISYGPFQL L G E+ ++LR+ Sbjct: 268 GSNAWLTIGLREGKNREVKNILGALGLDVTRLIRISYGPFQLEDLPEGHVLEIKGRVLRD 327 Query: 244 QLGPHLLEEAQVNLDAPI---YSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 QLG L+EE+ N DA I +S++ + R FTR + G + + Sbjct: 328 QLGERLVEESGANFDAEIAKPFSNKPVRRTEVREPEPERPKFTRDGERRPIGEGGLIKNR 387 Query: 301 LATPVHR 307 R Sbjct: 388 KRREGSR 394 >gi|227518731|ref|ZP_03948780.1| pseudouridylate synthase [Enterococcus faecalis TX0104] gi|227553340|ref|ZP_03983389.1| pseudouridylate synthase [Enterococcus faecalis HH22] gi|229545844|ref|ZP_04434569.1| pseudouridylate synthase [Enterococcus faecalis TX1322] gi|229550036|ref|ZP_04438761.1| pseudouridylate synthase [Enterococcus faecalis ATCC 29200] gi|255972817|ref|ZP_05423403.1| pseudouridine synthase [Enterococcus faecalis T1] gi|255975873|ref|ZP_05426459.1| pseudouridine synthase [Enterococcus faecalis T2] gi|256619043|ref|ZP_05475889.1| pseudouridine synthase [Enterococcus faecalis ATCC 4200] gi|256762469|ref|ZP_05503049.1| pseudouridine synthase [Enterococcus faecalis T3] gi|256853105|ref|ZP_05558475.1| pseudouridine synthase [Enterococcus faecalis T8] gi|256958960|ref|ZP_05563131.1| pseudouridine synthase [Enterococcus faecalis DS5] gi|256961947|ref|ZP_05566118.1| pseudouridine synthase [Enterococcus faecalis Merz96] gi|256965145|ref|ZP_05569316.1| pseudouridine synthase [Enterococcus faecalis HIP11704] gi|257078991|ref|ZP_05573352.1| pseudouridine synthase [Enterococcus faecalis JH1] gi|257082570|ref|ZP_05576931.1| pseudouridine synthase [Enterococcus faecalis E1Sol] gi|257085203|ref|ZP_05579564.1| pseudouridine synthase [Enterococcus faecalis Fly1] gi|257086764|ref|ZP_05581125.1| pseudouridine synthase [Enterococcus faecalis D6] gi|257089865|ref|ZP_05584226.1| pseudouridine synthase [Enterococcus faecalis CH188] gi|257416073|ref|ZP_05593067.1| pseudouridine synthase [Enterococcus faecalis AR01/DG] gi|257419276|ref|ZP_05596270.1| pseudouridine synthase [Enterococcus faecalis T11] gi|257422639|ref|ZP_05599629.1| pseudouridine synthase [Enterococcus faecalis X98] gi|293383015|ref|ZP_06628933.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecalis R712] gi|293389496|ref|ZP_06633953.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecalis S613] gi|294781343|ref|ZP_06746686.1| pseudouridylate synthase [Enterococcus faecalis PC1.1] gi|300860430|ref|ZP_07106517.1| pseudouridine synthase B, ribosomal large subunit [Enterococcus faecalis TUSoD Ef11] gi|307271038|ref|ZP_07552321.1| hypothetical protein HMPREF9498_03124 [Enterococcus faecalis TX4248] gi|307273245|ref|ZP_07554491.1| hypothetical protein HMPREF9514_02011 [Enterococcus faecalis TX0855] gi|307278094|ref|ZP_07559178.1| hypothetical protein HMPREF9515_00429 [Enterococcus faecalis TX0860] gi|307289085|ref|ZP_07569041.1| hypothetical protein HMPREF9505_02455 [Enterococcus faecalis TX0109] gi|307292016|ref|ZP_07571885.1| hypothetical protein HMPREF9509_02313 [Enterococcus faecalis TX0411] gi|312900740|ref|ZP_07760037.1| conserved hypothetical protein [Enterococcus faecalis TX0470] gi|312903287|ref|ZP_07762467.1| conserved hypothetical protein [Enterococcus faecalis TX0635] gi|312907514|ref|ZP_07766505.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 512] gi|312910132|ref|ZP_07768979.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 516] gi|312951473|ref|ZP_07770369.1| conserved hypothetical protein [Enterococcus faecalis TX0102] gi|227073812|gb|EEI11775.1| pseudouridylate synthase [Enterococcus faecalis TX0104] gi|227177527|gb|EEI58499.1| pseudouridylate synthase [Enterococcus faecalis HH22] gi|229304842|gb|EEN70838.1| pseudouridylate synthase [Enterococcus faecalis ATCC 29200] gi|229309043|gb|EEN75030.1| pseudouridylate synthase [Enterococcus faecalis TX1322] gi|255963835|gb|EET96311.1| pseudouridine synthase [Enterococcus faecalis T1] gi|255968745|gb|EET99367.1| pseudouridine synthase [Enterococcus faecalis T2] gi|256598570|gb|EEU17746.1| pseudouridine synthase [Enterococcus faecalis ATCC 4200] gi|256683720|gb|EEU23415.1| pseudouridine synthase [Enterococcus faecalis T3] gi|256711564|gb|EEU26602.1| pseudouridine synthase [Enterococcus faecalis T8] gi|256949456|gb|EEU66088.1| pseudouridine synthase [Enterococcus faecalis DS5] gi|256952443|gb|EEU69075.1| pseudouridine synthase [Enterococcus faecalis Merz96] gi|256955641|gb|EEU72273.1| pseudouridine synthase [Enterococcus faecalis HIP11704] gi|256987021|gb|EEU74323.1| pseudouridine synthase [Enterococcus faecalis JH1] gi|256990600|gb|EEU77902.1| pseudouridine synthase [Enterococcus faecalis E1Sol] gi|256993233|gb|EEU80535.1| pseudouridine synthase [Enterococcus faecalis Fly1] gi|256994794|gb|EEU82096.1| pseudouridine synthase [Enterococcus faecalis D6] gi|256998677|gb|EEU85197.1| pseudouridine synthase [Enterococcus faecalis CH188] gi|257157901|gb|EEU87861.1| pseudouridine synthase [Enterococcus faecalis ARO1/DG] gi|257161104|gb|EEU91064.1| pseudouridine synthase [Enterococcus faecalis T11] gi|257164463|gb|EEU94423.1| pseudouridine synthase [Enterococcus faecalis X98] gi|291079680|gb|EFE17044.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecalis R712] gi|291081113|gb|EFE18076.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecalis S613] gi|294451573|gb|EFG20032.1| pseudouridylate synthase [Enterococcus faecalis PC1.1] gi|300849469|gb|EFK77219.1| pseudouridine synthase B, ribosomal large subunit [Enterococcus faecalis TUSoD Ef11] gi|306497014|gb|EFM66562.1| hypothetical protein HMPREF9509_02313 [Enterococcus faecalis TX0411] gi|306499794|gb|EFM69155.1| hypothetical protein HMPREF9505_02455 [Enterococcus faecalis TX0109] gi|306505491|gb|EFM74677.1| hypothetical protein HMPREF9515_00429 [Enterococcus faecalis TX0860] gi|306510230|gb|EFM79254.1| hypothetical protein HMPREF9514_02011 [Enterococcus faecalis TX0855] gi|306512536|gb|EFM81185.1| hypothetical protein HMPREF9498_03124 [Enterococcus faecalis TX4248] gi|310626542|gb|EFQ09825.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 512] gi|310630439|gb|EFQ13722.1| conserved hypothetical protein [Enterococcus faecalis TX0102] gi|310633163|gb|EFQ16446.1| conserved hypothetical protein [Enterococcus faecalis TX0635] gi|311289405|gb|EFQ67961.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 516] gi|311292221|gb|EFQ70777.1| conserved hypothetical protein [Enterococcus faecalis TX0470] gi|315027286|gb|EFT39218.1| conserved hypothetical protein [Enterococcus faecalis TX2137] gi|315029405|gb|EFT41337.1| conserved hypothetical protein [Enterococcus faecalis TX4000] gi|315033949|gb|EFT45881.1| conserved hypothetical protein [Enterococcus faecalis TX0017] gi|315036958|gb|EFT48890.1| conserved hypothetical protein [Enterococcus faecalis TX0027] gi|315144437|gb|EFT88453.1| conserved hypothetical protein [Enterococcus faecalis TX2141] gi|315147244|gb|EFT91260.1| conserved hypothetical protein [Enterococcus faecalis TX4244] gi|315150557|gb|EFT94573.1| conserved hypothetical protein [Enterococcus faecalis TX0012] gi|315152504|gb|EFT96520.1| conserved hypothetical protein [Enterococcus faecalis TX0031] gi|315155782|gb|EFT99798.1| conserved hypothetical protein [Enterococcus faecalis TX0043] gi|315158051|gb|EFU02068.1| conserved hypothetical protein [Enterococcus faecalis TX0312] gi|315160465|gb|EFU04482.1| conserved hypothetical protein [Enterococcus faecalis TX0645] gi|315163994|gb|EFU08011.1| conserved hypothetical protein [Enterococcus faecalis TX1302] gi|315169055|gb|EFU13072.1| conserved hypothetical protein [Enterococcus faecalis TX1341] gi|315169707|gb|EFU13724.1| conserved hypothetical protein [Enterococcus faecalis TX1342] gi|315575887|gb|EFU88078.1| conserved hypothetical protein [Enterococcus faecalis TX0309B] gi|315577727|gb|EFU89918.1| conserved hypothetical protein [Enterococcus faecalis TX0630] gi|315580539|gb|EFU92730.1| conserved hypothetical protein [Enterococcus faecalis TX0309A] gi|323480703|gb|ADX80142.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecalis 62] gi|327535112|gb|AEA93946.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecalis OG1RF] Length = 238 Score = 297 bits (760), Expect = 2e-78, Method: Composition-based stats. Identities = 83/234 (35%), Positives = 126/234 (53%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA AG+ SRR+ E +I + RVKVNG +++ V D +EVDGVP+ E Sbjct: 2 ERLQKAIAHAGVTSRRKAEELIVKGRVKVNGQVVKELGTQVSKQDTVEVDGVPI-YQEEY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+++ SD GR V D + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 61 GYYLFYKPRGVISAVSDDKGRKVVTDYFTDVTERIYPVGRLDYDTSGLLLLTNDGSFSQK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + +VY + G + L L KGI I G + + + V + Sbjct: 121 LTHPKHEVDKVYVAKIKGVPTKRDLLPLAKGIRIDGKRTAPANFQILSADIKTGSSVVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+N ++KK+F+ + V +L R YG L L G R+++KK + + L Sbjct: 181 TIHEGRNHQVKKMFQAVGFPVQKLKRERYGELTLQGLRPGQYRDLTKKEISQLL 234 >gi|254474349|ref|ZP_05087735.1| pseudouridine synthase, Rsu:RNA-binding S4:Pseudouridine synthase [Ruegeria sp. R11] gi|214028592|gb|EEB69427.1| pseudouridine synthase, Rsu:RNA-binding S4:Pseudouridine synthase [Ruegeria sp. R11] Length = 414 Score = 296 bits (759), Expect = 3e-78, Method: Composition-based stats. Identities = 146/340 (42%), Positives = 197/340 (57%), Gaps = 3/340 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R++KV++RAG+ASRRE ERMIA RV+VNG +++ A+NV+ D I VDG + + E Sbjct: 46 RIAKVLSRAGLASRREAERMIADGRVEVNGKVIDSPALNVVVGKDRIVVDGKQVEEPEPP 105 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWLYHKP GLVTT SD R T+FD+LP RV++VGRLD+N+EGLLLLTNDGG+ R Sbjct: 106 RLWLYHKPAGLVTTTSDELDRKTIFDDLPEDLPRVMTVGRLDLNSEGLLLLTNDGGIKRQ 165 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPST WLR YRVR +G+ L+KG+VI+G + M VTLD Q+G+NAW+TVGL Sbjct: 166 LELPSTGWLRRYRVRINGRPQDSDFEPLRKGLVIEGEKFQPMIVTLDRQQGANAWLTVGL 225 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNREI++ E + VNRL+R+SYGPFQLG L G E+ +++R+QLG EE Sbjct: 226 REGKNREIRRAMEDIGFSVNRLLRLSYGPFQLGQLKPGEVEELRPRVVRDQLGLAAPEEE 285 Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASN 313 Q + P + + +R +P + + Sbjct: 286 QDSPKRP-GTRQRPMRGKPGTRPGSGQSDRGTDSRAGAGRTGRPGSAPNAKGTGKGTGKP 344 Query: 314 VWMAKGIHSSFLS-DSGQREENHRRSPSFPSKRSLRRTSA 352 + A G + G R + S P + + Sbjct: 345 LSKAGGKSMGKPTGRPGARSSDKAAGNSGPKGNARPSGKS 384 >gi|138895852|ref|YP_001126305.1| pseudouridylate synthase [Geobacillus thermodenitrificans NG80-2] gi|134267365|gb|ABO67560.1| Pseudouridylate synthase [Geobacillus thermodenitrificans NG80-2] Length = 243 Score = 296 bits (759), Expect = 3e-78, Method: Composition-based stats. Identities = 87/231 (37%), Positives = 133/231 (57%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIARAGIASRR+ E MI Q RVKVNG ++ V V D +EVDG+P+ + E Sbjct: 2 ERLQKVIARAGIASRRKAEEMILQGRVKVNGRVVTELGVKVGPRDDVEVDGIPVEREE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ D GR V D I R+ +GRLD +T GLLLLTNDG A + Sbjct: 61 VYYLLYKPRGVISSVKDEKGRKVVTDFFKDIHQRIYPIGRLDYDTSGLLLLTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G +++L +KG++++ +V L + +K A V + Sbjct: 121 LMHPRYEIEKVYVAKVKGIPTREQLKQPEKGVLLEDGITAPAKVKLLSADRKKRAAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+++++FE +V +L R Y L L G RE+S ++ Sbjct: 181 SIHEGRNRQVRRMFEAIGCEVLKLKRERYAFLDLKGLRPGEYRELSPHEVK 231 >gi|83591991|ref|YP_425743.1| pseudouridine synthase, Rsu [Rhodospirillum rubrum ATCC 11170] gi|83574905|gb|ABC21456.1| Pseudouridine synthase, Rsu [Rhodospirillum rubrum ATCC 11170] Length = 293 Score = 296 bits (759), Expect = 3e-78, Method: Composition-based stats. Identities = 143/296 (48%), Positives = 189/296 (63%), Gaps = 10/296 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R++KVIARAGI SRR+ E++I + RV +NG +E A V ++D + VDG PL E Sbjct: 4 DSERIAKVIARAGICSRRDAEKLIVEGRVTLNGRKVETPATLVAASDTVTVDGKPLPALE 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RLW Y+KPIGLVT+H D GR TVF+ LP+ RVISVGRLD+N+EGLLLLTNDG LA Sbjct: 64 PARLWRYNKPIGLVTSHRDEQGRPTVFERLPATLPRVISVGRLDLNSEGLLLLTNDGELA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 R LE PS WLR YRVR HG D KL L+KG+ ++G+ YG ++V L+ Q+G+NAW++V Sbjct: 124 RRLEHPSQGWLRRYRVRVHGAPDPVKLAALEKGVTVEGVAYGSIRVALERQQGANAWLSV 183 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 LREGKNREI++V E V+RLIR++YGPFQLG L G+ E+ KI+REQLG Sbjct: 184 SLREGKNREIRRVMEHLGLPVSRLIRVAYGPFQLGQLEEGTVDEIPGKIMREQLGK---- 239 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 DAP + + N + P T SS +++ + H+ Sbjct: 240 ------DAPPPPRRAEAKAKGNKGAAPPPKGTLSLPESSNTGRVARIARATRRAHK 289 >gi|229160522|ref|ZP_04288517.1| Pseudouridine synthase [Bacillus cereus R309803] gi|228622932|gb|EEK79763.1| Pseudouridine synthase [Bacillus cereus R309803] Length = 242 Score = 296 bits (758), Expect = 3e-78, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 140/233 (60%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GRS V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 61 VYFLLYKPTGVISSVSDDKGRSVVTDFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ +V + + ++ A V + Sbjct: 121 LMHPKYKVEKTYVAKVKGPLTGEKIRMLERGVALEDGKTAPARVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQL 233 >gi|149914092|ref|ZP_01902624.1| RNA pseudouridylate synthase family protein [Roseobacter sp. AzwK-3b] gi|149812376|gb|EDM72207.1| RNA pseudouridylate synthase family protein [Roseobacter sp. AzwK-3b] Length = 263 Score = 296 bits (758), Expect = 4e-78, Method: Composition-based stats. Identities = 144/241 (59%), Positives = 174/241 (72%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + + R++KVIARAG+ASRRE ERMI RV VNG ++RAA+NV D I VDG Sbjct: 1 MTENTHKGDRIAKVIARAGLASRREAERMIEAGRVTVNGKKIDRAALNVTDKDRIAVDGR 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 LR E RLWLYHKP GLVTT+ D GR T+FD LP RV+SVGRLDIN+EGLLLLT Sbjct: 61 DLRAPEPQRLWLYHKPTGLVTTNKDEQGRPTIFDELPEDLPRVMSVGRLDINSEGLLLLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDGGL R LELPST WLR YRVR +G+ D L++G+VI G + M VTLD Q+G+ Sbjct: 121 NDGGLKRKLELPSTGWLRRYRVRVNGRPTDDTFAPLRQGLVIDGEKFQPMIVTLDRQQGA 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 NAWVTVG+REG+NRE+++ E VNRLIR+SYGPFQLGTL G+ E+ +ILR+QL Sbjct: 181 NAWVTVGIREGRNREVRRAMEAVGLSVNRLIRVSYGPFQLGTLKPGAVEEIRPRILRDQL 240 Query: 246 G 246 G Sbjct: 241 G 241 >gi|311030759|ref|ZP_07708849.1| pseudouridine synthase [Bacillus sp. m3-13] Length = 242 Score = 296 bits (758), Expect = 4e-78, Method: Composition-based stats. Identities = 80/233 (34%), Positives = 136/233 (58%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E +I + +V+VN +++ V V D IEV+G+P+ + E+ Sbjct: 2 ERLQKVIAHAGIASRRKAEELIKEGKVRVNDKVVKELGVKVNPNDKIEVEGIPVER-EKP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR D P I R+ VGRLD +T GLLL+TNDG A V Sbjct: 61 VYFLLYKPRGVISSVSDDKGRKVATDFFPYIEERIYPVGRLDYDTSGLLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P+++ +VY + G ++ + L++GI ++ ++ L + + + + + Sbjct: 121 LMHPASEVEKVYVAKLKGIPSREAIKSLERGIKLEDGKTAPARIKLLSMERTKNTSIFEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE V +L R YG L L AG RE++ +++ Sbjct: 181 SIHEGRNRQVRRMFEAIGHPVMKLKRERYGFLNLHGLSAGEARELTPHEVKQL 233 >gi|222151389|ref|YP_002560545.1| ribosomal large subunit pseudouridine synthase B [Macrococcus caseolyticus JCSC5402] gi|222120514|dbj|BAH17849.1| ribosomal large subunit pseudouridine synthase B [Macrococcus caseolyticus JCSC5402] Length = 245 Score = 296 bits (758), Expect = 4e-78, Method: Composition-based stats. Identities = 83/237 (35%), Positives = 135/237 (56%), Gaps = 3/237 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N +R+ KVIA++G+ SRR+ E +I + +V VNG + V +D IEV+G+PL Sbjct: 2 NEQLERLQKVIAKSGVTSRRKAEVLITEGKVTVNGQTVTELGTKVKPSDIIEVEGIPLEN 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ L+HKP G++T+ SD GR V D P + R+ VGRLD +T GLLLLTNDG Sbjct: 62 PEKI-YILFHKPTGVITSVSDEKGRKVVTDYFPGLNLRIFPVGRLDYDTSGLLLLTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNA 187 A + P + + Y + G + ++++ L+KGI+++ +V ++ + Sbjct: 121 FANQMTHPKYKMKKKYVAKLKGFLLREQVKQLEKGIMLEDGKTAPALVKVKSQDKEKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V + + EG+NR+++++F F +V +L RI YGP L L AG RE++ ++ Sbjct: 181 LVEITIYEGRNRQVRRMFAHFGHEVVKLSRIEYGPLTLKGLNAGDARELTPHEVKTL 237 >gi|114705781|ref|ZP_01438684.1| High mobility group proteins HMG-I and HMG-Y:Pseudouridine synthase, Rsu:RNA-binding S4:Pseudouridine synthase [Fulvimarina pelagi HTCC2506] gi|114538627|gb|EAU41748.1| High mobility group proteins HMG-I and HMG-Y:Pseudouridine synthase, Rsu:RNA-binding S4:Pseudouridine synthase [Fulvimarina pelagi HTCC2506] Length = 639 Score = 296 bits (758), Expect = 4e-78, Method: Composition-based stats. Identities = 161/291 (55%), Positives = 202/291 (69%), Gaps = 2/291 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +ARAGIASRR+ E MI RVKVNG +++ A++V TD IEVDG L +AERT Sbjct: 184 MRIARRLARAGIASRRDAEAMIVDGRVKVNGKIIDSPALDVKPTDRIEVDGALLPQAERT 243 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLWL+HKP G VTT+ DP+GR TVFD LP RV+S+GRLDINTEGLLLLTNDGGL+RV Sbjct: 244 RLWLFHKPAGTVTTNKDPEGRRTVFDMLPEDMPRVLSIGRLDINTEGLLLLTNDGGLSRV 303 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPST WLR YRVR HG + Q KL+ L+ GI + G+ YG ++ TLD ++GSN W+T+GL Sbjct: 304 LELPSTGWLRRYRVRAHGSITQAKLDELRNGISVDGVFYGAIEATLDREQGSNVWITLGL 363 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 REGKNRE+K V +VNRLIR+SYGPFQLG L GS REV + LR+QLG L+EEA Sbjct: 364 REGKNREVKNVLGALGLEVNRLIRLSYGPFQLGDLAEGSVREVKGRTLRDQLGDRLVEEA 423 Query: 254 QVNLDAPIYS--SETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 V+ D PI S V R + D+ +K K+++ A Sbjct: 424 GVDFDGPINKPFSNAPVEGRQDARPSKKSDWVSAGGKVDRKTFGEKKREEA 474 >gi|152974996|ref|YP_001374513.1| pseudouridine synthase [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|152023748|gb|ABS21518.1| pseudouridine synthase [Bacillus cytotoxicus NVH 391-98] Length = 242 Score = 295 bits (757), Expect = 4e-78, Method: Composition-based stats. Identities = 79/233 (33%), Positives = 137/233 (58%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG ++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVTELGTKVTPQDKVEVNHIPLEKEE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR V D I R+ +GRLD +T G+LL+TNDG A + Sbjct: 61 VYFLLYKPTGVISSVSDDKGRKVVTDFFQDIPQRLFPIGRLDYDTSGVLLMTNDGDFANI 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L+KG++++ +V + + ++ + V + Sbjct: 121 LMHPKYKVEKTYVAKVKGPLTGEKIRMLEKGVILEDGKTSPARVKIISWDKRKEMSIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE KV +L R Y ++G+L G RE++ +++ Sbjct: 181 TIHEGRNRQVRRMFEAIGCKVMKLKRERYAFLEVGSLRPGDARELTPHEVKQL 233 >gi|84686243|ref|ZP_01014138.1| RNA pseudouridylate synthase family protein [Maritimibacter alkaliphilus HTCC2654] gi|84665770|gb|EAQ12245.1| RNA pseudouridylate synthase family protein [Rhodobacterales bacterium HTCC2654] Length = 293 Score = 295 bits (757), Expect = 5e-78, Method: Composition-based stats. Identities = 140/266 (52%), Positives = 177/266 (66%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + + R++KV++RAG+ASRRE ERMI RV VNG +++ A+NV D I VDG Sbjct: 28 MTDKTPPGDRIAKVLSRAGVASRREAERMIEAGRVSVNGKVIDSPALNVTPRDKITVDGT 87 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + K E RLWLYHKP GLVTT D GR TVFD LP RV+SVGRLD+N+EGLLLLT Sbjct: 88 LVEKPEAPRLWLYHKPTGLVTTERDEKGRETVFDKLPEDMPRVMSVGRLDLNSEGLLLLT 147 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDGG+ R LELPST W+R YRVR +G+ ++ L L+KGI + G + M VTLD Q+G+ Sbjct: 148 NDGGIKRKLELPSTGWVRKYRVRVNGKPEEAVLEKLRKGITVDGEAFQGMSVTLDRQQGA 207 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 NAW+T+GLREGKNREI++ E VNRLIRISYGPF+LG L AG+ EV ++LR+QL Sbjct: 208 NAWLTIGLREGKNREIRRAMEAVGLTVNRLIRISYGPFRLGELKAGAVEEVKGRVLRDQL 267 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDR 271 G ++ R R Sbjct: 268 GLEAPKDPTGTAKKTPVRRRKPTRKR 293 >gi|310816564|ref|YP_003964528.1| ribosomal large subunit pseudouridine synthase B [Ketogulonicigenium vulgare Y25] gi|308755299|gb|ADO43228.1| ribosomal large subunit pseudouridine synthase B [Ketogulonicigenium vulgare Y25] Length = 649 Score = 295 bits (757), Expect = 5e-78, Method: Composition-based stats. Identities = 158/339 (46%), Positives = 199/339 (58%), Gaps = 9/339 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++KV+ARAGIASRR+VERMI RV VNG ++ AVNV D + VDG P+ AE Sbjct: 18 TGERIAKVLARAGIASRRDVERMILDGRVSVNGKVINSPAVNVADRDRVSVDGQPVAAAE 77 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RLWLYHKP GLVTT+ D GR TVFD LP RV++VGRLD+ +EGLLLLTNDG + Sbjct: 78 PPRLWLYHKPSGLVTTNKDELGRETVFDALPEDLPRVMTVGRLDLTSEGLLLLTNDGEVK 137 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 R LELP+T WLR YRVR +G+V + +L+ L+ GI + I Y M V LD Q+G+NAW+T+ Sbjct: 138 RKLELPATGWLRRYRVRVNGEVTEPELDKLRAGITVDDIEYQPMDVELDRQQGANAWLTI 197 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 GLREGKNREI++V E + VNRLIRISYGPFQLG L AG +EV +K+LR+QLG Sbjct: 198 GLREGKNREIRRVMEALGFVVNRLIRISYGPFQLGALEAGEVQEVRRKVLRDQLG----- 252 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 ++ DAP + I+ E P K S + Sbjct: 253 ---LDQDAPDLQRSRRIIRNEKIVDETPKRGRPAKPGFKPGAKPSGDRPSYGDRPSFGDK 309 Query: 312 SNVWMAK-GIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 G SF ++ PSF K R Sbjct: 310 PRFGDKPRGDRPSFGDKPRFGDKPRGDRPSFGDKPRGDR 348 >gi|307274982|ref|ZP_07556145.1| hypothetical protein HMPREF9521_00595 [Enterococcus faecalis TX2134] gi|306508430|gb|EFM77537.1| hypothetical protein HMPREF9521_00595 [Enterococcus faecalis TX2134] Length = 238 Score = 295 bits (757), Expect = 5e-78, Method: Composition-based stats. Identities = 83/234 (35%), Positives = 127/234 (54%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA AG+ SRR+ E +I + RVKVNG +++ V D +EVDGVP+ E Sbjct: 2 ERLQKAIAHAGVTSRRKAEELIVKGRVKVNGQVVKELGTQVSKQDTVEVDGVPI-YQEEY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+++ SD GR V D + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 61 GYYLFYKPRGVISAVSDDKGRKVVTDYFTDVTERIYPVGRLDYDTSGLLLLTNDGSFSQK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + +VY + G + +L L KGI I G + + + V + Sbjct: 121 LTHPKHEVDKVYVAKIKGVPTKRELLPLAKGIRIDGKRTAPANFQILSADIKTGSSVVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+N ++KK+F+ + V +L R YG L L G R+++KK + + L Sbjct: 181 TIHEGRNHQVKKMFQAVGFPVQKLKRERYGELTLQGLRPGQYRDLTKKEISQLL 234 >gi|289578329|ref|YP_003476956.1| pseudouridine synthase [Thermoanaerobacter italicus Ab9] gi|289528042|gb|ADD02394.1| pseudouridine synthase [Thermoanaerobacter italicus Ab9] Length = 236 Score = 295 bits (757), Expect = 5e-78, Method: Composition-based stats. Identities = 76/228 (33%), Positives = 120/228 (52%), Gaps = 2/228 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A GIASRR+ E I Q RVKVNG ++ V + D IE D +R+ ++ Sbjct: 3 RLQKYLAECGIASRRKCEEYILQGRVKVNGKEVKELGVKINPDVDIIEFDDKIVRREKKK 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G +T+ D GR TV D + + R+ VGRLD +T GLLLLTNDG +A + Sbjct: 63 VYIMLNKPTGYITSVKDQFGRPTVMDLV-KVKERIYPVGRLDYDTSGLLLLTNDGEIANI 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + ++ Y + G Q++L + G++I ++ + K + V + + Sbjct: 122 LMHPRHEIVKTYIAKIKGIPTQEELERFRNGLLIGDYLTSKAEIEILAVKNGTSVVEIKI 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EGKNR+++++ E V L R G L L G R +++K + Sbjct: 182 HEGKNRQVRRMCEAIGHPVISLTRTKIGDLSLEGLKPGKWRYLTQKEI 229 >gi|182679330|ref|YP_001833476.1| RNA-binding S4 domain-containing protein [Beijerinckia indica subsp. indica ATCC 9039] gi|182635213|gb|ACB95987.1| RNA-binding S4 domain protein [Beijerinckia indica subsp. indica ATCC 9039] Length = 528 Score = 295 bits (757), Expect = 5e-78, Method: Composition-based stats. Identities = 156/343 (45%), Positives = 208/343 (60%), Gaps = 8/343 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 ++ PQR++KV+ARAG+ SRR+ E IA+ RV VNG +L + V+V D I VDG L Sbjct: 84 KDAQEPQRIAKVMARAGLCSRRDAEAWIAEGRVSVNGTVLTQPGVSVSDEDVILVDGEKL 143 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLL 124 TRL+L+HKP GLVTT+ DP+GR TVFD L RV+S+GRLDINTEGLLLL Sbjct: 144 AARGHTRLFLFHKPRGLVTTNHDPEGRPTVFDYLHERHPDMPRVLSIGRLDINTEGLLLL 203 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDGGL+R+LELP+T W+R YRVR G DQ L+ L++GI I GI Y M+VT D ++G Sbjct: 204 TNDGGLSRLLELPTTGWVRRYRVRAKGTTDQAVLDQLRQGITIDGIHYAGMEVTFDREQG 263 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +N+W+T+ LREGKNRE+K+V E +VNRLIR+S+GPFQLG L G EV ++LR+Q Sbjct: 264 ANSWLTLSLREGKNREVKRVLEQIGLEVNRLIRLSFGPFQLGDLPEGDVTEVRTRVLRDQ 323 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK--KLA 302 LGP L A V+ + + P + P K+ ++ +G + + + Sbjct: 324 LGPSLAAAAGVDWTR--HDEDAAEPAAPERARKTPSKTRTEGKSVTKSHGAAPRPSSRTF 381 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 T R AK S S R E+ R + P KR Sbjct: 382 TKDKPREDEHPARTAKPAPRSRKHISLLRAEDENRKGA-PRKR 423 >gi|167629967|ref|YP_001680466.1| pseudouridine synthase [Heliobacterium modesticaldum Ice1] gi|167592707|gb|ABZ84455.1| pseudouridine synthase [Heliobacterium modesticaldum Ice1] Length = 333 Score = 295 bits (757), Expect = 5e-78, Method: Composition-based stats. Identities = 97/279 (34%), Positives = 140/279 (50%), Gaps = 3/279 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLR 68 + R+ K++A G+ASRRE E MI RV++NG ++ V V + D IEVDG L+ Sbjct: 2 DSQTVRLQKLLAAHGVASRREAEAMIRAGRVRINGTVVREQGVRVDGARDVIEVDGRILK 61 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + E + +KP G+VTT DP GR TV L + RV VGRLD +TEGLLLLTNDG Sbjct: 62 RREAPLYYALYKPRGVVTTCKDPQGRQTVIGLLSGVNERVYPVGRLDRDTEGLLLLTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + YR R G V L L +G+ ++ QV L ++G W Sbjct: 122 QLAFRLTHPRFGVEKTYRARLRGDVSAGALKALAEGVQLEDGVTAPAQVRLLRREGDATW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + + EG+ R+I+++ + V L RI++GP LG L G R ++ LR Sbjct: 182 IEIKIHEGRKRQIRRMGDAIGHPVIDLERIAFGPITLGKLKPGEVRPLTSAELRALKSAA 241 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 ++EA + +T R ++V K Sbjct: 242 GMKEATAHGRDERR--QTARPSRTAATAKVASAHKDAGK 278 >gi|229074764|ref|ZP_04207783.1| Pseudouridine synthase [Bacillus cereus Rock4-18] gi|229096063|ref|ZP_04227037.1| Pseudouridine synthase [Bacillus cereus Rock3-29] gi|229102175|ref|ZP_04232885.1| Pseudouridine synthase [Bacillus cereus Rock3-28] gi|229115019|ref|ZP_04244430.1| Pseudouridine synthase [Bacillus cereus Rock1-3] gi|228668435|gb|EEL23866.1| Pseudouridine synthase [Bacillus cereus Rock1-3] gi|228681245|gb|EEL35412.1| Pseudouridine synthase [Bacillus cereus Rock3-28] gi|228687355|gb|EEL41259.1| Pseudouridine synthase [Bacillus cereus Rock3-29] gi|228708362|gb|EEL60516.1| Pseudouridine synthase [Bacillus cereus Rock4-18] Length = 242 Score = 295 bits (757), Expect = 5e-78, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 139/233 (59%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR+ V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 61 VYFLLYKPTGVISSVSDDKGRNVVTDFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ V + + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVTLEDGKTAPANVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQL 233 >gi|218896501|ref|YP_002444912.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus G9842] gi|228900151|ref|ZP_04064384.1| Pseudouridine synthase [Bacillus thuringiensis IBL 4222] gi|228907203|ref|ZP_04071064.1| Pseudouridine synthase [Bacillus thuringiensis IBL 200] gi|228938683|ref|ZP_04101288.1| Pseudouridine synthase [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228964544|ref|ZP_04125654.1| Pseudouridine synthase [Bacillus thuringiensis serovar sotto str. T04001] gi|228971565|ref|ZP_04132189.1| Pseudouridine synthase [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228978176|ref|ZP_04138554.1| Pseudouridine synthase [Bacillus thuringiensis Bt407] gi|218545922|gb|ACK98316.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus G9842] gi|228781648|gb|EEM29848.1| Pseudouridine synthase [Bacillus thuringiensis Bt407] gi|228788224|gb|EEM36179.1| Pseudouridine synthase [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228795144|gb|EEM42640.1| Pseudouridine synthase [Bacillus thuringiensis serovar sotto str. T04001] gi|228821059|gb|EEM67079.1| Pseudouridine synthase [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228852424|gb|EEM97217.1| Pseudouridine synthase [Bacillus thuringiensis IBL 200] gi|228859557|gb|EEN03984.1| Pseudouridine synthase [Bacillus thuringiensis IBL 4222] gi|326939191|gb|AEA15087.1| ribosomal large subunit pseudouridine synthase B [Bacillus thuringiensis serovar chinensis CT-43] Length = 242 Score = 295 bits (757), Expect = 5e-78, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 139/233 (59%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GRS V D P I R+ +GRLD +T G+LL+TNDG A + Sbjct: 61 VYFLLYKPTGVISSVSDDKGRSVVTDFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANI 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ V + + ++ A V + Sbjct: 121 LMHPKYKVEKTYVAKIKGPLTGEKIRMLERGVALEDGKTAPAHVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQL 233 >gi|42780671|ref|NP_977918.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus ATCC 10987] gi|47569145|ref|ZP_00239833.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus G9241] gi|206978260|ref|ZP_03239138.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus H3081.97] gi|217959048|ref|YP_002337596.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus AH187] gi|222095202|ref|YP_002529262.1| ribosomal large subunit pseudouridine synthase b [Bacillus cereus Q1] gi|228984651|ref|ZP_04144824.1| Pseudouridine synthase [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|229138265|ref|ZP_04266860.1| Pseudouridine synthase [Bacillus cereus BDRD-ST26] gi|229155139|ref|ZP_04283251.1| Pseudouridine synthase [Bacillus cereus ATCC 4342] gi|229195772|ref|ZP_04322532.1| Pseudouridine synthase [Bacillus cereus m1293] gi|300117500|ref|ZP_07055290.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus SJ1] gi|301053111|ref|YP_003791322.1| pseudouridylate synthase [Bacillus anthracis CI] gi|42736591|gb|AAS40526.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus ATCC 10987] gi|47554216|gb|EAL12579.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus G9241] gi|206743509|gb|EDZ54938.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus H3081.97] gi|217066494|gb|ACJ80744.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus AH187] gi|221239260|gb|ACM11970.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus Q1] gi|228587669|gb|EEK45727.1| Pseudouridine synthase [Bacillus cereus m1293] gi|228628266|gb|EEK84981.1| Pseudouridine synthase [Bacillus cereus ATCC 4342] gi|228645157|gb|EEL01394.1| Pseudouridine synthase [Bacillus cereus BDRD-ST26] gi|228775045|gb|EEM23438.1| Pseudouridine synthase [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|298725335|gb|EFI65987.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus SJ1] gi|300375280|gb|ADK04184.1| pseudouridylate synthase [Bacillus cereus biovar anthracis str. CI] gi|324325588|gb|ADY20848.1| ribosomal large subunit pseudouridine synthase B [Bacillus thuringiensis serovar finitimus YBT-020] Length = 242 Score = 295 bits (757), Expect = 5e-78, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 141/233 (60%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GRS V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 61 VYFLLYKPTGVISSVSDDKGRSVVTDFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G++++ +V + + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVMLEDGKTAPARVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQL 233 >gi|30019620|ref|NP_831251.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus ATCC 14579] gi|49477247|ref|YP_035689.1| pseudouridylate synthase [Bacillus thuringiensis serovar konkukian str. 97-27] gi|118477028|ref|YP_894179.1| ribosomal large subunit pseudouridine synthase B [Bacillus thuringiensis str. Al Hakam] gi|196036830|ref|ZP_03104219.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus W] gi|196039034|ref|ZP_03106341.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus NVH0597-99] gi|196047636|ref|ZP_03114843.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus 03BB108] gi|206968047|ref|ZP_03229003.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus AH1134] gi|218232708|ref|YP_002366253.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus B4264] gi|218902682|ref|YP_002450516.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus AH820] gi|225863435|ref|YP_002748813.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus 03BB102] gi|228914146|ref|ZP_04077764.1| Pseudouridine synthase [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228920281|ref|ZP_04083629.1| Pseudouridine synthase [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228926603|ref|ZP_04089672.1| Pseudouridine synthase [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228932858|ref|ZP_04095725.1| Pseudouridine synthase [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228945172|ref|ZP_04107528.1| Pseudouridine synthase [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228951948|ref|ZP_04114046.1| Pseudouridine synthase [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228957847|ref|ZP_04119587.1| Pseudouridine synthase [Bacillus thuringiensis serovar pakistani str. T13001] gi|229043313|ref|ZP_04191033.1| Pseudouridine synthase [Bacillus cereus AH676] gi|229069124|ref|ZP_04202416.1| Pseudouridine synthase [Bacillus cereus F65185] gi|229078754|ref|ZP_04211308.1| Pseudouridine synthase [Bacillus cereus Rock4-2] gi|229090533|ref|ZP_04221769.1| Pseudouridine synthase [Bacillus cereus Rock3-42] gi|229109026|ref|ZP_04238627.1| Pseudouridine synthase [Bacillus cereus Rock1-15] gi|229121114|ref|ZP_04250351.1| Pseudouridine synthase [Bacillus cereus 95/8201] gi|229126886|ref|ZP_04255898.1| Pseudouridine synthase [Bacillus cereus BDRD-Cer4] gi|229144171|ref|ZP_04272585.1| Pseudouridine synthase [Bacillus cereus BDRD-ST24] gi|229149770|ref|ZP_04278000.1| Pseudouridine synthase [Bacillus cereus m1550] gi|229177979|ref|ZP_04305351.1| Pseudouridine synthase [Bacillus cereus 172560W] gi|229183767|ref|ZP_04310984.1| Pseudouridine synthase [Bacillus cereus BGSC 6E1] gi|229189653|ref|ZP_04316668.1| Pseudouridine synthase [Bacillus cereus ATCC 10876] gi|254721252|ref|ZP_05183042.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A1055] gi|296502142|ref|YP_003663842.1| ribosomal large subunit pseudouridine synthase B [Bacillus thuringiensis BMB171] gi|29895164|gb|AAP08452.1| Ribosomal large subunit pseudouridine synthase B [Bacillus cereus ATCC 14579] gi|49328803|gb|AAT59449.1| pseudouridylate synthase [Bacillus thuringiensis serovar konkukian str. 97-27] gi|118416253|gb|ABK84672.1| ribosomal large subunit pseudouridine synthase B [Bacillus thuringiensis str. Al Hakam] gi|195990559|gb|EDX54538.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus W] gi|196021550|gb|EDX60250.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus 03BB108] gi|196030179|gb|EDX68779.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus NVH0597-99] gi|206736967|gb|EDZ54114.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus AH1134] gi|218160665|gb|ACK60657.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus B4264] gi|218539452|gb|ACK91850.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus AH820] gi|225790880|gb|ACO31097.1| ribosomal large subunit pseudouridine synthase B [Bacillus cereus 03BB102] gi|228593917|gb|EEK51721.1| Pseudouridine synthase [Bacillus cereus ATCC 10876] gi|228599616|gb|EEK57219.1| Pseudouridine synthase [Bacillus cereus BGSC 6E1] gi|228605467|gb|EEK62916.1| Pseudouridine synthase [Bacillus cereus 172560W] gi|228633801|gb|EEK90400.1| Pseudouridine synthase [Bacillus cereus m1550] gi|228639179|gb|EEK95595.1| Pseudouridine synthase [Bacillus cereus BDRD-ST24] gi|228656826|gb|EEL12652.1| Pseudouridine synthase [Bacillus cereus BDRD-Cer4] gi|228662233|gb|EEL17836.1| Pseudouridine synthase [Bacillus cereus 95/8201] gi|228674495|gb|EEL29738.1| Pseudouridine synthase [Bacillus cereus Rock1-15] gi|228692800|gb|EEL46523.1| Pseudouridine synthase [Bacillus cereus Rock3-42] gi|228704627|gb|EEL57059.1| Pseudouridine synthase [Bacillus cereus Rock4-2] gi|228714069|gb|EEL65952.1| Pseudouridine synthase [Bacillus cereus F65185] gi|228726027|gb|EEL77264.1| Pseudouridine synthase [Bacillus cereus AH676] gi|228801763|gb|EEM48640.1| Pseudouridine synthase [Bacillus thuringiensis serovar pakistani str. T13001] gi|228807871|gb|EEM54392.1| Pseudouridine synthase [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228814407|gb|EEM60672.1| Pseudouridine synthase [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228826779|gb|EEM72546.1| Pseudouridine synthase [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228832979|gb|EEM78547.1| Pseudouridine synthase [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228839480|gb|EEM84773.1| Pseudouridine synthase [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228845479|gb|EEM90512.1| Pseudouridine synthase [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|296323194|gb|ADH06122.1| ribosomal large subunit pseudouridine synthase B [Bacillus thuringiensis BMB171] Length = 242 Score = 295 bits (756), Expect = 6e-78, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 140/233 (60%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GRS V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 61 VYFLLYKPTGVISSVSDDKGRSVVTDFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ +V + + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVTLEDGKTAPARVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQL 233 >gi|229058206|ref|ZP_04196594.1| Pseudouridine synthase [Bacillus cereus AH603] gi|228720070|gb|EEL71654.1| Pseudouridine synthase [Bacillus cereus AH603] Length = 242 Score = 295 bits (756), Expect = 6e-78, Method: Composition-based stats. Identities = 83/233 (35%), Positives = 140/233 (60%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR+ V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 61 VYFLLYKPTGVISSVSDDKGRNVVTDFFPEIRQRLFPIGRLDYDTSGVLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + DK+ +L++G+ ++ QV + + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGDKIRMLERGVALEDGKTAPAQVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVMKLKRERYAFLEVGSLRPGDARELTPHEVKQL 233 >gi|261406009|ref|YP_003242250.1| pseudouridine synthase [Paenibacillus sp. Y412MC10] gi|329929803|ref|ZP_08283479.1| pseudouridine synthase B, ribosomal large subunit [Paenibacillus sp. HGF5] gi|261282472|gb|ACX64443.1| pseudouridine synthase [Paenibacillus sp. Y412MC10] gi|328935781|gb|EGG32242.1| pseudouridine synthase B, ribosomal large subunit [Paenibacillus sp. HGF5] Length = 251 Score = 295 bits (756), Expect = 7e-78, Method: Composition-based stats. Identities = 81/235 (34%), Positives = 130/235 (55%), Gaps = 4/235 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K++A+AG+ASRR+ E +I + +V+VNG + D I V G P++ E+ Sbjct: 2 ERLQKIMAQAGVASRRKCEELILEGKVQVNGETVTELGTKADPAQDIITVSGKPIK-NEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++T+ SDP+GR V D L I RV +GRLD +TEGLLLLTNDG A Sbjct: 61 KVYVMLNKPKGVITSASDPEGRKIVSDYLKGIKERVYPIGRLDYDTEGLLLLTNDGEFAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 +L P + Y G +L+ L++GI+++ +V N + ++ Sbjct: 121 LLSHPKYHVPKTYLATVKGVPHGTELDKLRQGIMLEDGMTSPAEVEYKDVDPDNKQSVIS 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + + EG+NR+++++FE + V RL RISYG L L G R ++ + + L Sbjct: 181 ITIHEGRNRQVRRMFEAISHPVLRLKRISYGDLLLQNLKRGLYRHLTADEINQLL 235 >gi|315172332|gb|EFU16349.1| conserved hypothetical protein [Enterococcus faecalis TX1346] Length = 238 Score = 295 bits (756), Expect = 7e-78, Method: Composition-based stats. Identities = 83/234 (35%), Positives = 126/234 (53%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA AG+ SRR+ E +I + RVKVNG +++ V D +EVDGVP+ E Sbjct: 2 ERLQKAIAHAGVTSRRKAEELIVKGRVKVNGQVVKELGTQVSKQDTVEVDGVPI-YQEEY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+++ SD GR V D + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 61 GYYLFYKPRGVISAVSDDKGRKVVTDYFTDVTERIYPVGRLDYDTSGLLLLTNDGSFSQK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + +VY + G + L L KGI I G + + + V + Sbjct: 121 LTHPKHEVDKVYVAKIKGVPTKRDLLPLVKGIRIDGKRTAPANFQILSADIKTGSSVVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+N ++KK+F+ + V +L R YG L L G R+++KK + + L Sbjct: 181 TIHEGRNHQVKKMFQAVGFPVQKLKRERYGELTLQGLRPGQYRDLTKKEISQLL 234 >gi|163797848|ref|ZP_02191793.1| Pseudouridine synthase, Rsu [alpha proteobacterium BAL199] gi|159176892|gb|EDP61459.1| Pseudouridine synthase, Rsu [alpha proteobacterium BAL199] Length = 387 Score = 295 bits (756), Expect = 7e-78, Method: Composition-based stats. Identities = 142/308 (46%), Positives = 195/308 (63%), Gaps = 2/308 (0%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + +E+ +R+SK +ARAG+ SRR+ ER IA+ RVKV+G++L AVNV I VD Sbjct: 1 MFEESRGSERISKRLARAGLCSRRDAERWIAEGRVKVDGVMLTSPAVNVDDDSVILVDEK 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL + E RLW YHKP GLVT++ DP+GRSTVFD LP RV++VGRLDI++EGLLLLT Sbjct: 61 PLPEIEPPRLWRYHKPDGLVTSNRDPEGRSTVFDRLPKDLPRVVTVGRLDIDSEGLLLLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDGGLAR LELPST W+R YRVR G +D+ KL+ LKKG+ I+G+ YG ++VT+D + Sbjct: 121 NDGGLARYLELPSTGWVRRYRVRVFGPLDEAKLDNLKKGVRIEGVEYGPIEVTIDKATRT 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 N+W+TV LREGKNREI++V E V+RLIR +YGPFQLG + G E+ +++L++QL Sbjct: 181 NSWLTVALREGKNREIRRVMEHVGLTVSRLIRTTYGPFQLGEVPPGGVEEIKRRVLKDQL 240 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 G +++ P + RP + P D S + + + Sbjct: 241 GLAKGDDSGHAKAKPERTGTQPPGRRPGTLRLRSKPTDIEVESDRPSSGGRVQRTRADMV 300 Query: 304 PVHRRNLA 311 R+ Sbjct: 301 KSAPRSGT 308 >gi|126650120|ref|ZP_01722353.1| RluB [Bacillus sp. B14905] gi|126593292|gb|EAZ87254.1| RluB [Bacillus sp. B14905] Length = 243 Score = 295 bits (755), Expect = 8e-78, Method: Composition-based stats. Identities = 84/233 (36%), Positives = 131/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E++I + +VKVNG ++ V ++D IEV+GV L K E Sbjct: 2 ERLQKVIAYAGIASRRKAEQLILEGKVKVNGKVIRELGTKVSNSDTIEVEGVKLEK-EDK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G ++ +D GR TV D I R+ VGRLD +T GLLLLTNDG + + Sbjct: 61 VYFLLYKPRGTISAVTDDKGRKTVTDLFHHIPQRIFPVGRLDYDTSGLLLLTNDGEFSYM 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y R G + L L++GI ++ +V++ + +K A + Sbjct: 121 LTHPKFKIDKTYIARVKGIPTIEGLKKLQRGIKLEDGKTAPAKVSMTSFDEKAGKAICEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE V +L R + L L G RE+SK +++ Sbjct: 181 TIHEGRNRQVRRMFEAIGTPVVKLKRERFAFLDLFGLAPGEFRELSKHEVKQL 233 >gi|197106628|ref|YP_002132005.1| pseudouridine synthase, Rsu [Phenylobacterium zucineum HLK1] gi|196480048|gb|ACG79576.1| pseudouridine synthase, Rsu [Phenylobacterium zucineum HLK1] Length = 521 Score = 295 bits (755), Expect = 8e-78, Method: Composition-based stats. Identities = 145/348 (41%), Positives = 203/348 (58%), Gaps = 7/348 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K++AR+G+ SRR+VER+IA+ RV +NG +L AV V D + VDG + + E Sbjct: 151 ERIAKLLARSGVGSRRDVERLIAEGRVAINGQVLTTPAVKVEPGDILTVDGAVVGEPEPV 210 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R++ YHKP+GLVTTH DP GR TVF+ LP R+ISVGRLD+N+EGLLLLTNDGGLAR Sbjct: 211 RVFRYHKPVGLVTTHKDPQGRPTVFEALPEGLPRLISVGRLDLNSEGLLLLTNDGGLARA 270 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----GSNAWV 189 LELP+T +R YR R HG++ Q++L+ LK GI ++G+ YG ++ LD K G+N W+ Sbjct: 271 LELPATGVVRRYRARAHGRITQERLDTLKDGITVEGVRYGAIEARLDKAKEGHQGANLWL 330 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 TV L+EGKNRE+++V E KVNRLIR+SYGPF LGTL G EV +++REQL H+ Sbjct: 331 TVTLQEGKNREVRRVLEALGLKVNRLIRLSYGPFALGTLDVGEIEEVGPRVIREQLEGHI 390 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ---KNGLSKQKKLATPVH 306 E D P Y S R S + + ++ K G +K K A P Sbjct: 391 PPENMPKGDRPQYRSPARKSRRAQAESRQAELVPPRPEAPAKKAYKAGWAKPKAKAKPHA 450 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + + +R+ S + ++ Sbjct: 451 KTAGKAAKAKLQAKIEGKTIGPRHEPAAGKRTASQGKPPGRPKGGPQR 498 >gi|52143877|ref|YP_082953.1| pseudouridylate synthase [Bacillus cereus E33L] gi|51977346|gb|AAU18896.1| pseudouridylate synthase [Bacillus cereus E33L] Length = 242 Score = 295 bits (755), Expect = 8e-78, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 141/233 (60%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVAPQDKVEVNNIPLEKEE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GRS V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 61 VYFLLYKPTGVISSVSDDKGRSVVTDFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G++++ +V + + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVMLEDGKTAPARVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQL 233 >gi|116333418|ref|YP_794945.1| 16S rRNA uridine-516 pseudouridylate synthase related enzyme [Lactobacillus brevis ATCC 367] gi|116098765|gb|ABJ63914.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus brevis ATCC 367] Length = 240 Score = 295 bits (755), Expect = 9e-78, Method: Composition-based stats. Identities = 86/233 (36%), Positives = 126/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR+ E++I RVKVNG + V D I VDGVP+ +E Sbjct: 2 ERLQKVLAHAGVASRRQSEKLIMSGRVKVNGAAVTELGTKVGVHDQILVDGVPIS-SEAP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G+V+T +D GR TV D + ++ RV VGRLD +T GLLLLTNDG LA Sbjct: 61 IYIMLYKPRGVVSTANDDKGRKTVVDLVENVSQRVYPVGRLDYDTSGLLLLTNDGELANR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P + + Y R G D + L++GI + G Y + + A +++ Sbjct: 121 LTHPRYEVEKTYIARVTGVPTNDAMKQLRQGITVDGETYAPAKSKVLSAADDRKTAIISL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EGKN ++KK+ V +L R YG L L AG R++ + ++E Sbjct: 181 TIHEGKNHQVKKMLAAVGCPVEKLKREQYGFLTLKGLNAGEARQLKPEEVKEL 233 >gi|254563182|ref|YP_003070277.1| hypothetical protein METDI4845 [Methylobacterium extorquens DM4] gi|254270460|emb|CAX26460.1| conserved hypothetical protein; putative pseudouridine synthase-like domain [Methylobacterium extorquens DM4] Length = 669 Score = 295 bits (755), Expect = 9e-78, Method: Composition-based stats. Identities = 153/361 (42%), Positives = 205/361 (56%), Gaps = 21/361 (5%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R++K IARAGIASRR+ E +I RV +NG +L A+NV +D I VD PL Sbjct: 18 TPEGERIAKAIARAGIASRRDAEALIEAGRVTLNGKVLTSPAINVTDSDRITVDDEPLPA 77 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ERTRLWL HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGLLLLTNDGG Sbjct: 78 RERTRLWLLHKPRGVVTTARDPEGRPTVFDGLPEELPRVVAIGRLDINTEGLLLLTNDGG 137 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA+V+ P T WLR YRVR G V Q L+ LKKG+ + G+ YG ++ TLD +G N W+ Sbjct: 138 LAKVIAHPDTGWLRRYRVRAFGDVTQPDLDKLKKGLTVDGMEYGPIEATLDRAQGDNVWL 197 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 T+GLREGKNRE+K++ E VNRLIR+S+GPFQLG L G E+ K+L++QLG +L Sbjct: 198 TLGLREGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEIRTKVLKDQLGKNL 257 Query: 250 LEEAQVNLD-------APIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS------ 296 E+A V+ + AP S + R + R + S ++G Sbjct: 258 AEQAGVDFESPVRETIAPFGSPKKATRATQAAPAGRGRQGARDEGASEARSGSRGGAAGR 317 Query: 297 --------KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + R + VW A S +R + + + + ++R Sbjct: 318 PPRDPARPAAPRAGARPAPRPPSPTVWRADEETRPRASKVPRRGMDPKTARAEAAERGRE 377 Query: 349 R 349 R Sbjct: 378 R 378 >gi|297544608|ref|YP_003676910.1| pseudouridine synthase [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|296842383|gb|ADH60899.1| pseudouridine synthase [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 236 Score = 294 bits (754), Expect = 1e-77, Method: Composition-based stats. Identities = 77/228 (33%), Positives = 121/228 (53%), Gaps = 2/228 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K +A GIASRR+ E I Q RVKVNG ++ V + D IE D +R+ ++ Sbjct: 3 RLQKYLAECGIASRRKCEEYILQGRVKVNGKEVKELGVKINPDVDIIEFDDKIVRREKKK 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G +T+ D GR TV D + + R+ VGRLD +T GLLLLTNDG +A + Sbjct: 63 VYIMLNKPTGYITSVKDQFGRPTVMDLV-KVKERIYPVGRLDYDTSGLLLLTNDGEIANI 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + + Y + G +++L + G++I+ ++ + T K + V + + Sbjct: 122 LMHPRHEIAKTYIAKIKGIPTEEELERFRNGLLIEDYVTSKAEIKVLTVKKGTSVVEIKI 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EGKNR+++K+ E V L+R G L L G R ++ K + Sbjct: 182 HEGKNRQVRKMCEAIGHPVISLMRTKIGELSLEGLKPGEWRYLTNKEI 229 >gi|229166414|ref|ZP_04294170.1| Pseudouridine synthase [Bacillus cereus AH621] gi|228616988|gb|EEK74057.1| Pseudouridine synthase [Bacillus cereus AH621] Length = 242 Score = 294 bits (754), Expect = 1e-77, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 139/233 (59%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR+ V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 61 VYFLLYKPTGVISSVSDDKGRNVVTDFFPEIRQRLFPIGRLDYDTSGVLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ Q + + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVALEDGKTAPAQAKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQL 233 >gi|121535833|ref|ZP_01667633.1| pseudouridine synthase [Thermosinus carboxydivorans Nor1] gi|121305605|gb|EAX46547.1| pseudouridine synthase [Thermosinus carboxydivorans Nor1] Length = 241 Score = 294 bits (754), Expect = 1e-77, Method: Composition-based stats. Identities = 85/232 (36%), Positives = 123/232 (53%), Gaps = 4/232 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAE 71 P+R+ K++++AGIASRR E++I RV VNG ++ V D + VDG P+ AE Sbjct: 2 PERLQKILSQAGIASRRAAEKLILDGRVAVNGKIITELGAKVDWPRDRVTVDGKPI-AAE 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP G++T+ DP GR TV D L + RV VGRLD NTEGLLLLTNDG L Sbjct: 61 APVYILLNKPKGVITSLKDPRGRKTVIDLLKDVPERVYPVGRLDYNTEGLLLLTNDGDLT 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWV 189 L PS + + Y + G ++++L+ L+ GI + V L A V Sbjct: 121 HALTHPSHEIKKTYVSKIAGLPNEEQLDRLRAGIKLSDGMTSPAAVRLLDFDPVKQVAVV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + EG+NR+++++FE V L R Y L L G R ++ + Sbjct: 181 EITIHEGRNRQVRRMFEAIGHPVKSLKRTKYAFLTLTGLKRGEYRRLTPDEV 232 >gi|302389711|ref|YP_003825532.1| ribosomal large subunit pseudouridine synthase B [Thermosediminibacter oceani DSM 16646] gi|302200339|gb|ADL07909.1| ribosomal large subunit pseudouridine synthase B [Thermosediminibacter oceani DSM 16646] Length = 237 Score = 294 bits (754), Expect = 1e-77, Method: Composition-based stats. Identities = 77/230 (33%), Positives = 118/230 (51%), Gaps = 1/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A AGIASRR E++I + RV+VNG + V V D + VDG R + Sbjct: 3 IRLQKFLAMAGIASRRACEKLILEGRVQVNGKTVRELGVKVDPALDEVRVDGNVCRLNNK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G++TT DP GR TV D L + RV VGRLD +TEGLL+LTNDG L+ Sbjct: 63 PIYILMNKPKGILTTVKDPFGRPTVIDLLKGVRERVFPVGRLDKDTEGLLILTNDGELSY 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y + G D+ L++GIV++ +V + + + Sbjct: 123 RLTHPKHEIEKTYVAKVVGTPDESDFIRLRRGIVLEDGRTAPAKVRILKAGRDFTVLEII 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+ R+++++ + V L R G L L G R +++ ++ Sbjct: 183 IHEGRKRQVRRMCKAIGHPVISLKRTRIGKLNLRGLAPGCWRYMTEAEIK 232 >gi|229010875|ref|ZP_04168072.1| Pseudouridine synthase [Bacillus mycoides DSM 2048] gi|228750549|gb|EEM00378.1| Pseudouridine synthase [Bacillus mycoides DSM 2048] Length = 242 Score = 294 bits (754), Expect = 1e-77, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 139/233 (59%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR+ V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 61 VYFLLYKPTGVISSVSDDKGRNVVTDFFPEIRQRLFPIGRLDYDTSGVLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ Q + + ++ A V + Sbjct: 121 LMHPRYKIEKTYVAKIKGPLTGEKIRMLERGVALEDGKTAPAQAKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVMKLKRERYAFLEVGSLRPGDARELTPHEVKQL 233 >gi|163939386|ref|YP_001644270.1| pseudouridine synthase [Bacillus weihenstephanensis KBAB4] gi|229132378|ref|ZP_04261232.1| Pseudouridine synthase [Bacillus cereus BDRD-ST196] gi|163861583|gb|ABY42642.1| pseudouridine synthase [Bacillus weihenstephanensis KBAB4] gi|228651084|gb|EEL07065.1| Pseudouridine synthase [Bacillus cereus BDRD-ST196] Length = 242 Score = 294 bits (754), Expect = 1e-77, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 139/233 (59%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR+ V D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 61 VYFLLYKPTGVISSVSDDKGRNVVTDFFPEIRQRLFPIGRLDYDTSGVLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ Q + + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVALEDGKTAPAQAKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ Sbjct: 181 TIHEGRNRQVRRMFEALDCKVMKLKRERYAFLEVGSLRPGDARELTPHEVKQL 233 >gi|83859466|ref|ZP_00952987.1| RNA pseudouridylate synthase family protein [Oceanicaulis alexandrii HTCC2633] gi|83852913|gb|EAP90766.1| RNA pseudouridylate synthase family protein [Oceanicaulis alexandrii HTCC2633] Length = 354 Score = 294 bits (754), Expect = 1e-77, Method: Composition-based stats. Identities = 146/344 (42%), Positives = 195/344 (56%), Gaps = 4/344 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 E +R++KV+A AGIASRRE ER+I + RV VNG +L A VM+ D + VDG Sbjct: 10 TPEEEGGERIAKVLAHAGIASRREAERLIEKGRVSVNGEILRTPAFKVMAGDDVRVDGES 69 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + TR+W YHKP+GL+TTHSDP GR TVF LP RVISVGRLD+N+EGLLLLTN Sbjct: 70 IGQRPPTRVWRYHKPVGLLTTHSDPQGRDTVFQTLPQDMGRVISVGRLDLNSEGLLLLTN 129 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LARVLELPST W R YRVR +G L L+ G V+ G+ YG ++VT+D + G+N Sbjct: 130 DGELARVLELPSTGWTRRYRVRAYGNASDKALAELENGTVVDGVVYGPVEVTVDRRTGAN 189 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W+TVG++EGKNRE++KV + VNRL+R++YGPFQLG+L G E +LR+QLG Sbjct: 190 VWLTVGIKEGKNREVRKVLQSVGLTVNRLMRVAYGPFQLGSLKRGEISESKLSVLRDQLG 249 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + P+ ET D ++ R + S K P Sbjct: 250 KLYPLDTD---GLPLKPGETAKPDTRTGTAKAKPKANRPHQKSGGKPRAGLDADSIMPAG 306 Query: 307 RRNLASNVW-MAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 ++ + W AK + S + + + K R Sbjct: 307 GKSKTAKGWAKAKPKANEKPKSSKRSDPKGSGGKASKGKSDADR 350 >gi|169827290|ref|YP_001697448.1| ribosomal large subunit pseudouridine synthase B [Lysinibacillus sphaericus C3-41] gi|168991778|gb|ACA39318.1| Ribosomal large subunit pseudouridine synthase B [Lysinibacillus sphaericus C3-41] Length = 243 Score = 294 bits (753), Expect = 1e-77, Method: Composition-based stats. Identities = 83/233 (35%), Positives = 131/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E++I + +VKVNGI++ V ++D IEV+GV L K E Sbjct: 2 ERLQKVIAYAGVASRRKAEQLIVEGKVKVNGIVVRELGTKVSNSDTIEVEGVKLEK-EDK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G ++ +D GR TV D I R+ VGRLD +T GLLLLTNDG + + Sbjct: 61 VYFLLYKPRGTISAVTDDKGRKTVTDLFHHIPQRIFPVGRLDYDTSGLLLLTNDGEFSYM 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y R G + L L++GI ++ +V++ + + A + Sbjct: 121 LTHPKFKIDKTYIARVKGIPTIEGLKKLQRGIKLEDGKTAPAKVSMTSFDENAGKAICEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE V +L R + L L G RE+SK +++ Sbjct: 181 TIHEGRNRQVRRMFEAIGTPVVKLKRERFAFLDLYGLAPGEFRELSKHEVKQL 233 >gi|83952774|ref|ZP_00961504.1| RNA pseudouridylate synthase family protein [Roseovarius nubinhibens ISM] gi|83835909|gb|EAP75208.1| RNA pseudouridylate synthase family protein [Roseovarius nubinhibens ISM] Length = 268 Score = 294 bits (753), Expect = 1e-77, Method: Composition-based stats. Identities = 139/268 (51%), Positives = 178/268 (66%), Gaps = 2/268 (0%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + + R++KVIARAG+ASRRE ERM+ RV VNG ++ A+NV +D I VDG Sbjct: 1 MSETPPPGDRIAKVIARAGLASRREAERMVEAGRVTVNGRKIDSPALNVTPSDKITVDGR 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 L E RLWLYHKP GLVTT D GR T+FD LP RV+SVGRLD+N+EGLLLLT Sbjct: 61 ALATPEPPRLWLYHKPTGLVTTTRDEQGRDTIFDKLPEDLPRVMSVGRLDLNSEGLLLLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDGG+ R LELPST WLR YRVR +G+ + L+KG+ ++G + MQVTLD Q+G+ Sbjct: 121 NDGGIKRRLELPSTGWLRRYRVRVNGRPNDATFEPLRKGVTLEGERFQPMQVTLDRQQGA 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 NAW+TV +REGKNREI++ E VNRLIR+SYGPFQLG L +G E+ +++REQL Sbjct: 181 NAWITVAIREGKNREIRRAMESVGLSVNRLIRVSYGPFQLGQLKSGEVEEIRPRVMREQL 240 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPN 273 G L EE P ++ + + Sbjct: 241 G--LTEEEAGRTPGPQAKAKPRGKPQRR 266 >gi|144897623|emb|CAM74487.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Magnetospirillum gryphiswaldense MSR-1] Length = 287 Score = 294 bits (753), Expect = 2e-77, Method: Composition-based stats. Identities = 142/287 (49%), Positives = 189/287 (65%), Gaps = 9/287 (3%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + + E +R++K +ARAGI SRR+ E++I ++V VNG++LE A V D I VDG Sbjct: 10 DTLPETEEKERIAKRLARAGICSRRDAEKLITSRKVAVNGVVLESPAFLVGPGDRIVVDG 69 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + +AE+ R+W YHKP GLVTTH DP GR+TVF+ LP+ RVISVGRLD+N+EGLLLL Sbjct: 70 QLVPEAEKARVWRYHKPAGLVTTHRDPQGRATVFEKLPATMPRVISVGRLDLNSEGLLLL 129 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LAR LELP+ W+R YRVR HG ++ + L L+KG+ I G+ YG ++ LD QKG Sbjct: 130 TNDGELARSLELPAAGWVRRYRVRVHGTIEPESLVPLEKGLTIDGVKYGPIKAILDRQKG 189 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 SNAW+T+ L+EGKNREI++V E W V+RLIR+SYGPFQLG+L G EV KI++EQ Sbjct: 190 SNAWLTISLKEGKNREIRRVMEHLGWPVSRLIRVSYGPFQLGSLEEGGVEEVPGKIVKEQ 249 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 LG ++T R RP + P +N + Sbjct: 250 LG---------QGGGNWAKADTEDRPRPPSNHKKPHAGKASHENRRR 287 >gi|312143709|ref|YP_003995155.1| pseudouridine synthase [Halanaerobium sp. 'sapolanicus'] gi|311904360|gb|ADQ14801.1| pseudouridine synthase [Halanaerobium sp. 'sapolanicus'] Length = 236 Score = 294 bits (752), Expect = 2e-77, Method: Composition-based stats. Identities = 80/232 (34%), Positives = 126/232 (54%), Gaps = 2/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E +IA+ RVKVNG ++ V D IEVDG + K E+ Sbjct: 2 ERLQKVMAHAGVASRRKSEEIIAEGRVKVNGEIVTEMGFKVDPKKDEIEVDGEVIAK-EK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L HKP G +TT SDP R TV D +P + RV GRLD ++ GLL+LTNDG L Sbjct: 61 KVYLLLHKPEGYITTVSDPKERQTVMDLIPDLKQRVYPAGRLDYDSSGLLILTNDGDLCY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y VR G + + N ++G+VI G ++ + + Sbjct: 121 KLTHPKKEVDKRYWVRAKGTIFAEDFNKFEEGMVIDGRKTAPAKIANINYLDNYTEFEIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++ + V +L R ++ L L G R ++++ +++ Sbjct: 181 IHEGRNRQVRRMCRIAGFSVVKLKRTAFAFLSLDGLAEGEYRYLNEEEIKKL 232 >gi|256827115|ref|YP_003151074.1| pseudouridine synthase family protein [Cryptobacterium curtum DSM 15641] gi|256583258|gb|ACU94392.1| pseudouridine synthase family protein [Cryptobacterium curtum DSM 15641] Length = 296 Score = 294 bits (752), Expect = 2e-77, Method: Composition-based stats. Identities = 76/231 (32%), Positives = 115/231 (49%), Gaps = 2/231 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAE 71 P R+ K +ARAG+ASRR ER+I+ RV VNGI++ V D + VDG + Sbjct: 49 PLRLQKFLARAGVASRRGSERLISAGRVAVNGIVITELGTKVDPLVDEVCVDGAIVTWGA 108 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGL 130 +KP G++TT D GR V D +P + + +GRLD +T GLLL + DG L Sbjct: 109 PAVTLALNKPAGIITTMKDLRGRRCVADIMPTEQYPGLFPIGRLDQDTTGLLLFSTDGNL 168 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L PS +VYR G + Q L L GI++ +V++ ++ + Sbjct: 169 GNALLHPSHGVSKVYRATIEGSIGQAALEQLASGILLDDGMTAPARVSVVQAGKKHSVIE 228 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EG+ ++K++ + V +L R S+GP L L G+ R + L Sbjct: 229 LELHEGRKHQVKRMCQAVGHPVVKLHRASFGPIDLAGLATGAYRRLEGAEL 279 >gi|219669430|ref|YP_002459865.1| pseudouridine synthase [Desulfitobacterium hafniense DCB-2] gi|219539690|gb|ACL21429.1| pseudouridine synthase [Desulfitobacterium hafniense DCB-2] Length = 255 Score = 294 bits (752), Expect = 2e-77, Method: Composition-based stats. Identities = 91/248 (36%), Positives = 140/248 (56%), Gaps = 4/248 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M N +R+ KV+A+AGIASRR E +I Q RVKVNG ++ V+STD I Sbjct: 1 MNRNNERGRPRQEERLQKVLAQAGIASRRHAEEIILQGRVKVNGEVIRTLGTKVVSTDRI 60 Query: 61 EVDGVPLRKAERTR-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 VDG L + +L HKP G +T+ +DP GR TV + +P I RV VGRLD +T Sbjct: 61 VVDGRLLSIPQNDYAYYLLHKPTGYITSVTDPQGRKTVMELMPKIPRRVYPVGRLDYDTS 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLTNDG LA L PS + YRV ++ + L L+KG++++ ++ Sbjct: 121 GLLLLTNDGDLAHRLMHPSYGVEKTYRVEVGEKIPEQALKRLEKGVLLEDGKTAPARIRE 180 Query: 180 DTQKGSNAW--VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 + KG + + + EG+NR+++++F+ + ++ L R+ +GP +L +L G+ R + Sbjct: 181 VSPKGRGSLPTYEITIHEGRNRQVRRMFKAVGFPLSTLKRLRFGPLELDPSLAPGAFRTL 240 Query: 237 SKKILREQ 244 SK ++ Sbjct: 241 SKTEIQHL 248 >gi|218532076|ref|YP_002422892.1| RNA-binding S4 domain protein [Methylobacterium chloromethanicum CM4] gi|218524379|gb|ACK84964.1| RNA-binding S4 domain protein [Methylobacterium chloromethanicum CM4] Length = 674 Score = 294 bits (752), Expect = 2e-77, Method: Composition-based stats. Identities = 140/292 (47%), Positives = 189/292 (64%), Gaps = 1/292 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R++K IARAGIASRR+ E +I RV +NG +L A+NV +D I VD PL E Sbjct: 20 EGERIAKAIARAGIASRRDAEALIEAGRVTLNGKVLTSPAINVTDSDRITVDDEPLPARE 79 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RTRLWL HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGLLLLTNDGGLA Sbjct: 80 RTRLWLLHKPRGVVTTARDPEGRPTVFDGLPEELPRVVAIGRLDINTEGLLLLTNDGGLA 139 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 +V+ P T WLR YRVR G V Q L+ LKKG+ + G+ YG ++ TLD +G N W+T+ Sbjct: 140 KVIAHPDTGWLRRYRVRAFGDVTQPDLDKLKKGLTVDGMEYGPIEATLDRAQGDNVWLTL 199 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 GLREGKNRE+K++ E VNRLIR+S+GPFQLG L G E+ K+L++QLG +L E Sbjct: 200 GLREGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEIRTKVLKDQLGKNLAE 259 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 +A V+ ++P+ + P + + ++ + + + + Sbjct: 260 QAGVDFESPVRET-IAPFGSPKKATRATQAAPAGRGRQGARDEGASEPRSGS 310 >gi|149200863|ref|ZP_01877838.1| RNA pseudouridylate synthase family protein [Roseovarius sp. TM1035] gi|149145196|gb|EDM33222.1| RNA pseudouridylate synthase family protein [Roseovarius sp. TM1035] Length = 268 Score = 294 bits (752), Expect = 2e-77, Method: Composition-based stats. Identities = 139/269 (51%), Positives = 180/269 (66%), Gaps = 2/269 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M +K ++ +R++KVIARAGIASRRE ER+I + RV VNG + RAA+NV D + Sbjct: 1 MNNKTPEKKPPEGERIAKVIARAGIASRREAERLIEEGRVTVNGQKVLRAALNVTPADKV 60 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 V+G L AE RLWLYHKP GLVTT D GR T++D+LP RV+SVGRLD+N+EG Sbjct: 61 VVNGRALEAAEPARLWLYHKPTGLVTTTRDEKGRRTIYDDLPEDMPRVMSVGRLDLNSEG 120 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLLLTNDG L R LELPST WLR YRVR +G+ L+KG+V+ G + M V+LD Sbjct: 121 LLLLTNDGELKRKLELPSTGWLRRYRVRVNGRPTDASFEPLRKGLVVDGEAFQPMIVSLD 180 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 Q+G+NAW+TV +REGKNREI++ E VNRLIR+SYGPFQLG L G+ E+ ++ Sbjct: 181 RQQGANAWITVAIREGKNREIRRAMEAVGLVVNRLIRLSYGPFQLGQLKPGAVEEIRPRV 240 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVR 269 +R+QLG + +E + P R Sbjct: 241 MRDQLG--MPQEPEAEPAKPARPKPQRRR 267 >gi|240140668|ref|YP_002965148.1| hypothetical protein MexAM1_META1p4234 [Methylobacterium extorquens AM1] gi|240010645|gb|ACS41871.1| conserved hypothetical protein with putative pseudouridine synthase-like domain [Methylobacterium extorquens AM1] Length = 669 Score = 293 bits (751), Expect = 2e-77, Method: Composition-based stats. Identities = 141/294 (47%), Positives = 188/294 (63%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R++K IARAGIASRR+ E +I RV +NG +L A+NV +D I VD PL Sbjct: 18 TPEGERIAKAIARAGIASRRDAEALIEAGRVTLNGKVLTSPAINVTDSDRITVDDEPLPA 77 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ERTRLWL HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGLLLLTNDGG Sbjct: 78 RERTRLWLLHKPRGVVTTARDPEGRPTVFDGLPEELPRVVAIGRLDINTEGLLLLTNDGG 137 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA+V+ P T WLR YRVR G V Q L+ LKKG+ + G+ YG ++ TLD +G N W+ Sbjct: 138 LAKVIAHPDTGWLRRYRVRAFGDVTQPDLDKLKKGLTVDGMEYGPIEATLDRAQGDNVWL 197 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 T+GLREGKNRE+K++ E VNRLIR+S+GPFQLG L G E+ K+L++QLG +L Sbjct: 198 TLGLREGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEIRTKVLKDQLGKNL 257 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 E+A V+ ++P+ + + ++ G S+ + + Sbjct: 258 AEQAGVDFESPVRETIAPFGSPKKATRAAQAAPAGRGRQGARDEGASEARSGSR 311 >gi|328957343|ref|YP_004374729.1| ribosomal large subunit pseudouridine synthase B [Carnobacterium sp. 17-4] gi|328673667|gb|AEB29713.1| ribosomal large subunit pseudouridine synthase B [Carnobacterium sp. 17-4] Length = 251 Score = 293 bits (751), Expect = 2e-77, Method: Composition-based stats. Identities = 88/252 (34%), Positives = 138/252 (54%), Gaps = 3/252 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + E +R+ KV+A AG+ASRR+ E +I++ VKVNG +++ + + ++D +EVDGVP Sbjct: 1 MYEGEIMERLQKVLAHAGVASRRKSEELISKGHVKVNGKVVKEMGIQIGNSDVVEVDGVP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + E +L +KP ++T SD GR V D +I R+ VGRLD +T G L+LTN Sbjct: 61 I-YREEPVYFLLNKPRNMITAVSDDKGRPVVTDLFTNIEQRIYPVGRLDYDTTGALMLTN 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L+++L P Q + Y + G VD+ LN L+KGIVI+G + + + + Sbjct: 120 DGELSQLLMHPKYQIDKTYVAKVKGLVDRKALNKLEKGIVIEGKKTAPAKAKILSADRAK 179 Query: 187 --AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V + + EG+NR++K +F+ V +L R SYG L L G RE+ + + Sbjct: 180 DITMVELTIHEGRNRQVKNMFQAIGHPVEKLKRESYGTLTLDGLQTGEWRELKTFEIYQL 239 Query: 245 LGPHLLEEAQVN 256 EE + Sbjct: 240 RNSATQEENKTK 251 >gi|319651400|ref|ZP_08005529.1| pseudouridine synthase [Bacillus sp. 2_A_57_CT2] gi|317396931|gb|EFV77640.1| pseudouridine synthase [Bacillus sp. 2_A_57_CT2] Length = 241 Score = 293 bits (751), Expect = 2e-77, Method: Composition-based stats. Identities = 85/233 (36%), Positives = 135/233 (57%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG ASRR+ E ++A+ RVKVNG ++ V V +D IEVDG+P+ + E Sbjct: 2 ERLQKVIAHAGFASRRKAEELMAEGRVKVNGKTVKELGVKVSPSDRIEVDGIPVEREE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ SD GR V D I R+ VGRLD +T G+L+LTNDG A + Sbjct: 61 VYFLLYKPRGVISAVSDDKGRKVVTDFFEGIKQRIYPVGRLDYDTSGILILTNDGEFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L PS + +VY + G ++ + L++G+V++ + L + +K A V + Sbjct: 121 LMHPSNEIEKVYVAKIKGIPSKEGMRSLQRGVVLEDGKTAPAKTKLLSMDKKKQTAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE V +L R YG L L AG RE++ +++ Sbjct: 181 SIHEGRNRQVRRMFEAIGHPVLKLKRERYGYLTLQGLSAGDARELTAHEVKQL 233 >gi|163853261|ref|YP_001641304.1| RNA-binding S4 domain-containing protein [Methylobacterium extorquens PA1] gi|163664866|gb|ABY32233.1| RNA-binding S4 domain protein [Methylobacterium extorquens PA1] Length = 669 Score = 293 bits (751), Expect = 2e-77, Method: Composition-based stats. Identities = 140/292 (47%), Positives = 188/292 (64%), Gaps = 1/292 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R++K IARAGIASRR+ E +I RV +NG +L A+NV D I VD PL E Sbjct: 20 EGERIAKAIARAGIASRRDAEALIEAGRVTLNGKVLTSPAINVTDADRITVDDEPLPARE 79 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RTRLWL HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGLLLLTNDGGLA Sbjct: 80 RTRLWLLHKPRGVVTTARDPEGRPTVFDGLPEELPRVVAIGRLDINTEGLLLLTNDGGLA 139 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 +V+ P T WLR YRVR G V Q L+ LKKG+ + G+ YG ++ TLD +G N W+T+ Sbjct: 140 KVIAHPDTGWLRRYRVRAFGDVTQPDLDKLKKGLTVDGMEYGPIEATLDRAQGDNVWLTL 199 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 GLREGKNRE+K++ E VNRLIR+S+GPFQLG L G E+ K+L++QLG +L E Sbjct: 200 GLREGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEIRTKVLKDQLGKNLAE 259 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 +A V+ ++P+ + P + + ++ + + + + Sbjct: 260 QAGVDFESPVRET-IAPFGSPKKATRATQAAPAGRGRQGARDEGASEARSGS 310 >gi|163737477|ref|ZP_02144894.1| Pseudouridine synthase, Rsu [Phaeobacter gallaeciensis BS107] gi|161389003|gb|EDQ13355.1| Pseudouridine synthase, Rsu [Phaeobacter gallaeciensis BS107] Length = 447 Score = 293 bits (751), Expect = 3e-77, Method: Composition-based stats. Identities = 144/357 (40%), Positives = 196/357 (54%), Gaps = 9/357 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIE 61 D + R++KV++RAG+ASRRE ERMIA+ RV VNG +++ A+NV + D I Sbjct: 41 DTPATGDGPEGDRIAKVLSRAGVASRREAERMIAEGRVAVNGKVIDSPALNVVLGKDRIV 100 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VDG P++ E RLW+YHKP GLVTT +D R T+FD LP RV++VGRLD+N+EGL Sbjct: 101 VDGNPMQDPEPPRLWMYHKPSGLVTTTNDELDRRTIFDALPEDMPRVMTVGRLDLNSEGL 160 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDGG+ R LELPST WLR YRVR +G+ L++G+VI+G + M V LD Sbjct: 161 LLLTNDGGIKRQLELPSTGWLRRYRVRINGRPKDTDFEPLRQGLVIEGERFQPMTVALDR 220 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 Q+G+NAW+T+GLREGKNREI++ E + VNRL+R+SYGPFQLG L G E+ +++ Sbjct: 221 QQGANAWLTIGLREGKNREIRRAIEDIGFTVNRLLRLSYGPFQLGNLKPGEVEELRPRVV 280 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPD-----DFTRMKKNSSQKNGLS 296 R+QLG E + PD Sbjct: 281 RDQLGLAAPETEEDEKPKRPVRQRPGAGKPGTKPGAKPDFKSGGKPGGKPSGKPSGRSFG 340 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + R+ A G +S S + P+ R+ RTS + Sbjct: 341 SADRSSEKPGDRSGARPAGKPGGKFASKGKPSDRFAGKSEGKPTG---RTADRTSDR 394 >gi|227513314|ref|ZP_03943363.1| pseudouridylate synthase [Lactobacillus buchneri ATCC 11577] gi|227083515|gb|EEI18827.1| pseudouridylate synthase [Lactobacillus buchneri ATCC 11577] Length = 241 Score = 293 bits (750), Expect = 3e-77, Method: Composition-based stats. Identities = 83/232 (35%), Positives = 125/232 (53%), Gaps = 1/232 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E++I + VKVNG +++ V +D +EVD VP+ K E Sbjct: 2 SERLQKVMAHAGVASRRKAEKLIVEGHVKVNGKVVKELGTKVTESDEVEVDEVPISK-EV 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++T +D R TV D L + R+ VGRLD +T GLLLLTNDG L Sbjct: 61 PVYYLLYKPRGVITAVTDDKHRKTVIDLLSEVTERIYPVGRLDYDTSGLLLLTNDGDLDN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y + G + D + L+ GI I G + T+ ++ V++ Sbjct: 121 HLTHPKYEVDKTYVAKVKGTITNDDMKKLRTGIHIDGRKTASAKATIIRNNNNSTIVSLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+F V +L R SYG L L G R + + E Sbjct: 181 IHEGRNHQVKKMFLALGHPVEKLSRQSYGFLNLDGLQPGDYRRLKPHEVEEL 232 >gi|49184399|ref|YP_027651.1| RNA pseudouridine [Bacillus anthracis str. Sterne] gi|165872651|ref|ZP_02217281.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0488] gi|167634452|ref|ZP_02392773.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0442] gi|167641611|ref|ZP_02399857.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0193] gi|170689224|ref|ZP_02880420.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0465] gi|170706366|ref|ZP_02896827.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0389] gi|177651473|ref|ZP_02934262.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0174] gi|190568102|ref|ZP_03021012.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis Tsiankovskii-I] gi|227815681|ref|YP_002815690.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. CDC 684] gi|229602768|ref|YP_002865978.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0248] gi|254682364|ref|ZP_05146225.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. CNEVA-9066] gi|254733779|ref|ZP_05191493.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. Western North America USA6153] gi|254740530|ref|ZP_05198221.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. Kruger B] gi|254753919|ref|ZP_05205954.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. Vollum] gi|254759015|ref|ZP_05211042.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. Australia 94] gi|270000599|ref|YP_003329038.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. Ames] gi|291612213|ref|YP_003541027.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. 'Ames Ancestor'] gi|49178326|gb|AAT53702.1| RNA pseudouridine [Bacillus anthracis str. Sterne] gi|164711595|gb|EDR17142.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0488] gi|167510404|gb|EDR85804.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0193] gi|167530340|gb|EDR93066.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0442] gi|170128900|gb|EDS97766.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0389] gi|170666779|gb|EDT17546.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0465] gi|172082751|gb|EDT67814.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0174] gi|190560836|gb|EDV14811.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis Tsiankovskii-I] gi|224552864|gb|ACN55073.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. 'Ames Ancestor'] gi|227004794|gb|ACP14537.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. CDC 684] gi|229267176|gb|ACQ48813.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. A0248] gi|269850258|gb|ACZ49988.1| ribosomal large subunit pseudouridine synthase B [Bacillus anthracis str. Ames] Length = 242 Score = 293 bits (750), Expect = 3e-77, Method: Composition-based stats. Identities = 82/232 (35%), Positives = 139/232 (59%), Gaps = 3/232 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 3 RLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEE-PV 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GRS V D P I R+ +GRLD +T G+LL+TNDG A VL Sbjct: 62 YFLLYKPTGVISSVSDDKGRSVVTDFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANVL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTVG 192 P + + Y + G + +K+ +L++G+ ++ +V + + ++ A V + Sbjct: 122 MHPRYKVEKTYVAKIKGPLTGEKIRMLERGVTLEDGKTAPARVKIISWDKRKEMAIVQLT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ Sbjct: 182 IHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQL 233 >gi|319784272|ref|YP_004143748.1| RNA-binding S4 domain protein [Mesorhizobium ciceri biovar biserrulae WSM1271] gi|317170160|gb|ADV13698.1| RNA-binding S4 domain protein [Mesorhizobium ciceri biovar biserrulae WSM1271] Length = 670 Score = 293 bits (750), Expect = 3e-77, Method: Composition-based stats. Identities = 149/331 (45%), Positives = 206/331 (62%), Gaps = 5/331 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K +ARAG+ASRR+ E +IA RVKVNG L A NVM D I +DG+ + ERTRL Sbjct: 224 IAKRLARAGLASRRDAEELIAAGRVKVNGRALTSPAFNVMPDDIIHLDGMEIPPIERTRL 283 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +L+HKP G+VTT+ DP+GR TVFD LP+ R++++GRLDINTEGLLLLTNDGGL+RVLE Sbjct: 284 FLFHKPAGVVTTNRDPEGRKTVFDVLPAELPRLMTIGRLDINTEGLLLLTNDGGLSRVLE 343 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 LP+T WLR YRVR HG+V++ L L++GI + G+ YG ++ TLD ++G+NAW+T+GLRE Sbjct: 344 LPATGWLRRYRVRVHGKVEESALAGLREGIAVDGVFYGAIEATLDREQGTNAWLTIGLRE 403 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQV 255 GKNRE++ + V RLIRISYGPFQL L G E+ ++LR+QLG L+EE+ Sbjct: 404 GKNREVRNILGSLGLDVTRLIRISYGPFQLDDLAEGHVLEIKGRVLRDQLGERLVEESGA 463 Query: 256 NLDAPI---YSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 N DA + +S++ + R FTR + G + + R Sbjct: 464 NFDADVTKPFSNKPVRRTEVREPEPERPKFTRDGERRPIGEGGLIKNRKRREGSRDEALG 523 Query: 313 NVWMAK--GIHSSFLSDSGQREENHRRSPSF 341 + + SF + + E + P Sbjct: 524 KLSTSPDRNAEKSFGERAPRPERSFGDKPRG 554 >gi|255657972|ref|ZP_05403381.1| ribosomal large subunit pseudouridine synthase B [Mitsuokella multacida DSM 20544] gi|260850173|gb|EEX70180.1| ribosomal large subunit pseudouridine synthase B [Mitsuokella multacida DSM 20544] Length = 250 Score = 293 bits (750), Expect = 3e-77, Method: Composition-based stats. Identities = 78/241 (32%), Positives = 128/241 (53%), Gaps = 7/241 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRK 69 +R+ K+I++AGIASRR E+MI + RV+V+G ++ V H I VDG + Sbjct: 2 MQEERLQKIISQAGIASRRAAEKMILEGRVRVDGQVVRELGTKVDPAAHTILVDGKKIAG 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ L +KP G ++T D GR TV D LP + RV VGRLD NTEGLLL+TNDG Sbjct: 62 EEQHVYLLLNKPKGYLSTAKDDRGRRTVLDLLPEVRERVYPVGRLDNNTEGLLLITNDGA 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + + Y G++ ++KL +L+ G++++ +V+L ++ V Sbjct: 122 LMNGLLHPRFEVEKTYHAGVTGKLTEEKLQMLRDGLLLEDGMTAPAKVSLLPEREPGERV 181 Query: 190 T------VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + EG+NR+++++F V L R+ + L + G R ++++ + Sbjct: 182 RGLTRAAITIHEGRNRQVRRMFAAVGCDVKSLKRVRFAGLTLKGVARGQHRALTEEEVSS 241 Query: 244 Q 244 Sbjct: 242 L 242 >gi|304440267|ref|ZP_07400157.1| ribosomal large subunit pseudouridine synthase B [Peptoniphilus duerdenii ATCC BAA-1640] gi|304371316|gb|EFM24932.1| ribosomal large subunit pseudouridine synthase B [Peptoniphilus duerdenii ATCC BAA-1640] Length = 234 Score = 293 bits (750), Expect = 4e-77, Method: Composition-based stats. Identities = 84/232 (36%), Positives = 126/232 (54%), Gaps = 2/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A AG+ASRR E +I RVKVNG ++ V D + D L+ Sbjct: 1 MRLQKYLAHAGVASRRTSEELILNGRVKVNGEVVTELGYKVDPLKDKVYFDDKKLKLVRE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KPIG+V+T D R TV D +P+ R+ +GRLDI+T GLL+LTNDG LA Sbjct: 61 YTYVMINKPIGIVSTAKDEKNRKTVVDLVPND-ERIYPIGRLDIDTTGLLILTNDGELAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VY G + L+ L+ GI I G ++ + S++ V V Sbjct: 120 KLMHPRKEIDKVYIATVEGTPSKSGLDKLRNGITIDGYKLSKSEIKILKSYESDSIVRVT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR++KK+FE V +L RIS+GP +L L G+ R ++ + ++E Sbjct: 180 IHEGRNRQVKKMFERIGNPVKKLKRISFGPIELANLEIGAYRYLTNEEIKEL 231 >gi|116629543|ref|YP_814715.1| 16S rRNA uridine-516 pseudouridylate synthase related enzyme [Lactobacillus gasseri ATCC 33323] gi|116095125|gb|ABJ60277.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus gasseri ATCC 33323] Length = 245 Score = 292 bits (749), Expect = 4e-77, Method: Composition-based stats. Identities = 81/238 (34%), Positives = 134/238 (56%), Gaps = 3/238 (1%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 +++E+ +R+ KVIA+AG+ASRR+ E+MI+ +V VNG + V +D IEV+GV Sbjct: 1 MMKESKMAERLQKVIAQAGVASRRKAEKMISAGQVTVNGKKITELGTKVEPSDKIEVNGV 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+ K E +L++KP G++++ D GR TV D + R+ VGRLD +T GLLL+T Sbjct: 61 PIEK-ETLHTYLFYKPRGVISSVKDDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QK 183 NDG LA L P + +VY + G + + + L G+ I G ++ + +K Sbjct: 120 NDGELANKLMHPRNEVPKVYVAKIKGLLSPEDIRSLTHGVRIDGRKSAPAKLKILKTDEK 179 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + + EG ++K++FE + V +L R Y L +L +G RE++ + + Sbjct: 180 KNTQIVQLTIHEGHYHQVKRMFEAVHHFVEKLSREKYAFLTLKSLTSGEYRELTHEEV 237 >gi|114765382|ref|ZP_01444497.1| RNA pseudouridylate synthase family protein [Pelagibaca bermudensis HTCC2601] gi|114542225|gb|EAU45255.1| RNA pseudouridylate synthase family protein [Roseovarius sp. HTCC2601] Length = 283 Score = 292 bits (749), Expect = 5e-77, Method: Composition-based stats. Identities = 143/282 (50%), Positives = 178/282 (63%), Gaps = 12/282 (4%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + R++KV++RAGIASRRE ERMI + RV VNG + A+NV D I VDG Sbjct: 13 KTPTDTPPGDRIAKVLSRAGIASRREAERMIEEGRVTVNGETIASPALNVTDKDRITVDG 72 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL E R+W+YHKP GLVTT D GR T+FD LP RV++VGRLD+N+EGLLLL Sbjct: 73 KPLEAPEAPRMWMYHKPAGLVTTTKDEQGRETIFDKLPEDLPRVMTVGRLDLNSEGLLLL 132 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDGG+ R LELPST WLR YRVR +G+ ++ L L+ GI + G + MQV LD Q+G Sbjct: 133 TNDGGIKRKLELPSTGWLRRYRVRVNGKPTEEMLKPLRDGITVDGQTFQPMQVELDRQQG 192 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 SNAW+TVGLREGKNREI++ VNRLIRISYGPFQLG + G E+ +I+R+Q Sbjct: 193 SNAWLTVGLREGKNREIRRAMSDIGLTVNRLIRISYGPFQLGQMKVGEVVELRGRIVRDQ 252 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 LG LE A+ P R +PD R + Sbjct: 253 LG---LEGAKTTRPEP---------SRRRKPRPIPDKSRRTR 282 >gi|209966844|ref|YP_002299759.1| RNA pseudouridine synthase, putative [Rhodospirillum centenum SW] gi|209960310|gb|ACJ00947.1| RNA pseudouridine synthase, putative [Rhodospirillum centenum SW] Length = 551 Score = 292 bits (748), Expect = 5e-77, Method: Composition-based stats. Identities = 136/306 (44%), Positives = 185/306 (60%), Gaps = 2/306 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 ++ +R+SK ++RAG+ SRR+ ER IA+ RV VNG +L+ AV V D I VDG P+ Sbjct: 26 DDQGGERISKRLSRAGLCSRRDAERWIAEGRVSVNGRVLDTPAVTVRPGDRIVVDGQPVP 85 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + E TR+W YHKP GLVTT D GR TVFDNLP RV+SVGRLD+ +EGLLLLTNDG Sbjct: 86 EPEPTRVWRYHKPDGLVTTARDEKGRPTVFDNLPPELPRVVSVGRLDLTSEGLLLLTNDG 145 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LAR LELP T WLR YRVR HG D+ ++ L +GI+I+GI YG ++ +D G+N W Sbjct: 146 ALARHLELPVTGWLRRYRVRVHGAPDEAQIAKLAQGIIIEGIEYGPIETVVDRSVGANTW 205 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +TV LREG+NRE+++V E V+RLIR++YGPFQLG L G EV +++LR+QL Sbjct: 206 LTVSLREGRNREVRRVMEHLGLPVSRLIRVAYGPFQLGKLEPGQVEEVPRRVLRDQLPGF 265 Query: 249 LLEEAQVNLDAPIYSSETLVRDR--PNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 E D + +R P + + + +++ P Sbjct: 266 FAAEDAAAADGRPAAGPVRMRYDRLPRAARDAAPPSATKGGRAPAREAGGQEQARRGPRA 325 Query: 307 RRNLAS 312 + + S Sbjct: 326 KPSARS 331 >gi|89070784|ref|ZP_01158037.1| RNA pseudouridylate synthase family protein [Oceanicola granulosus HTCC2516] gi|89043626|gb|EAR49833.1| RNA pseudouridylate synthase family protein [Oceanicola granulosus HTCC2516] Length = 279 Score = 292 bits (748), Expect = 6e-77, Method: Composition-based stats. Identities = 145/282 (51%), Positives = 180/282 (63%), Gaps = 3/282 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + +R++K+++R G+ASRRE ERMI RV VNG L++ A+NV ++D I VDG P Sbjct: 1 MSDEHAGERIAKILSRRGVASRREAERMIEAGRVSVNGRLIDSPALNVTTSDRILVDGKP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + E RLWLYHKP GLVTT D GR TVF LP RV+SVGRLDI +EGLLLLTN Sbjct: 61 VAAPEPPRLWLYHKPAGLVTTERDEKGRPTVFGALPEEMPRVMSVGRLDIASEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + R LELP+T WLR YRVR HG V+ KL L++GI ++G+ Y M VT D Q+G+N Sbjct: 121 DGEIKRRLELPATGWLRRYRVRSHGYVEDAKLEPLRRGISVEGVRYQPMSVTFDRQQGAN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 AW+TV LREGKNREI++ E KVNRLIRISYGPFQLG L AG EV K+LR+QLG Sbjct: 181 AWMTVALREGKNREIRRAMEAIGIKVNRLIRISYGPFQLGNLAAGEVEEVRPKVLRDQLG 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 + Q A + RP + R Sbjct: 241 LDARPKPQRRRAAGRDDGDAA---RPRGPARPGPTGPRKPPR 279 >gi|89895026|ref|YP_518513.1| hypothetical protein DSY2280 [Desulfitobacterium hafniense Y51] gi|89334474|dbj|BAE84069.1| hypothetical protein [Desulfitobacterium hafniense Y51] Length = 257 Score = 292 bits (747), Expect = 7e-77, Method: Composition-based stats. Identities = 89/235 (37%), Positives = 138/235 (58%), Gaps = 4/235 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A+AGIASRR E +I Q RVKVNG ++ V+STD I VDG L + Sbjct: 16 ERLQKVLAQAGIASRRHAEEIILQGRVKVNGEVIRTLGTKVVSTDRIVVDGRLLSIPQND 75 Query: 74 R-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L HKP G +T+ +DP GR TV + +P I RV VGRLD +T GLLLLTNDG LA Sbjct: 76 YAYYLLHKPTGYITSVTDPQGRKTVMELMPKIPRRVYPVGRLDYDTSGLLLLTNDGDLAH 135 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--VT 190 L PS + YRV ++ + L L+KG++++ ++ + KG + Sbjct: 136 RLMHPSYGVEKTYRVEVGEKIPEQALKRLEKGVLLEDGKTAPARIREVSPKGRGSLPTYE 195 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + + EG+NR+++++F+ + ++ L R+ +GP +L +L G+ R +SK ++ Sbjct: 196 ITIHEGRNRQVRRMFKAVGFPLSTLKRLRFGPLELDPSLAPGAFRTLSKTEIQHL 250 >gi|227524458|ref|ZP_03954507.1| pseudouridylate synthase [Lactobacillus hilgardii ATCC 8290] gi|227088377|gb|EEI23689.1| pseudouridylate synthase [Lactobacillus hilgardii ATCC 8290] Length = 241 Score = 292 bits (747), Expect = 7e-77, Method: Composition-based stats. Identities = 83/232 (35%), Positives = 125/232 (53%), Gaps = 1/232 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E++I + VKVNG +++ V +D +EVD VP+ K E Sbjct: 2 SERLQKVMAHAGVASRRKAEKLIVEGHVKVNGKVVKELGTKVTESDEVEVDEVPISK-EV 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++T +D R TV D L + R+ VGRLD +T GLLLLTNDG L Sbjct: 61 PVYYLLYKPRGVITAVTDDKHRKTVIDLLSEVTERIYPVGRLDYDTSGLLLLTNDGDLDN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y + G + D + L+ GI I G + T+ ++ V++ Sbjct: 121 HLTHPKYEVDKTYVAKVKGTITNDDMKRLRTGIHIDGRKTASAKATVIRNNNNSTIVSLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+F V +L R SYG L L G R + + E Sbjct: 181 IHEGRNHQVKKMFLALGHPVEKLSRQSYGFLNLDGLQPGDYRRLKPHEVEEL 232 >gi|315646387|ref|ZP_07899505.1| pseudouridine synthase [Paenibacillus vortex V453] gi|315278030|gb|EFU41350.1| pseudouridine synthase [Paenibacillus vortex V453] Length = 251 Score = 292 bits (747), Expect = 7e-77, Method: Composition-based stats. Identities = 81/246 (32%), Positives = 132/246 (53%), Gaps = 4/246 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K++A+AG+ASRR+ E +I + +V+VNG + D I V G P++ E+ Sbjct: 2 ERLQKIMAQAGVASRRKCEELILEGKVQVNGETVTELGTKADPAQDMITVSGKPIKH-EK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++T+ SDP+GR V D L I RV +GRLD +TEGLLLLTNDG A Sbjct: 61 KVYVMLNKPKGVITSASDPEGRKIVSDYLKGIKERVYPIGRLDYDTEGLLLLTNDGEFAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 +L P + Y G +L+ L++GI+++ +V N + ++ Sbjct: 121 LLSHPKYHVPKTYLATVKGVPHGTELDKLRQGIMLEDGMTSPAEVEYKDVDPDNKQSVIS 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG+NR+++++FE + V RL RISYG L L G R ++ + + + Sbjct: 181 ITIHEGRNRQVRRMFEAISHPVLRLKRISYGDLLLQNLKRGLYRHLTADEINQLMQMAKA 240 Query: 251 EEAQVN 256 + N Sbjct: 241 AKPGGN 246 >gi|290968712|ref|ZP_06560250.1| pseudouridylate synthase [Megasphaera genomosp. type_1 str. 28L] gi|290781365|gb|EFD93955.1| pseudouridylate synthase [Megasphaera genomosp. type_1 str. 28L] Length = 238 Score = 292 bits (747), Expect = 8e-77, Method: Composition-based stats. Identities = 82/235 (34%), Positives = 128/235 (54%), Gaps = 6/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV++ G+ASRR E+MI RV+VNG+++ V D I VDG L + Sbjct: 2 ERLQKVMSNCGVASRRASEQMILDGRVRVNGVIVRELGTKVKPEQDIILVDGRRLEIQPK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L++KP G++TT SD GR TV D I R+ ++GRLD NTEGLLL+TNDG LA Sbjct: 62 HYY-LFNKPKGVITTCSDEQGRPTVLDYFKRIKDRIYAIGRLDQNTEGLLLMTNDGELAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT---LDTQKGSNAWV 189 +L P + Y V+ G + L L G+++ V DT G + + Sbjct: 121 ILMHPGHMVDKTYEVKIKGHIADAVLQQLADGVLLSDGMTAPADVYYVGYDTHTGITS-L 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EGKNR+++++ E F ++V+ L R+ Y L + G+ R ++++ + E Sbjct: 180 EITIHEGKNRQVRRMMEHFGYQVHNLRRVQYAFLTLSGVKRGAYRALTREEVMEL 234 >gi|227510307|ref|ZP_03940356.1| pseudouridylate synthase [Lactobacillus brevis subsp. gravesensis ATCC 27305] gi|227189959|gb|EEI70026.1| pseudouridylate synthase [Lactobacillus brevis subsp. gravesensis ATCC 27305] Length = 241 Score = 292 bits (747), Expect = 8e-77, Method: Composition-based stats. Identities = 83/232 (35%), Positives = 124/232 (53%), Gaps = 1/232 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E++I + VKVNG ++ V +D +EVD VP+ K E Sbjct: 2 SERLQKVMAHAGVASRRKAEKLIVEGHVKVNGKVVRELGTKVTESDEVEVDEVPISK-EV 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++T +D R TV D L + R+ VGRLD +T GLLLLTNDG L Sbjct: 61 PVYYLLYKPRGVITAVTDDKHRKTVIDLLSEVTERIYPVGRLDYDTSGLLLLTNDGDLDN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y + G + D + L+ GI I G + T+ ++ V++ Sbjct: 121 HLTHPKYEVDKTYVAKVKGTITNDDMKKLRTGIHIDGRKTASAKATVIRNNNNSTIVSLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+F V +L R SYG L L G R + + E Sbjct: 181 IHEGRNHQVKKMFLALGHPVEKLSRQSYGFLNLDGLQPGDYRRLKPHEVEEL 232 >gi|284048580|ref|YP_003398919.1| pseudouridine synthase [Acidaminococcus fermentans DSM 20731] gi|283952801|gb|ADB47604.1| pseudouridine synthase [Acidaminococcus fermentans DSM 20731] Length = 244 Score = 292 bits (747), Expect = 8e-77, Method: Composition-based stats. Identities = 88/238 (36%), Positives = 130/238 (54%), Gaps = 2/238 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R+ KV+A AG+ASRRE E++I RV+VNG + V D I VDG L + Sbjct: 4 TKERLQKVMAAAGVASRRECEKIILAGRVQVNGKPVTELGTRVGKADRITVDGKALHRKS 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+VTT DP GR TV D + + R+ VGRLD TEGLLL+TNDG LA Sbjct: 64 ARHTYLLYKPGGVVTTMKDPQGRRTVADLMAGLHQRLYPVGRLDYLTEGLLLMTNDGELA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWV 189 + L PS + Y V HG+V ++KL++L+ G+ ++ V + Sbjct: 124 QHLTHPSHHVDKTYEVEVHGRVPEEKLDVLRLGVPLEDGLTAPAVVYVKKWDPEKNLTRF 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 TV + EG+NR+++++ +F + V L RI G L + G RE++ + + P Sbjct: 184 TVTIHEGRNRQVRRMCDFIGFPVKSLKRIQVGTLTLEGMKKGEFRELTPEEVASLESP 241 >gi|84501543|ref|ZP_00999715.1| RNA pseudouridylate synthase family protein [Oceanicola batsensis HTCC2597] gi|84390164|gb|EAQ02723.1| RNA pseudouridylate synthase family protein [Oceanicola batsensis HTCC2597] Length = 331 Score = 291 bits (746), Expect = 9e-77, Method: Composition-based stats. Identities = 144/290 (49%), Positives = 190/290 (65%), Gaps = 8/290 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 ++ R++KV+ARAG+ASRRE ERMIA+ R+ V+G +++ A+NV + IEVDG PL Sbjct: 6 EKPPAGDRIAKVLARAGVASRREAERMIAEGRISVDGTVIDSPALNVTARARIEVDGRPL 65 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E RLWLYHKP GLVTTH D GR T+FD+LP RV+SVGRLD+N+EGLLLLTND Sbjct: 66 DAPEPARLWLYHKPPGLVTTHKDDQGRPTIFDDLPEDMPRVMSVGRLDLNSEGLLLLTND 125 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GG+ R LELPST WLR YRVR G L L++G+V+ + MQVTLD Q+G+NA Sbjct: 126 GGIKRRLELPSTGWLRRYRVRVKGTPTDATLAPLREGVVVDREIFQPMQVTLDRQQGANA 185 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+TVGLREGKNREI++ E VNRLIRISYGPFQLG L G+ EV ++++R+QLG Sbjct: 186 WLTVGLREGKNREIRRAMESIGLSVNRLIRISYGPFQLGPLAPGAVEEVRRRVMRDQLG- 244 Query: 248 HLLEEAQVNLDAPIYS-----SETLVRDRPNIISEVPDDFTRMKKNSSQK 292 L++A+ + P S + + R + + + + Sbjct: 245 --LDDAEADAPRPKRSRAGQRTGPETKTRDKVRARTGGKTSGGGRTPDAP 292 >gi|163791509|ref|ZP_02185915.1| RluB [Carnobacterium sp. AT7] gi|159873232|gb|EDP67330.1| RluB [Carnobacterium sp. AT7] Length = 244 Score = 291 bits (746), Expect = 1e-76, Method: Composition-based stats. Identities = 86/242 (35%), Positives = 137/242 (56%), Gaps = 3/242 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR+ E +I++ VKVNG +++ + + ++D +EVDGVP+ E Sbjct: 2 ERLQKVLAHAGVASRRKSEELISKGHVKVNGKVVKEMGIQIGNSDVVEVDGVPI-YREEP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP ++T SD GR V D P+I R+ VGRLD +T G L+LTNDG L+++ Sbjct: 61 VYFLLNKPRNMITAVSDDKGRPVVTDLFPNIEQRIYPVGRLDYDTTGALMLTNDGELSQL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P Q + Y + G VD+ LN L+KG+V++G + + + + V + Sbjct: 121 LMHPKYQINKTYVAKVKGLVDRKALNKLEKGVVVEGKKTAPAKAKILSADRAKDITMVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR++K +F+ V +L R SYG L L G RE+ + + + E Sbjct: 181 TIHEGRNRQVKNMFQAIGHPVEKLKRESYGTLNLDGLQTGEWRELKTFEIYQLRNSAIQE 240 Query: 252 EA 253 E Sbjct: 241 ET 242 >gi|110679275|ref|YP_682282.1| RNA pseudouridylate synthase family protein, putative [Roseobacter denitrificans OCh 114] gi|109455391|gb|ABG31596.1| RNA pseudouridylate synthase family protein, putative [Roseobacter denitrificans OCh 114] Length = 285 Score = 291 bits (746), Expect = 1e-76, Method: Composition-based stats. Identities = 143/287 (49%), Positives = 185/287 (64%), Gaps = 4/287 (1%) Query: 7 VQENFTPQ--RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + TPQ R++KV++RAG+ASRRE ERMI RVKVNG + A+NV ++D I VDG Sbjct: 1 MTSELTPQGDRIAKVLSRAGVASRREAERMIEAGRVKVNGKPISSPALNVQASDKITVDG 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + E RLWLYHKP GLVTT +D GR T++ LP+ RV+SVGRLDIN+EGLLLL Sbjct: 61 KDVSPPEPARLWLYHKPTGLVTTDNDEKGRETIYSALPADLPRVMSVGRLDINSEGLLLL 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG + R LELP+T WLR YRVR +G+ L L++GI +G + MQVTLD Q+G Sbjct: 121 TNDGSIKRRLELPTTGWLRRYRVRVNGRPTDATLEPLRRGISSEGENFQPMQVTLDRQQG 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +NAW+T+GLREGKNREI++ VNRLIRISYGPFQLG L +G+ EV +K+LR+Q Sbjct: 181 ANAWLTMGLREGKNREIRRALAELGLTVNRLIRISYGPFQLGELKSGAVEEVRRKVLRDQ 240 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 LG L E+A + + + + R K + Sbjct: 241 LG--LEEDAGTDPAKRLEAGRKRGPPIRRTRATAGAKPARYAKKPRK 285 >gi|331701399|ref|YP_004398358.1| pseudouridine synthase Rsu [Lactobacillus buchneri NRRL B-30929] gi|329128742|gb|AEB73295.1| pseudouridine synthase Rsu [Lactobacillus buchneri NRRL B-30929] Length = 242 Score = 291 bits (746), Expect = 1e-76, Method: Composition-based stats. Identities = 86/240 (35%), Positives = 127/240 (52%), Gaps = 4/240 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ KVIA AG+ASRR+ E +IA+ VKVNG +++ V D ++VD VP+ K Sbjct: 1 MNEERLQKVIAHAGVASRRKAEELIAKGHVKVNGEVVKELGTKVTPNDEVKVDEVPISK- 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +L +KP G++T +D R TV D L + R+ VGRLD +T GLLLLTNDG L Sbjct: 60 EAPVYYLLYKPRGVITAVTDDKHRKTVVDILEEVPERIYPVGRLDYDTSGLLLLTNDGDL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + + Y + G V D L L+ G+VI+ + L ++ V Sbjct: 120 DNKLTHPKYEVEKTYVAKVKGIVTNDDLKHLRTGVVIEHRKTAKAKTKLIRTNKDSSIVQ 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQLGP 247 + + EG+N ++K +FE + V +L R +YG L L G R + + L+E G Sbjct: 180 LTIHEGRNHQVKNMFEKIGYPVEKLSRETYGFLTLKGLQPGDYRPLKPHEVEELKELTGK 239 >gi|77918905|ref|YP_356720.1| ribosomal large subunit pseudouridine synthase B [Pelobacter carbinolicus DSM 2380] gi|77544988|gb|ABA88550.1| ribosomal large subunit pseudouridine synthase B [Pelobacter carbinolicus DSM 2380] Length = 236 Score = 291 bits (746), Expect = 1e-76, Method: Composition-based stats. Identities = 93/231 (40%), Positives = 129/231 (55%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ K+IA AG+ SRR E IA RV VNG + E A D I VD PL +AE Sbjct: 3 QRLQKLIAAAGLTSRRRAEEWIANGRVTVNGRVAELGAQADPDKDRILVDNRPLPQAEEP 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L HKP+G VT+ DP GR V D L +R+ VGRLD+NTEGLLLLTNDG LA Sbjct: 63 VCVLLHKPVGYVTSRRDPQGRPVVTDLLGKFRARLFPVGRLDLNTEGLLLLTNDGDLAWR 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + + Y VR G + + L++G++++ +V Q GS+ W+ + + Sbjct: 123 LSHPSHEVCKTYLVRVQGSLSCEARRQLQEGVLLEEGVTAPAKVARVRQAGSHTWMELSI 182 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 EG+NR+++++ E V+RL RI Y LG L G R++S+ + Sbjct: 183 HEGRNRQVRRMCEAVGCPVSRLKRIRYAFLDLGDLRPGQHRQLSRNEVARL 233 >gi|42519012|ref|NP_964942.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus johnsonii NCC 533] gi|41583299|gb|AAS08908.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus johnsonii NCC 533] Length = 239 Score = 291 bits (745), Expect = 1e-76, Method: Composition-based stats. Identities = 81/230 (35%), Positives = 130/230 (56%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ASRR+ E+MI+ +V VNG + V +D IEV+GVP+ K E Sbjct: 3 ERLQKVIAQAGVASRRKAEKMISAGQVTVNGKKVTELGTKVEPSDKIEVNGVPIEK-EAL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G++++ SD GR TV D + R+ VGRLD +T GLLL+TNDG LA Sbjct: 62 HTYLFYKPRGVISSVSDDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMTNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G + +++ L G+ I G ++ + +K V + Sbjct: 122 LMHPRNEVPKVYVAKIKGILSPEEIRSLTHGVRIDGRKSAPAKLKILKTDEKKKTQIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG ++K++FE + V +L R Y L +L +G RE++ + + Sbjct: 182 TIHEGHYHQVKRMFEAVHHFVEKLAREKYAFLTLKSLNSGEYRELTNEEV 231 >gi|84515287|ref|ZP_01002649.1| RNA pseudouridylate synthase family protein [Loktanella vestfoldensis SKA53] gi|84510570|gb|EAQ07025.1| RNA pseudouridylate synthase family protein [Loktanella vestfoldensis SKA53] Length = 272 Score = 291 bits (745), Expect = 1e-76, Method: Composition-based stats. Identities = 139/272 (51%), Positives = 180/272 (66%), Gaps = 3/272 (1%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + + R++KV++RAG+ASRR+ ERMI + RV VNG ++ A+NV D I VDG Sbjct: 1 MSNDTPQGDRIAKVLSRAGVASRRDAERMITEGRVSVNGKVITSPALNVTDADRIVVDGK 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 +R E R+WLYHKP GLVTT D R TVF +LP RV+SVGRLD+N+EGLLLLT Sbjct: 61 AMRAPEAPRIWLYHKPAGLVTTERDEKDRPTVFASLPEDMPRVMSVGRLDLNSEGLLLLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDGG+ R LELPST WLR YRVR +G V + +L L+ GI + GI Y M VT D Q+G+ Sbjct: 121 NDGGVKRRLELPSTGWLRRYRVRINGSVSEARLEQLRAGITVDGIRYQPMIVTFDRQQGA 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 NAW+TV LREGKNREI++ E VNRLIR+SYGPFQLG L AG+ EV +++R+QL Sbjct: 181 NAWLTVSLREGKNREIRRAMEAIGVTVNRLIRVSYGPFQLGNLEAGAVEEVKGRVVRDQL 240 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 G L + + D+ + +RP + Sbjct: 241 G---LSDKDLGKDSAKPTRVRKPVNRPVTGKK 269 >gi|325679067|ref|ZP_08158661.1| pseudouridylate synthase [Ruminococcus albus 8] gi|324109191|gb|EGC03413.1| pseudouridylate synthase [Ruminococcus albus 8] Length = 244 Score = 290 bits (744), Expect = 1e-76, Method: Composition-based stats. Identities = 84/234 (35%), Positives = 124/234 (52%), Gaps = 2/234 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ K+IA +G SRR+ E IA +V VNG + + D I VDG+ + + Sbjct: 1 MEKIRIQKIIAESGFCSRRKAEEFIAAGKVTVNGRKVTLGDKALPGKDLIVVDGIKIDQP 60 Query: 71 ERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ + HKP G VTT +D R V D L + RV VGRLD ++EGLLLLTNDG Sbjct: 61 KKRNLYYIMLHKPRGYVTTMNDELNRKCVTDLLDGVPERVYPVGRLDKDSEGLLLLTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 G A + PS + YRV ++ ++L L G+ I G + V + ++ + Sbjct: 121 GFANDIMHPSRHVAKTYRVTVRPDINDEQLVKLASGVEIDGRMTAECSVVVLDKQPNRVV 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + + EG+NR+I+K+ E +V RL R + GP +LG L AG RE+ LR Sbjct: 181 LQMTIHEGRNRQIRKMCEAVGLEVARLKRTAVGPLRLGMLKAGEWRELKPDELR 234 >gi|300361572|ref|ZP_07057749.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus gasseri JV-V03] gi|300354191|gb|EFJ70062.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus gasseri JV-V03] Length = 244 Score = 290 bits (744), Expect = 2e-76, Method: Composition-based stats. Identities = 81/240 (33%), Positives = 133/240 (55%), Gaps = 3/240 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++E+ +R+ KVIA+AG+ASRR+ E+MI +V VNG + V +D IEV+GVP Sbjct: 1 MKESKMAERLQKVIAQAGVASRRKAEKMITAGQVTVNGKRITELGTKVEPSDKIEVNGVP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + K E +L++KP G++++ D GR TV D + R+ VGRLD +T GLLL+TN Sbjct: 61 IEK-ETLHTYLFYKPRGVISSVKDDKGRKTVVDYFEDVPYRLYPVGRLDYDTSGLLLMTN 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKG 184 DG LA L P + +VY + G + + ++ L G+ I G ++ + +K Sbjct: 120 DGELANKLMHPRNEVPKVYVAKIKGLLSPEDIHSLTHGVRIDGRKSAPAKLKILKTDEKK 179 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + V + + EG ++K++FE + V +L R Y L +L +G RE++ + + Sbjct: 180 NTQIVQLTIHEGHYHQVKRMFEAVHHFVEKLSREKYAFLTLKSLTSGEYRELTHEEVSRL 239 >gi|296448607|ref|ZP_06890477.1| RNA-binding S4 domain protein [Methylosinus trichosporium OB3b] gi|296253879|gb|EFH01036.1| RNA-binding S4 domain protein [Methylosinus trichosporium OB3b] Length = 405 Score = 290 bits (744), Expect = 2e-76, Method: Composition-based stats. Identities = 157/346 (45%), Positives = 205/346 (59%), Gaps = 5/346 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 F R++KV+ARAG SRR+ E IA+ RV VNG +L+ A NV D IEVDG PL + Sbjct: 38 FEGDRIAKVMARAGACSRRDAEIWIAEGRVAVNGAVLDSPAFNVREGDRIEVDGAPLAER 97 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTND 127 E TRL+L+HKP GLVT+ DP+GR TVF L R++SVGRLDINTEGLLLLTND Sbjct: 98 EPTRLFLFHKPEGLVTSAKDPEGRDTVFGFLEERHPDLPRLVSVGRLDINTEGLLLLTND 157 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGLAR LELP+T W R YRVR HG++DQ +L+ L+KG+ + + Y ++ LD +G+N Sbjct: 158 GGLARTLELPATGWTRRYRVRAHGEIDQARLDELRKGVTVDDVDYAPIEARLDRVQGANV 217 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+T+ LREGKNREIK+V E VNRLIRIS+GPFQLG L G+ EV KILREQLG Sbjct: 218 WITMALREGKNREIKRVLEHLGLGVNRLIRISFGPFQLGELAEGAVEEVKLKILREQLGK 277 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 L E A V+ +P ET + TR +K+ S ++ + Sbjct: 278 GLAELAGVDFSSPRR--ETAEPEHVIEEERRQHAKTRARKHVSTLRAEVEESRGKKAPRA 335 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R S KG + + R +P ++ + R + + Sbjct: 336 RIERSATADRKGRAVAVETIKPVRRRLEEEAPPLATRNARRFQAER 381 >gi|28378541|ref|NP_785433.1| pseudouridylate synthase [Lactobacillus plantarum WCFS1] gi|254556755|ref|YP_003063172.1| pseudouridylate synthase [Lactobacillus plantarum JDM1] gi|300767486|ref|ZP_07077398.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum ATCC 14917] gi|308180698|ref|YP_003924826.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum ST-III] gi|28271377|emb|CAD64282.1| pseudouridylate synthase [Lactobacillus plantarum WCFS1] gi|254045682|gb|ACT62475.1| pseudouridylate synthase [Lactobacillus plantarum JDM1] gi|300495305|gb|EFK30461.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum ATCC 14917] gi|308046189|gb|ADN98732.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum ST-III] Length = 238 Score = 290 bits (744), Expect = 2e-76, Method: Composition-based stats. Identities = 89/237 (37%), Positives = 125/237 (52%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AGIASRR+ E +I VKVNG + V V +DH+EVDGVPL AE+ Sbjct: 3 ERLQKVMAEAGIASRRKSEVLITSGHVKVNGKTVTTLGVKVEPSDHVEVDGVPLN-AEKL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+VTT D GR TV D + R+ VGRLD +T GLL++TNDG LA Sbjct: 62 VYYLFYKPRGVVTTVHDEKGRKTVLDFFEDVPERIYPVGRLDYDTSGLLIMTNDGALANR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P + + Y + G L L+ G+ I G + L K +NA V + Sbjct: 122 LTHPKYEVKKTYLAKVEGVPTNADLKQLRLGVEIDGRKTAPAKSNLLDSDHKKNNALVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG N ++KK+ V +L R YG L +L G R++ + + G Sbjct: 182 TIHEGHNHQVKKMLAAVGHPVTKLKRERYGVLDLQSLQPGEYRKLKPIEISKLKGER 238 >gi|325289798|ref|YP_004265979.1| ribosomal large subunit pseudouridine synthase B [Syntrophobotulus glycolicus DSM 8271] gi|324965199|gb|ADY55978.1| ribosomal large subunit pseudouridine synthase B [Syntrophobotulus glycolicus DSM 8271] Length = 270 Score = 290 bits (744), Expect = 2e-76, Method: Composition-based stats. Identities = 93/255 (36%), Positives = 142/255 (55%), Gaps = 5/255 (1%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + +EN R+ K IA +G+ASRR E M+ + RVKVNG+++ + V TD IEVDG Sbjct: 16 QVNEENQIRMRLQKAIALSGLASRRRAEEMMTEGRVKVNGVVVTELGMKVCGTDTIEVDG 75 Query: 65 V-----PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 ++ E ++ +KP+G++T+ DP GR TV D L + RV VGRLD +T Sbjct: 76 KTVQSLEVKGKENKVYYMLNKPVGVITSLRDPQGRKTVRDLLGDVKERVYPVGRLDYDTS 135 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++YRV+ ++ + L+KG++++ +V Sbjct: 136 GILLLTNDGDLAYRLTHPKFGVSKIYRVQTGSRIPPKSIEQLEKGLLLEDGWTAPAKVHR 195 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 Q ++ V + + EG+NR+I+++FE + V RL R S+GP G L G R +S+K Sbjct: 196 LPQGQNDHIVEITIHEGRNRQIRRMFERIGYPVQRLHRKSFGPLFTGELAPGGHRRLSQK 255 Query: 240 ILREQLGPHLLEEAQ 254 +R L AQ Sbjct: 256 EIRALKAAVGLSSAQ 270 >gi|295398585|ref|ZP_06808617.1| ribosomal large subunit pseudouridine synthase B [Aerococcus viridans ATCC 11563] gi|294973186|gb|EFG48981.1| ribosomal large subunit pseudouridine synthase B [Aerococcus viridans ATCC 11563] Length = 240 Score = 290 bits (744), Expect = 2e-76, Method: Composition-based stats. Identities = 85/235 (36%), Positives = 128/235 (54%), Gaps = 3/235 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRRE E++IA RVKVNG ++ V + D IEVD VP+ E Sbjct: 2 ERLQKVMAHAGVASRRESEKLIAAGRVKVNGEVVRELGYKVSNNDRIEVDQVPI-YKEEP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++++KPIG+++ D R V D P I R+ VGRLD NT GLLLLTNDG A Sbjct: 61 VYYVFYKPIGVISAVKDDKDRKVVTDFFPGIEQRIYPVGRLDYNTSGLLLLTNDGEFANT 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G + ++ L++G+ I G+ Q + + + + + Sbjct: 121 LMHPRYEINKVYVAKVEGVITGEERKQLERGVEIDGVKTAPAQAKILSVDKDKKTTIIEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EG+NR+++K+ E V +L R YG L L G +R + K + E L Sbjct: 181 VIHEGRNRQVRKMLEAVGHPVTKLKRERYGFLDLKGLKPGDSRTLLKHEIEELLA 235 >gi|78045168|ref|YP_360757.1| ribosomal large subunit pseudouridine synthase B [Carboxydothermus hydrogenoformans Z-2901] gi|77997283|gb|ABB16182.1| ribosomal large subunit pseudouridine synthase B [Carboxydothermus hydrogenoformans Z-2901] Length = 241 Score = 290 bits (743), Expect = 2e-76, Method: Composition-based stats. Identities = 83/229 (36%), Positives = 127/229 (55%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +ARAG+A+RR+ E++I RVKVNG +++ V D +EVDG + K E+ Sbjct: 2 ERLQKYLARAGVAARRDAEQLILAGRVKVNGKVVKELGFKVSDRDVVEVDGR-IVKPEKL 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G +TT DP GR TV L RV VGRLD+NTEGLL+LTNDG LA Sbjct: 61 VYILMYKPAGYITTVDDPFGRPTVLSLLAGKVKERVFPVGRLDMNTEGLLILTNDGDLAM 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P Q + Y G ++ KL L++G++++ +V +G N+W+ + Sbjct: 121 ALTHPKHQVPKTYLALVRGTPNRAKLKELERGVLLEDGYTAPAKVNFKKPEGKNSWIEIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG+ R+++++F+ V +LIR L GS R ++ + Sbjct: 181 IHEGRKRQVRRMFKKIGHPVLKLIRTRIAFLTGYGLKKGSFRYLTPAEV 229 >gi|65318840|ref|ZP_00391799.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Bacillus anthracis str. A2012] Length = 242 Score = 290 bits (743), Expect = 2e-76, Method: Composition-based stats. Identities = 82/232 (35%), Positives = 139/232 (59%), Gaps = 3/232 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 3 RLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEE-PV 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP G++++ SD GRS V D P I R+ +GRLD +T G+LL+TNDG A VL Sbjct: 62 YFLLYKPTGVISSVSDDKGRSVVTDFSPEITQRLFPIGRLDYDTSGVLLMTNDGDFANVL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTVG 192 P + + Y + G + +K+ +L++G+ ++ +V + + ++ A V + Sbjct: 122 MHPRYKVEKTYVAKIKGPLTGEKIRMLERGVTLEDGKTAPARVKIISWDKRKEMAIVQLT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ Sbjct: 182 IHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQL 233 >gi|292558985|gb|ADE31986.1| Pseudouridine synthase, Rsu [Streptococcus suis GZ1] Length = 245 Score = 290 bits (743), Expect = 2e-76, Method: Composition-based stats. Identities = 83/245 (33%), Positives = 134/245 (54%), Gaps = 3/245 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ + S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELGTVIKSGDKVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP++ R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVVDLLPTVKERIYPVGRLDWDTSGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G +++ L L +G+VI G + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGVANKEVLRPLTRGVVIDGKKTKPAVYEIIKVDPVKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE +V++L R +G L L G R+++KK + + LL Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGNLDLTGLRPGEYRKLNKKDISKLHTWPLLS 239 Query: 252 EAQVN 256 + + N Sbjct: 240 QLKNN 244 >gi|154251100|ref|YP_001411924.1| RNA-binding S4 domain-containing protein [Parvibaculum lavamentivorans DS-1] gi|154155050|gb|ABS62267.1| RNA-binding S4 domain protein [Parvibaculum lavamentivorans DS-1] Length = 327 Score = 290 bits (743), Expect = 2e-76, Method: Composition-based stats. Identities = 140/317 (44%), Positives = 187/317 (58%), Gaps = 14/317 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + R++KVIARAGI SRRE E++I + RV V+G +L+ A+NV + I VDG L Sbjct: 10 DTPAGDRIAKVIARAGICSRREAEKLIEEGRVTVDGKVLKSPALNVTGRETIIVDGKALP 69 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E T+LW YHKP GLVTT DP+GR+TVF+ LP RV+SVGRLDINTEGLLLLTNDG Sbjct: 70 AQEPTKLWRYHKPAGLVTTAKDPEGRTTVFEKLPDDIPRVVSVGRLDINTEGLLLLTNDG 129 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LAR+LELP+T W R YRVR G++ Q L+ LK GI ++G+ YG ++ T+D +GSN W Sbjct: 130 ELARLLELPATGWTRRYRVRAWGRITQADLDKLKNGITVEGVRYGPIEATIDKVQGSNVW 189 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +T+GL+EGKNRE+K+V VNRLIR+S+GPFQ+G L G ++V ++L +QLG H Sbjct: 190 LTLGLKEGKNREVKRVLAELGLSVNRLIRLSFGPFQIGDLEPGDIKQVPNRVLMDQLGAH 249 Query: 249 L--LEEAQVNLDAPIYS------------SETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 A+V + P T+ K + ++ Sbjct: 250 AEQFAPAEVRPSKGAATGSTGKWTGGKPVGRKAGDKPPAKPERTKPGGTKPKLKTFREKK 309 Query: 295 LSKQKKLATPVHRRNLA 311 K P R Sbjct: 310 ADTAGKRKAPNADRRRR 326 >gi|296533931|ref|ZP_06896455.1| ribosomal large subunit pseudouridine synthase B [Roseomonas cervicalis ATCC 49957] gi|296265748|gb|EFH11849.1| ribosomal large subunit pseudouridine synthase B [Roseomonas cervicalis ATCC 49957] Length = 267 Score = 290 bits (743), Expect = 2e-76, Method: Composition-based stats. Identities = 127/239 (53%), Positives = 173/239 (72%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 Q+ +R++K +ARAGIASRR+ E++IA+ +V VNG +L+ A V D + V G + Sbjct: 5 QDGPKGERIAKWLARAGIASRRDAEKLIAEGQVAVNGRVLDGPASFVQPGDSVTVSGKKV 64 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + ERTRL+ YHKP GLVTTH DP+GR TVF+ LP+ R++SVGRLD+N+EGLLLLTND Sbjct: 65 GEPERTRLFRYHKPPGLVTTHKDPEGRRTVFEELPAGLPRLVSVGRLDLNSEGLLLLTND 124 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L+R LELP QW+R YR R HG+VD+ L L G+ ++G+ YG +Q LD+++G+NA Sbjct: 125 GALSRKLELPDNQWIRRYRARVHGRVDERALAALAHGVTVEGVAYGPIQAGLDSRQGTNA 184 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W+TV L EGKNRE+++V + V RLIRI+YGPF L L G+ E++ K+LREQLG Sbjct: 185 WLTVSLSEGKNREVRRVLQHLGLTVTRLIRIAYGPFALADLPRGAVEEINAKVLREQLG 243 >gi|317057433|ref|YP_004105900.1| pseudouridine synthase [Ruminococcus albus 7] gi|315449702|gb|ADU23266.1| pseudouridine synthase [Ruminococcus albus 7] Length = 244 Score = 290 bits (743), Expect = 2e-76, Method: Composition-based stats. Identities = 83/234 (35%), Positives = 120/234 (51%), Gaps = 2/234 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ K+I+ +G SRR+ E IA +V VNG + D I VDG+ + + Sbjct: 1 MEKVRIQKIISESGFCSRRKAEEFIAAGKVTVNGRPCTLGDKALPGKDLIVVDGIKIDQP 60 Query: 71 ERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + HKP G VTT +D R V D L + RV VGRLD N+EGLLLLTNDG Sbjct: 61 RKRTLYYIMLHKPRGYVTTMNDELDRKCVTDLLTGLPERVYPVGRLDKNSEGLLLLTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 A + PS + YRV ++ ++L L G+ I G + VT+ ++ Sbjct: 121 AFANDIMHPSKHVNKTYRVTVRPDINDEQLVKLASGVEIDGRMTSECSVTVLDKQPGRVV 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + + EG+NR+I+K+ E +V RL R + GP +LG L G RE+ LR Sbjct: 181 LQMTIHEGRNRQIRKMCEAVGLEVARLKRTAIGPLRLGMLKPGEYRELKPDELR 234 >gi|86607697|ref|YP_476459.1| RNA pseudouridine synthase family protein [Synechococcus sp. JA-2-3B'a(2-13)] gi|86556239|gb|ABD01196.1| RNA pseudouridine synthase family protein [Synechococcus sp. JA-2-3B'a(2-13)] Length = 274 Score = 290 bits (742), Expect = 2e-76, Method: Composition-based stats. Identities = 91/249 (36%), Positives = 130/249 (52%), Gaps = 13/249 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV--PLR 68 PQR+ K++A+ G+ASRR+VE I RV+VNG ++ D IEV+G PL Sbjct: 3 EPQRLQKLLAQQGLASRRQVEAWILAGRVRVNGKVVTELGSKADPERDCIEVNGQVIPLA 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLT 125 K + L HKP+G+++T +DP GR TV D LP + R + VGRLD ++ G LLLT Sbjct: 63 KDPARYVLLLHKPVGVLSTCADPWGRKTVLDLLPPSWKRQTRLYPVGRLDADSSGALLLT 122 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------ 179 NDG L L P + YRV+ G Q L + G+ ++G +V Sbjct: 123 NDGDLTLKLTHPRYHLPKTYRVQVQGHPSQATLQHWRDGVDLEGYTTLPAEVEFCPAPDF 182 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ V L EG+NR+I++V E V L R + GP LG L AG R++ Sbjct: 183 RQREHPNCSWLRVVLFEGRNRQIRRVAERLGHPVLSLHREAIGPLGLGNLKAGQFRQLDP 242 Query: 239 KILREQLGP 247 L+ L P Sbjct: 243 HELQALLAP 251 >gi|15895126|ref|NP_348475.1| pseudouridylate synthase [Clostridium acetobutylicum ATCC 824] gi|15024828|gb|AAK79815.1|AE007694_1 Predicted pseudouridylate synthase [Clostridium acetobutylicum ATCC 824] gi|325509265|gb|ADZ20901.1| pseudouridylate synthase [Clostridium acetobutylicum EA 2018] Length = 236 Score = 290 bits (742), Expect = 2e-76, Method: Composition-based stats. Identities = 79/230 (34%), Positives = 125/230 (54%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E+MI RVKVNG ++ V D IE+D ++ ++ Sbjct: 3 ERLQKYMAECGVASRRKCEKMIQDGRVKVNGTIVTELGFKVDYKKDTIELDNKEIKLEDK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T SD GR TV D L + RV VGRLD NT GLL++TNDG + Sbjct: 63 KVYAILNKPKGYLTAASDYRGRKTVIDLL-NFKERVFPVGRLDFNTTGLLIVTNDGEIFN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G+ L+ L+KGI I G + +V++ + G N+ + + Sbjct: 122 RIMHPRQNVNKCYLATVKGKPQFKHLDALRKGIDIGGYITKEAEVSVVSFDGKNSILKIV 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGK R+++++ + V L RIS G +LG L G+ R ++K+ + Sbjct: 182 IHEGKKRQVRRMCAAVGFPVEELKRISIGNIKLGDLKEGNVRMLNKEEIE 231 >gi|125624024|ref|YP_001032507.1| pseudouridylate synthase [Lactococcus lactis subsp. cremoris MG1363] gi|124492832|emb|CAL97787.1| pseudouridylate synthase [Lactococcus lactis subsp. cremoris MG1363] Length = 257 Score = 290 bits (742), Expect = 3e-76, Method: Composition-based stats. Identities = 81/238 (34%), Positives = 130/238 (54%), Gaps = 3/238 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R++K +A AG+ASRR+ E +I +V VN + + V + D +EV+GV + Sbjct: 15 KVKKMRINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDVVEVNGVAV-Y 73 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E +L +KP G +++ SD GR TV D +P + R+ VGRLD +T GLLLLTNDG Sbjct: 74 NEEPVYYLLNKPRGYISSVSDDKGRQTVMDLMPQVKERIYPVGRLDWDTSGLLLLTNDGE 133 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNA 187 ++ PS +VY + GQ +++ L L G+ I+G + + Q+ +++ Sbjct: 134 FTNMMTHPSHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIKQEKTKNHS 193 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 V++ + EG+N ++KK+F V +L RI YG L L G R +SKK + + + Sbjct: 194 IVSLTIHEGQNHQVKKMFAAAGLPVQKLSRIQYGTLTLDGLPTGQFRRLSKKEVSQLI 251 >gi|226312000|ref|YP_002771894.1| ribosomal large subunit pseudouridine synthase B [Brevibacillus brevis NBRC 100599] gi|226094948|dbj|BAH43390.1| probable ribosomal large subunit pseudouridine synthase B [Brevibacillus brevis NBRC 100599] Length = 249 Score = 290 bits (742), Expect = 3e-76, Method: Composition-based stats. Identities = 86/234 (36%), Positives = 126/234 (53%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR E +IAQ +V+VNG ++ + V D I V+G ++ E+ Sbjct: 2 ERLQKVLAHAGVASRRHCEELIAQGKVQVNGQVVREQGIKVDPLKDKIVVNGQQVKL-EQ 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G++T+ +DP GR V D L I RV VGRLD +T GLLLLTNDG LA Sbjct: 61 HVYLLLYKPTGVITSVTDPQGRRVVIDLLKGIQERVYPVGRLDYDTSGLLLLTNDGELAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVT 190 L PS + +VYR G +K+ L GI ++ Q L + S A V Sbjct: 121 RLAHPSYEIDKVYRAWVKGIPSPEKVRKLATGIRLEDGMTSPGQSKLLKAESSSQRALVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+++++ E V L RI G L L G R+++ + + Sbjct: 181 LTIHEGRNRQVRRMCEAIGHPVLTLERIRLGFLTLDGLKPGEFRKLTHEEVESL 234 >gi|238852693|ref|ZP_04643103.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus gasseri 202-4] gi|282852074|ref|ZP_06261432.1| pseudouridylate synthase [Lactobacillus gasseri 224-1] gi|311110814|ref|ZP_07712211.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus gasseri MV-22] gi|238834839|gb|EEQ27066.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus gasseri 202-4] gi|282556834|gb|EFB62438.1| pseudouridylate synthase [Lactobacillus gasseri 224-1] gi|311065968|gb|EFQ46308.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus gasseri MV-22] Length = 239 Score = 290 bits (742), Expect = 3e-76, Method: Composition-based stats. Identities = 80/230 (34%), Positives = 129/230 (56%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ASRR+ E+MI+ +V VNG + V +D IEV+GVP+ K E Sbjct: 3 ERLQKVIAQAGVASRRKAEKMISAGQVTVNGKKITELGTKVEPSDKIEVNGVPIEK-ETL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G++++ D GR TV D + R+ VGRLD +T GLLL+TNDG LA Sbjct: 62 HTYLFYKPRGVISSVKDDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMTNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G + + + L G+ I G ++ + +K + V + Sbjct: 122 LMHPRNEVPKVYVAKIKGLLSPEDIRSLTHGVRIDGRKSAPAKLKILKTDEKKNTQIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG ++K++FE + V +L R Y L +L +G RE++ + + Sbjct: 182 TIHEGHYHQVKRMFEAVHHFVEKLSREKYAFLTLKSLTSGEYRELTHEEV 231 >gi|89053708|ref|YP_509159.1| pseudouridine synthase, Rsu [Jannaschia sp. CCS1] gi|88863257|gb|ABD54134.1| Pseudouridine synthase Rsu [Jannaschia sp. CCS1] Length = 296 Score = 290 bits (742), Expect = 3e-76, Method: Composition-based stats. Identities = 137/267 (51%), Positives = 177/267 (66%), Gaps = 1/267 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R++K ++RAG+ASRRE ERMI RV VNG ++E A+NV D IEVD PL + E Sbjct: 3 DGERIAKRLSRAGVASRREAERMIEAGRVSVNGAVIESPALNVTDADVIEVDNAPLPEIE 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R R+W+YHKP GLVT+++D GR TVFD LP RV+SVGRLD+N+EGLLLLTNDGG+ Sbjct: 63 RPRVWMYHKPTGLVTSNADEKGRETVFDKLPDSLPRVMSVGRLDMNSEGLLLLTNDGGVK 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 R LELPST WLR YRVR G + L++GIV +G + M+V+LD +G+NAW+TV Sbjct: 123 RKLELPSTGWLRKYRVRMKGAPKDEDFAPLRRGIVAEGERFQPMEVSLDRVQGANAWITV 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 GLREGKNREI++ ++VNRLIR+SYGPF+LG L G EV ++LR+QLG Sbjct: 183 GLREGKNREIRRAMAELGFEVNRLIRVSYGPFRLGELKPGEVEEVRPRVLRDQLGLEAAT 242 Query: 252 EAQVNLDA-PIYSSETLVRDRPNIISE 277 E A P + + E Sbjct: 243 EGHAEPKAKPAFKGKRRKAPDARKSGE 269 >gi|313884122|ref|ZP_07817888.1| pseudouridine synthase B, ribosomal large subunit [Eremococcus coleocola ACS-139-V-Col8] gi|312620569|gb|EFR31992.1| pseudouridine synthase B, ribosomal large subunit [Eremococcus coleocola ACS-139-V-Col8] Length = 236 Score = 290 bits (742), Expect = 3e-76, Method: Composition-based stats. Identities = 86/233 (36%), Positives = 125/233 (53%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AGIASRR+ E +I+Q RV VNG + V +D IEVD VP+ E Sbjct: 2 ERLQKVMAHAGIASRRKCEEIISQGRVTVNGQTVTELGFKVKQSDKIEVDQVPI-YLEEP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP +++ SD GR V D I R+ +GRLD +T GLLLLTNDG A Sbjct: 61 RYFLFYKPRNVISAVSDDKGRPVVLDYFKHIDQRIYPIGRLDFDTTGLLLLTNDGEFANQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P Q +VY + +D++ L L++GI+I G + + + V + Sbjct: 121 LMHPRYQVDKVYVAKLDKILDKEALRKLERGIIIDGKKTSKARAKVLDTNLEKKMSVVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG N ++KK+FE V +L R +GP LG + G RE+ + E Sbjct: 181 TIHEGWNHQVKKMFEAVGAHVVKLKREKFGPLNLGKMQPGEYRELLPNEVTEL 233 >gi|328952678|ref|YP_004370012.1| pseudouridine synthase Rsu [Desulfobacca acetoxidans DSM 11109] gi|328453002|gb|AEB08831.1| pseudouridine synthase Rsu [Desulfobacca acetoxidans DSM 11109] Length = 242 Score = 290 bits (742), Expect = 3e-76, Method: Composition-based stats. Identities = 83/235 (35%), Positives = 122/235 (51%), Gaps = 1/235 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRK 69 T +R+ K +ARAG+ASRR+ E +I RV V+G ++ + + VDG + Sbjct: 1 MTKERLQKYLARAGVASRRQGEELIRAGRVSVDGRIVTTLGQLIDSEKAEVMVDGRKVLP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R + +KP G VTT +DP GR V D LP R+ VGRLD + GLLLLTNDG Sbjct: 61 PPHCRTIVLNKPYGCVTTMADPQGRRKVIDLLPDQEERLYPVGRLDYDATGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P + + YR GQ L++GI + G QV L + + Sbjct: 121 LAHRLMHPRYKVAKTYRATVAGQFSPAARRRLREGITLDGRLTIPEQVRLVKTSSERSVL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + +REG+ +K++ V +L RI+YGP +LG L G+ RE++++ +R Sbjct: 181 ELTIREGRYHLVKRLCAAVGCPVLKLKRIAYGPLRLGRLALGTWRELTQEEVRRL 235 >gi|227889866|ref|ZP_04007671.1| pseudouridylate synthase [Lactobacillus johnsonii ATCC 33200] gi|227849730|gb|EEJ59816.1| pseudouridylate synthase [Lactobacillus johnsonii ATCC 33200] Length = 244 Score = 290 bits (742), Expect = 3e-76, Method: Composition-based stats. Identities = 82/230 (35%), Positives = 129/230 (56%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E+MI +V VNG + V +D IEV+GVP+ K E Sbjct: 8 ERLQKVIAQAGIASRRKAEKMITAGQVTVNGKKVTELGTKVEPSDKIEVNGVPIEK-EAL 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G++++ SD GR TV D + R+ VGRLD +T GLLL+TNDG LA Sbjct: 67 HTYLFYKPRGVISSVSDDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMTNDGELANK 126 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G + +++ L G+ I G ++ + +K V + Sbjct: 127 LMHPRNEVPKVYVAKIKGILSPEEIRSLTHGVRIDGRKSAPAKLKILKTDEKKKTQIVQL 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG ++K++FE + V +L R Y L +L +G RE++ + + Sbjct: 187 TIHEGHYHQVKRMFEAVHHFVEKLAREKYAFLTLKSLNSGEYRELTNEEV 236 >gi|300070794|gb|ADJ60194.1| ribosomal large subunit pseudouridine synthase B [Lactococcus lactis subsp. cremoris NZ9000] Length = 239 Score = 289 bits (741), Expect = 3e-76, Method: Composition-based stats. Identities = 81/234 (34%), Positives = 130/234 (55%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +A AG+ASRR+ E +I +V VN + + V + D +EV+GV + E Sbjct: 1 MRINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDVVEVNGVAV-YNEEP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G +++ SD GR TV D +P + R+ VGRLD +T GLLLLTNDG + Sbjct: 60 VYYLLNKPRGYISSVSDDKGRQTVMDLMPQVKERIYPVGRLDWDTSGLLLLTNDGEFTNM 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + PS +VY + GQ +++ L L G+ I+G + + Q+ +++ V++ Sbjct: 120 MTHPSHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIKQEKTKNHSIVSL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+N ++KK+F V +L RI YG L L G R +SKK + + + Sbjct: 180 TIHEGQNHQVKKMFAAAGLPVQKLSRIQYGTLTLDGLPTGQFRRLSKKEVSQLI 233 >gi|329667453|gb|AEB93401.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus johnsonii DPC 6026] Length = 239 Score = 289 bits (741), Expect = 3e-76, Method: Composition-based stats. Identities = 81/230 (35%), Positives = 129/230 (56%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ASRR+ E+MI+ +V VNG + V +D IEV+GVP+ K E Sbjct: 3 ERLQKVIAQAGVASRRKAEKMISAGQVTVNGKKVTELGTKVEPSDKIEVNGVPIEK-EAL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L+ KP G++++ SD GR TV D + R+ VGRLD +T GLLL+TNDG LA Sbjct: 62 HTYLFCKPRGVISSVSDDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMTNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G + +++ L G+ I G ++ + +K V + Sbjct: 122 LMHPRNEVPKVYVAKIKGILSPEEIRSLTHGVRIDGRKSAPAKLKILKTDEKKKTQIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG ++K++FE + V +L R Y L +L +G RE++ + + Sbjct: 182 TIHEGHYHQVKRMFEAVHHFVEKLAREKYAFLTLKSLNSGEYRELTNEEV 231 >gi|163740839|ref|ZP_02148232.1| RNA pseudouridylate synthase family protein [Phaeobacter gallaeciensis 2.10] gi|161385830|gb|EDQ10206.1| RNA pseudouridylate synthase family protein [Phaeobacter gallaeciensis 2.10] Length = 447 Score = 289 bits (741), Expect = 3e-76, Method: Composition-based stats. Identities = 143/357 (40%), Positives = 198/357 (55%), Gaps = 9/357 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIE 61 D + R++KV++RAG+ASRRE ERMIA+ RV VNG +++ A+NV + D I Sbjct: 41 DTPATGDGPEGDRIAKVLSRAGVASRREAERMIAEGRVAVNGKVIDSPALNVVLGKDRIV 100 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VDG ++ E RLW+YHKP GLVTT +D R T+FD LP RV++VGRLD+N+EGL Sbjct: 101 VDGNQMQDPEPPRLWMYHKPSGLVTTTNDELDRRTIFDELPEDMPRVMTVGRLDLNSEGL 160 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDGG+ R LELPST WLR YRVR +G+ L++G+VI+G + M V LD Sbjct: 161 LLLTNDGGIKRQLELPSTGWLRRYRVRINGRPKDTDFEPLRQGLVIEGERFQPMTVALDR 220 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 Q+G+NAW+T+GLREGKNREI++ E + VNRL+R+SYGPFQLG L G E+ +++ Sbjct: 221 QQGANAWLTIGLREGKNREIRRAIEDIGFTVNRLLRLSYGPFQLGNLKPGEVEELRSRVV 280 Query: 242 REQLGPHLLE-EAQVNLDAPIYSSETLVRDRPNIISE----VPDDFTRMKKNSSQKNGLS 296 R+QLG E E P+ + P ++ Sbjct: 281 RDQLGLTAPETEEDEKPKRPVRQRPGAGKPGPKPGAKPDFKSGSKPGGKPGGKPSGRSFG 340 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + R+ A G + S + P+ R+ RTS + Sbjct: 341 SSDRSSEKPGDRSGARPAGKPGGKFAGKGKPSDRFAGKAEGKPTG---RTADRTSDR 394 >gi|251796373|ref|YP_003011104.1| pseudouridine synthase [Paenibacillus sp. JDR-2] gi|247543999|gb|ACT01018.1| pseudouridine synthase [Paenibacillus sp. JDR-2] Length = 250 Score = 289 bits (741), Expect = 4e-76, Method: Composition-based stats. Identities = 85/237 (35%), Positives = 133/237 (56%), Gaps = 7/237 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K++A+AG+ASRR+ E +I V+VNG + V TD I V+G P+R +E+ Sbjct: 5 ERLQKILAQAGVASRRKCEELILAGAVEVNGEKVTTLGVKADPATDEITVNGKPIR-SEK 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++T+ DP GR V D LP I RV VGRLD +TEGLLLLTNDG A Sbjct: 64 KIYLMLNKPKGVITSAKDPQGRKVVADFLPGIRERVYPVGRLDYDTEGLLLLTNDGEFAN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 +L PS + Y G L+ LKKG++++ +V ++ + + + Sbjct: 124 LLTHPSHHVPKTYYATVKGVPHGSLLDQLKKGVMLEDGLTAPAEVEYQDIDEEKNMSTIR 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQ 244 + + EG+NR+++++F+ V +L R+ +G L TL G R ++ K LR+Q Sbjct: 184 ITIYEGRNRQVRRMFDAIKHPVLKLRRVKFGELGLRTLARGQFRHLTPVEVKELRDQ 240 >gi|149181685|ref|ZP_01860178.1| RluB [Bacillus sp. SG-1] gi|148850663|gb|EDL64820.1| RluB [Bacillus sp. SG-1] Length = 243 Score = 289 bits (740), Expect = 4e-76, Method: Composition-based stats. Identities = 84/233 (36%), Positives = 131/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I + +VKVNG + V TD IEV+G+ + + E Sbjct: 2 ERLQKVIAHAGVASRRKAEELILEGKVKVNGKTEKELGTKVSGTDKIEVNGIQIER-ENK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ +D R V D P I R+ VGRLD +T GL+LLTNDG A + Sbjct: 61 VYYLLYKPRGVISAVTDDKDRKVVTDFFPYIQERIYPVGRLDYDTSGLILLTNDGEFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + Y R G + KL L+KGI+++ +V + +K + V + Sbjct: 121 LTHPRYNIDKTYVARLKGIPPKFKLKELEKGIMLEDGKTAPAKVKVLKIEKKQDKSIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EGKNR++K++FE ++V +L R + L L AG +RE+S +++ Sbjct: 181 TIHEGKNRQVKRMFEAIGYQVQKLKRERFAFLDLHGLNAGESRELSPHEVKQL 233 >gi|260463253|ref|ZP_05811454.1| RNA-binding S4 domain protein [Mesorhizobium opportunistum WSM2075] gi|259030843|gb|EEW32118.1| RNA-binding S4 domain protein [Mesorhizobium opportunistum WSM2075] Length = 607 Score = 289 bits (740), Expect = 4e-76, Method: Composition-based stats. Identities = 146/295 (49%), Positives = 197/295 (66%), Gaps = 3/295 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K +ARAG+ASRR+ E +IA RVKVNG +L A NVM D I +DG+ + ERTRL Sbjct: 163 IAKRLARAGLASRRDAEDLIAAGRVKVNGRVLASPAFNVMPGDIIHLDGMEIPPIERTRL 222 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +L+HKP G+VTT+ DP+GR TVFD LP+ R++++GRLDINTEGLLLLTNDGGL+RVLE Sbjct: 223 FLFHKPAGVVTTNRDPEGRKTVFDVLPAELPRLMTIGRLDINTEGLLLLTNDGGLSRVLE 282 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 LP+T WLR YRVR HG+V++ L L++GI + G+ YG ++ +LD ++GSNAW+T+GLRE Sbjct: 283 LPATGWLRRYRVRVHGKVEESALAGLREGIAVDGVFYGAIEASLDREQGSNAWLTIGLRE 342 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQV 255 GKNRE+K + V RLIRISYGPFQL L G E+ ++LR+QLG L+EE+ Sbjct: 343 GKNREVKNILGALGLDVTRLIRISYGPFQLEDLPEGHVLEIKGRVLRDQLGERLVEESGA 402 Query: 256 NLDAPI---YSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 N DA I +S++ + R P R + G + + R Sbjct: 403 NFDAEISKPFSNKPVRRTEPRQEEAERPKIMREGDHRPIGEGGLIKNRKRREGSR 457 >gi|194016715|ref|ZP_03055328.1| ribosomal large subunit pseudouridine synthase B [Bacillus pumilus ATCC 7061] gi|194011321|gb|EDW20890.1| ribosomal large subunit pseudouridine synthase B [Bacillus pumilus ATCC 7061] Length = 290 Score = 289 bits (740), Expect = 5e-76, Method: Composition-based stats. Identities = 74/243 (30%), Positives = 128/243 (52%), Gaps = 3/243 (1%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K + + +R+ KVIA AG+ASRR+ E +I + RV VNG + V V S+D IEV+ Sbjct: 38 KIVHEVKDKMERLQKVIAHAGVASRRKAEELIKEGRVTVNGQTVTELGVKVGSSDKIEVN 97 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G+ L + E ++ +KP G+++ D GR V D + R+ +GRLD +T GL+L Sbjct: 98 GLKLEREE-PVYFMLYKPRGVISAAEDDKGRKVVTDFFDDVPQRLYPIGRLDYDTSGLIL 156 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-- 181 +TNDG A L P + + Y + G ++ L L+KGI++ + + + Sbjct: 157 ITNDGEFAHKLMHPKYEIDKTYAAKLKGIPSKELLRKLEKGIMLDHKKTARARAKMLSID 216 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++ + V + + EG+NR+++++FE V +L R Y + + G RE++ + Sbjct: 217 KRKQTSIVQLTIHEGRNRQVRRMFEAIGHDVLKLKREQYAFLHIEGMRPGDRRELTPHEV 276 Query: 242 REQ 244 + Sbjct: 277 KRL 279 >gi|304316801|ref|YP_003851946.1| pseudouridine synthase [Thermoanaerobacterium thermosaccharolyticum DSM 571] gi|302778303|gb|ADL68862.1| pseudouridine synthase [Thermoanaerobacterium thermosaccharolyticum DSM 571] Length = 235 Score = 289 bits (740), Expect = 5e-76, Method: Composition-based stats. Identities = 74/230 (32%), Positives = 124/230 (53%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K +A IASRR+ E++I ++KVNG +++ + + D +E DG + K + Sbjct: 2 ERLQKYLAECSIASRRKCEQLILDGKIKVNGTVIKNLGIKIDPDKDIVEYDGRVVAKVQH 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +TT D GR +V D + I R+ VGRLD +T GLLLLTNDG +A Sbjct: 62 NIYIMLNKPTGFITTVKDQFGRPSVLDII-KIKDRIYPVGRLDCDTSGLLLLTNDGDIAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VY + G D L+ + G+++ ++ + + ++A V + Sbjct: 121 KLMHPKHEIDKVYIAKIRGIPDDKDLDRFRNGLLLDNRLTAKAKIEILKKINNDALVKIV 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+I+++ E V L RI G +LG L G R +S + ++ Sbjct: 181 IHEGRNRQIRRMCELIGHPVMTLKRIKIGDLELGNLKVGQWRYLSGEEVQ 230 >gi|227551154|ref|ZP_03981203.1| pseudouridylate synthase [Enterococcus faecium TX1330] gi|257896222|ref|ZP_05675875.1| pseudouridine synthase [Enterococcus faecium Com12] gi|257898859|ref|ZP_05678512.1| pseudouridine synthase [Enterococcus faecium Com15] gi|293379537|ref|ZP_06625679.1| pseudouridylate synthase [Enterococcus faecium PC4.1] gi|227179716|gb|EEI60688.1| pseudouridylate synthase [Enterococcus faecium TX1330] gi|257832787|gb|EEV59208.1| pseudouridine synthase [Enterococcus faecium Com12] gi|257836771|gb|EEV61845.1| pseudouridine synthase [Enterococcus faecium Com15] gi|292641846|gb|EFF60014.1| pseudouridylate synthase [Enterococcus faecium PC4.1] Length = 238 Score = 289 bits (740), Expect = 5e-76, Method: Composition-based stats. Identities = 84/234 (35%), Positives = 123/234 (52%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E I RVKVNG ++ + V D +EVD VP+ E Sbjct: 2 ERLQKVIAHAGITSRRKAEEFILAGRVKVNGQVVRELGIKVGKHDTVEVDEVPI-YQEEY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ +D GR V D LP + R+ VGRLD +T G+LLLTNDG A+ Sbjct: 61 GYYLLYKPKGVISAVADDKGRKVVTDLLPMVKERIYPVGRLDYDTSGILLLTNDGDFAQR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + +VY + G + L L KGI I+G + + + + V + Sbjct: 121 LTHPKHEVDKVYVAKVKGIATKSMLAPLAKGIKIEGRKTSPAKFQILSVDPKTNHSIVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+N ++K + + V +L R YG L L G RE++KK + L Sbjct: 181 TIHEGRNHQVKNMLQAVGLPVQKLKREKYGDLTLQGLRPGDYRELNKKEVSSLL 234 >gi|163733415|ref|ZP_02140858.1| RNA pseudouridylate synthase family protein, putative [Roseobacter litoralis Och 149] gi|161393203|gb|EDQ17529.1| RNA pseudouridylate synthase family protein, putative [Roseobacter litoralis Och 149] Length = 285 Score = 289 bits (740), Expect = 5e-76, Method: Composition-based stats. Identities = 148/285 (51%), Positives = 187/285 (65%), Gaps = 4/285 (1%) Query: 7 VQENFTPQ--RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + TPQ R++KV++RAG+ASRRE ERMI RVKVNG + A+NV TD I VDG Sbjct: 1 MTSEPTPQGDRIAKVLSRAGVASRREAERMIEAGRVKVNGQHISSPALNVQGTDKITVDG 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + E RLWLYHKP GLVTT +D GR T++ LP RV+SVGRLDIN+EGLLLL Sbjct: 61 KEVSPPEPARLWLYHKPTGLVTTDNDEKGRETIYSALPEDMPRVMSVGRLDINSEGLLLL 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDGG+ R LELP+T WLR YRVR +G+ L+ L++GI +G + MQ+TLD Q+G Sbjct: 121 TNDGGVKRRLELPTTGWLRRYRVRINGRPTDATLDPLRRGISSEGENFQPMQITLDRQQG 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +NAW+TVGLREGKNREI++ + VNRLIRISYGPFQLG L G+ EV +KILR+Q Sbjct: 181 ANAWLTVGLREGKNREIRRALAELDLSVNRLIRISYGPFQLGELKPGAVEEVRRKILRDQ 240 Query: 245 LGP--HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 LG + E A + DA + R R + + +K Sbjct: 241 LGLEGEVEESAPKHPDAGKKRGPNVNRTRTAAPGKSFKHTKKPRK 285 >gi|157692817|ref|YP_001487279.1| pseudouridylate synthase [Bacillus pumilus SAFR-032] gi|157681575|gb|ABV62719.1| pseudouridylate synthase [Bacillus pumilus SAFR-032] Length = 281 Score = 289 bits (740), Expect = 5e-76, Method: Composition-based stats. Identities = 75/243 (30%), Positives = 127/243 (52%), Gaps = 3/243 (1%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K + + +R+ KVIA AG+ASRR+ E +I + RV VNG + V V S+D IEV+ Sbjct: 29 KIVHEVKDKMERLQKVIAHAGVASRRKAEELIKEGRVTVNGQTVTELGVKVGSSDKIEVN 88 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G+ L + E ++ +KP G+++ D GR V D + R+ +GRLD +T GL+L Sbjct: 89 GLKLEREE-PVYFMLYKPRGVISAAEDDKGRKVVTDFFDDVPQRLYPIGRLDYDTSGLIL 147 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-- 181 +TNDG A L P + + Y + G ++ L L+KGI++ + + + Sbjct: 148 ITNDGEFAHKLMHPKYEIDKTYAAKLKGIPSKELLRKLEKGIMLDHKKTAPARAKMLSID 207 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++ V + + EG+NR+++++FE V +L R Y + + G RE+S + Sbjct: 208 KRKQTCIVQLTIHEGRNRQVRRMFEAIGHDVLKLKREHYAFLHIEGMRPGDRRELSPHEV 267 Query: 242 REQ 244 + Sbjct: 268 KRL 270 >gi|12724251|gb|AAK05373.1|AE006360_2 pseudouridine synthase [Lactococcus lactis subsp. lactis Il1403] Length = 257 Score = 289 bits (739), Expect = 5e-76, Method: Composition-based stats. Identities = 82/248 (33%), Positives = 132/248 (53%), Gaps = 4/248 (1%) Query: 1 MKDKNIVQ-ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + KN R++K +A AG+ASRR+ E +I +V VN + + V + D Sbjct: 5 LSQKNKPYLTKVKKMRINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDI 64 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 +EV+GV + E +L +KP G +++ SD GR TV D +P + R+ VGRLD +T Sbjct: 65 VEVNGVAV-YNEEPVYYLLNKPRGYISSVSDDKGRQTVMDLMPQVKERIYPVGRLDWDTS 123 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLTNDG ++ P +VY + GQ +++ L L G+ I+G + + Sbjct: 124 GLLLLTNDGEFTNMMTHPRHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEI 183 Query: 180 DTQK--GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 Q+ +++ V++ + EG+N ++KK+F V +L RI YG L L G R +S Sbjct: 184 IKQEKTKNHSIVSLTIHEGQNHQVKKMFAAAGLPVQKLSRIQYGSLTLDGLPTGQFRRLS 243 Query: 238 KKILREQL 245 KK + + + Sbjct: 244 KKEVSQLI 251 >gi|293570237|ref|ZP_06681306.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E980] gi|291609644|gb|EFF38905.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E980] Length = 238 Score = 289 bits (739), Expect = 6e-76, Method: Composition-based stats. Identities = 84/234 (35%), Positives = 123/234 (52%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E I RVKVNG ++ + V D +EVD VP+ E Sbjct: 2 ERLQKVIAHAGITSRRKAEEFILAGRVKVNGQVVRELGIKVGKQDTVEVDEVPI-YQEEY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ +D GR V D LP + R+ VGRLD +T G+LLLTNDG A+ Sbjct: 61 GYYLLYKPKGVISAVADDKGRKVVTDLLPMVKERIYPVGRLDYDTSGILLLTNDGDFAQR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + +VY + G + L L KGI I+G + + + + V + Sbjct: 121 LTHPKHEVDKVYVAKVKGIATKSMLAPLAKGIKIEGRKTSPAKFQILSVDPKTNHSIVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+N ++K + + V +L R YG L L G RE++KK + L Sbjct: 181 TIHEGRNHQVKNMLQAVGLPVQKLKREKYGDLTLQGLRPGDYRELNKKEVSSLL 234 >gi|116618395|ref|YP_818766.1| ribosomal large subunit pseudouridine synthase B [Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293] gi|116097242|gb|ABJ62393.1| ribosomal large subunit pseudouridine synthase B [Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293] Length = 249 Score = 289 bits (739), Expect = 6e-76, Method: Composition-based stats. Identities = 82/237 (34%), Positives = 132/237 (55%), Gaps = 2/237 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + QR+ K+IA+AG+ASRR E +I RV+VNG + V + D ++VDG P+ Sbjct: 2 SEEAQRLQKIIAQAGLASRRGAEELIINGRVQVNGQTVTELGTKVTANDKVQVDGAPIEG 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ +L +KP G+VTT+ D GR TV D L + RV VGRLD +T G+LLLTNDG Sbjct: 62 REKLVYYLLNKPRGVVTTNDDEKGRRTVLDILEDVDQRVYPVGRLDYDTTGVLLLTNDGV 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NA 187 +A L P T+ + Y + G ++KL LK+G+V++G +V+++ + + + Sbjct: 122 VANQLMHPKTKVDKTYVAKVEGIATEEKLAPLKRGVVLKGRKTAPARVSIERIEPTKRTS 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V + + EG+N ++K + V +L R Y F + L G R+++ ++ Sbjct: 182 MVRLTIHEGRNHQVKNMLAKVGLPVQKLKREQYAFFDVTGLQPGEYRKLTSVEIKRL 238 >gi|30024033|ref|NP_267431.2| pseudouridine synthase [Lactococcus lactis subsp. lactis Il1403] Length = 239 Score = 289 bits (739), Expect = 6e-76, Method: Composition-based stats. Identities = 80/234 (34%), Positives = 129/234 (55%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +A AG+ASRR+ E +I +V VN + + V + D +EV+GV + E Sbjct: 1 MRINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDIVEVNGVAV-YNEEP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G +++ SD GR TV D +P + R+ VGRLD +T GLLLLTNDG + Sbjct: 60 VYYLLNKPRGYISSVSDDKGRQTVMDLMPQVKERIYPVGRLDWDTSGLLLLTNDGEFTNM 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P +VY + GQ +++ L L G+ I+G + + Q+ +++ V++ Sbjct: 120 MTHPRHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIKQEKTKNHSIVSL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+N ++KK+F V +L RI YG L L G R +SKK + + + Sbjct: 180 TIHEGQNHQVKKMFAAAGLPVQKLSRIQYGSLTLDGLPTGQFRRLSKKEVSQLI 233 >gi|326406814|gb|ADZ63885.1| ribosomal large subunit pseudouridine synthase B [Lactococcus lactis subsp. lactis CV56] Length = 257 Score = 289 bits (739), Expect = 6e-76, Method: Composition-based stats. Identities = 82/248 (33%), Positives = 132/248 (53%), Gaps = 4/248 (1%) Query: 1 MKDKNIVQ-ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + KN R++K +A AG+ASRR+ E +I +V VN + + V + D Sbjct: 5 LSQKNKPYLTKVKKMRINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDI 64 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 +EV+GV + E +L +KP G +++ SD GR TV D +P + R+ VGRLD +T Sbjct: 65 VEVNGVAV-YNEEPVYYLLNKPRGYISSVSDDKGRQTVMDLMPQVKERIYPVGRLDWDTS 123 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLTNDG ++ P +VY + GQ +++ L L G+ I+G + + Sbjct: 124 GLLLLTNDGEFTNMMTHPRHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEI 183 Query: 180 DTQK--GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 Q+ +++ V++ + EG+N ++KK+F V +L RI YG L L G R +S Sbjct: 184 IKQEKTKNHSIVSLTIHEGQNHQVKKMFAAAGLPVQKLSRIQYGTLTLDGLPTGQFRRLS 243 Query: 238 KKILREQL 245 KK + + + Sbjct: 244 KKEVSQLI 251 >gi|255264455|ref|ZP_05343797.1| ribosomal large subunit pseudouridine synthase B [Thalassiobium sp. R2A62] gi|255106790|gb|EET49464.1| ribosomal large subunit pseudouridine synthase B [Thalassiobium sp. R2A62] Length = 267 Score = 289 bits (739), Expect = 6e-76, Method: Composition-based stats. Identities = 135/256 (52%), Positives = 178/256 (69%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T QR++KV+ARAG+ASRRE ERMI RV+VN L+E A+NV+ +D I VDG + E Sbjct: 11 TGQRIAKVLARAGVASRREAERMIEAGRVRVNSKLIESPALNVVPSDRISVDGKLIGDPE 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 TR+WL+HKP GL+T+ D +GR TVFD LP RV+SVGRLD+N+EGLL+LTNDG + Sbjct: 71 PTRMWLFHKPQGLITSERDEEGRETVFDVLPPEMPRVLSVGRLDLNSEGLLVLTNDGEVK 130 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 R LELPST WLR YRVR G + + KL+ L++GI ++G+ Y M VT D Q+G+NAW+T+ Sbjct: 131 RKLELPSTGWLRRYRVRIKGSLSEAKLDELREGITVEGVHYQPMDVTFDRQQGANAWLTI 190 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 G+REGKNREI++ E VNRLIRISYGPFQLG + AG E+ +++R+QLG Sbjct: 191 GIREGKNREIRRTMEALGVTVNRLIRISYGPFQLGNIKAGEVEELKSRVVRDQLGLDPRP 250 Query: 252 EAQVNLDAPIYSSETL 267 + + T Sbjct: 251 KPERTRKTGAKGKNTR 266 >gi|52786201|ref|YP_092030.1| RluB [Bacillus licheniformis ATCC 14580] gi|163119522|ref|YP_079621.2| pseudouridine synthase [Bacillus licheniformis ATCC 14580] gi|319645211|ref|ZP_07999444.1| pseudouridine synthase [Bacillus sp. BT1B_CT2] gi|52348703|gb|AAU41337.1| RluB [Bacillus licheniformis ATCC 14580] gi|145903029|gb|AAU23983.2| pseudouridine synthase [Bacillus licheniformis ATCC 14580] gi|317393020|gb|EFV73814.1| pseudouridine synthase [Bacillus sp. BT1B_CT2] Length = 244 Score = 289 bits (739), Expect = 7e-76, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 127/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E +I + RV VNG + V V S+D IEV+GV L +E Sbjct: 2 ERLQKVIAHAGIASRRKAEELIKEGRVTVNGKTVRELGVKVSSSDRIEVNGVQLE-SEEP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D GR V D + R+ +GRLD +T GLLLLTNDG A Sbjct: 61 VYFLLYKPRGVISAVKDDKGRKVVTDFFTEVEERIYPIGRLDYDTSGLLLLTNDGDFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G ++ L L++G+ ++ +V L + +K + V + Sbjct: 121 LMHPKYEINKTYVAKLKGIPLKENLKKLERGVRLEDGKTAPAKVKLLSLDKKKQTSIVQI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE +V +L R Y L L G RE++ ++ Sbjct: 181 TIHEGRNRQVRRMFEAIGHEVLKLKREEYAFLNLAGLKTGEKRELTPHEVKRL 233 >gi|291542267|emb|CBL15377.1| ribosomal large subunit pseudouridine synthase B [Ruminococcus bromii L2-63] Length = 249 Score = 288 bits (738), Expect = 8e-76, Method: Composition-based stats. Identities = 79/248 (31%), Positives = 128/248 (51%), Gaps = 3/248 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 P R+ K IA+ GIASRR+ E +I VKVNG V+ TD + V G + Sbjct: 3 KIEPIRLQKFIAQCGIASRRKAEELILGGHVKVNGKTAI-LGDKVLPTDKVFVRGKRIVV 61 Query: 70 AER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + R + +KP G +TT +D GR V + ++ RV +GRLD ++EG+L+ TND Sbjct: 62 PKGGNYRYIMLNKPRGFITTMNDERGRKCVAQLVENVGERVYPIGRLDKDSEGMLVFTND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G A + P ++YRV +D+D+L L+ G+ + G V + ++ Sbjct: 122 GDFANKVMHPKNNVYKIYRVTVRPSIDEDQLVKLETGVELDGRKTAPAYVHVIHKEQGRV 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + L EGKNREI+++ E +V RL R G ++G L G R+++++ +++ L Sbjct: 182 VLEMILHEGKNREIRRMCEAVGLEVARLKRTQIGGVKMGMLKQGDWRDLTEQEVKKLLAN 241 Query: 248 HLLEEAQV 255 L Q+ Sbjct: 242 PFLNGKQL 249 >gi|238855198|ref|ZP_04645517.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 269-3] gi|260664561|ref|ZP_05865413.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii SJ-7A-US] gi|282932508|ref|ZP_06337933.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 208-1] gi|313471973|ref|ZP_07812465.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 1153] gi|238832090|gb|EEQ24408.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 269-3] gi|239529095|gb|EEQ68096.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 1153] gi|260561626|gb|EEX27598.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii SJ-7A-US] gi|281303457|gb|EFA95634.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 208-1] Length = 237 Score = 288 bits (738), Expect = 8e-76, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 133/233 (57%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA+AGIASRR+ E++I + RV VNG ++ V S+ IEVDG+P++K + Sbjct: 3 ERLQKLIAQAGIASRRKAEKLITEGRVAVNGKIVTELGTKVESSASIEVDGLPIQKESKH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ D GR TV D R+ VGRLD +T GLLL+TNDG LA Sbjct: 63 TYLLY-KPRGVISSVKDDKGRKTVLDFFEESPYRLYPVGRLDYDTSGLLLITNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P +VY + G + ++++ LK G+ I G +V + + ++ + V + Sbjct: 122 LMHPRHMVDKVYVAKIKGFLTPEEIHSLKHGVRIDGKKSAPAKVKIISTNREKGTSIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG ++K++F+ V++L R Y L +L AG RE++++ + + Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVDKLSRERYAFLTLKSLTAGKYRELTREEVAKL 234 >gi|323135793|ref|ZP_08070876.1| RNA-binding S4 domain protein [Methylocystis sp. ATCC 49242] gi|322398884|gb|EFY01403.1| RNA-binding S4 domain protein [Methylocystis sp. ATCC 49242] Length = 640 Score = 288 bits (738), Expect = 8e-76, Method: Composition-based stats. Identities = 153/352 (43%), Positives = 204/352 (57%), Gaps = 7/352 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +F +R++K +ARAG+ SRRE E+ IA+ RV VNG++L AA NV D I +DG P+++ Sbjct: 83 SFEGERIAKAMARAGVCSRREAEQWIAEGRVAVNGVVLPNAAFNVKEGDRITIDGAPMQE 142 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTN 126 ERTRL+L+HKP G VTT DP+GR TVF L RV+SVGRLDINTEGLLLLTN Sbjct: 143 RERTRLFLFHKPAGYVTTAHDPEGRPTVFAFLEERHGELPRVVSVGRLDINTEGLLLLTN 202 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLAR LELP+T W R YRVR HG DQ +L+ L+KG+ I G+ Y ++ L+ +G+N Sbjct: 203 DGGLARTLELPATGWTRRYRVRVHGDTDQAQLDELRKGVTIDGVVYAPIEARLERVQGAN 262 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 AW+ + L EGKNREIK+V V RLIR+SYGPFQLG L G+ EV KILREQLG Sbjct: 263 AWIAMSLTEGKNREIKRVMAHLGLDVTRLIRVSYGPFQLGELAEGAVEEVKLKILREQLG 322 Query: 247 PHLLEEAQVNLDAPIY----SSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 L E A V+ +P+ + E +R+R R +++ G + + Sbjct: 323 KSLAELAGVDFSSPVRERTATEEQEMRERAEKRPRKHVSVLRKQRDEKSGKGPRARIERG 382 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R+ A V S++ R + +R + Sbjct: 383 ATADRKGRAVVVERVTPTARKAESETTTRNARRFEAMRGEGRRPGPEGGRAE 434 >gi|258511697|ref|YP_003185131.1| pseudouridine synthase [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] gi|257478423|gb|ACV58742.1| pseudouridine synthase [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] Length = 273 Score = 288 bits (738), Expect = 8e-76, Method: Composition-based stats. Identities = 88/231 (38%), Positives = 133/231 (57%), Gaps = 5/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E +I RV V+G ++ + V + I VDGVP+ E+ Sbjct: 2 ERLQKVLAHAGVASRRKCEELILAGRVSVDGEIVTQLGAKVDPSRQRIAVDGVPIEL-EQ 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP+ ++T SDP GR TV LP I RV VGRLD +T GLLL TNDG L + Sbjct: 61 PVVLVLNKPVAYLSTVSDPLGRRTVMQLLPPIRERVYPVGRLDYDTSGLLLFTNDGELTQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN---AWV 189 L PS + +VYRV G VD++ L +G+ ++ +V + Q A V Sbjct: 121 RLLHPSREIEKVYRVSVRGIVDRETRRALMEGVELEDGVTAPAKVEVLRQADREDGVAVV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + EG+NR+++++FE V RL RI++GP LG L G R ++++ Sbjct: 181 HLAIHEGRNRQVRRMFERLGLPVLRLKRIAFGPVSLGHLKTGEWRALTQEE 231 >gi|147677969|ref|YP_001212184.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Pelotomaculum thermopropionicum SI] gi|146274066|dbj|BAF59815.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Pelotomaculum thermopropionicum SI] Length = 252 Score = 288 bits (738), Expect = 8e-76, Method: Composition-based stats. Identities = 83/232 (35%), Positives = 125/232 (53%), Gaps = 1/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ KV+ARAG+ASRR ER+IA VKVNG ++ V D I+V + R Sbjct: 14 ERLQKVMARAGVASRRHCERLIAAGAVKVNGKVVTEVGCKVDPARDKIQVGNRTISLFPR 73 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G VTT SD GR V D L + RV VGRLD ++EGLLLLTNDG L Sbjct: 74 RYYILLYKPRGYVTTLSDEKGRKKVTDLLKGVAGRVYPVGRLDYDSEGLLLLTNDGELTY 133 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y V G ++KL + G++++ +V L ++G N + + Sbjct: 134 ALTHPKHRVPKTYVVSVKGLPGREKLEKMAGGLMLEDGPTAPARVRLIGRRGKNVLLEIT 193 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+I+++ + V RL R G +G L G R ++++ +++ Sbjct: 194 ISEGRNRQIRRMCDSIGHPVVRLKRTKLGSLSIGNLRPGQYRHLTREEIKKL 245 >gi|323705338|ref|ZP_08116913.1| pseudouridine synthase [Thermoanaerobacterium xylanolyticum LX-11] gi|323535240|gb|EGB25016.1| pseudouridine synthase [Thermoanaerobacterium xylanolyticum LX-11] Length = 235 Score = 288 bits (738), Expect = 8e-76, Method: Composition-based stats. Identities = 80/230 (34%), Positives = 122/230 (53%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A GIASRR+ E++I +VKVNG + V V D +E +G + K + Sbjct: 2 ERLQKYLAECGIASRRKCEQLILDGKVKVNGETVRELGVKVDPNKDVVEYNGKVVTKVNK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP+G +TT D R +V D + SI RV +GRLD +T GLLLLTNDG LA Sbjct: 62 NIYIMLNKPVGYITTVKDQFDRPSVIDLV-SIDDRVYPIGRLDYDTSGLLLLTNDGDLAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY + G D+ KL++ + G+ I ++ + N+ V + Sbjct: 121 KLMHPRHNINKVYIAQIKGVPDKMKLDMFRNGLRIDNYKTAKAEIDILKVTNGNSTVKIA 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+I+K+ E V +L R+ G +G L G R +SK + Sbjct: 181 IHEGRNRQIRKMCELIGHPVLKLKRVKIGNLDIGNLKTGQWRYLSKDEVE 230 >gi|257887727|ref|ZP_05667380.1| pseudouridine synthase [Enterococcus faecium 1,141,733] gi|257823781|gb|EEV50713.1| pseudouridine synthase [Enterococcus faecium 1,141,733] Length = 238 Score = 288 bits (738), Expect = 9e-76, Method: Composition-based stats. Identities = 84/234 (35%), Positives = 123/234 (52%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E I RVKVNG ++ + V D +EVD VP+ E Sbjct: 2 ERLQKVIAHAGITSRRKAEEFILAGRVKVNGQVIRELGIKVGKHDTVEVDEVPI-YQEEY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ +D GR V D LP + R+ VGRLD +T G+LLLTNDG A+ Sbjct: 61 GYYLLYKPKGVISAVADDKGRKVVTDLLPMVKERIYPVGRLDYDTSGILLLTNDGDFAQR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + +VY + G + L L KGI I+G + + + + V + Sbjct: 121 LTHPKHEVDKVYVAKVKGIATKSMLAPLAKGIKIEGRKTSPAKFQILSVDPKTNHSIVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+N ++K + + V +L R YG L L G RE++KK + L Sbjct: 181 TIHEGRNHQVKNMLQAVGLPVQKLKREKYGDLTLQGLRPGDYRELNKKEVSSLL 234 >gi|300173429|ref|YP_003772595.1| ribosomal large subunit pseudouridine synthase B [Leuconostoc gasicomitatum LMG 18811] gi|299887808|emb|CBL91776.1| ribosomal large subunit pseudouridine synthase B [Leuconostoc gasicomitatum LMG 18811] Length = 249 Score = 288 bits (738), Expect = 9e-76, Method: Composition-based stats. Identities = 90/237 (37%), Positives = 137/237 (57%), Gaps = 2/237 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + QR+ K+IA+AG+ASRR E +IA+ RV+VNG + + V DH+EVDG P+ Sbjct: 2 SEEAQRLQKIIAQAGLASRRGAEELIAKGRVQVNGQTITELGMKVEPNDHVEVDGSPIEG 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ +L +KP G+VTT++D GR TV D L + RV +GRLD +T G+LLLTNDG Sbjct: 62 REKLVYYLLNKPRGVVTTNNDEKGRQTVIDLLGDVSQRVYPIGRLDYDTTGVLLLTNDGV 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNA 187 +A L P ++ +VY + G +KL LK G+VI+G +VT++ + + Sbjct: 122 VANQLMHPKSRVDKVYVAKVEGIATDEKLAPLKHGVVIKGRKTAPARVTIERVDKDKKTS 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V + EG+N +IK + + + V +L R Y F L L +G R+++ +R Sbjct: 182 MVRVIIHEGRNHQIKNMLQKVHLPVVKLTREQYAFFDLIGLQSGEYRKLTGAEVRRL 238 >gi|119386847|ref|YP_917902.1| RNA-binding S4 domain-containing protein [Paracoccus denitrificans PD1222] gi|119377442|gb|ABL72206.1| RNA-binding S4 domain protein [Paracoccus denitrificans PD1222] Length = 457 Score = 288 bits (738), Expect = 9e-76, Method: Composition-based stats. Identities = 143/350 (40%), Positives = 198/350 (56%), Gaps = 5/350 (1%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +D N R++KV+ARAG+ASRRE ERMI + RV VNG ++ A++V D I Sbjct: 3 EDSPETAPNPQADRIAKVMARAGVASRREAERMILEGRVTVNGKKIDSPALDVTPADRIR 62 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VDG PL + + TRLWLY+KP+GLVT++SD GR TVFD LP RV++VGRLD+N+EGL Sbjct: 63 VDGKPLEEPQETRLWLYYKPLGLVTSNSDEKGRQTVFDALPRDLPRVMTVGRLDLNSEGL 122 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDG L R LELP+T WLR YRVR +GQ + L++G+ I G + M++ LD+ Sbjct: 123 LLLTNDGELKRRLELPTTGWLRRYRVRVNGQPNDLTFAPLRRGVTIDGEEFAPMEINLDS 182 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 Q+G+NAW+TVG+REG+NREI++ VNRLIRI YGPF+L L REV +K+L Sbjct: 183 QQGANAWLTVGIREGRNREIRRAMAHVGLIVNRLIRIGYGPFKLTGLEENEVREVKRKVL 242 Query: 242 REQLGPHL---LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 R+QLG L EE + + RP + ++ + +++ Sbjct: 243 RDQLGGLLTGETEEKPRSFRERGAAKPAEGDARPRKPRDEGGRKPFARREDGDRKPFARR 302 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 ++ R G + E+ R P F + Sbjct: 303 EEGDRKPFAR-REDGERKPFGKRPDGGRKPFAKREDGERKP-FARREDRD 350 >gi|319892477|ref|YP_004149352.1| Ribosomal large subunit pseudouridine synthase B [Staphylococcus pseudintermedius HKU10-03] gi|317162173|gb|ADV05716.1| Ribosomal large subunit pseudouridine synthase B [Staphylococcus pseudintermedius HKU10-03] gi|323464420|gb|ADX76573.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus pseudintermedius ED99] Length = 248 Score = 288 bits (738), Expect = 9e-76, Method: Composition-based stats. Identities = 79/243 (32%), Positives = 137/243 (56%), Gaps = 5/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +V+VNG + V +D + V+G+PL + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLIEEGKVQVNGKTVTELGTKVRPSDEVTVEGIPLEQEDKL 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L++KP ++T+ SD GR V D + +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 -YILFYKPAQVITSVSDDRGRKVVTDYFDDLVTRIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + + Y + G + ++++ L+KGI ++ +V + Q + + + V + Sbjct: 125 MTHPRYKIPKTYVAKIEGYILREQVKQLEKGIQLEDGLTQPAKVKVKKQNKEKNTSLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE F + V +L R+S+GP L L AG R +S ++ HL E Sbjct: 185 TITEGRNRQVRRMFEHFGFSVQKLSRVSFGPLTLKGLGAGEGRVLSPHEVKSL--RHLAE 242 Query: 252 EAQ 254 Q Sbjct: 243 NGQ 245 >gi|254460191|ref|ZP_05073607.1| ribosomal large subunit pseudouridine synthase [Rhodobacterales bacterium HTCC2083] gi|206676780|gb|EDZ41267.1| ribosomal large subunit pseudouridine synthase [Rhodobacteraceae bacterium HTCC2083] Length = 310 Score = 288 bits (737), Expect = 9e-76, Method: Composition-based stats. Identities = 139/315 (44%), Positives = 192/315 (60%), Gaps = 17/315 (5%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + E R++KV+ARAG+ASRRE ERMI R+ V+G +++ A+NV+ T I VDG Sbjct: 1 MNTETPKGDRIAKVLARAGVASRREAERMIDAGRISVDGKIIDSPALNVLPTARISVDGK 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+ E R+W+YHKP GLVTT SD GR T+FD+LP RV+SVGRLD+N+EGLLLLT Sbjct: 61 PMAAPEPPRVWMYHKPTGLVTTDSDEKGRKTIFDDLPEDMPRVMSVGRLDLNSEGLLLLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDGGL R LELPST WLR YRVR +G+ ++ L+KG+ +QG + M V++D Q+G+ Sbjct: 121 NDGGLKRKLELPSTGWLRKYRVRINGRPTEETFEPLRKGLNLQGEHFQPMLVSIDRQQGA 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 NAW+TVG+REGKNREI++ E VNRLIR+SYGPFQLG L E+ ++ L++QL Sbjct: 181 NAWLTVGIREGKNREIRRAMEAIQLNVNRLIRVSYGPFQLGNLKTSGVEEIRRRALKDQL 240 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNS------------SQKN 293 G + +L+ P + R + ++ + + + Sbjct: 241 GL-----SDEDLEVPGAKPKPTQRGKNSVTRGKRPPLPKGPLRGRDRFSDSDPMARPKSS 295 Query: 294 GLSKQKKLATPVHRR 308 G K K P +R Sbjct: 296 GKPKSKPANKPRPKR 310 >gi|259046873|ref|ZP_05737274.1| ribosomal large subunit pseudouridine synthase B [Granulicatella adiacens ATCC 49175] gi|259036496|gb|EEW37751.1| ribosomal large subunit pseudouridine synthase B [Granulicatella adiacens ATCC 49175] Length = 241 Score = 288 bits (737), Expect = 9e-76, Method: Composition-based stats. Identities = 80/241 (33%), Positives = 126/241 (52%), Gaps = 3/241 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR+ E I + RVKVNG ++ V + D IEVDG+P+ E Sbjct: 2 ERLQKVMAHAGVASRRKCEAFIQEGRVKVNGEVVRELGFKVGANDKIEVDGIPI-YKEEP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++++KP G++++ SD GR+ V D + RV VGRLD +T GLLLLTNDG + + Sbjct: 61 VYFMFYKPKGVLSSASDDKGRTVVTDYFKDVEQRVYPVGRLDYDTTGLLLLTNDGEFSNL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNAWVTV 191 + P + Y + G ++ L++GIV+ G Q+ V + Sbjct: 121 MTHPKHHVEKKYIAKVKGIPTPRQMRQLERGIVLDGKKTSNAIAQILSVDTDKGTGIVAL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG N ++K++FE V +L R +G L L G RE+ +++ L E Sbjct: 181 TIHEGWNHQVKRMFEAVELPVMKLKREEFGFLTLENLRPGDYRELRSFEVQKLRKLALDE 240 Query: 252 E 252 + Sbjct: 241 K 241 >gi|69248060|ref|ZP_00604605.1| Pseudouridine synthase, Rsu [Enterococcus faecium DO] gi|257877984|ref|ZP_05657637.1| pseudouridine synthase [Enterococcus faecium 1,230,933] gi|257881230|ref|ZP_05660883.1| pseudouridine synthase [Enterococcus faecium 1,231,502] gi|257884895|ref|ZP_05664548.1| pseudouridine synthase [Enterococcus faecium 1,231,501] gi|257889817|ref|ZP_05669470.1| pseudouridine synthase [Enterococcus faecium 1,231,410] gi|257892245|ref|ZP_05671898.1| pseudouridine synthase [Enterococcus faecium 1,231,408] gi|258616531|ref|ZP_05714301.1| ribosomal large subunit pseudouridine synthase B, putative [Enterococcus faecium DO] gi|260559035|ref|ZP_05831221.1| pseudouridine synthase [Enterococcus faecium C68] gi|261207569|ref|ZP_05922254.1| pseudouridine synthase [Enterococcus faecium TC 6] gi|289565081|ref|ZP_06445534.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium D344SRF] gi|293556726|ref|ZP_06675289.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1039] gi|293563384|ref|ZP_06677833.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1162] gi|293568042|ref|ZP_06679380.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1071] gi|294614860|ref|ZP_06694755.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1636] gi|294618690|ref|ZP_06698224.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1679] gi|294622981|ref|ZP_06701871.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium U0317] gi|314939485|ref|ZP_07846719.1| conserved hypothetical protein [Enterococcus faecium TX0133a04] gi|314941116|ref|ZP_07848014.1| conserved hypothetical protein [Enterococcus faecium TX0133C] gi|314948728|ref|ZP_07852100.1| conserved hypothetical protein [Enterococcus faecium TX0082] gi|314951701|ref|ZP_07854744.1| conserved hypothetical protein [Enterococcus faecium TX0133A] gi|314993952|ref|ZP_07859279.1| conserved hypothetical protein [Enterococcus faecium TX0133B] gi|314997516|ref|ZP_07862461.1| conserved hypothetical protein [Enterococcus faecium TX0133a01] gi|68194579|gb|EAN09070.1| Pseudouridine synthase, Rsu [Enterococcus faecium DO] gi|257812212|gb|EEV40970.1| pseudouridine synthase [Enterococcus faecium 1,230,933] gi|257816888|gb|EEV44216.1| pseudouridine synthase [Enterococcus faecium 1,231,502] gi|257820733|gb|EEV47881.1| pseudouridine synthase [Enterococcus faecium 1,231,501] gi|257826177|gb|EEV52803.1| pseudouridine synthase [Enterococcus faecium 1,231,410] gi|257828624|gb|EEV55231.1| pseudouridine synthase [Enterococcus faecium 1,231,408] gi|260074792|gb|EEW63108.1| pseudouridine synthase [Enterococcus faecium C68] gi|260077952|gb|EEW65658.1| pseudouridine synthase [Enterococcus faecium TC 6] gi|289163088|gb|EFD10935.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium D344SRF] gi|291589263|gb|EFF21073.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1071] gi|291592322|gb|EFF23936.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1636] gi|291595073|gb|EFF26416.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1679] gi|291597609|gb|EFF28770.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium U0317] gi|291601058|gb|EFF31347.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1039] gi|291604645|gb|EFF34130.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1162] gi|313588427|gb|EFR67272.1| conserved hypothetical protein [Enterococcus faecium TX0133a01] gi|313591554|gb|EFR70399.1| conserved hypothetical protein [Enterococcus faecium TX0133B] gi|313596165|gb|EFR75010.1| conserved hypothetical protein [Enterococcus faecium TX0133A] gi|313600117|gb|EFR78960.1| conserved hypothetical protein [Enterococcus faecium TX0133C] gi|313641287|gb|EFS05867.1| conserved hypothetical protein [Enterococcus faecium TX0133a04] gi|313644794|gb|EFS09374.1| conserved hypothetical protein [Enterococcus faecium TX0082] Length = 238 Score = 288 bits (737), Expect = 1e-75, Method: Composition-based stats. Identities = 84/234 (35%), Positives = 123/234 (52%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E I RVKVNG ++ + V D +EVD VP+ E Sbjct: 2 ERLQKVIAHAGITSRRKAEEFILAGRVKVNGQVVRELGIKVGKHDTVEVDEVPI-YQEEY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ +D GR V D LP + R+ VGRLD +T G+LLLTNDG A+ Sbjct: 61 GYYLLYKPKGVISAVADDKGRKVVTDLLPMVKERIYPVGRLDYDTSGILLLTNDGDFAQR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + +VY + G + L L KGI I+G + + + + V + Sbjct: 121 LTHPKHEVDKVYVAKVKGIATKSMLAPLTKGIKIEGRKTSPAKFQILSVDPKTNHSIVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+N ++K + + V +L R YG L L G RE++KK + L Sbjct: 181 TIHEGRNHQVKNMLQAVGLPVQKLKREKYGDLTLQGLRPGDYRELNKKEVSSLL 234 >gi|224541350|ref|ZP_03681889.1| hypothetical protein CATMIT_00510 [Catenibacterium mitsuokai DSM 15897] gi|224525684|gb|EEF94789.1| hypothetical protein CATMIT_00510 [Catenibacterium mitsuokai DSM 15897] Length = 247 Score = 288 bits (737), Expect = 1e-75, Method: Composition-based stats. Identities = 82/230 (35%), Positives = 123/230 (53%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA++G SRR+ E +I Q +V VNG ++ V D I V+G + K E Sbjct: 3 ERLQKVIAQSGYTSRRKAEELIQQGKVTVNGEVVTVLGTKVTKKDTICVNGKLINK-EDK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP V T SD R+ V D RV VGRLD +T G L +TNDG A + Sbjct: 62 VYYLFYKPEKCVCTMSDEHDRTCVADYFADSNERVYPVGRLDYDTTGALFMTNDGEFANL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTV 191 + PS+ +VY V G + + + N L+KGI ++G+ ++ + + ++ + + Sbjct: 122 IMHPSSHLEKVYEVSVKGLLTKAEKNQLEKGIYLEGVKTLPCEIAITGNDEEHGTTMLLI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EGKNR+IKK+FE V RL RI GP L L G+ R + + Sbjct: 182 RLVEGKNRQIKKMFEEVGHPVKRLRRIMIGPIDLKGLTPGTYRRLKPHEV 231 >gi|257869547|ref|ZP_05649200.1| pseudouridine synthase [Enterococcus gallinarum EG2] gi|257803711|gb|EEV32533.1| pseudouridine synthase [Enterococcus gallinarum EG2] Length = 238 Score = 288 bits (737), Expect = 1e-75, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E +I RV VNG +++ V V + D +EVDGVP+ + E Sbjct: 2 ERLQKVIAHAGITSRRKAEELIVAGRVSVNGQIVKELGVQVSAKDRVEVDGVPIEQ-ESP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G+++ +D R V D + R+ +GRLD +T GLLLLTNDG L++ Sbjct: 61 VYYMLYKPRGVISAVTDDKKRKVVLDFFTEVPERLYPIGRLDYDTSGLLLLTNDGDLSQK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 L P + +VY + G D+ +L L +GI I+G + + + + + V + Sbjct: 121 LMHPKHEVDKVYVAKVKGIADKKQLLPLSRGIRIEGKKTAPARFEILSTDAATQTSIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++K + + V +L R YG L L G RE++KK + E Sbjct: 181 TIHEGRNHQVKNMLKAVGLPVQKLKREMYGSLTLAGLRPGEYRELTKKEVNEL 233 >gi|91975753|ref|YP_568412.1| pseudouridine synthase Rsu [Rhodopseudomonas palustris BisB5] gi|91682209|gb|ABE38511.1| Pseudouridine synthase, Rsu [Rhodopseudomonas palustris BisB5] Length = 795 Score = 288 bits (737), Expect = 1e-75, Method: Composition-based stats. Identities = 149/326 (45%), Positives = 201/326 (61%), Gaps = 11/326 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV+ARAG+ SRR+ E I + RV VNG +++ A++V +D I VDG PL + ERTR Sbjct: 477 RIAKVVARAGLCSRRDAEAWIVEGRVAVNGRVIDSPALDVTYSDVITVDGKPLPERERTR 536 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L+LYHKP GL+TTH+DP+GR TVFDNLP R+IS+GRLD NTEGLLLLTNDGGLAR L Sbjct: 537 LFLYHKPRGLMTTHADPEGRPTVFDNLPEDLPRLISIGRLDFNTEGLLLLTNDGGLARAL 596 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELP T WLR YRVR HG+V Q +L+ L G+ + G+ YG ++ L+ +G+N W+ +R Sbjct: 597 ELPETGWLRRYRVRAHGEVTQAQLDQLASGVEVDGVKYGPIEAKLERDQGANVWLVFAIR 656 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNRE++ V +VNRLIR+SYGPFQL + G EV ++LREQLG +++ A+ Sbjct: 657 EGKNREVRNVLAHLGLEVNRLIRVSYGPFQLLEIEEGQVEEVKTRVLREQLGEKIIKLAE 716 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNV 314 + P SET + RP D KK ++ + +K V R Sbjct: 717 ADFGGP-SPSETRPKPRPGKPVAAEDGPAPKKKAVVKRGAVEDRKGRKVKVER------- 768 Query: 315 WMAKGIHSSFLSDSGQREENHRRSPS 340 G S R + +R P+ Sbjct: 769 ---TGSGDRDPSRGPARRYHGKREPA 791 >gi|126727512|ref|ZP_01743346.1| RNA pseudouridylate synthase family protein [Rhodobacterales bacterium HTCC2150] gi|126703292|gb|EBA02391.1| RNA pseudouridylate synthase family protein [Rhodobacterales bacterium HTCC2150] Length = 259 Score = 288 bits (737), Expect = 1e-75, Method: Composition-based stats. Identities = 144/240 (60%), Positives = 175/240 (72%), Gaps = 3/240 (1%) Query: 10 NFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 TP+ R++KV++RAGIASRRE ERMI RV VNG ++ A+NV D I+VDG Sbjct: 2 TDTPEKGDRIAKVLSRAGIASRREAERMIEAGRVSVNGKVIPSPALNVTPKDKIKVDGKE 61 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + AE RLWLYHKP+GLVTT D GR TVFDNLP RV+SVGRLDIN+EGLLLLTN Sbjct: 62 VGDAEPARLWLYHKPVGLVTTERDEKGRDTVFDNLPDGLPRVMSVGRLDINSEGLLLLTN 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGL R LELPST WLR YRVR +G V +D L L+KG+VI G + M +++D Q+GSN Sbjct: 122 DGGLKRKLELPSTGWLRKYRVRVNGIVIEDHLTPLRKGLVIDGEKFQPMNISVDRQQGSN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 AW+TVG+REGKNREI++ FE VNRLIR+SYGPFQL L A E+ ++LR+QLG Sbjct: 182 AWLTVGIREGKNREIRRAFETIFLPVNRLIRVSYGPFQLNDLRADEVEEIKGRVLRDQLG 241 >gi|281491795|ref|YP_003353775.1| ribosomal large subunit pseudouridine synthase B [Lactococcus lactis subsp. lactis KF147] gi|281375509|gb|ADA65019.1| Ribosomal large subunit pseudouridine synthase B [Lactococcus lactis subsp. lactis KF147] Length = 257 Score = 288 bits (737), Expect = 1e-75, Method: Composition-based stats. Identities = 82/248 (33%), Positives = 132/248 (53%), Gaps = 4/248 (1%) Query: 1 MKDKNIVQ-ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + KN R++K +A AG+ASRR+ E +I +V VN + + V + D Sbjct: 5 LSQKNKPYLTKVKKMRINKYLAHAGVASRRKAEELILAGKVTVNNVSMTNLGYQVSTGDI 64 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 +EV+GV + E +L +KP G +++ SD GR TV D +P + R+ VGRLD +T Sbjct: 65 VEVNGVAV-YNEEPVYYLLNKPRGYISSVSDDKGRQTVMDLMPQVKERIYPVGRLDWDTS 123 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLTNDG ++ P +VY + GQ +++ L L G+ I+G + + Sbjct: 124 GLLLLTNDGEFTNMMTHPRHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEI 183 Query: 180 DTQK--GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 Q+ +++ V++ + EG+N ++KK+F V +L RI YG L L G R +S Sbjct: 184 IKQEKTKNHSIVSLTIHEGQNHQVKKMFAAAGLPVQKLSRIQYGTLTLDGLPTGQFRRLS 243 Query: 238 KKILREQL 245 KK + + + Sbjct: 244 KKEVSQLI 251 >gi|225174838|ref|ZP_03728835.1| pseudouridine synthase [Dethiobacter alkaliphilus AHT 1] gi|225169478|gb|EEG78275.1| pseudouridine synthase [Dethiobacter alkaliphilus AHT 1] Length = 242 Score = 288 bits (737), Expect = 1e-75, Method: Composition-based stats. Identities = 79/232 (34%), Positives = 122/232 (52%), Gaps = 1/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K ++ AG+ SRR E++I RV VNG + V V D +EVDG ++ + Sbjct: 3 IRLQKFLSMAGVCSRRAGEKLIESGRVTVNGSRVTAMGVTVDPENDVVEVDGRRVKVQQN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G VTT D GR TV + + I +RV VGRLD++T GLLLLTNDG LA Sbjct: 63 NEYILLYKPVGYVTTLKDEFGRPTVKELVADIKTRVYPVGRLDLDTSGLLLLTNDGELAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + Y + H ++ L +L KG+ + +V L + V++ Sbjct: 123 QLTHPSFGVEKEYLAKVHDTPKKEALEILAKGVRLDDGMTAPAKVQLVKSGRLTSVVSLI 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 ++EG+NR+++++ E V L R+ +GP L L G R + + + + Sbjct: 183 IKEGRNRQVRRMLEAVGHPVVSLKRVRFGPLTLSGLQEGRWRRLEPREIEQL 234 >gi|268319598|ref|YP_003293254.1| hypothetical protein FI9785_1123 [Lactobacillus johnsonii FI9785] gi|262397973|emb|CAX66987.1| conserved hypothetical protein [Lactobacillus johnsonii FI9785] Length = 239 Score = 288 bits (737), Expect = 1e-75, Method: Composition-based stats. Identities = 81/230 (35%), Positives = 129/230 (56%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ASRR+ E+MI+ +V VNG + V D IEV+GVP+ K E Sbjct: 3 ERLQKVIAQAGVASRRKAEKMISAGQVTVNGKKVTELGTKVEPRDKIEVNGVPIEK-EAL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G++++ SD GR TV D + R+ VGRLD +T GLLL+TNDG LA Sbjct: 62 HTYLFYKPRGVISSVSDDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMTNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G + +++ L G+ I G ++ + +K V + Sbjct: 122 LMHPRNEVPKVYVAKIKGILSTEEIRSLTHGVRIDGRKSAPAKLKILKTDEKKKTQIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG ++K++FE + V +L R Y L +L +G RE++ + + Sbjct: 182 TIHEGHYHQVKRMFEAVHHFVEKLAREKYAFLTLKSLNSGEYRELTNEEV 231 >gi|218289586|ref|ZP_03493806.1| pseudouridine synthase [Alicyclobacillus acidocaldarius LAA1] gi|218240236|gb|EED07419.1| pseudouridine synthase [Alicyclobacillus acidocaldarius LAA1] Length = 273 Score = 288 bits (737), Expect = 1e-75, Method: Composition-based stats. Identities = 88/231 (38%), Positives = 133/231 (57%), Gaps = 5/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E +I RV V+G ++ + V + I VDGVP+ E+ Sbjct: 2 ERLQKVLAHAGVASRRKCEELILAGRVSVDGEIVTQLGAKVDPSRQRIAVDGVPIEL-EQ 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP+ ++T SDP GR TV LP I RV VGRLD +T GLLL TNDG L + Sbjct: 61 PVVLVLNKPVAYLSTVSDPLGRRTVMQLLPPIRERVYPVGRLDYDTSGLLLFTNDGELTQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN---AWV 189 L PS + +VYRV G VD++ L +G+ ++ +V + Q A V Sbjct: 121 RLLHPSREIEKVYRVSVRGIVDRETRRALMEGVELEDGVTAPAKVEVLRQADREDGVAVV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + EG+NR+++++FE V RL RI++GP LG L G R ++++ Sbjct: 181 HLAIHEGRNRQVRRMFERLGLPVLRLKRIAFGPVSLGHLKTGEWRALTQEE 231 >gi|256851006|ref|ZP_05556395.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 27-2-CHN] gi|260661218|ref|ZP_05862132.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 115-3-CHN] gi|282932041|ref|ZP_06337499.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 208-1] gi|256616068|gb|EEU21256.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 27-2-CHN] gi|260548155|gb|EEX24131.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 115-3-CHN] gi|281303808|gb|EFA95952.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii 208-1] Length = 237 Score = 287 bits (736), Expect = 1e-75, Method: Composition-based stats. Identities = 80/233 (34%), Positives = 133/233 (57%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA+AG+ASRR+ E+MI + RV VNG ++ V + +IEVDG+P++K + Sbjct: 3 ERLQKLIAQAGVASRRKAEKMITEGRVAVNGRIVTELGTKVEPSANIEVDGLPIQKESKH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ D GR TV D R+ VGRLD +T GLLL+TNDG LA Sbjct: 63 TYLLY-KPRGVISSVKDDKGRKTVLDFFEESPYRLYPVGRLDYDTSGLLLITNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P +VY + G + ++++ LK G+ I G +V + + ++ + V + Sbjct: 122 LMHPRHMVDKVYVAKIKGFLTPEEIHSLKHGVRIDGKKSAPAKVKIISTNREKGTSIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG ++K++F+ V++L R Y L +L AG RE++++ + + Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVDKLSRERYAFLTLKSLTAGKYRELTREEVAKL 234 >gi|297205889|ref|ZP_06923284.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii JV-V16] gi|297149015|gb|EFH29313.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii JV-V16] Length = 237 Score = 287 bits (736), Expect = 2e-75, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 132/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA+AGIASRR+ E+MI + RV VNG ++ V + +IEVDG+P++K + Sbjct: 3 ERLQKLIAQAGIASRRKAEKMITEGRVAVNGRIVTELGTKVEPSANIEVDGLPIQKESKH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY KP G++++ D GR TV D R+ VGRLD +T GLLL+TNDG LA Sbjct: 63 TYLLY-KPRGVISSVKDDKGRKTVLDFFEESPYRLYPVGRLDYDTSGLLLITNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P +VY + G + +++ LK G+ I G +V + + ++ + V + Sbjct: 122 LMHPRHMVDKVYVAKIKGFLTPEEIYSLKHGVRIDGKKSAPAKVKIISTNREKGTSIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG ++K++F+ V++L R Y L +L AG RE++++ + + Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVDKLSRERYAFLTLKSLTAGKYRELTREEVAKL 234 >gi|116512118|ref|YP_809334.1| ribosomal large subunit pseudouridine synthase B [Lactococcus lactis subsp. cremoris SK11] gi|116107772|gb|ABJ72912.1| ribosomal large subunit pseudouridine synthase B [Lactococcus lactis subsp. cremoris SK11] Length = 239 Score = 287 bits (736), Expect = 2e-75, Method: Composition-based stats. Identities = 80/234 (34%), Positives = 129/234 (55%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +A AG+ASRR+ E +I +V VN + + V + D +EV+GV + E Sbjct: 1 MRINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDVVEVNGVAV-YNEEP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G +++ D GR TV D +P + R+ VGRLD +T GLLLLTNDG + Sbjct: 60 VYYLLNKPRGYISSVRDDKGRQTVMDLMPQVKERIYPVGRLDWDTSGLLLLTNDGEFTNM 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + PS +VY + GQ +++ L L G+ I+G + + Q+ +++ V++ Sbjct: 120 MTHPSHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIKQEKTKNHSIVSL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+N ++KK+F V +L RI YG L L G R +SKK + + + Sbjct: 180 TIHEGQNHQVKKMFAAAGLPVQKLSRIQYGTLTLDGLPTGQFRRLSKKEVSQLI 233 >gi|332185277|ref|ZP_08387026.1| hypothetical protein SUS17_350 [Sphingomonas sp. S17] gi|332015001|gb|EGI57057.1| hypothetical protein SUS17_350 [Sphingomonas sp. S17] Length = 420 Score = 287 bits (735), Expect = 2e-75, Method: Composition-based stats. Identities = 134/354 (37%), Positives = 192/354 (54%), Gaps = 11/354 (3%) Query: 11 FTPQ-RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T + R++K++ARAG+ASRREVERMIA+ R+ +NG ++ A + S D + VDG P+ Sbjct: 1 MTSEHRIAKLLARAGVASRREVERMIAEGRIALNGTTIDTPATLLSSLDGVTVDGNPVDA 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E TRL+LY+KP GL+ T DP GR T++D LP R++ VGRLD+NTEGLLLLT DGG Sbjct: 61 PEPTRLFLYNKPNGLLVTERDPKGRPTIYDRLPEGLPRLMPVGRLDLNTEGLLLLTTDGG 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 R LELP+T R YR R +G + Q +L L GI I GI YG + L+ + G+N W+ Sbjct: 121 FKRQLELPATGVERTYRARAYGDITQAQLEELIHGIEIDGIRYGQIDANLERRTGANVWI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL----REQL 245 + LREGKNRE+++V E+ +V+RLIR+ YGPF LG L G EV + + L Sbjct: 181 ELTLREGKNREVRRVLEYLGLQVSRLIRLRYGPFVLGDLPVGEIGEVKGAAIVEFRKTLL 240 Query: 246 GPHLLE----EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 G + + P ++T DRP P D ++ +++ Sbjct: 241 GGIPADAVRPSPRAGFRTPPTRAKTDRPDRPAAQDRRPSDGRDRPQSDAKRRAAGPGGDR 300 Query: 302 ATPVHRRN-LASNVWMAKGIHSSFLSDSGQREENH-RRSPSFPSKRSLRRTSAK 353 P R +++ + F G+R +R+P + T AK Sbjct: 301 QRPAAPRTARSTDRGERPSADAQFRPSGGERSRPTGKRAPRSGDRSERPATEAK 354 >gi|257867652|ref|ZP_05647305.1| pseudouridine synthase [Enterococcus casseliflavus EC30] gi|257873981|ref|ZP_05653634.1| pseudouridine synthase [Enterococcus casseliflavus EC10] gi|257801735|gb|EEV30638.1| pseudouridine synthase [Enterococcus casseliflavus EC30] gi|257808145|gb|EEV36967.1| pseudouridine synthase [Enterococcus casseliflavus EC10] Length = 240 Score = 287 bits (735), Expect = 2e-75, Method: Composition-based stats. Identities = 87/236 (36%), Positives = 135/236 (57%), Gaps = 3/236 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ KVIA AGI SRR+ E +I + RV+VNG +++ V V S D +EVDGVP+ + Sbjct: 1 MKMERLQKVIAHAGITSRRKAEGLITEGRVRVNGQVIKELGVQVSSKDVVEVDGVPIEQ- 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E+ +L++KP G+++ +D R V D + RV VGRLD +T GLLLLTNDG L Sbjct: 60 EQHVYYLFYKPRGVISAVTDDKKRKVVLDYFAEVPERVYPVGRLDYDTSGLLLLTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 ++ L P + +VY + G D+ +L L KGI I+G + + + Q ++ Sbjct: 120 SQTLMHPKHEVDKVYVAKVKGIADKKQLLPLTKGIRIEGRKTAPARFEILSTDQTAQSSI 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V + + EG+N ++K + + V +L R +YGP L L G RE++KK + + Sbjct: 180 VQLTIHEGRNHQVKNMLKAVGLPVQKLKRENYGPLDLKGLRPGEYRELTKKEVSQL 235 >gi|269215383|ref|ZP_06159237.1| ribosomal large subunit pseudouridine synthase B [Slackia exigua ATCC 700122] gi|269130870|gb|EEZ61945.1| ribosomal large subunit pseudouridine synthase B [Slackia exigua ATCC 700122] Length = 256 Score = 287 bits (735), Expect = 2e-75, Method: Composition-based stats. Identities = 71/245 (28%), Positives = 118/245 (48%), Gaps = 2/245 (0%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHI 60 +D P RV K +ARAG+ASRR E ++ RV VNG ++ V D + Sbjct: 6 RDDASNAPRIVPMRVQKFLARAGVASRRGSENLMTTGRVSVNGRVVTELGSRVDPRCDVV 65 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTE 119 VDG + ++ + + +KP G +TT SDP GR+ V + +P + + +GRLD +T Sbjct: 66 RVDGHVVHLSDGSTTLMLNKPAGYITTMSDPFGRACVAELVPIDAYPGLFPIGRLDADTT 125 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LL + DG L L P + Y+ G V +++L L+ G+ ++ + L Sbjct: 126 GILLFSTDGELGNGLLHPRKHVDKTYQALVEGSVSEEELERLRSGVELEDGMTAPAEARL 185 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + + + EG+ R+++++ V L R +GP LG L GS R +S Sbjct: 186 TCVSEDESRLDITIHEGRKRQVRRMCATVGHPVVTLHRSRFGPLVLGDLPEGSWRMLSGS 245 Query: 240 ILREQ 244 + Sbjct: 246 EVAAL 250 >gi|257876560|ref|ZP_05656213.1| pseudouridine synthase [Enterococcus casseliflavus EC20] gi|257810726|gb|EEV39546.1| pseudouridine synthase [Enterococcus casseliflavus EC20] Length = 240 Score = 287 bits (734), Expect = 2e-75, Method: Composition-based stats. Identities = 86/236 (36%), Positives = 134/236 (56%), Gaps = 3/236 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ KVIA AGI SRR+ E +I + RV+VNG +++ V V S D +EVDGVP+ + Sbjct: 1 MKMERLQKVIAHAGITSRRKAEGLITEGRVRVNGQVIKELGVQVSSKDVVEVDGVPIEQ- 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E+ +L++KP G+++ +D R V D + RV VGRLD +T GLLLLTNDG L Sbjct: 60 EQHVYYLFYKPRGVISAVTDDKKRKVVLDYFAEVPERVYPVGRLDYDTSGLLLLTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AW 188 ++ L P + +VY + G D+ +L L KGI I+G + + + + + Sbjct: 120 SQTLMHPKHEVDKVYVAKVKGIADKKQLLPLTKGIRIEGRKTAPARFEILSTDQTTQSSI 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V + + EG+N ++K + + V +L R +YGP L L G RE++KK + + Sbjct: 180 VQLTIHEGRNHQVKNMLKAVGLPVQKLKRENYGPLDLKGLRPGEYRELTKKEVSQL 235 >gi|209886355|ref|YP_002290212.1| pseudouridine synthase, Rsu [Oligotropha carboxidovorans OM5] gi|209874551|gb|ACI94347.1| pseudouridine synthase, Rsu [Oligotropha carboxidovorans OM5] Length = 693 Score = 287 bits (734), Expect = 2e-75, Method: Composition-based stats. Identities = 145/329 (44%), Positives = 199/329 (60%), Gaps = 4/329 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + + +R++KV+ARAG+ SRR+ E I Q RV VNG ++ A++V + D I VDG PL + Sbjct: 362 DKSGERIAKVVARAGLCSRRDAEDWIMQGRVAVNGRVIGSPALDVTARDVITVDGQPLPE 421 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ERTRL+LYHKP GL+TTH DP+GR TVFD+LP R+IS+GRLD NTEGLLLLTNDGG Sbjct: 422 RERTRLFLYHKPRGLMTTHDDPEGRPTVFDHLPDGLPRLISIGRLDFNTEGLLLLTNDGG 481 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L+R LE P T WLR YRVR HG V Q +L+ LK G+ + G+ YG + TL+ +G+N W+ Sbjct: 482 LSRALEHPDTGWLRRYRVRAHGDVTQARLDELKNGVEVDGVKYGSIDATLERDQGANVWL 541 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 T +REGKNRE++ V +VNRLIR+SYGPFQLG + G E+ ++LREQLG + Sbjct: 542 TFAIREGKNREVRNVMAHLGLEVNRLIRVSYGPFQLGEIPEGQVEEIKSRVLREQLGDKI 601 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK-KNSSQKNGLSKQKKLATPVHRR 308 + A D P+ + + + K K S+ ++ ++ + Sbjct: 602 IALAGAQFDKPVQEGDDAEAKLGRDGTPLRSKAANKKIKRSAIEDRKGRRVVVQRSGSDE 661 Query: 309 NLASNVWMAKGIHSSFLSDSGQREENHRR 337 A N A G QR + +R Sbjct: 662 ARARNEAEAGGYGP---PRRPQRRYHGKR 687 >gi|329115789|ref|ZP_08244506.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus parauberis NCFD 2020] gi|326906194|gb|EGE53108.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus parauberis NCFD 2020] Length = 241 Score = 287 bits (734), Expect = 2e-75, Method: Composition-based stats. Identities = 83/233 (35%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V +NG ++ A V S D +E++G P+ E Sbjct: 1 MRINKFIAHAGVASRRKAEELIKQGLVTINGQVVTELATTVKSGDQVEIEGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLLLLTNDG + Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVIDLLPQVKERIYPVGRLDWDTSGLLLLTNDGDFTDM 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G +D L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKDNLRPLTRGVVIDGKKTKPARYNIIRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFESVGLIVDKLSRTQFGTLDLTGLRPGEARRLNKKEISQL 232 >gi|221319479|ref|ZP_03600773.1| RluB [Bacillus subtilis subsp. subtilis str. JH642] gi|221323755|ref|ZP_03605049.1| RluB [Bacillus subtilis subsp. subtilis str. SMY] gi|255767501|ref|NP_390197.2| pseudouridine synthase [Bacillus subtilis subsp. subtilis str. 168] gi|321311788|ref|YP_004204075.1| pseudouridine synthase [Bacillus subtilis BSn5] gi|251757325|sp|P35159|RLUB_BACSU RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|225185129|emb|CAB14248.2| pseudouridine synthase [Bacillus subtilis subsp. subtilis str. 168] gi|291484745|dbj|BAI85820.1| pseudouridine synthase [Bacillus subtilis subsp. natto BEST195] gi|320018062|gb|ADV93048.1| pseudouridine synthase [Bacillus subtilis BSn5] Length = 244 Score = 287 bits (734), Expect = 3e-75, Method: Composition-based stats. Identities = 77/233 (33%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I + +VKVNG ++ V V +D IEV+G+ + + E Sbjct: 2 ERLQKVIAHAGVASRRKAEELIKEGKVKVNGKVVTELGVKVTGSDQIEVNGLKVEREE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D GR V D +I R+ +GRLD +T GLLLLTNDG A Sbjct: 61 VYFLLYKPRGVISAAQDDKGRKVVTDFFKNIPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G ++ L L++GI ++ + L + +K + + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPPKELLRKLERGIRLEEGKTAPAKAKLLSLDKKKQTSIIQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE +V +L R Y L L G RE++ ++ Sbjct: 181 TIHEGRNRQVRRMFEAIGHEVIKLKREEYAFLNLRGLHTGDARELTPHEVKRL 233 >gi|83590199|ref|YP_430208.1| ribosomal large subunit pseudouridine synthase B [Moorella thermoacetica ATCC 39073] gi|83573113|gb|ABC19665.1| ribosomal large subunit pseudouridine synthase B [Moorella thermoacetica ATCC 39073] Length = 240 Score = 287 bits (734), Expect = 3e-75, Method: Composition-based stats. Identities = 84/232 (36%), Positives = 117/232 (50%), Gaps = 1/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A AG+ASRR E +I RV+VNG +++ V V D + VDG P+ ER Sbjct: 1 MRLQKYLALAGVASRRRAEDLIRAGRVRVNGRVIKVMGVQVEPGQDKVTVDGQPVTGPER 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L KP G VTT SDP GR V D + I +R+ VGRLD TEGLLLLTNDG L Sbjct: 61 KYYLLLFKPAGYVTTVSDPRGRPKVTDLVHGIPARLYPVGRLDYATEGLLLLTNDGELTL 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y G D + + L+ G+ ++ +V L +A + + Sbjct: 121 RLTHPRYGVTKTYLALVRGIPDANTIQHLRCGVKLEDGPTAPARVNLCRAGKDSALLELT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 LREG+NRE++++ V RL RI L L G+ R ++ + Sbjct: 181 LREGRNREVRRMLAAVGHPVLRLRRIRLAFLTLRGLKPGTYRHLTPHEVERL 232 >gi|146319353|ref|YP_001199065.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis 05ZYH33] gi|146321558|ref|YP_001201269.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis 98HAH33] gi|253752382|ref|YP_003025523.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis SC84] gi|253754208|ref|YP_003027349.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis P1/7] gi|253756142|ref|YP_003029282.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis BM407] gi|145690159|gb|ABP90665.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Streptococcus suis 05ZYH33] gi|145692364|gb|ABP92869.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Streptococcus suis 98HAH33] gi|251816671|emb|CAZ52312.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis SC84] gi|251818606|emb|CAZ56440.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis BM407] gi|251820454|emb|CAR47153.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis P1/7] gi|319758787|gb|ADV70729.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis JS14] Length = 243 Score = 286 bits (733), Expect = 3e-75, Method: Composition-based stats. Identities = 80/233 (34%), Positives = 129/233 (55%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ + S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELGTVIKSGDKVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP++ R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVVDLLPTVKERIYPVGRLDWDTSGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G +++ L L +G+VI G + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGVANKEVLRPLTRGVVIDGKKTKPAVYEIIKVDPVKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE +V++L R +G L L G R+++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGNLDLTGLRPGEYRKLNKKDISKL 232 >gi|95931320|ref|ZP_01314035.1| Pseudouridine synthase, Rsu [Desulfuromonas acetoxidans DSM 684] gi|95132621|gb|EAT14305.1| Pseudouridine synthase, Rsu [Desulfuromonas acetoxidans DSM 684] Length = 242 Score = 286 bits (733), Expect = 3e-75, Method: Composition-based stats. Identities = 88/231 (38%), Positives = 134/231 (58%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA+AG+ASRR+ E+ + RV+VNG + S D IEVDG L +AE+ Sbjct: 5 ERLQKLIAQAGLASRRQAEQWLKDGRVRVNGRSVTLGDKADPSVDRIEVDGKALPRAEQK 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP+G VTT DP GR T+ L I RV VGRLD+N+EGLLLLTNDG L + Sbjct: 65 LYLLLNKPLGYVTTLKDPQGRPTIRRFLKGIPQRVYPVGRLDVNSEGLLLLTNDGALTQH 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P Q + YRV+ +G++ L++G+ ++ V N+W + + Sbjct: 125 LLHPRHQVSKTYRVKVNGRISPQACRQLEQGVELEDGVTAPAVVRNVHHSPRNSWFDLEI 184 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 REG+NR+++++ ++V+ L RI G +LGTL G R ++ K +++ Sbjct: 185 REGRNRQVRRMCRGVGFEVSALKRIRIGSLELGTLAKGQCRSLTSKEIQDL 235 >gi|303229867|ref|ZP_07316643.1| pseudouridine synthase B, ribosomal large subunit [Veillonella atypica ACS-134-V-Col7a] gi|303232045|ref|ZP_07318748.1| pseudouridine synthase B, ribosomal large subunit [Veillonella atypica ACS-049-V-Sch6] gi|302513151|gb|EFL55190.1| pseudouridine synthase B, ribosomal large subunit [Veillonella atypica ACS-049-V-Sch6] gi|302515423|gb|EFL57389.1| pseudouridine synthase B, ribosomal large subunit [Veillonella atypica ACS-134-V-Col7a] Length = 241 Score = 286 bits (733), Expect = 3e-75, Method: Composition-based stats. Identities = 81/234 (34%), Positives = 133/234 (56%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K IA G+ASRR+ E +IA +V+VNG + V V D + VDG L E+ Sbjct: 2 ERLQKFIASCGVASRRKAEELIASGKVRVNGRKVTELGVKVDPMKDKVMVDGQLL-AVEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++T+ +DP GR TV D + + R+ +GRLD++TEGLLLLTNDG LA+ Sbjct: 61 PVYYLMNKPKGVITSVTDPQGRETVMDYIKNEKRRIYPIGRLDLHTEGLLLLTNDGELAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L PS + Y VR G+V+ L ++ G+ ++ + N V Sbjct: 121 NLTHPSKGVEKTYEVRIKGRVNDTDLQVIADGVPLEDGVTAPATLVDLGFDDHNGVHEVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+++++FE F ++++ L RI+YG L + G R+++++ + Sbjct: 181 ITIHEGRNRQVRRMFEHFGYRIHNLKRIAYGGLTLSGVKRGGVRQLTQREVSAL 234 >gi|291544370|emb|CBL17479.1| ribosomal large subunit pseudouridine synthase B [Ruminococcus sp. 18P13] Length = 242 Score = 286 bits (733), Expect = 3e-75, Method: Composition-based stats. Identities = 86/236 (36%), Positives = 125/236 (52%), Gaps = 3/236 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ K+IA +G SRR+ E IA +VK NG ++ S D I V+G + Sbjct: 1 MEKTRIQKIIADSGYCSRRKAESFIAAGQVKCNGRPVK-LGDKAGSRDLITVNGERIAIP 59 Query: 71 ERTR--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ + + +KP G VTT SD R V D L + RV VGRLD N+EGLLLLTNDG Sbjct: 60 KKKQKLYLMLNKPRGYVTTMSDELDRRCVMDLLEDVPERVYPVGRLDRNSEGLLLLTNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 A + PS + YRV + +L L +G+ I G V + T++ Sbjct: 120 DFANSIMHPSRHVSKTYRVTVRPDITDQQLVQLSEGVEIDGKPTLPATVNVLTKEPGRVV 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + +REG+NR+I+++ E +V RL RIS GP +LG L G+ RE++ + LR Sbjct: 180 LLITIREGRNRQIRRMCEAVGLEVARLRRISIGPLKLGMLKPGTYRELTAEELRAL 235 >gi|223934211|ref|ZP_03626147.1| pseudouridine synthase [Streptococcus suis 89/1591] gi|302024332|ref|ZP_07249543.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis 05HAS68] gi|330833322|ref|YP_004402147.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis ST3] gi|223897127|gb|EEF63552.1| pseudouridine synthase [Streptococcus suis 89/1591] gi|329307545|gb|AEB81961.1| ribosomal large subunit pseudouridine synthase B [Streptococcus suis ST3] Length = 243 Score = 286 bits (733), Expect = 3e-75, Method: Composition-based stats. Identities = 80/233 (34%), Positives = 129/233 (55%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ + S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELGTVIKSGDKVEVEGKPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP++ R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVVDLLPTVKERIYPVGRLDWDTSGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G +++ L L +G+VI G + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGVANKEVLRPLTRGVVIDGKKTKPAVYEIIKVDPVKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE +V++L R +G L L G R+++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGNLDLTGLRPGEYRKLNKKDISKL 232 >gi|325571145|ref|ZP_08146717.1| ribosomal large subunit pseudouridine synthase B [Enterococcus casseliflavus ATCC 12755] gi|325156230|gb|EGC68416.1| ribosomal large subunit pseudouridine synthase B [Enterococcus casseliflavus ATCC 12755] Length = 240 Score = 286 bits (733), Expect = 3e-75, Method: Composition-based stats. Identities = 88/236 (37%), Positives = 134/236 (56%), Gaps = 3/236 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ KVIA AGI SRR+ E +I + RV+VNG +++ V V S D +EVDGVP+ + Sbjct: 1 MKMERLQKVIAHAGITSRRKAEGLITEGRVRVNGQVIKELGVQVGSKDVVEVDGVPIEQ- 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +L++KP G+++ +D R V D + RV VGRLD +T GLLLLTNDG L Sbjct: 60 EPHVYYLFYKPRGVISAVTDDKKRKVVLDYFAEVPERVYPVGRLDYDTSGLLLLTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 ++ L P + +VY + G D+ +L L KGI I+G + + + Q ++ Sbjct: 120 SQTLMHPKHEVEKVYVAKVKGIADKKQLLPLTKGIRIEGRKTAPARFEILSTDQTAQSSI 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V + + EG+N ++K + + V +L R +YGP L L G RE+SKK + + Sbjct: 180 VQLTIHEGRNHQVKNMLKAVGLPVQKLKRENYGPLDLKGLRPGEYRELSKKEVSQL 235 >gi|299134222|ref|ZP_07027415.1| RNA-binding S4 domain protein [Afipia sp. 1NLS2] gi|298590969|gb|EFI51171.1| RNA-binding S4 domain protein [Afipia sp. 1NLS2] Length = 695 Score = 286 bits (732), Expect = 4e-75, Method: Composition-based stats. Identities = 145/323 (44%), Positives = 194/323 (60%), Gaps = 1/323 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 +++ T +R++K +ARAG+ SRR+ E I Q RV VNG ++ A++V D I +DG PL Sbjct: 364 KKDKTGERIAKAVARAGLCSRRDAEEWITQGRVAVNGRVINSPALDVTVRDVITIDGKPL 423 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + ERTRL+LYHKP GL+TTH DP+GR TVFD+LP R+IS+GRLD NTEGLLLLTND Sbjct: 424 PERERTRLFLYHKPRGLMTTHDDPEGRPTVFDHLPEGLPRLISIGRLDFNTEGLLLLTND 483 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGL+R LE P T WLR YRVR HG+V Q +L+ LK G+ + GI YG + TL+ +G+N Sbjct: 484 GGLSRALEHPDTGWLRRYRVRAHGEVTQAQLDELKNGVEVDGIKYGSIDATLERDQGANV 543 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 WVT +REGKNRE++ V +VNRLIR+SYGPFQLG + G E+ ++LREQLG Sbjct: 544 WVTFAIREGKNREVRNVMAHLGLEVNRLIRVSYGPFQLGEIPEGQVEEIKSRVLREQLGE 603 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + + D P+ E R D ++ K S ++ + + Sbjct: 604 KIATMSGAQFDKPVREDEGPKVGRDGTPLRSKADNKKI-KRSKIEDRKGRTVVVQRSGSD 662 Query: 308 RNLASNVWMAKGIHSSFLSDSGQ 330 A N A G G Sbjct: 663 EKRARNEAEANGYGPPRKPKRGY 685 >gi|319946464|ref|ZP_08020701.1| ribosomal large subunit pseudouridine synthase B [Streptococcus australis ATCC 700641] gi|319747432|gb|EFV99688.1| ribosomal large subunit pseudouridine synthase B [Streptococcus australis ATCC 700641] Length = 242 Score = 286 bits (732), Expect = 4e-75, Method: Composition-based stats. Identities = 79/233 (33%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGKVVRELATTIKSGDKVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRPTVIDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTV 191 + P + +VY R G +++ L L +G+ I G ++ + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKENLRPLTRGVTIDGKKTKPATYEILKVDPEKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G + L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLLVDKLSRTQFGNLDVSGLRPGEYRRLNKKEISQL 232 >gi|167462334|ref|ZP_02327423.1| pseudouridylate synthase [Paenibacillus larvae subsp. larvae BRL-230010] gi|322381784|ref|ZP_08055738.1| pseudouridine synthase-like protein [Paenibacillus larvae subsp. larvae B-3650] gi|321154172|gb|EFX46494.1| pseudouridine synthase-like protein [Paenibacillus larvae subsp. larvae B-3650] Length = 249 Score = 286 bits (732), Expect = 4e-75, Method: Composition-based stats. Identities = 81/235 (34%), Positives = 128/235 (54%), Gaps = 4/235 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E +I RV+VN ++ V V D I+VDG ++ E+ Sbjct: 3 ERLQKVLAAAGVASRRKCEEIILAGRVEVNDKVVSTLGVKVNPHQDVIKVDGRAIQNQEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L++KP G++T+ SDP+GR V D L I RV VGRLD +TEGLL+LTNDG A Sbjct: 63 I-YILFNKPKGVITSVSDPEGRRVVGDFLKGIKERVYPVGRLDYDTEGLLILTNDGEFAN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 ++ P + Y G L L++G+ ++ +V + ++ Sbjct: 122 MVTHPRHHVSKTYHATVKGVPHGSVLEKLREGVKLEDGMTAPAEVEYHDIDPDKKQSVIS 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + + EGKNR+++++FE + V RL R+ +G L L G R + K+ ++ L Sbjct: 182 ITIYEGKNRQVRRMFEAVGYPVTRLKRVKFGSIPLVGLPRGKFRRMRKEEVQALL 236 >gi|153939039|ref|YP_001391068.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum F str. Langeland] gi|152934935|gb|ABS40433.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum F str. Langeland] gi|295319117|gb|ADF99494.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum F str. 230613] Length = 236 Score = 286 bits (732), Expect = 4e-75, Method: Composition-based stats. Identities = 73/229 (31%), Positives = 122/229 (53%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I + RV+VNGI ++ ++S D I+VDG + E Sbjct: 3 ERLQKYMASCGVASRRKCEDIILEGRVEVNGIKIKELGTKIISGKDIIKVDGNIIEPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G V T D GR T+ D + I R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKGRKTILDLV-KIKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++ Y+ + G + +D + L KKGI I + + + + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGDYITAPATLEILKINKDTSEIIIK 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGKNR+++++ + V L RIS G L G R ++KK + Sbjct: 182 IHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKSDLKLGEWRYLTKKEI 230 >gi|294084708|ref|YP_003551466.1| pseudouridine synthase [Candidatus Puniceispirillum marinum IMCC1322] gi|292664281|gb|ADE39382.1| Pseudouridine synthase, Rsu [Candidatus Puniceispirillum marinum IMCC1322] Length = 312 Score = 285 bits (731), Expect = 5e-75, Method: Composition-based stats. Identities = 129/309 (41%), Positives = 178/309 (57%), Gaps = 2/309 (0%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + + + +R++K IARAG+ SRRE E I + RVKVNG ++ +NV TD I Sbjct: 4 NETFTLDKKSDSERIAKRIARAGVCSRREAEARINEGRVKVNGKVITSPVLNVSDTDRIN 63 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VDG L E +LW Y+KP GLV + D R T+FD+LP+ RV++VGRLDI++EGL Sbjct: 64 VDGQALPHREPAKLWRYYKPRGLVVSDRDEKDRETIFDHLPASLPRVMTVGRLDIDSEGL 123 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDG LAR LELP+T W R YRVR G V++ L L+KGI I G+ YG + LD Sbjct: 124 LLLTNDGDLARHLELPATGWSRKYRVRVQGHVNEAALAPLEKGITIDGVRYGRIVANLDR 183 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 Q SNAW+TV +REGKNRE++++ E KV+RLIR+SYGPFQLG + G ++ ++L Sbjct: 184 QMQSNAWLTVAIREGKNREVRRIMEHLGHKVSRLIRVSYGPFQLGDMSDGDVEQIRARVL 243 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDR--PNIISEVPDDFTRMKKNSSQKNGLSKQK 299 +QLG E+ P ++ ++ + K+ N + Sbjct: 244 SDQLGLTDPEDDGHATAKPRLRAKPSMKRSGGGRYKGKTSSSQQDDKRGKDAHNRGPSSR 303 Query: 300 KLATPVHRR 308 RR Sbjct: 304 HKTGQSGRR 312 >gi|148981998|ref|ZP_01816586.1| pseudouridine synthase family 1 protein [Vibrionales bacterium SWAT-3] gi|145960686|gb|EDK26030.1| pseudouridine synthase family 1 protein [Vibrionales bacterium SWAT-3] Length = 381 Score = 285 bits (731), Expect = 5e-75, Method: Composition-based stats. Identities = 80/358 (22%), Positives = 153/358 (42%), Gaps = 23/358 (6%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + +R++K I+ G SRRE +++I RV +NG + VM D +E+D P Sbjct: 1 MSQESQAKRLNKYISETGFCSRREADKLIDAGRVTINGKIP-EMGTKVMPGDDVEIDNKP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R E+ +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTN Sbjct: 60 VRSKEKPIYIALNKPTGITCT-TERDIPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTN 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + + Y VR + + L + G+ I +V +K + Sbjct: 118 DGDIVNKILRAGNNHEKEYVVRVDKPITGEFLQKMAAGVPILDTVTLPCKV----EKETK 173 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ E ++V +L R+ L + G R +S++ + E L Sbjct: 174 FSFRITLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSEEEIAEILA 233 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT--- 303 + E + DA ++ R R +++ D + +++++N + + Sbjct: 234 --MCEGSVSTEDASKINA-KGQRIRKATDAKLFDSREENQASTARRNPKENRTRTYRGNN 290 Query: 304 -------PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 P +R S+ KG ++ + N R S +S R A + Sbjct: 291 ADEFRHAPNSKRGRNSSNGENKG---QSKGNTENWKSNSRSERSNSDNKSSDRNRAGR 345 >gi|330719107|ref|ZP_08313707.1| 16S rRNA uridine-516 pseudouridylate synthase [Leuconostoc fallax KCTC 3537] Length = 252 Score = 285 bits (731), Expect = 5e-75, Method: Composition-based stats. Identities = 86/240 (35%), Positives = 132/240 (55%), Gaps = 2/240 (0%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + E +R+ KVIA+AG+ASRR E +I + RV VNG ++ V +D + VDGVP Sbjct: 1 MSEIQNEERLQKVIAQAGLASRRGAEALIVEGRVSVNGQQVKELGTKVRRSDTVAVDGVP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + ER +L +KP G+VTT D GR+TV D L + RV VGRLD +T G LLLTN Sbjct: 61 IEGRERLVYYLLNKPRGVVTTTQDEKGRATVLDILDDVSQRVYPVGRLDYDTTGALLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKG 184 DG +A L P ++ +VY + G ++ L LKKG++I+G +V++++ + Sbjct: 121 DGTIANELMHPKSKVDKVYIAKVKGMATENDLLPLKKGVMIEGHKTQPARVSVESVDKTK 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + V + + EGKN ++K + + V +L R Y L L G R+++ + Sbjct: 181 KTSMVKLIIHEGKNHQVKNMLAKVGFPVEKLKREQYAFLDLVGLQPGEYRKLTNAEVSRL 240 >gi|258515325|ref|YP_003191547.1| pseudouridine synthase [Desulfotomaculum acetoxidans DSM 771] gi|257779030|gb|ACV62924.1| pseudouridine synthase [Desulfotomaculum acetoxidans DSM 771] Length = 264 Score = 285 bits (731), Expect = 5e-75, Method: Composition-based stats. Identities = 89/236 (37%), Positives = 126/236 (53%), Gaps = 1/236 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 N +R+ KV+ARAGIASRR+ E +IA+ VKVNG L++ + V D I V G + Sbjct: 8 NVQKERLQKVMARAGIASRRKCEELIAEGVVKVNGRLVKEQGIKVDPQKDRIMVQGKIIN 67 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + E L +KP G VTT DP+GR T+ D L +I RV VGRLD ++EGLLL+TNDG Sbjct: 68 RLEDKIYLLMYKPRGYVTTLHDPEGRKTIVDLLKNIKERVFPVGRLDYDSEGLLLVTNDG 127 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + + Y V G L + KG+ ++ QV L + Sbjct: 128 ELANALTHPRHEVKKTYLVTVAGIPLPKSLEQMSKGLELEDGMTAPTQVALVELLEDRSL 187 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + + EGKNR ++++ E V RL RI G + + G R ++ K +RE Sbjct: 188 LEITVHEGKNRLVRRMCEKIGHPVLRLKRIKLGTLSIKGVKPGQYRLLNTKEIREL 243 >gi|296332250|ref|ZP_06874712.1| pseudouridine synthase [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305674952|ref|YP_003866624.1| pseudouridine synthase [Bacillus subtilis subsp. spizizenii str. W23] gi|296150564|gb|EFG91451.1| pseudouridine synthase [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305413196|gb|ADM38315.1| pseudouridine synthase [Bacillus subtilis subsp. spizizenii str. W23] Length = 244 Score = 285 bits (731), Expect = 5e-75, Method: Composition-based stats. Identities = 76/233 (32%), Positives = 127/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I + +VKVNG ++ V V +D IEV+G+ + + E Sbjct: 2 ERLQKVIAHAGVASRRKAEELIKEGKVKVNGKVVTELGVKVTGSDQIEVNGLKVEREE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D GR V D + R+ +GRLD +T GLLLLTNDG A Sbjct: 61 VYFLLYKPRGVISAAQDDKGRKVVTDFFKEVPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G ++ L L++GI ++ + L + +K + + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPPKELLRKLERGIRLEEGKTAPAKAKLLSLDKKKQTSIIQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE +V +L R Y L L G RE++ ++ Sbjct: 181 TIHEGRNRQVRRMFEAIGHEVIKLKREEYAFLNLRGLHTGDARELTPHEVKRL 233 >gi|322385923|ref|ZP_08059564.1| ribosomal large subunit pseudouridine synthase B [Streptococcus cristatus ATCC 51100] gi|321270038|gb|EFX52957.1| ribosomal large subunit pseudouridine synthase B [Streptococcus cristatus ATCC 51100] Length = 273 Score = 285 bits (731), Expect = 5e-75, Method: Composition-based stats. Identities = 83/238 (34%), Positives = 128/238 (53%), Gaps = 3/238 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E R++K IA AGIASRR+ E +I Q V VNG ++ A + S D +EV+G P+ Sbjct: 26 ERTISMRINKYIAHAGIASRRKAEELIKQGLVTVNGQVVRELATTIKSGDRVEVEGQPI- 84 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E +L +KP G++++ +D GR TV D LP + R+ VGRLD +T G L+LTNDG Sbjct: 85 YNEEKVYYLLNKPRGVISSVTDDKGRKTVVDLLPQVKERIYPVGRLDWDTSGALILTNDG 144 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SN 186 + P + +VY R G +++ L L +G+VI+G + + Sbjct: 145 DFTDEMIHPRNEIDKVYVARVKGVANKEVLRPLTRGLVIEGKKTKPAVYEILKVDPVKNR 204 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + V + + EG+N ++KK+FE V++L R +G L L G R +SKK + + Sbjct: 205 SVVQLTIHEGRNHQVKKMFEAVGLPVDKLSRTQFGHLDLTGLKPGEARRLSKKEVSQL 262 >gi|170761840|ref|YP_001787134.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A3 str. Loch Maree] gi|169408829|gb|ACA57240.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A3 str. Loch Maree] Length = 236 Score = 285 bits (731), Expect = 5e-75, Method: Composition-based stats. Identities = 72/229 (31%), Positives = 122/229 (53%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I + RV+VNGI ++ ++S D I+VDG + E Sbjct: 3 ERLQKYMASCGVASRRKCEDIILEGRVEVNGIKIKELGTKIISGKDIIKVDGNIIEPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G V T D GR T+ D + + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKGRKTILDLV-KVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++ Y+ + G + +D + L KKGI I + + + + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGDYITAPATLEILKINKDTSEIIIK 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGKNR+++++ + V L RIS G L G R ++KK + Sbjct: 182 IHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKSDLKLGEWRYLTKKEI 230 >gi|312864688|ref|ZP_07724919.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus downei F0415] gi|311099815|gb|EFQ58028.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus downei F0415] Length = 241 Score = 285 bits (731), Expect = 6e-75, Method: Composition-based stats. Identities = 80/233 (34%), Positives = 127/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V +NG ++ A V + D +EV G P+ E Sbjct: 1 MRINKYIAHAGLASRRKAEELIKQGLVTINGQVVTELATTVKNGDRVEVSGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVLDLLPDVKERIYPVGRLDWDTTGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 + P + +VY R G ++ L L +G+VI G G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARLKGLATKENLRPLTRGVVIDGKKTGPARYKIIKVEPDKNRSLVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++K +F+ V++L R +G L L G +R +SKK + + Sbjct: 180 TIHEGRNHQVKNMFQAVGLLVDKLSRTQFGTLNLRGLQPGESRRLSKKEVSQL 232 >gi|169831357|ref|YP_001717339.1| pseudouridine synthase [Candidatus Desulforudis audaxviator MP104C] gi|169638201|gb|ACA59707.1| pseudouridine synthase [Candidatus Desulforudis audaxviator MP104C] Length = 238 Score = 285 bits (731), Expect = 6e-75, Method: Composition-based stats. Identities = 83/232 (35%), Positives = 117/232 (50%), Gaps = 2/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A AGIASRR E +I RV+VNG ++ V S+ D +EVDG +R E Sbjct: 1 MRLQKYLAEAGIASRRASEELILAGRVRVNGEVVRELGTTVDSSRDRVEVDGQKIR-PEP 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G VTT DP GR V D + RV VGRLD ++EGLLLLTNDG LA Sbjct: 60 KIYVLLYKPRGYVTTARDPQGRRKVTDLVAGAGGRVFPVGRLDYDSEGLLLLTNDGELAY 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V L + +G+ + V L + G A V + Sbjct: 120 RLTHPRFHVPKTYHVVLDRSPGPAALRAIARGVELDDGLTAPAGVRLVRRDGREALVEMT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+ R++++++ ++V RL R+ +LG L G R + +RE Sbjct: 180 IHEGRKRQVRRMWAALGFEVQRLKRVRMAGLELGGLEPGRWRHLRTTEVREL 231 >gi|326692499|ref|ZP_08229504.1| ribosomal large subunit pseudouridine synthase B [Leuconostoc argentinum KCTC 3773] Length = 249 Score = 285 bits (730), Expect = 6e-75, Method: Composition-based stats. Identities = 90/237 (37%), Positives = 137/237 (57%), Gaps = 2/237 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + QR+ KVIA+AG+ASRR E +I Q RV+VNG ++ + VM D ++VDG P+ Sbjct: 2 SEEAQRLQKVIAQAGLASRRGAEELITQGRVQVNGETVKTLGIKVMPHDTVQVDGAPIEG 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ +L +KP G+VTT+SD GR TV D L + RV VGRLD +T G+LLLTNDG Sbjct: 62 REKLVYYLMNKPRGVVTTNSDDKGRQTVLDVLEDVPQRVYPVGRLDYDTTGVLLLTNDGV 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNA 187 +A L P ++ +VY + G +KL LK+G+VIQG +V+++ + + Sbjct: 122 IANQLMHPKSRVDKVYMAKVEGIATDEKLAPLKRGVVIQGRKTAPARVSVERVDKDKKTS 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V + EG+N ++K + + V +L R Y F L L +G R+++ ++ Sbjct: 182 MVRVIIHEGRNHQVKNMLQKVGLPVAKLTREQYAFFDLTGLQSGEYRKLTSAEVKRL 238 >gi|94267153|ref|ZP_01290785.1| Pseudouridine synthase, Rsu [delta proteobacterium MLMS-1] gi|93452121|gb|EAT02795.1| Pseudouridine synthase, Rsu [delta proteobacterium MLMS-1] Length = 240 Score = 285 bits (730), Expect = 6e-75, Method: Composition-based stats. Identities = 86/232 (37%), Positives = 120/232 (51%), Gaps = 1/232 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK 69 TP+R+ KV+ARAG+ SRR E IA RV V+G + + V I DG PLR Sbjct: 1 MTPERLQKVLARAGVGSRRRAEEFIAAGRVTVDGRRVTEMGLRVDPEKQAITFDGRPLRF 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L +KP G VTT +DP GR V L R+ VGRLD +TEG LLLTNDG Sbjct: 61 PENKVTVLLNKPAGYVTTMADPQGRPMVGSLLKEPGLRLFPVGRLDFDTEGALLLTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PS + R Y+ G L L++GI ++G V ++G + Sbjct: 121 LAHRLLHPSFEIKRTYQATVEGTPGAQALRALRQGIELEGRRTHPAMVKTLRRRGEQTVL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + EG+ R+++K+ V L R++YG +LG L GS R ++ + + Sbjct: 181 EIIIHEGRKRQVRKMLAAVGHPVLHLKRVAYGDLRLGRLPLGSYRRLNHEDI 232 >gi|293375505|ref|ZP_06621784.1| pseudouridylate synthase [Turicibacter sanguinis PC909] gi|325844949|ref|ZP_08168314.1| pseudouridine synthase B, ribosomal large subunit [Turicibacter sp. HGF1] gi|292645905|gb|EFF63936.1| pseudouridylate synthase [Turicibacter sanguinis PC909] gi|325488999|gb|EGC91388.1| pseudouridine synthase B, ribosomal large subunit [Turicibacter sp. HGF1] Length = 255 Score = 285 bits (730), Expect = 7e-75, Method: Composition-based stats. Identities = 87/235 (37%), Positives = 128/235 (54%), Gaps = 4/235 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E++I +V VN ++ V + IEV+GVPL++ E+ Sbjct: 2 ERLQKVIAQAGIASRRKAEQLILDGKVTVNDKVVRELGTKVTGKEKIEVEGVPLQR-EKK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 ++ HKP G V+T SD GR TV D S RV VGRLD +T G+LL+TNDG A Sbjct: 61 VYYVLHKPRGYVSTVSDELGRRTVLDFFADRVSERVYPVGRLDYDTSGVLLMTNDGEFAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + PS + +VY R G V + L KGI I G TL + N + V Sbjct: 121 KMMHPSGEIDKVYLARVKGIVLPENLKPFGKGIEIDGYKTKPASATLVSVDKKNQSSLVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + + EG+ ++KK+F+ + V +L R +G + L AG R ++ ++ L Sbjct: 181 LTIHEGRYHQVKKMFDAIGFPVKKLRREQFGTIDVQGLAAGEFRPLTPHEVKTLL 235 >gi|332977338|gb|EGK14123.1| ribosomal large subunit pseudouridine synthase B [Desmospora sp. 8437] Length = 236 Score = 285 bits (730), Expect = 7e-75, Method: Composition-based stats. Identities = 84/232 (36%), Positives = 127/232 (54%), Gaps = 2/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+ARAG+ASRR+ E I +V+VNG + + V D IEV+G +R E+ Sbjct: 2 ERLQKVMARAGVASRRKSEEWILSGKVRVNGKTVTQLGTRVDPERDRIEVEGRLIR-PEQ 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R +L++KP G++T+ SDPDGR V D + RV VGRLD +TEGLLLLTNDG L Sbjct: 61 KRYFLFYKPKGVITSLSDPDGRPVVTDWFREVEERVYPVGRLDYDTEGLLLLTNDGELTH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VY+ G + L L+ G+ + +V + A + + Sbjct: 121 GLAHPRHEVDKVYQATVKGIPAKKSLRRLETGVKLTDGWTAPAKVRMLRSGKEQACLELT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++ E V L+R+ L L G RE+SK+ +R Sbjct: 181 IHEGRNRQVRRMCEAVGHPVVHLVRVQLAFLTLSGLQPGEYRELSKEEIRRL 232 >gi|288905991|ref|YP_003431213.1| ribosomal large subunit pseudouridine synthase [Streptococcus gallolyticus UCN34] gi|306832010|ref|ZP_07465165.1| ribosomal large subunit pseudouridine synthase B [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|325978958|ref|YP_004288674.1| ribosomal large subunit pseudouridine synthase B [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] gi|288732717|emb|CBI14291.1| ribosomal large subunit pseudouridine synthase [Streptococcus gallolyticus UCN34] gi|304425936|gb|EFM29053.1| ribosomal large subunit pseudouridine synthase B [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|325178886|emb|CBZ48930.1| ribosomal large subunit pseudouridine synthase B [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] Length = 241 Score = 285 bits (730), Expect = 7e-75, Method: Composition-based stats. Identities = 84/234 (35%), Positives = 133/234 (56%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I + V +NG ++ A V S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKKGLVTINGKVVTELATTVKSGDVVEVEGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP++ R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDEKGRKTVVDLLPNVTERIYPVGRLDWDTTGLLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNAWVT 190 + P + +VY R G ++ L L +G+VI G + V +D +K + + V Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIVKVDPEK-NRSVVE 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+N ++KK+FE V++L R +G L L G +R ++KK + + Sbjct: 179 LTIHEGRNHQVKKMFESVGLLVDKLSRTQFGTLDLAGLRPGESRRLNKKEISQL 232 >gi|219847277|ref|YP_002461710.1| pseudouridine synthase [Chloroflexus aggregans DSM 9485] gi|219541536|gb|ACL23274.1| pseudouridine synthase [Chloroflexus aggregans DSM 9485] Length = 567 Score = 285 bits (730), Expect = 7e-75, Method: Composition-based stats. Identities = 103/355 (29%), Positives = 157/355 (44%), Gaps = 13/355 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRK 69 +P+R+ KV+A AGIASRR+ E +IA RV VNG ++ V D + VDG PLR Sbjct: 1 MSPERLQKVLASAGIASRRDCEELIAAGRVTVNGRVVTVPGTRVDLEHDEVLVDGQPLRM 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + HKP G+V+T DP GR TV D + + +RV VGRLD+++EGL+LLT+DG Sbjct: 61 PAKRTYIMLHKPAGVVSTAEDPHGRPTVVDLV-DVPARVFPVGRLDLDSEGLILLTDDGE 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PS + + YRV + D L + G++++G V L WV Sbjct: 120 LAYALTHPSFEVEKEYRVLLDRALTPDALRSWRNGVLLEGEMTAPAWVELLETTPEGVWV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + LREG+ R+I+ V + ++V RL+R+ GP QLG L + R ++ + + Sbjct: 180 RIVLREGRKRQIRAVAKLLGYEVRRLVRVREGPLQLGDLPPRAWRHLTDEEVAALRAHVS 239 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 + + ++ + R D ++ S S + R Sbjct: 240 VRRSLADVPT-RSTDVVKSRALDEKPHRAGDSAPVTRQRSEHSERRSSDRSRREQRDERV 298 Query: 310 LASNVWMAKGIHSSFLSD----------SGQREENHRRSPSFPSKRSLRRTSAKK 354 W + G E R+ P R R A + Sbjct: 299 TEGPTWGETDARAGRAPRGRQDSRGEAGRGAWGETDARAGRAPRGRQDSRGEAGR 353 >gi|332799305|ref|YP_004460804.1| pseudouridine synthase Rsu [Tepidanaerobacter sp. Re1] gi|332697040|gb|AEE91497.1| pseudouridine synthase Rsu [Tepidanaerobacter sp. Re1] Length = 237 Score = 285 bits (730), Expect = 7e-75, Method: Composition-based stats. Identities = 72/229 (31%), Positives = 118/229 (51%), Gaps = 1/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K +++AG+ SRR E +I Q +V VNG +++ V TD I+V+G Sbjct: 3 MRLQKYLSQAGVDSRRACEDIILQGKVSVNGKTIKKLGTKVNPETDIIKVNGKVCSLKYD 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G++TT DP GR TV D LP RV VGRLD TEGLL+LTNDG + Sbjct: 63 FIYILINKPKGILTTVKDPLGRPTVLDLLPEFCERVFPVGRLDKETEGLLILTNDGEVTY 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + ++ Y G V +K+ L+KGI+++ + + ++ + + Sbjct: 123 KLTHPKYKVIKTYVAHVRGIVGNNKIKSLEKGIILEDGVTAPAKANILKVLRNSTIIKLE 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG+ R+++++ + + L R G + L G R +S++ + Sbjct: 183 IHEGRKRQVRRMCDSIGHPIIELKRTQIGDISIKGLKPGEWRLLSQREI 231 >gi|322391362|ref|ZP_08064832.1| ribosomal large subunit pseudouridine synthase B [Streptococcus peroris ATCC 700780] gi|321145788|gb|EFX41179.1| ribosomal large subunit pseudouridine synthase B [Streptococcus peroris ATCC 700780] Length = 240 Score = 285 bits (730), Expect = 7e-75, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 129/233 (55%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G D+D L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGIADKDNLRPLTRGVEIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQL 232 >gi|311068833|ref|YP_003973756.1| RluB protein [Bacillus atrophaeus 1942] gi|310869350|gb|ADP32825.1| RluB [Bacillus atrophaeus 1942] Length = 244 Score = 285 bits (730), Expect = 8e-75, Method: Composition-based stats. Identities = 75/233 (32%), Positives = 127/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I + +VKVNG ++ V V +D IEV+G+ + + E Sbjct: 2 ERLQKVIAHAGVASRRKAEELIKEGKVKVNGKIITELGVKVTGSDQIEVNGMKIEREE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D GR V D I R+ +GRLD +T GLLLLTNDG A Sbjct: 61 VYFLLYKPRGVISAADDDKGRKVVTDFFKEIPQRIYPIGRLDYDTSGLLLLTNDGDFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P Q + Y + G ++ + L++G+ ++ + L + ++ + + + Sbjct: 121 LMHPKYQIDKTYVAKVKGIPSKELVRKLERGVQLEEGKTAPAKAKLLSLDKRKQTSIIQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE +V +L R Y L L G RE++ ++ Sbjct: 181 TIHEGRNRQVRRMFEAIGHEVLKLKREEYAFLDLRGLHTGDARELTPHEVKRL 233 >gi|320547375|ref|ZP_08041664.1| ribosomal large subunit pseudouridine synthase B [Streptococcus equinus ATCC 9812] gi|320447971|gb|EFW88725.1| ribosomal large subunit pseudouridine synthase B [Streptococcus equinus ATCC 9812] Length = 241 Score = 285 bits (729), Expect = 8e-75, Method: Composition-based stats. Identities = 83/233 (35%), Positives = 131/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I + V +NG ++ A V S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIKKGLVSINGKVVTELATTVKSGDIVEVEGTPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP++ R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVVDLLPNVTERIYPVGRLDWDTTGLLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIKVDPEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R ++G L L G +R +SKK + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTNFGTLDLSGLRPGESRRLSKKEISQL 232 >gi|304436412|ref|ZP_07396387.1| ribosomal large subunit pseudouridine synthase B [Selenomonas sp. oral taxon 149 str. 67H29BP] gi|304370576|gb|EFM24226.1| ribosomal large subunit pseudouridine synthase B [Selenomonas sp. oral taxon 149 str. 67H29BP] Length = 292 Score = 285 bits (729), Expect = 8e-75, Method: Composition-based stats. Identities = 87/291 (29%), Positives = 141/291 (48%), Gaps = 6/291 (2%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN-VMSTDHIEVDGVPLRKAERTRL 75 K+++ AG+ASRR E +I RV V+G+ + S I VDG P++ +E Sbjct: 2 QKILSHAGVASRRAAEALIRDGRVTVDGVPVTMLGSKYDPSFHEIAVDGTPVQGSEEKLY 61 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L HKP G ++T D GR TV D LP R+ VGRLD +TEGLL++TNDG + + L Sbjct: 62 ILLHKPRGCLSTAHDDRGRRTVLDLLPHFPVRLYPVGRLDADTEGLLIITNDGAMTQGLL 121 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 P + +VY G V +DKL+ L++GI++ Q+++ ++G V + E Sbjct: 122 HPRFEIDKVYHAEVTGTVTEDKLSKLRRGILLDDGKTAPAQLSILRREGGRTLVETIIHE 181 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ----LGPHLLE 251 G+NR+++++F +V RL R+ + L L G+ R ++ + E G H E Sbjct: 182 GRNRQVRRMFAAVGCRVQRLRRVRFAMLTLDGLPCGAFRHLTLDEIHELQKIAGGIHSEE 241 Query: 252 EAQVNLDA-PIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ + R + D R + + K L + K+ Sbjct: 242 GSRRRRRTSGDDGGGSGGGTRRERNAARKDAARRPQDDDHGKRPLQRDKRR 292 >gi|170756858|ref|YP_001781361.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum B1 str. Okra] gi|169122070|gb|ACA45906.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum B1 str. Okra] gi|322806051|emb|CBZ03618.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum H04402 065] Length = 236 Score = 285 bits (729), Expect = 9e-75, Method: Composition-based stats. Identities = 71/229 (31%), Positives = 121/229 (52%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I + RV+VNGI ++ ++S D I+VDG + E Sbjct: 3 ERLQKYMASCGVASRRKCEDIILEGRVEVNGIKIKELGTKIISGKDIIKVDGNIIEPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G V T D GR T+ D + + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKGRKTILDLV-KVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++ Y+ + G + +D + L KKGI I + + + + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGDYLTAPATLEILKINKDTSEIIIK 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGKNR+++++ + V L RIS G L G R ++ K + Sbjct: 182 IHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKSDLKLGEWRYLTNKEI 230 >gi|269797888|ref|YP_003311788.1| pseudouridine synthase [Veillonella parvula DSM 2008] gi|269094517|gb|ACZ24508.1| pseudouridine synthase [Veillonella parvula DSM 2008] Length = 242 Score = 285 bits (729), Expect = 9e-75, Method: Composition-based stats. Identities = 80/234 (34%), Positives = 134/234 (57%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K IA GIASRR+ E +I + +V+VNG + V + D ++V+G L E+ Sbjct: 2 ERLQKYIASCGIASRRKAEELITEGKVQVNGRKVTELGVKINPQKDKVKVNGQLL-AQEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++T+ SDP GR TV D + + R+ +GRLD+ TEGLLLLTNDG A+ Sbjct: 61 PVYYLLNKPKGVITSVSDPQGRETVLDYIKNETKRIYPIGRLDLYTEGLLLLTNDGEFAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L PS + Y VR G+V D L ++ G+ ++ + N V Sbjct: 121 NLTHPSKGVEKTYEVRIKGRVRDDDLQIIANGVELEDGITAPATIVDLGFDDHNGVHEVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+++++FE F ++++ L RI+Y LG + G++R+++ + ++ Sbjct: 181 ITIHEGRNRQVRRMFEHFGYRIHNLKRIAYAGLTLGGVKRGASRQLTIREVKAL 234 >gi|315658229|ref|ZP_07911101.1| pseudouridine synthase RluB [Staphylococcus lugdunensis M23590] gi|315496558|gb|EFU84881.1| pseudouridine synthase RluB [Staphylococcus lugdunensis M23590] Length = 247 Score = 285 bits (729), Expect = 1e-74, Method: Composition-based stats. Identities = 73/231 (31%), Positives = 127/231 (54%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +VKVNG ++ V +D +EV+G+ + + ++ Sbjct: 8 ERLQKRIANSGYTSRRKAETLITEGKVKVNGEVVTELGTKVKPSDQVEVEGIKMEQEDKI 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L+HKP ++T+ SD GR+ V D + +R+ VGRLD +T G+LLLTNDG + Sbjct: 68 -YILFHKPAQVITSVSDDHGRTVVTDYFKDLDTRIYPVGRLDYDTSGVLLLTNDGEFTNL 126 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 + P + Y + G + ++++ L+ GI ++ V + Q V + Sbjct: 127 MTHPRYHIPKTYVAKLKGYLMREEVKTLEAGIELEDGLTQPATVKIKRQDKDKNTTLVEI 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+++++FE F VN+L RI +G L L AG R ++ ++ Sbjct: 187 TISEGRNRQVRRMFEHFGHSVNKLTRIQFGSLNLKGLNAGEGRVLTPHEVK 237 >gi|126735086|ref|ZP_01750832.1| RNA pseudouridylate synthase family protein [Roseobacter sp. CCS2] gi|126715641|gb|EBA12506.1| RNA pseudouridylate synthase family protein [Roseobacter sp. CCS2] Length = 267 Score = 284 bits (728), Expect = 1e-74, Method: Composition-based stats. Identities = 132/232 (56%), Positives = 166/232 (71%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV++RAGIASRRE ERMI RV VNG + A+NV + D I VDG + + E R Sbjct: 11 RIAKVLSRAGIASRREAERMIEDGRVSVNGKTITSPALNVTADDRIVVDGKQVGEPEPPR 70 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +WLYHKP GLVTT D R TVF +LP RV+SVGRLD+N+EGLLLLTNDG + R L Sbjct: 71 IWLYHKPAGLVTTERDEKDRPTVFASLPETMPRVMSVGRLDLNSEGLLLLTNDGEVKRKL 130 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPST WLR YRVR +G V + KL+ L++GI ++GI Y M VT D Q+G+NAW+TV LR Sbjct: 131 ELPSTGWLRRYRVRINGSVSEAKLDELREGITVEGIQYQPMVVTFDRQQGANAWLTVSLR 190 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNREI++ VNRLIR+SYGPFQL L G E+ ++++R+QLG Sbjct: 191 EGKNREIRRAMGEIGVTVNRLIRVSYGPFQLAALKQGEVEELKQRVVRDQLG 242 >gi|22537733|ref|NP_688584.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae 2603V/R] gi|76787925|ref|YP_330211.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae A909] gi|76799444|ref|ZP_00781590.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae 18RS21] gi|77406891|ref|ZP_00783916.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae H36B] gi|77409463|ref|ZP_00786156.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae COH1] gi|77412369|ref|ZP_00788680.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae CJB111] gi|22534623|gb|AAN00457.1|AE014264_12 ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae 2603V/R] gi|76562982|gb|ABA45566.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae A909] gi|76585200|gb|EAO61812.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae 18RS21] gi|77161589|gb|EAO72589.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae CJB111] gi|77171930|gb|EAO75106.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae COH1] gi|77174500|gb|EAO77344.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae H36B] gi|319745532|gb|EFV97834.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae ATCC 13813] Length = 240 Score = 284 bits (728), Expect = 1e-74, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 129/233 (55%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q V +NG ++ A V + D +E++G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIKQGMVTINGQVVNELATQVKAGDLVEIEGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVIDLLPQVKERIYPVGRLDWDTTGLLILTNDGDFTDK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + T+ + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYTIIKVDHEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEQVGLLVDKLSRTQFGTLDLTGLRPGEARRLNKKEISQL 232 >gi|222152585|ref|YP_002561760.1| ribosomal large subunit pseudouridine synthase B [Streptococcus uberis 0140J] gi|222113396|emb|CAR41051.1| ribosomal large subunit pseudouridine synthase B [Streptococcus uberis 0140J] Length = 240 Score = 284 bits (728), Expect = 1e-74, Method: Composition-based stats. Identities = 83/233 (35%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V +NG ++ A V S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTLNGQVVSDLATTVKSGDTVEVEGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVIDLLPQVKERIYPVGRLDWDTSGLLILTNDGDFTDK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G +D L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKDNLRPLTRGVVIDGKKTKPARYNIIRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFESVGLIVDKLSRTRFGTLDLTGLRPGESRRLNKKEISQL 232 >gi|109897967|ref|YP_661222.1| pseudouridine synthase, Rsu [Pseudoalteromonas atlantica T6c] gi|109700248|gb|ABG40168.1| ribosomal large subunit pseudouridine synthase F [Pseudoalteromonas atlantica T6c] Length = 317 Score = 284 bits (728), Expect = 1e-74, Method: Composition-based stats. Identities = 80/353 (22%), Positives = 149/353 (42%), Gaps = 41/353 (11%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M N + R++K I+ +G SRRE +++I QRV +NG ++ V+S D + Sbjct: 1 MNTSNTSNTTVSSIRLNKFISDSGFCSRREADKLIDSQRVTING-VIPELGTKVLSGDEV 59 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 VDG ++ + YHKP+G+ T ++ + + D + R+ +GRLD Sbjct: 60 RVDGNLIKASAENKSDRVYLAYHKPVGITCT-TERHVKGNIIDAI-GHPERIFPIGRLDK 117 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +EGL+ LT+DG + + + Y V + + ++ + G+ I Sbjct: 118 PSEGLIFLTSDGDIVNKILRAENAHDKEYIVTVDRPLTERFIHAMGAGVPILDTVTKPCT 177 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 VT+ S + L +G NR+I+++ E+ + V +L R +L L G R + Sbjct: 178 VTMQ----SKFVFRIILTQGLNRQIRRMCEYLGYGVTKLKRSRIMSIRLAGLKVGQWRNL 233 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 + +RE DA S++T ++ I + V D + + Sbjct: 234 TPDEMREI------------SDAVEGSTKTALKTDQKIAANVTD----------KNAPKT 271 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 + + + H R + S V AK +R+ + +P+ PS+ + Sbjct: 272 EPTRSSKRSHHRGIKSQVGEAK--------HGSRRQATNNTAPATPSRGRKPK 316 >gi|94263642|ref|ZP_01287451.1| Pseudouridine synthase, Rsu [delta proteobacterium MLMS-1] gi|93455947|gb|EAT06102.1| Pseudouridine synthase, Rsu [delta proteobacterium MLMS-1] Length = 240 Score = 284 bits (728), Expect = 1e-74, Method: Composition-based stats. Identities = 86/232 (37%), Positives = 120/232 (51%), Gaps = 1/232 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK 69 TP+R+ KV+ARAG+ SRR E IA RV V+G + + V I DG PLR Sbjct: 1 MTPERLQKVLARAGVGSRRRAEEFIAAGRVTVDGRRVTEMGLRVDPEKQAITFDGRPLRL 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L +KP G VTT +DP GR V L R+ VGRLD +TEG LLLTNDG Sbjct: 61 PENKVTVLLNKPAGYVTTMADPQGRPMVGSLLKEPGLRLFPVGRLDFDTEGALLLTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PS + R Y+ G L L++GI ++G V ++G + Sbjct: 121 LAHRLLHPSFEIKRTYQATVEGTPGAQALRALRQGIELEGRRTHPAMVKTLRRRGEQTVL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + EG+ R+++K+ V L R++YG +LG L GS R ++ + + Sbjct: 181 EIIIHEGRKRQVRKMLAAVGHPVLHLKRVAYGDLRLGRLPLGSYRRLNHEDI 232 >gi|39934240|ref|NP_946516.1| pseudouridine synthase Rsu [Rhodopseudomonas palustris CGA009] gi|39648088|emb|CAE26608.1| Pseudouridine synthase, Rsu:RNA-binding S4:Pseudouridine synthase [Rhodopseudomonas palustris CGA009] Length = 731 Score = 284 bits (728), Expect = 1e-74, Method: Composition-based stats. Identities = 145/329 (44%), Positives = 201/329 (61%), Gaps = 6/329 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + + +R++KV+ARAG+ SRR+ E I + RV VNG +++ A++V ++D I +DG PL Sbjct: 399 KSDKAGERIAKVVARAGLCSRRDAEAWITEGRVTVNGKVIDSPALDVKASDIITIDGKPL 458 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + ERTRL+LYHKP GL+TTHSDP+GR TVFD+LP R+IS+GRLD NTEGLLLLTND Sbjct: 459 PERERTRLFLYHKPRGLMTTHSDPEGRPTVFDHLPEGLPRLISIGRLDFNTEGLLLLTND 518 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGLAR LELP T WLR YRVR HG++ Q +L+ L+ GI + G+ YG ++ L+ +G+N Sbjct: 519 GGLARALELPETGWLRRYRVRAHGEITQAQLDELQNGIEVDGVQYGPIEAKLERDQGANV 578 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+ +REGKNRE++ V +VNRLIR+SYGPFQL L G EV ++LR+QLG Sbjct: 579 WLVFAIREGKNREVRNVLAHLGLEVNRLIRVSYGPFQLLELGEGEVDEVKTRVLRDQLGE 638 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIIS----EVPDDFTRMKKNSSQKNGLSKQKKLAT 303 ++ A + P S +S V D KK +++ + +K Sbjct: 639 KVIALAGCDFAGPSPSETKPKPRAGKAVSAEEWAVADAAPAPKKTITKRGAVEDRKGRKV 698 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQRE 332 V R AS G+R+ Sbjct: 699 KVER--TASEGGDRPLSRGPARRYHGKRD 725 >gi|295426293|ref|ZP_06818953.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus amylolyticus DSM 11664] gi|295064032|gb|EFG54980.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus amylolyticus DSM 11664] Length = 239 Score = 284 bits (728), Expect = 1e-74, Method: Composition-based stats. Identities = 86/233 (36%), Positives = 131/233 (56%), Gaps = 3/233 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T +R+ KVIA AGIASRR+ E+MI RV+V+G L+ + V + I VD P+ + Sbjct: 1 MTLERLQKVIAEAGIASRRKAEKMIVAGRVRVDGKLVTKLGTKVDTFSTITVDDEPIER- 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +L++KP G+V+T D GR TV D + R+ VGRLD +T GLLL+TNDG L Sbjct: 60 ESLHTYLFYKPRGVVSTAHDDKGRKTVVDYFDDLPYRLYPVGRLDYDTSGLLLMTNDGKL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A +L P + +VY + G ++ D++ LKKG+ + G +V + QK +N Sbjct: 120 ANLLMHPKNEVPKVYVAKIEGILEPDQIMTLKKGVKVDGRKCAPAKVKILKTNQKKNNQI 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + EG E+K++F+ V +L R Y L L G RE++++ + Sbjct: 180 VQLTIHEGHYHEVKRMFKAVGHPVEKLSRERYAFLDLHALTYGQYRELTREEV 232 >gi|332523615|ref|ZP_08399867.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus porcinus str. Jelinkova 176] gi|332314879|gb|EGJ27864.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus porcinus str. Jelinkova 176] Length = 240 Score = 284 bits (727), Expect = 1e-74, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 127/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V +NG ++ A V S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTLNGQVITDLATIVKSGDVVEVEGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVIDLLPQVKERIYPVGRLDWDTSGLLILTNDGDFTDK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLDLTGLRPGEARRLNKKEVSQL 232 >gi|227879091|ref|ZP_03996980.1| pseudouridylate synthase [Lactobacillus crispatus JV-V01] gi|256843080|ref|ZP_05548568.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus crispatus 125-2-CHN] gi|256850268|ref|ZP_05555697.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus crispatus MV-1A-US] gi|262046340|ref|ZP_06019302.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus crispatus MV-3A-US] gi|293379763|ref|ZP_06625895.1| pseudouridine synthase [Lactobacillus crispatus 214-1] gi|295692876|ref|YP_003601486.1| pseudouridine synthase [Lactobacillus crispatus ST1] gi|312977265|ref|ZP_07789013.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus crispatus CTV-05] gi|227861332|gb|EEJ68962.1| pseudouridylate synthase [Lactobacillus crispatus JV-V01] gi|256614500|gb|EEU19701.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus crispatus 125-2-CHN] gi|256712905|gb|EEU27897.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus crispatus MV-1A-US] gi|260573211|gb|EEX29769.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus crispatus MV-3A-US] gi|290923672|gb|EFE00543.1| pseudouridine synthase [Lactobacillus crispatus 214-1] gi|295030982|emb|CBL50461.1| Pseudouridine synthase [Lactobacillus crispatus ST1] gi|310895696|gb|EFQ44762.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus crispatus CTV-05] Length = 238 Score = 284 bits (727), Expect = 1e-74, Method: Composition-based stats. Identities = 81/234 (34%), Positives = 129/234 (55%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E+MI RVKV+G ++ + V + +I VD P+ + E Sbjct: 3 ERLQKVIAEAGIASRRKAEKMIVAGRVKVDGHVVTKLGTKVDTFSNITVDDEPIER-ESL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+V+T D GR TV D + R+ VGRLD +T GLLL+TNDG LA + Sbjct: 62 HTYLFYKPRGVVSTAEDDRGRKTVVDYFEDLPYRLYPVGRLDYDTSGLLLMTNDGKLANL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G + D++ L +G+ + +V + K V + Sbjct: 122 LMHPKNEVAKVYVAKIKGILTPDEIKTLTQGVKLDHFKAAPAKVKVLKTDHKKDTQIVQI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG ++K++F+ V++L R Y L +L +G RE+SK + + + Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVDKLAREKYAFLTLDSLTSGQYRELSKHEVDKLM 235 >gi|319938699|ref|ZP_08013063.1| pseudouridine synthase [Streptococcus anginosus 1_2_62CV] gi|319811749|gb|EFW08015.1| pseudouridine synthase [Streptococcus anginosus 1_2_62CV] Length = 241 Score = 284 bits (727), Expect = 1e-74, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 126/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q V VNG ++ A + S D +EV G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIKQGLVTVNGQVVRELATTIKSGDRVEVSGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVTDDKGRPTVVDLLPNVTERIYPVGRLDWDTSGALILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G D++ L L KG+ + G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVADKEVLRPLTKGVEVDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE +V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTQFGHLNLTGLRPGEARRLNKKEVSQL 232 >gi|315038194|ref|YP_004031762.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus amylovorus GRL 1112] gi|325956646|ref|YP_004292058.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus acidophilus 30SC] gi|312276327|gb|ADQ58967.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus amylovorus GRL 1112] gi|325333211|gb|ADZ07119.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus acidophilus 30SC] gi|327183471|gb|AEA31918.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus amylovorus GRL 1118] Length = 238 Score = 284 bits (727), Expect = 1e-74, Method: Composition-based stats. Identities = 78/234 (33%), Positives = 128/234 (54%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA AGIASRR+ E+MI RVKV+G ++ + V + +I VD P+ + E Sbjct: 3 ERLQKIIAEAGIASRRKAEKMITAGRVKVDGKVITKLGTKVDTFSNITVDDEPIER-ESL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+V+T SD R TV D + R+ VGRLD +T GLLL+TNDG LA + Sbjct: 62 HTYLFYKPRGVVSTASDDKDRKTVVDYFEDVPYRLYPVGRLDYDTSGLLLMTNDGKLANL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G + +++ L G+ + +V + ++ V + Sbjct: 122 LMHPRNEVSKVYVAKIKGILTPEEIKTLTHGVKLDDFKAAPAKVKVLKTDKRKDTQIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG ++K++F+ V +L R Y L +L +G RE+SK + + + Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVEKLSREKYAFLTLDSLTSGQYRELSKNEVDKLM 235 >gi|269925805|ref|YP_003322428.1| pseudouridine synthase [Thermobaculum terrenum ATCC BAA-798] gi|269789465|gb|ACZ41606.1| pseudouridine synthase [Thermobaculum terrenum ATCC BAA-798] Length = 253 Score = 284 bits (727), Expect = 1e-74, Method: Composition-based stats. Identities = 85/238 (35%), Positives = 129/238 (54%), Gaps = 4/238 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P R+ K++A+ G+ASRR ERMIA+ RV VNG ++ D I VDG +R+ Sbjct: 3 EPIRLHKLLAQMGVASRRAAERMIAEGRVSVNGRIVNTPGAMASPEDEIRVDGKLVRQQP 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + R L +KP G+++T D GR TV D L +RV VGRLD ++EGL+LLTNDG LA Sbjct: 63 KMRYILLNKPAGVLSTAKDERGRKTVIDLL-GQSNRVYPVGRLDKDSEGLMLLTNDGELA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + P + Y V G L L +G+ ++ + + ++ + + + Sbjct: 122 QRITHPRYGVHKQYMVEVEGYFSDRSLQDLLQGVELEDGFSKPLDAKIISRSRDKSKLLI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI---LREQLG 246 + EG+ R++++ +KV RL R++ GP LG L G RE+S + LR QLG Sbjct: 182 TMGEGRKRQVRRTLAALGYKVKRLTRVALGPLSLGNLKPGEYRELSDQEAKWLRSQLG 239 >gi|158320609|ref|YP_001513116.1| pseudouridine synthase [Alkaliphilus oremlandii OhILAs] gi|158140808|gb|ABW19120.1| pseudouridine synthase [Alkaliphilus oremlandii OhILAs] Length = 234 Score = 284 bits (727), Expect = 2e-74, Method: Composition-based stats. Identities = 79/229 (34%), Positives = 118/229 (51%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K +A G+ASRR+ E +I+ RVKVNG ++ V D I VD + ER Sbjct: 1 MRLQKFLAANGVASRRKSEELISSGRVKVNGNIITEMGYKVDLDIDKISVDNKDIILQER 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G VTT S+ R V D + + R+ VGRLD NT GLL+LTNDG L Sbjct: 61 KVYILLNKPTGYVTTVSEQFNRKKVTDLVDVPY-RIFPVGRLDYNTSGLLILTNDGELTY 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VY + G ++ L + G+ I+ ++ + + + V V Sbjct: 120 KLTHPKFKVEKVYIAKVKGIPTKEALEAFENGLKIEDYITAPAKIKILKEINQHTLVEVR 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +REGKNR+++K+ E V L RI+ G LG L G+ R +++ + Sbjct: 180 IREGKNRQVRKMCEAIGHPVVELKRIAMGRIHLGNLDVGNWRYFTEREI 228 >gi|156740189|ref|YP_001430318.1| pseudouridine synthase [Roseiflexus castenholzii DSM 13941] gi|156231517|gb|ABU56300.1| pseudouridine synthase [Roseiflexus castenholzii DSM 13941] Length = 556 Score = 284 bits (727), Expect = 2e-74, Method: Composition-based stats. Identities = 106/355 (29%), Positives = 163/355 (45%), Gaps = 18/355 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 + +R+ KV+A AGIASRR+ E IA RV VNG ++ V D I VDG P+ K Sbjct: 1 MSAERLQKVLASAGIASRRDCEEYIAAGRVMVNGKVVRIPGTRVDPEHDEILVDGKPIGK 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + HKP G+V+T DP GR TV D + ++ R+ VGRLD ++EGLLLLT+DG Sbjct: 61 IHHRTYVMLHKPAGVVSTTDDPHGRPTVVDLV-NLPQRLFPVGRLDYDSEGLLLLTDDGE 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + L PS Q + Y+V + + L + G+ + G+ V L + AWV Sbjct: 120 LTQKLTHPSYQVEKEYQVLLNDAPSPNALRAWRTGVELDGVKTAPAWVELIERTPEGAWV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 V L EG+ R+I++V ++V RLIR+ GP LG L +G+ R ++ + + L Sbjct: 180 RVILHEGRKRQIREVARLLGYEVRRLIRVREGPLALGDLPSGTWRFLTDEEV-----DML 234 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 E A+ N A + R++ + + R+ ++ K + P Sbjct: 235 REHAERN-AAVADAERPRRREQDEMKAVGGRRLRRINPSARLLQKGEKVTETTLPELDEA 293 Query: 310 LASNVWMAK---GIHSSFLSDSGQREEN-------HRRSPSFPSKRSLRRTSAKK 354 + S + ++ R + R F S R R S + Sbjct: 294 IGSEKGIPSIGEEGRKVRDKEAPHRNASPARDFRRDDRGSGFRSDRRNDRGSGPR 348 >gi|192289766|ref|YP_001990371.1| RNA-binding S4 domain protein [Rhodopseudomonas palustris TIE-1] gi|192283515|gb|ACE99895.1| RNA-binding S4 domain protein [Rhodopseudomonas palustris TIE-1] Length = 736 Score = 284 bits (727), Expect = 2e-74, Method: Composition-based stats. Identities = 145/329 (44%), Positives = 201/329 (61%), Gaps = 6/329 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + + +R++KV+ARAG+ SRR+ E I + RV VNG +++ A++V ++D I +DG PL Sbjct: 404 KSDKAGERIAKVVARAGLCSRRDAEAWITEGRVTVNGKVIDSPALDVKASDVITIDGKPL 463 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + ERTRL+LYHKP GL+TTHSDP+GR TVFD+LP R+IS+GRLD NTEGLLLLTND Sbjct: 464 PERERTRLFLYHKPRGLMTTHSDPEGRPTVFDHLPEGLPRLISIGRLDFNTEGLLLLTND 523 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGLAR LELP T WLR YRVR HG++ Q +L+ L+ GI + G+ YG ++ L+ +G+N Sbjct: 524 GGLARALELPETGWLRRYRVRAHGEITQAQLDELQNGIEVDGVQYGPIEAKLERDQGANV 583 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+ +REGKNRE++ V +VNRLIR+SYGPFQL L G EV ++LR+QLG Sbjct: 584 WLVFAIREGKNREVRNVLAHLGLEVNRLIRVSYGPFQLLELGEGEVDEVKTRVLRDQLGE 643 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIIS----EVPDDFTRMKKNSSQKNGLSKQKKLAT 303 ++ A + P S +S V D KK +++ + +K Sbjct: 644 KVIALAGCDFAGPSPSETKPKPRAGKAVSAEEWAVADAAPAPKKTITKRGAVEDRKGRKV 703 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQRE 332 V R AS G+R+ Sbjct: 704 KVER--TASEGGDRPLSRGPARRYHGKRD 730 >gi|282848924|ref|ZP_06258314.1| pseudouridylate synthase [Veillonella parvula ATCC 17745] gi|294793632|ref|ZP_06758769.1| pseudouridylate synthase [Veillonella sp. 3_1_44] gi|282581429|gb|EFB86822.1| pseudouridylate synthase [Veillonella parvula ATCC 17745] gi|294455202|gb|EFG23574.1| pseudouridylate synthase [Veillonella sp. 3_1_44] Length = 242 Score = 284 bits (727), Expect = 2e-74, Method: Composition-based stats. Identities = 81/234 (34%), Positives = 135/234 (57%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K IA GIASRR+ E +I + +V+VNG + V + D ++V+G L E+ Sbjct: 2 ERLQKYIASCGIASRRKAEELITEGKVQVNGRKVTELGVKINPQKDKVKVNGQLL-AQEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++T+ SDP GR TV D + + R+ +GRLD+ TEGLLLLTNDG LA+ Sbjct: 61 PVYYLLNKPKGVITSVSDPQGRETVLDYIKNETKRIYPIGRLDLYTEGLLLLTNDGELAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L PS + Y VR G+V D L ++ G+ ++ + N V Sbjct: 121 NLTHPSKGIEKTYEVRIKGRVRDDDLQIIANGVELEDGITAPATIVDLGFDDHNGVHEVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+++++FE F ++++ L RI+Y LG + G++R+++ + ++ Sbjct: 181 ITIHEGRNRQVRRMFEHFGYRIHNLKRIAYAGLTLGGVKRGASRQLTIREVKAL 234 >gi|294791771|ref|ZP_06756919.1| pseudouridylate synthase [Veillonella sp. 6_1_27] gi|294457001|gb|EFG25363.1| pseudouridylate synthase [Veillonella sp. 6_1_27] Length = 242 Score = 283 bits (726), Expect = 2e-74, Method: Composition-based stats. Identities = 81/234 (34%), Positives = 135/234 (57%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K IA GIASRR+ E +I + +V+VNG + V + D ++V+G L E+ Sbjct: 2 ERLQKYIASCGIASRRKAEELITEGKVQVNGRKVTELGVKINPQKDKVKVNGQLL-AQEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++T+ SDP GR TV D + + R+ +GRLD+ TEGLLLLTNDG LA+ Sbjct: 61 PVYYLLNKPKGVITSVSDPQGRETVLDYIKNETKRIYPIGRLDLYTEGLLLLTNDGELAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L PS + Y VR G+V D L ++ G+ ++ + N V Sbjct: 121 NLTHPSKGVEKTYEVRIKGRVRDDDLQIIANGVELEDGITAPATIVDLGFDDHNGVHEVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+++++FE F ++++ L RI+Y LG + G++R+++ + ++ Sbjct: 181 ITIHEGRNRQVRRMFEHFGYRIHNLKRIAYAGLTLGGVKRGASRQLTIREVKAL 234 >gi|308069544|ref|YP_003871149.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) [Paenibacillus polymyxa E681] gi|305858823|gb|ADM70611.1| Ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) [Paenibacillus polymyxa E681] Length = 252 Score = 283 bits (726), Expect = 2e-74, Method: Composition-based stats. Identities = 83/235 (35%), Positives = 130/235 (55%), Gaps = 4/235 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A+AG+ASRR+ E +I V+VNG+++ D I V G P++ E+ Sbjct: 2 ERLQKILAQAGVASRRKCEELIQAGSVEVNGVIVTELGTKADPDQDMITVKGRPIK-TEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++T+ SDP+GR V D L + RV VGRLD +TEGLLLLTNDG A Sbjct: 61 KIYLMMNKPKGVITSASDPEGRKIVSDYLKGVKERVYPVGRLDYDTEGLLLLTNDGEFAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 +L P + Y G +L+ LKKGIV++ +V G + + Sbjct: 121 LLTHPKHHVPKTYVATVKGVPHGTELDKLKKGIVLEDGITAPAEVEYKDVDPNGKESVIQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + + EG+NR+++++FE + V RL RI++G L L G TR ++K + + Sbjct: 181 ITIYEGRNRQVRRMFEAISHPVIRLKRIAFGDLLLQNLKRGLTRPLTKDEINRLI 235 >gi|299821620|ref|ZP_07053508.1| ribosomal large subunit pseudouridine synthase B [Listeria grayi DSM 20601] gi|299817285|gb|EFI84521.1| ribosomal large subunit pseudouridine synthase B [Listeria grayi DSM 20601] Length = 243 Score = 283 bits (726), Expect = 2e-74, Method: Composition-based stats. Identities = 85/231 (36%), Positives = 132/231 (57%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA +G+ SRR+ E++IA RV VNG ++ V D IEV+G+ L K E Sbjct: 2 ERLQKVIANSGVTSRRKAEQLIAAGRVTVNGEVVRELGTKVSPNDRIEVEGIELTKEE-H 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G+V+ +D GR TV D I R+ VGRLD T GLLL+TNDG A Sbjct: 61 RYFLFYKPRGVVSAVTDDKGRKTVADYFVDIPERLYPVGRLDYETSGLLLMTNDGDFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y R G +++L L++G+VI G +V L + + A + + Sbjct: 121 LMHPKHEVEKQYIARVKGIPTKEQLRRLERGVVIDGRKTAPAKVKLRSADKAKEKAIIEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+++K+FE + V +L+R +Y + + AG RE+S ++ Sbjct: 181 TIHEGRNRQVRKMFESIGFPVQKLMREAYAFLNVAGMNAGERRELSHHEVK 231 >gi|237795222|ref|YP_002862774.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum Ba4 str. 657] gi|229261861|gb|ACQ52894.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum Ba4 str. 657] Length = 236 Score = 283 bits (726), Expect = 2e-74, Method: Composition-based stats. Identities = 71/229 (31%), Positives = 121/229 (52%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I + RV+VNGI ++ ++S D I+VDG + E Sbjct: 3 ERLQKYMASCGVASRRKCEDIILEGRVEVNGIKIKELGTKIISGEDIIKVDGNIIEPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G V T D R T+ D + + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKDRKTILDLV-KVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++ Y+ + G + +D + L KKGI I + + + + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGDYITAPATLEILKISKDTSEIIIK 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGKNR+++++ + V L RIS G L G R ++KK + Sbjct: 182 IHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKNDLKLGEWRYLTKKEI 230 >gi|77414368|ref|ZP_00790523.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae 515] gi|77159558|gb|EAO70714.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae 515] Length = 240 Score = 283 bits (726), Expect = 2e-74, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q V +NG ++ A V + D +E++G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIKQGMVTINGQVVNELATKVKAGDLVEIEGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVIDLLPQVKERIYPVGRLDWDTTGLLILTNDGDFTDK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIKVDHEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEQVGLLVDKLSRTQFGTLDLTGLRPGEARRLNKKEISQL 232 >gi|323351021|ref|ZP_08086678.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis VMC66] gi|322122745|gb|EFX94454.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis VMC66] gi|324991310|gb|EGC23243.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK353] gi|325696344|gb|EGD38235.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK160] gi|327474540|gb|EGF19945.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK408] gi|332362256|gb|EGJ40056.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK1056] Length = 242 Score = 283 bits (726), Expect = 2e-74, Method: Composition-based stats. Identities = 83/233 (35%), Positives = 132/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q +V +NG ++ A NV S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIRQGKVSINGQVVRELATNVKSGDRVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVVDLLPQVKERIYPVGRLDWDTSGILILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTV 191 + P + +VY R G +++ L L +GI I+G ++ + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+F+ +V++L R +G L L G R++SKK + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKKEVSQL 232 >gi|317133055|ref|YP_004092369.1| pseudouridine synthase [Ethanoligenens harbinense YUAN-3] gi|315471034|gb|ADU27638.1| pseudouridine synthase [Ethanoligenens harbinense YUAN-3] Length = 243 Score = 283 bits (726), Expect = 2e-74, Method: Composition-based stats. Identities = 76/231 (32%), Positives = 119/231 (51%), Gaps = 1/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++ G SRR+ E I RV+VNG S D + VDG + + + Sbjct: 6 MRLQKYLSECGETSRRKAEIWITAGRVQVNGRPARLGQSVHPSKDLVTVDGRAVAPSPK- 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G VTT D R V D L + +RV +GRLD ++EGLLLLT+DG A Sbjct: 65 VYIALNKPRGYVTTLHDELDRRCVTDLLKGVETRVYPIGRLDRDSEGLLLLTDDGAFANA 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P ++Y V +V ++++ L+ GI + G +VT+ + + + L Sbjct: 125 LTHPRHHVPKIYHVSVRPRVTEEQVARLQNGIELDGRMTAPAKVTVLRSGSDRSVLELVL 184 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 EG+NR+I+++ E +V RL R++ G +LG L +G RE++ K +R Sbjct: 185 YEGRNRQIRRMCEALGLEVARLSRVAVGTVKLGGLRSGQWRELTDKEVRAL 235 >gi|315223141|ref|ZP_07865009.1| conserved hypothetical protein [Streptococcus anginosus F0211] gi|315187830|gb|EFU21577.1| conserved hypothetical protein [Streptococcus anginosus F0211] Length = 241 Score = 283 bits (726), Expect = 2e-74, Method: Composition-based stats. Identities = 80/233 (34%), Positives = 126/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA +GIASRR+ E +I Q V VNG ++ A + S D +EV G P+ E Sbjct: 1 MRINKYIAHSGIASRRKAEELIKQGLVTVNGQVVRELATTIKSGDRVEVSGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVTDDKGRPTVVDLLPNVTERIYPVGRLDWDTSGALILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G D++ L L KG+ + G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVADKEVLRPLTKGVEVDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE +V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTQFGHLNLTGLRPGEARRLNKKEVSQL 232 >gi|258543615|ref|YP_003189048.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-01] gi|256634693|dbj|BAI00669.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-01] gi|256637749|dbj|BAI03718.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-03] gi|256640803|dbj|BAI06765.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-07] gi|256643858|dbj|BAI09813.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-22] gi|256646913|dbj|BAI12861.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-26] gi|256649966|dbj|BAI15907.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-32] gi|256652956|dbj|BAI18890.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-01-42C] gi|256656010|dbj|BAI21937.1| tRNA/rRNA pseudouridine synthase [Acetobacter pasteurianus IFO 3283-12] Length = 258 Score = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 140/259 (54%), Positives = 180/259 (69%), Gaps = 1/259 (0%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + +R++K +AR+G+ASRR+ ERMI + R+++NG + A V + D ++VDG P Sbjct: 1 MTQETRGERIAKWLARSGVASRRDAERMIEENRIRLNGQPVTHPATFVTNGDIVQVDGEP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + ERTRLW YHKP GLVTTH DP+GR TVF +LP RVISVGRLD+N+EGLLLLTN Sbjct: 61 VSAPERTRLWRYHKPDGLVTTHKDPEGRPTVFASLPEGMPRVISVGRLDLNSEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LAR LELPS WLR YRVR G VD+++L L +G V G+ YG + LD++KG N Sbjct: 121 DGELARRLELPSNGWLRRYRVRVFGVVDEERLASLAQGCVFDGVRYGPIHAVLDSRKGDN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 AW+TV L+EGKNREI+KV N V+RLIR SYGPFQLGTL EVS ++LR+QL Sbjct: 181 AWLTVSLKEGKNREIRKVMAGMNLHVSRLIRTSYGPFQLGTLQRRELEEVSPRVLRDQL- 239 Query: 247 PHLLEEAQVNLDAPIYSSE 265 P E+A AP ++ Sbjct: 240 PKATEKAPPARRAPAKQAD 258 >gi|199598710|ref|ZP_03212124.1| 16S rRNA uridine-516 pseudouridylate synthase related enzyme [Lactobacillus rhamnosus HN001] gi|229552173|ref|ZP_04440898.1| pseudouridylate synthase [Lactobacillus rhamnosus LMS2-1] gi|258508377|ref|YP_003171128.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus rhamnosus GG] gi|258539588|ref|YP_003174087.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus rhamnosus Lc 705] gi|199590398|gb|EDY98490.1| 16S rRNA uridine-516 pseudouridylate synthase related enzyme [Lactobacillus rhamnosus HN001] gi|229314475|gb|EEN80448.1| pseudouridylate synthase [Lactobacillus rhamnosus LMS2-1] gi|257148304|emb|CAR87277.1| Ribosomal large subunit pseudouridine synthase B [Lactobacillus rhamnosus GG] gi|257151264|emb|CAR90236.1| Ribosomal large subunit pseudouridine synthase B [Lactobacillus rhamnosus Lc 705] gi|259649691|dbj|BAI41853.1| pseudouridylate synthase [Lactobacillus rhamnosus GG] Length = 248 Score = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 123/233 (52%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR E +IA VKVNG + + + D +EVDGVP+ E Sbjct: 6 ERLQKVIANAGIASRRHAETLIASGHVKVNGHVTTEMGIKIGPHDTVEVDGVPI-GKEAK 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G+++ D GR V D + R+ VGRLD +T GLL++TNDG LA Sbjct: 65 RYFLFYKPRGVISAVEDNKGRKVVTDYFEDVQERLYPVGRLDYDTSGLLVMTNDGELANH 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + Y + G ++ L LK G+ I G +V + + + A V + Sbjct: 125 LMHPRYALEKKYVAKVEGIPNRPALAPLKTGVSIDGKMTAPAKVEILSTDKAKKTAIVAL 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + +G N ++KK+F+ + V +L R +YG L L G R + + L + Sbjct: 185 TIHQGMNHQVKKMFKAVGFPVIKLSREAYGNLTLAGLQPGEHRPIKPQELHDL 237 >gi|302871660|ref|YP_003840296.1| pseudouridine synthase [Caldicellulosiruptor obsidiansis OB47] gi|302574519|gb|ADL42310.1| pseudouridine synthase [Caldicellulosiruptor obsidiansis OB47] Length = 236 Score = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 76/228 (33%), Positives = 120/228 (52%), Gaps = 2/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A+ G+ASRR+ E +I Q RVKVNG + + + D +EVDG + Sbjct: 1 MRLQKFMAQCGVASRRKCEEIIQQGRVKVNGKTVNQLGFKIDPEKDIVEVDGERISLQSH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G++++ D GR TV D + + RV VGRLD +T GL+LLTNDG A Sbjct: 61 KVYIMLNKPFGVISSAKDEKGRKTVVDLVKDKVNVRVFPVGRLDFDTTGLILLTNDGEFA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y G ++++ +KG++I G + + Q NA V + Sbjct: 121 YKVTHPKHDIEKTYIALIKGIPSKEEIERFEKGLLIDGKMTAPAKFKVLKQINGNAMVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+NR+I+K+ + KV +L RI+ G QLG L G + ++ Sbjct: 181 KIHEGRNRQIRKMCDMIGHKVLKLKRIAIGKLQLGKLKEGEFVFLDRE 228 >gi|229543960|ref|ZP_04433019.1| pseudouridine synthase [Bacillus coagulans 36D1] gi|229325099|gb|EEN90775.1| pseudouridine synthase [Bacillus coagulans 36D1] Length = 245 Score = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 83/233 (35%), Positives = 135/233 (57%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ SRR+ E++I + +VKVNG + V +D IEV+G+PL + E+ Sbjct: 2 ERLQKVIAQAGVTSRRKAEQLILEGKVKVNGETVRTLGTKVSQSDKIEVEGIPLEREEK- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+++ SD GR TV D +RV VGRLD +T GLL++TNDG A + Sbjct: 61 VYYLFYKPRGVISAVSDDKGRKTVSDYFRDAGARVYPVGRLDYDTSGLLVVTNDGEFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y R G + +L L+KGI ++ + L + ++ A V + Sbjct: 121 LMHPRFEIDKTYIARLSGIPSRQELKQLEKGIRLKDGMTAPARAKLLSMDKRKKKAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE + V +L R +YG L L AG RE++ ++ Sbjct: 181 TIHEGRNRQVRRMFEHLGYPVEKLRREAYGMLTLKGLNAGEKRELTPHEVKTL 233 >gi|260583963|ref|ZP_05851711.1| ribosomal large subunit pseudouridine synthase B [Granulicatella elegans ATCC 700633] gi|260158589|gb|EEW93657.1| ribosomal large subunit pseudouridine synthase B [Granulicatella elegans ATCC 700633] Length = 241 Score = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 77/234 (32%), Positives = 124/234 (52%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AGIASRR+ E I + RVKVNG ++ V +D IEVDG+P+ E Sbjct: 2 ERLQKVMAHAGIASRRKCEAFIEEGRVKVNGTVVRELGYKVSQSDKIEVDGIPI-YKEEP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++++KP ++++ +D GR+ + D I RV VGRLD +T GL+LLTNDG A + Sbjct: 61 VYFMFYKPKSVLSSVTDDRGRTVISDYFKDIPQRVYPVGRLDYDTTGLILLTNDGEFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 + P + Y + G + L++GI I G + + + + V++ Sbjct: 121 MTHPKHHVEKKYIAKVKGVPTPRHMRQLERGIWIDGKKTSKAVARILSVDTEKNTGIVSL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG N ++KK+FE V +L R +G L L G RE+ +++ + Sbjct: 181 TIHEGWNHQVKKMFEAVELPVQKLKREEFGFLTLENLRPGDYRELRAFEVQKLV 234 >gi|325690957|gb|EGD32957.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK115] Length = 242 Score = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 83/233 (35%), Positives = 132/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q +V +NG ++ A NV S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIRQGKVSINGQVVRELATNVKSGDRVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVVDLLPQVKERIYPVGRLDWDTSGILILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTV 191 + P + +VY R G +++ L L +GI I+G ++ + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTQPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+F+ +V++L R +G L L G R++SKK + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKKEVSQL 232 >gi|312868359|ref|ZP_07728559.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus parasanguinis F0405] gi|322390066|ref|ZP_08063601.1| ribosomal large subunit pseudouridine synthase B [Streptococcus parasanguinis ATCC 903] gi|311096104|gb|EFQ54348.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus parasanguinis F0405] gi|321143193|gb|EFX38636.1| ribosomal large subunit pseudouridine synthase B [Streptococcus parasanguinis ATCC 903] Length = 243 Score = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 77/233 (33%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ A + + D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATIIKTGDQVEVEGTPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR+TV D L + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRTTVVDLLSQVPERIYPVGRLDWDTSGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTV 191 + P + +VY R G +++ L L +G+ I G ++ + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGIANKENLRPLTRGVTIDGKKTKPATYEILKVDVEKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G + L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLLVDKLSRTQFGNLDVSGLRPGEYRRLNKKEISQL 232 >gi|296875977|ref|ZP_06900036.1| ribosomal large subunit pseudouridine synthase B [Streptococcus parasanguinis ATCC 15912] gi|296433052|gb|EFH18840.1| ribosomal large subunit pseudouridine synthase B [Streptococcus parasanguinis ATCC 15912] Length = 243 Score = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 77/233 (33%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ A + + D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATIIKTGDQVEVEGTPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR+TV D L + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRTTVVDLLSQVPERIYPVGRLDWDTSGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTV 191 + P + +VY R G +++ L L +G+ I G ++ + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGIANKENLRPLTRGVTIDGKKTKPATYEILKVDVEKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G + L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLLVDKLSRTQFGNLDVSGLRPGEYRRLNKKEISQL 232 >gi|169351006|ref|ZP_02867944.1| hypothetical protein CLOSPI_01783 [Clostridium spiroforme DSM 1552] gi|169292068|gb|EDS74201.1| hypothetical protein CLOSPI_01783 [Clostridium spiroforme DSM 1552] Length = 241 Score = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 75/233 (32%), Positives = 124/233 (53%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA +G SRR+ E +I Q +V+VNG ++ V D + V+G P+ E Sbjct: 2 ERLQKVIAASGYTSRRKAEDLIVQGKVEVNGQVVRELGTKVKKGDIVTVEGKPIVG-ENK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++++KP G V T D R V D + R+ VGRLD +T GL++++NDG A + Sbjct: 61 VYYVFYKPKGCVCTLDDEFDRPIVTDYFTDVKERIYPVGRLDFDTTGLIIMSNDGEFANM 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + ++Y V G ++ LN L+KGI ++G+ ++ + + + + Sbjct: 121 IMHPRSHLEKIYEVSVKGLINGQTLNKLEKGIYLEGVKTLPCKIKVVNKDIEHKTTMLKI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 L EGKNR++KK+FE V RL R+S G L L G R + + +++ Sbjct: 181 KLVEGKNRQVKKMFESVGHPVKRLHRVSIGCVNLKGLTPGKYRILKPQEVKDL 233 >gi|309389185|gb|ADO77065.1| ribosomal large subunit pseudouridine synthase B [Halanaerobium praevalens DSM 2228] Length = 236 Score = 283 bits (725), Expect = 3e-74, Method: Composition-based stats. Identities = 73/232 (31%), Positives = 124/232 (53%), Gaps = 2/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E +IA+ RVKVNG ++ + + VDG + E+ Sbjct: 2 ERLQKVMAHAGVASRRKSEEIIAEGRVKVNGQVITEMGYKIDPAQAEVMVDGQVIS-EEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G +TT SDP+ R TV D +P + R+ GRLD ++ GLL++TNDG L Sbjct: 61 KVYILLNKPEGYITTVSDPENRPTVMDLIPDLNQRLYPAGRLDFDSSGLLIMTNDGDLTY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + YRV G+++++ + G+VI G +++ KG + Sbjct: 121 KLTHPKKEVDKKYRVLIQGKLEEEDFEKFEAGMVIDGQETAPAEISNVDYKGEQTEFDIV 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++ + + V L RI + L + G R +++ + Sbjct: 181 IHEGRNRQVRRMAKIAGFSVISLKRIGFAFLTLTGVEEGKFRYLTEAEVENL 232 >gi|228476518|ref|ZP_04061208.1| ribosomal large subunit pseudouridine synthase B [Streptococcus salivarius SK126] gi|228251939|gb|EEK10985.1| ribosomal large subunit pseudouridine synthase B [Streptococcus salivarius SK126] Length = 241 Score = 283 bits (725), Expect = 3e-74, Method: Composition-based stats. Identities = 79/233 (33%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I + RV +NG + A V + D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKEGRVTLNGKTVTELATIVKNGDIVEVNGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD R TV D +P + R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDEKNRKTVIDLMPHVKERIYPVGRLDWDTTGLLILTNDGDFTDK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIKVDHEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLDLTGLRPGESRRLNKKEISQL 232 >gi|325568269|ref|ZP_08144636.1| ribosomal small subunit pseudouridine synthase A [Enterococcus casseliflavus ATCC 12755] gi|325158038|gb|EGC70191.1| ribosomal small subunit pseudouridine synthase A [Enterococcus casseliflavus ATCC 12755] Length = 250 Score = 283 bits (725), Expect = 3e-74, Method: Composition-based stats. Identities = 69/245 (28%), Positives = 116/245 (47%), Gaps = 8/245 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDG 64 ++ E P R+ K +A G SR+EV+++I + V VNG +++ V+ T D + +G Sbjct: 4 VLYERKKPMRLDKFLADMGYGSRKEVKQLIKKGLVTVNGQVIKSDKAQVLETQDTVCFEG 63 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLL 122 P+ + L +KP G+++ D TV D + + VGRLD +TEG L Sbjct: 64 EPIVYQSQFYY-LLNKPAGVISATVD-SYEETVLDLFSEEAFREDLFPVGRLDKDTEGFL 121 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-- 180 L+TNDGGLA L P + Y + G + + KGI + G ++ + Sbjct: 122 LITNDGGLAHQLLSPKKHVEKEYYAQVEGIMTAEDQKTFAKGIKLDGEWTLPAELQILNV 181 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 + + + + + L EGK ++K++ +V L RI G L L G RE++ + Sbjct: 182 DEDETRSEIKLILHEGKFHQVKRMVHAVGKEVVYLKRIRMGGLSLPDDLALGEYRELTPE 241 Query: 240 ILREQ 244 L + Sbjct: 242 ELAKL 246 >gi|168180387|ref|ZP_02615051.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum NCTC 2916] gi|168184870|ref|ZP_02619534.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum Bf] gi|226949054|ref|YP_002804145.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A2 str. Kyoto] gi|182668845|gb|EDT80823.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum NCTC 2916] gi|182672066|gb|EDT84027.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum Bf] gi|226841110|gb|ACO83776.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A2 str. Kyoto] Length = 236 Score = 283 bits (725), Expect = 3e-74, Method: Composition-based stats. Identities = 71/229 (31%), Positives = 121/229 (52%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I + RV+VNGI ++ ++S D I+VDG + E Sbjct: 3 ERLQKYMASCGVASRRKCEDIILEGRVEVNGIRIKELGTKIISGEDIIKVDGNIIEPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G V T D R T+ D + + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKDRKTILDLV-KVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++ Y+ + G + +D + L KKGI I + + + + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGDYITAPATLEILKISKDTSEIIIK 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGKNR+++++ + V L RIS G L G R ++KK + Sbjct: 182 IHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKNDLKLGEWRYLTKKEI 230 >gi|327490097|gb|EGF21885.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK1058] Length = 242 Score = 283 bits (725), Expect = 3e-74, Method: Composition-based stats. Identities = 83/233 (35%), Positives = 133/233 (57%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q +V +NG ++ A+NV S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIKQGKVSINGQVVRELAINVKSGDRVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVVDLLPQVKERIYPVGRLDWDTSGILILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTV 191 + P + +VY R G +++ L L +GI I+G ++ + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTQPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+F+ +V++L R +G L L G R++SKK + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKKEVSQL 232 >gi|187779593|ref|ZP_02996066.1| hypothetical protein CLOSPO_03189 [Clostridium sporogenes ATCC 15579] gi|187773218|gb|EDU37020.1| hypothetical protein CLOSPO_03189 [Clostridium sporogenes ATCC 15579] Length = 236 Score = 283 bits (725), Expect = 3e-74, Method: Composition-based stats. Identities = 72/229 (31%), Positives = 124/229 (54%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I + RV+VNGI ++ ++S D I+VDG ++ E Sbjct: 3 ERLQKYMASCGVASRRKCEDIILEGRVEVNGIKIKEVGTKIISGKDIIKVDGNIIKPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G + T D GR T+ D + + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYLCTAKDEKGRKTILDLV-KVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++ Y+ + G + +D + L KKGI I + + + + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTMKKDHIELFKKGIDIGDYITAPAALEIFKTNKDTSEIIIK 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGKNR+++++ + V L RIS G G L G R ++KK + Sbjct: 182 IHEGKNRQVRRMCKSIGHPVIDLDRISIGNISKGDLKLGEWRYLTKKEI 230 >gi|289550733|ref|YP_003471637.1| Ribosomal large subunit pseudouridine synthase B [Staphylococcus lugdunensis HKU09-01] gi|289180265|gb|ADC87510.1| Ribosomal large subunit pseudouridine synthase B [Staphylococcus lugdunensis HKU09-01] Length = 245 Score = 283 bits (725), Expect = 3e-74, Method: Composition-based stats. Identities = 73/231 (31%), Positives = 127/231 (54%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +VKVNG ++ V +D +EV+G+ + + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLITEGKVKVNGEVVTELGTKVKPSDQVEVEGIKMEQEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L+HKP ++T+ SD GR+ V D + +R+ VGRLD +T G+LLLTNDG + Sbjct: 66 -YILFHKPAQVITSVSDDRGRTVVTDYFKDLDTRIYPVGRLDYDTSGVLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 + P + Y + G + ++++ L+ GI ++ V + Q V + Sbjct: 125 MTHPRYHIPKTYVAKLKGYLMREEVKALEAGIELEDGLTQPATVKIKRQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+++++FE F VN+L RI +G L L AG R ++ ++ Sbjct: 185 TISEGRNRQVRRMFEHFGHSVNKLTRIQFGSLNLKGLNAGEGRVLTPHEVK 235 >gi|308174106|ref|YP_003920811.1| pseudouridine synthase [Bacillus amyloliquefaciens DSM 7] gi|307606970|emb|CBI43341.1| pseudouridine synthase [Bacillus amyloliquefaciens DSM 7] gi|328552765|gb|AEB23257.1| pseudouridine synthase [Bacillus amyloliquefaciens TA208] gi|328912437|gb|AEB64033.1| pseudouridine synthase [Bacillus amyloliquefaciens LL3] Length = 244 Score = 283 bits (725), Expect = 3e-74, Method: Composition-based stats. Identities = 74/233 (31%), Positives = 126/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I + +VKVNG ++ V V +D IEV+G+ + + E Sbjct: 2 ERLQKVIAHAGVASRRKAEELIKEGKVKVNGKVITELGVKVTGSDQIEVNGLKVEREE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D GR V D + R+ +GRLD +T GLLLLTNDG A Sbjct: 61 VYFLLYKPRGVISAADDDKGRKVVTDFFKEVPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G ++ L L++GI ++ + + + ++ + + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPSKELLRKLERGIQLEEGKTAPARAKMLSLDKRKQTSIIQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE V +L R Y L L G RE++ ++ Sbjct: 181 TIHEGRNRQVRRMFEAIGHDVLKLKREEYAFLDLRGLHTGDARELTPHEVKRL 233 >gi|154247023|ref|YP_001417981.1| RNA-binding S4 domain-containing protein [Xanthobacter autotrophicus Py2] gi|154161108|gb|ABS68324.1| RNA-binding S4 domain protein [Xanthobacter autotrophicus Py2] Length = 620 Score = 283 bits (725), Expect = 3e-74, Method: Composition-based stats. Identities = 153/376 (40%), Positives = 210/376 (55%), Gaps = 34/376 (9%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R++KV+ARAG+ SRRE+E I RV VNG +L AV V + D I VDG PL + E Sbjct: 28 EAERIAKVVARAGLGSRREIEEWIEAGRVAVNGEVLTTPAVTVTAEDAITVDGAPLPERE 87 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RTRL++YHKP G+VTT+ DP+GR+T+F+ LP R++SVGRLD+N+EGLLLLTNDGGLA Sbjct: 88 RTRLFIYHKPRGVVTTNRDPEGRTTLFEILPQGLPRLVSVGRLDLNSEGLLLLTNDGGLA 147 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 RVLELP T WLR YRVR +G+V+Q +L+ L KGI + G+ YG ++ LD +G+NAW+TV Sbjct: 148 RVLELPETGWLRRYRVRANGEVNQAQLDSLLKGITVDGVEYGPIEAELDRVQGANAWITV 207 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 LREGKNREI+ VF +VNRLIR+SYGPFQLG + G EV ++LR+Q+G L Sbjct: 208 SLREGKNREIRNVFGALGLQVNRLIRVSYGPFQLGDVPEGGIEEVRTRVLRDQIGNDLAA 267 Query: 252 EAQVNL----------DAP--------------------IYSSETLVRDRPNIISEVPDD 281 A + +AP + + R + + V D Sbjct: 268 AAGADFTGLLVERELEEAPPRVALRPAGKRQAAAEKGGTLKAPARRSRQDEDFDAPVEDV 327 Query: 282 FTRMKKNSSQKNGLSKQKKLATPVHRRNLAS----NVWMAKGIHSSFLSDSGQREENHRR 337 + ++ + V R + V K + + +G R + Sbjct: 328 IRPAGPRTRRRMSDENAVESRGSVADRKGRTVKVERVVAPKADAPTRGARTGARPGARKS 387 Query: 338 SPSFPSKRSLRRTSAK 353 R RR A+ Sbjct: 388 DRDEAGARPFRRGPAE 403 >gi|312862494|ref|ZP_07722736.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus vestibularis F0396] gi|322517477|ref|ZP_08070350.1| ribosomal large subunit pseudouridine synthase B [Streptococcus vestibularis ATCC 49124] gi|311101899|gb|EFQ60100.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus vestibularis F0396] gi|322123959|gb|EFX95518.1| ribosomal large subunit pseudouridine synthase B [Streptococcus vestibularis ATCC 49124] Length = 241 Score = 283 bits (724), Expect = 3e-74, Method: Composition-based stats. Identities = 79/233 (33%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I + RV +NG + A V S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKEGRVTLNGKTVTELATIVKSGDIVEVNGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD R TV D +P + R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDEKNRKTVIDLMPHVKERIYPVGRLDWDTTGLLILTNDGDFTDK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G ++ L L +G+V+ G + + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLIRGVVLDGKKTQPARYNIIKVDHEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLDLTGLRPGESRRLNKKEISQL 232 >gi|170078952|ref|YP_001735590.1| RNA pseudouridylate synthase [Synechococcus sp. PCC 7002] gi|169886621|gb|ACB00335.1| RNA pseudouridylate synthase [Synechococcus sp. PCC 7002] Length = 259 Score = 283 bits (724), Expect = 3e-74, Method: Composition-based stats. Identities = 90/259 (34%), Positives = 137/259 (52%), Gaps = 12/259 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV K++AR GIASRR E++I RV +NG ++ D + VDG PL+ ER Sbjct: 3 ERVQKILARWGIASRRGAEKLILAGRVTLNGKPVQLGDQADPEGDRLCVDGKPLKATERP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 R +L HKP G+V+T +DP GRSTV D LP + + +GRLD + G LLLTNDG Sbjct: 63 RHYYYLIHKPKGVVSTCADPKGRSTVLDLLPPPLRQGKGIHPIGRLDAQSTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L P + YRV G+V + L+ ++G+++ Q+ L T Sbjct: 123 NFTLALTHPRYHIPKTYRVWLKGKVPEHVLDQWRQGVMLGDRRTLPTQIHLKTITQDKTC 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + L EG+NR+I++V E + V +L R++ G LG L G R ++K +++ Sbjct: 183 IDIMLTEGRNRQIRRVAEQLGFPVVKLHRLAIGNLHLGDLQRGQARPLTKAEIKQL---- 238 Query: 249 LLEEAQVNLDAPIYSSETL 267 +Q N + P +SS + Sbjct: 239 ---RSQYNSNFPFHSSAPV 254 >gi|148379772|ref|YP_001254313.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A str. ATCC 3502] gi|153931029|ref|YP_001384070.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A str. ATCC 19397] gi|153937131|ref|YP_001387610.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A str. Hall] gi|148289256|emb|CAL83352.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A str. ATCC 3502] gi|152927073|gb|ABS32573.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A str. ATCC 19397] gi|152933045|gb|ABS38544.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A str. Hall] Length = 236 Score = 283 bits (724), Expect = 3e-74, Method: Composition-based stats. Identities = 70/229 (30%), Positives = 120/229 (52%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I + RV+VNGI ++ ++S D I+VDG + E Sbjct: 3 ERLQKYMASCGVASRRKCEDIILEGRVEVNGIKIKELGTKIISGKDIIKVDGNIIEPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G V T D R T+ D + + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKDRKTILDLV-KVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++ Y+ + G + +D + L KKGI I + + + + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGDYLTAPATLEILKINKDTSEIIIK 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGKNR+++++ + V L RIS G L G R ++ K + Sbjct: 182 IHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKSDLKLGEWRYLTNKEI 230 >gi|154686561|ref|YP_001421722.1| RluB [Bacillus amyloliquefaciens FZB42] gi|154352412|gb|ABS74491.1| RluB [Bacillus amyloliquefaciens FZB42] Length = 244 Score = 283 bits (724), Expect = 3e-74, Method: Composition-based stats. Identities = 76/233 (32%), Positives = 126/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I + +VKVNG ++ V V +D IEV+G+ + + E Sbjct: 2 ERLQKVIAHAGVASRRKAEELIKEGKVKVNGKVITELGVKVTGSDQIEVNGLKVEREE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D GR V D + R+ +GRLD +T GLLLLTNDG A Sbjct: 61 VYFLLYKPRGVISAADDDKGRKVVTDFFKEVPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G ++ L L++GI ++ + L + ++ + + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPSKELLRKLERGIQLEEGKTAPARAKLLSLDKRKQTSIIQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE V +L R Y L L G RE+S ++ Sbjct: 181 TIHEGRNRQVRRMFEAIGHDVLKLKREEYAFLDLRGLRTGDARELSPHEVKRL 233 >gi|322387120|ref|ZP_08060731.1| ribosomal large subunit pseudouridine synthase B [Streptococcus infantis ATCC 700779] gi|321142107|gb|EFX37601.1| ribosomal large subunit pseudouridine synthase B [Streptococcus infantis ATCC 700779] Length = 241 Score = 283 bits (724), Expect = 3e-74, Method: Composition-based stats. Identities = 79/233 (33%), Positives = 129/233 (55%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G +++ L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGIANKENLRPLTRGLEIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQL 232 >gi|206889194|ref|YP_002248392.1| ribosomal large subunit pseudouridine synthase B [Thermodesulfovibrio yellowstonii DSM 11347] gi|206741132|gb|ACI20189.1| ribosomal large subunit pseudouridine synthase B [Thermodesulfovibrio yellowstonii DSM 11347] Length = 237 Score = 283 bits (724), Expect = 3e-74, Method: Composition-based stats. Identities = 87/231 (37%), Positives = 133/231 (57%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+++ GIASRR E +I + RV VNG + D+I+VDG L K E Sbjct: 3 ERLQKILSDYGIASRRHAEELIKEGRVTVNGQIAVIGQKADPEKDYIKVDGKLLIKPEPK 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++KP ++T DP GR T+ D + I R+ VGRLD ++EGLLLLTNDG LA Sbjct: 63 VYYAFYKPRKVITALLDPQGRPTIRDFIKGIKFRIYPVGRLDFDSEGLLLLTNDGELAYK 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + PS+Q + Y V+ G V+ + + L+KGI I+G + V L + +N+W+ + L Sbjct: 123 VMHPSSQIEKTYMVKVDGIVEPETIEKLRKGIKIEGKLAVPVSVHLVKKLKANSWIKITL 182 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 EG+ R+I+K+ E V RLIRI+ +LG L G R ++K+ + + Sbjct: 183 HEGRKRQIRKMLERVGHPVIRLIRIAIDGVKLGDLKPGQLRPLTKEEIEKL 233 >gi|302875017|ref|YP_003843650.1| pseudouridine synthase [Clostridium cellulovorans 743B] gi|307690365|ref|ZP_07632811.1| pseudouridine synthase [Clostridium cellulovorans 743B] gi|302577874|gb|ADL51886.1| pseudouridine synthase [Clostridium cellulovorans 743B] Length = 235 Score = 283 bits (724), Expect = 3e-74, Method: Composition-based stats. Identities = 69/229 (30%), Positives = 120/229 (52%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A+ G+ASRR+ E +I Q +V VN ++ V D I+V+ V + + Sbjct: 2 ERLQKYMAKCGVASRRKCEELILQGKVSVNNTIITELGYKVEEENDIIKVNNVIIYPEAQ 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP+ +++ D GR V D + + R+ +GRLD ++ GLLLLTNDG + Sbjct: 62 KVYIALNKPVKYISSVKDEKGRKNVIDLI-DVKERIYPIGRLDYDSSGLLLLTNDGDIYN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y V +G +++ L+ GI I G +V ++ + A + + Sbjct: 121 NLMHPSKEVYKTYLVTVNGIPTIEEIKKLETGIDIGGYITAPAKVKIEKLDYNKASLKIQ 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGKNR+I+K+ + V L RI+ G +L + G R ++K+ + Sbjct: 181 IYEGKNRQIRKMCDSIGHSVIALKRIAIGDIKLKDIPQGKYRFLTKEEI 229 >gi|84394472|ref|ZP_00993186.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio splendidus 12B01] gi|84374913|gb|EAP91846.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio splendidus 12B01] Length = 364 Score = 283 bits (724), Expect = 3e-74, Method: Composition-based stats. Identities = 77/357 (21%), Positives = 152/357 (42%), Gaps = 20/357 (5%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + +R++K I+ G SRRE +++I RV +NG + V+ D +E+D P Sbjct: 1 MSQESQAKRLNKYISETGFCSRREADKLIDAGRVTINGKIP-EMGTKVLPGDDVEIDNKP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R E+ +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTN Sbjct: 60 VRSKEKPIYIALNKPTGITCT-TERDIPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTN 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + + Y VR + + L + G+ I +V +K + Sbjct: 118 DGDIVNKILRAGNNHEKEYVVRVDKPITTEFLKQMGAGVHILDTVTLPCKV----EKETK 173 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ E ++V +L R+ L + G R +S + + E L Sbjct: 174 FSFRITLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDEEITEILA 233 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT--- 303 + E + DA + R R +++ D + +++++N + + Sbjct: 234 --MCEGSVSTEDA-SKMNAKGQRIRKATDAKLFDSREENQTSTARRNQNENRTRTYRGNN 290 Query: 304 -------PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 P +R S+ + G ++ S+S N R+ S ++ + Sbjct: 291 ADEFRHAPNSKRGRNSSNGESGGNTENWKSNSRSERSNSDRNSSDRTRTDRNNNDRR 347 >gi|210622938|ref|ZP_03293443.1| hypothetical protein CLOHIR_01391 [Clostridium hiranonis DSM 13275] gi|210153904|gb|EEA84910.1| hypothetical protein CLOHIR_01391 [Clostridium hiranonis DSM 13275] Length = 238 Score = 283 bits (724), Expect = 4e-74, Method: Composition-based stats. Identities = 74/231 (32%), Positives = 120/231 (51%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R++K IA G+ASRR+ E +I RV +NG L+ + V T D +EVDGVP+ + E+ Sbjct: 1 MRINKYIASCGVASRRKAEELIISGRVTINGELITELSTTVDETKDIVEVDGVPINQEEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G +TT D R +V D L + RV VGRLD T GLL+LTNDG L Sbjct: 61 KVYILLNKPEGYITTVKDQFDRPSVLDILKDVDERVYPVGRLDYETSGLLILTNDGDLTY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 L P + + Y +G + ++ + G+ I+ ++ + ++ + + Sbjct: 121 KLTHPKHEVEKTYLAMVNGIITPEEKRRFENGLQIEDYTTAKAKLKIVKVNEEKNYSVCK 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + EG+NR+++K+ + N V L RI G + L G R ++ + + Sbjct: 181 ITIHEGRNRQVRKMCKAINHPVRNLRRIQMGRINIRGLEVGEYRNLTDEEV 231 >gi|310642601|ref|YP_003947359.1| pseudouridine synthase [Paenibacillus polymyxa SC2] gi|309247551|gb|ADO57118.1| Pseudouridine synthase [Paenibacillus polymyxa SC2] Length = 252 Score = 282 bits (723), Expect = 4e-74, Method: Composition-based stats. Identities = 83/235 (35%), Positives = 129/235 (54%), Gaps = 4/235 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A+AG+ASRR+ E +I V+VNG+ + D I V G P++ E+ Sbjct: 2 ERLQKILAQAGVASRRKCEELIQAGSVEVNGVTVTELGTKADPDQDMITVKGRPIK-TEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++T+ SDP+GR V D L + RV VGRLD +TEGLLLLTNDG A Sbjct: 61 KIYLMMNKPKGVITSASDPEGRKIVSDYLKGVKERVYPVGRLDYDTEGLLLLTNDGEFAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 +L P + Y G +L+ LKKGIV++ +V G + + Sbjct: 121 LLTHPKHHVPKTYVATVKGVPHGTELDKLKKGIVLEDGITAPAEVEYKDVDPDGKESVIQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + + EG+NR+++++FE + V RL RI++G L L G TR ++K + + Sbjct: 181 ITIYEGRNRQVRRMFEAISHPVIRLKRIAFGDLLLQNLKRGLTRPLTKDEINRLI 235 >gi|25011682|ref|NP_736077.1| ribosomal large subunit pseudouridine synthase B [Streptococcus agalactiae NEM316] gi|24413222|emb|CAD47301.1| Unknown [Streptococcus agalactiae NEM316] Length = 240 Score = 282 bits (723), Expect = 4e-74, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q V +NG ++ A V + D +E++G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIKQGMVTINGQVVNELATKVKAGDLVEIEGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVIDLLPQVKERIYPVGRLDWDTTGLLILTNDGDFTDK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + + V + Sbjct: 120 MIHPRNEIDKVYLARIKGIATKENLRPLTRGVVIDGKKTKPARYNIIKVDHEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEQVGLLVDKLSRTQFGTLDLTGLRPGEARRLNKKEISQL 232 >gi|218660352|ref|ZP_03516282.1| putative ribosomal large subunit pseudouridine synthase B [Rhizobium etli IE4771] Length = 296 Score = 282 bits (723), Expect = 4e-74, Method: Composition-based stats. Identities = 155/271 (57%), Positives = 188/271 (69%), Gaps = 11/271 (4%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + +R+SKV+ARAG+ASRR++ERMI + RV +NG +LE VNV D IEVDGVP Sbjct: 32 TESEAKAERISKVMARAGVASRRDIERMIMEGRVTLNGRVLETPVVNVTLADRIEVDGVP 91 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R ERTRLWLYHKP GLVTT++DP+GR+TVFDNLP RV+S+GRLDINTEGLLLLTN Sbjct: 92 IRGIERTRLWLYHKPAGLVTTNADPEGRATVFDNLPEELPRVMSIGRLDINTEGLLLLTN 151 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGGLAR LELP+T WLR YRVR HG++DQ+ L+ LK GI + G+ YG ++ TLD +GSN Sbjct: 152 DGGLARALELPATGWLRRYRVRAHGEIDQEALDKLKDGIAVDGVLYGSIEATLDRTQGSN 211 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W+T+GLREGKNREIK V VNRLIRISYGPFQLG L G EV G Sbjct: 212 VWITMGLREGKNREIKNVMGALGLDVNRLIRISYGPFQLGDLPEGHVIEVR--------G 263 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 PH A+ AP S + + + Sbjct: 264 PH---AARSARPAPDRGSPRRISMHRSTMRR 291 >gi|238019398|ref|ZP_04599824.1| hypothetical protein VEIDISOL_01262 [Veillonella dispar ATCC 17748] gi|237864097|gb|EEP65387.1| hypothetical protein VEIDISOL_01262 [Veillonella dispar ATCC 17748] Length = 242 Score = 282 bits (723), Expect = 4e-74, Method: Composition-based stats. Identities = 79/234 (33%), Positives = 135/234 (57%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K IA G+ASRR+ E +I + +V+VNG + V + D ++V+G L E+ Sbjct: 2 ERLQKFIASCGVASRRKAEELITEGKVQVNGRKVTELGVKIDPQKDKVKVNGQLL-AQEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++T+ SDP GR TV D + + R+ +GRLD+ TEGLLLLTNDG LA+ Sbjct: 61 PVYYLLNKPKGVITSVSDPQGRETVLDYIKNESKRIYPIGRLDLYTEGLLLLTNDGELAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L PS + Y VR G+V + L ++ G+ ++ + N V Sbjct: 121 NLTHPSKGVEKTYEVRIKGRVRDEDLQVIANGVKLEDGMTAPATIVDLGFDDHNGVHEVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+++++FE F ++++ L RI+Y LG + G++R+++ + ++ Sbjct: 181 ITIHEGRNRQVRRMFEHFGYRIHNLKRIAYAGLTLGGVKRGASRQLTIREVKAL 234 >gi|16124485|ref|NP_419049.1| S4 domain-containing protein [Caulobacter crescentus CB15] gi|221233169|ref|YP_002515605.1| ribosomal large subunit pseudouridine synthase B [Caulobacter crescentus NA1000] gi|13421359|gb|AAK22217.1| S4 domain protein [Caulobacter crescentus CB15] gi|220962341|gb|ACL93697.1| ribosomal large subunit pseudouridine synthase B [Caulobacter crescentus NA1000] Length = 421 Score = 282 bits (723), Expect = 4e-74, Method: Composition-based stats. Identities = 143/345 (41%), Positives = 188/345 (54%), Gaps = 8/345 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV+K +ARAG+ASRREVER+I RV +NG +L AV V D + VDG + + E T Sbjct: 35 ERVAKALARAGVASRREVERLIEAGRVAINGKVLTTPAVKVAPGDFLTVDGQLVAEREPT 94 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R++ YHKP GL+TTH+DP GR TVF LP R+ISVGRLD+N+EGLLLLTNDG L+R Sbjct: 95 RIFRYHKPTGLMTTHNDPKGRPTVFGALPKDLPRLISVGRLDLNSEGLLLLTNDGELSRA 154 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-----TQKGSNAW 188 LE PS W+R YR R G Q KL+ LK G+ I+G+ YG ++ LD G N W Sbjct: 155 LETPSNAWVRRYRARAFGDTTQAKLDKLKDGVTIEGVTYGAIEAKLDKAHEKAGGGKNVW 214 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +TV L EGKNRE++KV E KVNRLIR+SYGPF LGTL AG EV +++RE L Sbjct: 215 ITVSLSEGKNREVRKVLESIGLKVNRLIRLSYGPFALGTLAAGQIEEVGPRVIRELLEGV 274 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 + E D P ++ P + R + + L +K PV++ Sbjct: 275 VSPENMPTGDRPKFAGIANPTKAPGTEGG-GELQRRGAPRADRAVILDTPEKPEKPVYKP 333 Query: 309 NLASNVWMAK--GIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 A A G + +R + + Sbjct: 334 GWAKPKKKASPHGPPKGAGKGPAKGPAKAKRPAKSIESKFIDIGK 378 >gi|312277674|gb|ADQ62331.1| Pseudouridine synthase [Streptococcus thermophilus ND03] Length = 255 Score = 282 bits (723), Expect = 5e-74, Method: Composition-based stats. Identities = 81/246 (32%), Positives = 131/246 (53%), Gaps = 3/246 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + K+ + R++K IA AG+ASRR+ E +I + RV +NG + A V + D + Sbjct: 2 LGRKDTAEAVEKRMRINKYIAHAGVASRRKAEELIKEGRVTLNGKTVMELATIVKNGDIV 61 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 EV+G P+ E +L +KP G++++ SD R TV D +P + R+ VGRLD +T G Sbjct: 62 EVNGSPI-YNEEKVYYLLNKPRGVISSVSDEKNRKTVIDLMPHVKERIYPVGRLDWDTTG 120 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVT 178 LL+LTNDG + P + +VY R G ++ L L +G+VI G + Sbjct: 121 LLILTNDGDFTDKMIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTQPAHYNII 180 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + + EG+N ++KK+FE V++L R +G L L G +R +SK Sbjct: 181 KVDHEKNRSVVELTIHEGRNHQVKKMFESVGLIVDKLSRTRFGTLDLTGLRPGESRRLSK 240 Query: 239 KILREQ 244 K + + Sbjct: 241 KEISQL 246 >gi|227498494|ref|ZP_03928640.1| pseudouridine synthase [Acidaminococcus sp. D21] gi|226903952|gb|EEH89870.1| pseudouridine synthase [Acidaminococcus sp. D21] Length = 246 Score = 282 bits (723), Expect = 5e-74, Method: Composition-based stats. Identities = 86/240 (35%), Positives = 132/240 (55%), Gaps = 6/240 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++A +G+ASRRE E++I Q RV VNG + V TD I +DG PLRK ER Sbjct: 7 ERLQKMMAASGVASRRECEKIILQGRVTVNGKPVIELGTKVSPTDRILIDGRPLRK-ERH 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L +KP ++TT DP GR TV + + RV VGRLD TEGLL++TNDG LA+ Sbjct: 66 RYFLLNKPPAVMTTMKDPRGRRTVAELMDKERERVYPVGRLDFMTEGLLIMTNDGALAQG 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 + PS + Y V G V+++KL+ L+ GI + V + + + V Sbjct: 126 MTHPSYHINKTYEVVVDGHVEEEKLDKLRTGIRLCDGMTAPALVEVKRYDSRRDQSIFEV 185 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI---LREQLGPH 248 + EG+NR+++++ E + V +L R L + G+ RE++ L++ + H Sbjct: 186 TIHEGRNRQVRRMCEAIGYPVRKLKRTQVAFLSLQGVKKGAYRELTDDEVVHLKKLVMHH 245 >gi|254286468|ref|ZP_04961425.1| pseudouridine synthase family 1 protein [Vibrio cholerae AM-19226] gi|150423417|gb|EDN15361.1| pseudouridine synthase family 1 protein [Vibrio cholerae AM-19226] Length = 340 Score = 282 bits (723), Expect = 5e-74, Method: Composition-based stats. Identities = 82/342 (23%), Positives = 143/342 (41%), Gaps = 20/342 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG L V D + +DG PLR E Sbjct: 17 TEKRLNKFISETGYCSRREADKLIEQGRVTLNG-LQPEVGSKVTEQDEVCIDGKPLRSKE 75 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 76 RPIYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 133 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + + + + G+ I +VT +TQ + Sbjct: 134 NKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYS----FRI 189 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 190 VLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILAMCEDS 249 Query: 252 EAQVNLDAPIYSSETLVR--DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 S +T+ R D S + ++ ++N +G + Q+ P ++ Sbjct: 250 SGTEEASRVAQSGDTIKRATDAKLFDSRETNKESKARRNPKTYHGKNAQEFRHAPNSKKA 309 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 S S + +P SLR++ Sbjct: 310 QRRP-----------SSTSSNTASGSKPTPRTGGTLSLRKSK 340 >gi|150390402|ref|YP_001320451.1| pseudouridine synthase [Alkaliphilus metalliredigens QYMF] gi|149950264|gb|ABR48792.1| pseudouridine synthase [Alkaliphilus metalliredigens QYMF] Length = 234 Score = 282 bits (723), Expect = 5e-74, Method: Composition-based stats. Identities = 81/229 (35%), Positives = 119/229 (51%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K IA G+ASRR+ E +I Q V VN ++ + DH++V G ++ E Sbjct: 1 MRLQKYIANCGVASRRKSETLIQQGLVTVNDKVVTEMGFKLDVVEDHVKVRGKLIKPTEE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G VTT SD R TV D + + R+ VGRLD +T G LLLTNDG L Sbjct: 61 MIYILLNKPTGFVTTVSDQFDRKTVTDLV-GVSERIFPVGRLDYHTSGFLLLTNDGNLTF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VY + G+ KL+L +KG+ I+ ++++ V + Sbjct: 120 KLTHPKFKVSKVYIAKVKGKPSSSKLSLFEKGLEIEDYVTAPAKISIIKILPHEVIVKIT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 LREGKNR+++K+ + V L R S G QLG L G R +++K + Sbjct: 180 LREGKNRQVRKMCDAIGHPVVELNRESMGDLQLGDLEIGKWRHLTQKEI 228 >gi|194467810|ref|ZP_03073796.1| pseudouridine synthase [Lactobacillus reuteri 100-23] gi|194452663|gb|EDX41561.1| pseudouridine synthase [Lactobacillus reuteri 100-23] Length = 238 Score = 282 bits (723), Expect = 5e-74, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 125/233 (53%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +A AG+ASRR E++I Q +V VNG ++ V D I V+GVP+ E+ Sbjct: 2 ERLQKAMAEAGVASRRASEKLILQGKVAVNGKIVTELGTKVGVHDEIVVNGVPIHH-EQH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G++++ D GR TV D + I R+ VGRLD +T G+LLLTNDG LA Sbjct: 61 VYYLLNKPRGVISSAHDDKGRRTVVDIIHDADIDERIYPVGRLDYDTTGILLLTNDGALA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWV 189 L P + + Y + G V D+L L+ G+VI G + L + + V Sbjct: 121 NKLMHPKYEVEKTYVAKVEGIVKNDELKQLRLGVVIDGRKTKPAKSKLLNVDRAKKTSLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EG+N ++K +F+ V +L R +YGP L L G R + + ++ Sbjct: 181 QLTIHEGRNHQVKNMFKAVGHPVTKLHRETYGPLNLYGLQPGEFRALKPEEVQ 233 >gi|153829940|ref|ZP_01982607.1| pseudouridine synthase family 1 protein [Vibrio cholerae 623-39] gi|148874575|gb|EDL72710.1| pseudouridine synthase family 1 protein [Vibrio cholerae 623-39] Length = 340 Score = 282 bits (723), Expect = 5e-74, Method: Composition-based stats. Identities = 82/342 (23%), Positives = 143/342 (41%), Gaps = 20/342 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG L V D + +DG PLR E Sbjct: 17 TEKRLNKFISETGYCSRREADKLIEQGRVTLNG-LQPEVGSKVTEQDEVCIDGKPLRSKE 75 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 76 RPIYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 133 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + + + + G+ I +VT +TQ + Sbjct: 134 NKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYS----FRI 189 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 190 VLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILAMCEDS 249 Query: 252 EAQVNLDAPIYSSETLVR--DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 S +T+ R D S + ++ ++N +G + Q+ P ++ Sbjct: 250 SGTEEASRVAQSGDTIKRATDAKLFDSRESNKESKARRNPKTYHGKNAQEFRHAPNSKKA 309 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 S S + +P SLR++ Sbjct: 310 QRRP-----------SSTSSNTASGSKPTPRTGGTLSLRKSK 340 >gi|257877013|ref|ZP_05656666.1| pseudouridine synthase [Enterococcus casseliflavus EC20] gi|257811179|gb|EEV39999.1| pseudouridine synthase [Enterococcus casseliflavus EC20] Length = 257 Score = 282 bits (723), Expect = 5e-74, Method: Composition-based stats. Identities = 69/245 (28%), Positives = 115/245 (46%), Gaps = 8/245 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDG 64 ++ E P R+ K +A G SR+EV+++I + V VNG +++ V T D + +G Sbjct: 11 VLYERKKPMRLDKFLADMGYGSRKEVKQLIKKGLVTVNGQVIKSDKAQVQETQDTVCFEG 70 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLL 122 P+ + L +KP G+++ D TV D + + VGRLD +TEG L Sbjct: 71 EPIAYQSQFYY-LLNKPAGVISATVD-SYEETVLDLFSEEAFREDLFPVGRLDKDTEGFL 128 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-- 180 L+TNDGGLA L P + Y + G + + + KGI + G ++ + Sbjct: 129 LITNDGGLAHQLLSPKKHVEKEYYAQVEGIMTAEDQKIFAKGIKLDGEWTLPAELQILNV 188 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 + + + + L EGK ++K++ +V L RI G L L G RE++ + Sbjct: 189 DEDEMRSEIKLILHEGKFHQVKRMVHAVGKEVVYLKRIRMGGLSLPDDLALGEYRELTSE 248 Query: 240 ILREQ 244 L + Sbjct: 249 ELAKL 253 >gi|27382606|ref|NP_774135.1| hypothetical protein bll7495 [Bradyrhizobium japonicum USDA 110] gi|27355778|dbj|BAC52760.1| bll7495 [Bradyrhizobium japonicum USDA 110] Length = 696 Score = 282 bits (723), Expect = 5e-74, Method: Composition-based stats. Identities = 149/346 (43%), Positives = 205/346 (59%), Gaps = 19/346 (5%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + ++ + +R++K +ARAG+ASRR+ E M+ Q RV VNG ++ A+++ D + Sbjct: 365 RREDAPKPKKAGERIAKALARAGLASRRDAEEMVTQGRVAVNGRVINSPALDITPNDVVT 424 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VDG PL ERTRL+LYHKP GL+TTH DP+GR TVFDNLP R+ISVGRLD NTEGL Sbjct: 425 VDGKPLPPRERTRLFLYHKPRGLMTTHDDPEGRPTVFDNLPEGLPRLISVGRLDFNTEGL 484 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDGGLAR LELP T WLR YRVR HG V Q +L+ LK GI ++G+ YG + TL+ Sbjct: 485 LLLTNDGGLARTLELPDTGWLRRYRVRAHGDVTQAQLDELKAGIEVEGVKYGPIDATLER 544 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +G+N W+ +REGKNRE++ V +VNRLIR+SYGPFQLG + G E+ ++L Sbjct: 545 DQGANVWLVFAIREGKNREVRNVCAHLGLEVNRLIRVSYGPFQLGEVPEGQVEEIKSRVL 604 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 REQLG ++E++ D P ++ T DD +K + K + +K Sbjct: 605 REQLGDKVIEKSGAQFDVPQKAAAT-------------DDGAPHEKKPASKRAVINDRKG 651 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 + +R + +S +R + KR L Sbjct: 652 RRVLVQRTGSEEARERNEAEAS-GYGPPRRP-----KRGYHGKRDL 691 >gi|323141768|ref|ZP_08076638.1| pseudouridylate synthase [Phascolarctobacterium sp. YIT 12067] gi|322413757|gb|EFY04606.1| pseudouridylate synthase [Phascolarctobacterium sp. YIT 12067] Length = 241 Score = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 87/234 (37%), Positives = 132/234 (56%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAER 72 +R+ K++A AG+ASRRE E++I RV+VNG ++ + I VDG P+ E Sbjct: 3 ERLQKILAAAGVASRREAEKIITAGRVRVNGKVVTELGCKFDADKVRISVDGKPI-AQEA 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++++KP G+VTT SDP R ++ D + ++ RV VGRLD NTEGLLLLTNDG LA+ Sbjct: 62 KAYYMFYKPRGVVTTMSDPQNRRSIADFVQNLPERVFPVGRLDFNTEGLLLLTNDGALAQ 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L PS + + Y V+ G V Q+KL+ L+ G+ ++ V L Sbjct: 122 ALMHPSHEVNKTYFVKVPGIVPQEKLDQLRLGVKLEDGPTAPAIVNLRDYDHERGFTLFD 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+I+++ + + V L RI GP QL L G R +S++ L + Sbjct: 182 ITIHEGRNRQIRRMCDAIGFPVRDLKRIKLGPLQLQNLGRGKFRSLSEQELSQL 235 >gi|306834130|ref|ZP_07467250.1| ribosomal large subunit pseudouridine synthase B [Streptococcus bovis ATCC 700338] gi|304423703|gb|EFM26849.1| ribosomal large subunit pseudouridine synthase B [Streptococcus bovis ATCC 700338] Length = 241 Score = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 131/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I + V +NG ++ A V + D +EV+G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEDLIKRGLVTINGKVVTELATTVKAGDVVEVEGTPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP++ R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVVDLLPNVTERIYPVGRLDWDTTGLLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGLATKENLRPLTRGVVIDGKKTKPARYNIIKVDPEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R ++G L L G +R +SKK + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTNFGTLDLSGLRPGESRRLSKKEISQL 232 >gi|257866937|ref|ZP_05646590.1| pseudouridine synthase [Enterococcus casseliflavus EC30] gi|257873270|ref|ZP_05652923.1| pseudouridine synthase [Enterococcus casseliflavus EC10] gi|257800993|gb|EEV29923.1| pseudouridine synthase [Enterococcus casseliflavus EC30] gi|257807434|gb|EEV36256.1| pseudouridine synthase [Enterococcus casseliflavus EC10] Length = 257 Score = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 68/245 (27%), Positives = 116/245 (47%), Gaps = 8/245 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDG 64 ++ E P R+ K +A G SR+EV+++I + V VNG +++ V T D + +G Sbjct: 11 VLYERKKPMRLDKFLADMGYGSRKEVKQLIKKGLVTVNGQVIKSDKAQVQETQDTVCFEG 70 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLL 122 P+ + L +KP G+++ D TV D + + VGRLD +TEG L Sbjct: 71 EPIAYQSQFYY-LLNKPAGVISATVD-SYEETVLDLFSEEAFREDLFPVGRLDKDTEGFL 128 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-- 180 L+TNDGGLA L P + Y + G + + + KGI + G ++ + Sbjct: 129 LITNDGGLAHQLLSPKKHVEKEYYAQVEGIMTAEDQKIFAKGIKLDGEWTLPAELQILNV 188 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 ++ + + + L EGK ++K++ +V L RI G L L G RE++ + Sbjct: 189 DEEEMRSEIKLILHEGKFHQVKRMVHAVGKEVVYLKRIRMGGLSLPDDLALGEYRELTSE 248 Query: 240 ILREQ 244 + + Sbjct: 249 EMAKL 253 >gi|314936380|ref|ZP_07843727.1| pseudouridylate synthase [Staphylococcus hominis subsp. hominis C80] gi|313654999|gb|EFS18744.1| pseudouridylate synthase [Staphylococcus hominis subsp. hominis C80] Length = 245 Score = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 77/235 (32%), Positives = 136/235 (57%), Gaps = 3/235 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N +R+ K IA +G SRR+ E +I + +VKVNG ++ V S+D +EV+G+ + + Sbjct: 2 NKDLERLQKRIANSGYTSRRKAETLITEGKVKVNGQVVTELGTKVKSSDTVEVEGIKIEQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ L++KP ++T+ SD GR+ V D ++ +R+ VGRLD +T GLLLLTNDG Sbjct: 62 EDKI-YILFYKPTQVITSVSDDRGRTVVTDYFKNLEARIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNA 187 ++ P + Y + G + ++++ L++GI ++ QV + Q + + Sbjct: 121 FTNLMTHPRYHIQKKYVAKLKGYLMREEVKALEQGIELEDGFTQPAQVKIKNQNKEKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + EG+NR+++++FE FN V++LIRI +G L L AG R ++ ++ Sbjct: 181 LVEITISEGRNRQVRRMFEHFNHTVDKLIRIEFGNLNLKGLNAGEGRVLTPHEVK 235 >gi|312622236|ref|YP_004023849.1| pseudouridine synthase [Caldicellulosiruptor kronotskyensis 2002] gi|312202703|gb|ADQ46030.1| pseudouridine synthase [Caldicellulosiruptor kronotskyensis 2002] Length = 240 Score = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 77/227 (33%), Positives = 120/227 (52%), Gaps = 2/227 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K +A+ G+ASRR+ E +I Q RVKVNG L+ + V D +EVDG + + Sbjct: 6 RLQKFMAQCGVASRRKCEEIILQGRVKVNGELVNQLGFKVDPEKDVVEVDGKRISPQMQK 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++++ D GR TV D + + RV VGRLD +T GL+LLTNDG A Sbjct: 66 VYIMLNKPFGVISSAKDEKGRKTVVDLVKDKVNVRVFPVGRLDFDTTGLILLTNDGEFAY 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G + ++ +KG++I G + + NA V + Sbjct: 126 KVTHPKHDIEKTYIALIKGIPSKKEIERFEKGLLIDGKMTAPAKFKILKLINGNALVEIK 185 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+NR+I+K+ + KV +L RI+ G QLG L G + ++ Sbjct: 186 IHEGRNRQIRKMCDQIGHKVLKLKRIAIGKLQLGKLKEGEFVFLDRE 232 >gi|183179476|ref|ZP_02957687.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-3] gi|183012887|gb|EDT88187.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-3] Length = 340 Score = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 82/342 (23%), Positives = 143/342 (41%), Gaps = 20/342 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG L V D + +DG PLR E Sbjct: 17 TEKRLNKFISETGYCSRREADKLIEQGRVTLNG-LQPEVGSKVTEQDEVCIDGKPLRSKE 75 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 76 RPIYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 133 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + + + + G+ I +VT +TQ + Sbjct: 134 NKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYS----FRI 189 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 190 VLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILAMCEDS 249 Query: 252 EAQVNLDAPIYSSETLVR--DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 S +T+ R D S + ++ ++N +G + Q+ P ++ Sbjct: 250 SGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNSKKA 309 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 S S + +P SLR++ Sbjct: 310 QRRP-----------SSTSSNTASGSKPTPRTGGTLSLRKSK 340 >gi|251781834|ref|YP_002996136.1| ribosomal large subunit pseudouridine synthase B [Streptococcus dysgalactiae subsp. equisimilis GGS_124] gi|242390463|dbj|BAH80922.1| ribosomal large subunit pseudouridine synthase B [Streptococcus dysgalactiae subsp. equisimilis GGS_124] gi|323126647|gb|ADX23944.1| hypothetical protein SDE12394_02010 [Streptococcus dysgalactiae subsp. equisimilis ATCC 12394] Length = 240 Score = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 80/233 (34%), Positives = 129/233 (55%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V +NG ++ A V S D +E++G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTLNGQIITDLATTVKSGDVVEIEGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDT 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G +L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLELTGLRPGESRRLNKKEISQL 232 >gi|256847151|ref|ZP_05552597.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus coleohominis 101-4-CHN] gi|256715815|gb|EEU30790.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus coleohominis 101-4-CHN] Length = 240 Score = 282 bits (722), Expect = 6e-74, Method: Composition-based stats. Identities = 81/236 (34%), Positives = 127/236 (53%), Gaps = 6/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR E++IA V VNG ++ V +D + VDGVP+++ E Sbjct: 2 ERLQKVMAEAGVASRRASEKLIAAGHVAVNGQVVTELGTKVTKSDQVTVDGVPIKR-EPL 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLA 131 + +L +KP G+V+T D GR TV D L RV VGRLD +T G+LLLTNDG LA Sbjct: 61 KYYLLNKPRGVVSTAHDDKGRRTVVDILKDDDVEERVYPVGRLDYDTTGILLLTNDGALA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWV 189 L P + + Y + G + L L++G+++ G + + L + + V Sbjct: 121 NKLMHPKFEVEKTYIAKVKGVLSNHDLQKLRQGVIVDGRKTREAKSKLLEVADNRQSSRV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQ 244 + + EG ++K++ + V +L R SYGP L L + G RE+ +++ Sbjct: 181 RLTIHEGHYHQVKRMLKAVGHPVIKLHRESYGPLNLYGLASGGQWRELKPNEVKQL 236 >gi|227893487|ref|ZP_04011292.1| pseudouridylate synthase [Lactobacillus ultunensis DSM 16047] gi|227864712|gb|EEJ72133.1| pseudouridylate synthase [Lactobacillus ultunensis DSM 16047] Length = 238 Score = 282 bits (722), Expect = 6e-74, Method: Composition-based stats. Identities = 81/234 (34%), Positives = 129/234 (55%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E+MI RVKV+G ++ + V + +I VD P+ + E Sbjct: 3 ERLQKVIAEAGIASRRKAEKMITAGRVKVDGKVITKLGTKVDTFSNITVDDEPIER-ESL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+V+T SD GR TV D I R+ VGRLD +T GLLL+TNDG LA + Sbjct: 62 HTYLFYKPRGVVSTASDDKGRRTVVDYFEDIPYRLYPVGRLDYDTSGLLLMTNDGKLANL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G + +++ L G+ + +V + ++ V + Sbjct: 122 LMHPRNEVQKVYVAKIKGILTPEEIEGLTHGVKLDRFKAAPAKVKILKTDKRKDTQIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG ++K++F+ V +L R Y L +L +G RE+SK + + + Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVEKLSREKYAFLTLDSLTSGQYRELSKNEVDKLM 235 >gi|92118637|ref|YP_578366.1| pseudouridine synthase, Rsu [Nitrobacter hamburgensis X14] gi|91801531|gb|ABE63906.1| Pseudouridine synthase, Rsu [Nitrobacter hamburgensis X14] Length = 687 Score = 282 bits (722), Expect = 6e-74, Method: Composition-based stats. Identities = 148/322 (45%), Positives = 193/322 (59%), Gaps = 1/322 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T +R++KV+ARAG+ASRR+ E + Q RV VNG ++ A++V S D I +DG PL + Sbjct: 356 KKTGERIAKVMARAGVASRRDAEEWVTQGRVAVNGRVINSPALDVTSRDVITIDGQPLPE 415 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ERTRL+LYHKP GL+TTH+DP+GR TVFDNLP R+IS+GRLD NTEGLLLLTNDGG Sbjct: 416 RERTRLFLYHKPRGLMTTHADPEGRPTVFDNLPEGLPRLISIGRLDFNTEGLLLLTNDGG 475 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LAR LELP T WLR YRVR HG+V Q +L+ LK G+ + G+ YG + TL+ +G+N W+ Sbjct: 476 LARALELPDTGWLRRYRVRAHGEVTQAQLDALKNGVEVDGVKYGSIDATLERDQGANVWL 535 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 +REGKNRE++ V +VNRLIR+SYGPFQL + G EV ++LREQLG + Sbjct: 536 VFAIREGKNREVRNVMAHLGLEVNRLIRVSYGPFQLAEIAEGQVEEVKTRVLREQLGDKI 595 Query: 250 LEEAQVNLDAPIYSSETLVR-DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 A N +ET + R D K S ++ + + Sbjct: 596 AALANANFAGTAAEAETEPKLGRDGTPLRSKKDNKARAKRSLIEDRKGRNVVVQRTGSDE 655 Query: 309 NLASNVWMAKGIHSSFLSDSGQ 330 A N A G G Sbjct: 656 ARARNEAEANGYGPPRRPKRGY 677 >gi|90422426|ref|YP_530796.1| pseudouridine synthase Rsu [Rhodopseudomonas palustris BisB18] gi|90104440|gb|ABD86477.1| Pseudouridine synthase, Rsu [Rhodopseudomonas palustris BisB18] Length = 743 Score = 282 bits (722), Expect = 6e-74, Method: Composition-based stats. Identities = 142/319 (44%), Positives = 193/319 (60%), Gaps = 3/319 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R++KV++RAG+ SRR+ E + Q RV VNG ++ A++V + D I VDG PL E Sbjct: 421 AGERIAKVVSRAGLCSRRDAEEWVTQGRVAVNGRIINSPALDVTTRDVITVDGKPLPLPE 480 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RTRL++YHKP GL+TTH+DP+GR TVFD+LP R+IS+GRLD NTEGLLLLTNDGGLA Sbjct: 481 RTRLFMYHKPRGLMTTHADPEGRPTVFDHLPDGLPRLISIGRLDFNTEGLLLLTNDGGLA 540 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 R LELP T WLR YRVR HG+V Q +L+ LKKG+ + G+ YG + TL+ +G+N W+ Sbjct: 541 RTLELPDTGWLRRYRVRAHGEVTQGQLDELKKGVEVDGVKYGSIDATLERDQGANVWLVF 600 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 +REGKNRE++ V +VNRLIR+SYGPFQLG L G EV ++LREQLG + Sbjct: 601 AIREGKNREVRNVLAHLGLEVNRLIRVSYGPFQLGELEEGQVEEVKTRVLREQLGEKIAA 660 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 + + I S + D + V + R + + Q+ + RN A Sbjct: 661 ASGADFARQIPSKGDVDLDPVVVKKPV---YKRGTVEDRKGRRVLVQRTGSEEARARNEA 717 Query: 312 SNVWMAKGIHSSFLSDSGQ 330 + + Sbjct: 718 EANGYGPPRRPTRGYKGKR 736 >gi|331265750|ref|YP_004325380.1| ribosomal small subunit pseudouridine synthase A, 16S rRNA pseudouridylate synthase and related pseudouridylate synthases [Streptococcus oralis Uo5] gi|326682422|emb|CBZ00039.1| ribosomal small subunit pseudouridine synthase A, 16S rRNA pseudouridylate synthase and related pseudouridylate synthases [Streptococcus oralis Uo5] Length = 240 Score = 282 bits (722), Expect = 6e-74, Method: Composition-based stats. Identities = 80/233 (34%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G ++D L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYIARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE +V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGEARRLNKKEISQL 232 >gi|313893433|ref|ZP_07827005.1| pseudouridine synthase B, ribosomal large subunit [Veillonella sp. oral taxon 158 str. F0412] gi|313442074|gb|EFR60494.1| pseudouridine synthase B, ribosomal large subunit [Veillonella sp. oral taxon 158 str. F0412] Length = 242 Score = 282 bits (722), Expect = 6e-74, Method: Composition-based stats. Identities = 81/234 (34%), Positives = 135/234 (57%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K IA GIASRR+ E +I + +V+VNG + V + D ++V+G L E+ Sbjct: 2 ERLQKYIASCGIASRRKAEELITEGKVQVNGRKVTELGVKINPQKDKVKVNGQLL-AQEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++T+ SDP GR TV D + + R+ VGRLD+ TEGLLLLTNDG LA+ Sbjct: 61 PVYYLLNKPKGVITSVSDPQGRETVLDYIKNESKRIYPVGRLDLYTEGLLLLTNDGELAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L PS + Y VR G+V + L ++ G+ ++ + N V Sbjct: 121 NLTHPSKGVEKTYEVRIKGRVRDEDLQVIANGVKLEDGMTAPATIVDLGFDDHNGVHEVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+++++FE F ++++ L RI+Y LG + G++R+++ + ++ Sbjct: 181 ITIHEGRNRQVRRMFEHFGYRIHNLKRIAYAGLTLGGVKRGASRQLTIREVKAL 234 >gi|24380085|ref|NP_722040.1| putative pseudouridylate synthase B, large subunit [Streptococcus mutans UA159] gi|24378080|gb|AAN59346.1|AE015000_4 putative pseudouridylate synthase B, large subunit [Streptococcus mutans UA159] Length = 240 Score = 282 bits (722), Expect = 6e-74, Method: Composition-based stats. Identities = 84/233 (36%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V +NG ++ A V S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTLNGQMVTELATTVKSGDRVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ D GR TV D LP + R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVRDDKGRQTVVDLLPEVKERIYPVGRLDWDTSGLLILTNDGDFTDK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 + P + +VY R G +D L L KGIVI G + + ++ + + V + Sbjct: 120 MLHPRHEIDKVYVARVKGLASKDNLRPLTKGIVIDGKKTQPARYRIVKTDREKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLMVDKLSRTRFGTLDLSGLNPGEARRLNKKEISQL 232 >gi|312793758|ref|YP_004026681.1| pseudouridine synthase [Caldicellulosiruptor kristjanssonii 177R1B] gi|312180898|gb|ADQ41068.1| pseudouridine synthase [Caldicellulosiruptor kristjanssonii 177R1B] Length = 240 Score = 282 bits (722), Expect = 6e-74, Method: Composition-based stats. Identities = 76/227 (33%), Positives = 120/227 (52%), Gaps = 2/227 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K +A+ GIASRR+ E +I Q RVKVNG + + V D +EVDG + + Sbjct: 6 RLQKYMAQCGIASRRKCEEIILQGRVKVNGKTVNQLGFKVDPEKDVVEVDGKRITLQMQK 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++++ D GR TV D + + RV VGRLD +T GL+LLTNDG A Sbjct: 66 VYIMLNKPFGVISSAKDEKGRKTVVDLVKDKVNVRVFPVGRLDFDTTGLILLTNDGEFAY 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G ++++ +KG++I G + + NA V + Sbjct: 126 KVTHPKHDIEKTYIALIRGIPSKEEIERFEKGLLIDGKMTAPAKFKILKLINGNALVEIK 185 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+NR+I+K+ + +V +L R++ G QLG L G + K+ Sbjct: 186 IHEGRNRQIRKMCDQIGHEVLKLKRVAIGKLQLGKLKEGEFVFLDKE 232 >gi|298245869|ref|ZP_06969675.1| pseudouridine synthase [Ktedonobacter racemifer DSM 44963] gi|297553350|gb|EFH87215.1| pseudouridine synthase [Ktedonobacter racemifer DSM 44963] Length = 277 Score = 282 bits (722), Expect = 7e-74, Method: Composition-based stats. Identities = 79/247 (31%), Positives = 128/247 (51%), Gaps = 8/247 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 + +R+++ +A AG+ASRR E +IAQ RV+VNG ++ ++ D I VDG Sbjct: 31 NQEAQGERLARFLAHAGVASRRHAEELIAQGRVRVNGTIITAQGTRILPGQDRIVVDGKE 90 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLL 124 ++ L HKP G V+T SDP+GR+TV D LP R+ VGRLD +T GLLLL Sbjct: 91 IQAKAPHAYLLLHKPAGYVSTVSDPEGRATVLDLLPPELRSLRLYPVGRLDRDTSGLLLL 150 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYG--DMQVTL 179 TNDG A+ L P + + Y V+ G + L L+ G+ G Y + Sbjct: 151 TNDGAFAQHLTHPRYEKEKHYEVQVKGIPTERTLQALRDGVTFTEDDGKHYTSSPARTRK 210 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + ++W+T+ + EG+ R+++++ + + V +L R+ G L + G R ++ Sbjct: 211 LSSTEQSSWLTLTIHEGRKRQVRRMLQAVDHPVLQLRRVGLGSLTLRGVTPGKWRHLTPA 270 Query: 240 ILREQLG 246 ++ L Sbjct: 271 EVQTLLA 277 >gi|322373877|ref|ZP_08048412.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. C150] gi|321277249|gb|EFX54319.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. C150] Length = 241 Score = 282 bits (721), Expect = 7e-74, Method: Composition-based stats. Identities = 79/233 (33%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I + RV +NG + A V + D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKEGRVTLNGKTVTELATIVKNGDTVEVNGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD R TV D +P + R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDEKDRKTVIDLMPHVKERIYPVGRLDWDTTGLLILTNDGDFTDK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIVKVDHEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLDLTGLRPGESRRLNKKEISQL 232 >gi|319936458|ref|ZP_08010874.1| pseudouridine synthase [Coprobacillus sp. 29_1] gi|319808573|gb|EFW05125.1| pseudouridine synthase [Coprobacillus sp. 29_1] Length = 247 Score = 282 bits (721), Expect = 7e-74, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +IA RVKVNG ++ V D I +D L+ E Sbjct: 2 ERLQKAIAASGYTSRRKAEDLIAAGRVKVNGEVISELGFKVKKGDMIMIDDKALKG-ENK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++++KP G + + SD GRSTV D P + R+ VGRLD +T G+LL++NDG A + Sbjct: 61 VYYVFYKPKGCICSLSDELGRSTVIDYFPEVEERIYPVGRLDYDTTGVLLMSNDGEFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + PS+ +VY V G V + L+ L+KG+ ++G ++ + + + + + Sbjct: 121 MMHPSSHLEKVYEVSVSGLVQGETLHKLEKGVYLEGTKTLPCKIKVTHKDVEHKTTILMI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 L EGKNR++KK+FE KV RL R+ G L L G R + + ++E Sbjct: 181 KLVEGKNRQVKKMFEAMGHKVKRLHRLQVGTINLKGLTPGHYRLLKPQEVKEL 233 >gi|329113791|ref|ZP_08242562.1| Putative RNA pseudouridine synthase [Acetobacter pomorum DM001] gi|326696801|gb|EGE48471.1| Putative RNA pseudouridine synthase [Acetobacter pomorum DM001] Length = 258 Score = 282 bits (721), Expect = 7e-74, Method: Composition-based stats. Identities = 140/259 (54%), Positives = 180/259 (69%), Gaps = 1/259 (0%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + +R++K +AR+G+ASRR+ ERMI + R+++NG + A V + D ++VDG P Sbjct: 1 MTQETRGERIAKWLARSGVASRRDAERMIEENRIRLNGQPVTHPATFVTNGDIVQVDGEP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + ERTRLW YHKP GLVTTH DP+GR TVF +LP RVISVGRLD+N+EGLLLLTN Sbjct: 61 VSAPERTRLWRYHKPDGLVTTHKDPEGRPTVFASLPEGMPRVISVGRLDLNSEGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LAR LELPS WLR YRVR G VD+++L L +G V G+ YG + LD++KG N Sbjct: 121 DGELARRLELPSNGWLRRYRVRVFGVVDEERLASLAQGSVFDGVRYGPIHAVLDSRKGDN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 AW+TV L+EGKNREI+KV N V+RLIR SYGPFQLGTLL EVS ++LR+QL Sbjct: 181 AWLTVSLKEGKNREIRKVMAGMNLHVSRLIRTSYGPFQLGTLLRRELEEVSPRVLRDQL- 239 Query: 247 PHLLEEAQVNLDAPIYSSE 265 P E+ AP ++ Sbjct: 240 PKATEKTPTTQRAPAKQAD 258 >gi|323489657|ref|ZP_08094884.1| pseudouridine synthase [Planococcus donghaensis MPA1U2] gi|323396788|gb|EGA89607.1| pseudouridine synthase [Planococcus donghaensis MPA1U2] Length = 243 Score = 282 bits (721), Expect = 7e-74, Method: Composition-based stats. Identities = 82/231 (35%), Positives = 131/231 (56%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR+ E++I +V+VNG ++ V V ++D IEV+GV L K E+ Sbjct: 2 ERLQKVLAHAGVASRRKSEQLILDGKVRVNGKTIKELGVKVSNSDKIEVEGVQLEK-EQK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+++ SD R V D I R+ VGRLD +T GLL++TNDG A + Sbjct: 61 VYHLLYKPRGVISAVSDDKNRKVVTDFFEGIEKRIYPVGRLDYDTSGLLIMTNDGEFANM 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + + Y R G ++D L L++GI ++ +V L + A V + Sbjct: 121 LTHPKFEIDKTYVARLKGIPEKDDLRKLERGIKLEDGMTAPAKVKLLSGDKKTGKAIVQI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+++++FE + V +L R + L L AG +RE+S ++ Sbjct: 181 TIHEGRNRQVRRMFEAIGYPVQKLSREQFAFLTLHGLNAGESRELSAHEVK 231 >gi|15642221|ref|NP_231854.1| pseudouridine synthase family 1 protein [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121586284|ref|ZP_01676074.1| pseudouridine synthase family 1 protein [Vibrio cholerae 2740-80] gi|121726558|ref|ZP_01679807.1| pseudouridine synthase family 1 protein [Vibrio cholerae V52] gi|147674574|ref|YP_001217740.1| pseudouridine synthase family 1 protein [Vibrio cholerae O395] gi|153817102|ref|ZP_01969769.1| pseudouridine synthase family 1 protein [Vibrio cholerae NCTC 8457] gi|153820868|ref|ZP_01973535.1| pseudouridine synthase family 1 protein [Vibrio cholerae B33] gi|153825357|ref|ZP_01978024.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-2] gi|227082347|ref|YP_002810898.1| pseudouridine synthase family 1 protein [Vibrio cholerae M66-2] gi|254849353|ref|ZP_05238703.1| pseudouridine synthase family 1 protein [Vibrio cholerae MO10] gi|298500401|ref|ZP_07010206.1| pseudouridine synthase family 1 protein [Vibrio cholerae MAK 757] gi|9656781|gb|AAF95367.1| pseudouridine synthase family 1 protein [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121549550|gb|EAX59576.1| pseudouridine synthase family 1 protein [Vibrio cholerae 2740-80] gi|121631011|gb|EAX63390.1| pseudouridine synthase family 1 protein [Vibrio cholerae V52] gi|126512370|gb|EAZ74964.1| pseudouridine synthase family 1 protein [Vibrio cholerae NCTC 8457] gi|126521660|gb|EAZ78883.1| pseudouridine synthase family 1 protein [Vibrio cholerae B33] gi|146316457|gb|ABQ20996.1| pseudouridine synthase family 1 protein [Vibrio cholerae O395] gi|149741041|gb|EDM55110.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-2] gi|227010235|gb|ACP06447.1| pseudouridine synthase family 1 protein [Vibrio cholerae M66-2] gi|227014119|gb|ACP10329.1| pseudouridine synthase family 1 protein [Vibrio cholerae O395] gi|254845058|gb|EET23472.1| pseudouridine synthase family 1 protein [Vibrio cholerae MO10] gi|297541094|gb|EFH77148.1| pseudouridine synthase family 1 protein [Vibrio cholerae MAK 757] Length = 340 Score = 282 bits (721), Expect = 7e-74, Method: Composition-based stats. Identities = 82/342 (23%), Positives = 143/342 (41%), Gaps = 20/342 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG L V D + +DG PLR E Sbjct: 17 TEKRLNKFISETGYCSRREADKLIEQGRVTLNG-LQPEVGSKVTEQDEVCIDGKPLRSKE 75 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 76 RPIYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 133 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + + + + G+ I +VT +TQ + Sbjct: 134 NKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYS----FRI 189 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 190 VLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILAMCEDS 249 Query: 252 EAQVNLDAPIYSSETLVR--DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 S +T+ R D S + ++ ++N +G + Q+ P ++ Sbjct: 250 SGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNSKKA 309 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 S S + +P SLR++ Sbjct: 310 QRRP-----------SSPSSNTASGSKPTPRTGGTLSLRKSK 340 >gi|325687113|gb|EGD29136.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK72] Length = 242 Score = 282 bits (721), Expect = 7e-74, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 132/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q +V +NG ++ A NV S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIRQGKVSINGQVVRELATNVKSGDCVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV + LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVVELLPQVKERIYPVGRLDWDTSGILILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTV 191 + P + +VY R G +++ L L +GI I+G ++ + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+F+ +V++L R +G L L G R++SKK + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKKEVSQL 232 >gi|167756635|ref|ZP_02428762.1| hypothetical protein CLORAM_02172 [Clostridium ramosum DSM 1402] gi|237733923|ref|ZP_04564404.1| ribosomal large subunit pseudouridine synthase B [Mollicutes bacterium D7] gi|167702810|gb|EDS17389.1| hypothetical protein CLORAM_02172 [Clostridium ramosum DSM 1402] gi|229383004|gb|EEO33095.1| ribosomal large subunit pseudouridine synthase B [Coprobacillus sp. D7] Length = 241 Score = 282 bits (721), Expect = 7e-74, Method: Composition-based stats. Identities = 74/233 (31%), Positives = 123/233 (52%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I Q +V+VNG ++ V D I V+G PL E Sbjct: 2 ERLQKAIAASGYTSRRKAEDLIVQGKVEVNGKVVTELGTKVKQGDLITVEGKPLVG-ENK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++++KP G V T D R + D + R+ VGRLD +T GL++++NDG A + Sbjct: 61 VYYVFYKPKGCVCTLDDEFDRPIITDYFTEVKERIYPVGRLDFDTTGLIIMSNDGEFANM 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + ++Y V G + LN L+KG+ ++G+ ++ + + + + + Sbjct: 121 IMHPRSHLEKIYEVSIKGLITGPTLNKLEKGVYLEGVKTLPCKIKVVDKDTEHKTTMLKI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 L EGKNR++KK+FE V RL R+S G L L G R + + +++ Sbjct: 181 KLVEGKNRQVKKMFESVGHPVKRLHRVSIGGINLKGLTPGRYRILKPQEVKDL 233 >gi|148543988|ref|YP_001271358.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus reuteri DSM 20016] gi|184153383|ref|YP_001841724.1| putative pseudouridylate synthase [Lactobacillus reuteri JCM 1112] gi|227364901|ref|ZP_03848946.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus reuteri MM2-3] gi|325682474|ref|ZP_08161991.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus reuteri MM4-1A] gi|148531022|gb|ABQ83021.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus reuteri DSM 20016] gi|183224727|dbj|BAG25244.1| putative pseudouridylate synthase [Lactobacillus reuteri JCM 1112] gi|227070048|gb|EEI08426.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus reuteri MM2-3] gi|324978313|gb|EGC15263.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus reuteri MM4-1A] Length = 238 Score = 282 bits (721), Expect = 7e-74, Method: Composition-based stats. Identities = 80/233 (34%), Positives = 125/233 (53%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +A AG+ASRR E++I Q +V VNG ++ V D I V+GVP+ E+ Sbjct: 2 ERLQKAMAEAGVASRRASEKLILQGKVAVNGKIVTELGTKVGVHDEIVVNGVPIHH-EQH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G++++ D GR TV D + I R+ VGRLD +T G+LLLTNDG LA Sbjct: 61 VYYLLNKPRGVISSAHDDKGRRTVVDIIHDADIDERIYPVGRLDYDTTGILLLTNDGTLA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWV 189 L P + + Y + G V D+L L+ G++I G + L + + V Sbjct: 121 NKLMHPKYEVEKTYVAKVEGIVKNDELKQLRLGVIIDGRKTKPAKSKLLNVDRAKKTSLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EG+N ++K +F+ V +L R +YGP L L G R + + ++ Sbjct: 181 QLTIHEGRNHQVKNMFKAVGHPVTKLHRETYGPLNLYGLQPGEFRALKPEEVQ 233 >gi|55820359|ref|YP_138801.1| ribosomal large subunit pseudouridine synthase B [Streptococcus thermophilus LMG 18311] gi|55822249|ref|YP_140690.1| ribosomal large subunit pseudouridine synthase B [Streptococcus thermophilus CNRZ1066] gi|116627195|ref|YP_819814.1| ribosomal large subunit pseudouridine synthase B [Streptococcus thermophilus LMD-9] gi|55736344|gb|AAV59986.1| ribosomal large subunit pseudouridine synthase B [Streptococcus thermophilus LMG 18311] gi|55738234|gb|AAV61875.1| ribosomal large subunit pseudouridine synthase B [Streptococcus thermophilus CNRZ1066] gi|116100472|gb|ABJ65618.1| ribosomal large subunit pseudouridine synthase B [Streptococcus thermophilus LMD-9] Length = 255 Score = 282 bits (721), Expect = 7e-74, Method: Composition-based stats. Identities = 80/246 (32%), Positives = 131/246 (53%), Gaps = 3/246 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + K+ + R++K IA AG+ASRR+ E +I + RV +NG + A V + D + Sbjct: 2 LGRKDTAEAVEKRMRINKYIAHAGVASRRKAEELIKEGRVTLNGKTVMELATIVKNGDIV 61 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 EV+G P+ E +L +KP G++++ SD R TV D +P + R+ VGRLD +T G Sbjct: 62 EVNGSPI-YNEEKVYYLLNKPRGVISSVSDEKNRKTVIDLMPHVKERIYPVGRLDWDTTG 120 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVT 178 LL+LTNDG + P + +VY R G ++ L L +G+VI G + Sbjct: 121 LLILTNDGDFTDKMIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTQPAHYNII 180 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + + EG+N ++KK+FE V++L R +G L L G +R ++K Sbjct: 181 KVDHEKNRSVVELTIHEGRNHQVKKMFESVGLIVDKLSRTRFGTLDLTGLRPGESRRLNK 240 Query: 239 KILREQ 244 K + + Sbjct: 241 KEISQL 246 >gi|168487318|ref|ZP_02711826.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC1087-00] gi|183569796|gb|EDT90324.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC1087-00] Length = 240 Score = 282 bits (721), Expect = 7e-74, Method: Composition-based stats. Identities = 80/233 (34%), Positives = 129/233 (55%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G ++D L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLHPGESRRLNKKEISQL 232 >gi|167772309|ref|ZP_02444362.1| hypothetical protein ANACOL_03686 [Anaerotruncus colihominis DSM 17241] gi|167665412|gb|EDS09542.1| hypothetical protein ANACOL_03686 [Anaerotruncus colihominis DSM 17241] Length = 259 Score = 282 bits (721), Expect = 8e-74, Method: Composition-based stats. Identities = 84/246 (34%), Positives = 128/246 (52%), Gaps = 3/246 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 MK ++I+ R+ KV++ G+ SRR+ E IAQ RV VNG + + D I Sbjct: 1 MKTEDIMA-KVNGIRIQKVLSENGVMSRRKAEEAIAQGRVTVNGHPAQPGNPVDPARDVI 59 Query: 61 EVDGVPL--RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +DGV + RK ++ + HKP G VTT SD GR V D + + V VGRLD N+ Sbjct: 60 AIDGVRVQLRKKKQNVYIMLHKPRGFVTTTSDELGRRCVTDLVKDAPAHVYPVGRLDRNS 119 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLLLLTNDG A ++ PS + YRV V ++ + G+++ G V Sbjct: 120 EGLLLLTNDGAFANLVMHPSNHISKTYRVTVRPDVSDEQAAKMSAGVMLDGRMTLPATVL 179 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + ++ + + ++EG+NR+++++ E +V RL R S GP +LG L G RE+ Sbjct: 180 VLEKQDGRVVLQITIQEGRNRQVRRMCEAVGLEVARLKRTSVGPLKLGMLQPGQWRELRP 239 Query: 239 KILREQ 244 + Sbjct: 240 GEVAAL 245 >gi|326803723|ref|YP_004321541.1| pseudouridine synthase B, ribosomal large subunit [Aerococcus urinae ACS-120-V-Col10a] gi|326650759|gb|AEA00942.1| pseudouridine synthase B, ribosomal large subunit [Aerococcus urinae ACS-120-V-Col10a] Length = 240 Score = 282 bits (721), Expect = 8e-74, Method: Composition-based stats. Identities = 83/233 (35%), Positives = 125/233 (53%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E++I RV+VNG ++ V D +EVD VP+ E Sbjct: 2 ERLQKVIAHAGVASRRDAEKLILAGRVRVNGQVVTELGTKVTKKDLVEVDQVPI-YKEEP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G++++ +D GR V D I R+ +GRLD +T G+LLLTNDG A + Sbjct: 61 VYYLFNKPDGVISSVADDKGRKVVVDYFKEIPQRIYPIGRLDYHTTGVLLLTNDGEFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 L P + +VY + G D L L++G+VI G + + K + NA V + Sbjct: 121 LMHPRYEIDKVYVAKVKGYPSPDALKRLEEGLVIDGQKTAKARARIRKNKAAKENATVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++K+ E V RL R YG L G R + K + Sbjct: 181 TIHEGRNRQVRKMLEAVGHPVKRLNRERYGFLTTEGLGVGEYRPLLKAEVERL 233 >gi|325111054|ref|YP_004272122.1| pseudouridine synthase Rsu [Planctomyces brasiliensis DSM 5305] gi|324971322|gb|ADY62100.1| pseudouridine synthase Rsu [Planctomyces brasiliensis DSM 5305] Length = 368 Score = 282 bits (721), Expect = 8e-74, Method: Composition-based stats. Identities = 99/341 (29%), Positives = 160/341 (46%), Gaps = 6/341 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPL 67 E T R+ K +A AG+ SRR+ E +I RV V+G+ +E +NV +E DG L Sbjct: 25 ETPTEFRLQKFLASAGLGSRRQCEELIRTGRVTVDGLPVENPGINVNPLKQVVEYDGERL 84 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + ER + ++ +KP G++ T+ DP GR+ V D R+ VGRLD ++EGLL++TND Sbjct: 85 K-PERLKYFVLNKPKGVLCTNHDPAGRTRVIDLFAKERVRLFPVGRLDEDSEGLLIVTND 143 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P + R YRV+ G +KL L+ GI + + + ++G +A Sbjct: 144 GDLANQLAHPRYRIYRTYRVQVAGFPTNEKLQQLRDGIFFREGKFQVISAKFAGKQGKSA 203 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 ++ + L +G NREI+++F KV L RI++GP +LG G RE+++ L E Sbjct: 204 FLEIVLGQGHNREIRRLFARIGHKVMSLQRIAFGPIRLGKQKVGQYRELTRNELEEL--R 261 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN--GLSKQKKLATPV 305 +LE + S + P + + + + G + + Sbjct: 262 SILERNKKTPPKGPRSGGSGNSSPKRGSKGAPKGRRKPEGSGRKPEMAGSEEATPQKKRI 321 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 R N + V + G S R P+ K++ Sbjct: 322 RRPNNSPTVGASGGKSGGRPSGGKSRSGYGSSKPAAGKKKT 362 >gi|15901702|ref|NP_346306.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae TIGR4] gi|15903731|ref|NP_359281.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae R6] gi|111657282|ref|ZP_01408047.1| hypothetical protein SpneT_02001499 [Streptococcus pneumoniae TIGR4] gi|116515785|ref|YP_817104.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae D39] gi|148984326|ref|ZP_01817621.1| hypothetical protein CGSSp3BS71_03857 [Streptococcus pneumoniae SP3-BS71] gi|148989667|ref|ZP_01820999.1| hypothetical protein CGSSp6BS73_00460 [Streptococcus pneumoniae SP6-BS73] gi|148993332|ref|ZP_01822872.1| hypothetical protein CGSSp9BS68_07037 [Streptococcus pneumoniae SP9-BS68] gi|148998738|ref|ZP_01826176.1| hypothetical protein CGSSp11BS70_11759 [Streptococcus pneumoniae SP11-BS70] gi|149003915|ref|ZP_01828729.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae SP14-BS69] gi|149006471|ref|ZP_01830170.1| segregation and condensation protein B [Streptococcus pneumoniae SP18-BS74] gi|149011261|ref|ZP_01832508.1| segregation and condensation protein B [Streptococcus pneumoniae SP19-BS75] gi|149024998|ref|ZP_01836378.1| hypothetical protein CGSSp23BS72_10018 [Streptococcus pneumoniae SP23-BS72] gi|168483406|ref|ZP_02708358.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC1873-00] gi|168489848|ref|ZP_02714047.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae SP195] gi|168491811|ref|ZP_02715954.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC0288-04] gi|168494210|ref|ZP_02718353.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC3059-06] gi|168574937|ref|ZP_02720900.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae MLV-016] gi|169833469|ref|YP_001695240.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae Hungary19A-6] gi|182684817|ref|YP_001836564.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CGSP14] gi|194398119|ref|YP_002038463.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae G54] gi|221232609|ref|YP_002511763.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae ATCC 700669] gi|225855307|ref|YP_002736819.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae JJA] gi|225859636|ref|YP_002741146.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae 70585] gi|225861667|ref|YP_002743176.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae Taiwan19F-14] gi|237651140|ref|ZP_04525392.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CCRI 1974] gi|237820920|ref|ZP_04596765.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CCRI 1974M2] gi|270292159|ref|ZP_06198374.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. M143] gi|289167211|ref|YP_003445478.1| ribosomal small subunit pseudouridine synthase A [Streptococcus mitis B6] gi|298230346|ref|ZP_06964027.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae str. Canada MDR_19F] gi|298254732|ref|ZP_06978318.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae str. Canada MDR_19A] gi|298503601|ref|YP_003725541.1| pseudouridylate synthase [Streptococcus pneumoniae TCH8431/19A] gi|303254617|ref|ZP_07340719.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae BS455] gi|303258820|ref|ZP_07344800.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae SP-BS293] gi|303261983|ref|ZP_07347929.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae SP14-BS292] gi|303263846|ref|ZP_07349768.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae BS397] gi|303265619|ref|ZP_07351518.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae BS457] gi|303269887|ref|ZP_07355630.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae BS458] gi|307068487|ref|YP_003877453.1| 16S rRNA uridine-516 pseudouridylate synthase-like pseudouridylate synthase [Streptococcus pneumoniae AP200] gi|307128069|ref|YP_003880100.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae 670-6B] gi|307705578|ref|ZP_07642430.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis SK597] gi|307707612|ref|ZP_07644093.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis NCTC 12261] gi|322377639|ref|ZP_08052129.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. M334] gi|14973377|gb|AAK75946.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae TIGR4] gi|15459364|gb|AAL00492.1| Ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae R6] gi|116076361|gb|ABJ54081.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae D39] gi|147755432|gb|EDK62481.1| hypothetical protein CGSSp11BS70_11759 [Streptococcus pneumoniae SP11-BS70] gi|147758055|gb|EDK65060.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae SP14-BS69] gi|147761769|gb|EDK68732.1| segregation and condensation protein B [Streptococcus pneumoniae SP18-BS74] gi|147764251|gb|EDK71182.1| segregation and condensation protein B [Streptococcus pneumoniae SP19-BS75] gi|147923615|gb|EDK74728.1| hypothetical protein CGSSp3BS71_03857 [Streptococcus pneumoniae SP3-BS71] gi|147924984|gb|EDK76066.1| hypothetical protein CGSSp6BS73_00460 [Streptococcus pneumoniae SP6-BS73] gi|147928099|gb|EDK79118.1| hypothetical protein CGSSp9BS68_07037 [Streptococcus pneumoniae SP9-BS68] gi|147929491|gb|EDK80486.1| hypothetical protein CGSSp23BS72_10018 [Streptococcus pneumoniae SP23-BS72] gi|168995971|gb|ACA36583.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae Hungary19A-6] gi|172043185|gb|EDT51231.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC1873-00] gi|182630151|gb|ACB91099.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CGSP14] gi|183571751|gb|EDT92279.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae SP195] gi|183573862|gb|EDT94390.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC0288-04] gi|183575773|gb|EDT96301.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC3059-06] gi|183578730|gb|EDT99258.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae MLV-016] gi|194357786|gb|ACF56234.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae G54] gi|220675071|emb|CAR69649.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae ATCC 700669] gi|225720104|gb|ACO15958.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae 70585] gi|225723654|gb|ACO19507.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae JJA] gi|225728206|gb|ACO24057.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae Taiwan19F-14] gi|270279687|gb|EFA25529.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. M143] gi|288906776|emb|CBJ21610.1| ribosomal small subunit pseudouridine synthase A [Streptococcus mitis B6] gi|298239196|gb|ADI70327.1| pseudouridylate synthase [Streptococcus pneumoniae TCH8431/19A] gi|301794836|emb|CBW37292.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae INV104] gi|301800653|emb|CBW33297.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae OXC141] gi|301802565|emb|CBW35326.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae INV200] gi|302598329|gb|EFL65373.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae BS455] gi|302637066|gb|EFL67555.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae SP14-BS292] gi|302640321|gb|EFL70776.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae SP-BS293] gi|302640590|gb|EFL70994.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae BS458] gi|302644746|gb|EFL74994.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae BS457] gi|302646884|gb|EFL77109.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae BS397] gi|306410024|gb|ADM85451.1| 16S rRNA uridine-516 pseudouridylate synthase-like pseudouridylate synthase [Streptococcus pneumoniae AP200] gi|306485131|gb|ADM92000.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae 670-6B] gi|307616325|gb|EFN95517.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis NCTC 12261] gi|307620855|gb|EFN99939.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis SK597] gi|321281404|gb|EFX58414.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. M334] gi|327390035|gb|EGE88380.1| hypothetical protein SPAR5_1727 [Streptococcus pneumoniae GA04375] gi|332072212|gb|EGI82697.1| hypothetical protein SPAR148_1785 [Streptococcus pneumoniae GA17545] gi|332072697|gb|EGI83180.1| hypothetical protein SPAR50_1869 [Streptococcus pneumoniae GA17570] gi|332073025|gb|EGI83505.1| hypothetical protein SPAR68_1901 [Streptococcus pneumoniae GA41301] gi|332199894|gb|EGJ13969.1| hypothetical protein SPAR69_1806 [Streptococcus pneumoniae GA41317] gi|332200429|gb|EGJ14502.1| hypothetical protein SPAR93_1907 [Streptococcus pneumoniae GA47368] gi|332201284|gb|EGJ15355.1| hypothetical protein SPAR120_1791 [Streptococcus pneumoniae GA47901] Length = 240 Score = 282 bits (721), Expect = 8e-74, Method: Composition-based stats. Identities = 80/233 (34%), Positives = 129/233 (55%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G ++D L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQL 232 >gi|254225784|ref|ZP_04919389.1| pseudouridine synthase family 1 protein [Vibrio cholerae V51] gi|125621690|gb|EAZ50019.1| pseudouridine synthase family 1 protein [Vibrio cholerae V51] Length = 340 Score = 282 bits (721), Expect = 8e-74, Method: Composition-based stats. Identities = 82/342 (23%), Positives = 143/342 (41%), Gaps = 20/342 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG L V D + +DG PLR E Sbjct: 17 TEKRLNKFISETGYCSRREADKLIEQGRVTLNG-LQPEVGSKVTDQDEVCIDGKPLRSKE 75 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 76 RPIYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 133 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + + + + G+ I +VT +TQ + Sbjct: 134 NKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYS----FRI 189 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 190 VLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILAMCEDS 249 Query: 252 EAQVNLDAPIYSSETLVR--DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 S +T+ R D S + ++ ++N +G + Q+ P ++ Sbjct: 250 SGTEEASRVAQSGDTIKRATDAKLFDSRETNKESKARRNPKTYHGKNAQEFRHAPNSKKA 309 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 S S + +P SLR++ Sbjct: 310 QRRP-----------SSPSSNTASGSKPTPRTGGTLSLRKSK 340 >gi|297580866|ref|ZP_06942791.1| pseudouridine synthase family 1 protein [Vibrio cholerae RC385] gi|297534692|gb|EFH73528.1| pseudouridine synthase family 1 protein [Vibrio cholerae RC385] Length = 340 Score = 282 bits (721), Expect = 8e-74, Method: Composition-based stats. Identities = 82/342 (23%), Positives = 143/342 (41%), Gaps = 20/342 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG L V D + +DG PLR E Sbjct: 17 TEKRLNKFISETGYCSRREADKLIEQGRVTLNG-LQPEVGSKVTEQDEVCIDGKPLRSKE 75 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 76 RPIYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 133 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + + + + G+ I +VT +TQ + Sbjct: 134 NKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYS----FRI 189 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 190 VLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILAMCEDS 249 Query: 252 EAQVNLDAPIYSSETLVR--DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 S +T+ R D S + ++ ++N +G + Q+ P ++ Sbjct: 250 SGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNSKKA 309 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 S S + +P SLR++ Sbjct: 310 QRRP-----------SSPSSNTASGSKPTPRTGGTLSLRKSK 340 >gi|242373794|ref|ZP_04819368.1| pseudouridylate synthase [Staphylococcus epidermidis M23864:W1] gi|242348531|gb|EES40133.1| pseudouridylate synthase [Staphylococcus epidermidis M23864:W1] Length = 245 Score = 281 bits (720), Expect = 9e-74, Method: Composition-based stats. Identities = 78/243 (32%), Positives = 137/243 (56%), Gaps = 5/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +V VNG ++ V ++D +EV+G+ + + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLITEGKVSVNGQVVTELGTKVSNSDTVEVEGIKIEQEDKM 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L++KP ++T+ SD GR+ V D I +R+ VGRLD +T G+LLLTNDG + Sbjct: 66 -YILFYKPTQVITSVSDDRGRTVVTDYFDDIETRIYPVGRLDYDTSGILLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + Y + G + ++++ L+KGI ++ QV + Q + + V + Sbjct: 125 MTHPRYHIKKKYVAKLKGYLMREEVKELEKGIQLEDGFTQPAQVKIKKQDKEKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE F +VN+L RI +GP L L AG R ++ ++ HL E Sbjct: 185 TISEGRNRQVRRMFEHFGHQVNKLTRIQFGPLDLKGLNAGEGRVLTPHEVKTL--RHLAE 242 Query: 252 EAQ 254 + Sbjct: 243 NGK 245 >gi|315611769|ref|ZP_07886691.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis ATCC 49296] gi|322375935|ref|ZP_08050446.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. C300] gi|315316184|gb|EFU64214.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis ATCC 49296] gi|321279203|gb|EFX56245.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. C300] Length = 240 Score = 281 bits (720), Expect = 9e-74, Method: Composition-based stats. Identities = 79/233 (33%), Positives = 129/233 (55%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G +++ L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVANKENLRPLTRGLEIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQL 232 >gi|228476152|ref|ZP_04060860.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus hominis SK119] gi|228269975|gb|EEK11455.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus hominis SK119] Length = 245 Score = 281 bits (720), Expect = 9e-74, Method: Composition-based stats. Identities = 77/235 (32%), Positives = 135/235 (57%), Gaps = 3/235 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N +R+ K IA +G SRR+ E +I + +VKVNG ++ V S+D +EV+G+ + + Sbjct: 2 NKDLERLQKRIANSGYTSRRKAETLITEGKVKVNGQVVTELGTKVKSSDTVEVEGIKIEQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ L++KP ++T+ SD GR+ V D + +R+ VGRLD +T GLLLLTNDG Sbjct: 62 EDKI-YILFYKPTQVITSVSDDRGRTVVTDYFKDLEARIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNA 187 ++ P + Y + G + ++++ L++GI ++ QV + Q + + Sbjct: 121 FTNLMTHPRYHIQKKYVAKLKGYLMREEVKSLEQGIELEDGFTQPAQVKIKNQNKEKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + EG+NR+++++FE FN V++LIRI +G L L AG R ++ ++ Sbjct: 181 LVEITISEGRNRQVRRMFEHFNHTVDKLIRIEFGNLNLKGLNAGEGRVLTPHEVK 235 >gi|293364213|ref|ZP_06610939.1| ribosomal large subunit pseudouridine synthase B [Streptococcus oralis ATCC 35037] gi|306824561|ref|ZP_07457907.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. oral taxon 071 str. 73H25AP] gi|307702434|ref|ZP_07639390.1| ribosomal large subunit pseudouridine synthase B [Streptococcus oralis ATCC 35037] gi|291317059|gb|EFE57486.1| ribosomal large subunit pseudouridine synthase B [Streptococcus oralis ATCC 35037] gi|304433348|gb|EFM36318.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. oral taxon 071 str. 73H25AP] gi|307624016|gb|EFO02997.1| ribosomal large subunit pseudouridine synthase B [Streptococcus oralis ATCC 35037] Length = 240 Score = 281 bits (720), Expect = 9e-74, Method: Composition-based stats. Identities = 79/233 (33%), Positives = 129/233 (55%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ A + + D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKAGDKVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G ++D L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQL 232 >gi|227544893|ref|ZP_03974942.1| pseudouridylate synthase [Lactobacillus reuteri CF48-3A] gi|300910080|ref|ZP_07127540.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus reuteri SD2112] gi|227185105|gb|EEI65176.1| pseudouridylate synthase [Lactobacillus reuteri CF48-3A] gi|300892728|gb|EFK86088.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus reuteri SD2112] Length = 238 Score = 281 bits (720), Expect = 1e-73, Method: Composition-based stats. Identities = 80/233 (34%), Positives = 125/233 (53%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +A AG+ASRR E++I Q +V VNG ++ V D I V+GVP+ E+ Sbjct: 2 ERLQKAMAEAGVASRRASEKLILQGKVAVNGKIVTELGTKVGVHDEIVVNGVPIHH-EQH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G++++ D GR TV D + I R+ VGRLD +T G+LLLTNDG LA Sbjct: 61 VYYLLNKPRGVISSAHDDKGRRTVVDIIHDAEIDERIYPVGRLDYDTTGILLLTNDGALA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWV 189 + P + + Y + G V D+L L+ G+VI G + L + + V Sbjct: 121 NKMMHPKYEVEKTYVAKVEGIVKNDELKQLRLGVVIDGRKTKPAKSKLLNVDRAKKTSLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EG+N ++K +F+ V +L R +YGP L L G R + + ++ Sbjct: 181 QLTIHEGRNHQVKNMFKAVGHPVTKLHRETYGPLNLYGLQPGEFRALKPEEVQ 233 >gi|320355051|ref|YP_004196390.1| ribosomal large subunit pseudouridine synthase B [Desulfobulbus propionicus DSM 2032] gi|320123553|gb|ADW19099.1| ribosomal large subunit pseudouridine synthase B [Desulfobulbus propionicus DSM 2032] Length = 247 Score = 281 bits (720), Expect = 1e-73, Method: Composition-based stats. Identities = 86/231 (37%), Positives = 129/231 (55%), Gaps = 2/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A+AGIASRR+ E++I + R+++NG ++ D I DG PL E+ Sbjct: 3 ERLQKILAKAGIASRRKAEQLILEGRIRINGHVVTGMGSKADPNRDTITCDGHPLVFEEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +KP G VTT SDP GR V D L I R+ VGRLD++TEG LL+TNDG L Sbjct: 63 IYV-LLNKPAGYVTTLSDPQGRPMVSDLLADIPLRLFPVGRLDLDTEGALLMTNDGELGN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y G DKL L+ GI I G+ V L + V + Sbjct: 122 AILHPRYEVNKTYEAEVSGSPSVDKLKRLESGIEIDGVMTRPAVVRLLRRHKGTTLVEIT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EGK R+++K+F+ N +V L R +YG +LG+L G R +++ L++ Sbjct: 182 IHEGKKRQVRKMFQAINHRVLHLRRTAYGNLRLGSLPLGKYRVLNQNDLKK 232 >gi|146342900|ref|YP_001207948.1| putative pseudouridine synthase, Rsu:RNA-binding S4:pseudouridine synthase [Bradyrhizobium sp. ORS278] gi|146195706|emb|CAL79733.1| Putative Pseudouridine synthase, Rsu:RNA-binding S4:Pseudouridine synthase [Bradyrhizobium sp. ORS278] Length = 683 Score = 281 bits (720), Expect = 1e-73, Method: Composition-based stats. Identities = 143/284 (50%), Positives = 190/284 (66%), Gaps = 1/284 (0%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + T +R++KV+ARAG+ASRR+ E M+ Q RV VNG ++ A++V D I+VDG Sbjct: 357 EAPKPRKTGERIAKVLARAGLASRRDAEEMVTQGRVSVNGRIINSPALDVTENDEIKVDG 416 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL + ERTRL+LYHKP GL+TTHSDP+GR TVFDNLP R+IS+GRLD NTEGLLLL Sbjct: 417 APLPERERTRLFLYHKPRGLMTTHSDPEGRPTVFDNLPEGLPRLISIGRLDFNTEGLLLL 476 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDGGLARVLELP T W R YRVR HG++ Q +L+ L G+ + G+ YG ++ TL+ +G Sbjct: 477 TNDGGLARVLELPDTGWTRRYRVRAHGEITQGQLDQLAAGVEVDGVKYGPIEATLERDQG 536 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +N W+ V +REGKNRE++ V +VNRLIR+SYGPFQL L G +EV ++LREQ Sbjct: 537 ANVWLVVAIREGKNREVRNVLAHLGLEVNRLIRVSYGPFQLLELPEGEVQEVKTRVLREQ 596 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 LG ++ ++ +L P SS P + R + Sbjct: 597 LGEKVIAQSGADL-GPAGSSNREPLPDPKPKPKREIVADRKGRR 639 >gi|310828101|ref|YP_003960458.1| pseudouridine synthase [Eubacterium limosum KIST612] gi|308739835|gb|ADO37495.1| pseudouridine synthase [Eubacterium limosum KIST612] Length = 241 Score = 281 bits (720), Expect = 1e-73, Method: Composition-based stats. Identities = 80/241 (33%), Positives = 121/241 (50%), Gaps = 8/241 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A+ G+ASRR+ E MIA RV VNG + + V D + VDG + ++ Sbjct: 1 MRLQKYMAQCGVASRRKSEEMIAAGRVCVNGEAVLTPGLQVDPEADTVTVDGKTI-AEDK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G+V+T +D TV D LP I R+ +VGRLD +TEGLL+LTNDG L Sbjct: 60 KIYVLLNKPKGVVSTSADRHADQTVMDRLP-IKERLFTVGRLDKDTEGLLILTNDGDLTF 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-----CYGDMQVTLDTQKGSNA 187 L PS ++ ++Y G +L L +G+ I+ V + S A Sbjct: 119 RLTHPSHEFNKIYEGLVKGIPSAGELRLFAEGVQIEDDDHTLHTTAPASVQVLKTYRSTA 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + + EG+ R+I+K+ V L R + G L L AG R ++++ +R G Sbjct: 179 LLEMTIHEGRKRQIRKMCAAIGHPVIHLKRTAIGSITLKGLKAGEWRYLTEEEIRYLRGE 238 Query: 248 H 248 Sbjct: 239 K 239 >gi|292670796|ref|ZP_06604222.1| RNA pseudouridine synthase [Selenomonas noxia ATCC 43541] gi|292647417|gb|EFF65389.1| RNA pseudouridine synthase [Selenomonas noxia ATCC 43541] Length = 296 Score = 281 bits (720), Expect = 1e-73, Method: Composition-based stats. Identities = 80/294 (27%), Positives = 137/294 (46%), Gaps = 6/294 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 +R+ K+++ AG+ASRR E +I RV V+G+ + +H I VD P+ E+ Sbjct: 3 ERLQKILSNAGVASRRAAEDLIRAGRVAVDGVAVTELGRKFDPANHTITVDSKPIHSDEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G ++T D GR TV D LP +R+ VGRLD +TEG+LL+TNDG + + Sbjct: 63 RFYILLNKPRGYLSTARDDRGRKTVLDLLPDFPARLYPVGRLDADTEGVLLITNDGAITQ 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VY G V + L L++GI+++ ++ + V Sbjct: 123 GLLHPRFEIDKVYHAEVAGPVTEGGLTRLRRGILLEDGMTASAKLRILRADKGYTVVETI 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+NR+++++F +V L R+ + L L GS R +++ + E + Sbjct: 183 IHEGRNRQVRRMFAAIGCRVCALRRVRFAMLTLRGLSCGSFRHLTRDEIHELRIIAGVMS 242 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEV-----PDDFTRMKKNSSQKNGLSKQKKL 301 ++ + S R + D R + + K L + K+ Sbjct: 243 SEEDCRRGCRPSGHDGSGRSRGMRRARPAPREDAACRPQDDDHGKRPLQRHKRR 296 >gi|324993667|gb|EGC25586.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK405] gi|324995021|gb|EGC26934.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK678] gi|327462936|gb|EGF09257.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK1] Length = 242 Score = 281 bits (720), Expect = 1e-73, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 132/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q +V +NG ++ A NV S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIRQGKVSINGQVVRELATNVKSGDRVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV + LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVVELLPQVKERIYPVGRLDWDTSGILILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTV 191 + P + +VY R G +++ L L +GI I+G ++ + + + + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKVDPAKNRSVIQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+F+ +V++L R +G L L G R++SKK + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKKEVSQL 232 >gi|125718577|ref|YP_001035710.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK36] gi|125498494|gb|ABN45160.1| Ribosomal large subunit pseudouridine synthase B, putative [Streptococcus sanguinis SK36] gi|325695058|gb|EGD36961.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK150] gi|328946852|gb|EGG40989.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK1087] gi|332367409|gb|EGJ45142.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK1059] Length = 242 Score = 281 bits (720), Expect = 1e-73, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 132/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q +V +NG ++ A NV S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIRQGKVSINGQVVRELATNVKSGDRVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV + LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVVELLPQVKERIYPVGRLDWDTSGILILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTV 191 + P + +VY R G +++ L L +GI I+G ++ + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+F+ +V++L R +G L L G R++SKK + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKKEVSQL 232 >gi|307709770|ref|ZP_07646221.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis SK564] gi|307619472|gb|EFN98597.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis SK564] Length = 240 Score = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 129/233 (55%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G ++D L L +G+ I G + + A V + Sbjct: 120 MIHPRNEIDKVYVARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKVDPVKNRAVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQL 232 >gi|242242766|ref|ZP_04797211.1| pseudouridylate synthase [Staphylococcus epidermidis W23144] gi|242233902|gb|EES36214.1| pseudouridylate synthase [Staphylococcus epidermidis W23144] Length = 245 Score = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 82/243 (33%), Positives = 139/243 (57%), Gaps = 5/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA++G SRR+ E +I + RVKVNG + VM +D +EVDG+ + + ++ Sbjct: 6 ERLQKRIAKSGYTSRRKAEVLITEGRVKVNGQTVTELGSKVMPSDLVEVDGIKIEQEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L++KP ++T+ SD GR V D + SR+ VGRLD +T G+LLLTNDG + Sbjct: 66 -YILFYKPTQVITSVSDDRGRRVVTDYFDDLESRIYPVGRLDYDTSGVLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + Y + G + ++++ L+KGI ++ QV + Q + + V + Sbjct: 125 MTHPRYHIKKKYIAKLKGYLMREEIKQLEKGIELEDGYTQPAQVKIKKQDKEKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE+F +VN+L+RI +GP L L AG R ++ ++ HL E Sbjct: 185 TISEGRNRQVRRMFEYFGHQVNKLVRIQFGPIDLKGLNAGEGRVLTPHEVKTL--RHLAE 242 Query: 252 EAQ 254 + Sbjct: 243 NGK 245 >gi|15674518|ref|NP_268692.1| hypothetical protein SPy_0369 [Streptococcus pyogenes M1 GAS] gi|13621621|gb|AAK33413.1| putative hypothetical protein [Streptococcus pyogenes M1 GAS] Length = 240 Score = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 83/233 (35%), Positives = 126/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVVEIEGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G +++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDT 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G ++ L L +GIVI G + + S + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVRVEADKSRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPGEARRLNKKEISQL 232 >gi|218282361|ref|ZP_03488643.1| hypothetical protein EUBIFOR_01225 [Eubacterium biforme DSM 3989] gi|218216647|gb|EEC90185.1| hypothetical protein EUBIFOR_01225 [Eubacterium biforme DSM 3989] Length = 242 Score = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 77/233 (33%), Positives = 120/233 (51%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGI SRR+ E +I +VKVNG + + V D IEV+G + K E+ Sbjct: 2 ERLQKVIAQAGICSRRKAEELILDGKVKVNGEICDVLGTKVSKQDIIEVNGNMISKEEKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G + T SD GR TV D +P R+ SVGRLD +T G+LLLTNDG Sbjct: 62 YYIM-NKPKGCLCTSSDDKGRKTVLDYMPKN-ERIFSVGRLDYDTSGVLLLTNDGEFCNH 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + Y V G + +D + L+KG+ + Y +V + + + + Sbjct: 120 MIHPRYHLEKTYVVNLQGILSEDDIKQLRKGLKTKTEKYQPAKVFVLQKDLTRNRTQFEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EGKN ++K + +V RL R+ + + L AG R + +++ Sbjct: 180 TISEGKNHQVKNMMLALGHEVRRLHRVKFAFLDVKDLRAGEYRRLKPYEIKQL 232 >gi|27468095|ref|NP_764732.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus epidermidis ATCC 12228] gi|57866960|ref|YP_188633.1| pseudouridine synthase RluB [Staphylococcus epidermidis RP62A] gi|251810910|ref|ZP_04825383.1| pseudouridylate synthase [Staphylococcus epidermidis BCM-HMP0060] gi|293366546|ref|ZP_06613223.1| pseudouridine synthase RluB [Staphylococcus epidermidis M23864:W2(grey)] gi|27315641|gb|AAO04776.1|AE016748_10 ribosomal large subunit pseudouridine synthase B [Staphylococcus epidermidis ATCC 12228] gi|57637618|gb|AAW54406.1| pseudouridine synthase RluB [Staphylococcus epidermidis RP62A] gi|251805590|gb|EES58247.1| pseudouridylate synthase [Staphylococcus epidermidis BCM-HMP0060] gi|291319315|gb|EFE59684.1| pseudouridine synthase RluB [Staphylococcus epidermidis M23864:W2(grey)] gi|329725404|gb|EGG61887.1| pseudouridine synthase B, ribosomal large subunit [Staphylococcus epidermidis VCU144] gi|329735190|gb|EGG71482.1| pseudouridine synthase B, ribosomal large subunit [Staphylococcus epidermidis VCU045] Length = 245 Score = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 82/243 (33%), Positives = 137/243 (56%), Gaps = 5/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + RVKVNG + VM +D +EVDG+ + + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAEVLITEGRVKVNGQTVTELGSKVMPSDLVEVDGIKIEQEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L++KP ++T+ SD GR V D + SR+ VGRLD +T G+LLLTNDG + Sbjct: 66 -YILFYKPTQVITSVSDDRGRRVVTDYFDDLESRIYPVGRLDYDTSGVLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + Y + G + ++++ L+KGI ++ QV + Q + + V + Sbjct: 125 MTHPRYHIKKKYVAKLKGYLMREEIKQLEKGIELEDGYTQPAQVKIKKQDKEKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE+F +VN+L RI +GP L L AG R ++ ++ HL E Sbjct: 185 TISEGRNRQVRRMFEYFGHQVNKLTRIQFGPIDLKGLNAGEGRVLTPHEVKIL--RHLAE 242 Query: 252 EAQ 254 + Sbjct: 243 NGK 245 >gi|307710771|ref|ZP_07647199.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis SK321] gi|307617377|gb|EFN96549.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis SK321] Length = 240 Score = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 80/233 (34%), Positives = 129/233 (55%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G ++D L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVANKDNLRPLTRGLDIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQL 232 >gi|260887142|ref|ZP_05898405.1| ribosomal large subunit pseudouridine synthase B [Selenomonas sputigena ATCC 35185] gi|330839088|ref|YP_004413668.1| pseudouridine synthase Rsu [Selenomonas sputigena ATCC 35185] gi|260863204|gb|EEX77704.1| ribosomal large subunit pseudouridine synthase B [Selenomonas sputigena ATCC 35185] gi|329746852|gb|AEC00209.1| pseudouridine synthase Rsu [Selenomonas sputigena ATCC 35185] Length = 242 Score = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 86/233 (36%), Positives = 126/233 (54%), Gaps = 2/233 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K+I+RAG+ASRR+ E +IA RV V+G ++ ST IEVDG + ER Sbjct: 3 ERLQKIISRAGVASRRKAEELIAAGRVTVDGAVVREPGTKADASTARIEVDGKRIPAEER 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G V+T SD GR TV D LP RV VGRLD NTEGL+LLTNDG L + Sbjct: 63 LVYFLLNKPKGCVSTVSDERGRRTVLDLLPVKNVRVYPVGRLDQNTEGLILLTNDGTLTQ 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-DTQKGSNAWVTV 191 L P + YR + G++ + L L+ GI + +V + + + V V Sbjct: 123 ALLHPRFLVHKTYRAKVAGELTPEALKKLRSGIELADGMTAPAEVRVYGVTEKGLSDVEV 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 L EG+NR+++++FE V L R + L + G++R ++K + Sbjct: 183 TLHEGRNRQVRRMFEAVGCDVRALKRTRFAQLTLDGVKRGASRPLTKAEVEAL 235 >gi|139474355|ref|YP_001129071.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes str. Manfredo] gi|134272602|emb|CAM30869.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes str. Manfredo] Length = 240 Score = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 126/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVVEIEGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G +++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDT 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G ++ L L +GIVI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVNLKGLRPGEARRLNKKEISQL 232 >gi|322411180|gb|EFY02088.1| hypothetical protein SDD27957_02020 [Streptococcus dysgalactiae subsp. dysgalactiae ATCC 27957] Length = 240 Score = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 130/233 (55%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V +NG ++ +A V S D +E++G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTLNGQVITDSATTVKSGDVVEIEGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP + R+ VGRLD NT G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWNTSGVLILTNDGDFTDT 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G +L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLELTGLRPGESRRLNKKEISQL 232 >gi|309807638|ref|ZP_07701581.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LactinV 01V1-a] gi|312875457|ref|ZP_07735460.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LEAF 2053A-b] gi|325911995|ref|ZP_08174397.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners UPII 143-D] gi|325912892|ref|ZP_08175270.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners UPII 60-B] gi|329921334|ref|ZP_08277772.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners SPIN 1401G] gi|308169119|gb|EFO71194.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LactinV 01V1-a] gi|311088968|gb|EFQ47409.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LEAF 2053A-b] gi|325476180|gb|EGC79344.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners UPII 143-D] gi|325477885|gb|EGC81019.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners UPII 60-B] gi|328934626|gb|EGG31130.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners SPIN 1401G] Length = 239 Score = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 84/232 (36%), Positives = 125/232 (53%), Gaps = 3/232 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA AGIASRR+ E +I +V VNG L+ V D IEV+GVP+ K E+ Sbjct: 4 RLQKVIAEAGIASRRKAEILITSGQVTVNGNLVTTLGTKVDDNDKIEVNGVPIHK-EQLH 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP +V+T SD GR TV D + R+ VGRLD +T GLLL+TNDG LA L Sbjct: 63 TYLLYKPRNVVSTVSDNKGRKTVTDFFKDLPYRLYPVGRLDYDTSGLLLMTNDGELANRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVG 192 P + +VY + G + ++ LK G+ I G +V + + V + Sbjct: 123 MHPKNEIEKVYVAKISGFLTASEIYDLKHGVTIDGRKTAPAKVKIIKTDKNRNIQLVQLT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG ++K +F+ N V +L R Y L +L++G RE++ + + + Sbjct: 183 IHEGHYHQVKNMFKAVNHLVEKLSRERYAFLTLKSLISGEYRELTHEEINKL 234 >gi|297617939|ref|YP_003703098.1| pseudouridine synthase [Syntrophothermus lipocalidus DSM 12680] gi|297145776|gb|ADI02533.1| pseudouridine synthase [Syntrophothermus lipocalidus DSM 12680] Length = 249 Score = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 74/229 (32%), Positives = 117/229 (51%), Gaps = 2/229 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+++ +A AGI SRR+ E +I RVKVNG ++ + D +E+DG L + E Sbjct: 11 RLARYLAAAGITSRRKAETLIQAGRVKVNGRVVRELGFVINEEKDQVELDGWLLHREE-P 69 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G + T +D GR TV D L + RV VGRLD +TEGLLLL+NDG + Sbjct: 70 VYILLNKPSGYLCTLADTHGRPTVVDLLRGVTQRVYPVGRLDYDTEGLLLLSNDGDFTHL 129 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + +VY G V + + L+ G++I + +V + ++ + + + Sbjct: 130 MTHPRFEIEKVYEAWVQGMVSRKAIERLRAGVIIDAVKTAPAKVRVLAKRKDRTLMEIRI 189 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+ R++KK+ V L R +G L L G R ++K + Sbjct: 190 HEGRKRQVKKMCASVGHPVVALKRTRFGDLTLDGLRPGEFRYLTKDEVE 238 >gi|171780251|ref|ZP_02921155.1| hypothetical protein STRINF_02039 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] gi|171281599|gb|EDT47034.1| hypothetical protein STRINF_02039 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] Length = 241 Score = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 131/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I + V +NG ++ A V + D +EV+G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEDLIKRGLVTINGKVVTELATTVKAGDVVEVEGTPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP++ R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVVDLLPNVTERIYPVGRLDWDTTGLLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGLATKENLRPLTRGVVIDGKKTKPARYNIIKVDPEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R ++G L L G +R +SKK + + Sbjct: 180 TIHEGRNHQVKKMFELVGLLVDKLSRTNFGTLDLSGLRPGESRRLSKKEISQL 232 >gi|327462027|gb|EGF08356.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK1057] Length = 242 Score = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 132/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q +V +NG ++ A NV S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIRQGKVSINGQVVCELATNVKSGDRVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV + LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVVELLPQVKERIYPVGRLDWDTSGILILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTV 191 + P + +VY R G +++ L L +GI I+G ++ + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+F+ +V++L R +G L L G R+++KK + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLNKKEVSQL 232 >gi|56963596|ref|YP_175327.1| ribosomal large subunit pseudouridine synthase B [Bacillus clausii KSM-K16] gi|56909839|dbj|BAD64366.1| ribosomal large subunit pseudouridine synthase B [Bacillus clausii KSM-K16] Length = 242 Score = 280 bits (718), Expect = 1e-73, Method: Composition-based stats. Identities = 86/234 (36%), Positives = 130/234 (55%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ KVIA+AG+ASRR+ E I + RVKVNG + V D +EVDGVPL K E Sbjct: 2 ERLQKVIAKAGVASRRKAEEYIVEGRVKVNGETVTELGTKVNPSKDAVEVDGVPLDKEE- 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G+V+T +D GR V D + S R+ +GRLD +T GLLLLTNDG A Sbjct: 61 PVYHLLYKPTGVVSTSNDEKGRKVVTDFIESE-QRIYPIGRLDYDTSGLLLLTNDGEFAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 +L P + + Y + G ++ ++ L+ GIV++ + + + +K A V Sbjct: 120 LLMHPRYKIEKEYIAKVKGIPERKRIKELETGIVLEDGKTAPAKAKVLSIDKKKQTAIVR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EGKNR+++++FE V +L R YG LG L G +R + +++ Sbjct: 180 LIIHEGKNRQVRRMFEAIGHPVVKLKRERYGFLTLGHLHPGESRPLKPIEVKQL 233 >gi|315640594|ref|ZP_07895700.1| ribosomal large subunit pseudouridine synthase B [Enterococcus italicus DSM 15952] gi|315483622|gb|EFU74112.1| ribosomal large subunit pseudouridine synthase B [Enterococcus italicus DSM 15952] Length = 236 Score = 280 bits (718), Expect = 2e-73, Method: Composition-based stats. Identities = 82/231 (35%), Positives = 123/231 (53%), Gaps = 3/231 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA+AGI SRR+ E I RVKVNG+++ V S D IEVD VP+ + E + Sbjct: 3 RLQKVIAQAGITSRRKAEVYILDGRVKVNGVVVNELGTKVSSKDTIEVDNVPISQ-EGSV 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L++KP G+++ SD R V D + R+ +GRLD NT GLLLLTNDG +++L Sbjct: 62 YYLFYKPRGVISAVSDDKKRKVVTDFFTEVSERIYPIGRLDYNTSGLLLLTNDGEFSQLL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTVG 192 P + + Y + G L L +G+ +G Y + + + + + V + Sbjct: 122 THPKNEIEKKYVAKVKGVALPHALKPLTRGLKYKGEKYAPAKYDILSTDTRAETSIVQLT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EGKN ++K + E V +L R YG LG L G R + KK + + Sbjct: 182 IHEGKNHQVKNMLEAVGLPVQKLKREQYGNLTLGNLKPGEYRPLLKKEINQ 232 >gi|262283235|ref|ZP_06061002.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. 2_1_36FAA] gi|262261487|gb|EEY80186.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sp. 2_1_36FAA] Length = 242 Score = 280 bits (718), Expect = 2e-73, Method: Composition-based stats. Identities = 78/233 (33%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V +NG ++ A V + D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTINGQVVRELATLVKTGDKVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ +D GR TV D LP + R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVTDDKGRKTVVDLLPQVKERIYPVGRLDWDTSGLLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G +++ L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGIANKENLLPLTRGVEIDGKKTKPAVYEIIKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+F+ +V++L R +G L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLEVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQL 232 >gi|290579936|ref|YP_003484328.1| putative pseudouridylate synthase B large subunit [Streptococcus mutans NN2025] gi|254996835|dbj|BAH87436.1| putative pseudouridylate synthase B large subunit [Streptococcus mutans NN2025] Length = 240 Score = 280 bits (718), Expect = 2e-73, Method: Composition-based stats. Identities = 84/233 (36%), Positives = 129/233 (55%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V +NG ++ A V S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTLNGQMVTELATTVKSGDRVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ D GR TV D LP + R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVRDDKGRQTVVDLLPEVKERIYPVGRLDWDTSGLLILTNDGDFTDK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 + P + +VY R G +D L L KGIVI G + + ++ + + V + Sbjct: 120 MLHPRHEIDKVYVARVKGLASKDNLRPLTKGIVIDGKKTQPARYRIVKTDREKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G L L +G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLMVDKLSRTRFGTLDLSGLNSGEARRLNKKEISQL 232 >gi|313888050|ref|ZP_07821728.1| pseudouridine synthase B, ribosomal large subunit [Peptoniphilus harei ACS-146-V-Sch2b] gi|312846005|gb|EFR33388.1| pseudouridine synthase B, ribosomal large subunit [Peptoniphilus harei ACS-146-V-Sch2b] Length = 235 Score = 280 bits (718), Expect = 2e-73, Method: Composition-based stats. Identities = 78/234 (33%), Positives = 128/234 (54%), Gaps = 2/234 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G ASRR+ E I + VKVN ++ + D + +DG L + Sbjct: 1 MRLQKYMAHCGAASRRKCEEFIQEGLVKVNDKVVTELGTKIDPNVDRVYLDGKRLTLEGK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KPIG+VT+ SD R TV D +P + RV VGRLDI+T GL+ LTNDG LA Sbjct: 61 KVYMILNKPIGVVTSASDEKDRPTVTDLVPDDY-RVYPVGRLDIDTTGLVFLTNDGQLAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 ++ P + + Y V G + +L++L++G+ I+ + V + ++ + + Sbjct: 120 IMMHPRYKIGKKYIVTVDGTPNARELSILREGLDIRDLKTSPANVRILKSFKQDSILEIE 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EG+N ++K++F++ KV +L RIS G QL L G+ R +S+K ++ G Sbjct: 180 IFEGQNHQVKRMFDYIGHKVKKLKRISIGEIQLLDLEPGNYRYLSEKEVKYLKG 233 >gi|212690763|ref|ZP_03298891.1| hypothetical protein BACDOR_00250 [Bacteroides dorei DSM 17855] gi|212666640|gb|EEB27212.1| hypothetical protein BACDOR_00250 [Bacteroides dorei DSM 17855] Length = 243 Score = 280 bits (718), Expect = 2e-73, Method: Composition-based stats. Identities = 72/236 (30%), Positives = 115/236 (48%), Gaps = 3/236 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + P R++K +A AGI SRRE + I V VNG ++ + TD ++ P Sbjct: 1 MTDPNEPIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEVKFHDEP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLT 125 + ER L +KP VTT DP R TV D + R+ VGRLD NT G+LLLT Sbjct: 61 VS-IERKTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTGVLLLT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L P ++Y V V + L+ + G+ + ++ ++ Sbjct: 120 NDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISYASET-D 178 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + + GKNR ++++FE +KV +L R+ + L G R ++++ + Sbjct: 179 KSQVGIEIHSGKNRIVRRIFESLGYKVIKLDRVYFAGLTKKGLRRGDWRYLTEQEV 234 >gi|302342638|ref|YP_003807167.1| pseudouridine synthase [Desulfarculus baarsii DSM 2075] gi|301639251|gb|ADK84573.1| pseudouridine synthase [Desulfarculus baarsii DSM 2075] Length = 271 Score = 280 bits (718), Expect = 2e-73, Method: Composition-based stats. Identities = 97/270 (35%), Positives = 145/270 (53%), Gaps = 4/270 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK 69 +R+ K++ARAG+ASRR E +IA RV V+G ++ + T I +DG P+ + Sbjct: 1 MAEERLQKILARAGVASRRAAEELIAAGRVAVDGQIVRQPGHKADPDTQSIAIDGKPIAR 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 AE WL HKP G V+T DP GR V D LP R+ VGRLD+++EGL+LLTNDG Sbjct: 61 AEAKEYWLAHKPAGYVSTVHDPQGRPRVLDLLPPEIRARLYPVGRLDLDSEGLMLLTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + YRV G+ ++ L L+ G+ I+G +T+ ++ Sbjct: 121 DLALRLTHPRYGVPKTYRVWLSGRPNRADLEALRAGVEIEGRQTAPAMITVKAAADGHSK 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP- 247 V++ LREG+ REIK +++ V RL+R+ GP +LG L G+ R +S ++ Sbjct: 181 VSMVLREGRKREIKLMWKARGLNVIRLVRVGLGPLRLGDLPPGAVRRLSPAEIQALRRQC 240 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 H L + + D + S R+ P+ S Sbjct: 241 HALSGCKDSADG-VQKSARGARNAPSKKST 269 >gi|153213785|ref|ZP_01948993.1| pseudouridine synthase family 1 protein [Vibrio cholerae 1587] gi|124115709|gb|EAY34529.1| pseudouridine synthase family 1 protein [Vibrio cholerae 1587] Length = 340 Score = 280 bits (718), Expect = 2e-73, Method: Composition-based stats. Identities = 82/342 (23%), Positives = 142/342 (41%), Gaps = 20/342 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG L V D + +DG PLR E Sbjct: 17 TEKRLNKFISETGYCSRREADKLIEQGRVTLNG-LQPEVGSKVTEQDEVCIDGKPLRSKE 75 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 76 RPIYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 133 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + + + + G+ I +VT +TQ + Sbjct: 134 NKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYS----FRI 189 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 190 VLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSDTEVSEILAMCEDS 249 Query: 252 EAQVNLDAPIYSSETLVR--DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 S +T+ R D S + ++ ++N +G + Q+ P ++ Sbjct: 250 SGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNSKKA 309 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 S S + +P SLR++ Sbjct: 310 QRRP-----------SSPSSNTASGSKPTPRTGGTLSLRKSK 340 >gi|21909805|ref|NP_664073.1| putative ribosomal large subunit pseudouridine synthase [Streptococcus pyogenes MGAS315] gi|28896502|ref|NP_802852.1| hypothetical protein SPs1590 [Streptococcus pyogenes SSI-1] gi|21903991|gb|AAM78876.1| putative ribosomal large subunit pseudouridine synthase [Streptococcus pyogenes MGAS315] gi|28811756|dbj|BAC64685.1| putative hypothetical protein [Streptococcus pyogenes SSI-1] Length = 240 Score = 280 bits (718), Expect = 2e-73, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 126/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVVEIEGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G +++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDT 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G ++ L L +GIVI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPGEARRLNKKEISQL 232 >gi|258591956|emb|CBE68261.1| Uncharacterized RNA pseudouridine synthase aq_1464 (RNA-uridine isomerase) (RNA pseudouridylate synthase) [NC10 bacterium 'Dutch sediment'] Length = 282 Score = 280 bits (718), Expect = 2e-73, Method: Composition-based stats. Identities = 82/244 (33%), Positives = 123/244 (50%), Gaps = 2/244 (0%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHI 60 K Q +R+ + +ARAG+ SRR E++I RV+VNG + + V D + Sbjct: 13 PTKPARQTGGGEERLQRYLARAGLGSRRSCEQLILDGRVRVNGRIASQLGTKVSPGLDTV 72 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTE 119 D P+ ++ + HKP G++T+ SDP GR + D LP R+ VGRLD TE Sbjct: 73 TCDHKPVTSSQSLHYLILHKPAGVLTSLSDPRGRPVIGDLLPPRGLPRLFPVGRLDYQTE 132 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GL+LLTNDG LA L PS + + Y + G D L LK G+V +G + Sbjct: 133 GLVLLTNDGVLAHGLMHPSFEVEKEYLAKVRGCPTPDDLARLKAGVVSEGEKLWATHAAI 192 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +AW+ + + +G+ EI+++ + V RL RI GP LG L G R+++ Sbjct: 193 VKPGIGSAWLKLIVHQGRYHEIRRMCDAIGHPVLRLQRIRVGPIVLGKLPKGCWRQLTPA 252 Query: 240 ILRE 243 L + Sbjct: 253 ELAD 256 >gi|188589639|ref|YP_001920921.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum E3 str. Alaska E43] gi|188499920|gb|ACD53056.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum E3 str. Alaska E43] Length = 236 Score = 280 bits (718), Expect = 2e-73, Method: Composition-based stats. Identities = 75/229 (32%), Positives = 120/229 (52%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E MI VKVNG+++ V D +E G ++K E Sbjct: 3 ERLQKYMASCGLASRRKCEEMILSGEVKVNGVVVTELGTRVNPVEDKVEYKGCLIKKEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ D GR TV D + + R+ +GRLD ++ G++LLTNDG + Sbjct: 63 KVYIILNKPEGYITSAKDEKGRKTVLDLV-KVNERIYPIGRLDYDSSGIILLTNDGDIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y G+V + ++ KGI I G + + + + + V V Sbjct: 122 KIIHPREELNKKYIAVVKGEVSKKDIDTFNKGIDIGGYVTAPASLEVLSYENGKSTVEVC 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGKNR+I+K+ N +V L R+S G QL L G RE++ + L Sbjct: 182 IHEGKNRQIRKMCTAINHEVLSLNRVSIGEIQLKYLKKGEWRELTTEEL 230 >gi|327470426|gb|EGF15882.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK330] Length = 242 Score = 280 bits (718), Expect = 2e-73, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 132/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q +V +NG ++ A N+ S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIRQGKVSINGQVVRELATNIKSGDRVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV + LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVVELLPQVKERIYPVGRLDWDTSGILILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTV 191 + P + +VY R G +++ L L +GI I+G ++ + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+F+ +V++L R +G L L G R++SKK + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKKEVSQL 232 >gi|295687634|ref|YP_003591327.1| RNA-binding S4 domain-containing protein [Caulobacter segnis ATCC 21756] gi|295429537|gb|ADG08709.1| RNA-binding S4 domain protein [Caulobacter segnis ATCC 21756] Length = 426 Score = 280 bits (718), Expect = 2e-73, Method: Composition-based stats. Identities = 139/344 (40%), Positives = 189/344 (54%), Gaps = 7/344 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV+K +ARAG+ASRREVER+I RV +NG +L A+ V D + VDG + + E T Sbjct: 26 ERVAKALARAGVASRREVERLIEAGRVAINGKVLTTPAIKVKPGDFLTVDGQLVAEREPT 85 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R++ YHKP GL+TTH+DP GR TVF LP R+ISVGRLD+N+EGLLLLTNDG L+R Sbjct: 86 RIFRYHKPTGLMTTHNDPKGRPTVFQTLPKDLPRLISVGRLDLNSEGLLLLTNDGELSRA 145 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-----TQKGSNAW 188 LE PS W+R YR R G Q KL+ LK G+ I+G+ YG ++ LD G N W Sbjct: 146 LETPSNAWVRRYRARAFGDTTQAKLDTLKDGVTIEGVKYGSIEARLDKAHDKAGGGKNIW 205 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +TV L EGKNRE++KV E KVNRLIR+SYGPF LG L AG EV +++RE L Sbjct: 206 ITVSLSEGKNREVRKVLESVGLKVNRLIRMSYGPFALGALAAGQIEEVGPRVIRELLEGV 265 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 + E D P ++ P D R + + + +K PV++ Sbjct: 266 VPPENMPTGDRPKFAGIANPVKAPGTDGG-GDLQRRGVPRADRDLKPAAPEKPEKPVYKA 324 Query: 309 NLASNVWM-AKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 A + + + + + ++ + R Sbjct: 325 GWAKPKKKVSPHAPAKGAAKPKRAPAKSLETKFIDDRKPVARGK 368 >gi|313890897|ref|ZP_07824521.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus pseudoporcinus SPIN 20026] gi|313120795|gb|EFR43910.1| pseudouridine synthase B, ribosomal large subunit [Streptococcus pseudoporcinus SPIN 20026] Length = 240 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V +NG ++ A V S+D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTLNGQVITDLATLVKSSDVVEVEGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVIDLLPQVKERIYPVGRLDWDTSGLLILTNDGDFTDK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG++ ++KK+FE V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRHHQVKKMFESVGLLVDKLSRTRFGTLDLTGLRPGEARRLNKKEVSQL 232 >gi|296131694|ref|YP_003638941.1| pseudouridine synthase [Thermincola sp. JR] gi|296030272|gb|ADG81040.1| pseudouridine synthase [Thermincola potens JR] Length = 244 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 73/235 (31%), Positives = 124/235 (52%), Gaps = 8/235 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 QR+ KV+A G+ +R+E +++I +++V+VNG L + ++V D I V+G P+ Sbjct: 5 ERQRLDKVLAHMGLGTRKEAKKLIKERKVEVNGELAQDPGLHVRPGQDRIVVNGEPVEYR 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDG 128 + + +KP G+++ D G V D L + VGRLD +TEGLLLLTNDG Sbjct: 65 Q-FVYLMLNKPQGVLSATGDESG-QVVVDLLSPNYQSFHPFPVGRLDKDTEGLLLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNA 187 LA L P + Y G V Q+ + + ++G+++ G + + + G + Sbjct: 123 HLAHRLLSPKKHVPKTYYATVSGTVTQEDVEMFRQGVILDDGYRTLPGCLKIL-RSGPES 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V + + EGK ++K++F+ KV L RI+ GP L L G RE++++ + Sbjct: 182 EVELTIYEGKYHQVKRMFQAVGKKVTYLKRIAMGPLTLDNTLKPGEYRELTEEEI 236 >gi|158424014|ref|YP_001525306.1| pseudouridine synthase [Azorhizobium caulinodans ORS 571] gi|158330903|dbj|BAF88388.1| pseudouridine synthase [Azorhizobium caulinodans ORS 571] Length = 717 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 155/345 (44%), Positives = 205/345 (59%), Gaps = 12/345 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R++KVIARAG+ SRRE+E I RV VNG +L A V + D I VDG PL + E Sbjct: 28 EAERIAKVIARAGLGSRREIEEWITAGRVSVNGEVLASPAFTVTAEDEIRVDGEPLPERE 87 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RTRL+LYHKPIG+VTT+ DP+GR+T+F+ LP R++SVGRLDIN+EGLLLLTNDGGLA Sbjct: 88 RTRLFLYHKPIGVVTTNRDPEGRTTLFELLPGHLPRLVSVGRLDINSEGLLLLTNDGGLA 147 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 RVLELP T WLR YRVR G VDQ +L+ L KGIV++G+ YG ++ LD +G+N W+TV Sbjct: 148 RVLELPETGWLRRYRVRAKGTVDQAQLDALIKGIVVEGVEYGPIEAVLDRVQGANVWITV 207 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 LREGKNRE++ V +VNRLIRISYGPFQLG + G EV +ILR+Q+G + Sbjct: 208 ALREGKNREVRNVLGALGLQVNRLIRISYGPFQLGEIAEGGVEEVRTRILRDQIGNDIAA 267 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 A + + P+ E + R + + K +SK + RR+ Sbjct: 268 AAGADFNGPLVEREPEEEAPRRPLGLDKRKLPRAAEVADAKAAVSKPARR----ERRSA- 322 Query: 312 SNVWMAKGIHSSFLSDSG--QREENHRRSPSFPSKRSLRRTSAKK 354 I +R ++ R + R+ A K Sbjct: 323 -----EPEIDPERPPRVPLRKRMQDEERKVVKVGTVADRKGRAVK 362 >gi|58337261|ref|YP_193846.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus acidophilus NCFM] gi|227903846|ref|ZP_04021651.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus acidophilus ATCC 4796] gi|58254578|gb|AAV42815.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus acidophilus NCFM] gi|227868733|gb|EEJ76154.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus acidophilus ATCC 4796] Length = 238 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 80/234 (34%), Positives = 130/234 (55%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E+MI RVKV+G ++ + V + +I VD P+ + E Sbjct: 3 ERLQKVIAEAGIASRRKAEKMITAGRVKVDGQVVTKLGTKVDTFSNITVDDEPIER-ESL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++++KP G+V+T D GR TV D I RV +GRLD +T GLLL+TNDG LA + Sbjct: 62 HTYIFYKPRGVVSTADDDKGRKTVVDYFEDIPYRVYPIGRLDYDTSGLLLMTNDGELANL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G + +++ L KG+ + +V + ++ + V + Sbjct: 122 LMHPRNEVSKVYVAKIKGILTPEEIKSLTKGVKLGRFKSAPAKVKVLKTDKRKNTQIVQI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG ++K++F+ V +L R Y L +L +G RE+SK + + + Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVEKLSREKYAFLTLDSLTSGQYRELSKNEVDKLM 235 >gi|323485703|ref|ZP_08091040.1| pseudouridine synthase [Clostridium symbiosum WAL-14163] gi|323400966|gb|EGA93327.1| pseudouridine synthase [Clostridium symbiosum WAL-14163] Length = 244 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 69/244 (28%), Positives = 116/244 (47%), Gaps = 6/244 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 MK+ N + R++K ++ AGI SRRE +R+I +V V+G + V ++ I Sbjct: 1 MKNMNDNAKTDNGIRLNKYLSEAGICSRREADRLIEDGKVTVDGRTA-SMGMKVFTSQEI 59 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 V+G + ER L +KP G+V T SD D + + R+ VGRLD ++EG Sbjct: 60 TVNGKRVEGKERPVLLAVNKPRGIVCTTSDKDRAENIVEFF-KYPVRIYPVGRLDKDSEG 118 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL+TN G L + + Y V V + + ++ G+ I G + + Sbjct: 119 LLLMTNQGDLVNRILRGRYGHEKEYLVTVDRPVTEAFIRQMRNGVEILGTRTKPCEAEIT 178 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ ++ L +G NR+I+++ E ++V L R+ +LG L G RE++ Sbjct: 179 GERS----FSIILTQGLNRQIRRMCEALGYQVKTLKRVRIMNVKLGNLKTGQYRELTPAE 234 Query: 241 LREQ 244 E Sbjct: 235 WEEL 238 >gi|221310234|ref|ZP_03592081.1| pseudouridine synthase [Bacillus subtilis subsp. subtilis str. 168] Length = 245 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 79/238 (33%), Positives = 130/238 (54%), Gaps = 3/238 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ I+ E +R+ KVIA AG+ASRR+ E +I + +VKVNG ++ V V +D I Sbjct: 5 VEKSKIILEVKDMERLQKVIAHAGVASRRKAEELIKEGKVKVNGKVVTELGVKVTGSDQI 64 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 EV+G+ + + E +L +KP G+++ D GR V D +I R+ +GRLD +T G Sbjct: 65 EVNGLKVEREE-PVYFLLYKPRGVISAAQDDKGRKVVTDFFKNIPQRIYPIGRLDYDTSG 123 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLLLTNDG A L P + + Y + G ++ L L++GI ++ + L Sbjct: 124 LLLLTNDGEFANKLMHPKYEIDKTYVAKVKGIPPKELLRKLERGIRLEEGKTAPAKAKLL 183 Query: 181 T--QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + +K + + + + EG+NR+++++FE +V +L R Y L L G RE+ Sbjct: 184 SLDKKKQTSIIQLTIHEGRNRQVRRMFEAIGHEVIKLKREEYAFLNLRGLHTGDAREL 241 >gi|288801457|ref|ZP_06406910.1| ribosomal large subunit pseudouridine synthase B [Prevotella sp. oral taxon 299 str. F0039] gi|288331668|gb|EFC70153.1| ribosomal large subunit pseudouridine synthase B [Prevotella sp. oral taxon 299 str. F0039] Length = 479 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 76/230 (33%), Positives = 116/230 (50%), Gaps = 3/230 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ VM TD ++ G L E+ Sbjct: 243 PVRLNKFLANAGVCSRREADEYIQAGSVTVNGQVVTELGTKVMRTDEVKF-GDNLVSLEK 301 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 302 KVYILINKPKDCVTTSDDPQQRKTVLDLVKNACPERIYPVGRLDRNTTGVLLLTNDGDLA 361 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P +VY V V Q+ L + +GI ++ ++ ++ V + Sbjct: 362 SKLTHPKFLKKKVYHVFLDKPVAQEDLQKIAEGIELEDGEIHADEIAYANEE-DKKQVGI 420 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + GKNR ++++FE ++V +L R+ + L G R +++K + Sbjct: 421 EIHSGKNRIVRRIFEHLGYRVIKLDRVQFAGLTKKNLRRGDWRFLTEKEV 470 >gi|225857461|ref|YP_002738972.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae P1031] gi|225725990|gb|ACO21842.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae P1031] Length = 240 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 80/233 (34%), Positives = 129/233 (55%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ +D GR TV D LP++ R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G ++D L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + Sbjct: 180 IIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQL 232 >gi|262192131|ref|ZP_06050292.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae CT 5369-93] gi|262031980|gb|EEY50557.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae CT 5369-93] Length = 328 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 84/342 (24%), Positives = 144/342 (42%), Gaps = 20/342 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG L V D + +DG PLR E Sbjct: 5 TEKRLNKFISETGYCSRREADKLIEQGRVTLNG-LQPEVGSKVTEQDEVCIDGKPLRSKE 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 64 RPIYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + + + + G+ I +VT +TQ + Sbjct: 122 NKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYS----FRI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 178 VLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSDAEVSEILAMCEDS 237 Query: 252 EAQVNLDAPIYSSETLVR--DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 S +T+ R D S + ++ ++N +G + Q+ P ++ Sbjct: 238 SGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNSKKA 297 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 S + SG R +P SLR++ Sbjct: 298 QRRP------SSPSSNTASGSRP-----TPRTGGTLSLRKSK 328 >gi|268610237|ref|ZP_06143964.1| pseudouridine synthase [Ruminococcus flavefaciens FD-1] Length = 247 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 83/238 (34%), Positives = 128/238 (53%), Gaps = 3/238 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + R+ K+IA +G+ SRR+ E +I++ RVK+NG ++ D I +DG Sbjct: 1 MGDKVEKIRIQKMIADSGVCSRRKAEELISRGRVKLNGHPVK-LGDKCGYKDIITIDGER 59 Query: 67 LRKAERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L ++ R + +KP G VTT SD R V D L + RV VGRLD N+EGLLL Sbjct: 60 LYIPKKKSFRYIIMNKPRGYVTTVSDELDRRCVMDLLDDVEDRVYPVGRLDRNSEGLLLF 119 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG A + PS + YRV + ++L L +G+ I G V + ++ Sbjct: 120 TNDGEFANSIMHPSRHISKTYRVTVRPDISDEQLIQLSEGVEIDGKRTLPATVIVKDKQP 179 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + ++EG+NR+I+K+ E +V RL R S GP +LG L G+ R+++ + LR Sbjct: 180 GRVVLLMTIKEGRNRQIRKMCEAVGLEVARLRRTSIGPIKLGMLKPGTYRDLTAEELR 237 >gi|323340736|ref|ZP_08080988.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus ruminis ATCC 25644] gi|323091859|gb|EFZ34479.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus ruminis ATCC 25644] Length = 261 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 79/245 (32%), Positives = 134/245 (54%), Gaps = 3/245 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 KN +++ R+ K +A AG+ASRR E++I + RVKVNG++++ V D IEV Sbjct: 6 RKNNKEDHMAEVRLQKAMADAGVASRRASEKLILEGRVKVNGVVVKELGTKVKGDDAIEV 65 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 +G + + +L++KP G+++ D GR V D +R+ +GRLD +T G+L Sbjct: 66 NGTLIERERNKVYYLFYKPRGVISAVKDDKGRRVVTDYFEGEKNRIYPIGRLDYDTSGIL 125 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY---GDMQVTL 179 LLTNDG LA +L P + + Y + G V D L L+KG+ ++ Y +V Sbjct: 126 LLTNDGELANLLMHPRYKVDKTYVAKVEGLVQSDDLKRLRKGVKMKDGHYSARAKAKVIS 185 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + +++ V++ + EG+N ++K +FE V +L R +Y L L++G RE+S + Sbjct: 186 SDRAKNHSIVSLTIHEGRNHQVKNMFEAIGHPVMKLKRETYDFLTLKGLVSGQYRELSNE 245 Query: 240 ILREQ 244 ++ Sbjct: 246 EVKTL 250 >gi|259500661|ref|ZP_05743563.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus iners DSM 13335] gi|302191350|ref|ZP_07267604.1| 16S rRNA uridine-516 pseudouridylate synthase related enzyme [Lactobacillus iners AB-1] gi|312871408|ref|ZP_07731503.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LEAF 3008A-a] gi|315653504|ref|ZP_07906425.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus iners ATCC 55195] gi|259168045|gb|EEW52540.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus iners DSM 13335] gi|311093061|gb|EFQ51410.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LEAF 3008A-a] gi|315489195|gb|EFU78836.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus iners ATCC 55195] Length = 239 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 84/232 (36%), Positives = 126/232 (54%), Gaps = 3/232 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA AGIASRR+ E +I +V VNG L+ V D IEV+GVP+ K E+ Sbjct: 4 RLQKVIAEAGIASRRKAEILITSGQVTVNGNLVTTLGTKVDDNDKIEVNGVPIHK-EQLH 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP +V+T SD GR TV D + R+ VGRLD +T GLLL+TNDG LA L Sbjct: 63 TYLLYKPRNVVSTVSDNKGRKTVTDFFKDLPYRLYPVGRLDYDTSGLLLMTNDGELANRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVG 192 P + +VY + G + ++ LK G+ I G +V + + V + Sbjct: 123 MHPKNEIEKVYVAKISGFLTASEIYDLKHGVTIDGRKTAPAKVKIIKTDKNRNIQLVQLT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG ++K +F+ N V++L R Y L +L++G RE++ + + + Sbjct: 183 IHEGHYHQVKNMFKAVNHLVDKLSRERYAFLTLKSLISGEYRELTHEEINKL 234 >gi|309805712|ref|ZP_07699752.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LactinV 09V1-c] gi|309809248|ref|ZP_07703117.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners SPIN 2503V10-D] gi|312872332|ref|ZP_07732402.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LEAF 2062A-h1] gi|312873963|ref|ZP_07733999.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LEAF 2052A-d] gi|308164965|gb|EFO67208.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LactinV 09V1-c] gi|308170361|gb|EFO72385.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners SPIN 2503V10-D] gi|311090512|gb|EFQ48920.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LEAF 2052A-d] gi|311092155|gb|EFQ50529.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LEAF 2062A-h1] Length = 239 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 84/232 (36%), Positives = 125/232 (53%), Gaps = 3/232 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA AGIASRR+ E +I +V VNG L+ V D IEV+GVP+ K E+ Sbjct: 4 RLQKVIAEAGIASRRKAEILITSGQVTVNGNLVTTLGTKVDDNDKIEVNGVPIHK-EQLH 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP +V+T SD GR TV D + R+ VGRLD +T GLLL+TNDG LA L Sbjct: 63 TYLLYKPRNVVSTVSDNKGRKTVTDFFKDLPYRLYPVGRLDYDTSGLLLMTNDGELANRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVG 192 P + +VY + G + ++ LK G+ I G +V + + V + Sbjct: 123 MHPKNEIEKVYVAKIRGFLTASEIYDLKHGVTIDGRKTAPAKVKIIKTDKNRNIQLVQLT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG ++K +F+ N V +L R Y L +L++G RE++ + + + Sbjct: 183 IHEGHYHQVKNMFKAVNHLVEKLSRERYAFLTLKSLISGEYRELTHEEINKL 234 >gi|309804173|ref|ZP_07698251.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LactinV 11V1-d] gi|308163756|gb|EFO66025.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LactinV 11V1-d] Length = 239 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 84/232 (36%), Positives = 124/232 (53%), Gaps = 3/232 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA AGIASRR E +I +V VNG L+ V D IEV+GVP+ K E+ Sbjct: 4 RLQKVIAEAGIASRRNAEILITSGQVTVNGNLVTTLGTKVDDNDKIEVNGVPIHK-EQLH 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP +V+T SD GR TV D + R+ VGRLD +T GLLL+TNDG LA L Sbjct: 63 TYLLYKPRNVVSTVSDNKGRKTVTDFFKDLPYRLYPVGRLDYDTSGLLLMTNDGELANRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVG 192 P + +VY + G + ++ LK G+ I G +V + + V + Sbjct: 123 MHPKNEIEKVYVAKISGFLTASEIYDLKHGVTIDGRKTAPAKVKIIKTDKNRNIQLVQLT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG ++K +F+ N V +L R Y L +L++G RE++ + + + Sbjct: 183 IHEGHYHQVKNMFKAVNHLVEKLSRERYAFLTLKSLISGEYRELTHEEINKL 234 >gi|162452113|ref|YP_001614480.1| pseudouridine synthase [Sorangium cellulosum 'So ce 56'] gi|161162695|emb|CAN94000.1| Pseudouridine synthase [Sorangium cellulosum 'So ce 56'] Length = 399 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 98/345 (28%), Positives = 151/345 (43%), Gaps = 14/345 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K+IARAG+ASRR E +I RV+VNG ++ + D IEVDG L +E Sbjct: 3 ERLQKIIARAGVASRRASEELILAGRVRVNGRVVTELGLKADRQKDRIEVDGKRLV-SEA 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 HKP +V+T DP+GR TV D++ +R+ VGRLD T G+LL+TNDG A Sbjct: 62 PVYVALHKPRNVVSTLRDPEGRPTVADHVRGTGARLYPVGRLDFATSGILLMTNDGDFAN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y ++ G + D L ++GI ++ + L +G W+ V Sbjct: 122 ALLHPRGGVPKTYVLKVQGVMSDDDLTPWREGIRLEDGVTLPAEARLLRHEGDKTWLEVT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL---REQLGPHL 249 LREG+N++I+++ E W V RL R ++ L G R ++ L RE G Sbjct: 182 LREGRNQQIRRMGEATGWPVMRLARTTFAGVSSEGLRPGEWRALTVDELLHIREAFGV-- 239 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 + A + +S V R S + + + P R Sbjct: 240 ---PKRIRGAVMGASSGPVDHRRTASSARSGAKASPR---PTQEAAGAAARSRGPAQPRV 293 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + A + R +PS P++ RT+ + Sbjct: 294 RSRANADAPSAPGQGPAGRTARSRT-DAAPSTPARSPAGRTARSR 337 >gi|306827950|ref|ZP_07461217.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes ATCC 10782] gi|304429869|gb|EFM32911.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes ATCC 10782] Length = 240 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 125/233 (53%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q V +NG ++ A V D +E++G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKLGDVVEIEGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G +++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDT 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P + +VY R G ++ L L +GIVI G + + + + V + Sbjct: 120 MTHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPGEARRLNKKEISQL 232 >gi|260598145|ref|YP_003210716.1| 23S rRNA pseudouridylate synthase B [Cronobacter turicensis z3032] gi|260217322|emb|CBA31307.1| Ribosomal large subunit pseudouridine synthase B [Cronobacter turicensis z3032] Length = 364 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 115/352 (32%), Positives = 167/352 (47%), Gaps = 28/352 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MI RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEAMIEAGRVSVDGKIATLGDRVEVTPALKIRIDGHLISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T SDP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SVEQICRVLAYYKPEGELCTRSDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD +K+ L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSQEVEREYAVRVFGQVDDNKVRELARGVQLEDGPAAFKTIRFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E +G ++V ++ +DR + + R K SQ G +Q A Sbjct: 242 ELVGLPPETASKVAVE----------KDRRRMKAN---QIRRAVKRHSQTAGGPRQGSPA 288 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R A+ S+ +++ + N R+ R S + Sbjct: 289 -----RQGQGQAGAARPAGSARPAENTRAGNNTSRASGNARPGGNPRASGAR 335 >gi|218674407|ref|ZP_03524076.1| putative ribosomal large subunit pseudouridine synthase B [Rhizobium etli GR56] Length = 277 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 147/227 (64%), Positives = 175/227 (77%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+SKV+ARAG+ASRR++ERMI + RV +NG +L+ VNV D IEVDGVP+R Sbjct: 48 EAKAERISKVMARAGVASRRDIERMIMEGRVTLNGRVLDTPVVNVTLADRIEVDGVPIRG 107 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ERTRLWLYHKP GLVTT++DP+GR TVFDNLP RV+S+GRLDINTEGLLLLTNDGG Sbjct: 108 IERTRLWLYHKPAGLVTTNADPEGRPTVFDNLPEELPRVMSIGRLDINTEGLLLLTNDGG 167 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LAR LELP+T WLR YRVR HG++DQ+ L+ LK GI + G+ YG ++ TLD +GSN W+ Sbjct: 168 LARALELPATGWLRRYRVRAHGEIDQEALDKLKDGIAVDGVLYGSIEATLDRTQGSNVWI 227 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 T+GLREGKNREIK V VNRLIRISYGPFQLG L G EV Sbjct: 228 TMGLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGDLPEGHVIEV 274 >gi|229507701|ref|ZP_04397206.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae BX 330286] gi|229512104|ref|ZP_04401583.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae B33] gi|229519239|ref|ZP_04408682.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae RC9] gi|229528772|ref|ZP_04418162.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae 12129(1)] gi|229607205|ref|YP_002877853.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae MJ-1236] gi|255747078|ref|ZP_05421023.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholera CIRS 101] gi|262161377|ref|ZP_06030487.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae INDRE 91/1] gi|262167753|ref|ZP_06035455.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae RC27] gi|229332546|gb|EEN98032.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae 12129(1)] gi|229343928|gb|EEO08903.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae RC9] gi|229352069|gb|EEO17010.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae B33] gi|229355206|gb|EEO20127.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae BX 330286] gi|229369860|gb|ACQ60283.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae MJ-1236] gi|255735480|gb|EET90880.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholera CIRS 101] gi|262023818|gb|EEY42517.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae RC27] gi|262028688|gb|EEY47342.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae INDRE 91/1] Length = 328 Score = 280 bits (716), Expect = 3e-73, Method: Composition-based stats. Identities = 82/342 (23%), Positives = 143/342 (41%), Gaps = 20/342 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG L V D + +DG PLR E Sbjct: 5 TEKRLNKFISETGYCSRREADKLIEQGRVTLNG-LQPEVGSKVTEQDEVCIDGKPLRSKE 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 64 RPIYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + + + + G+ I +VT +TQ + Sbjct: 122 NKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYS----FRI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 178 VLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILAMCEDS 237 Query: 252 EAQVNLDAPIYSSETLVR--DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 S +T+ R D S + ++ ++N +G + Q+ P ++ Sbjct: 238 SGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNSKKA 297 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 S S + +P SLR++ Sbjct: 298 QRRP-----------SSPSSNTASGSKPTPRTGGTLSLRKSK 328 >gi|27363727|ref|NP_759255.1| ribosomal large subunit pseudouridine synthase F [Vibrio vulnificus CMCP6] gi|27359843|gb|AAO08782.1| Ribosomal large subunit pseudouridine synthase F [Vibrio vulnificus CMCP6] Length = 347 Score = 280 bits (716), Expect = 3e-73, Method: Composition-based stats. Identities = 78/348 (22%), Positives = 146/348 (41%), Gaps = 14/348 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + Q+N R++K I+ G SRRE +++I Q RV +NG V+ D + VDG Sbjct: 1 MSQDNAK--RLNKYISETGFCSRREADKLIEQGRVTINGKQP-EMGTKVLPGDDVCVDGK 57 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+ E+ +KP G+ T ++ D + D + R+ +GRLD ++GL+ LT Sbjct: 58 PVAAKEKPVYIALNKPTGITCT-TERDIPGNIVDFI-GHKKRIFPIGRLDKPSDGLIFLT 115 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y VR + + + + G+ I +VT +T+ Sbjct: 116 NDGDIVNKILRAGNHHEKEYVVRVDKPITPEFIKAMSSGVNILDTVTLPCKVTQETKFS- 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E ++V +L R+ L + G R ++ + E L Sbjct: 175 ---FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLTDDEVTEIL 231 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 + E V + R R +++ D + +++++N + K Sbjct: 232 A---MCEGSVGTEEASRVDAKGRRIRKATDAKLFDSREENQTSTARRNQKQRTFKGNNAD 288 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R + D + E+ R+ + +KR +AK Sbjct: 289 EFR--HAPNSKKAQQRKQQDGDKPRFEKPKRQEQAGKAKRYDNPNAAK 334 >gi|319400836|gb|EFV89055.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus epidermidis FRI909] Length = 245 Score = 280 bits (716), Expect = 3e-73, Method: Composition-based stats. Identities = 82/245 (33%), Positives = 138/245 (56%), Gaps = 5/245 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R+ K IA++G SRR+ E +I + RVKVNG + VM +D +EVDG+ + + + Sbjct: 4 EKERLQKRIAKSGYTSRRKAEVLITEGRVKVNGQTVTELGSKVMPSDLVEVDGIKIEQED 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L++KP ++T+ SD GR V D + SR+ VGRLD +T G+LLLTNDG Sbjct: 64 KI-YILFYKPTQVITSVSDDRGRRVVTDYFDDLESRIYPVGRLDYDTSGVLLLTNDGEFT 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWV 189 ++ P + Y + G + ++++ L+KGI ++ QV + Q + + V Sbjct: 123 NLMTHPRYHIKKKYVAKLKGYLMREEIKQLEKGIELEDGYTQPAQVKIKKQDKEKNTTLV 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + + EG+NR+++++FE+F +VN+L RI +GP L L AG R ++ ++ HL Sbjct: 183 EITISEGRNRQVRRMFEYFGHQVNKLARIQFGPIDLKGLNAGEGRVLTPHEVKTL--RHL 240 Query: 250 LEEAQ 254 E + Sbjct: 241 AENGK 245 >gi|306830112|ref|ZP_07463296.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis ATCC 6249] gi|304427638|gb|EFM30734.1| ribosomal large subunit pseudouridine synthase B [Streptococcus mitis ATCC 6249] Length = 240 Score = 280 bits (716), Expect = 3e-73, Method: Composition-based stats. Identities = 76/233 (32%), Positives = 127/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ A + + D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKAGDKVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ +D GR TV D L ++ R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVTDDKGRKTVVDLLSNVKERIYPVGRLDWDTSGVLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G +++ L +G+ I+G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVANKENLRPFTRGVEIEGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+FE +V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGEARRLNKKEISQL 232 >gi|239636840|ref|ZP_04677839.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus warneri L37603] gi|239597514|gb|EEQ80012.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus warneri L37603] Length = 246 Score = 280 bits (716), Expect = 3e-73, Method: Composition-based stats. Identities = 77/231 (33%), Positives = 130/231 (56%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I +VKVNG ++ V ++D +EV+G+ L + ++ Sbjct: 6 ERLQKRIASSGYTSRRKAETLITDGKVKVNGHVVTELGTKVSNSDTVEVEGIKLEQEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L++KP ++T+ SD GR V D I +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 -YILFNKPAQVITSVSDDRGRKVVTDYFKDIETRIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 + P + Y + G + ++++ L+KGI ++ QV + Q V + Sbjct: 125 MTHPRYHIKKKYVAKLKGYLMREEVKALEKGIELEDGFTQPAQVKVKNQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+++++FE F +V++L RI +GP L L AG R ++ ++ Sbjct: 185 TISEGRNRQVRRMFEHFGHQVSKLTRIQFGPLDLKGLNAGEGRVLTPHEVK 235 >gi|227515180|ref|ZP_03945229.1| pseudouridylate synthase [Lactobacillus fermentum ATCC 14931] gi|227086512|gb|EEI21824.1| pseudouridylate synthase [Lactobacillus fermentum ATCC 14931] Length = 241 Score = 280 bits (716), Expect = 3e-73, Method: Composition-based stats. Identities = 84/238 (35%), Positives = 126/238 (52%), Gaps = 5/238 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ KVIA AG+ASRR E +I +VKVNG ++ V D + V+G P+ + Sbjct: 1 MAKERLQKVIAHAGVASRRAAEGLILAGKVKVNGQVVTELGTKVDGNDEVMVNGEPVEQ- 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDG 128 E+ +L KP G++++ D GR TV D L + +RV VGRLD +T GLL++TNDG Sbjct: 60 EQHEYYLLDKPRGVISSAHDDKGRKTVVDILKNEGVQTRVYPVGRLDYDTTGLLVMTNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSN 186 LA L P + +VY + G V D++ LL++G+ I G + L Q+ Sbjct: 120 ELANRLMHPRFEVDKVYIAKVKGLVSNDEMRLLREGVKIDGKKSQPARTKLLEANQRQKT 179 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + V + + EG ++KK+ E V +L R SYGP L L G R++ +R Sbjct: 180 SVVKLTIHEGHYHQVKKMMEAVGHPVLKLHRESYGPLTLAGLNPGQFRKLKVDEVRAL 237 >gi|251779623|ref|ZP_04822543.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|243083938|gb|EES49828.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 236 Score = 280 bits (716), Expect = 3e-73, Method: Composition-based stats. Identities = 75/229 (32%), Positives = 120/229 (52%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I VKVNG+++ V D +E G ++K E Sbjct: 3 ERLQKYMASCGLASRRKCEEIILSGEVKVNGVVVTELGTRVNPVEDKVEYKGCLIKKEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ D GR TV D + + R+ +GRLD ++ GL+LLTNDG + Sbjct: 63 KVYIILNKPEGYITSAKDEKGRKTVLDLV-KVNERIYPIGRLDYDSSGLILLTNDGDIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y G+V + ++ KGI I G + + + + + V V Sbjct: 122 KIIHPREELNKKYIAVVKGEVSKKDIDAFNKGIDIGGYVTAPASLEVLSYENGKSTVEVC 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGKNR+I+K+ N +V L R+S G QL L G RE++ + L Sbjct: 182 IHEGKNRQIRKMCTAINHEVLSLNRVSIGEIQLKYLKKGEWRELTAEEL 230 >gi|260767790|ref|ZP_05876725.1| ribosomal large subunit pseudouridine synthase F [Vibrio furnissii CIP 102972] gi|260617299|gb|EEX42483.1| ribosomal large subunit pseudouridine synthase F [Vibrio furnissii CIP 102972] Length = 347 Score = 280 bits (716), Expect = 3e-73, Method: Composition-based stats. Identities = 77/338 (22%), Positives = 139/338 (41%), Gaps = 23/338 (6%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T +R++K I+ G SRRE +++I Q RV +NG L V D + +D PLR Sbjct: 3 TPTEKRLNKYISETGFCSRREADKLIEQGRVTINGQLP-EMGTKVSDDDEVCIDDKPLRS 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG Sbjct: 62 KEKPVYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGD 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y VR + D + + G+ I +VT +T+ Sbjct: 120 IVNKILRAGNNHEKEYVVRVDKAITADFIKQMSSGVRILDTVTLPCKVTQETKFS----F 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E ++V +L R+ L + G R +++ + E L + Sbjct: 176 RIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLTEAEVAEILA--M 233 Query: 250 LEEAQVNLDAPIYSSE----TLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 E + +A S+ D S + ++ ++N G + + P Sbjct: 234 CEASSGTEEASRVDSQGQRIRKATDAKLFDSREENQPSKARRNPKTFRGHNADEFRHAPN 293 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPS 343 ++ S DS + + R P Sbjct: 294 SKKGKTR----------SERPDSSRADNRADRKPKSTG 321 >gi|303236518|ref|ZP_07323103.1| pseudouridylate synthase [Prevotella disiens FB035-09AN] gi|302483266|gb|EFL46276.1| pseudouridylate synthase [Prevotella disiens FB035-09AN] Length = 505 Score = 280 bits (716), Expect = 3e-73, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 113/242 (46%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ ++ +D I Sbjct: 257 IEYKEENFDPNEPLRLNKYLANAGVCSRREADEFIQAGVVTVNGEVVNELGTKILRSDVI 316 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 G P+ E+ L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 317 TFKGQPVTL-EKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGICPERIYPVGRLDRNTT 375 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P +VY V L + GI ++ + Sbjct: 376 GVLLLTNDGDLASKLTHPKFLKKKVYHVYLDKPATPQTLQQISDGIELEDGEIKADAIEY 435 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V + + GKNR ++++FE ++V +L R+ + L G R ++++ Sbjct: 436 -ADSLDQSQVGIEIHSGKNRIVRRIFESLGYRVIKLDRVQFAGLTKKNLRRGDWRFLTEQ 494 Query: 240 IL 241 + Sbjct: 495 EV 496 >gi|296112011|ref|YP_003622393.1| pseudouridylate synthase [Leuconostoc kimchii IMSNU 11154] gi|295833543|gb|ADG41424.1| pseudouridylate synthase [Leuconostoc kimchii IMSNU 11154] Length = 249 Score = 280 bits (716), Expect = 3e-73, Method: Composition-based stats. Identities = 91/237 (38%), Positives = 134/237 (56%), Gaps = 2/237 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + QRV KVIA+AG+ASRR E +I + RV+VNG + V V TD + VD +PL Sbjct: 2 SEEAQRVQKVIAQAGLASRRGAEELIIKGRVQVNGQTITALGVKVEPTDTVTVDSIPLEG 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ +L +KP G+VTT++D GR TV D L + RV +GRLD +T G+LLLTNDG Sbjct: 62 REKLVYYLLNKPRGVVTTNNDEKGRRTVLDILSDVNERVYPIGRLDYDTTGVLLLTNDGV 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNA 187 +A L P ++ +VY + G DKL LK G+VI+G +VT++ + + Sbjct: 122 IANQLMHPKSRVDKVYIAKVAGIATDDKLAPLKHGVVIKGRKTAPARVTIERIDKDKKTS 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L EG+N ++K + + V +L R Y F L L +G R+++ ++ Sbjct: 182 MVRVILHEGRNHQVKNMLQKVGLPVEKLTREQYAFFDLTGLQSGEYRKLTSPEIKRL 238 >gi|148253231|ref|YP_001237816.1| putative pseudouridine synthase, Rsu [Bradyrhizobium sp. BTAi1] gi|146405404|gb|ABQ33910.1| Putative Pseudouridine synthase, Rsu [Bradyrhizobium sp. BTAi1] Length = 690 Score = 280 bits (716), Expect = 3e-73, Method: Composition-based stats. Identities = 142/294 (48%), Positives = 192/294 (65%), Gaps = 1/294 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++KV+ARAG+ASRR+ E M+ Q RV VNG ++ A++V D I+VDG PL + ERTR Sbjct: 375 RIAKVLARAGLASRRDAEEMVTQGRVTVNGRVINSPALDVTENDVIQVDGAPLPQRERTR 434 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L+LYHKP GL+TTHSDP+GR TVFDNLP R+IS+GRLD NTEGLLLLTNDGGLARVL Sbjct: 435 LFLYHKPRGLMTTHSDPEGRPTVFDNLPEGLPRLISIGRLDFNTEGLLLLTNDGGLARVL 494 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELP T W R YRVR HG++ Q +L+ L G+ + G+ YG ++ TL+ +G+N W+ V +R Sbjct: 495 ELPDTGWTRRYRVRAHGEITQAQLDQLAAGVEVDGVKYGPIEATLERDQGANVWLIVAIR 554 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNRE++ V + +VNRLIR+SYGPFQL L G +EV ++LREQLG ++ ++ Sbjct: 555 EGKNREVRNVLAYLGLEVNRLIRVSYGPFQLLELPEGEVQEVKTRVLREQLGEKVIAQSG 614 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 +L P P + R + + S++ + R Sbjct: 615 ADL-GPAGKGNREPLPDPKPKPKREVVADRKGRRVLVQRTGSEEARARHEAEAR 667 >gi|157149683|ref|YP_001450946.1| ribosomal large subunit pseudouridine synthase B [Streptococcus gordonii str. Challis substr. CH1] gi|157074477|gb|ABV09160.1| ribosomal large subunit pseudouridine synthase B [Streptococcus gordonii str. Challis substr. CH1] Length = 242 Score = 280 bits (716), Expect = 3e-73, Method: Composition-based stats. Identities = 78/233 (33%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V +NG ++ A V + D +EV+G P+ E Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTINGQVVRELATLVKTGDKVEVEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ +D GR TV D LP + R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVTDDKGRKTVVDLLPQVKERIYPVGRLDWDTSGLLILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + +VY R G +++ L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGIANKENLRPLTRGVEINGKKTKPAVYEIIKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+F+ +V++L R +G L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLEVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQL 232 >gi|154491797|ref|ZP_02031423.1| hypothetical protein PARMER_01414 [Parabacteroides merdae ATCC 43184] gi|154088038|gb|EDN87083.1| hypothetical protein PARMER_01414 [Parabacteroides merdae ATCC 43184] Length = 249 Score = 279 bits (715), Expect = 3e-73, Method: Composition-based stats. Identities = 68/245 (27%), Positives = 121/245 (49%), Gaps = 3/245 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 MK K ++ + P R++K ++ AG+ SRRE + I + V+VNG ++ + D + Sbjct: 1 MKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQEGVVQVNGQIVTELGTKITRQDTV 60 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 P++ E + +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 61 LFKDQPVQ-IESKVYIVLNKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTT 119 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L PS + ++Y V V + + + G+ ++ ++ Sbjct: 120 GVLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVSIEDMEKIANGLELEDGEIHADAISY 179 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ + V + + G+NR ++++FE + V +L R+ + L G R ++++ Sbjct: 180 ASED-DKSQVGIEIHSGRNRIVRRIFESLGYHVVKLDRVYFAGLTKKNLGRGKWRYLNER 238 Query: 240 ILREQ 244 + Sbjct: 239 EVNAL 243 >gi|282882075|ref|ZP_06290716.1| ribosomal large subunit pseudouridine synthase B [Peptoniphilus lacrimalis 315-B] gi|300814964|ref|ZP_07095192.1| putative pseudouridine synthase B, ribosomal large subunit [Peptoniphilus sp. oral taxon 836 str. F0141] gi|281298105|gb|EFA90560.1| ribosomal large subunit pseudouridine synthase B [Peptoniphilus lacrimalis 315-B] gi|300510934|gb|EFK38206.1| putative pseudouridine synthase B, ribosomal large subunit [Peptoniphilus sp. oral taxon 836 str. F0141] Length = 235 Score = 279 bits (715), Expect = 3e-73, Method: Composition-based stats. Identities = 80/230 (34%), Positives = 127/230 (55%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A AG ASRR+ E +I + RVKVN ++ + V D + +DG L Sbjct: 1 MRLQKFMAHAGAASRRKSEELIKEGRVKVNNNIVTEMGLEVDPNKDRVYLDGKRLNLENE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KPIG+VTT SD GR V D + RV VGRLDI+T GL+LLTNDG LA Sbjct: 61 NIYIILNKPIGVVTTSSDEKGRINVVDLVDET-KRVYPVGRLDIDTTGLVLLTNDGTLAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +L P + Y G+ + +LNLL+ G+ ++ + +V + ++ + + Sbjct: 120 ILMHPKNNIYKTYIATVEGKPNARELNLLRNGLSLRDLKTSKAKVKILKNFDKDSIIEIS 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKN ++K++F + +V +L RIS G +LG L G+ R ++ + ++ Sbjct: 180 IHEGKNHQVKRMFSYIGHEVKKLKRISIGKIELGNLEIGNYRYLNNEEVK 229 >gi|332358327|gb|EGJ36153.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK355] Length = 242 Score = 279 bits (715), Expect = 3e-73, Method: Composition-based stats. Identities = 80/233 (34%), Positives = 132/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q +V +NG ++ A NV S D +E++G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIRQGKVSINGQVVRELATNVKSGDRVEIEGQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV + LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRKTVVELLPQVKERIYPVGRLDWDTSGILILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTV 191 + P + +VY R G +++ L L +GI I+G ++ + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+F+ +V++L R +G L L G R+++KK + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLNKKEVSQL 232 >gi|309807073|ref|ZP_07701052.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LactinV 03V1-b] gi|308166503|gb|EFO68703.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus iners LactinV 03V1-b] Length = 239 Score = 279 bits (715), Expect = 3e-73, Method: Composition-based stats. Identities = 84/232 (36%), Positives = 125/232 (53%), Gaps = 3/232 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA AGIASRR+ E +I +V VNG L+ V D IEV+GVP+ K E+ Sbjct: 4 RLQKVIAEAGIASRRKAEILITSGQVTVNGDLVTTLGTKVDDNDKIEVNGVPIHK-EQLH 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP +V+T SD GR TV D + R+ VGRLD +T GLLL+TNDG LA L Sbjct: 63 TYLLYKPRNVVSTVSDNKGRKTVTDFFKDLPYRLYPVGRLDYDTSGLLLMTNDGELANRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVG 192 P + +VY + G + ++ LK G+ I G +V + + V + Sbjct: 123 MHPKNEIEKVYVAKIRGFLTASEIYDLKHGVTIDGRKTAPAKVKIIKTDKNRNIQLVQLT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG ++K +F+ N V +L R Y L +L++G RE++ + + + Sbjct: 183 IHEGHYHQVKNMFKAVNHLVEKLSRERYAFLTLKSLISGEYRELTHEEINKL 234 >gi|150016762|ref|YP_001309016.1| pseudouridine synthase [Clostridium beijerinckii NCIMB 8052] gi|149903227|gb|ABR34060.1| pseudouridine synthase [Clostridium beijerinckii NCIMB 8052] Length = 236 Score = 279 bits (715), Expect = 3e-73, Method: Composition-based stats. Identities = 73/229 (31%), Positives = 123/229 (53%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I +VKVNG+++ + V D IE DG ++K E Sbjct: 3 ERLQKYLANCGVASRRKCEELIISGKVKVNGVIVNEVGIKVDPLKDMIEYDGKEIKKKED 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +++ D GR T+ D + + R+ +GRLD ++ GLLLLTNDG + Sbjct: 63 KVYIMLNKPEGYISSVKDEKGRDTILDIV-KVNERIYPIGRLDYDSSGLLLLTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++ Y G++ + GI I G ++ + + + + +G Sbjct: 122 KIIHPRVEIIKRYVAVVKGEITDKDKMKFEIGIDIGGYITAPAELKVISYDKGVSTIEIG 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGKNR+I+K+ + V L RIS G +LG L G R+++K+ L Sbjct: 182 IHEGKNRQIRKMCAAIHHDVLSLKRISIGEIKLGYLKRGEYRKLNKEEL 230 >gi|315179378|gb|ADT86292.1| pseudouridine synthase family 1 protein [Vibrio furnissii NCTC 11218] Length = 347 Score = 279 bits (715), Expect = 3e-73, Method: Composition-based stats. Identities = 77/338 (22%), Positives = 139/338 (41%), Gaps = 23/338 (6%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T +R++K I+ G SRRE +++I Q RV +NG L V D + +D PLR Sbjct: 3 TPTEKRLNKYISETGFCSRREADKLIEQGRVTINGQLP-EMGTKVSDDDEVCIDDKPLRS 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG Sbjct: 62 KEKPVYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGD 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y VR + D + + G+ I +VT +T+ Sbjct: 120 IVNKILRAGNNHEKEYVVRVDKAITADFIKQMSSGVRILDTVTLPCKVTQETKFS----F 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E ++V +L R+ L + G R +++ + E L + Sbjct: 176 RIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLTEAEVAEILA--M 233 Query: 250 LEEAQVNLDAPIYSSE----TLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 E + +A S+ D S + ++ ++N G + + P Sbjct: 234 CEASSGTEEASRVDSQGQRIRKATDAKLFDSREENQPSKARRNPKTFRGHNADEFRHAPN 293 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPS 343 ++ S DS + + R P Sbjct: 294 SKKGKTR----------SERPDSSRADNRTDRKPKSTG 321 >gi|167648594|ref|YP_001686257.1| RNA-binding S4 domain-containing protein [Caulobacter sp. K31] gi|167351024|gb|ABZ73759.1| RNA-binding S4 domain protein [Caulobacter sp. K31] Length = 501 Score = 279 bits (715), Expect = 4e-73, Method: Composition-based stats. Identities = 136/353 (38%), Positives = 189/353 (53%), Gaps = 7/353 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 ++ RV+K++ARAG+ASRR VER+I RV +NG +L A+ V D + VDG + Sbjct: 18 DDDGEGARVAKMLARAGVASRRAVERLIEDGRVALNGEVLTTPAIKVRPGDILTVDGKMI 77 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + E TR++ YHKP GL+TTH+DP R TVF LP R+ISVGRLD+N+EGLLLLTND Sbjct: 78 DEPEATRVFRYHKPSGLMTTHNDPKQRPTVFQALPRDLPRLISVGRLDLNSEGLLLLTND 137 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK---- 183 G L+R LE+P W+R YR R G Q KL+ LK G ++G+ YG ++ LD + Sbjct: 138 GALSRALEMPQNAWVRRYRARAFGDTTQAKLDKLKDGCTVEGVRYGPIEARLDKAQEKAG 197 Query: 184 -GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 G N W+T+ L EGKNRE+++V E KVNRLIR+SYGPF LGTLL G EV +++R Sbjct: 198 GGKNIWITLTLSEGKNREVRRVLESIGLKVNRLIRLSYGPFALGTLLPGQVEEVGPRVIR 257 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E L + EE D P + + + D R +++ +S Sbjct: 258 ELLEGIVAEENMPKGDKPQFI-GVADPLKAVGTAGGGDMQRRGVPRTNKLTQVSIITPEE 316 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL-RRTSAKK 354 + + W + + R + L R +A K Sbjct: 317 PVEEEKFVRKPGWAKPKKKPAIVGREPVRTAKKSIESKMIGPKPLSYRDAAAK 369 >gi|229513867|ref|ZP_04403329.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae TMA 21] gi|229349048|gb|EEO14005.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae TMA 21] Length = 328 Score = 279 bits (715), Expect = 4e-73, Method: Composition-based stats. Identities = 82/342 (23%), Positives = 143/342 (41%), Gaps = 20/342 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG L V D + +DG PLR E Sbjct: 5 TEKRLNKFISETGYCSRREADKLIEQGRVTLNG-LQPEVGSKVTDQDEVCIDGKPLRSKE 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 64 RPIYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + + + + G+ I +VT +TQ + Sbjct: 122 NKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYS----FRI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 178 VLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILAMCEDS 237 Query: 252 EAQVNLDAPIYSSETLVR--DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 S +T+ R D S + ++ ++N +G + Q+ P ++ Sbjct: 238 SGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNSKKA 297 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 S S + +P SLR++ Sbjct: 298 QRRP-----------SSPSSNTASGSKPTPRTGGTLSLRKSK 328 >gi|114569169|ref|YP_755849.1| pseudouridine synthase, Rsu [Maricaulis maris MCS10] gi|114339631|gb|ABI64911.1| Pseudouridine synthase, Rsu [Maricaulis maris MCS10] Length = 372 Score = 279 bits (715), Expect = 4e-73, Method: Composition-based stats. Identities = 139/341 (40%), Positives = 194/341 (56%), Gaps = 3/341 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T +R++K +ARAG+ASRREVERMI RVKV+G L+ A V ++HIEVDG + Sbjct: 6 DTSERIAKFLARAGVASRREVERMIEGGRVKVDGKTLDTPAFKVTGSEHIEVDGKRIEPP 65 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 T+LW YHKP GLVTTH+DP+GR TVFD +P RVIS+GRLD+ +EGLLLLTNDG L Sbjct: 66 AATKLWRYHKPDGLVTTHADPEGRETVFDAIPKDIGRVISIGRLDLTSEGLLLLTNDGAL 125 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 AR LELPST W R YR R G + + L +L+ G+ ++GI YG M+V ++ + GSN W+ Sbjct: 126 ARALELPSTGWTRRYRARAFGSISESALKILRAGVTVEGIKYGPMEVEVERETGSNIWLE 185 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 VG+REGKNRE++K + +VNRLIRI+YGPFQLG L G + V ++L +Q G HL+ Sbjct: 186 VGIREGKNREVRKALDAVGLRVNRLIRIAYGPFQLGQLEKGEIKSVPSRVLHDQCG-HLI 244 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH--RR 308 + I R + + + GL K++ + + R+ Sbjct: 245 DMGDTPTGQAIAKPRPANRAARKPGQKPDGKPGQRAMGGPGQPGLPKREVDDSLIEDARK 304 Query: 309 NLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 + + + + + S+ R Sbjct: 305 GRPLDAKSTRARRGKDGKPTAKPAAGRAAPRATTSRSETPR 345 >gi|320157132|ref|YP_004189511.1| ribosomal large subunit pseudouridine synthase F [Vibrio vulnificus MO6-24/O] gi|319932444|gb|ADV87308.1| ribosomal large subunit pseudouridine synthase F [Vibrio vulnificus MO6-24/O] Length = 347 Score = 279 bits (715), Expect = 4e-73, Method: Composition-based stats. Identities = 79/350 (22%), Positives = 147/350 (42%), Gaps = 25/350 (7%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + Q+N R++K I+ G SRRE +++I Q RV +NG V+ D + VDG Sbjct: 1 MSQDNAK--RLNKYISETGFCSRREADKLIEQGRVTINGKQP-EMGTKVLPGDDVCVDGK 57 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+ E+ +KP G+ T ++ + + D + R+ +GRLD ++GL+ LT Sbjct: 58 PVAAKEKPVYIALNKPTGITCT-TERNIPGNIVDFI-GHKKRIFPIGRLDKPSDGLIFLT 115 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y VR + + + + G+ I +VT +T+ Sbjct: 116 NDGDIVNKILRAGNHHEKEYVVRVDKPITPEFIKAMSSGVNILDTVTLPCKVTQETKFS- 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E ++V +L R+ L + G R ++ + E L Sbjct: 175 ---FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLTDDEVTEIL 231 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 + E V + R R +++ D + +++++N + K Sbjct: 232 A---MCEGSVGTEEASRVDAKGRRIRKATDAKLFDSREENQTSTARRNQKQRTFKGNNAD 288 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPS-KRSLRRTSAKK 354 R H+ + QR++ P F KR + AK+ Sbjct: 289 EFR------------HAPNSKKAQQRKQQDGDKPRFEKTKRPEQAGKAKR 326 >gi|294678028|ref|YP_003578643.1| ribosomal large subunit pseudouridine synthase B [Rhodobacter capsulatus SB 1003] gi|294476848|gb|ADE86236.1| ribosomal large subunit pseudouridine synthase B [Rhodobacter capsulatus SB 1003] Length = 594 Score = 279 bits (715), Expect = 4e-73, Method: Composition-based stats. Identities = 144/347 (41%), Positives = 199/347 (57%), Gaps = 12/347 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T +R++KVIAR+G+ASRR+ E+MI RV VNG ++ A++V D + +DG P+ Sbjct: 15 DTAERIAKVIARSGVASRRDAEKMILAGRVTVNGKKVDSPALDVKPADKVAIDGKPIDAP 74 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + TRLWLY+KP+GLVTT D GR T+FD +P RV++VGRLD+N+EGLLLLTNDGGL Sbjct: 75 QETRLWLYYKPLGLVTTEKDEQGRRTIFDEMPEEMPRVLNVGRLDLNSEGLLLLTNDGGL 134 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 R LELP T WLR YRVR +G+ + + L++GI I G + M+V+LD Q+G+NAW+T Sbjct: 135 KRRLELPETGWLRKYRVRVNGRPTTETFDPLRRGITIDGEDFQPMEVSLDRQQGANAWLT 194 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 VG+REGKNREI++ VNRLIR+SYGPF+L + G+ EV +K+LR+QLG LL Sbjct: 195 VGIREGKNREIRRAMGEVGMTVNRLIRVSYGPFRLNDMEPGAVVEVKRKMLRDQLGDRLL 254 Query: 251 ---EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 E+ + + R RP +++ + G K K HR Sbjct: 255 LGVEDGKPPRSERMAPKPGARRPRPEGGEGEERKGFGRQRDFAGAEGDRKPKSFGMKSHR 314 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 +G F + + R K R KK Sbjct: 315 ---------EEGERKPFARREDGERKPYARREDGDRKPYAPRDGEKK 352 >gi|229522171|ref|ZP_04411588.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae TM 11079-80] gi|229341096|gb|EEO06101.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae TM 11079-80] Length = 328 Score = 279 bits (715), Expect = 4e-73, Method: Composition-based stats. Identities = 82/342 (23%), Positives = 142/342 (41%), Gaps = 20/342 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG L V D + +DG PLR E Sbjct: 5 TEKRLNKFISETGYCSRREADKLIEQGRVTLNG-LQPEVGSKVTEQDEVCIDGKPLRSKE 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 64 RPIYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + + + + G+ I +VT +TQ + Sbjct: 122 NKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYS----FRI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 178 VLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSDAEVSEILAMCEDS 237 Query: 252 EAQVNLDAPIYSSETLVR--DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 S +T+ R D S + ++ ++N +G + Q+ P ++ Sbjct: 238 SGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNSKKA 297 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 S S + +P SLR++ Sbjct: 298 QRRP-----------SSPSSNTASGSKPTPRTGGTLSLRKSK 328 >gi|71910124|ref|YP_281674.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS5005] gi|71852906|gb|AAZ50929.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS5005] Length = 248 Score = 279 bits (715), Expect = 4e-73, Method: Composition-based stats. Identities = 83/241 (34%), Positives = 129/241 (53%), Gaps = 3/241 (1%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 +++ R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G Sbjct: 1 MLKRKKNIMRINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVVEIEGS 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+ E +L +KP G +++ SD GR TV D LP + R+ VGRLD +T G+L+LT Sbjct: 61 PI-YNEEKVYYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQK 183 NDG + P + +VY R G ++ L L +GIVI G + + Sbjct: 120 NDGDFTDTMIHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVRVEAD 179 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 S + V + + EG+N ++KK+FE V++L R +G L L G R ++KK + + Sbjct: 180 KSRSIVELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPGEARRLNKKEISQ 239 Query: 244 Q 244 Sbjct: 240 L 240 >gi|221314557|ref|ZP_03596362.1| pseudouridine synthase [Bacillus subtilis subsp. subtilis str. NCIB 3610] Length = 229 Score = 279 bits (715), Expect = 4e-73, Method: Composition-based stats. Identities = 77/225 (34%), Positives = 125/225 (55%), Gaps = 3/225 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I + +VKVNG ++ V V +D IEV+G+ + + E Sbjct: 2 ERLQKVIAHAGVASRRKAEELIKEGKVKVNGKVVTELGVKVTGSDQIEVNGLKVEREE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D GR V D +I R+ +GRLD +T GLLLLTNDG A Sbjct: 61 VYFLLYKPRGVISAAQDDKGRKVVTDFFKNIPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G ++ L L++GI ++ + L + +K + + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPPKELLRKLERGIRLEEGKTAPAKAKLLSLDKKKQTSIIQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + EG+NR+++++FE +V +L R Y L L G RE+ Sbjct: 181 TIHEGRNRQVRRMFEAIGHEVIKLKREEYAFLNLRGLHTGDAREL 225 >gi|160931609|ref|ZP_02079004.1| hypothetical protein CLOLEP_00441 [Clostridium leptum DSM 753] gi|156869480|gb|EDO62852.1| hypothetical protein CLOLEP_00441 [Clostridium leptum DSM 753] Length = 242 Score = 279 bits (715), Expect = 4e-73, Method: Composition-based stats. Identities = 79/234 (33%), Positives = 128/234 (54%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ K++A G+ASRR+ E +I Q +VKVNG + + TDH+ V G + + Sbjct: 3 DQKIRLQKMLADCGVASRRKAEELIQQGKVKVNGHVAQIGDKVNPKTDHVTVAGRRIVAS 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + HKP G V+T SD GR V + + I +RV VGRLD ++EGLLL+TNDG Sbjct: 63 RQYYYIMLHKPRGYVSTMSDEMGRKCVAELVKDIPARVYPVGRLDRDSEGLLLMTNDGEF 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A ++ PS + YRV + +++L L+ G+ I G+ + +++ + Sbjct: 123 ANLIMHPSKHVPKTYRVTVRPDISEEQLALMNVGMEIDGVRTAPADAWVISREPGRVVLE 182 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + LREG+NR+I+K+ E +V RL R++ G +LG L G R ++ ++ Sbjct: 183 IILREGRNRQIRKMCEQLGVEVARLKRVAVGQVKLGMLQPGKWRNLTLDEVKRL 236 >gi|37679122|ref|NP_933731.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio vulnificus YJ016] gi|37197864|dbj|BAC93702.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio vulnificus YJ016] Length = 347 Score = 279 bits (715), Expect = 4e-73, Method: Composition-based stats. Identities = 77/348 (22%), Positives = 146/348 (41%), Gaps = 14/348 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + Q+N R++K I+ G SRRE +++I Q RV +NG V+ D + VDG Sbjct: 1 MSQDNAK--RLNKYISETGFCSRREADKLIEQGRVTINGKQP-EMGTKVLPGDDVCVDGK 57 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+ E+ +KP G+ T ++ + + D + R+ +GRLD ++GL+ LT Sbjct: 58 PVAAKEKPVYIALNKPTGITCT-TERNIPGNIVDFI-GHKKRIFPIGRLDKPSDGLIFLT 115 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y VR + + + + G+ I +VT +T+ Sbjct: 116 NDGDIVNKILRAGNHHEKEYVVRVDKPITPEFIKAMSSGVNILDTVTLPCKVTQETKFS- 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E ++V +L R+ L + G R ++ + E L Sbjct: 175 ---FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLTDDEVTEIL 231 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 + E V + R R +++ D + +++++N + K Sbjct: 232 A---MCEGSVGTEEASRVDAKGRRIRKATDAKLFDSREENQTSTARRNQKQRTFKGNNAD 288 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R + D + E+ R+ + +KR +AK Sbjct: 289 EFR--HAPNSKKAQQRKQQDGDKPRFEKPKRQEQAGKAKRYDNPNAAK 334 >gi|297570484|ref|YP_003691828.1| pseudouridine synthase [Desulfurivibrio alkaliphilus AHT2] gi|296926399|gb|ADH87209.1| pseudouridine synthase [Desulfurivibrio alkaliphilus AHT2] Length = 240 Score = 279 bits (714), Expect = 4e-73, Method: Composition-based stats. Identities = 84/235 (35%), Positives = 132/235 (56%), Gaps = 1/235 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K +ARAGIASRR+ E IAQ RV+V+G + + + + + DG P+ R Sbjct: 3 ERLQKFLARAGIASRRKAEEYIAQGRVQVDGRPVAQMGLTIDPERQQVTFDGQPVLPPSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G VTT +DP GR V + R+ VGRLD++TEG LLLTNDG LA+ Sbjct: 63 KLTVLLNKPAGYVTTMADPQGRPIVTSLINEPGLRLFPVGRLDLDTEGALLLTNDGELAQ 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + PS Q R Y G+ +++ L L++GI+++G ++ + + + V Sbjct: 123 NILHPSRQINRTYHATVKGRPNREALQQLRRGIMLEGRRTWPARIRELRRNQESTTLEVI 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EG+ R+++K+F N V +L R++YG +LG+L G R +S + L+ P Sbjct: 183 IHEGRKRQVRKMFAAINHPVLQLKRVAYGGLRLGSLPTGRYRRLSPEDLQLLFRP 237 >gi|312127407|ref|YP_003992281.1| pseudouridine synthase [Caldicellulosiruptor hydrothermalis 108] gi|311777426|gb|ADQ06912.1| pseudouridine synthase [Caldicellulosiruptor hydrothermalis 108] Length = 240 Score = 279 bits (714), Expect = 4e-73, Method: Composition-based stats. Identities = 76/226 (33%), Positives = 120/226 (53%), Gaps = 2/226 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K +A+ G+ASRR+ E +I Q RVKVNG L+ + V D +EVDG + + Sbjct: 6 RLQKFMAQCGVASRRKCEEIILQGRVKVNGKLVNQLGFKVDPEKDVVEVDGKRISLQRQK 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++++ D GR TV D + + RV VGRLD +T GL+LLTNDG A Sbjct: 66 VYIMLNKPFGVISSAKDEKGRKTVVDLVKDKVNVRVFPVGRLDFDTTGLILLTNDGEFAY 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G ++++ +KG++I G + + NA V + Sbjct: 126 KVTHPKHDIEKTYIALIKGIPSKEEIERFEKGLLIDGKMTAPAKFKILKLINGNALVEIK 185 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + EG+NR+I+K+ + KV +L R++ G QLG L G + + Sbjct: 186 IHEGRNRQIRKMCDQIGHKVLKLKRVAIGKLQLGKLKEGKFVFLDR 231 >gi|16803988|ref|NP_465473.1| hypothetical protein lmo1949 [Listeria monocytogenes EGD-e] gi|46908183|ref|YP_014572.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes serotype 4b str. F2365] gi|47093378|ref|ZP_00231145.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes str. 4b H7858] gi|47097092|ref|ZP_00234662.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes str. 1/2a F6854] gi|224498601|ref|ZP_03666950.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes Finland 1988] gi|224501251|ref|ZP_03669558.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL R2-561] gi|226224554|ref|YP_002758661.1| hypothetical protein Lm4b_01968 [Listeria monocytogenes Clip81459] gi|254825555|ref|ZP_05230556.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL J1-194] gi|254827166|ref|ZP_05231853.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL N3-165] gi|254831450|ref|ZP_05236105.1| hypothetical protein Lmon1_08853 [Listeria monocytogenes 10403S] gi|254852851|ref|ZP_05242199.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL R2-503] gi|254899354|ref|ZP_05259278.1| hypothetical protein LmonJ_06059 [Listeria monocytogenes J0161] gi|254912507|ref|ZP_05262519.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes J2818] gi|254931879|ref|ZP_05265238.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes HPB2262] gi|254936834|ref|ZP_05268531.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes F6900] gi|254992999|ref|ZP_05275189.1| hypothetical protein LmonocytoFSL_08071 [Listeria monocytogenes FSL J2-064] gi|255026085|ref|ZP_05298071.1| hypothetical protein LmonocytFSL_06510 [Listeria monocytogenes FSL J2-003] gi|255520090|ref|ZP_05387327.1| hypothetical protein LmonocFSL_02452 [Listeria monocytogenes FSL J1-175] gi|284802394|ref|YP_003414259.1| hypothetical protein LM5578_2150 [Listeria monocytogenes 08-5578] gi|284995536|ref|YP_003417304.1| hypothetical protein LM5923_2101 [Listeria monocytogenes 08-5923] gi|300763739|ref|ZP_07073736.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL N1-017] gi|16411402|emb|CAD00027.1| lmo1949 [Listeria monocytogenes EGD-e] gi|46881453|gb|AAT04749.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes serotype 4b str. F2365] gi|47014537|gb|EAL05500.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes str. 1/2a F6854] gi|47018249|gb|EAL09015.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes str. 4b H7858] gi|225877016|emb|CAS05725.1| Hypothetical protein of unknown function [Listeria monocytogenes serotype 4b str. CLIP 80459] gi|258599548|gb|EEW12873.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL N3-165] gi|258606184|gb|EEW18792.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL R2-503] gi|258609430|gb|EEW22038.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes F6900] gi|284057956|gb|ADB68897.1| hypothetical protein LM5578_2150 [Listeria monocytogenes 08-5578] gi|284061003|gb|ADB71942.1| hypothetical protein LM5923_2101 [Listeria monocytogenes 08-5923] gi|293583430|gb|EFF95462.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes HPB2262] gi|293590492|gb|EFF98826.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes J2818] gi|293594796|gb|EFG02557.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL J1-194] gi|300515475|gb|EFK42525.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL N1-017] gi|328466297|gb|EGF37454.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes 1816] gi|328472791|gb|EGF43640.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes 220] gi|332312390|gb|EGJ25485.1| Pseudouridine synthase [Listeria monocytogenes str. Scott A] Length = 244 Score = 279 bits (714), Expect = 5e-73, Method: Composition-based stats. Identities = 87/233 (37%), Positives = 136/233 (58%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E++I + +V VNG ++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGITSRRKAEKLIQEGKVTVNGKVVTELGVKVSGTERIEVEGIQLTKEE-H 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G V+ +D GR+TV D I R+ VGRLD +T GLLL+TNDG A + Sbjct: 61 RYFLFYKPRGTVSAVTDDKGRTTVADYFADIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y R G +++ + L++G+VI G +V + + + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRQLERGVVIDGRKTAPAKVKVRSSDKTKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++K+FE ++V +L R Y L L AG RE+S +++ Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELSHHEVKQL 233 >gi|88855489|ref|ZP_01130153.1| RNA pseudouridine synthase [marine actinobacterium PHSC20C1] gi|88815396|gb|EAR25254.1| RNA pseudouridine synthase [marine actinobacterium PHSC20C1] Length = 257 Score = 279 bits (714), Expect = 5e-73, Method: Composition-based stats. Identities = 84/243 (34%), Positives = 128/243 (52%), Gaps = 2/243 (0%) Query: 1 MKDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M + N N +R+ KV+A AG+ASRR E +I Q RV VNG ++E A V+ TD Sbjct: 1 MNNANGESPSNPEGERLQKVMAAAGVASRRVCEDLIYQGRVAVNGEVVEAAGRRVLPTDR 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + VD V ++ + + +KP+G+V++ +D GR + + R+ +VGRLD NT Sbjct: 61 VTVDDVAIQLDTTKQYVMLNKPVGVVSSMADESGRPDLREFTRDYDERLFNVGRLDANTS 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVT 178 GLL+LTNDG LA +L PS + Y + G V + L KGI + D Sbjct: 121 GLLILTNDGELAHILAHPSFGVSKTYIAKVEGIVSAQTIAKLTKGIELDDGPIVADKARA 180 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L G+ V + L G+N ++++ + V L+R +GP LG+L G TR+++K Sbjct: 181 LGRASGNETMVEITLHSGRNHIVRRMLDAVGHPVIDLVRRQFGPLTLGSLPVGRTRDLTK 240 Query: 239 KIL 241 L Sbjct: 241 AEL 243 >gi|314933670|ref|ZP_07841035.1| pseudouridine synthase RluB [Staphylococcus caprae C87] gi|313653820|gb|EFS17577.1| pseudouridine synthase RluB [Staphylococcus caprae C87] Length = 245 Score = 279 bits (714), Expect = 5e-73, Method: Composition-based stats. Identities = 78/243 (32%), Positives = 137/243 (56%), Gaps = 5/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +VKVNG ++ V +D +EV+G+ + + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLITEGKVKVNGQVVTELGTKVSHSDTVEVEGIKIEQEDKM 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L++KP ++T+ SD GR V D I +R+ VGRLD +T G+LLLTNDG + Sbjct: 66 -YILFYKPTQVITSVSDDLGRKVVTDYFEDIETRIYPVGRLDYDTSGVLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + Y + G + ++++ L++GI ++ QV + Q + + V + Sbjct: 125 MTHPRYHIKKKYVAKLKGYLMREQVKELEQGIELEDGFTQPAQVKIKRQDKEKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE+F +VN+L RI +GP L L AG R ++ ++ HL E Sbjct: 185 TISEGRNRQVRRMFEYFGHEVNKLTRIQFGPLDLKGLNAGEGRVLTPHEVKTL--RHLAE 242 Query: 252 EAQ 254 + Sbjct: 243 NGK 245 >gi|223043161|ref|ZP_03613208.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus capitis SK14] gi|222443372|gb|EEE49470.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus capitis SK14] Length = 245 Score = 279 bits (714), Expect = 5e-73, Method: Composition-based stats. Identities = 78/243 (32%), Positives = 137/243 (56%), Gaps = 5/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +VKVNG ++ V +D +EV+G+ + + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLITEGKVKVNGQVVTELGTKVSHSDTVEVEGIKIEQEDKM 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L++KP ++T+ SD GR V D I +R+ VGRLD +T G+LLLTNDG + Sbjct: 66 -YILFYKPTQVITSVSDDRGRKVVTDYFEDIETRIYPVGRLDYDTSGVLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + Y + G + ++++ L++GI ++ QV + Q + + V + Sbjct: 125 MTHPRYHIKKKYVAKLKGYLMREQVKELEQGIELEDGFTQPAQVKIKRQDKEKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE+F +VN+L RI +GP L L AG R ++ ++ HL E Sbjct: 185 TISEGRNRQVRRMFEYFGHEVNKLTRIQFGPLDLKGLNAGEGRVLTPHEVKTL--RHLAE 242 Query: 252 EAQ 254 + Sbjct: 243 NGK 245 >gi|184155350|ref|YP_001843690.1| pseudouridine synthase [Lactobacillus fermentum IFO 3956] gi|260662137|ref|ZP_05863033.1| pseudouridine synthase [Lactobacillus fermentum 28-3-CHN] gi|183226694|dbj|BAG27210.1| pseudouridine synthase [Lactobacillus fermentum IFO 3956] gi|260553520|gb|EEX26412.1| pseudouridine synthase [Lactobacillus fermentum 28-3-CHN] Length = 241 Score = 279 bits (714), Expect = 5e-73, Method: Composition-based stats. Identities = 84/238 (35%), Positives = 126/238 (52%), Gaps = 5/238 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ KVIA AG+ASRR E +I +VKVNG ++ V D + V+G P+ + Sbjct: 1 MVKERLQKVIAHAGVASRRAAEGLILAGKVKVNGQVVTELGTKVDGNDEVMVNGEPVEQ- 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDG 128 E+ +L KP G++++ D GR TV D L + +RV VGRLD +T GLL++TNDG Sbjct: 60 EQHEYYLLDKPRGVISSAHDDKGRKTVVDILKNEGVQTRVYPVGRLDYDTTGLLVMTNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSN 186 LA L P + +VY + G V D++ LL++G+ I G + L Q+ Sbjct: 120 ELANRLMHPRFEVDKVYIAKVKGLVSNDEMRLLREGVKIDGKKSQPARTKLLEANQRQKT 179 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + V + + EG ++KK+ E V +L R SYGP L L G R++ +R Sbjct: 180 SVVKLTIHEGHYHQVKKMMEAVGHPVLKLHRESYGPLTLAGLNPGQFRKLKVDEVRAL 237 >gi|330830315|ref|YP_004393267.1| Pseudouridine synthase [Aeromonas veronii B565] gi|328805451|gb|AEB50650.1| Pseudouridine synthase [Aeromonas veronii B565] Length = 230 Score = 279 bits (714), Expect = 5e-73, Method: Composition-based stats. Identities = 64/230 (27%), Positives = 109/230 (47%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + +R ++I Q V V+GI++++ A ++ IE DGV L +R Sbjct: 1 MRLDKFLCDCSDLTRSLAGKLIRQGEVMVDGIVVKQPAFHINEQSQIEFDGVLLTLEQRN 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 R ++ HKP G V ++ DPD TVF + ++ VGRLD++T GL+L+T+DG + Sbjct: 61 RYFMLHKPEGYVCSNEDPDH-PTVFFLMDEPAMGKLHVVGRLDLDTTGLVLVTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y V V D + L +G+ ++ L+ + Sbjct: 120 RITSPRHECAKTYHVWLADPVSPDAIALFAEGVYLRNETDKTRPAQLEI--LGECEARLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G RE++ + + Sbjct: 178 IHEGKYHQVKRMFASIGNKVVGLHRERVGGLTLDDELAPGEYRELTAEEI 227 >gi|198277516|ref|ZP_03210047.1| hypothetical protein BACPLE_03738 [Bacteroides plebeius DSM 17135] gi|198270014|gb|EDY94284.1| hypothetical protein BACPLE_03738 [Bacteroides plebeius DSM 17135] Length = 253 Score = 279 bits (714), Expect = 5e-73, Method: Composition-based stats. Identities = 73/242 (30%), Positives = 118/242 (48%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K ++ + P R++K +A AGI SRRE + I V VNG ++ V +D + Sbjct: 5 IEYKELLTDPDEPIRLNKFLANAGICSRREADEFITAGVVSVNGEIVTELGTKVKRSDEV 64 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 65 KFHDQPVN-IERKVYVLLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTT 123 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V V + L+ + +GI + ++ Sbjct: 124 GVLLLTNDGDLASKLTHPKFLKKKIYHVYCDKNVTKADLDQIVQGITLDDGEIHADAISY 183 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V + + GKNR ++++FE ++V +L R+ + L G R ++++ Sbjct: 184 -ASDTDKSQVGIEIHSGKNRIVRRIFESLGYRVIKLDRVYFAGLTKKGLRRGDWRYLTEQ 242 Query: 240 IL 241 + Sbjct: 243 EV 244 >gi|332359120|gb|EGJ36941.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK49] Length = 242 Score = 279 bits (714), Expect = 5e-73, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 131/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q +V +NG ++ A NV S D +EV+ P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIRQGKVSINGQVVRELATNVKSGDRVEVEDQPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDEKGRKTVVDLLPQVKERIYPVGRLDWDTSGILILTNDGDFTDE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTV 191 + P + +VY R G +++ L L +GI I+G ++ + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++KK+F+ +V++L R +G L + G R++SKK + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTDIKPGEYRKLSKKEVSQL 232 >gi|312135342|ref|YP_004002680.1| pseudouridine synthase [Caldicellulosiruptor owensensis OL] gi|311775393|gb|ADQ04880.1| pseudouridine synthase [Caldicellulosiruptor owensensis OL] Length = 236 Score = 279 bits (714), Expect = 5e-73, Method: Composition-based stats. Identities = 75/228 (32%), Positives = 120/228 (52%), Gaps = 2/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A+ GIASRR+ E +I Q RVKVNG + + V D +E+DG + + Sbjct: 1 MRLQKFMAQCGIASRRKCEEIILQGRVKVNGKTVNQLGFKVDPEKDVVEIDGKRISLQRQ 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G++++ D GR TV D + + RV VGRLD +T GL+LLTNDG A Sbjct: 61 KVYIMLNKPFGVISSAKDEKGRKTVVDLVREKVNVRVFPVGRLDFDTTGLILLTNDGEFA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y G + ++ + ++G++I G + + NA V + Sbjct: 121 YKVTHPKHDIEKTYIALVKGIPSKKEIEMFERGLLIDGKMTAPAKFKILKLINGNALVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+NR+I+K+ + KV +L RI+ G QLG L G + ++ Sbjct: 181 KIHEGRNRQIRKMCDMIGHKVLKLKRIAIGKLQLGKLKEGEFVFLDRE 228 >gi|319937384|ref|ZP_08011791.1| pseudouridine synthase [Coprobacillus sp. 29_1] gi|319807750|gb|EFW04343.1| pseudouridine synthase [Coprobacillus sp. 29_1] Length = 234 Score = 279 bits (714), Expect = 5e-73, Method: Composition-based stats. Identities = 68/231 (29%), Positives = 113/231 (48%), Gaps = 5/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++A +G +R+EV+ I + V VNG + E+ + V TD + V+G + E Sbjct: 1 MRLDKLLAHSGFGTRKEVKDFIKKGIVTVNGEIAEKDKMQVDPQTDEVCVNGEVITYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G V+ D + TV D + + + VGRLD++TEGLLL++NDG LA Sbjct: 60 FVYYMLNKPAGYVSATED-NLYPTVVDLIDDYYRDDLFPVGRLDVDTEGLLLISNDGVLA 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P +VY + +G V + GI I ++ + + + + + V Sbjct: 119 HQLLSPKKHCPKVYYAKINGIVTNQDVEAFFNGITIDDYQCQSAELKILSTSATTSEIEV 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++KK+F +V L RI L L G R ++ + L Sbjct: 179 TIYEGKFHQVKKMFIAVGKEVTYLKRIRMKDLCLDNSLQLGEYRHLTDEEL 229 >gi|50913682|ref|YP_059654.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS10394] gi|50902756|gb|AAT86471.1| Ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS10394] Length = 248 Score = 279 bits (714), Expect = 5e-73, Method: Composition-based stats. Identities = 82/241 (34%), Positives = 129/241 (53%), Gaps = 3/241 (1%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 +++ R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G Sbjct: 1 MLKRKKNIMRINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVVEIEGS 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+ E +L +KP G +++ SD GR TV D LP + R+ VGRLD +T G+L+LT Sbjct: 61 PI-YNEEKVYYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQK 183 NDG + P + +VY R G ++ L L +GIVI G + + Sbjct: 120 NDGDFTDTMIHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVHVEAD 179 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + V + + EG+N ++KK+FE V++L R +G L L G R ++KK + + Sbjct: 180 KNRSIVELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPGEARRLNKKEISQ 239 Query: 244 Q 244 Sbjct: 240 L 240 >gi|330685968|gb|EGG97591.1| pseudouridine synthase B, ribosomal large subunit [Staphylococcus epidermidis VCU121] Length = 246 Score = 278 bits (713), Expect = 6e-73, Method: Composition-based stats. Identities = 76/231 (32%), Positives = 130/231 (56%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I +VKVNG ++ V ++D +EV+G+ L + ++ Sbjct: 6 ERLQKRIASSGYTSRRKAETLITDGKVKVNGQVVTELGTKVSNSDTVEVEGIKLEQEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L++KP ++T+ SD GR V D I +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 -YILFNKPAQVITSVSDDRGRKVVTDYFKDIETRIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 + P + Y + G + ++++ L+KGI ++ QV + Q V + Sbjct: 125 MTHPRYHIKKKYVAKLKGYLMREEVKALEKGIELEDGFTQPAQVKVKNQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+++++FE F +V++L RI +GP + L AG R ++ ++ Sbjct: 185 TISEGRNRQVRRMFEHFGHQVSKLTRIQFGPLDIKGLNAGEGRVLTPHEVK 235 >gi|19745526|ref|NP_606662.1| hypothetical protein spyM18_0418 [Streptococcus pyogenes MGAS8232] gi|71902965|ref|YP_279768.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS6180] gi|94987940|ref|YP_596041.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS9429] gi|94989814|ref|YP_597914.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS10270] gi|94993700|ref|YP_601798.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS10750] gi|19747645|gb|AAL97161.1| putative hypothetical protein [Streptococcus pyogenes MGAS8232] gi|71802060|gb|AAX71413.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS6180] gi|94541448|gb|ABF31497.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS9429] gi|94543322|gb|ABF33370.1| Ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS10270] gi|94547208|gb|ABF37254.1| Ribosomal large subunit pseudouridine synthase B [Streptococcus pyogenes MGAS10750] Length = 248 Score = 278 bits (713), Expect = 6e-73, Method: Composition-based stats. Identities = 82/241 (34%), Positives = 129/241 (53%), Gaps = 3/241 (1%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 +++ R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G Sbjct: 1 MLKRKKNIMRINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVVEIEGS 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+ E +L +KP G +++ SD GR TV D LP + R+ VGRLD +T G+L+LT Sbjct: 61 PI-YNEEKVYYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQK 183 NDG + P + +VY R G ++ L L +GIVI G + + Sbjct: 120 NDGDFTDTMIHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVRVEAD 179 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + V + + EG+N ++KK+FE V++L R +G L L G R ++KK + + Sbjct: 180 KNRSIVELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPGEARRLNKKEISQ 239 Query: 244 Q 244 Sbjct: 240 L 240 >gi|217963899|ref|YP_002349577.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes HCC23] gi|290892109|ref|ZP_06555105.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL J2-071] gi|217333169|gb|ACK38963.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes HCC23] gi|290558232|gb|EFD91750.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL J2-071] gi|307571531|emb|CAR84710.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes L99] gi|313607907|gb|EFR84057.1| ribosomal large subunit pseudouridine synthase B [Listeria monocytogenes FSL F2-208] Length = 244 Score = 278 bits (713), Expect = 6e-73, Method: Composition-based stats. Identities = 87/233 (37%), Positives = 136/233 (58%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E++I + +V VNG ++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGITSRRKAEKLIQEGKVTVNGKVVTELGVKVSGTERIEVEGIQLTKEE-H 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G V+ +D GR+TV D I R+ VGRLD +T GLLL+TNDG A + Sbjct: 61 RYFLFYKPRGTVSAVTDDKGRTTVADYFADIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y R G +++ + L++G+VI G +V + + + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRQLERGVVIDGRKTAPAKVKVRSSDKAKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++K+FE ++V +L R Y L L AG RE+S +++ Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELSHHEVKQL 233 >gi|161507454|ref|YP_001577408.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus helveticus DPC 4571] gi|260101634|ref|ZP_05751871.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus helveticus DSM 20075] gi|160348443|gb|ABX27117.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus helveticus DPC 4571] gi|260084567|gb|EEW68687.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus helveticus DSM 20075] Length = 238 Score = 278 bits (713), Expect = 6e-73, Method: Composition-based stats. Identities = 79/234 (33%), Positives = 128/234 (54%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E+MI RVKV+G ++ + V + +I VD P+ + E Sbjct: 3 ERLQKVIAEAGIASRRKAEKMIVAGRVKVDGKVVTKLGTKVETFSNITVDDEPIER-ESL 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L++KP G+V+T D GR TV D + R+ VGRLD +T GLLL+TNDG LA + Sbjct: 62 HTYLFYKPRGVVSTADDDKGRKTVVDYFEDVPYRLYPVGRLDYDTSGLLLMTNDGKLANL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G + D++ L G+ + +V + ++ + + Sbjct: 122 LMHPRNEVSKVYVAKIKGILTPDEIKTLTTGVKLDRFKAAPAKVKILKTDKRKDTQIIQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG ++K++F+ V +L R Y L +L +G RE+SK + + + Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVEKLSREKYAFLTLDSLTSGQYRELSKHEVDKLM 235 >gi|156933739|ref|YP_001437655.1| 23S rRNA pseudouridylate synthase B [Cronobacter sakazakii ATCC BAA-894] gi|156531993|gb|ABU76819.1| hypothetical protein ESA_01565 [Cronobacter sakazakii ATCC BAA-894] Length = 361 Score = 278 bits (713), Expect = 7e-73, Method: Composition-based stats. Identities = 114/335 (34%), Positives = 162/335 (48%), Gaps = 24/335 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MI RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEAMIEAGRVSVDGKIATLGDRVEVTPALKIRIDGHLISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T SDP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SVEQICRVLAYYKPEGELCTRSDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD K+ L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSQEVEREYAVRVFGQVDDAKVRELARGVQLEDGPAAFKTIRFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E +G ++V ++ +DR + + R K SQ G S+Q A Sbjct: 242 ELVGLEPETSSKVAVE----------KDRRRMKAN---QIRRAVKRHSQTAGASRQGAPA 288 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRR 337 A A+ ++ +S R + R Sbjct: 289 RQGQA-GAARPAGSARAAENTRSGNSTSRASGNAR 322 >gi|15614139|ref|NP_242442.1| pseudouridylate synthase [Bacillus halodurans C-125] gi|10174193|dbj|BAB05295.1| pseudouridylate synthase [Bacillus halodurans C-125] Length = 242 Score = 278 bits (713), Expect = 7e-73, Method: Composition-based stats. Identities = 83/234 (35%), Positives = 134/234 (57%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KVIA+AGIASRR+ E++I + +VKVNG +++ + V D IEV+GVP+ K E Sbjct: 2 ERLQKVIAQAGIASRRKAEQLILEGKVKVNGQVVKELGIKVNPNQDDIEVEGVPVEKEE- 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++++ D GR V D L I RV VGRLD +T GLLLLTNDG A Sbjct: 61 PVYFLLYKPTGVISSVKDDKGRKVVTDFL-EIEQRVYPVGRLDYDTSGLLLLTNDGEFAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 +L P + +VY + G +D+L LL +G+ ++ +V + + ++ A V Sbjct: 120 LLMHPRHKIEKVYVAKVKGIPTRDQLKLLARGVKLEDGPTAPAKVKMLSVDRRKQTAIVK 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+++++FE +V +L R + L + G R + ++ Sbjct: 180 LTIHEGRNRQVRRMFETIGCEVMKLKREQFAFLDLSGMNPGDVRPLKPIEVKHL 233 >gi|89072747|ref|ZP_01159312.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Photobacterium sp. SKA34] gi|89051567|gb|EAR57021.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Photobacterium sp. SKA34] Length = 357 Score = 278 bits (713), Expect = 7e-73, Method: Composition-based stats. Identities = 80/362 (22%), Positives = 143/362 (39%), Gaps = 15/362 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M Q++ R++K I+ G SRRE +++I Q RV +NG V VM D + Sbjct: 1 MSQNPTEQQSPKGVRLNKFISDTGYCSRREADKLIDQGRVTINGQKP-EMGVRVMDNDDV 59 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +D PLR ER +KP G+ T ++ + D + R+ +GRLD ++G Sbjct: 60 LIDDKPLRSKERPIYIALNKPTGITCT-TERHIEGNIVDFI-GHRKRIFPIGRLDKPSDG 117 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+ LTNDG + + + Y VR + + L + G+ I +VT Sbjct: 118 LIFLTNDGDIVNKILRAGNSHEKEYVVRVDKVITPEFLEKMASGVEILDTVTLPCKVT-- 175 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 K +N + L +G NR+I+++ E ++V +L R+ + L G R ++ Sbjct: 176 --KETNFSFRIVLTQGLNRQIRRMCEALGYEVYKLRRVRIMNITIDGLPNGKWRYLTDDE 233 Query: 241 LREQ-------LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 + E G + +++ + D + + Sbjct: 234 IGEINRLIAQSSGTEEASKVDAEGRKIAKATDAKLYDHRQQEARNEKRAQEKAFKTYSGT 293 Query: 294 GLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS-LRRTSA 352 G ++ +RRN S + + R + PSF K + +++ + Sbjct: 294 GEFTRRPGGQRQNRRNEESGESRQQRSQGRNDNRRPARTSDRDSKPSFGGKSTGIKKWKS 353 Query: 353 KK 354 KK Sbjct: 354 KK 355 >gi|195978740|ref|YP_002123984.1| ribosomal large subunit pseudouridine synthase B RluB [Streptococcus equi subsp. zooepidemicus MGCS10565] gi|195975445|gb|ACG62971.1| ribosomal large subunit pseudouridine synthase B RluB [Streptococcus equi subsp. zooepidemicus MGCS10565] Length = 266 Score = 278 bits (712), Expect = 7e-73, Method: Composition-based stats. Identities = 80/233 (34%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I + V +NG ++ A V S D +E++G P+ E Sbjct: 27 MRINKYIAHAGVASRRKAEELIKRGLVTLNGQVVTDLATTVKSGDLVEIEGSPI-YNEEK 85 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLL+LTNDG Sbjct: 86 VYYLLNKPRGVISSVSDDKGRQTVIDLLPQVKERIYPVGRLDWDTSGLLILTNDGDFTDK 145 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 + P + +VY R G V ++ L L +G+VI G + + + + V + Sbjct: 146 MIHPRNEIDKVYLARVKGVVTKESLRPLTRGVVIDGKKTKPARYRIIRVEPDKNRSIVEL 205 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG++ ++KK+FE V++L R +G + L G R +SKK + + Sbjct: 206 TIHEGRHHQVKKMFEAVGHLVDKLSRTQFGSLDVRGLKPGEARRLSKKEVSQL 258 >gi|225018711|ref|ZP_03707903.1| hypothetical protein CLOSTMETH_02661 [Clostridium methylpentosum DSM 5476] gi|224948439|gb|EEG29648.1| hypothetical protein CLOSTMETH_02661 [Clostridium methylpentosum DSM 5476] Length = 255 Score = 278 bits (712), Expect = 8e-73, Method: Composition-based stats. Identities = 90/244 (36%), Positives = 132/244 (54%), Gaps = 2/244 (0%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 D+ R+ K+IA +G SRR+ E++I ++RVKVNG + D + V Sbjct: 2 DRQNGGTQLEKIRLQKIIAESGFCSRRKAEQLIEERRVKVNGHPAKIGDKADPRKDVVTV 61 Query: 63 DGVPLRKAERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 D + A R R + HKP G VTT SD GR V D + I R+ VGRLD+N+EG Sbjct: 62 DDERITVARRPTYRYVMLHKPRGYVTTMSDEKGRRCVADLVADIDERLYPVGRLDVNSEG 121 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL TNDG LA + PS + YRV + ++ L +G+VI G QV + Sbjct: 122 LLLFTNDGRLANDIMHPSRHVTKTYRVTVRPDITDEQAARLAEGVVIDGRKTAPAQVHVL 181 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 T++ + + V +REG+NR+I+K+ E +V RL R S GP +LG L G+ R+++ + Sbjct: 182 TKEPNRVVMEVVIREGRNRQIRKMMEAVGLEVARLKRTSLGPIKLGMLKPGAHRDLTAEE 241 Query: 241 LREQ 244 L+ Sbjct: 242 LKAL 245 >gi|260776566|ref|ZP_05885461.1| ribosomal large subunit pseudouridine synthase F [Vibrio coralliilyticus ATCC BAA-450] gi|260607789|gb|EEX34054.1| ribosomal large subunit pseudouridine synthase F [Vibrio coralliilyticus ATCC BAA-450] Length = 344 Score = 278 bits (712), Expect = 8e-73, Method: Composition-based stats. Identities = 73/338 (21%), Positives = 141/338 (41%), Gaps = 18/338 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-AERT 73 R++K I+ G SRRE +R+I Q RV +NG + V+ D + VD P+ ++ Sbjct: 7 RLNKFISETGFCSRREADRLIEQGRVTINGKVP-EMGTKVLPGDDVCVDDKPISAVTDKP 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 66 VYIALNKPTGITCT-TERDIPGNIVDFI-GHKKRIFPIGRLDKPSDGLIFLTNDGDIVNK 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + + + + G+ I +V+ +T+ + L Sbjct: 124 ILRAGNNHEKEYVVRVDKPITEQFIKKMSSGVDILDTTTLPCKVSKETKFS----FRIVL 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +G NR+I+++ E ++V +L R+ L + G R +S + E L + E + Sbjct: 180 TQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGQWRYLSDDEIGEILA--MCESS 237 Query: 254 QVNLDAPIYSSE----TLVRDRPNIISEVPDDFTRMKKNSSQK--NGLSKQKKLATPVHR 307 DA + D S + ++ ++N Q+ G + ++ P + Sbjct: 238 SGTEDASKVDARGRNIRKATDAKLFDSREENQESKARRNQKQRTFKGKNAEEFRHAPNSK 297 Query: 308 --RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPS 343 R S+ + + ++ +R + P Sbjct: 298 KGRGGKSDSKSKPSTNKGKSVYKPKSDKPAQRPSNKPR 335 >gi|148260478|ref|YP_001234605.1| RNA-binding S4 domain-containing protein [Acidiphilium cryptum JF-5] gi|326403671|ref|YP_004283753.1| ribosomal large subunit pseudouridine synthase B [Acidiphilium multivorum AIU301] gi|146402159|gb|ABQ30686.1| RNA-binding S4 domain protein [Acidiphilium cryptum JF-5] gi|325050533|dbj|BAJ80871.1| ribosomal large subunit pseudouridine synthase B [Acidiphilium multivorum AIU301] Length = 247 Score = 278 bits (712), Expect = 8e-73, Method: Composition-based stats. Identities = 132/232 (56%), Positives = 167/232 (71%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +ARAG+ASRR+ ERMI RV +NG + A V + D I +DG P+ + RT Sbjct: 11 ERIAKYLARAGVASRRDAERMIESGRVALNGTKVLHPATFVAAGDIILIDGSPVGEPSRT 70 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW YHK GL+TTH DP+GR T+F+ +P RV+SVGRLD+N+EGLLLLTNDG LAR Sbjct: 71 RLWRYHKRAGLLTTHRDPEGRPTIFERMPPELPRVVSVGRLDLNSEGLLLLTNDGALARQ 130 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T WLR YRVR HG VD +L LK GIV+ G+ YG + +D+ KGSN+W+ VGL Sbjct: 131 LELPTTGWLRRYRVRVHGTVDPARLAALKGGIVVDGVRYGPISAEIDSTKGSNSWLAVGL 190 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 EGKNREI+KV + RLIRI+YGPFQLG L G+ EV+ K+LREQL Sbjct: 191 NEGKNREIRKVMAALGLETTRLIRIAYGPFQLGNLPRGAVAEVNPKVLREQL 242 >gi|255656021|ref|ZP_05401430.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile QCD-23m63] gi|296450550|ref|ZP_06892304.1| ribosomal large subunit pseudouridine synthase B [Clostridium difficile NAP08] gi|296879328|ref|ZP_06903323.1| ribosomal large subunit pseudouridine synthase B [Clostridium difficile NAP07] gi|296260625|gb|EFH07466.1| ribosomal large subunit pseudouridine synthase B [Clostridium difficile NAP08] gi|296429871|gb|EFH15723.1| ribosomal large subunit pseudouridine synthase B [Clostridium difficile NAP07] Length = 238 Score = 278 bits (712), Expect = 8e-73, Method: Composition-based stats. Identities = 71/232 (30%), Positives = 120/232 (51%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R++K IA GIASRR+ E +I + R+KVNG +++ NV D +E D ++ +E Sbjct: 1 MRINKYIASCGIASRRKAEEIILEGRIKVNGSIVKELFFNVDEEKDIVEFDNKKVKPSEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +TT D R +V D L + RV +GRLD T GLL+LTNDG L Sbjct: 61 YIYIVLNKPEGYITTVKDQFNRPSVIDILKDVKERVYPIGRLDYETSGLLILTNDGDLTY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 L P + + Y G + D++ + G+ I+ ++ + + ++ + + Sbjct: 121 KLTHPKHEIDKTYVASVKGIISGDEIRKFETGLKIEDYTTAPAKIKVTKENKEKNYSVCE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EG+NR+++K+ + N V L RIS G L G R +++ ++ Sbjct: 181 ITIHEGRNRQVRKMCKAINHPVLNLRRISVGKIVLKDTKVGEYRYLTEDEIK 232 >gi|22298198|ref|NP_681445.1| pseudouridylate synthase [Thermosynechococcus elongatus BP-1] gi|22294377|dbj|BAC08207.1| pseudouridylate synthase [Thermosynechococcus elongatus BP-1] Length = 250 Score = 278 bits (712), Expect = 8e-73, Method: Composition-based stats. Identities = 84/239 (35%), Positives = 120/239 (50%), Gaps = 5/239 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T +R+ KV+A G+ASRR E +I +V VNG + + D IE G L Sbjct: 1 MTTERLQKVLAHWGVASRRHAETLIRSGQVFVNGQRAKLGDKVDPARDRIEYKGERLNPP 60 Query: 71 ERTR--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLT 125 + L HKP G++ T DP GR+TV D LP ++ RV VGRLD ++ G LLLT Sbjct: 61 RPPQRLYLLLHKPKGVLCTCHDPQGRTTVLDLLPPMYQRVGGLHPVGRLDADSSGALLLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG L P + YRV GQ ++ L ++GI + G+ V +G Sbjct: 121 NDGAFTYYLSHPRHHIPKTYRVWVQGQPPENVLQRWRQGIPLDGVMTLPATVKRLRSEGD 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 A + + L EG+NR+I++V + + V L RI+ GP LG L + R +S+ L Sbjct: 181 RALLEIILHEGRNRQIRRVADQLGYPVLALQRIAIGPVHLGHLRPRAVRPLSRHELAAL 239 >gi|330991270|ref|ZP_08315221.1| Putative RNA pseudouridine synthase [Gluconacetobacter sp. SXCC-1] gi|329761289|gb|EGG77782.1| Putative RNA pseudouridine synthase [Gluconacetobacter sp. SXCC-1] Length = 259 Score = 278 bits (712), Expect = 8e-73, Method: Composition-based stats. Identities = 132/231 (57%), Positives = 170/231 (73%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +AR+G+ASRR+ ERMIA+ RV++NG ++ A V + D ++V+G + +RTR Sbjct: 16 RIAKWLARSGVASRRDAERMIAEGRVQLNGAVVNHPATFVGAGDIVQVNGSVVGAPDRTR 75 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW YHKP GLVTTH DP+GR TVF++LP RVISVGRLD+N+EGLLLLTNDG LAR L Sbjct: 76 LWRYHKPDGLVTTHRDPEGRPTVFESLPPGLPRVISVGRLDLNSEGLLLLTNDGELARRL 135 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPS W+R YRVR G VD+ L L +G G+ YG ++ LD+ KG NAW+TV LR Sbjct: 136 ELPSNGWIRRYRVRVFGVVDERMLASLARGSEFDGVRYGPIEAHLDSAKGDNAWLTVSLR 195 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 EGKNRE++KV + N V+RLIR SYGPFQLGTL G EV+ K++REQ+ Sbjct: 196 EGKNREVRKVMQGLNLHVSRLIRTSYGPFQLGTLTRGELEEVTGKVIREQV 246 >gi|294672844|ref|YP_003573460.1| ribosomal large subunit pseudouridine synthase B [Prevotella ruminicola 23] gi|294472710|gb|ADE82099.1| ribosomal large subunit pseudouridine synthase B [Prevotella ruminicola 23] Length = 449 Score = 278 bits (712), Expect = 8e-73, Method: Composition-based stats. Identities = 73/242 (30%), Positives = 116/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K I + P R++K +A AG+ SRRE + I V VNG ++ ++ TD + Sbjct: 201 IEYKEINYDPNEPLRLNKFLANAGVCSRREADEFIQAGVVSVNGEIVTELGTKILRTDVV 260 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ E+ L +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 261 KFHDQPVN-IEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKNACPERIYPVGRLDRNTT 319 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V V L + +GI ++ V Sbjct: 320 GVLLLTNDGDLASKLTHPKYLKKKIYHVYLDKNVTAHDLAQIAEGIQLEDGEIKADDVQY 379 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + + GKNR ++++FE ++V +L R+ + L G R ++++ Sbjct: 380 -AHPTDKKQVGIEIHSGKNRIVRRIFESLGYRVQKLDRVQFAGLTKKNLKRGDWRYLTEE 438 Query: 240 IL 241 + Sbjct: 439 EV 440 >gi|315282990|ref|ZP_07871273.1| ribosomal large subunit pseudouridine synthase B [Listeria marthii FSL S4-120] gi|313613361|gb|EFR87222.1| ribosomal large subunit pseudouridine synthase B [Listeria marthii FSL S4-120] Length = 244 Score = 278 bits (712), Expect = 8e-73, Method: Composition-based stats. Identities = 87/233 (37%), Positives = 137/233 (58%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E++I + +V VNG +++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGITSRRKAEKLIQEGKVTVNGKVVKELGVKVSGTERIEVEGIQLTKEE-H 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G V+ +D GR+TV D I R+ VGRLD +T GLLL+TNDG A + Sbjct: 61 RYFLFYKPRGTVSAVTDDKGRTTVADYFADIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y R G +++ + L++G+VI G +V + + + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRQLERGVVIDGRKTAPAKVKVRSSDKTKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++K+FE ++V +L R Y L L AG RE+S +++ Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELSHHEVKQL 233 >gi|170017037|ref|YP_001727956.1| 16S rRNA uridine-516 pseudouridylate synthase [Leuconostoc citreum KM20] gi|169803894|gb|ACA82512.1| 16S rRNA uridine-516 pseudouridylate synthase [Leuconostoc citreum KM20] Length = 249 Score = 278 bits (712), Expect = 8e-73, Method: Composition-based stats. Identities = 88/233 (37%), Positives = 132/233 (56%), Gaps = 2/233 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E MI + RVKVNG + V V D +EVDG P+ E+ Sbjct: 6 MRLQKVVAQAGLASRRGAETMITEGRVKVNGETVTTLGVKVGIHDTVEVDGAPIEGREKL 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+VTT SD GR TV D L I RV VGRLD +T G LLLTNDG +A Sbjct: 66 VYYLLNKPRGVVTTTSDEKGRKTVLDLLEDIDQRVYPVGRLDYDTTGALLLTNDGTIANQ 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P ++ ++Y + G +KL LK+G++I+G +VT++ + + V + Sbjct: 126 LMHPKSRVDKIYLAKVSGIATVEKLAPLKQGVIIKGRKTAPARVTIERVDKDKKTSMVRI 185 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+N ++K + + V++L R Y F L L +G R+++ ++ Sbjct: 186 IIHEGRNHQVKDMLQKVGLPVDKLTREQYAFFDLIGLQSGEYRKLTGVEVKRL 238 >gi|239631549|ref|ZP_04674580.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus paracasei subsp. paracasei 8700:2] gi|301066420|ref|YP_003788443.1| 16S rRNA uridine-516 pseudouridylate synthase-like protein [Lactobacillus casei str. Zhang] gi|239526014|gb|EEQ65015.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus paracasei subsp. paracasei 8700:2] gi|300438827|gb|ADK18593.1| 16S rRNA uridine-516 pseudouridylate synthase related enzyme [Lactobacillus casei str. Zhang] Length = 247 Score = 278 bits (712), Expect = 8e-73, Method: Composition-based stats. Identities = 81/234 (34%), Positives = 124/234 (52%), Gaps = 3/234 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K+IA AGIASRR E +IA VKVNG + + + D +EVDGVP+ E Sbjct: 5 TERLQKIIANAGIASRRHAETLIATGHVKVNGQIETEMGIKIGPHDEVEVDGVPI-GKEA 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R +L++KP G+++ D GR V D I R+ VGRLD +T GLL++TNDG LA Sbjct: 64 KRYFLFYKPRGVISAVQDNKGRDVVTDYFKDIAERLYPVGRLDYDTSGLLVMTNDGDLAN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 L P + Y + G ++ L LK G+ + G +V + + + A V+ Sbjct: 124 HLMHPRYALEKKYVAKVQGVPNRPALAPLKTGVEVDGKMTAPAKVDIISTDKAKKTAIVS 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + +G N ++KK+F+ + V +L R +YG L L G R + + L+ Sbjct: 184 LTIHQGMNHQVKKMFKAVGFPVLKLSREAYGNLTLVGLQPGEHRPIKPQELQAL 237 >gi|224025133|ref|ZP_03643499.1| hypothetical protein BACCOPRO_01867 [Bacteroides coprophilus DSM 18228] gi|224018369|gb|EEF76367.1| hypothetical protein BACCOPRO_01867 [Bacteroides coprophilus DSM 18228] Length = 253 Score = 278 bits (712), Expect = 8e-73, Method: Composition-based stats. Identities = 75/242 (30%), Positives = 118/242 (48%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K+I+ + P R++K +A AG+ SRRE + I V VNG ++ V TD + Sbjct: 5 IEYKDILTDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKVKRTDEV 64 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 65 KFHDQPVN-IERKVYVLLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTT 123 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V V + L+ + +GI + V+ Sbjct: 124 GVLLLTNDGDLASKLTHPKFLKKKIYHVYCDKNVTKADLDQIVQGITLDDGEIHADAVSY 183 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V + + GKNR ++++FE ++V +L R+ + L G R +++ Sbjct: 184 -ASDTDKSQVGIEIHSGKNRIVRRIFESLGYRVIKLDRVYFAGLTKKGLRRGDWRYLTEM 242 Query: 240 IL 241 + Sbjct: 243 EV 244 >gi|316932709|ref|YP_004107691.1| RNA-binding S4 domain-containing protein [Rhodopseudomonas palustris DX-1] gi|315600423|gb|ADU42958.1| RNA-binding S4 domain protein [Rhodopseudomonas palustris DX-1] Length = 717 Score = 278 bits (712), Expect = 9e-73, Method: Composition-based stats. Identities = 143/327 (43%), Positives = 201/327 (61%), Gaps = 6/327 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R++KV+ARAG+ SRR+ E I + RV VNG +++ A++V ++D I +DG PL + Sbjct: 387 DKAGERIAKVVARAGLCSRRDAEAWITEGRVAVNGKVIDSPALDVKASDVITIDGKPLPE 446 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ERTRL+LYHKP GL+TTHSDP+GR TVFD+LP R+IS+GRLD NTEGLLLLTNDGG Sbjct: 447 RERTRLFLYHKPRGLMTTHSDPEGRPTVFDHLPEGLPRLISIGRLDFNTEGLLLLTNDGG 506 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LAR LELP T WLR YRVR HG++ Q +L+ L+ GI + G+ YG + L+ + +N W+ Sbjct: 507 LARALELPETGWLRRYRVRAHGEITQAQLDELQNGIEVDGVQYGPIDAKLERDQSANVWL 566 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 +REGKNRE++ V +VNRLIR+SYGPFQL L G EV ++LR+QLG + Sbjct: 567 VFAIREGKNREVRNVLAHLGLEVNRLIRVSYGPFQLLELGEGEVDEVKTRVLRDQLGEKV 626 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIIS----EVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 + A + P S ++S V + + KK +++ + +K V Sbjct: 627 IALAGCDFAGPSPSETKPKPRAGKVVSAEEWSVVEGAAKPKKTITKRGAVEDRKGRRIKV 686 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQRE 332 R AS+ G+R+ Sbjct: 687 ER--TASDGGERPLSRGPARRYHGKRD 711 >gi|126699667|ref|YP_001088564.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile 630] gi|255101182|ref|ZP_05330159.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile QCD-63q42] gi|255307056|ref|ZP_05351227.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile ATCC 43255] gi|115251104|emb|CAJ68935.1| Ribosomal large subunit pseudouridine synthase B [Clostridium difficile] Length = 238 Score = 278 bits (712), Expect = 9e-73, Method: Composition-based stats. Identities = 72/232 (31%), Positives = 120/232 (51%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R++K IA GIASRR+ E +I R+KVNG +++ + N+ D +E D ++ +E Sbjct: 1 MRINKYIASCGIASRRKAEEIILGGRIKVNGSVVKELSFNIDEEKDIVEFDNKKVKPSEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +TT D R +V D L + RV +GRLD T GLL+LTNDG L Sbjct: 61 YIYIVLNKPEGYITTVKDQFNRPSVIDILKDVRERVYPIGRLDYETSGLLILTNDGDLTY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVT 190 L P + + Y G + D++ + G+ I+ + VT + ++ + + Sbjct: 121 KLTHPKHEIDKTYVASVKGIISDDEIRQFETGLKIEDYTTAPAKIRVTKENKEKNYSVCE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EG+NR+++K+ + N V L RIS G L G R +++ ++ Sbjct: 181 ITIHEGRNRQVRKMCKAINHPVLNLRRISVGKIVLKDTKVGEYRYLTEDEIK 232 >gi|410137|gb|AAA67493.1| ORFX13 [Bacillus subtilis subsp. subtilis str. 168] Length = 229 Score = 278 bits (712), Expect = 9e-73, Method: Composition-based stats. Identities = 76/225 (33%), Positives = 124/225 (55%), Gaps = 3/225 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASR + E +I + +VKVNG ++ V V +D IEV+G+ + + E Sbjct: 2 ERLQKVIAHAGVASRSKAEELIKEGKVKVNGKVVTELGVKVTGSDQIEVNGLKVEREE-P 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+++ D GR V D +I R+ +GRLD +T GLLLLTNDG A Sbjct: 61 VYFLLYKPRGVISAAQDDKGRKVVTDFFKNIPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y + G ++ L L++GI ++ + L + +K + + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPPKELLRKLERGIRLEEGKTAPAKAKLLSLDKKKQTSIIQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + EG+NR+++++FE +V +L R Y L L G RE+ Sbjct: 181 TIHEGRNRQVRRMFEAIGHEVIKLKREEYAFLNLRGLHTGDAREL 225 >gi|260772257|ref|ZP_05881173.1| ribosomal large subunit pseudouridine synthase F [Vibrio metschnikovii CIP 69.14] gi|260611396|gb|EEX36599.1| ribosomal large subunit pseudouridine synthase F [Vibrio metschnikovii CIP 69.14] Length = 332 Score = 278 bits (712), Expect = 9e-73, Method: Composition-based stats. Identities = 71/331 (21%), Positives = 137/331 (41%), Gaps = 18/331 (5%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + T +R++K I+ G SRRE +++I Q RV +NG L V D + +DG P+ Sbjct: 3 SLTEKRLNKYISETGFCSRREADKLIEQGRVTINGQLP-PMGSKVTEHDQVCIDGKPVGY 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG Sbjct: 62 KEKPIYIALNKPTGITCT-TERDVPGNIVDFI-GHNKRIFPIGRLDKPSDGLIFLTNDGD 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y VR + + + + + G+ I +V +TQ Sbjct: 120 IVNKILRAGNNHEKEYVVRVNKPISAEFIRQMSAGVNILDTVTLPCKVVQETQYS----F 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG--- 246 + L +G NR+I+++ E ++V +L R+ L + G R ++ + E L Sbjct: 176 RIILTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGQWRYLTDAEVNEILAMCE 235 Query: 247 --PHLLEEAQVNLDAPIYSSETLVR------DRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 E ++ + T + + SE P + ++ ++ + + Sbjct: 236 SSVSTEEASKTDSSGKQIRKATDAKLFDSRLAQSKTTSETPHKTYQGRQAHEFRHAPNSK 295 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSG 329 K ++ N A+ + +G Sbjct: 296 KGREQRQQHGDVKRNDNTARSARRNPTRKAG 326 >gi|90021367|ref|YP_527194.1| ribosomal large subunit pseudouridine synthase B [Saccharophagus degradans 2-40] gi|89950967|gb|ABD80982.1| ribosomal large subunit pseudouridine synthase B [Saccharophagus degradans 2-40] Length = 398 Score = 278 bits (711), Expect = 1e-72, Method: Composition-based stats. Identities = 116/359 (32%), Positives = 173/359 (48%), Gaps = 14/359 (3%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + +++ KV+ARAG SRRE+ER I + RVKVNG++ V +D I+VD Sbjct: 2 KTTDSSPQDEKLQKVLARAGQGSRREMERAITEGRVKVNGVVAT-LGDRVTESDKIQVDD 60 Query: 65 VPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 +R +A+ TR+ LY+KP G + + +DP+GR TV+DNLP + S R ISVGRLD NT Sbjct: 61 QYIRVKKGEADTTRVILYNKPEGQICSRNDPEGRPTVYDNLPRLKSGRWISVGRLDFNTS 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL TNDG LA L PS+ R Y VR G+VD D L L+ G++++ + Sbjct: 121 GLLLFTNDGELAHKLMHPSSNIDREYLVRVQGEVDGDMLQRLRDGVLLEDGLAKFTDIVP 180 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 Q+GSN W + EGKNRE+++++E +V+RL R+ YG + + G E+ Sbjct: 181 GAQEGSNRWFYCVVMEGKNREVRRLWESQECRVSRLKRVRYGNIFIPSNVRVGQWIELED 240 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 K L+E + D + RDR E P + N+ + S+ Sbjct: 241 KELKELCQTADIP----VPDRKFSAGLQDFRDRQRRRLESPGSKRSSRPNTKVPDARSRP 296 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPS---FPSKRSLRRTSAKK 354 + A + S + R P SK++ R ++ Sbjct: 297 SSAHFDPEVTVGKAATPNAPKARMNTRSAPNFDNGSDTRQPKPRQQASKKTNSRNKDRR 355 >gi|70728994|ref|YP_258728.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas fluorescens Pf-5] gi|68343293|gb|AAY90899.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas fluorescens Pf-5] Length = 396 Score = 278 bits (711), Expect = 1e-72, Method: Composition-based stats. Identities = 106/348 (30%), Positives = 163/348 (46%), Gaps = 24/348 (6%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 D+N + +++ KV+AR G+ SRR+VE I+Q R+KVNG + V D I + Sbjct: 5 DQNDQEIRPAGEKLQKVLARIGVGSRRDVESWISQGRIKVNGKEAT-LGLRVDLHDAISI 63 Query: 63 DGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDIN 117 DG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLDIN Sbjct: 64 DGKVIKREEAAESVRRVIMYNKPDGEICTRDDPEGRPTVFDKLPRPREGRWINIGRLDIN 123 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLL+ T DG LA L PS + R Y VR G+VD + + LK G++++ + Sbjct: 124 TTGLLMFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVMLEDGPAKFTDI 183 Query: 178 -TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE 235 +G N W + EG+NRE+++++E V+RL R+ +GP L L G RE Sbjct: 184 QQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLNSDLPMGRWRE 243 Query: 236 VSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 +S+ + D P + ++ D RM++ SS+ G Sbjct: 244 MSQYEV----------------DVLSAEVGLTPVAMPQLNAKSKDKLERMQRKSSRPVGK 287 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPS 343 S++ + P + V I + R P Sbjct: 288 SERVRTLRPANGSAATPRVSREPQIEGERPGRKPAARPDGERGSRAPR 335 >gi|146296765|ref|YP_001180536.1| pseudouridine synthase [Caldicellulosiruptor saccharolyticus DSM 8903] gi|145410341|gb|ABP67345.1| ribosomal large subunit pseudouridine synthase B [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 237 Score = 278 bits (711), Expect = 1e-72, Method: Composition-based stats. Identities = 71/229 (31%), Positives = 116/229 (50%), Gaps = 2/229 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K +A G+ASRR+ E +I Q RVKVNG + V D + VDG L ++ Sbjct: 3 RLQKFMADCGVASRRKCEEIILQGRVKVNGRTITELGFKVDPQKDKVLVDGKKLVPVQKK 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++++ D GR TV D + RV VGRLD +T GL+LLTNDG A Sbjct: 63 IYIMLNKPFGVISSAKDEKGRKTVVDLVKDKVDVRVFPVGRLDFDTTGLILLTNDGEFAY 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G ++++ KKG+ I G + + + V + Sbjct: 123 KVTHPKHDIEKTYIALIEGVPTKEEIEQFKKGLFIDGKLTSPAKFRILKVFKGMSLVEIK 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG+NR+++K+ + +V +L R++ G +LG L G + + ++ Sbjct: 183 IHEGRNRQVRKMCDAIGHRVLKLKRVAIGKLKLGKLKEGEFVFLDENMV 231 >gi|191638365|ref|YP_001987531.1| Pseudouridine synthase [Lactobacillus casei BL23] gi|190712667|emb|CAQ66673.1| Pseudouridine synthase [Lactobacillus casei BL23] gi|327382393|gb|AEA53869.1| Ribosomal large subunit pseudouridine synthase B [Lactobacillus casei LC2W] gi|327385594|gb|AEA57068.1| Ribosomal large subunit pseudouridine synthase B [Lactobacillus casei BD-II] Length = 247 Score = 278 bits (711), Expect = 1e-72, Method: Composition-based stats. Identities = 81/234 (34%), Positives = 124/234 (52%), Gaps = 3/234 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K+IA AGIASRR E +IA VKVNG + + + D +EVDGVP+ E Sbjct: 5 TERLQKIIANAGIASRRHAETLIATGHVKVNGQIETEMGIKIGPHDEVEVDGVPI-GKEA 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R +L++KP G+++ D GR V D I R+ VGRLD +T GLL++TNDG LA Sbjct: 64 KRYFLFYKPRGVISAVQDNKGRDVVTDYFKDITERLYPVGRLDYDTSGLLVMTNDGDLAN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 L P + Y + G ++ L LK G+ + G +V + + + A V+ Sbjct: 124 HLMHPRYALEKKYVAKVQGVPNRPALAPLKTGVEVDGKMTAPAKVDIISTDKAKKTAIVS 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + +G N ++KK+F+ + V +L R +YG L L G R + + L+ Sbjct: 184 LTIHQGMNHQVKKMFKAVGFPVLKLSREAYGNLTLVGLQPGEHRPIKPQELQAL 237 >gi|116494858|ref|YP_806592.1| 16S rRNA uridine-516 pseudouridylate synthase related enzyme [Lactobacillus casei ATCC 334] gi|227535145|ref|ZP_03965194.1| pseudouridylate synthase [Lactobacillus paracasei subsp. paracasei ATCC 25302] gi|116105008|gb|ABJ70150.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus casei ATCC 334] gi|227187190|gb|EEI67257.1| pseudouridylate synthase [Lactobacillus paracasei subsp. paracasei ATCC 25302] Length = 247 Score = 278 bits (711), Expect = 1e-72, Method: Composition-based stats. Identities = 81/234 (34%), Positives = 124/234 (52%), Gaps = 3/234 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K+IA AGIASRR E +IA VKVNG + + + D +EVDGVP+ E Sbjct: 5 TERLQKIIANAGIASRRHAETLIATGHVKVNGQIETEMGIKIGPHDEVEVDGVPI-GKEA 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R +L++KP G+++ D GR V D I R+ VGRLD +T GLL++TNDG LA Sbjct: 64 KRYFLFYKPRGVISAVQDNKGRDVVTDYFKDITERLYPVGRLDYDTSGLLVMTNDGDLAN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 L P + Y + G ++ L LK G+ + G +V + + + A V+ Sbjct: 124 HLMHPRYALEKKYVAKVQGVPNRPALAPLKTGVEVDGKMTAPAKVDIISTDKAKKTAIVS 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + +G N ++KK+F+ + V +L R +YG L L G R + + L+ Sbjct: 184 LTIHQGMNHQVKKMFKAVGFPVLKLSREAYGNLTLVGLQPGEHRPIKPQELQAL 237 >gi|261211343|ref|ZP_05925631.1| ribosomal large subunit pseudouridine synthase F [Vibrio sp. RC341] gi|260839298|gb|EEX65924.1| ribosomal large subunit pseudouridine synthase F [Vibrio sp. RC341] Length = 332 Score = 278 bits (711), Expect = 1e-72, Method: Composition-based stats. Identities = 81/339 (23%), Positives = 143/339 (42%), Gaps = 16/339 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG V D + +DG PLR ER Sbjct: 8 RLNKFISETGFCSRREADKLIEQGRVTLNGAQP-EVGSKVTEQDEVCIDGKPLRSKERPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + + + G+ I +VT +TQ + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYS----FRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R +S+ + + L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVNDILAMCEDSSGT 240 Query: 255 VNLDAPIYSSETLVR--DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 S +T+ R D S + ++ ++N +G + Q+ P ++ Sbjct: 241 EEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNSKKAQRR 300 Query: 313 NVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 +S S S + R +P SLR++ Sbjct: 301 PT-------NSSSSSSTASKPAQRATPRTGGTLSLRKSK 332 >gi|168700584|ref|ZP_02732861.1| ribosomal large subunit pseudouridine synthase B [Gemmata obscuriglobus UQM 2246] Length = 271 Score = 278 bits (711), Expect = 1e-72, Method: Composition-based stats. Identities = 92/279 (32%), Positives = 140/279 (50%), Gaps = 10/279 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 +R++K +A AG+ SRR +++I+ RVKVNG+ + + + + H I VD P+R AE+ Sbjct: 2 ERLNKYLAHAGVGSRRHCDKLISAGRVKVNGVKVTELGLKIDPSAHQIAVDDQPVR-AEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 W +KP+G + T+ DP GR D LP + RV +VGRLD ++GLLL+TNDG LA+ Sbjct: 61 LVYWAVNKPVGHLCTNHDPAGRPRAVDLLPHVEQRVYTVGRLDEGSDGLLLMTNDGDLAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P ++Y V G+ D L L G+ + +G+ WV V Sbjct: 121 GLTHPRYGVPKMYFVLVAGRPTDDDLQKLMDGVWLSDGKVRAKSAKRIKAQGNGTWVRVV 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L EGKNREI+++ F KV RL R++ GP +L L G R +S + L+ + Sbjct: 181 LTEGKNREIRRMLAKFGHKVMRLKRVAIGPVKLDKLPKGKARRISDEELKAL--KAFVTR 238 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 A+ + A ++ D R +K Sbjct: 239 ARQKITA------ARLKAADGGRKTSQDAPKRPRKTDGA 271 >gi|56750544|ref|YP_171245.1| ribosomal large subunit pseudouridine synthase B [Synechococcus elongatus PCC 6301] gi|81299819|ref|YP_400027.1| ribosomal large subunit pseudouridine synthase B [Synechococcus elongatus PCC 7942] gi|56685503|dbj|BAD78725.1| probable ribosomal large subunit pseudouridine synthase B [Synechococcus elongatus PCC 6301] gi|81168700|gb|ABB57040.1| ribosomal large subunit pseudouridine synthase B [Synechococcus elongatus PCC 7942] Length = 243 Score = 278 bits (711), Expect = 1e-72, Method: Composition-based stats. Identities = 79/231 (34%), Positives = 119/231 (51%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++++ G+ASRR+ E+ I Q RV +NG + E + D I +DG LR R Sbjct: 3 ERLQKILSQLGVASRRQAEQWIQQGRVTINGRVAEIGQQADLKRDRIHLDGKRLRPKHRP 62 Query: 74 --RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R L HKP+G+V+T DP R TV D + P + VGRLD ++ GLLLL NDG L Sbjct: 63 EARYLLLHKPVGVVSTCRDPQRRRTVIDLVDPEFRPGLHPVGRLDTDSSGLLLLCNDGEL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + YRV G L + G+ + V + + + + Sbjct: 123 TYQISHPRFHIEKTYRVWVEGHPPASVLEHWRSGVWLDDYQTLPAGVRILHDRAESTLLE 182 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+NR+I++V E V RL R++ GP +LG+L G R ++ + Sbjct: 183 VILHEGRNRQIRRVAEQLGHPVLRLTRVAIGPLRLGSLQPGEYRSLTAAEV 233 >gi|91228934|ref|ZP_01262832.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 12G01] gi|91187517|gb|EAS73851.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 12G01] Length = 385 Score = 278 bits (711), Expect = 1e-72, Method: Composition-based stats. Identities = 78/349 (22%), Positives = 143/349 (40%), Gaps = 14/349 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + Q+N R++K I+ G SRRE +R+I Q RV +NG V+ D + VDG Sbjct: 1 MSQDNAK--RLNKFISETGFCSRREADRLIEQGRVTINGNKP-EMGTKVLPGDDVCVDGK 57 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+ E+ +KP G+ T ++ D + D + R+ +GRLD ++GL+ LT Sbjct: 58 PVAAKEKPIYIALNKPTGITCT-TERDVPGNIVDFI-GHQKRIFPIGRLDKPSDGLIFLT 115 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y VR + + L + G+ I +VT +T+ Sbjct: 116 NDGDIVNKILRAGNSHEKEYVVRVDKPITVEFLKQMSSGVKILDTVTLPCKVTKETKFS- 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E ++V +L R+ L + G R +S + + E L Sbjct: 175 ---FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDEEVAEIL 231 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 + E V + + R +++ D + +++++N ++ + Sbjct: 232 A---MCEGSVGTEEASKTDSRGRNIRKATDAKLFDSREENQDSTARRNQKTRTFRGNNAD 288 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R + D G R +RS + K Sbjct: 289 QFR--HAPNSKKGQQKRRQCDDEGGRPAKEHYKAKPQGERSRPQGEHGK 335 >gi|291558038|emb|CBL35155.1| ribosomal large subunit pseudouridine synthase B [Eubacterium siraeum V10Sc8a] Length = 251 Score = 277 bits (710), Expect = 1e-72, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 118/233 (50%), Gaps = 1/233 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RK 69 R+ K+IA +G SRR+ E I Q VKVNG + D + V+G + Sbjct: 1 MEKVRLQKIIADSGYCSRRKAEEYIEQGCVKVNGRPVSLGDKADPKNDIVTVNGEKIASS 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + R +KP G VTT +D GR V D L I RV VGRLD ++EGLL+LTNDG Sbjct: 61 GTQLRYIKLYKPRGYVTTMADTHGRKIVTDLLDDIDERVYPVGRLDKDSEGLLILTNDGA 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA + PS + YRV G+V DKL L G+ I V + ++ + + Sbjct: 121 LANAVMHPSRHIKKRYRVTVRGEVTDDKLTTLASGVKIDTGVTLPCTVAVLAEEENRTVL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+I+K+ E ++ RL R + G +LG L G +++ + L+ Sbjct: 181 EFTIAEGKNRQIRKMCEAVKLQIVRLKRNAVGNIKLGMLKPGEWADLTAEELK 233 >gi|85717175|ref|ZP_01048133.1| pseudouridine synthase, Rsu [Nitrobacter sp. Nb-311A] gi|85696008|gb|EAQ33908.1| pseudouridine synthase, Rsu [Nitrobacter sp. Nb-311A] Length = 635 Score = 277 bits (710), Expect = 1e-72, Method: Composition-based stats. Identities = 148/323 (45%), Positives = 193/323 (59%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + +RV+KVI+RAG+ASRR+ E + Q RV VNG ++ A++V S D I VDG PL Sbjct: 303 KPKKAGERVAKVISRAGLASRRDAEEWVTQGRVAVNGRVINSPALDVTSRDVITVDGEPL 362 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + ERTRL+LYHKP GL+TTH+DP+GR TVFD+LP R+ISVGRLD NTEGLLLLTND Sbjct: 363 PERERTRLFLYHKPRGLMTTHADPEGRPTVFDHLPDGLPRLISVGRLDFNTEGLLLLTND 422 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGLAR LELP T WLR YRVR HG+V Q +L+ LK G+ ++G+ YG + TL+ +G+N Sbjct: 423 GGLARALELPDTGWLRRYRVRAHGEVTQPQLDALKNGVEVEGVKYGSIDATLERDQGANV 482 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+T +REGKNRE++ V +VNRLIRISYGPFQL + G EV ++LREQ G Sbjct: 483 WLTFAIREGKNREVRNVMAHLGLEVNRLIRISYGPFQLAEIAEGEVEEVKTRVLREQFGD 542 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + A +N S + R D K + ++ + + Sbjct: 543 RIAALANMNPAGATAESGAVKLGRDGTPLRSKKDNKARTKRALIEDRKGRSVVVQRTGSD 602 Query: 308 RNLASNVWMAKGIHSSFLSDSGQ 330 A N A G G Sbjct: 603 EARARNEAEANGYGPPRRPKRGY 625 >gi|315607439|ref|ZP_07882435.1| ribosomal large subunit pseudouridine synthase B [Prevotella buccae ATCC 33574] gi|315250871|gb|EFU30864.1| ribosomal large subunit pseudouridine synthase B [Prevotella buccae ATCC 33574] Length = 492 Score = 277 bits (710), Expect = 1e-72, Method: Composition-based stats. Identities = 72/234 (30%), Positives = 113/234 (48%), Gaps = 3/234 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + P R++K +A AG+ SRRE + I V VNG ++ V+ TD ++ P+ Sbjct: 252 DPNEPIRLNKYLANAGVCSRREADEFIQAGVVTVNGEVVTELGTKVLRTDEVKFHDNPVS 311 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 E+ L +KP VTT DP R TV D + R+ VGRLD NT G+LLLTND Sbjct: 312 L-EKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDACPERIYPVGRLDRNTTGVLLLTND 370 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G +A L P +VY V V L + +G+ ++ V + + Sbjct: 371 GDMASKLTHPKFLKKKVYHVHLDKNVTAHDLEQIAQGVTLEDGEIHADAVEYADEH-DKS 429 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + GKNR ++++FE ++V +L R+ + L G R +++K + Sbjct: 430 QVGIEIHSGKNRIVRRIFESLGYRVTKLDRVQFAGLTKKNLRRGDWRFLTEKEV 483 >gi|145298479|ref|YP_001141320.1| 16S rRNA uridine-516 pseudouridylate synthase [Aeromonas salmonicida subsp. salmonicida A449] gi|142851251|gb|ABO89572.1| 16S rRNA uridine-516 pseudouridylate synthase [Aeromonas salmonicida subsp. salmonicida A449] Length = 230 Score = 277 bits (710), Expect = 1e-72, Method: Composition-based stats. Identities = 64/232 (27%), Positives = 112/232 (48%), Gaps = 5/232 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + +R ++I Q V V+GI++++ A ++ +E DGV L +R Sbjct: 1 MRLDKFLCDCSDLTRSLAGKLIRQGEVTVDGIVVKQPAFHINEQSQVEFDGVMLTLDQRN 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 R ++ HKP G V ++ DPD TVF + ++ VGRLD++T GL+L+T+DG + Sbjct: 61 RYFMLHKPEGYVCSNEDPDH-PTVFFLMDEPAMGKLHVVGRLDLDTTGLVLVTDDGKWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y V V QD ++L G+ ++ L+ + + Sbjct: 120 RITSPRHECAKTYHVWLADPVHQDAISLFADGVFLRNETEKTRPAQLEI--LAECEARLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 + EGK ++K++F KV L R G L L G RE++ + + + Sbjct: 178 IHEGKYHQVKRMFASIGNKVVGLHREQIGTLALDEALAPGEYRELTAEEIAQ 229 >gi|312869081|ref|ZP_07729255.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus oris PB013-T2-3] gi|311095327|gb|EFQ53597.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus oris PB013-T2-3] Length = 238 Score = 277 bits (710), Expect = 1e-72, Method: Composition-based stats. Identities = 80/235 (34%), Positives = 123/235 (52%), Gaps = 5/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR E++IA V+VNG + V + D IEVDG+PL + E+ Sbjct: 2 ERLQKVMAEAGVASRRASEKLIATGHVQVNGQTVTTLGTKVTAKDKIEVDGIPLHR-EKQ 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G++++ D GR TV D L I R+ VGRLD +T GLLLLTNDG LA Sbjct: 61 VYYLLNKPRGVISSAHDEKGRRTVVDILREDEIEERIYPVGRLDYDTTGLLLLTNDGTLA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWV 189 + P + Y + G + D L L+ G+ + G + L ++ + V Sbjct: 121 NKMMHPKFAVDKTYVAKVKGLISNDDLKQLRTGVKVDGRRTKPAKTRLKGTDREKKTSIV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG ++K++ V +L R SYG L + G RE+ + ++ Sbjct: 181 QLTIHEGHYHQVKRMLAAVGHPVIKLHRESYGFLNLQGVQPGDYRELRPEEVKRL 235 >gi|170288482|ref|YP_001738720.1| pseudouridine synthase [Thermotoga sp. RQ2] gi|170175985|gb|ACB09037.1| pseudouridine synthase [Thermotoga sp. RQ2] Length = 239 Score = 277 bits (710), Expect = 1e-72, Method: Composition-based stats. Identities = 71/250 (28%), Positives = 124/250 (49%), Gaps = 12/250 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +G+ +R+EV+++I Q RV VNG ++ V+ D + +DG +R + Sbjct: 1 MRLDRYLSNSGVGTRKEVKKLIKQGRVTVNGRVVLDPGHPVLENDAVALDGEVVRF-HKK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L++KP G VT+ DP T+ + LP + VGRLD + EGLL++TNDG A Sbjct: 60 VYILFYKPSGYVTSTKDP-HSETIMEFLPP-LKGIFPVGRLDKDAEGLLIITNDGDFAHR 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V+ G+V +DK+ LK G+ ++ + + +K SN + + + Sbjct: 118 VISPKWSVEKEYIVKVEGEVTEDKIEKLKNGVTLRDGFFAKAKC---VEKLSNDTLKIVI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHLLEE 252 EGK +IK++ K L R G L + G R +S++ ++ + E Sbjct: 175 TEGKYHQIKRMTAAVGLKTVHLKRTRIGGLVLPDDMKPGEYRFLSEEEVK-----KVFER 229 Query: 253 AQVNLDAPIY 262 D P + Sbjct: 230 EDQKEDTPRF 239 >gi|114566930|ref|YP_754084.1| ribosomal large subunit pseudouridine synthaseB [Syntrophomonas wolfei subsp. wolfei str. Goettingen] gi|114337865|gb|ABI68713.1| ribosomal large subunit pseudouridine synthase B [Syntrophomonas wolfei subsp. wolfei str. Goettingen] Length = 239 Score = 277 bits (710), Expect = 1e-72, Method: Composition-based stats. Identities = 71/233 (30%), Positives = 122/233 (52%), Gaps = 1/233 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +A +GI+SRR+ ER+I Q +VKVN + A + D +E G + + ++ Sbjct: 1 MRLAKYLAESGISSRRQAERLITQGKVKVNDKTITELAFTLKPGDRVEFAGKIIEQTDKI 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L HKP G +++ +DP GR V D L ++ +RV VGRLD +TEGLLLL+NDG + + Sbjct: 61 -YLLLHKPAGYISSLADPQGRPRVIDLLSAVNTRVFPVGRLDYDTEGLLLLSNDGEFSNL 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y G V D + L++G+ ++ +V L + K + + + + Sbjct: 120 MTHPRYLIPKKYEAWVQGLVKPDTIRQLEQGVALEDGITAPARVRLLSSKKGQSLLELEI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGK R+IK++ +V +L R + L + G R ++ + + Sbjct: 180 HEGKKRQIKRMCLAVGHRVTKLKRTALAFLTLEGVPRGQFRFLTASEVESLIM 232 >gi|291531258|emb|CBK96843.1| ribosomal large subunit pseudouridine synthase B [Eubacterium siraeum 70/3] Length = 251 Score = 277 bits (710), Expect = 2e-72, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 118/233 (50%), Gaps = 1/233 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RK 69 R+ K+IA +G SRR+ E I Q VKVNG + D + V+G + Sbjct: 1 MEKVRLQKIIADSGYCSRRKAEEYIEQGCVKVNGRPVSLGDKADPKNDIVTVNGEKIASL 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + R +KP G VTT +D GR V D L I RV VGRLD ++EGLL+LTNDG Sbjct: 61 GTQLRYIKLYKPRGYVTTMADTHGRKIVTDLLDDIDERVYPVGRLDKDSEGLLILTNDGA 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA + PS + YRV G+V DKL L G+ I V + ++ + + Sbjct: 121 LANAVMHPSRHIKKRYRVTVRGEVTDDKLTTLASGVKIDTGVTLPCTVAVLAEEENRTVL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+I+K+ E ++ RL R + G +LG L G +++ + L+ Sbjct: 181 EFTIAEGKNRQIRKMCEAVKLQIVRLKRNAVGNIKLGMLKPGEWADLTAEELK 233 >gi|229916174|ref|YP_002884820.1| pseudouridine synthase [Exiguobacterium sp. AT1b] gi|229467603|gb|ACQ69375.1| pseudouridine synthase [Exiguobacterium sp. AT1b] Length = 252 Score = 277 bits (710), Expect = 2e-72, Method: Composition-based stats. Identities = 84/240 (35%), Positives = 127/240 (52%), Gaps = 8/240 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ASRR+ E MI RV+VNG ++ V IEVDGV + + E Sbjct: 2 ERLQKVIAQAGVASRRKAEEMILDGRVRVNGKVVRELGTKVGPKSEIEVDGVKIEQEE-H 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G V+T D GR + D +P +RV VGRLD NT GL++LTNDG + + Sbjct: 61 VYYLLYKPSGYVSTVDDDKGRKVITDLVPPG-ARVFPVGRLDYNTTGLIILTNDGEFSNM 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDT--QKGSNAWVT 190 + P + + Y + + L+ G+ + G +V + + QK + A + Sbjct: 120 MTHPKYKIQKRYVAKVKNIPSYLAIKQLESGVELDDGFKTGSAKVKMKSVDQKKNTAILE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI---LREQLGP 247 + + EG NR+I+++ E +V +L R +G L L G RE+S K LRE P Sbjct: 180 IVISEGHNRQIRRMVEAIGSEVIKLKREQFGFLTLDGLNTGDWRELSHKEISKLRELANP 239 >gi|167751640|ref|ZP_02423767.1| hypothetical protein EUBSIR_02645 [Eubacterium siraeum DSM 15702] gi|167655448|gb|EDR99577.1| hypothetical protein EUBSIR_02645 [Eubacterium siraeum DSM 15702] Length = 251 Score = 277 bits (710), Expect = 2e-72, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 118/233 (50%), Gaps = 1/233 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RK 69 R+ K+IA +G SRR+ E I Q VKVNG + D + V+G + Sbjct: 1 MEKVRLQKIIADSGYCSRRKAEEYIEQGCVKVNGRPVSLGDKADPKNDIVTVNGEKIASS 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + R +KP G VTT +D GR V D L I RV VGRLD ++EGLL+LTNDG Sbjct: 61 GTQLRYIKLYKPRGYVTTMADTHGRKIVTDLLDDIDERVYPVGRLDKDSEGLLILTNDGA 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA + PS + YRV G+V DKL L G+ I V + ++ + + Sbjct: 121 LANAVMHPSRHIKKRYRVTVRGEVTDDKLTTLASGVKIDTGVTLPCTVAVLAEEENRTVI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+I+K+ E ++ RL R + G +LG L G +++ + L+ Sbjct: 181 EFTIAEGKNRQIRKMCEAVKLQIVRLKRNAVGNIKLGMLKPGEWADLTAEELK 233 >gi|313623106|gb|EFR93379.1| ribosomal large subunit pseudouridine synthase B [Listeria innocua FSL J1-023] Length = 244 Score = 277 bits (710), Expect = 2e-72, Method: Composition-based stats. Identities = 86/233 (36%), Positives = 136/233 (58%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ SRR+ E++I + +V VNG ++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGVTSRRKAEKLIQEGKVTVNGKVVTELGVKVTGTERIEVEGIQLTKEE-H 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G V+ +D GR+TV D I R+ VGRLD +T GLLL+TNDG A + Sbjct: 61 RYFLFYKPRGTVSAVTDDKGRTTVADYFTDIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y R G +++ + L++G+VI G +V + + + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRELERGVVIDGRKTAPAKVKVRSSDKAKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++K+FE ++V +L R Y L L AG RE+S +++ Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLAREEYSFLNLRGLNAGERRELSHHEVKQL 233 >gi|295099584|emb|CBK88673.1| ribosomal large subunit pseudouridine synthase B [Eubacterium cylindroides T2-87] Length = 241 Score = 277 bits (710), Expect = 2e-72, Method: Composition-based stats. Identities = 75/233 (32%), Positives = 117/233 (50%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIAR+GI SRR+ E +I + +V VNG L V D IEVDG L ++ Sbjct: 2 ERLQKVIARSGICSRRKAEELILEGKVYVNGELCTTLGTKVSGNDEIEVDGKLLELEDKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +K G + + +D R TV D L I RV +VGRLD +T G+LLLTNDG Sbjct: 62 YYVI-NKTKGCICSSNDDRDRRTVLDYL-DIPQRVYTVGRLDYDTSGVLLLTNDGDFCNQ 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + Y V G + QD + LL+KG+ + +V + + + Sbjct: 120 MIHPRYHLPKTYVVNLQGTLTQDDIRLLRKGLKTNIGDFQPAKVKIISNDVTRDRTIFEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EGKN ++K + E +V +L R+ +G ++ L G R + +++ Sbjct: 180 TIMEGKNHQVKNMMEALGHQVRKLHRVRFGSIEVNDLKPGEYRRLKPYEVKQL 232 >gi|116873391|ref|YP_850172.1| ribosomal large subunit pseudouridine synthase B [Listeria welshimeri serovar 6b str. SLCC5334] gi|116742269|emb|CAK21393.1| ribosomal large subunit pseudouridine synthase B [Listeria welshimeri serovar 6b str. SLCC5334] Length = 244 Score = 277 bits (710), Expect = 2e-72, Method: Composition-based stats. Identities = 87/233 (37%), Positives = 137/233 (58%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E++I + +V VNG ++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGITSRRKAEKLIQEGKVTVNGKVVTELGVKVSGTERIEVEGIQLTKEE-H 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G V+ +D GR+TV D I R+ VGRLD +T GLLL+TNDG A + Sbjct: 61 RYFLFYKPRGTVSAVTDDKGRTTVADYFTDIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y R G +++ + L++G+VI G +V + + + + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRELERGVVIDGRKTAPAKVKVRSSDKAKNKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++K+FE ++V +L R Y L L AG RE+S +++ Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELSHHEVKQL 233 >gi|288924576|ref|ZP_06418513.1| ribosomal large subunit pseudouridine synthase B [Prevotella buccae D17] gi|288338363|gb|EFC76712.1| ribosomal large subunit pseudouridine synthase B [Prevotella buccae D17] Length = 492 Score = 277 bits (710), Expect = 2e-72, Method: Composition-based stats. Identities = 72/234 (30%), Positives = 113/234 (48%), Gaps = 3/234 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + P R++K +A AG+ SRRE + I V VNG ++ V+ TD ++ P+ Sbjct: 252 DPNEPIRLNKYLANAGVCSRREADEFIQAGVVTVNGEVVTELGTKVLRTDEVKFHDNPVS 311 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 E+ L +KP VTT DP R TV D + R+ VGRLD NT G+LLLTND Sbjct: 312 L-EKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDACPERIYPVGRLDRNTTGVLLLTND 370 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G +A L P +VY V V L + +G+ ++ V + + Sbjct: 371 GDMASKLTHPKFLKKKVYHVHLDKNVTAHDLEQIAQGVTLEDGEIHADAVEYADEH-DKS 429 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + GKNR ++++FE ++V +L R+ + L G R +++K + Sbjct: 430 QVGIEIHSGKNRIVRRIFESLGYRVTKLDRVQFAGLTKKNLRRGDWRFLTEKEV 483 >gi|153949734|ref|YP_001401683.1| 16S rRNA pseudouridylate synthase A [Yersinia pseudotuberculosis IP 31758] gi|170025018|ref|YP_001721523.1| 16S rRNA pseudouridylate synthase A [Yersinia pseudotuberculosis YPIII] gi|152961229|gb|ABS48690.1| ribosomal small subunit pseudouridine synthase A [Yersinia pseudotuberculosis IP 31758] gi|169751552|gb|ACA69070.1| pseudouridine synthase [Yersinia pseudotuberculosis YPIII] Length = 235 Score = 277 bits (710), Expect = 2e-72, Method: Composition-based stats. Identities = 57/237 (24%), Positives = 107/237 (45%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQMVGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + LD + V + + Sbjct: 121 VTSPRHHCEKTYLVTLEHPLSDDTAQQFADGVQLHNEKSLTKPAQLDVIEP--QRVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G L L G R ++ + + PHL Sbjct: 179 SEGRYHQVKRMFAAVGNRVIELHRERIGDITLDDDLAPGEYRPLTAEEIASVGAPHL 235 >gi|319790172|ref|YP_004151805.1| pseudouridine synthase [Thermovibrio ammonificans HB-1] gi|317114674|gb|ADU97164.1| pseudouridine synthase [Thermovibrio ammonificans HB-1] Length = 238 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 71/234 (30%), Positives = 123/234 (52%), Gaps = 6/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++A G +R +V+R+I + V+VNG +++ + V D + VDG P+ E Sbjct: 1 MRLDKLLAEGGFGTRSQVKRLIKKGHVEVNGEVVKDPSFQVDPLKDEVTVDGEPVYYEEE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 L L +KP G VT+ D TV + + F ++ VGRLD + EGLLL+T DG L Sbjct: 61 YYLVL-NKPAGYVTSTKDRQ--MTVMELVADIPRFDKLFPVGRLDKDAEGLLLMTTDGEL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + + Y V+ G++ ++ + L++GI ++ +V + + Sbjct: 118 AHRLTHPKWKVPKTYVVKVEGRLTEEAVEPLRRGIELKDFKAKPAEVRILRSSEEESEAE 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EGK ++K++F V L R+++GP +LG L G R ++++ LR Sbjct: 178 ITITEGKFHQVKRMFAAIGHPVKELKRVAFGPLKLGELPTGEYRHLTEEELRAL 231 >gi|300902164|ref|ZP_07120164.1| hypothetical protein HMPREF9536_00353 [Escherichia coli MS 84-1] gi|301306200|ref|ZP_07212275.1| hypothetical protein HMPREF9347_04814 [Escherichia coli MS 124-1] gi|300405683|gb|EFJ89221.1| hypothetical protein HMPREF9536_00353 [Escherichia coli MS 84-1] gi|300838566|gb|EFK66326.1| hypothetical protein HMPREF9347_04814 [Escherichia coli MS 124-1] gi|315255301|gb|EFU35269.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli MS 85-1] Length = 268 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 60/233 (25%), Positives = 103/233 (44%), Gaps = 3/233 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 34 KITHMRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQ 93 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG Sbjct: 94 QHGPRYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQ 153 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + P + Y V V D KG+ + L+ + V Sbjct: 154 WSHRITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEV--ITPTQV 211 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 212 RLTISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 264 >gi|114773340|ref|ZP_01450544.1| RNA pseudouridylate synthase family protein [alpha proteobacterium HTCC2255] gi|114546274|gb|EAU49185.1| RNA pseudouridylate synthase family protein [alpha proteobacterium HTCC2255] Length = 239 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 126/237 (53%), Positives = 167/237 (70%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + PQR++K +ARAG+ASRRE+ERMIA ++ +NG L+ AV V + D I V+G + Sbjct: 2 SDEPQRIAKYLARAGVASRREIERMIAIGQINLNGKTLDTPAVKVTNKDIILVNGKQIGD 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 AE+ R W Y+KP GL+TT D GR T++D P RV++VGRLDIN+EGLLLLTNDGG Sbjct: 62 AEKVRFWRYYKPTGLITTDRDEKGRDTIYDYFPENMPRVMTVGRLDINSEGLLLLTNDGG 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L R LELP+T WLR YRVR +G ++ + L+ GIVI + M++ LD Q+GSNAW+ Sbjct: 122 LKRKLELPATGWLRKYRVRVNGNPTEEMVAPLRNGIVIDRERFKGMEIRLDRQQGSNAWL 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 TVGLREGKNREI++ E+ +VNRLIR SYGPF+L L G E+ K +++QLG Sbjct: 182 TVGLREGKNREIRRAMEYVGLRVNRLIRTSYGPFKLDDLKPGDVEEIKAKTIKDQLG 238 >gi|163803577|ref|ZP_02197444.1| pseudouridine synthase family 1 protein [Vibrio sp. AND4] gi|159172619|gb|EDP57476.1| pseudouridine synthase family 1 protein [Vibrio sp. AND4] Length = 383 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 77/349 (22%), Positives = 137/349 (39%), Gaps = 17/349 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + Q+N R++K I+ G SRRE +R+I Q RV +NG V D + VDG Sbjct: 1 MSQDNAK--RLNKFISETGFCSRREADRLIEQGRVTINGQQP-EMGTKVQPGDDVCVDGN 57 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+ E+ +KP G+ T ++ D + D + R+ +GRLD ++GL+ LT Sbjct: 58 PVAAKEKPIYIALNKPTGITCT-TERDIPGNIVDFI-GHKKRIFPIGRLDKPSDGLIFLT 115 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y VR + + L + G+ I +V +K + Sbjct: 116 NDGDIVNKILRAGNNHEKEYVVRVDKPITGEFLKQMSSGVKILDTVTLPCKV----EKET 171 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 172 KFSFRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDNEVSEIL 231 Query: 246 G---PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK-- 300 + E DA + + + D T + +++ + + Sbjct: 232 AMCEGSVGTEEASKRDAKGRNIRKATDAKLYDSRDENQDSTARRNQTARTFRGNNADEFR 291 Query: 301 ---LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 + +R N G+R ++H SK Sbjct: 292 HAPNSKKGQQRRQRDNEGGRPASDHYRAKPQGERSKSHGEHNKTHSKSD 340 >gi|262166303|ref|ZP_06034040.1| ribosomal large subunit pseudouridine synthase F [Vibrio mimicus VM223] gi|262026019|gb|EEY44687.1| ribosomal large subunit pseudouridine synthase F [Vibrio mimicus VM223] Length = 332 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 82/341 (24%), Positives = 146/341 (42%), Gaps = 20/341 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG V D + +DG PLR ER Sbjct: 8 RLNKFISETGFCSRREADKLIEQGRVTLNGAQP-EVGSKVTEQDEVCIDGKPLRSKERPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + + + G+ I +VT +TQ + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITPEFIRQMASGVNILDTVTLPCKVTQETQYS----FRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R +S+ + E L + E++ Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVNEILA--MCEDSS 238 Query: 255 VNLDAPIYS----SETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 +A + S D S + ++ ++N +G + Q+ P ++ Sbjct: 239 GTEEASRVAQSGDSIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNSKKAQ 298 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 SS + S + R +P SLR++ Sbjct: 299 RHP-------KSSPSNSSTASKPASRPTPRTGGTLSLRKSK 332 >gi|289435297|ref|YP_003465169.1| ribosomal large subunit pseudouridine synthase B [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|289171541|emb|CBH28087.1| ribosomal large subunit pseudouridine synthase B [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|313632602|gb|EFR99592.1| ribosomal large subunit pseudouridine synthase B [Listeria seeligeri FSL N1-067] gi|313637139|gb|EFS02679.1| ribosomal large subunit pseudouridine synthase B [Listeria seeligeri FSL S4-171] Length = 243 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 86/233 (36%), Positives = 135/233 (57%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E +I + +V VNG ++ V V ++ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGITSRRKAETLIKEGKVTVNGKVVTELGVKVSGSERIEVEGIQLTKEE-H 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G V+ +D GR+TV D I R+ VGRLD +T GLLL+TNDG A + Sbjct: 61 RYFLFYKPRGTVSAVTDDKGRTTVADYFTDIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y R G +++ + L++G+VI G +V + + + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRELERGVVIDGRKTAPAKVKIRSSDKAKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++K+FE ++V +L R Y L L AG RE+S +++ Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELSHHEVKQL 233 >gi|115522955|ref|YP_779866.1| pseudouridine synthase Rsu [Rhodopseudomonas palustris BisA53] gi|115516902|gb|ABJ04886.1| Pseudouridine synthase, Rsu [Rhodopseudomonas palustris BisA53] Length = 787 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 143/319 (44%), Positives = 187/319 (58%), Gaps = 3/319 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R++KV++RAG+ SRR+ E I + RV VNG ++ A++V D I VDG PL E Sbjct: 465 AGERIAKVVSRAGLCSRRDAEDWITEGRVAVNGRIINSPALDVTERDVITVDGKPLPPPE 524 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RTRL+LYHKP GL+TTH+DP+GR TVFD+LP R+IS+GRLD NTEGLLLLTNDGGLA Sbjct: 525 RTRLFLYHKPRGLMTTHADPEGRPTVFDHLPEGLPRLISIGRLDFNTEGLLLLTNDGGLA 584 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 R LELP T WLR YRVR HG+V Q +LN LK G+ + G+ YG + TL+ +G+N W+ Sbjct: 585 RTLELPDTGWLRRYRVRAHGEVTQAQLNELKDGVEVDGVKYGPIDATLERDQGANVWLVF 644 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 +REGKNRE++ V +VNRLIR+SYGPFQLG + G EV ++LREQLG + Sbjct: 645 AIREGKNREVRNVLAHLGLEVNRLIRVSYGPFQLGEIEEGQVEEVKTRVLREQLGEKIAL 704 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 A N I S D + V R + + Q+ + RN Sbjct: 705 AAGANFARQIPSKGDTDLDPVVVKKPV---LKRSTVEDRKGRRVLVQRSGSEEARERNEL 761 Query: 312 SNVWMAKGIHSSFLSDSGQ 330 + Sbjct: 762 EAAGFGPPKRPKRGYKGKR 780 >gi|114327123|ref|YP_744280.1| ribosomal large subunit pseudouridine synthase B [Granulibacter bethesdensis CGDNIH1] gi|114315297|gb|ABI61357.1| ribosomal large subunit pseudouridine synthase B [Granulibacter bethesdensis CGDNIH1] Length = 251 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 130/248 (52%), Positives = 175/248 (70%), Gaps = 3/248 (1%) Query: 1 MKDKNIVQ-ENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M ++ + ++ TP +R++K +ARAG+ASRR+ E+++ RV++N ++ A V S Sbjct: 1 MTEERMEDADSGTPRGERIAKWLARAGVASRRDAEKLVEDGRVRLNNQVVTHPATFVGSG 60 Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 D + V+G + +RTRLW YHK G++TTH DP GR TVF+ LPS RV+SVGRLD+N Sbjct: 61 DLVTVNGALVEAPDRTRLWRYHKTDGVMTTHRDPQGRPTVFEKLPSSMPRVVSVGRLDLN 120 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 +EGLLLLTNDG LAR LELP T W+R YRVR HG V Q L+ L +G+ ++G+ YG ++ Sbjct: 121 SEGLLLLTNDGMLARRLELPQTGWIRRYRVRVHGDVTQAMLDSLARGVTVEGVRYGSIEA 180 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 LD+ KGSN+W+TV L+EGKNREI+KV V RLIRI+YGPFQLG L G EV+ Sbjct: 181 GLDSSKGSNSWLTVSLKEGKNREIRKVMRHIGLHVTRLIRIAYGPFQLGQLGKGEVEEVT 240 Query: 238 KKILREQL 245 K+LREQL Sbjct: 241 GKVLREQL 248 >gi|332686546|ref|YP_004456320.1| ribosomal large subunit pseudouridine synthase B [Melissococcus plutonius ATCC 35311] gi|332370555|dbj|BAK21511.1| ribosomal large subunit pseudouridine synthase B [Melissococcus plutonius ATCC 35311] Length = 236 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 86/233 (36%), Positives = 124/233 (53%), Gaps = 3/233 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KV+A AGIASRR+ E++I + RVKVNG ++ V D IEVD VP+ E Sbjct: 3 RLQKVLAHAGIASRRKAEQIILEGRVKVNGEIINELGRQVSKQDKIEVDNVPI-YQEAPV 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L++KP G++T+ SD R TV D RV VGRLD +T GLL++TNDG L + L Sbjct: 62 YYLFYKPRGIITSVSDDKKRKTVADYFLHSNERVYPVGRLDYDTTGLLIVTNDGSLTQQL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVG 192 PS + +VY + G + L L KGI I+G Q+ K + V + Sbjct: 122 THPSHEIDKVYVAKVKGIALRKTLLPLTKGIKIKGRKTAPANFQILSVDTKKQTSLVQLT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+N ++K + + + V +L R G L L G R ++KK + L Sbjct: 182 IHEGRNHQVKDMLDTVGYPVQKLKRERIGDLTLEGLHPGEYRRLTKKEIHALL 234 >gi|16801129|ref|NP_471397.1| hypothetical protein lin2063 [Listeria innocua Clip11262] gi|16414564|emb|CAC97293.1| lin2063 [Listeria innocua Clip11262] gi|313618115|gb|EFR90216.1| ribosomal large subunit pseudouridine synthase B [Listeria innocua FSL S4-378] Length = 244 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 86/233 (36%), Positives = 136/233 (58%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ SRR+ E++I + +V VNG ++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGVTSRRKAEKLIQEGKVTVNGKVVTELGVKVSGTERIEVEGIQLTKEE-H 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP G V+ +D GR+TV D I R+ VGRLD +T GLLL+TNDG A + Sbjct: 61 RYFLFYKPRGTVSAVTDDKGRTTVADYFTDIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y R G +++ + L++G+VI G +V + + + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRELERGVVIDGRKTAPAKVKVRSSDKAKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++K+FE ++V +L R Y L L AG RE+S +++ Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLAREEYSFLNLRGLNAGERRELSHHEVKQL 233 >gi|255525211|ref|ZP_05392153.1| pseudouridine synthase [Clostridium carboxidivorans P7] gi|255511074|gb|EET87372.1| pseudouridine synthase [Clostridium carboxidivorans P7] Length = 234 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 75/230 (32%), Positives = 121/230 (52%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A GIASRR+ E +I Q RVKVNG ++ V + D + +DG ++K + Sbjct: 3 ERLQKYMAACGIASRRKCEEIILQARVKVNGKIVNELGVKIDEEKDLVTLDGKLIKKEKN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G V+T D GR T+ D + + R+ +GRLD +T GL+LLTNDG + Sbjct: 63 KVYIALNKPKGYVSTVKDERGRKTILDLV-DVTERIYPIGRLDYDTSGLILLTNDGDIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++Y G ++ + + GI I G + + + V + Sbjct: 122 KIIHPKQEKNKIYIALIKGIPTENDIKKFEIGINIDGYVTAPAKFKIIKKFKDYCEVEII 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+I+K+ +F N +V L RI G +LG L G R +S K ++ Sbjct: 182 IHEGRNRQIRKMCDFINHQVLELKRIQIGDIKLGNLPLGKWRYLSNKEVK 231 >gi|31789454|gb|AAP58568.1| pseudouridylate synthase [uncultured Acidobacteria bacterium] Length = 317 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 82/237 (34%), Positives = 126/237 (53%), Gaps = 5/237 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK 69 F +R+ K+IA AGIASRR E++I V VNG ++ + DHI+V G + Sbjct: 54 FMEERLQKIIATAGIASRRHAEQLITAGEVTVNGKVVTELGTKADAQNDHIKVRGKLINP 113 Query: 70 AERTR---LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + L +KP G +++ SDP+GR TV + LP+ RV VGRLD NTEGLLLLTN Sbjct: 114 TLKRVEKNYILLNKPRGYLSSVSDPEGRPTVLELLPASLGRVYPVGRLDFNTEGLLLLTN 173 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS 185 DG + + +VY + G + + L++G+ + G+ ++ L + S Sbjct: 174 DGDFTNFITSARNKVDKVYEAKVKGVPTEASVERLRRGVTLDDGVRTAPAKIRLLGETES 233 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 NAW V L EGKN++I+++F+ V +L R G + L G R +S+ ++ Sbjct: 234 NAWFEVLLHEGKNQQIRRMFDLIGHSVVKLRRSRIGGLRDDELKPGKWRRLSEYEVK 290 >gi|126651298|ref|ZP_01723505.1| pseudouridylate synthase (ribosomal small subunit pseudouridine synthase A) [Bacillus sp. B14905] gi|126591827|gb|EAZ85910.1| pseudouridylate synthase (ribosomal small subunit pseudouridine synthase A) [Bacillus sp. B14905] Length = 237 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 119/233 (51%), Gaps = 8/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 R+ K++A G SR+EV++++ Q+ V V+G ++ AA++V + V G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKQLLKQKAVTVDGASVKDAAMHVDPEQQNVSVYGERVVYTE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D TV D L + VGRLD +TEGLL+LTNDG L Sbjct: 60 FVYFMMNKPPGVISATEDLRD-ETVIDLLEPLDQHFQPFPVGRLDKDTEGLLVLTNDGIL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L P +VY G V ++ + +G+ + G ++ + + + + Sbjct: 119 AHKLLSPKKHVPKVYYAHIEGVVTEEDVEKFAEGVELDDGYMTKPGKLVIL-KSAPQSEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + ++EGK ++K++FE +V L RIS G +L L G RE++ + L Sbjct: 178 ELTIQEGKFHQVKRMFESVGKRVTYLKRISMGNLKLDDHLALGEYRELTAEEL 230 >gi|300728331|ref|ZP_07061696.1| pseudouridine synthase B, ribosomal large subunit [Prevotella bryantii B14] gi|299774396|gb|EFI71023.1| pseudouridine synthase B, ribosomal large subunit [Prevotella bryantii B14] Length = 431 Score = 277 bits (708), Expect = 2e-72, Method: Composition-based stats. Identities = 73/242 (30%), Positives = 112/242 (46%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I + VNG ++ VM TD + Sbjct: 183 IEYKEENFDPNEPIRLNKYLANAGVCSRREADEFIQAGVITVNGEVVTELGTKVMRTDEV 242 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + + E+ L +KP VTT DP R TV D + R+ VGRLD N Sbjct: 243 KFHDQNVSL-EKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDACPERIYPVGRLDRNPT 301 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P +VY V V L + GI ++ + Sbjct: 302 GVLLLTNDGDLASKLTHPKFLKKKVYHVYLDKPVAAHDLQQIADGITLEDGEIHADAIEY 361 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V + + GKNR ++++FE ++V +L R+ + L G R +S+K Sbjct: 362 ADEH-DKKQVGIEIHSGKNRIVRRIFEALGYRVTKLDRVQFAGLTKKNLRRGDWRFLSEK 420 Query: 240 IL 241 + Sbjct: 421 EV 422 >gi|262170804|ref|ZP_06038482.1| ribosomal large subunit pseudouridine synthase F [Vibrio mimicus MB-451] gi|261891880|gb|EEY37866.1| ribosomal large subunit pseudouridine synthase F [Vibrio mimicus MB-451] Length = 332 Score = 277 bits (708), Expect = 2e-72, Method: Composition-based stats. Identities = 82/341 (24%), Positives = 147/341 (43%), Gaps = 20/341 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG V D + +DG PLR ER Sbjct: 8 RLNKFISETGFCSRREADKLIEQGRVTLNGAQP-EVGSKVTEQDEVCIDGKPLRSKERPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T ++ D + D + S R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCT-TERDVPGNIVDFI-SHHKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + + + G+ I +VT +TQ + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITPEFIRQMASGVNILDTVTLPCKVTQETQYS----FRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R +S+ + E L + E++ Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVNEILA--MCEDSS 238 Query: 255 VNLDAPIYS----SETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 +A + S D + + ++ ++N +G + Q+ P ++ Sbjct: 239 GTEEASRVAQSGDSIKRATDAKLFDNREANKESKARRNPKTYHGKNAQEFRHAPNSKKAQ 298 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 SS + S + R +P SLR++ Sbjct: 299 RHP-------KSSPSNSSTASKPASRPTPRTGGTLSLRKSK 332 >gi|51595642|ref|YP_069833.1| 16S rRNA pseudouridylate synthase A [Yersinia pseudotuberculosis IP 32953] gi|186894712|ref|YP_001871824.1| 16S rRNA pseudouridylate synthase A [Yersinia pseudotuberculosis PB1/+] gi|51588924|emb|CAH20541.1| ribosomal small subunit pseudouridine synthase A [Yersinia pseudotuberculosis IP 32953] gi|186697738|gb|ACC88367.1| pseudouridine synthase [Yersinia pseudotuberculosis PB1/+] Length = 235 Score = 277 bits (708), Expect = 2e-72, Method: Composition-based stats. Identities = 58/237 (24%), Positives = 108/237 (45%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQMVGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + LD + V + + Sbjct: 121 VTSPRHHCEKTYLVTLEHPLSDDTAQQFADGVQLHNEKSLTKPAQLDVIEP--QRVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 REG+ ++K++F +V L R G L L G R ++ + + PHL Sbjct: 179 REGRYHQVKRMFAAVGNRVIELHRERIGDITLDDDLAPGEYRPLTAEEIASVGAPHL 235 >gi|117928443|ref|YP_872994.1| ribosomal large subunit pseudouridine synthase B [Acidothermus cellulolyticus 11B] gi|117648906|gb|ABK53008.1| ribosomal large subunit pseudouridine synthase B [Acidothermus cellulolyticus 11B] Length = 269 Score = 277 bits (708), Expect = 2e-72, Method: Composition-based stats. Identities = 84/232 (36%), Positives = 125/232 (53%), Gaps = 1/232 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ KV+A AG+ SRR E +IA RV+V+G+ + R V V T I VDG + A Sbjct: 33 RLQKVLAAAGVGSRRACEELIAAGRVEVDGVPVTRLGVRVDPQTAVIRVDGKRIPPATPF 92 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G+VTT SDP GR V D + + RV VGRLD ++EGLLLLTNDG L Sbjct: 93 AYFALNKPRGVVTTMSDPRGRPCVGDLVADLPVRVFHVGRLDTDSEGLLLLTNDGRLTHR 152 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + Y G++ + ++LL+ G+ + V + + G+ V V + Sbjct: 153 LTHPSHAVPKTYVADVEGRLGRTGVHLLRSGVDLADGPAQADAVRILERYGARTLVEVVV 212 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 EG+ ++++ V RL+R + GP LG L G+ R+++ + L E L Sbjct: 213 HEGRTHLVRRMLAAVGHPVRRLVRTAIGPVALGQLRPGARRQLTPRELGELL 264 >gi|269965448|ref|ZP_06179567.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 40B] gi|269829927|gb|EEZ84157.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 40B] Length = 385 Score = 277 bits (708), Expect = 2e-72, Method: Composition-based stats. Identities = 80/349 (22%), Positives = 146/349 (41%), Gaps = 14/349 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + Q+N R++K I+ G SRRE +R+I Q RV +NG V+ D + VDG Sbjct: 1 MSQDNAK--RLNKFISETGFCSRREADRLIEQGRVTINGNKP-EMGTKVLPGDDVCVDGK 57 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+ E+ +KP G+ T ++ D + D + R+ +GRLD ++GL+ LT Sbjct: 58 PVAAKEKPIYIALNKPTGITCT-TERDVPGNIVDFI-GHQKRIFPIGRLDKPSDGLIFLT 115 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y VR + + L + G+ I +VT +T+ Sbjct: 116 NDGDIVNKILRAGNSHEKEYVVRVDKPITGEFLKQMSSGVKILDTVTLPCKVTKETKFS- 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E ++V +L R+ L + G R +S + + E L Sbjct: 175 ---FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDEEVAEIL 231 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 + E V + + R +++ D + +++++N ++ + Sbjct: 232 A---MCEGSVGTEEASKTDSGGRNIRKATDAKLFDSREENQDSTARRNQKTRTFRGNNAD 288 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R+ A N + D G R +RS + K Sbjct: 289 EFRH-APNSKKGQQKRRQR-DDEGGRPAKEHYKAKPQGERSRPQGEHGK 335 >gi|23099278|ref|NP_692744.1| ribosomal large subunit pseudouridylate synthase [Oceanobacillus iheyensis HTE831] gi|22777507|dbj|BAC13779.1| ribosomal large subunit pseudouridylate synthase [Oceanobacillus iheyensis HTE831] Length = 244 Score = 277 bits (708), Expect = 2e-72, Method: Composition-based stats. Identities = 84/233 (36%), Positives = 132/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA++G+ SRR+ E+MI +VKVNG ++ V V + D I VDGVPL K E Sbjct: 6 ERLQKVIAQSGVTSRRKAEQMILDGKVKVNGETVQEMGVKVTANDEIVVDGVPLEK-ETP 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ D GR V D ++ R+ +GRLD +T G+LLLTNDG A + Sbjct: 65 VYFLLYKPRGVISSVKDDKGRKVVTDYFEAVEQRIFPIGRLDYDTSGVLLLTNDGDFANL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + +VY + G ++ +L LL+KGI +QV L + + + + + Sbjct: 125 LMHPRHEIDKVYIAKVRGIPNKKELALLQKGIRSDKDVLKAVQVKLLSTDHQKKTSIIEL 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 L EGKNR+++++ E + V +L R Y L L AG R ++ K + + Sbjct: 185 TLHEGKNRQVRRMLEELGYPVMKLKRERYDFIGLEGLNAGEYRSLTPKEVNQL 237 >gi|269961576|ref|ZP_06175938.1| Ribosomal large subunit pseudouridine synthase F [Vibrio harveyi 1DA3] gi|269833617|gb|EEZ87714.1| Ribosomal large subunit pseudouridine synthase F [Vibrio harveyi 1DA3] Length = 384 Score = 277 bits (708), Expect = 3e-72, Method: Composition-based stats. Identities = 79/349 (22%), Positives = 145/349 (41%), Gaps = 15/349 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + Q+N R++K I+ G SRRE +R+I Q RV +NG V+ D + VDG Sbjct: 1 MSQDNAK--RLNKYISETGFCSRREADRLIEQGRVTINGQQP-EMGTKVLPGDDVCVDGN 57 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+ E+ +KP G+ T ++ D + D + R+ +GRLD ++GL+ LT Sbjct: 58 PVAAKEKPIYIALNKPTGITCT-TERDIPGNIVDFI-GHKKRIFPIGRLDKPSDGLIFLT 115 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y VR + + L + G+ I +V +K + Sbjct: 116 NDGDIVNKILRAGNNHEKEYVVRVDKPITGEFLKQMSSGVKILDTVTLPCKV----EKET 171 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 172 KFSFRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDDEVAEIL 231 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 + E V + + R +++ D + +++++N ++ + Sbjct: 232 A---MCEGSVGTEEASKTDSRGRNIRKATDAKLYDSREENQGSTARRNQKTRTFRGNNAD 288 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R+ ++ KG D G R +RS + K Sbjct: 289 EFRHAPNS---KKGQQRRQRDDEGGRPAKEHYKAKPQGERSRPQGEHGK 334 >gi|317128531|ref|YP_004094813.1| pseudouridine synthase [Bacillus cellulosilyticus DSM 2522] gi|315473479|gb|ADU30082.1| pseudouridine synthase [Bacillus cellulosilyticus DSM 2522] Length = 242 Score = 277 bits (708), Expect = 3e-72, Method: Composition-based stats. Identities = 77/234 (32%), Positives = 128/234 (54%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ KVIA+AG+ SRR+ E++I + +V VNG + V D + V+GVPL K E Sbjct: 5 ERLQKVIAQAGVTSRRKAEQLILEGKVIVNGNKVTELGTKVDLQHDEVIVEGVPLEKEE- 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++++ D GR V D +P R+ +GRLD +T GL+LLTNDG A Sbjct: 64 PIYFLLYKPTGVISSVDDEKGRKVVTDFIP-TDKRIFPIGRLDYDTSGLILLTNDGDFAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 +L P + + Y + G ++ + L+KGI ++ +V + +K + + Sbjct: 123 LLMHPKHEIYKTYIAKVEGVPLREDIKKLEKGIHLEDGRTAPAKVKVSRSDKKKGTSIIE 182 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+++++FE V +L R +YG L L AG RE+ ++ Sbjct: 183 ISIHEGRNRQVRRMFEAIGHPVMKLKRENYGFLNLKGLNAGDFRELKPHEVKRL 236 >gi|282880895|ref|ZP_06289588.1| pseudouridylate synthase [Prevotella timonensis CRIS 5C-B1] gi|281305277|gb|EFA97344.1| pseudouridylate synthase [Prevotella timonensis CRIS 5C-B1] Length = 253 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 71/234 (30%), Positives = 112/234 (47%), Gaps = 3/234 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + P R++K +A AG+ SRRE + I VKVNG ++ V+ +D + P+ Sbjct: 13 DPTVPVRLNKYLANAGVCSRREADEFIQAGVVKVNGEVVTELGTKVLRSDEVVFHDQPVS 72 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 E+ L +KP VTT DP R TV D + + R+ VGRLD NT G+LL TND Sbjct: 73 L-EKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKNACPERIYPVGRLDRNTTGVLLFTND 131 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P +VY V V + + +GI ++ + + N Sbjct: 132 GDLASKLTHPKFLKKKVYHVFLDKNVTAHDMQQIAEGIELEDGEIHADAIEYTNETEKN- 190 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + GKNR ++++FE ++V +L R+ + L G R ++ + + Sbjct: 191 QVGIEIHSGKNRIVRRIFESLGYRVIKLDRVQFAGLTKKNLRRGDWRYLTAQEV 244 >gi|302383495|ref|YP_003819318.1| pseudouridine synthase [Brevundimonas subvibrioides ATCC 15264] gi|302194123|gb|ADL01695.1| pseudouridine synthase [Brevundimonas subvibrioides ATCC 15264] Length = 511 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 144/355 (40%), Positives = 190/355 (53%), Gaps = 12/355 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 E +R++K +ARAGIASRREVER+I +V VNG +L+ A V D I VDG P+ Sbjct: 93 AEPKRSERIAKAMARAGIASRREVERLIGLGKVAVNGRILDTPATLVTRDDVITVDGKPI 152 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 A+ TR+W Y+KP+GL+T+H+DP GR TVFD LPS RVISVGRLDINTEGLLLLTND Sbjct: 153 AAAQATRVWRYNKPVGLLTSHNDPQGRPTVFDALPSGLPRVISVGRLDINTEGLLLLTND 212 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------D 180 G L+R LELP T +R YR R G+V Q L+ LK G+ + G+ YG ++ ++ D Sbjct: 213 GELSRALELPETALVRQYRARARGRVTQADLDKLKDGVTVDGVRYGPVEASIDKATTKED 272 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + +N W++V + EGKNRE++KV E VNRLIR++YGPFQLGTL GS EV ++ Sbjct: 273 GSQAANLWISVQIAEGKNREVRKVLESVGLTVNRLIRLAYGPFQLGTLAVGSVEEVGPRV 332 Query: 241 LREQLGPH-----LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 +RE LG H L + V API T D +R Sbjct: 333 IRELLGEHIRPDNLPQGNTVETPAPIPGRRTGAPKVTGTSGSAMSDPSRKPSRVRAAATA 392 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + + A E + P++ R Sbjct: 393 QVEGAERANRPPKKAGWAKAAAPNPRGPSTKKPWAPREGAAPTGDRPARVFKPRD 447 >gi|75676734|ref|YP_319155.1| pseudouridine synthase, Rsu [Nitrobacter winogradskyi Nb-255] gi|74421604|gb|ABA05803.1| pseudouridine synthase, Rsu [Nitrobacter winogradskyi Nb-255] Length = 680 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 147/323 (45%), Positives = 193/323 (59%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + +RV+K+I+RAG+ASRR+ E M+ Q RV VNG ++ A++V S D + VDG PL Sbjct: 348 KPKKAGERVAKMISRAGLASRRDAEEMVTQGRVAVNGRVINSPALDVTSRDVVTVDGQPL 407 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + ERTRL+LYHKP GL+TTH+DP+GR TVFD+LP RVISVGRLD NTEGLLLLTND Sbjct: 408 PERERTRLFLYHKPRGLMTTHADPEGRPTVFDHLPEGLPRVISVGRLDFNTEGLLLLTND 467 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGLAR LELP T WLR YRVR HG+V Q +L+ LK G+ + G+ YG + TL+ +G+N Sbjct: 468 GGLARALELPDTGWLRRYRVRAHGEVTQAQLDALKNGVEVDGVKYGSIDATLERDQGANV 527 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+T +REGKNRE++ V +VNRLIRISYGPFQL + G EV ++LREQLG Sbjct: 528 WLTFAIREGKNREVRNVMAHLGLEVNRLIRISYGPFQLAEIAEGEVEEVKTRVLREQLGD 587 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + A ++ + R D K + ++ + + Sbjct: 588 RIATLANMDPSGAAAEAGAANLGRDGTPLRSKKDNKARTKRALIEDRQGRSVVVQRTGSD 647 Query: 308 RNLASNVWMAKGIHSSFLSDSGQ 330 A N A G G Sbjct: 648 EARARNEAEANGYGPPRRPKRGY 670 >gi|327484742|gb|AEA79149.1| Ribosomal large subunit pseudouridine synthase F LSU Psi2604 [Vibrio cholerae LMA3894-4] Length = 328 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 76/304 (25%), Positives = 132/304 (43%), Gaps = 9/304 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG L V D + +DG PLR E Sbjct: 5 TEKRLNKFISETGYCSRREADKLIEQGRVTING-LQPEVGSKVTEQDEVCIDGKPLRSKE 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 64 RPIYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + + + + G+ I +VT +TQ + Sbjct: 122 NKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYS----FRI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 178 VLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSDAEVSEILAMCEDS 237 Query: 252 EAQVNLDAPIYSSETLVR--DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 S +T+ R D S + ++ ++N +G + Q+ P ++ Sbjct: 238 SGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNSKKA 297 Query: 310 LASN 313 Sbjct: 298 QRRP 301 >gi|327312548|ref|YP_004327985.1| pseudouridylate synthase [Prevotella denticola F0289] gi|326945115|gb|AEA21000.1| pseudouridylate synthase [Prevotella denticola F0289] Length = 507 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 115/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG +++ V+ +D + Sbjct: 259 IEYKEENFDPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVLRSDVV 318 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 P+ E+ L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 319 LFQEKPVSL-EKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDRNTT 377 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P +VY V V + L + GI ++ + Sbjct: 378 GVLLLTNDGDLASKLTHPKFLKKKVYHVFLDKPVTANDLQKISDGIELEDGEIKADAIEY 437 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V + + GKNR ++++FE ++V +L R+ + + G R +++K Sbjct: 438 ADPQ-DQTQVGIEIHSGKNRIVRRIFESLGYRVIKLDRVQFAGLTKKNVRRGDWRFLTEK 496 Query: 240 IL 241 + Sbjct: 497 EV 498 >gi|325851841|ref|ZP_08171006.1| pseudouridylate synthase [Prevotella denticola CRIS 18C-A] gi|325484683|gb|EGC87596.1| pseudouridylate synthase [Prevotella denticola CRIS 18C-A] Length = 507 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 115/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG +++ V+ +D + Sbjct: 259 IEYKEENFDPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVLRSDVV 318 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 P+ E+ L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 319 LFQEKPVSL-EKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDRNTT 377 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P +VY V V + L + GI ++ + Sbjct: 378 GVLLLTNDGDLASKLTHPKFLKKKVYHVFLDKPVTANDLQKISDGIELEDGEIKADAIEY 437 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V + + GKNR ++++FE ++V +L R+ + + G R +++K Sbjct: 438 ADPQ-DQTQVGIEIHSGKNRIVRRIFESLGYRVVKLDRVQFAGLTKKNVRRGDWRFLTEK 496 Query: 240 IL 241 + Sbjct: 497 EV 498 >gi|312898944|ref|ZP_07758332.1| conserved hypothetical protein [Megasphaera micronuciformis F0359] gi|310620106|gb|EFQ03678.1| conserved hypothetical protein [Megasphaera micronuciformis F0359] Length = 231 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 79/225 (35%), Positives = 128/225 (56%), Gaps = 4/225 (1%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTRLWLY 78 ++ G+ASRR E MIA RV+VNG++++ V V D I VDG L K + + +L+ Sbjct: 1 MSNCGVASRRASEEMIAAGRVRVNGVIVKTPGVKVDLQKDIIVVDGKRLEKPAK-QYYLF 59 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS 138 +KP G++TT D R+TV D ++ R+ VGRLD NTEGLL++TNDG LA +L PS Sbjct: 60 NKPKGVLTTVKDDRERNTVMDYFKNVKDRIYPVGRLDQNTEGLLIMTNDGALANILMHPS 119 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVGLREG 196 + Y VR G++ L L +G+ ++ V G+ V + + EG Sbjct: 120 KLVDKTYNVRIKGRITDAVLEKLAQGVPLKDGMTAPAVVVYVGYDGATNITEVEITIHEG 179 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +NR+++++FE+F ++V+ L R Y L + G+ R ++++ + Sbjct: 180 RNRQVRRMFEYFGFQVHNLRRTQYAFLTLSGVKRGAYRRLTREEV 224 >gi|332653044|ref|ZP_08418789.1| ribosomal large subunit pseudouridine synthase B [Ruminococcaceae bacterium D16] gi|332518190|gb|EGJ47793.1| ribosomal large subunit pseudouridine synthase B [Ruminococcaceae bacterium D16] Length = 237 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 80/232 (34%), Positives = 118/232 (50%), Gaps = 2/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+I++ G+ASRR E I RV VNG L + + D +EVDG PLR Sbjct: 3 ERLQKLISQCGLASRRTAEEWITAGRVTVNGFLAQLGDRADLDRDRVEVDGRPLRGGSPR 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G VTT SD GR TV + RV VGRLD+++EGLLL+T+DG L Sbjct: 63 TYLMLNKPRGYVTTLSDEKGRKTVAALVSGCGKRVWPVGRLDLDSEGLLLMTDDGELTNS 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS Q + Y V G V + L +L + + G +V + G +++ + Sbjct: 123 LLHPSHQVEKEYLVWVTGDV-ETALPILSGPMELDGEPLAPAKVARGRESGGVTQLSITI 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 +GKNR+++++ +V RL RI G L L G R ++ + L Sbjct: 182 CQGKNRQVRRMCAQAGLEVTRLKRIREGQVSLDRKLKPGQWRPLTAQELAAL 233 >gi|329946750|ref|ZP_08294162.1| pseudouridylate synthase [Actinomyces sp. oral taxon 170 str. F0386] gi|328526561|gb|EGF53574.1| pseudouridylate synthase [Actinomyces sp. oral taxon 170 str. F0386] Length = 324 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 89/243 (36%), Positives = 125/243 (51%), Gaps = 10/243 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 + QR+ KV+A AG+ASRR E++IA RV V+GI + V V T I VDG + Sbjct: 76 SGQRLQKVLAHAGVASRRACEQLIADGRVSVDGITVTEPGVRVDPLTQEIRVDGSRILTN 135 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV----FDNLPSIFS-----RVISVGRLDINTEGL 121 + HKP G+VTT DP+GR TV D L R++ VGRLD TEGL Sbjct: 136 PELITLMLHKPAGVVTTMEDPEGRPTVAQYGLDYLAEHPELPDSLRLVHVGRLDTETEGL 195 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLL+NDG L+ L PS + + Y GQV+ L++GI ++ +VT+ Sbjct: 196 LLLSNDGELSHRLMHPSFEIAKTYVAIVEGQVEPWVPRKLRRGIALEDGETRADRVTVKD 255 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + L GKNR ++++ + V RL R GP +LG L G TR +S + + Sbjct: 256 SGPRGSIVEITLHSGKNRIVRRMLDAVGHPVTRLARTRLGPLRLGNLRPGETRPLSGEEI 315 Query: 242 REQ 244 Sbjct: 316 AAL 318 >gi|228469771|ref|ZP_04054729.1| ribosomal large subunit pseudouridine synthase B [Porphyromonas uenonis 60-3] gi|228308610|gb|EEK17361.1| ribosomal large subunit pseudouridine synthase B [Porphyromonas uenonis 60-3] Length = 472 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 82/274 (29%), Positives = 137/274 (50%), Gaps = 4/274 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E P R++K ++ +G+ SRR ++ IA RVKVNG ++ V+ TD + VD P+ Sbjct: 201 EAGEPIRLNKFLSNSGLCSRRTADQYIAAGRVKVNGAVVSELGSQVLPTDQVMVDDKPVT 260 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 E L +KP VTT +DP+GR TV D + + R+ +GRLD NT G+LLLTND Sbjct: 261 L-EAKVYVLLNKPKNCVTTLTDPEGRRTVMDLVHNACTERIYPIGRLDRNTTGILLLTND 319 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P+ + ++Y V +V + + ++ G ++ ++ T + ++ Sbjct: 320 GDLAVRLMHPAFRKKKIYEVALDKEVTVEHMQMIAHGFELEDGEIHADAISYITGQ-THD 378 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ-LG 246 V + + G+NR ++++FE ++V L R+ Y L G R ++ + +R +G Sbjct: 379 KVGIEIHSGRNRIVRRIFEHLGYRVVHLDRVYYAGLTKKDLPRGRWRYLTPEEVRYLRMG 438 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPD 280 E+ V +Y D P E+ D Sbjct: 439 IKEQEDNGVAPTTKVYHKHQETPDHPFSSEEIED 472 >gi|28211002|ref|NP_781946.1| ribosomal large subunit pseudouridine synthase B [Clostridium tetani E88] gi|28203441|gb|AAO35883.1| ribosomal large subunit pseudouridine synthase B [Clostridium tetani E88] Length = 234 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 77/229 (33%), Positives = 124/229 (54%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ SRR+ E +I RVKVNG ++ V V D + +D ++K E Sbjct: 2 ERLQKYMASCGVDSRRKCEDIILNGRVKVNGESIKELGVKVDPEKDIVTIDNRIIKKEEN 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +++ D GR T+ D + + R+ +GRLD +T GL+LLTNDG Sbjct: 62 KKYIALNKPTGYISSVKDDKGRKTILDLI-DVKERIYPIGRLDYDTSGLILLTNDGDFYN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY G + +L KKG+VI ++ + + K +NA V + Sbjct: 121 KVIHPREEKEKVYVATIKGIPNSSELQDFKKGLVIDDYLTSPSKIKIISVKNNNAEVIIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG+NR+++K+ E N V +L RIS G LG L GS R +++K + Sbjct: 181 IMEGRNRQVRKMCEKINHPVIKLKRISVGHVGLGDLPIGSWRYLTQKEI 229 >gi|281412320|ref|YP_003346399.1| pseudouridine synthase [Thermotoga naphthophila RKU-10] gi|281373423|gb|ADA66985.1| pseudouridine synthase [Thermotoga naphthophila RKU-10] Length = 239 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 65/231 (28%), Positives = 119/231 (51%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +G+ +R+EV+++I Q RV VNG ++ +V D + +DG + R Sbjct: 1 MRLDRYLSNSGVGTRKEVKKLIKQGRVTVNGRVVLDPGHSVSENDVVVLDGETVNF-HRK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L+HKP G VT+ DP T+ + LP + VGRLD + EGLL++TNDG A Sbjct: 60 VYILFHKPSGYVTSTKDP-HSETIMEFLPP-LKGIFPVGRLDKDAEGLLIITNDGDFAHR 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V+ G++ +DK+ LK G+ ++ + + +K SN + + + Sbjct: 118 VTSPKWSVEKEYIVKVEGEITEDKIEKLKNGVTLRDGFFAKAKC---VEKLSNDTLKIVI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 EG+ ++K++ + L R G L + G R +S++ +++ Sbjct: 175 TEGRYHQVKRMTAAVGLRTVHLKRTRIGELVLPDDMKPGEYRFLSEEEVKK 225 >gi|328955498|ref|YP_004372831.1| ribosomal large subunit pseudouridine synthase B [Coriobacterium glomerans PW2] gi|328455822|gb|AEB07016.1| ribosomal large subunit pseudouridine synthase B [Coriobacterium glomerans PW2] Length = 257 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 82/256 (32%), Positives = 128/256 (50%), Gaps = 5/256 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ + +ARAG+ASRR E +++ RV+VNG++ V D +EVDG+ + Sbjct: 1 MRLQRFLARAGVASRRGSEHLMSAGRVRVNGLVASELGTKVDVGADRVEVDGIEVVFGAP 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G +TT SDP GR V + +P F + VGRLD +T G+LL T DG LA Sbjct: 61 PVYIVLNKPAGYLTTMSDPAGRPCVAELVPIRRFPGLFPVGRLDKDTTGVLLFTTDGDLA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWV 189 + L PS + Y R G D L++L+ GI + + L ++ G ++ V Sbjct: 121 QNLLHPSKHVAKTYLARVEGTPDSADLDVLRAGIELDDGPCLPARCRLVERRASGGSSLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + +REG+ ++K++ V RL+R S+G L G RE++ L L P Sbjct: 181 ELIIREGRKNQVKRMLAAVGHPVQRLVRTSFGGVAASDLAEGEWRELTSCEL-ALLRPES 239 Query: 250 LEEAQVNLDAPIYSSE 265 + +L P S + Sbjct: 240 PADPPAHLGRPGASRK 255 >gi|258621029|ref|ZP_05716063.1| Ribosomal large subunit pseudouridine synthase F [Vibrio mimicus VM573] gi|258586417|gb|EEW11132.1| Ribosomal large subunit pseudouridine synthase F [Vibrio mimicus VM573] Length = 332 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 82/341 (24%), Positives = 146/341 (42%), Gaps = 20/341 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG V D + +DG PLR ER Sbjct: 8 RLNKFISETGFCSRREADKLIEQGRVTLNGAQP-EVGSKVTEQDEVCIDGKPLRSKERPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + + + G+ I +VT +TQ + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITPEFIRQMASGVNILDTVTLPCKVTQETQYS----FRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R +S+ + E L + E++ Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVNEILA--MCEDSS 238 Query: 255 VNLDAPIYS----SETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 +A + S D S + ++ ++N +G + Q+ P ++ Sbjct: 239 GTEEASRVAQSGDSIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNSKKAQ 298 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 SS + S + R +P SLR++ Sbjct: 299 RHP-------KSSPSNSSTASKPAPRPTPRTGGTLSLRKSK 332 >gi|238754970|ref|ZP_04616319.1| Ribosomal large subunit pseudouridine synthase B [Yersinia ruckeri ATCC 29473] gi|238706829|gb|EEP99197.1| Ribosomal large subunit pseudouridine synthase B [Yersinia ruckeri ATCC 29473] Length = 321 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 114/335 (34%), Positives = 164/335 (48%), Gaps = 26/335 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I Q RV V+G + V+V + I +DG L E Sbjct: 2 SEKLQKVLARAGHGSRREIEAIIQQGRVSVDGKVATLGDRVDVTPSTKIRLDGRILPITE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T SDPDGR TVFD LP SR ++VGRLD+NT GLLL T Sbjct: 62 SEEAVCRVLAYYKPEGELCTRSDPDGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQ+D +K+ LL +G+ ++ ++ +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQIDDEKIKLLSRGVQLEDGPAAFRTISFQGGEGLN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ K LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLKATNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V LD S + +DR + + R K ++ G + Sbjct: 242 EL----------VELDVETVSKLPVEKDRRRVKAN---QIRRAVKRHTEVAGRQQTAGRQ 288 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRR 337 + + N + SG+R +R Sbjct: 289 GSARKSSTRQNTGNTASSGAPV---SGRRRAPAKR 320 >gi|258404933|ref|YP_003197675.1| pseudouridine synthase [Desulfohalobium retbaense DSM 5692] gi|257797160|gb|ACV68097.1| pseudouridine synthase [Desulfohalobium retbaense DSM 5692] Length = 274 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 85/246 (34%), Positives = 126/246 (51%), Gaps = 11/246 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R++K +A+AG+ SRR+ + IA RV+VNG L+ + V V D + VDG + Sbjct: 28 ESCRLNKFLAQAGVCSRRKADTYIAAGRVQVNGSLVTQLGVQVHPGQDEVRVDGRVVELP 87 Query: 71 ERTR----LWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLL 124 E L HKP+ +VTT DP GR TV D LPS R+ VGRLD +EGLLLL Sbjct: 88 EAQSAGHDYILLHKPVQVVTTAKDPQGRRTVLDLLPSQTFTRRIFPVGRLDFMSEGLLLL 147 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK 183 T+DG LA L P +VY V V ++ + + G+ + +G + V Sbjct: 148 TSDGELANRLTHPRWHVEKVYEVTLREAVTEEHMRQMSSGMRLSEGEQLAPVDVQRRKTA 207 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI--- 240 + + + L +G NR+I+++ + RL RI GP +LG L G R ++ Sbjct: 208 ADTSSLELTLHQGVNRQIRRMCRDLGLTILRLKRIRQGPVRLGKLPQGHWRHLTATEITT 267 Query: 241 LREQLG 246 L+++LG Sbjct: 268 LKKRLG 273 >gi|325295032|ref|YP_004281546.1| pseudouridine synthase Rsu [Desulfurobacterium thermolithotrophum DSM 11699] gi|325065480|gb|ADY73487.1| pseudouridine synthase Rsu [Desulfurobacterium thermolithotrophum DSM 11699] Length = 238 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 78/234 (33%), Positives = 126/234 (53%), Gaps = 6/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++A +G +R +V+R+I + V VNG ++ + NV D + VDG + E+ Sbjct: 1 MRLDKLLADSGFGTRSQVKRLIKKGFVTVNGETIKDPSFNVDPQKDEVLVDGELVEY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G +T+ D TV + + F R+ VGRLD + EGLLL+TNDG L Sbjct: 60 DYYLILHKPQGYITSTKDRQ--MTVMELIADIPRFERLFPVGRLDKDAEGLLLITNDGEL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + +VY V G+++++ L LKKGI ++ +V + + S + Sbjct: 118 AHRLTHPKWKVPKVYFVVVEGKLNEENLEPLKKGIELKDFRAKPAKVRILKAEESESEAE 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EGK ++K++FE V L RI +G +LG L G R ++K+ L+E Sbjct: 178 IEITEGKYHQVKRMFEKIGHPVKYLRRIQFGNLKLGNLPVGEYRFLTKEELKEL 231 >gi|110806162|ref|YP_689682.1| 16S rRNA pseudouridylate synthase A [Shigella flexneri 5 str. 8401] gi|26108971|gb|AAN81174.1|AE016763_133 Ribosomal small subunit pseudouridine synthase A [Escherichia coli CFT073] gi|91073047|gb|ABE07928.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli UTI89] gi|110615710|gb|ABF04377.1| 16S pseudouridylate 516 synthase [Shigella flexneri 5 str. 8401] gi|281601638|gb|ADA74622.1| Ribosomal small subunit pseudouridine synthase A [Shigella flexneri 2002017] Length = 263 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 60/233 (25%), Positives = 103/233 (44%), Gaps = 3/233 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 29 KITHMRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQ 88 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG Sbjct: 89 QHGPRYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQ 148 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + P + Y V V D KG+ + L+ + V Sbjct: 149 WSHRITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEV--ITPTQV 206 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 207 RLTISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 259 >gi|297584469|ref|YP_003700249.1| pseudouridine synthase [Bacillus selenitireducens MLS10] gi|297142926|gb|ADH99683.1| pseudouridine synthase [Bacillus selenitireducens MLS10] Length = 239 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 84/234 (35%), Positives = 131/234 (55%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K+IA+AGI SRR+ E++I + RV VNG ++ TD I VDGVPL+K E Sbjct: 2 ERLQKLIAQAGITSRRKAEKLIEEGRVYVNGNQVKEVGAKADLQTDEISVDGVPLQKEE- 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G++++ D GR TV D +P F RV VGRLD +T GL++LTNDG A Sbjct: 61 PVYYLLYKPSGVISSAGDDKGRKTVIDLVPGEF-RVFPVGRLDFDTSGLIVLTNDGEFAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVT 190 +L P + + Y + G ++ L L +GIV++ + V ++ A V Sbjct: 120 LLMHPKYRIHKTYIAKVKGLPLREDLKKLDRGIVLEDGKTAPAKTKVIKTDKRKGTAVVE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+++++F+ + V +L R YG L L AG RE+ ++ Sbjct: 180 ITIHEGRNRQVRRMFDAIGFPVMKLKRERYGILDLKGLNAGDWRELKPHEVKTL 233 >gi|270291299|ref|ZP_06197521.1| ribosomal large subunit pseudouridine synthase B [Pediococcus acidilactici 7_4] gi|304385048|ref|ZP_07367394.1| ribosomal large subunit pseudouridine synthase B [Pediococcus acidilactici DSM 20284] gi|270280145|gb|EFA25981.1| ribosomal large subunit pseudouridine synthase B [Pediococcus acidilactici 7_4] gi|304329242|gb|EFL96462.1| ribosomal large subunit pseudouridine synthase B [Pediococcus acidilactici DSM 20284] Length = 237 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 79/236 (33%), Positives = 129/236 (54%), Gaps = 3/236 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ KV+A AG+ASRR+ E++IA+ VKVNG +++ V D IEVD VP+++ Sbjct: 1 MAEERLQKVMAEAGVASRRKSEKLIAEGHVKVNGRVVKELGTKVEQHDRIEVDEVPIQR- 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E+ +L +KP G++T+ SD R TV D P + R+ VGRLD +T G +L+TNDG L Sbjct: 60 EQNVYFLLNKPRGVITSVSDDKNRKTVMDFFPDVTERIYPVGRLDYDTSGAVLMTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A L P ++ + Y + G V+ L L++G+VI + L + + + Sbjct: 120 ANRLMHPKFKFEKTYTAKVKGLVNGSALKRLEEGVVIDHRKTAKAKAKLISTDLEKKTSI 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V + + EG+N ++KK+F V +L R SY + + +G R + ++ Sbjct: 180 VQLTIHEGRNHQVKKMFMAVGHPVQKLHRNSYSFLSIDDVQSGKWRALKLSEVKRL 235 >gi|327403362|ref|YP_004344200.1| ribosomal large subunit pseudouridine synthase B [Fluviicola taffensis DSM 16823] gi|327318870|gb|AEA43362.1| ribosomal large subunit pseudouridine synthase B [Fluviicola taffensis DSM 16823] Length = 339 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 74/233 (31%), Positives = 116/233 (49%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N R++K ++ AG+ SRRE + +I V VNG ++ + D I+ DG + Sbjct: 101 NEDAVRLNKYLSNAGVCSRREADVLIQTGVVSVNGEVITEMGYKIKPGDKIQYDGETIN- 159 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDN-LPSIFSRVISVGRLDINTEGLLLLTNDG 128 AE R L +KP G +TT DP GR TV + + R+ VGRLD +T GLLL TNDG Sbjct: 160 AETKRYVLLNKPKGFITTMDDPLGRKTVMGLVIKACKERIYPVGRLDRDTTGLLLFTNDG 219 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 +A+ L P + ++Y V V + L L GI ++ + S+ Sbjct: 220 DMAKKLTHPRYEATKIYHVEVDKPVQSEHLEQLMSGIELEDGTIKADKAEYVKDGKSSRE 279 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V + GKNR ++++FE ++V +L R+ + L G R +++K + Sbjct: 280 VGVEIHSGKNRIVRRMFEKLGYEVVKLDRVQFASLTKKDLPRGYYRHLTEKEV 332 >gi|78213141|ref|YP_381920.1| ribosomal large subunit pseudouridine synthase B [Synechococcus sp. CC9605] gi|78197600|gb|ABB35365.1| Pseudouridine synthase, Rsu [Synechococcus sp. CC9605] Length = 250 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 75/236 (31%), Positives = 112/236 (47%), Gaps = 1/236 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T QR+ K+IA AG+ SRR E + RV V+G + I VDG PL Sbjct: 1 MTRQRLQKLIAAAGLCSRRRAEEWLQAGRVTVDGQVARVGDQADPQQQTIHVDGQPLPSP 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGG 129 R+ L +KP+G++ + DP GR TV D LP + VGRLD ++ G LLLT+ G Sbjct: 61 GMARVLLMNKPVGVICSCDDPQGRRTVLDLLPPEHRAGLHPVGRLDADSHGALLLTDLGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + YRV G + L+ ++G+ + G +V G + + Sbjct: 121 LTLKLTHPRYSHAKTYRVWVQGVPSEPVLDRWRRGVPLDGRLTRPARVRQLRTWGDRSLL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + LREG+NR+I+++ E + V L R + LG L G + + + L Sbjct: 181 EIELREGRNRQIRRMAEALGYPVVDLQRTAIAGLPLGDLAEGCWIWLCEGEWKPLL 236 >gi|325268750|ref|ZP_08135378.1| ribosomal large subunit pseudouridine synthase B [Prevotella multiformis DSM 16608] gi|324988918|gb|EGC20873.1| ribosomal large subunit pseudouridine synthase B [Prevotella multiformis DSM 16608] Length = 509 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 115/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG +++ V+ +D + Sbjct: 261 IEYKEENFDPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVLRSDVV 320 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 P+ E+ L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 321 LFQEKPVSL-EKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDRNTT 379 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P +VY V V + L + GI ++ + Sbjct: 380 GVLLLTNDGDLASKLTHPKFLKKKVYHVFLDKPVTANDLQKISDGIELEDGEIKADAIEY 439 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V + + GKNR ++++FE ++V +L R+ + + G R +++K Sbjct: 440 ADPQ-DQTQVGIEIHSGKNRIVRRIFESLGYRVVKLDRVQFAGLTKKNVRRGDWRFLTEK 498 Query: 240 IL 241 + Sbjct: 499 EV 500 >gi|317051704|ref|YP_004112820.1| pseudouridine synthase [Desulfurispirillum indicum S5] gi|316946788|gb|ADU66264.1| pseudouridine synthase [Desulfurispirillum indicum S5] Length = 251 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 82/227 (36%), Positives = 119/227 (52%), Gaps = 5/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A+AG+ASRR+ E I Q RV VNG ++ D + VDG ++ Sbjct: 3 MRLQKILAQAGVASRRKAEEYIRQGRVMVNGKVVTELGTQADPDEDFVAVDGKRIQIFHN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP G +T+ SD R V D LP+I +I VGRLD +T GLLLLTNDG LA Sbjct: 63 HAYIILHKPTGYITSRSDDKERPVVMDLLPNIREPLIPVGRLDWDTSGLLLLTNDGDLAY 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG----SNAW 188 VL P+ + Y VR + + + + +KGI+++ +V N W Sbjct: 123 VLTHPAFHVAKTYLVRLDKPMTAEHMQVFEKGILLEDGKTKPARVRRVNTGKQTATPNLW 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 V + EG+NR+I+K+FE + V +L R+S G LG + G R Sbjct: 183 YEVTITEGRNRQIRKMFEALKYDVRKLKRVSLGEILLGGVGVGKYRR 229 >gi|238789715|ref|ZP_04633498.1| Ribosomal small subunit pseudouridine synthase A [Yersinia frederiksenii ATCC 33641] gi|238722268|gb|EEQ13925.1| Ribosomal small subunit pseudouridine synthase A [Yersinia frederiksenii ATCC 33641] Length = 235 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 56/237 (23%), Positives = 109/237 (45%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQTVGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + +D G+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLEHPLAEDTAQQFADGVQLHNEQSLTKPAQLEVIEP--QVVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G +L L G R ++ + + PHL Sbjct: 179 SEGRYHQVKRMFAAVGNRVLELHRERIGEIKLDDDLAPGEYRPLTAEEIASVGAPHL 235 >gi|299141527|ref|ZP_07034663.1| ribosomal large subunit pseudouridine synthase B [Prevotella oris C735] gi|298576863|gb|EFI48733.1| ribosomal large subunit pseudouridine synthase B [Prevotella oris C735] Length = 490 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 75/244 (30%), Positives = 118/244 (48%), Gaps = 5/244 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I+ V VNG ++ V+ +D + Sbjct: 242 IEYKETHIDPNEPIRLNKYLANAGVCSRREADEFISAGVVSVNGTVVTELGTKVLRSDEV 301 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + + E+ L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 302 KFHDQLVSL-EKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDVCPERIYPVGRLDRNTT 360 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVT 178 G+LLLTNDG LA L P +VY V V ++ L + GI + G + D Sbjct: 361 GVLLLTNDGDLASKLTHPKFLKKKVYHVHLDKNVAEEDLQKIASGIELEDGEIHADAIEY 420 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 D + V + + GKNR ++++FE ++V RL R+ + L G R +++ Sbjct: 421 ADDRDKK--QVGIEIHSGKNRIVRRIFESLGYRVVRLDRVQFAGLTKKNLRRGDWRFLTE 478 Query: 239 KILR 242 + + Sbjct: 479 QEVE 482 >gi|254975638|ref|ZP_05272110.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile QCD-66c26] gi|255093025|ref|ZP_05322503.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile CIP 107932] gi|255314767|ref|ZP_05356350.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile QCD-76w55] gi|255517442|ref|ZP_05385118.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile QCD-97b34] gi|255650552|ref|ZP_05397454.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile QCD-37x79] gi|260683650|ref|YP_003214935.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile CD196] gi|260687310|ref|YP_003218444.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile R20291] gi|306520500|ref|ZP_07406847.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile QCD-32g58] gi|260209813|emb|CBA63664.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile CD196] gi|260213327|emb|CBE04906.1| putative 23S RNA and tRNA pseudouridine synthase [Clostridium difficile R20291] Length = 238 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 72/232 (31%), Positives = 120/232 (51%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R++K IA GIASRR+ E +I R+KVNG +++ + N+ D +E D ++ +E Sbjct: 1 MRINKYIASCGIASRRKSEEIILGGRIKVNGSVVKELSFNIDEEKDIVEFDNKKVKPSEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +TT D R +V D L + RV +GRLD T GLL+LTNDG L Sbjct: 61 YIYIVLNKPEGYITTVKDQFNRPSVIDILKDVRERVYPIGRLDYETSGLLILTNDGDLTY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVT 190 L P + + Y G + D++ + G+ I+ + VT + ++ + + Sbjct: 121 KLTHPKHEIDKTYVASVKGIISDDEIRQFETGLKIEDYTTAPAKIRVTKENKEKNYSVCE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EG+NR+++K+ + N V L RIS G L G R +++ ++ Sbjct: 181 ITIHEGRNRQVRKMCKAINHPVLNLRRISVGKIVLKDTKVGEYRYLTEDEIK 232 >gi|206601589|gb|EDZ38072.1| Pseudouridine synthase, Rsu [Leptospirillum sp. Group II '5-way CG'] Length = 583 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 99/343 (28%), Positives = 160/343 (46%), Gaps = 12/343 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPL 67 + R+ K++A G+ASRR E MI VKVNGI++ V TD + VDG + Sbjct: 13 DEDGLIRLQKLLAHRGLASRRNAEEMIRGGLVKVNGIVVTVPGTKVHPETDRVTVDGKNV 72 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L+L++KP G+V+T DPDG++T+ D P I + VGRLDI +EG+LLLTN+ Sbjct: 73 PVEPEPFLFLFYKPKGVVSTLHDPDGKTTLKDFFPRINPLIH-VGRLDIQSEGVLLLTNN 131 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSN 186 G LA+ + P + R Y V+ G V + L+ L+ G + + G +++ + +N Sbjct: 132 GDLAQRILHPRYEIPRTYLVKVQGVVTPEHLDRLRSGKVRLDGRPVQPLELEQERLTETN 191 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +W + L EG+NRE++++F+ ++ V +L RI++G L L G R V+ + + Sbjct: 192 SWYRITLTEGRNREVRRLFDALHYFVLKLTRIAFGNLDLTGLEPGEYRLVTPEEI----- 246 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 LL A+ I E R + PD R ++ + + Sbjct: 247 DLLLSGARWKRKEAIPPPERSPRKPNFAAASSPDFRRRSVRSRPTFPDRAFSGPVDGNQE 306 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREEN----HRRSPSFPSKR 345 + S G R ++ H R P K+ Sbjct: 307 EDHFPRQARQGYSSRPDTRSRGGTRSDSEMFFHDRPPHRSDKK 349 >gi|302345864|ref|YP_003814217.1| pseudouridylate synthase [Prevotella melaninogenica ATCC 25845] gi|302150213|gb|ADK96475.1| pseudouridylate synthase [Prevotella melaninogenica ATCC 25845] Length = 514 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 114/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG +++ VM TD + Sbjct: 266 IEYKEENYDPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVMRTDEV 325 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + E+ L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 326 YFQDKLVSL-EKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDRNTT 384 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P +VY V + + L + GI ++ + Sbjct: 385 GVLLLTNDGDLASKLTHPKFLKKKVYHVFLDKAITANDLQKISDGIELEDGEIKADAIEY 444 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V + + GKNR ++++FE ++V +L R+ + + G R +++K Sbjct: 445 ADPQ-DQTQVGIEIHSGKNRIVRRIFESLGYRVVKLDRVQFAGLTKKNVRRGDWRFLTEK 503 Query: 240 IL 241 + Sbjct: 504 EV 505 >gi|323695091|ref|ZP_08109233.1| pseudouridine synthase [Clostridium symbiosum WAL-14673] gi|323500846|gb|EGB16766.1| pseudouridine synthase [Clostridium symbiosum WAL-14673] Length = 241 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 68/240 (28%), Positives = 114/240 (47%), Gaps = 6/240 (2%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 N + R++K ++ AGI SRRE +R+I +V V+G + V ++ I V+G Sbjct: 2 NDNAKTDNGIRLNKYLSEAGICSRREADRLIEDGKVTVDGRTA-SMGMKVFTSQEITVNG 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + ER L +KP G+V T SD D + + L R+ VGRLD ++EGLLL+ Sbjct: 61 KRVEGKERPVLLAVNKPRGIVCTTSDKDRAENIVEFL-KYPVRIYPVGRLDKDSEGLLLM 119 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TN G L + + Y V V + + ++ G+ I G + + ++ Sbjct: 120 TNQGDLVNRILRGRYGHEKEYLVTVDRPVTEAFIRQMRNGVEILGTRTKPCEAEITGKRS 179 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 ++ L +G NR+I+++ E ++V L R+ +LG L G RE++ E Sbjct: 180 ----FSIILTQGLNRQIRRMCEALGYQVKTLKRVRIMNVKLGNLKTGQYRELTPAEWEEL 235 >gi|262404561|ref|ZP_06081116.1| ribosomal large subunit pseudouridine synthase F [Vibrio sp. RC586] gi|262349593|gb|EEY98731.1| ribosomal large subunit pseudouridine synthase F [Vibrio sp. RC586] Length = 332 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 82/341 (24%), Positives = 147/341 (43%), Gaps = 20/341 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG V D + +DG PLR ER Sbjct: 8 RLNKFISETGFCSRREADKLIEQGRVTLNGAQP-EVGSKVTEQDEVCIDGKPLRSKERPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T ++ D + + D + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCT-TERDVQGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + + + G+ I +VT +TQ + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYS----FRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R +S+ + E L + E++ Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVNEILA--MCEDSS 238 Query: 255 VNLDAPIYS----SETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 +A + S D S + ++ ++N +G + Q+ P ++ Sbjct: 239 GTEEASRVAQSGDSIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNSKKAQ 298 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 SS + S + R +P SLR++ Sbjct: 299 RRP-------TSSSSNSSTASKPTPRPTPRTGGTLSLRKSK 332 >gi|187933805|ref|YP_001885871.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum B str. Eklund 17B] gi|187721958|gb|ACD23179.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum B str. Eklund 17B] Length = 236 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 75/229 (32%), Positives = 119/229 (51%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I VKVNG+++ V D +E G + K E Sbjct: 3 ERLQKYMASCGVASRRKCEEIILNGEVKVNGVVITELGTRVNPVEDKVEYKGSLITKEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ D GR TV D + + R+ +GRLD ++ GL+LLTNDG + Sbjct: 63 KVYIILNKPEGYITSAKDEKGRKTVLDLV-KVNERIYPIGRLDYDSSGLILLTNDGDVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y G+V + +++ KGI I G + + + + V V Sbjct: 122 KIIHPREELNKKYIAVVKGKVSKKDIDIFNKGIDIGGYITAPASLEVLSYANEKSTVEVC 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGKNR+I+K+ N +V L R+S G QL L G RE++ + L Sbjct: 182 IHEGKNRQIRKMCTAINHEVLSLNRVSIGEIQLKYLKKGEWRELTTEEL 230 >gi|259503200|ref|ZP_05746102.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus antri DSM 16041] gi|259168857|gb|EEW53352.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus antri DSM 16041] Length = 238 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 82/235 (34%), Positives = 122/235 (51%), Gaps = 5/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +A AG+ASRR E++IA V+VNG + V + D IEVDGVPL + E+ Sbjct: 2 ERLQKAMAEAGVASRRASEKLIATGHVQVNGQTVTTLGTKVAARDRIEVDGVPLHR-EKH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G++++ D GR TV D L I R+ VGRLD +T GLLLLTNDG LA Sbjct: 61 VYYLLNKPRGVISSAHDEKGRRTVVDILREDEIEERIYPVGRLDYDTTGLLLLTNDGALA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWV 189 L P + Y + G V D L L+ G+ + G + L ++ + V Sbjct: 121 NKLMHPKFAVDKTYVAKVKGLVSNDDLKRLRTGVKVDGRRTQPAKARLKATDREKRTSIV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG ++K++ V +L R SYG L + G RE+ + ++ Sbjct: 181 QLTIHEGHYHQVKRMLAAVGHPVIKLHRESYGFLTLQGVQPGDYRELRPEEVKRL 235 >gi|37523966|ref|NP_927343.1| hypothetical protein glr4397 [Gloeobacter violaceus PCC 7421] gi|35214972|dbj|BAC92338.1| glr4397 [Gloeobacter violaceus PCC 7421] Length = 248 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 84/238 (35%), Positives = 121/238 (50%), Gaps = 4/238 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ K++A GIASRR+ E +I +V VNG +++R V D IEV G PL Sbjct: 3 AAIRLQKLLAEHGIASRRKAEALIVSGQVCVNGTVVDRLGTRVDPQIDLIEVFGQPLHCM 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTND 127 L HKP+G ++T DP GR TV D LP+ + + VGRLD ++ G L+++ND Sbjct: 63 PPLLYVLLHKPVGWLSTCFDPRGRRTVLDLLPAEWRTGQGLHPVGRLDCDSSGALIVSND 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L P Q + YRV G+ L + G+V++G VT+ ++ Sbjct: 123 GEFTFRLTHPRHQLPKTYRVWVRGRPTAAVLGRWRAGVVLEGQKTLPAAVTVVSRAAEAT 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + V L EG+NR+I+KV E V RL R + GP L L G+ R +S + L Sbjct: 183 ELEVVLVEGRNRQIRKVAELLGHPVERLHRTAIGPVALAGLPPGAHRLLSASQIERLL 240 >gi|298293868|ref|YP_003695807.1| RNA-binding S4 domain protein [Starkeya novella DSM 506] gi|296930379|gb|ADH91188.1| RNA-binding S4 domain protein [Starkeya novella DSM 506] Length = 764 Score = 276 bits (706), Expect = 5e-72, Method: Composition-based stats. Identities = 140/303 (46%), Positives = 192/303 (63%), Gaps = 2/303 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +RV+KVIARAG+ SRRE+E I RV VNG +LE A V D I VDG PL E Sbjct: 28 EAERVAKVIARAGLGSRREIEEWILAGRVAVNGEVLESPARTVTPEDAITVDGNPLPAKE 87 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RTRL++YHKP G+VTT+ DP+GR T+F+ LP+ R++SVGRLD+NTEGL+LLTNDGGL+ Sbjct: 88 RTRLFMYHKPKGVVTTNYDPEGRPTLFEILPAGLPRLVSVGRLDLNTEGLILLTNDGGLS 147 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 RVLELP T WLR YRVR G + QDKL+ L +G+ + G+ YG ++ LD +G+N+W+T+ Sbjct: 148 RVLELPETGWLRRYRVRAKGDITQDKLDALMEGVTVDGVHYGPIEAKLDRVQGANSWLTL 207 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 LREGKNRE++ V +VNRLIR+SYGPFQLG + G EV ++L +QLG L Sbjct: 208 ALREGKNREVRNVLGSLGLEVNRLIRVSYGPFQLGEIPQGEVEEVRTRVLADQLGEALSA 267 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 A + + P+++ + P R ++ ++ P R++ Sbjct: 268 AAGADFEGPLFN-HNDEDEAPKAGKPRG-AKARYAAAEGAEDRHRRRPIDVEPGEGRSVT 325 Query: 312 SNV 314 + V Sbjct: 326 AGV 328 >gi|229815391|ref|ZP_04445726.1| hypothetical protein COLINT_02438 [Collinsella intestinalis DSM 13280] gi|229809171|gb|EEP44938.1| hypothetical protein COLINT_02438 [Collinsella intestinalis DSM 13280] Length = 272 Score = 276 bits (706), Expect = 5e-72, Method: Composition-based stats. Identities = 76/242 (31%), Positives = 117/242 (48%), Gaps = 13/242 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 P R+ + +ARAG+ASRR E ++ RV+VNG + V D + VDG P+ Sbjct: 20 PMRLQRFLARAGVASRRGSEGLMTAGRVRVNGEVKTELGTKVDPRCDEVTVDGAPVVLGS 79 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G +TT SDP GR TV + +P F + VGRLD++T GLLL T DG L Sbjct: 80 GPAYIMLNKPAGFLTTMSDPHGRPTVAELVPSKKFPGLFPVGRLDMDTTGLLLFTTDGDL 139 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN---- 186 + L PS + YR G+ L L++G+ + + + ++ Sbjct: 140 GQRLLHPSHHVWKTYRAIVDGRCLDGDLEPLRRGLTLDDGPCQPARCRVLEPADAHIPGF 199 Query: 187 -------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V V +REG+ ++K++ V L R +G +LG L GS RE++ + Sbjct: 200 PRLVTGATAVEVIIREGRKNQVKRMLSKIGHPVIALHRCRFGELRLGDLAEGSWRELTDE 259 Query: 240 IL 241 + Sbjct: 260 EV 261 >gi|332637861|ref|ZP_08416724.1| ribosomal large subunit pseudouridine synthase B [Weissella cibaria KACC 11862] Length = 255 Score = 276 bits (706), Expect = 5e-72, Method: Composition-based stats. Identities = 81/241 (33%), Positives = 124/241 (51%), Gaps = 11/241 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A+AG+ASRR E++I +V VNG + V +D IEV G P+ E+ Sbjct: 3 ERLQKVMAQAGVASRRASEQLILDGKVTVNGKTVRELGTKVEPSDKIEVSGEPIDSREKL 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G+VTT +D GR TV D + RV VGRLD +T G+LLLTNDG LA Sbjct: 63 VYFLLNKPRGVVTTTNDDKGRQTVMDIVDEP-ERVYPVGRLDYDTTGVLLLTNDGELANR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ----------GICYGDMQVTLDTQK 183 L PS + +VY + G ++L L+ G+ ++ ++T K Sbjct: 122 LMHPSYRIDKVYVAKVKGIPTNEQLEQLRHGVTVRTKQNGRYTTFKAAPARAEITSTNTK 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 A V + + EGK ++K++ + +V +L R YG L L G R + + ++ Sbjct: 182 NHTAIVKLTIHEGKYHQVKEMMKAVGHEVLKLTRERYGMLDLAGLTPGEYRPLRYEEVQA 241 Query: 244 Q 244 Sbjct: 242 L 242 >gi|238794236|ref|ZP_04637850.1| Ribosomal small subunit pseudouridine synthase A [Yersinia intermedia ATCC 29909] gi|238726418|gb|EEQ17958.1| Ribosomal small subunit pseudouridine synthase A [Yersinia intermedia ATCC 29909] Length = 235 Score = 276 bits (706), Expect = 5e-72, Method: Composition-based stats. Identities = 57/237 (24%), Positives = 109/237 (45%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQTVGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D +G+ + L+ + V + L Sbjct: 121 ITSPRHHCEKTYLVTLEHPLADDTAQQFTEGVQLHNEKSLTKPAQLEVIEP--QLVRLTL 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G +L L G R ++ + + PHL Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGDIKLDDDLAPGEYRPLTAEEIASVGAPHL 235 >gi|284032996|ref|YP_003382927.1| pseudouridine synthase [Kribbella flavida DSM 17836] gi|283812289|gb|ADB34128.1| pseudouridine synthase [Kribbella flavida DSM 17836] Length = 244 Score = 276 bits (706), Expect = 5e-72, Method: Composition-based stats. Identities = 79/237 (33%), Positives = 117/237 (49%), Gaps = 1/237 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 R+ K +A+AG+ASRR E +I Q RV+V+G ++ V I VDG + Sbjct: 3 EEDGIRLQKALAQAGVASRRNAELLIEQGRVEVDGAVVTEFGTRVDPAVSVIRVDGERIP 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + +KP G+VTT SDP GR + D + R+ +GRLD +TEGLLLLTN G Sbjct: 63 PVTAHVYLVLNKPRGVVTTMSDPQGRPCIADYVQERPERLFHIGRLDTDTEGLLLLTNHG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 A L PS + + Y G V L L G+ ++ V + ++ Sbjct: 123 EFAHRLAHPSYEVSKTYVAEVDGNVKPIVLRRLLDGVELEDGFAQADTVKVMSEIKGRTL 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + + L EG+NR ++++F+ V RL R + GP + G L G RE+ K L + L Sbjct: 183 IQITLHEGRNRIVRRMFDAVGHPVKRLTRTAIGPVRRGNLHTGELRELDPKELGQLL 239 >gi|22126794|ref|NP_670217.1| 16S rRNA pseudouridylate synthase A [Yersinia pestis KIM 10] gi|45441149|ref|NP_992688.1| 16S rRNA pseudouridylate synthase A [Yersinia pestis biovar Microtus str. 91001] gi|108806980|ref|YP_650896.1| 16S rRNA pseudouridylate synthase A [Yersinia pestis Antiqua] gi|108812871|ref|YP_648638.1| 16S rRNA pseudouridylate synthase A [Yersinia pestis Nepal516] gi|145599700|ref|YP_001163776.1| 16S rRNA pseudouridylate synthase A [Yersinia pestis Pestoides F] gi|149366750|ref|ZP_01888784.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis CA88-4125] gi|162418753|ref|YP_001606002.1| 16S rRNA pseudouridylate synthase A [Yersinia pestis Angola] gi|165924511|ref|ZP_02220343.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Orientalis str. F1991016] gi|165936140|ref|ZP_02224709.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Orientalis str. IP275] gi|166009884|ref|ZP_02230782.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Antiqua str. E1979001] gi|166211428|ref|ZP_02237463.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Antiqua str. B42003004] gi|167400432|ref|ZP_02305945.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167419607|ref|ZP_02311360.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167424159|ref|ZP_02315912.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Mediaevalis str. K1973002] gi|218928420|ref|YP_002346295.1| 16S rRNA pseudouridylate synthase A [Yersinia pestis CO92] gi|229841215|ref|ZP_04461374.1| 16S rRNA pseudouridylate 516 synthase [Yersinia pestis biovar Orientalis str. PEXU2] gi|229843320|ref|ZP_04463466.1| 16S rRNA pseudouridylate 516 synthase [Yersinia pestis biovar Orientalis str. India 195] gi|229903299|ref|ZP_04518412.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Nepal516] gi|270487103|ref|ZP_06204177.1| pseudouridylate synthase [Yersinia pestis KIM D27] gi|294503270|ref|YP_003567332.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Z176003] gi|34098649|sp|Q8ZGM2|RSUA_YERPE RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|21959821|gb|AAM86468.1|AE013894_3 16S pseudouridylate 516 synthase [Yersinia pestis KIM 10] gi|45436008|gb|AAS61565.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Microtus str. 91001] gi|108776519|gb|ABG19038.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Nepal516] gi|108778893|gb|ABG12951.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Antiqua] gi|115347031|emb|CAL19923.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis CO92] gi|145211396|gb|ABP40803.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Pestoides F] gi|149291124|gb|EDM41199.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis CA88-4125] gi|162351568|gb|ABX85516.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Angola] gi|165915754|gb|EDR34362.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Orientalis str. IP275] gi|165923571|gb|EDR40703.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Orientalis str. F1991016] gi|165991280|gb|EDR43581.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Antiqua str. E1979001] gi|166207199|gb|EDR51679.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Antiqua str. B42003004] gi|166962348|gb|EDR58369.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167050381|gb|EDR61789.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167057008|gb|EDR66771.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis biovar Mediaevalis str. K1973002] gi|229679069|gb|EEO75172.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Nepal516] gi|229689667|gb|EEO81728.1| 16S rRNA pseudouridylate 516 synthase [Yersinia pestis biovar Orientalis str. India 195] gi|229697581|gb|EEO87628.1| 16S rRNA pseudouridylate 516 synthase [Yersinia pestis biovar Orientalis str. PEXU2] gi|262361308|gb|ACY58029.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis D106004] gi|262365154|gb|ACY61711.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis D182038] gi|270335607|gb|EFA46384.1| pseudouridylate synthase [Yersinia pestis KIM D27] gi|294353729|gb|ADE64070.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Z176003] gi|320015889|gb|ADV99460.1| Ribosomal small subunit pseudouridine synthaseA [Yersinia pestis biovar Medievalis str. Harbin 35] Length = 235 Score = 276 bits (706), Expect = 5e-72, Method: Composition-based stats. Identities = 57/237 (24%), Positives = 107/237 (45%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQMVGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + LD + V + + Sbjct: 121 VTSPRHHCEKTYLVTLEHPLSDDTAQQFADGVQLYNEKSLTKPAQLDVIEP--QRVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G L L G R ++ + + PHL Sbjct: 179 SEGRYHQVKRMFAAVGNRVIELHRERIGDITLDDDLAPGEYRPLTTEEIASVGAPHL 235 >gi|217967848|ref|YP_002353354.1| pseudouridine synthase [Dictyoglomus turgidum DSM 6724] gi|217336947|gb|ACK42740.1| pseudouridine synthase [Dictyoglomus turgidum DSM 6724] Length = 241 Score = 276 bits (706), Expect = 5e-72, Method: Composition-based stats. Identities = 74/233 (31%), Positives = 129/233 (55%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K I+R+G+ SRR+ E +I + RVKVNG ++ V + D +EVD ++ E+ Sbjct: 3 ERLQKFISRSGVTSRRKAEELILEGRVKVNGKVIRTLGVKIDPEKDVVEVDNKIIK-PEK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLA 131 +KP+G +++ DP GR T+ D L SRV VGRLD ++EGLLL TNDG +A Sbjct: 62 KLYIALYKPVGYLSSLYDPFGRRTIKDLLKDKLSSRVYPVGRLDFDSEGLLLCTNDGEIA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWV 189 + P + ++Y V +G +++L ++G++++ +V K + + Sbjct: 122 NFVIHPRYKIPKIYEVLVNGIPKEEELKKFREGVILEEGKTLPAEFEVVWKNSKTKRSLL 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V L +G R+I+++ F ++V +L RI G +LG L G R ++ + ++ Sbjct: 182 KVVLYQGWKRQIRRMLALFGYEVLKLKRIQIGEIRLGNLKPGEFRFLNDEEIK 234 >gi|332162312|ref|YP_004298889.1| 16S rRNA pseudouridylate synthase A [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|325666542|gb|ADZ43186.1| 16S rRNA pseudouridylate synthase A [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|330859689|emb|CBX70026.1| ribosomal small subunit pseudouridine synthase A [Yersinia enterocolitica W22703] Length = 235 Score = 275 bits (705), Expect = 5e-72, Method: Composition-based stats. Identities = 56/237 (23%), Positives = 108/237 (45%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQTVGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLEQPIADDTAQQFTDGVQLHNEKSLTKPAQLEVIEP--QLVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G +L L G R ++ + + PHL Sbjct: 179 SEGRYHQVKRMFAAVGNRVLELHRERIGDIKLDDDLAPGEYRPLTPEEIASVGAPHL 235 >gi|157144864|ref|YP_001452183.1| 16S rRNA pseudouridylate synthase A [Citrobacter koseri ATCC BAA-895] gi|157082069|gb|ABV11747.1| hypothetical protein CKO_00593 [Citrobacter koseri ATCC BAA-895] Length = 245 Score = 275 bits (705), Expect = 5e-72, Method: Composition-based stats. Identities = 62/242 (25%), Positives = 107/242 (44%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M D I+ R+ K IA+ SR R I RV V+G ++ AA ++ ++ Sbjct: 1 MPDFRIITGKIKLMRLDKFIAQQLGVSRAIAGREIRSNRVTVDGEIIRNAAFKLLPEHNV 60 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 E DG L + R ++ +KP G V + DPD + ++ + ++ + GRLDI+T G Sbjct: 61 EYDGNTLVQQNGPRYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTG 120 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+L+T+DG + + P + Y V V D KG+ + L+ Sbjct: 121 LVLMTDDGQWSHRITSPRHHCEKTYLVTLESPVAADTAEQFAKGVQLHNEKDLTKPAVLE 180 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 + V + + EG+ ++K++F V L R G L L G R ++++ Sbjct: 181 V--ITPTQVRLTISEGRYHQVKRMFAAVGNHVVELHRERIGAIVLDDDLEPGEYRPLTEE 238 Query: 240 IL 241 + Sbjct: 239 EI 240 >gi|218264461|ref|ZP_03478294.1| hypothetical protein PRABACTJOHN_03990 [Parabacteroides johnsonii DSM 18315] gi|218221954|gb|EEC94604.1| hypothetical protein PRABACTJOHN_03990 [Parabacteroides johnsonii DSM 18315] Length = 249 Score = 275 bits (705), Expect = 5e-72, Method: Composition-based stats. Identities = 66/245 (26%), Positives = 118/245 (48%), Gaps = 3/245 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 MK K ++ + P R++K ++ AG+ SRRE + I V+VN ++ + D + Sbjct: 1 MKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQAGVVQVNDQVVTELGTKITRQDKV 60 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 ++ E + +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 61 LFKDQQVQ-IESKVYIVLNKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTT 119 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L PS + ++Y V V + + + G+ ++ ++ Sbjct: 120 GVLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVSIEDMEKIANGLELEDGEIHADAISY 179 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ + V + + G+NR ++++FE + V +L R+ + L G R ++++ Sbjct: 180 ASED-DKSQVGIEIHSGRNRIVRRIFESLGYHVVKLDRVYFAGLTKKNLGRGKWRYLNER 238 Query: 240 ILREQ 244 + Sbjct: 239 EVNAL 243 >gi|254509192|ref|ZP_05121290.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus 16] gi|219547897|gb|EED24924.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus 16] Length = 345 Score = 275 bits (705), Expect = 5e-72, Method: Composition-based stats. Identities = 82/351 (23%), Positives = 147/351 (41%), Gaps = 16/351 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + Q+N R++K I+ G SRRE +R+I Q RV +NG + VM D + VD Sbjct: 1 MSQDNAK--RLNKFISETGFCSRREADRLIEQGRVTINGQVP-EMGTKVMPGDDVRVDDK 57 Query: 66 PLRK-AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P+ ++ +KP G+ T ++ D + D + R+ +GRLD ++GL+ L Sbjct: 58 PINAVTDKPVYIALNKPTGITCT-TERDIPGNIVDFV-GHKKRIFPIGRLDKPSDGLIFL 115 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG + + + Y VR + D + + G+ I +VT +T+ Sbjct: 116 TNDGDIVNKILRAGNNHEKEYVVRVDKPISDDFIKKMSSGVNILDTITLPCKVTKETKFS 175 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+++ E ++V +L R+ L + G R ++ + E Sbjct: 176 ----FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGQWRYLTDAEVAEI 231 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ-KKLAT 303 L + E N + R R +++ D + +++++N + K Sbjct: 232 LA---MCEGSSNTEEASKIDAKGKRIRKATDAKLFDSREENQDSTARRNQKQRTFKGRNA 288 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R S G S F G + P+ S+ S R + K+ Sbjct: 289 DEFRHAPNSKKGRHSGKQSEFKGKPGGNKGKTFHKPA--SENSQRPSKPKR 337 >gi|303232224|ref|ZP_07318923.1| pseudouridylate synthase [Atopobium vaginae PB189-T1-4] gi|302481634|gb|EFL44695.1| pseudouridylate synthase [Atopobium vaginae PB189-T1-4] Length = 375 Score = 275 bits (705), Expect = 5e-72, Method: Composition-based stats. Identities = 77/303 (25%), Positives = 130/303 (42%), Gaps = 27/303 (8%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVD 63 N+ FT R+ + +AR G+ASRR E++I+ RV VNG++ + V + D + VD Sbjct: 71 NLPSSTFT-MRLQRYLARCGVASRRGAEKLISAGRVTVNGVVQDVLGSKVDCAHDVVCVD 129 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLL 122 G P + + +KP G++TT SDP G V +P + + +VGRLD +T GLL Sbjct: 130 GTPCVLGDEHTYLILNKPQGVLTTMSDPFGHPCVAALVPKDTYPGLFAVGRLDGDTTGLL 189 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L + DG + L PS + Y G + + L+ GI++ +T Sbjct: 190 LFSTDGNMGNRLLHPSHHVWKTYVCLLQGSLTRAAQKQLEAGIMLDDGPCAPSHITRLAP 249 Query: 183 KGSNAWV-------------------TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 + + ++ +REG+ ++K++F+ V RL R +GP Sbjct: 250 TDALCTLAPQCHILDGIPSARGYTICSISIREGRYHQVKRMFDAVGCPVVRLHRAQFGPL 309 Query: 224 QLGT-LLAGSTREVSKKILREQL----GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEV 278 LG L G+ R + + + + AQ N+ ++S + Sbjct: 310 SLGDALPFGAWRMCTPAEVDALMRTVSSSDGIANAQTNVQTKAHTSALRYTQHGATPNVH 369 Query: 279 PDD 281 D Sbjct: 370 NDK 372 >gi|325274077|ref|ZP_08140221.1| RNA-binding S4 domain-containing protein [Pseudomonas sp. TJI-51] gi|324100788|gb|EGB98490.1| RNA-binding S4 domain-containing protein [Pseudomonas sp. TJI-51] Length = 355 Score = 275 bits (705), Expect = 5e-72, Method: Composition-based stats. Identities = 108/357 (30%), Positives = 170/357 (47%), Gaps = 18/357 (5%) Query: 1 MKDKNIVQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M ++++ TP +++ KV+AR G+ SRR+VE I+Q R+KVNG + V Sbjct: 1 MSEQDLQDTAITPPSGEKLQKVLARIGVGSRRDVEAWISQGRIKVNG-VAATLGQRVDLH 59 Query: 58 DHIEVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAIAVDGKLIKREEAAEATRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLDINT GLLL T DG LA L PS + R Y VR G+VD + + LK G++++ Sbjct: 120 RLDINTTGLLLFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVMLEDGPA 179 Query: 173 GDMQV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLA 230 + +G N W + EG+NRE+++++E V+RL R+ +GP L L Sbjct: 180 KFTDIQKAPGGEGFNHWYHCVVMEGRNREVRRLWESQGMVVSRLKRVRFGPVFLNSDLPM 239 Query: 231 GSTREVSK---KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 G RE+S+ IL ++G + +NL A + + R + + Sbjct: 240 GRWREMSQGEIDILAAEVGLQPVALPALNLKA----KDKMERLQRKSSRPLGRGERVRNL 295 Query: 288 NSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 + + + ++ P N A S + + E + + K Sbjct: 296 RPAHEGAAAGERPARQPREEAPRKGNRGSAVAERPSEMRKRPAKPEGDKPAGRGRGK 352 >gi|288803207|ref|ZP_06408641.1| ribosomal large subunit pseudouridine synthase B [Prevotella melaninogenica D18] gi|288334248|gb|EFC72689.1| ribosomal large subunit pseudouridine synthase B [Prevotella melaninogenica D18] Length = 514 Score = 275 bits (705), Expect = 6e-72, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 114/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG +++ V+ TD + Sbjct: 266 IEYKEENFDPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVLRTDEV 325 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + E+ L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 326 YFQDKLVSL-EKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDRNTT 384 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P +VY V V + L + GI ++ + Sbjct: 385 GVLLLTNDGDLASKLTHPKFLKKKVYHVFLDKAVTANDLQKISDGIELEDGEIKADAIEY 444 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V + + GKNR ++++FE ++V +L R+ + + G R +++K Sbjct: 445 ADPQ-DQTQVGIEIHSGKNRIVRRIFESLGYRVVKLDRVQFAGLTKKNVRRGDWRFLTEK 503 Query: 240 IL 241 + Sbjct: 504 EV 505 >gi|237708147|ref|ZP_04538628.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 9_1_42FAA] gi|229457700|gb|EEO63421.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 9_1_42FAA] Length = 485 Score = 275 bits (705), Expect = 6e-72, Method: Composition-based stats. Identities = 74/242 (30%), Positives = 120/242 (49%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K+I+ + P R++K +A AGI SRRE + I V VNG ++ + TD + Sbjct: 237 IEYKDILTDPNEPIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEV 296 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 297 KFHDEPVS-IERKTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTT 355 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V V + L+ + G+ + ++ Sbjct: 356 GVLLLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISY 415 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 416 ASET-DKSQVGIEIHSGKNRIVRRIFESLGYKVIKLDRVYFAGLTKKGLRRGDWRYLTEQ 474 Query: 240 IL 241 + Sbjct: 475 EV 476 >gi|172039420|ref|YP_001805921.1| pseudouridine synthase [Cyanothece sp. ATCC 51142] gi|171700874|gb|ACB53855.1| pseudouridine synthase [Cyanothece sp. ATCC 51142] Length = 259 Score = 275 bits (705), Expect = 6e-72, Method: Composition-based stats. Identities = 82/239 (34%), Positives = 129/239 (53%), Gaps = 10/239 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QRV K++++ G+ASRR E MI RV++NG ++ + D +EVDG ++ +R Sbjct: 3 QRVQKILSQWGVASRRHAEDMIVAGRVRLNGEIVTLGDKADPNCDRLEVDGKLIQPNQRP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 + L +KPIG+V T +DP RS V D LP FS+ + VGRLD N+ G LLLTNDG Sbjct: 63 QLLYILMNKPIGVVCTCNDPQNRSIVLDFLPKAFSQGTGIHPVGRLDFNSSGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y V G +++L ++G+++ G QV + + + Sbjct: 123 ELTLRLTHPRYHLPKTYEVWVQGYPTEERLQQWREGVMLMGKKTLPAQVEVIRRSRQHTC 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSKKILR 242 + V L EG+NR+I+++ + + V RL R + GP L +L +G R ++ +R Sbjct: 183 LKVVLTEGRNRQIRRIVQHLGFHVLRLHRTAIGPLVLSSPNESSLPSGQHRLLTPSEIR 241 >gi|123441748|ref|YP_001005732.1| 16S rRNA pseudouridylate synthase A [Yersinia enterocolitica subsp. enterocolitica 8081] gi|122088709|emb|CAL11514.1| ribosomal small subunit pseudouridine synthase A [Yersinia enterocolitica subsp. enterocolitica 8081] Length = 235 Score = 275 bits (705), Expect = 6e-72, Method: Composition-based stats. Identities = 56/237 (23%), Positives = 108/237 (45%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQTVGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLEQPIADDTAQQFTDGVQLHNEKSLTKPAQLEVIEP--QLVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G +L L G R ++ + + PHL Sbjct: 179 SEGRYHQVKRMFAAVGNRVLELHRERIGAIKLDDDLAPGEYRPLTPEEIASVGAPHL 235 >gi|313895603|ref|ZP_07829159.1| pseudouridine synthase B, ribosomal large subunit [Selenomonas sp. oral taxon 137 str. F0430] gi|312975729|gb|EFR41188.1| pseudouridine synthase B, ribosomal large subunit [Selenomonas sp. oral taxon 137 str. F0430] Length = 243 Score = 275 bits (705), Expect = 6e-72, Method: Composition-based stats. Identities = 81/232 (34%), Positives = 129/232 (55%), Gaps = 1/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN-VMSTDHIEVDGVPLRKAER 72 +R+ K++A AGIASRR E MI RV V+G+ + + I VDG+P++K Sbjct: 3 ERLQKILANAGIASRRSAEEMIRAGRVTVDGVCVTGLGRKYDAALHEIAVDGIPVQKETE 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G ++T D GR TV D LP +R+ VGRLD +TEGLLL+TNDG + + Sbjct: 63 RVYLLLNKPVGYLSTARDDRGRKTVLDLLPHTSTRLYPVGRLDADTEGLLLITNDGAMTQ 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VYR G + +KL L+ GI+++ +V + + V + Sbjct: 123 GLLHPRYEIDKVYRAEIEGALTPEKLRHLRGGILLEDGITAPARVRIFAADSTVTTVEIV 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++F +V RL R+ + L L G++R +S + +RE Sbjct: 183 IHEGRNRQVRRMFAAVGCRVLRLRRVRFAMLTLKDLPCGASRPLSAEEIREL 234 >gi|332093194|gb|EGI98254.1| ribosomal small subunit pseudouridine synthase A [Shigella boydii 5216-82] Length = 231 Score = 275 bits (705), Expect = 6e-72, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 102/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+TNDG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTNDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEV--ITPTQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >gi|320529017|ref|ZP_08030109.1| hypothetical protein HMPREF9555_00165 [Selenomonas artemidis F0399] gi|320138647|gb|EFW30537.1| hypothetical protein HMPREF9555_00165 [Selenomonas artemidis F0399] Length = 244 Score = 275 bits (705), Expect = 6e-72, Method: Composition-based stats. Identities = 79/235 (33%), Positives = 130/235 (55%), Gaps = 1/235 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN-VMSTDHIEVDGVPLRK 69 +R+ K++A AGIASRR E MI RV V+G+ + + I VDG+P++K Sbjct: 1 MMEERLQKILANAGIASRRSAEEMIRAGRVTVDGVCVTELGRKYDAALHEIAVDGIPVQK 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L +KP+G ++T D GR TV D LP +R+ VGRLD +TEGLLL+TNDG Sbjct: 61 ETERVYLLLNKPVGYLSTARDDRGRKTVLDLLPHTSARLYPVGRLDADTEGLLLITNDGA 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + L P + +VYR G + +KL L+ GI+++ ++ + + + + Sbjct: 121 MTQGLLHPRYEIDKVYRAEIEGALTPEKLRHLRGGILLEDGITAPARMRILSADDTVTTI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+++++F +V RL R+ + L L G++R +S + +RE Sbjct: 181 EIVIHEGRNRQVRRMFAAVGCRVLRLRRVRFAMLTLKDLPCGASRPLSAEEIREL 235 >gi|238757900|ref|ZP_04619082.1| Ribosomal small subunit pseudouridine synthase A [Yersinia aldovae ATCC 35236] gi|238703885|gb|EEP96420.1| Ribosomal small subunit pseudouridine synthase A [Yersinia aldovae ATCC 35236] Length = 236 Score = 275 bits (704), Expect = 6e-72, Method: Composition-based stats. Identities = 58/238 (24%), Positives = 110/238 (46%), Gaps = 3/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQTVGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + L+ + V + L Sbjct: 121 ITSPRHHCEKTYLVTLEHPLADDTAQQFTDGVQLHNEESLTKPARLEVIEP--QLVRLTL 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHLL 250 EG+ ++K++F +V L R G +L L G R ++++ + PHLL Sbjct: 179 SEGRYHQVKRMFAAVGNRVLELHRERIGEIKLDDDLAPGEYRPLTEEEIASVGAPHLL 236 >gi|270262758|ref|ZP_06191029.1| ribosomal small subunit pseudouridine synthase A [Serratia odorifera 4Rx13] gi|270043442|gb|EFA16535.1| ribosomal small subunit pseudouridine synthase A [Serratia odorifera 4Rx13] Length = 237 Score = 275 bits (704), Expect = 6e-72, Method: Composition-based stats. Identities = 58/237 (24%), Positives = 111/237 (46%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV V+G +++ AV + + DG PL++ Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTVDGEVVKSGAVKLTPEQEVAFDGNPLQQLSGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + +D +G+ + L+ K + V + + Sbjct: 121 VTSPKHHCEKTYLVTLEHPLAEDTAQQFAEGVQLHNEKDLTRPAQLE--KIEDTLVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G + L G R ++++ + PHL Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGAIVMDEDLAPGEYRPLTEEEIASVGAPHL 235 >gi|169829656|ref|YP_001699814.1| putative RNA pseudouridine synthase ytzF [Lysinibacillus sphaericus C3-41] gi|168994144|gb|ACA41684.1| Hypothetical RNA pseudouridine synthase ytzF [Lysinibacillus sphaericus C3-41] Length = 237 Score = 275 bits (704), Expect = 6e-72, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 118/233 (50%), Gaps = 8/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 R+ K++A G SR+EV++++ Q+ V V+G ++ AA++V + V G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKQLLKQKAVTVDGASVKDAAMHVDPEQQNVSVYGERVIYTE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D TV D L + VGRLD +TEGLL+LTNDG L Sbjct: 60 FVYFMMNKPPGVISATEDLRD-ETVIDLLEPVDQHFQPFPVGRLDKDTEGLLVLTNDGIL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L P +VY G V ++ + G+ + G ++ + + + + Sbjct: 119 AHNLLSPKKHVPKVYYAHIEGVVTEEDVEKFANGVELDDGYMTKPGKLVIL-KSAPQSEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + ++EGK ++K++FE +V L RIS G +L L G RE++ + L Sbjct: 178 ELTIQEGKFHQVKRMFEAVGKRVTYLKRISMGNLKLDDQLELGEYRELTVEEL 230 >gi|152996949|ref|YP_001341784.1| 23S rRNA pseudouridine synthase F [Marinomonas sp. MWYL1] gi|150837873|gb|ABR71849.1| pseudouridine synthase [Marinomonas sp. MWYL1] Length = 355 Score = 275 bits (704), Expect = 6e-72, Method: Composition-based stats. Identities = 78/344 (22%), Positives = 137/344 (39%), Gaps = 23/344 (6%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N + R++K I+ +GI SRR+ +R I Q V +NG V++ D + V+G + Sbjct: 3 NASSTRLNKYISESGICSRRDADRFIEQGNVFINGKRA-SVGDQVVAGDTVRVNGQIIEP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 A+ + +KP+G+V+T + + V + S R+ +GRLD +++GL+ LTN+ Sbjct: 62 QDADDFVFIVLNKPVGIVSTTESSEKNNIV--DFVSHGVRIFPIGRLDKDSQGLIFLTNN 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + D + L G+ I G VT K S Sbjct: 120 GDLVNKVLRAGNNHEKEYLVTVNKPITDDFIAGLAGGVPILGTMTKKCPVT----KVSPT 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E+F ++V +L R L + G R+++ K L L Sbjct: 176 VFNITLVQGLNRQIRRMCEYFGYEVVKLERTRIMNVSLKGIPVGEWRDLTPKELSVLL-- 233 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 +E++ AP S R + K S+ G +K Sbjct: 234 KSIEDSSSEASAPAKKSRNAPRKNTRTDGSSKPKVSSKPKAPSKPMGAAKGNTKHPKDDA 293 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 R + +R + P+ Sbjct: 294 R------------KPAGSKSKDRRPFGDSKKPAGNGAGKRPTGK 325 >gi|156973557|ref|YP_001444464.1| pseudouridylate synthase [Vibrio harveyi ATCC BAA-1116] gi|156525151|gb|ABU70237.1| hypothetical protein VIBHAR_01258 [Vibrio harveyi ATCC BAA-1116] Length = 384 Score = 275 bits (704), Expect = 6e-72, Method: Composition-based stats. Identities = 75/354 (21%), Positives = 144/354 (40%), Gaps = 19/354 (5%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + Q+N R++K I+ G SRRE +R+I Q RV +NG V+ D + VDG Sbjct: 1 MSQDNAK--RLNKYISETGFCSRREADRLIEQGRVTINGQQP-EMGTKVLPGDDVCVDGS 57 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+ E+ +KP G+ T ++ D + D + R+ +GRLD ++GL+ LT Sbjct: 58 PVAAKEKPIYIALNKPTGITCT-TERDIPGNIVDFI-GHKKRIFPIGRLDKPSDGLIFLT 115 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y VR + + L + G+ I +V +K + Sbjct: 116 NDGDIVNKILRAGNNHEKEYVVRVDKPITGEFLKQMSSGVKILDTVTLPCKV----EKET 171 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 172 KFSFRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDDEVAEIL 231 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN-------GLSKQ 298 + E V + + R +++ D + +++++N G + Sbjct: 232 A---MCEGSVGTEEASKTDSRGRNIRKATDAKLYDSREENQGSTARRNQKTRTFLGNNAD 288 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 + P ++ +G + + + R K + ++ Sbjct: 289 EFRHAPNSKKGQQRRQRDDEGGRPAKEHYKAKPQGERSRPQGEHGKSQRKPDAS 342 >gi|113953004|ref|YP_730229.1| 16S rRNA pseudouridylate synthase [Synechococcus sp. CC9311] gi|113880355|gb|ABI45313.1| 16S rRNA pseudouridylate synthase [Synechococcus sp. CC9311] Length = 244 Score = 275 bits (704), Expect = 6e-72, Method: Composition-based stats. Identities = 86/231 (37%), Positives = 123/231 (53%), Gaps = 1/231 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T QR+ K+IA AGI SRR E ++ + RV VN + S D IEVDG PL A Sbjct: 1 MTRQRLQKLIAAAGICSRRHAEELMREGRVTVNQVTAGLGDQADPSIDRIEVDGRPLSHA 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGG 129 R RL L +KP G++++ SDP GR TV D +P R + VGRLD ++ G LLLTN G Sbjct: 61 SRPRLILLNKPRGVISSCSDPQGRETVLDLIPKSLRRGLHPVGRLDGDSRGALLLTNQGA 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + L P + Y+V+ G LN G+ + G+ +V+L Q + + + Sbjct: 121 ITLQLTHPRYSHSKTYKVQVRGTPTNTTLNRWCNGVELDGVPTQPAEVSLLKQGANQSLL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 V LREG+NR+I++V + V L R + LG+L G RE+++ Sbjct: 181 KVILREGRNRQIRRVADALGHPVLDLQRTAISSIDLGSLPEGHWRELTRSE 231 >gi|300741224|ref|ZP_07071245.1| ribosomal large subunit pseudouridine synthase B [Rothia dentocariosa M567] gi|300380409|gb|EFJ76971.1| ribosomal large subunit pseudouridine synthase B [Rothia dentocariosa M567] Length = 357 Score = 275 bits (704), Expect = 7e-72, Method: Composition-based stats. Identities = 88/239 (36%), Positives = 131/239 (54%), Gaps = 2/239 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-VDGVPLR 68 + R+ K++A+AG+ASRR E MI + RV VNG ++ V V D I VDG+ ++ Sbjct: 115 DHDGVRLQKLMAQAGVASRRVCEEMITEGRVTVNGEVVTELGVRVNPADVIVQVDGMTVQ 174 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 E+ ++KP G+V+T DPDGR + D L + RV VGRLD+ TEGLLLLTND Sbjct: 175 TNEKLIYMAFNKPAGVVSTMEDPDGRPCIKDFLRDSMNERVFHVGRLDVETEGLLLLTND 234 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + + Y V+ G V+ LKKGI ++ L + Sbjct: 235 GELANRLTHPSYEVPKTYLVQVRGPVESGIGAELKKGIRLEDGVSRVDSFKLVDSAPGHV 294 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + V + GKNR ++++FE + V +L+R+ GP ++G+ G+ R +SK + L Sbjct: 295 LIEVTIHSGKNRIVRRLFEAVGYPVEKLVRVQMGPIRIGSQKQGTVRNLSKVEIGHLLA 353 >gi|150004186|ref|YP_001298930.1| ribosomal large subunit pseudouridine synthase B [Bacteroides vulgatus ATCC 8482] gi|149932610|gb|ABR39308.1| ribosomal large subunit pseudouridine synthase B [Bacteroides vulgatus ATCC 8482] Length = 488 Score = 275 bits (704), Expect = 7e-72, Method: Composition-based stats. Identities = 74/242 (30%), Positives = 120/242 (49%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K+I+ + P R++K +A AGI SRRE + I V VNG ++ + TD + Sbjct: 240 IEYKDILTDPNEPIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEV 299 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 300 KFHDEPVS-IERKTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTT 358 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V V + L+ + G+ + ++ Sbjct: 359 GVLLLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISY 418 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 419 ASET-DKSQVGIEIHSGKNRIVRRIFESLGYKVIKLDRVYFAGLTKKGLRRGDWRYLTEQ 477 Query: 240 IL 241 + Sbjct: 478 EV 479 >gi|288556014|ref|YP_003427949.1| pseudouridylate synthase [Bacillus pseudofirmus OF4] gi|288547174|gb|ADC51057.1| pseudouridylate synthase [Bacillus pseudofirmus OF4] Length = 242 Score = 275 bits (704), Expect = 8e-72, Method: Composition-based stats. Identities = 84/234 (35%), Positives = 128/234 (54%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ KVIA+AGI SRR+ E MI + +VKVNG ++ V V D IEV+GVP+ K E Sbjct: 2 ERLQKVIAQAGITSRRKAETMITEGKVKVNGQVVRELGVKVNPNKDEIEVEGVPIDKEEP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +Y KP G++++ D GR V D L I RV +GRLD +T GL+LLTNDG A Sbjct: 62 VYYLMY-KPQGVISSVKDEKGRKVVTDFL-EIEQRVFPIGRLDYDTSGLILLTNDGEFAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 L P + +VY + G ++ L L+ G+V++ +V L + +K A V Sbjct: 120 QLMHPKFKIDKVYVAKVKGIPARESLKKLQHGVVLEDGKTAPAKVKLVSMDKKKQTAIVQ 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+++++FE V +L R Y L ++ G R + ++ Sbjct: 180 LTIHEGRNRQVRRMFEAIGHPVMKLKREQYSFLNLRSMNPGDVRPLKPIEVKHL 233 >gi|294775216|ref|ZP_06740740.1| pseudouridylate synthase [Bacteroides vulgatus PC510] gi|294450921|gb|EFG19397.1| pseudouridylate synthase [Bacteroides vulgatus PC510] Length = 488 Score = 275 bits (704), Expect = 8e-72, Method: Composition-based stats. Identities = 74/242 (30%), Positives = 120/242 (49%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K+I+ + P R++K +A AGI SRRE + I V VNG ++ + TD + Sbjct: 240 IEYKDILTDPNEPIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEV 299 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 300 KFHDEPVS-IERKTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTT 358 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V V + L+ + G+ + ++ Sbjct: 359 GVLLLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISY 418 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 419 ASET-DKSQVGIEIHSGKNRIVRRIFESLGYKVIKLDRVYFAGLTKKGLRRGDWRYLTEQ 477 Query: 240 IL 241 + Sbjct: 478 EV 479 >gi|15606629|ref|NP_214009.1| hypothetical protein aq_1464 [Aquifex aeolicus VF5] gi|3915445|sp|O67444|Y1464_AQUAE RecName: Full=Uncharacterized RNA pseudouridine synthase aq_1464; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|2983856|gb|AAC07410.1| hypothetical protein aq_1464 [Aquifex aeolicus VF5] Length = 249 Score = 275 bits (703), Expect = 8e-72, Method: Composition-based stats. Identities = 87/237 (36%), Positives = 131/237 (55%), Gaps = 3/237 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRK 69 R++K ++ AG+ASRR+ E++I + RVKVNG ++ V V D +EVDG P++ Sbjct: 1 MMEVRINKFLSEAGVASRRKAEKLILEGRVKVNGEVVRSLGVKVNPEVDIVEVDGKPVK- 59 Query: 70 AERTRLWLYHKPIGLVTT-HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +R R + +KP +T PDGR T+ + + I RV VGRLD NTEGLL+LTNDG Sbjct: 60 PQRKRYIILNKPCCYLTQLGRSPDGRKTIEELIKDIPERVFPVGRLDYNTEGLLILTNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA + P + +VY G+VDQ L +K+GI ++ + + +G N Sbjct: 120 ELANRILHPRYKLPKVYLALVEGKVDQKTLKRMKQGIELEDGFAKPDNIRIVRYEGKNTL 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + + EG+ +K+ F KV RL RI+ GP +LG L G RE+++ L + Sbjct: 180 LEITFHEGRKHLVKRFLGAFGHKVKRLKRIAIGPIKLGKLSPGKWRELNQGELAQLF 236 >gi|317488196|ref|ZP_07946767.1| RNA pseudouridylate synthase [Eggerthella sp. 1_3_56FAA] gi|316912701|gb|EFV34239.1| RNA pseudouridylate synthase [Eggerthella sp. 1_3_56FAA] Length = 285 Score = 275 bits (703), Expect = 9e-72, Method: Composition-based stats. Identities = 80/277 (28%), Positives = 123/277 (44%), Gaps = 33/277 (11%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 M + + + P R+ K +ARAG ASRR E ++ RV VNG ++ V D Sbjct: 1 MGEVSDCESRIVPMRLQKFLARAGAASRRGSENLMTAGRVTVNGKVVTELGSKVDPLVDE 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINT 118 + VDG +R A+ + HKP G VTT SDP GR TV + +P + + +GRLD +T Sbjct: 61 VAVDGAVVRLADGPVTIMLHKPAGFVTTMSDPQGRRTVAELVPTERYPGLFPIGRLDFDT 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLL + DG L L P + Y G+ + L LL++GI + V Sbjct: 121 TGLLLFSTDGELGNGLLHPKHHVTKRYLACVEGRPTERDLALLRRGIELDDGPTQPADVR 180 Query: 179 L-------------------------------DTQKGSNAWVTVGLREGKNREIKKVFEF 207 + + + + V +G+REG+ R++K++ Sbjct: 181 VVEGGAARHAERLLEIPAAVPPRSSKEYAAVCEGRATRRSIVRLGIREGRKRQVKRMLAA 240 Query: 208 FNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V L R S+GP +LG L G+ R + + + Sbjct: 241 VGHPVLALHRDSFGPLELGDLPRGAWRALDAEEVAAL 277 >gi|254884798|ref|ZP_05257508.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 4_3_47FAA] gi|319644140|ref|ZP_07998665.1| pseudouridine synthase [Bacteroides sp. 3_1_40A] gi|254837591|gb|EET17900.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 4_3_47FAA] gi|317384262|gb|EFV65233.1| pseudouridine synthase [Bacteroides sp. 3_1_40A] Length = 487 Score = 275 bits (703), Expect = 9e-72, Method: Composition-based stats. Identities = 74/242 (30%), Positives = 120/242 (49%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K+I+ + P R++K +A AGI SRRE + I V VNG ++ + TD + Sbjct: 239 IEYKDILTDPNEPIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEV 298 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 299 KFHDEPVS-IERKTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTT 357 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V V + L+ + G+ + ++ Sbjct: 358 GVLLLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISY 417 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 418 ASET-DKSQVGIEIHSGKNRIVRRIFESLGYKVIKLDRVYFAGLTKKGLRRGDWRYLTEQ 476 Query: 240 IL 241 + Sbjct: 477 EV 478 >gi|313887215|ref|ZP_07820911.1| pseudouridylate synthase [Porphyromonas asaccharolytica PR426713P-I] gi|312923444|gb|EFR34257.1| pseudouridylate synthase [Porphyromonas asaccharolytica PR426713P-I] Length = 470 Score = 275 bits (703), Expect = 9e-72, Method: Composition-based stats. Identities = 82/274 (29%), Positives = 137/274 (50%), Gaps = 4/274 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E P R++K ++ +G+ SRR ++ IA RVKVNG ++ V+ TD + VD P+ Sbjct: 199 EAGEPIRLNKFLSNSGLCSRRMADQYIAAGRVKVNGAVISELGSQVLPTDQVMVDDKPVS 258 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 E L +KP VTT +DP+GR TV D + + R+ +GRLD NT G+LLLTND Sbjct: 259 L-EAKVYVLLNKPKNCVTTLTDPEGRRTVMDLVHNACTERIYPIGRLDRNTTGILLLTND 317 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P+ + ++Y V +V + + ++ G ++ ++ T + ++ Sbjct: 318 GDLAVRLMHPAFRKKKIYEVALDKEVTVEHMQMIAHGFELEDGEIHADAISYITGQ-THD 376 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ-LG 246 V + + G+NR ++++FE ++V L R+ Y L G R ++ + +R +G Sbjct: 377 KVGIEIHSGRNRIVRRIFEHLGYRVVHLDRVYYAGLTKKDLPRGRWRYLTPEEVRYLRMG 436 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPD 280 E+ V +Y D P E+ D Sbjct: 437 VKEQEDNGVAPTTKVYHKHQETPDHPFASEEIED 470 >gi|311113298|ref|YP_003984520.1| pseudouridine synthase [Rothia dentocariosa ATCC 17931] gi|310944792|gb|ADP41086.1| pseudouridine synthase [Rothia dentocariosa ATCC 17931] Length = 357 Score = 275 bits (703), Expect = 9e-72, Method: Composition-based stats. Identities = 88/239 (36%), Positives = 131/239 (54%), Gaps = 2/239 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-VDGVPLR 68 + R+ K++A+AG+ASRR E MI + RV VNG ++ V V D I VDG+ ++ Sbjct: 115 DHEGVRLQKLMAQAGVASRRVCEEMITEGRVTVNGEVVTELGVRVNPADVIVQVDGMTVQ 174 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 E+ ++KP G+V+T DPDGR + D L + RV VGRLD+ TEGLLLLTND Sbjct: 175 TNEKLIYMAFNKPAGVVSTMEDPDGRPCIKDFLRDSMNERVFHVGRLDVETEGLLLLTND 234 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + + Y V+ G V+ LKKGI ++ L + Sbjct: 235 GELANRLTHPSYEVPKTYLVQVRGPVESGIGAELKKGIRLEDGVSRVDSFKLVDSAPGHV 294 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + V + GKNR ++++FE + V +L+R+ GP ++G+ G+ R +SK + L Sbjct: 295 LIEVTIHSGKNRIVRRLFEAVGYPVEKLVRVQMGPIRIGSQKQGTVRNLSKVEIGHLLA 353 >gi|90410657|ref|ZP_01218672.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Photobacterium profundum 3TCK] gi|90328288|gb|EAS44586.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Photobacterium profundum 3TCK] Length = 367 Score = 275 bits (703), Expect = 9e-72, Method: Composition-based stats. Identities = 65/242 (26%), Positives = 110/242 (45%), Gaps = 7/242 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +K+ + P R++K I+ G SRRE +++I Q RV +NG VM D + Sbjct: 7 DNKDQLDTQNKPVRLNKFISDTGYCSRREADKLIDQGRVTINGTQP-EMGTKVMPDDEVL 65 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VD PLR ER +KP G+ T ++ + + D + R+ +GRLD ++GL Sbjct: 66 VDDKPLRAKERPIYIALNKPTGVTCT-TERHVKDNIVDFI-GHRKRIFPIGRLDKPSDGL 123 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 + LTNDG + + + Y VR Q+ + L + G+ I V Sbjct: 124 IFLTNDGDIVNKILRAGNSHEKEYVVRVDHQITPEFLEKMASGVEILDTVTLPCTVK--- 180 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 K ++ + L +G NR+I+++ E + V +L R+ + L G R ++ + Sbjct: 181 -KETDYSFRITLTQGLNRQIRRMCEALGYDVYKLRRVRIMNITIDGLPNGKWRYLTDAEI 239 Query: 242 RE 243 E Sbjct: 240 SE 241 >gi|119716723|ref|YP_923688.1| ribosomal large subunit pseudouridine synthase B [Nocardioides sp. JS614] gi|119537384|gb|ABL82001.1| ribosomal large subunit pseudouridine synthase B [Nocardioides sp. JS614] Length = 251 Score = 275 bits (703), Expect = 9e-72, Method: Composition-based stats. Identities = 77/246 (31%), Positives = 129/246 (52%), Gaps = 1/246 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 M I ++ R+ K++A++G+ASRR+ E ++ + V V+G ++ R V T Sbjct: 1 MTTPGIESDDDGLVRLQKLLAQSGVASRRKCEELMLEGHVVVDGEVVTRLGTKVDPRTAV 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I VDG L + +KP G+V+T SDP+GR T+ D + R+ VGRLD +T Sbjct: 61 IRVDGKRLPPVSEKVYLVLNKPRGVVSTMSDPEGRRTLSDLVADRPERLFHVGRLDTDTS 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLTNDG A + PS + + Y G+V + + L +G+ + + + Sbjct: 121 GLLLLTNDGDFAHRMAHPSYEVDKTYVAEVEGEVYRRTIKQLLEGVTLDDGPVTVSKARI 180 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + V + + EG+NR ++++ + V RL R + GP LG L +G R+++++ Sbjct: 181 VEATAAKSIVELVIHEGRNRIVRRLLDQVGHPVRRLTRTAIGPVSLGRLPSGELRDLTRQ 240 Query: 240 ILREQL 245 L E L Sbjct: 241 ELGELL 246 >gi|117618383|ref|YP_857355.1| ribosomal small subunit pseudouridine synthase A [Aeromonas hydrophila subsp. hydrophila ATCC 7966] gi|117559790|gb|ABK36738.1| ribosomal small subunit pseudouridine synthase A [Aeromonas hydrophila subsp. hydrophila ATCC 7966] Length = 230 Score = 275 bits (703), Expect = 1e-71, Method: Composition-based stats. Identities = 63/230 (27%), Positives = 109/230 (47%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + +R ++I Q V V+GI++++ A ++ +E DGV L +R Sbjct: 1 MRLDKFLCDCSDLTRSLAGKLIRQGEVMVDGIVVKQPAFHINEQSQVEFDGVTLTLDQRN 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 R ++ HKP G V ++ DPD TVF + ++ VGRLD++T GL+L+T+DG + Sbjct: 61 RYFMLHKPEGYVCSNEDPDH-PTVFFLMDEPAMGKLHVVGRLDLDTTGLVLVTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y V V D + L +G++++ L+ + Sbjct: 120 RITSPRHECAKTYHVWLADPVSPDAIALFAEGVLLRSETEKTRPAQLEI--LGECEARLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G RE++ + Sbjct: 178 IHEGKYHQVKRMFAAIGNKVVGLHRERVGGLTLDEELAPGEYRELTADEI 227 >gi|258627383|ref|ZP_05722167.1| Ribosomal large subunit pseudouridine synthase F [Vibrio mimicus VM603] gi|258580421|gb|EEW05386.1| Ribosomal large subunit pseudouridine synthase F [Vibrio mimicus VM603] Length = 332 Score = 275 bits (703), Expect = 1e-71, Method: Composition-based stats. Identities = 83/342 (24%), Positives = 141/342 (41%), Gaps = 22/342 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG + V D + +DG PLR ER Sbjct: 8 RLNKFISETGFCSRREADKLIEQGRVTLNG-VQPEVGSKVTEQDEVCIDGKPLRSKERPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + + + G+ I +VT +TQ + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITPEFIRQMASGVNILDTVTLPCKVTQETQYS----FRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG-----PHL 249 +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVNEILAMCEDSSGT 240 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 E ++V T + N + R K KN + L + +R+ Sbjct: 241 EEASRVAQSGDSIKRATDAKLFDNREANKESKARRNPKTYHGKNAQEFRHALNSKKAQRH 300 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 SS + S + R +P SLR++ Sbjct: 301 ----------PKSSPSNSSTASKPASRPTPRTGGTLSLRKSK 332 >gi|170767473|ref|ZP_02901926.1| ribosomal small subunit pseudouridine synthase A [Escherichia albertii TW07627] gi|170123807|gb|EDS92738.1| ribosomal small subunit pseudouridine synthase A [Escherichia albertii TW07627] Length = 231 Score = 275 bits (703), Expect = 1e-71, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 103/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ AA ++ ++ DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRANRVTVDGEIVRNAAFKLLPEHNVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEV--ITPTQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGGIMLDADLAPGEYRPLTEEEI 227 >gi|197122579|ref|YP_002134530.1| pseudouridine synthase [Anaeromyxobacter sp. K] gi|196172428|gb|ACG73401.1| pseudouridine synthase [Anaeromyxobacter sp. K] Length = 329 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 88/321 (27%), Positives = 136/321 (42%), Gaps = 4/321 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 +R+ K +A AGIASRR+ E +I+ RV+VN + V D + VDG + + Sbjct: 1 MAEERLQKFLAGAGIASRRKAEALISAGRVRVNQRTVTELGTKVDPGRDLVTVDGALVSQ 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ +L +KP G VTT SDP GR T + L + R VGRLD + EG LLLT+DG Sbjct: 61 PEQRSYYLLYKPSGCVTTASDPQGRPTAMEYLRGVPGRPFPVGRLDYDAEGALLLTDDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P RVY V+ G + L +K G+ ++ ++V + N W+ Sbjct: 121 LANRLAHPRYGHQRVYLVKVKGDPPAEALERMKAGVRLEDGPARALEVAVHEHADRNVWI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 V + EG+ +K++ E +V RL R +G +G L G R + + +R Sbjct: 181 RVVVGEGRFHLVKRLCEAVGLQVQRLFRPEFGGIGVGGLRPGKFRRLEPEEVRALRQRVG 240 Query: 250 LEEAQVNLDAPIYSSETLVRDRP-NIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 LE + R + + + + ++ P Sbjct: 241 LESGTPARGPSVRELPKAARRHGHGPPAAPGAVPPPAEPGADEVEPRARGASRGGPRPAG 300 Query: 309 NLASNVWMAKGIHSSFLSDSG 329 A+ G +S S Sbjct: 301 PRATAPG--PGGRASRPSRPS 319 >gi|323491918|ref|ZP_08097088.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio brasiliensis LMG 20546] gi|323313839|gb|EGA66933.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio brasiliensis LMG 20546] Length = 342 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 71/339 (20%), Positives = 136/339 (40%), Gaps = 14/339 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T +R++K I+ G SRRE +R+I Q RV +NG + V S D + VD P+ A Sbjct: 4 DTGKRLNKFISETGFCSRREADRLIEQGRVTINGKIP-EMGTKVQSGDDVRVDDKPIAAA 62 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG Sbjct: 63 SDKPIYIALNKPTGITCT-TERDIPGNIVDFV-GHKKRIFPIGRLDKPSDGLIFLTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y VR + D + + G+ I +V +K + Sbjct: 121 IVNKILRAGNNHEKEYVVRVDKPISDDFIKKMSSGVNILDTVTLPCKV----EKETKYSF 176 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E ++V +L R+ L + G R ++ + E L Sbjct: 177 RIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGQWRYLTDAEVAEILA-MC 235 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNII-----SEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 + + + + + +R + E + R + G + + P Sbjct: 236 EDSSGTEEASKMDAKGKRIRRATDAKLFDSREENQESKARRNQKQRTFKGRNADEFRHAP 295 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPS 343 ++ S+ + + + P+ P Sbjct: 296 NSKKGRNSDKQSEPKGKPAKGKTFYKPASDKAPRPAKPK 334 >gi|218708762|ref|YP_002416383.1| ribosomal large subunit pseudouridine synthase F [Vibrio splendidus LGP32] gi|218321781|emb|CAV17738.1| Ribosomal large subunit pseudouridine synthase F [Vibrio splendidus LGP32] Length = 379 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 76/358 (21%), Positives = 151/358 (42%), Gaps = 20/358 (5%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + +R++K I+ G SRRE +++I RV +NG + V+ D +E+D P Sbjct: 1 MSQESQAKRLNKYISETGFCSRREADKLIDAGRVTINGKIP-EMGTKVLPGDDVEIDNKP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R E+ +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTN Sbjct: 60 VRSREKPIYIALNKPTGITCT-TERDIPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTN 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + + Y VR + + L + G+ I +V +K + Sbjct: 118 DGDIVNKILRAGNNHEKEYVVRVDKPITTEFLKQMGAGVHILDTVTLPCKV----EKETK 173 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ E ++V +L R+ L + G R +S + + E L Sbjct: 174 FSFRITLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDEEITEILA 233 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT--- 303 + E + DA + R R +++ D + +++++N + + Sbjct: 234 --MCEGSVSTEDA-SKMNAKGQRIRKATDAKLFDSREENQTSTARRNQNENRARTYRGNN 290 Query: 304 -------PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 P +R S+ + G ++ S R E + + R + ++ Sbjct: 291 ADEFRHAPNSKRGRNSSNGESSGGGNTENWKSNSRSERSNSDKNRSDRNRTDRDNNER 348 >gi|86148705|ref|ZP_01066982.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio sp. MED222] gi|85833498|gb|EAQ51679.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio sp. MED222] Length = 379 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 76/358 (21%), Positives = 151/358 (42%), Gaps = 20/358 (5%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + +R++K I+ G SRRE +++I RV +NG + V+ D +E+D P Sbjct: 1 MSQESQAKRLNKYISETGFCSRREADKLIDAGRVTINGKIP-EMGTKVLPGDDVEIDNKP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R E+ +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTN Sbjct: 60 VRSREKPIYIALNKPTGITCT-TERDIPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTN 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + + Y VR + + L + G+ I +V +K + Sbjct: 118 DGDIVNKILRAGNNHEKEYVVRVDKPITTEFLKQMGAGVHILDTVTLPCKV----EKETK 173 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ E ++V +L R+ L + G R +S + + E L Sbjct: 174 FSFRITLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDEEITEILA 233 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT--- 303 + E + DA + R R +++ D + +++++N + + Sbjct: 234 --MCEGSVSTEDA-SKMNAKGQRIRKATDAKLFDSREENQTSTARRNQNENRTRTYRGNN 290 Query: 304 -------PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 P +R S+ + G ++ S R E + + R + ++ Sbjct: 291 ADEFRHAPNSKRGRNSSNGESGGGGNTENWKSNSRSERSNSDKNRSDRNRTDRDNNER 348 >gi|306814702|ref|ZP_07448864.1| 16S rRNA pseudouridylate synthase A [Escherichia coli NC101] gi|305852096|gb|EFM52548.1| 16S rRNA pseudouridylate synthase A [Escherichia coli NC101] gi|320196056|gb|EFW70680.1| 16S rRNA pseudouridylate synthase A [Escherichia coli WV_060327] Length = 231 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 102/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEV--ITPTQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >gi|281421747|ref|ZP_06252746.1| ribosomal large subunit pseudouridine synthase B [Prevotella copri DSM 18205] gi|281404242|gb|EFB34922.1| ribosomal large subunit pseudouridine synthase B [Prevotella copri DSM 18205] Length = 253 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 73/242 (30%), Positives = 118/242 (48%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ ++ TD + Sbjct: 5 IEYKEENIDPTEPLRLNKFLANAGVCSRREADEFIQAGLVTVNGEVVTELGTKILRTDEV 64 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ E+ L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 65 KFHDAPVTL-EKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDVCPERIYPVGRLDRNTT 123 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P +VY V + ++ +++GI ++ V Sbjct: 124 GVLLLTNDGDLASKLTHPKFLKKKVYHVHLDKNLTAHDMDQIREGITLEDGEIKADAVEY 183 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + A V + + GKNR ++++FE ++V +L R+ + L G R +++K Sbjct: 184 ADDR-DKAQVGIEIHSGKNRIVRRIFESLGYRVTKLDRVQFAGLTKKNLRRGDWRFLTEK 242 Query: 240 IL 241 + Sbjct: 243 EV 244 >gi|237723682|ref|ZP_04554163.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D4] gi|265756803|ref|ZP_06090791.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 3_1_33FAA] gi|229437893|gb|EEO47970.1| ribosomal large subunit pseudouridine synthase B [Bacteroides dorei 5_1_36/D4] gi|263233589|gb|EEZ19209.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 3_1_33FAA] Length = 485 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 74/242 (30%), Positives = 120/242 (49%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K+I+ + P R++K +A AGI SRRE + I V VNG ++ + TD + Sbjct: 237 IEYKDILTDPNEPIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEV 296 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 297 KFHDEPVS-IERKTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTT 355 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V V + L+ + G+ + ++ Sbjct: 356 GVLLLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISY 415 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 416 ASET-DKSQVGIEIHSGKNRIVRRIFESLGYKVIKLDRVYFAGLTKKGLRRGDWRYLTEQ 474 Query: 240 IL 241 + Sbjct: 475 EV 476 >gi|332981538|ref|YP_004462979.1| pseudouridine synthase [Mahella australiensis 50-1 BON] gi|332699216|gb|AEE96157.1| pseudouridine synthase [Mahella australiensis 50-1 BON] Length = 244 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 73/231 (31%), Positives = 113/231 (48%), Gaps = 2/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A+ G+ASRR+ E +I V VNG +++ + + D + V G +R Sbjct: 8 IRLHKYMAQCGVASRRKSEELIKSGAVSVNGHVVKDMGILIDPQKDEVRVYGRIIRLKSD 67 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP G V+T D GR TV D +P + R+ VGRLD +T GL+LLTNDG L Sbjct: 68 MIYIAVNKPRGYVSTVKDQFGRPTVLDLVPVADEYRLYPVGRLDYDTTGLILLTNDGDLT 127 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + ++Y G D + + G+V++G L + V + Sbjct: 128 YRLTHPKHEIEKIYVAGLRGIPDNQDIFRFEHGLVLEGRLTAPAGFELIKADQRLSVVKI 187 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 LREG+NR+I+K+ + V L R + G +L L G R ++ K + Sbjct: 188 TLREGRNRQIRKMCDMIGHPVIWLRREAIGEVELCGLQPGQWRYLTPKEIE 238 >gi|323498587|ref|ZP_08103579.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio sinaloensis DSM 21326] gi|323316285|gb|EGA69304.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio sinaloensis DSM 21326] Length = 344 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 78/351 (22%), Positives = 147/351 (41%), Gaps = 22/351 (6%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + +R++K I+ G SRRE +R+I Q RV +NG + V+ D + VD P+ A Sbjct: 4 DSAKRLNKFISETGFCSRREADRLIEQGRVTINGRVP-EMGTKVLPGDDVRVDDKPISAA 62 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG Sbjct: 63 TDKPVYIALNKPTGITCT-TERDIPGNIVDFV-GHKKRIFPIGRLDKPSDGLIFLTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y VR V D +N + G+ I VT +T+ Sbjct: 121 IVNKILRAGNNHEKEYVVRVDKPVSDDFINKMSSGVNILDTVTLPCTVTRETKFS----F 176 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E ++V +L R+ L + G R ++ + E L + Sbjct: 177 RIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGQWRYLTDAEVAEILA--M 234 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN-------GLSKQKKLA 302 E++ +A R R +++ D + +++++N G + + Sbjct: 235 CEDSSGTEEA-SKVDGKGKRIRKATDAKLYDSREENQNSTARRNQKQRTFKGRNADEFRH 293 Query: 303 TPVHRRNLAS--NVWMAKGI--HSSFLSDSGQREENHRRSPSFPSKRSLRR 349 P ++ + AKG + + P SL++ Sbjct: 294 APNSKKGRNNGGKHGEAKGKPNKGKTFFKPNSEQSSRPSKPKSGGTLSLKK 344 >gi|15643034|ref|NP_228077.1| 16S pseudouridylate synthase [Thermotoga maritima MSB8] gi|4980760|gb|AAD35352.1|AE001708_20 16S pseudouridylate synthase [Thermotoga maritima MSB8] Length = 239 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 71/248 (28%), Positives = 123/248 (49%), Gaps = 12/248 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +G+ +R+EV+++I Q RV VNG ++ V+ D + +DG +R + Sbjct: 1 MRLDRYLSNSGVGTRKEVKKLIKQGRVTVNGRVVLDPGHPVLENDAVALDGEVVRF-HKK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L++KP G VT+ DP T+ + LP + VGRLD + EGLL++TNDG A Sbjct: 60 VYILFYKPSGYVTSTKDP-HSETIMEFLPP-LKGIFPVGRLDKDAEGLLIITNDGDFAHR 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V+ G+V +DK+ LK G+ ++ + + +K SN + + + Sbjct: 118 VISPKWSVEKEYIVKVEGEVTEDKIEKLKNGVTLRDGFFAKAK---RVEKLSNDTLKIVI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHLLEE 252 EGK +IK++ K L R G L + G R +S++ ++ + E Sbjct: 175 TEGKYHQIKRMTAAVGLKTVHLKRTRIGGLVLPDDMKPGEYRFLSEEEVK-----KVFER 229 Query: 253 AQVNLDAP 260 D P Sbjct: 230 EDQKEDTP 237 >gi|15802739|ref|NP_288766.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 EDL933] gi|15832329|ref|NP_311102.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 str. Sakai] gi|16130121|ref|NP_416688.1| 16S rRNA U516 pseudouridine synthase [Escherichia coli str. K-12 substr. MG1655] gi|24113572|ref|NP_708082.1| 16S rRNA pseudouridylate synthase A [Shigella flexneri 2a str. 301] gi|30063626|ref|NP_837797.1| 16S rRNA pseudouridylate synthase A [Shigella flexneri 2a str. 2457T] gi|82544599|ref|YP_408546.1| 16S rRNA pseudouridylate synthase A [Shigella boydii Sb227] gi|89109001|ref|AP_002781.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli str. K-12 substr. W3110] gi|110642394|ref|YP_670124.1| 16S rRNA pseudouridylate synthase A [Escherichia coli 536] gi|117624381|ref|YP_853294.1| 16S rRNA pseudouridylate synthase A [Escherichia coli APEC O1] gi|157155587|ref|YP_001463536.1| 16S rRNA pseudouridylate synthase A [Escherichia coli E24377A] gi|157161665|ref|YP_001458983.1| 16S rRNA pseudouridylate synthase A [Escherichia coli HS] gi|161486177|ref|NP_754606.2| 16S rRNA pseudouridylate synthase A [Escherichia coli CFT073] gi|162138407|ref|YP_541459.2| 16S rRNA pseudouridylate synthase A [Escherichia coli UTI89] gi|168749590|ref|ZP_02774612.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4113] gi|168759074|ref|ZP_02784081.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4401] gi|168767807|ref|ZP_02792814.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4486] gi|168773096|ref|ZP_02798103.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4196] gi|168780036|ref|ZP_02805043.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4076] gi|168789002|ref|ZP_02814009.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC869] gi|170019500|ref|YP_001724454.1| 16S rRNA pseudouridylate synthase A [Escherichia coli ATCC 8739] gi|170081805|ref|YP_001731125.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli str. K-12 substr. DH10B] gi|170681582|ref|YP_001744379.1| 16S rRNA pseudouridylate synthase A [Escherichia coli SMS-3-5] gi|188495180|ref|ZP_03002450.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli 53638] gi|191165380|ref|ZP_03027222.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli B7A] gi|191170122|ref|ZP_03031676.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli F11] gi|193062338|ref|ZP_03043433.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli E22] gi|194427231|ref|ZP_03059782.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli B171] gi|194434188|ref|ZP_03066455.1| ribosomal small subunit pseudouridine synthase A [Shigella dysenteriae 1012] gi|194436203|ref|ZP_03068305.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli 101-1] gi|195935565|ref|ZP_03080947.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 str. EC4024] gi|208805677|ref|ZP_03248014.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4206] gi|208814565|ref|ZP_03255894.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4045] gi|208818354|ref|ZP_03258674.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4042] gi|209400555|ref|YP_002271597.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4115] gi|209919643|ref|YP_002293727.1| 16S rRNA pseudouridylate synthase A [Escherichia coli SE11] gi|215487405|ref|YP_002329836.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O127:H6 str. E2348/69] gi|217327530|ref|ZP_03443613.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. TW14588] gi|218559104|ref|YP_002392017.1| 16S rRNA pseudouridylate synthase A [Escherichia coli S88] gi|218695798|ref|YP_002403465.1| 16S rRNA pseudouridylate synthase A [Escherichia coli 55989] gi|218700655|ref|YP_002408284.1| 16S rRNA pseudouridylate synthase A [Escherichia coli IAI39] gi|218705715|ref|YP_002413234.1| 16S rRNA pseudouridylate synthase A [Escherichia coli UMN026] gi|227887240|ref|ZP_04005045.1| 16S rRNA pseudouridylate synthase A [Escherichia coli 83972] gi|237704656|ref|ZP_04535137.1| ribosomal small subunit pseudouridine synthase A [Escherichia sp. 3_2_53FAA] gi|238901360|ref|YP_002927156.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli BW2952] gi|253772890|ref|YP_003035721.1| 16S rRNA pseudouridylate synthase A [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254162198|ref|YP_003045306.1| 16S rRNA pseudouridylate synthase A [Escherichia coli B str. REL606] gi|254794084|ref|YP_003078921.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 str. TW14359] gi|256017648|ref|ZP_05431513.1| 16S rRNA pseudouridylate synthase A [Shigella sp. D9] gi|256022132|ref|ZP_05435997.1| 16S rRNA pseudouridylate synthase A [Escherichia sp. 4_1_40B] gi|260844789|ref|YP_003222567.1| 16S rRNA pseudouridylate 516 synthase RsuA [Escherichia coli O103:H2 str. 12009] gi|260856157|ref|YP_003230048.1| 16S rRNA pseudouridylate 516 synthase RsuA [Escherichia coli O26:H11 str. 11368] gi|260868884|ref|YP_003235286.1| 16S rRNA pseudouridylate 516 synthase RsuA [Escherichia coli O111:H- str. 11128] gi|261223356|ref|ZP_05937637.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli O157:H7 str. FRIK2000] gi|261259093|ref|ZP_05951626.1| 16S rRNA pseudouridylate 516 synthase RsuA [Escherichia coli O157:H7 str. FRIK966] gi|291283437|ref|YP_003500255.1| Pseudouridine synthase [Escherichia coli O55:H7 str. CB9615] gi|293405651|ref|ZP_06649643.1| 16S rRNA pseudouridylate synthase A [Escherichia coli FVEC1412] gi|293410547|ref|ZP_06654123.1| 16S rRNA pseudouridylate synthase A [Escherichia coli B354] gi|293415469|ref|ZP_06658112.1| 16S rRNA pseudouridylate synthase A [Escherichia coli B185] gi|293446535|ref|ZP_06662957.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli B088] gi|298381333|ref|ZP_06990932.1| 16S rRNA pseudouridylate synthase A [Escherichia coli FVEC1302] gi|300819120|ref|ZP_07099322.1| conserved hypothetical protein [Escherichia coli MS 107-1] gi|300822636|ref|ZP_07102774.1| conserved hypothetical protein [Escherichia coli MS 119-7] gi|300897756|ref|ZP_07116149.1| conserved hypothetical protein [Escherichia coli MS 198-1] gi|300918831|ref|ZP_07135400.1| conserved hypothetical protein [Escherichia coli MS 115-1] gi|300926291|ref|ZP_07142094.1| hypothetical protein HMPREF9548_04311 [Escherichia coli MS 182-1] gi|300930419|ref|ZP_07145828.1| conserved hypothetical protein [Escherichia coli MS 187-1] gi|300935111|ref|ZP_07150142.1| conserved hypothetical protein [Escherichia coli MS 21-1] gi|300950052|ref|ZP_07163999.1| conserved hypothetical protein [Escherichia coli MS 116-1] gi|300956858|ref|ZP_07169118.1| hypothetical protein HMPREF9547_02661 [Escherichia coli MS 175-1] gi|300981435|ref|ZP_07175516.1| hypothetical protein HMPREF9553_01804 [Escherichia coli MS 200-1] gi|300982903|ref|ZP_07176367.1| conserved hypothetical protein [Escherichia coli MS 45-1] gi|301021043|ref|ZP_07185086.1| conserved hypothetical protein [Escherichia coli MS 69-1] gi|301024319|ref|ZP_07188008.1| conserved hypothetical protein [Escherichia coli MS 196-1] gi|301048923|ref|ZP_07195916.1| conserved hypothetical protein [Escherichia coli MS 185-1] gi|301328667|ref|ZP_07221728.1| conserved hypothetical protein [Escherichia coli MS 78-1] gi|301644209|ref|ZP_07244217.1| conserved hypothetical protein [Escherichia coli MS 146-1] gi|307138843|ref|ZP_07498199.1| 16S rRNA pseudouridylate synthase A [Escherichia coli H736] gi|307311237|ref|ZP_07590881.1| pseudouridine synthase [Escherichia coli W] gi|309793067|ref|ZP_07687495.1| conserved hypothetical protein [Escherichia coli MS 145-7] gi|312967483|ref|ZP_07781698.1| conserved hypothetical protein [Escherichia coli 2362-75] gi|331642812|ref|ZP_08343947.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli H736] gi|331647839|ref|ZP_08348931.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli M605] gi|331653617|ref|ZP_08354618.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli M718] gi|331658264|ref|ZP_08359226.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli TA206] gi|331663688|ref|ZP_08364598.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli TA143] gi|331668887|ref|ZP_08369735.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli TA271] gi|331673705|ref|ZP_08374468.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli TA280] gi|331678137|ref|ZP_08378812.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli H591] gi|332278659|ref|ZP_08391072.1| 16S rRNA pseudouridylate 516 synthase [Shigella sp. D9] gi|76364197|sp|P0AA43|RSUA_ECOLI RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|88941974|sp|P0AA45|RSUA_ECO57 RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|88941975|sp|P0AA44|RSUA_ECOL6 RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|88941976|sp|P0AA46|RSUA_SHIFL RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|12516515|gb|AAG57321.1|AE005451_2 16S pseudouridylate 516 synthase [Escherichia coli O157:H7 str. EDL933] gi|405907|gb|AAA16377.1| yejD [Escherichia coli] gi|1042177|gb|AAB34905.1| 16S RNA pseudouridine 516 synthase, 16S RNA psi 516 synthase=rsuA gene product [Escherichia coli, Peptide, 231 aa] gi|1788510|gb|AAC75244.1| 16S rRNA U516 pseudouridine synthase [Escherichia coli str. K-12 substr. MG1655] gi|13362544|dbj|BAB36498.1| 16S pseudouridylate 516 synthase [Escherichia coli O157:H7 str. Sakai] gi|24052623|gb|AAN43789.1| 16S pseudouridylate 516 synthase [Shigella flexneri 2a str. 301] gi|30041879|gb|AAP17606.1| 16S pseudouridylate 516 synthase [Shigella flexneri 2a str. 2457T] gi|81246010|gb|ABB66718.1| 16S pseudouridylate 516 synthase [Shigella boydii Sb227] gi|85675292|dbj|BAE76648.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli str. K12 substr. W3110] gi|110343986|gb|ABG70223.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli 536] gi|115513505|gb|ABJ01580.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli APEC O1] gi|157067345|gb|ABV06600.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli HS] gi|157077617|gb|ABV17325.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli E24377A] gi|169754428|gb|ACA77127.1| pseudouridine synthase [Escherichia coli ATCC 8739] gi|169889640|gb|ACB03347.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli str. K-12 substr. DH10B] gi|170519300|gb|ACB17478.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli SMS-3-5] gi|187771075|gb|EDU34919.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4196] gi|188016070|gb|EDU54192.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4113] gi|188490379|gb|EDU65482.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli 53638] gi|189002071|gb|EDU71057.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4076] gi|189354270|gb|EDU72689.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4401] gi|189363003|gb|EDU81422.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4486] gi|189371377|gb|EDU89793.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC869] gi|190904543|gb|EDV64250.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli B7A] gi|190909638|gb|EDV69223.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli F11] gi|192932004|gb|EDV84603.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli E22] gi|194414852|gb|EDX31123.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli B171] gi|194417517|gb|EDX33619.1| ribosomal small subunit pseudouridine synthase A [Shigella dysenteriae 1012] gi|194424931|gb|EDX40916.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli 101-1] gi|208725478|gb|EDZ75079.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4206] gi|208735842|gb|EDZ84529.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4045] gi|208738477|gb|EDZ86159.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4042] gi|209161955|gb|ACI39388.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. EC4115] gi|209765918|gb|ACI81271.1| 16S pseudouridylate 516 synthase [Escherichia coli] gi|209765920|gb|ACI81272.1| 16S pseudouridylate 516 synthase [Escherichia coli] gi|209765922|gb|ACI81273.1| 16S pseudouridylate 516 synthase [Escherichia coli] gi|209765924|gb|ACI81274.1| 16S pseudouridylate 516 synthase [Escherichia coli] gi|209765926|gb|ACI81275.1| 16S pseudouridylate 516 synthase [Escherichia coli] gi|209912902|dbj|BAG77976.1| ribosomal small subunit pseudouridine synthase [Escherichia coli SE11] gi|215265477|emb|CAS09878.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli O127:H6 str. E2348/69] gi|217319897|gb|EEC28322.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli O157:H7 str. TW14588] gi|218352530|emb|CAU98307.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli 55989] gi|218365873|emb|CAR03614.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli S88] gi|218370641|emb|CAR18450.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli IAI39] gi|218432812|emb|CAR13706.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli UMN026] gi|222033944|emb|CAP76685.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli LF82] gi|226901022|gb|EEH87281.1| ribosomal small subunit pseudouridine synthase A [Escherichia sp. 3_2_53FAA] gi|227835590|gb|EEJ46056.1| 16S rRNA pseudouridylate synthase A [Escherichia coli 83972] gi|238859736|gb|ACR61734.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli BW2952] gi|242377823|emb|CAQ32589.1| 16S rRNA pseudouridine 516 synthase [Escherichia coli BL21(DE3)] gi|253323934|gb|ACT28536.1| pseudouridine synthase [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|253974099|gb|ACT39770.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli B str. REL606] gi|253978266|gb|ACT43936.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli BL21(DE3)] gi|254593484|gb|ACT72845.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli O157:H7 str. TW14359] gi|257754806|dbj|BAI26308.1| 16S rRNA pseudouridylate 516 synthase RsuA [Escherichia coli O26:H11 str. 11368] gi|257759936|dbj|BAI31433.1| 16S rRNA pseudouridylate 516 synthase RsuA [Escherichia coli O103:H2 str. 12009] gi|257765240|dbj|BAI36735.1| 16S rRNA pseudouridylate 516 synthase RsuA [Escherichia coli O111:H- str. 11128] gi|260448722|gb|ACX39144.1| pseudouridine synthase [Escherichia coli DH1] gi|281179275|dbj|BAI55605.1| ribosomal small subunit pseudouridine synthase [Escherichia coli SE15] gi|284922167|emb|CBG35249.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli 042] gi|290763310|gb|ADD57271.1| Pseudouridine synthase [Escherichia coli O55:H7 str. CB9615] gi|291323365|gb|EFE62793.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli B088] gi|291427859|gb|EFF00886.1| 16S rRNA pseudouridylate synthase A [Escherichia coli FVEC1412] gi|291433117|gb|EFF06096.1| 16S rRNA pseudouridylate synthase A [Escherichia coli B185] gi|291471015|gb|EFF13499.1| 16S rRNA pseudouridylate synthase A [Escherichia coli B354] gi|294489663|gb|ADE88419.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli IHE3034] gi|298278775|gb|EFI20289.1| 16S rRNA pseudouridylate synthase A [Escherichia coli FVEC1302] gi|299880416|gb|EFI88627.1| conserved hypothetical protein [Escherichia coli MS 196-1] gi|300299299|gb|EFJ55684.1| conserved hypothetical protein [Escherichia coli MS 185-1] gi|300307508|gb|EFJ62028.1| hypothetical protein HMPREF9553_01804 [Escherichia coli MS 200-1] gi|300316339|gb|EFJ66123.1| hypothetical protein HMPREF9547_02661 [Escherichia coli MS 175-1] gi|300358471|gb|EFJ74341.1| conserved hypothetical protein [Escherichia coli MS 198-1] gi|300398295|gb|EFJ81833.1| conserved hypothetical protein [Escherichia coli MS 69-1] gi|300408703|gb|EFJ92241.1| conserved hypothetical protein [Escherichia coli MS 45-1] gi|300414074|gb|EFJ97384.1| conserved hypothetical protein [Escherichia coli MS 115-1] gi|300417720|gb|EFK01031.1| hypothetical protein HMPREF9548_04311 [Escherichia coli MS 182-1] gi|300450542|gb|EFK14162.1| conserved hypothetical protein [Escherichia coli MS 116-1] gi|300459692|gb|EFK23185.1| conserved hypothetical protein [Escherichia coli MS 21-1] gi|300461741|gb|EFK25234.1| conserved hypothetical protein [Escherichia coli MS 187-1] gi|300524836|gb|EFK45905.1| conserved hypothetical protein [Escherichia coli MS 119-7] gi|300528273|gb|EFK49335.1| conserved hypothetical protein [Escherichia coli MS 107-1] gi|300845059|gb|EFK72819.1| conserved hypothetical protein [Escherichia coli MS 78-1] gi|301077507|gb|EFK92313.1| conserved hypothetical protein [Escherichia coli MS 146-1] gi|306908743|gb|EFN39240.1| pseudouridine synthase [Escherichia coli W] gi|307554252|gb|ADN47027.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli ABU 83972] gi|307626276|gb|ADN70580.1| 16S rRNA pseudouridylate synthase A [Escherichia coli UM146] gi|308123353|gb|EFO60615.1| conserved hypothetical protein [Escherichia coli MS 145-7] gi|309702498|emb|CBJ01824.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli ETEC H10407] gi|312287680|gb|EFR15585.1| conserved hypothetical protein [Escherichia coli 2362-75] gi|312946803|gb|ADR27630.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O83:H1 str. NRG 857C] gi|313651297|gb|EFS15695.1| hypothetical protein SF2457T_0264 [Shigella flexneri 2a str. 2457T] gi|315061493|gb|ADT75820.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli W] gi|315136817|dbj|BAJ43976.1| pseudouridine synthase [Escherichia coli DH1] gi|315285741|gb|EFU45181.1| conserved hypothetical protein [Escherichia coli MS 110-3] gi|315294447|gb|EFU53795.1| conserved hypothetical protein [Escherichia coli MS 153-1] gi|315297949|gb|EFU57219.1| conserved hypothetical protein [Escherichia coli MS 16-3] gi|315615429|gb|EFU96061.1| RNA pseudouridylate synthase family protein [Escherichia coli 3431] gi|320174783|gb|EFW49909.1| 16S rRNA pseudouridylate synthase A [Shigella dysenteriae CDC 74-1112] gi|320178861|gb|EFW53824.1| 16S rRNA pseudouridylate synthase A [Shigella boydii ATCC 9905] gi|320184699|gb|EFW59492.1| 16S rRNA pseudouridylate synthase A [Shigella flexneri CDC 796-83] gi|320192188|gb|EFW66833.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 str. EC1212] gi|320199781|gb|EFW74370.1| 16S rRNA pseudouridylate synthase A [Escherichia coli EC4100B] gi|320641254|gb|EFX10732.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 str. G5101] gi|320646643|gb|EFX15554.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H- str. 493-89] gi|320651898|gb|EFX20273.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H- str. H 2687] gi|320657623|gb|EFX25421.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O55:H7 str. 3256-97 TW 07815] gi|320663228|gb|EFX30537.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O55:H7 str. USDA 5905] gi|323152225|gb|EFZ38515.1| RNA pseudouridylate synthase [Escherichia coli EPECa14] gi|323161735|gb|EFZ47617.1| RNA pseudouridylate synthase [Escherichia coli E128010] gi|323171836|gb|EFZ57480.1| RNA pseudouridylate synthase [Escherichia coli LT-68] gi|323176916|gb|EFZ62506.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli 1180] gi|323184191|gb|EFZ69568.1| RNA pseudouridylate synthase [Escherichia coli 1357] gi|323188090|gb|EFZ73385.1| RNA pseudouridylate synthase [Escherichia coli RN587/1] gi|323377926|gb|ADX50194.1| pseudouridine synthase [Escherichia coli KO11] gi|323936800|gb|EGB33085.1| RNA pseudouridylate synthase [Escherichia coli E1520] gi|323940746|gb|EGB36934.1| RNA pseudouridylate synthase [Escherichia coli E482] gi|323951979|gb|EGB47853.1| RNA pseudouridylate synthase [Escherichia coli H252] gi|323955953|gb|EGB51706.1| RNA pseudouridylate synthase [Escherichia coli H263] gi|323961577|gb|EGB57184.1| RNA pseudouridylate synthase [Escherichia coli H489] gi|323972934|gb|EGB68131.1| RNA pseudouridylate synthase [Escherichia coli TA007] gi|324006506|gb|EGB75725.1| hypothetical protein HMPREF9532_03776 [Escherichia coli MS 57-2] gi|324013929|gb|EGB83148.1| hypothetical protein HMPREF9533_01960 [Escherichia coli MS 60-1] gi|324020657|gb|EGB89876.1| hypothetical protein HMPREF9542_00685 [Escherichia coli MS 117-3] gi|324117976|gb|EGC11875.1| RNA pseudouridylate synthase [Escherichia coli E1167] gi|326339539|gb|EGD63350.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 str. 1125] gi|326344000|gb|EGD67761.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 str. 1044] gi|330912016|gb|EGH40526.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli AA86] gi|331039610|gb|EGI11830.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli H736] gi|331043563|gb|EGI15701.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli M605] gi|331048466|gb|EGI20542.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli M718] gi|331056512|gb|EGI28521.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli TA206] gi|331059487|gb|EGI31464.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli TA143] gi|331064081|gb|EGI35992.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli TA271] gi|331068978|gb|EGI40370.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli TA280] gi|331074597|gb|EGI45917.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli H591] gi|332093691|gb|EGI98749.1| ribosomal small subunit pseudouridine synthase A [Shigella boydii 3594-74] gi|332096238|gb|EGJ01241.1| ribosomal small subunit pseudouridine synthase A [Shigella dysenteriae 155-74] gi|332101011|gb|EGJ04357.1| 16S rRNA pseudouridylate 516 synthase [Shigella sp. D9] gi|332343965|gb|AEE57299.1| conserved hypothetical protein [Escherichia coli UMNK88] gi|332754826|gb|EGJ85191.1| ribosomal small subunit pseudouridine synthase A [Shigella flexneri 4343-70] gi|332755230|gb|EGJ85594.1| ribosomal small subunit pseudouridine synthase A [Shigella flexneri K-671] gi|332756177|gb|EGJ86528.1| ribosomal small subunit pseudouridine synthase A [Shigella flexneri 2747-71] gi|332765997|gb|EGJ96207.1| 16S rRNA pseudouridine synthase [Shigella flexneri 2930-71] gi|333001324|gb|EGK20892.1| ribosomal small subunit pseudouridine synthase A [Shigella flexneri VA-6] gi|333001796|gb|EGK21362.1| ribosomal small subunit pseudouridine synthase A [Shigella flexneri K-218] gi|333002908|gb|EGK22464.1| ribosomal small subunit pseudouridine synthase A [Shigella flexneri K-272] gi|333016616|gb|EGK35945.1| ribosomal small subunit pseudouridine synthase A [Shigella flexneri K-304] gi|333016912|gb|EGK36236.1| ribosomal small subunit pseudouridine synthase A [Shigella flexneri K-227] Length = 231 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 102/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEV--ITPTQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >gi|229524219|ref|ZP_04413624.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae bv. albensis VL426] gi|229337800|gb|EEO02817.1| ribosomal large subunit pseudouridine synthase F [Vibrio cholerae bv. albensis VL426] Length = 328 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 76/303 (25%), Positives = 133/303 (43%), Gaps = 9/303 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ G SRRE +++I Q RV +NG L V D + +DG PLR E Sbjct: 5 TEKRLNKFISETGYCSRREADKLIEQGRVTLNG-LQPEVGSKVTDQDEVCIDGKPLRSKE 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 64 RPIYIALNKPTGITCT-TERDVPGNIVDFI-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR + + + + G+ I +VT +TQ + Sbjct: 122 NKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVTQETQYS----FRI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 178 VLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILAMCEDS 237 Query: 252 EAQVNLDAPIYSSETLVR--DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 S +T+ R D S + ++ ++N +G + Q+ P ++ Sbjct: 238 SGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNSKKA 297 Query: 310 LAS 312 Sbjct: 298 QRR 300 >gi|320667979|gb|EFX34882.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 str. LSU-61] Length = 231 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 103/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D + KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTADQFAKGVQLHNEKDLTKPAVLEV--ITPTQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >gi|28897524|ref|NP_797129.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus RIMD 2210633] gi|260879260|ref|ZP_05891615.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus AN-5034] gi|260897564|ref|ZP_05906060.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus Peru-466] gi|260903534|ref|ZP_05911929.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus AQ4037] gi|28805736|dbj|BAC59013.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus RIMD 2210633] gi|308086349|gb|EFO36044.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus Peru-466] gi|308089664|gb|EFO39359.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus AN-5034] gi|308110853|gb|EFO48393.1| ribosomal large subunit pseudouridine synthase F [Vibrio parahaemolyticus AQ4037] Length = 371 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 71/349 (20%), Positives = 142/349 (40%), Gaps = 14/349 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + Q+N R++K I+ G SRR +++I + RV +NG V+ D + VDG Sbjct: 1 MSQDNAK--RLNKFISETGFCSRRAADKLIEEGRVTINGKQP-EMGTKVLPGDDVCVDGK 57 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+ E+ +KP G+ T ++ D + D + R+ +GRLD ++GL+ LT Sbjct: 58 PVASKEKPIYIALNKPTGITCT-TERDIPGNIVDFI-GHKKRIFPIGRLDKPSDGLIFLT 115 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y VR + + L + G+ I +VT +T+ Sbjct: 116 NDGDIVNKILRAGNNHEKEYVVRVDKPITDEFLKQMSSGVRILDTVTLPCKVTKETKFS- 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E ++V +L R+ L + G R ++ + E L Sbjct: 175 ---FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLTDDEVAEIL 231 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 + + V + + R +++ D + +++++N ++ + Sbjct: 232 A---MCDGSVGTEEASKTDSRGRNIRKATDAKLFDSREENQGSTARRNQKTRTFRGNNAD 288 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R+ A N + D R + + + + Sbjct: 289 EFRH-APNSKKGQQKRRQR-DDESSRPAKEHYKAKTQGEHAKPQGEHGR 335 >gi|238926990|ref|ZP_04658750.1| pseudouridylate synthase [Selenomonas flueggei ATCC 43531] gi|238885224|gb|EEQ48862.1| pseudouridylate synthase [Selenomonas flueggei ATCC 43531] Length = 290 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 79/232 (34%), Positives = 124/232 (53%), Gaps = 1/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN-VMSTDHIEVDGVPLRKAER 72 +R+ K+I+ AG ASRR E +I RV V+G+ + + I VDG P+R+ ER Sbjct: 3 ERLQKIISNAGAASRRAAEALIRAGRVTVDGLPVTALGGKYDAARHEIAVDGTPIRRNER 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L HKP G ++T D GR TV D LP +R+ VGRLD +TEGLL++TNDG + + Sbjct: 63 RFYILLHKPRGCLSTAYDDRGRRTVLDLLPHFPARLYPVGRLDADTEGLLIITNDGAMTQ 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VYR G V +D L L+ GI++ ++ + ++G V Sbjct: 123 GLLHPRFEIDKVYRAEVTGNVTEDGLTALRNGILLDDGRTAPARLRVLHREGERTVVETI 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+ R+++++F +V RL R+ + L + GS R ++ + E Sbjct: 183 IHEGRKRQVRRMFAAIGCRVQRLCRVRFAMLTLDGVSCGSFRHLTSDEIHEL 234 >gi|210633114|ref|ZP_03297681.1| hypothetical protein COLSTE_01590 [Collinsella stercoris DSM 13279] gi|210159268|gb|EEA90239.1| hypothetical protein COLSTE_01590 [Collinsella stercoris DSM 13279] Length = 282 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 81/258 (31%), Positives = 122/258 (47%), Gaps = 13/258 (5%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 E P R+ + +ARAG+ASRR E +++ RV VNG + V D + VDGVP Sbjct: 22 DERVVPMRLQRFLARAGVASRRGSEALMSAGRVSVNGEVKTELGTKVDPAIDQVAVDGVP 81 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLT 125 + + +KP G++TT SDP GR V D +P + + VGRLD++T GLLL T Sbjct: 82 VVLGVGAAYLMLNKPAGVLTTMSDPHGRPCVADIMPVRSYPGLFPVGRLDMDTTGLLLFT 141 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--- 182 DG L L PS + Y G + L L++GIV+ + L + Sbjct: 142 TDGDLGHALLHPSRHVWKTYVAVVDGVCREGDLEPLRRGIVLDDGPCQPARCALRDERDV 201 Query: 183 --------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + V + +REG+ ++K++ V RL R+ +GP +L L GS R Sbjct: 202 RDIAPRGLRAGTTAVRIEIREGRKNQVKRMLSKIGHPVLRLHRLRFGPLELNDLPCGSWR 261 Query: 235 EVSKKILREQLGPHLLEE 252 E++ + +EE Sbjct: 262 ELTPTEVAALQSTPAVEE 279 >gi|187733584|ref|YP_001879484.1| 16S rRNA pseudouridylate synthase A [Shigella boydii CDC 3083-94] gi|187430576|gb|ACD09850.1| ribosomal small subunit pseudouridine synthase A [Shigella boydii CDC 3083-94] Length = 231 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 102/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRYHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEV--ITPTQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >gi|238751859|ref|ZP_04613346.1| Ribosomal small subunit pseudouridine synthase A [Yersinia rohdei ATCC 43380] gi|238709988|gb|EEQ02219.1| Ribosomal small subunit pseudouridine synthase A [Yersinia rohdei ATCC 43380] Length = 235 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 57/237 (24%), Positives = 109/237 (45%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ + Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQMVGS 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + L+ + V + L Sbjct: 121 ITSPRHHCEKTYLVTLEHPLADDTAQQFADGVQLHNEKSLTKPAQLEVIEP--QLVRLTL 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G +L L G R ++ + + PHL Sbjct: 179 SEGRYHQVKRMFAAVGNRVLELHRERIGAIKLDDDLAPGEYRRLTAEEIASVGAPHL 235 >gi|254518907|ref|ZP_05130963.1| pseudouridine synthase [Clostridium sp. 7_2_43FAA] gi|226912656|gb|EEH97857.1| pseudouridine synthase [Clostridium sp. 7_2_43FAA] Length = 242 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 67/235 (28%), Positives = 119/235 (50%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +AR G+ASRR+ E +I +VK+N ++ V + D + +G + E Sbjct: 3 ERLQKYMARCGVASRRKCEEIILSSKVKINDKVVNELGVKIDPYKDKVFYNGKRILPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ D GR T+ D + + R+ +GRLD ++ GL+LLTNDG + Sbjct: 63 KLYIMLNKPEGYITSVKDEKGRKTILDLV-KVNERIYPIGRLDYDSSGLILLTNDGDIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS------N 186 + P + + Y G +++ + GI I G + ++ L ++ N Sbjct: 122 KIIHPRVEVEKKYIALCKGVFSDEEIKKFENGIDIGGYITANAKIKLIDKEKDKKTNTVN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + + EGKNR+I+K+ +V L R++ G +LG L G R +++ L Sbjct: 182 SLVEIIIHEGKNRQIRKMCSALGHEVITLKRVAVGDIKLGYLKRGEWRNLTEDEL 236 >gi|218549599|ref|YP_002383390.1| 16S rRNA pseudouridylate synthase A [Escherichia fergusonii ATCC 35469] gi|218357140|emb|CAQ89774.1| 16S rRNA pseudouridylate 516 synthase [Escherichia fergusonii ATCC 35469] gi|324114400|gb|EGC08369.1| RNA pseudouridylate synthase [Escherichia fergusonii B253] Length = 231 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 102/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHEVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEV--ITPTQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEV 227 >gi|238761999|ref|ZP_04622972.1| Ribosomal small subunit pseudouridine synthase A [Yersinia kristensenii ATCC 33638] gi|238699727|gb|EEP92471.1| Ribosomal small subunit pseudouridine synthase A [Yersinia kristensenii ATCC 33638] Length = 246 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 57/237 (24%), Positives = 108/237 (45%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ Sbjct: 12 MRLDKFLSQQLGVSRALVARELRAKRVTIDGEIVKSGAIKLTPEQDVRFDGNPLQQTVGP 71 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 72 RYFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 131 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D G+ + L+ + V + + Sbjct: 132 ITSPRHHCEKTYLVTLEHPVADDTAQQFTDGVQLHNEKSLTKPAQLEVIEP--QLVRLTI 189 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G +L L G R ++ + + PHL Sbjct: 190 SEGRYHQVKRMFGAVGNRVLELHRERIGDIKLDDDLAPGEYRPLTAEEIASVGAPHL 246 >gi|139439675|ref|ZP_01773088.1| Hypothetical protein COLAER_02116 [Collinsella aerofaciens ATCC 25986] gi|133775016|gb|EBA38836.1| Hypothetical protein COLAER_02116 [Collinsella aerofaciens ATCC 25986] Length = 321 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 88/292 (30%), Positives = 136/292 (46%), Gaps = 16/292 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAE 71 R+ + +ARAG+ASRR E ++ RV VNG++ V DHIEVDGVP++ + Sbjct: 29 TMRLQRFLARAGVASRRGSEDLMTAGRVTVNGLVATELGTKVDVDRDHIEVDGVPVKLNQ 88 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G +TT SDP R V D +P + F + VGRLD +T GLLL T DG L Sbjct: 89 GAVYLMLYKPTGYLTTMSDPQERPCVADLVPRNRFPGLFPVGRLDRDTTGLLLFTTDGDL 148 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-----------QVTL 179 ++ L PS + Y+ GQ+ L+ L++GI + V Sbjct: 149 SQDLLHPSKHVHKTYQALVDGQLTDRDLDQLRRGIELDDGLCQPAICRVINAREAVAVAP 208 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 K V V +REG+ ++K++ + V RL R ++ +L + GS RE++ + Sbjct: 209 QGVKPGTTAVEVIIREGRKNQVKRMLGKIHHPVIRLHRCNFAGLELEGVAKGSWRELTDR 268 Query: 240 I---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 L+ P A+ N D P + + R + S + R + Sbjct: 269 EVQILKSGGIPPKQASAKRNGDKPQDTPASRTRHHGSHGSAPKRNTYRERYT 320 >gi|193068120|ref|ZP_03049084.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli E110019] gi|331683863|ref|ZP_08384459.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli H299] gi|192958399|gb|EDV88838.1| ribosomal small subunit pseudouridine synthase A [Escherichia coli E110019] gi|323945000|gb|EGB41065.1| RNA pseudouridylate synthase [Escherichia coli H120] gi|331078815|gb|EGI50017.1| ribosomal small subunit pseudouridine synthase A (16Spseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) [Escherichia coli H299] Length = 231 Score = 274 bits (701), Expect = 2e-71, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 102/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLVQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEV--ITPTQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >gi|164688313|ref|ZP_02212341.1| hypothetical protein CLOBAR_01958 [Clostridium bartlettii DSM 16795] gi|164602726|gb|EDQ96191.1| hypothetical protein CLOBAR_01958 [Clostridium bartlettii DSM 16795] Length = 237 Score = 274 bits (701), Expect = 2e-71, Method: Composition-based stats. Identities = 70/232 (30%), Positives = 122/232 (52%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R++K IA G+ASRR+ E +I RV VN ++ + V D ++VD +++ + Sbjct: 1 MRINKYIALCGVASRRKAEELILAGRVTVNDEVMTELSYKVDEENDIVKVDDKLIKEENK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G +TT D R +V D + I RV +GRLD T GLLLLTNDG L Sbjct: 61 LVYILLNKPEGYITTVKDQFDRPSVLDLVSDIKERVYPIGRLDYETSGLLLLTNDGDLTY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 L P + + Y R G++ ++++ K G+ I+ ++ + ++ ++ + Sbjct: 121 KLTHPKHEVDKTYVARVKGKLTKEEIERFKTGLKIEDYTTAPAKLKVIKYDEQRDSSLLE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EGKNR+++K+ + N V RL R + G ++G G R +++ ++ Sbjct: 181 IKIHEGKNRQVRKMCKAINHPVLRLRRSAMGKIKIGDCEIGKYRYLTEDEIK 232 >gi|299535393|ref|ZP_07048715.1| putative RNA pseudouridine synthase ytzF [Lysinibacillus fusiformis ZC1] gi|298729154|gb|EFI69707.1| putative RNA pseudouridine synthase ytzF [Lysinibacillus fusiformis ZC1] Length = 237 Score = 274 bits (701), Expect = 2e-71, Method: Composition-based stats. Identities = 73/240 (30%), Positives = 120/240 (50%), Gaps = 8/240 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-VDGVPLRKAER 72 R+ K++A G SR+EV++++ Q+ V V+G ++ AA++V I V G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKQLLKQKAVTVDGAYVKDAALHVDPEQQIVSVFGERVVYTE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D TV D L + VGRLD +TEGLLLLTNDG L Sbjct: 60 FVYFIMNKPPGVISATEDLRD-ETVIDLLEPLHQHFQPFPVGRLDKDTEGLLLLTNDGHL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L P +VY + G V ++ GI + G ++ + + + + Sbjct: 119 AHNLLSPKKHVPKVYYAQIEGVVTEEDAEKFANGIELDDGYVTKPGKLVIL-KSAQQSEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + ++EGK ++K++FE +V L RIS G +L L G RE++ + L + H Sbjct: 178 ELTIQEGKFHQVKRMFEAVGKRVTYLKRISMGSLKLDENLALGEYRELTAEELNDLQNNH 237 >gi|241896291|ref|ZP_04783587.1| pseudouridylate synthase [Weissella paramesenteroides ATCC 33313] gi|241870452|gb|EER74203.1| pseudouridylate synthase [Weissella paramesenteroides ATCC 33313] Length = 255 Score = 274 bits (701), Expect = 2e-71, Method: Composition-based stats. Identities = 83/241 (34%), Positives = 127/241 (52%), Gaps = 11/241 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A+AG+ASRR E+MI + +V VNG ++ V TDHIEV+G P+ E+ Sbjct: 3 ERLQKVMAQAGVASRRASEKMITEGQVTVNGQVIRELGTKVEPTDHIEVNGTPIDSKEKL 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L KP G+VTT+SD GR TV D + RV VGRLD +T G LLLTNDG LA Sbjct: 63 VYFLLDKPRGVVTTNSDDKGRQTVMDIVDEP-ERVYPVGRLDYDTTGALLLTNDGDLANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--------YGDMQVTLDT--QK 183 L P + +VY + G ++L L+ G+ ++ + + + +K Sbjct: 122 LMHPKYRIDKVYVAKVKGIPTNEELEKLRHGVTVKTVQNGRHYTFNAAPAHAEILSTDKK 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 A V + + EGK ++K++ + +V +L R YG L L G R + + ++ Sbjct: 182 KHTAIVKLTIHEGKYHQVKEMLKSVGHEVIKLTRERYGMLDLTGLTPGEYRPLRHEEVQA 241 Query: 244 Q 244 Sbjct: 242 L 242 >gi|261880058|ref|ZP_06006485.1| ribosomal large subunit pseudouridine synthase B [Prevotella bergensis DSM 17361] gi|270333299|gb|EFA44085.1| ribosomal large subunit pseudouridine synthase B [Prevotella bergensis DSM 17361] Length = 253 Score = 274 bits (701), Expect = 2e-71, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 117/242 (48%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AGI SRRE + I V VNG ++ V+ +D + Sbjct: 5 IEYKEDHIDPNEPLRLNKFLANAGICSRREADEFIQAGVVTVNGEVVTELGTKVLRSDEV 64 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ E+ L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 65 KFRDQPVTL-EKKVYVLLNKPKNYVTTSDDPQQRKTVMDLVKDACPERIYPVGRLDRNTT 123 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG +A L P +VY V + + L + +GI ++ V Sbjct: 124 GVLLLTNDGDMASKLTHPKFLKKKVYHVFLDKNIGVEDLQKIAEGIELEDGEIHADAVEY 183 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + V + + G+NR ++++FE ++V RL R+ + L G R ++++ Sbjct: 184 ANEN-DKSQVGIEIHSGRNRIVRRIFEALGYRVVRLDRVLFAGLTKKNLRRGDWRFLTEQ 242 Query: 240 IL 241 + Sbjct: 243 EV 244 >gi|307130686|ref|YP_003882702.1| 16S rRNA pseudouridylate 516 synthase [Dickeya dadantii 3937] gi|306528215|gb|ADM98145.1| 16S rRNA pseudouridylate 516 synthase [Dickeya dadantii 3937] Length = 232 Score = 274 bits (701), Expect = 2e-71, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 106/229 (46%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + QRV VNG +++ A ++ + DG L + Sbjct: 1 MRLDKFLSQQLGISRALVARELRAQRVTVNGEVIKSGAFKLLPEHEVAFDGNVLEQQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTILYFIDEPVAHKLHAAGRLDIDTSGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D + + G+ + G TL+ + S V + + Sbjct: 121 ITSPKHHCEKTYLVTLEQPLAPDTADNFQAGVQLHGEKNLTRPATLE--QISEHQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++ + + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVALHRERIGAITLDDALEPGEYRPLTPEEV 227 >gi|225867942|ref|YP_002743890.1| ribosomal large subunit pseudouridine synthase B [Streptococcus equi subsp. zooepidemicus] gi|225871142|ref|YP_002747089.1| ribosomal large subunit pseudouridine synthase B [Streptococcus equi subsp. equi 4047] gi|225700546|emb|CAW95028.1| ribosomal large subunit pseudouridine synthase B [Streptococcus equi subsp. equi 4047] gi|225701218|emb|CAW98156.1| ribosomal large subunit pseudouridine synthase B [Streptococcus equi subsp. zooepidemicus] Length = 240 Score = 274 bits (701), Expect = 2e-71, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 129/233 (55%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I + V +NG ++ A V S D +EV+G+P+ E Sbjct: 1 MRINKYIAHAGLASRRKAEELIKRGLVTLNGQVITDLATTVKSGDLVEVEGIPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++++ SD GR TV D LP + R+ VGRLD +T GLL+LTNDG Sbjct: 60 VYYLLNKPRGVISSVSDDKGRQTVIDLLPQVKERIYPVGRLDWDTSGLLILTNDGDFTDK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 + P + +VY R G V ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGVVTKESLRPLTRGVVIDGKKTKPARYRIIRVEPDKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG++ ++KK+FE V++L R +G + L G R +SKK + + Sbjct: 180 TIHEGRHHQVKKMFEVVGHLVDKLSRTQFGSLDVRGLKPGEARRLSKKEVSQL 232 >gi|119962911|ref|YP_947435.1| RNA pseudouridine synthase [Arthrobacter aurescens TC1] gi|119949770|gb|ABM08681.1| putative RNA pseudouridine synthase [Arthrobacter aurescens TC1] Length = 404 Score = 274 bits (701), Expect = 2e-71, Method: Composition-based stats. Identities = 84/241 (34%), Positives = 128/241 (53%), Gaps = 4/241 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 + R+ KV+A+AG+ASRR E MI + RV+V+G++ + V T I VDG+ ++ Sbjct: 160 DVDGVRLQKVMAQAGVASRRVCEEMILEGRVEVDGVVTTELGMRVDPTSAVIHVDGIRIQ 219 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLT 125 E +++KP G+V+T DP+GR + D L + R+ VGRLD+ TEGLLLLT Sbjct: 220 LDETLVYMVFNKPKGVVSTMEDPEGRPCISDFLKNNKNKGERLFHVGRLDVATEGLLLLT 279 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + + Y V+ G Q LK G+ ++ L Sbjct: 280 NDGELANRLTHPSYEVPKTYLVQVRGPFPQGVGAKLKNGVELEDGVAAVDSFRLVDSTPG 339 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + + V L GKNR ++++F+ + V RL+R+ GP LG GS R + ++ + L Sbjct: 340 HVLIEVVLHSGKNRIVRRMFDAVGFPVERLVRVKVGPIGLGDQRQGSIRNLGRQEVGHLL 399 Query: 246 G 246 Sbjct: 400 A 400 >gi|318606383|emb|CBY27881.1| ribosomal small subunit pseudouridine synthase A [Yersinia enterocolitica subsp. palearctica Y11] Length = 235 Score = 274 bits (701), Expect = 2e-71, Method: Composition-based stats. Identities = 56/237 (23%), Positives = 108/237 (45%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQTVGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLEQPIADDTAQQFTDGVQLHNEKSLTKPAQLEVIEP--QLVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G +L L G R ++ + + PHL Sbjct: 179 SEGRYHQVKRMFAAAGNRVLELHRERIGDIKLDDDLAPGEYRPLTPEEIASVGAPHL 235 >gi|226310436|ref|YP_002770330.1| pseudouridine synthase [Brevibacillus brevis NBRC 100599] gi|226093384|dbj|BAH41826.1| pseudouridine synthase [Brevibacillus brevis NBRC 100599] Length = 228 Score = 274 bits (701), Expect = 2e-71, Method: Composition-based stats. Identities = 68/231 (29%), Positives = 119/231 (51%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ GI SRRE +++I +RV +NG L E + V S D + +DG PL ++ Sbjct: 1 MRINKFISETGICSRREADKLIESKRVTINGQLAELGST-VASGDDVRIDGQPLGVKKKD 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T ++ + + D + + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-TELHVKGNIIDFV-NHPERIFPIGRLDKDSQGLILLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + L+ + G+ I G +VT K S+ + L Sbjct: 118 ILRAENNHDKEYIVTVDKPITANFLHGMANGVRILGTTTKPCKVT----KVSDRVFNIVL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +G NR+I+++ + F ++V +L RI LG L G R ++ K L + Sbjct: 174 TQGLNRQIRRMCQAFGYQVRKLERIRIMNIALGNLKLGQWRNLTAKELTDL 224 >gi|261367368|ref|ZP_05980251.1| ribosomal large subunit pseudouridine synthase B [Subdoligranulum variabile DSM 15176] gi|282570129|gb|EFB75664.1| ribosomal large subunit pseudouridine synthase B [Subdoligranulum variabile DSM 15176] Length = 267 Score = 273 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 82/270 (30%), Positives = 133/270 (49%), Gaps = 7/270 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV--PLR 68 QR+ KV+A GI SRRE ER+IA +VKVNG + D + +DG + Sbjct: 1 MAEQRIQKVLADQGICSRREAERLIAAGKVKVNGRPVGLGDKMDPDYDKVSIDGKNVRIV 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + + HKP G +TT SD GR TV D + + + + VGRLD ++EGLLL+T+DG Sbjct: 61 RKRQYTYIMLHKPRGYLTTRSDDRGRKTVMDLVADVPAMLRPVGRLDKDSEGLLLMTDDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNA 187 +L PS ++YRV + + ++++ + G+V+ G+ + + T + Sbjct: 121 AFINLLTHPSGGVGKLYRVTVNPRATEEQVVQMASGVVLDDGVRTQPCVIHVVTDEPGRT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + L EG+NR+I+++ +V RL R + GP +LG L G RE+ K + Sbjct: 181 VLEITLHEGRNRQIRRMCSAVGLQVVRLKRSAEGPVKLGMLQPGEYRELKKSEVSALRN- 239 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 + AP+ R P + Sbjct: 240 ---AAQKNTRSAPVREENAPRRPGPLPRKK 266 >gi|310658781|ref|YP_003936502.1| rlub [Clostridium sticklandii DSM 519] gi|308825559|emb|CBH21597.1| RluB [Clostridium sticklandii] Length = 235 Score = 273 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 77/229 (33%), Positives = 118/229 (51%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA GIASRR+ E MI + RV++N ++ + V D +++DG + K E Sbjct: 1 MRINKFIASCGIASRRKAEEMIQEGRVRINDSVVSDLSTKVSEIDIVKIDGKIISKVEEK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KPIG V+T D GR +V D R+ VGRLD ++ GLLL+TNDG L Sbjct: 61 YYYMLNKPIGYVSTAKDQFGRPSVVDFFDKK-QRIYPVGRLDYDSRGLLLMTNDGDLTYA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P ++Y V + ++ K GI I G ++T N V + Sbjct: 120 LTHPKYHIEKIYEVIVSSTLSNSEIEKFKSGIDIGGYVTAKSRITFIG----NTSYEVII 175 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +EGKNR+I+K+F V L R+S G +L L G+ R++ + + Sbjct: 176 KEGKNRQIRKMFSALGKDVLDLKRVSIGKLKLMDLKEGTYRKLINEEVE 224 >gi|118444164|ref|YP_878165.1| ribosomal large subunit pseudouridine synthase B [Clostridium novyi NT] gi|118134620|gb|ABK61664.1| ribosomal large subunit pseudouridine synthase B [Clostridium novyi NT] Length = 236 Score = 273 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 66/230 (28%), Positives = 110/230 (47%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I RVKVNG ++ V D + VD + E+ Sbjct: 3 ERLQKYMASCGVASRRKCEEIIISNRVKVNGTIVNELGFKVDPSKDKVYVDSKLIFLEEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G V+T D R T+ D + + R+ +GRLD NT GLLL+TNDG + Sbjct: 63 KVYIALNKPEGYVSTVKDERNRKTIMDLV-EVEERIFPIGRLDYNTSGLLLMTNDGDIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY G ++++ G+ I + + + V + Sbjct: 122 KIIHPRKEIDKVYIAIIKGVPSDEEIHKFCNGLDIGDYITSKANFEVIDKLEDKSKVRIT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++++ + V L RIS G L L R +++ ++ Sbjct: 182 IHEGKNRQVRRMCDKIGHPVIALKRISVGKISLNNLKRSQWRYLNESEIK 231 >gi|328473478|gb|EGF44326.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus 10329] Length = 371 Score = 273 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 68/332 (20%), Positives = 141/332 (42%), Gaps = 10/332 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRR +++I + RV +NG V+ D + VDG P+ E+ Sbjct: 8 RLNKFISETGFCSRRAADKLIEEGRVTINGKQP-EMGTKVLPGDDVCVDGKPVASKEKPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCT-TERDIPGNIVDFI-GHKKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + L + G+ I +VT +T+ + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITDEFLKQMSSGVRILDTVTLPCKVTKETKFS----FRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R ++ + E L + + Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLTDDEVAEILA---MCDGS 237 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNV 314 V + + R +++ D + +++++N ++ + R+ ++ Sbjct: 238 VGTEEASKTDSRGRNIRKATDAKLFDSREENQGSTARRNQKTRTFRGNNADEFRHAPNSK 297 Query: 315 WMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 + +S +E+++ P + Sbjct: 298 KGQQKRRQRDDENSRPAKEHYKAKPQGERAKP 329 >gi|312884985|ref|ZP_07744674.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio caribbenthicus ATCC BAA-2122] gi|309367317|gb|EFP94880.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio caribbenthicus ATCC BAA-2122] Length = 342 Score = 273 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 70/294 (23%), Positives = 132/294 (44%), Gaps = 10/294 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +N + VM D + +DG PL + E+T Sbjct: 8 RLNKYISETGFCSRREADKLIEQGRVSINDSVP-EMGTKVMPDDKVCIDGKPLSQKEKTI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T ++ D + D + R+ +GRLD ++GL+LLTNDG + + Sbjct: 67 YIALNKPTGITCT-TERDVPGNIVDFI-GHKKRIFPIGRLDKPSDGLILLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + ++ + G+ I +V +T+ + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITKKFVDQMSSGVEILDTKTLPCKVIQETKFS----FRITLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R +S + E L + E+ Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGQWRYLSDHEVTEILS---MCESS 237 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 N + + + +++ D K +++++N + K R Sbjct: 238 SNTEEASQRDAKGTQIKSATDAKLFDSREENKASTARRNQKQRTFKGRNADEFR 291 >gi|104782896|ref|YP_609394.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas entomophila L48] gi|95111883|emb|CAK16607.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas entomophila L48] Length = 353 Score = 273 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 109/360 (30%), Positives = 170/360 (47%), Gaps = 30/360 (8%) Query: 1 MKDKNIVQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M DK++ + TP +++ KV+AR G+ SRR+VE I Q R+KVNG+ + V Sbjct: 1 MSDKDLQDQQPTPPSGEKLQKVLARIGVGSRRDVEAWIGQGRIKVNGVEAT-LGLRVDLH 59 Query: 58 DHIEVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAITVDGKLIKRVEAAEATRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLDINT GLLL T DG LA L PS + R Y VR G+VD D ++ LK G++++ Sbjct: 120 RLDINTTGLLLFTTDGELANRLMHPSYEMDREYAVRVRGEVDDDMVDRLKAGVMLEDGPA 179 Query: 173 GDMQV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLA 230 + +G N W + EG+NRE+++++E V+RL R+ +GP L L Sbjct: 180 KFTDIQKAPGGEGFNHWYHCVVMEGRNREVRRLWESQGVVVSRLKRVRFGPVFLNSDLPM 239 Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 G RE+S+ + L+ + P + + D R+++ S+ Sbjct: 240 GRWREMSQGEIDILAAEVGLQPVAL----------------PEMKLKAKDKLERLQRKST 283 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + G ++ + P A+ SG+ R + + Sbjct: 284 RPLGRGERVRTLRPAQEGQGERP---ARPAREEAPRKSGRGSTVAERPSEMRKRPARPEG 340 >gi|254230555|ref|ZP_04923923.1| conserved hypothetical protein, putative [Vibrio sp. Ex25] gi|262394965|ref|YP_003286819.1| ribosomal large subunit pseudouridine synthase F [Vibrio sp. Ex25] gi|151936927|gb|EDN55817.1| conserved hypothetical protein, putative [Vibrio sp. Ex25] gi|262338559|gb|ACY52354.1| ribosomal large subunit pseudouridine synthase F [Vibrio sp. Ex25] Length = 385 Score = 273 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 78/344 (22%), Positives = 132/344 (38%), Gaps = 20/344 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +R+I Q RV +NG V+ D + VDG P+ E+ Sbjct: 8 RLNKFISETGFCSRREADRLIEQGRVTINGNKP-EMGTKVLPGDDVCVDGKPVAAKEKPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCT-TERDVPGNIVDFI-GHKKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + L + G+ I +VT +T+ + L Sbjct: 125 LRAGNSHEKEYVVRVDKPITGEFLKQMSSGVKILDTVTLPCKVTKETKFS----FRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL----GPHLL 250 +G NR+I+++ E ++V +L R+ L + G R ++ + E L G Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLTDDEVAEILAMCDGSVGT 240 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 EEA + + E D +R + G + P ++ Sbjct: 241 EEASRVDSKGRNIRKATDAKLYDSREENQDSVSRRNQKPRTYRGNNADDFRHAPNSKKGQ 300 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 D G R +RS + K Sbjct: 301 Q---------KRRQRDDEGGRPAKEHYKAKPQGERSRPQGEHGK 335 >gi|323968113|gb|EGB63523.1| RNA pseudouridylate synthase [Escherichia coli M863] gi|323977618|gb|EGB72704.1| RNA pseudouridylate synthase [Escherichia coli TW10509] gi|327252432|gb|EGE64091.1| RNA pseudouridylate synthase [Escherichia coli STEC_7v] Length = 231 Score = 273 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 102/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAMLEV--ITPTQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >gi|74312704|ref|YP_311123.1| 16S rRNA pseudouridylate synthase A [Shigella sonnei Ss046] gi|73856181|gb|AAZ88888.1| 16S pseudouridylate 516 synthase [Shigella sonnei Ss046] gi|323168668|gb|EFZ54348.1| RNA pseudouridylate synthase [Shigella sonnei 53G] Length = 231 Score = 273 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 102/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLVSPVADDTAEQFAKGVQLHNEKDLTKPAVLEV--ITPTQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >gi|326773388|ref|ZP_08232671.1| ribosomal large subunit pseudouridine synthase B [Actinomyces viscosus C505] gi|326636618|gb|EGE37521.1| ribosomal large subunit pseudouridine synthase B [Actinomyces viscosus C505] Length = 324 Score = 273 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 89/243 (36%), Positives = 126/243 (51%), Gaps = 10/243 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 + QR+ KV+A AG+ASRR E++IA RV V+G+ + A V V T I VDG + Sbjct: 76 SGQRLQKVLAHAGVASRRACEQLIADGRVSVDGVTVTEAGVRVDPLTQEIRVDGSRILTN 135 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVF----DNLPSIFS-----RVISVGRLDINTEGL 121 + HKP G+VTT DP+GR TV D L R++ VGRLD TEGL Sbjct: 136 PELITLMLHKPAGVVTTMEDPEGRPTVAQYGRDYLTEHPELPDSLRLVHVGRLDTETEGL 195 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLL+NDG L+ L PS + + Y GQV+ L++GI ++ +VT+ Sbjct: 196 LLLSNDGELSHRLMHPSFEIAKTYVAIVEGQVEPWVPRKLRRGIELEDGEAKADRVTVKD 255 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + L GKNR ++++ + V RL R GP +LG L G TR +S + + Sbjct: 256 SGPRGSIVEITLHSGKNRIVRRMLDAVGHPVTRLARTRLGPLRLGNLRPGQTRPLSGEEI 315 Query: 242 REQ 244 Sbjct: 316 AAL 318 >gi|197262149|ref|ZP_03162223.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197240404|gb|EDY23024.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] Length = 231 Score = 273 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 61/229 (26%), Positives = 106/229 (46%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + Y TL+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKYLTKPATLEV--ITPVQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEEEI 227 >gi|238755438|ref|ZP_04616779.1| Ribosomal small subunit pseudouridine synthase A [Yersinia ruckeri ATCC 29473] gi|238706375|gb|EEP98751.1| Ribosomal small subunit pseudouridine synthase A [Yersinia ruckeri ATCC 29473] Length = 235 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 56/237 (23%), Positives = 107/237 (45%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV V+G +++ A+ + + DG L++ Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTVDGEIVKTGALKLTPEQEVMFDGNLLQQQVGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D G+ + L+ + V + + Sbjct: 121 ITSPKHHCEKTYLVTLEHPVADDTAEQFAVGVQLHNEPTLTKPAQLEVIEP--QQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G + L G R ++++ + PHL Sbjct: 179 SEGRYHQVKRMFGAVGNRVVALHRERIGAIVMDDDLAPGEYRPLTEEEIASVGAPHL 235 >gi|182419893|ref|ZP_02951131.1| RNA pseudouridine synthase family protein [Clostridium butyricum 5521] gi|237667549|ref|ZP_04527533.1| ribosomal large subunit pseudouridine synthase B [Clostridium butyricum E4 str. BoNT E BL5262] gi|182376262|gb|EDT73846.1| RNA pseudouridine synthase family protein [Clostridium butyricum 5521] gi|237655897|gb|EEP53453.1| ribosomal large subunit pseudouridine synthase B [Clostridium butyricum E4 str. BoNT E BL5262] Length = 238 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 75/235 (31%), Positives = 122/235 (51%), Gaps = 4/235 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A GIASRR+ E +I +VKVNG ++E V D +E DG + K ER Sbjct: 3 ERLQKYMASCGIASRRKCEELILLGKVKVNGNIIEELGFKVNPLKDIVEYDGRVITKEER 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP ++T+ D R TV D + + R+ +GRLD ++ GL+LLTNDG L Sbjct: 63 KVYIMLNKPEDVITSVKDEKDRKTVIDIV-KVNERIFPIGRLDYDSSGLILLTNDGELYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 + P + + Y G+V D + GI I G ++ + + + + + Sbjct: 122 KIIHPRVELDKKYVAVVKGEVSLDDKEKFESGIDIGGYITAPAKLKMLEYSHRKDLSTIE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 V + EGKNR+I+K+ N +V L R+S G +LG L G R ++ + ++ + Sbjct: 182 VCIHEGKNRQIRKMCSAINHEVISLKRVSIGNIRLGQLKKGEYRYLNDEEMKYLM 236 >gi|332300498|ref|YP_004442419.1| pseudouridine synthase Rsu [Porphyromonas asaccharolytica DSM 20707] gi|332177561|gb|AEE13251.1| pseudouridine synthase Rsu [Porphyromonas asaccharolytica DSM 20707] Length = 470 Score = 273 bits (699), Expect = 3e-71, Method: Composition-based stats. Identities = 81/274 (29%), Positives = 136/274 (49%), Gaps = 4/274 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E P R++K ++ +G+ SRR ++ IA RVKVNG ++ V+ TD + VD + Sbjct: 199 EAGEPIRLNKFLSNSGLCSRRMADQYIAAGRVKVNGAVISELGSQVLPTDQVMVDDKLVS 258 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 E L +KP VTT +DP+GR TV D + + R+ +GRLD NT G+LLLTND Sbjct: 259 L-EAKVYVLLNKPKNCVTTLTDPEGRRTVMDLVHNACTERIYPIGRLDRNTTGILLLTND 317 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P+ + ++Y V +V + + ++ G ++ ++ T + ++ Sbjct: 318 GDLAVRLMHPAFRKKKIYEVALDKEVTVEHMQMIAHGFELEDGEIHADAISYITGQ-THD 376 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ-LG 246 V + + G+NR ++++FE ++V L R+ Y L G R ++ + +R +G Sbjct: 377 KVGIEIHSGRNRIVRRIFEHLGYRVVHLDRVYYAGLTKKDLPRGRWRYLTPEEVRYLRMG 436 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPD 280 E+ V +Y D P E+ D Sbjct: 437 VKEQEDNGVAPTTKVYHKHQETPDHPFASEEIED 470 >gi|161502618|ref|YP_001569730.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980] gi|160863965|gb|ABX20588.1| hypothetical protein SARI_00665 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:--] Length = 231 Score = 273 bits (699), Expect = 3e-71, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 103/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + TL+ V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVTDDTAAQFAKGVQLHNEKELTKPATLEVVTP--VQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGAITLDEDLAPGEYRPLTEEEI 227 >gi|325497996|gb|EGC95855.1| 16S rRNA pseudouridylate synthase A [Escherichia fergusonii ECD227] Length = 231 Score = 273 bits (699), Expect = 3e-71, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 101/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G + AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGETVRNAAFKLLPEHEVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEV--ITPTQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEV 227 >gi|296103839|ref|YP_003613985.1| 16S rRNA pseudouridylate synthase A [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295058298|gb|ADF63036.1| 16S rRNA pseudouridylate synthase A [Enterobacter cloacae subsp. cloacae ATCC 13047] Length = 235 Score = 273 bits (699), Expect = 3e-71, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 103/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ +A + +E DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRASRVTVDGDIVRDSAFKLQPDHQVEYDGNPLTQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPEGYVCSTDDPDHPTVLYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEV--ITPTEVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G +L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVGLHRERIGAIELDPDLAPGEYRPLTEEEI 227 >gi|168242327|ref|ZP_02667259.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|194449422|ref|YP_002046277.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194407726|gb|ACF67945.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|205338506|gb|EDZ25270.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] Length = 231 Score = 273 bits (699), Expect = 3e-71, Method: Composition-based stats. Identities = 61/229 (26%), Positives = 105/229 (45%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCATDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + Y TL+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKYLTKPATLEV--ITPVQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEEEI 227 >gi|148546656|ref|YP_001266758.1| RNA-binding S4 domain-containing protein [Pseudomonas putida F1] gi|148510714|gb|ABQ77574.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas putida F1] gi|313497712|gb|ADR59078.1| RNA-binding S4 domain-containing protein [Pseudomonas putida BIRD-1] Length = 355 Score = 273 bits (699), Expect = 3e-71, Method: Composition-based stats. Identities = 111/370 (30%), Positives = 175/370 (47%), Gaps = 35/370 (9%) Query: 1 MKDKNIVQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M ++++ + TP +++ KV+AR G+ SRR+VE I+Q R+KVNG+ V Sbjct: 1 MSEQDLKETEITPPSGEKLQKVLARIGVGSRRDVEAWISQGRIKVNGVEAT-LGQRVDLH 59 Query: 58 DHIEVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAIAVDGKLIKREEAAEATRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLDINT GLLL T DG LA L PS + R Y VR G+VD + + LK G++++ Sbjct: 120 RLDINTTGLLLFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVMLEDGPA 179 Query: 173 GDMQV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLA 230 + +G N W + EG+NRE+++++E V+RL R+ +GP L L Sbjct: 180 KFTDIQKAPGGEGFNHWYHCVVMEGRNREVRRLWESQGMVVSRLKRVRFGPVFLNSDLPM 239 Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 G RE+++ + L+ + P + + D R+++ S+ Sbjct: 240 GRWREMTQGEIDILAAEVGLQPVAL----------------PAMKLKAKDKMERLQRKST 283 Query: 291 QKNGLSKQKKLATPVH------RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFP-S 343 + G ++ + P H R A + S +R R+ P P Sbjct: 284 RPLGRGERVRNLRPAHEGAATGERPARQPREEAP-RKPTRGSTVAERPSEMRKRPGKPDG 342 Query: 344 KRSLRRTSAK 353 + R K Sbjct: 343 DKPAGRGRGK 352 >gi|260591212|ref|ZP_05856670.1| ribosomal large subunit pseudouridine synthase B [Prevotella veroralis F0319] gi|260537077|gb|EEX19694.1| ribosomal large subunit pseudouridine synthase B [Prevotella veroralis F0319] Length = 253 Score = 273 bits (699), Expect = 3e-71, Method: Composition-based stats. Identities = 73/242 (30%), Positives = 115/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG +++ V+ TD + Sbjct: 5 IEYKEENFDPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVLRTDVV 64 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 P+ E+ L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 65 LFQDKPVSL-EKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDRNTT 123 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P +VY V V + L + GI ++ + Sbjct: 124 GVLLLTNDGDLASKLTHPKFLKKKVYHVFLDKPVTANDLQKISDGIELEDGEIKADAIEY 183 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V + + GKNR ++++FE ++V +L R+ + + G R +++K Sbjct: 184 ASPD-DLTQVGIEIHSGKNRIVRRIFESLGYRVVKLDRVQFAGLTKKNVRRGDWRFLTEK 242 Query: 240 IL 241 + Sbjct: 243 EV 244 >gi|188586260|ref|YP_001917805.1| pseudouridine synthase [Natranaerobius thermophilus JW/NM-WN-LF] gi|179350947|gb|ACB85217.1| pseudouridine synthase [Natranaerobius thermophilus JW/NM-WN-LF] Length = 238 Score = 273 bits (699), Expect = 3e-71, Method: Composition-based stats. Identities = 82/229 (35%), Positives = 122/229 (53%), Gaps = 4/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K ++RAGIASRR+ E +I Q RV VNG ++ R + TD ++VDG P+ + E Sbjct: 1 MRLQKFMSRAGIASRRKSEELIQQGRVTVNGQVITRLGTKINPDTDTVKVDGEPITQEES 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP +T+ DP GR TV D + + RV VGRLD ++ GL+LLTNDG LA Sbjct: 61 NVYIMLNKPKDYITSKDDPQGRKTVMDLI-QVKERVYPVGRLDYDSRGLVLLTNDGELAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V+ QDKL+ L GI ++ V + K N + + Sbjct: 120 RLMHPKYNIPKTYMVKVDKLPLQDKLDNLVNGIYLEEGLCKADHVEILDTK--NNILKII 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EG+ R+I+++ +V L R S G L L G+ R+++K + Sbjct: 178 LSEGRKRQIRRMLASLGIEVKDLKRDSLGTLTLKDLSEGNYRKLTKDEI 226 >gi|220904481|ref|YP_002479793.1| pseudouridine synthase [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] gi|219868780|gb|ACL49115.1| pseudouridine synthase [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] Length = 243 Score = 273 bits (699), Expect = 3e-71, Method: Composition-based stats. Identities = 82/232 (35%), Positives = 125/232 (53%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA +G+ SRR+ + +I RV VNGI A V D + VDG PL A+ Sbjct: 1 MRLNKAIAASGLCSRRKADELILSGRVTVNGIAEPNPARQVSPEDALGVDGRPLTGAQDF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP+ +V T +DP+GR TV + LP R+ VGRLD +EGLLLLTNDG LA Sbjct: 61 YYLMLNKPVQVVCTVNDPEGRPTVMEYLPKNMRALRLYPVGRLDYFSEGLLLLTNDGQLA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + L PS + Y V G V L ++ G+ + +G ++V KG + Sbjct: 121 QRLTHPSHHQPKTYEVLVRGAVSDASLAAMRHGMRLAEGEDLMPVEVEASFTKG-RTLLR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+++ + L R+S GP +LG L +G R+++ ++ Sbjct: 180 MVLHQGLNRQIRRMCRDLGLTILYLKRVSQGPIELGGLASGRARQLTAAEIK 231 >gi|218554753|ref|YP_002387666.1| 16S rRNA pseudouridylate synthase A [Escherichia coli IAI1] gi|218361521|emb|CAQ99110.1| 16S rRNA pseudouridylate 516 synthase [Escherichia coli IAI1] Length = 231 Score = 273 bits (698), Expect = 4e-71, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 102/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEV--ITPTQVRLII 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >gi|82776214|ref|YP_402563.1| 16S rRNA pseudouridylate synthase A [Shigella dysenteriae Sd197] gi|309786649|ref|ZP_07681269.1| RNA pseudouridylate synthase family protein [Shigella dysenteriae 1617] gi|81240362|gb|ABB61072.1| 16S pseudouridylate 516 synthase [Shigella dysenteriae Sd197] gi|308925342|gb|EFP70829.1| RNA pseudouridylate synthase family protein [Shigella dysenteriae 1617] Length = 231 Score = 273 bits (698), Expect = 4e-71, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 103/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEV--ITPTQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L+ G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLVPGEYRPLTEEEI 227 >gi|58039267|ref|YP_191231.1| tRNA pseudouridine synthase A [Gluconobacter oxydans 621H] gi|58001681|gb|AAW60575.1| tRNA pseudouridine synthase A [Gluconobacter oxydans 621H] Length = 264 Score = 273 bits (698), Expect = 4e-71, Method: Composition-based stats. Identities = 134/241 (55%), Positives = 167/241 (69%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 ++ +R++K +ARAG+ASRR++ERMI R+K+ G ++ A V D + VDG Sbjct: 12 DMETSGPKGERIAKALARAGVASRRDIERMIEDGRIKLGGQIVTHPATFVQPGDIVLVDG 71 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P+ ERTRLW YHKP GL+TTH DP GR TVFD LP RVISVGRLDIN+EGLLLL Sbjct: 72 KPVDSPERTRLWRYHKPDGLMTTHKDPQGRQTVFDTLPEGMPRVISVGRLDINSEGLLLL 131 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LAR LELP W+R YRVR G VD+ +L L G +G+ YG ++ LD+ KG Sbjct: 132 TNDGELARRLELPGNSWVRRYRVRVFGVVDEKRLASLIDGFEYEGVRYGSIEAALDSTKG 191 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 N+W+TV LREGKNREI++V E N V+RLIR+SYGPFQLG+L A EV K LREQ Sbjct: 192 DNSWLTVSLREGKNREIRRVMEGLNLHVSRLIRLSYGPFQLGSLKARELEEVPGKTLREQ 251 Query: 245 L 245 + Sbjct: 252 V 252 >gi|295098123|emb|CBK87213.1| ribosomal small subunit pseudouridine synthase A [Enterobacter cloacae subsp. cloacae NCTC 9394] Length = 235 Score = 273 bits (698), Expect = 4e-71, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 106/229 (46%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ +A + +E DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRASRVTVDGDIVKDSAFKLQPEHQVEYDGNPLTQQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPEGYVCSTDDPDHPTVLYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + YRV V D KG+ + L+ ++ V + + Sbjct: 121 ITSPRHHCDKTYRVMLESPVSDDTAEQFAKGVQLHNEKDLTKPAVLEILTPTD--VRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G +L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVGLHRERIGAIELDPDLAPGEYRPLTEEEI 227 >gi|157371489|ref|YP_001479478.1| 16S rRNA pseudouridylate synthase A [Serratia proteamaculans 568] gi|157323253|gb|ABV42350.1| pseudouridine synthase [Serratia proteamaculans 568] Length = 237 Score = 273 bits (698), Expect = 4e-71, Method: Composition-based stats. Identities = 56/237 (23%), Positives = 110/237 (46%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV V+G +++ A+ + + DG PL++ Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTVDGEVVKSGALKLTPEQEVTFDGNPLQRQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D +G+ + L+ + + V + + Sbjct: 121 ITSPKHHCEKTYLVTLEHPLAADTAQQFAEGVQLHNEKDLTRPAQLE--QIEDKLVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G + L G R ++++ + PHL Sbjct: 179 SEGRYHQVKRMFAAVGNRVLELHRERIGAIVMDEDLAEGEYRPLTEEEIASVGAPHL 235 >gi|301062561|ref|ZP_07203199.1| pseudouridylate synthase [delta proteobacterium NaphS2] gi|300443326|gb|EFK07453.1| pseudouridylate synthase [delta proteobacterium NaphS2] Length = 295 Score = 273 bits (698), Expect = 4e-71, Method: Composition-based stats. Identities = 75/244 (30%), Positives = 122/244 (50%), Gaps = 4/244 (1%) Query: 5 NIVQENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHI 60 + + F P+ R++++++ AG+ SRR+ ++ I R+ VNG + D I Sbjct: 45 DFPEAPFNPEKPWRLNRILSSAGLTSRRKADQWILSGRITVNGKPVNAPGTTAFWGRDDI 104 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 VDG + + + +KP G + + DP+GR V D I RV VGRLD +T G Sbjct: 105 RVDGQKIPLPPKKVYLMLNKPFGTICSLDDPEGRPLVTDLTKDIPIRVYPVGRLDFDTLG 164 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLLLTNDG A L P + Y+V G + + L L+ GI + G + L Sbjct: 165 LLLLTNDGEFAHRLTHPRFHVPKTYKVTVQGAISDEALKRLQTGITLNDGPAGRARTELI 224 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + + + + +GK+R+++++ E + V LIRIS+G QLG L G R + + Sbjct: 225 NRNNEKSILRMTITQGKSRQVRRMLEKVGFTVIHLIRISFGTLQLGDLKIGHHRHLDSEE 284 Query: 241 LREQ 244 L + Sbjct: 285 LSKL 288 >gi|253681692|ref|ZP_04862489.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum D str. 1873] gi|253561404|gb|EES90856.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum D str. 1873] Length = 236 Score = 273 bits (698), Expect = 4e-71, Method: Composition-based stats. Identities = 71/229 (31%), Positives = 112/229 (48%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I Q RVKVNG ++ V D + VD V + E+ Sbjct: 3 ERLQKYMAACGVASRRKCEEIILQDRVKVNGEIVNELGFKVDPAKDRVHVDSVLISLEEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G V+T D GR T+ D + + R+ +GRLD NT GL++LTNDG + Sbjct: 63 KVYIALNKPEGYVSTVKDERGRKTILDIV-KVNERIFPIGRLDYNTSGLIILTNDGDVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY G D++ G+ I G + + V + Sbjct: 122 KIIHPREEIDKVYIAVIKGVPSNDEIKNFCNGVDIGGYVTSKANFEIIEKLDDKCKVKIV 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGKNR+++++ E V L R+S G L T+ G R ++ + Sbjct: 182 IHEGKNRQVRRMCEKIGHPVIALKRVSVGKISLSTIKRGEWRYLNDSEV 230 >gi|300811357|ref|ZP_07091854.1| pseudouridylate synthase [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] gi|300497721|gb|EFK32746.1| pseudouridylate synthase [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] Length = 241 Score = 272 bits (697), Expect = 4e-71, Method: Composition-based stats. Identities = 68/236 (28%), Positives = 112/236 (47%), Gaps = 8/236 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR +V +I +V VNG + A V + V+G + ++ Sbjct: 3 RLDKFLANMKVGSRSQVHEIIKAGQVTVNGKVCRSAKQKVKEDAEVLVNGQAVVY-QQYH 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G+++ D + TV D L + ++ VGRLD +T GLLLLTNDG LA Sbjct: 62 YFLLNKPAGVLSATEDSR-QKTVLDLLKDQDRYQKIAPVGRLDKDTTGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS--NAWV 189 L P + Y G D++ + G+ + G Q+ + Q + + Sbjct: 121 QLLAPEYHVPKTYYALLAGVADEETAKAIAAGLTLKDGTELKPGQLKILRQDKDQEQSEI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + + EGK ++K++F KV +L R+S GP L L GS R ++++ L Sbjct: 181 EITITEGKYHQVKRMFASQGMKVLKLKRLSMGPLTLPADLAPGSYRPLTEEELAAL 236 >gi|260435028|ref|ZP_05788998.1| pseudouridine synthase [Synechococcus sp. WH 8109] gi|260412902|gb|EEX06198.1| pseudouridine synthase [Synechococcus sp. WH 8109] Length = 250 Score = 272 bits (697), Expect = 4e-71, Method: Composition-based stats. Identities = 76/236 (32%), Positives = 112/236 (47%), Gaps = 1/236 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T QR+ K+IA AG+ SRR E + RV V+G++ I VDG PL Sbjct: 1 MTRQRLQKLIAAAGLCSRRRAEEWLQAGRVTVDGLVASVGDQADPQQQTIHVDGQPLPSR 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGG 129 R+ L +KP+G++ + DP GR TV D LP + VGRLD ++ G LLLT+ G Sbjct: 61 GVARVLLMNKPVGVICSCDDPQGRRTVLDLLPPEHRAGLHPVGRLDADSHGALLLTDLGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + YRV G + L+ ++G+ + G +V G + + Sbjct: 121 LTLKLTHPRYSHAKTYRVWVKGVPPEPVLDRWRRGLPLDGCLTRPARVRRLRTWGDRSLL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + LREG+NR+I+++ E V L R + LG L G +S+ L Sbjct: 181 EIELREGRNRQIRRMAEALGHPVLDLQRTAIAGLPLGDLAEGCWIWLSEGEWEPLL 236 >gi|119468781|ref|ZP_01611833.1| putative ribosomal RNA pseudouridine synthase [Alteromonadales bacterium TW-7] gi|119447837|gb|EAW29103.1| putative ribosomal RNA pseudouridine synthase [Alteromonadales bacterium TW-7] Length = 338 Score = 272 bits (697), Expect = 4e-71, Method: Composition-based stats. Identities = 69/325 (21%), Positives = 137/325 (42%), Gaps = 10/325 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 ++ + +R++K I+ G SRRE ++ I Q RV VNG V V +TD + VDG Sbjct: 14 LLSDMTELKRLNKFISETGFCSRREADKYIEQGRVSVNGN-APEMGVKVAATDVVLVDGK 72 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL+ + Y+KP+G+ T + V + R+ +GRLD +EGL+ LT Sbjct: 73 PLKTPPKRVYIAYNKPVGITCTTERKIQSNIVKA--VNYPDRIFPIGRLDRPSEGLIFLT 130 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N+G + + + Y V +++ ++ + GI I +VT + + Sbjct: 131 NEGDIVNKILRAGNNHEKEYVVTVDKPLNRQFVSKMANGIPILDTVTKKCKVT----QTA 186 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E+ ++V L R L L G R +S + + Sbjct: 187 PKEFKIILTQGLNRQIRRMCEYLGYEVVTLKRTRIMNVTLKGLKVGQWRHLSDVEMAQI- 245 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 + ++ + + +++ + ++ + ++ K + P Sbjct: 246 -NDSIADSGKTQEHSLDTNKQVDKNAVISPKRDFQGENPRRNKQKERGDEQKNNRTNAPY 304 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQ 330 +R+ + V K ++ S + Sbjct: 305 QKRS-TTYVGKPKTAKANSASSNKA 328 >gi|257791082|ref|YP_003181688.1| pseudouridine synthase [Eggerthella lenta DSM 2243] gi|257474979|gb|ACV55299.1| pseudouridine synthase [Eggerthella lenta DSM 2243] Length = 282 Score = 272 bits (697), Expect = 4e-71, Method: Composition-based stats. Identities = 79/269 (29%), Positives = 120/269 (44%), Gaps = 33/269 (12%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPL 67 + P R+ K +ARAG ASRR E ++ RV VNG ++ V D + VDG + Sbjct: 6 DRVVPMRLQKFLARAGAASRRGSENLMTAGRVTVNGKVVTELGSKVDPLVDEVAVDGAVV 65 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 R A+ + HKP G VTT SDP GR TV + +P + + +GRLD +T GLLL + Sbjct: 66 RLADGPVTIMLHKPAGFVTTMSDPQGRRTVAELVPTERYPGLFPIGRLDFDTTGLLLFST 125 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------- 179 DG L L P + Y G+ + L LL++GI + V + Sbjct: 126 DGELGNGLLHPKHHVTKRYLACVEGRPTERDLALLRRGIELDDGPTQPADVRVVEGGAAR 185 Query: 180 ------------------------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRL 215 + + + V +G+REG+ R++K++ V L Sbjct: 186 HAERLLEIPAAVPPRSSKEYAAVCEGRATRRSIVRLGIREGRKRQVKRMLAAVGHPVLAL 245 Query: 216 IRISYGPFQLGTLLAGSTREVSKKILREQ 244 R S+GP +LG L G+ R + + + Sbjct: 246 HRDSFGPLELGDLPRGAWRALDAEEVAAL 274 >gi|257458228|ref|ZP_05623378.1| ribosomal large subunit pseudouridine synthase B [Treponema vincentii ATCC 35580] gi|257444338|gb|EEV19431.1| ribosomal large subunit pseudouridine synthase B [Treponema vincentii ATCC 35580] Length = 252 Score = 272 bits (697), Expect = 4e-71, Method: Composition-based stats. Identities = 85/248 (34%), Positives = 131/248 (52%), Gaps = 6/248 (2%) Query: 1 MKDKNIVQENFTPQ-RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N ++ P+ R+ +A AG+ASRR E++I + RV VNG ++ V + D Sbjct: 1 MRGNNHFSQSSKPEMRLQVYLAHAGVASRRACEKIIEEGRVSVNGTVVTGMGSKVCAGDT 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINT 118 + DG P+ R L +KP G V T SD GR T D L +S R+ ++GRLD+ + Sbjct: 61 VLFDGKPVHPEARKCYVLLNKPAGFVCTLSDEKGRPTAADLLKEAYSERLYNIGRLDMFS 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 G +L TNDG A +E PS Q + Y + + L ++GI + GI Y Sbjct: 121 SGAILFTNDGDFAAKIEHPSAQIEKEYVIETTQDFPPELLTRFERGIRVDGIFYKCRSAA 180 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 ++ + + L EGKNREI++V + FN + RL+R+ G +LGTL AG R+++ Sbjct: 181 AVNRRK----LRIVLVEGKNREIRRVLDSFNCTIKRLVRVRIGNLELGTLKAGEFRDLTV 236 Query: 239 KILREQLG 246 + + LG Sbjct: 237 QERQALLG 244 >gi|77362345|ref|YP_341919.1| putative ribosomal RNA pseudouridine synthase [Pseudoalteromonas haloplanktis TAC125] gi|76877256|emb|CAI89473.1| putative ribosomal RNA pseudouridine synthase [Pseudoalteromonas haloplanktis TAC125] Length = 327 Score = 272 bits (697), Expect = 4e-71, Method: Composition-based stats. Identities = 78/325 (24%), Positives = 144/325 (44%), Gaps = 20/325 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE ++ I RV VNGI V V STD + VDG L+ + Sbjct: 6 RLNKFISDTGFCSRREADKYIEDGRVTVNGIRP-EMGVKVSSTDVVLVDGKTLKAIPKRV 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 Y+KP+G+ T + V + R+ +GRLD +EGL+ LTN+G + + Sbjct: 65 YIAYNKPVGITCTTERKIQSNIVKA--VNYPDRIFPIGRLDRPSEGLIFLTNEGDIVNKI 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V +++ + + G+ I +VT Q G+ T+ L Sbjct: 123 LRAGNNHEKEYVVTVDKPLNRQFVAKMGNGVPILDTITKKCKVT---QTGAQ-QFTIILT 178 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E+ ++V L R+ L L G R ++++ + + + + ++ Sbjct: 179 QGLNRQIRRMCEYLGYEVVTLKRVRIMNVTLKGLKVGQWRHLTEQEMA--IINNSISDSG 236 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK----------NSSQKNGLSKQKKLATP 304 + +Y ++ + P + K+ N ++ K+++ TP Sbjct: 237 KTQEHSVYDEANALQQQSPQAVAKPQKTSDKKRDFQGENPKRFNQGERTEERKKERSKTP 296 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSG 329 +R+ + V K I ++ SDS Sbjct: 297 YQKRS-TTYVGKPKSIKANKSSDSK 320 >gi|167034997|ref|YP_001670228.1| RNA-binding S4 domain-containing protein [Pseudomonas putida GB-1] gi|166861485|gb|ABY99892.1| RNA-binding S4 domain protein [Pseudomonas putida GB-1] Length = 355 Score = 272 bits (697), Expect = 5e-71, Method: Composition-based stats. Identities = 111/370 (30%), Positives = 176/370 (47%), Gaps = 35/370 (9%) Query: 1 MKDKNIVQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M ++++ TP +++ KV+AR G+ SRR+VE I+Q R+KVNG+ V Sbjct: 1 MSEQDLQDTEITPPSGEKLQKVLARIGVGSRRDVEAWISQGRIKVNGVEAT-LGQRVDLH 59 Query: 58 DHIEVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAIAVDGKLIKREEAAEATRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLDINT GLLL T DG LA L PS + R Y VR G+VD + + LK G++++ Sbjct: 120 RLDINTTGLLLFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVMLEDGPA 179 Query: 173 GDMQV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLA 230 + +G N W + EG+NRE+++++E V+RL R+ +GP L L Sbjct: 180 KFTDIQKAPGGEGFNHWYHCVVMEGRNREVRRLWESQGMVVSRLKRVRFGPVFLNSDLPM 239 Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 G RE+++ + L+ + P + + D R+++ S+ Sbjct: 240 GRWREMTQGEIDILAAEVGLQPVAL----------------PAMKLKAKDKMERLQRKST 283 Query: 291 QKNGLSKQKKLATPVH------RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFP-S 343 + G ++ + P H R A ++ S +R R+ P+ P Sbjct: 284 RPLGRGERVRNLRPAHEGAATGERPARQPREEAP-RKNTRGSTVAERPSEMRKRPAKPEG 342 Query: 344 KRSLRRTSAK 353 + R K Sbjct: 343 DKPAGRGRGK 352 >gi|307565246|ref|ZP_07627740.1| pseudouridylate synthase [Prevotella amnii CRIS 21A-A] gi|307346059|gb|EFN91402.1| pseudouridylate synthase [Prevotella amnii CRIS 21A-A] Length = 528 Score = 272 bits (697), Expect = 5e-71, Method: Composition-based stats. Identities = 69/236 (29%), Positives = 115/236 (48%), Gaps = 3/236 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + P R++K +A AG+ SRRE + I+ ++ VNG ++ ++ TD I+ G + Sbjct: 287 TDPTEPLRLNKYLANAGVCSRREADNYISSGQITVNGEVVTELGTKILRTDEIKFKGQTV 346 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 E+ L +KP VTT DP R V D + R+ VGRLD NT G+LL TN Sbjct: 347 SL-EKKVYLLLNKPKDYVTTSDDPQQRKKVVDLVKDACPERIYPVGRLDRNTTGVLLFTN 405 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L P +VY V V + L + +GI+++ + + Sbjct: 406 DGDLASKLTHPKFLKKKVYHVFLDKPVAANDLQKIAEGIMLEDGEIKADAIEYASPD-DL 464 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + V + + GKNR ++++FE ++V +L R+ + + G R +++K + Sbjct: 465 SQVGIEIHSGKNRIVRRIFESLGYRVVKLDRVMFAGLTKKNVRRGDWRFLTQKEVE 520 >gi|310778392|ref|YP_003966725.1| ribosomal large subunit pseudouridine synthase B [Ilyobacter polytropus DSM 2926] gi|309747715|gb|ADO82377.1| ribosomal large subunit pseudouridine synthase B [Ilyobacter polytropus DSM 2926] Length = 236 Score = 272 bits (697), Expect = 5e-71, Method: Composition-based stats. Identities = 74/231 (32%), Positives = 127/231 (54%), Gaps = 2/231 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K ++ G+ASRRE++R++ + +KVNG + + V +D IE++G RK Sbjct: 3 EKMRINKYLSSIGVASRREIDRLVEKGSIKVNGAIAT-PGMQVSESDTIEINGKKFRKNR 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+++ D GR TV D + R+ VGRLD +TEGL+LLTNDG Sbjct: 62 GKVYFMLYKPTGVISAAKDDRGRKTVVDLV-KYQERIYPVGRLDFDTEGLILLTNDGDFF 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P ++ + Y V G+V++ +++ LK+G+ ++ +V L + + + Sbjct: 121 NKIMHPKSEVYKEYHVDVMGKVNKLEIDKLKRGVRLEDGITLPAKVELLDSSHETSKLRI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +REG+NR+I+++ + V L R G LG L G RE+SKK + Sbjct: 181 SIREGRNRQIRRMCKAVGHPVTHLKREKIGELSLGRLKKGGFRELSKKEIE 231 >gi|262382422|ref|ZP_06075559.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_1_33B] gi|262295300|gb|EEY83231.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_1_33B] Length = 334 Score = 272 bits (697), Expect = 5e-71, Method: Composition-based stats. Identities = 67/245 (27%), Positives = 122/245 (49%), Gaps = 3/245 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K ++ + P R++K ++ AG+ SRRE + I + VKVN +++ + D + Sbjct: 86 IKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQKGAVKVNDVVVTELGTKITRQDVV 145 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P++ E + +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 146 TFNEKPVQ-IESKVYIVLNKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTT 204 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L PS + ++Y V V + + + G+ ++ ++ Sbjct: 205 GVLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVAIEDMEKIANGLELEDGEIHADAISY 264 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ + V + + G+NR ++++FE + V +L R+ + L G R ++++ Sbjct: 265 ASED-DKSQVGIEIHSGRNRIVRRIFESLGYHVTKLDRVYFAGLTKKNLGRGKWRYLNER 323 Query: 240 ILREQ 244 + Sbjct: 324 EVNAL 328 >gi|283458425|ref|YP_003363049.1| 16S rRNA uridine-516 pseudouridylate synthase [Rothia mucilaginosa DY-18] gi|283134464|dbj|BAI65229.1| 16S rRNA uridine-516 pseudouridylate synthase [Rothia mucilaginosa DY-18] Length = 378 Score = 272 bits (696), Expect = 5e-71, Method: Composition-based stats. Identities = 85/239 (35%), Positives = 134/239 (56%), Gaps = 2/239 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLR 68 + R+ K++A+AG+ASRR E MI + RV VNG ++ V V + ++VDG+ ++ Sbjct: 136 DHDGVRLQKLLAQAGVASRRVCEEMITEGRVTVNGEVVTELGVRVDPSKVTVQVDGMTVQ 195 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 ++ ++KP G+V+T DP+GR + D L S S RV VGRLD+ TEGLLLLTND Sbjct: 196 TNDKLVYMAFNKPAGVVSTMEDPEGRPCISDFLRSSMSERVFHVGRLDVETEGLLLLTND 255 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + + Y V+ G ++ +KKGI ++ + L + Sbjct: 256 GELANRLTHPSYEVPKTYLVQVPGPMEPGVGAAMKKGIRLEDGVTRVDEFKLVDSTPGHV 315 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 V V + GKNR ++++F+ + V RL+R+ GP ++G+ G+ R +SK + L Sbjct: 316 LVEVTIHSGKNRIVRRLFDAVGYPVERLVRVEMGPIRIGSQKQGTVRNLSKVEIGHLLA 374 >gi|288929146|ref|ZP_06422991.1| ribosomal large subunit pseudouridine synthase B [Prevotella sp. oral taxon 317 str. F0108] gi|288329248|gb|EFC67834.1| ribosomal large subunit pseudouridine synthase B [Prevotella sp. oral taxon 317 str. F0108] Length = 509 Score = 272 bits (696), Expect = 5e-71, Method: Composition-based stats. Identities = 75/242 (30%), Positives = 115/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE ++ I VKVNG ++ V+ +D I Sbjct: 261 IEYKEENIDPNEPLRLNKFLANAGVCSRREADQFIQSGMVKVNGNVVTELGTKVLRSDEI 320 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 P+ E+ L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 321 IFHDQPVTL-EKKVYVLINKPKDYVTTSDDPQQRKTVMDLVKGVCPERIYPVGRLDRNTT 379 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P +VY V +V + L + G+ + + Sbjct: 380 GVLLLTNDGDLASKLAHPKFLKKKVYHVFLDKEVTEHDLQQIATGVTLDDGEVHADAIEY 439 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + + GKNR ++++FE ++V RL R+ + L G R +++K Sbjct: 440 -ANDKDKTQVGIEIHSGKNRIVRRIFESLGYRVVRLDRVQFAGLTKKNLKRGDWRFLTEK 498 Query: 240 IL 241 + Sbjct: 499 EV 500 >gi|257870825|ref|ZP_05650478.1| pseudouridine synthase [Enterococcus gallinarum EG2] gi|257804989|gb|EEV33811.1| pseudouridine synthase [Enterococcus gallinarum EG2] Length = 241 Score = 272 bits (696), Expect = 5e-71, Method: Composition-based stats. Identities = 73/245 (29%), Positives = 118/245 (48%), Gaps = 10/245 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G SR+EV++ I + V VNG ++ V D + G +R ++ Sbjct: 1 MRLDKFLADMGYGSRKEVKQAIKKGVVAVNGQQVKSDKFQVAEQEDQVSFAGELVRY-QK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ +DP+ TV D + VGRLD +TEGLLL+TNDG L Sbjct: 60 DFYYLLNKPAGVISATTDPE--KTVLDLFAAEDYRRDLFPVGRLDKDTEGLLLITNDGQL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A L P + Y G + ++ + +GI + G Q+T+ ++ + Sbjct: 118 AHRLLSPKKHVEKEYYAEVRGIMTEEDRHQFLQGIELDGETLMPAQLTILKVDEQAETST 177 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 +T+ L EGK ++K++ + +V L R G QL L G R V++K L QL Sbjct: 178 ITLILHEGKFHQVKRMVQAVGKEVTYLKRTRMGGLQLPKDLALGEYRSVTEKEL-AQLSA 236 Query: 248 HLLEE 252 E+ Sbjct: 237 EPAED 241 >gi|291536218|emb|CBL09330.1| ribosomal small subunit pseudouridine synthase A [Roseburia intestinalis M50/1] Length = 235 Score = 272 bits (696), Expect = 6e-71, Method: Composition-based stats. Identities = 80/235 (34%), Positives = 119/235 (50%), Gaps = 7/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ G SR EV++ I V VNG ++++ V D + G PL E Sbjct: 1 MRLDKLLTELGTGSRSEVKKYIRSGLVTVNGEVVKKPEQKVDEKNDTVCFRGNPLTYTE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 +L+HKP G VT D R TV D L + VGRLDI+TEGLLL+TNDG LA Sbjct: 60 YEYYLFHKPAGCVTATEDNLHR-TVMDYLTDTARHDLFPVGRLDIDTEGLLLITNDGALA 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSNAWVT 190 L P+ +VY + G+V ++ +NL K G+ I G L+ G N+ + Sbjct: 119 HDLLSPAKHVSKVYYAKIDGRVTEEDVNLFKNGVDI-GEEKPAKPALLEVLHSGDNSEIR 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 + + EG+ ++K++FE KV L R+ G L L G R ++++ L+E Sbjct: 178 LTITEGRFHQVKRMFEAVGKKVTYLKRVEMGSLVLPDELAPGEYRPLTEEELQEL 232 >gi|332532521|ref|ZP_08408398.1| putative ribosomal RNA pseudouridine synthase [Pseudoalteromonas haloplanktis ANT/505] gi|332037942|gb|EGI74390.1| putative ribosomal RNA pseudouridine synthase [Pseudoalteromonas haloplanktis ANT/505] Length = 358 Score = 272 bits (696), Expect = 6e-71, Method: Composition-based stats. Identities = 76/333 (22%), Positives = 133/333 (39%), Gaps = 26/333 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE ++ I Q RV VNG V V +TD + VDG PL+ + Sbjct: 23 RLNKFISETGFCSRREADKYIEQGRVSVNGYSP-EMGVKVAATDVVLVDGKPLKATPKRV 81 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 Y+KP+G+ T + + +R+ +GRLD +EGL+ LTN+G + + Sbjct: 82 YIAYNKPVGITCTT--ESKIQSNIIRAVNYPTRIFPIGRLDRPSEGLIFLTNEGDIVNKI 139 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V +++ + + G+ I +VT + + + L Sbjct: 140 LRAGNNHEKEYVVTVDKPLNRQFVTKMANGVPILDTVTKKCKVT----QTAPKEFKIVLT 195 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL-----------RE 243 +G NR+I+++ E+ ++V L R L L G R +S + + Sbjct: 196 QGLNRQIRRMCEYLGYEVVTLKRTRIMNVTLKGLKVGQWRHLSDTEMAQINDSISDSGKT 255 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK-------NGLS 296 Q + N + P ++ R + +S + NG Sbjct: 256 QEHSLDANKQSENNTPSAPKKRDFQGENPRRFNKGEQSGERSTERNSSRNSDRSNANGER 315 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSG 329 K ++ P +R+ + V K I + S S Sbjct: 316 KNERSKAPYQKRS-TTYVGKPKSIKENKSSQSK 347 >gi|282878147|ref|ZP_06286944.1| pseudouridylate synthase [Prevotella buccalis ATCC 35310] gi|281299725|gb|EFA92097.1| pseudouridylate synthase [Prevotella buccalis ATCC 35310] Length = 488 Score = 272 bits (696), Expect = 6e-71, Method: Composition-based stats. Identities = 74/234 (31%), Positives = 114/234 (48%), Gaps = 3/234 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + P R++K +A AG+ SRRE + I VKVNG ++ VM TD + P+ Sbjct: 248 DPTVPVRLNKFLANAGVCSRREADEFIQAGVVKVNGEVVTELGTKVMRTDEVVFHDQPVS 307 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 E+ L +KP VTT DP R TV D + + R+ VGRLD NT G+LLLTND Sbjct: 308 L-EKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKNVCPERIYPVGRLDRNTTGVLLLTND 366 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P +VY V V + + +GI ++ + + N Sbjct: 367 GDLASKLTHPKYLKKKVYHVFLDKNVTAHDMQKIAEGIELEDGEVHADAIEYAHETDKN- 425 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + GKNR ++++FE ++V +L R+ + L G R ++++ + Sbjct: 426 QVGIEIHSGKNRIVRRIFESLGYRVIKLDRVQFAGLTKKNLRRGDWRFLTEEEV 479 >gi|291538915|emb|CBL12026.1| ribosomal small subunit pseudouridine synthase A [Roseburia intestinalis XB6B4] Length = 235 Score = 272 bits (696), Expect = 6e-71, Method: Composition-based stats. Identities = 80/235 (34%), Positives = 119/235 (50%), Gaps = 7/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ G SR EV++ I V VNG ++++ V D + G PL E Sbjct: 1 MRLDKLLTELGTGSRSEVKKYIRSGLVTVNGEVVKKPEQKVDEKNDTVCFRGNPLTYTE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 +L+HKP G VT D R TV D L + VGRLDI+TEGLLL+TNDG LA Sbjct: 60 YEYYLFHKPAGCVTATEDNLHR-TVMDYLTDTARHDLFPVGRLDIDTEGLLLITNDGALA 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSNAWVT 190 L P+ +VY + G+V ++ +NL + G+ I G L+ G N+ + Sbjct: 119 HDLLSPAKHVSKVYYAKIDGRVTEEDVNLFENGVDI-GEEKPAKPALLEVLHSGDNSEIR 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 + + EG+ ++K++FE KV L R+ G L L G R +++K L+E Sbjct: 178 LTITEGRFHQVKRMFEAVGKKVTYLKRVEMGSLVLPDELAPGEYRPLTEKELQEL 232 >gi|320104277|ref|YP_004179868.1| pseudouridine synthase [Isosphaera pallida ATCC 43644] gi|319751559|gb|ADV63319.1| pseudouridine synthase [Isosphaera pallida ATCC 43644] Length = 655 Score = 272 bits (696), Expect = 6e-71, Method: Composition-based stats. Identities = 99/344 (28%), Positives = 153/344 (44%), Gaps = 5/344 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVP 66 + + PQR+ K++A AGIASRR E +I Q RV VNG + I +DG P Sbjct: 120 EPSDQPQRLQKILAHAGIASRRACEELILQGRVTVNGETVRELGARYNPYESKIAIDGEP 179 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 ++ E+ + +KP G + ++ DPD R V D LP I RV ++GRLD + GL+LLTN Sbjct: 180 IKL-EKLVYFAVNKPKGYICSNEDPDNRPRVVDLLPEIPQRVYTIGRLDEASTGLILLTN 238 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L P + Y V G D+D L L G+ + +V ++G + Sbjct: 239 DGELANKLTHPKFGVEKRYEVVVAGHPDRDVLRKLIDGVWLSDGKVRAKKVRELGRRGDS 298 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR--EQ 244 + + + L EGKNREI+++ KV L R++ GP L L G R + + +Q Sbjct: 299 SILELVLAEGKNREIRRMLARLGHKVMSLTRVAVGPITLKGLRTGEVRVLGTAEVDRLKQ 358 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 + + + +LD+ SS RDR S D +R + G ++ + Sbjct: 359 IARNPFPPTE-SLDSDAGSSAPAQRDRDYDRSAKRSDLSRRSAPGFRLGGGNRFGGGSNR 417 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 R + + S + + P R + Sbjct: 418 PLGRPVYTPGNEPPEDRSDRRPNRLGGGNRFGEGGNRPLGRPVY 461 >gi|227529187|ref|ZP_03959236.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus vaginalis ATCC 49540] gi|227350912|gb|EEJ41203.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus vaginalis ATCC 49540] Length = 240 Score = 272 bits (696), Expect = 6e-71, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 125/233 (53%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR E++IA V+VNG + + V D + VDGVPL + E Sbjct: 2 ERLQKVMAEAGVASRRASEKLIASGHVQVNGKTVTEMGIKVSEHDEVVVDGVPLHR-EAH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP ++T+ D GR TV D L RV VGRLD +T G+LLLTNDG LA Sbjct: 61 VYYLLNKPRSVITSAHDDKGRRTVVDILKEEGVAERVYPVGRLDYDTTGILLLTNDGELA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWV 189 L P + + Y + G V+ + L L+ G+ + G + L K + V Sbjct: 121 NRLMHPKFEVEKTYIAKVRGIVNNNDLKQLRIGVEVNGRLTKKAKSRLIETDHKKQTSLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EG+ ++K +F+ + V +L R +YGP L L +G RE+ + ++ Sbjct: 181 KLTIHEGRYHQVKLMFDAIHHPVIKLHRETYGPLDLNGLQSGEFRELKQDEVK 233 >gi|312973563|ref|ZP_07787735.1| conserved hypothetical protein [Escherichia coli 1827-70] gi|310332158|gb|EFP99393.1| conserved hypothetical protein [Escherichia coli 1827-70] Length = 231 Score = 272 bits (696), Expect = 6e-71, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 102/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKSYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEV--ITPTQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >gi|22125944|ref|NP_669367.1| 23S rRNA pseudouridylate synthase B [Yersinia pestis KIM 10] gi|45441810|ref|NP_993349.1| 23S rRNA pseudouridylate synthase B [Yersinia pestis biovar Microtus str. 91001] gi|108807566|ref|YP_651482.1| 23S rRNA pseudouridylate synthase B [Yersinia pestis Antiqua] gi|108811842|ref|YP_647609.1| 23S rRNA pseudouridylate synthase B [Yersinia pestis Nepal516] gi|145598219|ref|YP_001162295.1| 23S rRNA pseudouridylate synthase B [Yersinia pestis Pestoides F] gi|165927423|ref|ZP_02223255.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Orientalis str. F1991016] gi|165938234|ref|ZP_02226793.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Orientalis str. IP275] gi|166010649|ref|ZP_02231547.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Antiqua str. E1979001] gi|166210657|ref|ZP_02236692.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Antiqua str. B42003004] gi|167400806|ref|ZP_02306312.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167420205|ref|ZP_02311958.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167424996|ref|ZP_02316749.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Mediaevalis str. K1973002] gi|167470517|ref|ZP_02335221.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis FV-1] gi|218929309|ref|YP_002347184.1| 23S rRNA pseudouridylate synthase B [Yersinia pestis CO92] gi|270490618|ref|ZP_06207692.1| pseudouridylate synthase [Yersinia pestis KIM D27] gi|294503749|ref|YP_003567811.1| hypothetical protein YPZ3_1639 [Yersinia pestis Z176003] gi|21958885|gb|AAM85618.1|AE013808_1 hypothetical protein y2054 [Yersinia pestis KIM 10] gi|45436672|gb|AAS62226.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Yersinia pestis biovar Microtus str. 91001] gi|108775490|gb|ABG18009.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis Nepal516] gi|108779479|gb|ABG13537.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis Antiqua] gi|145209915|gb|ABP39322.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis Pestoides F] gi|165913895|gb|EDR32513.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Orientalis str. IP275] gi|165920689|gb|EDR37937.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Orientalis str. F1991016] gi|165990351|gb|EDR42652.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Antiqua str. E1979001] gi|166207837|gb|EDR52317.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Antiqua str. B42003004] gi|166961900|gb|EDR57921.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167049659|gb|EDR61067.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167056183|gb|EDR65961.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis biovar Mediaevalis str. K1973002] gi|262362131|gb|ACY58852.1| hypothetical protein YPD4_1945 [Yersinia pestis D106004] gi|270339122|gb|EFA49899.1| pseudouridylate synthase [Yersinia pestis KIM D27] gi|294354208|gb|ADE64549.1| hypothetical protein YPZ3_1639 [Yersinia pestis Z176003] Length = 344 Score = 272 bits (696), Expect = 6e-71, Method: Composition-based stats. Identities = 112/333 (33%), Positives = 165/333 (49%), Gaps = 25/333 (7%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLR 68 +++ K++ARAG SRRE+E +I Q RV V+G + + V V + I +DG L Sbjct: 25 KIVGEKLQKILARAGHGSRREIEAIIQQGRVSVDGKVSKLGDRVEVTQSTKIRLDGHLLS 84 Query: 69 KAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLL 123 E R+ Y+KP G + T +DP+GR TVFD LP SR ++VGRLD+NT GLLL Sbjct: 85 IKESEENVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLL 144 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS + R Y VR GQ+D DK+ L +G+ ++ ++ + Sbjct: 145 FTTDGELANRLMHPSREVEREYAVRVFGQIDDDKIKQLSRGVQLEDGPAAFRTISYQGGE 204 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK--- 239 G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ K Sbjct: 205 GINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLKATN 264 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 LRE V LD S + +DR + + R K ++ +G Sbjct: 265 YLREL----------VELDVETVSKLPVEKDRRRVKAN---QIRRAVKRHTEVSGRQVAG 311 Query: 300 KLATPVHRRNLASNVWM-AKGIHSSFLSDSGQR 331 + + + + NV A +S S +R Sbjct: 312 RQGS-ARKGSTRQNVGNAAPAATASRRSGPKKR 343 >gi|302333165|gb|ADL23358.1| ribosomal large subunit pseudouridine synthase B, RluB [Staphylococcus aureus subsp. aureus JKD6159] Length = 245 Score = 272 bits (696), Expect = 6e-71, Method: Composition-based stats. Identities = 80/243 (32%), Positives = 135/243 (55%), Gaps = 5/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I++ +VKVNG + V +D IEV+G+ + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIELEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 -YILFHKPTQVITSVSDDRGRTVVTDYFKDIDARIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P Q + Y + G + ++++ L+KGI ++ + V + + V + Sbjct: 125 MTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELEDGMTQPAEVKVKKQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE F +V +L RI YGP + L AG R ++ ++ + HL E Sbjct: 185 TITEGRNRQVRRMFEHFGHQVTKLSRIEYGPLNVVGLNAGEGRVLTPHEVK--VMRHLAE 242 Query: 252 EAQ 254 + Sbjct: 243 HGK 245 >gi|312876843|ref|ZP_07736820.1| pseudouridine synthase [Caldicellulosiruptor lactoaceticus 6A] gi|311796358|gb|EFR12710.1| pseudouridine synthase [Caldicellulosiruptor lactoaceticus 6A] Length = 230 Score = 272 bits (696), Expect = 7e-71, Method: Composition-based stats. Identities = 74/222 (33%), Positives = 117/222 (52%), Gaps = 2/222 (0%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERTRLWLY 78 +A+ GIASRR+ E +I Q RVKVNG + + V D +EVDG + + + Sbjct: 1 MAQCGIASRRKCEEIILQGRVKVNGKTVNQLGFKVDPEKDVVEVDGKRISLQMQKVYIML 60 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARVLELP 137 +KP G++++ D GR TV D + + RV VGRLD +T GL+LLTNDG A + P Sbjct: 61 NKPFGVISSAKDEKGRKTVVDLVKDKVNVRVFPVGRLDFDTTGLILLTNDGEFAYKVTHP 120 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGK 197 + Y G +++++ +KG++I G + + NA V + + EG+ Sbjct: 121 KHDIEKTYIALIRGIPSKEEIDRFEKGLLIDGKMTAPAKFKILKLINGNALVEIKIHEGR 180 Query: 198 NREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 NR+I+K+ +V +L R++ G QLG L G + K+ Sbjct: 181 NRQIRKMCAQIGHEVLKLKRVAIGKLQLGKLKEGEFVFLDKE 222 >gi|163783757|ref|ZP_02178743.1| hypothetical protein HG1285_01633 [Hydrogenivirga sp. 128-5-R1-1] gi|159881003|gb|EDP74521.1| hypothetical protein HG1285_01633 [Hydrogenivirga sp. 128-5-R1-1] Length = 244 Score = 272 bits (696), Expect = 7e-71, Method: Composition-based stats. Identities = 74/233 (31%), Positives = 122/233 (52%), Gaps = 3/233 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+++ ++ G+ SRR+ +++I + RVKVNG ++ V + D +EVDG ++ R Sbjct: 4 RLNRYLSMCGVTSRRKADKLIEEGRVKVNGEVVRDLGVKIDPEVDRVEVDGKEVKPP-RK 62 Query: 74 RLWLYHKPIGLVTT-HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP +T G+ T+ + + + RV VGRLD NTEGLLLLTNDG LA Sbjct: 63 IYIILNKPCCYLTQLGKSQSGKKTIEELIKDVPERVFPVGRLDYNTEGLLLLTNDGELAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY G+V ++ L +K G ++ V + +G N + + Sbjct: 123 RVLHPRYKLPKVYLALVKGKVSKNTLRKMKHGAELEDGFAKPDDVRIVRYEGDNTLLEIV 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 EG+ +K+ F V +L RI+ G +LG L G RE+S++ LR+ Sbjct: 183 FHEGRKHIVKRFLASFGHPVIKLKRIALGTLKLGKLPPGKWRELSQRELRQLF 235 >gi|255326184|ref|ZP_05367270.1| ribosomal large subunit pseudouridine synthase B [Rothia mucilaginosa ATCC 25296] gi|255296638|gb|EET75969.1| ribosomal large subunit pseudouridine synthase B [Rothia mucilaginosa ATCC 25296] Length = 386 Score = 272 bits (696), Expect = 7e-71, Method: Composition-based stats. Identities = 85/239 (35%), Positives = 134/239 (56%), Gaps = 2/239 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLR 68 + R+ K++A+AG+ASRR E MI + RV VNG ++ V V + ++VDG+ ++ Sbjct: 144 DHDGVRLQKLLAQAGVASRRVCEEMITEGRVTVNGEVVTELGVRVDPSKVTVQVDGMTVQ 203 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 ++ ++KP G+V+T DP+GR + D L S S RV VGRLD+ TEGLLLLTND Sbjct: 204 TNDKLVYMAFNKPAGVVSTMEDPEGRPCISDFLRSSMSERVFHVGRLDVETEGLLLLTND 263 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + + Y V+ G ++ +KKGI ++ + L + Sbjct: 264 GELANRLTHPSYEVPKTYLVQVPGPMEPGVGAAMKKGIRLEDGVTRVDEFKLVDSTPGHV 323 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 V V + GKNR ++++F+ + V RL+R+ GP ++G+ G+ R +SK + L Sbjct: 324 LVEVTIHSGKNRIVRRLFDAVGYPVERLVRVEMGPIRIGSQKQGTVRNLSKVEIGHLLA 382 >gi|331269561|ref|YP_004396053.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum BKT015925] gi|329126111|gb|AEB76056.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum BKT015925] Length = 237 Score = 272 bits (695), Expect = 7e-71, Method: Composition-based stats. Identities = 72/233 (30%), Positives = 114/233 (48%), Gaps = 2/233 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 +R+ K +A G+ASRR+ E +I+Q RVKVN ++ V D + VD V + Sbjct: 1 MLKERLQKYMAACGVASRRKCEEIISQDRVKVNCEIVNELGFKVDPEIDKVYVDSVLITL 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ +KP G V+T D GR T+ D + + R+ +GRLD NT GL+LLTNDG Sbjct: 61 EEQKVYIALNKPEGYVSTVKDERGRKTILDIV-KVNERIFPIGRLDYNTSGLILLTNDGD 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + P + +VY G D++ GI I G + + V Sbjct: 120 VYNKIIHPREEIDKVYIAVIKGIPSHDEIKNFCNGIDIGGYVTSKASFEILEKLNDKCKV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EGKNR+++++ E V L R+S G L T+ G R +++ ++ Sbjct: 180 KIIIHEGKNRQVRRMCEKIGHPVIALKRVSVGKISLNTIKRGEWRYLNESEIK 232 >gi|330996052|ref|ZP_08319946.1| pseudouridylate synthase [Paraprevotella xylaniphila YIT 11841] gi|329574049|gb|EGG55627.1| pseudouridylate synthase [Paraprevotella xylaniphila YIT 11841] Length = 253 Score = 272 bits (695), Expect = 7e-71, Method: Composition-based stats. Identities = 68/242 (28%), Positives = 115/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + + P R++K +A AG+ SRRE + I V VNG ++ V +D + Sbjct: 5 IEYKELNVDPDAPIRLNKFLANAGVCSRREADEFITAGVVSVNGTVVTELGTKVKRSDEV 64 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 65 KFHEQPVS-IERKVYVLLNKPKDYVTTSDDPQNRKTVMDLVKNVCRERIYPVGRLDRNTT 123 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LL TNDG LA L P ++Y V V + + +GI ++ + Sbjct: 124 GVLLFTNDGELASKLTHPKFLKKKIYHVTTDKNVTAADMRQIAEGITLEDGEIKADAIEY 183 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + + + GKNR ++++FE ++V +L R+ + + G R ++++ Sbjct: 184 ASPT-DKKQIGIEIHSGKNRIVRRIFEALGYRVVKLDRVLFAGLTKKNVRRGDWRFLTEQ 242 Query: 240 IL 241 + Sbjct: 243 EV 244 >gi|104773810|ref|YP_618790.1| pseudouridylate synthase [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] gi|116513816|ref|YP_812722.1| 16S rRNA uridine-516 pseudouridylate synthase related pseudouridylate synthase [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] gi|103422891|emb|CAI97553.1| Pseudouridylate synthase [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] gi|116093131|gb|ABJ58284.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] gi|325125474|gb|ADY84804.1| Ribosomal large subunit pseudouridine synthase B [Lactobacillus delbrueckii subsp. bulgaricus 2038] Length = 241 Score = 272 bits (695), Expect = 7e-71, Method: Composition-based stats. Identities = 68/236 (28%), Positives = 112/236 (47%), Gaps = 8/236 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR +V +I +V VNG + A V + V+G + ++ Sbjct: 3 RLDKFLANMKVGSRSQVHEIIKAGQVTVNGKVCRSAKQKVKEDAEVLVNGQAVVY-QQYH 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G+++ D + TV D L + ++ VGRLD +T GLLLLTNDG LA Sbjct: 62 YFLLNKPAGVLSATEDSR-QKTVLDLLKDQDRYQKIAPVGRLDKDTTGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS--NAWV 189 L P + Y G D++ + G+ + G Q+ + Q + + Sbjct: 121 QLLAPEYHVPKTYYALLAGVADEETAKAIAAGLTLKDGTELKPGQLNILRQDKDQEQSEI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + + EGK ++K++F KV +L R+S GP L L GS R ++++ L Sbjct: 181 EITITEGKYHQVKRMFASQGMKVLKLKRLSMGPLTLPADLAPGSYRPLTEEELAAL 236 >gi|219870596|ref|YP_002474971.1| ribosomal small subunit pseudouridine synthase A [Haemophilus parasuis SH0165] gi|219690800|gb|ACL32023.1| ribosomal small subunit pseudouridine synthase A [Haemophilus parasuis SH0165] Length = 230 Score = 272 bits (695), Expect = 7e-71, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 103/230 (44%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + + +V VNG++ + +A + D I DG PL + Sbjct: 1 MRLDKFIAENTGLTRSQASKALRAGQVTVNGVVEKNSATKISEQDEICFDGEPLAWVDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ +KP V +H D D TVF +++ GRLD +T GL+LLT+DG + Sbjct: 61 QYFMLYKPQNCVCSHDDGDY-PTVFQFFDYPLTTKLHCAGRLDADTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+ +GI+++G L+ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEDFYATQFAEGILLRGEKTATKPAQLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G L L G R +++ + Sbjct: 178 ISEGRYHQVKRMFAALGNKVVALHRWRIGDVVLDENLAEGEFRALTEDEI 227 >gi|51596461|ref|YP_070652.1| 23S rRNA pseudouridylate synthase B [Yersinia pseudotuberculosis IP 32953] gi|170024274|ref|YP_001720779.1| 23S rRNA pseudouridylate synthase B [Yersinia pseudotuberculosis YPIII] gi|186895510|ref|YP_001872622.1| 23S rRNA pseudouridylate synthase B [Yersinia pseudotuberculosis PB1/+] gi|51589743|emb|CAH21373.1| putative RNA pseudouridylate synthase-family protein [Yersinia pseudotuberculosis IP 32953] gi|169750808|gb|ACA68326.1| pseudouridine synthase [Yersinia pseudotuberculosis YPIII] gi|186698536|gb|ACC89165.1| pseudouridine synthase [Yersinia pseudotuberculosis PB1/+] Length = 344 Score = 272 bits (695), Expect = 7e-71, Method: Composition-based stats. Identities = 112/333 (33%), Positives = 165/333 (49%), Gaps = 25/333 (7%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLR 68 +++ K++ARAG SRRE+E +I Q RV V+G + + V V + I +DG L Sbjct: 25 KIVGEKLQKILARAGHGSRREIEAIIQQGRVSVDGKVSKLGDRVEVTQSTKIRLDGHLLS 84 Query: 69 KAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLL 123 E R+ Y+KP G + T +DP+GR TVFD LP SR ++VGRLD+NT GLLL Sbjct: 85 IKESEENVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLL 144 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS + R Y VR GQ+D DK+ L +G+ ++ ++ + Sbjct: 145 FTTDGELANRLMHPSREVEREYAVRVFGQIDDDKIKQLSRGVQLEDGPAAFRTISYQGGE 204 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK--- 239 G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ K Sbjct: 205 GINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLKATN 264 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 LRE V LD S + +DR + + R K ++ +G Sbjct: 265 YLREL----------VELDVETVSKLPVEKDRRRVKAN---QIRRAVKRHTEVSGRQVAG 311 Query: 300 KLATPVHRRNLASNVWMA-KGIHSSFLSDSGQR 331 + + + + NV A +S S +R Sbjct: 312 RQGS-ARKGSTRQNVGNAVPAATASRRSGPKKR 343 >gi|283785995|ref|YP_003365860.1| ribosomal small subunit pseudouridine synthase A [Citrobacter rodentium ICC168] gi|282949449|emb|CBG89062.1| ribosomal small subunit pseudouridine synthase A [Citrobacter rodentium ICC168] Length = 231 Score = 272 bits (695), Expect = 8e-71, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 102/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ AA ++ +E DG L + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRASRVTVDGEIVRNAAFKLLPEHAVEYDGNTLVQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTRPAELEV--ITPTQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVALHRERIGAIALDADLAPGEYRPLTEEEI 227 >gi|253732136|ref|ZP_04866301.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus USA300_TCH959] gi|253724091|gb|EES92820.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus USA300_TCH959] Length = 245 Score = 272 bits (695), Expect = 8e-71, Method: Composition-based stats. Identities = 80/243 (32%), Positives = 135/243 (55%), Gaps = 5/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I++ +VKVNG + V +D IEV+G+ + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIELEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 -YILFHKPTQVITSVSDDRGRTVVTDYFKDIEARIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P Q + Y + G + ++++ L+KGI ++ + V + + V + Sbjct: 125 MTHPRYQIKKKYVAKLKGYIMREEVKALEKGIELEDGMTQPAEVKVKKQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE F +V +L RI YGP + L AG R ++ ++ + HL E Sbjct: 185 TITEGRNRQVRRMFEHFGHQVTKLSRIEYGPLNVVGLNAGEGRVLTPHEVK--VMRHLAE 242 Query: 252 EAQ 254 + Sbjct: 243 HGK 245 >gi|271500910|ref|YP_003333935.1| pseudouridine synthase [Dickeya dadantii Ech586] gi|270344465|gb|ACZ77230.1| pseudouridine synthase [Dickeya dadantii Ech586] Length = 232 Score = 272 bits (695), Expect = 8e-71, Method: Composition-based stats. Identities = 57/229 (24%), Positives = 104/229 (45%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR + R + QRV VNG +++ A ++ + DG L + Sbjct: 1 MRLDKFLSQQLGISRSLIVRELRAQRVTVNGEVVKSGAFKLLPEHEVAFDGNVLEQQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTILYFIDEPVAHKLHAAGRLDIDTSGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D + G+ + TL+ S V + + Sbjct: 121 ITSPKHHCEKTYLVTLEQPLAADTAEKFQAGVQLHNEKNLTRPATLEV--LSEHQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 TEGRYHQVKRMFAAIGNHVVALHRERIGAITLDDTLEPGEYRPLTQEEV 227 >gi|54309880|ref|YP_130900.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Photobacterium profundum SS9] gi|46914319|emb|CAG21098.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Photobacterium profundum SS9] Length = 372 Score = 272 bits (695), Expect = 8e-71, Method: Composition-based stats. Identities = 76/356 (21%), Positives = 140/356 (39%), Gaps = 10/356 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +K+ + P R++K I+ G SRRE +++I Q RV +NG VM D + Sbjct: 7 DNKDQLDPQNKPVRLNKFISDTGYCSRREADKLIDQGRVTINGTQP-EMGTKVMPDDEVL 65 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VD PLR ER +KP G+ T ++ + + D + R+ +GRLD ++GL Sbjct: 66 VDDKPLRAKERPIYIALNKPTGVTCT-TERHVKDNIVDFI-GHRKRIFPIGRLDKPSDGL 123 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 + LTNDG + + + Y VR Q+ + L + G+ I V Sbjct: 124 IFLTNDGDIVNKILRAGNSHEKEYVVRVSHQITPEFLEKMASGVEILDTVTLPCIVK--- 180 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 K ++ + L +G NR+I+++ E + V +L R+ + L G R ++ + Sbjct: 181 -KETDYSFRITLTQGLNRQIRRMCEALGYDVYKLRRVRIMNITIDGLPNGKWRYLTDAEI 239 Query: 242 RE---QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 E + E +DA + + + + + ++ ++ K Sbjct: 240 AEINTLISQSSGTEEASKVDAEGQAIAKATDAKLFDSRQQAAEERQRERERGMRDATYKT 299 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 K R ++ + + G + R +S R + A + Sbjct: 300 FKAKGEFTRTRRNTDRDDKSTDSRNGSARHGDSRPSQSRDHQSFRDQSARDSQAPR 355 >gi|251790037|ref|YP_003004758.1| 16S rRNA pseudouridylate synthase A [Dickeya zeae Ech1591] gi|247538658|gb|ACT07279.1| pseudouridine synthase [Dickeya zeae Ech1591] Length = 232 Score = 272 bits (695), Expect = 8e-71, Method: Composition-based stats. Identities = 58/229 (25%), Positives = 105/229 (45%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + QRV V+G +++ A ++ + D L + Sbjct: 1 MRLDKFLSQQLGISRSLVARELRAQRVTVDGEVIKNGAFKLLPEHEVAFDDNVLVQQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP+G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLNKPLGYVCSTDDPDHPTILYFIDEPVAHKLHAAGRLDIDTSGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D + G+ + G TL+ S V + + Sbjct: 121 ITSPKHHCEKTYLVTLDQPLAPDTAEKFQAGVQLHGEQSLTRPATLEI--ISEHQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L AG R ++ + + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVALHRERIGAITLDDALEAGEYRPLTPEEI 227 >gi|167856142|ref|ZP_02478882.1| ribosomal small subunit pseudouridine synthase A [Haemophilus parasuis 29755] gi|167852738|gb|EDS24012.1| ribosomal small subunit pseudouridine synthase A [Haemophilus parasuis 29755] Length = 230 Score = 272 bits (695), Expect = 8e-71, Method: Composition-based stats. Identities = 62/230 (26%), Positives = 105/230 (45%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + + +V VNG++ + +A + D I DG PL + Sbjct: 1 MRLDKFIAENTGLTRSQASKALRAGQVTVNGVVEKNSATKISEQDEICFDGEPLAWVDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ +KP V +H D D TVF +++ GRLD +T GL+LLT+DG + Sbjct: 61 QYFMLYKPQNCVCSHDDGDY-PTVFQFFDYPLTTKLHCAGRLDADTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+ +GI+++G TL+ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEDFYATQFAEGILLRGEKTLTKPATLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G L TL G R +++ + Sbjct: 178 ISEGRYHQVKRMFAALGNKVVALHRWRIGNVVLDETLAEGEFRALTEDEV 227 >gi|320534116|ref|ZP_08034657.1| hypothetical protein HMPREF9057_02553 [Actinomyces sp. oral taxon 171 str. F0337] gi|320133695|gb|EFW26102.1| hypothetical protein HMPREF9057_02553 [Actinomyces sp. oral taxon 171 str. F0337] Length = 324 Score = 272 bits (695), Expect = 8e-71, Method: Composition-based stats. Identities = 89/243 (36%), Positives = 126/243 (51%), Gaps = 10/243 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 + QR+ KV+A AG+ASRR E++IA RV V+GI + A V V T I +DG + Sbjct: 76 SGQRLQKVLAHAGVASRRACEQLIADGRVSVDGITVTEAGVRVDPLTQEIRLDGSRILTN 135 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVF----DNLPSIFS-----RVISVGRLDINTEGL 121 + HKP G+VTT DP+GR TV D L R++ VGRLD TEGL Sbjct: 136 PELITLMLHKPAGVVTTMDDPEGRPTVAQYGRDYLAEHPELPDSLRLVHVGRLDTETEGL 195 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLL+NDG L+ L PS + + Y GQV+ L++GI ++ +VT+ Sbjct: 196 LLLSNDGELSHRLMHPSFEIAKTYVAIVEGQVEPWVPRKLRRGIELEDGEAKADRVTVKD 255 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + L GKNR ++++ + V RL R GP +LG L G TR +S + + Sbjct: 256 SGPRGSIVEITLHSGKNRIVRRMLDAVGHPVTRLARTRLGPLRLGNLRPGETRPLSGEEI 315 Query: 242 REQ 244 Sbjct: 316 AAL 318 >gi|162419712|ref|YP_001606744.1| 23S rRNA pseudouridylate synthase B [Yersinia pestis Angola] gi|162352527|gb|ABX86475.1| ribosomal large subunit pseudouridine synthase B [Yersinia pestis Angola] Length = 344 Score = 272 bits (695), Expect = 8e-71, Method: Composition-based stats. Identities = 112/333 (33%), Positives = 165/333 (49%), Gaps = 25/333 (7%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLR 68 +++ K++ARAG SRRE+E +I Q RV V+G + + V V + I +DG L Sbjct: 25 KIVGEKLQKILARAGHGSRREIEAIIQQGRVSVDGKVSKLGDRVEVTQSTKIRLDGHLLS 84 Query: 69 KAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLL 123 E R+ Y+KP G + T +DP+GR TVFD LP SR ++VGRLD+NT GLLL Sbjct: 85 IKESEENVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLL 144 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS + R Y VR GQ+D DK+ L +G+ ++ ++ + Sbjct: 145 FTTDGELANCLMHPSREVEREYAVRVFGQIDDDKIKQLSRGVQLEDGPAAFRTISYQGGE 204 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK--- 239 G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ K Sbjct: 205 GINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLKATN 264 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 LRE V LD S + +DR + + R K ++ +G Sbjct: 265 YLREL----------VELDVETVSKLPVEKDRRRVKAN---QIRRAVKRHTEVSGRQVAG 311 Query: 300 KLATPVHRRNLASNVWM-AKGIHSSFLSDSGQR 331 + + + + NV A +S S +R Sbjct: 312 RQGS-ARKGSTRQNVGNAAPAATASRRSGPKKR 343 >gi|52841677|ref|YP_095476.1| pseudouridine synthase [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] gi|52628788|gb|AAU27529.1| pseudouridine synthase [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] Length = 248 Score = 272 bits (695), Expect = 8e-71, Method: Composition-based stats. Identities = 95/241 (39%), Positives = 140/241 (58%), Gaps = 7/241 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----P 66 + +R+ K++++AG+ SRRE+ER I V+VNG + + +D I V G P Sbjct: 1 MSSERLQKILSQAGLGSRREMERWIDNGWVQVNGKPAK-LGDSAGPSDKISVKGKLIPNP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 L+ + R+ LYHKP+G V++ DP TVFDNLP + R + VGRLD+NT GLL+ T Sbjct: 60 LKSKQNIRVLLYHKPVGEVSSRHDPKFEKTVFDNLPHLRQGRWVQVGRLDLNTSGLLIFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N+G LA L P R Y VR HGQV Q+ LN L KG+++ ++ +G+ Sbjct: 120 NNGELANQLMHPKYGLEREYAVRVHGQVSQESLNNLLKGVMLDDGLAKFTKIQFRGGEGT 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 N+W V L EG+NRE+++++E +V+RLIRI YG + L G E++ K + E Sbjct: 180 NSWYHVTLNEGRNREVRRLWESQGVEVSRLIRIRYGMLTMPRFLSRGQFYELTPKEVTEF 239 Query: 245 L 245 L Sbjct: 240 L 240 >gi|298694777|gb|ADI97999.1| pseudouridine synthase [Staphylococcus aureus subsp. aureus ED133] Length = 245 Score = 272 bits (695), Expect = 9e-71, Method: Composition-based stats. Identities = 80/243 (32%), Positives = 135/243 (55%), Gaps = 5/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I++ +VKVNG + V +D IEV+G+ + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIELEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 -YILFHKPTQVITSVSDDRGRTVVTDYFKDIDARIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P Q + Y + G + ++++ L+KGI ++ + V + + V + Sbjct: 125 MTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELEDGMTQPAEVKVKKQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE F +V +L RI YGP + L AG R ++ ++ + HL E Sbjct: 185 TITEGRNRQVRRMFEHFGHQVTKLSRIDYGPLNVVGLNAGEGRVLTPHEVK--VMRHLAE 242 Query: 252 EAQ 254 + Sbjct: 243 HGK 245 >gi|330811302|ref|YP_004355764.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas brassicacearum subsp. brassicacearum NFM421] gi|327379410|gb|AEA70760.1| Ribosomal large subunit pseudouridine synthase B [Pseudomonas brassicacearum subsp. brassicacearum NFM421] Length = 411 Score = 272 bits (695), Expect = 9e-71, Method: Composition-based stats. Identities = 107/351 (30%), Positives = 165/351 (47%), Gaps = 26/351 (7%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +D+N QE +++ KV+AR G+ SRR+VE I Q R+KVNG + V D I Sbjct: 4 QDQNDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-LGLRVDMHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 +DG +++ E R+ +Y+KP G + T DP+GR TVFD +P R I++GRLD Sbjct: 63 TIDGKVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDKMPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD + + LK G+V++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVVLEDGPARFT 182 Query: 176 QVT-LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ +GP L L G Sbjct: 183 DIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLNSDLPMGRW 242 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 RE+S+ + D P + ++ D RM++ SS+ Sbjct: 243 REMSQYEV----------------DILAAEVGLKPVAMPQMTAKSKDKLERMQRKSSRPM 286 Query: 294 GLSKQKKLATPVHRRNLASN-VWMAKGIHSSFLSDSGQREENHRRSPSFPS 343 G +++ + P I + ++ R P P Sbjct: 287 GKTERVRTLRPAAEGAPTGPRPSREPQIEGERPARKPAPRQDGERGPRTPR 337 >gi|330939561|gb|EGH42880.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. pisi str. 1704B] Length = 299 Score = 272 bits (695), Expect = 9e-71, Method: Composition-based stats. Identities = 108/315 (34%), Positives = 159/315 (50%), Gaps = 31/315 (9%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG V D I Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-LGQRVDLHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLD Sbjct: 63 SVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPARFT 182 Query: 176 QV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 RE+S+ L ++G + + P + ++ D R+++ SS Sbjct: 243 REMSQYEVDILAAEVGLQPVAQ-------------------PQMNAKTKDKMERLQRQSS 283 Query: 291 QKNGLSKQKKLATPV 305 + G ++ + P Sbjct: 284 RPLGKGERVRTLRPA 298 >gi|148358978|ref|YP_001250185.1| pseudouridine synthase [Legionella pneumophila str. Corby] gi|296107027|ref|YP_003618727.1| ribosomal large subunit pseudouridine synthase B [Legionella pneumophila 2300/99 Alcoy] gi|148280751|gb|ABQ54839.1| pseudouridine synthase [Legionella pneumophila str. Corby] gi|295648928|gb|ADG24775.1| ribosomal large subunit pseudouridine synthase B [Legionella pneumophila 2300/99 Alcoy] Length = 248 Score = 272 bits (695), Expect = 9e-71, Method: Composition-based stats. Identities = 95/241 (39%), Positives = 140/241 (58%), Gaps = 7/241 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----P 66 + +R+ K++++AG+ SRRE+ER I V+VNG + + +D I V G P Sbjct: 1 MSSERLQKILSQAGLGSRREMERWIDNGWVQVNGKPAK-LGDSAGPSDKISVKGKLIPNP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 L+ + R+ LYHKP+G V++ DP TVFDNLP + R + VGRLD+NT GLL+ T Sbjct: 60 LKGKQNIRVLLYHKPVGEVSSRHDPKFEKTVFDNLPHLRQGRWVQVGRLDLNTSGLLIFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N+G LA L P R Y VR HGQV Q+ LN L KG+++ ++ +G+ Sbjct: 120 NNGELANQLMHPKYGLEREYAVRVHGQVSQESLNNLLKGVMLDDGLAKFTKIQFRGGEGT 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 N+W V L EG+NRE+++++E +V+RLIRI YG + L G E++ K + E Sbjct: 180 NSWYHVTLNEGRNREVRRLWESQGVEVSRLIRIRYGMLTMPRFLSRGQFYELTPKEVTEF 239 Query: 245 L 245 L Sbjct: 240 L 240 >gi|87307978|ref|ZP_01090120.1| ribosomal large subunit pseudouridine synthase B [Blastopirellula marina DSM 3645] gi|87289060|gb|EAQ80952.1| ribosomal large subunit pseudouridine synthase B [Blastopirellula marina DSM 3645] Length = 517 Score = 272 bits (695), Expect = 9e-71, Method: Composition-based stats. Identities = 96/354 (27%), Positives = 164/354 (46%), Gaps = 7/354 (1%) Query: 1 MKDKNIVQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M + +N P +R+ KV+A AGI SRR+ E +I + RV+V+G + + V Sbjct: 1 MPENPAESDNPAPLRLERLHKVLAFAGIDSRRKCEALIQEGRVEVDGKFVTELGMKVDPE 60 Query: 58 -DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 I VDG L+ +R ++ +KP G+++T+ DP GR+ V D +P R+ ++GRLD Sbjct: 61 HQEILVDGQRLKFGKR-VYYMLNKPPGVLSTNFDPAGRTRVIDMVPQDV-RLFTIGRLDR 118 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +EGL+++TNDG LA L P + + YRV G + D + +++G+ + + Sbjct: 119 ASEGLIVVTNDGELANRLAHPRYEIEKTYRVEVAGHPEPDAITFVRRGVHLAEGFVQPVS 178 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + + + V L EGKNREI+++ KV RL RI+ GP +LG + G+ RE+ Sbjct: 179 VVMKRKNKQSTTLEVILDEGKNREIRRLMAKIGHKVLRLKRIAMGPLRLGEMPEGAFREL 238 Query: 237 SKKILREQL-GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 + + + P SS R+ P R ++ Sbjct: 239 KSAETKALRDAAFGVGAGKPKKPKPRKSSTPGEREGPIFPETKTIAKGRAGAKPTETGAK 298 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 S+ T ++ ++ A SS + + R+ + S S + Sbjct: 299 SRATGKPTGAASKDRSTYKKSAGTGSSSRAAGKPAGSSSKDRASASKSSDSAPK 352 >gi|258423147|ref|ZP_05686040.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9635] gi|257846597|gb|EEV70618.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9635] Length = 245 Score = 271 bits (694), Expect = 9e-71, Method: Composition-based stats. Identities = 80/243 (32%), Positives = 136/243 (55%), Gaps = 5/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I++ +VKVNG + V +D IEV+G+ + + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIEQEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 -YILFHKPTQVITSVSDDRGRTVVTDYFKDIDARIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTV 191 + P Q + Y + G + ++++ L+KGI ++ +V + + V + Sbjct: 125 MTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELEDGLTQPADVKVKKQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE F +V +L RI YGP + L AG R ++ ++ + HL E Sbjct: 185 TITEGRNRQVRRMFEHFGHQVTKLSRIEYGPLNVVGLNAGEGRVLTPHEVK--VMRHLAE 242 Query: 252 EAQ 254 + Sbjct: 243 HGK 245 >gi|332878090|ref|ZP_08445820.1| pseudouridylate synthase [Capnocytophaga sp. oral taxon 329 str. F0087] gi|332684052|gb|EGJ56919.1| pseudouridylate synthase [Capnocytophaga sp. oral taxon 329 str. F0087] Length = 253 Score = 271 bits (694), Expect = 9e-71, Method: Composition-based stats. Identities = 70/242 (28%), Positives = 113/242 (46%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + + P R++K +A AG+ SRRE + I V VNG ++ V TD + Sbjct: 5 IEYKELNVDPDAPIRLNKFLANAGVCSRREADEFITAGVVSVNGTVVTELGTKVKRTDEV 64 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 65 KFHEQPVS-IERKVYVLLNKPKDYVTTSDDPQNRKTVMDLVKNVCRERIYPVGRLDRNTT 123 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LL TNDG LA L P ++Y V V + + +GI ++ Sbjct: 124 GVLLFTNDGELASKLTHPKFLKKKIYHVTTDKNVTAADMRQIAEGITLEDGEIR-ADAID 182 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + + GKNR ++++FE ++V +L R+ + + G R ++++ Sbjct: 183 YASPTDKKQVGIEIHSGKNRIVRRIFEALGYRVVKLDRVLFAGLTKKNVRRGDWRFLTEQ 242 Query: 240 IL 241 + Sbjct: 243 EV 244 >gi|15924483|ref|NP_372017.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus Mu50] gi|15927074|ref|NP_374607.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus N315] gi|21283176|ref|NP_646264.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus MW2] gi|49483743|ref|YP_040967.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus MRSA252] gi|49486331|ref|YP_043552.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus MSSA476] gi|57650449|ref|YP_186378.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus COL] gi|82751087|ref|YP_416828.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus RF122] gi|87160582|ref|YP_494139.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|88195298|ref|YP_500102.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus NCTC 8325] gi|148267977|ref|YP_001246920.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus JH9] gi|150394042|ref|YP_001316717.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus JH1] gi|151221613|ref|YP_001332435.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus str. Newman] gi|156979812|ref|YP_001442071.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus Mu3] gi|161509722|ref|YP_001575381.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|221140086|ref|ZP_03564579.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus str. JKD6009] gi|253314861|ref|ZP_04838074.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus str. CF-Marseille] gi|253733259|ref|ZP_04867424.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus TCH130] gi|255006279|ref|ZP_05144880.2| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus Mu50-omega] gi|257425616|ref|ZP_05602040.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 55/2053] gi|257428277|ref|ZP_05604675.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 65-1322] gi|257430914|ref|ZP_05607294.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 68-397] gi|257433603|ref|ZP_05609961.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus E1410] gi|257436516|ref|ZP_05612560.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus M876] gi|257793570|ref|ZP_05642549.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9781] gi|258407188|ref|ZP_05680336.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9763] gi|258437324|ref|ZP_05689308.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9299] gi|258443529|ref|ZP_05691868.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A8115] gi|258446736|ref|ZP_05694890.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A6300] gi|258448651|ref|ZP_05696763.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A6224] gi|258451151|ref|ZP_05699186.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A5948] gi|258454267|ref|ZP_05702237.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A5937] gi|262049080|ref|ZP_06021957.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus D30] gi|262053234|ref|ZP_06025385.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus 930918-3] gi|269203120|ref|YP_003282389.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus ED98] gi|282892992|ref|ZP_06301226.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A8117] gi|282904073|ref|ZP_06311961.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus C160] gi|282905900|ref|ZP_06313755.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus Btn1260] gi|282908810|ref|ZP_06316628.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus WW2703/97] gi|282911129|ref|ZP_06318931.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus WBG10049] gi|282914298|ref|ZP_06322084.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus M899] gi|282916759|ref|ZP_06324517.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus D139] gi|282919267|ref|ZP_06327002.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus C427] gi|282924592|ref|ZP_06332260.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus C101] gi|282924742|ref|ZP_06332409.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9765] gi|282928963|ref|ZP_06336550.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A10102] gi|283958255|ref|ZP_06375706.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus A017934/97] gi|284024553|ref|ZP_06378951.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 132] gi|293503375|ref|ZP_06667222.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 58-424] gi|293510390|ref|ZP_06669096.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus M809] gi|293530929|ref|ZP_06671611.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus M1015] gi|294848523|ref|ZP_06789269.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9754] gi|295406613|ref|ZP_06816418.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A8819] gi|295428069|ref|ZP_06820701.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus EMRSA16] gi|296276357|ref|ZP_06858864.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus MR1] gi|297207787|ref|ZP_06924222.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus ATCC 51811] gi|297245803|ref|ZP_06929668.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A8796] gi|297590963|ref|ZP_06949601.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus MN8] gi|300911868|ref|ZP_07129311.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus TCH70] gi|304380920|ref|ZP_07363580.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|13701292|dbj|BAB42586.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus N315] gi|14247264|dbj|BAB57655.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus Mu50] gi|21204616|dbj|BAB95312.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus MW2] gi|49241872|emb|CAG40565.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus MRSA252] gi|49244774|emb|CAG43210.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus MSSA476] gi|57284635|gb|AAW36729.1| pseudouridine synthase [Staphylococcus aureus subsp. aureus COL] gi|82656618|emb|CAI81043.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus RF122] gi|87126556|gb|ABD21070.1| ribosomal large subunit pseudouridine synthase B, RluB [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|87202856|gb|ABD30666.1| ribosomal large subunit pseudouridine synthase B, putative [Staphylococcus aureus subsp. aureus NCTC 8325] gi|147741046|gb|ABQ49344.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus JH9] gi|149946494|gb|ABR52430.1| pseudouridine synthase [Staphylococcus aureus subsp. aureus JH1] gi|150374413|dbj|BAF67673.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus str. Newman] gi|156721947|dbj|BAF78364.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus Mu3] gi|160368531|gb|ABX29502.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|253728799|gb|EES97528.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus TCH130] gi|257271310|gb|EEV03456.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 55/2053] gi|257275118|gb|EEV06605.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 65-1322] gi|257278344|gb|EEV08980.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 68-397] gi|257281696|gb|EEV11833.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus E1410] gi|257283867|gb|EEV13990.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus M876] gi|257787542|gb|EEV25882.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9781] gi|257841215|gb|EEV65661.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9763] gi|257848529|gb|EEV72517.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9299] gi|257850935|gb|EEV74878.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A8115] gi|257854311|gb|EEV77260.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A6300] gi|257857929|gb|EEV80818.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A6224] gi|257861206|gb|EEV84019.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A5948] gi|257863546|gb|EEV86304.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A5937] gi|259158873|gb|EEW43966.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus 930918-3] gi|259162749|gb|EEW47314.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus D30] gi|262075410|gb|ACY11383.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus ED98] gi|269940985|emb|CBI49369.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus TW20] gi|282313427|gb|EFB43822.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus C101] gi|282317077|gb|EFB47451.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus C427] gi|282319246|gb|EFB49598.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus D139] gi|282321479|gb|EFB51804.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus M899] gi|282324824|gb|EFB55134.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus WBG10049] gi|282327074|gb|EFB57369.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus WW2703/97] gi|282331192|gb|EFB60706.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus Btn1260] gi|282589370|gb|EFB94461.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A10102] gi|282592749|gb|EFB97755.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9765] gi|282595691|gb|EFC00655.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus C160] gi|282764310|gb|EFC04436.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A8117] gi|283470772|emb|CAQ49983.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus ST398] gi|283790404|gb|EFC29221.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus A017934/97] gi|285817174|gb|ADC37661.1| Ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus 04-02981] gi|290920197|gb|EFD97263.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus M1015] gi|291095041|gb|EFE25306.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus 58-424] gi|291466754|gb|EFF09274.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus M809] gi|294824549|gb|EFG40972.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A9754] gi|294968360|gb|EFG44384.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A8819] gi|295128427|gb|EFG58061.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus subsp. aureus EMRSA16] gi|296887804|gb|EFH26702.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus ATCC 51811] gi|297177454|gb|EFH36706.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus A8796] gi|297575849|gb|EFH94565.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus MN8] gi|300886114|gb|EFK81316.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus TCH70] gi|302751325|gb|ADL65502.1| ribosomal large subunit pseudouridine synthase B, RluB [Staphylococcus aureus subsp. aureus str. JKD6008] gi|304340647|gb|EFM06581.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|312438039|gb|ADQ77110.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus TCH60] gi|312829882|emb|CBX34724.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Staphylococcus aureus subsp. aureus ECT-R 2] gi|315129766|gb|EFT85756.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus CGS03] gi|315195390|gb|EFU25777.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus CGS00] gi|315198816|gb|EFU29144.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus CGS01] gi|320140623|gb|EFW32477.1| hypothetical protein HMPREF9528_01247 [Staphylococcus aureus subsp. aureus MRSA131] gi|320144159|gb|EFW35928.1| hypothetical protein HMPREF9529_00596 [Staphylococcus aureus subsp. aureus MRSA177] gi|323441527|gb|EGA99178.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus O46] gi|329314171|gb|AEB88584.1| Pseudouridine synthase [Staphylococcus aureus subsp. aureus T0131] gi|329725278|gb|EGG61765.1| pseudouridine synthase B, ribosomal large subunit [Staphylococcus aureus subsp. aureus 21189] gi|329727675|gb|EGG64131.1| pseudouridine synthase B, ribosomal large subunit [Staphylococcus aureus subsp. aureus 21172] gi|329730831|gb|EGG67209.1| pseudouridine synthase B, ribosomal large subunit [Staphylococcus aureus subsp. aureus 21193] Length = 245 Score = 271 bits (694), Expect = 9e-71, Method: Composition-based stats. Identities = 80/243 (32%), Positives = 135/243 (55%), Gaps = 5/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I++ +VKVNG + V +D IEV+G+ + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIELEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 -YILFHKPTQVITSVSDDRGRTVVTDYFKDIEARIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P Q + Y + G + ++++ L+KGI ++ + V + + V + Sbjct: 125 MTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELEDGMTQPAEVKVKKQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE F +V +L RI YGP + L AG R ++ ++ + HL E Sbjct: 185 TITEGRNRQVRRMFEHFGHQVTKLSRIEYGPLNVVGLNAGEGRVLTPHEVK--VMRHLAE 242 Query: 252 EAQ 254 + Sbjct: 243 HGK 245 >gi|304382274|ref|ZP_07364781.1| ribosomal large subunit pseudouridine synthase B [Prevotella marshii DSM 16973] gi|304336631|gb|EFM02860.1| ribosomal large subunit pseudouridine synthase B [Prevotella marshii DSM 16973] Length = 481 Score = 271 bits (694), Expect = 9e-71, Method: Composition-based stats. Identities = 70/242 (28%), Positives = 113/242 (46%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ ++ TD + Sbjct: 233 IEYKEEHTDPNEPIRLNKYLANAGVCSRREADEFIQAGVVTVNGQVITELGTKIVRTDEV 292 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ E+ L +KP VTT DP R TV + + R+ VGRLD NT Sbjct: 293 KFHDQPVTL-EKKVYVLLNKPRDYVTTSDDPQQRKTVMELVKGACPERIYPVGRLDRNTT 351 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LL TNDG LA L P +VY V +V + + GI + + Sbjct: 352 GVLLFTNDGDLASKLTHPKFLKKKVYHVFLDKEVTMHDMQQIATGITLDDGEIHADAIEY 411 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V + + G+NR ++++FE ++V RL R+ + L G R +++K Sbjct: 412 -AKDNDKKQVGIEIHSGRNRIVRRIFESLGYRVVRLDRVQFAGLTKKYLRRGDWRFLTEK 470 Query: 240 IL 241 + Sbjct: 471 EV 472 >gi|119945902|ref|YP_943582.1| pseudouridine synthase [Psychromonas ingrahamii 37] gi|119864506|gb|ABM03983.1| ribosomal large subunit pseudouridine synthase F [Psychromonas ingrahamii 37] Length = 318 Score = 271 bits (694), Expect = 1e-70, Method: Composition-based stats. Identities = 75/314 (23%), Positives = 139/314 (44%), Gaps = 25/314 (7%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 ++ + +N + R++K I+ +G SRRE +++I Q RVK+NG + V D + VD Sbjct: 13 QDNIVDNNSEIRLNKFISDSGFCSRREADKLIEQNRVKINGDIP-ELGTKVQLGDLVLVD 71 Query: 64 GVPLRKAERTR----LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G + + + + +Y+KPIG+ T + + N R+ +GRLD +E Sbjct: 72 GKRINASAQDKLDRIYIVYNKPIGITCTTERHIHGNII--NAIGHKKRIFPIGRLDKPSE 129 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GL+ LT+DG + + + Y V + + + +++G+ I +VT+ Sbjct: 130 GLIFLTSDGDIVNKILRAENAHDKEYLVTVDKPLSERFVERMQRGVPILDTITKPCKVTV 189 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 D S + L +G NR+I+++ E ++V +L R LG L G R ++ Sbjct: 190 D----SRFIFRIVLTQGLNRQIRRMCEHLGYEVLKLKRTRIMKVGLGNLKPGQWRNLTNI 245 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 L E ++ + SS D +S+ P +KK++ N K Sbjct: 246 ELAE-------------INQAVSSSSKTATDPAKPVSKAPQS-EAIKKSTGANNSHQPAK 291 Query: 300 KLATPVHRRNLASN 313 K+ + +N + Sbjct: 292 KIFINKNSKNTTTP 305 >gi|322715286|gb|EFZ06857.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] Length = 231 Score = 271 bits (694), Expect = 1e-70, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 104/229 (45%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + TL+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKDLTKPATLEV--ITPVQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNCVVELHRERIGAITLDENLAPGEYRPLTEEEI 227 >gi|149365868|ref|ZP_01887903.1| putative RNA pseudouridylate synthase-family protein [Yersinia pestis CA88-4125] gi|153947333|ref|YP_001400903.1| 23S rRNA pseudouridylate synthase B [Yersinia pseudotuberculosis IP 31758] gi|229894897|ref|ZP_04510075.1| 23S rRNA pseudouridylate synthase [Yersinia pestis Pestoides A] gi|229897640|ref|ZP_04512796.1| 23S rRNA pseudouridylate synthase [Yersinia pestis biovar Orientalis str. PEXU2] gi|229898285|ref|ZP_04513432.1| 23S rRNA pseudouridylate synthase [Yersinia pestis biovar Orientalis str. India 195] gi|229902144|ref|ZP_04517265.1| 23S rRNA pseudouridylate synthase [Yersinia pestis Nepal516] gi|34098644|sp|Q8ZEG0|RLUB_YERPE RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|115347920|emb|CAL20842.1| putative RNA pseudouridylate synthase-family protein [Yersinia pestis CO92] gi|149292281|gb|EDM42355.1| putative RNA pseudouridylate synthase-family protein [Yersinia pestis CA88-4125] gi|152958828|gb|ABS46289.1| ribosomal large subunit pseudouridine synthase B [Yersinia pseudotuberculosis IP 31758] gi|229681040|gb|EEO77135.1| 23S rRNA pseudouridylate synthase [Yersinia pestis Nepal516] gi|229688575|gb|EEO80644.1| 23S rRNA pseudouridylate synthase [Yersinia pestis biovar Orientalis str. India 195] gi|229693977|gb|EEO84026.1| 23S rRNA pseudouridylate synthase [Yersinia pestis biovar Orientalis str. PEXU2] gi|229701992|gb|EEO90013.1| 23S rRNA pseudouridylate synthase [Yersinia pestis Pestoides A] gi|320014878|gb|ADV98449.1| 23S rRNA pseudouridylate synthase [Yersinia pestis biovar Medievalis str. Harbin 35] Length = 318 Score = 271 bits (694), Expect = 1e-70, Method: Composition-based stats. Identities = 112/329 (34%), Positives = 165/329 (50%), Gaps = 25/329 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAER 72 +++ K++ARAG SRRE+E +I Q RV V+G + + V V + I +DG L E Sbjct: 3 EKLQKILARAGHGSRREIEAIIQQGRVSVDGKVSKLGDRVEVTQSTKIRLDGHLLSIKES 62 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP SR ++VGRLD+NT GLLL T D Sbjct: 63 EENVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQ+D DK+ L +G+ ++ ++ +G N Sbjct: 123 GELANRLMHPSREVEREYAVRVFGQIDDDKIKQLSRGVQLEDGPAAFRTISYQGGEGINQ 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILRE 243 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ K LRE Sbjct: 183 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLKATNYLRE 242 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 V LD S + +DR + + R K ++ +G + + Sbjct: 243 L----------VELDVETVSKLPVEKDRRRVKAN---QIRRAVKRHTEVSGRQVAGRQGS 289 Query: 304 PVHRRNLASNVWM-AKGIHSSFLSDSGQR 331 + + NV A +S S +R Sbjct: 290 -ARKGSTRQNVGNAAPAATASRRSGPKKR 317 >gi|289624030|ref|ZP_06456984.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. aesculi str. NCPPB3681] Length = 308 Score = 271 bits (694), Expect = 1e-70, Method: Composition-based stats. Identities = 107/315 (33%), Positives = 158/315 (50%), Gaps = 31/315 (9%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG V D I Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-LGQRVDLHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLD Sbjct: 63 SVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPARFT 182 Query: 176 QV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 RE+S+ L ++G + + P + ++ D R+++ S Sbjct: 243 REMSQYEVDILAAEVGLQPVAQ-------------------PQMNAKTKDKMERLQRQPS 283 Query: 291 QKNGLSKQKKLATPV 305 + G ++ + P Sbjct: 284 RPLGKGERVRTLRPA 298 >gi|160890592|ref|ZP_02071595.1| hypothetical protein BACUNI_03037 [Bacteroides uniformis ATCC 8492] gi|156859591|gb|EDO53022.1| hypothetical protein BACUNI_03037 [Bacteroides uniformis ATCC 8492] Length = 242 Score = 271 bits (694), Expect = 1e-70, Method: Composition-based stats. Identities = 72/235 (30%), Positives = 112/235 (47%), Gaps = 5/235 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + P R++K +A AG+ SRRE + I V VNG ++ + D ++ + Sbjct: 2 DPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEVKFHDQTVS 61 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 ER L +KP VTT DP R TV D + R+ VGRLD NT G+LLLTND Sbjct: 62 -IERKIYVLLNKPKDTVTTSDDPQARRTVMDLVKGACDERIYPVGRLDRNTTGVLLLTND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G LA L P ++Y V + + + + GI + G + D D K + Sbjct: 121 GDLASKLTHPKYLKKKIYHVHLDKNLTKADMEQIAAGIQLDDGEIHADAISYTDDFKKDD 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + GKNR ++++FE +KV +L R+ + L G R ++++ + Sbjct: 181 --VGIEIHSGKNRIVRRIFESLGYKVMKLDRVYFAGLTKKGLRRGEWRYLTEQEV 233 >gi|238786125|ref|ZP_04630080.1| Ribosomal large subunit pseudouridine synthase B [Yersinia bercovieri ATCC 43970] gi|238712977|gb|EEQ05034.1| Ribosomal large subunit pseudouridine synthase B [Yersinia bercovieri ATCC 43970] Length = 342 Score = 271 bits (694), Expect = 1e-70, Method: Composition-based stats. Identities = 111/332 (33%), Positives = 163/332 (49%), Gaps = 24/332 (7%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLR 68 +++ KV+ARAG SRRE+E +I Q RV V+G + V V I +DG L Sbjct: 24 KIVGEKLQKVLARAGHGSRREIEAIIQQGRVSVDGKISTLGDRVEVTQATKIRLDGHLLS 83 Query: 69 KAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLL 123 E R+ Y+KP G + T +DP+GR TVFD LP SR ++VGRLD+NT GLLL Sbjct: 84 ITESEEAVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLL 143 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS + R Y VR GQ+D +K+ L +G+ ++ ++ + Sbjct: 144 FTTDGELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTISFQGGE 203 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK--- 239 G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ K Sbjct: 204 GLNQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLKATN 263 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 LRE V LD+ S + +DR + + R K ++ G Sbjct: 264 YLREL----------VELDSETVSKLPVEKDRRRVKAN---QIRRAVKRHTEVAGRQVAG 310 Query: 300 KLATPVHRRNLASNVWMAKGIHSSFLSDSGQR 331 + + + + NV A ++ S +R Sbjct: 311 RQGS-ARKGSTRQNVGNAAPAATAGRRGSNKR 341 >gi|260598642|ref|YP_003211213.1| 16S rRNA pseudouridylate synthase A [Cronobacter turicensis z3032] gi|260217819|emb|CBA32307.1| Ribosomal small subunit pseudouridine synthase A [Cronobacter turicensis z3032] Length = 235 Score = 271 bits (694), Expect = 1e-70, Method: Composition-based stats. Identities = 62/229 (27%), Positives = 104/229 (45%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV VNG +++ A ++ IE DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRASRVTVNGDIVKDTAFKLLPDHEIEYDGNPLTQQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D L KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAALFAKGVQLNNEKDLTKPAQLEV--ITPTEVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G +L L G R +++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVGLHRERIGAIELDPELAPGEYRPLTEDEI 227 >gi|241889716|ref|ZP_04777014.1| ribosomal large subunit pseudouridine synthase B [Gemella haemolysans ATCC 10379] gi|241863338|gb|EER67722.1| ribosomal large subunit pseudouridine synthase B [Gemella haemolysans ATCC 10379] Length = 243 Score = 271 bits (694), Expect = 1e-70, Method: Composition-based stats. Identities = 71/236 (30%), Positives = 128/236 (54%), Gaps = 3/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA +G SRR+ E++I +V VNG +++ V +D I V+GV L E Sbjct: 3 ERLQKLIAASGYTSRRKAEQLILDGKVSVNGEVVKELGVKAEPSDIIIVEGVRL-LKENK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP ++T+ SD R+ V D ++ RV+ VGRLD +T G L+++NDG + Sbjct: 62 RYYLFYKPEKVITSMSDEKDRTCVKDFFENVNERVVPVGRLDYDTSGALIMSNDGEFINL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 + P + + Y + +G+++ + L +L+ G+ I +V + K N V + Sbjct: 122 ITHPKHKIKKTYVAKINGKLEDNHLRILRNGVRIDNYKTAKAEVNVVKNKNKSGNTLVRL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EGKNR+++++FE ++V +L R S L L G R ++ ++ + Sbjct: 182 TIHEGKNRQVRRMFEALGYEVIKLKRESIEDLTLEGLKKGEYRPLTIHEVKRLINK 237 >gi|255012441|ref|ZP_05284567.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_1_7] Length = 495 Score = 271 bits (694), Expect = 1e-70, Method: Composition-based stats. Identities = 67/245 (27%), Positives = 122/245 (49%), Gaps = 3/245 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K ++ + P R++K ++ AG+ SRRE + I + VKVN +++ + D + Sbjct: 247 IKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQKGAVKVNDVVVTELGTKITRQDVV 306 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P++ E + +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 307 TFNEKPVQ-IESKVYIVLNKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTT 365 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L PS + ++Y V V + + + G+ ++ ++ Sbjct: 366 GVLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVAIEDMEKIANGLELEDGEIHADAISY 425 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ + V + + G+NR ++++FE + V +L R+ + L G R ++++ Sbjct: 426 ASED-DKSQVGIEIHSGRNRIVRRIFESLGYHVTKLDRVYFAGLTKKNLGRGKWRYLNER 484 Query: 240 ILREQ 244 + Sbjct: 485 EVNAL 489 >gi|70726424|ref|YP_253338.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus haemolyticus JCSC1435] gi|68447148|dbj|BAE04732.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus haemolyticus JCSC1435] Length = 245 Score = 271 bits (694), Expect = 1e-70, Method: Composition-based stats. Identities = 74/231 (32%), Positives = 129/231 (55%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +VKVNG + V S+D +EV+G+ + + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLITEGKVKVNGQTVTELGTKVKSSDTVEVEGIKIEQEDKM 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L++KP ++T+ SD GR+ V D + +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 -YILFYKPTQVITSVSDDRGRTVVTDYFKDLETRIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 + P + Y + G + ++++ L+ GI ++ QV + Q V + Sbjct: 125 MTHPRYHIQKKYVAKLKGYLMREEVKALENGIELEDGFTQPAQVKVKKQDKDKNITLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+++++FE F +V++L RI +G L L AG R ++ ++ Sbjct: 185 TISEGRNRQVRRMFEHFGHQVDKLTRIEFGNLNLKGLNAGEGRVLTPHEVK 235 >gi|206900740|ref|YP_002251175.1| ribosomal large subunit pseudouridine synthase B [Dictyoglomus thermophilum H-6-12] gi|206739843|gb|ACI18901.1| ribosomal large subunit pseudouridine synthase B [Dictyoglomus thermophilum H-6-12] Length = 241 Score = 271 bits (694), Expect = 1e-70, Method: Composition-based stats. Identities = 76/233 (32%), Positives = 131/233 (56%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K IA+AG+ SRR+ E++I + RVKVNG ++ V + D +E+D + K ++ Sbjct: 3 ERLQKFIAKAGVTSRRKAEKLILEGRVKVNGEVIRTLGVKIDPEKDIVEIDNK-IVKPDK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 +KP+G +++ DP GR T+ D L RV VGRLD ++EGLLL TNDG +A Sbjct: 62 KIYIALYKPVGYISSLYDPFGRRTIKDLLRDKVPFRVYPVGRLDFDSEGLLLCTNDGEIA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWV 189 VL P + +VY V G +++L L++G++++ ++ + ++ + + + Sbjct: 122 NVLIHPRYKIPKVYEVLIDGIPKEEELKKLREGVILEEGRTLPAGFEIIWENRRKNISLL 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G R+I+++ FN+KV L R+ G +LG L G R + +R Sbjct: 182 KITLYQGWKRQIRRMLALFNYKVLNLKRVQIGKIKLGDLKPGEIRFLRDDEIR 234 >gi|238784264|ref|ZP_04628276.1| Ribosomal small subunit pseudouridine synthase A [Yersinia bercovieri ATCC 43970] gi|238714831|gb|EEQ06831.1| Ribosomal small subunit pseudouridine synthase A [Yersinia bercovieri ATCC 43970] Length = 235 Score = 271 bits (694), Expect = 1e-70, Method: Composition-based stats. Identities = 58/237 (24%), Positives = 109/237 (45%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPESDVRFDGNPLQQTLGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V +D G+ + L+ + V + L Sbjct: 121 ITSPRHHCEKTYLVTLEHPVAEDTAQRFADGVQLHNETSLTKPAQLEIIEP--QLVRLTL 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G +L L G R ++ + + PHL Sbjct: 179 SEGRYHQVKRMFGAVGNRVLALHRERIGAMKLDDDLAPGEYRPLTAEEIASVGAPHL 235 >gi|330889215|gb|EGH21876.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. mori str. 301020] Length = 396 Score = 271 bits (694), Expect = 1e-70, Method: Composition-based stats. Identities = 117/376 (31%), Positives = 172/376 (45%), Gaps = 28/376 (7%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG V D I Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-LGQRVDLHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLD Sbjct: 63 SVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPARFT 182 Query: 176 QV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDA-------------PIYSSETLVRDRPNIISE 277 RE+S+ L ++G + + Q+N P+ E + RP + Sbjct: 243 REMSQYEVDILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVRTLRPAAGAP 302 Query: 278 VPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRR 337 D Q G + + +R G + +++ R Sbjct: 303 ATGDRA---PRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPAETNSRGTPVAE 359 Query: 338 SPSFPSKRSLRRTSAK 353 PS +KR + + Sbjct: 360 RPSEMNKRPAKPGPKR 375 >gi|323144920|ref|ZP_08079483.1| pseudouridine synthase B, ribosomal large subunit [Succinatimonas hippei YIT 12066] gi|322415318|gb|EFY06089.1| pseudouridine synthase B, ribosomal large subunit [Succinatimonas hippei YIT 12066] Length = 340 Score = 271 bits (694), Expect = 1e-70, Method: Composition-based stats. Identities = 105/319 (32%), Positives = 161/319 (50%), Gaps = 14/319 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----PLR 68 +++ KV+AR G+ SRRE++ +IA RV+VNG + V +++DG PL Sbjct: 2 SEKLQKVLARQGLGSRRELDALIAAGRVEVNGKVAA-VGDRVEGPLTVKIDGKVVLTPLS 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 + + R+ +Y+KP G VTT+ DP+ R TVFD+LP R I VGRLD+NT GLLL T D Sbjct: 61 EKPKCRVLMYYKPEGEVTTYKDPEDRPTVFDHLPRPDGGRWIYVGRLDLNTSGLLLFTTD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + RVY R +G+V ++ LK+G++++ +V +G N Sbjct: 121 GELANALMHPSKEIERVYAARIYGEVTDKQIAALKQGVMLEDGKASFDKVVFVGGEGRNQ 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI---LRE 243 W V L+EG+NRE+++++E +V+RLIRI Y L L AG RE++ LR Sbjct: 181 WYHVSLKEGRNREVRRLWEAVGLQVSRLIRIRYAGVDLDNKLRAGKYRELTLSEINNLRA 240 Query: 244 QLGPHLLEEAQVNLDAPIYSS---ETLVRDRPNIISEVPDDFTRMKKNSSQK-NGLSKQK 299 +G LE +++ + S + + + + + S Sbjct: 241 AVGLKALESSEIARTSLASMSNDKKHALEKFAKHKANIKAAGRKALNASHNPFRKGRADD 300 Query: 300 KLATPVHRRNLASNVWMAK 318 K P R+ AK Sbjct: 301 KDRNPYGSRSGKYVYGDAK 319 >gi|168186328|ref|ZP_02620963.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum C str. Eklund] gi|169295670|gb|EDS77803.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum C str. Eklund] Length = 236 Score = 271 bits (694), Expect = 1e-70, Method: Composition-based stats. Identities = 65/230 (28%), Positives = 108/230 (46%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +A G+ASRR+ E +I RV+VNG ++ V D + VD + E+ Sbjct: 3 ERLQKYMASCGVASRRKCEEIITSNRVQVNGTVVNELGFKVDPSKDKVYVDSKLIFLEEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G V+T D R T+ D + + R+ +GRLD NT GLLL+TNDG + Sbjct: 63 NVYIALNKPEGYVSTVKDERDRKTIMDLV-EVEERIFPIGRLDYNTSGLLLMTNDGDVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY G + + G+ I + + + V + Sbjct: 122 KIIHPRKEIDKVYIAIIKGIPSNEAIRKFCNGLDIGDYITSKANFEVIDTSENKSKVKIT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++++ + V L RIS G L L R +++ ++ Sbjct: 182 IHEGKNRQVRRMCDKIGHPVIALKRISVGKISLNYLKRSEWRYLNESEIK 231 >gi|298374690|ref|ZP_06984648.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 3_1_19] gi|298269058|gb|EFI10713.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 3_1_19] Length = 495 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 67/245 (27%), Positives = 122/245 (49%), Gaps = 3/245 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K ++ + P R++K ++ AG+ SRRE + I + VKVN +++ + D + Sbjct: 247 IKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQKGAVKVNDVVVTELGTKITRQDVV 306 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P++ E + +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 307 TFNEKPVQ-IESKVYIVLNKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTT 365 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L PS + ++Y V V + + + G+ ++ ++ Sbjct: 366 GVLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVAIEDMEKIANGLELEDGEIHADAISY 425 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ + V + + G+NR ++++FE + V +L R+ + L G R ++++ Sbjct: 426 ASED-DKSQVGIEIHSGRNRIVRRIFESLGYHVTKLDRVYFAGLTKKNLGRGKWRYLNER 484 Query: 240 ILREQ 244 + Sbjct: 485 EVNAL 489 >gi|150010293|ref|YP_001305036.1| ribosomal large subunit pseudouridine synthase B [Parabacteroides distasonis ATCC 8503] gi|256839144|ref|ZP_05544654.1| ribosomal large subunit pseudouridine synthase B [Parabacteroides sp. D13] gi|149938717|gb|ABR45414.1| ribosomal large subunit pseudouridine synthase B [Parabacteroides distasonis ATCC 8503] gi|256740063|gb|EEU53387.1| ribosomal large subunit pseudouridine synthase B [Parabacteroides sp. D13] Length = 495 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 67/245 (27%), Positives = 122/245 (49%), Gaps = 3/245 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K ++ + P R++K ++ AG+ SRRE + I + VKVN +++ + D + Sbjct: 247 IKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQKGAVKVNDVVVTELGTKITRQDVV 306 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P++ E + +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 307 TFNEKPVQ-IESKVYIVLNKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTT 365 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L PS + ++Y V V + + + G+ ++ ++ Sbjct: 366 GVLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVAIEDMEKIANGLELEDGEIHADAISY 425 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ + V + + G+NR ++++FE + V +L R+ + L G R ++++ Sbjct: 426 ASED-DKSQVGIEIHSGRNRIVRRIFESLGYHVTKLDRVYFAGLTKKNLGRGKWRYLNER 484 Query: 240 ILREQ 244 + Sbjct: 485 EVNAL 489 >gi|297626538|ref|YP_003688301.1| Pseudouridine synthase [Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1] gi|296922303|emb|CBL56875.1| Pseudouridine synthase [Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1] Length = 275 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 87/256 (33%), Positives = 136/256 (53%), Gaps = 12/256 (4%) Query: 1 MKDKNIVQENFTPQ----------RVSKVIARAGIASRREVERMIAQQRVKVNGILLERA 50 M +K++ + + P R+ KV+A+AGIASRR E +I + RV+VNG ++ Sbjct: 16 MAEKDMSETHEPPIDQSAAKPEGIRLQKVLAQAGIASRRASEGLITEGRVEVNGHIVVEL 75 Query: 51 AVNVMST-DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 V D I VDG + R L +KP G+V+T DP+GR T+ + +P R+ Sbjct: 76 GTRVDPEHDSIRVDGARIPPPRRHMYLLLNKPRGVVSTMDDPEGRPTLAEYVPRH-QRLF 134 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 VGRLD TEGL++LTNDG L PS + + Y V G +D + L+KG+ ++ Sbjct: 135 HVGRLDTETEGLIILTNDGEFGHRLSHPSYEVRKTYLVDAEGLMDNRTIRRLEKGLTLED 194 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 +V L ++ + + + L G+NR ++++ + V +L RI GP +LG L Sbjct: 195 GPIKPDRVKLVSRGPVHTMLQITLHSGRNRIVRRMMDSVGHPVRQLARIGIGPVRLGNLA 254 Query: 230 AGSTREVSKKILREQL 245 G TRE+S++ L L Sbjct: 255 VGETRELSREELGTLL 270 >gi|238796852|ref|ZP_04640357.1| Ribosomal small subunit pseudouridine synthase A [Yersinia mollaretii ATCC 43969] gi|238719340|gb|EEQ11151.1| Ribosomal small subunit pseudouridine synthase A [Yersinia mollaretii ATCC 43969] Length = 235 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 58/237 (24%), Positives = 107/237 (45%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV ++G +++ A + + DG PL++ Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGATKLTPESDVRFDGNPLQQTLGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V +D G+ + L+ + V + L Sbjct: 121 ITSPRHHCEKTYLVTLEHPVAEDTAQRFADGVQLHNETSLTKPAQLEIIEP--QLVRLTL 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G L L G R ++ + + PHL Sbjct: 179 SEGRYHQVKRMFGAVGNRVLALHRERIGAMILDDDLAPGEYRPLTAEEIASVGAPHL 235 >gi|54294518|ref|YP_126933.1| hypothetical protein lpl1594 [Legionella pneumophila str. Lens] gi|53754350|emb|CAH15834.1| hypothetical protein lpl1594 [Legionella pneumophila str. Lens] gi|307610150|emb|CBW99696.1| hypothetical protein LPW_14641 [Legionella pneumophila 130b] Length = 248 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 95/241 (39%), Positives = 140/241 (58%), Gaps = 7/241 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----P 66 + +R+ K++++AG+ SRRE+ER I V+VNG + + +D I V G P Sbjct: 1 MSSERLQKILSQAGLGSRREMERWIDNGWVQVNGKPAK-LGDSAGPSDKISVKGKLIPNP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 L+ + R+ LYHKP+G V++ DP TVFDNLP + R + VGRLD+NT GLL+ T Sbjct: 60 LKGKQNIRVLLYHKPVGEVSSRHDPKFEKTVFDNLPHLRQGRWVQVGRLDLNTSGLLIFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N+G LA L P R Y VR HGQV Q+ LN L KG+++ ++ +G+ Sbjct: 120 NNGELANQLMHPKYGLEREYAVRVHGQVSQEALNNLLKGVMLDDGLAKFTKIQFRGGEGT 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 N+W V L EG+NRE+++++E +V+RLIRI YG + L G E++ K + E Sbjct: 180 NSWYHVTLNEGRNREVRRLWESQGVEVSRLIRIRYGMLAMPRFLSRGQFYELTPKEVTEF 239 Query: 245 L 245 L Sbjct: 240 L 240 >gi|330960474|gb|EGH60734.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. maculicola str. ES4326] Length = 408 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 117/371 (31%), Positives = 176/371 (47%), Gaps = 28/371 (7%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG V D I Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-LGQRVDLHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLD Sbjct: 63 SVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPARFT 182 Query: 176 QVT-LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDA-------------PIYSSETLVRD-RPNIIS 276 RE+S+ L ++G + + Q+N P+ E +VR RP + Sbjct: 243 REMSQYEVDILSAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVVRTLRPAAGA 302 Query: 277 EVPDDFTRMKKNSSQKNGLSK-QKKLATPVHRRNLASNVWMAK-GIHSSFLSDSGQREEN 334 + R + + + + P R++ A +S + +R + Sbjct: 303 PTGERAPRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTPVAERPSD 362 Query: 335 HRRSPSFPSKR 345 + P+ P + Sbjct: 363 MNKRPAKPGPK 373 >gi|313901543|ref|ZP_07834987.1| ribosomal large subunit pseudouridine synthase B [Thermaerobacter subterraneus DSM 13965] gi|313468182|gb|EFR63652.1| ribosomal large subunit pseudouridine synthase B [Thermaerobacter subterraneus DSM 13965] Length = 327 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 97/327 (29%), Positives = 146/327 (44%), Gaps = 14/327 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--- 67 +R+ K+++RAG+ASRR+VE IA R+ VNG + D I +DG PL Sbjct: 1 MPAERLQKILSRAGVASRRQVEAWIAAGRLTVNGRPAVLGTRADPARDVIALDGRPLAGL 60 Query: 68 -RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 + R R L+HKP G+VTT DP GR V D + VGRLD ++EGLLLLT Sbjct: 61 AERLSRKRYVLFHKPRGMVTTLRDPQGRPNVGDFCRRHGLQGLHPVGRLDFDSEGLLLLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG L L P + +VY V G +D +L L+ G+++ + + Sbjct: 121 DDGELTFALTHPRHEVDKVYHVLVRGDLDPARLRRLRDGVLLDDGPARARIARVLRPRPG 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 WV V LREG+ R+++++ + W+V RL+R++ GP +LG L AG+ R +S++ Sbjct: 181 GGWVEVVLREGRKRQVRRMCQAVGWQVVRLVRVAVGPLRLGRLAAGAWRPLSRQE----- 235 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 +E +V P E R R ++ + G Sbjct: 236 ----VESLRVAAGLPPRPDEPAPRHRQAGEGRPARGPAWGRRVPAGLAGRPPGPARPGAA 291 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQRE 332 RR +G R Sbjct: 292 ARRVSEGPALQGQGPRGRVSRPPSGRN 318 >gi|330446629|ref|ZP_08310281.1| 23S rRNA pseudouridine 2604 synthase [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|328490820|dbj|GAA04778.1| 23S rRNA pseudouridine 2604 synthase [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 378 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 80/364 (21%), Positives = 145/364 (39%), Gaps = 26/364 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M Q++ R++K I+ G SRRE +++I Q RV +NG V V +D + Sbjct: 1 MSQNPTQQQSPQGVRLNKFISDTGYCSRREADKLIDQGRVTINGKKP-EMGVRVTDSDDV 59 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +D PLR ER +KP G+ T ++ + D + R+ +GRLD ++G Sbjct: 60 LIDDKPLRSKERPIYIALNKPTGITCT-TERHIEGNIVDFI-GHRKRIFPIGRLDKPSDG 117 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+ LTNDG + + + Y VR + + L + G+ I +VT Sbjct: 118 LIFLTNDGDIVNKILRAGNSHEKEYVVRVDKVITPEFLEKMASGVEILDTVTLPCKVT-- 175 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 K +N + L +G NR+I+++ E ++V +L R+ + L G R ++ Sbjct: 176 --KETNFSFRIVLTQGLNRQIRRMCEALGYEVYKLRRVRIMNITIDGLPNGKWRYLTDDE 233 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 + E L+ ++ +A + V I + D + +N Q+K Sbjct: 234 IAEIH--RLISQSSGTEEA------SKVDGEGRKIEKATDAKLYDHRQQEARNEKRAQEK 285 Query: 301 -----------LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 P +R N +G + R + + + + + RR Sbjct: 286 KFKTYSGTGEFTRRPGGQRQNRRNEEGGEGRQQRGQRNGQGRNDRNSQDRNGNERNDNRR 345 Query: 350 TSAK 353 ++ Sbjct: 346 QDSR 349 >gi|296114351|ref|ZP_06833005.1| RNA-binding S4 domain protein [Gluconacetobacter hansenii ATCC 23769] gi|295979112|gb|EFG85836.1| RNA-binding S4 domain protein [Gluconacetobacter hansenii ATCC 23769] Length = 258 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 132/231 (57%), Positives = 167/231 (72%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K + R+G+ASRR+ ERMI + RV++NG ++ A V D ++VD + +RTR Sbjct: 16 RIAKWLGRSGVASRRDAERMIEEGRVRLNGDIVRHPATFVSDGDIVQVDDKVIAAPDRTR 75 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW YHKP GLVTTH DPDGR TVF +LP RVISVGRLD+N+EGLLLLTNDG LAR L Sbjct: 76 LWRYHKPDGLVTTHRDPDGRPTVFASLPEGMPRVISVGRLDLNSEGLLLLTNDGELARKL 135 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPS W+R YRVR G V++D+L L +G V +G+ YG ++ LD+ +G NAW+TV LR Sbjct: 136 ELPSNGWIRRYRVRVFGVVNEDQLADLAQGSVFEGVHYGPIEAALDSSRGDNAWLTVSLR 195 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 EGKNREI+KV N V+RLIR SYGPFQLGTL EV+ K+LREQ+ Sbjct: 196 EGKNREIRKVMRGLNLHVSRLIRTSYGPFQLGTLEREELEEVTGKVLREQV 246 >gi|237732236|ref|ZP_04562717.1| 16S rRNA pseudouridylate synthase A [Citrobacter sp. 30_2] gi|226907775|gb|EEH93693.1| 16S rRNA pseudouridylate synthase A [Citrobacter sp. 30_2] Length = 235 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 57/229 (24%), Positives = 103/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ +A ++ +E DG L + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRANRVTVDGEIVKNSAFKLLPEHDVEYDGNSLVQQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D G+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAHGVQLHNEKDLTKPAVLEV--ITPTQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EG+ ++K++F V L R G +L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGDIRLDDDLEPGEYRPLTEEEI 227 >gi|81428635|ref|YP_395635.1| pseudouridylate synthase, 16SrRNA-specific [Lactobacillus sakei subsp. sakei 23K] gi|78610277|emb|CAI55326.1| Pseudouridylate synthase, 16SrRNA-specific [Lactobacillus sakei subsp. sakei 23K] Length = 256 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 82/255 (32%), Positives = 135/255 (52%), Gaps = 4/255 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KVIA AG+ASRR+ E +IA V +NG +++ + V ST HIEVDGVPL + E+ Sbjct: 2 ERLQKVIANAGVASRRKAETLIATGHVTLNGKVVKEMGIKVDSTSAHIEVDGVPLTR-EK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP +++ +D R V + L I RV +GRLD +T GLLLLTNDG A Sbjct: 61 KVYYALYKPRQVISAVTDDKKRRVVTEYLEDIQERVYPIGRLDYDTSGLLLLTNDGDFAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 ++ P + + Y + G + L L+KGI+++ +V + + ++ + A ++ Sbjct: 121 MMMHPKYKVDKTYVAKVSGLPTAEMLRQLRKGIMLEKRKTAPAKVKIISTDRRKNTAILS 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG N ++K + V++L R +YG L L++G R + + E L Sbjct: 181 ITIHEGMNHQVKNMLAAVGLPVSKLKRETYGFLTLDGLVSGEYRALKPIEVAEFKKIAEL 240 Query: 251 EEAQVNLDAPIYSSE 265 E + + P S Sbjct: 241 NEKPKHKNRPKLSRH 255 >gi|56412865|ref|YP_149940.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|168261760|ref|ZP_02683733.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|197361796|ref|YP_002141432.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|56127122|gb|AAV76628.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|197093272|emb|CAR58718.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|205349524|gb|EDZ36155.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] Length = 231 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 104/229 (45%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + TL+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKDLTKPATLEV--ITPVQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGAITLDENLAPGEYRPLTEEEI 227 >gi|238790412|ref|ZP_04634183.1| Ribosomal large subunit pseudouridine synthase B [Yersinia frederiksenii ATCC 33641] gi|238721519|gb|EEQ13188.1| Ribosomal large subunit pseudouridine synthase B [Yersinia frederiksenii ATCC 33641] Length = 342 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 109/333 (32%), Positives = 163/333 (48%), Gaps = 24/333 (7%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPL 67 + +++ K++ARAG SRRE+E +I Q RV V+G + + V V I +DG L Sbjct: 23 DKIVGEKLQKILARAGHGSRREIETIIQQGRVSVDGKISKLGDRVEVTQATKIRLDGHLL 82 Query: 68 RKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLL 122 E R+ Y+KP G + T +DP+GR TVFD LP SR ++VGRLD+NT GLL Sbjct: 83 SIKESEEAVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLL 142 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L T DG LA L PS + R Y VR GQ+D +K+ L +G+ ++ + Sbjct: 143 LFTTDGELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTIKFQGG 202 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---K 238 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ Sbjct: 203 EGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLNAT 262 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 LRE V LD+ S + +DR + + R K ++ G Sbjct: 263 NYLREL----------VELDSETVSKLPVEKDRRRVKAN---QIRRAVKRHTEVAGRQVA 309 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQR 331 + + + + NV A ++ S +R Sbjct: 310 GRQGS-ARKSSSRQNVGSAAPATTAGRRGSNKR 341 >gi|323342117|ref|ZP_08082350.1| pseudouridylate synthase [Erysipelothrix rhusiopathiae ATCC 19414] gi|322464542|gb|EFY09735.1| pseudouridylate synthase [Erysipelothrix rhusiopathiae ATCC 19414] Length = 246 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 78/234 (33%), Positives = 127/234 (54%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +G SRR+ E +I + +VKVNGI + + V + D + V+G+ + E+ Sbjct: 7 IRLQKFIAMSGYCSRRKAEVLINEGKVKVNGIKVTEQGLKVSTEDRVMVNGILINVEEKK 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G+V++ +D R +V D +P+ RV VGRLD T G L+LTNDG A Sbjct: 67 VYYILNKPRGIVSSANDDKDRESVVDLVPNDI-RVFPVGRLDRETTGALILTNDGDFAYY 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P ++YRV G++ + N LK+GI I+G+ Y ++++ ++ Sbjct: 126 MTHPKFDLSKIYRVSVRGRLSYEVTNSLKEGITIEGVEYKGVEISRVKYDAAKDKTQFSI 185 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L EGKNR+I+K+F F V +L R G + L G RE+ +++ L Sbjct: 186 TLHEGKNRQIRKIFAHFGLPVLKLHRYQIGYLDIDELKIGQYRELKPFEVKKLL 239 >gi|116492846|ref|YP_804581.1| ribosomal large subunit pseudouridine synthase B [Pediococcus pentosaceus ATCC 25745] gi|116102996|gb|ABJ68139.1| ribosomal large subunit pseudouridine synthase B [Pediococcus pentosaceus ATCC 25745] Length = 241 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 78/236 (33%), Positives = 129/236 (54%), Gaps = 3/236 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ KV+A AG+ASRR+ E++I + V+VNG ++++ V + D IEVDGVPL++ Sbjct: 1 MEEERLQKVMAEAGVASRRKSEKLITEGHVRVNGKVIKQLGTKVTAHDKIEVDGVPLQR- 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E+ +L +KP G++T+ SD R TV D P + R+ VGRLD +T G +L+TNDG L Sbjct: 60 EKMVYFLLNKPRGVITSVSDDKKRKTVMDFFPDVVERIYPVGRLDYDTSGAVLMTNDGTL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A L P ++ + Y + G V+ L L+ G+VI + L + + + Sbjct: 120 ANGLTHPKFKFEKTYTAKVKGIVNSLDLKKLENGLVIDHKKTAKAKAHLISTDDEKKTSI 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V++ + EG+N ++K +F V +L R SY + + +G R + + Sbjct: 180 VSLTIHEGRNHQVKNMFMAVGHPVQKLRRDSYSFLNIDGVQSGKWRALKVNEISRL 235 >gi|222529534|ref|YP_002573416.1| pseudouridine synthase [Caldicellulosiruptor bescii DSM 6725] gi|222456381|gb|ACM60643.1| pseudouridine synthase [Caldicellulosiruptor bescii DSM 6725] Length = 230 Score = 271 bits (693), Expect = 2e-70, Method: Composition-based stats. Identities = 73/222 (32%), Positives = 118/222 (53%), Gaps = 2/222 (0%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERTRLWLY 78 +A+ G+ASRR+ E +I Q RVKVNG + + V D +EVDG + + + Sbjct: 1 MAQCGVASRRKCEEIILQGRVKVNGKTVNQLGFKVDPEKDVVEVDGKRISLQMQKVYIML 60 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARVLELP 137 +KP G++++ D GR TV D + + RV VGRLD +T GL++LTNDG A + P Sbjct: 61 NKPFGVISSAKDEKGRKTVVDLVKDKVNVRVFPVGRLDFDTTGLIILTNDGEFAYKVTHP 120 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGK 197 + Y V G ++++ +KG++I G + + NA V + + EG+ Sbjct: 121 KHDIEKTYIVLIKGIPSKEEIERFEKGLLIDGKMTAPAKFKILKLINGNALVEIKIHEGR 180 Query: 198 NREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 NR+I+K+ + KV +L R++ G QLG L G + ++ Sbjct: 181 NRQIRKMCDQIGHKVLKLKRVAIGKLQLGKLKEGEFVFLDRE 222 >gi|154497957|ref|ZP_02036335.1| hypothetical protein BACCAP_01937 [Bacteroides capillosus ATCC 29799] gi|150272947|gb|EDN00104.1| hypothetical protein BACCAP_01937 [Bacteroides capillosus ATCC 29799] Length = 246 Score = 270 bits (692), Expect = 2e-70, Method: Composition-based stats. Identities = 81/236 (34%), Positives = 126/236 (53%), Gaps = 2/236 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+++ AG+ASRR E + RV VNG D I +DG P+R A Sbjct: 3 ERIQKILSAAGLASRRRAEEYLTAGRVTVNGRTAALGEKADPQRDDIRLDGKPVRPAGAH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G VTT SD GR TV + +RV VGRLD+++EGLLL+T+DG + Sbjct: 63 TYLMLYKPRGYVTTLSDERGRRTVAQLVSGCGARVWPVGRLDLDSEGLLLMTDDGNFTQR 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-SNAWVTVG 192 L PS Q + Y V G VD+ + +L + + GI ++ + +++G A ++V Sbjct: 123 LIHPSHQVEKEYLVTVEGDVDRA-IPVLSGPMELDGIPLAPARIGVLSREGADRARLSVV 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+NR+++++ +V RL R+ G LG L G R ++ + LR LG Sbjct: 182 IHEGRNRQVRRMCALAGLEVKRLKRVREGGLALGRLRPGEWRRLTPQELRLALGER 237 >gi|288918462|ref|ZP_06412813.1| pseudouridine synthase [Frankia sp. EUN1f] gi|288350102|gb|EFC84328.1| pseudouridine synthase [Frankia sp. EUN1f] Length = 308 Score = 270 bits (692), Expect = 2e-70, Method: Composition-based stats. Identities = 81/234 (34%), Positives = 120/234 (51%), Gaps = 1/234 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 R+ KV+A AGI SRR E +I RV+V+G ++ V IEVDG + Sbjct: 66 PEAEGIRLQKVLAAAGIGSRRASEELIDAGRVRVDGEVVREQGRRVDPERAVIEVDGERV 125 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 HKP G+++T +D GR T+ D L +R+ VGRLD ++EGLLL+TND Sbjct: 126 VTRTGLVHLALHKPRGVLSTMADDRGRPTIADLLTEFGTRLFHVGRLDADSEGLLLVTND 185 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + Y V G V +D L+ G+ ++ + S Sbjct: 186 GDLAHRLMHPSYGVQKTYLVEITGPVRKDLPRRLRSGVELEDGPVKVDSARIIDMAASRV 245 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + L EG+N +++V E V+RL+R+S+GP LGTL AG R +++ + Sbjct: 246 MMEIVLHEGRNHVVRRVMESVGHPVHRLVRVSFGPVALGTLRAGRARHLTRHEV 299 >gi|167551196|ref|ZP_02344951.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|168466080|ref|ZP_02699950.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|205353355|ref|YP_002227156.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|207857656|ref|YP_002244307.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|195631355|gb|EDX49915.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|205273136|emb|CAR38093.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205324100|gb|EDZ11939.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|206709459|emb|CAR33800.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|326628444|gb|EGE34787.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Gallinarum str. 9] Length = 231 Score = 270 bits (692), Expect = 2e-70, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 106/229 (46%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D + KG+ + TL+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTVAQFAKGVQLHNEKDLTKPATLEV--ITPVQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEEEI 227 >gi|317492193|ref|ZP_07950623.1| RNA pseudouridylate synthase [Enterobacteriaceae bacterium 9_2_54FAA] gi|316919898|gb|EFV41227.1| RNA pseudouridylate synthase [Enterobacteriaceae bacterium 9_2_54FAA] Length = 317 Score = 270 bits (692), Expect = 2e-70, Method: Composition-based stats. Identities = 115/329 (34%), Positives = 160/329 (48%), Gaps = 28/329 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+A AG SRRE+E MI + RV V+G L V V I VDG + E Sbjct: 2 SEKLQKVLANAGHGSRREIEAMIKEGRVSVDGKLATLGDRVEVTPAMKIRVDGRVVSIRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 T R+ Y+KP G + T DP+GR TVFD LP SR I+VGRLDINT GLLL T Sbjct: 62 STESVCRVLAYYKPEGELCTRRDPEGRPTVFDRLPKLRGSRWIAVGRLDINTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD +K+ L +G+ ++ ++ +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDEKIRQLSRGVQLEDGPASFKTISFQGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV---SKKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDLPLPKGLPRGGWAELPLNDINYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V LDA S + R+R + + R K Q + Sbjct: 242 EL----------VELDAETVSKLPVERERRRMKAN---QIRRAVKRHGQGGSAAAAA--- 285 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQR 331 +RR+ ++N + S+ + R Sbjct: 286 --PNRRSGSANKGTSSTRGSAANKGTSNR 312 >gi|261252238|ref|ZP_05944811.1| ribosomal large subunit pseudouridine synthase F [Vibrio orientalis CIP 102891] gi|260935629|gb|EEX91618.1| ribosomal large subunit pseudouridine synthase F [Vibrio orientalis CIP 102891] Length = 344 Score = 270 bits (692), Expect = 2e-70, Method: Composition-based stats. Identities = 74/354 (20%), Positives = 135/354 (38%), Gaps = 20/354 (5%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + Q+N R++K I+ G SRRE +R+I Q RV +NG + V D + VD Sbjct: 1 MSQDNAK--RLNKFISETGFCSRREADRLIEQGRVTINGQVP-EMGTKVQLGDDVRVDDK 57 Query: 66 PLRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P+ A ++ +KP G+ T ++ D + D + R+ +GRLD ++GL+ L Sbjct: 58 PIAAATDKPVYIALNKPTGITCT-TERDIPGNIVDFV-GHKKRIFPIGRLDKPSDGLIFL 115 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG + + + Y VR + D + + G+ I VT +T+ Sbjct: 116 TNDGDIVNKILRAGNSHEKEYVVRVDKPISDDFIKKMSSGVNILDTITLPCTVTKETKYS 175 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+++ E ++V +L R+ L + G R +S + E Sbjct: 176 ----FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGQWRYLSDSEVTEI 231 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNII-----SEVPDDFTRMKKNSSQKNGLSKQK 299 L + + + + + +R + E + R + G + + Sbjct: 232 LA-MCEDSSGTEEASKMDNKGKRIRRATDAKLFDSREENQESKARRNQKQRTFKGRNADE 290 Query: 300 KLATPVHRRNLA----SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 P ++ S P SL++ Sbjct: 291 FRHAPNSKKGRHGDKQSEFKGKPSGKGKSFHKPASDNGQRPSKPKSGGTLSLKK 344 >gi|238798380|ref|ZP_04641862.1| Ribosomal large subunit pseudouridine synthase B [Yersinia mollaretii ATCC 43969] gi|238717765|gb|EEQ09599.1| Ribosomal large subunit pseudouridine synthase B [Yersinia mollaretii ATCC 43969] Length = 342 Score = 270 bits (692), Expect = 2e-70, Method: Composition-based stats. Identities = 111/328 (33%), Positives = 163/328 (49%), Gaps = 24/328 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I Q RV V+G + V V I +DG L E Sbjct: 28 EKLQKVLARAGHGSRREIETIIQQGRVSVDGKISTLGDRVEVTQATKIRLDGHLLSITES 87 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T +DP+GR TVFD LP SR ++VGRLD+NT GLLL T D Sbjct: 88 EEAVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTD 147 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQ+D +K+ L +G+ ++ ++ +G N Sbjct: 148 GELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTISFQGGEGLNQ 207 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILRE 243 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ K LRE Sbjct: 208 WYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLKATNYLRE 267 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 V LD+ S + +DR + + R K ++ G + + Sbjct: 268 L----------VELDSETVSKLPVEKDRRRVKAN---QIRRAVKRHTEVAGRQVAGRQGS 314 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQR 331 + + NV A ++ S +R Sbjct: 315 -ARKGSTRQNVGSAAPAATTNRRGSNKR 341 >gi|117924345|ref|YP_864962.1| ribosomal large subunit pseudouridine synthase B [Magnetococcus sp. MC-1] gi|117608101|gb|ABK43556.1| ribosomal large subunit pseudouridine synthase B [Magnetococcus sp. MC-1] Length = 332 Score = 270 bits (692), Expect = 2e-70, Method: Composition-based stats. Identities = 92/231 (39%), Positives = 141/231 (61%), Gaps = 5/231 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-RT 73 R+ K +A G+ SRRE E I + RV +NG ++ V V D + VDG + R Sbjct: 71 RLQKWLAEQGLCSRREGEVWIQEGRVSINGEVVTELGVKVAKRDRVAVDGQLVTPQRSRD 130 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP ++ T SDP GR T+FD + + SR+I+VGRLDIN+EGL++LT+DG LA Sbjct: 131 TAIILHKPKSIICTRSDPQGRRTIFDLIENHGSSRLITVGRLDINSEGLIILTSDGQLAH 190 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICYGDMQVTLDT--QKGSNAWV 189 L PS + RVYRV+ HG + +L ++ G+ ++ G +++ LD ++G+N+W Sbjct: 191 GLMHPSREVPRVYRVKTHGILLASQLEQIRTVGVRLEDGPTGPLEIVLDRGREQGNNSWY 250 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 T+ LREG+NRE++++F+ F +V RL+R+ YG LG L G+ R V+ Sbjct: 251 TITLREGRNREVRRIFDHFGLQVARLLRVGYGGISLGNLEPGAWRPVTVDE 301 >gi|172056824|ref|YP_001813284.1| pseudouridine synthase [Exiguobacterium sibiricum 255-15] gi|171989345|gb|ACB60267.1| pseudouridine synthase [Exiguobacterium sibiricum 255-15] Length = 231 Score = 270 bits (692), Expect = 2e-70, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 115/233 (49%), Gaps = 9/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ G SRR +++I RV +NG + V TD +E+DG PL+ Sbjct: 1 MRINKFISETGYCSRRAADKLIDAGRVTINGNVA-ELGSQVEKTDAVEIDGQPLQPKPDL 59 Query: 74 RLWLYHKPIGLVTTHS-DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP+G+ T D +G F N P+ R+ +GRLD +++GL++LTNDG + Sbjct: 60 EYLILNKPVGITCTTERDIEGNIIDFVNHPN---RIFPIGRLDKDSDGLIILTNDGDIVN 116 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + + + + G+ I G + V ++ + + Sbjct: 117 RILRAENNHDKEYIVTVDAPITETFIEGMAGGVDILGTTTKECVV----EQLESRTFRIV 172 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L +G NR+I+++ + F ++V RL R+ +LG L G R++++ ++ Sbjct: 173 LTQGLNRQIRRMCKEFGYRVKRLQRVRIMNIELGDLPIGEWRDLTESEMKTLF 225 >gi|317492524|ref|ZP_07950952.1| RNA pseudouridylate synthase [Enterobacteriaceae bacterium 9_2_54FAA] gi|316919516|gb|EFV40847.1| RNA pseudouridylate synthase [Enterobacteriaceae bacterium 9_2_54FAA] Length = 240 Score = 270 bits (692), Expect = 2e-70, Method: Composition-based stats. Identities = 55/229 (24%), Positives = 106/229 (46%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR + R + +RV V+G +++ A + + DG L + Sbjct: 1 MRLDKFLSQQLGISRALIARELRAKRVTVDGEIVKSGAHKLTPEQEVAFDGQVLEQIHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V + DPD + ++ + ++ + GRLD++T GL+LLT+DG + Sbjct: 61 RYFMLHKPEGYVCSTDDPDHSTILYFIDEPLAEKLHAAGRLDLDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y V + D G+ + G TL+ + V + + Sbjct: 121 ITSPKHECDKTYLVTLEHPLADDTAEQFAHGVQLHGEKDLTKPATLEQLDAN--VVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G +L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGAIELDEDLAPGEYRPLTEEEI 227 >gi|146306872|ref|YP_001187337.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas mendocina ymp] gi|145575073|gb|ABP84605.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas mendocina ymp] Length = 385 Score = 270 bits (692), Expect = 2e-70, Method: Composition-based stats. Identities = 117/356 (32%), Positives = 173/356 (48%), Gaps = 38/356 (10%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 Q +++ KV+AR G+ASRRE+E I + RVKVNG V + D I +DG L Sbjct: 6 QPRPAGEKLQKVLARMGLASRREIETWIGEGRVKVNGAAAT-LGQRVDANDAIALDGRLL 64 Query: 68 RKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLL 122 ++ E T R+ +Y+KP G + T DP+GR TVFD LP R I++GRLDINT GLL Sbjct: 65 KREEITGSVRRVLIYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLDINTTGLL 124 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDT 181 L T DG LA L PS Q R Y VR G+V ++ L LKKG++++ + Sbjct: 125 LFTTDGELANRLMHPSYQMDREYAVRVRGEVTEEMLENLKKGVMLEDGPAKFTDIKEAPG 184 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 +G N W + EG+NRE+++++E V+RL R+ +GP L L G RE+ ++ Sbjct: 185 GEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLTSDLTMGRWREMDQRE 244 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 + I S+E + P MK+ + +K Q+K Sbjct: 245 V------------------DILSAE---------VGLAPQALPAMKEKTREKLDRL-QRK 276 Query: 301 LATPVHRRNLA--SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 A PV R G + S + +R++ +R+P P K R + + Sbjct: 277 SAKPVEVRGKRVLRPAKDEAGAEGARPSRAPRRDDGEQRAPRGPRKEGGERRESGR 332 >gi|134295571|ref|YP_001119306.1| ribosomal large subunit pseudouridine synthase B [Burkholderia vietnamiensis G4] gi|134138728|gb|ABO54471.1| ribosomal large subunit pseudouridine synthase B [Burkholderia vietnamiensis G4] Length = 563 Score = 270 bits (692), Expect = 2e-70, Method: Composition-based stats. Identities = 97/349 (27%), Positives = 166/349 (47%), Gaps = 9/349 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 173 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 231 Query: 63 DGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINT 118 +G P++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NT Sbjct: 232 NGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNT 291 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 292 EGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEGMRQKLLHGVELDDGPANFLRIR 351 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 352 DGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 411 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK-KNSSQKNGLS 296 + +R+ + L+ + + + R +P+ + +R + + Sbjct: 412 EAQVRKLMATVGLKA--PSEEKGKRAGGQQERRQPDPMQTSMGFISREPVLTTHGQLDQP 469 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 ++ S S + + SG R+ + R+ + Sbjct: 470 RRGGGRRGAPGLPGLSGYGSLPVAPSGYGNRSGGRDVDGNRASYGAGPK 518 >gi|308234451|ref|ZP_07665188.1| ribosomal large subunit pseudouridine synthase B [Atopobium vaginae DSM 15829] gi|328944298|ref|ZP_08241762.1| RNA pseudouridine synthase [Atopobium vaginae DSM 15829] gi|327491217|gb|EGF22992.1| RNA pseudouridine synthase [Atopobium vaginae DSM 15829] Length = 285 Score = 270 bits (692), Expect = 2e-70, Method: Composition-based stats. Identities = 68/254 (26%), Positives = 115/254 (45%), Gaps = 22/254 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 R+ + +ARAG+ASRR E++I+ RV VNG + VM DH+ VDG Sbjct: 24 TMRLQRFLARAGVASRRGSEKLISAGRVCVNGKQVRVLGTKVMPQYDHVTVDGKEYVLGN 83 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGL 130 L +KP ++TT SDP G V +P + + VGRLD +T G+LL T +G + Sbjct: 84 DHVYLLLNKPSQVLTTMSDPFGFPCVASLVPCDDYPGLFPVGRLDSDTTGVLLFTTNGNM 143 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS----- 185 L PS + Y G++ ++ L +GI+++ + TQ Sbjct: 144 GNRLLHPSHHVWKTYVALIEGKLTSSQMQKLSQGIMLEDGMTSPCFIRTITQDEPCTHLD 203 Query: 186 --------------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLA 230 ++ + + EG+N ++K++ + V +L R +GP L + Sbjct: 204 KNHSLFDDMRLNAASSLCELKIHEGRNHQVKRMLQEIGHPVIKLHRFQFGPLCLNAQIPL 263 Query: 231 GSTREVSKKILREQ 244 GS R +++ + + Sbjct: 264 GSWRMCTQQEIHDL 277 >gi|62180809|ref|YP_217226.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|62128442|gb|AAX66145.1| 16S rRNA pseudouridylate 516 synthase [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] Length = 231 Score = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 105/229 (45%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P ++Y V V D KG+ + TL+ + V + + Sbjct: 121 ITSPRHHCEKIYLVTLESPVADDTAAQFAKGVQLHNEKDLTKPATLEV--ITPVQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNCVVELHRERIGAITLDENLAPGEYRPLTEEEI 227 >gi|301308375|ref|ZP_07214329.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 20_3] gi|300833845|gb|EFK64461.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 20_3] Length = 495 Score = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 67/245 (27%), Positives = 122/245 (49%), Gaps = 3/245 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K ++ + P R++K ++ AG+ SRRE + I + VKVN +++ + D + Sbjct: 247 IKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQKGAVKVNDVVVTELGTKITRQDVV 306 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P++ E + +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 307 TFNEKPVQ-IESKVYIVLNKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTT 365 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L PS + ++Y V V + + + G+ ++ ++ Sbjct: 366 GVLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVAIEDMEKIANGLELEDGEIHADAISY 425 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ + V + + G+NR ++++FE + V +L R+ + L G R ++++ Sbjct: 426 ASED-DKSQVGIEIHSGRNRIVRRIFESLGYHVTKLDRVYFAGLTKKNLGRGKWRYLNER 484 Query: 240 ILREQ 244 + Sbjct: 485 EVNAL 489 >gi|90579322|ref|ZP_01235132.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Vibrio angustum S14] gi|90440155|gb|EAS65336.1| putative 16S rRNA uridine-516 pseudouridylate synthase [Vibrio angustum S14] Length = 375 Score = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 78/363 (21%), Positives = 143/363 (39%), Gaps = 26/363 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M Q++ R++K I+ G SRRE +++I Q RV +NG V VM D + Sbjct: 1 MSQNPTEQQSPKGVRLNKFISDTGYCSRREADKLIDQGRVTINGQKP-EMGVRVMDNDDV 59 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +D PLR ER +KP G+ T ++ + D + R+ +GRLD ++G Sbjct: 60 LIDDKPLRSKERPIYIALNKPTGITCT-TERHIEGNIVDFI-GHRKRIFPIGRLDKPSDG 117 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+ LTNDG + + + Y VR + + L + G+ I +VT Sbjct: 118 LIFLTNDGDIVNKILRAGNSHEKEYVVRVDKVITPEFLEKMASGVEILDTVTLPCKVT-- 175 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 K +N + L +G NR+I+++ E ++V +L R+ + L G R ++ Sbjct: 176 --KETNFSFRIVLTQGLNRQIRRMCEALGYEVYKLRRVRIMNITIDGLPNGKWRYLTDDE 233 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSE-----------------TLVRDRPNIISEVPDDFT 283 + E L+ ++ +A +E R+ + ++ Sbjct: 234 IGEI--NRLIAQSSGTEEASKVDAEGRKIAKATDAKLYDHRQQEARNEKRAQEKAFKTYS 291 Query: 284 RMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPS 343 + + + G + ++ R + + +D + N R P+ S Sbjct: 292 GTGEFTRRPGGQRQNRRNEEGGESRQQRGQGRNDRNSNGRNSNDRNGQGRNDNRRPARTS 351 Query: 344 KRS 346 R Sbjct: 352 DRD 354 >gi|332161874|ref|YP_004298451.1| 23S rRNA pseudouridylate synthase B [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|318605612|emb|CBY27110.1| ribosomal large subunit pseudouridine synthase B; LSU Psi2605 [Yersinia enterocolitica subsp. palearctica Y11] gi|325666104|gb|ADZ42748.1| 23S rRNA pseudouridylate synthase B [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|330860992|emb|CBX71265.1| ribosomal large subunit pseudouridine synthase B [Yersinia enterocolitica W22703] Length = 349 Score = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 111/334 (33%), Positives = 166/334 (49%), Gaps = 24/334 (7%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 + +++ K++ARAG SRRE+E +I Q RV V+G + + V V I +DG Sbjct: 29 KTKVVGEKLQKILARAGHGSRREIETIIQQGRVSVDGKISKLGDRVEVTQATKIRLDGHL 88 Query: 67 LRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGL 121 L E R+ Y+KP G + T +DP+GR TVFD LP SR ++VGRLD+NT GL Sbjct: 89 LSIKESEEAVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGL 148 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR GQ+D +K+ L +G+ ++ +T Sbjct: 149 LLFTTDGELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTITFQG 208 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ K Sbjct: 209 GEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLKA 268 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 LRE V LD+ S ++ +DR + + R K ++ G Sbjct: 269 TNYLREL----------VELDSETVSKLSVEKDRRRVKAN---QIRRAVKRHTEVAGRQV 315 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQR 331 + + + + NV A ++ S +R Sbjct: 316 AGRQGS-ARKGSTRQNVGNAAPAAATGRRGSNKR 348 >gi|313123424|ref|YP_004033683.1| pseudouridine synthase [Lactobacillus delbrueckii subsp. bulgaricus ND02] gi|312279987|gb|ADQ60706.1| Pseudouridine synthase [Lactobacillus delbrueckii subsp. bulgaricus ND02] Length = 241 Score = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 68/236 (28%), Positives = 112/236 (47%), Gaps = 8/236 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR +V +I +V VNG + A V + V+G + ++ Sbjct: 3 RLDKFLANMKVGSRSQVHEIIKAGQVTVNGKVCRSAKQKVKEDAEVLVNGQAVIY-QQYH 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G+++ D + TV D L + ++ VGRLD +T GLLLLTNDG LA Sbjct: 62 YFLLNKPAGVLSATEDSR-QKTVLDLLKDQDSYQKIAPVGRLDKDTTGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS--NAWV 189 L P + Y G D++ + G+ + G Q+ + Q + + Sbjct: 121 QLLAPEYHVPKPYYALLAGVADEETAKAIAAGLTLKDGTELKPGQLKILRQDKDQEQSEI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + + EGK ++K++F KV +L R+S GP L L GS R ++++ L Sbjct: 181 EITITEGKYHQVKRMFASQGMKVLKLKRLSMGPLTLPADLAPGSYRPLTEEELAAL 236 >gi|257413346|ref|ZP_04742734.2| ribosomal small subunit pseudouridine synthase A [Roseburia intestinalis L1-82] gi|257203834|gb|EEV02119.1| ribosomal small subunit pseudouridine synthase A [Roseburia intestinalis L1-82] Length = 239 Score = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 79/235 (33%), Positives = 119/235 (50%), Gaps = 7/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ G SR EV++ I V VNG ++++ V D + G PL E Sbjct: 5 MRLDKLLTELGTGSRSEVKKYIRSGLVTVNGEVVKKPEQRVDEKNDTVCFRGNPLTYTE- 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 +L+HKP G VT D R TV D L + VGRLDI+TEGLLL+TNDG LA Sbjct: 64 YEYYLFHKPAGCVTATEDNLHR-TVMDYLTDTARHDLFPVGRLDIDTEGLLLITNDGALA 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSNAWVT 190 L P+ +VY + G+V ++ +NL + G+ I G L+ G N+ + Sbjct: 123 HDLLSPAKHVSKVYYAKIDGRVTEEDVNLFENGVDI-GEEKPAKPALLEVLHSGDNSEIR 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 + + EG+ ++K++FE KV L R+ G L L G R ++++ L+E Sbjct: 182 LTITEGRFHQVKRMFEAVGKKVTYLKRVEMGSLVLPDELAPGEYRPLTEEELQEL 236 >gi|227496094|ref|ZP_03926400.1| possible pseudouridine synthase Rsu [Actinomyces urogenitalis DSM 15434] gi|226834328|gb|EEH66711.1| possible pseudouridine synthase Rsu [Actinomyces urogenitalis DSM 15434] Length = 325 Score = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 86/246 (34%), Positives = 121/246 (49%), Gaps = 13/246 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 T +R+ KV+A AG+ASRR E +IA RV V+G+++ V V + I VDG + Sbjct: 74 TGERLQKVLAHAGVASRRACEEIIAAGRVSVDGVVVTEPGVRVDPSRQEIRVDGSRVLTD 133 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS------------RVISVGRLDINT 118 L HKP G+VTT DP GR TV D S R++ VGRLD T Sbjct: 134 PDVITVLLHKPAGVVTTMEDPQGRPTVADLAEQFISEHRTELEHPESVRLVHVGRLDTET 193 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLLLL+NDG LA L PS + + Y GQV+ L++GI + +V Sbjct: 194 EGLLLLSNDGDLAHRLMHPSFEISKTYVAIVEGQVEGWVPRKLRRGIELDDGLAQADRVV 253 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + S + V + L GKNR ++++ + V RL R GP +G L G R ++ Sbjct: 254 VKDAGPSGSIVEITLHSGKNRIVRRMLDAVGHPVTRLARTKLGPLGIGGLRPGQMRRLTG 313 Query: 239 KILREQ 244 + + Sbjct: 314 EEITAL 319 >gi|317121959|ref|YP_004101962.1| ribosomal large subunit pseudouridine synthase B [Thermaerobacter marianensis DSM 12885] gi|315591939|gb|ADU51235.1| ribosomal large subunit pseudouridine synthase B [Thermaerobacter marianensis DSM 12885] Length = 320 Score = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 98/331 (29%), Positives = 156/331 (47%), Gaps = 17/331 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--- 67 QR+ K+++RAGIASRR+VE IA R+ VNG D I VDG PL Sbjct: 1 MPAQRLQKLLSRAGIASRRQVENWIAAGRITVNGRPAVLGTRADPERDVIAVDGRPLADL 60 Query: 68 -RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLT 125 ++ R R + HKP G+VTT DP GR +V D + + VGRLD ++EGLLLLT Sbjct: 61 RQRLARKRYVMLHKPRGMVTTLRDPQGRPSVGDFCRRAGLRGLHPVGRLDFDSEGLLLLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG L L P + +VY V G ++ +L L+ G+++ + + Sbjct: 121 DDGELTFALTHPRHEVDKVYHVLVRGPLEPQRLRRLRDGVLLDDGPARARSARILRPRPG 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 WV V LREG+ R+++++ W V RL+R++ GP +LG L AG R +S++ Sbjct: 181 GGWVEVVLREGRKRQVRRMCRAVGWDVVRLVRVAVGPLRLGRLTAGQWRPLSRQE----- 235 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 +E + PI+ E R+ + R + + + + + Sbjct: 236 ----VEALRAAAGLPIHGDEPAPRE--GGAAPAITSRWRAASPRAGGGIAAGRAETGSAR 289 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHR 336 + + A G +S +G+++ +R Sbjct: 290 TGGGVPATPGDA-GGKASGGRAAGRQQGRNR 319 >gi|91205136|ref|YP_537491.1| ribosomal large subunit pseudouridine synthase [Rickettsia bellii RML369-C] gi|157827531|ref|YP_001496595.1| ribosomal large subunit pseudouridine synthase [Rickettsia bellii OSU 85-389] gi|122425930|sp|Q1RJR2|Y321_RICBR RecName: Full=Uncharacterized RNA pseudouridine synthase RBE_0321; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|91068680|gb|ABE04402.1| Ribosomal large subunit pseudouridine synthase [Rickettsia bellii RML369-C] gi|157802835|gb|ABV79558.1| Ribosomal large subunit pseudouridine synthase [Rickettsia bellii OSU 85-389] Length = 229 Score = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 111/229 (48%), Positives = 155/229 (67%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR++K+I+ AGI SRR+ E++I +VKVNGI++ A NV + + +EV G + ++++ Sbjct: 2 QRLAKLISNAGICSRRDAEKLILDGQVKVNGIIVTSPATNVDTDNQVEVSGSLITSSQKS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+Y+KP+GL+TTH DP R TVF+ L RVIS+GRLD+N+EGLLLLTN+G LAR Sbjct: 62 RLWIYYKPVGLITTHKDPLSRKTVFEQLTG-LPRVISIGRLDLNSEGLLLLTNNGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 ELPS++ RVY VR +G D L K + I GI Y + L + +N+W+ V L Sbjct: 121 FELPSSKLKRVYHVRAYGNPDP-LLKSNYKNLEIDGIFYNPQSIKLLRKNSTNSWLEVIL 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EGKNREI+++FE F KVN+LIR YG F+L L REV+KK+ + Sbjct: 180 FEGKNREIRRIFEHFGLKVNKLIRTEYGDFKLDNLKPNEYREVTKKLYK 228 >gi|116670095|ref|YP_831028.1| pseudouridine synthase, Rsu [Arthrobacter sp. FB24] gi|116610204|gb|ABK02928.1| Pseudouridine synthase, Rsu [Arthrobacter sp. FB24] Length = 406 Score = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 86/239 (35%), Positives = 128/239 (53%), Gaps = 2/239 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 + R+ KV+A AG+ASRR E MI++ RV+V+G ++ V V T I VDG+ ++ Sbjct: 164 DADGIRLQKVMASAGVASRRVCEEMISEGRVEVDGKVVTELGVRVDPKTAVIHVDGLRIQ 223 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 E +++KP G+V+T DPDGR + D + + R+ VGRLD+ TEGLLLLTND Sbjct: 224 LDENMVYMVFNKPKGVVSTMEDPDGRPCISDFVRNTHGERLFHVGRLDVATEGLLLLTND 283 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + + Y V+ G Q LK G+ ++ L + Sbjct: 284 GELANRLTHPSYEVPKTYLVQVRGPFPQGIGAQLKAGVELEDGMASVDSFKLVDSTPGHV 343 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + V L GKNR ++++F+ + V RL+R+ GP LG GS R + K+ + L Sbjct: 344 LIEVVLHSGKNRIVRRLFDAVGFPVLRLVRVKVGPIGLGDQRQGSIRNLGKQEVGHLLA 402 >gi|220917363|ref|YP_002492667.1| pseudouridine synthase [Anaeromyxobacter dehalogenans 2CP-1] gi|219955217|gb|ACL65601.1| pseudouridine synthase [Anaeromyxobacter dehalogenans 2CP-1] Length = 324 Score = 270 bits (691), Expect = 3e-70, Method: Composition-based stats. Identities = 90/331 (27%), Positives = 138/331 (41%), Gaps = 9/331 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 +R+ K +A AGIASRR+ E +I+ RV+VN + V D + VDG + + Sbjct: 1 MAEERLQKFLAGAGIASRRKAEALISAGRVRVNQRTVTELGTKVDPGRDLVTVDGALVSQ 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ +L +KP G VTT SDP GR T + L + R VGRLD + EG LLLT+DG Sbjct: 61 PEQRSYYLLYKPSGCVTTASDPQGRPTAMEYLRGVPGRPFPVGRLDYDAEGALLLTDDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P RVY V+ G + L +K G+ ++ ++V + N W+ Sbjct: 121 LANRLAHPRYGHQRVYLVKVKGDPPAEALERMKAGVRLEDGPARALEVAVHEHADRNVWI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 V + EG+ +K++ E +V RL R +G +G L G R + + +R Sbjct: 181 RVVVGEGRFHLVKRLCEAVGLQVQRLFRPEFGGIGVGGLRPGRFRRLEPEEVRAL----- 235 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK-KLATPVHRR 308 +V L++ + VR+ P + + R Sbjct: 236 --RQRVGLESGTPARGPSVRELPKAARRHGHGPPAAPGAAPPPAEPDADEVGPRARGASR 293 Query: 309 NLASNVWMAKGIHSSFLSDSGQREENHRRSP 339 G +S S + R Sbjct: 294 AGPRAAAPGPGGRASRPSRPSRPGRAGTRRR 324 >gi|16761163|ref|NP_456780.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. CT18] gi|16765551|ref|NP_461166.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|29141142|ref|NP_804484.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|161613070|ref|YP_001587035.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|168229594|ref|ZP_02654652.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|168236410|ref|ZP_02661468.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|168818048|ref|ZP_02830048.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|194446350|ref|YP_002041497.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194469360|ref|ZP_03075344.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194737206|ref|YP_002115312.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|197249585|ref|YP_002147195.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|198241888|ref|YP_002216306.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|204929076|ref|ZP_03220219.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|213023702|ref|ZP_03338149.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. 404ty] gi|213052312|ref|ZP_03345190.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. E00-7866] gi|213424223|ref|ZP_03357082.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. E02-1180] gi|213581650|ref|ZP_03363476.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] gi|213646821|ref|ZP_03376874.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. J185] gi|224583280|ref|YP_002637078.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|238913797|ref|ZP_04657634.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] gi|54039570|sp|P65841|RSUA_SALTI RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|54042084|sp|P65840|RSUA_SALTY RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|25324010|pir||AG0785 pseudouridylate synthase (EC 4.2.1.70) - Salmonella enterica subsp. enterica serovar Typhi (strain CT18) gi|16420760|gb|AAL21125.1| 16S rRNA pseudouridylate 516 synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|16503461|emb|CAD02605.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhi] gi|29136768|gb|AAO68333.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|161362434|gb|ABX66202.1| hypothetical protein SPAB_00778 [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|194405013|gb|ACF65235.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194455724|gb|EDX44563.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194712708|gb|ACF91929.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|197213288|gb|ACH50685.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197290459|gb|EDY29814.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|197936404|gb|ACH73737.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|204321620|gb|EDZ06819.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205335593|gb|EDZ22357.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|205345073|gb|EDZ31837.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|224467807|gb|ACN45637.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|261247434|emb|CBG25259.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. D23580] gi|267994304|gb|ACY89189.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S] gi|301158783|emb|CBW18295.1| ribosomal small subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344] gi|312913212|dbj|BAJ37186.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhimurium str. T000240] gi|320086666|emb|CBY96437.1| 16S pseudouridylate 516 synthase [Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1] gi|321224878|gb|EFX49941.1| Ribosomal small subunit pseudouridine synthase A ; SSU Psi [Salmonella enterica subsp. enterica serovar Typhimurium str. TN061786] gi|322615249|gb|EFY12171.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 315996572] gi|322617839|gb|EFY14735.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-1] gi|322624567|gb|EFY21398.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-3] gi|322626983|gb|EFY23779.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-4] gi|322634168|gb|EFY30904.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-1] gi|322635640|gb|EFY32350.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-2] gi|322640225|gb|EFY36889.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 531954] gi|322646353|gb|EFY42865.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. NC_MB110209-0054] gi|322649320|gb|EFY45756.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. OH_2009072675] gi|322656440|gb|EFY52729.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. CASC_09SCPH15965] gi|322660683|gb|EFY56918.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] gi|322665695|gb|EFY61879.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 81038-01] gi|322667221|gb|EFY63388.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. MD_MDA09249507] gi|322671226|gb|EFY67354.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 414877] gi|322675134|gb|EFY71211.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 366867] gi|322680742|gb|EFY76777.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 413180] gi|322686917|gb|EFY82894.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 446600] gi|323130552|gb|ADX17982.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhimurium str. 4/74] gi|323192682|gb|EFZ77909.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 609458-1] gi|323198887|gb|EFZ83986.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 556150-1] gi|323205103|gb|EFZ90081.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 609460] gi|323208146|gb|EFZ93090.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 507440-20] gi|323211199|gb|EFZ96045.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] gi|323215829|gb|EGA00572.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. MB101509-0077] gi|323221865|gb|EGA06265.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. MB102109-0047] gi|323223805|gb|EGA08108.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. MB110209-0055] gi|323231275|gb|EGA15390.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. MB111609-0052] gi|323233708|gb|EGA17800.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 2009083312] gi|323237780|gb|EGA21840.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 2009085258] gi|323245761|gb|EGA29755.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. 315731156] gi|323246500|gb|EGA30479.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2009159199] gi|323255132|gb|EGA38915.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008283] gi|323259561|gb|EGA43196.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008284] gi|323266058|gb|EGA49551.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008285] gi|323271866|gb|EGA55282.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008287] gi|326624057|gb|EGE30402.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Dublin str. 3246] gi|332989156|gb|AEF08139.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhimurium str. UK-1] Length = 231 Score = 270 bits (691), Expect = 3e-70, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 105/229 (45%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + TL+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKDLTKPATLEV--ITPVQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEEEI 227 >gi|329766937|ref|ZP_08258465.1| hypothetical protein HMPREF0428_00162 [Gemella haemolysans M341] gi|328837662|gb|EGF87287.1| hypothetical protein HMPREF0428_00162 [Gemella haemolysans M341] Length = 243 Score = 270 bits (691), Expect = 3e-70, Method: Composition-based stats. Identities = 71/236 (30%), Positives = 127/236 (53%), Gaps = 3/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA +G SRR+ E++I +V VNG +++ V +D I V+GV L E Sbjct: 3 ERLQKLIAASGYTSRRKAEQLILDGKVSVNGEVVKELGVKAEPSDIIIVEGVRL-LKENK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP ++T+ SD R+ V D + RV+ VGRLD +T G L+++NDG + Sbjct: 62 RYYLFYKPEKVITSMSDEKDRTCVKDFFEDVNERVVPVGRLDYDTSGALIMSNDGEFINL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 + P + + Y + +G+++ + L +L+ G+ I +V + K N V + Sbjct: 122 ITHPKHKIRKTYVAKINGKLEDNHLRILRNGVRIDNYKTAKAEVNIVKNKNKSGNTLVRL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EGKNR+++++FE ++V +L R S L L G R ++ ++ + Sbjct: 182 TIHEGKNRQVRRMFEALGYEVMKLKRESIEDLTLEGLKKGEYRTLTIHEVKRLINK 237 >gi|209695446|ref|YP_002263375.1| ribosomal large subunit pseudouridine synthase F [Aliivibrio salmonicida LFI1238] gi|208009398|emb|CAQ79672.1| ribosomal large subunit pseudouridine synthase F [Aliivibrio salmonicida LFI1238] Length = 314 Score = 270 bits (691), Expect = 3e-70, Method: Composition-based stats. Identities = 74/313 (23%), Positives = 138/313 (44%), Gaps = 17/313 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I QQR+ +NG + V D + VDG PL+ + Sbjct: 10 RLNKYISDTGYCSRREADKLIDQQRITINGNVP-EMGTKVAEGDDVLVDGKPLKAKQERI 68 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++KP+G+ T S+ + D + + R+ +GRLD ++GL+ LT+DG + + Sbjct: 69 YIAFNKPVGITCT-SERHVEGNIIDYI-NHEQRIFPIGRLDKPSDGLIFLTSDGDIVNKI 126 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + D L + G+ I QV + S + L Sbjct: 127 LRAGNAHEKEYVVRVDKPITDDFLAQMAAGVPILDTVTLPCQVK----QESRFVFRITLT 182 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E+ +++V +L R+ LGTL +G R ++ + EQ+ + ++ Sbjct: 183 QGLNRQIRRMCEYLDYEVFKLKRVRIMNIDLGTLASGEWRYLTASEM-EQINNMIGTSSK 241 Query: 255 V--------NLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 +D I + + R + + R + Q++ Sbjct: 242 TEEASRKVKEVDGKIRTIKKASSGRNHHSNNTFSQKRREESKDRGFGKSYSQRRDEGKDQ 301 Query: 307 RRNLAS-NVWMAK 318 + ++ VW AK Sbjct: 302 DKPQSTIKVWRAK 314 >gi|54297357|ref|YP_123726.1| hypothetical protein lpp1402 [Legionella pneumophila str. Paris] gi|53751142|emb|CAH12553.1| hypothetical protein lpp1402 [Legionella pneumophila str. Paris] Length = 248 Score = 270 bits (691), Expect = 3e-70, Method: Composition-based stats. Identities = 95/241 (39%), Positives = 140/241 (58%), Gaps = 7/241 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----P 66 + +R+ K++++AG+ SRRE+ER I V+VNG + + +D I V G P Sbjct: 1 MSSERLQKILSQAGLGSRREMERWIDNGWVQVNGKPAK-LGDSAGPSDKISVKGKLIPNP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 L+ + R+ LYHKP+G V++ DP TVFDNLP + R + VGRLD+NT GLL+ T Sbjct: 60 LKGKQNIRVLLYHKPVGEVSSRHDPKFEKTVFDNLPHLRQGRWVQVGRLDLNTSGLLIFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N+G LA L P R Y VR HGQV Q+ LN L KG+++ ++ +G+ Sbjct: 120 NNGELANQLMHPKYGLEREYAVRVHGQVSQESLNNLLKGVMLDDGLGKFTKIQFRGGEGT 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 N+W V L EG+NRE+++++E +V+RLIRI YG + L G E++ K + E Sbjct: 180 NSWYHVTLNEGRNREVRRLWESQGVEVSRLIRIRYGMLTMPRFLSRGQFYELTPKEVTEF 239 Query: 245 L 245 L Sbjct: 240 L 240 >gi|261337756|ref|ZP_05965640.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium gallicum DSM 20093] gi|270277210|gb|EFA23064.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium gallicum DSM 20093] Length = 258 Score = 270 bits (690), Expect = 3e-70, Method: Composition-based stats. Identities = 75/237 (31%), Positives = 119/237 (50%), Gaps = 2/237 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 N R+ K++A+AG SRR+ E MI RV+V+G L+ V + VDG +R Sbjct: 16 NNEGIRLQKILAQAGFGSRRKCEEMILDGRVEVDGELVTELGSRVDPKRQEVRVDGSRIR 75 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 R +KP +++T DP GR T+ D + + R+ +GRLD ++EGL+L+TNDG Sbjct: 76 LNNRHVTLALNKPKRVLSTMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTNDG 135 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNA 187 L++ + P + + Y V G + + L + G+ + Q ++ Sbjct: 136 ELSQHVMHPRYEVAKTYVVTLDGHLSGNVCRRLVRTGVQLDDGWIKLDQCSIIDANRETT 195 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L GKNR ++++F + V RL+R GP +LG L GS R +S +R Sbjct: 196 IVKVVLHSGKNRIVRRIFGAIGFPVRRLVRTQIGPIKLGDLKPGSYRVLSDAEVRSL 252 >gi|220912302|ref|YP_002487611.1| pseudouridine synthase [Arthrobacter chlorophenolicus A6] gi|219859180|gb|ACL39522.1| pseudouridine synthase [Arthrobacter chlorophenolicus A6] Length = 403 Score = 270 bits (690), Expect = 3e-70, Method: Composition-based stats. Identities = 87/241 (36%), Positives = 128/241 (53%), Gaps = 4/241 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 + R+ KV+A AG+ASRR E MIA+ RV+V+G ++ V + T I VDG+ ++ Sbjct: 159 DADGVRLQKVMASAGVASRRVCEEMIAEGRVEVDGQVVTELGVRIDPATAVIHVDGLRIQ 218 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLT 125 E +++KP G+V+T DPDGR + D L + R+ VGRLD+ TEGLLLLT Sbjct: 219 LDENLVYMVFNKPKGVVSTMEDPDGRPCISDFLKNNKNTGERLFHVGRLDVATEGLLLLT 278 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + + Y V+ G Q LK G+ ++ L Sbjct: 279 NDGELANRLTHPSYEVPKTYLVQVRGPFPQGIGAQLKAGVELEDGPAAVDSFRLVDSTPG 338 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + + V L GKNR ++++F+ + V RL+R+ GP LG GS R + K+ + L Sbjct: 339 HVLIEVVLHSGKNRIVRRMFDAVGFPVQRLVRVKVGPIGLGDQRQGSIRNLGKQEVGHLL 398 Query: 246 G 246 Sbjct: 399 A 399 >gi|170722948|ref|YP_001750636.1| RNA-binding S4 domain-containing protein [Pseudomonas putida W619] gi|169760951|gb|ACA74267.1| RNA-binding S4 domain protein [Pseudomonas putida W619] Length = 354 Score = 270 bits (690), Expect = 3e-70, Method: Composition-based stats. Identities = 109/363 (30%), Positives = 170/363 (46%), Gaps = 30/363 (8%) Query: 1 MKDKNIVQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M ++++ TP +++ KV+AR G+ SRR+VE I+Q R+KVNG+ V Sbjct: 1 MSEQDLQNTEITPPAGEKLQKVLARIGVGSRRDVEAWISQGRIKVNGVEAT-LGQRVDLH 59 Query: 58 DHIEVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVG 112 D I VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++G Sbjct: 60 DAIAVDGKLIKREEAAEATRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLDINT GLLL T DG LA L PS + R Y VR G+VD + + LK G++++ Sbjct: 120 RLDINTTGLLLFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVMLEDGPA 179 Query: 173 GDMQV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLA 230 + +G N W + EG+NRE+++++E V+RL R+ +GP L L Sbjct: 180 KFTDIQKAPGGEGFNHWYHCVVMEGRNREVRRLWESQGMVVSRLKRVRFGPVFLNSDLPM 239 Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 G RE+++ + L+ + P + + D R+++ S+ Sbjct: 240 GRWREMTQGEIDILAAEVGLQPVAL----------------PAMNLKAKDKMERLQRKST 283 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + G S++ + P A + R PS KR + Sbjct: 284 RPMGRSERVRSLRPAQEAAAAERPARQP--REEAPRKGSRGSAVAER-PSEMRKRPAKTD 340 Query: 351 SAK 353 K Sbjct: 341 GDK 343 >gi|217979006|ref|YP_002363153.1| RNA-binding S4 domain protein [Methylocella silvestris BL2] gi|217504382|gb|ACK51791.1| RNA-binding S4 domain protein [Methylocella silvestris BL2] Length = 676 Score = 270 bits (690), Expect = 3e-70, Method: Composition-based stats. Identities = 146/342 (42%), Positives = 203/342 (59%), Gaps = 15/342 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KVIARAG SRR+ E +I++ RV +NG +L A+NV D I +DG PL + RT Sbjct: 25 ERIAKVIARAGACSRRDAETLISEGRVALNGAILISPAINVGPDDVILIDGAPLAERART 84 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGL 130 RL+L+HKP GLVTT DP+GR TVFD + R++S+GRLDINTEGLLLLTNDGGL Sbjct: 85 RLFLFHKPRGLVTTEHDPEGRPTVFDYVREHSPEAPRLVSIGRLDINTEGLLLLTNDGGL 144 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ARVLELP+T W R YRVR G +DQ L+ L++G+ ++G+ Y ++ TLD +G+N W+T Sbjct: 145 ARVLELPATGWARRYRVRAKGSIDQPTLDRLRQGVTVEGVDYAQIEATLDRIQGANCWLT 204 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + LREGKNREIK+V E +VNRLIR+SYGPFQL L G EV ++LR+QLG L Sbjct: 205 MSLREGKNREIKRVLEHLGLEVNRLIRLSYGPFQLADLEEGKVEEVRTRVLRDQLGAALA 264 Query: 251 EEAQVNLDAPIYSSETLVRDRPNII---------SEVPDDFTRMKKNSS---QKNGLSKQ 298 E A V+ P + T + P + D R +++S + G + Sbjct: 265 EAAAVDFVGPAGDALTPPPEEPAPRPPRQKSLRNQKAFRDEERPRRDSGPFRKAEGGGRP 324 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPS 340 RR + + + ++ + R+ + Sbjct: 325 AGAGLLARRRGPDPAAFDPAQPRKNKPAPGPRKHISSLRAEA 366 >gi|218690332|ref|YP_002398544.1| 16S rRNA pseudouridylate synthase A [Escherichia coli ED1a] gi|218427896|emb|CAR08815.2| 16S rRNA pseudouridylate 516 synthase [Escherichia coli ED1a] Length = 231 Score = 270 bits (690), Expect = 3e-70, Method: Composition-based stats. Identities = 58/229 (25%), Positives = 101/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEV--ITPTQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPSEYRPLTEEEI 227 >gi|156933241|ref|YP_001437158.1| 16S rRNA pseudouridylate synthase A [Cronobacter sakazakii ATCC BAA-894] gi|156531495|gb|ABU76321.1| hypothetical protein ESA_01053 [Cronobacter sakazakii ATCC BAA-894] Length = 235 Score = 270 bits (690), Expect = 3e-70, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 107/229 (46%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ +A +++ + +E DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRASRVTVDGEIVKDSAFKLLADNDVEYDGNPLIQQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D L KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAALFAKGVQLNNEKDLTKPAQLEV--ITPTEVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G +L L G R +++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVGLHRERIGAIELDPELAPGEYRPLTEDEI 227 >gi|170660220|ref|YP_001740050.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. tomato str. DC3000] gi|170652970|gb|ACB22026.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. tomato str. DC3000] gi|331017433|gb|EGH97489.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. lachrymans str. M302278PT] Length = 408 Score = 270 bits (690), Expect = 3e-70, Method: Composition-based stats. Identities = 119/375 (31%), Positives = 177/375 (47%), Gaps = 36/375 (9%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG V D I Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-LGQRVDLHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLD Sbjct: 63 SVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPARFT 182 Query: 176 QVT-LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDA-------------PIYSSETLVRD-RPNIIS 276 RE+S+ L ++G + + Q+N P+ E +VR RP + Sbjct: 243 REMSQYEVDILSAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVVRTLRPAAGA 302 Query: 277 EVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ------ 330 D T Q G + + +R + + G + +D+ + Sbjct: 303 PATGDRT---PRQPQITGSERDRPRGGDSTQRPVRKDSGK-PGSRAPRPADNSRGTPVAE 358 Query: 331 REENHRRSPSFPSKR 345 R + + P+ P + Sbjct: 359 RPSDMNKRPAKPGPK 373 >gi|220905836|ref|YP_002481147.1| pseudouridine synthase [Cyanothece sp. PCC 7425] gi|219862447|gb|ACL42786.1| pseudouridine synthase [Cyanothece sp. PCC 7425] Length = 261 Score = 270 bits (690), Expect = 3e-70, Method: Composition-based stats. Identities = 87/250 (34%), Positives = 126/250 (50%), Gaps = 14/250 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK- 69 + +R+ K++A+ GIASRR+ E+MI RV +NG D I+VDG L+ Sbjct: 2 DSGERLQKILAQWGIASRRQAEQMILDGRVWLNGEPATLGQKADPHCDRIQVDGRTLQSD 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTND 127 L +KP G+++T SDP GR T+ D LP + + VGRLD T G LL+TND Sbjct: 62 RPDLLYLLLYKPTGVISTCSDPQGRPTILDLLPPHYRNLGLHPVGRLDSETTGALLITND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P Q +VY+V G + L + G+++ G QV L + + Sbjct: 122 GWLTHALTHPCHQVSKVYQVWVSGHPPESVLQQWRDGVMLAGRLTLPAQVRLLERTEIPS 181 Query: 188 ---WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSK- 238 + V L EG+NR+I++V + + V L R GP QL TL G R ++ Sbjct: 182 ALTCLEVILWEGRNRQIRRVAKKLGYPVVHLHRTGIGPVQLQATDQPTLAKGHYRHLTPG 241 Query: 239 --KILREQLG 246 + LREQ+G Sbjct: 242 ELEALREQVG 251 >gi|260778847|ref|ZP_05887739.1| ribosomal small subunit pseudouridine synthase A [Vibrio coralliilyticus ATCC BAA-450] gi|260605011|gb|EEX31306.1| ribosomal small subunit pseudouridine synthase A [Vibrio coralliilyticus ATCC BAA-450] Length = 233 Score = 269 bits (689), Expect = 3e-70, Method: Composition-based stats. Identities = 58/230 (25%), Positives = 103/230 (44%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R+E ++I V VN I+ + AV V +E G ++K Sbjct: 1 MRLDKYLCDALGATRKEATKIIKSGDVTVNDIVQKSGAVKVTDDCIVEWQGREIQKP-GP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + KP G V +H D ++ + GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLFKPDGFVCSHEDGFNQTAFMLLDEVKMEDLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV ++ D + ++GI ++ + L+ V + + Sbjct: 120 ITSPKHKCEKTYRVWLVDPIEADYVAQFEQGIELRNEKAATLPAKLEIVDEEEKEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 EGK ++K++F KV L R G L L G R ++++ + Sbjct: 180 TEGKYHQVKRMFAALGNKVEHLHRERIGNIVLDDELEPGEYRYLTQEEIE 229 >gi|282860273|ref|ZP_06269343.1| pseudouridylate synthase [Prevotella bivia JCVIHMP010] gi|282586947|gb|EFB92182.1| pseudouridylate synthase [Prevotella bivia JCVIHMP010] Length = 555 Score = 269 bits (689), Expect = 4e-70, Method: Composition-based stats. Identities = 70/243 (28%), Positives = 116/243 (47%), Gaps = 3/243 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I +V VNG ++ ++ TD + Sbjct: 307 IEYKEEHIDPTEPLRLNKFLANAGVCSRREADDFILAGQVTVNGEVINELGTKILRTDEV 366 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + + E+ L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 367 KFQDKLVSL-EKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDACPERIYPVGRLDRNTT 425 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LL TNDG LA L P +VY V + ++L + GI ++ + Sbjct: 426 GVLLFTNDGDLASKLTHPKFLKKKVYHVFLDKPITANELQKISDGIELEDGEIKADAIEY 485 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + A V + + GKNR ++++FE ++V +L R+ + + G R +++K Sbjct: 486 ANPE-DQAQVGIEIHSGKNRIVRRIFESLGYRVVKLDRVMFAGLTKKNVRRGDWRFLTEK 544 Query: 240 ILR 242 + Sbjct: 545 EVE 547 >gi|260641988|ref|ZP_05859178.1| ribosomal large subunit pseudouridine synthase B [Bacteroides finegoldii DSM 17565] gi|260624005|gb|EEX46876.1| ribosomal large subunit pseudouridine synthase B [Bacteroides finegoldii DSM 17565] Length = 253 Score = 269 bits (689), Expect = 4e-70, Method: Composition-based stats. Identities = 71/242 (29%), Positives = 115/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 5 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 64 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 65 KFHEEPVS-IERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTT 123 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V + + ++ + GI ++ ++ Sbjct: 124 GVLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMDQIAAGIQLEDGEIHADAISY 183 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 T V + + GKNR ++++FE +KV +L R+ + L G R +++ Sbjct: 184 -TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLTEA 242 Query: 240 IL 241 + Sbjct: 243 EV 244 >gi|158320760|ref|YP_001513267.1| pseudouridine synthase [Alkaliphilus oremlandii OhILAs] gi|158140959|gb|ABW19271.1| pseudouridine synthase [Alkaliphilus oremlandii OhILAs] Length = 228 Score = 269 bits (689), Expect = 4e-70, Method: Composition-based stats. Identities = 63/232 (27%), Positives = 117/232 (50%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ GI SRRE ++ I +RV +NGI+ +V D + VD P+ + + Sbjct: 1 MRINKYISETGICSRREADQWIIDKRVTINGIVA-ELGSDVSPGDAVFVDHKPIGQKRKP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T ++ + + D + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-TEKHVKGNIVDFV-HHKERIFPIGRLDKDSQGLILLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + + + + G+ I G +VT K ++ + L Sbjct: 118 ILRAENNHEKEYIVTVNKPITPEFIKGMSSGVKILGTKTKPCKVT----KINDTVFRIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +G NR+I+++ + F +KV +L RI +L L G R+++K+ L + Sbjct: 174 TQGLNRQIRRMCQVFGYKVVKLQRIRIMNVKLKGLEIGQWRDLTKEELEGLI 225 >gi|227325901|ref|ZP_03829925.1| 16S rRNA pseudouridylate synthase A [Pectobacterium carotovorum subsp. carotovorum WPP14] Length = 231 Score = 269 bits (689), Expect = 4e-70, Method: Composition-based stats. Identities = 62/229 (27%), Positives = 111/229 (48%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + QRV V+G +++ A + ++E DG PL++ Sbjct: 1 MRLDKFLSQQLEISRSLVARELHAQRVTVDGEVVKSGAFKLSPEHNVEFDGEPLKQQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTILYFMDVPVAYKLHAAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P Q + Y V + +D G+ + TL+ K ++ V + + Sbjct: 121 ITSPKHQCEKTYLVTLEQPLAEDTAAQFTAGVQLHNEKNLTKPATLE--KITDYVVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L L G RE+S + + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGGIYLDSELEPGEYRELSAEEI 227 >gi|283832379|ref|ZP_06352120.1| ribosomal small subunit pseudouridine synthase A [Citrobacter youngae ATCC 29220] gi|291072028|gb|EFE10137.1| ribosomal small subunit pseudouridine synthase A [Citrobacter youngae ATCC 29220] Length = 235 Score = 269 bits (689), Expect = 4e-70, Method: Composition-based stats. Identities = 57/229 (24%), Positives = 105/229 (45%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ +A ++ +E DG L + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRANRVTVDGEIVKNSAFKLLPEHDVEYDGNSLIQQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V +D +G+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVAEDTAEQFARGVQLHNEKDLTKPAVLEV--ITPTQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EG+ ++K++F V L R G +L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGAIKLDDDLEPGEYRPLTEEEI 227 >gi|289641301|ref|ZP_06473467.1| pseudouridine synthase [Frankia symbiont of Datisca glomerata] gi|289508899|gb|EFD29832.1| pseudouridine synthase [Frankia symbiont of Datisca glomerata] Length = 248 Score = 269 bits (689), Expect = 4e-70, Method: Composition-based stats. Identities = 83/233 (35%), Positives = 125/233 (53%), Gaps = 1/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 N R+ KV+A AG+ SRR E +IA RV+V+G ++E + V T IEVDG + Sbjct: 7 NAEGVRLQKVLAAAGVGSRRHSEELIAAGRVRVDGRVVETQGMRVDPQTAIIEVDGERVV 66 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +KP+G+++ SD GR TV D + + VGRLD+++EGLLL+TNDG Sbjct: 67 TRAGLVHLALNKPVGVLSAMSDDRGRPTVADLVTDAGPGLFHVGRLDVDSEGLLLVTNDG 126 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + + Y V G V +D L++G+ + V + GS Sbjct: 127 ELAHRLSHPSFEVAKTYLVEVAGPVGRDVPRRLREGVELADGPVRADAVRIVGSAGSRVM 186 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + L EG+NR ++++ E + V RL+R GP LG+L G TR +S+ + Sbjct: 187 LEITLHEGRNRVVRRLMEAVDHPVRRLVRTRIGPVHLGSLRVGRTRHLSRGEV 239 >gi|255528344|ref|ZP_05395151.1| pseudouridine synthase [Clostridium carboxidivorans P7] gi|296188339|ref|ZP_06856731.1| pseudouridine synthase [Clostridium carboxidivorans P7] gi|255507968|gb|EET84401.1| pseudouridine synthase [Clostridium carboxidivorans P7] gi|296047465|gb|EFG86907.1| pseudouridine synthase [Clostridium carboxidivorans P7] Length = 258 Score = 269 bits (689), Expect = 4e-70, Method: Composition-based stats. Identities = 66/242 (27%), Positives = 115/242 (47%), Gaps = 9/242 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K EN R++K I+ GI SRRE + +I ++RV +NGI V STD +++ Sbjct: 4 NKINHNENSDSMRINKFISEKGICSRREADTLIQEKRVTINGITA-ELGSRVKSTDEVKL 62 Query: 63 DGVPLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 DG L + E+ +KP+G++ T ++ ++ + D + + R+ +GRLD ++EG Sbjct: 63 DGKLLTEKEKDDKVYIALNKPVGIICT-TEKKIKNNIVDFV-NYPKRIFHIGRLDKDSEG 120 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+ LTNDG + + + Y V + L + G+ I +V Sbjct: 121 LIFLTNDGDIVNKILRAGNNHEKEYIVTVDKCITNSFLKEMASGVSILNTVTKPCKVY-- 178 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 K + + L +G NR+I+++ E + V +L RI L + G R +S Sbjct: 179 --KEGSHIFRIILTQGLNRQIRRMCEALGYNVLKLKRIRIMNVTLKDIPVGKWRYLSPSE 236 Query: 241 LR 242 L+ Sbjct: 237 LK 238 >gi|283783292|ref|YP_003374046.1| pseudouridylate synthase [Gardnerella vaginalis 409-05] gi|283441908|gb|ADB14374.1| pseudouridylate synthase [Gardnerella vaginalis 409-05] Length = 284 Score = 269 bits (689), Expect = 4e-70, Method: Composition-based stats. Identities = 69/239 (28%), Positives = 120/239 (50%), Gaps = 2/239 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 ++ R+ K++A AG SRR+ E +I RV+V+ L+ V + VDG Sbjct: 40 SDDNNAIRLQKLLAEAGFGSRRKCEEIILDGRVEVDDELVTTLGTRVDPKRQKVRVDGSR 99 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 ++ + HKP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TN Sbjct: 100 VKFNTKLVTLALHKPKRVLSAMDDPKGRFTLRDIVGDKYERIFHMGRLDYDSEGLILMTN 159 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 DG L++ + P + + Y G+++ L +G+ ++ + + Q Sbjct: 160 DGELSQHVMHPKYEVEKTYIATVEGKINGMVCRRLVSQGVNLEDGWIKLDRCAIIDQNHD 219 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V + L GKNR ++++F + V RL+R GP +LG L AGS R +S+ +R Sbjct: 220 TTMVKIVLHSGKNRIVRRIFGAVGFPVKRLVRTQIGPIKLGDLKAGSYRVLSQTEVRSL 278 >gi|213859463|ref|ZP_03385167.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. M223] Length = 231 Score = 269 bits (689), Expect = 4e-70, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 105/229 (45%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + TL+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNRKSLTKPATLEV--ITPVQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEEEI 227 >gi|329889977|ref|ZP_08268320.1| hypothetical protein BDIM_16710 [Brevundimonas diminuta ATCC 11568] gi|328845278|gb|EGF94842.1| hypothetical protein BDIM_16710 [Brevundimonas diminuta ATCC 11568] Length = 513 Score = 269 bits (689), Expect = 4e-70, Method: Composition-based stats. Identities = 143/350 (40%), Positives = 191/350 (54%), Gaps = 13/350 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R++K +ARAGIASRREVER+I +V VNG +L AV V D I VDG P+ A+ Sbjct: 80 TERIAKAMARAGIASRREVERLIGLGKVAVNGRILATPAVLVTRDDKITVDGKPIGAAQA 139 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR+W YHKP GL+T+H+DP GR TVFD LPS RVISVGRLD+ TEGLLLLTNDG L+R Sbjct: 140 TRVWRYHKPAGLITSHNDPAGRPTVFDALPSGLPRVISVGRLDLATEGLLLLTNDGELSR 199 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS------- 185 LELP T +R YR R G++ Q++L+ LK G+V+ G+ YG ++ T+D K Sbjct: 200 ALELPETALVRQYRARARGRITQEQLDKLKDGVVVDGVRYGPVEATIDKAKEKTEGEKSS 259 Query: 186 -NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 N W++V + EGKNRE++KV E VNRLIR++YGPFQLGTL GS EV +++RE Sbjct: 260 ANLWLSVSITEGKNREVRKVLESIGLTVNRLIRLAYGPFQLGTLPVGSVEEVGPRVIREM 319 Query: 245 LGPHLLEE-----AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 L H+ E V PI T D +R ++ Sbjct: 320 LAEHIRPENLPTGNTVATPTPIPGRRTGTPIVRGKSGSAMSDPSRKPSRVRAAETAAEDG 379 Query: 300 KLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 R+ + +F + ++ P + R Sbjct: 380 AEFGKPARKEGWAKAKPKFEHKKTFKPRARPGDDEGTEGGDRPRRPFTPR 429 >gi|255994193|ref|ZP_05427328.1| ribosomal large subunit pseudouridine synthase B [Eubacterium saphenum ATCC 49989] gi|255993861|gb|EEU03950.1| ribosomal large subunit pseudouridine synthase B [Eubacterium saphenum ATCC 49989] Length = 250 Score = 269 bits (688), Expect = 4e-70, Method: Composition-based stats. Identities = 82/247 (33%), Positives = 126/247 (51%), Gaps = 16/247 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA+ GI SRR+ + +I + RV V GI L VNV I +DG P+ ++T Sbjct: 1 MRINKYIAKCGICSRRKADELIKEGRVTVGGIPLLECGVNVDEDAVIAIDGRPIEIQKKT 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G V T SD GR TV+D L I R+ ++GRLD ++EGL+LLTNDG LA+ Sbjct: 61 VYIAMNKPCGYVCTVSDELGRRTVYDLLTDIDERLFTIGRLDKDSEGLILLTNDGDLAQK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ----------------GICYGDMQV 177 L P + + Y V G + + L GI I ++ Sbjct: 121 LLSPKRKIEKNYEVVVRGVPGANDIKKLSGGITIDVEISQTKQNKPVKSIVKYHTKPAKI 180 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 QK + +++ ++EGK R+I+K+F+ +V +L R+ + +LG L G R +S Sbjct: 181 FEIGQKQGDMKLSMIIKEGKKRQIRKMFDVIGHEVIKLKRVKFAGIELGDLRPGEFRHLS 240 Query: 238 KKILREQ 244 + +R Sbjct: 241 EDEVRSL 247 >gi|213968651|ref|ZP_03396793.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. tomato T1] gi|301384619|ref|ZP_07233037.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. tomato Max13] gi|302059631|ref|ZP_07251172.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. tomato K40] gi|302130734|ref|ZP_07256724.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. tomato NCPPB 1108] gi|213926584|gb|EEB60137.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. tomato T1] gi|330879716|gb|EGH13865.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. morsprunorum str. M302280PT] Length = 408 Score = 269 bits (688), Expect = 4e-70, Method: Composition-based stats. Identities = 119/375 (31%), Positives = 176/375 (46%), Gaps = 36/375 (9%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG V D I Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-LGQRVDLHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLD Sbjct: 63 SVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPARFT 182 Query: 176 QVT-LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDA-------------PIYSSETLVRD-RPNIIS 276 RE+S+ L ++G + + Q+N P+ E +VR RP + Sbjct: 243 REMSQYEVDILSAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVVRTLRPAAGA 302 Query: 277 EVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ------ 330 D T Q G + + +R + G + +D+ + Sbjct: 303 PATGDRT---PRQPQITGSERDRPRGGDSTQRPARKDSGK-PGSRAPRPADNSRGTPVAE 358 Query: 331 REENHRRSPSFPSKR 345 R + + P+ P + Sbjct: 359 RPSDMNKRPAKPGPK 373 >gi|226309632|ref|YP_002769526.1| pseudouridine synthase [Brevibacillus brevis NBRC 100599] gi|226092580|dbj|BAH41022.1| pseudouridine synthase [Brevibacillus brevis NBRC 100599] Length = 239 Score = 269 bits (688), Expect = 4e-70, Method: Composition-based stats. Identities = 77/234 (32%), Positives = 127/234 (54%), Gaps = 6/234 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRK 69 +R+ KV+A I +R+EV+ ++ Q+ + V+G++ ++V I VDG PL Sbjct: 1 MKRERLDKVLANMAIGTRKEVKALVKQRLIVVDGVVATDPGMHVIAEEQEILVDGEPLNF 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 +R L +KP G+V+ D + TV D LP ++ +V VGRLDI+TEGLLLLTNDG Sbjct: 61 -KRWVYVLLNKPPGVVSATED-NVHETVVDLLPYEWAIKVHPVGRLDIDTEGLLLLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L+ L P + + Y R G+V + + KG+ ++ ++ + + G + Sbjct: 119 HLSHSLLSPKKKVDKEYFARIEGRVTERHVQEFAKGVELEDFTTLPAKLEIIS-SGETSE 177 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + V + EGK ++K++F F+ V L RI GP L +L G RE++++ L Sbjct: 178 IRVTIMEGKFHQVKRMFAAFDLHVVYLQRIRMGPLHLDPSLAPGEYRELTEEEL 231 >gi|87124763|ref|ZP_01080611.1| putative pseudouridylate synthase specific to ribosomal small subunit [Synechococcus sp. RS9917] gi|86167642|gb|EAQ68901.1| putative pseudouridylate synthase specific to ribosomal small subunit [Synechococcus sp. RS9917] Length = 246 Score = 269 bits (688), Expect = 5e-70, Method: Composition-based stats. Identities = 83/236 (35%), Positives = 123/236 (52%), Gaps = 1/236 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T +R+ K+IA AG+ SRR+ E ++ QQRV+VNG ++ D I VDG PLR Sbjct: 1 MTGERLQKLIAAAGLCSRRKAEELLRQQRVRVNGQIVALGDRADPEQDRICVDGRPLRAP 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGG 129 E TRL L +KP+G++++ DP GR TV D +P+ R + +GRLD ++ G LLLTN G Sbjct: 61 EATRLLLLNKPVGVISSCYDPRGRRTVLDLIPNHLRRGLHPIGRLDADSRGALLLTNRGQ 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + YRV G L + G+ + G V ++G + Sbjct: 121 LTLRLSHPRYAHSKTYRVWLEGDPSPQHLQSWRDGVWLDGQRTQPATVQRLRREGGRTLL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 V L+EG+NR+I++ + V L RI+ LG+L G R + + R + Sbjct: 181 EVTLQEGRNRQIRRTADQLGHPVLDLQRIAIAGIPLGSLAEGEWRALHRGEWRHLM 236 >gi|325684334|gb|EGD26503.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus delbrueckii subsp. lactis DSM 20072] Length = 241 Score = 269 bits (688), Expect = 5e-70, Method: Composition-based stats. Identities = 67/236 (28%), Positives = 112/236 (47%), Gaps = 8/236 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR +V +I +V VNG + A V + V+G + ++ Sbjct: 3 RLDKFLANMKVGSRSQVHEIIKAGQVTVNGKVCRSAKQKVKEDAEVLVNGQAVIY-QQYH 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G+++ D + TV D L + ++ VGRLD +T GLLLLTNDG LA Sbjct: 62 YFLLNKPAGVLSATEDSR-QKTVLDLLKDQDRYQKIAPVGRLDKDTTGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS--NAWV 189 L P + Y G D++ + G+ + G Q+ + Q + + Sbjct: 121 QLLAPEYHVPKTYYALLAGVADEETAKAIAAGLTLKDGTELKPGQLKILRQDKDQEQSEI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + + EGK ++K++F KV +L R+S GP L L GS R ++++ + Sbjct: 181 EITITEGKYHQVKRMFASQGMKVLKLKRLSMGPLTLPADLALGSYRPLTEEEMAAL 236 >gi|50954353|ref|YP_061641.1| RNA pseudouridine synthase [Leifsonia xyli subsp. xyli str. CTCB07] gi|50950835|gb|AAT88536.1| RNA pseudouridine synthase [Leifsonia xyli subsp. xyli str. CTCB07] Length = 260 Score = 269 bits (688), Expect = 5e-70, Method: Composition-based stats. Identities = 81/241 (33%), Positives = 123/241 (51%), Gaps = 2/241 (0%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 + +R+ KV+A AG+ASRR E +IA RV VNG ++ V DH+ VDG Sbjct: 1 MSAEPQGERLQKVMAAAGVASRRVSEELIAAGRVSVNGTVVTELGRRVDPVVDHVAVDGA 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 ++ R + +KP+G+V++ D GR + + R+ +VGRLD T GLL+LT Sbjct: 61 AVQLDTTLRYVMLNKPVGVVSSLRDEQGRPDLSRFVADYEERLFNVGRLDAETSGLLILT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKG 184 NDG LA VL P + Y R G V + L +G+ ++ + L + G Sbjct: 121 NDGELAHVLAHPRFGVTKTYIARVRGAVTPQTIGRLTRGVELEDGPIAADRAKLLQSDPG 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + V V L G+NR ++++ V L+R +GP LGTL AG+ R+++K L Sbjct: 181 GGSLVEVTLHSGRNRIVRRMLAEVGHPVVELVRRQFGPLHLGTLKAGALRDLTKAELGSL 240 Query: 245 L 245 L Sbjct: 241 L 241 >gi|104773906|ref|YP_618886.1| pseudouridylate synthase [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] gi|116513914|ref|YP_812820.1| 16S rRNA uridine-516 pseudouridylate synthase related enzyme [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] gi|103422987|emb|CAI97669.1| Pseudouridylate synthase [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] gi|116093229|gb|ABJ58382.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] gi|325125580|gb|ADY84910.1| Ribosomal large subunit pseudouridine synthase B [Lactobacillus delbrueckii subsp. bulgaricus 2038] Length = 239 Score = 269 bits (688), Expect = 5e-70, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 127/233 (54%), Gaps = 3/233 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ KVIA+AGIASRRE E+MI RV+V+G ++ + V S + + VD P+ + Sbjct: 1 MAEERLQKVIAQAGIASRREAEKMILAGRVRVDGQVVTKLGTKVSSIEQVVVDNQPIER- 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +L++KP G+++ D GR TV D + R+ VGRLD +T GLLL+TNDG L Sbjct: 60 ESHHTYLFYKPRGVISAVKDNKGRKTVADYFTDLPYRLYPVGRLDYDTSGLLLMTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAW 188 A +L P + +VY + G + D++ LKKG+ I QV + Sbjct: 120 ANLLMHPRNEVDKVYVAKIKGILQPDEIKALKKGVQIGRYKTKPAQVKVLKTNPRAQTQI 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + EG ++K++F+ N V++L R Y L L +G RE++ K + Sbjct: 180 VQLTIHEGHYHQVKEMFKAVNHLVDKLSRERYSFLDLQGLTSGQYRELNHKEV 232 >gi|149175162|ref|ZP_01853785.1| ribosomal large subunit pseudouridine synthase B [Planctomyces maris DSM 8797] gi|148846140|gb|EDL60480.1| ribosomal large subunit pseudouridine synthase B [Planctomyces maris DSM 8797] Length = 352 Score = 269 bits (688), Expect = 5e-70, Method: Composition-based stats. Identities = 99/350 (28%), Positives = 168/350 (48%), Gaps = 15/350 (4%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHI 60 ++ V + R+ K +A G+ SRR E I RV V+G ++ + T I Sbjct: 11 PEEPSVDDESHLIRLQKFLAATGLGSRRHCEEYIETGRVSVDGDVITELGAKIDPETQFI 70 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 EVDG +R R R +L +KP G + T++DP GR V D P+ R+ +VGRLD N+EG Sbjct: 71 EVDGERVRLQPR-RYYLLNKPSGFLCTNNDPAGRRRVVDLFPNDGQRLFTVGRLDENSEG 129 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+L+TNDG LA+ L P + R Y V+ G ++KL+ L+KG+ + + + Sbjct: 130 LILVTNDGELAQRLAHPRYRVARTYHVQVVGNPPREKLDELRKGVRFKEGVFRVSGLKYL 189 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++G +A++ + L EG+NREI+++ KV +L+RI +GP LG L G +R +S Sbjct: 190 KKQGKSAFLELTLHEGQNREIRRMMARIGHKVIQLVRIRFGPLNLGKLKTGESRRLSDTE 249 Query: 241 ---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 LR+ L + + + R ++ + K+ S++ K Sbjct: 250 LKKLRQLLNEKHSPDIRHRKGKKNAAPAKTRAPRKSVGKRSGERGAAAGKSVSERISGGK 309 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQR---EENHRRSPSFPSK 344 + +R++++ SS +G+R + +R+ K Sbjct: 310 KTGG-----KRSVST--GRKPAADSSKPKTTGRRIIGDVAEKRTRQGKRK 352 >gi|66046810|ref|YP_236651.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae B728a] gi|63257517|gb|AAY38613.1| Pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae B728a] gi|330897271|gb|EGH28690.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. japonica str. M301072PT] gi|330972281|gb|EGH72347.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. aceris str. M302273PT] Length = 409 Score = 269 bits (688), Expect = 5e-70, Method: Composition-based stats. Identities = 116/374 (31%), Positives = 172/374 (45%), Gaps = 33/374 (8%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG V D I Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-LGQRVDLHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLD Sbjct: 63 SVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPARFT 182 Query: 176 QV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDA-------------PIYSSETLVRDRPNIISE 277 RE+S+ L ++G + + Q+N P+ E + RP + Sbjct: 243 REMSQYEVDILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVRTLRP--AAG 300 Query: 278 VPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ------R 331 P Q G + + +R G + +D+ + R Sbjct: 301 APATGGERAPRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTPVAER 360 Query: 332 EENHRRSPSFPSKR 345 + + P+ P + Sbjct: 361 PSDMNKRPAKPGPK 374 >gi|300812160|ref|ZP_07092604.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] gi|300496845|gb|EFK31923.1| pseudouridine synthase B, ribosomal large subunit [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] Length = 239 Score = 269 bits (688), Expect = 5e-70, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 128/233 (54%), Gaps = 3/233 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ KVIA+AGIASRRE E+MI RV+V+G ++ + V S + + VD P+ + Sbjct: 1 MAEERLQKVIAQAGIASRREAEKMILAGRVRVDGQVVTKLGTKVSSIEQVVVDNQPIER- 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +L++KP G+++ D GR TV D + R+ VGRLD +T GLLL+TNDG L Sbjct: 60 ESHHTYLFYKPRGVISAVKDNKGRKTVADYFTDLPYRLYPVGRLDYDTSGLLLMTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAW 188 A +L P + +VY + G + D++ LKKG+ I QV + Sbjct: 120 ANLLMHPRNEVDKVYVAKIKGILQPDEIKALKKGVQIGRYKTKPAQVKVLKTNPRAQTQI 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + EG ++K++F+ N V++L R Y L L +G RE+++K + Sbjct: 180 VQLTIHEGHYHQVKEMFKAVNHLVDKLSRERYSFLDLQGLTSGQYRELNRKEV 232 >gi|317475710|ref|ZP_07934970.1| S4 domain-containing protein [Bacteroides eggerthii 1_2_48FAA] gi|316908166|gb|EFV29860.1| S4 domain-containing protein [Bacteroides eggerthii 1_2_48FAA] Length = 331 Score = 269 bits (688), Expect = 5e-70, Method: Composition-based stats. Identities = 70/242 (28%), Positives = 112/242 (46%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + D + Sbjct: 83 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEV 142 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + + ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 143 KFHDQAVS-IERKIYVLLNKPKDTVTTSDDPQARRTVMDLVKGACSERIYPVGRLDRNTT 201 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V + + + + GI + ++ Sbjct: 202 GVLLLTNDGDLASKLTHPKYLKKKIYHVHLDKNLTKADMEQIAAGIQLDDGEIQADAISY 261 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 T V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 262 -TDDFKKDEVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQ 320 Query: 240 IL 241 + Sbjct: 321 EV 322 >gi|222099396|ref|YP_002533964.1| Pseudouridine synthase [Thermotoga neapolitana DSM 4359] gi|221571786|gb|ACM22598.1| Pseudouridine synthase [Thermotoga neapolitana DSM 4359] Length = 240 Score = 269 bits (688), Expect = 5e-70, Method: Composition-based stats. Identities = 69/231 (29%), Positives = 119/231 (51%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ GI +R+EV +I RV VN + A + D ++VDG + E+ Sbjct: 1 MRLDRYLSNRGIGTRKEVRALIKHGRVTVNDRTVLDPAYKLSDKDVVKVDGKVIDLPEK- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L++KP G VT+ DP T+ + LP + VGRLD + EGLLL+TNDG A Sbjct: 60 VYILFYKPAGYVTSTRDP-HSETIMEFLPD-IKGIFPVGRLDKDAEGLLLVTNDGEFAHR 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y V+ G++ +DKL L++G+ ++ + + +K SN V + + Sbjct: 118 VISPRWKVEKEYVVKVEGEITEDKLEKLRRGVSLRDGFFAKAK---HVEKISNDTVKIVI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 EGK ++K++ K L R+ G +L + G R +S++ +R+ Sbjct: 175 TEGKYHQVKRMMAAVGLKTIHLKRVRIGGLRLPQEMKPGEYRFLSEEEVRQ 225 >gi|292493543|ref|YP_003528982.1| RNA-binding S4 domain protein [Nitrosococcus halophilus Nc4] gi|291582138|gb|ADE16595.1| RNA-binding S4 domain protein [Nitrosococcus halophilus Nc4] Length = 266 Score = 269 bits (688), Expect = 5e-70, Method: Composition-based stats. Identities = 98/246 (39%), Positives = 140/246 (56%), Gaps = 7/246 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ K++AR G+ SRRE+E I RV+VNG+ + V D + +DG P+ Sbjct: 3 ERLQKILARGGLGSRREIEAWIKAGRVRVNGVPAQ-LGDKVSVKDRVTIDGRPISPKRLQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 +++ +YHKP G V + DP+GR VF +LP R ISVGRLDINT GLLLLT DG Sbjct: 62 PPSSQVIIYHKPAGEVCSRKDPEGRPNVFQSLPRPQQGRWISVGRLDINTSGLLLLTTDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PSTQ R Y VR G V +D + L+ G+ ++ Q+ +G+N W Sbjct: 122 ELANRLMHPSTQVEREYAVRVLGTVAEDVIERLQGGVTLEDGLARFEQILDAGGEGANHW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 V LREG+NRE+++++E +V+RLIRI +GP +L L G R + + L+ L Sbjct: 182 YHVILREGRNREVRRLWESQGVRVSRLIRIRFGPIRLPPGLRLGRWRFLERPELKALLEA 241 Query: 248 HLLEEA 253 +E Sbjct: 242 AGMEPR 247 >gi|262091731|gb|ACY25320.1| ribosomal large subunit pseudouridine synthase B [uncultured actinobacterium] Length = 240 Score = 269 bits (688), Expect = 5e-70, Method: Composition-based stats. Identities = 72/236 (30%), Positives = 118/236 (50%), Gaps = 10/236 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRK 69 +R+ KV+A+ G SRR E +IA RV VNG + V D +E+DG P+ Sbjct: 3 DEGERLQKVLAQRGWGSRRACEEIIADGRVTVNGEVA-VLGRRVNVDVDRVEIDGAPVGV 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +L +KP+ +++T D R TV D +P+ RV VGRLD ++EGLLL+TNDG Sbjct: 62 RPDLVYYLLNKPVDVISTAIDTHDRETVVDFVPAD-PRVYPVGRLDGDSEGLLLITNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHG---QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 L + P + Y V+ V ++ L+ GI ++ +V+ + Sbjct: 121 LTNRITHPKYGLEKEYLVQVDVSSADVSDVAIHRLRNGIELEDGVTAPAEVSRLQEG--- 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + + EGKNR+I+++ + + V RL+R GP L G R +++ ++ Sbjct: 178 -VLRMVIHEGKNRQIRRMCDAVGYPVIRLVRTRIGPIMDKKLAPGQWRNLTQAEVK 232 >gi|284045196|ref|YP_003395536.1| pseudouridine synthase [Conexibacter woesei DSM 14684] gi|283949417|gb|ADB52161.1| pseudouridine synthase [Conexibacter woesei DSM 14684] Length = 233 Score = 269 bits (688), Expect = 6e-70, Method: Composition-based stats. Identities = 76/232 (32%), Positives = 129/232 (55%), Gaps = 6/232 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +A AG+ASRR E++IA+ R+ V G ++ A +V ++ + DG P+R E Sbjct: 1 MRLAKFLAHAGVASRRASEQLIAEGRIAVGGEIVLDPARDVDASSGVTYDGEPVRGEEPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ HKP G+V+T +D GR TV + +P R+ VGRLD ++ GL+LLTNDG LA Sbjct: 61 VVYALHKPAGVVSTAADTHGRRTVTELVPQG-RRLYPVGRLDADSTGLILLTNDGELANR 119 Query: 134 LELPSTQWLRVYRVRFHGQ-VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + YR G + L L++G+ ++ +V ++ S + + Sbjct: 120 LTHPRFEVPKTYRATVGGPQIGDRTLRQLREGVRLEDGMTAPARV----RRLSAHVLELT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+ R+++++ E V L+R +GP LG L G +R ++ + +RE Sbjct: 176 IHEGRKRQVRRMCEEVGHPVKSLVRTQFGPLSLGDLGTGRSRRLTAREVREL 227 >gi|238751905|ref|ZP_04613391.1| Ribosomal large subunit pseudouridine synthase B [Yersinia rohdei ATCC 43380] gi|238709885|gb|EEQ02117.1| Ribosomal large subunit pseudouridine synthase B [Yersinia rohdei ATCC 43380] Length = 346 Score = 269 bits (688), Expect = 6e-70, Method: Composition-based stats. Identities = 110/318 (34%), Positives = 158/318 (49%), Gaps = 25/318 (7%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPL 67 + +++ K++ARAG SRRE+E +I Q RV V+G + + V V I +DG L Sbjct: 27 DKIVGEKLQKILARAGHGSRREIETIIQQGRVSVDGKISKLGDRVEVTQATKIRLDGHLL 86 Query: 68 RKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLL 122 E R+ Y+KP G + T +DP+GR TVFD LP SR ++VGRLD+NT GLL Sbjct: 87 SIKESEETVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLL 146 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L T DG LA L PS + R Y VR GQ+D +K+ L +G+ ++ + Sbjct: 147 LFTTDGELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTIKFQGG 206 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK-- 239 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ K Sbjct: 207 EGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLKAT 266 Query: 240 -ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS-- 296 LRE V LD+ S + +DR + + R K S+ G Sbjct: 267 NYLREL----------VELDSETVSKMPVEKDRRRVKAN---QIRRAVKRHSEVAGRQVA 313 Query: 297 KQKKLATPVHRRNLASNV 314 ++ A R SN Sbjct: 314 GRQGSARKSSTRQNVSNA 331 >gi|291166791|gb|EFE28837.1| ribosomal large subunit pseudouridine synthase B [Filifactor alocis ATCC 35896] Length = 242 Score = 268 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 75/230 (32%), Positives = 119/230 (51%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+++ IA GI+SRR+ +++I + RV VNG + + V D ++VDG + Sbjct: 1 MRINQYIAHCGISSRRKADQLIEEGRVFVNGKKVTSPGMQVEEGNDMVKVDGKIISSEVN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP+ ++ SD GR+TV + R+ VGRLD + GLLLLTNDG LA Sbjct: 61 KVYYMLNKPLRYISAVSDDRGRNTVLELF-RTKERIYPVGRLDYLSTGLLLLTNDGELAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V+ G ++ +KG+ + G ++ ++ V Sbjct: 120 RLIHPRYHLEKTYFVQVKGDAPENLKERFQKGMFLDGYKTKPAELEFLGKRDGIIKYKVT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 LREG+NR+I+K+FE KV L RIS G +G L G R ++ K ++ Sbjct: 180 LREGRNRQIRKMFEAARLKVVSLKRISMGDLYIGNLKEGEYRALTSKEVQ 229 >gi|227112086|ref|ZP_03825742.1| 16S rRNA pseudouridylate synthase A [Pectobacterium carotovorum subsp. brasiliensis PBR1692] Length = 231 Score = 268 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 62/229 (27%), Positives = 111/229 (48%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + QRV V+G +++ A + ++E DG PL++ Sbjct: 1 MRLDKFLSQQLEISRSLVARELHAQRVTVDGEVVKSGAFKLSPEHNVEFDGNPLKQQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTILYFMDVPVAYKLHAAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P Q + Y V + +D G+ + TL+ K ++ V + + Sbjct: 121 ITSPKHQCEKTYLVTLEQPLAEDTAAQFTAGVQLHNEKNLTKPATLE--KITDYVVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L L G RE+S + + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGGIYLDSELEPGEYRELSAEEI 227 >gi|269836469|ref|YP_003318697.1| pseudouridine synthase [Sphaerobacter thermophilus DSM 20745] gi|269785732|gb|ACZ37875.1| pseudouridine synthase [Sphaerobacter thermophilus DSM 20745] Length = 337 Score = 268 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 81/282 (28%), Positives = 131/282 (46%), Gaps = 3/282 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ +V+A G+ASRR+ E +I RV V+G ++ V V I VDG LR ER Sbjct: 2 ERLQRVLAAHGVASRRKAEELITAGRVTVDGQVVRELGVRVDPERQEIRVDGKRLR-PER 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + +KP G +TT SD GR TV D + + RV+ GRLD T GLLLLTNDG L Sbjct: 61 RRYIMLNKPPGYITTVSDERGRRTVMDLV-QVPERVVPAGRLDRPTAGLLLLTNDGDLLF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y V G + L+ L++G+ + G QV + + + + Sbjct: 120 RITHPRYELEKEYEVLVDGHPPPEVLDQLRRGVTVDGERVVPDQVRPLRIEEAGTVLRIV 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+NR ++++ + + V +L R GP + + G+ R+++ + + L L+ Sbjct: 180 IHEGRNRIVRRMMDRVGYPVLKLTRTRIGPIHVRGVPLGAWRDLTPGEVMQLLEAVGLDP 239 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 A P + +R + S Sbjct: 240 ASAGRPLPEPGRRSDPGERRGEPRRSGPTRRGERPAPSGARP 281 >gi|317153278|ref|YP_004121326.1| pseudouridine synthase [Desulfovibrio aespoeensis Aspo-2] gi|316943529|gb|ADU62580.1| pseudouridine synthase [Desulfovibrio aespoeensis Aspo-2] Length = 251 Score = 268 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 79/244 (32%), Positives = 120/244 (49%), Gaps = 6/244 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGV 65 + ++ + R++K IA+ G+ SRR + ++ RV VNG + + V DH+ VDG Sbjct: 1 MSDDSSLMRLNKFIAQCGVTSRRGADDLVFGGRVAVNGEKADSPGIKVDPARDHVTVDGR 60 Query: 66 PLRKAERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGL 121 P+ + HKP+ +VTT DP GR+TV D LP R VGRLD +EGL Sbjct: 61 PVVLPGSGGDITIMLHKPVEIVTTARDPQGRTTVLDLLPPEIVELRPFPVGRLDYYSEGL 120 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLD 180 LLLT DG L L P +VY V G V + + ++ G+ ++ G L Sbjct: 121 LLLTTDGELCHRLTHPKWHLPKVYEVTIRGSVPEKAIRTMQSGMTLKAGDRLAPADAILH 180 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + + L +G NR+I+++ E + RL R+ GP +LG L G RE++ Sbjct: 181 PPVAGSQVLEITLIQGLNRQIRRMCEELGLTILRLHRVKQGPMELGNLKRGQWRELTAAE 240 Query: 241 LREQ 244 L Sbjct: 241 LTAL 244 >gi|294012129|ref|YP_003545589.1| ribosomal large subunit pseudouridine synthase B [Sphingobium japonicum UT26S] gi|292675459|dbj|BAI96977.1| ribosomal large subunit pseudouridine synthase B [Sphingobium japonicum UT26S] Length = 304 Score = 268 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 112/230 (48%), Positives = 150/230 (65%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 PQR++K++ARAG+ASRREVERMI + R+ +NG + A + S + VDG P+ Sbjct: 64 EPQRIAKLLARAGVASRREVERMIEEGRITLNGEAVSTPATLLSSLHGVAVDGNPVAAPA 123 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL+L+HKP G +TT DP GR T++D LP RV+ +GRLD+ TEGLLLLT DG Sbjct: 124 PARLFLFHKPSGFLTTERDPRGRPTIYDKLPPDLPRVMPIGRLDMMTEGLLLLTTDGEFK 183 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 R +ELPST R YR R G+V Q++L L G+ I GI YG ++ L+ + G N W+ + Sbjct: 184 RQMELPSTGVPRTYRARAFGEVSQNQLEDLFDGLEIDGIRYGRIEANLERRTGRNQWIEM 243 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EGKNRE+++V E +VNRLIR SYGPF LG L +G+ EV + L Sbjct: 244 TLTEGKNREVRRVLEHLGLQVNRLIRTSYGPFHLGELASGAVEEVRQHDL 293 >gi|260587929|ref|ZP_05853842.1| ribosomal large subunit pseudouridine synthase B [Blautia hansenii DSM 20583] gi|331084524|ref|ZP_08333625.1| hypothetical protein HMPREF0992_02549 [Lachnospiraceae bacterium 6_1_63FAA] gi|260541456|gb|EEX22025.1| ribosomal large subunit pseudouridine synthase B [Blautia hansenii DSM 20583] gi|330401232|gb|EGG80823.1| hypothetical protein HMPREF0992_02549 [Lachnospiraceae bacterium 6_1_63FAA] Length = 271 Score = 268 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 78/281 (27%), Positives = 147/281 (52%), Gaps = 10/281 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ AG+ SRRE +R+I ++RV V+G + + V I+VDG +++ E+ Sbjct: 1 MRLNKYLSDAGVCSRREADRLIEEKRVLVDGKPAVQ-GMQVEDFQEIKVDGKAIKREEKK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L ++HKP G+ T + P+ + V + + RV GRLD ++EGLLLLTN G L Sbjct: 60 VLLVFHKPKGIECTAN-PNVKKNVISYI-NYPIRVYYAGRLDKDSEGLLLLTNQGELVNQ 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V V ++ L +++G+ + G +V +++K + L Sbjct: 118 IMKAGSYHEKEYLVTVDKPVTEEFLQSMREGVPVLGTITRKCKVEKESEK----VFRITL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +G NR+I+++ + ++V +L RI +LG L GS RE +K+ L ++L + E+A Sbjct: 174 TQGLNRQIRRMCNYLGYEVVKLKRIRIMNIELGNLPIGSYREATKEEL-DELKRQISEKA 232 Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 + + + + V++ + P + K+ + +NG Sbjct: 233 EKRQETDFHKGKKPVKNAGKYRN--PSKVRKQKRQEASRNG 271 >gi|145594471|ref|YP_001158768.1| pseudouridine synthase [Salinispora tropica CNB-440] gi|145303808|gb|ABP54390.1| ribosomal large subunit pseudouridine synthase B [Salinispora tropica CNB-440] Length = 262 Score = 268 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 85/235 (36%), Positives = 125/235 (53%), Gaps = 3/235 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+ KV+A AG+ SRR E +I ++RV VNG + + ++D I V+G L+ R Sbjct: 24 PERLQKVLAAAGVGSRRACEDLIFRRRVTVNGRVAQLGDRADPTSDTIYVNGERLQADTR 83 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP G+V+T +D GR+ + D L + RV VGRLD ++EGLLLLTNDG LA Sbjct: 84 LVYLAMNKPRGVVSTMADEKGRTAIGDFLGNRVEQRVYHVGRLDADSEGLLLLTNDGTLA 143 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L PS + Y G + + L G+ + G D +DT G A V Sbjct: 144 HRLMHPSYGVPKTYLCEVSGPIPRSLGRRLAAGVELTDGPATVDAFRVVDTL-GKTAQVE 202 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 V L EG+ ++++F+ V+RL+R S GP +LG L AG TR ++ + Sbjct: 203 VTLHEGRKHIVRRLFDAVGHPVSRLVRTSIGPIRLGDLRAGRTRRLTNAEVAALF 257 >gi|330980378|gb|EGH78489.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. aptata str. DSM 50252] Length = 408 Score = 268 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 116/365 (31%), Positives = 170/365 (46%), Gaps = 42/365 (11%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG V D I Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-LGQRVDLHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLD Sbjct: 63 SVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPARFT 182 Query: 176 QV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 RE+S+ L ++G + + P + ++ D R+++ SS Sbjct: 243 REMSQYEVDILAAEVGLQPVAQ-------------------PQMNAKTKDKMERLQRQSS 283 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPS--KRSLR 348 + G ++ + P A Q + R P +R R Sbjct: 284 RPLGKGERVRTLRPAAG---------APATGGERAPRQPQITGSERDRPRGGDSTQRPSR 334 Query: 349 RTSAK 353 + S K Sbjct: 335 KDSGK 339 >gi|77457719|ref|YP_347224.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas fluorescens Pf0-1] gi|77381722|gb|ABA73235.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas fluorescens Pf0-1] Length = 405 Score = 268 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 105/353 (29%), Positives = 161/353 (45%), Gaps = 28/353 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + K+ + +++ KV+AR G+ SRR+VE IA R+KVNG + V D I Sbjct: 4 INQKDDQEIGPAGEKLQKVLARIGVGSRRDVESWIAAGRIKVNGKDAT-LGLRVDMHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 +DG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLD Sbjct: 63 TIDGKVIKREEAAESVRRVIMYNKPDGEICTRDDPEGRPTVFDKLPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD + + LK G+V++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVVLEDGPARFT 182 Query: 176 QV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ +GP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLNSDLPMGRW 242 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 RE+S+ + D P + ++ D RM++ SS+ Sbjct: 243 REMSQYEV----------------DVLSAEVGLTPVAMPQLNAKSKDKLDRMQRKSSRPM 286 Query: 294 GLSKQKKLATP---VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPS 343 +++ + P V I + R P P Sbjct: 287 ARTERVRTLRPANGAPIGAGPRPV-REPQIEGERPGRKPAARPDGERGPRSPR 338 >gi|330866214|gb|EGH00923.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. aesculi str. 0893_23] Length = 408 Score = 268 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 114/371 (30%), Positives = 167/371 (45%), Gaps = 28/371 (7%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG V D I Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-LGQRVDLHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLD Sbjct: 63 SVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPARFT 182 Query: 176 QV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDA----------PIYSSETLVRDRPNIISEVPD 280 RE+S+ L ++G + + Q+N P R R + Sbjct: 243 REMSQYEVDILAAEVGLQPVAQPQMNAKTKDKMERLQRQPSRPLGKGERVRTLRPAAGAP 302 Query: 281 DFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ------REEN 334 Q G + + +R G + +D+ + R Sbjct: 303 ATGDRAPRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTPVAERPSE 362 Query: 335 HRRSPSFPSKR 345 + P+ P + Sbjct: 363 MNKRPAKPGPK 373 >gi|227357716|ref|ZP_03842065.1| ribosomal small subunit pseudouridine synthase A [Proteus mirabilis ATCC 29906] gi|227162045|gb|EEI47059.1| ribosomal small subunit pseudouridine synthase A [Proteus mirabilis ATCC 29906] Length = 244 Score = 268 bits (687), Expect = 7e-70, Method: Composition-based stats. Identities = 55/229 (24%), Positives = 102/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + V ++G +++ A + + DG L + Sbjct: 11 MRLDKFLSQQLGISRNLVARELRAGLVTIDGEMVKTGATKITPEQEVAYDGNVLTQILGP 70 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KPIG V + DP + ++ + ++ + GRLDI+T GL+LLT++G + Sbjct: 71 RYFMLNKPIGYVCSTDDPVNPTILYFIDEPLAHKLHAAGRLDIDTTGLVLLTDNGQWSHR 130 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D K G+ + G TL+ + V + + Sbjct: 131 ITAPKHHCEKTYVVTLEQPIATDVAEKFKTGVQLNGEKELTKPATLEV--ITPTEVKLTI 188 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EGK ++K++F V L R G L L G R ++++ + Sbjct: 189 SEGKYHQVKRMFAAVGNHVVALHRERIGDITLDDALAPGEYRPLTEEEI 237 >gi|332704996|ref|ZP_08425081.1| ribosomal large subunit pseudouridine synthase B [Lyngbya majuscula 3L] gi|332356173|gb|EGJ35628.1| ribosomal large subunit pseudouridine synthase B [Lyngbya majuscula 3L] Length = 251 Score = 268 bits (687), Expect = 7e-70, Method: Composition-based stats. Identities = 82/238 (34%), Positives = 126/238 (52%), Gaps = 10/238 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV K++++ GIASRR E+MIA +V++NG + TD IEVDG P+ +R Sbjct: 3 ERVQKILSQWGIASRRRAEKMIAAGQVRLNGTTVHLGQKADPETDVIEVDGKPINPYQRP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 + L +KP G+V+T D R TV D LP ++ + VGRLD ++ G LLLTNDG Sbjct: 63 QSIYLLLNKPAGVVSTCRDSRNRPTVIDLLPDKLTKGQGIHPVGRLDADSTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L PS + Y+V G + L ++G+ + G QV + +KG + Sbjct: 123 ELTFRLTHPSHHIPKTYQVWVRGNPPESVLQTWREGVNLLGKKTLPAQVRVLKRKGQSTL 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-----TLLAGSTREVSKKIL 241 + V L EG+NR+I++V + ++ V L R + GP +L L G R ++ + Sbjct: 183 LEVVLTEGRNRQIRRVAQLLSYPVIHLHRTAIGPIKLNLPGEPILPCGDYRALNDVEV 240 >gi|309810348|ref|ZP_07704183.1| pseudouridylate synthase [Dermacoccus sp. Ellin185] gi|308435661|gb|EFP59458.1| pseudouridylate synthase [Dermacoccus sp. Ellin185] Length = 303 Score = 268 bits (687), Expect = 7e-70, Method: Composition-based stats. Identities = 77/228 (33%), Positives = 122/228 (53%), Gaps = 1/228 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ SRR E +IA+ RV+V+G ++ + + I VDG ++ + Sbjct: 67 RLQKVLAQAGVGSRRHCENLIAEGRVEVDGQVVTELGTRIDPESAVIHVDGDRIQLDDTL 126 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++KP G+V+T D +GR V + L R+ VGRLD +TEGLLLLTNDG LA Sbjct: 127 VYLAFNKPTGVVSTMQDEEGRPCVGEYLEGRTERLFHVGRLDYDTEGLLLLTNDGNLANR 186 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L+ P +VY G V +D +++GI ++ + + A V + L Sbjct: 187 LQHPRYGVEKVYLATIPGPVPRDLGKRMREGIELEDGPAAVDSFKVVDSQPGMALVEIVL 246 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+NR ++++FE V L R GP ++G L G R ++K+ + Sbjct: 247 HEGRNRIVRRMFEEVGHPVIALARPQVGPVKVGDLRPGKMRPLNKREV 294 >gi|308272550|emb|CBX29154.1| Ribosomal large subunit pseudouridine synthase F [uncultured Desulfobacterium sp.] Length = 235 Score = 268 bits (687), Expect = 7e-70, Method: Composition-based stats. Identities = 72/233 (30%), Positives = 117/233 (50%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K ++ AG SRR+ E+ I VKVNG+++ V D +EVDG + + Sbjct: 5 MRLQKYLSAAGFCSRRKGEKFILSGLVKVNGVVISELGTKVDPAKDVVEVDGNKIEAKDD 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G +TT S R + +L +I R+ VGRLD ++ GLLLLTNDG L Sbjct: 65 LIYIALNKPKGYITTCSRQRDRIVL--DLVNIPQRIYPVGRLDKDSTGLLLLTNDGRLHN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 VL PS + Y V + + L+ +K+G + G +++ + + + Sbjct: 123 VLSHPSFDHEKEYEVSLKWPIADEALDKMKEGFFLMGSKTRPAEISRISPEK----FHIT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L+EG+NR+I+++ + +V L RI +LG L G+ R ++ K + L Sbjct: 179 LKEGRNRQIRRMVDKVGNRVLELKRIRISDVKLGNLKEGAWRYLTDKEKKALL 231 >gi|269127043|ref|YP_003300413.1| pseudouridine synthase [Thermomonospora curvata DSM 43183] gi|268312001|gb|ACY98375.1| pseudouridine synthase [Thermomonospora curvata DSM 43183] Length = 250 Score = 268 bits (687), Expect = 7e-70, Method: Composition-based stats. Identities = 84/245 (34%), Positives = 128/245 (52%), Gaps = 2/245 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 M E+ R+ KV+A AG+ SRR+ ER+I + RVKV+G ++ V Sbjct: 1 MNTDTGTAEHKEGVRLQKVLAEAGLGSRRQCERLIVEGRVKVDGEVVSWLGARVDPAKAV 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I VDG+ + R + +KP G+V+T +D GR ++ D + + R+ VGRLD +TE Sbjct: 61 IHVDGLRVETRPEMRYYALNKPRGVVSTMADERGRKSLADYV-DVPERLFHVGRLDTDTE 119 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GL+LLTNDG LA L PS +VY G + +D L+ GI ++ + L Sbjct: 120 GLILLTNDGDLAHRLTHPSFGVEKVYLAEIVGPIRRDLGRRLRAGIELEDGLAKADRFRL 179 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 Q G A V + L EG+ ++++ + V +L RI +GP +LG L GS R ++ K Sbjct: 180 VEQVGKRALVEITLHEGRKHIVRRMLKEAGHPVQKLARIRFGPIKLGRLKPGSLRALTIK 239 Query: 240 ILREQ 244 + E Sbjct: 240 EVGEL 244 >gi|256752686|ref|ZP_05493537.1| pseudouridine synthase [Thermoanaerobacter ethanolicus CCSD1] gi|256748448|gb|EEU61501.1| pseudouridine synthase [Thermoanaerobacter ethanolicus CCSD1] Length = 240 Score = 268 bits (687), Expect = 7e-70, Method: Composition-based stats. Identities = 79/236 (33%), Positives = 122/236 (51%), Gaps = 8/236 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRK 69 R+ K+++ GI +R+EV++ I + V VNG ++ A + + TD I DG + Sbjct: 1 MAKMRIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIINTETDEILFDGKKIYY 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTND 127 E + +KP G+++ DP TV D LP VGRLD +TEGLLL+TND Sbjct: 61 KE-FIYIMMNKPKGVISATYDP-IEKTVIDLLPQELKARNPFPVGRLDKDTEGLLLITND 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN- 186 G LA L P ++ Y + G V++ + +GIV++ Y + L+ S+ Sbjct: 119 GDLAHKLLSPKKNVIKKYYAKILGFVNESDIKAFNEGIVLEDG-YKTLPANLEILSSSDV 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + V V +REGK +IK++FE KV L R++ G L L G RE+S++ L Sbjct: 178 SKVYVYIREGKYHQIKRMFESVGKKVIYLKRLAMGNLTLDENLKPGEWRELSEEEL 233 >gi|167038569|ref|YP_001666147.1| pseudouridine synthase [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|307266602|ref|ZP_07548133.1| pseudouridine synthase [Thermoanaerobacter wiegelii Rt8.B1] gi|320116965|ref|YP_004187124.1| pseudouridine synthase [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|166857403|gb|ABY95811.1| pseudouridine synthase [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|306918399|gb|EFN48642.1| pseudouridine synthase [Thermoanaerobacter wiegelii Rt8.B1] gi|319930056|gb|ADV80741.1| pseudouridine synthase [Thermoanaerobacter brockii subsp. finnii Ako-1] Length = 241 Score = 268 bits (687), Expect = 7e-70, Method: Composition-based stats. Identities = 75/236 (31%), Positives = 117/236 (49%), Gaps = 7/236 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRK 69 R+ K+++ GI +R+EV++ I + V VNG ++ A + V +D I DG + Sbjct: 1 MAKMRIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIVDTESDEILFDGEKINY 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTND 127 E + +KP G+++ D + TV D LP VGRLD +TEGLLL+TND Sbjct: 61 KE-FIYIMINKPKGVISATYD-EVEKTVIDLLPQELKARNPFPVGRLDKDTEGLLLITND 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G LA L P ++ Y G V++ + +GI++ G + + Sbjct: 119 GDLAHQLLSPKKNVIKKYYAEILGFVNESDIKAFNEGIILEDGYKTLPANLEILFSSSDV 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + V V +REGK +IK++FE KV L R++ G L L G RE+S++ L Sbjct: 179 SKVYVYIREGKYHQIKRMFESVGKKVIYLKRLAMGSLTLDENLKPGEWRELSEEEL 234 >gi|294635983|ref|ZP_06714424.1| ribosomal large subunit pseudouridine synthase B [Edwardsiella tarda ATCC 23685] gi|291090692|gb|EFE23253.1| ribosomal large subunit pseudouridine synthase B [Edwardsiella tarda ATCC 23685] Length = 291 Score = 268 bits (686), Expect = 8e-70, Method: Composition-based stats. Identities = 114/307 (37%), Positives = 157/307 (51%), Gaps = 27/307 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I + RV V+G L V V + I VDG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEALIKEGRVSVDGKLATLGDRVEVTANMKIRVDGRVVSIRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T DP+GR TVFD LP SR I+VGRLDINT GLLL T Sbjct: 62 SEQEICRVLAYYKPEGELCTRRDPEGRPTVFDRLPRLRGSRWIAVGRLDINTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD+DKL L +G+ ++ ++ +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDEDKLRQLSRGVQLEDGPASFKSISFQGGEGLN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G +E+ + LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDLTLPKGLPRGGWQELPLENINYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L A S + R+R + + R K SQ S++ Sbjct: 242 EL----------VELKAESTSKLPVERERRRMKAN---QIRRAVKRHSQHGSSSRR---- 284 Query: 303 TPVHRRN 309 P +R Sbjct: 285 APAAKRG 291 >gi|168205142|ref|ZP_02631147.1| RNA pseudouridine synthase family protein [Clostridium perfringens E str. JGS1987] gi|169347063|ref|ZP_02866005.1| RNA pseudouridine synthase family protein [Clostridium perfringens C str. JGS1495] gi|169296746|gb|EDS78875.1| RNA pseudouridine synthase family protein [Clostridium perfringens C str. JGS1495] gi|170663342|gb|EDT16025.1| RNA pseudouridine synthase family protein [Clostridium perfringens E str. JGS1987] Length = 301 Score = 268 bits (686), Expect = 8e-70, Method: Composition-based stats. Identities = 68/261 (26%), Positives = 129/261 (49%), Gaps = 12/261 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + +KN +++ R++K I+ G SRRE +++I Q RVK++G+ + V + + Sbjct: 53 VSNKNEIRDEV---RLNKYISETGFCSRREADKLIEQGRVKIDGVKATT-GMKVSNGQSV 108 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +DG PL+ +KP+G+ T ++ + + D + + R+ +GRLD +++G Sbjct: 109 SIDGKPLKVENELVYIALNKPVGITCT-TESKIKGNIVDFI-NHEKRIFPIGRLDKDSQG 166 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+ +TNDG + + + Y V + + + + + G+ I G V + Sbjct: 167 LIFMTNDGDIVNKILRAGNNHEKEYIVTVNKPITDEFIKGMSNGVPILGTVTKKCLVKKE 226 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + L +G NR+I+++ E+F ++V +L RI LG L GS R ++KK Sbjct: 227 SKNS----FRIILTQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKMGSWRYLTKKE 282 Query: 241 LREQLGPHLLEEAQVNLDAPI 261 L E L E + +A I Sbjct: 283 LAEI--NRLTENSSKTEEASI 301 >gi|71735145|ref|YP_275686.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. phaseolicola 1448A] gi|289650389|ref|ZP_06481732.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. aesculi str. 2250] gi|71555698|gb|AAZ34909.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. phaseolicola 1448A] gi|331012316|gb|EGH92372.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. tabaci ATCC 11528] Length = 408 Score = 268 bits (686), Expect = 8e-70, Method: Composition-based stats. Identities = 116/374 (31%), Positives = 171/374 (45%), Gaps = 34/374 (9%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG V D I Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-LGQRVDLHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLD Sbjct: 63 SVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPARFT 182 Query: 176 QV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDA-------------PIYSSETLVRDRPNIISE 277 RE+S+ L ++G + + Q+N P+ E + RP + Sbjct: 243 REMSQYEVDILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVRTLRPAAGAP 302 Query: 278 VPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ------R 331 D Q G + + +R G + +D+ + R Sbjct: 303 ATGDRA---PRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTPVAER 359 Query: 332 EENHRRSPSFPSKR 345 + P+ P + Sbjct: 360 PSEMNKRPAKPGPK 373 >gi|238919603|ref|YP_002933118.1| 23S rRNA pseudouridylate synthase B [Edwardsiella ictaluri 93-146] gi|269138896|ref|YP_003295597.1| 23S rRNA pseudouridylate synthase/pseudouridine synthase [Edwardsiella tarda EIB202] gi|238869172|gb|ACR68883.1| RNA pseudouridine synthase family protein [Edwardsiella ictaluri 93-146] gi|267984557|gb|ACY84386.1| 23S rRNA pseudouridylate synthase/pseudouridine synthase [Edwardsiella tarda EIB202] gi|304558882|gb|ADM41546.1| Ribosomal large subunit pseudouridine synthase B [Edwardsiella tarda FL6-60] Length = 291 Score = 268 bits (686), Expect = 8e-70, Method: Composition-based stats. Identities = 113/301 (37%), Positives = 156/301 (51%), Gaps = 23/301 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I + RV V+G L V VM I VDG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEALIKEGRVSVDGKLATLGDRVEVMPNMKIRVDGRVVSIRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T DP+GR TVFD LP SR I+VGRLDINT GLLL T Sbjct: 62 SEQEICRVLAYYKPEGELCTRRDPEGRPTVFDRLPRLRGSRWIAVGRLDINTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD+DKL L++G+ ++ ++ +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDEDKLRQLRRGVQLEDGPASFKSISFQGGEGLN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G +E+ + LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDLPLPKGLPRGGWQELPLENINYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L A S + R+R + + R K Q +G S++ Sbjct: 242 EL----------VELQAETASKLPVERERRRMKAN---QIRRAVKRHGQHSGGSRRAPTT 288 Query: 303 T 303 Sbjct: 289 K 289 >gi|148555617|ref|YP_001263199.1| pseudouridine synthase [Sphingomonas wittichii RW1] gi|148500807|gb|ABQ69061.1| pseudouridine synthase [Sphingomonas wittichii RW1] Length = 286 Score = 268 bits (686), Expect = 8e-70, Method: Composition-based stats. Identities = 116/230 (50%), Positives = 160/230 (69%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 PQR++K++ARAGIASRRE+ERMIA+ RV ++G ++ A + S + VDG P+ E Sbjct: 45 EPQRIAKLLARAGIASRREIERMIAEGRVAIDGAAIDTPATLLTSLKGVTVDGKPVAAPE 104 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 TRL+L+HKP GL+TT DP GR T++D LP+ RV+ VGRLD+NTEGLLLLT DG Sbjct: 105 ATRLFLFHKPKGLLTTERDPKGRPTIYDRLPAGLPRVMPVGRLDLNTEGLLLLTTDGEFK 164 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 R LELPST R+YR R +G V Q++L L +GI I G+ YG + ++ + G+N W+ + Sbjct: 165 RQLELPSTGVERIYRARCYGTVHQEQLEALIEGIEIDGVRYGSIDANMERRTGANVWIEM 224 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 LREGKNRE+++V E +V+RLIRI+YG F+LG L G E+++ L Sbjct: 225 KLREGKNREVRRVLEHLGLEVSRLIRIAYGAFELGDLQPGEVGEIAQHQL 274 >gi|319776559|ref|YP_004139047.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae F3047] gi|317451150|emb|CBY87383.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae F3047] Length = 357 Score = 268 bits (686), Expect = 8e-70, Method: Composition-based stats. Identities = 112/294 (38%), Positives = 153/294 (52%), Gaps = 12/294 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + + Sbjct: 66 KASNQPKVEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRI 125 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + + E R+ +Y+KP G + T SDP+GR+TVFD LP SR I+VGRLDIN Sbjct: 126 DGQIINLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPHLTGSRWIAVGRLDIN 185 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 186 TSGLLLFTTDGELANRLMHPSHEVEREYSVRVFGQVDDAMLARLRKGVQLEDGLANFKEI 245 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ Sbjct: 246 KFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEM 305 Query: 237 SKK---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 + LRE +G L E + LD S + + R KK Sbjct: 306 DLENVNYLRELVG--LPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|218133030|ref|ZP_03461834.1| hypothetical protein BACPEC_00891 [Bacteroides pectinophilus ATCC 43243] gi|217991903|gb|EEC57907.1| hypothetical protein BACPEC_00891 [Bacteroides pectinophilus ATCC 43243] Length = 238 Score = 268 bits (686), Expect = 8e-70, Method: Composition-based stats. Identities = 65/235 (27%), Positives = 116/235 (49%), Gaps = 4/235 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R++K ++ AG SRRE +R++ RV ++G + V + VDG + Sbjct: 1 MMEERINKYLSEAGYCSRREADRLVEAGRVTIDG-VAAVCGSKVADGQKVCVDGKEVSGR 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R L ++KP G+V T +D G + + D + R+ VGRLD ++EGL+L+TNDG + Sbjct: 60 SRHILLAFNKPAGIVCTTTDKQGSNNIVDFI-GYPERIYPVGRLDKDSEGLILMTNDGAM 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + Y VR + V + + + G+ ++ + +K + Sbjct: 119 MDRILRSTNGHEKEYIVRVNKPVTDEFVKGMSDGVYLKELDRTTK--VCVVEKVTKFCFR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E F +KV +L RI LG L G R+V+ + E + Sbjct: 177 IVLTQGLNRQIRRMCENFGYKVMKLKRIRIMNIMLGDLKQGCYRDVTDEEYAELV 231 >gi|325962913|ref|YP_004240819.1| pseudouridine synthase family protein [Arthrobacter phenanthrenivorans Sphe3] gi|323469000|gb|ADX72685.1| pseudouridine synthase family protein [Arthrobacter phenanthrenivorans Sphe3] Length = 400 Score = 268 bits (686), Expect = 9e-70, Method: Composition-based stats. Identities = 87/241 (36%), Positives = 129/241 (53%), Gaps = 4/241 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 + R+ KV+A AG+ASRR E MIA+ RV+V+G ++ V V T I VDG+ ++ Sbjct: 156 DADGVRLQKVMASAGVASRRVCEEMIAEGRVEVDGQVVTELGVRVDPKTAVIHVDGIRIQ 215 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLT 125 E +++KP G+V+T DP+GR + D L + R+ VGRLD+ TEGLLLLT Sbjct: 216 LDENMVYMVFNKPKGVVSTMEDPEGRPCISDFLKNAKNKGERLFHVGRLDVATEGLLLLT 275 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + + Y V+ G Q LK+G+ ++ L Sbjct: 276 NDGELANRLTHPSYEVPKTYLVQVRGPFPQGIGAQLKEGVELEDGFASVDSFRLVDSTPG 335 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + + V L GKNR ++++F+ + V RL+R+ GP LG GS R + K+ + L Sbjct: 336 HVLIEVVLHSGKNRIVRRLFDAVGFPVLRLVRVKVGPIGLGDQRQGSIRNLGKQEVGHLL 395 Query: 246 G 246 Sbjct: 396 A 396 >gi|167040440|ref|YP_001663425.1| pseudouridine synthase [Thermoanaerobacter sp. X514] gi|300913725|ref|ZP_07131042.1| pseudouridine synthase [Thermoanaerobacter sp. X561] gi|307723259|ref|YP_003903010.1| pseudouridine synthase [Thermoanaerobacter sp. X513] gi|166854680|gb|ABY93089.1| pseudouridine synthase [Thermoanaerobacter sp. X514] gi|300890410|gb|EFK85555.1| pseudouridine synthase [Thermoanaerobacter sp. X561] gi|307580320|gb|ADN53719.1| pseudouridine synthase [Thermoanaerobacter sp. X513] Length = 240 Score = 268 bits (686), Expect = 9e-70, Method: Composition-based stats. Identities = 79/236 (33%), Positives = 122/236 (51%), Gaps = 8/236 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRK 69 R+ K+++ GI +R+EV++ I + V VNG ++ A + + TD I DG + Sbjct: 1 MAKMRIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIINTETDEILFDGKKIYY 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTND 127 E + +KP G+++ DP TV D LP VGRLD +TEGLLL+TND Sbjct: 61 KE-FIYIMMNKPEGVISATYDP-IEKTVIDLLPQELKARNPFPVGRLDKDTEGLLLITND 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN- 186 G LA L P ++ Y + G V++ + +GIV++ Y + L+ S+ Sbjct: 119 GDLAHKLLSPKKNVIKKYYAKILGFVNESDIKAFNEGIVLEDG-YKTLPANLEILSSSDV 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + V V +REGK +IK++FE KV L R++ G L L G RE+S++ L Sbjct: 178 SKVYVYIREGKYHQIKRMFESVGKKVIYLKRLAMGNLTLDENLKPGEWRELSEEEL 233 >gi|330999160|ref|ZP_08322879.1| pseudouridine synthase B, ribosomal large subunit [Parasutterella excrementihominis YIT 11859] gi|329575360|gb|EGG56904.1| pseudouridine synthase B, ribosomal large subunit [Parasutterella excrementihominis YIT 11859] Length = 313 Score = 268 bits (686), Expect = 9e-70, Method: Composition-based stats. Identities = 102/316 (32%), Positives = 151/316 (47%), Gaps = 13/316 (4%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 ++ F +++ KV+A AGI SRR++E IA+ R+ VNG V +D I DG Sbjct: 3 KLLTAPFANEKLHKVLADAGIGSRRDMEERIAEGRISVNGEPA-HVGQRVTPSDVIRFDG 61 Query: 65 VPLRK-----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINT 118 +R+ + ++ +YHKP G + + DP+GR TVFD+LP I +R I+VGRLD NT Sbjct: 62 RIVRRSALENNDVPKVLIYHKPAGEIVSKDDPEGRPTVFDHLPRIGGARWIAVGRLDFNT 121 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLLL T+ G LA L P + R Y VR G + + + L KGI + + Sbjct: 122 EGLLLFTDSGNLANFLMHPRHEIEREYAVRVQGTMSPEAKDKLLKGIKLDDGIAKFTTLE 181 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 KG N W V L EG+NRE++++FE V+RLIR+ YG +L L G TR +S Sbjct: 182 EGGGKGFNRWYNVTLSEGRNREVRRMFEAVGLPVSRLIRVKYGNLELPSDLPRGKTRRMS 241 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + + L ++ AP T + P + + S Sbjct: 242 TEETEKWLDSISYKKGMSTAPAPRAPERTPRPAASRAPASAPKAGRKFGQRD-----TSS 296 Query: 298 QKKLATPVHRRNLASN 313 + + P+ R Sbjct: 297 AIRSSRPMRSRGTRGP 312 >gi|310639571|ref|YP_003944329.1| tRNA pseudouridine synthase a [Paenibacillus polymyxa SC2] gi|309244521|gb|ADO54088.1| tRNA pseudouridine synthase A [Paenibacillus polymyxa SC2] Length = 233 Score = 268 bits (686), Expect = 9e-70, Method: Composition-based stats. Identities = 66/236 (27%), Positives = 118/236 (50%), Gaps = 8/236 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ G SRRE ++++ RV +NG + D + V+G PLR Sbjct: 1 MRINKFISETGFCSRREADKLVESGRVTINGEVA-VLGSQAEEGDDVRVNGKPLRDKSDH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ +T ++ R + D + R+ +GRLD ++EGL+LLTNDG + Sbjct: 60 VYIALNKPVGITST-TESHIRGNIVDFV-GHPQRIFPIGRLDKDSEGLILLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V V + + G+ I G +VT + S + L Sbjct: 118 ILRAEGKHEKEYIVTVDRPVTPSFVQGMSSGVKILGHRTLPCEVT----RVSEYVFRIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 EGKNR+I+++ F ++V +L R+ +LG+L G+ R++++ +++LG L Sbjct: 174 TEGKNRQIRRMCAAFGYEVKKLQRLRIMNIRLGSLQKGAWRDLTEAE-KQELGQML 228 >gi|237799081|ref|ZP_04587542.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. oryzae str. 1_6] gi|331021935|gb|EGI01992.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. oryzae str. 1_6] Length = 409 Score = 268 bits (686), Expect = 9e-70, Method: Composition-based stats. Identities = 118/375 (31%), Positives = 173/375 (46%), Gaps = 35/375 (9%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG V D I Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-LGQRVDLHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLD Sbjct: 63 SVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPARFT 182 Query: 176 QV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDA-------------PIYSSETLVRD-RPNIIS 276 RE+S+ L ++G + + Q+N P+ E +VR RP + Sbjct: 243 REMSQYEVDILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVVRTLRPAAGA 302 Query: 277 EVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ------ 330 D Q G + + +R G + +D+ + Sbjct: 303 PANSDRA---PRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTPVAE 359 Query: 331 REENHRRSPSFPSKR 345 R + P+ P + Sbjct: 360 RPSEMNKRPAKPGPK 374 >gi|167587342|ref|ZP_02379730.1| pseudouridine synthase [Burkholderia ubonensis Bu] Length = 389 Score = 268 bits (686), Expect = 9e-70, Method: Composition-based stats. Identities = 94/306 (30%), Positives = 152/306 (49%), Gaps = 7/306 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 66 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 124 Query: 63 DGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINT 118 +G P++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NT Sbjct: 125 NGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNT 184 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 185 EGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEGNRQKLLHGVELDDGPANFLRIR 244 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 245 DGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 304 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 +R+ + L +A S R +P+ + R ++ N Sbjct: 305 DAQVRKLMATVGL-KAPSEEKGKRGSGGQAERRQPDPMQTSMGFIGREPVLTTHGNLEQP 363 Query: 298 QKKLAT 303 ++ Sbjct: 364 RRGPRR 369 >gi|86158107|ref|YP_464892.1| ribosomal large subunit pseudouridine synthase B [Anaeromyxobacter dehalogenans 2CP-C] gi|85774618|gb|ABC81455.1| ribosomal large subunit pseudouridine synthase B [Anaeromyxobacter dehalogenans 2CP-C] Length = 328 Score = 268 bits (686), Expect = 9e-70, Method: Composition-based stats. Identities = 83/268 (30%), Positives = 128/268 (47%), Gaps = 8/268 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 +R+ K +A AGIASRR+ E +I+ RV+VN + V D + VDG + + Sbjct: 1 MAEERLQKYLAGAGIASRRKAEALISAGRVRVNQRTVTELGTKVDPGRDLVTVDGALVSQ 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ +L +KP G VTT SDP GR T + L + R VGRLD + EG LLLT+DG Sbjct: 61 PDQRSYYLLYKPSGCVTTASDPQGRPTAMEYLRGVPGRPFPVGRLDYDAEGALLLTDDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P RVY V+ G + L +K G+ ++ ++ + N W+ Sbjct: 121 LANRLAHPRYGHQRVYLVKVKGDPPAEALERMKAGVRLEDGPARAIEAAVHDHADRNVWI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 V + EG+ +K++ E +V RL R +G +G L G R + + +R Sbjct: 181 RVVVGEGRFHLVKRLCEAVGLQVQRLFRPEFGGIGVGGLRPGKFRRLQPEEVRAL----- 235 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISE 277 +V L++ + VR+ P Sbjct: 236 --RQRVGLESGTPARGPSVRELPKAARR 261 >gi|329769599|ref|ZP_08261003.1| hypothetical protein HMPREF0433_00767 [Gemella sanguinis M325] gi|328838354|gb|EGF87963.1| hypothetical protein HMPREF0433_00767 [Gemella sanguinis M325] Length = 243 Score = 268 bits (686), Expect = 9e-70, Method: Composition-based stats. Identities = 74/236 (31%), Positives = 127/236 (53%), Gaps = 3/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA +G SRR+ E++I +V VNG ++ + V +D I V+GV L E Sbjct: 3 ERLQKLIAASGYTSRRKAEQLILDGKVTVNGTVVNQLGVKAEPSDIIIVEGVRL-LKENK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L++KP ++T+ SD R+ V D S+ RV+ VGRLD +T G L+++NDG + Sbjct: 62 RYYLFYKPEKVITSMSDEKDRTCVKDFFESVNERVVPVGRLDYDTSGALIMSNDGEFINL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + Y + G++D L +L+ G+ I +V + K SN V + Sbjct: 122 ITHPRHKIKKTYVAKISGKLDDRHLKILRSGVRIDNYKTAPAEVNIVKNKNKSSNTLVRL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EGKNR+I+++FE ++V +L R + L L G R ++ ++ + Sbjct: 182 TIHEGKNRQIRRMFETLGYEVLKLKREAIEDLTLEGLKKGEYRVLTIHEVKRLINK 237 >gi|110803687|ref|YP_698469.1| ribosomal large subunit pseudouridine synthase B [Clostridium perfringens SM101] gi|110684188|gb|ABG87558.1| ribosomal large subunit pseudouridine synthase B [Clostridium perfringens SM101] Length = 236 Score = 268 bits (686), Expect = 9e-70, Method: Composition-based stats. Identities = 67/228 (29%), Positives = 115/228 (50%), Gaps = 2/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKAER 72 +R+ K +AR G+ASRR+ E +I +VKVN +++ V + + + + E Sbjct: 3 ERLQKYMARCGVASRRKCEEIICSGKVKVNDTVVDSLGTKVDPSVDVVSVNNKVISPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G VTT+ D R T+ D + + R+ +GRLD ++ GLLLLTNDG + Sbjct: 63 KVYIMLNKPEGYVTTNKDEKNRKTILDIV-KVNERIYPIGRLDYDSSGLLLLTNDGDVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G ++++N +KG+ I + ++ L + ++ V + Sbjct: 122 KIIHPRVNLNKEYIALVKGIFTEEEMNKFRKGVDIGDYKTAECEIELLEKYTNSCKVKII 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGKNR+I+++ FN +V L R + G L L G R +S Sbjct: 182 IHEGKNRQIRRMCAAFNHEVVSLKREAIGSLTLKNLKKGEWRYLSSSE 229 >gi|254293362|ref|YP_003059385.1| RNA-binding S4 domain protein [Hirschia baltica ATCC 49814] gi|254041893|gb|ACT58688.1| RNA-binding S4 domain protein [Hirschia baltica ATCC 49814] Length = 508 Score = 268 bits (686), Expect = 1e-69, Method: Composition-based stats. Identities = 130/349 (37%), Positives = 190/349 (54%), Gaps = 4/349 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + +R++K +A AG+ SRRE ER+I + V VNG +L+ AA V + I V+G + Sbjct: 29 DWSKGERIAKWLAAAGVCSRREAERLIEEGLVAVNGQVLDSAAFKVTGNEKITVEGKRVG 88 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++TRLW +HKP GLVTT+SDP+GR TVF++LP RV+++GRLD+NTEGLLLLTNDG Sbjct: 89 GPDKTRLWRFHKPKGLVTTNSDPEGRPTVFEHLPKKLPRVMTIGRLDLNTEGLLLLTNDG 148 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LAR LELP+T R YR R G++ Q +L+ L++G++ +G+ Y + TLD KG N W Sbjct: 149 ELARTLELPTTGLKRCYRARAFGKITQAELDKLQEGVLFEGVVYRSIIATLDKTKGDNNW 208 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + L EGK RE ++ E VNRLIR+SYGPF+LG L+ G E+ L + G Sbjct: 209 IDMTLTEGKKREARRALESVGLIVNRLIRVSYGPFELGDLVEGGVAEIPAGELLSEFGDS 268 Query: 249 LLEEAQVNLDA-PIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + + + + + P E + R + T K + + +K P Sbjct: 269 ISRKRRPDPASVPQSYLEPDTKRRRTKGRDEDTSQTAPAKKPAATIKPLRGEKFEKPSSG 328 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRR---SPSFPSKRSLRRTSAK 353 R A + H G R P+ P + + + AK Sbjct: 329 REPAQRSHKRQTPHRYAALREGAETNPEPRDFSKPAKPGEAVVPASLAK 377 >gi|52424446|ref|YP_087583.1| RsuA protein [Mannheimia succiniciproducens MBEL55E] gi|52306498|gb|AAU36998.1| RsuA protein [Mannheimia succiniciproducens MBEL55E] Length = 246 Score = 268 bits (686), Expect = 1e-69, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 108/231 (46%), Gaps = 5/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R + +++ Q V+VNG +++ ++ + D + +G L E Sbjct: 17 MRLDKFLAENTGLTRSQAAKILRQGNVQVNGQVVKSGSLKITPQDEVLFEGESLEWLEDG 76 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G V +H D + TV+ + ++ + GRLD +T GL+LLT+DG + Sbjct: 77 VYIMLNKPQGYVCSHDDGEY-PTVYQFFDYPLAGKLHTAGRLDADTSGLVLLTDDGKWSH 135 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+ + ++GI+++G L+ N V + Sbjct: 136 RVTSPKYHCQKTYLVTLADPVESNYRQACEQGILLRGEKEPTKPAILEIIDDYN--VNLT 193 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EG+ ++K++F KV L R G +L L G R ++ + ++ Sbjct: 194 ISEGRYHQVKRMFAALGNKVVGLHRWKIGNIELDEDLPEGEFRVLTAEEIQ 244 >gi|149192366|ref|ZP_01870569.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio shilonii AK1] gi|148833805|gb|EDL50839.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio shilonii AK1] Length = 342 Score = 268 bits (686), Expect = 1e-69, Method: Composition-based stats. Identities = 73/339 (21%), Positives = 141/339 (41%), Gaps = 9/339 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R++K I+ G SRRE +++I QQRV +NG + V+S D++E+DG P+R E Sbjct: 6 EGKRLNKYISETGFCSRREADKLIEQQRVTINGKIP-EMGTKVLSGDNVEIDGKPVRSKE 64 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+ T ++ D + D + R+ +GRLD ++GL+ LTNDG + Sbjct: 65 KPVYIALNKPTGITCT-TERDVPGNIVDFV-GHHKRIFPIGRLDKPSDGLIFLTNDGDIV 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y VR V +D L + G+ I +V ++ + + Sbjct: 123 NKILRAGNNHEKEYVVRVDKPVTRDFLKKMGSGVAILDTVTLPCRV----EQETKFSFRI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E ++V +L R+ + + G R ++ + + E L E Sbjct: 179 TLTQGLNRQIRRMCEALGFEVLKLRRVRIMNISIDGIPNGKWRYLTDQEVAEIH--RLCE 236 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 + +A ++ + ++ +G + +P + Sbjct: 237 GSVSTEEASRKDAKGRHITKATDAKLHDARAEAKREKMKTFSGHGADEFRRSPNKNKRHK 296 Query: 312 SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + + ++ + S PSK R Sbjct: 297 QEQGRSDKARNHHGKTQNRKPVAAKPDSSKPSKPRTRVG 335 >gi|302188863|ref|ZP_07265536.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae 642] Length = 409 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 115/374 (30%), Positives = 170/374 (45%), Gaps = 33/374 (8%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG V D I Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-LGQRVDLHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLD Sbjct: 63 SVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPARFT 182 Query: 176 QV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDA-------------PIYSSETLVRDRPNIISE 277 RE+S+ L ++G + + Q+N P+ E + RP + Sbjct: 243 REMSQYEVDILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVRTLRP--AAG 300 Query: 278 VPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ------R 331 P Q G + + +R G + + + R Sbjct: 301 APATGGERAPRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPPKTSRGTPVAER 360 Query: 332 EENHRRSPSFPSKR 345 + + P+ P + Sbjct: 361 PSDMNKRPAKPGPK 374 >gi|221214882|ref|ZP_03587850.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD1] gi|221165109|gb|EED97587.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD1] Length = 554 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 97/342 (28%), Positives = 162/342 (47%), Gaps = 9/342 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 170 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRI 228 Query: 63 DGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINT 118 +G P++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NT Sbjct: 229 NGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNT 288 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLL+LT G LA P R Y VR G++ + L GI + +++ Sbjct: 289 EGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSESARQKLLHGIELDDGPANFLRIR 348 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 349 DGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 408 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + +R+ + L+ R +P+ + +R ++ Sbjct: 409 EAQVRKLMATVGLKAPSEEKGK--RGGGQAERRQPDPMQTSMGFISREPVLTTHGQLDQP 466 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSP 339 ++ S S + + +G R+ + R+ Sbjct: 467 RRGGRRGGPGLPGLSGYGSLPVA-SGYGNRAGGRDVDGNRAS 507 >gi|315641868|ref|ZP_07896860.1| ribosomal small subunit pseudouridine synthase A [Enterococcus italicus DSM 15952] gi|315482436|gb|EFU72976.1| ribosomal small subunit pseudouridine synthase A [Enterococcus italicus DSM 15952] Length = 272 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 67/262 (25%), Positives = 120/262 (45%), Gaps = 9/262 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 + K V R+ K +A + SR+EV++ I + +V VNG + + D Sbjct: 11 LSGKFFVLTRRKTMRLDKFLATMQLGSRKEVKQFIKKGKVTVNGEITRSDKAQINEYEDQ 70 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDIN 117 I +G ++ ++ +L +KP G+++ D + TV D L + VGRLD + Sbjct: 71 ISFEGEVIQY-QKDYYYLLNKPAGVISATVD-NYDETVMDLLVDEDFREDLFPVGRLDKD 128 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQ 176 TEGLL+LTNDG LA L P + Y G + + + L +G++I G + Sbjct: 129 TEGLLVLTNDGQLAHRLLSPKKHVEKEYHATVAGVMTAEDVALFSEGLMIDQGEQCLPAK 188 Query: 177 VTLDT--QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 +T+ + + + +++ L EGK ++K++ +V L RI G L +L G Sbjct: 189 LTILSVDESAQTSQISLILHEGKFHQVKRMVAAVGKEVVYLKRIRMGQLTLDESLALGEY 248 Query: 234 REVSKKILREQLGPHLLEEAQV 255 R ++ + + A++ Sbjct: 249 RALTALEVEALQQNPFSDNAEL 270 >gi|126659748|ref|ZP_01730876.1| hypothetical protein CY0110_23321 [Cyanothece sp. CCY0110] gi|126618996|gb|EAZ89737.1| hypothetical protein CY0110_23321 [Cyanothece sp. CCY0110] Length = 259 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 82/239 (34%), Positives = 125/239 (52%), Gaps = 10/239 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QRV K++++ G+ASRR E MI RVK+NG ++ S D +EVDG ++ ++R Sbjct: 3 QRVQKILSQWGVASRRHAEDMIIAGRVKLNGEIVTLGDKADPSCDRLEVDGRMIQPSQRP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 + L +KP+G+V T DP RS V D LP S+ + VGRLD N+ G LLLTNDG Sbjct: 63 QLLYILINKPVGVVCTCDDPQNRSIVLDLLPKQLSKGTGIHPVGRLDFNSSGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y V G +++L ++G+++ G QV + + N Sbjct: 123 ELTLRLTHPRYHLPKTYEVLIQGHPTEERLQQWREGVMLMGKKTLPAQVEVICRYRQNTR 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSKKILR 242 + V L EG+NR+I+ + + + V RL R + G L +L G R ++ +R Sbjct: 183 LKVILTEGRNRQIRHIVQHLGFHVLRLHRTAIGSLVLSSPNESSLPNGHYRLLTPSEIR 241 >gi|110801071|ref|YP_695782.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens ATCC 13124] gi|168212063|ref|ZP_02637688.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens B str. ATCC 3626] gi|169342630|ref|ZP_02863674.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens C str. JGS1495] gi|110675718|gb|ABG84705.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens ATCC 13124] gi|169299272|gb|EDS81341.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens C str. JGS1495] gi|170710018|gb|EDT22200.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens B str. ATCC 3626] Length = 236 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 69/228 (30%), Positives = 117/228 (51%), Gaps = 2/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKAER 72 +R+ K +AR G+ASRR+ E +I +VKVN I+++ V + + + +R E Sbjct: 3 ERLQKYMARCGVASRRKCEEIICSGKVKVNDIVVDSLGTKVDPSVDVVSVNNKVIRPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G VTT+ D R T+ D + + R+ +GRLD ++ GLLLLTNDG + Sbjct: 63 KVYIMLNKPEGYVTTNKDEKNRKTILDIV-KVNERIYPIGRLDYDSSGLLLLTNDGDVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G ++++N +KG+ I + ++ L + ++ V + Sbjct: 122 KIIHPRVNLNKEYIALVKGIFTEEEMNKFRKGVDIGDYKTAECEIELLEKYTNSCKVKII 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGKNR+I+++ FN +V L R + G L L G R +S Sbjct: 182 IHEGKNRQIRRMCAAFNHEVVSLKREAIGSLTLKNLKKGEWRYLSSSE 229 >gi|169334035|ref|ZP_02861228.1| hypothetical protein ANASTE_00428 [Anaerofustis stercorihominis DSM 17244] gi|169258752|gb|EDS72718.1| hypothetical protein ANASTE_00428 [Anaerofustis stercorihominis DSM 17244] Length = 238 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 76/235 (32%), Positives = 121/235 (51%), Gaps = 1/235 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 R++K +A G+ASRR+ E +I++ +V VNG ++ + D ++V G + Sbjct: 3 EKMRINKYLASCGVASRRKCEEIISRGKVTVNGEVVRELGTIINVEKDLVKVYGKEVSLD 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + ++ +KP G+++ G TV D L R+ VGRLD +T GL++LTNDG Sbjct: 63 TKKVYYMLNKPQGVISASKSKYGEETVVDLLGKKEHRLFPVGRLDKDTTGLIILTNDGDF 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + + Y G+VD L+ LK+G+VI G +V L G N+ V Sbjct: 123 AYKLTHPKYEKEKTYEALVKGKVDSKSLDKLKQGVVIDGKKTSRAKVRLVKMIGVNSLVE 182 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L EG+ R++KK+ E KV +L R LG L G R+++K + + L Sbjct: 183 ITLIEGRKRQVKKMCEKVGHKVIKLNRTMENGLSLGDLEIGEYRKLTKNEVSKLL 237 >gi|300863940|ref|ZP_07108855.1| ribosomal large subunit pseudouridine synthase B [Oscillatoria sp. PCC 6506] gi|300338060|emb|CBN54001.1| ribosomal large subunit pseudouridine synthase B [Oscillatoria sp. PCC 6506] Length = 263 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 82/238 (34%), Positives = 123/238 (51%), Gaps = 10/238 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAE 71 +R+ K++A+ GIASRR+ E MI RV+VNG ++ ++D IEVDGV ++ + Sbjct: 3 ERLQKILAQWGIASRRQAEEMILAGRVRVNGNTVQLGQKANPASDRIEVDGVRVKSERRP 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDG 128 + L +KP G+V+T SDP R+TV D LP + VGRLD+ + G LLLTNDG Sbjct: 63 QPVYLLLNKPAGVVSTCSDPAQRTTVLDLLPPKLRAGCGIHPVGRLDVESTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y+V G + L +G+++ QV + + GS Sbjct: 123 NLTFALTHPRHCVPKTYQVWVEGDPPKSVLQTWSQGVLLSRRMTLPAQVRVQERNGSQTL 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSKKIL 241 + V L EG+NR++++V E + V L R + GP L L AG R + + Sbjct: 183 LEVILYEGRNRQVRRVAEQLGYPVIHLHRTAIGPILLQPPGEPELPAGHYRPLLDSEI 240 >gi|161524931|ref|YP_001579943.1| pseudouridine synthase [Burkholderia multivorans ATCC 17616] gi|189350319|ref|YP_001945947.1| ribosomal large subunit pseudouridine synthase B [Burkholderia multivorans ATCC 17616] gi|160342360|gb|ABX15446.1| pseudouridine synthase [Burkholderia multivorans ATCC 17616] gi|189334341|dbj|BAG43411.1| ribosomal large subunit pseudouridine synthase B [Burkholderia multivorans ATCC 17616] Length = 554 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 97/342 (28%), Positives = 162/342 (47%), Gaps = 9/342 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 170 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRI 228 Query: 63 DGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINT 118 +G P++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NT Sbjct: 229 NGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNT 288 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLL+LT G LA P R Y VR G++ + L GI + +++ Sbjct: 289 EGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSESARQKLLHGIELDDGPANFLRIR 348 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 349 DGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 408 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + +R+ + L+ R +P+ + +R ++ Sbjct: 409 EAQVRKLMATVGLKAPSEEKGK--RGGGQAERRQPDPMQTSMGFISREPVLTTHGQLDQP 466 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSP 339 ++ S S + + +G R+ + R+ Sbjct: 467 RRGGRRGGPGLPGLSGYGSLPVA-SGYGNRAGGRDVDGNRAS 507 >gi|327480926|gb|AEA84236.1| pseudouridine synthase [Pseudomonas stutzeri DSM 4166] Length = 375 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 118/361 (32%), Positives = 177/361 (49%), Gaps = 27/361 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 +++ KV+AR GIASRR+VE+ I + RVKVNG + V S D I VDG L++ E Sbjct: 15 EKLQKVLARLGIASRRDVEKWIVEGRVKVNGAVAT-LGQRVDSHDAIAVDGRLLKREETS 73 Query: 73 ---TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R+ +Y+KP G + T +DP+GR TVFD LP R I++GRLDINT GLLL T DG Sbjct: 74 QVVRRVLIYNKPDGEICTRNDPEGRPTVFDRLPRPKEGRWINIGRLDINTTGLLLFTTDG 133 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQKGSNA 187 LA L PS + R Y VR G+VD + + LK G++++ + +G N Sbjct: 134 ELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKTGVMLEDGPARFTDIQEAPGGEGFNH 193 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI---LRE 243 W + EG+NRE+++++E V+RL R+ +GP + L G RE+S+ L E Sbjct: 194 WYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFMTSDLPMGRWREMSQAEVDILSE 253 Query: 244 QLGPHLLE-------------EAQVNLDAPIYSSETLVR-DRPNIISEVP--DDFTRMKK 287 ++G + Q + P+ E R RP +++P D + Sbjct: 254 EVGLKPIALPSMKAKTKEKIDRMQRKVAKPLGRGERRSRVLRPAHEADMPVADKPRAARD 313 Query: 288 NSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 + S++ K TPV R + + S ++ + P F +RS Sbjct: 314 DKSERKPRGSDKPRGTPVAERPGDTRKGGKRHEGGGRSSGPARKPAGEGQRPGFGRERSK 373 Query: 348 R 348 R Sbjct: 374 R 374 >gi|329124070|ref|ZP_08252617.1| ribosomal large subunit pseudouridine synthase B [Haemophilus aegyptius ATCC 11116] gi|327467495|gb|EGF12993.1| ribosomal large subunit pseudouridine synthase B [Haemophilus aegyptius ATCC 11116] Length = 357 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 112/294 (38%), Positives = 152/294 (51%), Gaps = 12/294 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + + Sbjct: 66 KASNQSKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRI 125 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + + E R+ +Y+KP G + T SDP GR+TVFD LP SR I+VGRLDIN Sbjct: 126 DGQIINLSHAQKEICRVLMYYKPEGELCTRSDPKGRATVFDRLPHLTGSRWIAVGRLDIN 185 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 186 TSGLLLFTTDGELANRLMHPSHEVEREYSVRVFGQVDDAMLARLRKGVQLEDGLANFKEI 245 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ Sbjct: 246 KFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEM 305 Query: 237 SKK---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 + LRE +G L E + LD S + + R KK Sbjct: 306 DLENVNYLRELVG--LPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|293395241|ref|ZP_06639526.1| ribosomal small subunit pseudouridine synthase A [Serratia odorifera DSM 4582] gi|291422198|gb|EFE95442.1| ribosomal small subunit pseudouridine synthase A [Serratia odorifera DSM 4582] Length = 237 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 56/237 (23%), Positives = 107/237 (45%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV V+G ++ A+ + + DG L + Sbjct: 1 MRLDKFLSQQLGISRALVARELRAKRVTVDGEVVRSGALKLTPETEVAFDGNVLEQLNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLEEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D + G+ + L+ + V + + Sbjct: 121 ITSPKHHCEKTYLVTLEQPLAADTASHFAAGVQLHNEKDLTRPAQLE--QLDEHRVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G +L L G R ++++ + PHL Sbjct: 179 SEGRYHQVKRMFAAVGNRVVDLHRERIGAIRLDDDLAPGEYRPLTEEEIASVGAPHL 235 >gi|115351432|ref|YP_773271.1| pseudouridine synthase, Rsu [Burkholderia ambifaria AMMD] gi|115281420|gb|ABI86937.1| ribosomal large subunit pseudouridine synthase B [Burkholderia ambifaria AMMD] Length = 572 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 100/359 (27%), Positives = 166/359 (46%), Gaps = 9/359 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 176 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 234 Query: 63 DGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINT 118 +G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NT Sbjct: 235 NGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNT 294 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 295 EGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEGMRQKLLHGVELDDGPANFLRIR 354 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 355 DGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 414 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK--KNSSQKNGL 295 + +R+ + L +A S R +P+ + +R Q + Sbjct: 415 EAQVRKLMATVGL-KAPSEEKGKRGGSGPAERRQPDPMQTSMGFISREPVLTTHGQLDQP 473 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + L+ + G R+ + R+ + AK+ Sbjct: 474 RRGGGRRGGPGLPGLSGYGSLPVSPSGHGNRSGGGRDVDGNRASYGAGPKREGGAGAKR 532 >gi|172060471|ref|YP_001808123.1| RNA-binding S4 domain-containing protein [Burkholderia ambifaria MC40-6] gi|171992988|gb|ACB63907.1| RNA-binding S4 domain protein [Burkholderia ambifaria MC40-6] Length = 572 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 100/359 (27%), Positives = 166/359 (46%), Gaps = 9/359 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 176 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 234 Query: 63 DGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINT 118 +G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NT Sbjct: 235 NGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNT 294 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 295 EGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEGMRQKLLHGVELDDGPANFLRIR 354 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 355 DGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 414 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK--KNSSQKNGL 295 + +R+ + L +A S R +P+ + +R Q + Sbjct: 415 EAQVRKLMATVGL-KAPSEEKGKRGGSGPAERRQPDPMQTSMGFISREPVLTTHGQLDQP 473 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + L+ + G R+ + R+ + AK+ Sbjct: 474 RRGGGRRGGPGLPGLSGYGSLPVSPSGHGNRSGGGRDVDGNRASYGAGPKREGGAGAKR 532 >gi|18310062|ref|NP_561996.1| pseudouridylate synthase [Clostridium perfringens str. 13] gi|18144741|dbj|BAB80786.1| pseudouridylate synthase [Clostridium perfringens str. 13] Length = 236 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 68/228 (29%), Positives = 116/228 (50%), Gaps = 2/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKAER 72 +R+ K +AR G+ASRR+ E +I +VKVN +++ V + + + +R E Sbjct: 3 ERLQKYMARCGVASRRKCEEIICSGKVKVNDTVVDSLGTKVDPSVDVVSVNNKVIRPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G VTT+ D R T+ D + + R+ +GRLD ++ GLLLLTNDG + Sbjct: 63 KVYIMLNKPEGYVTTNKDEKNRKTILDIV-KVNERIYPIGRLDYDSSGLLLLTNDGDVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G ++++N +KG+ I + ++ L + ++ V + Sbjct: 122 KIIHPRVNLNKEYIALVKGIFTEEEMNKFRKGVDIGDYKTAECEIELLEKYTNSCKVKII 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGKNR+I+++ FN +V L R + G L L G R +S Sbjct: 182 IHEGKNRQIRRMCAAFNHEVVSLKREAIGSLTLKNLKKGEWRYLSSSE 229 >gi|312962716|ref|ZP_07777205.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas fluorescens WH6] gi|311283091|gb|EFQ61683.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas fluorescens WH6] Length = 402 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 109/371 (29%), Positives = 175/371 (47%), Gaps = 24/371 (6%) Query: 1 MKDKNIVQENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M D++ + P +++ KV+AR G+ SRR+VE I Q+R+KVNG+ V D Sbjct: 1 MNDQDHKDQEIGPAGEKLQKVLARIGVGSRRDVEAWITQKRIKVNGVEAT-LGQRVDLHD 59 Query: 59 HIEVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGR 113 I +DG +++ E R+ +Y+KP G + T DP+GR TVFD +P R I++GR Sbjct: 60 AITIDGKVIKREEAAESVRRVIMYNKPDGEICTRDDPEGRPTVFDKMPKPKEGRWINIGR 119 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LDINT GLL+ T DG LA L PS + R Y VR G+VD + + LK G+V++ Sbjct: 120 LDINTTGLLMFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVVLEDGPAK 179 Query: 174 DMQVT-LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAG 231 + +G N W + EG+NRE+++++E V+RL R+ +GP L L G Sbjct: 180 FTDIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLNSDLPMG 239 Query: 232 STREVSKKI---LREQLGPHLLEEAQVNLDAP-------IYSSETLVRDRPNIISEVPD- 280 RE+S+ L ++G + Q+N + SS + R + P Sbjct: 240 RWREMSQYEVDILSAEVGLTPVAMPQMNAKSKDKLERMQRKSSRPVARTERVARTLRPAL 299 Query: 281 DFTRMKKNSSQKNGLSKQKKLATPVHR---RNLASNVWMAKGIHSSFLSDSGQREENHRR 337 D S++ + +++ P + R + G S+ + + Sbjct: 300 DAPATGGRISRQPQIEGERRPTAPSRQEGERAPRTPRPAPAGGRSNRGEADRPADNASTK 359 Query: 338 SPSFPSKRSLR 348 P+ P+ Sbjct: 360 RPAKPAANKRP 370 >gi|107022570|ref|YP_620897.1| pseudouridine synthase, Rsu [Burkholderia cenocepacia AU 1054] gi|116689519|ref|YP_835142.1| pseudouridine synthase, Rsu [Burkholderia cenocepacia HI2424] gi|105892759|gb|ABF75924.1| ribosomal large subunit pseudouridine synthase B [Burkholderia cenocepacia AU 1054] gi|116647608|gb|ABK08249.1| ribosomal large subunit pseudouridine synthase B [Burkholderia cenocepacia HI2424] Length = 586 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 91/289 (31%), Positives = 149/289 (51%), Gaps = 6/289 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 174 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 232 Query: 63 DGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINT 118 +G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NT Sbjct: 233 NGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNT 292 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 293 EGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLHGVELDDGPANFLRIR 352 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 353 DGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 412 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 +R+ + L+ ++ R +P+ + +R Sbjct: 413 DAQVRKLMATVGLKAPSEEKGKRGGAAGPTERRQPDPMQTSMGFISREP 461 >gi|225378037|ref|ZP_03755258.1| hypothetical protein ROSEINA2194_03697 [Roseburia inulinivorans DSM 16841] gi|225210038|gb|EEG92392.1| hypothetical protein ROSEINA2194_03697 [Roseburia inulinivorans DSM 16841] Length = 261 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 71/245 (28%), Positives = 119/245 (48%), Gaps = 7/245 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEV 62 + I + R+ K + G+ +R EV++++ +++ VNG ++ + V D I Sbjct: 15 QTIEKGKNELMRLDKFLTEMGLGTRSEVKKILKTKQITVNGEIVTKPETKVAPENDQISY 74 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGL 121 G P+ E +L++KP G VT D TV D L + VGRLDI+TEGL Sbjct: 75 KGEPVTYCE-YEYYLFYKPAGCVTATED-QLHKTVMDYLTDTVRSDLFPVGRLDIDTEGL 132 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLD 180 LL+TNDG LA L P+ + Y G V + +N + G+ I + ++ + Sbjct: 133 LLITNDGALAHDLLSPAKHVEKTYYAVIDGVVTEKDVNSFENGVDIGEEKLTKPGKLRIL 192 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 + + + + + EG+ ++K++FE KV L RIS GP QL L G R ++++ Sbjct: 193 -KSEPESEIELTITEGRFHQVKRMFEAVGKKVLYLKRISMGPLQLTDDLKPGEYRPLTEE 251 Query: 240 ILREQ 244 + Sbjct: 252 EITAL 256 >gi|167738823|ref|ZP_02411597.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 14] Length = 359 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 92/288 (31%), Positives = 146/288 (50%), Gaps = 8/288 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 49 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 107 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 108 GKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTE 167 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 168 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQRLLHGVELDDGPANFLRIRD 227 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 228 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 287 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 +R + L+ D R +P+ + R Sbjct: 288 AQVRRLMSTVGLKA--PTEDKGGKRGGPAERRQPDPMQTSMGFINREP 333 >gi|225874153|ref|YP_002755612.1| pseudouridine synthase rsuA family protein [Acidobacterium capsulatum ATCC 51196] gi|225791360|gb|ACO31450.1| pseudouridine synthase rsuA family protein [Acidobacterium capsulatum ATCC 51196] Length = 406 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 102/358 (28%), Positives = 163/358 (45%), Gaps = 19/358 (5%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVP 66 +E +R+ K++A AG+ASRR+ E +I RV+VNG ++ + +DHI VDG Sbjct: 18 EEPRGGERLQKILASAGVASRRKAEELILAGRVQVNGQVVTEMGFKADAASDHIRVDGKL 77 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLL 123 L+ E+ R ++ +KP G VTT SDP+GR TV + R+ VGRLD +EGLLL Sbjct: 78 LQGPEKLRYFMLNKPKGYVTTVSDPEGRHTVMEFFHGRGKGGERLYPVGRLDYASEGLLL 137 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV------ 177 +TNDG LA L S+ +VY V+ G+ +++L ++ GI+I G+ +V Sbjct: 138 MTNDGALANTLTKASSHVEKVYLVKVSGRPTEEQLEQIRAGIMIDRGRPGEGRVMTAPAG 197 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + N W + L EG+NREI+K+FE V ++ RI YGP L + G RE++ Sbjct: 198 VRMVRDAENPWFELTLIEGRNREIRKMFEETGHFVEKIRRIGYGPLVL-DVEPGEVRELN 256 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + + L A AP + T + + P + + Sbjct: 257 PEEV------DSLRRAAQRKRAPKPKAATKTKRLTMLPKAKPARKSATGGRPGRAGAGRP 310 Query: 298 QKKLATPVHR--RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + +N S A + R+ S ++ + +A+ Sbjct: 311 AAGRPGRAGQGGQNARSGQGGASSERPARKLAPEGASRATERAGSRSGAKAGNKPAAR 368 >gi|317048876|ref|YP_004116524.1| pseudouridine synthase [Pantoea sp. At-9b] gi|316950493|gb|ADU69968.1| pseudouridine synthase [Pantoea sp. At-9b] Length = 240 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 64/242 (26%), Positives = 111/242 (45%), Gaps = 3/242 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I++ SR R I +++ +NG ++ A V+ D + DG PL + Sbjct: 1 MRLDKFISQQLEISRAISAREIRAKKITINGEVVRDTAYKVLPDDDVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + +F + ++ + GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTILFFIEEPMVGKLHAAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P +VYRV +D + GI + TL+ A + + Sbjct: 121 ITSPRHHCEKVYRVGVESPIDPSLVEKFAAGIQLHNEKDLTKPATLEIVGPQEALL--TI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLLEE 252 EG+ ++K++F V L R G L L G RE++++ + P L++ Sbjct: 179 SEGRYHQVKRMFAASGNHVVTLHRERIGDIVLDADLAEGEYRELTEEEVASIGLPDELKQ 238 Query: 253 AQ 254 + Sbjct: 239 PK 240 >gi|171317089|ref|ZP_02906292.1| RNA-binding S4 domain protein [Burkholderia ambifaria MEX-5] gi|171097723|gb|EDT42550.1| RNA-binding S4 domain protein [Burkholderia ambifaria MEX-5] Length = 427 Score = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 98/350 (28%), Positives = 163/350 (46%), Gaps = 9/350 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 31 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 89 Query: 63 DGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINT 118 +G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NT Sbjct: 90 NGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNT 149 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 150 EGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEGMRQKLLHGVELDDGPANFLRIR 209 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 210 DGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 269 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK--KNSSQKNGL 295 + +R+ + L +A S R +P+ + +R Q + Sbjct: 270 EAQVRKLMATVGL-KAPSEEKGKRGGSGPAERRQPDPMQTSMGFISREPVLTTHGQLDQP 328 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 + L+ + G R+ + R+ + Sbjct: 329 RRGGGRRGGPGLPGLSGYGSLPVSPSGHGNRSGGGRDVDGNRASYGAGPK 378 >gi|229099009|ref|ZP_04229944.1| RNA pseudouridine synthase [Bacillus cereus Rock3-29] gi|229118040|ref|ZP_04247400.1| RNA pseudouridine synthase [Bacillus cereus Rock1-3] gi|228665489|gb|EEL20971.1| RNA pseudouridine synthase [Bacillus cereus Rock1-3] gi|228684507|gb|EEL38450.1| RNA pseudouridine synthase [Bacillus cereus Rock3-29] Length = 240 Score = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 66/242 (27%), Positives = 116/242 (47%), Gaps = 8/242 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 ++ E ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG Sbjct: 4 LIYEKEQNMKINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDDDVVTIDGQ 62 Query: 66 PLRKAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + K E+ +HKP+G+ T +D + D + + R+ VGRLD +EGL+LL Sbjct: 63 VIAKEEKEKVYIAFHKPVGITCTAAD-HIEDNIIDYI-NYPERIFPVGRLDKASEGLILL 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG +A + + + Y V ++ + G+ I+ +VT Q Sbjct: 121 TNDGAIANQILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRVGQ-- 178 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 179 --STFRIVLTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELHELEVGKWRSVTAEELEIL 236 Query: 245 LG 246 +G Sbjct: 237 IG 238 >gi|224543302|ref|ZP_03683841.1| hypothetical protein CATMIT_02502 [Catenibacterium mitsuokai DSM 15897] gi|224523835|gb|EEF92940.1| hypothetical protein CATMIT_02502 [Catenibacterium mitsuokai DSM 15897] Length = 231 Score = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 66/234 (28%), Positives = 114/234 (48%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++A G SR++V++++ V NG + + +V D I V + + + Sbjct: 1 MRIDKLLAHCGYGSRKDVKQLLKDGLVTSNGKKIRSSGAHVDPEKDEIYVGDEKINYS-K 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G V+ D + TV D + + VGRLD++TEGLLL+TNDG LA Sbjct: 60 YVYYMLNKPDGYVSATED-NVYPTVIDLIKEYHPGLFPVGRLDVDTEGLLLITNDGQLAH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P T + Y V+ G++ +N KGI ++ + + + + V Sbjct: 119 RLLSPRTHVPKTYYVKVKGRLGIGDINAFTKGIPLEDFTCMPSYLKI-IKSDEISECEVT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 + EGK ++K++F+ +V L RIS G +L L G R ++ + + L Sbjct: 178 IYEGKFHQVKRMFQACGKEVVYLKRISMGELKLDENLKLGHYRPLTDEEINSIL 231 >gi|317495282|ref|ZP_07953652.1| RNA pseudouridylate synthase [Gemella moribillum M424] gi|316914704|gb|EFV36180.1| RNA pseudouridylate synthase [Gemella moribillum M424] Length = 243 Score = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 69/236 (29%), Positives = 129/236 (54%), Gaps = 3/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA +G SRR+ E++I + +V VNG ++++ V +D I V+G+ L E Sbjct: 3 ERLQKLIAASGYTSRRKAEQLILEGKVSVNGEVIKQLGVKAEPSDVIIVEGLRL-LKENK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +L++KP ++T+ SD R V D ++ RV+ VGRLD +T G L+++NDG + Sbjct: 62 KYYLFYKPEKVITSMSDEKDRVCVKDFFEAVNERVVPVGRLDYDTSGALIMSNDGEFINL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 + P + + Y + +G++++ L +L+ G+ I +V + K N V + Sbjct: 122 ITHPKHKIKKTYVAKINGKLEEHHLKILRSGVRIDNYKTSPAEVNIVKNKNKSGNTLVRL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EGKNR+++++FE ++V +L R S L L G R ++ ++ + Sbjct: 182 TIHEGKNRQVRRMFEALGYEVMKLKRESIEDLTLDGLRKGEYRILTIHEVKRLINK 237 >gi|221197754|ref|ZP_03570800.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD2M] gi|221204688|ref|ZP_03577705.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD2] gi|221175545|gb|EEE07975.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD2] gi|221181686|gb|EEE14087.1| RNA pseudouridine synthase family protein [Burkholderia multivorans CGD2M] Length = 541 Score = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 97/342 (28%), Positives = 164/342 (47%), Gaps = 9/342 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 157 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRI 215 Query: 63 DGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINT 118 +G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NT Sbjct: 216 NGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNT 275 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLL+LT G LA P R Y VR G++ + L GI + +++ Sbjct: 276 EGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSESARQKLLHGIELDDGPANFLRIR 335 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 336 DGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 395 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + +R+ + L+ + R +P+ + +R ++ Sbjct: 396 EAQVRKLMATVGLKAPSEEKGK--RGAGQAERRQPDPMQTSMGFISREPVLTTHGQLDQP 453 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSP 339 ++ S S + + +G R+ + R+ Sbjct: 454 RRGGRRGGPGLPGLSGYGSLPVA-SGYGNRAGGRDVDGNRAS 494 >gi|149374978|ref|ZP_01892751.1| putative pseudouridine synthase [Marinobacter algicola DG893] gi|149360867|gb|EDM49318.1| putative pseudouridine synthase [Marinobacter algicola DG893] Length = 324 Score = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 106/305 (34%), Positives = 152/305 (49%), Gaps = 8/305 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+ K++ARAG+ SRREVE I R+ +NG + V D I++DG L A Sbjct: 22 PERIQKLLARAGVGSRREVESWIEAGRLSINGKPV-EPGQKVTVNDRIDLDGKRLDIAAG 80 Query: 73 ----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ +Y+KP G VTT DP+GR TVFD+LP R I++GRLDINT GL+L T D Sbjct: 81 AEVVRRVLIYNKPEGEVTTRRDPEGRPTVFDSLPRLRDHRWIAIGRLDINTTGLVLFTTD 140 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G+VD+ + L +G+++ ++ KG N Sbjct: 141 GELANRLMHPSRQIDREYAVRVFGEVDEAMIKRLSEGVLLDDGMAKFSDISEAGGKGINQ 200 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 W V L EG+NRE+++++E +V+RL R+ YGP L + L G E+ +K + Sbjct: 201 WFHVTLLEGRNREVRRLWESQGVRVSRLKRVRYGPIFLPSRLSVGKWEELDQKAVDSLSK 260 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 L+ ++ P TL R R P + + +K P Sbjct: 261 AVDLKPVEIPAKTPSEQK-TLDRKRRKQAGTGPRKSGGARWQVDSAGPSTGRKSSGKPPA 319 Query: 307 RRNLA 311 R Sbjct: 320 RSGKR 324 >gi|298488132|ref|ZP_07006169.1| Pseudouridine synthase family protein [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|298157411|gb|EFH98494.1| Pseudouridine synthase family protein [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] Length = 408 Score = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 116/374 (31%), Positives = 171/374 (45%), Gaps = 34/374 (9%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG V D I Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-LGQRVDLHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLD Sbjct: 63 SVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILKDGPARFT 182 Query: 176 QV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDA-------------PIYSSETLVRDRPNIISE 277 RE+S+ L ++G + + Q+N P+ E + RP + Sbjct: 243 REMSQYEVDILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVRTLRPAAGAP 302 Query: 278 VPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ------R 331 D Q G + + +R G + +D+ + R Sbjct: 303 ATGDRA---PRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTPVAER 359 Query: 332 EENHRRSPSFPSKR 345 + P+ P + Sbjct: 360 PSEMNKRPAKPGPK 373 >gi|297571446|ref|YP_003697220.1| pseudouridine synthase [Arcanobacterium haemolyticum DSM 20595] gi|296931793|gb|ADH92601.1| pseudouridine synthase [Arcanobacterium haemolyticum DSM 20595] Length = 251 Score = 267 bits (684), Expect = 2e-69, Method: Composition-based stats. Identities = 79/246 (32%), Positives = 127/246 (51%), Gaps = 1/246 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 M K+ N +R+ KV+A AG+ASRR E MI Q RV V G ++ + + V + Sbjct: 1 MSRKSQDLHNPQGERLQKVLAHAGVASRRAAEDMIQQGRVSVEGTIVRQLGIRVDPQSAV 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I VDG ++ + +KP G+V+T SD GR T+ D + R++ VGRLD++TE Sbjct: 61 IHVDGNRVQLDQELITVALYKPPGVVSTMSDDQGRKTLADFVEDYPQRLVHVGRLDVDTE 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GL+LL+NDG L L PS + + Y R G V + +++KGI ++ + + Sbjct: 121 GLILLSNDGELVHRLTHPSYEVPKTYIARVEGTVTRGLQRVMEKGITLEDGPVHADRFII 180 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 N+ V + L G+NR ++++ E V L+R+ +G G L G R+++ Sbjct: 181 REVAKKNSIVEITLHSGRNRIVRRMMEEVGHPVMELVRMQFGNIVAGHLKPGQVRQIAGS 240 Query: 240 ILREQL 245 L + Sbjct: 241 ELGALM 246 >gi|270160115|ref|ZP_06188771.1| ribosomal large subunit pseudouridine synthase B [Legionella longbeachae D-4968] gi|289165108|ref|YP_003455246.1| ribosomal large subunit pseudouridine synthase B (Pseudouridylate synthase) [Legionella longbeachae NSW150] gi|269988454|gb|EEZ94709.1| ribosomal large subunit pseudouridine synthase B [Legionella longbeachae D-4968] gi|288858281|emb|CBJ12149.1| putative ribosomal large subunit pseudouridine synthase B (Pseudouridylate synthase) [Legionella longbeachae NSW150] Length = 246 Score = 267 bits (684), Expect = 2e-69, Method: Composition-based stats. Identities = 91/242 (37%), Positives = 138/242 (57%), Gaps = 7/242 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----P 66 + +R+ K++++AG+ SRRE+ER I V+VNG ++ + D I V G P Sbjct: 1 MSNERLQKILSQAGLGSRREMERWIENGWVQVNGKPVK-LGDSASEEDKITVKGKLIPNP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 L+ + R+ LYHKP+G +++ DP TVFD+LP + R + VGRLD+NT GLL+ T Sbjct: 60 LKVKKNVRILLYHKPVGEISSRHDPKFEKTVFDHLPHLRQGRWVQVGRLDLNTSGLLIFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N G LA L P + R Y VR GQV Q+ LN L KG+ + ++ +G+ Sbjct: 120 NSGELANQLMHPKYGFEREYAVRVRGQVSQEVLNNLTKGVELDDGMAKFTRLEFRGGEGA 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 N+W V L EG+NRE+++++E +V+RLIRI YG + L G E++ K + + Sbjct: 180 NSWYHVTLNEGRNREVRRLWESQGLEVSRLIRIRYGTITMPRYLSRGQHYELTPKEVSDL 239 Query: 245 LG 246 L Sbjct: 240 LA 241 >gi|257784526|ref|YP_003179743.1| pseudouridine synthase [Atopobium parvulum DSM 20469] gi|257473033|gb|ACV51152.1| pseudouridine synthase [Atopobium parvulum DSM 20469] Length = 279 Score = 267 bits (684), Expect = 2e-69, Method: Composition-based stats. Identities = 74/259 (28%), Positives = 125/259 (48%), Gaps = 20/259 (7%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + +E P R+ + +ARAG+ASRR ER++ RV VNG ++ V + Sbjct: 1 MTEERIVPMRLQRFLARAGVASRRGSERLMTSGRVTVNGQVVTELGSKVDPLVDVVAVDG 60 Query: 66 PL-RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLL 123 + AE+ + +KP G +TT DP GR T+ D +P + + VGRLD++T GLL Sbjct: 61 VVCSIAEKPVYLMLNKPAGYLTTMKDPQGRPTIVDMVPTDTYPGLFPVGRLDMDTTGLLF 120 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG +A+ L PS + Y G +++LN L++GI ++ +V + + Sbjct: 121 FTTDGQMAQELLHPSKHVWKHYVAHVVGTPTEEQLNRLREGIELEDGPAAPAEVEIISDD 180 Query: 184 ------------------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 NA V+V +REG+ ++KK+ + +V L R ++GP L Sbjct: 181 VKMKNLLAPQGLGKTGGGEPNALVSVTIREGRKHQVKKMLLAIHHRVLALHRDTFGPLHL 240 Query: 226 GTLLAGSTREVSKKILREQ 244 + G R ++++ + Sbjct: 241 TRVKEGEWRLLTEEEVTAL 259 >gi|84394229|ref|ZP_00992957.1| pseudouridine synthase family 1 protein [Vibrio splendidus 12B01] gi|218709944|ref|YP_002417565.1| ribosomal large subunit pseudouridine synthase B [Vibrio splendidus LGP32] gi|84375143|gb|EAP92062.1| pseudouridine synthase family 1 protein [Vibrio splendidus 12B01] gi|218322963|emb|CAV19140.1| Ribosomal large subunit pseudouridine synthase B [Vibrio splendidus LGP32] Length = 342 Score = 267 bits (684), Expect = 2e-69, Method: Composition-based stats. Identities = 111/344 (32%), Positives = 162/344 (47%), Gaps = 13/344 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV VNG + + I +DG + Sbjct: 2 SEKLQKVLARAGHGSRRELEGLIKSGRVSVNGQVAKLGERLEDENSVIRIDGHTITGKAS 61 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVVCRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G+V + K+ + +G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGEVTEQKVKNVTRGVQLEDGMARFEDVVYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LRE 243 V + EG+NRE+++++E V+RL R+ YG L L G +E+ + LRE Sbjct: 182 TFYVAINEGRNREVRRLWESQETTVSRLKRVRYGDIYLDKKLPRGGWKELDLQEVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E ++LD P +S R R I R ++ ++ G S Q K Sbjct: 242 LVELQPEKETLLDLD-PANTSRKRERSRSQKIRR---AVKRHEERANAPKGRSNQTKRKK 297 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 P R + + + + + + N+ R RS Sbjct: 298 PATRGTTTPDSGRSAPATNGKPQATKKPKLNNGRPAKPAKPRSR 341 >gi|159037542|ref|YP_001536795.1| pseudouridine synthase [Salinispora arenicola CNS-205] gi|157916377|gb|ABV97804.1| pseudouridine synthase [Salinispora arenicola CNS-205] Length = 256 Score = 267 bits (684), Expect = 2e-69, Method: Composition-based stats. Identities = 87/235 (37%), Positives = 125/235 (53%), Gaps = 3/235 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+ KV+A AG+ SRR E +I ++RV VNG + + ++D I VDG L+ R Sbjct: 18 PERLQKVLAAAGVGSRRACEDLIFRRRVTVNGRIAQLGDRADPTSDTIHVDGERLQADTR 77 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 +KP G+V+T +D GR+ + D L + RV VGRLD ++EGLLLLTNDG LA Sbjct: 78 LVYLAMNKPRGVVSTMADEKGRTAIADFLGNRVQERVYHVGRLDADSEGLLLLTNDGTLA 137 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L PS + Y G + + L GI + G D +DT G A V Sbjct: 138 HRLTHPSYGVPKTYLCEVSGPIPRTLGRRLAAGIELTDGPATVDAFRVVDTL-GRTAQVE 196 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 V L EG+ ++++F+ V+RL+R S GP +LG L AG TR ++ + Sbjct: 197 VTLHEGRKHIVRRLFDAVGHPVSRLVRTSIGPIRLGDLRAGRTRRLTNAEVAALF 251 >gi|86748296|ref|YP_484792.1| pseudouridine synthase Rsu [Rhodopseudomonas palustris HaA2] gi|86571324|gb|ABD05881.1| Pseudouridine synthase, Rsu [Rhodopseudomonas palustris HaA2] Length = 784 Score = 267 bits (684), Expect = 2e-69, Method: Composition-based stats. Identities = 151/333 (45%), Positives = 208/333 (62%), Gaps = 9/333 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 ++ T R++KV+ARAG+ SRR+ E + + RV VNG++++ A++VM +D I VDG PL Sbjct: 457 ADDKTGDRIAKVVARAGLCSRRDAETWVTEGRVAVNGLVIDSPALDVMPSDVITVDGKPL 516 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + ERTRL+LYHKP GL+TTH+DP+GR TVFDNLP R+IS+GRLD NTEGLLLLTND Sbjct: 517 PERERTRLFLYHKPRGLMTTHADPEGRPTVFDNLPEDLPRLISIGRLDFNTEGLLLLTND 576 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGLAR LELP T WLR YRVR HG+V Q +L+ LK GI + G+ YG+++ L+ +G+N Sbjct: 577 GGLARALELPETGWLRRYRVRAHGEVTQAQLDELKNGIEVDGVKYGEIEAKLERDQGANV 636 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+ +REGKNRE++ V +VNRLIR+SYGPFQL + G EV ++LREQLG Sbjct: 637 WLVFAIREGKNREVRNVLAHLGLEVNRLIRVSYGPFQLLEIEEGEVEEVKTRVLREQLGD 696 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 +++ A + P SE + RP + KK + K G + +K Sbjct: 697 KIIQLAGADFGGP-SPSEARPKPRPGRPVAAAEAAPAPKKKAPTKRGAVEDRKGRKVKVE 755 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPS 340 R + G L+ R + +R P+ Sbjct: 756 RTGSG------GDRG--LTRGPARRYHGKREPA 780 >gi|224476606|ref|YP_002634212.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus carnosus subsp. carnosus TM300] gi|222421213|emb|CAL28027.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus carnosus subsp. carnosus TM300] Length = 245 Score = 267 bits (684), Expect = 2e-69, Method: Composition-based stats. Identities = 74/234 (31%), Positives = 132/234 (56%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I + +VKVNG + V +D++EV+GV L + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLIVEGKVKVNGETVTELGTKVKPSDNVEVEGVKLEQEDKL 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L++KP ++T+ SD GR+ V D + +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 -YILFYKPAQVITSVSDDRGRTVVTDYFDDLETRIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + + Y + G + +D++ L+KGI ++ +V + Q + + V + Sbjct: 125 MTHPRYKIKKKYVAKLKGYLMRDEVKALEKGIQLEDGKTHPAEVKIKNQNKEKNTTVVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGP-FQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE F +V++L R+ L L AG R ++ +++ Sbjct: 185 TISEGRNRQVRRMFEHFGHEVSKLSRVELADFLTLKGLNAGEGRVLTPHEVKKL 238 >gi|313123532|ref|YP_004033791.1| pseudouridine synthase [Lactobacillus delbrueckii subsp. bulgaricus ND02] gi|312280095|gb|ADQ60814.1| Pseudouridine synthase [Lactobacillus delbrueckii subsp. bulgaricus ND02] gi|325684293|gb|EGD26466.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus delbrueckii subsp. lactis DSM 20072] Length = 239 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 127/233 (54%), Gaps = 3/233 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ KVIA+AGIASRRE E+MI RV+V+G ++ + V S + + VD P+ + Sbjct: 1 MAEERLQKVIAQAGIASRREAEKMILAGRVRVDGQVVTKLGTKVSSIEQVVVDNQPIER- 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +L++KP G+++ D GR TV D + R+ VGRLD +T GLLL+TNDG L Sbjct: 60 ESHHTYLFYKPRGVISAVKDNKGRKTVADYFTDLPYRLYPVGRLDYDTSGLLLMTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAW 188 A +L P + +VY + G + D++ LKKG+ I +V + Sbjct: 120 ANLLMHPRNEVDKVYVAKIKGILQPDEIKALKKGVQIGRYKTKPARVKVLKTNPRAQTQI 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + EG ++K++F+ N V++L R Y L L +G RE++ K + Sbjct: 180 VQLTIHEGHYHQVKEMFKAVNHLVDKLSRERYSFLDLQGLTSGQYRELNHKEV 232 >gi|200386647|ref|ZP_03213259.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|199603745|gb|EDZ02290.1| ribosomal small subunit pseudouridine synthase A [Salmonella enterica subsp. enterica serovar Virchow str. SL491] Length = 231 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 103/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLALQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTEDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + TL+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKDLTKPATLEV--ITPVQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEEEI 227 >gi|241764490|ref|ZP_04762511.1| pseudouridine synthase [Acidovorax delafieldii 2AN] gi|241366074|gb|EER60671.1| pseudouridine synthase [Acidovorax delafieldii 2AN] Length = 504 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 100/361 (27%), Positives = 155/361 (42%), Gaps = 17/361 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + K ++ ++ KV+A+AG+ SR E+E++I + R+ VN V D + Sbjct: 144 VPAKRVLLPQVETPKLHKVLAQAGLGSRLEMEQLILEGRISVNNEPA-HIGQRVQFGDQV 202 Query: 61 EVDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDI 116 +V+G P+R R+ YHKP+G V +H DP R TVF LP + + SVGRLD+ Sbjct: 203 KVNGKPIRYRIDPPPARVIAYHKPVGEVVSHDDPQNRPTVFRKLPRLQQGKWQSVGRLDL 262 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLLL T+ G LA L P R Y VR G + ++ L G+ + Sbjct: 263 NTEGLLLFTSSGELANKLMHPRFGLEREYAVRVLGALSNEEKQQLLDGVRLDDGMAAFGS 322 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTRE 235 + +GSN W V + EG+NRE++++ E V+RLIRI YG L L G+ E Sbjct: 323 IEDGGGEGSNCWYRVTISEGRNREVRRMLEAVGHAVSRLIRIRYGAMVLPRGLKRGAWLE 382 Query: 236 VSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 + + +R + + + P +E +K + NG Sbjct: 383 LGEGDIRALM--QAAGAGRPDAAGPRTEAEGGAARGNRERGRGSVRAGDGRKRTGGANGS 440 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDS--GQREENHRRSPSFPSKRSLRRTSAK 353 RR+ A G G++ + + S + SL R Sbjct: 441 MGSGGQGR-APRRS------DAPGARGGNAERPRGGEQPDPMKTSVGYIGADSLSRHRQD 493 Query: 354 K 354 + Sbjct: 494 Q 494 >gi|302533645|ref|ZP_07285987.1| pseudouridine synthase [Streptomyces sp. C] gi|302442540|gb|EFL14356.1| pseudouridine synthase [Streptomyces sp. C] Length = 239 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 78/231 (33%), Positives = 123/231 (53%), Gaps = 1/231 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ V D I+VDG+ + Sbjct: 1 MEGERLQKVLARAGMGSRRACEELIEQARVEVNGEIVTEQGKRVQPKDEIKVDGLTV-AT 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++LLTN G L Sbjct: 60 QSFLFFALNKPAGVVSTMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGIILLTNHGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y G + +D LK+GI ++ + Q G N V Sbjct: 120 AHRLTHPKYGVQKTYVAAITGSLPRDIGKRLKEGIELEDGYARADNFRVVDQVGKNYLVE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ ++++ + V++L+R S+GP +LG +G R ++ + Sbjct: 180 VTLHEGRKHIVRRMLAEAGFPVDKLVRTSFGPIELGDQKSGWLRRLTNTEV 230 >gi|254418155|ref|ZP_05031879.1| conserved hypothetical protein, putative [Brevundimonas sp. BAL3] gi|196184332|gb|EDX79308.1| conserved hypothetical protein, putative [Brevundimonas sp. BAL3] Length = 519 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 141/355 (39%), Positives = 193/355 (54%), Gaps = 17/355 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +ARAGIASRREVER+I +V VNG +L+ A V D I VDG P+ + T Sbjct: 86 ERIAKTMARAGIASRREVERLIGLGKVAVNGRILDTPATLVTRDDVITVDGKPIGSTQAT 145 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+W YHKP GL+T+HSDP GR TVFD LP+ RVISVGRLD+ TEGLLLLTNDG L+R Sbjct: 146 RVWRYHKPAGLLTSHSDPTGRPTVFDALPAGLPRVISVGRLDLATEGLLLLTNDGELSRA 205 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA------ 187 LELP+T +R YR R G++ Q++L+ LK G+V+ G+ YG ++ TLD K S + Sbjct: 206 LELPATSLVRQYRARARGKITQEQLDKLKDGVVVDGVSYGPIEATLDKAKESKSEDGRAP 265 Query: 188 ---WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 W++V + EGKNRE++KV E VNRLIR++YGPF+L L GS EV +++RE Sbjct: 266 ANLWISVSITEGKNREVRKVLESVGLTVNRLIRLAYGPFRLDVLPIGSVEEVGPRVIREL 325 Query: 245 LGPHLLEE-----AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 L ++ E V API P + + + S+ + Sbjct: 326 LADYIRPENLPTGNTVETPAPIPGRRVST---PIVKGRSGSAMSDPSRKPSRVRAAETAQ 382 Query: 300 KLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 A R W + S + E P++ R + Sbjct: 383 ADAVERRERPPKKEGWAKAAPKTGHPKKSFKPREGAPTDGERPARTYKPREEGDR 437 >gi|170700025|ref|ZP_02891050.1| RNA-binding S4 domain protein [Burkholderia ambifaria IOP40-10] gi|170135084|gb|EDT03387.1| RNA-binding S4 domain protein [Burkholderia ambifaria IOP40-10] Length = 427 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 98/350 (28%), Positives = 163/350 (46%), Gaps = 9/350 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 31 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 89 Query: 63 DGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINT 118 +G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NT Sbjct: 90 NGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNT 149 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 150 EGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEGMRQKLLHGVELDDGPANFLRIR 209 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 210 DGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 269 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK--KNSSQKNGL 295 + +R+ + L +A S R +P+ + +R Q + Sbjct: 270 EAQVRKLMATVGL-KAPSEEKGKRGGSGPAERRQPDPMQTSMGFISREPVLTTHGQLDQP 328 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 + L+ + G R+ + R+ + Sbjct: 329 RRGGGRRGGPGLPGLSGYGSLPVSPSGHGNRSGGGRDVDGNRASYGAGPK 378 >gi|255035028|ref|YP_003085649.1| pseudouridine synthase [Dyadobacter fermentans DSM 18053] gi|254947784|gb|ACT92484.1| pseudouridine synthase [Dyadobacter fermentans DSM 18053] Length = 248 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 61/233 (26%), Positives = 114/233 (48%), Gaps = 7/233 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R++K I+ G SRRE ++++ Q RV +NG ++D + VDG PL+ Sbjct: 1 MEPVRINKFISETGFCSRREADKLVEQGRVMLNGRKA-VLGDKATTSDDVRVDGKPLKAK 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + ++KP+G+ T ++ + + D + R+ +GRLD +EGL+ LT+DG + Sbjct: 60 KAGVYIAFNKPVGITCT-TERHIKGNIIDYI-RHKERIFPIGRLDKPSEGLIFLTSDGDI 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + + G+ I G+ V +K S+ T Sbjct: 118 VNKILRAGNNHEKEYVVTVNKPITPEFIQKMSSGVPILGVVTKKCFV----RKDSSYVFT 173 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ EF + V +L R+ L L G R+++ ++E Sbjct: 174 IILTQGLNRQIRRMCEFLGYNVTKLKRVRIMNVTLKDLPVGKWRDLTAAEMQE 226 >gi|253989545|ref|YP_003040901.1| 23S rRNA pseudouridylate synthase B [Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949] gi|253780995|emb|CAQ84157.1| ribosomal large subunit pseudouridine synthase B [Photorhabdus asymbiotica] Length = 310 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 104/305 (34%), Positives = 154/305 (50%), Gaps = 14/305 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ K++AR+G SRRE+E I Q RV V+G + + V I +DG L E Sbjct: 8 SEKLQKILARSGHGSRREIEGYIQQGRVSVDGKIATLGDRIEVQPATKIRLDGRILSIKE 67 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T DP+GR TVFD LP + SR I+VGRLD+NT GLLL T Sbjct: 68 SQKAICRVLAYYKPEGELCTRHDPEGRPTVFDRLPKLLGSRWIAVGRLDVNTCGLLLFTT 127 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G+VD KL L KGI ++ V +G N Sbjct: 128 DGELANRLMHPSREVEREYAVRVFGEVDDAKLKQLAKGIQLEDGPAAFRTVAFKGGEGIN 187 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ + LR Sbjct: 188 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIGLPKGLPRGGWAELGLEQTNYLR 247 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 + +G H ++V + + ++ + + ++ ++ G S+Q Sbjct: 248 QLVGLHEETVSKVA----VERDQRRMKANQIRRAVKRHAQVASRPSAGKRPGSSRQNAGR 303 Query: 303 TPVHR 307 T + Sbjct: 304 TTAQK 308 >gi|170732823|ref|YP_001764770.1| RNA-binding S4 domain-containing protein [Burkholderia cenocepacia MC0-3] gi|169816065|gb|ACA90648.1| RNA-binding S4 domain protein [Burkholderia cenocepacia MC0-3] Length = 586 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 91/289 (31%), Positives = 149/289 (51%), Gaps = 6/289 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 174 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 232 Query: 63 DGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINT 118 +G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NT Sbjct: 233 NGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNT 292 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 293 EGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLHGVELDDGPANFLRIR 352 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 353 DGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 412 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 +R+ + L+ ++ R +P+ + +R Sbjct: 413 DAQVRKLMATVGLKAPSEEKGKRGGAAGPTERRQPDPMQTSMGFISREP 461 >gi|304397506|ref|ZP_07379384.1| pseudouridine synthase [Pantoea sp. aB] gi|304355124|gb|EFM19493.1| pseudouridine synthase [Pantoea sp. aB] Length = 239 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 61/239 (25%), Positives = 105/239 (43%), Gaps = 3/239 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I++ SR R I QRV VNG ++ A ++ + DG L+ Sbjct: 1 MRLDKFISQQLEISRAIAHREIRGQRVTVNGEVVRDTAFKLLPDHEVVYDGNVLQMQTGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTIIYFIEEPMSFKLHAAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + YRV + D G+ + L+ ++ V + L Sbjct: 121 ITSPRHHCEKTYRVTLESPISDDTAAQFTAGVQLHNEKSLTKPAQLEVITPTD--VRLTL 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLLE 251 EG+ ++K++F +V L R G L L G R +++ + P L+ Sbjct: 179 SEGRYHQVKRMFAAVGNRVIELHRERIGDIVLDEDLEPGEYRALTEDEIASIGLPKELQ 237 >gi|163841326|ref|YP_001625731.1| ribosomal large subunit pseudouridine synthase B [Renibacterium salmoninarum ATCC 33209] gi|162954802|gb|ABY24317.1| ribosomal large subunit pseudouridine synthase B [Renibacterium salmoninarum ATCC 33209] Length = 345 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 89/247 (36%), Positives = 134/247 (54%), Gaps = 5/247 (2%) Query: 5 NIVQENFTPQ--RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIE 61 N Q+ P+ R+ KV+A AG+ASRR E MI RV+V+G ++ + V T I Sbjct: 95 NAGQDMHDPEGVRLQKVMAAAGVASRRVCEEMIEDGRVEVDGSIVTELGLRVNVETAVIS 154 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTE 119 VDG+ L+ E +++KP G+V+T DP+GR + D L + + R+ VGRLD TE Sbjct: 155 VDGIRLQLKENMIYLVFNKPRGVVSTMDDPEGRRNISDFLKNKYAHERLFHVGRLDQATE 214 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLTNDG LA L PS + + Y V+ G ++ N ++KGI ++ L Sbjct: 215 GLLLLTNDGELANRLTHPSYEVPKTYLVQTKGPMETGVSNQMRKGIELEDGVTKIDAFKL 274 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V V L GKNR ++++F+ + V RL+R+ GP +LG GS R + ++ Sbjct: 275 VDSTPGHVLVEVVLHSGKNRIVRRLFDAVGYPVERLVRLQVGPIRLGDQKQGSIRALGQQ 334 Query: 240 ILREQLG 246 + L Sbjct: 335 EVGHLLA 341 >gi|23099754|ref|NP_693220.1| 16S pseudouridine synthase [Oceanobacillus iheyensis HTE831] gi|22777984|dbj|BAC14255.1| 16S pseudouridine synthase [Oceanobacillus iheyensis HTE831] Length = 237 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 119/233 (51%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G+ SR+EV++++ +R+ VN ++++ + ++V D I VD + ++ Sbjct: 2 MRLDKLLSNMGVGSRKEVKQLLKSKRITVNEVIVKDSGMHVDPEYDQIFVDDQLISY-QK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 + HKP G+V+ D R TV D L + + VGRLD +TEGLLL+TNDG L Sbjct: 61 HIYLMMHKPPGVVSATVDNRDR-TVIDLLSADEKKFEPFPVGRLDKDTEGLLLITNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P +VY G+ ++ + ++G+ ++ Y L+ + V Sbjct: 120 AHRLTSPKKHVEKVYIAHISGEFPENIVEQFQEGLTLEDG-YQTKPAKLEILNKQSKEVK 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 V + EGK +IK++F KV L R+ QL L G R +++ L+ Sbjct: 179 VTITEGKYHQIKRMFIAVGCKVTYLKRVQMANLQLDDSLPIGDFRPLTEDELQ 231 >gi|18311295|ref|NP_563229.1| hypothetical protein CPE2313 [Clostridium perfringens str. 13] gi|18145978|dbj|BAB82019.1| conserved hypothetical protein [Clostridium perfringens str. 13] Length = 301 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 67/261 (25%), Positives = 128/261 (49%), Gaps = 12/261 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + +KN +++ R++K I+ G SRRE +++I Q RVK++G+ + V + + Sbjct: 53 VSNKNEIRDEV---RLNKYISETGFCSRREADKLIEQGRVKIDGVKATT-GMKVSNGQSV 108 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +DG L+ +KP+G+ T ++ + + D + + R+ +GRLD +++G Sbjct: 109 SIDGKSLKVENELVYIALNKPVGITCT-TESKIKGNIVDFI-NHEKRIFPIGRLDKDSQG 166 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+ +TNDG + + + Y V + + + + + G+ I G V + Sbjct: 167 LIFMTNDGDIVNKILRAGNNHEKEYIVTVNKPITDEFIKGMSNGVPILGTVTKKCLVKKE 226 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + L +G NR+I+++ E+F ++V +L RI LG L GS R ++KK Sbjct: 227 SKNS----FRIILTQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKMGSWRYLTKKE 282 Query: 241 LREQLGPHLLEEAQVNLDAPI 261 L E L E + +A I Sbjct: 283 LAEI--NRLTENSSKTEEASI 301 >gi|168214957|ref|ZP_02640582.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens CPE str. F4969] gi|182626336|ref|ZP_02954091.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens D str. JGS1721] gi|170713593|gb|EDT25775.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens CPE str. F4969] gi|177908355|gb|EDT70900.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens D str. JGS1721] Length = 236 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 69/228 (30%), Positives = 117/228 (51%), Gaps = 2/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKAER 72 +R+ K +AR G+ASRR+ E +I +VKVN I+++ V + + + +R E Sbjct: 3 ERLQKYMARCGVASRRKCEEIICSGKVKVNDIVVDSLGTKVDPSVDVVSVNNKVIRPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G VTT+ D R T+ D + + R+ +GRLD ++ GLLLLTNDG + Sbjct: 63 KVYIMLNKPEGYVTTNKDEKNRKTILDIV-KVNERIYPIGRLDYDSSGLLLLTNDGDVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G ++++N +KG+ I + ++ L + ++ V + Sbjct: 122 KIIHPRVNLNKEYIALVKGIFTEEEMNKFRKGVDIGDYKTAECEIELLEKYTNSCKVKII 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGKNR+I+++ FN +V L R + G L L G R +S Sbjct: 182 IHEGKNRQIRRMCAAFNHEVVSLKREAIGSLNLKNLKKGEWRYLSSSE 229 >gi|253688026|ref|YP_003017216.1| pseudouridine synthase [Pectobacterium carotovorum subsp. carotovorum PC1] gi|251754604|gb|ACT12680.1| pseudouridine synthase [Pectobacterium carotovorum subsp. carotovorum PC1] Length = 231 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 62/229 (27%), Positives = 112/229 (48%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + QRV V+G +++ A + ++E DG PL++ Sbjct: 1 MRLDKFLSQQLEISRSLVARELHAQRVTVDGEVVKSGAFKLSPEHNVEFDGNPLKQQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTILYFMDVPVAYKLHAAGRLDIDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P Q + Y V + +D G+ + TL+ K ++ V + + Sbjct: 121 ITSPKHQCEKTYLVTLEQPLAEDTAAQFTAGVQLHNEKNLTKPATLE--KITDHVVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L + L G RE+S + + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGDIWLDSELEPGEFRELSDEEI 227 >gi|320323233|gb|EFW79321.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. glycinea str. B076] gi|320329736|gb|EFW85725.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. glycinea str. race 4] gi|330881434|gb|EGH15583.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. glycinea str. race 4] Length = 408 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 116/374 (31%), Positives = 171/374 (45%), Gaps = 34/374 (9%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG V D I Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-VGQRVDLHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLD Sbjct: 63 SVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPARFT 182 Query: 176 QV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDA-------------PIYSSETLVRDRPNIISE 277 RE+S+ L ++G + + Q+N P+ E + RP + Sbjct: 243 REMSQYEVDILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVRTLRPAAGAP 302 Query: 278 VPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ------R 331 D Q G + + +R G + +D+ + R Sbjct: 303 ATGDRA---PRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTPVAER 359 Query: 332 EENHRRSPSFPSKR 345 + P+ P + Sbjct: 360 PSEMNKRPAKPGPK 373 >gi|229592262|ref|YP_002874381.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas fluorescens SBW25] gi|229364128|emb|CAY51757.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas fluorescens SBW25] Length = 403 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 112/369 (30%), Positives = 175/369 (47%), Gaps = 35/369 (9%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KD+N QE +++ KV+AR G+ SRR+VE I Q+R+KVNG+ V D I Sbjct: 4 KDQNDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQKRIKVNGVEAT-LGQRVDLHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 +DG +++ E R+ +Y+KP G + T DP+GR TVFD +P R I++GRLD Sbjct: 63 TIDGKVIKREEAAESVRRVIMYNKPDGEICTRDDPEGRPTVFDKMPKPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD + + LK G+V++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVVLEDGPAKFT 182 Query: 176 QVT-LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ +GP L L G Sbjct: 183 DIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDA-------------PIYSSETLVRD-RPNI-- 274 RE+S+ L ++G + Q+N + P+ +E + R RP + Sbjct: 243 REMSQYEVDILSAEVGLTPVAMPQMNAKSKDKLERMQRKSSRPVARTERVARTLRPALNA 302 Query: 275 ------ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDS 328 IS P + + + + + P SN A + + Sbjct: 303 PATGGRISREPQIEGERRPTAPSRQEGERAPRTPRPAPAGGR-SNRGEADRPADNASTKR 361 Query: 329 GQREENHRR 337 + ++R Sbjct: 362 PAKPAANKR 370 >gi|315633718|ref|ZP_07889008.1| ribosomal small subunit pseudouridine synthase A [Aggregatibacter segnis ATCC 33393] gi|315477760|gb|EFU68502.1| ribosomal small subunit pseudouridine synthase A [Aggregatibacter segnis ATCC 33393] Length = 234 Score = 267 bits (682), Expect = 2e-69, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 105/230 (45%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R + +++ Q V +NG + + A V D I DG L E Sbjct: 1 MRLDKFLAETTGLTRSQAAKVLRQSAVTINGKIEKSGAAKVSPDDEIYYDGERLTWVENG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + + HKP G + +H D D T++ S + S GRLD++T GL+LLT+DG + Sbjct: 61 QYIMLHKPQGYICSHEDGDH-PTIYQFFDYPLSTCLHSAGRLDVDTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y V V+ + +GI+++G L+ N V + Sbjct: 120 RITSPKHHYPKTYLVTLADPVEANYAQACAEGILLRGEKEPTKPAELEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G L L G R ++++ + Sbjct: 178 ISEGRYHQVKRMFAALGNKVVGLHRWKIGNLVLDDDLGEGEFRPLTEEEI 227 >gi|260582128|ref|ZP_05849922.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae NT127] gi|260094760|gb|EEW78654.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae NT127] Length = 357 Score = 267 bits (682), Expect = 2e-69, Method: Composition-based stats. Identities = 112/294 (38%), Positives = 153/294 (52%), Gaps = 12/294 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + + Sbjct: 66 KASNQPKVEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRI 125 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + + E R+ +Y+KP G + T SDP+GR+TVFD LP SR I+VGRLDIN Sbjct: 126 DGQIINLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPHLTGSRWIAVGRLDIN 185 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 186 TSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGPANFKEI 245 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ Sbjct: 246 KFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEM 305 Query: 237 SKK---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 + LRE +G L E + LD S + + R KK Sbjct: 306 DLENVNYLRELVG--LPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|188995083|ref|YP_001929335.1| ribosomal large subunit pseudouridine synthase B [Porphyromonas gingivalis ATCC 33277] gi|188594763|dbj|BAG33738.1| ribosomal large subunit pseudouridine synthase B [Porphyromonas gingivalis ATCC 33277] Length = 439 Score = 267 bits (682), Expect = 2e-69, Method: Composition-based stats. Identities = 64/242 (26%), Positives = 122/242 (50%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K + ++ + P R++K ++ AG+ SRRE + +I + + VNG ++ + D + Sbjct: 191 VKYREVLADPNEPIRLNKFLSNAGVCSRREADLLIEKGEITVNGEVVTELGRRITRQDEV 250 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTE 119 + E L +KP VTT DP+ R+TV D + + R+ VGRLD NT Sbjct: 251 IYKDKRVE-IESKVYVLLNKPKNCVTTSDDPECRTTVMDIVRYACPERIYPVGRLDRNTT 309 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LL+TNDG LA L PS + ++Y V + V + + + G+ + ++ Sbjct: 310 GVLLITNDGDLASKLTHPSFKKKKIYHVWLNKDVSIEDMQKIADGVELDDGEIHADAISY 369 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ + V + + G+NR ++++FE ++V +L R+ + L G R ++++ Sbjct: 370 -VKEDDLSQVGIEIHSGRNRIVRRLFEHLGYRVVKLDRVYFAGLTKKNLPRGKWRYLNEQ 428 Query: 240 IL 241 + Sbjct: 429 EV 430 >gi|148269796|ref|YP_001244256.1| pseudouridine synthase [Thermotoga petrophila RKU-1] gi|147735340|gb|ABQ46680.1| ribosomal small subunit pseudouridine synthase A [Thermotoga petrophila RKU-1] Length = 239 Score = 267 bits (682), Expect = 2e-69, Method: Composition-based stats. Identities = 70/248 (28%), Positives = 122/248 (49%), Gaps = 12/248 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +G+ +R+EV+++I Q RV VNG ++ +V D + +DG + R Sbjct: 1 MRLDRYLSNSGVGTRKEVKKLIKQGRVTVNGRVVLDPGHSVSENDVVVLDGETVNF-HRK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L+HKP G VT+ DP T+ + LP + VGRLD + EGLL++T+DG A Sbjct: 60 VYILFHKPSGYVTSTKDP-HSETIMEFLPP-LKGIFPVGRLDKDAEGLLIITSDGDFAHR 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V+ G+V +DK+ LK G+ ++ + + +K SN + + + Sbjct: 118 VISPKWSVEKEYIVKVEGEVTEDKIEKLKNGVTLRDGFFAKAKC---VEKLSNDTLKIVI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHLLEE 252 EGK +IK++ + L R G L + G R +S++ ++ + E Sbjct: 175 TEGKYHQIKRMTVAVGLRTVHLKRTRIGRLVLPEDMKPGEYRFLSEEEVK-----KVFER 229 Query: 253 AQVNLDAP 260 D P Sbjct: 230 EDQKEDTP 237 >gi|237736761|ref|ZP_04567242.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium mortiferum ATCC 9817] gi|229420623|gb|EEO35670.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium mortiferum ATCC 9817] Length = 236 Score = 267 bits (682), Expect = 2e-69, Method: Composition-based stats. Identities = 72/233 (30%), Positives = 129/233 (55%), Gaps = 3/233 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K +A G+ SRRE++++I + +++VNG ++ A V V D IEV G + K Sbjct: 1 MEEIRINKYLASLGVGSRREIDKLIEEGKIRVNGEVI-SAGVKVTDKDIIEVKGKKISKD 59 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ ++ +KP+ ++++ D GR TV D + R+ +GRLD NT GL+LLTNDG Sbjct: 60 IEKKVYYMLNKPLEVLSSAKDDRGRKTVVDIV-KCKERIFPIGRLDYNTTGLILLTNDGE 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + P ++ + Y V+ G++ + L+ G+ ++ V L +++ + + Sbjct: 119 LFNRVIHPRSEVYKEYYVKVLGEIKDSSIKKLEDGVELEDGITLPAYVKLISRERGKSEL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V +REG+NR+++++ E N V L R G LG L G RE+++ ++ Sbjct: 179 MVSIREGRNRQVRRMLEAVNTPVLVLRRERIGKLSLGKLKVGEYRELTESEVK 231 >gi|303256973|ref|ZP_07342987.1| ribosomal large subunit pseudouridine synthase B [Burkholderiales bacterium 1_1_47] gi|302860464|gb|EFL83541.1| ribosomal large subunit pseudouridine synthase B [Burkholderiales bacterium 1_1_47] Length = 355 Score = 267 bits (682), Expect = 3e-69, Method: Composition-based stats. Identities = 102/316 (32%), Positives = 151/316 (47%), Gaps = 13/316 (4%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 ++ F +++ KV+A AGI SRR++E IA+ R+ VNG V +D I DG Sbjct: 45 KLLTAPFANEKLHKVLADAGIGSRRDMEERIAEGRISVNGEPA-HVGQRVTPSDVIRFDG 103 Query: 65 VPLRK-----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINT 118 +R+ + ++ +YHKP G + + DP+GR TVFD+LP I +R I+VGRLD NT Sbjct: 104 RIVRRSALENNDVPKVLIYHKPAGEIVSKDDPEGRPTVFDHLPRIGGARWIAVGRLDFNT 163 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLLL T+ G LA L P + R Y VR G + + + L KGI + + Sbjct: 164 EGLLLFTDSGNLANFLMHPRHEIEREYAVRVQGTMSPEAKDKLLKGIKLDDGIAKFTTLE 223 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 KG N W V L EG+NRE++++FE V+RLIR+ YG +L L G TR +S Sbjct: 224 EGGGKGFNRWYNVTLSEGRNREVRRMFEAVGLPVSRLIRVKYGNLELPSDLPRGKTRRMS 283 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + + L ++ AP T + P + + S Sbjct: 284 TEETEKWLDSISYKKGMSTAPAPRAPERTPRPAASRAPASAPKAGRKFGQRD-----TSS 338 Query: 298 QKKLATPVHRRNLASN 313 + + P+ R Sbjct: 339 AIRSSRPMRSRGTRGP 354 >gi|293414601|ref|ZP_06657250.1| 23S rRNA pseudouridylate synthase B [Escherichia coli B185] gi|291434659|gb|EFF07632.1| 23S rRNA pseudouridylate synthase B [Escherichia coli B185] Length = 311 Score = 267 bits (682), Expect = 3e-69, Method: Composition-based stats. Identities = 107/311 (34%), Positives = 151/311 (48%), Gaps = 23/311 (7%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHI 60 K + + +++ KV+ARAG SRRE+E +I RV V+G + + V V I Sbjct: 12 PGKATPKGSSMSEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKI 71 Query: 61 EVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLD 115 +DG + E R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD Sbjct: 72 RIDGHLISVRESAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLD 131 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 +NT GLLL T DG LA L PS + R Y VR GQVD KL L +G+ ++ Sbjct: 132 VNTCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFK 191 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTR 234 + +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G Sbjct: 192 TIKFSGGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWT 251 Query: 235 EVS---KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 E+ LRE V L S + +DR + + R K SQ Sbjct: 252 ELDLAQTNYLREL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQ 298 Query: 292 KNGLSKQKKLA 302 +G + Sbjct: 299 VSGGRRSGGRN 309 >gi|227111426|ref|ZP_03825082.1| 23S rRNA pseudouridylate synthase B [Pectobacterium carotovorum subsp. brasiliensis PBR1692] Length = 294 Score = 267 bits (682), Expect = 3e-69, Method: Composition-based stats. Identities = 107/304 (35%), Positives = 151/304 (49%), Gaps = 23/304 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEGIIQAGRVSVDGKIATLGDRVEVTKATKIRIDGHVVTVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ +Y+KP G + T +DPDGR TVFD LP SR ++VGRLD+NT GLLL T Sbjct: 62 TEESVCRVLMYYKPEGELCTRNDPDGRPTVFDRLPKIQGSRWVAVGRLDVNTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G+VD +K+ L KG+ + + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGEVDDEKIKQLSKGVQLDDGPASFRTIRYQGGEGLN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L + G E+ + LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDITLPKGIPRGGWTEMPLEQLNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L A S + R+R + + R K SQ N ++ Sbjct: 242 EL----------VQLPAETVSKLPVERERRRVKAN---QIRRAVKRHSQINTAPARRTSP 288 Query: 303 TPVH 306 P Sbjct: 289 KPKR 292 >gi|332298353|ref|YP_004440275.1| pseudouridine synthase Rsu [Treponema brennaborense DSM 12168] gi|332181456|gb|AEE17144.1| pseudouridine synthase Rsu [Treponema brennaborense DSM 12168] Length = 257 Score = 267 bits (682), Expect = 3e-69, Method: Composition-based stats. Identities = 81/245 (33%), Positives = 120/245 (48%), Gaps = 7/245 (2%) Query: 5 NIVQENFTPQ--RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 N + P+ R+ +A G+ASRR E IA RV VNG ++ V+ D + V Sbjct: 13 NSSADQSQPESLRLQVYLAHCGVASRRSCETYIADGRVSVNGTVVTVPGTKVLPDDTVCV 72 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGL 121 DG + E R L +KP G V + SD GR T L P R+ +VGRLD+ + GL Sbjct: 73 DGKRVTLEETKRYVLLNKPAGFVCSLSDEKGRQTAASLLEPHYSERLYNVGRLDMFSAGL 132 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 +L TNDG A + PS++ + Y V V KGI + + Y Sbjct: 133 VLFTNDGEFAARVSHPSSEMEKEYVVDTSLPVPPALAEKFVKGIRVDNVFYRCKSA---- 188 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++ ++ + + L EGKNREI++VFE FN V +L+RI G + L G R+++ + Sbjct: 189 ERLNSRRMRIVLIEGKNREIRRVFEAFNIGVKQLVRIRIGNLNIQGLGPGEFRDLTAAEV 248 Query: 242 REQLG 246 + L Sbjct: 249 ADILA 253 >gi|197284712|ref|YP_002150584.1| 16S rRNA pseudouridylate synthase A [Proteus mirabilis HI4320] gi|194682199|emb|CAR41885.1| ribosomal small subunit pseudouridine synthase A [Proteus mirabilis HI4320] Length = 234 Score = 267 bits (682), Expect = 3e-69, Method: Composition-based stats. Identities = 55/229 (24%), Positives = 102/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + V ++G +++ A + + DG L + Sbjct: 1 MRLDKFLSQQLGISRNLVARELRAGLVTIDGEMVKTGATKITPEQEVAYDGNVLTQILGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KPIG V + DP + ++ + ++ + GRLDI+T GL+LLT++G + Sbjct: 61 RYFMLNKPIGYVCSTDDPVNPTILYFIDEPLAHKLHAAGRLDIDTTGLVLLTDNGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D K G+ + G TL+ + V + + Sbjct: 121 ITAPKHHCEKTYVVTLEQPIATDVAEKFKTGVQLNGEKELTKPATLEV--ITPTEVKLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EGK ++K++F V L R G L L G R ++++ + Sbjct: 179 SEGKYHQVKRMFAAVGNHVVALHRERIGDITLDDALAPGEYRPLTEEEI 227 >gi|83590579|ref|YP_430588.1| ribosomal small subunit pseudouridine synthase A [Moorella thermoacetica ATCC 39073] gi|83573493|gb|ABC20045.1| ribosomal small subunit pseudouridine synthase A [Moorella thermoacetica ATCC 39073] Length = 243 Score = 267 bits (682), Expect = 3e-69, Method: Composition-based stats. Identities = 79/242 (32%), Positives = 132/242 (54%), Gaps = 11/242 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 QR+ +V+A G +R+ ++++I ++RV+VNG E ++V+ D+IEV+G PL Sbjct: 5 ERQRLDRVLAHMGFGTRKMIKKLIKEKRVQVNGRPAEDPGLHVIPGRDYIEVNGEPLVYE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDG 128 E + +KP G+++ D + V D LP + VGRLD + EGLLLLTNDG Sbjct: 65 E-YIYLMLNKPQGVLSATEDRYAK-VVVDLLPPRYRAFHPFPVGRLDKDAEGLLLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNA 187 LA L P ++Y G V + + ++GI++ G ++T+ + G+ + Sbjct: 123 ELAHRLLSPKKHVSKMYYAVVDGIVTETDVEAFRQGIILNDGYRTMPGELTIL-RSGTES 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI---LRE 243 V + + EGK ++K++FE + +V L RI+ GP +L L G RE++++ LRE Sbjct: 182 EVELTIYEGKYHQVKRMFEAVSKRVLYLKRIAMGPLRLDELLRPGEYRELTEEEIIKLRE 241 Query: 244 QL 245 L Sbjct: 242 LL 243 >gi|50121219|ref|YP_050386.1| 23S rRNA pseudouridylate synthase B [Pectobacterium atrosepticum SCRI1043] gi|49611745|emb|CAG75194.1| putative RNA pseudouridylate synthase [Pectobacterium atrosepticum SCRI1043] Length = 294 Score = 267 bits (682), Expect = 3e-69, Method: Composition-based stats. Identities = 109/307 (35%), Positives = 155/307 (50%), Gaps = 25/307 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIQAGRVSVDGKIATLGDRVEVTKATKIRIDGHVVTVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ +Y+KP G + T +DPDGR TVFD LP SR ++VGRLD+NT GLLL T Sbjct: 62 TEETVCRVLVYYKPEGELCTRNDPDGRPTVFDRLPKIQGSRWVAVGRLDVNTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G+VD +K+ L KG+ ++ + +G N Sbjct: 122 DGELANRLMHPSHEVEREYAVRVFGEVDDEKIKQLSKGVQLEDGPASFRTICYQGGEGLN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L + G E+ + LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDITLPKGIPRGGWTEMPLEQLNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L A S + R+R + + R K SQ S + Sbjct: 242 EL----------VQLPAETVSKLPVERERRRVKAN---QIRRAVKRHSQI--SSAPARRT 286 Query: 303 TPVHRRN 309 +P +RN Sbjct: 287 SPKSKRN 293 >gi|238786255|ref|ZP_04630200.1| Ribosomal large subunit pseudouridine synthase F [Yersinia bercovieri ATCC 43970] gi|238712846|gb|EEQ04913.1| Ribosomal large subunit pseudouridine synthase F [Yersinia bercovieri ATCC 43970] Length = 290 Score = 267 bits (682), Expect = 3e-69, Method: Composition-based stats. Identities = 68/294 (23%), Positives = 135/294 (45%), Gaps = 12/294 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 + R++K I+ +GI SRR+ +R I Q V +NG V V + D ++V+G + Sbjct: 5 SSIRLNKYISESGICSRRDADRYIEQGNVFINGKRAT-VGVQVSAGDVVKVNGQIIEPRN 63 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L +KP+G+++T D + + V + + RV +GRLD +++GL+LLTN G Sbjct: 64 EEDLILIALNKPVGVISTTEDGEQNNIV--DFVNHSKRVFPIGRLDKDSQGLILLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + V + + L G+ + G +V + + Sbjct: 122 LVNKILRAGNDHEKEYVVTVNKPVTDEFILGLGAGVPMLGTVTKKCKVK----REATFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ + F ++V +L R+ L L G R++++ L E L Sbjct: 178 RITLVQGLNRQIRRMCKHFGYEVTKLERVRIMNISLKGLPQGEWRDLTEDELIELF--KL 235 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 +E + + + P+ + + + P + N++ + ++ + Sbjct: 236 IENSSSD-EKPVKKAPVKAVEAKRVSISGPKKTEKPDGNAASRKRFAQPGRKKK 288 >gi|325520892|gb|EGC99873.1| ribosomal large subunit pseudouridine synthase B [Burkholderia sp. TJI49] Length = 328 Score = 267 bits (682), Expect = 3e-69, Method: Composition-based stats. Identities = 90/273 (32%), Positives = 144/273 (52%), Gaps = 6/273 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 38 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRI 96 Query: 63 DGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINT 118 +G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NT Sbjct: 97 NGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNT 156 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 157 EGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELTEASRQKLLHGVELDDGPANFLRIR 216 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 217 DGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELE 276 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRD 270 + +R+ + L+ +E D Sbjct: 277 EAQVRKLMATVGLKAPSEEKGRRGGETERRQPD 309 >gi|315166874|gb|EFU10891.1| conserved hypothetical protein [Enterococcus faecalis TX1341] Length = 257 Score = 267 bits (682), Expect = 3e-69, Method: Composition-based stats. Identities = 76/255 (29%), Positives = 124/255 (48%), Gaps = 10/255 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEILTY-QKFFYYMLHKPQGVISATED-QRNETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQ 176 TEGLLLLTNDG LA L P + Y G V + L +G + G + Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSR 178 Query: 177 VTLDT--QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + ++T ++ + V + ++EGK ++K++ V L R+ G L TL G Sbjct: 179 LVIETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEY 238 Query: 234 REVSKKILREQLGPH 248 R +++ L +QL P Sbjct: 239 RPLTEAEL-QQLQPK 252 >gi|270262113|ref|ZP_06190385.1| ribosomal large subunit pseudouridine synthase B [Serratia odorifera 4Rx13] gi|270043989|gb|EFA17081.1| ribosomal large subunit pseudouridine synthase B [Serratia odorifera 4Rx13] Length = 298 Score = 267 bits (682), Expect = 3e-69, Method: Composition-based stats. Identities = 108/310 (34%), Positives = 156/310 (50%), Gaps = 23/310 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V ++ I +DG L E Sbjct: 2 SEKLQKVLARAGHGSRREIETIIEAGRVSVDGKVAKLGDRVEVTASMKIRLDGHVLSIKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T SDP+GR TVFD LP SR ++VGRLD+NT GLLL T Sbjct: 62 SEETVCRVLAYYKPEGELCTRSDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQ+D +K+ L KG+ ++ +T +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQIDDEKVKQLSKGVQLEDGPAAFRTITFQGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK---KILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIDLPKGLPRGGWTELELPAINYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + R+R + + R K +Q G ++ Sbjct: 242 EL----------VELKPETVSKMPVERERRRVKAN---QIRRAVKRHTQVAGSGRRSAPG 288 Query: 303 TPVHRRNLAS 312 + + + S Sbjct: 289 SKSGKPSKRS 298 >gi|261821191|ref|YP_003259297.1| 16S rRNA pseudouridylate synthase A [Pectobacterium wasabiae WPP163] gi|261605204|gb|ACX87690.1| pseudouridine synthase [Pectobacterium wasabiae WPP163] Length = 231 Score = 267 bits (682), Expect = 3e-69, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 111/229 (48%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + QRV V+G +++ A + ++E DG PL++ Sbjct: 1 MRLDKFLSQQLEISRSLVARELHAQRVTVDGEVVKSGAFKLSPEHNVEFDGNPLKQQSGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTILYFMDVPVAYKLHAAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y V + +D G+ + +L+ K ++ V + + Sbjct: 121 ITSPKHECEKTYLVTLEQPLAEDTAAQFTAGVQLHSEKNLTKPASLE--KVTDYVVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L L G RE+S + + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGGISLDSELEPGEYRELSAEEV 227 >gi|213963701|ref|ZP_03391952.1| ribosomal large subunit pseudouridine synthase B [Capnocytophaga sputigena Capno] gi|213953696|gb|EEB65027.1| ribosomal large subunit pseudouridine synthase B [Capnocytophaga sputigena Capno] Length = 410 Score = 267 bits (682), Expect = 3e-69, Method: Composition-based stats. Identities = 73/243 (30%), Positives = 123/243 (50%), Gaps = 5/243 (2%) Query: 2 KDKNIVQENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + I TP R++K IA AGI SRR + I+ V VNG ++ V TD Sbjct: 163 NNAPIDYPTVTPAEVRLNKYIADAGICSRRNADMYISSGNVTVNGEVMTTLGYRVKPTDE 222 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINT 118 + DG L +E+ L +KP G +TT +D GR TV D + + +R++ VGRLD T Sbjct: 223 VRFDGKLLS-SEKKEYILLNKPKGFITTTNDEKGRKTVMDLVANATSARILPVGRLDRAT 281 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLLLTNDG L + L P+ ++Y V ++D ++ G+ ++ +++ Sbjct: 282 TGLLLLTNDGELTKKLTHPTHGVRKIYHVILDRKLDYKDFMKIQDGLELEDGFIEVDEIS 341 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 K N + + + G+NR ++++FE ++V +L R+ + L G R +++ Sbjct: 342 YVNDKPKN-EIGIKIHSGRNRIVRRIFEHLGYQVEKLDRVVFAGLTKKDLPRGHWRRLTQ 400 Query: 239 KIL 241 + + Sbjct: 401 QEV 403 >gi|229013752|ref|ZP_04170880.1| RNA pseudouridine synthase [Bacillus mycoides DSM 2048] gi|228747421|gb|EEL97296.1| RNA pseudouridine synthase [Bacillus mycoides DSM 2048] Length = 229 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 64/234 (27%), Positives = 115/234 (49%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVTINGEICTHGAI-VSDGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T ++ + D + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAE-HIEDNIIDYI-DYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVNQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L AG R+++ K L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEAGKWRDITPKELEILIG 227 >gi|152977062|ref|YP_001376579.1| pseudouridine synthase [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|152025814|gb|ABS23584.1| pseudouridine synthase [Bacillus cytotoxicus NVH 391-98] Length = 242 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 112/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ V+++G ++ A +V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVRIDGKPVKDAKFHVNIEKQEVTIYGEVVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEGLLLLTNDG L Sbjct: 60 FVYLMMHKPQGVISATED-DHHETVVDLLEFEDAIFNPFPVGRLDIDTEGLLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P + Y G V + + KG+V+ G ++T+ + + Sbjct: 119 THQLLSPKKHVPKKYYAHIEGVVTEKDVEDFAKGVVLDDGYETKPGELTILNSD-DISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R+ GP L L G RE++ + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRVEMGPLTLDEELELGQYRELTDEEVE 231 >gi|325830888|ref|ZP_08164272.1| pseudouridine synthase B, ribosomal large subunit [Eggerthella sp. HGA1] gi|325487295|gb|EGC89738.1| pseudouridine synthase B, ribosomal large subunit [Eggerthella sp. HGA1] Length = 301 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 80/269 (29%), Positives = 120/269 (44%), Gaps = 33/269 (12%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPL 67 + P R+ K +ARAG ASRR E ++ RV VNG ++ V D + VDG + Sbjct: 25 DRVVPMRLQKFLARAGAASRRGSENLMTAGRVTVNGKVVTELGSKVDPLVDEVAVDGAVV 84 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTN 126 R A+ + HKP G VTT SDP GR TV + +P + + +GRLD +T GLLL + Sbjct: 85 RLADGPVTIMLHKPAGFVTTMSDPQGRRTVAELVPTERYPGLFPIGRLDFDTTGLLLFST 144 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------- 179 DG L L P + Y G+ + L LL++GI + V + Sbjct: 145 DGELGNGLLHPKHHVTKRYLACVEGRPTERDLALLRRGIELDDGPTQPADVRMVEGGAAR 204 Query: 180 ------------------------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRL 215 + + + V +G+REG+ R++K++ V L Sbjct: 205 HAERLLEIPAAVPPRSSKEYAAVCEGRATRRSIVRLGIREGRKRQVKRMLAAVGHPVLAL 264 Query: 216 IRISYGPFQLGTLLAGSTREVSKKILREQ 244 R S+GP +LG L GS R + + + Sbjct: 265 HRDSFGPLELGDLPRGSWRALDAEEVAAL 293 >gi|294645459|ref|ZP_06723160.1| pseudouridylate synthase [Bacteroides ovatus SD CC 2a] gi|292639160|gb|EFF57477.1| pseudouridylate synthase [Bacteroides ovatus SD CC 2a] Length = 320 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 114/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 72 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 131 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 132 KFHDEPVS-IERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTT 190 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V + + + + GI ++ ++ Sbjct: 191 GVLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIHADAISY 250 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 251 -TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEA 309 Query: 240 IL 241 + Sbjct: 310 EV 311 >gi|183599526|ref|ZP_02961019.1| hypothetical protein PROSTU_03005 [Providencia stuartii ATCC 25827] gi|188021773|gb|EDU59813.1| hypothetical protein PROSTU_03005 [Providencia stuartii ATCC 25827] Length = 234 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 60/236 (25%), Positives = 105/236 (44%), Gaps = 3/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +V V+ +++ AV V + +G L Sbjct: 1 MRLDKFLSQQLGISRSLVARELRAGKVTVDDEIVKSGAVQVSPEQVVAYEGSVLVHVTGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V + DP + ++ + ++ S GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLHKPQGYVCSTDDPAHPTILYFIDEPLADKLHSAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + YRV + D +G+++ G Y L+ S V + + Sbjct: 121 ITSPKHHCEKTYRVELENDIADDVAKRFAEGVMLNGEKYPTKPAQLEV--ISPKEVLLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 EG+ ++K++F V L R G L L G RE+++ + + P Sbjct: 179 SEGRYHQVKRMFAAVGNHVCGLHRERIGDIWLDDDLAPGEYRELTEDEINSVIVPR 234 >gi|322832033|ref|YP_004212060.1| pseudouridine synthase [Rahnella sp. Y9602] gi|321167234|gb|ADW72933.1| pseudouridine synthase [Rahnella sp. Y9602] Length = 235 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 54/229 (23%), Positives = 106/229 (46%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV V+G +++ ++ + +E DG L + Sbjct: 1 MRLDKFLSQQLGVSRALVLRELRNKRVTVDGEIVKTGSMKISPEQRVEFDGNVLDQITGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLEEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D + G+ + L+ K + V + L Sbjct: 121 ITSPRHHCEKTYLVTLEHPLADDTAAQFEAGVQLHNEDSLTKPAQLE--KIEDCLVRLTL 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G + L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVALHRERIGEIVMDEDLEPGQYRPLTEQEV 227 >gi|300717592|ref|YP_003742395.1| ribosomal small subunit pseudouridine synthase A [Erwinia billingiae Eb661] gi|299063428|emb|CAX60548.1| Ribosomal small subunit pseudouridine synthase A [Erwinia billingiae Eb661] Length = 234 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 56/236 (23%), Positives = 103/236 (43%), Gaps = 3/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR R + +V V+G ++ + A + + +E DG PL Sbjct: 1 MRLDKFLSQQLEISRAIALRELRAHKVTVDGEVVRQGAFKLKPENQVEYDGNPLHLQFGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLEEPTAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + Y TL+ S V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPLADDTAAQFTAGVQLHNEKYLTKPATLEV--VSECQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 EG+ ++K++F V L R G + L G R ++ + + + P Sbjct: 179 SEGRYHQVKRMFAAVGNHVVALHRERIGAIVMDEDLGEGEYRPLTAEEIASVVVPR 234 >gi|110803415|ref|YP_699574.1| ribosomal large subunit pseudouridine synthase f [Clostridium perfringens SM101] gi|110683916|gb|ABG87286.1| RNA pseudouridine synthase family protein [Clostridium perfringens SM101] Length = 298 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 68/261 (26%), Positives = 129/261 (49%), Gaps = 12/261 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + +KN +++ R++K I+ G SRRE +++I Q RVK++G+ + V + Sbjct: 50 VSNKNEIRDEV---RLNKYISETGFCSRREADKLIEQGRVKIDGVKATT-GMKVSKGQSV 105 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +DG PL+ + +KP+G+ T ++ + + D + + R+ +GRLD +++G Sbjct: 106 FIDGKPLKVENELVYIVLNKPVGITCT-TESKIKGNIVDFI-NHEKRIFPIGRLDKDSQG 163 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+ +TNDG + + + Y V + + + + + G+ I G V + Sbjct: 164 LIFMTNDGDIVNKILRAGNNHEKEYIVTVNKPITDEFIKGMSNGVPILGTVTKKCLVKKE 223 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + L +G NR+I+++ E+F ++V +L RI LG L GS R ++KK Sbjct: 224 SKNS----FRIILTQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKIGSWRYLTKKE 279 Query: 241 LREQLGPHLLEEAQVNLDAPI 261 L E L E + +A I Sbjct: 280 LAEI--NRLTENSSKTEEASI 298 >gi|227326052|ref|ZP_03830076.1| 23S rRNA pseudouridylate synthase B [Pectobacterium carotovorum subsp. carotovorum WPP14] Length = 294 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 110/307 (35%), Positives = 156/307 (50%), Gaps = 25/307 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEVIIQAGRVSVDGKIATLGDRVEVTKATKIRIDGHVVTVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ +Y+KP G + T +DPDGR TVFD LP SR ++VGRLD+NT GLLL T Sbjct: 62 TEESVCRVLMYYKPEGELCTRNDPDGRPTVFDRLPKIQGSRWVAVGRLDVNTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G+VD +K+ L KG+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGEVDDEKIKQLSKGVQLEDGPASFRTIRYQGGEGLN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L + G E+ + LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDITLPKGIPRGGWTEMPLEQLNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L A S + R+R + + R K SQ N S + Sbjct: 242 EL----------VQLPAETVSKLPVERERRRVKAN---QIRRAVKRHSQIN--SAPARRT 286 Query: 303 TPVHRRN 309 +P +RN Sbjct: 287 SPKPKRN 293 >gi|167719822|ref|ZP_02403058.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei DM98] Length = 399 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 93/306 (30%), Positives = 151/306 (49%), Gaps = 8/306 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 97 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 155 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 156 GKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTE 215 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 216 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRIRD 275 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 276 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 335 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +R + L+ D R +P+ + R ++ + Sbjct: 336 AQVRRLMSTVGLKA--PTEDKGGKRGGPAERRQPDPMQTSMGFINREPVLTTHGQLDQPR 393 Query: 299 KKLATP 304 + P Sbjct: 394 RGRRGP 399 >gi|124515286|gb|EAY56796.1| Pseudouridine synthase, Rsu [Leptospirillum rubarum] Length = 616 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 96/348 (27%), Positives = 161/348 (46%), Gaps = 12/348 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPL 67 + R+ K++A G+ASRR E MI VKVNGI++ V TD + VDG + Sbjct: 13 DEDGLIRLQKLLAHRGLASRRNAEEMIRGGLVKVNGIVVTVPGTKVHPETDRVTVDGKTV 72 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L+L++KP G+V+T DPD ++T+ D P I + VGRLDI +EG+LLLTN+ Sbjct: 73 PVEPEPFLFLFYKPKGIVSTLHDPDEKTTLKDFFPQINPLIH-VGRLDIQSEGVLLLTNN 131 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSN 186 G LA+ + P + R Y V+ G V + L+ L+ G + + G +++ + +N Sbjct: 132 GDLAQRILHPRYEIPRTYLVKVQGVVKPEHLDRLRSGKVRLDGRPVQPLELEQERLTETN 191 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +W + L EG+NRE++++F+ ++ V +L RI++G L L G R V+ + + L Sbjct: 192 SWYRITLTEGRNREVRRLFDALHYFVLKLTRIAFGNLDLAGLEPGEYRLVTPEEIALLLS 251 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + S P + +++S + S + + P Sbjct: 252 GARWKRKE---------SIPPPERSPRKPNPATPSSPDFRRHSFRSRTTSPDRTFSGPAD 302 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 G D+ R + S F + R R+ K+ Sbjct: 303 GDQEEDPFPRQTGQGHRSRPDTRSRGLSQSDSERFFNGRPRHRSDNKQ 350 >gi|311279823|ref|YP_003942054.1| pseudouridine synthase [Enterobacter cloacae SCF1] gi|308749018|gb|ADO48770.1| pseudouridine synthase [Enterobacter cloacae SCF1] Length = 299 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 105/309 (33%), Positives = 153/309 (49%), Gaps = 23/309 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MI RV V+G + V + I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESMIEAGRVSVDGKIATLGDRVEITPGLKIRIDGHLISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SVEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD +K+ L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDNKVRELARGVQLEDGPAAFKTIKFTGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E + E++V ++ +DR + + R K SQ N + Sbjct: 242 ELVELKPETESKVAVE----------KDRRRMKAN---QIRRAVKRHSQVNSKPARSTGR 288 Query: 303 TPVHRRNLA 311 R + + Sbjct: 289 RASSRNSGS 297 >gi|291618129|ref|YP_003520871.1| RsuA [Pantoea ananatis LMG 20103] gi|291153159|gb|ADD77743.1| RsuA [Pantoea ananatis LMG 20103] Length = 239 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 64/241 (26%), Positives = 106/241 (43%), Gaps = 3/241 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I++ SR R I QRV VNG ++ A + +E DG L+ Sbjct: 1 MRLDKFISQQLEISRAIAAREIRGQRVTVNGDVVRDTAFKLQPDHEVEYDGNVLQMQTGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + V+ + ++ + GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTIVYFIEEPMAFKLHAAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + YRV V D G+ + L+ + V + L Sbjct: 121 ITSPRHHCEKTYRVTLEAPVSDDTAAQFSAGVQLHNEKSLTKPAQLEV--ITPTEVLLTL 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLLEE 252 EG+ ++K++F +V L R G L L G R ++++ + P L++ Sbjct: 179 SEGRYHQVKRMFAAVGNRVVGLHRERIGEIVLDEALEPGEYRPLTEEEIASIGLPDELKQ 238 Query: 253 A 253 Sbjct: 239 K 239 >gi|88798249|ref|ZP_01113835.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Reinekea sp. MED297] gi|88779025|gb|EAR10214.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Reinekea sp. MED297] Length = 282 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 101/278 (36%), Positives = 150/278 (53%), Gaps = 10/278 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+ KV+A+AG SRRE+ER I RV+VNG + + V D + +DG + Sbjct: 2 TMSEERIQKVLAKAGQGSRREMERAIESGRVQVNGEVAK-LGDKVSEKDELRLDGKKISV 60 Query: 70 AERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTN 126 R+ +Y+KP G + T DP+GR TVFD LP I R I+VGRLDINT GLLL TN Sbjct: 61 EAEKVRRVLIYNKPEGEICTRKDPEGRHTVFDRLPRIPGERWIAVGRLDINTSGLLLFTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS Q R Y VR G V Q+ ++ + +G+ ++ V KGSN Sbjct: 121 DGELANRLMHPSHQIEREYAVRVLGDVQQENIDAMCEGVELEDGPAKFTDVQFFDGKGSN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ- 244 W V + EG+NRE+++++E ++V+RL R+ YG L + AG+ +E++KK + + Sbjct: 181 LWFHVVIMEGRNREVRRLWESQGFQVSRLKRVRYGSVFLDSDVRAGTWQEMAKKDIDQLA 240 Query: 245 ----LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEV 278 L P + + P+ R R ++ Sbjct: 241 KTVDLAPAPWKSIVKHKRDPMKRKMEKQRTRRSVGKTS 278 >gi|297170719|gb|ADI21742.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [uncultured actinobacterium HF0130_15N16] Length = 239 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 78/238 (32%), Positives = 127/238 (53%), Gaps = 6/238 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + E +R+ K ++RAG+ASRR E MI RV +N + V TD IE+DG+P Sbjct: 1 MTEEEPLERLQKALSRAGVASRRVSEGMIEAGRVTINRRVAT-VGDRVSVTDRIELDGIP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + +L +KP+G+V+T DP R TV D + S R+ VGRLD ++EGL++LTN Sbjct: 60 VIRDPDLVHYLLNKPVGVVSTSKDPQKRRTVVDLV-SSNERIFPVGRLDADSEGLIILTN 118 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L L PS + Y V G + L LL++G+ ++ C V + + Sbjct: 119 DGELTHRLTHPSFGVSKEYLVHVEGVPSRSSLRLLREGVELEDGCTAPANVAM----PQD 174 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + + EG+NR+++++ V RL+R+ G + +L G+ R +S + +R Sbjct: 175 GVMRITIHEGRNRQVRRMCAAIGHPVQRLVRVRIGSIKDPSLRVGTARRLSVEEVRSL 232 >gi|152967064|ref|YP_001362848.1| pseudouridine synthase [Kineococcus radiotolerans SRS30216] gi|151361581|gb|ABS04584.1| pseudouridine synthase [Kineococcus radiotolerans SRS30216] Length = 322 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 77/238 (32%), Positives = 119/238 (50%), Gaps = 1/238 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 + R+ KV+A+AG SRR E MIA RV V+G ++ V + T + VDG+ Sbjct: 81 DPEGVRLQKVLAQAGAGSRRACEEMIAAGRVTVDGEVVTELGVRIDPTRQVVHVDGMRFS 140 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + +KP G+V+T D +GR + D + R+ VGRLD+ TEGL+LLTNDG Sbjct: 141 IDDELVYIMVNKPKGVVSTMYDEEGRLNLADMVGPREERLFHVGRLDLETEGLILLTNDG 200 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L+ PS + Y G V +D L+ GI + L K A Sbjct: 201 ALTHRLQHPSFGVQKTYLAEVRGPVKRDLGRNLRAGIELDDGPVSVDSFKLVDSKPGYAL 260 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 V V L EG+ ++++ E + V +L+R+ GP LG L G R +++ +++ + Sbjct: 261 VEVVLHEGRKHIVRRMLEAEGYPVLKLVRVQMGPIVLGDLKPGKNRRLTRGEVQQLMA 318 >gi|294806727|ref|ZP_06765554.1| pseudouridylate synthase [Bacteroides xylanisolvens SD CC 1b] gi|294446009|gb|EFG14649.1| pseudouridylate synthase [Bacteroides xylanisolvens SD CC 1b] Length = 319 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 114/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 71 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 130 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 131 KFHDEPVS-IERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTT 189 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V + + + + GI ++ ++ Sbjct: 190 GVLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIHADAISY 249 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 250 -TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEA 308 Query: 240 IL 241 + Sbjct: 309 EV 310 >gi|162147095|ref|YP_001601556.1| ribosomal large subunit pseudouridine synthase B [Gluconacetobacter diazotrophicus PAl 5] gi|209544155|ref|YP_002276384.1| RNA-binding S4 domain-containing protein [Gluconacetobacter diazotrophicus PAl 5] gi|161785672|emb|CAP55243.1| putative ribosomal large subunit pseudouridine synthase B [Gluconacetobacter diazotrophicus PAl 5] gi|209531832|gb|ACI51769.1| RNA-binding S4 domain protein [Gluconacetobacter diazotrophicus PAl 5] Length = 264 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 131/232 (56%), Positives = 167/232 (71%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +AR+G+ASRR+ ER++ + RV++NG + A V + D ++V+G + ERT Sbjct: 21 ERIAKWLARSGVASRRDAERLVEEGRVRLNGEPVTHPATFVAAGDIVQVNGAVVEAPERT 80 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW YHKP GLVTTH DP+ R TVF +LP RVISVGRLD+N+EGLLLLTNDG LAR Sbjct: 81 RLWRYHKPDGLVTTHRDPEKRPTVFASLPPGMPRVISVGRLDLNSEGLLLLTNDGELARR 140 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELPS WLR YRVR G VD+ +L L G V +G+ YG ++ LD++KG NAW+TV L Sbjct: 141 LELPSNGWLRRYRVRVFGVVDEARLAALAGGSVFEGVRYGPIEAGLDSRKGDNAWLTVAL 200 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 REGKNRE++KV N V+RLIR SYGPFQLGTL EV K+LREQ+ Sbjct: 201 REGKNREVRKVMRGLNLHVSRLIRTSYGPFQLGTLQRSELEEVPGKVLREQV 252 >gi|257438983|ref|ZP_05614738.1| ribosomal large subunit pseudouridine synthase B [Faecalibacterium prausnitzii A2-165] gi|257198568|gb|EEU96852.1| ribosomal large subunit pseudouridine synthase B [Faecalibacterium prausnitzii A2-165] Length = 294 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 85/277 (30%), Positives = 138/277 (49%), Gaps = 3/277 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--R 68 +R+ K++A G+ SRR E++IA+ RVKVNG ++ + D + VD + + Sbjct: 18 MAEERIQKIMAEQGLCSRRAAEQIIAEGRVKVNGHPVKVGDKMDPNRDVLHVDDERIYIQ 77 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 K ++ +KP G VTT SD GR TV + + I +R+ VGRLD ++EGLLL+TNDG Sbjct: 78 KNQQLYYLALYKPRGYVTTASDELGRKTVMELVSDIPARLYPVGRLDKDSEGLLLMTNDG 137 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNA 187 A+ + PS ++YRV + D+ ++ + G+V+ G + + T + Sbjct: 138 AFAQAVTHPSGGISKLYRVTVQPRADESQILKMSSGVVLDDGTKTMPCAINVVTDEPGRT 197 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + L+EGKNREI+++ E +V RL R + G +LG L G+ RE++K + Sbjct: 198 VMEMTLKEGKNREIRRMCEAVGLEVVRLKRNAEGVVKLGMLKPGTYRELTKAEVSGLRAA 257 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR 284 AQ A + P P + Sbjct: 258 AAKGRAQTRSAALQSKAAARRPKGPVGSGNAPAKRRK 294 >gi|304315594|ref|YP_003850739.1| RNA-binding S4 domain protein [Thermoanaerobacterium thermosaccharolyticum DSM 571] gi|302777096|gb|ADL67655.1| RNA-binding S4 domain protein [Thermoanaerobacterium thermosaccharolyticum DSM 571] Length = 241 Score = 266 bits (681), Expect = 4e-69, Method: Composition-based stats. Identities = 78/240 (32%), Positives = 116/240 (48%), Gaps = 8/240 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRK 69 R+ K+++ G +R+EV+ I + V VNG + + + D I + + Sbjct: 1 MAKMRIDKLLSNTGFGTRKEVKGFIKEGLVTVNGRTVNDPGLIIETDKDDIIFNDEKIFY 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTND 127 + + +KP G+++ DP TV D LP +V GRLD +TEGLLLLTND Sbjct: 61 R-KYIYIMMNKPRGVISATYDP-SEKTVLDLLPDDIKARKVFPAGRLDKDTEGLLLLTND 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSN 186 G LA L P + Y G +D+D ++L GIV+ Y M L+ GS Sbjct: 119 GILAHKLLSPKKHVYKKYYAEISGFIDEDDISLFSNGIVLDDG-YKTMPAYLEIISSGSI 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 + V V ++EGK +IK++FE KV L R+S G L L G RE++ L+ L Sbjct: 178 SKVYVSIKEGKYHQIKRMFESLGSKVIYLKRLSMGYLNLDENLKEGEWRELTDNELKLLL 237 >gi|148828349|ref|YP_001293102.1| methyltransferase [Haemophilus influenzae PittGG] gi|148719591|gb|ABR00719.1| predicted methyltransferase [Haemophilus influenzae PittGG] Length = 357 Score = 266 bits (681), Expect = 4e-69, Method: Composition-based stats. Identities = 112/294 (38%), Positives = 152/294 (51%), Gaps = 12/294 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + + Sbjct: 66 KASNQPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRI 125 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + + E R+ +Y+KP G + T SDP GR+TVFD LP SR I+VGRLDIN Sbjct: 126 DGQIINLSHAQKEICRVLMYYKPEGELCTRSDPKGRATVFDRLPHLTGSRWIAVGRLDIN 185 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 186 TSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGSANFKEI 245 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ Sbjct: 246 KFAGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEM 305 Query: 237 SKK---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 + LRE +G L E + LD S + + R KK Sbjct: 306 DLENVNYLRELVG--LPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|56478942|ref|YP_160531.1| pseudouridylate synthase [Aromatoleum aromaticum EbN1] gi|56314985|emb|CAI09630.1| pseudouridylate synthase [Aromatoleum aromaticum EbN1] Length = 317 Score = 266 bits (681), Expect = 4e-69, Method: Composition-based stats. Identities = 93/267 (34%), Positives = 139/267 (52%), Gaps = 7/267 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA- 70 P+R+ KV+A+ G+ SRRE+E + R+ VNG+ + D ++ +G + Sbjct: 53 EPERLQKVLAQIGLGSRREIEEWVVAGRISVNGLPA-ELGQKIGPGDRVKYNGKLIPLRF 111 Query: 71 --ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 R+ +YHKP G + + DP+GR TVF+ LP + R I+VGRLD NT GLLL TND Sbjct: 112 TVRTPRVLIYHKPEGEIVSREDPEGRPTVFERLPILRKGRWIAVGRLDFNTSGLLLFTND 171 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P + R Y VR GQ+D ++L LK GI ++ ++ + +G+N Sbjct: 172 GTLANRLMHPRYELEREYAVRLLGQLDDEQLESLKTGIQLEDGLARFTSISDEGGEGANH 231 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 W V L EG+NRE++++FE V+RL+R+ YGP L + L G E+ + + G Sbjct: 232 WYRVTLSEGRNREVRRMFEAVGLTVSRLMRVRYGPVTLSSRLKRGMWMEMPEAEVCSLAG 291 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPN 273 + Q L R P Sbjct: 292 L-PKPQGQAARPGEQVRKTRLHRTTPR 317 >gi|145633070|ref|ZP_01788802.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 3655] gi|144986296|gb|EDJ92875.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 3655] Length = 357 Score = 266 bits (681), Expect = 4e-69, Method: Composition-based stats. Identities = 112/294 (38%), Positives = 153/294 (52%), Gaps = 12/294 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + + Sbjct: 66 KASNQSKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRI 125 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + + E R+ +Y+KP G + T SDP+GR+TVFD LP SR I+VGRLDIN Sbjct: 126 DGQIINLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPHLTGSRWIAVGRLDIN 185 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 186 TSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGSANFKEI 245 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ Sbjct: 246 KFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEM 305 Query: 237 SKK---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 + LRE +G L E + LD S + + R KK Sbjct: 306 DLQNVNYLRELVG--LPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|301165765|emb|CBW25337.1| putative RNA pseudouridylate synthase [Bacteriovorax marinus SJ] Length = 343 Score = 266 bits (681), Expect = 4e-69, Method: Composition-based stats. Identities = 91/277 (32%), Positives = 137/277 (49%), Gaps = 3/277 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR-KAER 72 R+ K IA GI SRR+ E +I Q RVKVNG + V D + VDG + Sbjct: 5 RLQKFIADCGITSRRKAEELIVQGRVKVNGETIRVLGTKVNPDIDAVIVDGQIADLGSVD 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G VTT DP+GR TV D + R+ VGRLD +EGLLLLTNDG +A Sbjct: 65 KVYLVMNKPRGYVTTVEDPEGRKTVMDLCKEVAERIYPVGRLDYLSEGLLLLTNDGEVAN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 ++ PS +VY V+ G V + L L+ G+ ++ + V + Q + WV Sbjct: 125 MVMHPSFNITKVYEVKVFGSVTETILKKLRAGVQLEEGFVKPLSVRVIKQLPNKTWVEFR 184 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L EG+NREI+K+ E V++L R++ + + G R ++KK L +G Sbjct: 185 LGEGRNREIRKICEACGLTVDKLKRVAIEGLTVEGIAPGKFRYINKKQLLSLIGLSEDGR 244 Query: 253 AQVNLDAPIYSSETL-VRDRPNIISEVPDDFTRMKKN 288 ++ A + S +T+ ++ + DD +K Sbjct: 245 KLESVKAWVSSKKTVNLKKKGVQPGTAADDEAWIKYR 281 >gi|33592372|ref|NP_880016.1| hypothetical protein BP1244 [Bordetella pertussis Tohama I] gi|33572017|emb|CAE41540.1| conserved hypothetical protein [Bordetella pertussis Tohama I] gi|332381788|gb|AEE66635.1| hypothetical protein BPTD_1234 [Bordetella pertussis CS] Length = 588 Score = 266 bits (681), Expect = 4e-69, Method: Composition-based stats. Identities = 99/308 (32%), Positives = 149/308 (48%), Gaps = 14/308 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K + E P ++ KV+A AGI SRRE+E +I RV VNG V D + V+ Sbjct: 108 KYLNSEAVMP-KLHKVLADAGIGSRREMEELIVAGRVSVNGEPA-HIGQRVAPNDQVRVN 165 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 G P+ + + R+ LYHKP G + +H DP GR++VF LP + + + +SVGRLD+NTE Sbjct: 166 GKPIARPNAKKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTE 225 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+ T G +A + P R Y VR G++D + L +GI ++ Sbjct: 226 GLLIFTTSGDMANRIMHPRYGTEREYAVRVLGEMDDAQRKSLTEGIELEDGKAAFGSFEY 285 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 GSN W V L+EG+NRE++++FE V+RLIR +G L L G Sbjct: 286 LGGDGSNRWYRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFGDIVLPRNLRRGRW----- 340 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNS--SQKNGLS 296 + L L L+ + + D R + S +P F +++N + G Sbjct: 341 EELDGSLVTALMVQLGLLRDGDESEGRRKSRQPQSHDSALPPGFGTLERNGMNGARIGRR 400 Query: 297 KQKKLATP 304 + + P Sbjct: 401 GKLQGGRP 408 >gi|299538371|ref|ZP_07051654.1| ribosomal large subunit pseudouridine synthase B [Lysinibacillus fusiformis ZC1] gi|298725958|gb|EFI66550.1| ribosomal large subunit pseudouridine synthase B [Lysinibacillus fusiformis ZC1] Length = 243 Score = 266 bits (681), Expect = 4e-69, Method: Composition-based stats. Identities = 83/233 (35%), Positives = 132/233 (56%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E++I + +VKVNG+++ V ++D IEV+GV L K E Sbjct: 2 ERLQKVIAYAGVASRRKAEQLILEGKVKVNGVVVRELGTKVSNSDTIEVEGVKLEK-EDK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G ++ +D GR TV D I R+ VGRLD +T GLLLLTNDG + + Sbjct: 61 VYFLLYKPRGTISAVTDDKGRKTVTDLFHHIPQRIFPVGRLDYDTSGLLLLTNDGEFSYM 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y R G + L L++GI ++ +V++ + +K A + Sbjct: 121 LTHPKFKIDKTYIARVKGVPTIEGLKKLQRGIKLEDGKTAPAKVSMTSFDEKAGKAICEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++++FE V +L R + L L G RE+SK +++ Sbjct: 181 TIHEGRNRQVRRMFEAIGTPVVKLKRERFAFLDLFGLAPGEYRELSKHEVKQL 233 >gi|296129772|ref|YP_003637022.1| pseudouridine synthase [Cellulomonas flavigena DSM 20109] gi|296021587|gb|ADG74823.1| pseudouridine synthase [Cellulomonas flavigena DSM 20109] Length = 306 Score = 266 bits (681), Expect = 4e-69, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 124/233 (53%), Gaps = 1/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 + R+ KV+A AG+ SRR E +IA RV V G ++ V V T I +DG+ ++ Sbjct: 65 DPEGVRLQKVLASAGLGSRRACEELIAAGRVTVAGQVVTELGVRVDPRTAVIHLDGMRVQ 124 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +KP+G+V+T DP+GR ++ + + R+ VGRLD ++EGLLLLTNDG Sbjct: 125 LDSSVVTLALNKPVGVVSTMHDPEGRPSLAQYVANREERLFHVGRLDADSEGLLLLTNDG 184 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + Y V G+V LK+G+ ++ + + + Sbjct: 185 ELANRLAHPSHGVPKTYLVEVQGRVRDALGKQLKEGVELEDGTVRVDEFKVVQVASHASL 244 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+NR ++++F+ V+RL+R GP +LG L G TR +SK + Sbjct: 245 VEVVLHEGRNRVVRRLFDEVGHPVDRLVRTRIGPIRLGDLRPGRTRVLSKTEV 297 >gi|229032197|ref|ZP_04188170.1| RNA pseudouridine synthase [Bacillus cereus AH1271] gi|228728977|gb|EEL79980.1| RNA pseudouridine synthase [Bacillus cereus AH1271] Length = 229 Score = 266 bits (681), Expect = 4e-69, Method: Composition-based stats. Identities = 64/234 (27%), Positives = 112/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE + +I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDCLIKAGRVAINGEICTHGAL-VSDGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAD-HIEDNIIDYI-NYPERIFPVGRLDKASEGLILLTNDGAIAH 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELDNLEVGKWRSVTSEELEILIG 227 >gi|94497978|ref|ZP_01304542.1| hypothetical protein SKA58_10410 [Sphingomonas sp. SKA58] gi|94422561|gb|EAT07598.1| hypothetical protein SKA58_10410 [Sphingomonas sp. SKA58] Length = 315 Score = 266 bits (681), Expect = 4e-69, Method: Composition-based stats. Identities = 113/232 (48%), Positives = 152/232 (65%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 PQR++K++ARAG+ASRRE+ERMIA R+ ++G ++ A + S + VDGV + Sbjct: 72 KNEPQRIAKLLARAGVASRREIERMIADGRIALDGAPVDTPATLLTSLHGVTVDGVAIAA 131 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 TRL+L+HKP G +TT DP GR T++D LP RV+ +GRLD+NTEGLLLLT DGG Sbjct: 132 PAPTRLFLFHKPTGCLTTERDPAGRPTIYDRLPDGLPRVMPIGRLDMNTEGLLLLTTDGG 191 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 R +ELP+T R YR R G+V Q +L L G+ I GI YG ++ L+ + G N W+ Sbjct: 192 FKRQMELPATGVPRTYRARAFGEVSQQQLEDLFDGLEIDGIRYGQIEANLERRTGRNQWI 251 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EGKNRE+++V E KVNRLIR +YGPF LG L G+ EV + L Sbjct: 252 EMTLTEGKNREVRRVLEHLGLKVNRLIRTAYGPFSLGELAVGTVEEVRQHDL 303 >gi|330989187|gb|EGH87290.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. lachrymans str. M301315] Length = 408 Score = 266 bits (681), Expect = 4e-69, Method: Composition-based stats. Identities = 115/374 (30%), Positives = 170/374 (45%), Gaps = 34/374 (9%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG V D I Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-LGQRVDLHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VD +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLD Sbjct: 63 SVDDRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPARFT 182 Query: 176 QV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDA-------------PIYSSETLVRDRPNIISE 277 RE+S+ L ++G + + Q+N P+ E + RP + Sbjct: 243 REMSQYEVDILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVRTLRPAAGAP 302 Query: 278 VPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ------R 331 D Q G + + +R G + +D+ + R Sbjct: 303 ATGDRA---PRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTPVAER 359 Query: 332 EENHRRSPSFPSKR 345 + P+ P + Sbjct: 360 PSEMNKRPAKPGPK 373 >gi|330502861|ref|YP_004379730.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas mendocina NK-01] gi|328917147|gb|AEB57978.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas mendocina NK-01] Length = 385 Score = 266 bits (681), Expect = 4e-69, Method: Composition-based stats. Identities = 118/356 (33%), Positives = 172/356 (48%), Gaps = 38/356 (10%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 Q +++ KV+AR G+ASRRE+E IA+ RVKVNG V + D I +DG L Sbjct: 6 QPRPAGEKLQKVLARLGLASRREIETWIAEGRVKVNGAAAT-LGQRVDANDAIALDGRLL 64 Query: 68 RKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLL 122 ++ E T R+ +Y+KP G + T DP+GR TVFD LP R I++GRLDINT GLL Sbjct: 65 KREEITGSVRRVLIYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLDINTTGLL 124 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDT 181 L T DG LA L PS Q R Y VR G+V ++ L LK G++++ + Sbjct: 125 LFTTDGELANRLMHPSYQMDREYAVRVRGEVTEEMLENLKTGVMLEDGPAKFTDIKEAPG 184 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 +G N W + EG+NRE+++++E V+RL R+ +GP L L RE+ ++ Sbjct: 185 GEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLTSELTMARWREMDQRE 244 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 + I S+E + P MK+ + +K Q+K Sbjct: 245 V------------------DILSAE---------VGLTPQALPAMKEKTREKLDRL-QRK 276 Query: 301 LATPVHRRNLA--SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 A PV R G S+ S + +R+E +R+P P K R + Sbjct: 277 SAKPVEVRGKRVLRPAKDEAGADSARPSRAPRRDEAEQRTPRGPRKEGGERRENGR 332 >gi|310641380|ref|YP_003946138.1| ribosomal small subunit pseudouridine synthase a [Paenibacillus polymyxa SC2] gi|309246330|gb|ADO55897.1| Ribosomal small subunit pseudouridine synthase A [Paenibacillus polymyxa SC2] Length = 260 Score = 266 bits (681), Expect = 4e-69, Method: Composition-based stats. Identities = 73/242 (30%), Positives = 118/242 (48%), Gaps = 14/242 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 QR+ K++ G SR ++++ + Q + VNG ++ + + V D IEV+G + Sbjct: 7 QTQRLDKILTHMGYGSRSDIKKQVKQGMITVNGRTIKDSGLQVHPYQDQIEVNGELVVFR 66 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDG 128 E + HKP G+++ D R TV D L + VGRLD +TEGLLLLTNDG Sbjct: 67 E-FIYIMLHKPPGVISATEDTRER-TVLDLLSAEERHFEPFPVGRLDKDTEGLLLLTNDG 124 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS-- 185 LA L P + Y G V ++ + G+ + G Q+T+ + Sbjct: 125 KLAHELLSPRRHVPKTYEATVSGHVTEEDILQFTAGVELDDGYVTLPAQLTILRHEQPHQ 184 Query: 186 -----NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 +++++ + EGK ++K++FE KV L R + GP +L L GS RE++ + Sbjct: 185 ADGEVTSYISLVIHEGKFHQVKRMFEAIGKKVTYLKRTAMGPLKLDDQLPLGSYRELTSE 244 Query: 240 IL 241 L Sbjct: 245 EL 246 >gi|167562943|ref|ZP_02355859.1| RNA pseudouridylate synthase family protein [Burkholderia oklahomensis EO147] Length = 354 Score = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 87/248 (35%), Positives = 137/248 (55%), Gaps = 6/248 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 48 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 106 Query: 64 GVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P++ + R+ LYHKP G + +H+DP+GR +VFD LP++ ++ ++VGRLD NTE Sbjct: 107 GKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPTMKTAKWLAVGRLDFNTE 166 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 167 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELPEASRQKLLHGVELDDGPANFLRIRD 226 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 227 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELEE 286 Query: 239 KILREQLG 246 +R + Sbjct: 287 AQVRRLMA 294 >gi|255533735|ref|YP_003094107.1| pseudouridine synthase [Pedobacter heparinus DSM 2366] gi|255346719|gb|ACU06045.1| pseudouridine synthase [Pedobacter heparinus DSM 2366] Length = 348 Score = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 82/343 (23%), Positives = 149/343 (43%), Gaps = 18/343 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE--R 72 R++K I+ +G+ SRR +R I Q V +NG + V D + V+G + E Sbjct: 7 RLNKYISESGLCSRRAADRYIEQGNVYINGKKAK-VGDKVFFGDIVTVNGQTIDPKEVEN 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L Y+KP+G+ +T ++ + + D++ + RV +GRLD +++GL+ LTN+G L Sbjct: 66 SVLIAYNKPVGITST-TEAGVKGNIVDHV-NHSERVFPIGRLDKDSQGLIFLTNNGDLVN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + + + + KG+ + G+ +V K S + Sbjct: 124 KILRAGNNHEKEYVVTVNKPLTDQFITGMAKGVPVLGVMTKKCKVV----KESPLIFKIT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E+F ++V +L R+ L + G RE++ + L +++ + Sbjct: 180 LIQGLNRQIRRMCEYFGYEVTKLERVRIMNIPLKGIPLGEWRELTPEELTGIF--NMVAK 237 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 + DA + V +P E SS +N K K A P R Sbjct: 238 SSAEADA----TPKRVSKKPKTPKEEDFLENVTPGRSSGRNAKPKSKGKAAPASVRREDR 293 Query: 313 NVWMAKGIHSSFLSDSGQREENHR--RSPSFPSKRSLRRTSAK 353 KG S + + PSKR ++ T + Sbjct: 294 PAG-GKGKSGPKTSAAFKTTGAAGDWNKSGGPSKRPVKPTKGR 335 >gi|238757070|ref|ZP_04618258.1| Ribosomal large subunit pseudouridine synthase B [Yersinia aldovae ATCC 35236] gi|238704900|gb|EEP97429.1| Ribosomal large subunit pseudouridine synthase B [Yersinia aldovae ATCC 35236] Length = 349 Score = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 106/334 (31%), Positives = 162/334 (48%), Gaps = 24/334 (7%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 + +++ KV+ARAG SRRE+E +I Q RV V+G + V V I +DG Sbjct: 29 KTKVVGEKLQKVLARAGHGSRREIETIIQQGRVSVDGKISTLGDRVEVTQATKIRLDGHL 88 Query: 67 LRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGL 121 L E R+ Y+KP G + T +DP+GR TVFD LP SR ++VGRLD+NT GL Sbjct: 89 LSIKESEETVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGL 148 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR G +D +K+ L +G+ ++ ++ Sbjct: 149 LLFTTDGELANRLMHPSREVEREYAVRVFGLIDDEKIKQLSRGVQLEDGPAAFRTISFQG 208 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ K Sbjct: 209 GEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLKA 268 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 LR+ V +D+ S + +DR + + R K ++ G Sbjct: 269 TNYLRQL----------VEMDSETVSKLPVEKDRRRVKAN---QIRRAVKRHTEVAGRQV 315 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQR 331 + + + + N A ++ + +R Sbjct: 316 AGRQGS-ARKGSTRQNTGNAAPAATAGRRGTNKR 348 >gi|326390305|ref|ZP_08211864.1| pseudouridine synthase [Thermoanaerobacter ethanolicus JW 200] gi|325993582|gb|EGD52015.1| pseudouridine synthase [Thermoanaerobacter ethanolicus JW 200] Length = 241 Score = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 75/236 (31%), Positives = 116/236 (49%), Gaps = 7/236 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRK 69 R+ K+++ GI +R+EV++ I + V VNG ++ A + V +D I DG + Sbjct: 1 MAKMRIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIVDTESDEILFDGEKINY 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTND 127 E + +KP G+++ D + TV D LP VGRLD +TEGLLL+TND Sbjct: 61 KE-FIYIMINKPKGVISATYD-EVEKTVIDLLPQELKARNPFPVGRLDKDTEGLLLITND 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G LA L P ++ Y G V++ + +GI++ G + + Sbjct: 119 GDLAHQLLSPKKNVIKKYYAEILGFVNESDIKAFNEGIILEDGYKTLPANLEILFSSSDV 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + V V +REGK +IK++FE KV L R++ L L G RE+S+K L Sbjct: 179 SKVYVYIREGKYHQIKRMFESVGKKVIYLKRLAMDNLTLDENLKPGEWRELSEKEL 234 >gi|315123457|ref|YP_004065463.1| putative ribosomal RNA pseudouridine synthase [Pseudoalteromonas sp. SM9913] gi|315017217|gb|ADT70554.1| putative ribosomal RNA pseudouridine synthase [Pseudoalteromonas sp. SM9913] Length = 329 Score = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 78/326 (23%), Positives = 137/326 (42%), Gaps = 19/326 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE ++ I Q RV VNG L V V +D + VDG L+ + Sbjct: 6 RLNKFISETGFCSRREADKYIEQGRVTVNGELP-EMGVKVAQSDVVLVDGKQLKAPPKRV 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 Y+KP+G+ T + V + R+ +GRLD +EGL+ LTN+G + + Sbjct: 65 YIAYNKPVGITCTTERKIQSNIVKA--VNYPERIFPIGRLDRPSEGLIFLTNEGDIVNKI 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V +++ +N + GI I +VT Q G+ ++ L Sbjct: 123 LRAGNNHEKEYVVTVDKPLNRQFVNKMANGIPILDTVTKKCKVT---QTGAQ-QFSIILT 178 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E+ ++V L R+ L L G R +S + + + + + Sbjct: 179 QGLNRQIRRMCEYLGYEVVTLKRVRIMNVTLKGLKVGQWRHLSDAEM-AVINDSIADSGK 237 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTR-------MKKNSSQKNGLSKQKKLATPVHR 307 + +E + S R ++N+ ++ +K+ TP + Sbjct: 238 TQEHSLYDDTEQRKYTEQDKNSGAKSAHKRDFQGGKLRRENNDEQQKHAKKNSRNTPYQK 297 Query: 308 RNLA----SNVWMAKGIHSSFLSDSG 329 R+ SN A + SG Sbjct: 298 RSTTYVGKSNTHKANTATGNKTRSSG 323 >gi|33602225|ref|NP_889785.1| hypothetical protein BB3249 [Bordetella bronchiseptica RB50] gi|33576663|emb|CAE33741.1| conserved hypothetical protein [Bordetella bronchiseptica RB50] Length = 593 Score = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 99/308 (32%), Positives = 149/308 (48%), Gaps = 14/308 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K + E P ++ KV+A AGI SRRE+E +I RV VNG V D + V+ Sbjct: 115 KYLNSEAVMP-KLHKVLADAGIGSRREMEELIVAGRVSVNGEPA-HIGQRVAPNDQVRVN 172 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 G P+ + + R+ LYHKP G + +H DP GR++VF LP + + + +SVGRLD+NTE Sbjct: 173 GKPIARPNAKKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTE 232 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+ T G +A + P R Y VR G++D + L +GI ++ Sbjct: 233 GLLIFTTSGDMANRIMHPRYGTEREYAVRVLGEMDDAQRKSLTEGIELEDGKAAFGSFEY 292 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 GSN W V L+EG+NRE++++FE V+RLIR +G L L G Sbjct: 293 LGGDGSNRWYRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFGDIVLPRNLRRGRW----- 347 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNS--SQKNGLS 296 + L L L+ + + D R + S +P F +++N + G Sbjct: 348 EELDGSLVTALMVQLGLLRDGDESEGRRKSRQPQSHDSALPPGFGTLERNGMNGARIGRR 407 Query: 297 KQKKLATP 304 + + P Sbjct: 408 GKLQGGRP 415 >gi|33596480|ref|NP_884123.1| hypothetical protein BPP1859 [Bordetella parapertussis 12822] gi|33566249|emb|CAE37160.1| conserved hypothetical protein [Bordetella parapertussis] Length = 592 Score = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 99/308 (32%), Positives = 149/308 (48%), Gaps = 14/308 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K + E P ++ KV+A AGI SRRE+E +I RV VNG V D + V+ Sbjct: 115 KYLNSEAVMP-KLHKVLADAGIGSRREMEELIVAGRVSVNGEPA-HIGQRVAPNDQVRVN 172 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 G P+ + + R+ LYHKP G + +H DP GR++VF LP + + + +SVGRLD+NTE Sbjct: 173 GKPIARPNAKKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTE 232 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+ T G +A + P R Y VR G++D + L +GI ++ Sbjct: 233 GLLIFTTSGDMANRIMHPRYGTEREYAVRVLGEMDDAQRKSLTEGIELEDGKAAFGSFEY 292 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 GSN W V L+EG+NRE++++FE V+RLIR +G L L G Sbjct: 293 LGGDGSNRWYRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFGDIVLPRNLRRGRW----- 347 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNS--SQKNGLS 296 + L L L+ + + D R + S +P F +++N + G Sbjct: 348 EELDGSLVTALMVQLGLLRDGDESEGRRKSRQPQSHDSALPPGFGTLERNGMNGARIGRR 407 Query: 297 KQKKLATP 304 + + P Sbjct: 408 GKLQGGRP 415 >gi|116748130|ref|YP_844817.1| pseudouridine synthase [Syntrophobacter fumaroxidans MPOB] gi|116697194|gb|ABK16382.1| ribosomal large subunit pseudouridine synthase B [Syntrophobacter fumaroxidans MPOB] Length = 250 Score = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 92/250 (36%), Positives = 131/250 (52%), Gaps = 1/250 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 T R+ KV+A+AGIASRR E +I Q RV VNGI++ V V D I VD V + Sbjct: 1 MTKVRLQKVLAQAGIASRRGAEEVIRQGRVVVNGIVVTELGVKVDPHADRITVDRVTIAM 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L KP VTT DP GR TVFD +P +R+ VGRLD + EGLLLLTNDG Sbjct: 61 VESRVYLLLFKPRCCVTTARDPQGRKTVFDFVPDAGARLFPVGRLDFDAEGLLLLTNDGL 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L+ P + Y V G L+ L+ G++++ +VT+ + + Sbjct: 121 LANRLQHPRYGVTKTYEVAAMGHPTPAALDRLRTGVMLEEGMTAPAEVTVIGSSPRSTRL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+IK++ E V + R+++GP +LG+L G +R + + Sbjct: 181 RIVLHQGWNRQIKRMGEAVGHPVLSIKRVAFGPLKLGSLKPGGSRHLKSGEVELLYKLVH 240 Query: 250 LEEAQVNLDA 259 L++ Q N D Sbjct: 241 LDKEQRNADG 250 >gi|224283102|ref|ZP_03646424.1| pseudouridine synthase [Bifidobacterium bifidum NCIMB 41171] gi|310287470|ref|YP_003938728.1| Ribosomal large subunit pseudouridine synthase B [Bifidobacterium bifidum S17] gi|311064385|ref|YP_003971110.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium bifidum PRL2010] gi|313140251|ref|ZP_07802444.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium bifidum NCIMB 41171] gi|309251406|gb|ADO53154.1| Ribosomal large subunit pseudouridine synthase B [Bifidobacterium bifidum S17] gi|310866704|gb|ADP36073.1| RluB Ribosomal large subunit pseudouridine synthase B [Bifidobacterium bifidum PRL2010] gi|313132761|gb|EFR50378.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium bifidum NCIMB 41171] Length = 258 Score = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 72/237 (30%), Positives = 118/237 (49%), Gaps = 2/237 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 N R+ K++A+AG SRR+ E+MI RV+V+G L+ V HI VDG + Sbjct: 16 NNEGIRLQKILAQAGFGSRRKCEQMITDGRVEVDGELVTELGTRVDPKKQHIRVDGSRVH 75 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +KP +++ DP GR T+ D + + RV +GRLD ++EGL+L+TNDG Sbjct: 76 LNPNHVTLALNKPKKVLSAMDDPKGRYTLADIIGDKYERVFHMGRLDYDSEGLILMTNDG 135 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNA 187 L++ + P + + Y G++ + L +G+ + + Sbjct: 136 ELSQHVMHPKYEVEKTYIATIDGKIGGNVCRRLVTQGVQLDDGLVKLDHCAIIDANRDQT 195 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L GKNR ++++F + V RL+R GP +LG L +G+ R +S+ +R Sbjct: 196 IVKVVLHSGKNRIVRRIFGAIGYPVRRLVRTQIGPIKLGDLKSGTYRVLSQVEVRSL 252 >gi|253578001|ref|ZP_04855273.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA] gi|251850319|gb|EES78277.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA] Length = 323 Score = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 92/337 (27%), Positives = 148/337 (43%), Gaps = 18/337 (5%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K + R++K ++ AGI SRRE +RMI + R+ VNG E V D I Sbjct: 1 MYKKLYNRTMDEKIRINKYLSEAGICSRREADRMIEEGRITVNGKKAES-GQKVSLEDEI 59 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 D +P+ K E+ L L++KP G+V + +TV D L RV VGRLD ++G Sbjct: 60 CADNIPVHKNEKKVLLLFNKPRGIVCSTKQQFDETTVTDYLDYPL-RVYPVGRLDKESQG 118 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLLLTN+G L + + Y V + VD++ + + KG+ + +V Sbjct: 119 LLLLTNEGDLVNKIMRAGNYHEKEYFVTVNKPVDREFVRRMSKGVPVLDTVTRPCRVV-- 176 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L +G NR+I+++ + ++V +L RI L + G RE++ + Sbjct: 177 --QTGECSFRIILTQGLNRQIRRMCRYLGYEVQKLKRIRIMNLTLDGIREGEYREITAQE 234 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 E HLLE + +SET++R + R + Q + Sbjct: 235 WEEL--NHLLESS---------TSETVIRTGEQNGNSSDHANERAGAKAGQGSKGVLPAG 283 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRR 337 +R + S+V A G SG++ RR Sbjct: 284 YRDHKQQR-VRSDVRRASGSGERNRHCSGKQPNRKRR 319 >gi|309973338|gb|ADO96539.1| 23S rRNA pseudouridylate synthase RluB [Haemophilus influenzae R2846] Length = 357 Score = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 111/294 (37%), Positives = 152/294 (51%), Gaps = 12/294 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + + Sbjct: 66 KASNQPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRI 125 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + + E R+ +Y+KP G + T SDP GR+TVFD LP SR I+VGRLDIN Sbjct: 126 DGQIINLSHAQKEICRVLMYYKPEGELCTRSDPKGRATVFDRLPRLTGSRWIAVGRLDIN 185 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 186 TSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGPANFKEI 245 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W + L EG+NRE+++++E +V+RLIRI YG +L L G E+ Sbjct: 246 KFTGGVGINQWYDITLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEM 305 Query: 237 SKK---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 + LRE +G L E + LD S + + R KK Sbjct: 306 DLENVNYLRELVG--LPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|253688397|ref|YP_003017587.1| pseudouridine synthase [Pectobacterium carotovorum subsp. carotovorum PC1] gi|251754975|gb|ACT13051.1| pseudouridine synthase [Pectobacterium carotovorum subsp. carotovorum PC1] Length = 294 Score = 266 bits (680), Expect = 5e-69, Method: Composition-based stats. Identities = 107/304 (35%), Positives = 152/304 (50%), Gaps = 23/304 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEGIIQAGRVSVDGKVATLGDRVEVTKATKIRIDGHVVTVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ +Y+KP G + T +DPDGR TVFD LP SR ++VGRLD+NT GLLL T Sbjct: 62 TEETVCRVLVYYKPEGELCTRNDPDGRPTVFDRLPKIQGSRWVAVGRLDVNTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G+VD +K+ L KG+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGEVDDEKIKQLSKGVQLEDGPASFRTIRYQGGEGLN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ + LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDITLPKGLPRGGWAEMPLEQLNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L A S + R+R + + R K SQ + ++ Sbjct: 242 EL----------VQLPAETVSKLPVERERRRVKAN---QIRRAVKRHSQISTAPARRTSP 288 Query: 303 TPVH 306 P Sbjct: 289 KPKR 292 >gi|315924794|ref|ZP_07921011.1| ribosomal large subunit pseudouridine synthase B [Pseudoramibacter alactolyticus ATCC 23263] gi|315621693|gb|EFV01657.1| ribosomal large subunit pseudouridine synthase B [Pseudoramibacter alactolyticus ATCC 23263] Length = 246 Score = 266 bits (680), Expect = 5e-69, Method: Composition-based stats. Identities = 80/238 (33%), Positives = 120/238 (50%), Gaps = 9/238 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A+ G+ASRR E MIA RV VNG +++ V V D + VDG + ER Sbjct: 1 MRLQKYMAQCGVASRRGSEAMIADGRVMVNGSVVDTPGVQVTPGDVVFVDGKLI-APERK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G+VTT D + D + + R+ ++GRLD +TEGLL+LTNDG L Sbjct: 60 VYLLLNKPRGVVTTSEDVHAERRILDLVAAEV-RLYAIGRLDKDTEGLLILTNDGDLTFR 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-------QGICYGDMQVTLDTQKGSN 186 L PS +VY GQ+ L L++G+VI + +VT+ +K + Sbjct: 119 LTHPSYHLDKVYEAVVKGQLTAPALAALREGVVIPLDDAGTKTYRTQPAEVTVLRRKRGS 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +++ L EGK R+I+K+ + V L R + G TL G R + + + Sbjct: 179 TRLSITLCEGKKRQIRKMCAAVGYPVVALRRTAIGDIADDTLKPGEWRRLRPDEVAKL 236 >gi|284802783|ref|YP_003414648.1| hypothetical protein LM5578_2540 [Listeria monocytogenes 08-5578] gi|284995925|ref|YP_003417693.1| hypothetical protein LM5923_2490 [Listeria monocytogenes 08-5923] gi|284058345|gb|ADB69286.1| hypothetical protein LM5578_2540 [Listeria monocytogenes 08-5578] gi|284061392|gb|ADB72331.1| hypothetical protein LM5923_2490 [Listeria monocytogenes 08-5923] Length = 233 Score = 266 bits (680), Expect = 5e-69, Method: Composition-based stats. Identities = 70/233 (30%), Positives = 110/233 (47%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQITVHGTPVVYQE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP +V+ D + TV D L + + VGRLD +TEGLL++TNDG L Sbjct: 60 FVYFMLHKPQNVVSATED-NVSETVIDLLAQEDTLTDLFPVGRLDKDTEGLLIITNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y + G V + GI + G + + T + Sbjct: 119 AHNLLSPKKHIDKTYYAKIDGDVTAADVEAFAAGIELDDGYTCKPASLEIITPN----EI 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V ++EGK ++K++F V+ L RIS G QL +L G R +++ L Sbjct: 175 NVTIQEGKFHQVKRMFAARGKTVSYLKRISMGNLQLDESLELGEYRPLTEAEL 227 >gi|261340615|ref|ZP_05968473.1| ribosomal small subunit pseudouridine synthase A [Enterobacter cancerogenus ATCC 35316] gi|288317026|gb|EFC55964.1| ribosomal small subunit pseudouridine synthase A [Enterobacter cancerogenus ATCC 35316] Length = 235 Score = 266 bits (680), Expect = 5e-69, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 104/229 (45%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ +A + +E DG L + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRASRVTVDGDIVKDSAFKLQPEHQVEYDGNTLTQQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLHKPEGYVCSTDDPDHPTVLYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEHFAKGVQLHNEKDLTRPAVLEV--ITPTEVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G +L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVGLHRERIGAIELDPELAPGEYRPLTEEEI 227 >gi|116625544|ref|YP_827700.1| ribosomal large subunit pseudouridine synthase B [Candidatus Solibacter usitatus Ellin6076] gi|116228706|gb|ABJ87415.1| ribosomal large subunit pseudouridine synthase B [Candidatus Solibacter usitatus Ellin6076] Length = 249 Score = 265 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 81/235 (34%), Positives = 130/235 (55%), Gaps = 2/235 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRK 69 +R+ K++++AG++SRR+ E+++ + RV VNG ++ DHI+VDG L+ Sbjct: 1 MAEERLQKILSQAGVSSRRQAEKLMQEGRVTVNGSVITELGSKADLDRDHIKVDGRLLKA 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + +KP G VTT DP+GR TV D L + RV VGRLD ++EGLLLLTNDG Sbjct: 61 PKHQIYIALNKPKGTVTTVHDPEGRETVMDLLHRVKERVYPVGRLDYHSEGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA + +T + Y V+ G + ++ + G+ + G + L ++ N W Sbjct: 121 LANSIMSAATHLEKTYVVKVTGTLTAEQEEKFRTGVPLSGRRTLPAGLKLLSR-AENPWY 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V L EG+N +I+ +F F V +L R+ GP +LGTL G+ R + ++ + + Sbjct: 180 EVKLTEGRNNQIRMMFRHFGKLVEKLKRVRIGPIELGTLKTGAFRYLDEEDVAKL 234 >gi|261821582|ref|YP_003259688.1| 23S rRNA pseudouridylate synthase B [Pectobacterium wasabiae WPP163] gi|261605595|gb|ACX88081.1| pseudouridine synthase [Pectobacterium wasabiae WPP163] Length = 294 Score = 265 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 109/307 (35%), Positives = 155/307 (50%), Gaps = 25/307 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEGIIQAGRVSVDGKVATLGDRVEVTKATKIRIDGHVVTVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ +Y+KP G + T +DPDGR TVFD LP SR ++VGRLD+NT GLLL T Sbjct: 62 TEETVCRVLVYYKPEGELCTRNDPDGRPTVFDRLPKIQGSRWVAVGRLDVNTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G+VD +K+ L KG+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGEVDDEKIKQLSKGVQLEDGPAAFRTIRYQGGEGLN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L + G E+ + LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDITLPKGIPRGGWAEMPLEQLNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L A S + R+R + + R K SQ S + Sbjct: 242 EL----------VQLPAETVSKLPVERERRRVKAN---QIRRAVKRHSQI--SSAPARRT 286 Query: 303 TPVHRRN 309 +P +RN Sbjct: 287 SPKPKRN 293 >gi|23465315|ref|NP_695918.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium longum NCC2705] gi|189439325|ref|YP_001954406.1| 16S rRNA uridine-516 pseudouridylate synthase [Bifidobacterium longum DJO10A] gi|227547249|ref|ZP_03977298.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium longum subsp. infantis ATCC 55813] gi|239621483|ref|ZP_04664514.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium longum subsp. infantis CCUG 52486] gi|296454186|ref|YP_003661329.1| pseudouridine synthase [Bifidobacterium longum subsp. longum JDM301] gi|312132697|ref|YP_004000036.1| rsua [Bifidobacterium longum subsp. longum BBMN68] gi|317483248|ref|ZP_07942243.1| RNA pseudouridylate synthase [Bifidobacterium sp. 12_1_47BFAA] gi|322689199|ref|YP_004208933.1| pseudouridine synthase [Bifidobacterium longum subsp. infantis 157F] gi|322691265|ref|YP_004220835.1| pseudouridine synthase [Bifidobacterium longum subsp. longum JCM 1217] gi|23325954|gb|AAN24554.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium longum NCC2705] gi|189427760|gb|ACD97908.1| 16S rRNA uridine-516 pseudouridylate synthase [Bifidobacterium longum DJO10A] gi|227212208|gb|EEI80104.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium longum subsp. infantis ATCC 55813] gi|239515944|gb|EEQ55811.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium longum subsp. infantis CCUG 52486] gi|291516882|emb|CBK70498.1| pseudouridine synthase family [Bifidobacterium longum subsp. longum F8] gi|296183617|gb|ADH00499.1| pseudouridine synthase [Bifidobacterium longum subsp. longum JDM301] gi|311773655|gb|ADQ03143.1| RsuA [Bifidobacterium longum subsp. longum BBMN68] gi|316915317|gb|EFV36744.1| RNA pseudouridylate synthase [Bifidobacterium sp. 12_1_47BFAA] gi|320456121|dbj|BAJ66743.1| pseudouridine synthase [Bifidobacterium longum subsp. longum JCM 1217] gi|320460535|dbj|BAJ71155.1| pseudouridine synthase [Bifidobacterium longum subsp. infantis 157F] Length = 256 Score = 265 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 71/239 (29%), Positives = 118/239 (49%), Gaps = 2/239 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVP 66 Q++ R+ K++A+AG SRR+ E MI + RV+V+G L+ V + VDG Sbjct: 12 QDDSNSIRLQKLLAQAGFGSRRKCEDMITEGRVEVDGELVTELGTRVDPHKQQVRVDGSR 71 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TN Sbjct: 72 VRVNPNHVTLALNKPRKVLSAMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTN 131 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 DG L++ + P + + Y G++ L G+ + + Sbjct: 132 DGELSQHVMHPKYEVEKTYVATLEGKISGTVCRRLVTTGVQLDDGWIKLDHCAIIDSSRD 191 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + V V L GKNR ++++F + V RL+R GP +LG L GS R +S+ +R Sbjct: 192 HTMVKVVLHSGKNRIVRRIFGSIGFPVKRLVRTQIGPIKLGDLKPGSYRVLSQTEVRSL 250 >gi|332530537|ref|ZP_08406476.1| pseudouridine synthase [Hylemonella gracilis ATCC 19624] gi|332040012|gb|EGI76399.1| pseudouridine synthase [Hylemonella gracilis ATCC 19624] Length = 444 Score = 265 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 105/358 (29%), Positives = 159/358 (44%), Gaps = 25/358 (6%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K ++Q ++ KV+A+AG+ SR E+E++I + R+ VN + D I+ Sbjct: 71 PSKRVLQPQAETPKLHKVLAQAGMGSRLEMEQLIMEGRISVNNEPA-HIGQRIQFGDQIK 129 Query: 62 VDGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDIN 117 V+G P+R R+ YHKP+G V TH DP R TVF LP + + SVGRLD+N Sbjct: 130 VNGKPIRFRIAPPPARVIAYHKPVGEVVTHDDPQNRPTVFRRLPKLPQGKWQSVGRLDLN 189 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLL TN G LA L P R Y R G + ++ L G+ + + Sbjct: 190 TEGLLLFTNSGDLANRLMHPRFGLEREYAARVLGALSNEEKQRLLDGVPLDDTKAQFGSI 249 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +GSN W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ Sbjct: 250 EEGGGEGSNLWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMVLPRGLRRGAWMEL 309 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 + +R L++ A ++++ T R RP + + +Q+ G + Sbjct: 310 DDRDIRA-----LMQAAGGSVESSEPGGGTSSRGRPGSGNAGGFKNGNGRPAGAQRQGGA 364 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 K A G G + + + S + S R K Sbjct: 365 AGKS--------------GKAAGKSGRGAGGQGAQPDPMKTSQGYIGHDSFIRQRQDK 408 >gi|322384180|ref|ZP_08057890.1| 16S pseudouridylate synthase-like protein [Paenibacillus larvae subsp. larvae B-3650] gi|321151072|gb|EFX44389.1| 16S pseudouridylate synthase-like protein [Paenibacillus larvae subsp. larvae B-3650] Length = 256 Score = 265 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 77/241 (31%), Positives = 125/241 (51%), Gaps = 11/241 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K+++ G +R E++++ V VNG +++ + V D+IEV+G + E Sbjct: 12 RLDKMLSHLGYGTRSELKKLAKNGGVTVNGKVVKDSGWKVYPDEDYIEVNGEQVIFRE-H 70 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 L +KP G+++ D R TV D L V VGRLD +TEGLLLLTNDG LA Sbjct: 71 VYVLLNKPAGVISATEDMRDR-TVVDLLDDHIRVFGVFPVGRLDKDTEGLLLLTNDGKLA 129 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT----QKGSN 186 L P + Y R +G V ++ + + +G+V+ G Q+ + ++ Sbjct: 130 HNLLSPRKHVPKTYYARVNGDVTEEDVRIFSEGVVLDDGYMTMPAQLVVLDSGNPEEEKP 189 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 A + + + EGK ++K++FE + KV L RIS G +L +L G++RE++ K L Sbjct: 190 AEIELTIHEGKFHQVKRMFEAVHKKVVYLKRISMGSLKLDPSLSPGASRELTAKELEALQ 249 Query: 246 G 246 G Sbjct: 250 G 250 >gi|167824420|ref|ZP_02455891.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 9] Length = 374 Score = 265 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 92/288 (31%), Positives = 146/288 (50%), Gaps = 8/288 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 66 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 124 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 125 GKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTE 184 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 185 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQRLLHGVELDDGPANFLRIRD 244 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 245 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 304 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 +R + L+ D R +P+ + R Sbjct: 305 AQVRRLMSTVGLKA--PTEDKGGKRGGPAERRQPDPMQTSMGFINREP 350 >gi|227517632|ref|ZP_03947681.1| pseudouridylate synthase [Enterococcus faecalis TX0104] gi|227554784|ref|ZP_03984831.1| pseudouridylate synthase [Enterococcus faecalis HH22] gi|293384990|ref|ZP_06630824.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis R712] gi|293389260|ref|ZP_06633722.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis S613] gi|307270257|ref|ZP_07551569.1| hypothetical protein HMPREF9498_02370 [Enterococcus faecalis TX4248] gi|307272482|ref|ZP_07553735.1| hypothetical protein HMPREF9514_01246 [Enterococcus faecalis TX0855] gi|307278240|ref|ZP_07559319.1| hypothetical protein HMPREF9515_00573 [Enterococcus faecalis TX0860] gi|307289637|ref|ZP_07569581.1| hypothetical protein HMPREF9505_02998 [Enterococcus faecalis TX0109] gi|312900258|ref|ZP_07759570.1| conserved hypothetical protein [Enterococcus faecalis TX0470] gi|312905979|ref|ZP_07764992.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 512] gi|312909325|ref|ZP_07768181.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 516] gi|227074938|gb|EEI12901.1| pseudouridylate synthase [Enterococcus faecalis TX0104] gi|227176083|gb|EEI57055.1| pseudouridylate synthase [Enterococcus faecalis HH22] gi|291077668|gb|EFE15032.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis R712] gi|291081424|gb|EFE18387.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis S613] gi|306499451|gb|EFM68824.1| hypothetical protein HMPREF9505_02998 [Enterococcus faecalis TX0109] gi|306504991|gb|EFM74182.1| hypothetical protein HMPREF9515_00573 [Enterococcus faecalis TX0860] gi|306510767|gb|EFM79784.1| hypothetical protein HMPREF9514_01246 [Enterococcus faecalis TX0855] gi|306513400|gb|EFM82020.1| hypothetical protein HMPREF9498_02370 [Enterococcus faecalis TX4248] gi|310627974|gb|EFQ11257.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 512] gi|311290349|gb|EFQ68905.1| conserved hypothetical protein [Enterococcus faecalis DAPTO 516] gi|311292619|gb|EFQ71175.1| conserved hypothetical protein [Enterococcus faecalis TX0470] gi|315031424|gb|EFT43356.1| conserved hypothetical protein [Enterococcus faecalis TX0017] gi|315034401|gb|EFT46333.1| conserved hypothetical protein [Enterococcus faecalis TX0027] gi|315164553|gb|EFU08570.1| conserved hypothetical protein [Enterococcus faecalis TX1302] gi|315575298|gb|EFU87489.1| conserved hypothetical protein [Enterococcus faecalis TX0309B] gi|315581464|gb|EFU93655.1| conserved hypothetical protein [Enterococcus faecalis TX0309A] Length = 257 Score = 265 bits (679), Expect = 6e-69, Method: Composition-based stats. Identities = 76/255 (29%), Positives = 124/255 (48%), Gaps = 10/255 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEILTY-QKFFYYMLHKPQGVISATED-QRDETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQ 176 TEGLLLLTNDG LA L P + Y G V + L +G + G + Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSR 178 Query: 177 VTLDT--QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + ++T ++ + V + ++EGK ++K++ V L R+ G L TL G Sbjct: 179 LVIETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEY 238 Query: 234 REVSKKILREQLGPH 248 R +++ L +QL P Sbjct: 239 RPLTEAEL-QQLQPK 252 >gi|184201169|ref|YP_001855376.1| pseudouridine synthase [Kocuria rhizophila DC2201] gi|183581399|dbj|BAG29870.1| pseudouridine synthase [Kocuria rhizophila DC2201] Length = 368 Score = 265 bits (679), Expect = 6e-69, Method: Composition-based stats. Identities = 84/244 (34%), Positives = 129/244 (52%), Gaps = 2/244 (0%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVD 63 + + R+ K++A+AG+ASRR E MI RV V+G ++ V V + VD Sbjct: 121 RLEVHDENGVRLQKLMAQAGVASRRVCEEMIQDGRVSVDGEIVTELGVRVDPALQAVHVD 180 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLL 122 G+ ++ E+ + ++KP G+V+T DPDGR V D L P RV VGRLD+ TEGLL Sbjct: 181 GMRIQTDEKLVYYAFNKPAGVVSTMEDPDGRRCVSDFLDPRKHQRVFHVGRLDVETEGLL 240 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTNDG L L PS + + Y V+ HG V++ N +K+GI ++ L Sbjct: 241 LLTNDGELTNRLTHPSYEVPKTYLVQVHGPVEKGIGNQMKQGIRLEDGIAKVDDFRLVDS 300 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + V L G+NR ++++F+ + V +L R GP +G G+ R++S + Sbjct: 301 TPGHVLIEVVLHSGRNRIVRRMFDAVDHPVEKLARTHVGPIAIGDQKQGTVRKLSHTEVG 360 Query: 243 EQLG 246 L Sbjct: 361 NLLA 364 >gi|50121666|ref|YP_050833.1| 16S rRNA pseudouridylate synthase A [Pectobacterium atrosepticum SCRI1043] gi|49612192|emb|CAG75642.1| ribosomal small subunit pseudouridine synthase [Pectobacterium atrosepticum SCRI1043] Length = 231 Score = 265 bits (679), Expect = 6e-69, Method: Composition-based stats. Identities = 61/229 (26%), Positives = 112/229 (48%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + QRV V+G +++ A + ++E DG PL++ Sbjct: 1 MRLDKFLSQQLEISRSLVARELHAQRVTVDGEVVKSGAFKLSPEHNVEFDGNPLKQQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTILYFMDVPVAYKLHAAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y V + +D G+ + TL+ K ++ V + + Sbjct: 121 ITSPKHECEKTYLVTLELPLAEDTAEQFTVGVQLHNEKNLTKPATLE--KITDHVVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L + L G RE+S + + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGGICLDSELEPGEFRELSAEEV 227 >gi|315149408|gb|EFT93424.1| conserved hypothetical protein [Enterococcus faecalis TX0012] Length = 257 Score = 265 bits (679), Expect = 6e-69, Method: Composition-based stats. Identities = 76/255 (29%), Positives = 124/255 (48%), Gaps = 10/255 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEILTY-QKFFYYMLHKPQGVISATED-QRDETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQ 176 TEGLLLLTNDG LA L P + Y G V + L +G + G + Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSR 178 Query: 177 VTLDT--QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + ++T ++ + V + ++EGK ++K++ V L R+ G L TL G Sbjct: 179 LVIETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEY 238 Query: 234 REVSKKILREQLGPH 248 R +++ L +QL P Sbjct: 239 RPLTEDEL-QQLQPK 252 >gi|330966753|gb|EGH67013.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. actinidiae str. M302091] Length = 408 Score = 265 bits (679), Expect = 6e-69, Method: Composition-based stats. Identities = 119/375 (31%), Positives = 176/375 (46%), Gaps = 36/375 (9%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG V D I Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQSRIKVNGKDAT-LGQRVDLHDAI 62 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VDG +++ E R+ +Y+KP G + T DP+GR TVFD LP R I++GRLD Sbjct: 63 SVDGRVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLL+ T DG LA L PS + R Y VR G+VD D L LK G++++ Sbjct: 123 INTTGLLMFTTDGELANRLMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPARFT 182 Query: 176 QVT-LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDA-------------PIYSSETLVRD-RPNIIS 276 RE+S+ L ++G + + Q+N P+ E +VR RP + Sbjct: 243 REMSQYEVDILSAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVVRTLRPAAGA 302 Query: 277 EVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ------ 330 D T Q G + + +R + G + +D+ + Sbjct: 303 PATGDRT---PRQPQITGSERDRPRGGDSTQRPARKDSGK-PGSRAPRPADNSRGTPVAE 358 Query: 331 REENHRRSPSFPSKR 345 R + + P+ P + Sbjct: 359 RPSDMNKRPAKPGPK 373 >gi|294790885|ref|ZP_06756043.1| ribosomal large subunit pseudouridine synthase B [Scardovia inopinata F0304] gi|294458782|gb|EFG27135.1| ribosomal large subunit pseudouridine synthase B [Scardovia inopinata F0304] Length = 257 Score = 265 bits (679), Expect = 6e-69, Method: Composition-based stats. Identities = 77/242 (31%), Positives = 125/242 (51%), Gaps = 2/242 (0%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHI 60 + + QE+ R+ KV+A+AG SRR+ E MI RV+V+G L+ V V I Sbjct: 7 RAQKAHQESHDGVRLQKVLAQAGFGSRRKCEVMITDGRVEVDGELVTELGVRVDPQHQEI 66 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 VDG + + + +KP +++T DP GR T+ D + + R+ +GRLD +TEG Sbjct: 67 RVDGSRIHLSNKHITLALNKPRKVLSTMDDPKGRWTLRDIVGDRYERIFHMGRLDYDTEG 126 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTL 179 L+L+T+DG LA+ + P + + Y G + + L + G+ + Q ++ Sbjct: 127 LILMTDDGELAQHVMHPKYEIEKTYIATVEGHIGGGVCHRLVRTGVQLDDGWIKLDQCSI 186 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 TQ + + V L G+NR ++++F + V RLIR GP LG L +GS R +S Sbjct: 187 ITQNRERSVLKVVLHSGRNRIVRRIFGSIGFPVTRLIRTQIGPISLGELKSGSYRILSTH 246 Query: 240 IL 241 + Sbjct: 247 EV 248 >gi|148826192|ref|YP_001290945.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae PittEE] gi|148716352|gb|ABQ98562.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae PittEE] Length = 357 Score = 265 bits (679), Expect = 6e-69, Method: Composition-based stats. Identities = 111/294 (37%), Positives = 152/294 (51%), Gaps = 12/294 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + + Sbjct: 66 KASNQPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRI 125 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + + E R+ +Y+KP G + T SDP GR+TVFD LP SR I+VGRLDIN Sbjct: 126 DGQIINLSHAQKEICRVLMYYKPEGELCTRSDPKGRATVFDRLPRLTGSRWIAVGRLDIN 185 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 186 TSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGPANFKEI 245 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W + L EG+NRE+++++E +V+RLIRI YG +L L G E+ Sbjct: 246 KFTGGVGINQWYDITLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEM 305 Query: 237 SKK---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 + LRE +G L E + LD S + + R KK Sbjct: 306 DLENVNYLRELVG--LPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|167855222|ref|ZP_02477992.1| ribosomal large subunit pseudouridine synthase B [Haemophilus parasuis 29755] gi|167853675|gb|EDS24919.1| ribosomal large subunit pseudouridine synthase B [Haemophilus parasuis 29755] Length = 339 Score = 265 bits (679), Expect = 6e-69, Method: Composition-based stats. Identities = 104/278 (37%), Positives = 154/278 (55%), Gaps = 10/278 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDH 59 ++ +N + +++ K++ARAG SRRE+E +IA RV V+G + V V S+ Sbjct: 48 IETENKANDKIVGEKLQKILARAGQGSRREIEEVIAAGRVSVDGKIATLGDRVQVSSSTK 107 Query: 60 IEVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRL 114 I +DG + + E R+ +Y+KP G + T SDP+GR+TVFD LP SR I+VGRL Sbjct: 108 IRIDGNLVNLIPTQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAVGRL 167 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DINT GLLL T DG LA L PS + R Y VR G+V+ + L+KG+ ++ Sbjct: 168 DINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGEVNDAMIQRLRKGVQLEDGPANF 227 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 Q+ G N W V L EG+NRE+++++E +V+RLIRI YG +L +L G Sbjct: 228 KQIKAVGGTGINQWFDVTLTEGRNREVRRLWESQGIQVSRLIRIRYGNIKLEKSLPRGGW 287 Query: 234 REVSKK---ILREQLGPHLLEEAQVNLDAPIYSSETLV 268 E+ + LRE +G E +V++ + T Sbjct: 288 EEMGLEQVNYLRELVGLKPETETKVDVTKARRRTSTRQ 325 >gi|307245181|ref|ZP_07527272.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|307254128|ref|ZP_07535973.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|307258592|ref|ZP_07540327.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 11 str. 56153] gi|306853825|gb|EFM86039.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|306862828|gb|EFM94777.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|306867249|gb|EFM99102.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 11 str. 56153] Length = 230 Score = 265 bits (679), Expect = 6e-69, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 109/230 (47%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + R + V VNG L + +V + TD I +G L + Sbjct: 1 MRLDKFIAENTGLTRSQAARALKSGLVTVNGKLEKSGSVKIGDTDEICYEGERLEWVDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ +KP G V +H D + TVF + +++ + GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLYKPQGYVCSHDDGEY-PTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+ L +GI+++G + ++ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEDFYAKKLAEGILLRGEREPCLPAQMEIIDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G L +L G R ++++ + Sbjct: 178 ISEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDESLEEGEYRPLTEQEI 227 >gi|152978349|ref|YP_001343978.1| pseudouridine synthase [Actinobacillus succinogenes 130Z] gi|150840072|gb|ABR74043.1| pseudouridine synthase [Actinobacillus succinogenes 130Z] Length = 231 Score = 265 bits (679), Expect = 6e-69, Method: Composition-based stats. Identities = 65/234 (27%), Positives = 111/234 (47%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ +R + + I Q V+VNG + + A+ V D I DG PL E Sbjct: 1 MRLDKFIAQQTGLTRSQATKSIRQGVVEVNGNMEKSGALKVSPQDEIVFDGEPLPWLEGL 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ +KP G V +H D D TV+ + ++ + GRLD +T GL+LLT+DG + Sbjct: 61 QYFMLNKPQGYVCSHEDGDY-PTVYQFFDYPLAGKLHTAGRLDADTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+ + + ++GI+++G L+ N V + Sbjct: 120 RVTSPKHYCEKTYLVTLADPVESNYQSACEQGILLRGEKEATKPAKLEIIDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 + EG+ ++K++F KV L R G L L G R ++++ + L Sbjct: 178 ITEGRYHQVKRMFAALGNKVVALHRWRVGTVVLDDDLEEGGFRALTQQEIEALL 231 >gi|257056522|ref|YP_003134354.1| ribosomal large subunit pseudouridine synthase B [Saccharomonospora viridis DSM 43017] gi|256586394|gb|ACU97527.1| ribosomal large subunit pseudouridine synthase B [Saccharomonospora viridis DSM 43017] Length = 247 Score = 265 bits (678), Expect = 6e-69, Method: Composition-based stats. Identities = 73/237 (30%), Positives = 119/237 (50%), Gaps = 1/237 (0%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDG 64 ++ R+ KV+A+AG+ASRR E +IA RV V+G+++ V T I VDG Sbjct: 2 TTADSSEGVRLQKVLAKAGVASRRASEELIAAGRVSVDGVVVRELGRRVDPDTAVIHVDG 61 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + ++ + +KP G+ +T SD GR V D + R+ VGRLD +TEGLLLL Sbjct: 62 IRVQVRDDLVYLALNKPRGVHSTMSDAQGRPCVGDYVADRPERLFHVGRLDADTEGLLLL 121 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LA L PS + Y G V + L+ G+ + + + Sbjct: 122 TNDGDLAHKLMHPSFHVTKTYLAEVEGAVARGLGKRLRAGVQLSDGPVTADAFRIKDVRP 181 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + V + L EG+ ++++ V +L+R + G +LGT G+ R ++++ + Sbjct: 182 NRSLVEIVLHEGRKHIVRRLLAEVGHPVRKLVRTAIGEVRLGTTKPGTLRTLTQQEI 238 >gi|261416560|ref|YP_003250243.1| RNA-binding S4 domain protein [Fibrobacter succinogenes subsp. succinogenes S85] gi|261373016|gb|ACX75761.1| RNA-binding S4 domain protein [Fibrobacter succinogenes subsp. succinogenes S85] gi|302327436|gb|ADL26637.1| pseudouridine synthase B, ribosomal large subunit [Fibrobacter succinogenes subsp. succinogenes S85] Length = 243 Score = 265 bits (678), Expect = 6e-69, Method: Composition-based stats. Identities = 83/237 (35%), Positives = 123/237 (51%), Gaps = 6/237 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA-- 70 R++K I+ +G ASRR + ++A RV+VNG + V T D + VDG L+ Sbjct: 1 MRINKYISLSGFASRRAADELVADGRVQVNGETISDLGHQVDETKDQVTVDGKLLKLPTN 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++T++ ++HKP G V T DP GR TV+D LP + VGRLD+ + GLLL T+DG L Sbjct: 61 KKTKVIMFHKPAGCVCTKDDPQGRRTVYDYLPPGYHNFKYVGRLDLQSRGLLLFTDDGEL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---SNA 187 L PS + R Y V + + L G+ I+ D Q + N Sbjct: 121 LYRLTHPSFEVPRSYYVWTTRPLSESAAQRLVDGVDIRDPEDPDAQEEIAFATDVYLENG 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + L EGKNREI+++ +++ L R+SY QLG L AG RE++ L + Sbjct: 181 FAELVLIEGKNREIRRMMRAIGYEIRDLKRVSYCQIQLGDLPAGEFRELTPNELNKL 237 >gi|322514615|ref|ZP_08067646.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus ureae ATCC 25976] gi|322119449|gb|EFX91548.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus ureae ATCC 25976] Length = 230 Score = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 58/230 (25%), Positives = 109/230 (47%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + + V VNG + + + + TD I +G L + Sbjct: 1 MRLDKFIAENTGLTRSQAGKALKSGLVTVNGKIEKSGSAKISETDEICYEGECLEWVDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ +KP G V +H D + TVF + +++ + GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLYKPQGYVCSHDDGEY-PTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+ + L +GI+++G + ++ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEDFYVEKLAEGILLRGEREPCLPAQMEIIDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G L +L G R ++++ + Sbjct: 178 ISEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDESLEEGEYRLLTEQEI 227 >gi|188533404|ref|YP_001907201.1| 16S rRNA pseudouridylate synthase A [Erwinia tasmaniensis Et1/99] gi|188028446|emb|CAO96308.1| Ribosomal small subunit pseudouridine synthase A [Erwinia tasmaniensis Et1/99] Length = 234 Score = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 52/229 (22%), Positives = 103/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR R + ++V V+G ++ + + + IE DG L++ Sbjct: 1 MRLDKFLSQQLEVSRAIAARELRAKKVTVDGEVVRDGSYKLSADSAIEYDGNALQQQLGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP+G V + DPD + ++ ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPVGYVCSTDDPDHPTILYFLEEPSAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + L+ + + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPIGHDTAQQFADGVQLHNEKTLTKPAALEVIEPN--LVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L + G R +S + + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVALHRERIGAILLDTGMQPGEYRPLSDEEI 227 >gi|145631249|ref|ZP_01787022.1| predicted methyltransferase [Haemophilus influenzae R3021] gi|144983176|gb|EDJ90671.1| predicted methyltransferase [Haemophilus influenzae R3021] Length = 357 Score = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 112/294 (38%), Positives = 153/294 (52%), Gaps = 12/294 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + + Sbjct: 66 KASNQPKVEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRI 125 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + + E R+ +Y+KP G + T SDP+GR+TVFD LP SR I+VGRLDIN Sbjct: 126 DGQIINLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAVGRLDIN 185 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 186 TSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGPANFKEI 245 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ Sbjct: 246 KFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEM 305 Query: 237 SKK---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 + LRE +G L E + LD S + + R KK Sbjct: 306 DLENVNYLRELVG--LPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|332307043|ref|YP_004434894.1| pseudouridine synthase [Glaciecola agarilytica 4H-3-7+YE-5] gi|332174372|gb|AEE23626.1| pseudouridine synthase [Glaciecola agarilytica 4H-3-7+YE-5] Length = 305 Score = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 67/312 (21%), Positives = 130/312 (41%), Gaps = 12/312 (3%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 N + R++K I+ +G SRRE +++I RV +NG ++ V+ D + VDG Sbjct: 2 NTSNTTSSSIRLNKFISDSGFCSRREADKLIDSNRVTING-VIPELGTKVLPGDEVRVDG 60 Query: 65 VPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 ++ + YHKP+G+ T ++ + + D + R+ +GRLD +EG Sbjct: 61 NLVKASAENKSDRVYLAYHKPVGITCT-TERHVKGNIIDAI-GHRERIFPIGRLDKPSEG 118 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+ LT+DG + + + Y V + + + + G+ I VT+ Sbjct: 119 LIFLTSDGDIVNKILRAENAHDKEYIVTVDRPLTERFIQAMAAGVPILDTVTKPCTVTMQ 178 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 S + L +G NR+I+++ E+ + V +L R +L L G R ++ Sbjct: 179 ----SKFVFRIILTQGLNRQIRRMCEYLGYGVTKLKRSRIMSIRLAGLKVGQWRNLTPDE 234 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 + E + + + DA + + R N +++ + +++ + K Sbjct: 235 MHE-INSAVAGSTKTAEDAKHKTDTAVPDKRTNHVAKRSGNRGLKSDRGPERSQVRKHST 293 Query: 301 LATPVHRRNLAS 312 A RR Sbjct: 294 SAKTSSRRAPKR 305 >gi|85859158|ref|YP_461360.1| RNA pseudouridylate synthase S4 domain-containing protein [Syntrophus aciditrophicus SB] gi|85722249|gb|ABC77192.1| RNA pseudouridylate synthase S4 domain [Syntrophus aciditrophicus SB] Length = 251 Score = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 84/236 (35%), Positives = 132/236 (55%), Gaps = 1/236 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K++AR+G+ASRR+ E MI + RV VN ++ D I VDG + E Sbjct: 3 ERLQKILARSGVASRRKAEEMIREGRVSVNSEIVRELGSKADIERDEIRVDGKLICAEET 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G VT SDP R V LP + R+ VGRLD ++EGLLLLTNDGG A+ Sbjct: 63 KVYVMLNKPRGYVTALSDPQKRPLVIHLLPELGVRLFPVGRLDYDSEGLLLLTNDGGFAQ 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 ++ P + + YRV+ G+++ + N L+KG+ ++ + +V L+ ++W+T+ Sbjct: 123 RVQHPRYRISKTYRVKISGRLNAAEFNRLQKGLELEDGKFAPDEVALEEINPKSSWLTMK 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+NR I++ FE +V RLIR + LG L G R + +++ L P Sbjct: 183 ISEGRNRVIRRAFEQLGHEVLRLIRTAVADLHLGNLREGDYRLLKGWEVQQLLTPR 238 >gi|294786929|ref|ZP_06752183.1| ribosomal large subunit pseudouridine synthase B [Parascardovia denticolens F0305] gi|315226566|ref|ZP_07868354.1| ribosomal large subunit pseudouridine synthase B [Parascardovia denticolens DSM 10105] gi|294485762|gb|EFG33396.1| ribosomal large subunit pseudouridine synthase B [Parascardovia denticolens F0305] gi|315120698|gb|EFT83830.1| ribosomal large subunit pseudouridine synthase B [Parascardovia denticolens DSM 10105] Length = 257 Score = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 74/239 (30%), Positives = 123/239 (51%), Gaps = 2/239 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVP 66 +++ R+ KV+A+AG SRR+ E MI RV+V+G L+ V V I VDG Sbjct: 13 EDSQEGVRLQKVLAQAGFGSRRKCETMITDGRVEVDGDLVTELGVRVDPLHQEIRVDGSR 72 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + R +KP +++T DP GR T+ D + + R+ +GRLD +TEGL+L+T+ Sbjct: 73 IHISNRHVTLALNKPRKVLSTMDDPKGRWTLRDIVGDRYERIFHMGRLDYDTEGLILMTD 132 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 DG LA+ + P + + Y G + + L + G+ + Q ++ Q Sbjct: 133 DGELAQHVMHPKYEVDKTYIATVEGHIGGSVCHRLVRTGVQLDDGWIKLDQCSIIDQNRD 192 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + V V + G+NR +++VF + V +LIR GP +LG L +GS R ++ + Sbjct: 193 RSVVKVVIHSGRNRIVRRVFGAIGFPVVKLIRTQIGPIKLGELKSGSYRVLTGAEVNAL 251 >gi|315146884|gb|EFT90900.1| conserved hypothetical protein [Enterococcus faecalis TX4244] Length = 257 Score = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 76/255 (29%), Positives = 124/255 (48%), Gaps = 10/255 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEILTY-QKFFYYMLHKPQGVISATED-QRDETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQ 176 TEGLLLLTNDG LA L P + Y G V + L +G + G + Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEIVKPSR 178 Query: 177 VTLDT--QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + ++T ++ + V + ++EGK ++K++ V L R+ G L TL G Sbjct: 179 LVIETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEY 238 Query: 234 REVSKKILREQLGPH 248 R +++ L +QL P Sbjct: 239 RPLTEAEL-QQLQPK 252 >gi|301056058|ref|YP_003794269.1| pseudouridylate synthase [Bacillus anthracis CI] gi|300378227|gb|ADK07131.1| pseudouridylate synthase [Bacillus cereus biovar anthracis str. CI] Length = 229 Score = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 66/235 (28%), Positives = 115/235 (48%), Gaps = 10/235 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEANSCSRRETDRLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIA 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V +N + G+ I+ +VT + + + Sbjct: 117 NQILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVT----RVDQSTFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 173 VLTQGMNRQIRRMSRAFGFTVIKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|332521591|ref|ZP_08398044.1| pseudouridine synthase [Lacinutrix algicola 5H-3-7-4] gi|332042680|gb|EGI78880.1| pseudouridine synthase [Lacinutrix algicola 5H-3-7-4] Length = 261 Score = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 67/269 (24%), Positives = 126/269 (46%), Gaps = 10/269 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++E T R++K ++ AG SRRE +R+I RV +NG + V D +EVDG Sbjct: 1 MEEKLT--RLNKYLSEAGYCSRREADRLIDAGRVTINGTVP-ELGTKVGENDVVEVDGKS 57 Query: 67 L-RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + + ++KP+G+V T + + D + R+ +GRLD +EGL+ LT Sbjct: 58 ITERKTDFVYLAFNKPVGIVCTTDTRVEKDNIIDFI-KYPKRIFPIGRLDKPSEGLIFLT 116 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG + + S + Y V + Q + + GI ++ + + T+ +K Sbjct: 117 DDGDIVNKILRASNNHEKEYIVTVDKPISQTFIKRMAGGIYLEDLDKTTKKCTV--RKID 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + ++ L +G NR+I+++ E+ ++V L R+ +L + G RE + + L+ Sbjct: 175 SQTFSIILTQGLNRQIRRMCEYLTYEVTSLKRVRIMNIKL-DVPIGEYREFTAEELKTL- 232 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNI 274 LLE++ N + + +R Sbjct: 233 -NMLLEDSDKNYSETTPAKKVHKINRRKT 260 >gi|15598375|ref|NP_251869.1| hypothetical protein PA3179 [Pseudomonas aeruginosa PAO1] gi|107102709|ref|ZP_01366627.1| hypothetical protein PaerPA_01003775 [Pseudomonas aeruginosa PACS2] gi|116051168|ref|YP_790001.1| hypothetical protein PA14_23110 [Pseudomonas aeruginosa UCBPP-PA14] gi|218890629|ref|YP_002439493.1| putative pseudouridine synthase [Pseudomonas aeruginosa LESB58] gi|254236141|ref|ZP_04929464.1| conserved hypothetical protein [Pseudomonas aeruginosa C3719] gi|254241866|ref|ZP_04935188.1| conserved hypothetical protein [Pseudomonas aeruginosa 2192] gi|296388337|ref|ZP_06877812.1| putative pseudouridine synthase [Pseudomonas aeruginosa PAb1] gi|34098721|sp|Q9HZ55|RLUB_PSEAE RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|9949297|gb|AAG06567.1|AE004742_3 conserved hypothetical protein [Pseudomonas aeruginosa PAO1] gi|115586389|gb|ABJ12404.1| putative pseudouridine synthase [Pseudomonas aeruginosa UCBPP-PA14] gi|126168072|gb|EAZ53583.1| conserved hypothetical protein [Pseudomonas aeruginosa C3719] gi|126195244|gb|EAZ59307.1| conserved hypothetical protein [Pseudomonas aeruginosa 2192] gi|218770852|emb|CAW26617.1| putative pseudouridine synthase [Pseudomonas aeruginosa LESB58] Length = 386 Score = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 111/372 (29%), Positives = 176/372 (47%), Gaps = 19/372 (5%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M D +++ KV+AR G+ SRR+VE IA+ RV VNG + V S D I Sbjct: 1 MNDTPENPHVPVGEKLQKVLARLGVGSRRDVEVWIAEGRVNVNGSVA-SLGQRVDSHDAI 59 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VDG +R+ E R+ +Y+KP G V T DP+GR T+FD LP + + R I+VGRLD Sbjct: 60 TVDGHLIRREEAAESVRRVLIYNKPEGEVCTRDDPEGRPTIFDRLPRLRTGRWINVGRLD 119 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLLL T DG LA L PS + R Y VR G+V ++ + L G++++ Sbjct: 120 INTTGLLLFTTDGELANRLMHPSYEMDREYAVRVRGEVTEEMIERLLNGVMLEDGPAKFS 179 Query: 176 QV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ +GP L L G Sbjct: 180 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLTSELTMGRY 239 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDAPIYS-SETLVRDRPNIISEVPDDFTRMKKNS 289 RE+ ++ L E++G + + A + + + RP SE P+ + Sbjct: 240 REMDQREIDILSEEVGLKPVALPGMTTKAREKAERQQRKQARPLARSERPEAGRKRAPRR 299 Query: 290 SQKNGLSKQKKLATP-------VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFP 342 +++ + P R+ +A+ S + + R + + Sbjct: 300 EDGENAARRAPASRPARGPQPSAERKGREQGTPVAERPRESNRKPRPSKPRDERPASAPG 359 Query: 343 SKRSLRRTSAKK 354 K + R+ K+ Sbjct: 360 DKPAARKPQVKR 371 >gi|329121295|ref|ZP_08249922.1| ribosomal large subunit pseudouridine synthase B [Dialister micraerophilus DSM 19965] gi|327470229|gb|EGF15692.1| ribosomal large subunit pseudouridine synthase B [Dialister micraerophilus DSM 19965] Length = 240 Score = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 83/238 (34%), Positives = 135/238 (56%), Gaps = 4/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K+I+ AG+ SRR+ E +I RVKVNG + + S D IEV+G ++K ER Sbjct: 3 ERLQKIISHAGVCSRRKAEELIKDGRVKVNGHTVTKLGTEADSVRDCIEVNGKVIKK-ER 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +L++KP ++T+ +DP GR TV D I RV VGRLD ++EGLLL+TNDG L Sbjct: 62 LKYFLFNKPDKVITSMTDPAGRRTVADYFSQIKERVFPVGRLDYHSEGLLLMTNDGDLDY 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 +L PS + ++Y V G+ + + +G+ I + + + ++ + ++ Sbjct: 122 ILTHPSHEVYKIYEVVVRGKFSERLAEKMSEGVKIDSGITAPCDIEIISYDKEKNKTFLK 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L EGKNREI+K+ E F++ V +L R+ Y L + G+ R +S + +R H Sbjct: 182 MVLHEGKNREIRKMMEAFHFPVFKLERVGYSFLTLKGVSRGTFRSLSPEEVRRLYELH 239 >gi|256820536|ref|YP_003141815.1| RNA-binding S4 domain-containing protein [Capnocytophaga ochracea DSM 7271] gi|256582119|gb|ACU93254.1| RNA-binding S4 domain protein [Capnocytophaga ochracea DSM 7271] Length = 387 Score = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 73/243 (30%), Positives = 123/243 (50%), Gaps = 5/243 (2%) Query: 2 KDKNIVQENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + I TP R++K IA AGI SRR + I+ V VNG ++ V TD Sbjct: 140 NNAPIDYPTTTPAEVRLNKYIADAGICSRRNADMYISAGNVTVNGEVMTTLGYRVKPTDE 199 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINT 118 + DG L +E+ L +KP G +TT +D GR TV D + + + R++ VGRLD T Sbjct: 200 VRFDGKLLS-SEKKEYILLNKPKGFITTTNDEKGRKTVMDLVANATNVRILPVGRLDRAT 258 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLLLTNDG L + L P+ ++Y V ++D ++ G+ ++ +++ Sbjct: 259 TGLLLLTNDGELTKKLTHPTHGVRKIYHVILDRKLDYKDFMKVQDGLELEDGLIEVDEIS 318 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 K N + + + G+NR ++++FE ++V +L R+ + L G R +++ Sbjct: 319 YVNDKPKN-EIGIKIHSGRNRIVRRIFEHLGYQVEKLDRVVFAGLTKKDLPRGHWRRLTQ 377 Query: 239 KIL 241 + + Sbjct: 378 QEV 380 >gi|59712175|ref|YP_204951.1| 23S rRNA pseudouridine synthase [Vibrio fischeri ES114] gi|197334855|ref|YP_002156383.1| ribosomal large subunit pseudouridine synthase F [Vibrio fischeri MJ11] gi|59480276|gb|AAW86063.1| 23S rRNA pseudouridine synthase [Vibrio fischeri ES114] gi|197316345|gb|ACH65792.1| ribosomal large subunit pseudouridine synthase F [Vibrio fischeri MJ11] Length = 314 Score = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 69/312 (22%), Positives = 136/312 (43%), Gaps = 15/312 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I QQR+ +NG + V D + VDG PL++ + Sbjct: 10 RLNKFISDTGYCSRREADKLIDQQRITINGKIP-EMGTKVADGDEVLVDGKPLKEKQDRI 68 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++KP+G+ T ++ + D + + R+ +GRLD ++GL+ LTNDG + + Sbjct: 69 YIAFNKPVGITCT-TERHVEGNIVDYI-NHEQRIFPIGRLDKPSDGLIFLTNDGDIVNKI 126 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + L + G+ I ++ + S + L Sbjct: 127 LRAGNAHEKEYVVRVDKPITDEFLQKMAAGVPILDTVTLPCKIK----QESRFVFRITLT 182 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG-------P 247 +G NR+I+++ E+ +++V +L R+ LG L +G R +S+ + + G Sbjct: 183 QGLNRQIRRMCEYLDYEVFKLKRVRIMNIDLGKLASGEWRYLSQAEMDQLNGMIGTSSKT 242 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 +D + + R + + + R K + + + ++K Sbjct: 243 EEASRKVKEIDGKVRVLKKASSGRNHHSNNTFKENRREKAKEGRFSKSAPKRKNDRKEQG 302 Query: 308 RNLAS-NVWMAK 318 + + VW K Sbjct: 303 KPQSEIKVWRPK 314 >gi|229817643|ref|ZP_04447925.1| hypothetical protein BIFANG_02913 [Bifidobacterium angulatum DSM 20098] gi|229785432|gb|EEP21546.1| hypothetical protein BIFANG_02913 [Bifidobacterium angulatum DSM 20098] Length = 257 Score = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 73/237 (30%), Positives = 120/237 (50%), Gaps = 2/237 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 N R+ K++A+AG SRR+ E+MI RV+V+G L+ V T I VDG +R Sbjct: 15 NQEGIRLQKLLAQAGFGSRRKCEQMITDGRVEVDGELVTELGTRVDPTHQQIRVDGSRVR 74 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TNDG Sbjct: 75 ISNKHITLALNKPRKVLSAMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTNDG 134 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNA 187 L++ + P + + Y G++ L G+ + + + Sbjct: 135 ELSQHVMHPKYEVEKTYIATLEGRISGTVCRRLVTTGVQLDDGWIKLDRCAIIDATHDTT 194 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L GKNR ++++F + V RL+R GP +LG L +GS R +S+ +R Sbjct: 195 IVKVVLHSGKNRIVRRIFGSIGFPVKRLVRTQIGPIKLGDLKSGSYRVLSQTEVRSL 251 >gi|19879252|gb|AAK38326.1| hypothetical pseudouridine synthase [Flavobacterium johnsoniae UW101] Length = 304 Score = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 65/275 (23%), Positives = 127/275 (46%), Gaps = 13/275 (4%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++EN R++K I G SRRE +++I + RV +NG V S D I +DG Sbjct: 1 MEENLK--RLNKFIGETGYCSRREADKLIEEGRVTINGA-AAEMGTKVSSDDEIRIDGKL 57 Query: 67 L-RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + K E+ ++KP+G+ T ++ + ++ + D + + R+ +GRLD +EGL+ +T Sbjct: 58 IVEKHEKLVYLAFNKPVGIECT-TNLEVKNNIVDYI-NYPKRIFPIGRLDKASEGLIFMT 115 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y V + + + + + G+ I +V ++ S Sbjct: 116 NDGDIVNKILRARNNHEKEYTVTVNKPITERFIQRMGNGVPILDTVTKKCKV----EQIS 171 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E+ ++V L RI L + G R+++ ++E Sbjct: 172 KYTFKIILTQGLNRQIRRMSEYLGYEVTALKRIRIINISL-DVPVGRYRDLTDAEIKEL- 229 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPD 280 L+E + +A + + R + D Sbjct: 230 -NKLIEPSSKTEEASLPKAAAPTPSRRSTFISKND 263 >gi|289423805|ref|ZP_06425600.1| ribosomal large subunit pseudouridine synthase B [Peptostreptococcus anaerobius 653-L] gi|289155844|gb|EFD04514.1| ribosomal large subunit pseudouridine synthase B [Peptostreptococcus anaerobius 653-L] Length = 238 Score = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 117/233 (50%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR-KAE 71 R++K IA +G+ASRR+ E +I + R++VN +++ + V D + D P+ K E Sbjct: 1 MRINKFIAASGVASRRKAETLILEGRIRVNNKVIKELSYQVDEDLDQVTFDNKPISVKDE 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +KP G +T+ D R +V D I R+ VGRLD T GLLL+TNDG L Sbjct: 61 KLVYIMLNKPEGYITSVKDQFDRPSVSDLTSDIKERIYPVGRLDYETSGLLLMTNDGDLT 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWV 189 + P + + Y G V Q++ + G+ I+ + + + + Sbjct: 121 YKITHPKHEMNKTYIASVRGIVTQEEKYAFENGLKIEDYTTAKANLKILKTDTNKNYSVC 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + EGKNR+++K+F+ N L R+ G +G L G R+++K+ + Sbjct: 181 KVTIHEGKNRQVRKMFQAINHPTMNLKRVQVGKINIGDLELGKYRKLTKEEIE 233 >gi|145639281|ref|ZP_01794887.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae PittII] gi|145271584|gb|EDK11495.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae PittII] gi|309751158|gb|ADO81142.1| 23S rRNA pseudouridylate synthase RluB [Haemophilus influenzae R2866] Length = 357 Score = 265 bits (678), Expect = 8e-69, Method: Composition-based stats. Identities = 111/290 (38%), Positives = 152/290 (52%), Gaps = 12/290 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGL 121 + + E R+ +Y+KP G + T SDP+GR+TVFD LP SR I+VGRLDINT GL Sbjct: 130 INLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAVGRLDINTSGL 189 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 190 LLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGPANFKEIKFTG 249 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 250 GVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEMDLEN 309 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 LRE +G L E + LD S + + R KK Sbjct: 310 VNYLRELVG--LPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|255099545|ref|ZP_05328522.1| putative RNA pseudouridine synthase [Clostridium difficile QCD-63q42] Length = 240 Score = 265 bits (678), Expect = 8e-69, Method: Composition-based stats. Identities = 66/234 (28%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 QR+ K+++ G SR E+++ Q V VNG + V D I +G + E Sbjct: 5 QRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYRE- 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G ++ +D TV D + + VGRLD +TEGLL+LTNDG L Sbjct: 64 YIYLMMNKPAGYISATTD-KYDPTVLDLIDLSYLVFEPFPVGRLDKDTEGLLVLTNDGKL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSNAWV 189 + + P + Y + G V ++ + +G+V+ Y M L+ + + + Sbjct: 123 SHRVLSPKKHVPKTYYAKIDGVVTEEDVEAFLEGVVLDDG-YKTMPSQLNILKSDDESEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R+S G +L +L G RE++ + ++ Sbjct: 182 ELTIHEGKFHQVKRMFESVGKKVVYLKRLSMGNLKLDESLELGEYRELTDEEVK 235 >gi|297565186|ref|YP_003684158.1| pseudouridine synthase [Meiothermus silvanus DSM 9946] gi|296849635|gb|ADH62650.1| pseudouridine synthase [Meiothermus silvanus DSM 9946] Length = 245 Score = 265 bits (678), Expect = 8e-69, Method: Composition-based stats. Identities = 72/249 (28%), Positives = 122/249 (48%), Gaps = 8/249 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDG 64 + + + T +R+ KV+A G+ SR+E+ ++ R+ V+G ++ A + + I VDG Sbjct: 1 MKKAHLTKERLDKVLAHLGLGSRKEIHKLARAGRITVDGEVITDAGFKLDPRSARIAVDG 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + E + L +KP G VT+ D DG +V L + + VGRLD +TEGLLL+ Sbjct: 61 EEVFYREFFHV-LLNKPAGYVTSTQDRDG-PSVTHLLEMVRDDWMPVGRLDKDTEGLLLI 118 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T DG LA L P + + Y Q + G ++G ++TL G Sbjct: 119 TTDGELAHRLTHPRWKVPKRYYAELAEPATQADVEAFAAGFELEGEPLQPAELTL----G 174 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + V + +REG+ ++K++F +V L R+++GP +L L G +R ++ + Sbjct: 175 KDRRVELVIREGRYHQVKRMFAARGNRVVYLKRVAFGPLELPEDLELGESRYLTAEEEHA 234 Query: 244 QLGPHLLEE 252 G LE Sbjct: 235 LYGAVGLEP 243 >gi|52140796|ref|YP_086033.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus cereus E33L] gi|229198871|ref|ZP_04325562.1| Pseudouridine synthase [Bacillus cereus m1293] gi|51974265|gb|AAU15815.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus cereus E33L] gi|228584574|gb|EEK42701.1| Pseudouridine synthase [Bacillus cereus m1293] Length = 242 Score = 265 bits (678), Expect = 8e-69, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 114/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGIPVKDAKVHVNVEEQEVMIHGEVVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LL+TNDG L Sbjct: 60 FVYLMMHKPQGVISATED-DNHETVIDLLELEDAIFNPFPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 + L P + Y G V ++ + KG+++ G +T+ + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >gi|313892540|ref|ZP_07826127.1| pseudouridine synthase B, ribosomal large subunit [Dialister microaerophilus UPII 345-E] gi|313118937|gb|EFR42142.1| pseudouridine synthase B, ribosomal large subunit [Dialister microaerophilus UPII 345-E] Length = 240 Score = 265 bits (678), Expect = 8e-69, Method: Composition-based stats. Identities = 83/238 (34%), Positives = 136/238 (57%), Gaps = 4/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K+I+ AG+ SRR+ E +I + RVKVNG + + S D IEV+G ++K ER Sbjct: 3 ERLQKIISHAGVCSRRKAEELIKEGRVKVNGHTVTKLGTEADSVRDCIEVNGKVIKK-ER 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +L++KP ++T+ +DP GR TV D I RV VGRLD ++EGLLL+TNDG L Sbjct: 62 LKYFLFNKPDKVITSMTDPAGRRTVSDYFSQIKERVFPVGRLDYHSEGLLLMTNDGDLDY 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 +L PS + ++Y V G+ + + +G+ I + + + ++ + ++ Sbjct: 122 ILTHPSHEVYKIYEVVVRGKFSERLAEKMSEGVKIDSGITAPCDIEIISYDKEKNKTFLK 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L EGKNREI+K+ E F++ V +L R+ Y L + G+ R +S + +R H Sbjct: 182 MVLHEGKNREIRKMMEAFHFPVFKLERVGYSFLTLKGVSRGTFRSLSPEEVRRLYELH 239 >gi|254517600|ref|ZP_05129656.1| ribosomal large subunit pseudouridine synthase f [Clostridium sp. 7_2_43FAA] gi|226911349|gb|EEH96550.1| ribosomal large subunit pseudouridine synthase f [Clostridium sp. 7_2_43FAA] Length = 258 Score = 265 bits (678), Expect = 8e-69, Method: Composition-based stats. Identities = 67/249 (26%), Positives = 119/249 (47%), Gaps = 14/249 (5%) Query: 1 MKDKN------IVQENFTPQ-RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN 53 MK KN I+ + P+ R++K I+ G SRRE +++I RV V+GI Sbjct: 1 MKQKNNEDKFVIIHNDRGPEIRLNKFISETGFCSRREADKLIENGRVTVDGIKA-VMGTK 59 Query: 54 VMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 V + ++VDG ++K + +KP+G+ T ++ + + D + + R+ +GR Sbjct: 60 VKESADVKVDGKSIKKVDELVYIALNKPVGITCT-TEKKVKGNIVDFV-NHKKRIFPIGR 117 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LD +++GL+LLTNDG + + + Y V +D+ + + G+ I G Sbjct: 118 LDKDSQGLILLTNDGDVVNKILRAGNNHEKEYIVTVDKPIDEKFIKSMSSGVKILGTITK 177 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 VT K + + L +G NR+I+++ E + V +L RI + L G Sbjct: 178 KCIVT----KENKNTFRIILTQGMNRQIRRMCEALGYNVVKLNRIRIMNINIERLKIGEW 233 Query: 234 REVSKKILR 242 R ++ K L+ Sbjct: 234 RNLTSKELK 242 >gi|182625540|ref|ZP_02953311.1| RNA pseudouridine synthase family protein [Clostridium perfringens D str. JGS1721] gi|177909228|gb|EDT71693.1| RNA pseudouridine synthase family protein [Clostridium perfringens D str. JGS1721] Length = 298 Score = 265 bits (678), Expect = 8e-69, Method: Composition-based stats. Identities = 68/261 (26%), Positives = 128/261 (49%), Gaps = 12/261 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + +KN +++ R++K I+ G SRRE +++I Q RVK++G+ + V + Sbjct: 50 VSNKNEIRDEV---RLNKYISETGFCSRREADKLIEQGRVKIDGLKATT-GMKVSKGQSV 105 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +DG PL+ +KP+G+ T ++ + + D + + R+ +GRLD +++G Sbjct: 106 SIDGKPLKVENELVYIALNKPVGITCT-TESKIKGNIVDFI-NHEKRIFPIGRLDKDSQG 163 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+ +TNDG + + + Y V + + + + + G+ I G V + Sbjct: 164 LIFMTNDGDIVNKILRAGNNHEKEYIVTVNKPITDEFIKGMSNGVPILGTVTKKCLVKKE 223 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + L +G NR+I+++ E+F ++V +L RI LG L GS R ++KK Sbjct: 224 SKNS----FRIILTQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKMGSWRYLTKKE 279 Query: 241 LREQLGPHLLEEAQVNLDAPI 261 L E L E + +A I Sbjct: 280 LAEI--NRLTENSSKTEEASI 298 >gi|324328601|gb|ADY23861.1| RNA pseudouridine synthase family protein [Bacillus thuringiensis serovar finitimus YBT-020] Length = 242 Score = 265 bits (678), Expect = 8e-69, Method: Composition-based stats. Identities = 70/234 (29%), Positives = 115/234 (49%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LL+TNDG L Sbjct: 60 FVYLMMHKPQGVISATED-DNHETVIDLLELEDAIFNPFPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 + L P + Y G V ++ + KG+++ G +T+ + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L RI GP L L G RE++ + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRIEMGPLVLDEELELGQYRELTDEEVE 231 >gi|172057049|ref|YP_001813509.1| RNA-binding S4 domain-containing protein [Exiguobacterium sibiricum 255-15] gi|171989570|gb|ACB60492.1| RNA-binding S4 domain protein [Exiguobacterium sibiricum 255-15] Length = 253 Score = 265 bits (678), Expect = 8e-69, Method: Composition-based stats. Identities = 92/240 (38%), Positives = 136/240 (56%), Gaps = 8/240 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA+AG+ASRR+ E +I + RVKVNG ++ V +EVDGV L + E Sbjct: 2 ERLQKIIAQAGVASRRKAEELITEGRVKVNGKVITELGTKVGGRAEVEVDGVKLEREE-H 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G+V+T D GR TV D +P RV VGRLD NT GLLLLTNDG + + Sbjct: 61 VYYMLYKPTGVVSTVEDDKGRKTVVDLVPPG-HRVFPVGRLDYNTSGLLLLTNDGEFSNL 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTL--DTQKGSNAWVT 190 L P + + Y V+ G D + L+KG+V+ G G +V + +K + A + Sbjct: 120 LLHPKYKVPKRYIVKIKGVPDYYHVKGLEKGVVLPDGFKTGKARVEMRDIDKKKNTAILE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI---LREQLGP 247 + + EG NR+++++ E +V +L R +G L L +G RE+SKK LRE P Sbjct: 180 MVIYEGHNRQVRQMVETLGAEVIKLKREQFGFLTLAGLTSGDWRELSKKEVNQLRELADP 239 >gi|290475237|ref|YP_003468123.1| Ribosomal large subunit pseudouridine synthase F [Xenorhabdus bovienii SS-2004] gi|289174556|emb|CBJ81350.1| Ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Xenorhabdus bovienii SS-2004] Length = 290 Score = 265 bits (678), Expect = 8e-69, Method: Composition-based stats. Identities = 72/293 (24%), Positives = 131/293 (44%), Gaps = 11/293 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--A 70 R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 6 SIRLNKYISESGICSRRDADRYIEQGNVFINGKRAA-VGDQVFAGDIVKVNGQLIEPRDE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP+G++TT D + R + D + + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIITTMEDSE-RDNISDFV-NHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + + G+ + G +V QK ++ Sbjct: 123 VNKILRAGNNHEKEYVVTVNKPVTDEFIQGMSAGVPMLGTVTKKCKV----QKEASFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ + F ++V RL R L L G R+++ L E L+ Sbjct: 179 ITLVQGLNRQIRRMCKHFGYEVTRLERTRIMNVNLKGLPQGEWRDLTDDELIELF--KLI 236 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 E + + + V + +E + ++S+K +K Sbjct: 237 ENSSSEEKSAKKAQTKHVTAKKTGFNEPKNAEKSDGNSASRKRFTQSGRKKKG 289 >gi|300691724|ref|YP_003752719.1| ribosomal large subunit pseudouridine synthase B [Ralstonia solanacearum PSI07] gi|299078784|emb|CBJ51444.1| Ribosomal large subunit pseudouridine synthase B [Ralstonia solanacearum PSI07] Length = 594 Score = 265 bits (678), Expect = 8e-69, Method: Composition-based stats. Identities = 100/316 (31%), Positives = 155/316 (49%), Gaps = 11/316 (3%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG+ ++ TD + Sbjct: 204 KVRELTSEDDAP-KLHKILADAGLGSRRDMEDLILQGRVSVNGLPA-HIGQRILPTDQVR 261 Query: 62 VDGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDIN 117 V+G ++ + R+ LYHKP G + + SDP+GR TVFD+LP + + + ++VGRLD N Sbjct: 262 VNGKLIQRKLPNKAPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFN 321 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L +G+ + + Sbjct: 322 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELSESDRQKLLQGVRLDDGEANFLSC 381 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 382 ADGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 441 Query: 237 SKKILR---EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 S + +R LG + + + R P + + Q Sbjct: 442 SAEEVRVLMGLLGLKVPTASAGGGQGGQGGRQGNRRREAQPALTGPMSSGFTGEATFQSR 501 Query: 294 GLS-KQKKLATPVHRR 308 G+ + A P RR Sbjct: 502 GMGVENGNRALPAPRR 517 >gi|327394528|dbj|BAK11950.1| ribosomal small subunit pseudouridine synthase A RsuA [Pantoea ananatis AJ13355] Length = 239 Score = 265 bits (677), Expect = 8e-69, Method: Composition-based stats. Identities = 64/241 (26%), Positives = 106/241 (43%), Gaps = 3/241 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I++ SR R I QRV VNG ++ A + +E DG L+ Sbjct: 1 MRLDKFISQQLEISRAIAAREIRGQRVTVNGDVVRDTAFKLQPDHEVEYDGNVLQMQTGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + V+ + ++ + GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTIVYFIEEPMAFKLHAAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + YRV V D G+ + L+ + V + L Sbjct: 121 ITSPRHHCEKTYRVTLEAPVSDDTAAQFSAGVQLHNEKSLTKPAQLEV--ITPTEVLLTL 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLLEE 252 EG+ ++K++F +V L R G L L G R ++++ + P L++ Sbjct: 179 SEGRYHQVKRMFAAVGNRVVGLHRERIGEIVLDEALEPGEYRLLTEEEIASIGLPDELKQ 238 Query: 253 A 253 Sbjct: 239 K 239 >gi|253989148|ref|YP_003040504.1| 16S rRNA pseudouridylate synthase A [Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949] gi|253780598|emb|CAQ83760.1| ribosomal small subunit pseudouridine synthase A [Photorhabdus asymbiotica] Length = 233 Score = 265 bits (677), Expect = 8e-69, Method: Composition-based stats. Identities = 52/229 (22%), Positives = 101/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR EV R + R+ V+ +++ A + I DG L + + Sbjct: 1 MRLDKFLSQQLGISRNEVGRELRAGRITVDDEIIKTGAYKITPEQQIMFDGSLLEQQQGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DP + ++ ++ + GRLD++T GL+LLT+DG + Sbjct: 61 RYFMLNKPSGYVCSTDDPVNPTVLYFIDEPAAHKLHTAGRLDMDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V + + G+ + G L+ + + + Sbjct: 121 ITSPKHHCKKTYLVTLECPVAAETADKFLAGVQLHGEKTLTKPAQLEMLEPQVT--RLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNRVIELHRERIGEIILDPALEPGEYRPLTEQEV 227 >gi|228903228|ref|ZP_04067361.1| Pseudouridine synthase [Bacillus thuringiensis IBL 4222] gi|228967810|ref|ZP_04128824.1| Pseudouridine synthase [Bacillus thuringiensis serovar sotto str. T04001] gi|228791860|gb|EEM39448.1| Pseudouridine synthase [Bacillus thuringiensis serovar sotto str. T04001] gi|228856402|gb|EEN00929.1| Pseudouridine synthase [Bacillus thuringiensis IBL 4222] Length = 242 Score = 265 bits (677), Expect = 8e-69, Method: Composition-based stats. Identities = 68/234 (29%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LL+TNDG L Sbjct: 60 FVYLMMHKPQGVISATED-DNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 + L P + Y G V ++ + KG+++ G +T+ + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGTLTIL-KSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >gi|167816044|ref|ZP_02447724.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 91] Length = 358 Score = 265 bits (677), Expect = 8e-69, Method: Composition-based stats. Identities = 92/288 (31%), Positives = 146/288 (50%), Gaps = 8/288 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 60 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 118 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 119 GKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTE 178 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 179 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRIRD 238 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 239 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 298 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 +R + L+ D R +P+ + R Sbjct: 299 AQVRRLMSTVGLKA--PTEDKGGKRGGPAERRQPDPMQTSMGFINREP 344 >gi|160945258|ref|ZP_02092484.1| hypothetical protein FAEPRAM212_02777 [Faecalibacterium prausnitzii M21/2] gi|158442989|gb|EDP19994.1| hypothetical protein FAEPRAM212_02777 [Faecalibacterium prausnitzii M21/2] Length = 275 Score = 265 bits (677), Expect = 8e-69, Method: Composition-based stats. Identities = 89/274 (32%), Positives = 139/274 (50%), Gaps = 4/274 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--R 68 +R+ K++A G+ SRR E++IA+ RVKVNG ++ + D + VD + + Sbjct: 1 MAEERIQKIMAEQGLCSRRAAEQIIAEGRVKVNGHPVKVGDKMDPNRDVLHVDDERIYIQ 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 K ++ +KP G VTT SD GR TV D + I +R+ VGRLD ++EGLLL+TNDG Sbjct: 61 KNQQLYYLALYKPRGYVTTASDELGRKTVMDLVSDIPARLYPVGRLDKDSEGLLLMTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNA 187 A+ + PS ++YRV + D+ + L G+V+ G + + T + Sbjct: 121 AFAQAVTHPSGGISKLYRVTVQPRADEATILKLSSGVVLDDGTKTMPCAINVVTDEPGRT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + L+EGKNREI+++ E +V RL R + G +LG L G+ RE++K + Sbjct: 181 VMEMTLKEGKNREIRRMCESVGLEVVRLKRNAEGVVKLGMLKPGTYRELTKAEVNGLRAA 240 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDD 281 + AQ A S R R + P Sbjct: 241 AVKGRAQT-RSAAQQSKAAERRPRGPVGKNAPRK 273 >gi|226330601|ref|ZP_03806119.1| hypothetical protein PROPEN_04519 [Proteus penneri ATCC 35198] gi|225201396|gb|EEG83750.1| hypothetical protein PROPEN_04519 [Proteus penneri ATCC 35198] Length = 244 Score = 265 bits (677), Expect = 9e-69, Method: Composition-based stats. Identities = 52/229 (22%), Positives = 103/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR + R + V ++G +++ + + + DG L + Sbjct: 11 MRLDKFLSQQLGISRSLILRELRAGLVTIDGEMVKSGSTKIAPEQEVAYDGKVLTQILGP 70 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KPIG V + DP + ++ + ++ + GRLDI+T GL+LLT++G + Sbjct: 71 RYFMLNKPIGYVCSTDDPVNPTILYFIDEPLAHKLHAAGRLDIDTTGLVLLTDNGQWSHR 130 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + + +KG+ + G L+ V + + Sbjct: 131 ITAPKHHCEKTYLVTLEEPIGEGVAEQFQKGVQLNGEKDLTKPAKLEILTP--TEVKLTI 188 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EGK ++K++F V+ L R G L TL G R ++++ + Sbjct: 189 SEGKYHQVKRMFAAVGNHVSALHRERIGDITLDETLAEGEYRPLTEEEI 237 >gi|145637046|ref|ZP_01792709.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae PittHH] gi|145269700|gb|EDK09640.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae PittHH] Length = 357 Score = 265 bits (677), Expect = 9e-69, Method: Composition-based stats. Identities = 112/294 (38%), Positives = 152/294 (51%), Gaps = 12/294 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + + Sbjct: 66 KASNQPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRI 125 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + + E R+ +Y+KP G + T SDP GR+TVFD LP SR I+VGRLDIN Sbjct: 126 DGQIINLSHAQKEICRVLMYYKPEGELCTRSDPKGRATVFDRLPRLTGSRWIAVGRLDIN 185 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 186 TSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGPANFKEI 245 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ Sbjct: 246 KFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEM 305 Query: 237 SKK---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 + LRE +G L E + LD S + + R KK Sbjct: 306 DLENVNYLRELVG--LPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|103486547|ref|YP_616108.1| pseudouridine synthase, Rsu [Sphingopyxis alaskensis RB2256] gi|98976624|gb|ABF52775.1| Pseudouridine synthase, Rsu [Sphingopyxis alaskensis RB2256] Length = 285 Score = 265 bits (677), Expect = 9e-69, Method: Composition-based stats. Identities = 109/244 (44%), Positives = 149/244 (61%), Gaps = 3/244 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + PQR++K++ARAG+ SRR+VERMI + R+ +NG ++ + A + S + + VDG P Sbjct: 42 TEREDGPQRIAKLLARAGVGSRRDVERMIEEGRIALNGEVVTQPAPLLASLEGLTVDGNP 101 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + K TRL+ +HKP G +T DP GR T++D LP R++ VGRLD NTEGLLLLTN Sbjct: 102 VAKPVSTRLYRFHKPAGCLTAARDPKGRKTIYDVLPKGLPRLMPVGRLDYNTEGLLLLTN 161 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG R LELP++ R YR R G + Q +L L GI I GI YG + L+ + G N Sbjct: 162 DGAFKRQLELPASGVERTYRARAFGDISQAQLEELVMGIEIDGIRYGKIDANLERRTGRN 221 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL---RE 243 W+ + L EGKNRE+++V E +V+RLIR YG F L L G+ V + L R Sbjct: 222 QWIEMTLTEGKNREVRRVLEHLGLQVSRLIRTRYGEFTLAGLDMGAVEVVPRDELFKFRR 281 Query: 244 QLGP 247 QL Sbjct: 282 QLAK 285 >gi|330830517|ref|YP_004393469.1| ribosomal large subunit pseudouridine synthase B [Aeromonas veronii B565] gi|328805653|gb|AEB50852.1| Ribosomal large subunit pseudouridine synthase B [Aeromonas veronii B565] Length = 307 Score = 265 bits (677), Expect = 9e-69, Method: Composition-based stats. Identities = 99/309 (32%), Positives = 151/309 (48%), Gaps = 13/309 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV V+G + V I VDG ++ Sbjct: 2 SEKLQKVLARAGHGSRREMEALITAGRVSVDGKVAT-LGDRVEVNAVIRVDGHQVKTRAA 60 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ YHKP G + T DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 61 EEVICRVLAYHKPEGEMCTRHDPEGRPTVFDRLPKMEGARWIAVGRLDVNTSGLLLFTTD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G++ + L L+KG+ ++ ++ +G N Sbjct: 121 GELANRLMHPSHEVEREYAVRVFGEITEAMLQRLRKGVQLEDGTAKFNKIKPAGGEGLNQ 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LRE 243 W V L EG+NRE+++++E +V+RL+RI YG +L + G +E+ LR Sbjct: 181 WFNVTLTEGRNREVRRLWESQEVQVSRLMRIRYGDVKLDRGIPRGGWQELKLPEVNYLRG 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + E++V+L +S + I M+ + + ++K Sbjct: 241 LVNLPPETESKVDLQQDGKTSRHKQAAQ---IRRAVQRHKEMQGKEPRARATTARRKPQA 297 Query: 304 PVHRRNLAS 312 S Sbjct: 298 STRNSGTGS 306 >gi|229846229|ref|ZP_04466341.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 7P49H1] gi|229811233|gb|EEP46950.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 7P49H1] Length = 357 Score = 265 bits (677), Expect = 9e-69, Method: Composition-based stats. Identities = 112/294 (38%), Positives = 152/294 (51%), Gaps = 12/294 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + + Sbjct: 66 KASNQPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRI 125 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + + E R+ +Y+KP G + T SDP GR+TVFD LP SR I+VGRLDIN Sbjct: 126 DGQIINLSHAQKEICRVLMYYKPEGELCTRSDPKGRATVFDRLPRLTGSRWIAVGRLDIN 185 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 186 TSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGPANFKEI 245 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ Sbjct: 246 KFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEM 305 Query: 237 SKK---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 + LRE +G L E + LD S + + R KK Sbjct: 306 DLENVNYLRELVG--LPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|206559870|ref|YP_002230634.1| RNA pseudouridylate synthase family protein [Burkholderia cenocepacia J2315] gi|198035911|emb|CAR51803.1| RNA pseudouridylate synthase family protein [Burkholderia cenocepacia J2315] Length = 583 Score = 265 bits (677), Expect = 9e-69, Method: Composition-based stats. Identities = 92/289 (31%), Positives = 149/289 (51%), Gaps = 7/289 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 172 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 230 Query: 63 DGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINT 118 +G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NT Sbjct: 231 NGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNT 290 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLL+LT G LA P R Y VR G++ + L G+ ++ +++ Sbjct: 291 EGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLHGVELEDGPANFLRIR 350 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 351 DGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 410 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 +R+ + L +A + R +P+ + R Sbjct: 411 DAQVRKLMATVGL-KAPSEEKGKRGGAGPTERRQPDPMQTSMGFIGREP 458 >gi|323496683|ref|ZP_08101734.1| ribosomal small subunit pseudouridine synthase A [Vibrio sinaloensis DSM 21326] gi|323318265|gb|EGA71225.1| ribosomal small subunit pseudouridine synthase A [Vibrio sinaloensis DSM 21326] Length = 233 Score = 265 bits (677), Expect = 9e-69, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 102/230 (44%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R+E ++I V VN + + A V +E G ++K Sbjct: 1 MRLDKYLCDALGATRKEATKIIKSGDVTVNDAVQKSGAFKVTDECVVEWQGREIQKP-GP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + KP G V +H D T F L + GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLFKPDGFVCSHEDGFN-QTAFALLDEVKMEDLHFAGRLDVDTTGLVLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + +D +GI ++ + LD V + Sbjct: 119 RITSPKHKCEKTYRVWLVDPIGEDYAEKFAQGIELRSEKEPTLPAQLDIVNQDENEVLLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G +L +L G R ++++ + Sbjct: 179 ITEGKYHQVKRMFAALGNKVEHLHRERIGAIELDYSLEPGEYRFLTEEEI 228 >gi|145635048|ref|ZP_01790754.1| predicted methyltransferase [Haemophilus influenzae PittAA] gi|145267656|gb|EDK07654.1| predicted methyltransferase [Haemophilus influenzae PittAA] Length = 357 Score = 265 bits (677), Expect = 9e-69, Method: Composition-based stats. Identities = 112/294 (38%), Positives = 153/294 (52%), Gaps = 12/294 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + + Sbjct: 66 KASNQPKIEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRI 125 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + + E R+ +Y+KP G + T SDP+GR+TVFD LP SR I+VGRLDIN Sbjct: 126 DGQIINLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAVGRLDIN 185 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 186 TSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGPANFKEI 245 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ Sbjct: 246 KFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEM 305 Query: 237 SKK---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 + LRE +G L E + LD S + + R KK Sbjct: 306 DLENVNYLRELVG--LPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|229105336|ref|ZP_04235984.1| Pseudouridine synthase [Bacillus cereus Rock3-28] gi|228678093|gb|EEL32322.1| Pseudouridine synthase [Bacillus cereus Rock3-28] Length = 242 Score = 265 bits (677), Expect = 1e-68, Method: Composition-based stats. Identities = 68/234 (29%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LL+TNDG L Sbjct: 60 FVYLMLHKPQGVISATED-DNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 + L P + Y G V ++ + KG+++ G +T+ + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGEYRELTDEEVE 231 >gi|213692048|ref|YP_002322634.1| pseudouridine synthase [Bifidobacterium longum subsp. infantis ATCC 15697] gi|213523509|gb|ACJ52256.1| pseudouridine synthase [Bifidobacterium longum subsp. infantis ATCC 15697] gi|320458160|dbj|BAJ68781.1| pseudouridine synthase [Bifidobacterium longum subsp. infantis ATCC 15697] Length = 256 Score = 265 bits (677), Expect = 1e-68, Method: Composition-based stats. Identities = 71/239 (29%), Positives = 117/239 (48%), Gaps = 2/239 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVP 66 Q++ R+ K++A+AG SRR+ E MI + RV+V+G L+ V + VDG Sbjct: 12 QDDSNSIRLQKLLAQAGFGSRRKCEDMITEGRVEVDGELVTELGTRVDPHKQQVRVDGSR 71 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TN Sbjct: 72 VRVNPNHVTLALNKPRKVLSAMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTN 131 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 DG L++ + P + + Y G++ L G+ + + Sbjct: 132 DGELSQHVMHPKYEVEKTYVATLEGKISGTVCRRLVTTGVQLDDGWIKLDHCAIIDASRD 191 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L GKNR ++++F + V RL+R GP +LG L GS R +S+ +R Sbjct: 192 YTMVKVVLHSGKNRIVRRIFGSIGFPVKRLVRTQIGPIKLGDLKPGSYRVLSQTEVRSL 250 >gi|296449151|ref|ZP_06890938.1| ribosomal small subunit pseudouridine synthase A [Clostridium difficile NAP08] gi|296880870|ref|ZP_06904818.1| ribosomal small subunit pseudouridine synthase A [Clostridium difficile NAP07] gi|296261970|gb|EFH08778.1| ribosomal small subunit pseudouridine synthase A [Clostridium difficile NAP08] gi|296428157|gb|EFH14056.1| ribosomal small subunit pseudouridine synthase A [Clostridium difficile NAP07] Length = 240 Score = 265 bits (677), Expect = 1e-68, Method: Composition-based stats. Identities = 67/234 (28%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 QR+ K+++ G SR E+++ Q V VNG + V D I +G + E Sbjct: 5 QRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYRE- 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G V+ +D TV D + + VGRLD +TEGLL+LTNDG L Sbjct: 64 YIYLMMNKPDGYVSATTD-KYDPTVLDLIDLSYLAFEPFPVGRLDKDTEGLLVLTNDGKL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSNAWV 189 + + P + Y + G V ++ + +G+V+ Y M L+ + + + Sbjct: 123 SHRVLSPKKHVPKTYYAKIDGVVTEEDVEAFLEGVVLDDG-YKTMPSQLNILKSDDESEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R+S G +L +L G RE++ + ++ Sbjct: 182 ELTIHEGKFHQVKRMFESVGKKVVYLKRLSMGNLKLDESLELGEYRELTDEEIK 235 >gi|218779269|ref|YP_002430587.1| pseudouridine synthase [Desulfatibacillum alkenivorans AK-01] gi|218760653|gb|ACL03119.1| pseudouridine synthase [Desulfatibacillum alkenivorans AK-01] Length = 234 Score = 265 bits (677), Expect = 1e-68, Method: Composition-based stats. Identities = 74/235 (31%), Positives = 124/235 (52%), Gaps = 7/235 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 +R+ K +A AG+ SRR E +I+Q +V VNG ++ + V + D I V+G + Sbjct: 1 MALERLQKYLAHAGVCSRRHAEELISQGKVAVNGEIVTQMGVKIDPDKDEIAVNGKKVEP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + +KP G +TT P GR V D + + R+ +GRLD N+ GLLLLT+DG Sbjct: 61 KQSRTYIMLNKPAGYLTTCKQP-GRKIVLDLI-DLPQRLFPIGRLDNNSTGLLLLTDDGR 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + L PS + Y V L+ +++G++++G +V + G + Sbjct: 119 IHHRLSHPSFDHEKEYEVETVKDAPDQALDAMRRGMILEGKKTRPAKVK---RTGPRS-F 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 T+ L+EG+NR+I+K+ E KV RL R+ +LG L +G R +++K ++ Sbjct: 175 TIVLKEGRNRQIRKMVELTKNKVKRLHRVRMSTIRLGGLPSGKWRRLNEKEIQAL 229 >gi|333029320|ref|ZP_08457381.1| pseudouridine synthase Rsu [Bacteroides coprosuis DSM 18011] gi|332739917|gb|EGJ70399.1| pseudouridine synthase Rsu [Bacteroides coprosuis DSM 18011] Length = 437 Score = 265 bits (677), Expect = 1e-68, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 119/242 (49%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG +++ V +D + Sbjct: 189 IEYKQQFVDPNEPIRLNKYLANAGVCSRREADEFIETGAVTVNGEIVKELGTKVKRSDEV 248 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + +G + E+ L +KP VTT DP R TV D + + R+ VGRLD T Sbjct: 249 KFNGELVS-IEKKVYVLLNKPKDCVTTMDDPQERQTVMDFVKNACDERIYPVGRLDRKTT 307 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V + + L + +GI ++ +V Sbjct: 308 GVLLLTNDGDLASKLTHPKYDKKKIYHVTLDRNIVKADLEKIAEGIELEDGLIKADEVGY 367 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + N V + + GKNR ++++FE ++V +L R+ + L G R +S++ Sbjct: 368 TDEFKRN-QVGIEIHSGKNRIVRRIFESLGYRVTKLDRVYFAGLTKKGLRRGQWRYLSEQ 426 Query: 240 IL 241 + Sbjct: 427 EV 428 >gi|228948275|ref|ZP_04110558.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228811262|gb|EEM57600.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] Length = 229 Score = 265 bits (677), Expect = 1e-68, Method: Composition-based stats. Identities = 65/235 (27%), Positives = 115/235 (48%), Gaps = 10/235 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ ++ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYLSEANSCSRRETDRLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIA 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V +N + G+ I+ +VT + + + Sbjct: 117 NQILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGITKPCKVT----RVDKSTFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 173 VLTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|109899133|ref|YP_662388.1| pseudouridine synthase, Rsu [Pseudoalteromonas atlantica T6c] gi|109701414|gb|ABG41334.1| ribosomal large subunit pseudouridine synthase B [Pseudoalteromonas atlantica T6c] Length = 289 Score = 265 bits (677), Expect = 1e-68, Method: Composition-based stats. Identities = 104/294 (35%), Positives = 152/294 (51%), Gaps = 13/294 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+A AG+ SRRE+E+ IA R+ VNG + V D + VDG + A + Sbjct: 2 SEKLQKVLANAGVGSRREMEKWIASGRISVNGKVAT-LGDRVEPLDQLRVDGNLITAAAK 60 Query: 73 T---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 + R+ +Y+KP G + + DP GR TVFD LP I + R I+VGRLDINT GLLL TNDG Sbjct: 61 STICRVLMYNKPEGELCSRKDPQGRPTVFDRLPKIQNGRWIAVGRLDINTSGLLLFTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--N 186 LA L P + R Y VR G+VD D + LKKG+ ++ +V N Sbjct: 121 ELANRLMHPKHEIEREYAVRVFGEVDDDMIKRLKKGVELEDGVSKFTEVRKRPGDDESLN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 +W V L EGKNRE+++++E +V+RLIR+ YG L L G E+ L Sbjct: 181 SWYNVSLSEGKNREVRRLWESQGLQVSRLIRVRYGTLNLQNRLPQGGWIELPLTDL---- 236 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 L + Q++L+ + + +S + + K N + K+K Sbjct: 237 -NTLRKSVQLDLEQESLIEDKQTKLDHVRLSRMRRSVQKHKVNQGRAKARPKKK 289 >gi|295105527|emb|CBL03071.1| ribosomal large subunit pseudouridine synthase B [Faecalibacterium prausnitzii SL3/3] Length = 275 Score = 265 bits (677), Expect = 1e-68, Method: Composition-based stats. Identities = 89/274 (32%), Positives = 139/274 (50%), Gaps = 4/274 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--R 68 +R+ K++A G+ SRR E++IA+ RVKVNG ++ + D + VD + + Sbjct: 1 MAEERIQKIMAEQGLCSRRAAEQIIAEGRVKVNGHPVKVGDKMDPNRDVLHVDDERIYIQ 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 K ++ +KP G VTT SD GR TV D + I +R+ VGRLD ++EGLLL+TNDG Sbjct: 61 KNQQLYYLALYKPRGYVTTASDELGRKTVMDLVSDIPARLYPVGRLDKDSEGLLLMTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNA 187 A+ + PS ++YRV + D+ + L G+V+ G + + T + Sbjct: 121 AFAQAVTHPSGGISKLYRVTVQPRADEATILKLSSGVVLDDGTKTMPCAINVVTDEPGRT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + L+EGKNREI+++ E +V RL R + G +LG L G+ RE++K + Sbjct: 181 VMEMTLKEGKNREIRRMCESVGLEVVRLKRNAEGVVKLGMLKPGTYRELTKAEVNGLRAA 240 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDD 281 + AQ A S R R + P Sbjct: 241 AVKGRAQT-RSAAQQSKAAERRPRGPVGKNTPRK 273 >gi|157803631|ref|YP_001492180.1| repair protein [Rickettsia canadensis str. McKiel] gi|157784894|gb|ABV73395.1| predicted repair protein [Rickettsia canadensis str. McKiel] Length = 229 Score = 265 bits (677), Expect = 1e-68, Method: Composition-based stats. Identities = 111/230 (48%), Positives = 158/230 (68%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR++KVI+ +G+ SRR+ E++IA+ +VKV+GI + A NV ++ IEV G+ + ++++ Sbjct: 2 QRLAKVISNSGVCSRRDAEKLIAEGQVKVDGITILAPATNVDISNQIEVSGILINQSQKP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+Y+KP+GL+TTH DP R TVF++L + RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 62 RLWIYYKPVGLITTHKDPLSRKTVFEDL-TSLPRVISIGRLDLNSEGLLLLTNSGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 ELPS + RVY VR +G D L K + I GI Y + L +NAW + L Sbjct: 121 FELPSNKLKRVYHVRAYGNPDI-LLKSEYKNLEIDGILYNPYSIKLLRGNNTNAWFEIVL 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 EGKNREI+++FE+F KVN+LIR+ YG F +G L G +E++ KIL + Sbjct: 180 FEGKNREIRRIFEYFGLKVNKLIRVQYGSFTIGNLKPGDYKEINNKILEK 229 >gi|293400699|ref|ZP_06644844.1| ribosomal large subunit pseudouridine synthase B [Erysipelotrichaceae bacterium 5_2_54FAA] gi|291305725|gb|EFE46969.1| ribosomal large subunit pseudouridine synthase B [Erysipelotrichaceae bacterium 5_2_54FAA] Length = 245 Score = 265 bits (677), Expect = 1e-68, Method: Composition-based stats. Identities = 82/234 (35%), Positives = 126/234 (53%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E MIAQ RV VNG ++ V D +EVDG P+ K E Sbjct: 2 ERLQKVIAQAGIASRRKAEEMIAQGRVCVNGDIITEMGYKVKRGDVVEVDGNPIEK-ENK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP + T +D R+TV D +P R+ +VGRLD +T G+LLLTNDG A Sbjct: 61 VYFLMNKPKKTMCTSNDEFDRTTVIDLIP-CKERIFTVGRLDYDTSGVLLLTNDGEFANE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK--GSNAWVT 190 + P +VY + +G + +++ +KKGIV+ G ++ L + + Sbjct: 120 IIHPRYHIPKVYNLTINGILTPEEMIQIKKGIVLDDGKKTLPAKLKLTEKDVTKNQCSFD 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+IK++ E ++V RL R + L G R + + + Sbjct: 180 LTIYEGRNRQIKRMMEALGYEVRRLHRKELAFLKCSDLRQGEYRILKPFEVAQL 233 >gi|167464456|ref|ZP_02329545.1| pseudouridine synthase [Paenibacillus larvae subsp. larvae BRL-230010] Length = 250 Score = 265 bits (677), Expect = 1e-68, Method: Composition-based stats. Identities = 77/241 (31%), Positives = 125/241 (51%), Gaps = 11/241 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ K+++ G +R E++++ V VNG +++ + V D+IEV+G + E Sbjct: 6 RLDKMLSHLGYGTRSELKKLAKNGGVTVNGKVVKDSGWKVYPDEDYIEVNGEQVIFRE-H 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 L +KP G+++ D R TV D L V VGRLD +TEGLLLLTNDG LA Sbjct: 65 VYVLLNKPAGVISATEDMRDR-TVVDLLDDHIRVFGVFPVGRLDKDTEGLLLLTNDGKLA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT----QKGSN 186 L P + Y R +G V ++ + + +G+V+ G Q+ + ++ Sbjct: 124 HNLLSPRKHVPKTYYARVNGDVTEEDVRIFSEGVVLDDGYMTMPAQLVVLDSGNPEEEKP 183 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 A + + + EGK ++K++FE + KV L RIS G +L +L G++RE++ K L Sbjct: 184 AEIELTIHEGKFHQVKRMFEAVHKKVVYLKRISMGSLKLDPSLSPGASRELTAKELEALQ 243 Query: 246 G 246 G Sbjct: 244 G 244 >gi|293376750|ref|ZP_06622972.1| pseudouridylate synthase [Turicibacter sanguinis PC909] gi|325845685|ref|ZP_08168968.1| ribosomal large subunit pseudouridine synthase F [Turicibacter sp. HGF1] gi|292644616|gb|EFF62704.1| pseudouridylate synthase [Turicibacter sanguinis PC909] gi|325488286|gb|EGC90712.1| ribosomal large subunit pseudouridine synthase F [Turicibacter sp. HGF1] Length = 235 Score = 265 bits (677), Expect = 1e-68, Method: Composition-based stats. Identities = 71/241 (29%), Positives = 122/241 (50%), Gaps = 10/241 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ +G ASRR +++IA+ RVKVNG + + V D + V+G +R A Sbjct: 1 MRLNKFISDSGKASRRGADKLIAEGRVKVNGRIAK-IGDQVKPGDEVMVNGNIIRLARNH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T ++ + + D + RV ++GRLD +++GL+LLTNDG + Sbjct: 60 VYLALNKPVGITCT-TEKGVKGNIVDLVNHPL-RVFNIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + + + KG+ I G +VT + S + L Sbjct: 118 ILRAENNHEKEYIVSVDKPITPEFIEKMSKGVRILGQKTLPCKVT----QISKYEFNIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI---LREQLGPHLL 250 +G NR+I+++ E ++V RL R+ LG L G R+++KK L ++L H Sbjct: 174 TQGLNRQIRRMCEVLGYEVYRLQRVRIMNITLGNLPVGQWRDLTKKEKTRLFQELNYHPQ 233 Query: 251 E 251 E Sbjct: 234 E 234 >gi|293572005|ref|ZP_06683018.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E980] gi|291607929|gb|EFF37238.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E980] Length = 239 Score = 265 bits (677), Expect = 1e-68, Method: Composition-based stats. Identities = 69/237 (29%), Positives = 117/237 (49%), Gaps = 9/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ SR+EV+ +I + ++VNG +++ V D + G + + Sbjct: 1 MRLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKAQVNEFEDTVTYLGEIIAYQKD 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L HKP G+++ D + TV D L R + VGRLD +TEGLL+LTNDG Sbjct: 61 FYYIL-HKPAGVISATQD-NHDQTVIDLLEDQDYREDLFPVGRLDKDTEGLLILTNDGVF 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLD--TQKGSNA 187 A L P + Y +G + ++ + L +G++I G ++ +D Q+ + Sbjct: 119 AHQLLSPKKHVEKEYLAEVNGIMTEEDIRLFAEGLIIDGDEQTLPAKLQIDQVDQESETS 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + L EGK ++K++ + +V L RI G F L L G R ++K+ L + Sbjct: 179 IIRLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGNFCLPKDLNRGQYRPMTKEELEQ 235 >gi|293400568|ref|ZP_06644713.1| ribosomal small subunit pseudouridine synthase A [Erysipelotrichaceae bacterium 5_2_54FAA] gi|291305594|gb|EFE46838.1| ribosomal small subunit pseudouridine synthase A [Erysipelotrichaceae bacterium 5_2_54FAA] Length = 232 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 64/233 (27%), Positives = 119/233 (51%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++ AG+ +R+EV+++I ++ V+VNG L+ + ++V D +++DG + E Sbjct: 1 MRLDKYLSHAGVGTRKEVKQLIRKKHVRVNGELVVKDDMHVEEDDLVQLDGEHI-YYEPF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G++ D + TV D + + VGRLD++TEGL+L++NDG LA Sbjct: 60 VYLMLNKPSGVICATQDSEH-ETVLDCFDVMLPKGCFPVGRLDMDTEGLVLISNDGKLAH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V +D+ + L G +I + L+ ++ + + Sbjct: 119 HLLSPKHHVRKTYYVEHQLCLDETAIKTLCNGSIILDEKTV-LCAALEVINETSCFFHIE 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 EG+ +IK++F +V L R++ GP +L L G R ++++ L Sbjct: 178 --EGRYHQIKRMFSAVGNEVLYLKRVAMGPLRLDDHLEVGEWRALTQEELAAL 228 >gi|167919194|ref|ZP_02506285.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei BCC215] Length = 408 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 92/288 (31%), Positives = 146/288 (50%), Gaps = 8/288 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 99 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 157 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 158 GKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTE 217 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 218 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRIRD 277 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 278 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 337 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 +R + L+ D R +P+ + R Sbjct: 338 AQVRRLMSTVGLKA--PTEDKGGKRGGPAERRQPDPMQTSMGFINREP 383 >gi|332290312|ref|YP_004421164.1| 23S rRNA pseudouridylate synthase B [Gallibacterium anatis UMN179] gi|330433208|gb|AEC18267.1| 23S rRNA pseudouridylate synthase B [Gallibacterium anatis UMN179] Length = 297 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 101/271 (37%), Positives = 148/271 (54%), Gaps = 10/271 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLR 68 +++ KV+ARAG+ SRREVE +IA RV VNG + V V + I VDG + Sbjct: 13 KIVGEKLQKVLARAGVGSRREVETIIAAGRVSVNGKIASLGDRVEVKNDTKIRVDGGLVS 72 Query: 69 ----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLL 123 + + R+ +Y+KP G + T DP+GR+TVF+ LP I +R +SVGRLDINT GLLL Sbjct: 73 LIAARKDICRVLMYYKPEGELCTRHDPEGRATVFERLPQISNARWVSVGRLDINTSGLLL 132 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS + R Y VR G V + L L+KG+ ++ +++ + Sbjct: 133 FTTDGELANRLMHPSKEVEREYSVRVFGHVTEQMLAKLRKGVQLEDGPASFKKISAQGGQ 192 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK--- 239 G N W +V L EG+NRE+++++E +V+RLIR YG L L G E+ + Sbjct: 193 GMNQWFSVTLTEGRNREVRRLWESQGIQVSRLIRTRYGNIDLMKGLPRGGWIELPLEKVN 252 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRD 270 LR+ + L E++V+ +R Sbjct: 253 YLRQLVDLPLETESKVDTKNSRSFKSNQIRK 283 >gi|300716948|ref|YP_003741751.1| ribosomal large subunit pseudouridine synthase B [Erwinia billingiae Eb661] gi|299062784|emb|CAX59904.1| Ribosomal large subunit pseudouridine synthase B [Erwinia billingiae Eb661] Length = 315 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 110/295 (37%), Positives = 152/295 (51%), Gaps = 19/295 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM--STDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E MI+ RV V+G L V + I VDG + A Sbjct: 2 SEKLQKVLARAGHGSRREIETMISAGRVSVDGKLAT-LGDRVDSSPSIKIRVDGHLVSVA 60 Query: 71 ERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLT 125 E T R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 61 ESTAEVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR G +D DK+ L +G+ ++ + +G Sbjct: 121 TDGELANRLMHPSREVEREYAVRVFGAIDDDKIRQLSRGVQLEDGPASFKTLKFTGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W TV L EG+NRE+++++E +V+RLIR YG QL L G E+ + Sbjct: 181 NQWYTVTLTEGRNREVRRLWESVGVQVSRLIRTRYGDIQLPKGLPRGGWTEL-------E 233 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 L P V+L I S + +DR + R K SQ S++ Sbjct: 234 LAPTNYLRELVDLPPEITSKVAVEKDRRRTKAN---QIRRAVKRHSQVAPGSRRP 285 >gi|30022777|ref|NP_834408.1| ribosomal small subunit pseudouridine synthase A [Bacillus cereus ATCC 14579] gi|206969480|ref|ZP_03230434.1| RNA pseudouridine synthase family protein [Bacillus cereus AH1134] gi|218233459|ref|YP_002369504.1| RNA pseudouridine synthase family protein [Bacillus cereus B4264] gi|228923463|ref|ZP_04086748.1| Pseudouridine synthase [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228954985|ref|ZP_04117002.1| Pseudouridine synthase [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228960980|ref|ZP_04122610.1| Pseudouridine synthase [Bacillus thuringiensis serovar pakistani str. T13001] gi|229048415|ref|ZP_04193982.1| Pseudouridine synthase [Bacillus cereus AH676] gi|229072210|ref|ZP_04205418.1| Pseudouridine synthase [Bacillus cereus F65185] gi|229081964|ref|ZP_04214455.1| Pseudouridine synthase [Bacillus cereus Rock4-2] gi|229129987|ref|ZP_04258951.1| Pseudouridine synthase [Bacillus cereus BDRD-Cer4] gi|229147277|ref|ZP_04275628.1| Pseudouridine synthase [Bacillus cereus BDRD-ST24] gi|229152907|ref|ZP_04281089.1| Pseudouridine synthase [Bacillus cereus m1550] gi|229181024|ref|ZP_04308359.1| Pseudouridine synthase [Bacillus cereus 172560W] gi|229192993|ref|ZP_04319949.1| Pseudouridine synthase [Bacillus cereus ATCC 10876] gi|296505173|ref|YP_003666873.1| ribosomal small subunit pseudouridine synthase A [Bacillus thuringiensis BMB171] gi|29898336|gb|AAP11609.1| Ribosomal small subunit pseudouridine synthase A [Bacillus cereus ATCC 14579] gi|206735168|gb|EDZ52336.1| RNA pseudouridine synthase family protein [Bacillus cereus AH1134] gi|218161416|gb|ACK61408.1| RNA pseudouridine synthase family protein [Bacillus cereus B4264] gi|228590440|gb|EEK48303.1| Pseudouridine synthase [Bacillus cereus ATCC 10876] gi|228602581|gb|EEK60067.1| Pseudouridine synthase [Bacillus cereus 172560W] gi|228630520|gb|EEK87167.1| Pseudouridine synthase [Bacillus cereus m1550] gi|228636178|gb|EEK92657.1| Pseudouridine synthase [Bacillus cereus BDRD-ST24] gi|228653431|gb|EEL09305.1| Pseudouridine synthase [Bacillus cereus BDRD-Cer4] gi|228701341|gb|EEL53836.1| Pseudouridine synthase [Bacillus cereus Rock4-2] gi|228710948|gb|EEL62915.1| Pseudouridine synthase [Bacillus cereus F65185] gi|228722930|gb|EEL74308.1| Pseudouridine synthase [Bacillus cereus AH676] gi|228798697|gb|EEM45680.1| Pseudouridine synthase [Bacillus thuringiensis serovar pakistani str. T13001] gi|228804712|gb|EEM51314.1| Pseudouridine synthase [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228836189|gb|EEM81545.1| Pseudouridine synthase [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|296326225|gb|ADH09153.1| ribosomal small subunit pseudouridine synthase A [Bacillus thuringiensis BMB171] Length = 242 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 68/234 (29%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LL+TNDG L Sbjct: 60 FVYLMMHKPQGVISATED-DNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 + L P + Y G V ++ + KG+++ G +T+ + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >gi|229076216|ref|ZP_04209183.1| Pseudouridine synthase [Bacillus cereus Rock4-18] gi|229099186|ref|ZP_04230119.1| Pseudouridine synthase [Bacillus cereus Rock3-29] gi|229118198|ref|ZP_04247556.1| Pseudouridine synthase [Bacillus cereus Rock1-3] gi|228665245|gb|EEL20729.1| Pseudouridine synthase [Bacillus cereus Rock1-3] gi|228684239|gb|EEL38184.1| Pseudouridine synthase [Bacillus cereus Rock3-29] gi|228706865|gb|EEL59071.1| Pseudouridine synthase [Bacillus cereus Rock4-18] Length = 242 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 68/234 (29%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LL+TNDG L Sbjct: 60 FVYLMLHKPQGVISATED-DNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 + L P + Y G V ++ + KG+++ G +T+ + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDVSEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGEYRELTDEEVE 231 >gi|254385863|ref|ZP_05001182.1| pseudouridine synthase [Streptomyces sp. Mg1] gi|194344727|gb|EDX25693.1| pseudouridine synthase [Streptomyces sp. Mg1] Length = 260 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 78/238 (32%), Positives = 122/238 (51%), Gaps = 1/238 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ V D I+VD Sbjct: 15 KTFPGAEEEGERLQKVLARAGMGSRRACEELIEQARVEVNGEIVLEQGKRVQPKDEIKVD 74 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G+ + + + +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++L Sbjct: 75 GLTV-ATQSYLFFALNKPAGVVSTMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGIIL 133 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTN G LA L P + Y G + ++ LK GI ++ + Q Sbjct: 134 LTNHGELAHRLTHPKYGVKKTYVAAITGPLPREIGKRLKDGIELEDGYARADHFRVVDQV 193 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G N V V L EG+ ++++ + V +L+R S+GP +LG +G R ++ + Sbjct: 194 GKNYLVEVTLHEGRKHIVRRMMAEAGFPVEKLVRTSFGPIELGDQKSGWLRRLTNTEV 251 >gi|114320248|ref|YP_741931.1| ribosomal large subunit pseudouridine synthase B [Alkalilimnicola ehrlichii MLHE-1] gi|114226642|gb|ABI56441.1| ribosomal large subunit pseudouridine synthase B [Alkalilimnicola ehrlichii MLHE-1] Length = 290 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 97/248 (39%), Positives = 141/248 (56%), Gaps = 13/248 (5%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 D + E +++ KV+ARAG+ SRR++E IA+ RVKVNG + + V + D ++V Sbjct: 4 DNTAMSEQANTEKLQKVLARAGVGSRRQMEAWIAEGRVKVNGHVAQ-LGDRVTAEDRLQV 62 Query: 63 DGVPL---RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 DG P+ + R+ LY+KP G V T DP+GR TVF+NLP R + VGRLD+N++ Sbjct: 63 DGRPVARRKLQPERRVLLYYKPEGQVCTRDDPEGRPTVFENLPEADGRWVVVGRLDLNSQ 122 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T DG LA L PS+ R Y VR +G+V + L L++G+ + ++T Sbjct: 123 GLLLFTTDGELANRLMHPSSGIEREYAVRVYGEVTPEILRRLQQGVTLDDGEAAFTRITP 182 Query: 180 DTQ--------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLA 230 N W V LREG+NRE+++++E KV+RLIR+ YGP L L Sbjct: 183 VVDYRALGYEAPPGNEWYQVTLREGRNREVRRLWESQGLKVSRLIRVRYGPVSLPRGLRR 242 Query: 231 GSTREVSK 238 G R + + Sbjct: 243 GEHRPLRE 250 >gi|332666758|ref|YP_004449546.1| pseudouridine synthase Rsu [Haliscomenobacter hydrossis DSM 1100] gi|332335572|gb|AEE52673.1| pseudouridine synthase Rsu [Haliscomenobacter hydrossis DSM 1100] Length = 239 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 66/223 (29%), Positives = 108/223 (48%), Gaps = 7/223 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K I+ GI SRRE ++ I RV +NG++ + V S D + +DG PLR + Sbjct: 6 LNKYISETGICSRREADKFIEAGRVSLNGVVATK-GNRVASGDTVLLDGKPLRSNPKRIY 64 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +HKP GL T +D R+ V + + R+ +GRLD ++EGL+ LTNDG + + Sbjct: 65 LAFHKPKGLTCT-TDLRDRTNVIAYI-NHPQRIFPIGRLDKDSEGLIFLTNDGDIVNKIL 122 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 + Y V D + + GI I G V ++ + + L + Sbjct: 123 RSRNGHEKEYIVVVDKPFAPDFIRRMSNGIPILGTTTKKCVV----EQKGQSTFRIILTQ 178 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 G NR+I+++ E+ ++V +L RI +L L G R S+ Sbjct: 179 GLNRQIRRMCEYMGYEVKKLKRIRIMSIKLDDLAPGKWRYFSE 221 >gi|308068498|ref|YP_003870103.1| RNA pseudouridine synthase (RNA-uridine isomerase) [Paenibacillus polymyxa E681] gi|305857777|gb|ADM69565.1| Hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Paenibacillus polymyxa E681] Length = 260 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 75/242 (30%), Positives = 119/242 (49%), Gaps = 14/242 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 QR+ KV+ G SR +++R + Q + VNG + + + + V D IEV+G + Sbjct: 7 QTQRLDKVLTHMGYGSRSDIKRQMKQGMITVNGKITKDSGLQVHPYQDQIEVNGERVVFR 66 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDG 128 E + HKP G+++ D R TV D L + VGRLD +TEGLLLLTNDG Sbjct: 67 E-YIYIMLHKPPGVISATEDSRER-TVLDLLSAEERHFEPFPVGRLDKDTEGLLLLTNDG 124 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN- 186 LA L P + Y G V ++ ++ G+ + G Q+T+ + Sbjct: 125 KLAHELLSPRRHVPKTYEATVSGHVTEEDIHQFTAGVELDDGYVTLPAQLTILRHEHPYQ 184 Query: 187 ------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 +++++ + EGK ++K++FE KV L R + GP +L L GS RE++ + Sbjct: 185 ADGGVISYISLVIHEGKFHQVKRMFEAVGKKVTYLKRTAMGPLKLDEQLPMGSYRELTNE 244 Query: 240 IL 241 L Sbjct: 245 EL 246 >gi|320160581|ref|YP_004173805.1| pseudouridine synthase [Anaerolinea thermophila UNI-1] gi|319994434|dbj|BAJ63205.1| pseudouridine synthase [Anaerolinea thermophila UNI-1] Length = 245 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 84/234 (35%), Positives = 120/234 (51%), Gaps = 3/234 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +RV K++ARAG SRR E +I RVK+NG + S D I VDG + Sbjct: 1 MAEERVQKILARAGYGSRRACEELILAGRVKINGQTAVLGSKADPSRDQILVDGQKIPLQ 60 Query: 71 ERTRLWLYHKPIGLVTTHS-DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + HKP G+++ D R TV D +P + + SVGRLD +EGL+LLTNDG Sbjct: 61 PPPVYIMLHKPQGVLSDVEVHKDPRPTVRDLVP-VEGHLFSVGRLDYESEGLILLTNDGE 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAW 188 LA L P + YRV + D+ +L + G+V+ G QV ++ G AW Sbjct: 120 LANRLTHPRYGHEKEYRVLVGTRPDERQLEAWRHGVVLEDGYRTAPAQVRVEGVAGKGAW 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + V LREG+ R+I+++ V R+IRI G LG L G R ++ + +R Sbjct: 180 LRVILREGRKRQIREMGRLTGLPVLRIIRIRIGSLLLGDLKPGEWRYLTPQEVR 233 >gi|221632463|ref|YP_002521684.1| putative pseudouridine synthase [Thermomicrobium roseum DSM 5159] gi|221155848|gb|ACM04975.1| possible pseudouridine synthase [Thermomicrobium roseum DSM 5159] Length = 282 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 88/283 (31%), Positives = 134/283 (47%), Gaps = 9/283 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 T QR+ +V+A G+ASRR+ E +I RV V+G+++ V I VDG PL Sbjct: 4 TMTEQRLQRVLAAHGVASRRKAEELILAGRVTVDGVVVRELGRKVDPERQEICVDGKPLH 63 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +E R + HKP+G +TT +D GR TV D + + RV+ VGRLD ++ GLLLLTNDG Sbjct: 64 -SEPRRYIVLHKPVGYITTTADEYGRKTVLDLV-QVPERVVPVGRLDRDSSGLLLLTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L + P + + Y V G + L++G+ + G ++ + Sbjct: 122 DLIYRITHPRYELEKEYEVLVDGFPPPEVEEALRRGVPVDGRPVRIRRLEAIRVEPQGTV 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI---LREQL 245 V + EG+NR I++VFE + V RL R+ GP +LG L G R+++ LR + Sbjct: 182 YRVVIHEGRNRIIRRVFERVGYPVLRLQRVRVGPLRLGDLPPGRWRDLTASEVAALRRAV 241 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 G E V + + R P + + Sbjct: 242 GLPEFPEGAVGRERKARGGRGMPARRG---DRRPSGVRKEHRR 281 >gi|118479700|ref|YP_896851.1| pseudouridylate synthase [Bacillus thuringiensis str. Al Hakam] gi|196044919|ref|ZP_03112153.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB108] gi|225866524|ref|YP_002751902.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB102] gi|229186804|ref|ZP_04313959.1| RNA pseudouridine synthase [Bacillus cereus BGSC 6E1] gi|118418925|gb|ABK87344.1| pseudouridylate synthase [Bacillus thuringiensis str. Al Hakam] gi|196024407|gb|EDX63080.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB108] gi|225789275|gb|ACO29492.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB102] gi|228596541|gb|EEK54206.1| RNA pseudouridine synthase [Bacillus cereus BGSC 6E1] Length = 229 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 67/235 (28%), Positives = 114/235 (48%), Gaps = 10/235 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEANSCSRRETDRLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +HKP+G+ T +D D + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAADHIDDNIIEYINYPE---RIFPVGRLDKASEGLILLTNDGGIA 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V +N + G+ I+ +VT + + + Sbjct: 117 NQILHGDHEHEKEYVVTVDKPFTDWFMNEMSSGVKIKDGMTKPCKVT----RVDQSTFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 173 VLTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|323494539|ref|ZP_08099644.1| ribosomal small subunit pseudouridine synthase A [Vibrio brasiliensis LMG 20546] gi|323311266|gb|EGA64425.1| ribosomal small subunit pseudouridine synthase A [Vibrio brasiliensis LMG 20546] Length = 233 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 57/229 (24%), Positives = 100/229 (43%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R+E ++I V VN ++ + +V V +E G + K Sbjct: 1 MRLDKYLCDALGATRKEATKIIKSGDVTVNDVVQKSGSVKVTDDCTVEWQGREIHKP-GP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + KP G V +H D ++ + GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLFKPDGFVCSHEDGFNQTAFMLLDEVKMEDLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV V D GI ++ + ++ V + + Sbjct: 120 ITSPKHKCEKTYRVWLADPVQDDYAEKFANGIQLRNEKDLTLPAQMELVDAQENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EGK ++K++F KV L R G +L TL G R ++++ + Sbjct: 180 TEGKYHQVKRMFAALGNKVEHLHRERIGDIELCDTLEPGEYRYLTQQEI 228 >gi|296269471|ref|YP_003652103.1| pseudouridine synthase [Thermobispora bispora DSM 43833] gi|296092258|gb|ADG88210.1| pseudouridine synthase [Thermobispora bispora DSM 43833] Length = 426 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 81/245 (33%), Positives = 125/245 (51%), Gaps = 1/245 (0%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIE 61 ++ E +R+ KV+ARAG+ASRR E +I Q RV V+G ++ R V I Sbjct: 178 EERDTTEVPGGERLQKVLARAGVASRRACEELIGQGRVTVDGQVVRRYGARVDPERQIIR 237 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VDG + + + ++KP G+V+T DP+GR + D + + R+ VGRLD TEGL Sbjct: 238 VDGKRIPTSTGLAYYAFNKPAGVVSTMDDPEGRPCLADYVQDLAPRLFHVGRLDTATEGL 297 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL TNDG LA L PS + Y + G V + L+ G+ ++ T+ Sbjct: 298 LLFTNDGELAHRLTHPSYGVRKKYIAKVAGPVPRKLARTLRAGVELEDGKVTVDGFTVIQ 357 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 Q G A V + L EG+ ++++ E V L RI +GP +LG L G+ R ++ + + Sbjct: 358 QHGRQALVEIVLHEGRKHIVRRLMEAVGHPVLELARIEFGPVKLGRLKPGTVRALTLREI 417 Query: 242 REQLG 246 + Sbjct: 418 GDLYA 422 >gi|237807721|ref|YP_002892161.1| RNA-binding S4 domain-containing protein [Tolumonas auensis DSM 9187] gi|237499982|gb|ACQ92575.1| RNA-binding S4 domain protein [Tolumonas auensis DSM 9187] Length = 348 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 107/341 (31%), Positives = 159/341 (46%), Gaps = 17/341 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG+ SRRE+E +I++ RV VNG + V + D I VDG + Sbjct: 2 SEKLQKVLARAGVGSRREMETVISEGRVSVNGKVAT-LGDRVEAKDVIRVDGHQISVPTL 60 Query: 73 ----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 R+ YHKP G V T DP+GR TVFD LP I SR ++VGRLD+NT GLLL T D Sbjct: 61 NDVICRVLAYHKPEGEVCTRHDPEGRPTVFDRLPRIKDSRWVAVGRLDVNTSGLLLFTTD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V + L L+ G+ ++ ++T +G N Sbjct: 121 GELANRLMHPSHEVEREYAVRVFGEVTEGMLQKLRHGVQLEDGPAKFDKITAGGGEGLNQ 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK---KILRE 243 W V L EG+NRE+++++E +V+RL+RI YG +L TL G E+ LR+ Sbjct: 181 WFNVTLCEGRNREVRRLWESLEVQVSRLMRIRYGDIKLDKTLPRGGWAELELPQVNYLRK 240 Query: 244 QLGPHLLEEAQV----NLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 + + ++V + + + + R + + + Sbjct: 241 MVSLLPEDRSKVFGVEDRRSEFKQAAQIRRAVRRHRERTVLQGEEVAGEAPAMP--RPKV 298 Query: 300 KLATPVHRRNLASNV-WMAKGIHSSFLSDSGQREENHRRSP 339 A P +R V W R + R Sbjct: 299 PRAAPPVKRERDDEVSWENARKRLRDGEPRKARPNANNRQR 339 >gi|157370902|ref|YP_001478891.1| 23S rRNA pseudouridylate synthase B [Serratia proteamaculans 568] gi|157322666|gb|ABV41763.1| pseudouridine synthase [Serratia proteamaculans 568] Length = 299 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 104/308 (33%), Positives = 154/308 (50%), Gaps = 21/308 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V ++ I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIETIIEAGRVSVDGKIAKLGDRVEVTASMKIRLDGHVVSIKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T SDP+GR TVFD LP SR ++VGRLD+NT GLLL T Sbjct: 62 SEEEVCRVLAYYKPEGELCTRSDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQ+D +K+ L KG+ ++ ++ +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSKGVQLEDGPAAFRTISFQGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK---KILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIDLPKGLPRGGWTELDLPAINYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE-VPDDFTRMKKNSSQKNGLSKQKKL 301 E V L S + R+R + + + R + + + K Sbjct: 242 EL----------VELKPETVSKMPIERERRRVKANQIRRAVKRHTQVAGSGRRSTAGSKP 291 Query: 302 ATPVHRRN 309 +R+ Sbjct: 292 GNKPSKRS 299 >gi|168210383|ref|ZP_02636008.1| RNA pseudouridine synthase family protein [Clostridium perfringens B str. ATCC 3626] gi|170711586|gb|EDT23768.1| RNA pseudouridine synthase family protein [Clostridium perfringens B str. ATCC 3626] Length = 298 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 68/261 (26%), Positives = 128/261 (49%), Gaps = 12/261 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + +KN +++ R++K I+ G SRRE +++I Q RVK++G+ + V + Sbjct: 50 VSNKNEIRDKV---RLNKYISETGFCSRREADKLIEQGRVKIDGLKATT-GMKVSKGQSV 105 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +DG PL+ +KP+G+ T ++ + + D + + R+ +GRLD +++G Sbjct: 106 SIDGKPLKVENELVYIALNKPVGITCT-TESKIKGNIVDFI-NHEKRIFPIGRLDKDSQG 163 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+ +TNDG + + + Y V + + + + + G+ I G V + Sbjct: 164 LIFMTNDGDIVNKILRAGNNHEKEYIVTVNKPITHEFIKGMSNGVPILGTVTKKCLVKKE 223 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + L +G NR+I+++ E+F ++V +L RI LG L GS R ++KK Sbjct: 224 SKNS----FRIILTQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKMGSWRYLTKKE 279 Query: 241 LREQLGPHLLEEAQVNLDAPI 261 L E L E + +A I Sbjct: 280 LAEI--NRLTENSSKTEEASI 298 >gi|167620251|ref|ZP_02388882.1| RNA pseudouridylate synthase family protein [Burkholderia thailandensis Bt4] Length = 431 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 95/311 (30%), Positives = 154/311 (49%), Gaps = 17/311 (5%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 129 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 187 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 188 GKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTE 247 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 248 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRIRD 307 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 308 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 367 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSET----LVRDRPNIISEVPDDFTRMKKNSSQKNG 294 +R + + V L AP+ R +P+ + R ++ Sbjct: 368 AQVRRLM-------STVGLKAPVEEKGKRGGAAERRQPDPMQTSMGFINREPVLTTHGQL 420 Query: 295 LSKQKKLATPV 305 ++ P Sbjct: 421 DQPRRGRRGPA 431 >gi|117620907|ref|YP_857421.1| ribosomal large subunit pseudouridine synthase B [Aeromonas hydrophila subsp. hydrophila ATCC 7966] gi|117562314|gb|ABK39262.1| ribosomal large subunit pseudouridine synthase B [Aeromonas hydrophila subsp. hydrophila ATCC 7966] Length = 307 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 98/298 (32%), Positives = 150/298 (50%), Gaps = 8/298 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV V+G + V I VDG ++ Sbjct: 2 SEKLQKVLARAGHGSRREMEALITAGRVSVDGKVAT-LGDRVEVNAVIRVDGHQIKTRAA 60 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ YHKP G + T DP+GR TVFD LP + +R I+VGRLD+NT GLLL T D Sbjct: 61 EEVICRVLAYHKPEGEMCTRHDPEGRPTVFDRLPKMEGARWIAVGRLDVNTSGLLLFTTD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G++ + L L+KG+ ++ ++ +G N Sbjct: 121 GELANRLMHPSHEVEREYAVRVFGEITEAMLQRLRKGVQLEDGMAKFNKIKPAGGEGLNQ 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 W V L EG+NRE+++++E +V+RL+RI YG QL + G +E+ + G Sbjct: 181 WFNVTLTEGRNREVRRLWESQEVQVSRLMRIRYGDVQLDRGIPRGGWQELKLPEVNYLRG 240 Query: 247 P-HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 +L E + +D + + I V K + +++K ++ Sbjct: 241 LVNLPNETESKVDLQQDGKTSRHKQAAQIRRAVKRHKEMQGKEPRARATTARRKPTSS 298 >gi|229163701|ref|ZP_04291648.1| Pseudouridine synthase [Bacillus cereus R309803] gi|228619763|gb|EEK76642.1| Pseudouridine synthase [Bacillus cereus R309803] Length = 242 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 68/234 (29%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LL+TNDG L Sbjct: 60 FVYLMMHKPQGVISATED-DNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 + L P + Y G V ++ + KG+++ G +T+ + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGVLTIL-KSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >gi|167570132|ref|ZP_02363006.1| RNA pseudouridylate synthase family protein [Burkholderia oklahomensis C6786] Length = 371 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 87/248 (35%), Positives = 138/248 (55%), Gaps = 6/248 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 60 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 118 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP++ ++ ++VGRLD NTE Sbjct: 119 GKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPTMKTAKWLAVGRLDFNTE 178 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 179 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELPEASRQKLLHGVELDDGPANFLRIRD 238 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 239 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 298 Query: 239 KILREQLG 246 +R + Sbjct: 299 AQVRRLMA 306 >gi|218905935|ref|YP_002453769.1| RNA pseudouridine synthase family protein [Bacillus cereus AH820] gi|218539238|gb|ACK91636.1| RNA pseudouridine synthase family protein [Bacillus cereus AH820] Length = 242 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 115/234 (49%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LL+TNDG L Sbjct: 60 FVYLMMHKPQGVISATED-DNHETVIDLLELEDAIFNPFPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 + L P + Y G V ++ + KG+++ G +T+ ++ + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTI-SKSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >gi|134301050|ref|YP_001114546.1| pseudouridine synthase [Desulfotomaculum reducens MI-1] gi|134053750|gb|ABO51721.1| ribosomal small subunit pseudouridine synthase A [Desulfotomaculum reducens MI-1] Length = 249 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 65/232 (28%), Positives = 115/232 (49%), Gaps = 8/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ +++ G+ +R+E++++I ++V VNG L +++ DHIEV G + E Sbjct: 8 RLDRLLNHMGLGTRKEIKKLIKAKQVMVNGELAMDPGLHIFPQRDHIEVQGEVIEYRE-Y 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 + +KP +++ D + V D L + VGRLD +TEGLLLLTN+G LA Sbjct: 67 IYLMLNKPQDVLSATEDASDK-VVIDLLDPTYHSFNPFPVGRLDKDTEGLLLLTNNGKLA 125 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y G V ++ + +G+ + G Q+ + + + + Sbjct: 126 HQLLSPKKHVPKTYYALVQGLVTEEDVAAFARGVELDDGYRTLPGQLKI-IRSAPQSEIE 184 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EGK ++K++FE +V L R+S GP L L G RE++ + + Sbjct: 185 LTIYEGKYHQVKRMFEAVGKRVIYLKRLSMGPLVLDNNLKPGEYRELTDEEI 236 >gi|268591199|ref|ZP_06125420.1| ribosomal small subunit pseudouridine synthase A [Providencia rettgeri DSM 1131] gi|291313360|gb|EFE53813.1| ribosomal small subunit pseudouridine synthase A [Providencia rettgeri DSM 1131] Length = 235 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 58/229 (25%), Positives = 104/229 (45%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + V V+ +++ A V + DG L + Sbjct: 1 MRLDKFLSQQLGISRSLVARELRAGLVTVDDEIVKSGAFQVTIDHEVAYDGNVLVQVTGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G + + DP + +F + ++ S GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLHKPQGYICSTDDPTHPTILFFIDEPLAQKLHSAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + YRV+ + D +G+++ G Y L+ + V + + Sbjct: 121 ITSPKHHCEKTYRVQLSDDIANDVAEQFAQGVMLNGEKYLTKPAKLEIISPRD--VRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L TL G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVCGLHRERVGEIWLDETLEPGEYRPLTEEEI 227 >gi|84496363|ref|ZP_00995217.1| pseudouridine synthase, Rsu [Janibacter sp. HTCC2649] gi|84383131|gb|EAP99012.1| pseudouridine synthase, Rsu [Janibacter sp. HTCC2649] Length = 306 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 75/235 (31%), Positives = 118/235 (50%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R+ K++A AG+ SRR E MI + RV+V+G ++ V + S + VDGV + Sbjct: 66 DPDGIRLQKLLASAGVGSRRVCENMITEGRVEVDGQIVTELGVRINSEQVVHVDGVRVTL 125 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E ++KP+ +VT+ +D GR + D R+ VGRLD +TEGLLLLTNDG Sbjct: 126 DETRVYLAFNKPLNVVTSMNDDLGRIDIGDYFGDRKERLFHVGRLDSDTEGLLLLTNDGD 185 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L+ P L+ Y + G V +D L++GI ++ + + A V Sbjct: 186 LAHRLQHPKYGVLKTYLAQIRGPVPRDLGKKLREGIELEDGPVKVDSFRVVDSQPGKAIV 245 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V L EG+ ++++ V L+R GP +LG G R ++K + + Sbjct: 246 EVILHEGRKHIVRRMLAEAGHPVLSLVRTQIGPIRLGDTKPGKFRRLTKGEVGDL 300 >gi|325287412|ref|YP_004263202.1| pseudouridine synthase Rsu [Cellulophaga lytica DSM 7489] gi|324322866|gb|ADY30331.1| pseudouridine synthase Rsu [Cellulophaga lytica DSM 7489] Length = 245 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 62/230 (26%), Positives = 112/230 (48%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RKAERT 73 R++K ++ G SRR +++I Q RV +NG + ++ TD + VDG + E Sbjct: 8 RINKYLSEVGYCSRRAADKLIDQGRVTINGKIP-EMGTKIIPTDEVRVDGELISESKEDF 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++KP+G+V T + + D + + R+ +GRLD +EGL+ LTNDG + Sbjct: 67 VYLAFNKPVGIVCTTDTRVEKDNIIDYI-NYPKRIFPIGRLDKPSEGLIFLTNDGDIVNK 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V+ + D ++ + GI I +V +K S + L Sbjct: 126 ILRARNHHEKEYIVKVDNIITDDFVHQMSNGIPILDTITRKCKV----EKLSKYEFRIIL 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +G NR+I+++ E+ + V +L R+ L + G+ RE +K+ L+E Sbjct: 182 TQGLNRQIRRMTEYLGYNVVKLKRVRIMNISL-DMPVGTYREFTKEELKE 230 >gi|157825866|ref|YP_001493586.1| ribosomal large subunit pseudouridine synthase [Rickettsia akari str. Hartford] gi|157799824|gb|ABV75078.1| Ribosomal large subunit pseudouridine synthase [Rickettsia akari str. Hartford] Length = 229 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 113/230 (49%), Positives = 155/230 (67%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR++K+I+ AGI SRR+ E++IA+ +VKV+GI + A NV ++ IEV G+ + ++ Sbjct: 2 QRLAKIISNAGICSRRDAEKLIAEGQVKVDGITILSPATNVDISNKIEVSGILINNIQKP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+Y+KP+GL+TTH DP R TVF+ L RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 62 RLWIYYKPVGLITTHKDPLSRKTVFEQLTG-LPRVISIGRLDLNSEGLLLLTNSGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 ELPS + RVY VR +G+ L K + I GI Y + L Q SN+W V L Sbjct: 121 FELPSNRLKRVYHVRAYGK-SDILLKSDYKNLEIDGIFYNPHSIKLLKQNKSNSWFEVVL 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 EGKNREI+++FE+F KV++LIRI YG F + L G+ +E++ KIL E Sbjct: 180 FEGKNREIRRIFEYFGLKVHKLIRIQYGSFTIDNLKPGAYKEINNKILAE 229 >gi|229152747|ref|ZP_04280931.1| RNA pseudouridine synthase [Bacillus cereus m1550] gi|228630725|gb|EEK87370.1| RNA pseudouridine synthase [Bacillus cereus m1550] Length = 229 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 64/234 (27%), Positives = 114/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAD-HIEDNIIDYI-NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLQVGKWRDITGEELELLIG 227 >gi|42783894|ref|NP_981141.1| RNA pseudouridylate synthase family protein [Bacillus cereus ATCC 10987] gi|49478734|ref|YP_038752.1| pseudouridylate synthase (ribosomal small subunit pseudouridine synthase A) [Bacillus thuringiensis serovar konkukian str. 97-27] gi|206977314|ref|ZP_03238211.1| RNA pseudouridine synthase family protein [Bacillus cereus H3081.97] gi|217962194|ref|YP_002340764.1| RNA pseudouridine synthase family protein [Bacillus cereus AH187] gi|228987961|ref|ZP_04148067.1| Pseudouridine synthase [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|229141441|ref|ZP_04269978.1| Pseudouridine synthase [Bacillus cereus BDRD-ST26] gi|229158317|ref|ZP_04286384.1| Pseudouridine synthase [Bacillus cereus ATCC 4342] gi|42739824|gb|AAS43749.1| RNA pseudouridylate synthase family protein [Bacillus cereus ATCC 10987] gi|49330290|gb|AAT60936.1| pseudouridylate synthase (ribosomal small subunit pseudouridine synthase A) [Bacillus thuringiensis serovar konkukian str. 97-27] gi|206744465|gb|EDZ55875.1| RNA pseudouridine synthase family protein [Bacillus cereus H3081.97] gi|217065826|gb|ACJ80076.1| RNA pseudouridine synthase family protein [Bacillus cereus AH187] gi|228625275|gb|EEK82035.1| Pseudouridine synthase [Bacillus cereus ATCC 4342] gi|228642004|gb|EEK98298.1| Pseudouridine synthase [Bacillus cereus BDRD-ST26] gi|228771765|gb|EEM20225.1| Pseudouridine synthase [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] Length = 242 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 114/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LL+TNDG L Sbjct: 60 FVYLMMHKPQGVISATED-DNHETVIDLLELEDAIFNPFPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 + L P + Y G V ++ + KG+++ G +T+ + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >gi|323705231|ref|ZP_08116807.1| pseudouridine synthase [Thermoanaerobacterium xylanolyticum LX-11] gi|323535657|gb|EGB25432.1| pseudouridine synthase [Thermoanaerobacterium xylanolyticum LX-11] Length = 240 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 74/237 (31%), Positives = 120/237 (50%), Gaps = 8/237 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRK 69 + R+ K+++ G SR+E++ I + V +N ++++ V D I + Sbjct: 1 MSKMRIDKLLSNMGYGSRKEIKNFIKECLVAINDVIIDDPGFTVQPDKDVITFRNEKVSY 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTND 127 E + +KP G++ DP R TV D LP +V GRLD +TEGLLL+TND Sbjct: 61 KE-YIYIMMNKPKGVICATYDPSER-TVVDLLPHHIKSRKVFPAGRLDKDTEGLLLITND 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN- 186 G L+ L P + Y G +D+D +L +GI++ Y M TL+ N Sbjct: 119 GELSHKLLSPKKHVFKKYYAEVLGFIDEDDASLFSEGILLDDG-YKTMPATLEIISSGNI 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V + +REGK +IK++FE + KV L R+S G +L L G RE++++ ++ Sbjct: 178 SKVYISIREGKYHQIKRMFEAIDSKVIYLKRLSIGKLKLDENLKEGEWRELNEEEIK 234 >gi|165975813|ref|YP_001651406.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|190149629|ref|YP_001968154.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|303252597|ref|ZP_07338760.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|307247349|ref|ZP_07529397.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|307249573|ref|ZP_07531560.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|307256398|ref|ZP_07538180.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 10 str. D13039] gi|307260827|ref|ZP_07542513.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|307262953|ref|ZP_07544575.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 13 str. N273] gi|165875914|gb|ABY68962.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|189914760|gb|ACE61012.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|302648565|gb|EFL78758.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|306856193|gb|EFM88348.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|306858428|gb|EFM90497.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|306865028|gb|EFM96929.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 10 str. D13039] gi|306869394|gb|EFN01185.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|306871579|gb|EFN03301.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 13 str. N273] Length = 230 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 108/231 (46%), Gaps = 5/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + R + V VNG L + +V + TD I +G L + Sbjct: 1 MRLDKFIAENTGLTRSQAARALKSGLVTVNGKLEKSGSVKIGDTDEICYEGERLEWVDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ +KP G V +H D + TVF + +++ + GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLYKPQGYVCSHDDGEY-PTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+ L +GI+++G + ++ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEDFYAKKLAEGILLRGEREPCLPAKMEVIDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EG+ ++K++F KV L R G L L G R +S++ + Sbjct: 178 ISEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDENLEEGEYRPLSEQEVE 228 >gi|229093645|ref|ZP_04224745.1| RNA pseudouridine synthase [Bacillus cereus Rock3-42] gi|228689732|gb|EEL43539.1| RNA pseudouridine synthase [Bacillus cereus Rock3-42] Length = 229 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 65/235 (27%), Positives = 114/235 (48%), Gaps = 10/235 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEANSCSRRETDRLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+ LTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLIFLTNDGGIA 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V +N + G+ I+ +VT + + + Sbjct: 117 NQILHGDHEHEKEYVVTVDKPFTDWFMNEMSSGVKIKDGMTKPCKVT----RVDQSTFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 173 VLTQGMNRQIRRMSRAFGFTVIKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|299143841|ref|ZP_07036921.1| ribosomal large subunit pseudouridine synthase B [Peptoniphilus sp. oral taxon 386 str. F0131] gi|298518326|gb|EFI42065.1| ribosomal large subunit pseudouridine synthase B [Peptoniphilus sp. oral taxon 386 str. F0131] Length = 235 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 72/229 (31%), Positives = 123/229 (53%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A +G ASRR+ E I RVKVNG ++ V D + +D L+ + Sbjct: 1 MRLQKYMAHSGAASRRKSEEYILDGRVKVNGKIVTELGYVVDENKDKVYLDDKRLKIIKE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP+G+V+T D R TV D + +R+ +GRLDI+T GL++LT+DG + Sbjct: 61 NTYIALNKPMGIVSTVKDEKDRKTVVDLIDGS-TRLYPIGRLDIDTTGLIILTDDGAITN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y G+ + +L++++KGI + + +V + +++ + V Sbjct: 120 KLTHPKNEINKTYIATVEGKPTKTELDMIRKGIKVGAEKFSPAKVKILKSFEADSIIEVI 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGKN E+K +F+ N V +L RIS G +LG L G+ R +++ + Sbjct: 180 IHEGKNHEVKLMFDKINHPVKKLKRISIGDIELGDLEIGNFRYLTEDEI 228 >gi|218553820|ref|YP_002386733.1| 23S rRNA pseudouridylate synthase B [Escherichia coli IAI1] gi|218694839|ref|YP_002402506.1| 23S rRNA pseudouridylate synthase B [Escherichia coli 55989] gi|218351571|emb|CAU97283.1| 23S rRNA pseudouridylate synthase [Escherichia coli 55989] gi|218360588|emb|CAQ98146.1| 23S rRNA pseudouridylate synthase [Escherichia coli IAI1] gi|323947451|gb|EGB43455.1| RNA pseudouridylate synthase [Escherichia coli H120] Length = 299 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 107/309 (34%), Positives = 152/309 (49%), Gaps = 23/309 (7%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K ++ + +++ KV+ARAG SRRE+E +I RV V+G + + V V I + Sbjct: 2 KATLKGSSMSEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRI 61 Query: 63 DGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + E R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+N Sbjct: 62 DGHLISVRESAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVN 121 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR GQVD KL L +G+ ++ + Sbjct: 122 TCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTI 181 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ Sbjct: 182 KFSGGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTEL 241 Query: 237 S---KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 LRE V L S + +DR + + R K SQ + Sbjct: 242 DLAQTNYLREL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVS 288 Query: 294 GLSKQKKLA 302 G + Sbjct: 289 GGRRSGGRN 297 >gi|165869849|ref|ZP_02214507.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0488] gi|167633985|ref|ZP_02392308.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0442] gi|167637988|ref|ZP_02396266.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0193] gi|170685858|ref|ZP_02877081.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0465] gi|170705568|ref|ZP_02896032.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0389] gi|177651245|ref|ZP_02934076.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0174] gi|190568332|ref|ZP_03021240.1| RNA pseudouridine synthase family protein [Bacillus anthracis Tsiankovskii-I] gi|196033247|ref|ZP_03100660.1| RNA pseudouridine synthase family protein [Bacillus cereus W] gi|196040819|ref|ZP_03108117.1| RNA pseudouridine synthase family protein [Bacillus cereus NVH0597-99] gi|196043991|ref|ZP_03111228.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB108] gi|225866694|ref|YP_002752072.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB102] gi|228917358|ref|ZP_04080911.1| Pseudouridine synthase [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228929759|ref|ZP_04092776.1| Pseudouridine synthase [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228936016|ref|ZP_04098826.1| Pseudouridine synthase [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228948455|ref|ZP_04110737.1| Pseudouridine synthase [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|229186962|ref|ZP_04314116.1| Pseudouridine synthase [Bacillus cereus BGSC 6E1] gi|229600897|ref|YP_002868983.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0248] gi|254687515|ref|ZP_05151371.1| ribosomal small subunit pseudouridine synthase A [Bacillus anthracis str. CNEVA-9066] gi|254725079|ref|ZP_05186862.1| ribosomal small subunit pseudouridine synthase A [Bacillus anthracis str. A1055] gi|254736817|ref|ZP_05194523.1| ribosomal small subunit pseudouridine synthase A [Bacillus anthracis str. Western North America USA6153] gi|254741853|ref|ZP_05199540.1| ribosomal small subunit pseudouridine synthase A [Bacillus anthracis str. Kruger B] gi|254754548|ref|ZP_05206583.1| ribosomal small subunit pseudouridine synthase A [Bacillus anthracis str. Vollum] gi|254757380|ref|ZP_05209407.1| ribosomal small subunit pseudouridine synthase A [Bacillus anthracis str. Australia 94] gi|270000608|ref|YP_003329047.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Ames] gi|291612224|ref|YP_003541038.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. 'Ames Ancestor'] gi|301056214|ref|YP_003794425.1| RNA pseudouridylate synthase [Bacillus anthracis CI] gi|164714678|gb|EDR20197.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0488] gi|167513805|gb|EDR89173.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0193] gi|167530786|gb|EDR93488.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0442] gi|170129693|gb|EDS98556.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0389] gi|170670322|gb|EDT21062.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0465] gi|172083071|gb|EDT68133.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0174] gi|190560588|gb|EDV14565.1| RNA pseudouridine synthase family protein [Bacillus anthracis Tsiankovskii-I] gi|195994676|gb|EDX58631.1| RNA pseudouridine synthase family protein [Bacillus cereus W] gi|196025327|gb|EDX63997.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB108] gi|196028273|gb|EDX66882.1| RNA pseudouridine synthase family protein [Bacillus cereus NVH0597-99] gi|224552861|gb|ACN55070.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. 'Ames Ancestor'] gi|225786978|gb|ACO27195.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB102] gi|228596516|gb|EEK54182.1| Pseudouridine synthase [Bacillus cereus BGSC 6E1] gi|228811214|gb|EEM57553.1| Pseudouridine synthase [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228823784|gb|EEM69606.1| Pseudouridine synthase [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228829938|gb|EEM75558.1| Pseudouridine synthase [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228842285|gb|EEM87380.1| Pseudouridine synthase [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|229265305|gb|ACQ46942.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0248] gi|269850291|gb|ACZ49996.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Ames] gi|300378383|gb|ADK07287.1| RNA pseudouridylate synthase [Bacillus cereus biovar anthracis str. CI] Length = 242 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 114/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LL+TNDG L Sbjct: 60 FVYLMMHKPQGVISATED-DNHETVIDLLELEDAIFNPFPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 + L P + Y G V ++ + KG+++ G +T+ + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >gi|293379060|ref|ZP_06625213.1| pseudouridylate synthase [Enterococcus faecium PC4.1] gi|292642339|gb|EFF60496.1| pseudouridylate synthase [Enterococcus faecium PC4.1] Length = 239 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 69/237 (29%), Positives = 116/237 (48%), Gaps = 9/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ SR+EV+ +I + ++VNG +++ V D + G + + Sbjct: 1 MRLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKTQVNEFEDTVTYLGEIIAYQKD 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L HKP G+++ D + TV D L R + VGRLD +TEGLL+LTNDG Sbjct: 61 FYYIL-HKPAGVISATQD-NHDQTVIDLLKDQDYREDLFPVGRLDKDTEGLLILTNDGIF 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLD--TQKGSNA 187 A L P + Y G + ++ + L +G++I G ++ +D Q+ + Sbjct: 119 AHQLLSPKKHVEKEYLAEVSGIMTEEDIRLFAEGLIIDGDEQTLPAKLQIDQVDQESETS 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + L EGK ++K++ + +V L RI G F L L G R ++K+ L + Sbjct: 179 IIRLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGNFWLPKDLNKGQYRPMTKEELEQ 235 >gi|223940522|ref|ZP_03632370.1| pseudouridine synthase [bacterium Ellin514] gi|223890803|gb|EEF57316.1| pseudouridine synthase [bacterium Ellin514] Length = 235 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 84/232 (36%), Positives = 126/232 (54%), Gaps = 2/232 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K +A AG+ASRR ER+I RV VNG + V D I +DG PLR + Sbjct: 3 RLQKFLAEAGVASRRASERIILGGRVSVNGDTVRELGTKVDPIHDSIALDGAPLRLKRKL 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G V + D R + D LP+ + + SVGRLD ++EGL+ LTNDG + Sbjct: 63 YV-ALNKPRGYVCSRKDDRKRKVIGDLLPAEWDNLYSVGRLDSDSEGLIFLTNDGEFSLH 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + L+ Y G+V+Q+ L K GIV +G + + + S + V + L Sbjct: 122 LTHPRYRVLKKYLATVEGRVEQEMLQRFKHGIVHEGEKLKVDRARTLSVQNSTSLVELEL 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 EGKNREI+++FE V+RL+R+ G +LG L +G R +++ ++ L Sbjct: 182 TEGKNREIRRLFESQGLTVSRLVRMQIGKIKLGELRSGKWRMLTEAEIKSLL 233 >gi|196034318|ref|ZP_03101727.1| RNA pseudouridine synthase family protein [Bacillus cereus W] gi|218905776|ref|YP_002453610.1| RNA pseudouridine synthase family protein [Bacillus cereus AH820] gi|228917189|ref|ZP_04080746.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228929598|ref|ZP_04092616.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|229124116|ref|ZP_04253308.1| RNA pseudouridine synthase [Bacillus cereus 95/8201] gi|254724523|ref|ZP_05186306.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A1055] gi|195992860|gb|EDX56819.1| RNA pseudouridine synthase family protein [Bacillus cereus W] gi|218539434|gb|ACK91832.1| RNA pseudouridine synthase family protein [Bacillus cereus AH820] gi|228659418|gb|EEL15066.1| RNA pseudouridine synthase [Bacillus cereus 95/8201] gi|228829985|gb|EEM75604.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228842390|gb|EEM87481.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] Length = 229 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 66/235 (28%), Positives = 115/235 (48%), Gaps = 10/235 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEANSCSRRETDRLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIA 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V +N + G+ I+ +VT + + + Sbjct: 117 NQILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGITKPCKVT----RVDKSTFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 173 VLTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|224499021|ref|ZP_03667370.1| hypothetical protein LmonF1_04688 [Listeria monocytogenes Finland 1988] gi|254831233|ref|ZP_05235888.1| hypothetical protein Lmon1_07742 [Listeria monocytogenes 10403S] Length = 233 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 70/233 (30%), Positives = 109/233 (46%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQITVHGTPVVYQE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG L Sbjct: 60 FVYFMLHKPQNVVSATED-NVSETVIDLLAQEDTLTDPFPVGRLDKDTEGLLIITNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y + G V + GI + G + + T + Sbjct: 119 AHNLLSPKKHIDKTYYAKIDGDVTAADVEAFAAGIELDDGYTCKPASLEIITPN----EI 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V ++EGK ++K++F V+ L RIS G QL +L G R +++ L Sbjct: 175 NVTIQEGKFHQVKRMFAARGKTVSYLKRISMGNLQLDESLELGEYRPLTEAEL 227 >gi|317970403|ref|ZP_07971793.1| 16S rRNA pseudouridylate synthase [Synechococcus sp. CB0205] Length = 235 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 78/233 (33%), Positives = 120/233 (51%), Gaps = 3/233 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ K+IA+AG+ SRR E ++ RV VNG + ++D I +DG PL + Sbjct: 1 MAAERLQKLIAQAGVCSRRRAEELLRDGRVTVNGQRAQLGDKADPNSDAISLDGQPLGAS 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTND 127 + L +KP G++++ DP+GR V D LP +R + VGRLD + G LLL+ND Sbjct: 61 AEPMVLLLNKPAGVLSSCFDPEGRPIVLDLLPPELARGQGLHPVGRLDFESRGALLLSND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + YRV GQ Q L+ +G+ + G+ +QV + + Sbjct: 121 GALTLQLTHPRYAHSKTYRVWVQGQPSQRVLDQWARGVSLDGLPSQPVQVRSLSSEQGRT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + + EGKNR+I++ E V L RI+ GP LG L G R ++ + Sbjct: 181 LLELVMGEGKNRQIRRTAELLGHHVLDLQRIAIGPIHLGALPEGRWRRINDQE 233 >gi|310768104|gb|ADP13054.1| 16S rRNA pseudouridylate synthase A [Erwinia sp. Ejp617] Length = 234 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 54/229 (23%), Positives = 103/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I++ SR R + ++V V+G ++ + + + +E DG L + Sbjct: 1 MRLDKFISQQLEVSRAIAARELRARKVTVDGEVVREGSYKLNADSTVEYDGNVLEQQLGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP+G V + DPD + ++ R+ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPVGYVCSTDDPDHPTILYFLEEPGAYRLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + L+ + + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESAISDDNAQQFADGVQLHNEKTLTKPAALEVIEPN--VVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G +L L G R +S + + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVGLHRERIGAIRLDSDLHPGEYRPLSAEEI 227 >gi|296332020|ref|ZP_06874484.1| putative 16S pseudouridylate synthase [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305675585|ref|YP_003867257.1| putative 16S pseudouridylate synthase [Bacillus subtilis subsp. spizizenii str. W23] gi|296150791|gb|EFG91676.1| putative 16S pseudouridylate synthase [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305413829|gb|ADM38948.1| putative 16S pseudouridylate synthase [Bacillus subtilis subsp. spizizenii str. W23] Length = 239 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 69/240 (28%), Positives = 114/240 (47%), Gaps = 7/240 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++A +G SR+EV+ ++ V V+G + +V T + V G P+ + Sbjct: 1 MRLDKLLANSGYGSRKEVKAVVKAGAVMVDGKPAKDVKAHVDPDTQEVTVYGEPVDYR-K 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ D + TV D L R GRLD +TEG LLLTNDG L Sbjct: 60 FIYLMMNKPQGVLSATEDSR-QQTVIDLLTPEEMRFEPFPAGRLDKDTEGFLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWV 189 A L P + Y V Q+ + ++ L+ G+ I+G + + N V Sbjct: 119 AHRLLSPKKHVPKTYEVHLKSQISPEDISDLETGVYIEGGYKTKPAKAEIKANDNGNTVV 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 + + EGK ++K++ + +V L R+S GP L L G RE++++ L+ P Sbjct: 179 YLTITEGKFHQVKQMAKAVGNEVIYLKRLSMGPVSLDPALAPGEYRELTEEELKRLNEPQ 238 >gi|148273158|ref|YP_001222719.1| putative pseudouridine synthase [Clavibacter michiganensis subsp. michiganensis NCPPB 382] gi|147831088|emb|CAN02033.1| putative pseudouridine synthase [Clavibacter michiganensis subsp. michiganensis NCPPB 382] Length = 286 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 78/254 (30%), Positives = 123/254 (48%), Gaps = 1/254 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 E R+ KV+A AG+ASRR E MIA RV VNG ++ + D + VD Sbjct: 14 DEPVQGVRLQKVMAAAGVASRRVCEDMIAAGRVTVNGEVVTEPGRRIDPDVDEVAVDDQA 73 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 ++ R + +KP+G+ ++ D GR + + R+ +VGRLD T GLL+LTN Sbjct: 74 VQLDTSKRYLMLNKPVGIYSSLRDERGRPDLREFTEEFEERLFNVGRLDAETSGLLILTN 133 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA VL PS L+ Y + G+V + L +G+ ++ + + + G Sbjct: 134 DGDLAHVLAHPSFGVLKTYIAKVTGRVTPQTIQRLTQGVDLEDGPIQADRARILSGGGDQ 193 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 V + L G+NR ++++ + V L+R +GP LG+L G R+++ L + L Sbjct: 194 TLVEITLHSGRNRIVRRMLDEVGHPVEELVRRQFGPLHLGSLGVGRVRDLTSDELGQLLT 253 Query: 247 PHLLEEAQVNLDAP 260 AQ P Sbjct: 254 ISREARAQAGPATP 267 >gi|52081501|ref|YP_080292.1| putative pseudouridine synthase YtzF [Bacillus licheniformis ATCC 14580] gi|52786879|ref|YP_092708.1| hypothetical protein BLi03154 [Bacillus licheniformis ATCC 14580] gi|319647410|ref|ZP_08001631.1| pseudouridine synthase [Bacillus sp. BT1B_CT2] gi|52004712|gb|AAU24654.1| putative Pseudouridine synthase YtzF [Bacillus licheniformis ATCC 14580] gi|52349381|gb|AAU42015.1| putative protein [Bacillus licheniformis ATCC 14580] gi|317390456|gb|EFV71262.1| pseudouridine synthase [Bacillus sp. BT1B_CT2] Length = 240 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 76/236 (32%), Positives = 119/236 (50%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K+++ +G SR+EV++M+ V+VN L++ A +V +D I V G P+ E Sbjct: 1 MRLDKLLSNSGYGSRKEVKKMLKNGAVRVNDQLVKDAKKHVDPESDDITVYGAPVMYRE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ D + TV D L R VGRLD +TEGLLLLTNDG L Sbjct: 60 FIYLMMNKPQGVLSATEDSR-QETVVDLLDPELLRFEPFPVGRLDKDTEGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y V + +DQ L+ L+KG+ I +G + +L + + Sbjct: 119 AHQLLSPKKHVPKTYEVHVNKPIDQAALDQLEKGVDIGEGYVTKPAEASLLASENGVERL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + + EGK ++K++ + V L R+ G L LL G RE+S+ L Sbjct: 179 LLTITEGKFHQVKRMLKAVGHDVIYLKRLKMGDVDLDEELLPGEYRELSEHELAAL 234 >gi|218899863|ref|YP_002448274.1| RNA pseudouridine synthase family protein [Bacillus cereus G9842] gi|228910563|ref|ZP_04074377.1| Pseudouridine synthase [Bacillus thuringiensis IBL 200] gi|228941890|ref|ZP_04104435.1| Pseudouridine synthase [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228974817|ref|ZP_04135381.1| Pseudouridine synthase [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228981409|ref|ZP_04141709.1| Pseudouridine synthase [Bacillus thuringiensis Bt407] gi|218544778|gb|ACK97172.1| RNA pseudouridine synthase family protein [Bacillus cereus G9842] gi|228778609|gb|EEM26876.1| Pseudouridine synthase [Bacillus thuringiensis Bt407] gi|228784915|gb|EEM32930.1| Pseudouridine synthase [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228817795|gb|EEM63875.1| Pseudouridine synthase [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228849127|gb|EEM93967.1| Pseudouridine synthase [Bacillus thuringiensis IBL 200] gi|326942491|gb|AEA18387.1| ribosomal small subunit pseudouridine synthase A [Bacillus thuringiensis serovar chinensis CT-43] Length = 242 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 68/234 (29%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LL+TNDG L Sbjct: 60 FVYLMMHKPQGVISATED-DNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 + L P + Y G V ++ + KG+++ G +T+ + + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >gi|315170764|gb|EFU14781.1| conserved hypothetical protein [Enterococcus faecalis TX1342] Length = 257 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 76/255 (29%), Positives = 124/255 (48%), Gaps = 10/255 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGNVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEILTY-QKFFYYMLHKPQGVISATED-QRDETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQ 176 TEGLLLLTNDG LA L P + Y G V + L +G + G + Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEIVKPSR 178 Query: 177 VTLDT--QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + ++T ++ + V + ++EGK ++K++ V L R+ G L TL G Sbjct: 179 LVIETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGGY 238 Query: 234 REVSKKILREQLGPH 248 R +++ L +QL P Sbjct: 239 RPLTEAEL-QQLQPK 252 >gi|308187008|ref|YP_003931139.1| ribosomal large subunit pseudouridine synthase B [Pantoea vagans C9-1] gi|308057518|gb|ADO09690.1| ribosomal large subunit pseudouridine synthase B [Pantoea vagans C9-1] Length = 296 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 109/305 (35%), Positives = 153/305 (50%), Gaps = 20/305 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E MIA RV V+G + V S+ I +DG + A Sbjct: 2 SEKLQKVLARAGHGSRREIESMIAAGRVSVDGKIAT-LGDRVESSKSLKIRIDGHLVSIA 60 Query: 71 ERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLT 125 E R+ Y+KP G + T SDP+GR TVFD LP SR I+VGRLD+NT GL+L T Sbjct: 61 ESATEVCRVLAYYKPEGELCTRSDPEGRPTVFDRLPRLRGSRWIAVGRLDVNTCGLMLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQVD DK+ L KG+ ++ + +G Sbjct: 121 TDGELANRLMHPSREVEREYAVRVFGQVDDDKIRQLSKGVQLEDGPAAFKTLKFGGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W V L EG+NRE+++++E +V+RL+R+ YG L L G E+ Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLMRVRYGDITLPKGLPRGGWTELD------- 233 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 L V LD + + +DR + R K S+ + + + P Sbjct: 234 LPAVNYLRNLVELDDETVTKLVVEKDRRRTKAN---QIRRAVKRHSKVSSTPRAPRRN-P 289 Query: 305 VHRRN 309 +RN Sbjct: 290 GSKRN 294 >gi|303326819|ref|ZP_07357261.1| ribosomal large subunit pseudouridine synthase B [Desulfovibrio sp. 3_1_syn3] gi|302862807|gb|EFL85739.1| ribosomal large subunit pseudouridine synthase B [Desulfovibrio sp. 3_1_syn3] Length = 244 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 80/234 (34%), Positives = 122/234 (52%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA G+ SRR+ + +I +V++NG L E A V+ D I V+ L A+ Sbjct: 1 MRLNKAIAATGLCSRRKADELILAGQVRINGTLEENPARRVLPGDCIAVNDRELAAAQEY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 L HKP+ V T +DP+GR TV LP R+ VGRLD +EGLLLLTNDG LA Sbjct: 61 YYLLLHKPVQTVCTVNDPEGRPTVMAYLPPEVRHLRLYPVGRLDYFSEGLLLLTNDGELA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 + L P + Y V G V + L +++G+ + G + V T + N + Sbjct: 121 QRLTHPRHHQPKTYEVLIRGSVPETALAAMRRGMRLDEGQALLPVDVEAKTAENGNTLLR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+++ + RL R++ GP LG L G+ R ++ + + Sbjct: 181 MVLHQGVNRQIRRMCRDLGLTILRLRRVAQGPLALGNLKPGAARALTTGEVADL 234 >gi|297243477|ref|ZP_06927409.1| 16S rRNA uridine-516 pseudouridylate synthase [Gardnerella vaginalis AMD] gi|298252770|ref|ZP_06976564.1| 16S rRNA uridine-516 pseudouridylate synthase [Gardnerella vaginalis 5-1] gi|296888522|gb|EFH27262.1| 16S rRNA uridine-516 pseudouridylate synthase [Gardnerella vaginalis AMD] gi|297533134|gb|EFH72018.1| 16S rRNA uridine-516 pseudouridylate synthase [Gardnerella vaginalis 5-1] Length = 257 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 70/239 (29%), Positives = 120/239 (50%), Gaps = 2/239 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 ++ R+ K++A AG SRR+ E +I RV+V+ L+ V + VDG Sbjct: 13 SDDNNAIRLQKLLAEAGFGSRRKCEEIILDGRVEVDDELVTTLGTRVDPKRQKVRVDGSR 72 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 ++ + HKP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TN Sbjct: 73 VKFNTKLVTLALHKPKRVLSAMDDPKGRFTLRDIVGDKYERIFHMGRLDYDSEGLILMTN 132 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 DG L++ + P + + Y G+++ L +G+ ++ + + Q Sbjct: 133 DGELSQHVMHPKYEVEKTYIATVEGKINGMVCRRLVSQGVNLEDGWIKLDRCAIIDQNHD 192 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L GKNR ++++F + V RL+R GP +LG L AGS R +S+ +R Sbjct: 193 TTMVKVVLHSGKNRIVRRIFGAVGYPVKRLVRTQIGPIKLGDLKAGSYRVLSQTEVRSL 251 >gi|308066931|ref|YP_003868536.1| ribosomal large subunit pseudouridine synthase F [Paenibacillus polymyxa E681] gi|305856210|gb|ADM67998.1| Ribosomal large subunit pseudouridine synthase F [Paenibacillus polymyxa E681] Length = 233 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 65/231 (28%), Positives = 113/231 (48%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ G SRRE ++++ RV +NG + D + V+G PLR+ Sbjct: 1 MRINKFISETGFCSRREADKLVESGRVTINGEVA-VLGSQAEEGDDVRVNGKPLREKSDH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ +T ++ R V D + R+ +GRLD ++EGL+LLTNDG + Sbjct: 60 VYIALNKPVGITST-TESHIRGNVVDFV-GHPQRIFPIGRLDKDSEGLILLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V V + + G+ I G +VT + S + L Sbjct: 118 ILRAEGKHEKEYIVTVDRPVIPSFVQGMSSGVKILGQRTLPCEVT----RVSEYVFRIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 EGKNR+I+++ F ++V +L R+ +LG+L G+ R +++ E Sbjct: 174 TEGKNRQIRRMCAAFGYEVKKLQRLRIMNIRLGSLQKGAWRNLTEAEKLEL 224 >gi|196042136|ref|ZP_03109420.1| RNA pseudouridine synthase family protein [Bacillus cereus NVH0597-99] gi|196027072|gb|EDX65695.1| RNA pseudouridine synthase family protein [Bacillus cereus NVH0597-99] Length = 229 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 64/235 (27%), Positives = 113/235 (48%), Gaps = 10/235 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE + +I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEANSCSRRETDHLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+ LTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLIFLTNDGGIA 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V +N + G+ I+ +VT + + + Sbjct: 117 NQILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVT----RVDQSTFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 173 VLTQGMNRQIRRMSRAFGFTVIKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|281425341|ref|ZP_06256254.1| ribosomal large subunit pseudouridine synthase B [Prevotella oris F0302] gi|281400504|gb|EFB31335.1| ribosomal large subunit pseudouridine synthase B [Prevotella oris F0302] Length = 234 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 72/228 (31%), Positives = 111/228 (48%), Gaps = 5/228 (2%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLW 76 +K +A AG+ SRRE + I+ V VNG ++ V+ +D ++ + E+ Sbjct: 2 NKYLANAGVCSRREADEFISAGVVSVNGTVVTELGTKVLRSDEVKFHDQLVSL-EKKVYV 60 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L +KP VTT DP R TV D + R+ VGRLD NT G+LLLTNDG LA L Sbjct: 61 LLNKPKDYVTTSDDPQQRKTVMDLVKDVCPERIYPVGRLDRNTTGVLLLTNDGDLASKLT 120 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY V V ++ L + GI + G + D D + V + + Sbjct: 121 HPKFLKKKVYHVHLDKNVAEEDLQKIASGIELEDGEIHADAIEYADDRDKK--QVGIEIH 178 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 GKNR ++++FE ++V RL R+ + L G R ++++ + Sbjct: 179 SGKNRIVRRIFESLGYRVVRLDRVQFAGLTKKNLRRGDWRFLTEQEVE 226 >gi|85057763|ref|YP_456679.1| 16S rRNA pseudouridylate synthase [Aster yellows witches'-broom phytoplasma AYWB] gi|84789868|gb|ABC65600.1| 16S rRNA pseudouridylate synthase [Aster yellows witches'-broom phytoplasma AYWB] Length = 245 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 75/236 (31%), Positives = 125/236 (52%), Gaps = 6/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ KV+A A +ASRR+ E +I ++R+KVNG ++ V S+D I +D P+ KA Sbjct: 2 QRLQKVLAYANVASRRKAEILILEKRIKVNGKIISELGTKVSSSDIITLDDKPITKAT-Y 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G ++T D R TV D + R+ +GRLD NT GLLL+TNDG L + Sbjct: 61 SYFLLNKPNGFLSTAKDKKNRPTVLDLIEEASIQRLYPIGRLDFNTTGLLLITNDGDLTQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ----VTLDTQKGSNAW 188 L PS + Y V+ + + + L+ KGI+I + + + + W Sbjct: 121 KLTHPSFCIPKEYHVKINACLQKKDLSTFCKGIIIDKKYLAVCKEIDILKISYMPKPSTW 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + + EGKNR+++K+ + ++V +L R Y + L G+ R + +++ Sbjct: 181 LKLVITEGKNRQVRKMMQALGYQVLKLKRYRYSFLTIENLTIGAYRPLKIHEIKKL 236 >gi|313837519|gb|EFS75233.1| conserved hypothetical protein [Propionibacterium acnes HL037PA2] gi|314927273|gb|EFS91104.1| conserved hypothetical protein [Propionibacterium acnes HL044PA1] gi|314972725|gb|EFT16822.1| conserved hypothetical protein [Propionibacterium acnes HL037PA3] gi|328907871|gb|EGG27634.1| pseudouridylate synthase [Propionibacterium sp. P08] Length = 245 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 86/239 (35%), Positives = 127/239 (53%), Gaps = 4/239 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 + R+ KV+A+AG+ASRR E MIA RV+VNG L+ V D I VDG + Sbjct: 3 DEQGIRLQKVLAQAGLASRRAAEEMIAAGRVEVNGELIVEQGRRVDPEHDEIRVDGSRIP 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDN--LPSIFSRVISVGRLDINTEGLLLLTN 126 A R ++ +KP G+V+T DP+ R + D +P R+ VGRLD T GL+LLTN Sbjct: 63 TARRHVYYVLNKPRGVVSTMDDPESRPCLSDLEGVPRGI-RLFHVGRLDTETSGLILLTN 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + PS + L+ Y G+VD + L KG+ ++ V L + Sbjct: 122 DGEFANRMTHPSYKVLKTYLADVEGRVDDKVIRRLSKGLTLEDGPVKPDAVRLVQAGDEH 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + V V L EG+NR ++++ + V RL R + GP +L L G RE++++ L + L Sbjct: 182 SLVEVSLHEGRNRIVRRMMDSVAHPVRRLSRTAIGPVRLKRLSRGDMRELTREELGQLL 240 >gi|320663977|gb|EFX31164.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. LSU-61] Length = 290 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 107/300 (35%), Positives = 149/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +GSN Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGSN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + +DR + + R K SQ +G + Sbjct: 242 EL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVSGGRRSGGRN 288 >gi|229546498|ref|ZP_04435223.1| pseudouridylate synthase [Enterococcus faecalis TX1322] gi|307277044|ref|ZP_07558150.1| hypothetical protein HMPREF9521_02651 [Enterococcus faecalis TX2134] gi|307289941|ref|ZP_07569870.1| hypothetical protein HMPREF9509_00254 [Enterococcus faecalis TX0411] gi|312904312|ref|ZP_07763474.1| conserved hypothetical protein [Enterococcus faecalis TX0635] gi|229308398|gb|EEN74385.1| pseudouridylate synthase [Enterococcus faecalis TX1322] gi|306499007|gb|EFM68496.1| hypothetical protein HMPREF9509_00254 [Enterococcus faecalis TX0411] gi|306506288|gb|EFM75452.1| hypothetical protein HMPREF9521_02651 [Enterococcus faecalis TX2134] gi|310632408|gb|EFQ15691.1| conserved hypothetical protein [Enterococcus faecalis TX0635] gi|315030592|gb|EFT42524.1| conserved hypothetical protein [Enterococcus faecalis TX4000] gi|315159713|gb|EFU03730.1| conserved hypothetical protein [Enterococcus faecalis TX0312] gi|315162686|gb|EFU06703.1| conserved hypothetical protein [Enterococcus faecalis TX0645] gi|315578753|gb|EFU90944.1| conserved hypothetical protein [Enterococcus faecalis TX0630] Length = 257 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 76/255 (29%), Positives = 124/255 (48%), Gaps = 10/255 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEILTY-QKFFYYMLHKPQGVISATED-QRDETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQ 176 TEGLLLLTNDG LA L P + Y G V + L +G + G + Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTVEDCQLFAQGFALKDGEMVKPSR 178 Query: 177 VTLDT--QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + ++T ++ + V + ++EGK ++K++ V L R+ G L TL G Sbjct: 179 LVIETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEY 238 Query: 234 REVSKKILREQLGPH 248 R +++ L +QL P Sbjct: 239 RPLTEAEL-QQLQPK 252 >gi|319897335|ref|YP_004135531.1| ribosomal large subunit pseudouridine synthase b [Haemophilus influenzae F3031] gi|301169940|emb|CBW29544.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 10810] gi|317432840|emb|CBY81205.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae F3031] Length = 357 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 111/290 (38%), Positives = 152/290 (52%), Gaps = 12/290 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGL 121 + + E R+ +Y+KP G + T SDP+GR+TVFD LP SR I+VGRLDINT GL Sbjct: 130 INLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAVGRLDINTSGL 189 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 190 LLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGPANFKEIKFTG 249 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 250 GVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEMDLEN 309 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 LRE +G L E + LD S + + R KK Sbjct: 310 VNYLRELVG--LPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|219872044|ref|YP_002476419.1| ribosomal large subunit pseudouridine synthase B [Haemophilus parasuis SH0165] gi|219692248|gb|ACL33471.1| ribosomal large subunit pseudouridine synthase B [Haemophilus parasuis SH0165] Length = 339 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 104/278 (37%), Positives = 154/278 (55%), Gaps = 10/278 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDH 59 ++ +N + +++ K++ARAG SRRE+E +IA RV V+G + V V S+ Sbjct: 48 IETENKANDKIVGEKLQKILARAGQGSRREIEEVIAAGRVSVDGKIAMLGDRVQVSSSTK 107 Query: 60 IEVDGVPL----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRL 114 I +DG + + E R+ +Y+KP G + T SDP+GR+TVFD LP SR I+VGRL Sbjct: 108 IRIDGNLVSLIPTQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAVGRL 167 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DINT GLLL T DG LA L PS + R Y VR G+V+ + L+KG+ ++ Sbjct: 168 DINTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGEVNDAMIQRLRKGVQLEDGPANF 227 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 Q+ G N W V L EG+NRE+++++E +V+RLIRI YG +L +L G Sbjct: 228 KQIKAVGGTGINQWFDVTLTEGRNREVRRLWESQGIQVSRLIRIRYGNIKLEKSLPRGGW 287 Query: 234 REVSKK---ILREQLGPHLLEEAQVNLDAPIYSSETLV 268 E+ + LRE +G E +V++ + T Sbjct: 288 EEMGLEQVNYLRELVGLKPETETKVDVTKARRRTSTRQ 325 >gi|68249745|ref|YP_248857.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 86-028NP] gi|68057944|gb|AAX88197.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 86-028NP] Length = 357 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 111/290 (38%), Positives = 152/290 (52%), Gaps = 12/290 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGL 121 + + E R+ +Y+KP G + T SDP+GR+TVFD LP SR I+VGRLDINT GL Sbjct: 130 INLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAVGRLDINTSGL 189 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 190 LLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGPANFKEIKFTG 249 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 250 GVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEMDLEN 309 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 LRE +G L E + LD S + + R KK Sbjct: 310 VNYLRELVG--LPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|296282690|ref|ZP_06860688.1| hypothetical protein CbatJ_03660 [Citromicrobium bathyomarinum JL354] Length = 252 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 109/240 (45%), Positives = 155/240 (64%), Gaps = 4/240 (1%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + ++ R++K++ARAG+ASRREVERMIA +R+ ++G +E A + + + VDG Sbjct: 1 MAEDERKGDRIAKLLARAGVASRREVERMIADKRIAIDGKTVETPATLLETLRGVTVDGK 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD----NLPSIFSRVISVGRLDINTEGL 121 P+ K E TRL+ +HKP GL+T DP GR T++D +LP RV+ +GRLD NTEGL Sbjct: 61 PVAKPEPTRLFAFHKPTGLITAEHDPRGRPTIYDALRNSLPKDAPRVMPIGRLDFNTEGL 120 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDG R+LELP+ R YR R HG V Q +L L +GI I G+ YG + L+ Sbjct: 121 LLLTNDGEFKRMLELPANAVERTYRARAHGGVTQAQLEELSEGITIDGVHYGPINANLER 180 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + G+N W+ V + EGKNRE+++V E +VNRL+R+++GP LG L G E+ K + Sbjct: 181 RTGANQWIEVTITEGKNREVRRVLEHLGLEVNRLVRVAFGPVALGDLPRGQAMEIRKHEI 240 >gi|207743366|ref|YP_002259758.1| rrna uridine-516 pseudouridylate synthase-related pseudouridylate synthase protein [Ralstonia solanacearum IPO1609] gi|206594763|emb|CAQ61690.1| rrna uridine-516 pseudouridylate synthase-related pseudouridylate synthase protein [Ralstonia solanacearum IPO1609] Length = 610 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 104/315 (33%), Positives = 163/315 (51%), Gaps = 11/315 (3%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG+ ++ TD + Sbjct: 203 KVRELTAEDDAP-KLHKILADAGLGSRRDMEDLIMQGRVSVNGLPA-HIGQRILPTDQVR 260 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDIN 117 V+G +++ + R+ LYHKP G + + SDP+GR TVFD+LP + + + ++VGRLD N Sbjct: 261 VNGKLIQRKLPNKAPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFN 320 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L +G+ + ++ Sbjct: 321 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAEFDRQKLLQGVRLDDGEANFLRC 380 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 381 ADGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 440 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDR---PNIISEVPDDFTRMKKNSSQKN 293 S + +R +G L+ + S R R P ++ + FT S+ Sbjct: 441 SAEEVRVLMGSLGLKVPSASAGGGQGSRPQGGRRREAQPMLMGPMSSGFTGEATFQSRGQ 500 Query: 294 GLSKQKKLATPVHRR 308 G+ + A P RR Sbjct: 501 GVENGNR-ALPAARR 514 >gi|218281417|ref|ZP_03487881.1| hypothetical protein EUBIFOR_00446 [Eubacterium biforme DSM 3989] gi|218217429|gb|EEC90967.1| hypothetical protein EUBIFOR_00446 [Eubacterium biforme DSM 3989] Length = 227 Score = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 64/233 (27%), Positives = 112/233 (48%), Gaps = 6/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++ G +R +V+++I V +N +++A NV D + VD P+ E Sbjct: 1 MRLDKYLSHMGFGTRNDVKKLIKNGWVTINDETIKKADYNVKEDDKVFVDDEPVSYVEFE 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G V+ D TV + + S + VGRLD++TEGLLL++NDG L Sbjct: 61 YYIL-NKPQGYVSATED-MLYPTVMELIQSQRHDLYPVGRLDVDTEGLLLISNDGKLTHE 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V F G + ++ ++ + + + ++ + + + Sbjct: 119 VLSPKKHVDKKYYVEFDGTLPENAVDFFNQPMEFEEFTSAPSKLEIL----DTNKAYLTI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGK ++K++FE N V L RI +GP +L L G R ++++ L G Sbjct: 175 HEGKFHQVKRMFEKANCTVTYLQRIEFGPLKLNDLPLGEFRALTQEELDALKG 227 >gi|253581558|ref|ZP_04858783.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium varium ATCC 27725] gi|251836628|gb|EES65163.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium varium ATCC 27725] Length = 236 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 71/232 (30%), Positives = 123/232 (53%), Gaps = 3/232 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K +A GIASRREV++MI + +K+NG + V D I + G + K Sbjct: 1 MEEMRINKYLASLGIASRREVDKMIEEGSIKINGEKAT-PGIKVSDKDEIYIRGKKIEKH 59 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ ++ +KP+ ++++ D GR TV D + + R+ +GRLD NT GL++LTNDG Sbjct: 60 TEKKVYYILNKPLEVLSSSKDDRGRKTVVDLI-NCKERIFPIGRLDYNTSGLIILTNDGE 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + P + + Y V+ G++ ++ + LLK G+ + V + ++ + Sbjct: 119 LFNRIIHPKAEIFKEYYVKVLGEIKENNVELLKNGVELDDGITLPANVRILRREKGKTEL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V +REG+NR+++++ + N V L R G LG L G RE++ + Sbjct: 179 LVAIREGRNRQVRRMMDKINHPVITLRREKIGNLSLGNLKLGEYRELTNDEI 230 >gi|315025675|gb|EFT37607.1| conserved hypothetical protein [Enterococcus faecalis TX2137] gi|315173996|gb|EFU18013.1| conserved hypothetical protein [Enterococcus faecalis TX1346] Length = 257 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 76/255 (29%), Positives = 124/255 (48%), Gaps = 10/255 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEILTY-QKFFYYMLHKPQGVISATED-QRDETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQ 176 TEGLLLLTNDG LA L P + Y G V + L +G + G + Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSR 178 Query: 177 VTLDT--QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + ++T ++ + V + ++EGK ++K++ V L R+ G L TL G Sbjct: 179 LVIETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGGY 238 Query: 234 REVSKKILREQLGPH 248 R +++ L +QL P Sbjct: 239 RPLTEAEL-QQLQPK 252 >gi|88808924|ref|ZP_01124433.1| Pseudouridine synthase, Rsu [Synechococcus sp. WH 7805] gi|88786866|gb|EAR18024.1| Pseudouridine synthase, Rsu [Synechococcus sp. WH 7805] Length = 247 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 85/231 (36%), Positives = 126/231 (54%), Gaps = 1/231 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T QR+ K+IA AGI SRR E ++ Q RVKVNG L + D +EVDG PL++A Sbjct: 1 MTRQRLQKLIAAAGICSRRRAEDLLRQHRVKVNGQLAAIGDQADLDQDDVEVDGRPLQRA 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGG 129 R+ L +KP G++ + DP R TV D +P+ + VGRLD + G LLL+N G Sbjct: 61 LVPRVLLLNKPPGVICSCRDPQQRKTVLDLVPAHLRDGLHPVGRLDAESRGALLLSNQGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + YRV G + +L ++G+V+ G +VTL ++ + Sbjct: 121 LTLQLTHPRYNHCKTYRVTVAGLPPEKQLRQWRRGVVLDGTVTRPAEVTLLEGTTRSSVL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 V LREG+NR+I+++ +V L RI+ G LG++ G RE+S++ Sbjct: 181 EVVLREGRNRQIRRIALSLGHRVLDLQRIAIGDLMLGSVAEGCWRELSRQE 231 >gi|319651915|ref|ZP_08006038.1| pseudouridine synthase [Bacillus sp. 2_A_57_CT2] gi|317396407|gb|EFV77122.1| pseudouridine synthase [Bacillus sp. 2_A_57_CT2] Length = 239 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 70/241 (29%), Positives = 118/241 (48%), Gaps = 8/241 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A G SR++V++++ V VN ++ V D + ++G + E Sbjct: 1 MRIDKMLANLGYGSRKDVKKLLKDGAVTVNDEKVKDPKHQVDPEQDAVIINGEKVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ D TV D L + VGRLD +TEGLLLLTNDG L Sbjct: 60 FIYLMMNKPPGVISATEDSQF-ETVVDLLEMRDLVFSPFPVGRLDKDTEGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L P + Y +V D + KKG+++ G ++ + + G + + Sbjct: 119 AHRLLSPKKHVPKTYFAVIDREVTADDVAAFKKGVILDDGYETKPGELEIL-KSGITSDI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + + EGK ++K++FE +V L RIS GP +L TL G RE++ + L + + Sbjct: 178 ELTITEGKFHQVKRMFEAVGKRVIYLKRISMGPLELDKTLELGEYRELTDEELDKLMNYE 237 Query: 249 L 249 + Sbjct: 238 V 238 >gi|167582090|ref|ZP_02374964.1| RNA pseudouridylate synthase family protein [Burkholderia thailandensis TXDOH] Length = 379 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 91/269 (33%), Positives = 143/269 (53%), Gaps = 13/269 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 73 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 131 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 132 GKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTE 191 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 192 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRIRD 251 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 252 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 311 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETL 267 +R + + V L AP+ Sbjct: 312 AQVRRLM-------STVGLKAPVEEKGKR 333 >gi|324117539|gb|EGC11445.1| RNA pseudouridylate synthase [Escherichia coli E1167] Length = 299 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 107/309 (34%), Positives = 153/309 (49%), Gaps = 23/309 (7%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K ++ + +++ KV+ARAG SRRE+E +I RV V+G + + V V I + Sbjct: 2 KATLKGSSMSEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRI 61 Query: 63 DGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + E R+ +Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+N Sbjct: 62 DGHLISVRESAEQICRVLVYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVN 121 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR GQVD KL L +G+ ++ + Sbjct: 122 TCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTI 181 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ Sbjct: 182 KFSGGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTEL 241 Query: 237 S---KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 LRE V L S + +DR + + R K SQ + Sbjct: 242 DLAQTNYLREL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVS 288 Query: 294 GLSKQKKLA 302 G + Sbjct: 289 GGRRSGGRN 297 >gi|322383949|ref|ZP_08057679.1| pseudouridylate synthase B-like large subunit [Paenibacillus larvae subsp. larvae B-3650] gi|321151426|gb|EFX44613.1| pseudouridylate synthase B-like large subunit [Paenibacillus larvae subsp. larvae B-3650] Length = 250 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 68/234 (29%), Positives = 122/234 (52%), Gaps = 9/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ G+ SRRE ++ IA RV +NG+ E + V D I VDG PL + ++ Sbjct: 1 MRINKFISETGVCSRREADKWIAANRVTINGVPAELGST-VEEGDEIRVDGKPLGEKKKG 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T ++ + + D + + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-TEKHVKGNIIDFV-NHPERIFPIGRLDKDSQGLILLTNDGDIVNQ 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + V + + + G+ I G +VT + ++ + L Sbjct: 118 ILRAENNHEKEYVVRVNKPVTDEFVKGMAGGVRILGTKTKPCKVT----RINDHVFRIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKILREQL 245 +G NR+I+++ E F ++V +L R+ L L G R+++++ LRE L Sbjct: 174 TQGLNRQIRRMCEVFGYQVVQLERVRIMNIHLDKPKLRLGEWRDLAREELRELL 227 >gi|228993454|ref|ZP_04153364.1| Pseudouridine synthase [Bacillus pseudomycoides DSM 12442] gi|228999492|ref|ZP_04159070.1| Pseudouridine synthase [Bacillus mycoides Rock3-17] gi|229007048|ref|ZP_04164675.1| Pseudouridine synthase [Bacillus mycoides Rock1-4] gi|228754197|gb|EEM03615.1| Pseudouridine synthase [Bacillus mycoides Rock1-4] gi|228760203|gb|EEM09171.1| Pseudouridine synthase [Bacillus mycoides Rock3-17] gi|228766276|gb|EEM14920.1| Pseudouridine synthase [Bacillus pseudomycoides DSM 12442] Length = 244 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 71/246 (28%), Positives = 116/246 (47%), Gaps = 8/246 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++GI ++ A +V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKFHVNVEEQEVTIHGEIVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LLLTNDG L Sbjct: 60 FVYLMMHKPQGVISATED-DNHETVVDLLELEDAIFDPFPVGRLDIDTEGFLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P + Y G V + + KG+++ G ++T+ + + + Sbjct: 119 THQLLSPKKHVPKKYYAHVAGVVTEKDVEEFAKGVILDDGYETKPGELTIL-KSDDVSEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVEMLKTYQ 237 Query: 249 LLEEAQ 254 + E+Q Sbjct: 238 VQTESQ 243 >gi|16804380|ref|NP_465865.1| hypothetical protein lmo2342 [Listeria monocytogenes EGD-e] gi|224503528|ref|ZP_03671835.1| hypothetical protein LmonFR_13647 [Listeria monocytogenes FSL R2-561] gi|16411830|emb|CAD00420.1| lmo2342 [Listeria monocytogenes EGD-e] Length = 233 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 70/233 (30%), Positives = 111/233 (47%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQITVHGTPVVYQE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG L Sbjct: 60 FVYFMLHKPQNVVSATED-NVSETVIDLLAQEDTLTDPFPVGRLDKDTEGLLIITNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y + G V + + GI + G ++ + T + Sbjct: 119 AHNLLSPKKHIDKTYYAKIDGDVTAEDVEAFAAGIELDDGYTCKPARLEIITPN----EI 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V ++EGK ++K++F V+ L RIS G QL +L G R +++ L Sbjct: 175 KVTIQEGKFHQVKRMFAARGKSVSYLKRISMGNLQLDESLALGEYRPLTEAEL 227 >gi|259907987|ref|YP_002648343.1| 16S rRNA pseudouridylate synthase A [Erwinia pyrifoliae Ep1/96] gi|224963609|emb|CAX55102.1| Ribosomal small subunit pseudouridine synthase A [Erwinia pyrifoliae Ep1/96] gi|283477874|emb|CAY73790.1| putative 16S pseudouridylate 516 synthase [Erwinia pyrifoliae DSM 12163] Length = 234 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 54/229 (23%), Positives = 102/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I++ SR R + ++V V+G ++ A + + +E DG L + Sbjct: 1 MRLDKFISQQLEVSRAIAARELRARKVTVDGEVVREGAYKLSADSTVEYDGNVLEQQLGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP+G V + DPD + ++ R+ + GRLD +T GL+L+T+DG + Sbjct: 61 RYFMLNKPVGYVCSTDDPDHPTILYFLEEPGAYRLHAAGRLDNDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + L+ + + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESAISDDNAQQFADGVQLHNEKTLTKPAMLEVIEPN--VVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G +L L G R +S + + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVGLHRERIGAIRLDSDLQPGEYRPLSAEEI 227 >gi|163816624|ref|ZP_02207987.1| hypothetical protein COPEUT_02814 [Coprococcus eutactus ATCC 27759] gi|158447881|gb|EDP24876.1| hypothetical protein COPEUT_02814 [Coprococcus eutactus ATCC 27759] Length = 239 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 71/237 (29%), Positives = 115/237 (48%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + I SR +V++ I + V VNG + + + TD I+ +G L + + Sbjct: 1 MRLDKFLVEMNIGSRSQVKQYIKKGMVSVNGTNAASSDMKINEDTDTIKYNGKQLCYS-K 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +L +KP G V+ D + TV D L + VGRLD++TEGLL++TNDG LA Sbjct: 60 YRYFLLNKPAGCVSATKD-NVHQTVIDLLNGENTKDLFPVGRLDLDTEGLLIITNDGRLA 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN--AW 188 L P+ + Y G VD ++L K+GI I + + S + Sbjct: 119 HHLLSPAHHIAKTYYADIDGYVDDQTISLFKQGIDIGDDTPTLPASLKIIEADRSTGSSR 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 + + + EG+ ++K++F+ N V L RIS G + L GS RE++ + + Sbjct: 179 IELTITEGRFHQVKRMFQAVNMSVTFLKRISMGNLHIADDLPTGSYRELTPEEVSAL 235 >gi|152981088|ref|YP_001354188.1| ribosomal large subunit pseudouridine synthase B [Janthinobacterium sp. Marseille] gi|151281165|gb|ABR89575.1| ribosomal large subunit pseudouridine synthase B [Janthinobacterium sp. Marseille] Length = 546 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 93/342 (27%), Positives = 158/342 (46%), Gaps = 24/342 (7%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +++ ++ P ++ KV+A AG+ SRR++E +I RV VNG ++ TD + + Sbjct: 174 RRDLTADDDAP-KLHKVLAEAGLGSRRDMEELIIAGRVSVNGEPA-HIGQRILPTDQVRI 231 Query: 63 DGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINT 118 +G +++ + R+ +YHKP G + + +DP+GR +VFD LP++ ++ ++VGRLD NT Sbjct: 232 NGKLIQRKVSKKPPRVLVYHKPAGEIVSTNDPEGRPSVFDRLPTMKAAKWLAVGRLDFNT 291 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLLL T G LA L P R Y VR G++++ L G+ ++ ++ Sbjct: 292 EGLLLFTTSGDLANRLMHPRYGIDREYAVRTLGELEEGMRQKLLAGVELEDGLAQFSKIA 351 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 +G N W V + EG+NRE++++FE V+RLIR YG L L G E+ Sbjct: 352 DGGGEGVNKWYRVTIGEGRNREVRRMFEAIGLTVSRLIRTRYGLLTLPKNLKRGRWEEME 411 Query: 238 KKILREQLGPHLLEEAQVNLD-----------------APIYSSETLVRDRPNIISEVPD 280 + +R+ L L++ AP + P+ Sbjct: 412 EHAVRDLLALSGLDKNTGEAGPANKGRAAGGDRVNGNRAPRVDNGLGQPRSPSQWQNTGT 471 Query: 281 DFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHS 322 R + + K Q++ P + M + S Sbjct: 472 GQGRSQGQNPGKPNRQGQQRSRQPDPLQTSLGFPGMGQPRRS 513 >gi|149909594|ref|ZP_01898247.1| ribosomal large subunit pseudouridine synthase F [Moritella sp. PE36] gi|149807298|gb|EDM67251.1| ribosomal large subunit pseudouridine synthase F [Moritella sp. PE36] Length = 407 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 66/282 (23%), Positives = 125/282 (44%), Gaps = 10/282 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + Q++ R++K I+ G SRRE +R+I Q RV +NG + V D + V+G Sbjct: 1 MTQQDIKLTRLNKYISDTGYCSRREADRLIEQGRVTINGKIP-EMGTKVSDGDMVSVNGR 59 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+++ ++ +KP G+ T ++ V D + +R+ +GRLD +EGL+ LT Sbjct: 60 PVKEKQKRIYIALNKPAGITCT-TERHIHGNVIDLI-DYSTRIFPIGRLDKPSEGLIFLT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y V+ V L + +G+ I +VT + + Sbjct: 118 NDGDIVNKILRAGNAHEKEYIVKVDSTVTDKFLTGMARGVPILDTVTKPCKVTREGR--- 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G N++I+++ E F ++V L R + L G R ++ + E Sbjct: 175 -FEFKIILTQGLNQQIRRMCEHFGFQVKSLTRTRIMNIDIKGLATGQWRLLTDNEMAEI- 232 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 ++E + +A Y + + + + R K+ Sbjct: 233 -NAMVEGSSSTEEASDY-GQVKPKVKGQHSKRGVNSAARQKR 272 >gi|30022627|ref|NP_834258.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 14579] gi|229112015|ref|ZP_04241558.1| RNA pseudouridine synthase [Bacillus cereus Rock1-15] gi|229129835|ref|ZP_04258801.1| RNA pseudouridine synthase [Bacillus cereus BDRD-Cer4] gi|229147110|ref|ZP_04275469.1| RNA pseudouridine synthase [Bacillus cereus BDRD-ST24] gi|29898185|gb|AAP11459.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 14579] gi|228636359|gb|EEK92830.1| RNA pseudouridine synthase [Bacillus cereus BDRD-ST24] gi|228653526|gb|EEL09398.1| RNA pseudouridine synthase [Bacillus cereus BDRD-Cer4] gi|228671338|gb|EEL26639.1| RNA pseudouridine synthase [Bacillus cereus Rock1-15] Length = 229 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 65/234 (27%), Positives = 116/234 (49%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A + SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKLCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDRVTIDGQVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAD-HIEDNIIDYI-NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + +G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSRGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|207723237|ref|YP_002253636.1| rrna uridine-516 pseudouridylate synthase-related pseudouridylate synthase protein [Ralstonia solanacearum MolK2] gi|206588433|emb|CAQ35396.1| rrna uridine-516 pseudouridylate synthase-related pseudouridylate synthase protein [Ralstonia solanacearum MolK2] Length = 501 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 101/315 (32%), Positives = 160/315 (50%), Gaps = 11/315 (3%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG+ ++ TD + Sbjct: 109 KVRELTAEDDAP-KLHKILADAGLGSRRDMEDLIMQGRVSVNGLPA-HIGQRILPTDQVR 166 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDIN 117 V+G +++ + R+ LYHKP G + + SDP+GR TVFD+LP + + + ++VGRLD N Sbjct: 167 VNGKLIQRKLPNKAPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFN 226 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L +G+ + ++ Sbjct: 227 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAESDRQKLLQGVRLDDGEANFLRC 286 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 287 ADGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 346 Query: 237 SKKILREQ---LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 S + +R LG + + +P ++ + FT S+ Sbjct: 347 SAEEVRVLMGSLGLKVPSVSAGGGQGGRPQGGRRREAQPMLMGPMSSGFTGEATFQSRGQ 406 Query: 294 GLSKQKKLATPVHRR 308 G+ + A P RR Sbjct: 407 GVENGNR-ALPAARR 420 >gi|225848372|ref|YP_002728535.1| ribosomal large subunit pseudouridine synthase B [Sulfurihydrogenibium azorense Az-Fu1] gi|225643927|gb|ACN98977.1| ribosomal large subunit pseudouridine synthase B [Sulfurihydrogenibium azorense Az-Fu1] Length = 247 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 75/236 (31%), Positives = 133/236 (56%), Gaps = 4/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R++K IA++GI SRR+ + +I + +VKVNG ++ + + D +EV+G ++ E+ Sbjct: 2 ERLNKYIAKSGICSRRKADELILEGKVKVNGKTVKNLGLKIDPKKDVVEVEGKIVKPTEK 61 Query: 73 TRLWLYHKPIGLVTT-HSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGG 129 +KP+G ++ D GR T+ D L I ++ VGRLD N+EGLL+LTNDG Sbjct: 62 KIYLAIYKPVGYLSAVGKDRFGRKTLTDFLNELKIPYKLFPVGRLDYNSEGLLILTNDGE 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P + +VY+V+ G+V Q+ L +++G +++ + ++ + ++ W+ Sbjct: 122 FANKVAHPRNEIKKVYKVKVAGEVSQETLKKMEEGTILEDGFFKPDKIKMLKREEDGTWL 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 V + GK R I++ + F +V RLIR+ G +G L R +S+K +R L Sbjct: 182 LVEIHSGKKRIIRRFMDSFGHRVKRLIRVKIGSIDIGNLKPFDYRYLSEKEIRSIL 237 >gi|89099642|ref|ZP_01172516.1| 16S pseudouridylate synthase [Bacillus sp. NRRL B-14911] gi|89085585|gb|EAR64712.1| 16S pseudouridylate synthase [Bacillus sp. NRRL B-14911] Length = 239 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 71/237 (29%), Positives = 122/237 (51%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ KV+A G SR+EV++++ V VN ++ A +V D I ++G + E Sbjct: 1 MRIDKVLANLGYGSRKEVKKLLKDGSVTVNDEKIKDAKQHVDPEKDLIRINGETVEYRE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ D + TV D L + VGRLD +TEGLLL+TNDG L Sbjct: 60 FIYLMMNKPPGVISATED-NRDETVIDLLEAEDLIFEPFPVGRLDKDTEGLLLITNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L P + Y +V ++ + +KG+++ G ++ + + G + + Sbjct: 119 AHRLLSPKKHVPKTYFAVIDQEVTEEDVTAFRKGVILDDGYATKPGELNIL-KSGERSDI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 + + EGK ++K++FE KV L R+S GP +L TL G RE++++ L+ + Sbjct: 178 ELTITEGKFHQVKRMFEAVGKKVVYLQRLSMGPLRLDETLELGEYRELTEEELQSLM 234 >gi|323439505|gb|EGA97226.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus O11] Length = 245 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 78/243 (32%), Positives = 133/243 (54%), Gaps = 5/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I++ + KVNG + V +D IEV+G+ + ++ Sbjct: 6 ERLQKRIANSGYTSRRKAETLISEGKAKVNGTTVTELGTKVKPSDTIEVEGIKIELEDKI 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG + Sbjct: 66 -YILFHKPTQVITSVSDDRGRTVVTDYFKDIEARIYPVGRLDYDTSGLLLLTNDGEFTNL 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 + P Q + Y + G + ++++ L+KGI ++ + V + + V + Sbjct: 125 MTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELEDGMTQPAEVKVKKQDKDKNTTLVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++ E F +V +L RI YGP + L AG R ++ ++ + HL E Sbjct: 185 TITEGRNRQVRRMLEHFGHQVTKLSRIEYGPLNVVGLNAGEGRVLTPHEVK--VMRHLAE 242 Query: 252 EAQ 254 + Sbjct: 243 HGK 245 >gi|254507010|ref|ZP_05119148.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus 16] gi|219550005|gb|EED26992.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus 16] Length = 233 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 58/230 (25%), Positives = 105/230 (45%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R+E ++I V VN ++ + A V +E G ++K Sbjct: 1 MRLDKYLCDALGATRKEATKIIKSGDVTVNDVMQKSGAFKVTDACVVEWQGREIQKP-GP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + KP G V +H D T F L + GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLFKPDGFVCSHEDGFN-QTAFALLDEVKMEDLHFAGRLDVDTTGLVLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D + L +G+ ++ + T++ + + Sbjct: 119 RITSPKHKCEKTYRVWLVDPIGDDYADKLAQGVELRNEKEPTLPATMEVVNHDENELLLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G +L +L G R ++++ + Sbjct: 179 ITEGKYHQVKRMFAALGNKVEHLHRERIGAIELDYSLEPGEYRYLTEEEV 228 >gi|218128464|ref|ZP_03457268.1| hypothetical protein BACEGG_00034 [Bacteroides eggerthii DSM 20697] gi|217989355|gb|EEC55668.1| hypothetical protein BACEGG_00034 [Bacteroides eggerthii DSM 20697] Length = 234 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 67/226 (29%), Positives = 105/226 (46%), Gaps = 3/226 (1%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLW 76 +K +A AG+ SRRE + I V VNG ++ + D ++ + ER Sbjct: 2 NKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEVKFHDQAVS-IERKIYV 60 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L +KP VTT DP R TV D + R+ VGRLD NT G+LLLTNDG LA L Sbjct: 61 LLNKPKDTVTTSDDPQARRTVMDLVKGACSERIYPVGRLDRNTTGVLLLTNDGDLASKLT 120 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 P ++Y V + + + + GI + ++ T V + + Sbjct: 121 HPKYLKKKIYHVHLDKNLTKADMEQIAAGIQLDDGEIQADAISY-TDDFKKDEVGIEIHS 179 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 GKNR ++++FE +KV +L R+ + L G R ++++ + Sbjct: 180 GKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQEV 225 >gi|145641201|ref|ZP_01796781.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae R3021] gi|145274038|gb|EDK13904.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 22.4-21] Length = 357 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 110/290 (37%), Positives = 151/290 (52%), Gaps = 12/290 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGL 121 + + E R+ +Y+KP G + T SDP+GR+TVFD LP SR I+VGRLDINT GL Sbjct: 130 INLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAVGRLDINTSGL 189 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR GQVD L L+ G+ ++ ++ Sbjct: 190 LLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRNGVQLEDGPANFKEIKFTG 249 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 250 GVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEMDLEN 309 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 LRE +G L E + LD S + + R KK Sbjct: 310 VNYLRELVG--LPAETETKLDVKQASRRLKSGQIRKAVKRYSEMNKRYKK 357 >gi|16801498|ref|NP_471766.1| hypothetical protein lin2436 [Listeria innocua Clip11262] gi|16414958|emb|CAC97663.1| lin2436 [Listeria innocua Clip11262] Length = 233 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 109/233 (46%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D + V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGTPVIYQE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG L Sbjct: 60 FVYFMLHKPQNVVSATED-NLSETVIDLLEQEDTLTNPFPVGRLDKDTEGLLIITNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y + G V + + G+ + G + + T + Sbjct: 119 AHNLLSPKKHIDKTYYAKIDGDVTAEDVEAFSAGVTLDDGYTCKPAHLEIITPN----EI 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V ++EGK ++K++F V+ L RIS G QL L G R +++ L Sbjct: 175 KVTIQEGKFHQVKRMFAARGKTVSYLKRISMGNLQLDDSLELGEYRPLTENEL 227 >gi|206576604|ref|YP_002237397.1| ribosomal small subunit pseudouridine synthase A [Klebsiella pneumoniae 342] gi|288934323|ref|YP_003438382.1| pseudouridine synthase [Klebsiella variicola At-22] gi|290508526|ref|ZP_06547897.1| ribosomal small subunit pseudouridine synthase A [Klebsiella sp. 1_1_55] gi|206565662|gb|ACI07438.1| ribosomal small subunit pseudouridine synthase A [Klebsiella pneumoniae 342] gi|288889052|gb|ADC57370.1| pseudouridine synthase [Klebsiella variicola At-22] gi|289777920|gb|EFD85917.1| ribosomal small subunit pseudouridine synthase A [Klebsiella sp. 1_1_55] Length = 239 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 58/236 (24%), Positives = 103/236 (43%), Gaps = 3/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ A+ + +E DG L + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGSRVTVDGDIVKDASFKLQPEHEVEYDGNTLTQQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTILYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + + L KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVELESPLAEGTAELFAKGVQLHNEKDLTKPAVLEV--ITPTEVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 EG+ ++K++F V L R G L L G R +++ + P Sbjct: 179 SEGRYHQVKRMFAAVGNHVVGLHRERIGDILLDDALAPGEYRPLTETEIASVGAPQ 234 >gi|228987800|ref|ZP_04147909.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|228771848|gb|EEM20305.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] Length = 229 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 64/234 (27%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDRVTIDGQVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAD-HIEDNIIDYI-NYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|145627819|ref|ZP_01783620.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 22.1-21] gi|144979594|gb|EDJ89253.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 22.1-21] Length = 357 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 112/294 (38%), Positives = 152/294 (51%), Gaps = 12/294 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + + Sbjct: 66 KASNQPKIEGEKLQKVLARAGQGSRREIETMIASGRVSVEGKIAILGDRIDVHSGVKVRI 125 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + + E R+ +Y+KP G + T SDP+GR+TVFD LP SR I+VGRLDIN Sbjct: 126 DGQIINLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAVGRLDIN 185 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 186 TSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGPANFKEI 245 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ Sbjct: 246 KFTGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEM 305 Query: 237 SKK---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 + LRE +G L E LD S + + R KK Sbjct: 306 DLENVNYLRELVG--LPAETATKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|289178586|gb|ADC85832.1| Ribosomal large subunit pseudouridine synthase B [Bifidobacterium animalis subsp. lactis BB-12] Length = 266 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 70/239 (29%), Positives = 119/239 (49%), Gaps = 2/239 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 + + R+ K++A+AG SRR+ E MI RV+V+G L+ V + VDG Sbjct: 22 ENDGDGIRLQKLLAQAGFGSRRKCEEMITDGRVEVDGELVTELGTRVDPKRQQVRVDGSR 81 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R R +KP +++T DP GR T+ D + + R+ +GRLD ++EGL+L+TN Sbjct: 82 IRLNPRHITLALNKPRKVLSTMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTN 141 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 DG L++ + P + + Y G + L + G+ + ++ Sbjct: 142 DGELSQHVMHPKYEVEKTYIATLEGHMSGTVCRRLVRTGVQLDDGWIKLDHCSIIDSNRD 201 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L G+NR ++++F + V RL+R GP +LG + +GS R +S+ +R Sbjct: 202 QTIVKVVLHSGRNRIVRRIFGAIGFPVKRLVRTQIGPIKLGDIKSGSYRVLSQDEVRAL 260 >gi|108759403|ref|YP_632021.1| ribosomal large subunit pseudouridine synthase B [Myxococcus xanthus DK 1622] gi|108463283|gb|ABF88468.1| ribosomal large subunit pseudouridine synthase B [Myxococcus xanthus DK 1622] Length = 745 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 93/343 (27%), Positives = 142/343 (41%), Gaps = 10/343 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK 69 +R+ K +ARAG+ASRR E +I RV VN + V TD + VDG + Sbjct: 1 MAAERLQKYLARAGVASRRHAEELITAGRVAVNNKTVTELGSRVEPGTDLVTVDGTLVTP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + +L +KP+G+VTT SDP GR TV + + R+ VGRLD + EG LL T+DG Sbjct: 61 PDESSYFLLYKPVGVVTTLSDPQGRPTVANYVEETGKRLFPVGRLDYDAEGALLFTDDGA 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PS Q R Y + G D L+ L+ G+ ++ + V++ N W+ Sbjct: 121 LAHKLTHPSFQVPRTYLAKVKGAPDTATLDKLRGGVRLEDGMATPVSVSVFEAAERNTWL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + + EG+ IK++ V RL R SY + L G R + + Sbjct: 181 KIVVAEGRPHLIKRLCAAVGHPVVRLFRPSYAGVGVEGLRPGELRPLKTSEVE------- 233 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 L A + A + E + R + + D + S + K R Sbjct: 234 LLNAVSDGKAAPPTGELRLPPRRHGRAAPGFDSDDEAELSMDDDAPVAAKPARKAPARAA 293 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 + V + + + RRS F R + Sbjct: 294 KTATVGGSSLARFGRPKGASAEGKPARRS--FGGDEGAPRGRS 334 >gi|168218095|ref|ZP_02643720.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens NCTC 8239] gi|182379855|gb|EDT77334.1| ribosomal small subunit pseudouridine synthase B [Clostridium perfringens NCTC 8239] Length = 236 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 69/228 (30%), Positives = 117/228 (51%), Gaps = 2/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKAER 72 +R+ K +AR G+ASRR+ E +I +VKVN I+++ V + + + +R E Sbjct: 3 ERLQKYMARCGVASRRKCEEIICSGKVKVNDIVVDSLGTKVDPSVDVVSVNNKVIRPEEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G VTT+ D R T+ D + + R+ +GRLD ++ GLLLLTNDG + Sbjct: 63 KVYIMLNKPEGYVTTNKDEKNRKTILDIV-KVNERIYPIGRLDYDSSGLLLLTNDGDVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y G ++++N +KG+ I + ++ L + ++ V + Sbjct: 122 KIIHPRVNLNKEYIALVKGIFTEEEMNKFRKGVDIGDYKTAECEIELLEKYTNSCKVKII 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGKNR+I+++ FN +V L R + G L L G R +S Sbjct: 182 IHEGKNRQIRRMCAVFNHEVVSLKREAIGSLNLKNLKKGEWRYLSSSE 229 >gi|83748669|ref|ZP_00945686.1| Ribosomal large subunit pseudouridine synthase B [Ralstonia solanacearum UW551] gi|83724631|gb|EAP71792.1| Ribosomal large subunit pseudouridine synthase B [Ralstonia solanacearum UW551] Length = 614 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 104/315 (33%), Positives = 163/315 (51%), Gaps = 11/315 (3%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG+ ++ TD + Sbjct: 207 KVRELTAEDDAP-KLHKILADAGLGSRRDMEDLIMQGRVSVNGLPA-HIGQRILPTDQVR 264 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDIN 117 V+G +++ + R+ LYHKP G + + SDP+GR TVFD+LP + + + ++VGRLD N Sbjct: 265 VNGKLIQRKLPNKAPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFN 324 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L +G+ + ++ Sbjct: 325 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAEFDRQKLLQGVRLDDGEANFLRC 384 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 385 ADGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 444 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDR---PNIISEVPDDFTRMKKNSSQKN 293 S + +R +G L+ + S R R P ++ + FT S+ Sbjct: 445 SAEEVRVLMGSLGLKVPSASAGGGQGSRPQGGRRREAQPMLMGPMSSGFTGEATFQSRGQ 504 Query: 294 GLSKQKKLATPVHRR 308 G+ + A P RR Sbjct: 505 GVENGNR-ALPAARR 518 >gi|186476490|ref|YP_001857960.1| pseudouridine synthase [Burkholderia phymatum STM815] gi|184192949|gb|ACC70914.1| pseudouridine synthase [Burkholderia phymatum STM815] Length = 597 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 93/281 (33%), Positives = 144/281 (51%), Gaps = 13/281 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRR++E +I RV VNG ++ TD + ++ Sbjct: 191 KRVLSPDDDAPKLHKVLADAGMGSRRDMEELIVAGRVSVNGEPA-HIGQRILPTDLVRIN 249 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 250 GKPIKRKLQSKPPRVLLYHKPTGEIVSHADPEGRPSVFDKLPPMKTAKWLAVGRLDFNTE 309 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 310 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELTEGNRQKLLHGVELDDGPANFLRIRD 369 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 370 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIALPRGLKRGRWEELED 429 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVP 279 +R + A V L AP R P P Sbjct: 430 NQVRSLM-------ASVGLKAPAEEKGAGRRGEPERRQPDP 463 >gi|307252799|ref|ZP_07534689.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|307255057|ref|ZP_07536875.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|307261643|ref|ZP_07543310.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|307263831|ref|ZP_07545436.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 13 str. N273] gi|306859698|gb|EFM91721.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|306861930|gb|EFM93906.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|306868635|gb|EFN00445.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|306870820|gb|EFN02559.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 13 str. N273] Length = 373 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 107/288 (37%), Positives = 154/288 (53%), Gaps = 12/288 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 88 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 147 Query: 67 LR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGL 121 + + E R+ +Y+KP G + T SDP+GR+TVFD LP +R I+VGRLDINT GL Sbjct: 148 ISLIPVQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGARWIAVGRLDINTSGL 207 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR G +D+ L L+KG+ ++ Q+ Sbjct: 208 LLFTTDGELANRLMHPSREVEREYSVRVFGNIDEAMLQRLRKGVQLEDGPANFKQIKTVG 267 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 268 GTGLNQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKGLPRGGWEEMGLEQ 327 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G L E + +D T +R + + T+ Sbjct: 328 VNYLRELVG--LPAETETKVDVTKNRRRTNIRQIRKAVKQHSKYRTKA 373 >gi|167894529|ref|ZP_02481931.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 7894] Length = 395 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 92/288 (31%), Positives = 146/288 (50%), Gaps = 8/288 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 90 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 148 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 149 GKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTE 208 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 209 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRIRD 268 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 269 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 328 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 +R + L+ D R +P+ + R Sbjct: 329 AQVRRLMSTVGLKA--PTEDKGGKRGGPAERRQPDPMQTSMGFINREP 374 >gi|124022690|ref|YP_001016997.1| pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus str. MIT 9303] gi|123962976|gb|ABM77732.1| putative pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus str. MIT 9303] Length = 244 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 78/236 (33%), Positives = 118/236 (50%), Gaps = 1/236 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 QR+ K+IA +G+ SRR E+++ Q+RV +NG L + D I VDG L Sbjct: 1 MKQQRLQKLIAASGLCSRRHAEQLLLQERVTLNGHLAKLGDKADPELDKISVDGRVLNSN 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGG 129 TR+ L++KP G++T+ DP GR TVF LP + VGRLD ++ G LL+TN G Sbjct: 61 TETRVLLFNKPAGVITSCHDPHGRVTVFSLLPDKLCKGLHPVGRLDADSRGALLITNRGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + Y+V G+ L+ + G+++ G ++ L S + + Sbjct: 121 LTLRLTHPRYAHDKTYQVLVEGKPSPLVLSSWRHGVMLDGKTTLPAELELLQSHPSQSLL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 V LREG+NR+I++V E V L R + L L G R + ++ L Sbjct: 181 KVVLREGRNRQIRRVAEQLGHPVLDLQRTAIANVALDALPEGCWRALDEREWTPLL 236 >gi|37526757|ref|NP_930101.1| 16S rRNA pseudouridylate synthase A [Photorhabdus luminescens subsp. laumondii TTO1] gi|36786189|emb|CAE15241.1| ribosomal small subunit pseudouridine synthase A (16S pseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (uracil hydrolyase) [Photorhabdus luminescens subsp. laumondii TTO1] Length = 233 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 50/229 (21%), Positives = 101/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR +V R + R+ V+ +++ A + + DG L + + Sbjct: 1 MRLDKFLSQQLGISRNDVGRELRAGRITVDDEIVKTGAYKLTPEQQVMFDGSLLEQQQGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DP + ++ ++ + GRLD++T GL+LLT+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPINPTVLYFIDEPAAHKLHTAGRLDMDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V + + G+ + G L+ + + + Sbjct: 121 ITSPKHHCKKTYLVTLECPVAAETADKFLAGVQLNGEKTVTKPAQLEILEP--QIARLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNRVTALHRERIGEIILAPELEPGEYRSLTEQEI 227 >gi|75908041|ref|YP_322337.1| ribosomal large subunit pseudouridine synthase B [Anabaena variabilis ATCC 29413] gi|75701766|gb|ABA21442.1| ribosomal large subunit pseudouridine synthase B [Anabaena variabilis ATCC 29413] Length = 288 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 89/260 (34%), Positives = 131/260 (50%), Gaps = 15/260 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERT 73 R+ KV+A+ GIASRRE E MI + RV++NG L V D I VDG + Sbjct: 30 RLQKVLAQWGIASRREAEEMIRRSRVQINGTLA-ELGQKVNPERDIITVDGKSVSAQRHH 88 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 R L +KP G+V+T DP GR TV D LP + + VGRLD + G L+LTNDG Sbjct: 89 RLTYLLLNKPTGVVSTCYDPQGRKTVLDLLPEELRKGSGLHPVGRLDAYSTGALILTNDG 148 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L PS + Y++ G + L + ++G+++ G +V+L + Sbjct: 149 DLTFKLTHPSHNIPKTYQILVKGHPPEAVLKMWREGVLLDGRKTRKAKVSLLESLAEKSR 208 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREVSKKILR- 242 + + L+EG+NR+I++V E + V +L R + G QL T L AG+ R + +R Sbjct: 209 LEIVLQEGRNRQIRRVAEQLGYPVIKLHRTAIGSIQLQTSKQPLLRAGNYRILRDDEIRS 268 Query: 243 --EQLGPHLLEEAQVNLDAP 260 EQL + +V P Sbjct: 269 LQEQLKHIPTQRIKVQNPQP 288 >gi|313622662|gb|EFR93029.1| RNA pseudouridine synthase family protein [Listeria innocua FSL J1-023] Length = 233 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 110/233 (47%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D + V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPEKDQVTVHGTPVVYQE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG L Sbjct: 60 FVYFMLHKPQNVVSATED-NVSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y + G V + + G+ + G + + T + Sbjct: 119 AHNLLSPKKHIDKTYYAKIDGDVTAEDVEAFSAGVTLDDGYTCKPAHLEIITPN----EI 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V ++EGK +IK++F V+ L RIS G QL +L G R +++ L Sbjct: 175 KVTIQEGKFHQIKRMFAARGKTVSYLKRISMGNLQLDESLELGEYRPLTENEL 227 >gi|311278834|ref|YP_003941065.1| pseudouridine synthase [Enterobacter cloacae SCF1] gi|308748029|gb|ADO47781.1| pseudouridine synthase [Enterobacter cloacae SCF1] Length = 235 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 57/229 (24%), Positives = 99/229 (43%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ A + + DG L + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRASRVTVDGDIVKDTAFKLQPEHDVAYDGNSLVQQTGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + YRV + +D GI + L+ V + + Sbjct: 121 ITSPRHHCEKTYRVTLESPLAEDTAEQFAHGIQLHNEKALTKPAQLEVITA--TEVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L L G R +++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVVGLHRERIGAIALDPELEPGGYRPLTEDEI 227 >gi|238027587|ref|YP_002911818.1| hypothetical protein bglu_1g20050 [Burkholderia glumae BGR1] gi|237876781|gb|ACR29114.1| Hypothetical protein bglu_1g20050 [Burkholderia glumae BGR1] Length = 571 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 90/290 (31%), Positives = 148/290 (51%), Gaps = 7/290 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K ++ ++ KV+A AG+ SRRE+E +I RV VNG ++ TD + Sbjct: 172 PQKRVLAPEDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRILPTDQVR 230 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDIN 117 ++G P+++ + R+ LYHKP G + +H+DP+GR++VFD LP + ++ ++VGRLD N Sbjct: 231 INGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRASVFDRLPPMKTAKWLAVGRLDFN 290 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 291 TEGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRI 350 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G+N W V L EG+NRE++++FE V+RLIR +G L L G E+ Sbjct: 351 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGSISLPRGLKRGRWEEL 410 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 + +R+ + L+ A + + R +P+ + R Sbjct: 411 DEAQVRKLMATVGLKVA-ADEKGGKRGAGAAERKQPDPMQTSMGFLNREP 459 >gi|303249716|ref|ZP_07335920.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|307251902|ref|ZP_07533803.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|302651283|gb|EFL81435.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|306860594|gb|EFM92606.1| Ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 6 str. Femo] Length = 230 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 108/231 (46%), Gaps = 5/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + R + V VNG L + +V + TD I +G L + Sbjct: 1 MRLDKFIAENTGLTRSQAARALKSGLVTVNGKLEKSGSVKIGDTDEICYEGERLEWVDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ +KP G V +H D + TVF + +++ + GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLYKPQGYVCSHDDGEY-PTVFQFFGYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+ L +GI+++G + ++ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEDFYAKKLAEGILLRGEREPCLPAKMEVIDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EG+ ++K++F KV L R G L L G R +S++ + Sbjct: 178 ISEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDENLEEGEYRPLSEQEVE 228 >gi|238794709|ref|ZP_04638313.1| Ribosomal large subunit pseudouridine synthase B [Yersinia intermedia ATCC 29909] gi|238725940|gb|EEQ17490.1| Ribosomal large subunit pseudouridine synthase B [Yersinia intermedia ATCC 29909] Length = 342 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 104/305 (34%), Positives = 153/305 (50%), Gaps = 23/305 (7%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPL 67 + +++ K++ARAG SRRE+E +I Q RV V+G + V V I +DG L Sbjct: 23 DKIVGEKLQKILARAGHGSRREIETIIQQGRVSVDGKISTLGDRVEVTQATKIRLDGHLL 82 Query: 68 RKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLL 122 E R+ Y+KP G + T +DP+GR TVFD LP SR ++VGRLD+NT GLL Sbjct: 83 SIKESEEAVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLL 142 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L T DG LA L PS + R Y VR GQ+D +K+ L +G+ + ++ Sbjct: 143 LFTTDGELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLDDGPAAFRTISFQGG 202 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK-- 239 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ K Sbjct: 203 EGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLKAT 262 Query: 240 -ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 LRE V L++ S + +DR + + R K ++ G Sbjct: 263 NYLREL----------VELNSETVSKLPVEKDRRRVKAN---QIRRAVKRHTEVAGRQVA 309 Query: 299 KKLAT 303 + + Sbjct: 310 GRQGS 314 >gi|229548610|ref|ZP_04437335.1| pseudouridylate synthase [Enterococcus faecalis ATCC 29200] gi|312953045|ref|ZP_07771898.1| conserved hypothetical protein [Enterococcus faecalis TX0102] gi|229306241|gb|EEN72237.1| pseudouridylate synthase [Enterococcus faecalis ATCC 29200] gi|310629074|gb|EFQ12357.1| conserved hypothetical protein [Enterococcus faecalis TX0102] gi|315144498|gb|EFT88514.1| conserved hypothetical protein [Enterococcus faecalis TX2141] gi|315153886|gb|EFT97902.1| conserved hypothetical protein [Enterococcus faecalis TX0031] gi|315156684|gb|EFU00701.1| conserved hypothetical protein [Enterococcus faecalis TX0043] gi|327534254|gb|AEA93088.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecalis OG1RF] Length = 257 Score = 263 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 76/255 (29%), Positives = 124/255 (48%), Gaps = 10/255 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEILTY-QKFFYYMLHKPQGVISATED-QRDETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQ 176 TEGLLLLTNDG LA L P + Y G V + L +G + G + Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEIVKPSR 178 Query: 177 VTLDT--QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + ++T ++ + V + ++EGK ++K++ V L R+ G L TL G Sbjct: 179 LVIETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGGY 238 Query: 234 REVSKKILREQLGPH 248 R +++ L +QL P Sbjct: 239 RPLTEAEL-QQLQPK 252 >gi|169830079|ref|YP_001700237.1| ribosomal large subunit pseudouridine synthase F [Lysinibacillus sphaericus C3-41] gi|168994567|gb|ACA42107.1| Ribosomal large subunit pseudouridine synthase F [Lysinibacillus sphaericus C3-41] Length = 233 Score = 263 bits (673), Expect = 2e-68, Method: Composition-based stats. Identities = 63/232 (27%), Positives = 111/232 (47%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ GI SRR ++ IA+ +V +NG V D + +DG ++K ++ Sbjct: 1 MRINKYLSETGIISRRGADKWIAEGKVTINGEPAT-VGSQVQDGDIVCIDGKEVKKEQQL 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ +T ++ + V D + R+ +GRLD +EGLLLLTNDG + Sbjct: 60 VYIALNKPVGITST-TERHIKGNVVDFVNHPL-RIFHIGRLDKESEGLLLLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V+ + + +N + G+ I V +K S+ + L Sbjct: 118 ILRAENHHEKEYIVQVDKPITEQFINKMSAGVDILDTTTLPCYV----EKISDKVFKIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +G NR+I+++ + V RL RI +LG L G R+++ K E Sbjct: 174 EQGLNRQIRRMCSALGYSVKRLQRIRIMNIKLGNLKVGQWRDLTDKEQTELF 225 >gi|229825370|ref|ZP_04451439.1| hypothetical protein GCWU000182_00724 [Abiotrophia defectiva ATCC 49176] gi|229790374|gb|EEP26488.1| hypothetical protein GCWU000182_00724 [Abiotrophia defectiva ATCC 49176] Length = 234 Score = 263 bits (673), Expect = 2e-68, Method: Composition-based stats. Identities = 68/235 (28%), Positives = 115/235 (48%), Gaps = 5/235 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K ++ AG+ SRR +R+I + RV VNG V ++D + VDG + Sbjct: 1 MEAVRINKYLSEAGVCSRRGADRLIEEGRVSVNGNHAF-LGSVVKNSDEVRVDGNLVTPV 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L ++KP G+V T +DP + + R+ VGRLD +EGL+LL+NDG L Sbjct: 60 IKKILIAFNKPRGIVCTTADPKSKDVNIIEYINYPERIFPVGRLDKESEGLILLSNDGDL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + Y V D + L + +G+ I + + N Sbjct: 120 SNKIMKARNFHEKEYEVEVDKPFDDEFLKKMSEGVPILDTITRKCTLKRTGKTSFN---- 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E+F +KV +L RI +LG L +G+ R ++ K E + Sbjct: 176 IILTQGLNRQIRRMCEYFGYKVLKLKRIRIMNIKLGNLKSGTYRNITDKEYEELI 230 >gi|322386947|ref|ZP_08060571.1| ribosomal small subunit pseudouridine synthase A [Streptococcus cristatus ATCC 51100] gi|321269229|gb|EFX52165.1| ribosomal small subunit pseudouridine synthase A [Streptococcus cristatus ATCC 51100] Length = 242 Score = 263 bits (673), Expect = 2e-68, Method: Composition-based stats. Identities = 70/237 (29%), Positives = 122/237 (51%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + +G+ SR +V++++ + +V VNG + A + +D I VDG L E+ Sbjct: 1 MRLDKFLVESGLGSRSQVKQLLKKGQVWVNGAAVTSAKTQINERSDQIVVDGQTLVY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L + V VGRLD++T GLLLLTN+G L Sbjct: 60 FVYYLLNKPKGVISATED-DRHKTVLDLLDDTARQKEVFPVGRLDVDTHGLLLLTNNGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAW 188 + + P +VY+ + G +DQ + +GI ++ Q+ + + + Sbjct: 119 SHAMLSPKRHVAKVYQAQVAGLMDQADVERFAQGIELKDFTCQPAQLEILERDEGAKTSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 V + L EGK ++K++ +V L R+S GP QL +L G R ++++ ++ Sbjct: 179 VRITLSEGKFHQVKRMVLACGKEVTDLQRLSMGPLQLDPSLELGQWRRLTEEEMQSL 235 >gi|16273119|ref|NP_439355.1| hypothetical protein HI1199 [Haemophilus influenzae Rd KW20] gi|260581101|ref|ZP_05848922.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae RdAW] gi|1175679|sp|P45104|RLUB_HAEIN RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|1574128|gb|AAC22853.1| conserved hypothetical protein [Haemophilus influenzae Rd KW20] gi|260092230|gb|EEW76172.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae RdAW] Length = 357 Score = 263 bits (673), Expect = 2e-68, Method: Composition-based stats. Identities = 111/290 (38%), Positives = 152/290 (52%), Gaps = 12/290 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGL 121 + + E R+ +Y+KP G + T SDP+GR+TVFD LP SR I+VGRLDINT GL Sbjct: 130 INLSHTQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAVGRLDINTSGL 189 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 190 LLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGLANFKEIKFTG 249 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 250 GVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEMDLEN 309 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 LRE +G L E + LD S + + R KK Sbjct: 310 VNYLRELVG--LPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|168216722|ref|ZP_02642347.1| RNA pseudouridine synthase family protein [Clostridium perfringens NCTC 8239] gi|182381245|gb|EDT78724.1| RNA pseudouridine synthase family protein [Clostridium perfringens NCTC 8239] Length = 298 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 68/261 (26%), Positives = 128/261 (49%), Gaps = 12/261 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + +KN +++ R++K I+ G SRRE +++I Q RVK++G+ + V + Sbjct: 50 VSNKNEIRDKV---RLNKYISETGFCSRREADKLIEQGRVKIDGLKATT-GMKVSKGQSV 105 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +DG PL+ +KP+G+ T ++ + + D + + R+ +GRLD +++G Sbjct: 106 SIDGKPLKVENELVYIALNKPVGITCT-TESKIKGNIVDFI-NHEKRIFPIGRLDKDSQG 163 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+ +TNDG + + + Y V + + + + + G+ I G V + Sbjct: 164 LIFMTNDGDIVNKILRAGNNHEKEYIVTVNKPITHEFIKGMSNGVPILGTVTKKCLVKKE 223 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + L +G NR+I+++ E+F ++V +L RI LG L GS R ++KK Sbjct: 224 SKNS----FRIILTQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKIGSWRYLTKKE 279 Query: 241 LREQLGPHLLEEAQVNLDAPI 261 L E L E + +A I Sbjct: 280 LAEI--NRLTENSSKTEEASI 298 >gi|295100683|emb|CBK98228.1| ribosomal large subunit pseudouridine synthase B [Faecalibacterium prausnitzii L2-6] Length = 278 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 87/279 (31%), Positives = 140/279 (50%), Gaps = 4/279 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--R 68 +R+ K+++ G+ SRR E++IA+ RVKVNG ++ + D + VD + + Sbjct: 1 MAEERIQKIMSEQGLCSRRAAEQIIAEGRVKVNGHPVKVGDKMDPNRDVLHVDDERIYIQ 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 K ++ +KP G VTT SD GR TV + + I +R+ VGRLD ++EGLLL+TNDG Sbjct: 61 KNQQMYYLALYKPRGYVTTASDELGRKTVMELVADIPARLYPVGRLDKDSEGLLLMTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNA 187 A+ + PS ++YRV + D+ ++ L G+V+ G + + T + Sbjct: 121 AFAQAVTHPSGGISKLYRVTVQPRADEAQILKLSSGVVLDDGTKTMPCAINVVTDEPGRT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + L+EGKNREI+++ E +V RL R + G +LG L G RE++K + Sbjct: 181 VMEMTLKEGKNREIRRMCEAVGLEVIRLKRNAEGVVKLGMLQPGRYRELTKAEVNGLRAA 240 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 AQ A + S R R + + K Sbjct: 241 AAKGRAQT-RSAALQSRAAARRPRGPVGGNKAAAGKKHK 278 >gi|229844846|ref|ZP_04464984.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 6P18H1] gi|229812227|gb|EEP47918.1| ribosomal large subunit pseudouridine synthase B [Haemophilus influenzae 6P18H1] Length = 357 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 111/290 (38%), Positives = 152/290 (52%), Gaps = 12/290 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGL 121 + + E R+ +Y+KP G + T SDP+GR+TVFD LP SR I+VGRLDINT GL Sbjct: 130 INLSHAQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAVGRLDINTSGL 189 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 190 LLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGSANFKEIKFTG 249 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 250 GVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEMDLEN 309 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 LRE +G L E + LD S + + R KK Sbjct: 310 VNYLRELVG--LPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|331677046|ref|ZP_08377742.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli H591] gi|331075735|gb|EGI47033.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli H591] Length = 299 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 107/309 (34%), Positives = 151/309 (48%), Gaps = 23/309 (7%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K + + +++ KV+ARAG SRRE+E +I RV V+G + + V V I + Sbjct: 2 KATPKGSSMSEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRI 61 Query: 63 DGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + E R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+N Sbjct: 62 DGHLISVRESAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVN 121 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR GQVD KL L +G+ ++ + Sbjct: 122 TCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTI 181 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ Sbjct: 182 KFSGGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTEL 241 Query: 237 S---KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 LRE V L S + +DR + + R K SQ + Sbjct: 242 DLAQTNYLREL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVS 288 Query: 294 GLSKQKKLA 302 G + Sbjct: 289 GGRRSGGRN 297 >gi|229019771|ref|ZP_04176574.1| RNA pseudouridine synthase [Bacillus cereus AH1273] gi|229025998|ref|ZP_04182382.1| RNA pseudouridine synthase [Bacillus cereus AH1272] gi|228735279|gb|EEL85890.1| RNA pseudouridine synthase [Bacillus cereus AH1272] gi|228741496|gb|EEL91693.1| RNA pseudouridine synthase [Bacillus cereus AH1273] Length = 229 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 65/234 (27%), Positives = 114/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVCINGEMCTH-GVLVSDGDVVMIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAD-HIEDNIIDYI-HYPERIFPVGRLDKASEGLILLTNDGGIAH 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L +G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNGLESGKWRDITAEELEILIG 227 >gi|311114733|ref|YP_003985954.1| ribosomal large subunit pseudouridine synthase B [Gardnerella vaginalis ATCC 14019] gi|310946227|gb|ADP38931.1| ribosomal large subunit pseudouridine synthase B [Gardnerella vaginalis ATCC 14019] Length = 257 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 72/239 (30%), Positives = 121/239 (50%), Gaps = 2/239 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVP 66 QE+ R+ K++A AG SRR+ E +I RV+V+ L+ V I VDG Sbjct: 13 QESKNAVRLQKLLAEAGFGSRRKCEEIILDGRVEVDDELVTTLGTRVDPSKQKIRVDGSR 72 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 ++ + +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TN Sbjct: 73 VKFNHKLVTLALNKPKRVLSAMDDPKGRFTLRDIVGDKYERIFHMGRLDYDSEGLILMTN 132 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 DG L++ + P + + Y G+++ L +G+ ++ + + Q Sbjct: 133 DGELSQHVMHPKYEVEKTYIATVEGKINGMVCRRLVSQGVNLEDGWIKLDRCAIIDQNHD 192 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L GKNR ++++F + V RL+R GP +LG L AGS R +S+ +R Sbjct: 193 ATIVKVVLHSGKNRIVRRIFGAVGYPVKRLVRTQIGPIKLGDLKAGSYRVLSQTEVRSL 251 >gi|146312421|ref|YP_001177495.1| 16S rRNA pseudouridylate synthase A [Enterobacter sp. 638] gi|145319297|gb|ABP61444.1| ribosomal small subunit pseudouridine synthase A [Enterobacter sp. 638] Length = 235 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 58/229 (25%), Positives = 104/229 (45%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ +A ++ +E DG L + + Sbjct: 1 MRLDKFIAQQLSVSRAIAGREIRASRVTVDGDIVRDSAFKLLPEHDVEFDGNTLTQQIGS 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLEEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVMLESPVADDTAEQFTKGVQLHNEKDLTKPAVLEV--ITPTEVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 179 IEGRYHQVKRMFAAVGNRVVGLHRERIGEIALDPELEPGEYRPLTEEEI 227 >gi|167765418|ref|ZP_02437531.1| hypothetical protein BACSTE_03806 [Bacteroides stercoris ATCC 43183] gi|167697046|gb|EDS13625.1| hypothetical protein BACSTE_03806 [Bacteroides stercoris ATCC 43183] Length = 234 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 67/226 (29%), Positives = 105/226 (46%), Gaps = 3/226 (1%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLW 76 +K +A AG+ SRRE + I V VNG ++ + D ++ + ER Sbjct: 2 NKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEVKFHDQTVS-IERKIYV 60 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L +KP VTT DP R TV D + R+ VGRLD NT G+LLLTNDG LA L Sbjct: 61 LLNKPKDTVTTSDDPQARRTVMDLVKGACDERIYPVGRLDRNTTGVLLLTNDGDLASKLT 120 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 P ++Y V + + + + GI + ++ T V + + Sbjct: 121 HPKYLKKKIYHVHLDKNLTKADMEQIAAGIQLDDGEIQADAISY-TDDFKKDEVGIEIHS 179 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 GKNR ++++FE +KV +L R+ + L G R ++++ + Sbjct: 180 GKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQEV 225 >gi|148981773|ref|ZP_01816521.1| pseudouridine synthase family 1 protein [Vibrionales bacterium SWAT-3] gi|145960740|gb|EDK26079.1| pseudouridine synthase family 1 protein [Vibrionales bacterium SWAT-3] Length = 305 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 108/304 (35%), Positives = 151/304 (49%), Gaps = 13/304 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV VNG + + I +DG + Sbjct: 2 SEKLQKVLARAGHGSRRELEGLIKSGRVSVNGQVAKLGERLEDENSVIRIDGHTVSGKAS 61 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVVCRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G+V + K+ L +G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGEVTEQKVKNLVRGVELEDGMARFEDVVYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LRE 243 V + EG+NRE+++++E V+RL R+ YG L L G +E+ + LRE Sbjct: 182 TFYVAINEGRNREVRRLWESQETTVSRLKRVRYGDIYLDKKLPRGGWKELDLQEVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E ++LD P +S R R I R ++ ++ G S Q K Sbjct: 242 LVELKPEKETLLDLD-PSNTSRKRERSRSQKIRR---AVRRHEERANAPKGRSNQAKRKK 297 Query: 304 PVHR 307 P R Sbjct: 298 PATR 301 >gi|257465549|ref|ZP_05629920.1| pseudouridine synthase [Actinobacillus minor 202] gi|257451209|gb|EEV25252.1| pseudouridine synthase [Actinobacillus minor 202] Length = 340 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 104/262 (39%), Positives = 148/262 (56%), Gaps = 10/262 (3%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVD 63 N +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +D Sbjct: 52 NEKKEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRID 111 Query: 64 GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINT 118 G + + E R+ +Y+KP G + T SDP+GR+TVFD LP +R ++VGRLDINT Sbjct: 112 GHLINLIPTQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGARWVAVGRLDINT 171 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLL T DG LA L PS + R Y VR G VD+ L L+KG+ ++ Q+ Sbjct: 172 SGLLLFTTDGELANRLMHPSREVEREYSVRVFGNVDEAMLQRLRKGVQLEDGPANFKQIK 231 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 G N W V L EG+NRE+++++E +V+RLIRI YG +L +L G E+ Sbjct: 232 AVGGTGINQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKSLPRGGWEEMG 291 Query: 238 KK---ILREQLGPHLLEEAQVN 256 + LRE +G E +V+ Sbjct: 292 LEQVNYLRELVGLPAETETKVD 313 >gi|154484655|ref|ZP_02027103.1| hypothetical protein EUBVEN_02372 [Eubacterium ventriosum ATCC 27560] gi|149734503|gb|EDM50420.1| hypothetical protein EUBVEN_02372 [Eubacterium ventriosum ATCC 27560] Length = 245 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 73/245 (29%), Positives = 116/245 (47%), Gaps = 10/245 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K+K E R++K ++ AG SRRE +R++ Q VKVNG V D I Sbjct: 7 LKEKKSADEQI---RLNKFLSDAGYCSRREADRLVEQGVVKVNGKTA-VMGQKVTINDSI 62 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 V G + + E L +KP+G+ T +D + + D + + RV +GRLD N++G Sbjct: 63 MVKGKNISREEEQILIALNKPVGIECT-TDLNNPDNIVDFI-NFDKRVYPIGRLDKNSQG 120 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+LLTNDG + + S + Y V V D + + G+ I +VT Sbjct: 121 LILLTNDGSIVNNILKGSNYHEKEYVVTVDKPVTDDFIKKMSTGVRILDQVTRPCKVT-- 178 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 K + L +G NR+I+++ + V +L RI +LG L G R+V+ Sbjct: 179 --KVKKHVFNIVLTQGLNRQIRRMCGELGYNVQKLKRIRIMNIELGNLPVGQYRKVTDSE 236 Query: 241 LREQL 245 L+E + Sbjct: 237 LKELM 241 >gi|39938724|ref|NP_950490.1| 16S rRNA pseudouridylate synthase [Onion yellows phytoplasma OY-M] gi|39721833|dbj|BAD04323.1| 16S rRNA pseudouridylate synthase [Onion yellows phytoplasma OY-M] Length = 245 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 74/236 (31%), Positives = 124/236 (52%), Gaps = 6/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ KV+A A +ASRR+ E +I ++R+KVNG ++ V S+D I +D P+ K Sbjct: 2 QRLQKVLAYANVASRRKAEILILEKRIKVNGKIISELGTKVSSSDIITLDDKPITKTT-Y 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G ++T D R TV D + R+ +GRLD NT GLLL+TNDG L + Sbjct: 61 SYFLLNKPNGFLSTAKDNKKRPTVLDLIEEANIQRLYPIGRLDFNTTGLLLITNDGDLTQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ----VTLDTQKGSNAW 188 L PS + Y V+ + + + L +KGI+I + + + + W Sbjct: 121 KLTHPSFCIPKEYHVKINACLQKKDLATFRKGIIIDKNYLAFCKEIDILKSSYKPKPSTW 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + + EGKNR+++K+ + ++V +L R Y + L G+ R + +++ Sbjct: 181 LKLVITEGKNRQVRKMMQSLGYQVLKLKRYRYSFLTIENLTIGAYRPLKIHEIKKL 236 >gi|242239776|ref|YP_002987957.1| 16S rRNA pseudouridylate synthase A [Dickeya dadantii Ech703] gi|242131833|gb|ACS86135.1| pseudouridine synthase [Dickeya dadantii Ech703] Length = 232 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 56/229 (24%), Positives = 102/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR + R + QRV V+G +++ A + + DG PL + Sbjct: 1 MRLDKFLSQQLGISRSLIARELRAQRVTVDGDVIKNGAFKLAPEHQVAFDGNPLVQQTGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLHKPQGYVCSTDDPDHPTILYFIDEPVAHKLHAAGRLDIDTSGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V ++ GI + G L+ + + Sbjct: 121 ITSPKHHCEKTYLVALDRPIEPGTAEHFAAGIQLNGEKELTKPAVLEV--LDEQLARLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F V L R G L +L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVTALHRERIGAIVLDSSLEPGEYRALTQEEV 227 >gi|310767747|gb|ADP12697.1| 23S rRNA pseudouridylate synthase B [Erwinia sp. Ejp617] Length = 295 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 102/302 (33%), Positives = 147/302 (48%), Gaps = 22/302 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E +I+ RV V+G L V I +DG + + Sbjct: 2 SEKLQKVLARAGHGSRREIETLISAGRVSVDGKLAT-LGDRVEPGASLKIRIDGHVVPVS 60 Query: 71 ERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLT 125 E R+ Y+KP G + T SDP+GR TVFD LP +R ++VGRLD+NT GLLL T Sbjct: 61 ESISEVCRILAYYKPEGELCTRSDPEGRPTVFDRLPKLRGARWVAVGRLDVNTCGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR G VD +K+ LL +G+ ++ + +G Sbjct: 121 TDGELANRLMHPSREVEREYAVRVFGAVDDEKIKLLSRGVQLEDGPAAFKTLKFTGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKIL 241 N W V L EG+NRE+++++E +V+RLIRI YG L L G E+ L Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRIRYGDIDLPKGLPRGGWTELDLAPTNYL 240 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 RE +G L S + +DR + + + S ++ Sbjct: 241 RELVG----------LAPETVSKVPVEKDRRRTKANQIRRAVKRHTTTKVSKPGSGRRPS 290 Query: 302 AT 303 Sbjct: 291 KR 292 >gi|298490451|ref|YP_003720628.1| pseudouridine synthase ['Nostoc azollae' 0708] gi|298232369|gb|ADI63505.1| pseudouridine synthase ['Nostoc azollae' 0708] Length = 254 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 83/238 (34%), Positives = 125/238 (52%), Gaps = 12/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K+I++ GIASRRE E MI + RVK+NGIL V D I +DG P+ +++ Sbjct: 4 RIQKIISQWGIASRREAEEMIKRSRVKINGILA-HLGQKVDPQIDTISIDGQPISQSQHP 62 Query: 74 --RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 L +KP G+V+T DP GR TV D LP + VGRLD ++ G L+LTNDG Sbjct: 63 SLIYLLLNKPPGVVSTCDDPQGRPTVLDLLPQKLRHGLGIHPVGRLDADSTGALILTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L PS + Y + G + L ++G+ ++G +V L + Sbjct: 123 DLTFSLTHPSHNIAKTYHIVVKGHPPEVVLGRWREGVFLEGRKTRPAKVQLIESLAHQSK 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREVSKKIL 241 + + L+EG+NR+I++V E + V +L R + G QL T LL G R ++ + + Sbjct: 183 LEIILQEGRNRQIRRVAEQLGYPVIQLHRTAIGSIQLQTPKARFLLWGDYRHITPEEI 240 >gi|251771881|gb|EES52455.1| Pseudouridine synthase, Rsu [Leptospirillum ferrodiazotrophum] Length = 638 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 106/360 (29%), Positives = 169/360 (46%), Gaps = 12/360 (3%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHI 60 D I +E R+ K++A G+ASRR+ E++IA V V+G ++ V I Sbjct: 14 DDSEIPEEADGRLRLHKILAHRGVASRRKSEQLIAAGSVTVDGEVVTEPGTRVDPKHQVI 73 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 VDG PL + T L+L++KP G+V+T DP+GR T+ D P I + +GRLD TEG Sbjct: 74 LVDGRPLPREPETFLFLFYKPKGVVSTLFDPEGRPTLRDYFPGIDPLLH-IGRLDFQTEG 132 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTL 179 LLLTN+G L++ + P + R Y V+ G + L + +G I + G +++ Sbjct: 133 ALLLTNNGDLSQRILHPRFEIPRTYLVKIQGGMSPAHLERMARGEIRLDGRPVVPLELVP 192 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + Q +NAW + L EG+NRE++++FE N+ V +L+R ++GP L L G R V+ Sbjct: 193 ERQTSTNAWYRITLTEGRNREVRRLFETLNYFVLKLVRTAFGPLTLAGLEPGEYRTVTPH 252 Query: 240 ILREQLGPHLLEEAQVNLDAPIY-----SSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 L + NLD+ R + E +R + ++ K+ Sbjct: 253 ETELLLAGTRPQSLPKNLDSRFSRRDDDGGAPRSEGRRSGREEKVGQGSREPRRTTGKSA 312 Query: 295 LSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ----REENHRRSPSFPSKRSLRRT 350 + + P R+ AS I + REE+ R + + P RS Sbjct: 313 APRGEGFDRPSRPRSAASRGSAFPKIRRTEGEWPSGVRSPREESGREARTVPRTRSFEEG 372 >gi|42783720|ref|NP_980967.1| RNA pseudouridylate synthase family protein [Bacillus cereus ATCC 10987] gi|42739650|gb|AAS43575.1| RNA pseudouridylate synthase family protein [Bacillus cereus ATCC 10987] Length = 229 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 64/234 (27%), Positives = 111/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG L K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAI-VNDGDVVTIDGQVLAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAD-HIEDNIIDYI-NYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R ++ L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELDDLEVGKWRNITDGELEILIG 227 >gi|152971155|ref|YP_001336264.1| 16S rRNA pseudouridylate synthase A [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|238895743|ref|YP_002920479.1| 16S rRNA pseudouridylate synthase A [Klebsiella pneumoniae NTUH-K2044] gi|262040199|ref|ZP_06013451.1| ribosomal small subunit pseudouridine synthase A [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|150956004|gb|ABR78034.1| 16S pseudouridylate 516 synthase [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|238548061|dbj|BAH64412.1| 16S pseudouridylate 516 synthase [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] gi|259042436|gb|EEW43455.1| ribosomal small subunit pseudouridine synthase A [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] Length = 239 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 58/237 (24%), Positives = 104/237 (43%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ A+ + +E DG L + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGSRVTVDGDIVKDASFKLQPEHEVEYDGNTLTQQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTILYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + + L KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVALESPLAEGTAELFAKGVQLHNEKDLTKPALLEV--ITPTEVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F V L R G L +L G R +++ + P Sbjct: 179 SEGRYHQVKRMFAAVGNHVVGLHRERIGDILLDESLAPGEYRPLTEAEIASVGAPQP 235 >gi|47096040|ref|ZP_00233642.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes str. 1/2a F6854] gi|254826833|ref|ZP_05231520.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes FSL N3-165] gi|254901132|ref|ZP_05261056.1| hypothetical protein LmonJ_14998 [Listeria monocytogenes J0161] gi|254914018|ref|ZP_05264030.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes J2818] gi|254938333|ref|ZP_05270030.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes F6900] gi|47015637|gb|EAL06568.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes str. 1/2a F6854] gi|258599211|gb|EEW12536.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes FSL N3-165] gi|258610945|gb|EEW23553.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes F6900] gi|293592036|gb|EFG00371.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes J2818] Length = 233 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 70/233 (30%), Positives = 110/233 (47%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQITVHGTPVVYQE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG L Sbjct: 60 FVYFMLHKPQNVVSATED-NVSETVIDLLAQEDTLTDPFPVGRLDKDTEGLLIITNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y + G V + GI + G ++ + T + Sbjct: 119 AHNLLSPKKHIDKTYYAKIDGDVTAADVEAFAAGIELDDGYTCKPARLEIITPN----EI 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V ++EGK ++K++F V+ L RIS G QL +L G R +++ L Sbjct: 175 KVTIQEGKFHQVKRMFAARGKSVSYLKRISMGNLQLDESLALGEYRPLTEAEL 227 >gi|228923295|ref|ZP_04086583.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228836249|gb|EEM81602.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] Length = 229 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 64/234 (27%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTH-GTLVSDGDRVTIDGKVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G++ T +D + D + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGIICTAAD-HIEDNIIDYI-NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|259908330|ref|YP_002648686.1| 23S rRNA pseudouridylate synthase B [Erwinia pyrifoliae Ep1/96] gi|224963952|emb|CAX55457.1| Ribosomal large subunit pseudouridine synthase B [Erwinia pyrifoliae Ep1/96] gi|283478269|emb|CAY74185.1| ribosomal large subunit pseudouridine synthase B [Erwinia pyrifoliae DSM 12163] Length = 295 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 104/302 (34%), Positives = 147/302 (48%), Gaps = 22/302 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E MI+ RV V+G L V I +DG + + Sbjct: 2 SEKLQKVLARAGHGSRREIETMISAGRVSVDGKLAT-LGDRVEPGASLKIRIDGHVVPVS 60 Query: 71 ERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLT 125 E R+ Y+KP G + T SDP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 61 ESISEVCRVLAYYKPEGELCTRSDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR G VD +K+ LL +G+ ++ + +G Sbjct: 121 TDGELANRLMHPSREVEREYAVRVFGAVDDEKIKLLSRGVQLEDGPAAFKTLKFTGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKIL 241 N W V L EG+NRE+++++E +V+RLIRI YG L L G E+ L Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRIRYGDIDLPKGLPRGGWTELDLSPTNYL 240 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 RE +G L S + +DR + + + S ++ Sbjct: 241 RELVG----------LAPETVSKVPVEKDRRRTKANQIRRAVKRHTTTKVSKPGSGRRPS 290 Query: 302 AT 303 Sbjct: 291 KR 292 >gi|53719535|ref|YP_108521.1| hypothetical protein BPSL1921 [Burkholderia pseudomallei K96243] gi|126440981|ref|YP_001058776.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 668] gi|217423361|ref|ZP_03454862.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 576] gi|237812039|ref|YP_002896490.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei MSHR346] gi|254179983|ref|ZP_04886582.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1655] gi|254259934|ref|ZP_04950988.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1710a] gi|52209949|emb|CAH35921.1| conserved hypothetical protein [Burkholderia pseudomallei K96243] gi|126220474|gb|ABN83980.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 668] gi|184210523|gb|EDU07566.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1655] gi|217393219|gb|EEC33240.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 576] gi|237504108|gb|ACQ96426.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei MSHR346] gi|254218623|gb|EET08007.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1710a] Length = 554 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 100/356 (28%), Positives = 166/356 (46%), Gaps = 10/356 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 173 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 231 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 232 GKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTE 291 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 292 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRIRD 351 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 352 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 411 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK-KNSSQKNGLSK 297 +R + L+ D R +P+ + R + + + Sbjct: 412 AQVRRLMSTVGLKA--PTEDKGGKRGGPAERRQPDPMQTSMGFINREPVLTTHGQLDQPR 469 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + A S G R+ + R+ S+ + +R + K Sbjct: 470 RGRRGPAGGGFGAGLGGGYAGLPGYGGASRQGGRDVDGNRA-SYGGAGANKRGAGK 524 >gi|238924043|ref|YP_002937559.1| 16S pseudouridylate synthase [Eubacterium rectale ATCC 33656] gi|238875718|gb|ACR75425.1| 16S pseudouridylate synthase [Eubacterium rectale ATCC 33656] Length = 250 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 73/238 (30%), Positives = 128/238 (53%), Gaps = 7/238 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 V+ N R+ K ++ G+ +R EV+++I ++ +NG + + V + D + V+G Sbjct: 5 VERNINMIRLDKFLSEMGLGTRSEVKKLIKTGQIAINGTVAAKPETKVDTDADEVSVNGR 64 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLL 124 ++ +R +L++KP G V+ D + TV D + ++ + VGRLDI+TEGLLL+ Sbjct: 65 IVKY-QRYEYYLFNKPSGCVSATCD-NVHDTVMDYITDAVHDDLFPVGRLDIDTEGLLLI 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK 183 TNDG L+ L PS + Y R G+V D + K+GI I + ++ + + Sbjct: 123 TNDGALSHELLSPSKHVAKTYYARIDGEVTLDDIIRFKEGIDIGEEKPTKPAELVI-KKS 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 GS + + + + EGK ++K++FE +V L RIS GP +L L G+ R +++ Sbjct: 182 GSVSEIELTITEGKFHQVKRMFEALGKRVIYLKRISMGPLKLPDDLKTGTYRALTQAE 239 >gi|307151744|ref|YP_003887128.1| RNA-binding S4 domain-containing protein [Cyanothece sp. PCC 7822] gi|306981972|gb|ADN13853.1| RNA-binding S4 domain protein [Cyanothece sp. PCC 7822] Length = 259 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 78/247 (31%), Positives = 129/247 (52%), Gaps = 11/247 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +RV K++++ GIASRR+ E++I RV++NG + D +EVDG ++ R Sbjct: 2 TERVQKILSQWGIASRRQAEKLILAGRVRLNGNIASLGDKADPHQDLLEVDGTIIQPVNR 61 Query: 73 TR--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTND 127 R L +KP+G+V+T DP R TV + LP+ ++ + VGRLDIN+ G L+LTND Sbjct: 62 PRPIYILLNKPLGVVSTCHDPQNRPTVLELLPATLNQGTGIHPVGRLDINSTGALVLTND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + Y+V G + L ++G+++ G QV + + Sbjct: 122 GELTLSLTHPRYHLPKTYQVWIDGNPGEQILQQWREGVMLMGKKTQPAQVKVVKRHHQQT 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-----TLLAGSTREVSKKILR 242 + V + EGKNR+I+++ + + V +L R + G QL +L +G R + + Sbjct: 182 QLQVVITEGKNRQIRRIVQLLGFNVLKLHRTAIGLIQLNPANEPSLASGDYRFLKTFEI- 240 Query: 243 EQLGPHL 249 + L H+ Sbjct: 241 DYLRNHV 247 >gi|255305403|ref|ZP_05349575.1| putative RNA pseudouridine synthase [Clostridium difficile ATCC 43255] Length = 240 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 66/234 (28%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 QR+ K+++ G SR E+++ Q V VNG + V D I +G + E Sbjct: 5 QRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYRE- 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G ++ +D TV D + + VGRLD +TEGLL+LTNDG L Sbjct: 64 YIYLMMNKPDGYISATTD-KYDPTVLDLIDLSYLAFEPFPVGRLDKDTEGLLVLTNDGKL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSNAWV 189 + + P + Y + G V ++ + +G+V+ Y M L+ + + + Sbjct: 123 SHRVLSPKKHVSKTYYAKIDGVVTEEDVEAFLEGVVLDDG-YKTMPSQLNILKSDDESEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R+S G +L +L G RE++ + ++ Sbjct: 182 ELTIHEGKFHQVKRMFESVGKKVVYLKRLSMGNLKLDESLELGEYRELTDEEVK 235 >gi|16331284|ref|NP_442012.1| hypothetical protein slr0361 [Synechocystis sp. PCC 6803] gi|3915377|sp|Q55578|Y361_SYNY3 RecName: Full=Uncharacterized RNA pseudouridine synthase slr0361; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|1001457|dbj|BAA10082.1| slr0361 [Synechocystis sp. PCC 6803] Length = 249 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 80/238 (33%), Positives = 117/238 (49%), Gaps = 9/238 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++++ GIASRR E MI RV VNG + D + VDG ++ R Sbjct: 3 ERIQKLLSQWGIASRRHAEEMILAGRVSVNGKVANLGDKADPQQDFLSVDGKQIKADNRP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 R L +KP +++T DP GR TV D LP R + VGRLD N+ G LLLTNDG Sbjct: 63 RDIYLLVNKPRDVLSTCDDPRGRKTVLDLLPQDLQRGKGLHPVGRLDRNSTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y V G + L + G+++ G + + ++ Sbjct: 123 ELTLRLTHPRYHLPKTYDVWLEGNPSDEDLEKWRSGMMLDGKKTLPATLEVISENKDQIH 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT----LLAGSTREVSKKILR 242 + V L EG+NR+I+++ E V +L R + GP QL T L +G R +S +R Sbjct: 183 LLVTLTEGRNRQIRRLAEELGLTVLKLHRRTIGPLQLHTRGKVLGSGQFRFLSPAEIR 240 >gi|332307254|ref|YP_004435105.1| pseudouridine synthase [Glaciecola agarilytica 4H-3-7+YE-5] gi|332174583|gb|AEE23837.1| pseudouridine synthase [Glaciecola agarilytica 4H-3-7+YE-5] Length = 289 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 102/290 (35%), Positives = 150/290 (51%), Gaps = 12/290 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+A AG+ SRRE+E+ IA R+ VNG + V D + VDG + A + Sbjct: 2 SEKLQKVLANAGVGSRREMEKWIASGRISVNGKVAT-LGDRVEPVDQLRVDGNLITSAAK 60 Query: 73 T---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 + R+ +Y+KP G + + DP GR TVFD LP I + R I+VGRLDINT GLLL TNDG Sbjct: 61 STMCRVLMYNKPEGELCSRKDPQGRPTVFDRLPKIQNGRWIAVGRLDINTSGLLLFTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--N 186 LA L P + R Y VR G+V+ D + LKKG+ ++ ++ N Sbjct: 121 ELANRLMHPKHEIEREYAVRVFGEVEDDMIKRLKKGVELEDGVSKFTEIRKRPGDDESLN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREV---SKKILR 242 +W V L EGKNRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 181 SWYNVSLSEGKNREVRRLWESQGLQVSRLIRVRYGTLNLQNRLPQGGWIELPLTDLNTLR 240 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK 292 + + L +E+ V D + + + + R K +K Sbjct: 241 KSVQLDLEQESLVE-DKQTKLDHVRLSRMRRSVQKHKVNQGRAKPRPKKK 289 >gi|271500649|ref|YP_003333674.1| pseudouridine synthase [Dickeya dadantii Ech586] gi|270344204|gb|ACZ76969.1| pseudouridine synthase [Dickeya dadantii Ech586] Length = 296 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 107/307 (34%), Positives = 149/307 (48%), Gaps = 23/307 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MI R+ V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESMIEAGRISVDGKIATLGDRVEVTRATKIRIDGHVVSVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ +Y+KP G + T SDP+GR TVFD LP R ++VGRLD+NT GLLL T Sbjct: 62 TEEAVCRVLMYYKPEGELCTRSDPEGRPTVFDRLPRIQGYRWVAVGRLDVNTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G+V DK+ L KG+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGEVGDDKIRQLSKGVQLEDGPAAFRAIRYQGGEGLN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV---SKKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG QL L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIQLPKGLPRGGWTEMPLADVNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + R+R + + R K Q S+ Sbjct: 242 EL----------VQLTPETVSKLPVERERRRVKAN---QIRRAVKRHGQTGAASRPSGNR 288 Query: 303 TPVHRRN 309 +RN Sbjct: 289 RSAPKRN 295 >gi|268316878|ref|YP_003290597.1| RNA-binding S4 domain-containing protein [Rhodothermus marinus DSM 4252] gi|262334412|gb|ACY48209.1| RNA-binding S4 domain protein [Rhodothermus marinus DSM 4252] Length = 268 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 75/270 (27%), Positives = 130/270 (48%), Gaps = 7/270 (2%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V + + R+++ +ARAG+ SRR+ + +IA +V+VNG + + + V D +EV+G Sbjct: 2 TVSDKSSLIRLNRYLARAGVCPSRRKADELIASGQVRVNGQVAQ-LGMRVGPDDIVEVNG 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGL 121 V + + L +KP +TT D GR TV D + P + + VGRLD NT G+ Sbjct: 61 VRVVPQTQALYILMNKPHDTITTCDDERGRRTVLDLINLPPEQKNGLFPVGRLDRNTTGV 120 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDG LA L P + ++Y R V ++ L++G+ ++ +QV + Sbjct: 121 LLLTNDGELANRLMHPRYRVEKIYVARTARPVKPEEAEQLRRGVQLEDGPARAVQVAV-- 178 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + EG+NR+++++ E +V +L R Y + G R ++ + Sbjct: 179 NPADPHEIALMIYEGRNRQVRRMLEAIGHEVVQLKRTHYAGLTTKGVRPGKWRRLTDAEV 238 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDR 271 R L+ + PI + R Sbjct: 239 RRLYRLAGLKPPKTFKTMPIGHGDANAVKR 268 >gi|188026069|ref|ZP_02960759.2| hypothetical protein PROSTU_02727 [Providencia stuartii ATCC 25827] gi|188021498|gb|EDU59538.1| hypothetical protein PROSTU_02727 [Providencia stuartii ATCC 25827] Length = 313 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 99/317 (31%), Positives = 154/317 (48%), Gaps = 23/317 (7%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG 64 + + +++ K++AR+G SRRE+E + + R+ V+G + + V I +DG Sbjct: 9 MSAKPQKTEKLQKILARSGHGSRREIETFLKEGRISVDGKIATLGDRIEVKPATKIRLDG 68 Query: 65 VPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 L E R+ Y+KP G + T DP+GR TVF LP + +R I+VGRLD+NT Sbjct: 69 RILAIKEPEKEICRVMAYYKPEGELCTRHDPEGRPTVFTRLPKLVGARWIAVGRLDVNTS 128 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T DG LA L PS + R Y VR G++ K+ L +G+ ++ V+ Sbjct: 129 GLLLFTTDGELANRLMHPSREVEREYAVRVFGEITDAKIRQLTQGVQLEDGPAAFKTVSF 188 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ Sbjct: 189 RGGEGMNQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIDLPKGLPRGGWTELGL 248 Query: 239 K---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 + LRE +G E +V ++ RD+ I + R K SQ Sbjct: 249 QQTNYLRELVGLEAETETKVAVE----------RDQRRIKAN---QIRRAVKRHSQVAAR 295 Query: 296 SKQKKLATPVHRRNLAS 312 K+ ++ + Sbjct: 296 PASKRQSSRPTAKRRTR 312 >gi|46143798|ref|ZP_00204573.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|126207838|ref|YP_001053063.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae L20] gi|126096630|gb|ABN73458.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus pleuropneumoniae serovar 5b str. L20] Length = 230 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 61/231 (26%), Positives = 108/231 (46%), Gaps = 5/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + R + V +NG L + +V + TD I +G L + Sbjct: 1 MRLDKFIAENTGLTRSQAARALKSGLVTINGKLEKSGSVKIGDTDEICYEGERLEWVDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ +KP G V +H D + TVF + +++ + GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLYKPQGYVCSHDDGEY-PTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+ L +GI+++G + ++ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEDFYAKKLAEGILLRGEREPCLPAKMEVIDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EG+ ++K++F KV L R G L L G R +S++ + Sbjct: 178 ISEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDENLEEGEYRPLSEQEVE 228 >gi|261253105|ref|ZP_05945678.1| ribosomal small subunit pseudouridine synthase A [Vibrio orientalis CIP 102891] gi|260936496|gb|EEX92485.1| ribosomal small subunit pseudouridine synthase A [Vibrio orientalis CIP 102891] Length = 233 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 103/229 (44%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+RRE R+I V VN ++ + +V V +E G L+K Sbjct: 1 MRLDKYLCDALGATRREATRIIKSGDVTVNDVVQKSGSVKVTDGCTVEWQGRELQKP-GP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + KP G V +H D ++ + GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLFKPDGFVCSHEDGFNQTAFMLLDEVKIEELHFAGRLDVDTTGLVLITDDGKWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + D + +GI ++ + L+ V + + Sbjct: 120 ITSPKHKCEKTYRVWLADPIQADYVEKFAEGIQLRNEKGLTLPAQLEIVDEEENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EGK ++K++F KV L R G +L +L G R ++++ + Sbjct: 180 TEGKYHQVKRMFAALGNKVEHLHRERIGDIELCESLEPGEYRYLTEEEV 228 >gi|299067338|emb|CBJ38535.1| Ribosomal large subunit pseudouridine synthase B [Ralstonia solanacearum CMR15] Length = 601 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 102/318 (32%), Positives = 156/318 (49%), Gaps = 14/318 (4%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG+ ++ TD + Sbjct: 203 KVRELTAEDDAP-KLHKILADAGLGSRRDMEDLILQGRVSVNGLPA-HIGQRILPTDQVR 260 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDIN 117 V+G +++ + R+ LYHKP G + + SDP+GR TVFD+LP + + + ++VGRLD N Sbjct: 261 VNGKLIQRKLPSKPPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFN 320 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L GI + + Sbjct: 321 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELPESDRQKLLHGIRLDDGEANFLSC 380 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 381 ADGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 440 Query: 237 SKKILREQLG------PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 S +R +G P +P ++ + FT S Sbjct: 441 SADDVRGLMGLLGLKVPSASAGGGQQGGQGGRQGNRRREAQPVLMGPMSSGFTGEATFQS 500 Query: 291 QKNGLSKQKKLATPVHRR 308 + G+ + A P RR Sbjct: 501 RGQGVENGNR-AMPAPRR 517 >gi|320540531|ref|ZP_08040181.1| putative 23S rRNA pseudouridylate synthase [Serratia symbiotica str. Tucson] gi|320029462|gb|EFW11491.1| putative 23S rRNA pseudouridylate synthase [Serratia symbiotica str. Tucson] Length = 299 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 109/308 (35%), Positives = 152/308 (49%), Gaps = 22/308 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MI RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEAMIDAGRVSVDGKIAKLGDRVEVNPAMKIRMDGHVVSVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + THSDP+GR TVFD LP SR ++VGRLD+NT GLLL T Sbjct: 62 SEEAVCRVLAYYKPEGELCTHSDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L P+ + R Y VR GQ D D + LKKG+ ++ + +G N Sbjct: 122 DGELANRLMHPNREVEREYAVRVFGQTDDDSVKQLKKGVQLEDGPAAFRTIDFQGGEGLN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ + Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIALPKGLPRGGWAELDLNAINYLR 241 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK-----K 300 L+ V S + R+R + + R K Q G S ++ K Sbjct: 242 ALVGLKPETV-------SKMPVERERRRMKAN---QIRRAVKRHIQVTGSSGRRNAPGSK 291 Query: 301 LATPVHRR 308 P RR Sbjct: 292 SGRPSKRR 299 >gi|126455204|ref|YP_001066028.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106a] gi|242317672|ref|ZP_04816688.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106b] gi|254198293|ref|ZP_04904715.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei S13] gi|126228846|gb|ABN92386.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106a] gi|169655034|gb|EDS87727.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei S13] gi|242140911|gb|EES27313.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 1106b] Length = 554 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 100/356 (28%), Positives = 166/356 (46%), Gaps = 10/356 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 173 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 231 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 232 GKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTE 291 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 292 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQRLLHGVELDDGPANFLRIRD 351 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 352 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 411 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK-KNSSQKNGLSK 297 +R + L+ D R +P+ + R + + + Sbjct: 412 AQVRRLMSTVGLKA--PTEDKGGKRGGPAERRQPDPMQTSMGFINREPVLTTHGQLDQPR 469 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + A S G R+ + R+ S+ + +R + K Sbjct: 470 RGRRGPAGGGFGAGLGGGYAGLPGYGGASRQGGRDVDGNRA-SYGGAGANKRGAGK 524 >gi|240948952|ref|ZP_04753308.1| pseudouridine synthase [Actinobacillus minor NM305] gi|240296767|gb|EER47378.1| pseudouridine synthase [Actinobacillus minor NM305] Length = 340 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 109/283 (38%), Positives = 154/283 (54%), Gaps = 12/283 (4%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVD 63 N +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +D Sbjct: 52 NEKKEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRID 111 Query: 64 GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINT 118 G + + E R+ +Y+KP G + T SDP+GR+TVFD LP SR ++VGRLDINT Sbjct: 112 GHLINLIPTQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWVAVGRLDINT 171 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLL T DG LA L PS + R Y VR G VD+ L L+KG+ ++ Q+ Sbjct: 172 SGLLLFTTDGELANRLMHPSREVEREYSVRVFGNVDEAMLQRLRKGVQLEDGPANFKQIK 231 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 G N W V L EG+NRE+++++E +V+RLIRI YG +L +L G E+ Sbjct: 232 AVGGTGINQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKSLPRGGWEEMG 291 Query: 238 KK---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 + LRE +G L E + +D T VR + + Sbjct: 292 LEQVNYLRELVG--LPAETETKVDVTKNRRRTNVRQIRKAVKQ 332 >gi|308187558|ref|YP_003931689.1| 16S pseudouridylate 516 synthase [Pantoea vagans C9-1] gi|308058068|gb|ADO10240.1| 16S pseudouridylate 516 synthase [Pantoea vagans C9-1] Length = 239 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 61/239 (25%), Positives = 105/239 (43%), Gaps = 3/239 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I++ SR R I QRV VNG ++ A ++ + DG L+ Sbjct: 1 MRLDKFISQQLEISRAIAHREIRGQRVTVNGEVVRDTAFKLLPDHEVAYDGNVLQMLTGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTILYFIEEPMSFKLHAAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + YRV + D G+ + L+ ++ V + L Sbjct: 121 ITSPRHHCEKTYRVTLESPIGDDTAAQFTAGVQLHNEKDLTKPAQLEVITPTD--VRLTL 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHLLE 251 EG+ ++K++F +V L R G L L G R +++ + P L+ Sbjct: 179 SEGRYHQVKRMFAAVGNRVIELHRERIGDIALDDDLEPGDYRALTEDEIASIGLPKELQ 237 >gi|330015788|ref|ZP_08308280.1| 16S pseudouridylate 516 synthase [Klebsiella sp. MS 92-3] gi|328530489|gb|EGF57362.1| 16S pseudouridylate 516 synthase [Klebsiella sp. MS 92-3] Length = 239 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 58/237 (24%), Positives = 104/237 (43%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ A+ + +E DG L + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGSRVTVDGDIVKDASFKLQPEHEVEYDGNTLTQQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTILYFLDEPVAHKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + + L KG+ + L+ + V + + Sbjct: 121 ITSPRHHCEKTYLVALENPLAEGTAELFAKGVQLHNEKDLTKPALLEV--ITPTEVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F V L R G L +L G R +++ + P Sbjct: 179 SEGRYHQVKRMFAAVGNHVVGLHRERIGDILLDESLAPGEYRPLTEAEIASVGAPQP 235 >gi|218960682|ref|YP_001740457.1| ribosomal large subunit pseudouridine synthase B [Candidatus Cloacamonas acidaminovorans] gi|167729339|emb|CAO80250.1| ribosomal large subunit pseudouridine synthase B [Candidatus Cloacamonas acidaminovorans] Length = 279 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 71/232 (30%), Positives = 126/232 (54%), Gaps = 1/232 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+++ +A G+ SRR+VE I R+ VNG L++ + ++ D + +DG P++ A+ Sbjct: 41 RLNRYLADCGLGSRRKVEEFITTGRIAVNGNLVQDLSRQIIPGKDKVTLDGKPIQPAKEK 100 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G V + +D GR TV+ LP ++ GRLD +EGLL TND L + Sbjct: 101 FYLILNKPRGYVVSQNDELGRKTVYSLLPPKGKQLAYAGRLDKESEGLLFFTNDTALINL 160 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + +VYRV + ++ +LN+L+KG+ I+G + + ++ + + + + Sbjct: 161 LTHPKNKVEKVYRVDINRPLNNMELNMLRKGVEIEGGKTLPAGIFVKSKNANGMTLKIVI 220 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 EG+ R+I+++ E KV L R+ +GP +L L G R + ++ L Sbjct: 221 TEGRKRQIRQMIEAVGAKVTYLKRLQFGPLKLKDLPVGRWRLLEPGEVKALL 272 >gi|172058280|ref|YP_001814740.1| pseudouridine synthase [Exiguobacterium sibiricum 255-15] gi|171990801|gb|ACB61723.1| pseudouridine synthase [Exiguobacterium sibiricum 255-15] Length = 239 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 60/233 (25%), Positives = 113/233 (48%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K+++ G SR+EV++++ ++V+G ++ +V + + G P+ ++ Sbjct: 1 MRLDKLLSNMGAGSRKEVKQLLKSGAIQVDGEIVYDPKQHVDTENQQVLLYGEPVTY-QK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ D TV D L + + VGRLD +TEGLLLLTNDG Sbjct: 60 FIYLMMNKPPGVISATEDKRD-QTVIDLLFDDVTYFKPFPVGRLDKDTEGLLLLTNDGSF 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P +VY G + ++ + + +G+ + G ++ + + + Sbjct: 119 NHALMSPKKHVEKVYYAEVIGTLTEEDVEEVAEGVTLEDGYKTKPGKLIILEATDETSTL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EGK ++K++ +V L R+S G L TL AG RE+++ L Sbjct: 179 ELTITEGKFHQVKRMMLALGKEVTYLKRLSIGQLPLDPTLEAGEYRELTRGEL 231 >gi|315223635|ref|ZP_07865489.1| ribosomal large subunit pseudouridine synthase B [Capnocytophaga ochracea F0287] gi|314946416|gb|EFS98411.1| ribosomal large subunit pseudouridine synthase B [Capnocytophaga ochracea F0287] Length = 387 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 73/243 (30%), Positives = 123/243 (50%), Gaps = 5/243 (2%) Query: 2 KDKNIVQENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + I TP R++K IA AGI SRR + I+ V VNG ++ V TD Sbjct: 140 NNAPIDYPTTTPAEVRLNKFIADAGICSRRNADMYISAGNVMVNGEVMTTLGYRVKPTDE 199 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINT 118 + DG L +E+ L +KP G +TT +D GR TV D + + + R++ VGRLD T Sbjct: 200 VRFDGKLLS-SEKKEYILLNKPKGFITTTNDEKGRKTVMDLVANATNVRILPVGRLDRAT 258 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLLLTNDG L + L P+ ++Y V ++D ++ G+ ++ +++ Sbjct: 259 TGLLLLTNDGELTKKLTHPTHGVRKIYHVILDRKLDYKDFMKVQDGLELEDGLIEVDEIS 318 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 K N + + + G+NR ++++FE ++V +L R+ + L G R +++ Sbjct: 319 YVNNKPKN-EIGIKIHSGRNRIVRRIFEHLGYQVEKLDRVVFAGLTKKDLPRGHWRRLTQ 377 Query: 239 KIL 241 + + Sbjct: 378 QEV 380 >gi|254432567|ref|ZP_05046270.1| RNA pseudouridine synthase family protein [Cyanobium sp. PCC 7001] gi|197627020|gb|EDY39579.1| RNA pseudouridine synthase family protein [Cyanobium sp. PCC 7001] Length = 242 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 78/242 (32%), Positives = 117/242 (48%), Gaps = 3/242 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 QR+ K+IA AG+ SRR E ++ Q R++VNG D I VDG PL + Sbjct: 1 MASQRLQKLIAAAGVCSRRHAEELLRQGRIQVNGAAARLGDSADPDRDSIAVDGRPLDRP 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTND 127 R L L +KP+G++ + SDP GR TV D LP + + +GRLD ++ G LLLTN Sbjct: 61 ARPVLLLLNKPLGVLCSCSDPQGRPTVLDLLPPELRQGQGLHPIGRLDADSRGALLLTNQ 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P ++YRV G L G+ + G+ + V + + Sbjct: 121 GDLTLRLTHPRYGHRKLYRVWVSGTPSATTLERWAAGVPLDGVASQPVDVRVLQRGKRGT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + + EG+NR+I++ V L R+ GP +LG+L G R + + + P Sbjct: 181 RLELAMGEGRNRQIRRTAALLGHPVLDLQRVGIGPLRLGSLAEGCWRALDHQEWQALADP 240 Query: 248 HL 249 L Sbjct: 241 PL 242 >gi|225572683|ref|ZP_03781438.1| hypothetical protein RUMHYD_00872 [Blautia hydrogenotrophica DSM 10507] gi|225039919|gb|EEG50165.1| hypothetical protein RUMHYD_00872 [Blautia hydrogenotrophica DSM 10507] Length = 262 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 73/235 (31%), Positives = 117/235 (49%), Gaps = 8/235 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K ++ AG+ SRRE + +I Q RV V+G V I VD +R+ Sbjct: 2 SMEKIRLNKYLSDAGVCSRREADSLILQGRVTVDGRKAVT-GEKVSVDQQIRVDNREIRQ 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L L +KP G++ T + F N P RV VGRLD++++GL+LLTN G Sbjct: 61 GQPKVLLLLNKPRGIICTAKNQKDNIVDFVNYPI---RVYPVGRLDVDSQGLILLTNQGE 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y+V V ++ L+ + KG+ I G Q+ +K Sbjct: 118 LVNKIMRAGNYHEKEYQVTVDHPVTKEFLSKMAKGVPILGTVTRPCQIKRTGEKS----F 173 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+++ E+F ++V RL R +LG L G+ REV+ + RE Sbjct: 174 QIILTQGLNRQIRRMCEYFGYRVVRLNRTRIMNLKLGKLPVGAYREVTSEEWREL 228 >gi|110800779|ref|YP_697003.1| RNA pseudouridine synthase family protein [Clostridium perfringens ATCC 13124] gi|168213224|ref|ZP_02638849.1| RNA pseudouridine synthase family protein [Clostridium perfringens CPE str. F4969] gi|110675426|gb|ABG84413.1| RNA pseudouridine synthase family protein [Clostridium perfringens ATCC 13124] gi|170715223|gb|EDT27405.1| RNA pseudouridine synthase family protein [Clostridium perfringens CPE str. F4969] Length = 298 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 68/261 (26%), Positives = 128/261 (49%), Gaps = 12/261 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + +KN +++ R++K I+ G SRRE +++I Q RVK++G+ + V + Sbjct: 50 VSNKNEIRDKV---RLNKYISETGFCSRREADKLIEQGRVKIDGLKATT-GMKVSKGQSV 105 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +DG PL+ +KP+G+ T ++ + + D + + R+ +GRLD +++G Sbjct: 106 SIDGKPLKVENELVYIALNKPVGITCT-TESKIKGNIVDFI-NHEKRIFPIGRLDKDSQG 163 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+ +TNDG + + + Y V + + + + + G+ I G V + Sbjct: 164 LIFMTNDGDIVNKILRAGNNHEKEYIVTVNKSITDEFIKGMSNGVPILGTVTKKCLVKKE 223 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + L +G NR+I+++ E+F ++V +L RI LG L GS R ++KK Sbjct: 224 SKNS----FRIILTQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKIGSWRYLTKKE 279 Query: 241 LREQLGPHLLEEAQVNLDAPI 261 L E L E + +A I Sbjct: 280 LAEI--NRLTENSSKTEEASI 298 >gi|206576006|ref|YP_002238999.1| ribosomal large subunit pseudouridine synthase B [Klebsiella pneumoniae 342] gi|288935908|ref|YP_003439967.1| pseudouridine synthase [Klebsiella variicola At-22] gi|290512947|ref|ZP_06552311.1| 23S rRNA pseudouridylate synthase B [Klebsiella sp. 1_1_55] gi|206565064|gb|ACI06840.1| ribosomal large subunit pseudouridine synthase B [Klebsiella pneumoniae 342] gi|288890617|gb|ADC58935.1| pseudouridine synthase [Klebsiella variicola At-22] gi|289774560|gb|EFD82564.1| 23S rRNA pseudouridylate synthase B [Klebsiella sp. 1_1_55] Length = 300 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 101/297 (34%), Positives = 148/297 (49%), Gaps = 10/297 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E I RV V+G + V ++ I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEAKIEAGRVSVDGKIATLGDRVEIVPGLKIRIDGHLISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD DKL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDDKLRQLSRGVQLEDGPAAFKTIKFTGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILLPKGLPRGGYTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 E + ++V ++ + R R NS++++ + Sbjct: 242 ELVELTPETSSKVAVEKDRRRMKANQIRRAVKRHSQTSANPRQGNNSNRRSSTRNKT 298 >gi|227550282|ref|ZP_03980331.1| pseudouridylate synthase [Enterococcus faecium TX1330] gi|257889008|ref|ZP_05668661.1| pseudouridine synthase [Enterococcus faecium 1,141,733] gi|257897603|ref|ZP_05677256.1| pseudouridine synthase [Enterococcus faecium Com12] gi|227180583|gb|EEI61555.1| pseudouridylate synthase [Enterococcus faecium TX1330] gi|257825071|gb|EEV51994.1| pseudouridine synthase [Enterococcus faecium 1,141,733] gi|257834168|gb|EEV60589.1| pseudouridine synthase [Enterococcus faecium Com12] Length = 255 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 69/237 (29%), Positives = 116/237 (48%), Gaps = 9/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ SR+EV+ +I + ++VNG +++ V D + G + + Sbjct: 17 MRLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKTQVNEFEDTVTYLGEIIAYQKD 76 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L HKP G+++ D + TV D L R + VGRLD +TEGLL+LTNDG Sbjct: 77 FYYIL-HKPAGVISATQD-NHDQTVIDLLKDQDYREDLFPVGRLDKDTEGLLILTNDGIF 134 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLD--TQKGSNA 187 A L P + Y G + ++ + L +G++I G ++ +D Q+ + Sbjct: 135 AHQLLSPKKHVEKEYLAEVSGIMTEEDIRLFAEGLIIDGDEQTLPAKLQIDQVDQESETS 194 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + L EGK ++K++ + +V L RI G F L L G R ++K+ L + Sbjct: 195 IIRLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGNFWLPKDLNKGQYRPMTKEELEQ 251 >gi|33152184|ref|NP_873537.1| pseudouridine synthase [Haemophilus ducreyi 35000HP] gi|33148406|gb|AAP95926.1| probable pseudouridine synthase [Haemophilus ducreyi 35000HP] Length = 354 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 106/280 (37%), Positives = 153/280 (54%), Gaps = 12/280 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 + +++ K++ARAG SRRE+E +IA RV V+G + V+V +T I +DG Sbjct: 69 KTKIVGEKLQKILARAGQGSRRELEEVIAAGRVSVDGKIASLGDRVHVNATTKIRIDGTL 128 Query: 67 LR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGL 121 + + E R+ +Y+KP G + T +DP+GR+TVFD LP SR I+VGRLDINT GL Sbjct: 129 INLVTAQKEICRVLMYYKPEGELCTRADPEGRATVFDRLPRLSGSRWIAVGRLDINTSGL 188 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR GQVD L L+KG+ ++ Q+ Sbjct: 189 LLFTTDGDLANRLMHPSHEVEREYSVRVFGQVDDAMLQRLRKGVQLEDGPANFKQIKAVG 248 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 249 GTGLNQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKGLPRGGWEEMGLEQ 308 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 LR+ +G L E + +D T +R + + Sbjct: 309 VNYLRDLVG--LPAETETKVDVTKNRRRTNIRQIRKAVKQ 346 >gi|304396082|ref|ZP_07377964.1| pseudouridine synthase [Pantoea sp. aB] gi|304356451|gb|EFM20816.1| pseudouridine synthase [Pantoea sp. aB] Length = 296 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 108/305 (35%), Positives = 153/305 (50%), Gaps = 20/305 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E MIA RV V+G + V S+ I +DG + A Sbjct: 2 SEKLQKVLARAGHGSRREIESMIAAGRVSVDGKIAT-LGDRVESSKSLKIRIDGHLVSIA 60 Query: 71 ERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLT 125 E R+ Y+KP G + T SDP+GR TVFD LP SR I+VGRLD+NT GL+L T Sbjct: 61 ESATEVCRVLAYYKPEGELCTRSDPEGRPTVFDRLPRLRGSRWIAVGRLDVNTCGLMLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQVD DK+ L KG+ ++ + +G Sbjct: 121 TDGELANRLMHPSREVEREYAVRVFGQVDDDKIRQLSKGVQLEDGPAAFKTLKFGGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W V L EG+NRE+++++E +V+RL+R+ YG L L G E+ Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLMRVRYGDITLPKGLPRGGWTELD------- 233 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 L V LD + + +DR + R K ++ + + + P Sbjct: 234 LPAVNYLRNLVELDDETVTKLVVEKDRRRTKAN---QIRRAVKRHTKVSSTPRAPRRN-P 289 Query: 305 VHRRN 309 +RN Sbjct: 290 GSKRN 294 >gi|307243938|ref|ZP_07526063.1| pseudouridylate synthase [Peptostreptococcus stomatis DSM 17678] gi|306492760|gb|EFM64788.1| pseudouridylate synthase [Peptostreptococcus stomatis DSM 17678] Length = 243 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 71/232 (30%), Positives = 117/232 (50%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR-KAE 71 R++K IA AGIASRR+ E ++++ R+KVNG ++ V D +E DG + +E Sbjct: 1 MRINKYIASAGIASRRKAENLVSEGRIKVNGQIIYDLGYQVNEDKDIVEYDGKKIDINSE 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L +KP G +T+ D GR V D + I R+ VGRLD T GLLL+TNDG L Sbjct: 61 KLVYILLNKPEGYITSSKDQFGRKDVMDLVTDIKERIYPVGRLDYETSGLLLMTNDGDLT 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWV 189 + P + + Y G ++L + G+ I+ ++ + K + + Sbjct: 121 YKITHPKHEITKTYIASVKGIPTSEELERFENGLEIEDYVTSKAKIRVLKTDVKKNYSVC 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + EG+NR+++K+F N V L R++ G + + G R ++ + Sbjct: 181 RVSIHEGRNRQVRKMFNAINHPVMNLKRVALGKISVNNVEVGKYRHLTDDEV 232 >gi|229198700|ref|ZP_04325399.1| RNA pseudouridine synthase [Bacillus cereus m1293] gi|228584776|gb|EEK42895.1| RNA pseudouridine synthase [Bacillus cereus m1293] Length = 229 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + ++G + K E+ Sbjct: 1 MKINQYISEANSCSRRETDRLIKAGRVAINGEICTHGAI-VSDDDVVTINGRVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAD-HIEDNIIDYI-NYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|78066108|ref|YP_368877.1| ribosomal large subunit pseudouridine synthase B [Burkholderia sp. 383] gi|77966853|gb|ABB08233.1| ribosomal large subunit pseudouridine synthase B [Burkholderia sp. 383] Length = 588 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 92/289 (31%), Positives = 148/289 (51%), Gaps = 7/289 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 175 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 233 Query: 63 DGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINT 118 +G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NT Sbjct: 234 NGKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNT 293 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 294 EGLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLHGVELDDGPANFLRIR 353 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 354 DGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 413 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 +R+ + L +A + R +P+ + R Sbjct: 414 DTQVRKLMATVGL-KAPSEEKGKRGGTGQAERRQPDPMQTSMGFIGREP 461 >gi|295135656|ref|YP_003586332.1| ribosomal large subunit pseudouridine synthase F [Zunongwangia profunda SM-A87] gi|294983671|gb|ADF54136.1| ribosomal large subunit pseudouridine synthase F [Zunongwangia profunda SM-A87] Length = 278 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 69/287 (24%), Positives = 130/287 (45%), Gaps = 12/287 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + +EN T R++K ++ AG SRR +++I Q RV +NG ++ + D ++VDG Sbjct: 1 MAEENLT--RINKFLSEAGYCSRRAADKLIDQGRVTING-VVPEMGTKIAPGDEVKVDGE 57 Query: 66 PLRKAERT---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + E+ ++KPIG+V T ++ + D + + R+ +GRLD +EGL+ Sbjct: 58 LIATEEKEKPNVYIAFNKPIGIVCTTDTKREKNNIIDYI-NYPERIFPIGRLDKPSEGLI 116 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LT+DG + + + Y V+ + + D + + KGI I + V + Sbjct: 117 FLTSDGDIVNKILRARNNHEKEYIVKVNKPLQPDFVKKMSKGIPILDTVTRECFV----E 172 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + L +G NR+I+++ E+ + V +L RI L + G R ++K L+ Sbjct: 173 QTGENEFRIILTQGLNRQIRRMCEYLGYAVTKLKRIRIMNVPL-DIPVGKWRHLTKAELK 231 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNS 289 E +++ + I + P+ R +K S Sbjct: 232 EIDRLVNTSSKTEEASQLSENNDNKIAKPKGIKPKNPNKHKRPRKKS 278 >gi|30062791|ref|NP_836962.1| 23S rRNA pseudouridylate synthase B [Shigella flexneri 2a str. 2457T] gi|110805271|ref|YP_688791.1| 23S rRNA pseudouridylate synthase B [Shigella flexneri 5 str. 8401] gi|34098404|sp|P59815|RLUB_SHIFL RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|30041039|gb|AAP16769.1| hypothetical protein S1356 [Shigella flexneri 2a str. 2457T] gi|110614819|gb|ABF03486.1| conserved hypothetical protein [Shigella flexneri 5 str. 8401] gi|281600690|gb|ADA73674.1| Ribosomal large subunit pseudouridine synthase B [Shigella flexneri 2002017] gi|313649457|gb|EFS13888.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri 2a str. 2457T] gi|332757920|gb|EGJ88247.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri 4343-70] gi|332759264|gb|EGJ89572.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri 2747-71] gi|332760363|gb|EGJ90653.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri K-671] gi|332767503|gb|EGJ97697.1| 23S rRNA pseudouridine synthase [Shigella flexneri 2930-71] gi|333005742|gb|EGK25260.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri K-218] gi|333019134|gb|EGK38424.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri K-304] Length = 290 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 106/300 (35%), Positives = 148/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + +DR + + R K SQ +G + Sbjct: 242 EL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVSGSRRSGGRN 288 >gi|88802487|ref|ZP_01118014.1| putative pseudouridine synthase [Polaribacter irgensii 23-P] gi|88781345|gb|EAR12523.1| putative pseudouridine synthase [Polaribacter irgensii 23-P] Length = 296 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 71/288 (24%), Positives = 135/288 (46%), Gaps = 11/288 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K I+ +G+ SRRE E+ I + R+ +NG + V D ++ DG + T Sbjct: 11 LNKYISSSGVCSRREAEKFIKEGRITINGK-ATQLGNRVGKKDVVKFDGRLVEPKNVTLY 69 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +KP+G+V+T + + + V + R+ +GRLD +EGL+ LTNDG + + Sbjct: 70 IALNKPVGIVSTTDEREPHNIVK--HVNYPERLFPIGRLDKPSEGLIFLTNDGDIVNKIL 127 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 + Y V + D + + GI I G +V +K S+ + L + Sbjct: 128 RAGNNHEKEYFVSVDKSITNDFITSMGNGIPILGTMTKRCKV----EKVSDKIFKIVLTQ 183 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQV 255 G NR+I+++ E+ +++V +L R LG L +G RE++++ +++ + + ++ Sbjct: 184 GLNRQIRRMCEYLDYEVTKLKRTRIMNVDLGYLQSGDWRELTEEEMKD-INKMIATSSKT 242 Query: 256 NLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + I R + N + P KK++S + K K+ T Sbjct: 243 EEASSIEEKPKQARPKRN---KAPTKNDFNKKSASFRKSSPKSKRSNT 287 >gi|239947675|ref|ZP_04699428.1| pseudouridine synthase, Rsu [Rickettsia endosymbiont of Ixodes scapularis] gi|239921951|gb|EER21975.1| pseudouridine synthase, Rsu [Rickettsia endosymbiont of Ixodes scapularis] Length = 229 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 113/229 (49%), Positives = 157/229 (68%), Gaps = 2/229 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+I+ AGI SRR+ E++IA+ +VKV+GI + A NV ++ IEV G+ + +++ R Sbjct: 3 RLAKIISNAGICSRRDAEKLIAEGQVKVDGITILSPATNVDISNQIEVSGILINQSQTPR 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW+Y+KP+GL+TTH DP R TVF+ P+ RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 63 LWIYYKPVGLITTHKDPLSRKTVFEQ-PTGLPRVISIGRLDLNSEGLLLLTNSGDLARQF 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPS++ RVY VR +G+ L K + I GI Y + L Q SN+W V L Sbjct: 122 ELPSSRLKRVYHVRAYGK-SDILLKSNYKNLEIDGIFYNPHSIKLLKQNKSNSWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 EGKNREI+++FE+F KVN+LIRI YG F +G L G +E++ KIL + Sbjct: 181 EGKNREIRRIFEYFGLKVNKLIRIQYGSFTIGNLKPGDYKEINNKILEK 229 >gi|300778899|ref|ZP_07088757.1| ribosomal large subunit pseudouridine synthase F [Chryseobacterium gleum ATCC 35910] gi|300504409|gb|EFK35549.1| ribosomal large subunit pseudouridine synthase F [Chryseobacterium gleum ATCC 35910] Length = 240 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 64/249 (25%), Positives = 119/249 (47%), Gaps = 10/249 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-K 69 R++K ++ G SRR ++++ + R+K+NG + V D +EVDG P+R Sbjct: 1 MEKTRINKYLSEVGYCSRRAADKLLEEGRIKINGKIP-ELGTKVSDEDLVEVDGKPIREP 59 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ +++KP+G+V T ++ + D + + R+ +GRLD +EGL+LLT+DG Sbjct: 60 QEKPVYIVFNKPVGIVCTTDTKREKNNIVDYI-NHPKRIFPIGRLDKPSEGLILLTSDGD 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y VR + L ++ G+ I +V +K Sbjct: 119 IVNKILRARNNHEKEYLVRVDKPITPKFLEKMRNGVPILDTITRKCKV----EKIDEMNF 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+ ++V +L RI +L L G R+++ L L Sbjct: 175 RIILTQGLNRQIRRMCEYLGYEVKKLKRIRIMNIKL-DLPVGKWRDLTDDELNTL--NAL 231 Query: 250 LEEAQVNLD 258 L ++ D Sbjct: 232 LADSSKTFD 240 >gi|218231008|ref|YP_002369348.1| RNA pseudouridine synthase family protein [Bacillus cereus B4264] gi|218158965|gb|ACK58957.1| RNA pseudouridine synthase family protein [Bacillus cereus B4264] Length = 229 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 65/234 (27%), Positives = 115/234 (49%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAD-HIEDNIIDYI-NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + +G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSRGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|291297121|ref|YP_003508519.1| RNA-binding S4 domain-containing protein [Meiothermus ruber DSM 1279] gi|290472080|gb|ADD29499.1| RNA-binding S4 domain protein [Meiothermus ruber DSM 1279] Length = 295 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 81/296 (27%), Positives = 139/296 (46%), Gaps = 10/296 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ + +ARAGIASRR+ E +I RV +N + V D + +DG +R Sbjct: 1 MVGMRLQQFLARAGIASRRKAEDLIRAGRVTIN-EQVASIGAVVQPGDIVRLDGERVRMP 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ + HKP G TTH D V++ +P + +VGRLD +TEGLLLLTNDG L Sbjct: 60 QKKVVIALHKPKGYTTTHEDEHAEKIVYELVPKH-PGLHAVGRLDKDTEGLLLLTNDGHL 118 Query: 131 ARVLELPSTQWLRVYRVRFH-GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + L P Q ++YR G+V + L +G+V+ ++ + V Sbjct: 119 TQHLTHPRNQVPKLYRAWCKNGRVSEKACQQLVQGVVLGDGLAQALEA-----HPTRNGV 173 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L EG+ RE++++ + V RL+R++ GP +LG L AG R ++ ++ Sbjct: 174 KLVLTEGRKREVRRMLNKVGYPVERLVRLAVGPIELGELEAGEWRYLTPDEIKLLYTSAQ 233 Query: 250 L--EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 L + Q P ++T R + + + + + ++ + + +Q Sbjct: 234 LPRPKTQAQKPTPTPKAKTGTRPQKSTVESSSERLSTRQRQGTNRGSTDRQAHTRA 289 >gi|329962610|ref|ZP_08300558.1| pseudouridylate synthase [Bacteroides fluxus YIT 12057] gi|328529641|gb|EGF56539.1| pseudouridylate synthase [Bacteroides fluxus YIT 12057] Length = 234 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 70/227 (30%), Positives = 108/227 (47%), Gaps = 5/227 (2%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLW 76 +K +A AG+ SRRE + I V VNG ++ + D ++ + ER Sbjct: 2 NKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEVKFHDQAVS-IERKIYV 60 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L +KP VTT DP R TV D + R+ VGRLD NT G+LLLTNDG LA L Sbjct: 61 LLNKPKDTVTTSDDPQARRTVMDLVKGACSERIYPVGRLDRNTTGVLLLTNDGDLASKLT 120 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVGLR 194 P ++Y V + + + + GI + G + D D K + V + + Sbjct: 121 HPKYLKKKIYHVHLDKNLTKADMEQIAAGIQLDDGEIHADAISYTDDFKKDD--VGIEIH 178 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 GKNR ++++FE +KV +L R+ + L G R ++++ + Sbjct: 179 SGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQEV 225 >gi|49478685|ref|YP_038599.1| pseudouridylate synthase [Bacillus thuringiensis serovar konkukian str. 97-27] gi|228935861|ref|ZP_04098671.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|49330241|gb|AAT60887.1| pseudouridylate synthase [Bacillus thuringiensis serovar konkukian str. 97-27] gi|228823629|gb|EEM69451.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] Length = 229 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 66/235 (28%), Positives = 115/235 (48%), Gaps = 10/235 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIA 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V +N + G+ I+ +VT + + + Sbjct: 117 NQILHGDHEHEKEYVVTVDKPFTDWFMNEMSSGVKIKDGMTKPCKVT----RVDQSTFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 173 VLTQGMNRQIRRMSRAFGFTVIKLKRERIMNIELNDLEVGKWRDITTEELELLIG 227 >gi|313207477|ref|YP_004046654.1| ribosomal large subunit pseudouridine synthase f [Riemerella anatipestifer DSM 15868] gi|312446793|gb|ADQ83148.1| ribosomal large subunit pseudouridine synthase F [Riemerella anatipestifer DSM 15868] gi|315023377|gb|EFT36387.1| pseudouridine synthase, Rsu [Riemerella anatipestifer RA-YM] gi|325335063|gb|ADZ11337.1| 16S rRNA uridine-516 pseudouridylate synthase related pseudouridylate synthase [Riemerella anatipestifer RA-GD] Length = 241 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 63/248 (25%), Positives = 118/248 (47%), Gaps = 10/248 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RKA 70 R++K ++ G SRRE ++++ Q R+ +NG + V + D I+VDG + Sbjct: 3 EKVRINKYLSEVGFCSRREADKILEQGRITINGKIP-ELGTKVSAEDEIKVDGKLITEPK 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E ++KP+G+V T ++ + D + R+ +GRLD +EGL+LLT+DG + Sbjct: 62 EENVYIAFNKPVGIVCTTDTKREKNNIIDYI-KYPKRIFPIGRLDKPSEGLILLTSDGDI 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y VR + L ++ G+ I G +V ++ Sbjct: 121 VNKILRARNNHEKEYIVRVDKPITNKFLEQMRAGVPILGTVTRKCEV----EQLDKMQFR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E+ ++V +L RI L L G RE++ ++ HL+ Sbjct: 177 IVLTQGLNRQIRRMCEYLGYEVKKLKRIRIMNIHL-DLPIGKWRELTPNEMKTL--NHLI 233 Query: 251 EEAQVNLD 258 +++ D Sbjct: 234 KDSAKTYD 241 >gi|78184950|ref|YP_377385.1| pseudouridine synthase, Rsu [Synechococcus sp. CC9902] gi|78169244|gb|ABB26341.1| ribosomal large subunit pseudouridine synthase B [Synechococcus sp. CC9902] Length = 247 Score = 263 bits (672), Expect = 4e-68, Method: Composition-based stats. Identities = 77/236 (32%), Positives = 120/236 (50%), Gaps = 1/236 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T QR+ K++A AG+ SRR E + RV V+G + ++ IEVDGVPL Sbjct: 1 MTRQRLQKLMAAAGLCSRRRGEDWLQAGRVTVDGRVASLGDQADPNSQLIEVDGVPLISV 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGG 129 + R++L +KP+G++ + DP GR+TV D LP + VGRLD ++ G LLLT+ G Sbjct: 61 QEPRVFLLNKPVGVICSCRDPQGRATVLDCLPHQERSGLHPVGRLDADSRGALLLTDQGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + YRV G L + G+++ G +V +G+++ + Sbjct: 121 LTLRLTHPRYNHAKTYRVLVRGIPSSQALRRWRDGLLLDGRLTRPARVHCLRSRGASSLL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 V L+EG+NR+I++V E V L R++ +L L G R + + L Sbjct: 181 EVELKEGRNRQIRRVAELLGHPVIDLQRVAIDGIRLDDLAEGCWRRLDAREWSTIL 236 >gi|228910375|ref|ZP_04074190.1| RNA pseudouridine synthase [Bacillus thuringiensis IBL 200] gi|228849141|gb|EEM93980.1| RNA pseudouridine synthase [Bacillus thuringiensis IBL 200] Length = 229 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 63/229 (27%), Positives = 111/229 (48%), Gaps = 8/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDRVTIDGQVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAADHIEN-NIIDYI-NYPERIFPVGRLDKASEGLILLTNDGTIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RIDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTSEEL 222 >gi|300704339|ref|YP_003745942.1| ribosomal large subunit pseudouridine synthase b [Ralstonia solanacearum CFBP2957] gi|299072003|emb|CBJ43333.1| Ribosomal large subunit pseudouridine synthase B [Ralstonia solanacearum CFBP2957] Length = 597 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 101/316 (31%), Positives = 162/316 (51%), Gaps = 12/316 (3%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG+ ++ TD + Sbjct: 203 KVRELTAEDDAP-KLHKILADAGLGSRRDMEDLIMQGRVSVNGLPA-HIGQRILPTDQVR 260 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDIN 117 V+G +++ + R+ LYHKP G + + SDP+GR TVFD+LP + + + ++VGRLD N Sbjct: 261 VNGKLIQRKLPNKAPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFN 320 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L +G+ + ++ Sbjct: 321 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAESDRQKLLQGVRLDDGEANFLRC 380 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 381 ADGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 440 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRD----RPNIISEVPDDFTRMKKNSSQK 292 S + +R +G L+ ++ +P ++ + FT S+ Sbjct: 441 SAEEVRVLMGSLGLKVPSASVGGGQGGGRQQGGRRREAQPMLMGPMSSGFTGEATFQSRG 500 Query: 293 NGLSKQKKLATPVHRR 308 G+ + A P RR Sbjct: 501 QGVENGNR-ALPAARR 515 >gi|290475293|ref|YP_003468181.1| Ribosomal large subunit pseudouridine synthase B [Xenorhabdus bovienii SS-2004] gi|289174614|emb|CBJ81408.1| Ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Xenorhabdus bovienii SS-2004] Length = 317 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 110/320 (34%), Positives = 157/320 (49%), Gaps = 24/320 (7%) Query: 1 MKDK-NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTD 58 M DK Q+ +++ K++ARAG SRRE+E I + R+ ++G + V + Sbjct: 1 MSDKTQKTQKTERTEKLQKILARAGHGSRREIEGYIQEGRISIDGKTATLGDRIEVKPSI 60 Query: 59 HIEVDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGR 113 I +DG L E R+ Y+KP G + T DP+GR TVFD LP + +R I+VGR Sbjct: 61 KIRLDGRILSIKEPQKTICRVLAYYKPEGELCTRHDPEGRPTVFDRLPKMQDARWIAVGR 120 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LDINT GLLL T DG LA L PS + R Y VR G+VD KL L +G+ ++ Sbjct: 121 LDINTCGLLLFTTDGELANRLMHPSREVEREYAVRVFGEVDNAKLRQLTQGVQLEDGPAS 180 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGS 232 V+ +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G Sbjct: 181 FKTVSFKGGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIDLPKGLPRGG 240 Query: 233 TREVSKK---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNS 289 E+ + LR+ V+L+ S + RD+ I + R K Sbjct: 241 WTELGLEQTNYLRQL----------VDLNEETMSKVAVERDQRRIKAN---QIRRAVKRH 287 Query: 290 SQKNGLSKQKKLATPVHRRN 309 SQ K R+N Sbjct: 288 SQVGSSRPAGKRPASSSRQN 307 >gi|312796184|ref|YP_004029106.1| ribosomal large subunit pseudouridine synthase B [Burkholderia rhizoxinica HKI 454] gi|312167959|emb|CBW74962.1| Ribosomal large subunit pseudouridine synthase B (EC 4.2.1.70) [Burkholderia rhizoxinica HKI 454] Length = 563 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 90/272 (33%), Positives = 141/272 (51%), Gaps = 6/272 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K + + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 185 KRALSADDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 243 Query: 64 GVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P++ + R+ +YHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 244 GKPVKRKLPNKPPRVLIYHKPAGEIVSHADPEGRPSVFDKLPPMKTAKWLAVGRLDFNTE 303 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLT G LA P Q R Y VR G++ + L G+ + +++ Sbjct: 304 GLLLLTTSGDLANRFMHPRYQVEREYAVRVIGELAESARQKLLNGVELDDGPASFLRIQD 363 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 364 GGGEGTNRWYHVALAEGRNREVRRMFEAVGLTVSRLIRTRHGPIVLPRGLKRGRWEELED 423 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRD 270 +R + L+ + ++ D Sbjct: 424 NQVRALMSAVGLKGPGEDKAERSKATPRRQPD 455 >gi|229175424|ref|ZP_04302937.1| Pseudouridine synthase [Bacillus cereus MM3] gi|228608032|gb|EEK65341.1| Pseudouridine synthase [Bacillus cereus MM3] Length = 242 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 112/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LL+TNDG L Sbjct: 60 FIYLMLHKPQGVISATED-DNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 + L P + Y G V ++ + KG+++ G +T+ + + Sbjct: 119 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTILKSDEI-SEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE+S + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELSDEEVE 231 >gi|292488789|ref|YP_003531676.1| putative 16S pseudouridylate 516 synthase [Erwinia amylovora CFBP1430] gi|292899940|ref|YP_003539309.1| ribosomal small subunit pseudouridine synthase A [Erwinia amylovora ATCC 49946] gi|291199788|emb|CBJ46909.1| ribosomal small subunit pseudouridine synthase A [Erwinia amylovora ATCC 49946] gi|291554223|emb|CBA21490.1| putative 16S pseudouridylate 516 synthase [Erwinia amylovora CFBP1430] gi|312172942|emb|CBX81197.1| putative 16S pseudouridylate 516 synthase [Erwinia amylovora ATCC BAA-2158] Length = 234 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 54/229 (23%), Positives = 100/229 (43%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I+R SR R + ++V V+G ++ + + + + DG L + Sbjct: 1 MRLDKFISRQLEVSRAIAARELRARKVTVDGEVVREGSYQLSADSTVAYDGKVLEQQLGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP+G V + DPD + ++ R+ + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPVGYVCSTDDPDHPTILYFLEEPGAFRLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + L + V + + Sbjct: 121 ITSPRHHCEKTYLVTLESAISDDTAQQFADGVQLHNEKTLTKPAMLAV--IAPNLVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G +L L G R +S + + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVALHRERIGAIRLDSDLQPGEYRPLSAEEI 227 >gi|226199665|ref|ZP_03795218.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei Pakistan 9] gi|225928251|gb|EEH24285.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei Pakistan 9] Length = 554 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 92/288 (31%), Positives = 146/288 (50%), Gaps = 8/288 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 173 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 231 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 232 GKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTE 291 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 292 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQRLLHGVELDDGPANFLRIRD 351 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 352 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 411 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 +R + L+ D R +P+ + R Sbjct: 412 AQVRRLMSTVGLKA--PTEDKGGKRGGPAERRQPDPMQTSMGFINREP 457 >gi|121600285|ref|YP_992840.1| RNA pseudouridine synthase family protein [Burkholderia mallei SAVP1] gi|124385307|ref|YP_001026183.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10229] gi|126448664|ref|YP_001080547.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10247] gi|167004349|ref|ZP_02270107.1| RNA pseudouridine synthase family protein [Burkholderia mallei PRL-20] gi|238562585|ref|ZP_00440124.2| RNA pseudouridine synthase family protein [Burkholderia mallei GB8 horse 4] gi|254177730|ref|ZP_04884385.1| RNA pseudouridine synthase family protein [Burkholderia mallei ATCC 10399] gi|254199711|ref|ZP_04906077.1| RNA pseudouridine synthase family protein [Burkholderia mallei FMH] gi|254358407|ref|ZP_04974680.1| RNA pseudouridine synthase family protein [Burkholderia mallei 2002721280] gi|121229095|gb|ABM51613.1| RNA pseudouridine synthase family protein [Burkholderia mallei SAVP1] gi|124293327|gb|ABN02596.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10229] gi|126241534|gb|ABO04627.1| RNA pseudouridine synthase family protein [Burkholderia mallei NCTC 10247] gi|147749307|gb|EDK56381.1| RNA pseudouridine synthase family protein [Burkholderia mallei FMH] gi|148027534|gb|EDK85555.1| RNA pseudouridine synthase family protein [Burkholderia mallei 2002721280] gi|160698769|gb|EDP88739.1| RNA pseudouridine synthase family protein [Burkholderia mallei ATCC 10399] gi|238522261|gb|EEP85706.1| RNA pseudouridine synthase family protein [Burkholderia mallei GB8 horse 4] gi|243060317|gb|EES42503.1| RNA pseudouridine synthase family protein [Burkholderia mallei PRL-20] Length = 554 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 92/288 (31%), Positives = 147/288 (51%), Gaps = 8/288 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 173 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 231 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 232 GKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTE 291 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 292 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRIRD 351 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 352 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 411 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 +R + L+ D + R +P+ + R Sbjct: 412 AQVRRLMSTVGLKA--PTEDKGGKRGGPVERRQPDPMQTSMGFINREP 457 >gi|315304474|ref|ZP_07874754.1| ribosomal small subunit pseudouridine synthase A [Listeria ivanovii FSL F6-596] gi|313627161|gb|EFR96014.1| ribosomal small subunit pseudouridine synthase A [Listeria ivanovii FSL F6-596] Length = 233 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 70/233 (30%), Positives = 110/233 (47%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K+++ G SRREV+ ++ V VNG + + + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGYGSRREVKPLLKSGSVTVNGTIQKDSKLQVNPEKDQITVHGNPVVYQE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG L Sbjct: 60 FVYFMLHKPQNVVSATED-NLSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y + G V + + GI + G + + T + + Sbjct: 119 AHNLLSPKKHIDKTYYAKIEGNVTVADIEAFQTGITLDDGYTCKPAHLEIITP----SEI 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V ++EGK ++K++F V L RIS G +L L G R ++ + L Sbjct: 175 NVTIQEGKFHQVKRMFAATGKTVTYLKRISMGKLKLDEALRLGEYRSLTDEEL 227 >gi|49187441|ref|YP_030693.1| RNA pseudouridylate synthase [Bacillus anthracis str. Sterne] gi|65321917|ref|ZP_00394876.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Bacillus anthracis str. A2012] gi|165871506|ref|ZP_02216153.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0488] gi|167641580|ref|ZP_02399827.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0193] gi|170708716|ref|ZP_02899154.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0389] gi|177653142|ref|ZP_02935429.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0174] gi|190566866|ref|ZP_03019782.1| RNA pseudouridine synthase family protein [Bacillus anthracis Tsiankovskii-I] gi|227817333|ref|YP_002817342.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. CDC 684] gi|229602926|ref|YP_002868829.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0248] gi|254736656|ref|ZP_05194362.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Western North America USA6153] gi|254754709|ref|ZP_05206744.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Vollum] gi|254757541|ref|ZP_05209568.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Australia 94] gi|270000607|ref|YP_003329046.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Ames] gi|291612223|ref|YP_003541037.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. 'Ames Ancestor'] gi|49181368|gb|AAT56744.1| RNA pseudouridylate synthase [Bacillus anthracis str. Sterne] gi|164712803|gb|EDR18333.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0488] gi|167510465|gb|EDR85864.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0193] gi|170126396|gb|EDS95285.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0389] gi|172081666|gb|EDT66737.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0174] gi|190561857|gb|EDV15826.1| RNA pseudouridine synthase family protein [Bacillus anthracis Tsiankovskii-I] gi|224552862|gb|ACN55071.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. 'Ames Ancestor'] gi|227003424|gb|ACP13167.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. CDC 684] gi|229267334|gb|ACQ48971.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0248] gi|269850265|gb|ACZ49990.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Ames] Length = 229 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 66/235 (28%), Positives = 115/235 (48%), Gaps = 10/235 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEANSCSRRETDRLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIA 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V +N + G+ I+ +VT + + + Sbjct: 117 NQILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGITKPCKVT----RVDKSTCRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 173 VLTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|327330001|gb|EGE71755.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes HL097PA1] Length = 245 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 88/239 (36%), Positives = 128/239 (53%), Gaps = 4/239 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 N R+ KV+A+AG+ASRR E MIA RV+VNG L+ V D I VDG + Sbjct: 3 NEQGIRLQKVLAQAGLASRRAAEDMIAAGRVEVNGELIVDQGRRVDPERDEIRVDGSRIP 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDN--LPSIFSRVISVGRLDINTEGLLLLTN 126 A R ++ +KP G+V+T DP+GR + D +P R+ VGRLD T GL+LLTN Sbjct: 63 TARRHVYYVLNKPQGVVSTMDDPEGRPCLSDLEGVPRGI-RLFHVGRLDTETSGLILLTN 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + PS + L+ Y G+VD ++ L KG+ ++ V L + Sbjct: 122 DGEFANRMTHPSYKVLKTYLADVEGRVDDKVIHRLSKGLTLEDGPVKPDAVRLVQAGEEH 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + V V L EG+NR ++++ + V RL R + GP +L L G RE++ + L + L Sbjct: 182 SLVEVSLHEGRNRIVRRIMDSVAHPVRRLSRTAIGPVRLKRLGRGDMRELTHEELGQLL 240 >gi|296102094|ref|YP_003612240.1| 23S rRNA pseudouridylate synthase B [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295056553|gb|ADF61291.1| 23S rRNA pseudouridylate synthase B [Enterobacter cloacae subsp. cloacae ATCC 13047] Length = 291 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 107/301 (35%), Positives = 153/301 (50%), Gaps = 25/301 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V ++ I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEAIIEAGRVSVDGKIATLGDRVEIVPGLKIRIDGHLISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD++KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDENKLRDLSRGVQLEDGPAAFKTIKFTGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILLPKGLPRGGYTELDLTQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLV-RDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 E +G AP +S+ V +DR + + R K SQ N + Sbjct: 242 ELVGL-----------APETTSKVAVEKDRRRMKAN---QIRRAVKRHSQVNNNRRAGSR 287 Query: 302 A 302 Sbjct: 288 N 288 >gi|16129230|ref|NP_415785.1| 23S rRNA pseudouridylate synthase [Escherichia coli str. K-12 substr. MG1655] gi|89108115|ref|AP_001895.1| 23S rRNA pseudouridylate synthase [Escherichia coli str. K-12 substr. W3110] gi|157160774|ref|YP_001458092.1| 23S rRNA pseudouridylate synthase B [Escherichia coli HS] gi|170020367|ref|YP_001725321.1| 23S rRNA pseudouridylate synthase B [Escherichia coli ATCC 8739] gi|170080946|ref|YP_001730266.1| 23S rRNA pseudouridylate synthase [Escherichia coli str. K-12 substr. DH10B] gi|170682451|ref|YP_001743918.1| 23S rRNA pseudouridylate synthase B [Escherichia coli SMS-3-5] gi|188492201|ref|ZP_02999471.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 53638] gi|194435058|ref|ZP_03067297.1| ribosomal large subunit pseudouridine synthase B [Shigella dysenteriae 1012] gi|218699976|ref|YP_002407605.1| 23S rRNA pseudouridylate synthase B [Escherichia coli IAI39] gi|238900502|ref|YP_002926298.1| 23S rRNA pseudouridylate synthase [Escherichia coli BW2952] gi|253773734|ref|YP_003036565.1| 23S rRNA pseudouridylate synthase B [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254161349|ref|YP_003044457.1| 23S rRNA pseudouridylate synthase B [Escherichia coli B str. REL606] gi|256023023|ref|ZP_05436888.1| 23S rRNA pseudouridylate synthase B [Escherichia sp. 4_1_40B] gi|300927775|ref|ZP_07143339.1| conserved hypothetical protein [Escherichia coli MS 187-1] gi|300940072|ref|ZP_07154682.1| conserved hypothetical protein [Escherichia coli MS 21-1] gi|300951921|ref|ZP_07165725.1| conserved hypothetical protein [Escherichia coli MS 116-1] gi|300955866|ref|ZP_07168205.1| hypothetical protein HMPREF9547_01723 [Escherichia coli MS 175-1] gi|301019493|ref|ZP_07183662.1| conserved hypothetical protein [Escherichia coli MS 69-1] gi|301022795|ref|ZP_07186637.1| conserved hypothetical protein [Escherichia coli MS 196-1] gi|301647237|ref|ZP_07247056.1| conserved hypothetical protein [Escherichia coli MS 146-1] gi|307137906|ref|ZP_07497262.1| 23S rRNA pseudouridylate synthase B [Escherichia coli H736] gi|312971458|ref|ZP_07785633.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 1827-70] gi|331641827|ref|ZP_08342962.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli H736] gi|331652309|ref|ZP_08353328.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli M718] gi|1175678|sp|P37765|RLUB_ECOLI RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|1742064|dbj|BAA14806.1| 23S rRNA pseudouridylate synthase [Escherichia coli str. K12 substr. W3110] gi|1787524|gb|AAC74351.1| 23S rRNA pseudouridylate synthase [Escherichia coli str. K-12 substr. MG1655] gi|157066454|gb|ABV05709.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli HS] gi|169755295|gb|ACA77994.1| pseudouridine synthase [Escherichia coli ATCC 8739] gi|169888781|gb|ACB02488.1| 23S rRNA pseudouridylate synthase [Escherichia coli str. K-12 substr. DH10B] gi|170520169|gb|ACB18347.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli SMS-3-5] gi|188487400|gb|EDU62503.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 53638] gi|194416715|gb|EDX32845.1| ribosomal large subunit pseudouridine synthase B [Shigella dysenteriae 1012] gi|218369962|emb|CAR17736.1| 23S rRNA pseudouridylate synthase [Escherichia coli IAI39] gi|238859761|gb|ACR61759.1| 23S rRNA pseudouridylate synthase [Escherichia coli BW2952] gi|242377048|emb|CAQ31772.1| 23S rRNA pseudouridine 2605 synthase [Escherichia coli BL21(DE3)] gi|253324778|gb|ACT29380.1| pseudouridine synthase [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|253973250|gb|ACT38921.1| 23S rRNA pseudouridylate synthase [Escherichia coli B str. REL606] gi|253977464|gb|ACT43134.1| 23S rRNA pseudouridylate synthase [Escherichia coli BL21(DE3)] gi|260449601|gb|ACX40023.1| pseudouridine synthase [Escherichia coli DH1] gi|299881096|gb|EFI89307.1| conserved hypothetical protein [Escherichia coli MS 196-1] gi|300317268|gb|EFJ67052.1| hypothetical protein HMPREF9547_01723 [Escherichia coli MS 175-1] gi|300399234|gb|EFJ82772.1| conserved hypothetical protein [Escherichia coli MS 69-1] gi|300448865|gb|EFK12485.1| conserved hypothetical protein [Escherichia coli MS 116-1] gi|300455107|gb|EFK18600.1| conserved hypothetical protein [Escherichia coli MS 21-1] gi|300464168|gb|EFK27661.1| conserved hypothetical protein [Escherichia coli MS 187-1] gi|301074599|gb|EFK89405.1| conserved hypothetical protein [Escherichia coli MS 146-1] gi|309701567|emb|CBJ00874.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli ETEC H10407] gi|310336055|gb|EFQ01255.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 1827-70] gi|315135905|dbj|BAJ43064.1| 23S rRNA pseudouridylate synthase B [Escherichia coli DH1] gi|315297258|gb|EFU56538.1| conserved hypothetical protein [Escherichia coli MS 16-3] gi|315619347|gb|EFU99891.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 3431] gi|320181709|gb|EFW56620.1| 23S rRNA pseudouridylate synthase B [Shigella boydii ATCC 9905] gi|320195718|gb|EFW70343.1| 23S rRNA pseudouridylate synthase B [Escherichia coli WV_060327] gi|323937590|gb|EGB33858.1| RNA pseudouridylate synthase [Escherichia coli E1520] gi|323942383|gb|EGB38553.1| RNA pseudouridylate synthase [Escherichia coli E482] gi|323962569|gb|EGB58149.1| RNA pseudouridylate synthase [Escherichia coli H489] gi|323973491|gb|EGB68677.1| RNA pseudouridylate synthase [Escherichia coli TA007] gi|331038625|gb|EGI10845.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli H736] gi|331050587|gb|EGI22645.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli M718] gi|332091659|gb|EGI96739.1| ribosomal large subunit pseudouridine synthase B [Shigella boydii 5216-82] gi|332097910|gb|EGJ02883.1| ribosomal large subunit pseudouridine synthase B [Shigella dysenteriae 155-74] gi|332342861|gb|AEE56195.1| 23S rRNA pseudouridylate synthase RluB [Escherichia coli UMNK88] Length = 291 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 106/300 (35%), Positives = 148/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + +DR + + R K SQ +G + Sbjct: 242 EL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVSGGRRSGGRN 288 >gi|306830208|ref|ZP_07463392.1| ribosomal small subunit pseudouridine synthase A [Streptococcus mitis ATCC 6249] gi|304427734|gb|EFM30830.1| ribosomal small subunit pseudouridine synthase A [Streptococcus mitis ATCC 6249] Length = 240 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 72/239 (30%), Positives = 114/239 (47%), Gaps = 8/239 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEERDQIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D R TV D L V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPQGVISATEDNKHR-TVLDLLDDYARAKEVFPVGRLDIDTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A L P + Y + G + Q+ ++ KGI ++ ++ L + + + + Sbjct: 119 AHALLSPKRHVDKTYLAQVEGIMSQEDVDTFAKGIPLKDFTCQPAKLELVSVDPEKNQSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 V V + EGK ++K++ + +V L R++ G L L G R ++K+ L L Sbjct: 179 VRVTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTLALDENLERGEWRRLTKEELEVLLA 237 >gi|229032362|ref|ZP_04188334.1| Pseudouridine synthase [Bacillus cereus AH1271] gi|228728970|gb|EEL79974.1| Pseudouridine synthase [Bacillus cereus AH1271] Length = 242 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 112/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LL+TNDG L Sbjct: 60 FVYLMMHKPQGVISATED-DNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 + L P + Y G V ++ + KG+++ G +T+ + + Sbjct: 119 SHQLLSPKKHVPKKYYAHIAGVVTEEDVKEFAKGVILDDGYETKPGALTILKSDEI-SEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE+S + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDAELELGEYRELSDEEVE 231 >gi|152969819|ref|YP_001334928.1| 23S rRNA pseudouridylate synthase B [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|238894324|ref|YP_002919058.1| 23S rRNA pseudouridylate synthase B [Klebsiella pneumoniae NTUH-K2044] gi|262043008|ref|ZP_06016151.1| ribosomal large subunit pseudouridine synthase B [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|150954668|gb|ABR76698.1| pseudouridine synthase [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|238546640|dbj|BAH62991.1| pseudouridine synthase [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] gi|259039610|gb|EEW40738.1| ribosomal large subunit pseudouridine synthase B [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] Length = 300 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 101/297 (34%), Positives = 148/297 (49%), Gaps = 10/297 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E I RV V+G + V ++ I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEAKIEAGRVSVDGKIATLGDRVEIVPGLKIRIDGHLISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD DKL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDDKLRQLSRGVQLEDGPAAFKTIKFTGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILLPKGLPRGGYTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 E + ++V ++ + R R NS++++ + Sbjct: 242 ELVELTPETSSKVAVEKDRRRLKANQIRRAVKRHSQTSANPRQGNNSNRRSSTRNKT 298 >gi|205374450|ref|ZP_03227246.1| pseudouridylate synthase (ribosomal small subunit pseudouridine synthase A) [Bacillus coahuilensis m4-4] Length = 236 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 68/236 (28%), Positives = 111/236 (47%), Gaps = 8/236 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A G SR+EV+ ++ V VNG + +V + D + V G + E Sbjct: 1 MRIDKLLANMGYGSRKEVKSLLKSGNVVVNGTGCKDGKQHVNPSQDEVFVHGEKVVYRE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 L +KP G+++ D TV D L VGRLD +TEGLL++TNDG L Sbjct: 60 FIYLLMNKPQGVISATEDLRD-ETVIDLLEPDHRVFNPFPVGRLDKDTEGLLIITNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 + L P + Y G V ++ + +G+ + G + + + G + + Sbjct: 119 SHQLLSPKKHVPKTYYAEVKGVVTEEDVAAFSEGVTLDDGYHTKPGDLVILS-SGEMSEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + + EGK ++K++FE KV L RI GP L L G RE+S++ + + Sbjct: 178 ELTITEGKFHQVKRMFESVGKKVVYLQRIKMGPILLDENLELGEYRELSQEEIDQL 233 >gi|183601655|ref|ZP_02963025.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium animalis subsp. lactis HN019] gi|219683811|ref|YP_002470194.1| pseudouridine synthase [Bifidobacterium animalis subsp. lactis AD011] gi|241190846|ref|YP_002968240.1| 16S rRNA uridine-516 pseudo uridylate synthase [Bifidobacterium animalis subsp. lactis Bl-04] gi|241196252|ref|YP_002969807.1| 16S rRNA uridine-516 pseudo uridylate synthase [Bifidobacterium animalis subsp. lactis DSM 10140] gi|183219261|gb|EDT89902.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium animalis subsp. lactis HN019] gi|219621461|gb|ACL29618.1| pseudouridine synthase [Bifidobacterium animalis subsp. lactis AD011] gi|240249238|gb|ACS46178.1| 16S rRNA uridine-516 pseudo uridylate synthase [Bifidobacterium animalis subsp. lactis Bl-04] gi|240250806|gb|ACS47745.1| 16S rRNA uridine-516 pseudo uridylate synthase [Bifidobacterium animalis subsp. lactis DSM 10140] gi|295793835|gb|ADG33370.1| 16S rRNA uridine-516 pseudo uridylate synthase [Bifidobacterium animalis subsp. lactis V9] Length = 257 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 70/239 (29%), Positives = 119/239 (49%), Gaps = 2/239 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 + + R+ K++A+AG SRR+ E MI RV+V+G L+ V + VDG Sbjct: 13 ENDGDGIRLQKLLAQAGFGSRRKCEEMITDGRVEVDGELVTELGTRVDPKRQQVRVDGSR 72 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R R +KP +++T DP GR T+ D + + R+ +GRLD ++EGL+L+TN Sbjct: 73 IRLNPRHITLALNKPRKVLSTMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTN 132 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 DG L++ + P + + Y G + L + G+ + ++ Sbjct: 133 DGELSQHVMHPKYEVEKTYIATLEGHMSGTVCRRLVRTGVQLDDGWIKLDHCSIIDSNRD 192 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L G+NR ++++F + V RL+R GP +LG + +GS R +S+ +R Sbjct: 193 QTIVKVVLHSGRNRIVRRIFGAIGFPVKRLVRTQIGPIKLGDIKSGSYRVLSQDEVRAL 251 >gi|163786127|ref|ZP_02180575.1| pseudouridine synthase, Rsu [Flavobacteriales bacterium ALC-1] gi|159877987|gb|EDP72043.1| pseudouridine synthase, Rsu [Flavobacteriales bacterium ALC-1] Length = 255 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 68/264 (25%), Positives = 130/264 (49%), Gaps = 10/264 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + +N T R++K ++ AG SRRE +R+I RV +N ++ V S D ++VDG Sbjct: 1 MSDNLT--RLNKYLSEAGYCSRREADRLIDAGRVTIND-VVPEMGTKVASGDIVKVDGEI 57 Query: 67 L-RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + + + ++KP+G+V T + + D + + R+ +GRLD +EGL+LLT Sbjct: 58 IGERKQGFVYLAFNKPVGIVCTTDTRVEKDNIIDYI-NYPKRIFPIGRLDKPSEGLILLT 116 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG + + S + Y V + Q + + GI I+ G + +K Sbjct: 117 DDGDIVNKILRASNNHEKEYIVTVDKPISQTFVARMAGGIYIE--ELGKRTKKCEVKKID 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 ++ L +G NR+I+++ E+ N++V L R+ +L + G RE++K+ + Sbjct: 175 KFTFSIILTQGLNRQIRRMCEYLNYEVQTLKRVRIMNIKL-DMPLGKYRELTKEEFKTL- 232 Query: 246 GPHLLEEAQVNLDAPIYSSETLVR 269 +L+ E++ +A ++ R Sbjct: 233 -SNLISESKKTFEAKQHTPRRNRR 255 >gi|65322075|ref|ZP_00395034.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Bacillus anthracis str. A2012] gi|118479842|ref|YP_896993.1| ribosomal small subunit pseudouridine synthase A [Bacillus thuringiensis str. Al Hakam] gi|118419067|gb|ABK87486.1| ribosomal small subunit pseudouridine synthase A [Bacillus thuringiensis str. Al Hakam] Length = 245 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 69/237 (29%), Positives = 114/237 (48%), Gaps = 8/237 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRK 69 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + G + Sbjct: 1 MKNVRLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEY 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTND 127 E + HKP G+++ D D TV D L VGRLDI+TEG LL+TND Sbjct: 61 KE-FVYLMMHKPQGVISATED-DNHETVIDLLELEDAIFNPFPVGRLDIDTEGFLLITND 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSN 186 G L+ L P + Y G V ++ + KG+++ G +T+ + Sbjct: 119 GKLSHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDI 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 178 SEIELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 234 >gi|311032169|ref|ZP_07710259.1| pseudouridine synthase F (ribosomal large subunit) [Bacillus sp. m3-13] Length = 235 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 67/241 (27%), Positives = 120/241 (49%), Gaps = 7/241 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ +G+ASRR +++I + +VK+NG + + V D + V+G +R A Sbjct: 1 MRINKFISDSGVASRRGADKLIEEGKVKINGKVAQIGG-QVNPGDEVLVNGQIIRIARDN 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KPIG+ +T ++ + + D + R+ +GRLD +EGL+LLTNDG + Sbjct: 60 VYIALNKPIGITST-TEKKVKGNIIDLVNHPL-RLSHIGRLDKESEGLILLTNDGDIINE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y V + D + + +G+ I G +V ++ S + L Sbjct: 118 ILRPENKHEKEYIVSVDKPITPDFVKQMSEGVKILGTKTLPCEV----EQLSKFDFKIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +G NR+I+++ ++V RL R +LG L G R++SKK R+ E Sbjct: 174 TQGLNRQIRRMCAELGYEVLRLQRTRIMNIELGNLPMGQWRDLSKKEKRQLFAELNYEPK 233 Query: 254 Q 254 + Sbjct: 234 E 234 >gi|315103786|gb|EFT75762.1| conserved hypothetical protein [Propionibacterium acnes HL050PA2] Length = 245 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 88/239 (36%), Positives = 128/239 (53%), Gaps = 4/239 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 N R+ KV+A+AG+ASRR E MIA RV+VNG L+ V D I VDG + Sbjct: 3 NEQGIRLQKVLAQAGLASRRAAEDMIAAGRVEVNGELIVEQGRRVDPERDEIRVDGSRIP 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDN--LPSIFSRVISVGRLDINTEGLLLLTN 126 A R ++ +KP G+V+T DP+GR + D +P R+ VGRLD T GL+LLTN Sbjct: 63 TARRHVYYVLNKPQGVVSTMDDPEGRPCLSDLEGVPRGI-RLFHVGRLDTETSGLILLTN 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + PS + L+ Y G+VD ++ L KG+ ++ V L + Sbjct: 122 DGEFANRMTHPSYKVLKTYLADVEGRVDDKVIHRLSKGLTLEDGPVKPDAVRLVQASEEH 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + V V L EG+NR ++++ + V RL R + GP +L L G RE++ + L + L Sbjct: 182 SLVEVSLHEGRNRIVRRIMDSVAHPVRRLSRTAIGPVRLKRLGRGDMRELTHEELGQLL 240 >gi|270295727|ref|ZP_06201927.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D20] gi|317479868|ref|ZP_07938986.1| S4 domain-containing protein [Bacteroides sp. 4_1_36] gi|270273131|gb|EFA18993.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D20] gi|316903977|gb|EFV25813.1| S4 domain-containing protein [Bacteroides sp. 4_1_36] Length = 494 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 73/243 (30%), Positives = 115/243 (47%), Gaps = 5/243 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + D + Sbjct: 246 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEV 305 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + + ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 306 KFHDQTVS-IERKIYVLLNKPKDTVTTSDDPQARRTVMDLVKGACDERIYPVGRLDRNTT 364 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVT 178 G+LLLTNDG LA L P ++Y V + + + + GI + G + D Sbjct: 365 GVLLLTNDGDLASKLTHPKYLKKKIYHVHLDKNLTKADMEQIAAGIQLDDGEIHADAISY 424 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 D K + V + + GKNR ++++FE +KV +L R+ + L G R +++ Sbjct: 425 TDDFKKDD--VGIEIHSGKNRIVRRIFESLGYKVMKLDRVYFAGLTKKGLRRGEWRYLTE 482 Query: 239 KIL 241 + + Sbjct: 483 QEV 485 >gi|126697974|ref|YP_001086871.1| putative RNA pseudouridine synthase [Clostridium difficile 630] gi|115249411|emb|CAJ67226.1| Ribosomal small subunit pseudouridine synthase A [Clostridium difficile] Length = 240 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 66/234 (28%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 QR+ K+++ G SR E+++ Q V VNG + V D I +G + E Sbjct: 5 QRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYRE- 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G ++ +D TV D + + VGRLD +TEGLL+LTNDG L Sbjct: 64 YIYLMMNKPDGYISATTD-KYDPTVLDLIDLSYLAFEPFPVGRLDKDTEGLLVLTNDGKL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSNAWV 189 + + P + Y + G V ++ + +G+V+ Y M L+ + + + Sbjct: 123 SHRVLSPKKHVPKTYYAKIDGVVTEEDVEAFLEGVVLDD-RYKTMPSQLNILKSDDESEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R+S G +L +L G RE++ + ++ Sbjct: 182 ELTIHEGKFHQVKRMFESVGKKVVYLKRLSMGNLKLDESLELGEYRELTDEEVK 235 >gi|67459255|ref|YP_246879.1| ribosomal large subunit pseudouridine synthase [Rickettsia felis URRWXCal2] gi|75536313|sp|Q4UL59|Y544_RICFE RecName: Full=Uncharacterized RNA pseudouridine synthase RF_0863; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|67004788|gb|AAY61714.1| Ribosomal large subunit pseudouridine synthase [Rickettsia felis URRWXCal2] Length = 229 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 112/230 (48%), Positives = 156/230 (67%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR++K+I+ AGI SRR+ E++I + +VKV+GI + A NV ++ IEV G+ + ++++ Sbjct: 2 QRLAKIISNAGICSRRDAEKLILEGQVKVDGITILSPATNVDISNQIEVSGILINQSQKP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW+Y+KP+GL+TTH DP R TVF+ L RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 62 RLWIYYKPVGLITTHKDPLSRKTVFEQLTG-LPRVISIGRLDLNSEGLLLLTNSGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 ELPS + RVY VR +G+ L K + I GI Y + L Q SN+W V L Sbjct: 121 FELPSNRLKRVYHVRAYGK-SDILLKSDYKNLEIDGIFYNPHSIKLFKQNKSNSWFEVVL 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 EGKNREI+++FE+F KVN+LIRI YG F + L G+ +E++ KIL + Sbjct: 180 FEGKNREIRRIFEYFGLKVNKLIRIQYGSFTIDNLKPGAYKEINNKILEK 229 >gi|134095614|ref|YP_001100689.1| putative pseudouridine synthase (Uracil hydrolyase) [Herminiimonas arsenicoxydans] gi|133739517|emb|CAL62568.1| Pseudouridine synthase [Herminiimonas arsenicoxydans] Length = 538 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 100/353 (28%), Positives = 169/353 (47%), Gaps = 18/353 (5%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +++ ++ P ++ KV+A AG+ SRR++E +I RV VNG ++ D + + Sbjct: 167 RRDLTADDDAP-KLHKVLAEAGLGSRRDMEELIIAGRVSVNGEPA-HIGQRILPADQVRI 224 Query: 63 DGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINT 118 +G +++ + R+ +YHKP G + + +DP+GR +VF+ LP++ ++ ++VGRLD NT Sbjct: 225 NGKLIQRKVSNKPPRVLVYHKPAGEIVSTNDPEGRPSVFERLPTMKAAKWLAVGRLDFNT 284 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLLL T G LA L P R Y VR G++++ L G+ ++ ++ Sbjct: 285 EGLLLFTTSGDLANRLMHPRYGIDREYAVRTLGELEEGMRQKLLAGVELEDGLAQFSKIA 344 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 +G N W V + EG+NRE++++FE V+RLIR YG L L G E+ Sbjct: 345 DGGGEGVNKWYRVTIGEGRNREVRRMFEAIGLTVSRLIRTRYGTLTLPKNLKRGRWEEME 404 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + +R+ L LE+ V+ AP + R N V D+ + ++ SQ L Sbjct: 405 EHAVRDLLAMSGLEKKSVDG-APKGRNSPADRQNGNRAPRV-DNGMGLPRSPSQWGNLGG 462 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 Q + G ++ + + S FP RR+ Sbjct: 463 QGRPQG---------QNGKPAGGRQGQGQPRSRQPDPLQTSLGFPGMGQPRRS 506 >gi|332830420|gb|EGK03048.1| hypothetical protein HMPREF9455_01298 [Dysgonomonas gadei ATCC BAA-286] Length = 444 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 76/242 (31%), Positives = 121/242 (50%), Gaps = 4/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K + N TP R++K +A AG+ SRRE + I VKVNG ++++ V D + Sbjct: 197 VKYKENIDPN-TPLRLNKYLANAGVCSRREADAYITSGVVKVNGEVVDQLGAKVTRGDLV 255 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 P+R E L +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 256 TFQDKPVRL-ESKVYVLLNKPKNCVTTSDDPQNRLTVMDLVKNACPERIYPVGRLDRNTT 314 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P + ++Y+V V + + + G+ + + Sbjct: 315 GVLLLTNDGDLASKLMHPKFKKKKIYQVTLDRDVAIEDMQAIADGVELDDGEIHADSIAY 374 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + N V + + G+NR ++++FE ++V +L R+ + +L G R +S+K Sbjct: 375 QAEDVLN-VVGIEIHSGRNRIVRRIFEKLGYQVMKLDRVYFAGLTKKNVLRGKWRYLSEK 433 Query: 240 IL 241 + Sbjct: 434 EV 435 >gi|212715827|ref|ZP_03323955.1| hypothetical protein BIFCAT_00728 [Bifidobacterium catenulatum DSM 16992] gi|212661194|gb|EEB21769.1| hypothetical protein BIFCAT_00728 [Bifidobacterium catenulatum DSM 16992] Length = 257 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 69/237 (29%), Positives = 118/237 (49%), Gaps = 2/237 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 + R+ K++A+AG SRR+ E +I + RV+++G L+ V + VDG +R Sbjct: 15 DNEGIRLQKLLAQAGFGSRRKCEEIITEGRVEIDGELVTELGTRVDPKHQEVRVDGSRVR 74 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TNDG Sbjct: 75 VNPNHVTLALNKPKRVLSAMEDPKGRYTLSDIVGDKYDRIFHMGRLDYDSEGLILMTNDG 134 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNA 187 L++ + P + + Y G++ L G+ + + + N Sbjct: 135 ELSQHVMHPKYEVEKTYIATLEGRISGQVCRRLVTTGVQLDDGWIKLDRCAILDASRDNT 194 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L GKNR ++++F + V RL+R GP +LG L +GS R +S+ +R Sbjct: 195 LVKVVLHSGKNRIVRRIFGSIGFPVRRLVRTQIGPIKLGDLKSGSYRVLSQTEVRSL 251 >gi|283832909|ref|ZP_06352650.1| ribosomal large subunit pseudouridine synthase B [Citrobacter youngae ATCC 29220] gi|291071514|gb|EFE09623.1| ribosomal large subunit pseudouridine synthase B [Citrobacter youngae ATCC 29220] Length = 291 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 105/300 (35%), Positives = 150/300 (50%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +IA RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIAAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRDARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E + ++V ++ +DR + + R K SQ G + + Sbjct: 242 ELVELKPETTSKVAVE----------KDRRRMKAN---QIRRAVKRHSQVGGSRRPGGRS 288 >gi|152987584|ref|YP_001347332.1| hypothetical protein PSPA7_1951 [Pseudomonas aeruginosa PA7] gi|150962742|gb|ABR84767.1| conserved hypothetical protein [Pseudomonas aeruginosa PA7] Length = 386 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 106/361 (29%), Positives = 172/361 (47%), Gaps = 14/361 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M D +++ KV+AR G+ SRR+VE IA+ RV VNG + V S D I Sbjct: 1 MNDTPENPHVPVGEKLQKVLARLGVGSRRDVEVWIAEGRVNVNGSVA-SLGQRVDSHDAI 59 Query: 61 EVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 VDG +R+ E R+ +Y+KP G V T DP+GR T+FD LP + + R I+VGRLD Sbjct: 60 TVDGHLIRREEAAENVRRVLIYNKPEGEVCTRDDPEGRPTIFDRLPRLRTGRWINVGRLD 119 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT GLLL T DG LA L PS + R Y VR G+V ++ + L G++++ Sbjct: 120 INTTGLLLFTTDGELANRLMHPSYEMDREYAVRVRGEVSEEMIERLLDGVMLEDGPAKFS 179 Query: 176 QV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ +GP L L G Sbjct: 180 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLTSELTMGRY 239 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 RE+ ++ L E++G + + A +E R + ++ K+ Sbjct: 240 REMDQREIDILSEEVGLKPVALPGMTTKA-REKAERQQRKQARPLARSERPEAGRKRAPR 298 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 +++G + ++ P R + + + + E++R+ + Sbjct: 299 REDGDNAGRRT--PASRSSRGPQPGAERKGREQGTPVAERPRESNRKPRPSKPRDERPAG 356 Query: 351 S 351 + Sbjct: 357 A 357 >gi|15801910|ref|NP_287930.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 EDL933] gi|15831095|ref|NP_309868.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. Sakai] gi|74312362|ref|YP_310781.1| 23S rRNA pseudouridylate synthase B [Shigella sonnei Ss046] gi|82544277|ref|YP_408224.1| 23S rRNA pseudouridylate synthase B [Shigella boydii Sb227] gi|157154729|ref|YP_001462565.1| 23S rRNA pseudouridylate synthase B [Escherichia coli E24377A] gi|168751157|ref|ZP_02776179.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4113] gi|168758353|ref|ZP_02783360.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4401] gi|168763584|ref|ZP_02788591.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4501] gi|168771267|ref|ZP_02796274.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4486] gi|168775077|ref|ZP_02800084.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4196] gi|168783771|ref|ZP_02808778.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4076] gi|168790068|ref|ZP_02815075.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC869] gi|168801615|ref|ZP_02826622.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC508] gi|191166646|ref|ZP_03028474.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli B7A] gi|193062722|ref|ZP_03043816.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli E22] gi|193069992|ref|ZP_03050940.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli E110019] gi|194426137|ref|ZP_03058693.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli B171] gi|195939202|ref|ZP_03084584.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. EC4024] gi|208810912|ref|ZP_03252745.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4206] gi|208815453|ref|ZP_03256632.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4045] gi|208820806|ref|ZP_03261126.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4042] gi|209396722|ref|YP_002270323.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4115] gi|209918508|ref|YP_002292592.1| 23S rRNA pseudouridylate synthase B [Escherichia coli SE11] gi|217329090|ref|ZP_03445170.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. TW14588] gi|254792857|ref|YP_003077694.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. TW14359] gi|256018485|ref|ZP_05432350.1| 23S rRNA pseudouridylate synthase B [Shigella sp. D9] gi|260843616|ref|YP_003221394.1| 23S rRNA pseudouridylate synthase RluB [Escherichia coli O103:H2 str. 12009] gi|260854966|ref|YP_003228857.1| 23S rRNA pseudouridylate synthase RluB [Escherichia coli O26:H11 str. 11368] gi|260867717|ref|YP_003234119.1| 23S rRNA pseudouridylate synthase RluB [Escherichia coli O111:H- str. 11128] gi|261224251|ref|ZP_05938532.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. FRIK2000] gi|261257493|ref|ZP_05950026.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. FRIK966] gi|291282356|ref|YP_003499174.1| Ribosomal large subunit pseudouridine synthase B [Escherichia coli O55:H7 str. CB9615] gi|300820147|ref|ZP_07100316.1| conserved hypothetical protein [Escherichia coli MS 107-1] gi|300822569|ref|ZP_07102708.1| conserved hypothetical protein [Escherichia coli MS 119-7] gi|300904135|ref|ZP_07122008.1| hypothetical protein HMPREF9536_02226 [Escherichia coli MS 84-1] gi|300919449|ref|ZP_07135950.1| conserved hypothetical protein [Escherichia coli MS 115-1] gi|301304781|ref|ZP_07210887.1| hypothetical protein HMPREF9347_03390 [Escherichia coli MS 124-1] gi|307309978|ref|ZP_07589628.1| pseudouridine synthase [Escherichia coli W] gi|309793259|ref|ZP_07687686.1| conserved hypothetical protein [Escherichia coli MS 145-7] gi|331667653|ref|ZP_08368517.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli TA271] gi|332279541|ref|ZP_08391954.1| ribosomal large subunit pseudouridine synthase B [Shigella sp. D9] gi|34098616|sp|Q8X4Q8|RLUB_ECO57 RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|12515528|gb|AAG56546.1|AE005380_5 orf, hypothetical protein [Escherichia coli O157:H7 str. EDL933] gi|13361306|dbj|BAB35264.1| hypothetical protein [Escherichia coli O157:H7 str. Sakai] gi|73855839|gb|AAZ88546.1| conserved hypothetical protein [Shigella sonnei Ss046] gi|81245688|gb|ABB66396.1| conserved hypothetical protein [Shigella boydii Sb227] gi|157076759|gb|ABV16467.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli E24377A] gi|187769333|gb|EDU33177.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4196] gi|188014796|gb|EDU52918.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4113] gi|188998981|gb|EDU67967.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4076] gi|189354811|gb|EDU73230.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4401] gi|189359963|gb|EDU78382.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4486] gi|189366282|gb|EDU84698.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4501] gi|189370413|gb|EDU88829.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC869] gi|189376287|gb|EDU94703.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC508] gi|190903295|gb|EDV63016.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli B7A] gi|192931844|gb|EDV84444.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli E22] gi|192956745|gb|EDV87200.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli E110019] gi|194416192|gb|EDX32458.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli B171] gi|208724418|gb|EDZ74126.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4206] gi|208732101|gb|EDZ80789.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4045] gi|208740929|gb|EDZ88611.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4042] gi|209158122|gb|ACI35555.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. EC4115] gi|209772018|gb|ACI84321.1| hypothetical protein ECs1841 [Escherichia coli] gi|209772020|gb|ACI84322.1| hypothetical protein ECs1841 [Escherichia coli] gi|209772022|gb|ACI84323.1| hypothetical protein ECs1841 [Escherichia coli] gi|209772024|gb|ACI84324.1| hypothetical protein ECs1841 [Escherichia coli] gi|209772026|gb|ACI84325.1| hypothetical protein ECs1841 [Escherichia coli] gi|209911767|dbj|BAG76841.1| putative pseudouridine synthase [Escherichia coli SE11] gi|217317529|gb|EEC25957.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli O157:H7 str. TW14588] gi|254592257|gb|ACT71618.1| 23S rRNA pseudouridylate synthase [Escherichia coli O157:H7 str. TW14359] gi|257753615|dbj|BAI25117.1| 23S rRNA pseudouridylate synthase RluB [Escherichia coli O26:H11 str. 11368] gi|257758763|dbj|BAI30260.1| 23S rRNA pseudouridylate synthase RluB [Escherichia coli O103:H2 str. 12009] gi|257764073|dbj|BAI35568.1| 23S rRNA pseudouridylate synthase RluB [Escherichia coli O111:H- str. 11128] gi|290762229|gb|ADD56190.1| Ribosomal large subunit pseudouridine synthase B [Escherichia coli O55:H7 str. CB9615] gi|300403900|gb|EFJ87438.1| hypothetical protein HMPREF9536_02226 [Escherichia coli MS 84-1] gi|300413471|gb|EFJ96781.1| conserved hypothetical protein [Escherichia coli MS 115-1] gi|300524985|gb|EFK46054.1| conserved hypothetical protein [Escherichia coli MS 119-7] gi|300527302|gb|EFK48364.1| conserved hypothetical protein [Escherichia coli MS 107-1] gi|300839902|gb|EFK67662.1| hypothetical protein HMPREF9347_03390 [Escherichia coli MS 124-1] gi|306909696|gb|EFN40190.1| pseudouridine synthase [Escherichia coli W] gi|308122846|gb|EFO60108.1| conserved hypothetical protein [Escherichia coli MS 145-7] gi|315060519|gb|ADT74846.1| 23S rRNA pseudouridylate synthase [Escherichia coli W] gi|315254773|gb|EFU34741.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli MS 85-1] gi|320176684|gb|EFW51722.1| 23S rRNA pseudouridylate synthase B [Shigella dysenteriae CDC 74-1112] gi|320187507|gb|EFW62193.1| 23S rRNA pseudouridylate synthase B [Shigella flexneri CDC 796-83] gi|320189980|gb|EFW64632.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. EC1212] gi|320199303|gb|EFW73894.1| 23S rRNA pseudouridylate synthase B [Escherichia coli EC4100B] gi|320637163|gb|EFX06989.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. G5101] gi|320642529|gb|EFX11777.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H- str. 493-89] gi|320647882|gb|EFX16590.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H- str. H 2687] gi|320653484|gb|EFX21589.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O55:H7 str. 3256-97 TW 07815] gi|320659184|gb|EFX26773.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O55:H7 str. USDA 5905] gi|323153300|gb|EFZ39558.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli EPECa14] gi|323162371|gb|EFZ48226.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli E128010] gi|323168243|gb|EFZ53928.1| ribosomal large subunit pseudouridine synthase B [Shigella sonnei 53G] gi|323172376|gb|EFZ58013.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli LT-68] gi|323179780|gb|EFZ65341.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 1180] gi|323185573|gb|EFZ70934.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 1357] gi|323378918|gb|ADX51186.1| pseudouridine synthase [Escherichia coli KO11] gi|326341071|gb|EGD64864.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. 1125] gi|326343312|gb|EGD67079.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. 1044] gi|331065238|gb|EGI37133.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli TA271] gi|332094735|gb|EGI99779.1| ribosomal large subunit pseudouridine synthase B [Shigella boydii 3594-74] gi|332101893|gb|EGJ05239.1| ribosomal large subunit pseudouridine synthase B [Shigella sp. D9] gi|333004583|gb|EGK24107.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri VA-6] gi|333007605|gb|EGK27083.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri K-272] gi|333019539|gb|EGK38819.1| ribosomal large subunit pseudouridine synthase B [Shigella flexneri K-227] Length = 290 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 106/300 (35%), Positives = 148/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + +DR + + R K SQ +G + Sbjct: 242 EL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVSGGRRSGGRN 288 >gi|299541884|ref|ZP_07052207.1| ribosomal large subunit pseudouridine synthase F [Lysinibacillus fusiformis ZC1] gi|298725622|gb|EFI66263.1| ribosomal large subunit pseudouridine synthase F [Lysinibacillus fusiformis ZC1] Length = 233 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 63/232 (27%), Positives = 111/232 (47%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ GI SRR ++ IA+ +V +NG + V + D + VDG ++K ++ Sbjct: 1 MRINKYLSETGIISRRGADKWIAEGKVTINGEVAT-VGSQVEAGDIVCVDGKEVKKEQQL 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ +T ++ + V D + R+ +GRLD +EGLLLLTNDG + Sbjct: 60 VYIALNKPVGITST-TERHIKGNVVDFVNHPL-RIFHIGRLDKESEGLLLLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V+ + + + G+ I V +K S + L Sbjct: 118 ILRAENHHEKEYIVQVDKPITAQFIQKMGAGVDILDTTTLPCHV----EKISEKVFKIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +G NR+I+++ + V RL RI +LG L G R++++K E Sbjct: 174 EQGLNRQIRRMCSALGYSVKRLQRIRIMNIKLGNLKVGQWRDLTEKERTELF 225 >gi|87303407|ref|ZP_01086195.1| Pseudouridine synthase, Rsu [Synechococcus sp. WH 5701] gi|87282055|gb|EAQ74017.1| Pseudouridine synthase, Rsu [Synechococcus sp. WH 5701] Length = 241 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 79/241 (32%), Positives = 123/241 (51%), Gaps = 3/241 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T QR+ K++A AG+ SRR E +I Q RV +NG + +S+D +E+DG P+ A Sbjct: 1 MTAQRLQKLLASAGLCSRRRAEELILQGRVTLNGAVARLGDQADLSSDRLELDGTPVAAA 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTND 127 T L +KP G++ + DP+GR+TV D LP S + VGRLD + G LLL+ND Sbjct: 61 APTITVLLNKPRGVICSCHDPEGRTTVLDLLPPELSEATGLHPVGRLDGASRGALLLSND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + YRV G+ + L ++G+ + G + V + Sbjct: 121 GALTLRLTHPRFGHRKHYRVWVTGEPAAEALEQWRRGVPLDGQPSQPVGVRELARGQRGT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + + EG+NR+I++ E V L R++ GP +LG L G R ++ + R+ Sbjct: 181 LLELEMVEGRNRQIRRTAELLGHPVRDLQRVAIGPLRLGELPEGRWRHLAPQEWRDLDAR 240 Query: 248 H 248 Sbjct: 241 R 241 >gi|602963|gb|AAB59990.1| ORF4 [Escherichia coli str. K-12 substr. W3110] Length = 243 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 96/242 (39%), Positives = 132/242 (54%), Gaps = 10/242 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQ 244 E Sbjct: 242 EL 243 >gi|257900337|ref|ZP_05679990.1| pseudouridine synthase [Enterococcus faecium Com15] gi|257838249|gb|EEV63323.1| pseudouridine synthase [Enterococcus faecium Com15] Length = 255 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 69/237 (29%), Positives = 116/237 (48%), Gaps = 9/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ SR+EV+ +I + ++VNG +++ V D + G + + Sbjct: 17 MRLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKAQVNEFEDTVTYLGEIIAYQKD 76 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L HKP G+++ D + TV D L R + VGRLD +TEGLL+LTNDG Sbjct: 77 FYYIL-HKPAGVISATQD-NHDQTVIDLLEDQDYREDLFPVGRLDKDTEGLLILTNDGVF 134 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLD--TQKGSNA 187 A L P + Y G + ++ + L +G++I G ++ +D Q+ + Sbjct: 135 AHQLLSPKKHVEKEYLAEVSGIMTEEDIRLFAEGLIIDGDEQTLPAKLQIDQVDQESETS 194 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + L EGK ++K++ + +V L RI G F L L G R ++K+ L + Sbjct: 195 IIRLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGNFCLPKDLNRGQYRPMTKEELEQ 251 >gi|164687721|ref|ZP_02211749.1| hypothetical protein CLOBAR_01363 [Clostridium bartlettii DSM 16795] gi|164603495|gb|EDQ96960.1| hypothetical protein CLOBAR_01363 [Clostridium bartlettii DSM 16795] Length = 258 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 110/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 QR+ K+++ G SR E+++ VKVNG ++ V V D I DG + E Sbjct: 22 QRIDKILSNLGYGSRSELKKFCKNGLVKVNGKVINNPGVQVDVENDEIIFDGEKVTYKE- 80 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G ++ D V D + VGRLD +TEGLL+LTNDG L Sbjct: 81 FIYLMLNKPDGYISATFDKRD-PIVLDLIDKEDLVFEPFPVGRLDKDTEGLLVLTNDGQL 139 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 A + P + Y + G V ++ + KG+ + Y M L K + + Sbjct: 140 AHRVLSPKKHVPKTYYAKIEGIVTEEDIKAFAKGVTLDDG-YETMPAELIILKSDEISEI 198 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE + KV L R+S G +L L G RE++ + ++ Sbjct: 199 ELTIHEGKFHQVKRMFESVDKKVIYLKRLSMGKLKLDENLALGEYRELTDEEVK 252 >gi|313617518|gb|EFR89863.1| RNA pseudouridine synthase family protein [Listeria innocua FSL S4-378] Length = 233 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 111/233 (47%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D + V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGTPVIYQE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG L Sbjct: 60 FVYFMLHKPQNVVSATED-NLSETVIDLLEQEDTLTNPFPVGRLDKDTEGLLIITNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y + G+V + + G+ + G + + T + Sbjct: 119 AHNLLSPKKHIDKTYYAKIDGEVTAEDVEAFSAGVTLDDGYTCKPAHLEIITPN----EI 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V ++EGK ++K++F V+ L RIS G QL +L G R +++ L Sbjct: 175 KVTIQEGKFHQVKRMFAARGKTVSYLKRISMGNLQLDESLELGEYRPLTENEL 227 >gi|170781661|ref|YP_001709993.1| putative RNA pseudouridine synthase [Clavibacter michiganensis subsp. sepedonicus] gi|169156229|emb|CAQ01371.1| putative RNA pseudouridine synthase [Clavibacter michiganensis subsp. sepedonicus] Length = 291 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 78/254 (30%), Positives = 122/254 (48%), Gaps = 1/254 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 E R+ KV+A AG+ASRR E MIA RV VNG + + D + VD Sbjct: 19 DEPVAGVRLQKVMAAAGVASRRVCEDMIAAGRVTVNGETVTEPGRRIDPDVDEVAVDDQA 78 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 ++ R + +KP+G+ ++ D GR + + R+ +VGRLD T GLL+LTN Sbjct: 79 VQLDTSKRYLMLNKPVGIYSSLRDERGRPDLREFTEEFEERLFNVGRLDAETSGLLILTN 138 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA VL PS L+ Y + G+V + L +G+ ++ + + + G Sbjct: 139 DGDLAHVLAHPSFGVLKTYIAKVTGRVTPQTIQRLTQGVDLEDGPIQADRARILSGGGDQ 198 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 V + L G+NR ++++ + V L+R +GP LG+L G R+++ L + L Sbjct: 199 TLVEITLHSGRNRIVRRMLDEVGHPVEELVRRQFGPLHLGSLGVGRVRDLTSDELGQLLT 258 Query: 247 PHLLEEAQVNLDAP 260 AQ P Sbjct: 259 ISREARAQAGPANP 272 >gi|52140956|ref|YP_085874.1| tRNA pseudouridine synthase A [Bacillus cereus E33L] gi|51974425|gb|AAU15975.1| tRNA pseudouridine synthase A [Bacillus cereus E33L] Length = 229 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 65/235 (27%), Positives = 115/235 (48%), Gaps = 10/235 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGKICTHGAL-VNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIA 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 117 NQILHGDHEHEKEYIVTVDKPFTDWFIDEMSGGVKIKDGMTKPCKVT----RVDQSTFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 173 VLTQGMNRQIRRMSRAFGFTVKKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|291524779|emb|CBK90366.1| ribosomal small subunit pseudouridine synthase A [Eubacterium rectale DSM 17629] Length = 240 Score = 262 bits (671), Expect = 5e-68, Method: Composition-based stats. Identities = 72/231 (31%), Positives = 126/231 (54%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K ++ G+ +R EV+++I ++ +NG + + V + D + V+G ++ +R Sbjct: 2 IRLDKFLSEMGLGTRSEVKKLIKTGQIAINGTVAAKPETKVDTDADEVSVNGRIVKY-QR 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L++KP G V+ SD + TV D + ++ + VGRLDI+TEGLLL+TNDG L+ Sbjct: 61 YEYYLFNKPSGCVSATSD-NVHDTVMDYITDAVHDDLFPVGRLDIDTEGLLLITNDGALS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L PS + Y R G+V D + K+GI I + ++ + + GS + + Sbjct: 120 HELLSPSKHVAKTYYARIDGEVTWDDIIRFKEGIDIGEERPTKPAELVI-KKSGSVSEIE 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 + + EGK ++K++FE +V L RIS GP +L L G+ R +++ Sbjct: 179 LTITEGKFHQVKRMFEALGKRVIYLKRISMGPLKLPDDLKTGTYRALTQAE 229 >gi|256850915|ref|ZP_05556304.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 27-2-CHN] gi|260661129|ref|ZP_05862043.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 115-3-CHN] gi|256615977|gb|EEU21165.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 27-2-CHN] gi|260548066|gb|EEX24042.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 115-3-CHN] Length = 234 Score = 262 bits (670), Expect = 5e-68, Method: Composition-based stats. Identities = 74/235 (31%), Positives = 117/235 (49%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I ++V VNG L+++A V TD ++V + E+ Sbjct: 1 MRIDKYLANMKVGSRKEVHDLIKAKKVTVNGQLVKQAKQQVADTDIVKVADETIAY-EQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G++T DP + TV D + + + VGRLD +T GLLLLTNDG L Sbjct: 60 YYFMLNKPAGVITATEDPQ-QKTVLDLIEHKDRYQGLSPVGRLDKDTTGLLLLTNDGQLN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V +V + + KG+ + G Q+ +D + Sbjct: 119 HNLLSPKKHVAKTYFVELDYEVSDELIVNFAKGVTLADGTKVSPSQLKIDKSNKKQGF-- 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + + EGK +IK++F F+ V RL RIS G L LL G R+++K + Sbjct: 177 ITIHEGKFHQIKRMFGLFDLGVVRLKRISMGNLSLDENLLLGKYRKLTKAEISAL 231 >gi|329851127|ref|ZP_08265884.1| S4 domain protein [Asticcacaulis biprosthecum C19] gi|328839973|gb|EGF89545.1| S4 domain protein [Asticcacaulis biprosthecum C19] Length = 760 Score = 262 bits (670), Expect = 6e-68, Method: Composition-based stats. Identities = 150/369 (40%), Positives = 197/369 (53%), Gaps = 29/369 (7%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K+ +R++KV+ARAG+ASRREVER+I ++ VNG +LE AV V S D I V+ Sbjct: 43 KDGKPPPKATERIAKVLARAGLASRREVERLIGLGKIAVNGRILETPAVLVSSADIITVE 102 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G + KAE TR+W YHKP+GL+TTHSDP GR T+FD LP+ RVISVGRLD+N+EGLLL Sbjct: 103 GQVIGKAEPTRVWRYHKPVGLITTHSDPQGRPTLFDQLPTHLPRVISVGRLDLNSEGLLL 162 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG LAR LE PS+ W+R YRVR G Q +L+ LK G ++G+ YG M+ T+D Sbjct: 163 LTNDGELARSLEKPSSGWVRRYRVRALGHASQSRLDALKDGTTVEGVIYGPMEATIDKVA 222 Query: 184 GS-----NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 N W+TV + EGKNRE++KV E KVNRLIR++YGPFQLG L G EV Sbjct: 223 EKADGRANVWLTVAITEGKNREVRKVLESIGLKVNRLIRLAYGPFQLGNLETGEVEEVGP 282 Query: 239 KILREQLGPHL------LEEAQVNLDAPI-----------YSSETLVRDRPNIISEVPDD 281 +++RE L + E A DAP + PD Sbjct: 283 RVIRELLADVVSLKNLPPEGASQTGDAPRERPARGDARGEGFGGRRGGGDRFDKGDRPDR 342 Query: 282 FTRMKKNSSQKNGLS----KQKKLATPVHRRNLASNVWMAKGIHSSFLSDS---GQREEN 334 R G K++ +R A+ ++ G+R+ Sbjct: 343 GDRTSSRPQNARGKPEFAEKREFKERDFDQRPRFEGDGEARDRKPERPFENRPFGERKSF 402 Query: 335 HRRSPSFPS 343 R P Sbjct: 403 GDRKPYGAR 411 >gi|218441222|ref|YP_002379551.1| pseudouridine synthase [Cyanothece sp. PCC 7424] gi|218173950|gb|ACK72683.1| pseudouridine synthase [Cyanothece sp. PCC 7424] Length = 259 Score = 262 bits (670), Expect = 6e-68, Method: Composition-based stats. Identities = 82/239 (34%), Positives = 126/239 (52%), Gaps = 10/239 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +RV K++++ GIASRR+ E++I RV++NG + +S D +EVDG ++ R Sbjct: 2 TERVQKILSQWGIASRRQAEKLILAGRVRLNGNIACLGDKADLSQDRLEVDGKIIQPVHR 61 Query: 73 TR--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTND 127 R L +KPIG+V+T DP R TV D LP S + VGRLDIN+ G LLLTND Sbjct: 62 PRSIYILLNKPIGVVSTCDDPQKRRTVLDLLPKKLSHETGIHPVGRLDINSTGALLLTND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + Y+V G ++ L ++G+++ G QV + + Sbjct: 122 GELTLRLTHPRYHLPKTYQVWIDGDPGEEILQQWREGVMLMGKKTLPAQVNVIKRYQHQT 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSKKIL 241 + V L EGKNR+I+++ + + V +L R + G QL +L +G R + + Sbjct: 182 QLQVILTEGKNRQIRRIVQQMGFNVLKLHRTAIGLIQLTPSNDPSLASGHYRFLKSVEI 240 >gi|315648476|ref|ZP_07901575.1| pseudouridine synthase [Paenibacillus vortex V453] gi|315276170|gb|EFU39516.1| pseudouridine synthase [Paenibacillus vortex V453] Length = 253 Score = 262 bits (670), Expect = 6e-68, Method: Composition-based stats. Identities = 76/240 (31%), Positives = 124/240 (51%), Gaps = 12/240 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 T QR+ KV++ G SR E+++M Q + VNG +++ +V TD IE +G ++ Sbjct: 7 TTQRLDKVLSNLGFGSRAELKKMAKQGSIVVNGTVMKDPGKHVDPYTDIIEFEGETIQYR 66 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDG 128 E + HKP G+V+ D R TV D L + VGRLD +TEGLLLLTNDG Sbjct: 67 E-YVYIMLHKPPGVVSATEDLRDR-TVLDLLDKDYLVFEPFPVGRLDKDTEGLLLLTNDG 124 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN- 186 LA L P + Y G+V ++ L G+ + G ++ + + + + Sbjct: 125 KLAHELLSPRKHIPKTYEAIVEGRVGEEDARLFAAGVTLDDGYATMPAELVIHSHEERDD 184 Query: 187 ----AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + +++ + EGK ++K++FE KV L R+S G +L +L G+ RE++++ L Sbjct: 185 GVILSRISLTIHEGKFHQVKRMFEAVGKKVVYLKRVSMGELRLDKSLEIGTYRELTEEEL 244 >gi|229105177|ref|ZP_04235826.1| RNA pseudouridine synthase [Bacillus cereus Rock3-28] gi|228678103|gb|EEL32331.1| RNA pseudouridine synthase [Bacillus cereus Rock3-28] Length = 229 Score = 262 bits (670), Expect = 6e-68, Method: Composition-based stats. Identities = 65/234 (27%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV ++G + A+ V D I +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAIDGEICTHGAL-VSDGDVITIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAD-HIEDNIIDYI-NYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT Q + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRVGQ----STFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELHELEVGKWRSVTAEELEILIG 227 >gi|168179079|ref|ZP_02613743.1| RNA pseudouridine synthase family protein [Clostridium botulinum NCTC 2916] gi|226950699|ref|YP_002805790.1| RNA pseudouridine synthase family protein [Clostridium botulinum A2 str. Kyoto] gi|182669965|gb|EDT81941.1| RNA pseudouridine synthase family protein [Clostridium botulinum NCTC 2916] gi|226843144|gb|ACO85810.1| RNA pseudouridine synthase family protein [Clostridium botulinum A2 str. Kyoto] Length = 238 Score = 262 bits (670), Expect = 6e-68, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 118/233 (50%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L ++ Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVY-KK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+V+ D + TV D L VGRLD NT GLLL TNDG L Sbjct: 61 YIYLMMNKPQGVVSATFD-NYDETVIDLLEDEDRIFEPFPVGRLDKNTVGLLLFTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P ++Y + + +V + + KKGI++ G ++ + + V Sbjct: 120 NHRLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDDGYECFPAKLEIIKSFNEESEV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + EGK ++K++FE + KV L R +GP +L +L G RE++ + + Sbjct: 180 RVTIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQYRELTDEEI 232 >gi|297520148|ref|ZP_06938534.1| 23S rRNA pseudouridylate synthase B [Escherichia coli OP50] Length = 281 Score = 262 bits (670), Expect = 6e-68, Method: Composition-based stats. Identities = 106/292 (36%), Positives = 147/292 (50%), Gaps = 23/292 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 E V L S + +DR + + R K SQ +G Sbjct: 242 EL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVSG 280 >gi|220935178|ref|YP_002514077.1| ribosomal large subunit pseudouridine synthase B [Thioalkalivibrio sp. HL-EbGR7] gi|219996488|gb|ACL73090.1| ribosomal large subunit pseudouridine synthase B [Thioalkalivibrio sp. HL-EbGR7] Length = 268 Score = 262 bits (670), Expect = 6e-68, Method: Composition-based stats. Identities = 96/267 (35%), Positives = 136/267 (50%), Gaps = 7/267 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV--PLRKA 70 +R+ K++AR G SRRE+ER I + V VNG + D + + G PL A Sbjct: 2 TERLQKLLARLGHGSRREIERWIEEGLVTVNGKVA-SLGDQAGPDDKVAIRGRVVPLDVA 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGG 129 + R+ YHKP G +TT DP+GR TVF++LP + + R I+VGRLD NT GLLL T DG Sbjct: 61 PKPRVIAYHKPDGELTTRKDPEGRPTVFEHLPRLRNGRWIAVGRLDYNTSGLLLFTTDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PS + R Y VR G+V D L L G+ ++ + G+N W Sbjct: 121 LAAKLMHPSGEVEREYAVRILGEVSPDALKQLTTGVELEDGPARFETLREAGGTGANRWY 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ--LG 246 V LREG+NRE+++++E V+RL R+ YGP LG L AG R++ + + Sbjct: 181 HVTLREGRNREVRRLWEAVGLTVSRLTRVRYGPISLGRDLRAGRWRDLEPGEMGALYAVA 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPN 273 ++ + RP Sbjct: 241 GLPWTPPKIRREDRRPPKPPRTARRPK 267 >gi|28211988|ref|NP_782932.1| putative ribosomal small subunit pseudouridine synthase A [Clostridium tetani E88] gi|28204431|gb|AAO36869.1| putative ribosomal small subunit pseudouridine synthase A [Clostridium tetani E88] Length = 238 Score = 262 bits (670), Expect = 6e-68, Method: Composition-based stats. Identities = 74/237 (31%), Positives = 123/237 (51%), Gaps = 7/237 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K++A G SR+EV+++I V+VNG ++ ++N+ D I V G + + Sbjct: 2 ERIDKILANMGYGSRKEVKKLIKNNLVEVNGEKVKDPSINIDPEKDKILV-GDKVVNYRK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+V+ D + TV D L + VGRLD +T GLLL+TNDG L Sbjct: 61 FIYIMMNKPEGVVSATFD-NYDETVIDLLEEEYQVFNPFPVGRLDKDTVGLLLITNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P + +VY + +V++ + + GIVI G ++ + + A V Sbjct: 120 NHKLISPKWKVDKVYYAEINKEVNEKDIEAFQNGIVISDGYKCMPGKLEIIKSDENGAEV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 V ++EGK ++K++FE + KV L R+ +G L TL G RE++++ L L Sbjct: 180 YVTIQEGKFHQVKRMFEALDKKVVYLKRVKFGNINLDETLEEGEYRELTEEELENIL 236 >gi|332670389|ref|YP_004453397.1| pseudouridine synthase [Cellulomonas fimi ATCC 484] gi|332339427|gb|AEE46010.1| pseudouridine synthase [Cellulomonas fimi ATCC 484] Length = 248 Score = 262 bits (670), Expect = 6e-68, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 117/233 (50%), Gaps = 1/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 + R+ KV+A AG+ SRR E +IA RV V+G + V V T I VDG+ ++ Sbjct: 7 DPDGVRLQKVLASAGLGSRRACEELIATGRVTVDGSTVRELGVRVDPLTAVIHVDGMRVQ 66 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +KP G+V+T DP+GR +V + R+ VGRLD TEGLLLLTNDG Sbjct: 67 LDSSVVTLALNKPKGVVSTMHDPEGRPSVAQFVADRSERLFHVGRLDSETEGLLLLTNDG 126 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + Y G+V L +G+ ++ + + + Sbjct: 127 ELANRLSHPSHGVAKTYLAHVEGRVAGSLAGRLARGVELEDGVVTVDRFQVVQTTPQASL 186 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+NR ++++ E V RL+R GP +LG L G TR +SK + Sbjct: 187 VEVVLHEGRNRVVRRLLEEVGHPVTRLVRTQIGPIRLGDLKPGRTRVLSKTEV 239 >gi|148658668|ref|YP_001278873.1| pseudouridine synthase [Roseiflexus sp. RS-1] gi|148570778|gb|ABQ92923.1| pseudouridine synthase [Roseiflexus sp. RS-1] Length = 624 Score = 262 bits (670), Expect = 6e-68, Method: Composition-based stats. Identities = 102/339 (30%), Positives = 154/339 (45%), Gaps = 9/339 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 + +R+ KV+A AGIASRR+ E IA RV VNG ++ V D I VDG P+ K Sbjct: 1 MSAERLQKVLASAGIASRRDCEEYIAAGRVMVNGKVVRIPGTRVDPEHDEILVDGRPIGK 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + HKP G+V+T DP GR TV D + ++ R+ VGRLD ++EGLLLLT+DG Sbjct: 61 IHHRTYVMLHKPAGVVSTTDDPQGRPTVIDLV-NLEQRLFPVGRLDYDSEGLLLLTDDGE 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + L PS Q + YRV + L + G+ + G+ V L + AWV Sbjct: 120 LTQKLTHPSYQVEKEYRVLLNEAPSPAALRAWRTGVELDGVKTAPAWVELIERTPDGAWV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 V L EG+ R+I++V ++V RLIR+ GP LG L +G+ R ++ + + + Sbjct: 180 RVILHEGRKRQIREVARVLGYEVRRLIRVREGPLTLGDLPSGTWRFLTDEEV------DM 233 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 L E A + + R++ R+ ++ + P Sbjct: 234 LREHAERNAAVAEAEQPRRREQGETQVSGGRRLRRITPSARLLQKGDQVTDTTLPDLDEA 293 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + S V + S +R + R P Sbjct: 294 VES-VQPPPVVDERRSSRDNERIRHDERPPRDVRHSGRD 331 >gi|293395935|ref|ZP_06640216.1| ribosomal large subunit pseudouridine synthase B [Serratia odorifera DSM 4582] gi|291421433|gb|EFE94681.1| ribosomal large subunit pseudouridine synthase B [Serratia odorifera DSM 4582] Length = 297 Score = 262 bits (670), Expect = 6e-68, Method: Composition-based stats. Identities = 108/309 (34%), Positives = 155/309 (50%), Gaps = 25/309 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MI RV V+G + + V V+ I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIETMIEAGRVSVDGKIAKLGDRVEVVQGMKIRLDGHVVSIKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T SDP+GR TVFD LP SR ++VGRLD+NT GLLL T Sbjct: 62 SEEAVCRVLAYYKPEGELCTRSDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQ+D DK+ L +G+ ++ ++ +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQIDDDKVKQLSRGVQLEDGPAAFRTISFQGGEGLN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK---KILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L + G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGIPRGGWTELDLPAINYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V+L S + R+R + + R K SQ + + Sbjct: 242 EL----------VDLQPETVSKLPVERERRRVKAN---QIRRAVKRHSQVSTGRRSAAGG 288 Query: 303 TP--VHRRN 309 P +RN Sbjct: 289 KPGKPSKRN 297 >gi|28897989|ref|NP_797594.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus RIMD 2210633] gi|153838627|ref|ZP_01991294.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus AQ3810] gi|260364226|ref|ZP_05776929.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus K5030] gi|260877145|ref|ZP_05889500.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus AN-5034] gi|260898993|ref|ZP_05907434.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus Peru-466] gi|260902058|ref|ZP_05910453.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus AQ4037] gi|34098481|sp|Q87QD4|RSUA_VIBPA RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|28806203|dbj|BAC59478.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus RIMD 2210633] gi|149747999|gb|EDM58859.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus AQ3810] gi|308088663|gb|EFO38358.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus Peru-466] gi|308093845|gb|EFO43540.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus AN-5034] gi|308109089|gb|EFO46629.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus AQ4037] gi|308111860|gb|EFO49400.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus K5030] gi|328473055|gb|EGF43903.1| ribosomal small subunit pseudouridine synthase A [Vibrio parahaemolyticus 10329] Length = 233 Score = 262 bits (670), Expect = 6e-68, Method: Composition-based stats. Identities = 57/230 (24%), Positives = 102/230 (44%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R++ ++I V V+G + + + V +E DG + A Sbjct: 1 MRLDKYLCDALGATRKQATKIIKSGEVLVDGEVQKSGSFKVPEGGVVEWDGREV-GAPGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 R + +KP V +H D T F L + GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLYKPADFVCSHED-GYNPTAFVLLDEPKVENLHFAGRLDVDTTGLVLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D + +GI ++ + L+ + V + Sbjct: 119 RITSPKHKCKKTYRVWLADAIQPDYVEKFAQGIELRNEREATLPAHLEIVNEAENEVLLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R ++++ + Sbjct: 179 IVEGKYHQVKRMFAALGNKVELLHRERIGDIVLDDTLEPGDYRYLTQEEV 228 >gi|254496468|ref|ZP_05109345.1| pseudouridine synthase [Legionella drancourtii LLAP12] gi|254354324|gb|EET12982.1| pseudouridine synthase [Legionella drancourtii LLAP12] Length = 252 Score = 262 bits (670), Expect = 6e-68, Method: Composition-based stats. Identities = 92/242 (38%), Positives = 138/242 (57%), Gaps = 7/242 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----P 66 + +R+ K++++AG+ SRRE+ER I V+VNG ++ + D I V G P Sbjct: 1 MSSERLQKILSQAGLGSRREMERWIENGWVQVNGKPVK-LGDSASGDDKITVKGKLIPNP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 L+ + TR+ LYHKP+G +++ DP TVFD LP + R + VGRLD+NT GLL+ T Sbjct: 60 LKIKQNTRILLYHKPVGEISSRHDPKFEKTVFDRLPHLRQGRWVQVGRLDLNTSGLLIFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N+G LA L P R Y VR HGQV Q+ L +L+KG+ + ++ G+ Sbjct: 120 NNGELANQLMHPRYGLEREYAVRVHGQVTQEMLTVLQKGVELDDGPAKFSRLESRGGDGA 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 N W V L EG+NRE+++++E +V+RLIRI YG + L T E++ K + + Sbjct: 180 NTWYHVTLNEGRNREVRRLWESQGVEVSRLIRIRYGMLTMPRFLGRAQTYELTPKEVTDF 239 Query: 245 LG 246 L Sbjct: 240 LA 241 >gi|257068695|ref|YP_003154950.1| pseudouridine synthase family protein [Brachybacterium faecium DSM 4810] gi|256559513|gb|ACU85360.1| pseudouridine synthase family protein [Brachybacterium faecium DSM 4810] Length = 306 Score = 262 bits (670), Expect = 6e-68, Method: Composition-based stats. Identities = 83/240 (34%), Positives = 127/240 (52%), Gaps = 3/240 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 +R+ KV+ARAG SRR E +I+ RV+V+G +++ V + + VDG L+ Sbjct: 63 RADGERLQKVLARAGFGSRRACETLISTGRVRVDGAVVQEQGVRIDPAAQVVHVDGRRLQ 122 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E + +KP G+V+ SDP+GR + + + R+ VGRLD TEGLLLLTNDG Sbjct: 123 LDETKLTLVLNKPRGVVSAMSDPEGRRDLSEFTAAHSQRLYHVGRLDYETEGLLLLTNDG 182 Query: 129 GLARVLELPSTQWLRVYRVRFHGQ--VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 LA L PS + + Y RF + + L+ G+ ++ + + Q G Sbjct: 183 ELAHRLTHPSFEVAKTYVCRFDAPGGPPRGLVRTLRDGVELEDGPARADRARVLAQDGRE 242 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 A V V L EG+NR ++++F +++ LIR GP LG L G+TRE+S + L + Sbjct: 243 AVVEVTLHEGRNRIVRRMFASRGFELTALIRTRIGPVLLGDLAPGTTRELSGRELGTLMA 302 >gi|239917903|ref|YP_002957461.1| pseudouridine synthase family protein [Micrococcus luteus NCTC 2665] gi|281413596|ref|ZP_06245338.1| pseudouridine synthase family protein [Micrococcus luteus NCTC 2665] gi|289706509|ref|ZP_06502862.1| pseudouridylate synthase [Micrococcus luteus SK58] gi|239839110|gb|ACS30907.1| pseudouridine synthase family protein [Micrococcus luteus NCTC 2665] gi|289556767|gb|EFD50105.1| pseudouridylate synthase [Micrococcus luteus SK58] Length = 318 Score = 262 bits (670), Expect = 6e-68, Method: Composition-based stats. Identities = 79/233 (33%), Positives = 130/233 (55%), Gaps = 1/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 + + +R+ KV+A AG+ASRR E +IA+ RV+V+G+++ V V T I VDG+ ++ Sbjct: 77 DESGERLQKVLAAAGVASRRVSEDLIAEGRVEVDGVVVTEPGVRVDPATAVIRVDGISVQ 136 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ++++KP G+++T DP+GR ++ L + VGRLD TEGLL+LTNDG Sbjct: 137 TDVTKQYFVFNKPRGVISTMVDPEGRPSIATYLKPGQEHLFHVGRLDNETEGLLILTNDG 196 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + + Y V+ G + + N L++G+ ++ L + Sbjct: 197 ELANRLTHPSYEVPKTYVVQTRGPLAKGVSNRLREGVELEDGVAQVDSFKLVDSTPGHVL 256 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L GKNR ++++F+ V RL+R+ GP LG G+ R ++ + L Sbjct: 257 VEVVLHSGKNRIVRRMFQEIGHPVERLVRVKVGPILLGDQKQGTVRALNAQEL 309 >gi|308176960|ref|YP_003916366.1| pseudouridylate synthase [Arthrobacter arilaitensis Re117] gi|307744423|emb|CBT75395.1| pseudouridylate synthase [Arthrobacter arilaitensis Re117] Length = 373 Score = 262 bits (670), Expect = 7e-68, Method: Composition-based stats. Identities = 78/241 (32%), Positives = 128/241 (53%), Gaps = 3/241 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPL 67 E R+ K +A AG+ASRR E MI + RV+VNG L+ V D I VDG+ + Sbjct: 129 EQQDGIRLQKAMANAGVASRRVCEEMILEGRVEVNGNLVVELGSRVDPAKDRIHVDGMRI 188 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLT 125 + + R ++++KP ++ T DP+GR T+ D + R+ VGRLD TEG+L+LT Sbjct: 189 QMNQANRYFVFNKPKHVMCTMDDPEGRRTIADYFKNEHHSLRLFHVGRLDYKTEGVLILT 248 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L+ P + + Y V+ G + + N L++G+ ++ + + Sbjct: 249 NDGELANRLQHPKYEVPKTYLVQIPGPLPRAVSNQLREGVKLEDGWIKVDDLKIIATTPK 308 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + V V L G+NR ++++F+ V RL+R++ GP QLG G+ R + + + + Sbjct: 309 HVMVEVTLHSGRNRIVRRMFDEVGHPVQRLVRVAVGPVQLGDQKQGTIRSLGNQEVGHLM 368 Query: 246 G 246 Sbjct: 369 A 369 >gi|311693777|gb|ADP96650.1| pseudouridine synthase family 1 protein [marine bacterium HP15] Length = 312 Score = 262 bits (670), Expect = 7e-68, Method: Composition-based stats. Identities = 71/314 (22%), Positives = 129/314 (41%), Gaps = 14/314 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AER 72 R++K I+ +G+ SRRE +R I Q V +NG V+ D ++V+G + E Sbjct: 8 RLNKYISESGMCSRREADRYIEQGNVYINGKRAT-VGDQVLPGDTVKVNGQVIEPRAEED 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP+G+V+T + + R+ +GRLD +++GL+ +T++G L Sbjct: 67 LVFIALNKPVGIVSTTDSAEKHN--IQRFVGHSERIFPIGRLDKDSQGLIFMTSNGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V V ++ + + G+ I G +V+ + S + Sbjct: 125 KILRAGNNHEKEYLVTVDKPVTREFVEGMANGVPILGTMTKKCKVS----RESRFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E+F ++V +L RI L L G R++S+K L Sbjct: 181 LVQGLNRQIRRMCEYFGYEVTKLERIRIMNVSLKGLAVGQWRDLSEKEL----AGLFDAI 236 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 + +AP + + + PD + G + P + AS Sbjct: 237 RDSSSEAPPGAGKPAKKKSGTKAKPKPDRKPGSASTPGKPGGARRPGPKGKPAPGKKPAS 296 Query: 313 NVWMAKGIHSSFLS 326 KG S Sbjct: 297 G-KRPKGGKPRQKS 309 >gi|302335698|ref|YP_003800905.1| ribosomal large subunit pseudouridine synthase B [Olsenella uli DSM 7084] gi|301319538|gb|ADK68025.1| ribosomal large subunit pseudouridine synthase B [Olsenella uli DSM 7084] Length = 267 Score = 262 bits (670), Expect = 7e-68, Method: Composition-based stats. Identities = 71/244 (29%), Positives = 114/244 (46%), Gaps = 16/244 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 R+ + +ARAG+ASRR E +++ RV+VNG ++ V D + VDGV R ++ Sbjct: 11 TMRLQRFLARAGVASRRGSENLMSAGRVRVNGRVVSELGSKVTPGIDVVTVDGVECRLSD 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G +TT SDP GR V + +P + + + VGRLD +T GLLL + DG + Sbjct: 71 EHAYLMLNKPAGYLTTMSDPQGRPCVAELVPTARYPGLFPVGRLDADTTGLLLFSTDGEV 130 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA--- 187 A L PS + Y G +L +L+ G+ + L + Sbjct: 131 ANALLHPSRHVWKRYVALVRGTPTTRQLAMLRAGVPLDDGVARPADAHLLGADDPLSASV 190 Query: 188 ----------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 V++ + EGK ++K++ + +V L R +GP L L AG R + Sbjct: 191 VTGGADPGCAVVSIRIHEGKKHQVKRMLKAVGHEVVHLHRSEFGPLVLTAELKAGRWRPL 250 Query: 237 SKKI 240 + Sbjct: 251 TGDE 254 >gi|320547064|ref|ZP_08041362.1| ribosomal small subunit pseudouridine synthase A [Streptococcus equinus ATCC 9812] gi|320448301|gb|EFW89046.1| ribosomal small subunit pseudouridine synthase A [Streptococcus equinus ATCC 9812] Length = 242 Score = 262 bits (670), Expect = 7e-68, Method: Composition-based stats. Identities = 69/237 (29%), Positives = 114/237 (48%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + AG+ SR EV++++ +++V VNG L + D I G L E+ Sbjct: 1 MRLDKFLVEAGVGSRTEVKQLLKKKQVLVNGKLETSPKTQIDEKLDKIVCQGQNLSY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYMLNKPKGVISATED-DHHKTVLDLLDKTAWDKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAW 188 A + P ++Y + G + + + GI ++ Q+ + +K + + Sbjct: 119 AHAMLSPKKHVDKLYCAKVAGIMTDEDVKAFADGIELKDFTCQPAQLNIINADEKSNTSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 V + ++EGK ++K++ +V L R+S GP +L L G R +S L Sbjct: 179 VEIVIKEGKFHQVKRMVLACGKEVTDLQRLSMGPLRLDDELALGEWRRLSPAELESL 235 >gi|315283394|ref|ZP_07871600.1| ribosomal small subunit pseudouridine synthase A [Listeria marthii FSL S4-120] gi|313612966|gb|EFR86902.1| ribosomal small subunit pseudouridine synthase A [Listeria marthii FSL S4-120] Length = 233 Score = 262 bits (670), Expect = 7e-68, Method: Composition-based stats. Identities = 70/233 (30%), Positives = 110/233 (47%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SRREV+ ++ V VNG + + + V D + V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRREVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGTPVVYQE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG L Sbjct: 60 FVYFMLHKPQNVVSATED-NVSETVIDLLAQEDTLTDPFPVGRLDKDTEGLLIITNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y + G V + GI + G ++ + T + Sbjct: 119 AHNLLSPKKHIDKTYYAKIDGDVTATDVEAFAAGIELDDGYTCKPARLEIITPN----EI 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V ++EGK ++K++F V+ L RIS G QL +L G R +++ L Sbjct: 175 KVTIQEGKFHQVKRMFAARGKTVSYLKRISMGNLQLDESLELGEYRPLTETEL 227 >gi|50842867|ref|YP_056094.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes KPA171202] gi|282853641|ref|ZP_06262978.1| pseudouridylate synthase [Propionibacterium acnes J139] gi|50840469|gb|AAT83136.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes KPA171202] gi|282583094|gb|EFB88474.1| pseudouridylate synthase [Propionibacterium acnes J139] gi|313813285|gb|EFS50999.1| conserved hypothetical protein [Propionibacterium acnes HL025PA1] gi|314923703|gb|EFS87534.1| conserved hypothetical protein [Propionibacterium acnes HL001PA1] gi|314967055|gb|EFT11154.1| conserved hypothetical protein [Propionibacterium acnes HL082PA2] gi|314983150|gb|EFT27242.1| conserved hypothetical protein [Propionibacterium acnes HL110PA3] gi|315092372|gb|EFT64348.1| conserved hypothetical protein [Propionibacterium acnes HL110PA4] gi|315092741|gb|EFT64717.1| conserved hypothetical protein [Propionibacterium acnes HL060PA1] gi|315105956|gb|EFT77932.1| conserved hypothetical protein [Propionibacterium acnes HL030PA1] gi|327327189|gb|EGE68965.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes HL103PA1] Length = 245 Score = 262 bits (670), Expect = 7e-68, Method: Composition-based stats. Identities = 88/239 (36%), Positives = 128/239 (53%), Gaps = 4/239 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 N R+ KV+A+AG+ASRR E MIA RV+VNG L+ V D I VDG + Sbjct: 3 NEQGIRLQKVLAQAGLASRRAAEDMIAAGRVEVNGELIVEQGRRVDPERDEIRVDGSRIP 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDN--LPSIFSRVISVGRLDINTEGLLLLTN 126 A R ++ +KP G+V+T DP+GR + D +P R+ VGRLD T GL+LLTN Sbjct: 63 TARRHVYYVLNKPQGVVSTMDDPEGRPCLSDLEGVPRGI-RLFHVGRLDTETSGLILLTN 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + PS + L+ Y G+VD ++ L KG+ ++ V L + Sbjct: 122 DGEFANRMTHPSYKVLKTYLADVEGRVDDKVIHRLSKGLTLEDGPVKPDAVRLVQAGEEH 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + V V L EG+NR ++++ + V RL R + GP +L L G RE++ + L + L Sbjct: 182 SLVEVSLHEGRNRIVRRIMDSVAHPVRRLSRTAIGPVRLKRLGRGDMRELTHEELGQLL 240 >gi|319900039|ref|YP_004159767.1| RNA-binding S4 domain protein [Bacteroides helcogenes P 36-108] gi|319415070|gb|ADV42181.1| RNA-binding S4 domain protein [Bacteroides helcogenes P 36-108] Length = 501 Score = 262 bits (670), Expect = 7e-68, Method: Composition-based stats. Identities = 74/243 (30%), Positives = 114/243 (46%), Gaps = 5/243 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + D + Sbjct: 253 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEV 312 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + + ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 313 KFHDQAVS-IERKIYVLLNKPKDTVTTSDDPQARRTVMDLVKGACEERIYPVGRLDRNTT 371 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVT 178 G+LLLTNDG LA L P ++Y V + + + + GI + G + D Sbjct: 372 GVLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKSDMEQIAAGIQLDDGEIHADAISY 431 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 D K + V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 432 TDDFKKDD--VGIEIHSGKNRIVRRIFESLGYKVVKLDRVYFAGLTKKGLRRGEWRYLSE 489 Query: 239 KIL 241 + Sbjct: 490 AEV 492 >gi|317124964|ref|YP_004099076.1| pseudouridine synthase [Intrasporangium calvum DSM 43043] gi|315589052|gb|ADU48349.1| pseudouridine synthase [Intrasporangium calvum DSM 43043] Length = 334 Score = 262 bits (670), Expect = 7e-68, Method: Composition-based stats. Identities = 76/233 (32%), Positives = 122/233 (52%), Gaps = 1/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 + R+ K++A AG+ SRR E +I Q RV+V+G ++ V + + + VDGV + Sbjct: 93 DPDGVRLQKLMAAAGVGSRRVCENLIEQGRVEVDGQVITELGVRINPQSQVVHVDGVRVN 152 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E ++KP G+VTT D GR ++ D + + R+ VGRLD +TEGLLLLTNDG Sbjct: 153 LDEERVYLAFNKPKGVVTTMHDELGRISLADYVGNREQRLFHVGRLDADTEGLLLLTNDG 212 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L+ P+ L+ Y G V +D L++G+ ++ + + A Sbjct: 213 DLAHRLQHPAYGVLKTYLATVRGPVGRDVGKQLREGVELEDGPVTVDSFKVVDSQPGKAL 272 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V L EG+ ++++ E V L+R GP +LG L +G R ++K + Sbjct: 273 IEVVLHEGRKHVVRRMLELVGHPVLELVRTEVGPIRLGDLRSGRMRRLNKAEI 325 >gi|167845952|ref|ZP_02471460.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei B7210] Length = 384 Score = 262 bits (670), Expect = 7e-68, Method: Composition-based stats. Identities = 92/304 (30%), Positives = 150/304 (49%), Gaps = 8/304 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 84 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 142 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 143 GKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTE 202 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 203 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQRLLHGVELDDGPANFLRIRD 262 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 263 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 322 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +R + L+ D R +P+ + R ++ + Sbjct: 323 AQVRRLMSTVGLKA--PTEDKGGKRGGPAERRQPDPMQTSMGFINREPVLTTHGQLDQPR 380 Query: 299 KKLA 302 + Sbjct: 381 RGRR 384 >gi|297579215|ref|ZP_06941143.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae RC385] gi|297536809|gb|EFH75642.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae RC385] Length = 231 Score = 262 bits (670), Expect = 7e-68, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 103/230 (44%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREITL-HGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + HKP G+V +H D T F L + GRLD++T GLLL+T+DG + Sbjct: 60 RYIMMHKPDGVVCSHEDGFN-QTAFTLLDEVNIQDLHFAGRLDVDTTGLLLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D +GI ++G + LD S V + Sbjct: 119 RVTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLDV--ISETEVLLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L TL G R ++++ + Sbjct: 177 IHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >gi|322392605|ref|ZP_08066065.1| ribosomal small subunit pseudouridine synthase A [Streptococcus peroris ATCC 700780] gi|321144597|gb|EFX39998.1| ribosomal small subunit pseudouridine synthase A [Streptococcus peroris ATCC 700780] Length = 240 Score = 262 bits (670), Expect = 7e-68, Method: Composition-based stats. Identities = 71/238 (29%), Positives = 113/238 (47%), Gaps = 8/238 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + + SR EV+ + RV VNG + A + + TD I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNFLKAGRVTVNGKKEKSAKLQIDEETDEICFDGKKLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ +P + TV D + V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPQGVISATENPKHK-TVLDLMDDYACAKEVFPVGRLDIDTHGLLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAW 188 A L P + Y + G + + + KGI ++ ++ L + + + + Sbjct: 119 AHALLSPKRHVDKTYMAQVKGIMTDEDIETFAKGIPLKDFTCQPAKLELVSIDTEENKSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 V V + EGK ++K++ + +V L R++ G L L G R +SK+ L L Sbjct: 179 VRVTIAEGKFHQVKRMVAYCGKEVVDLQRVTMGTLTLDEELKRGEWRRLSKEELEGLL 236 >gi|33863340|ref|NP_894900.1| putative pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus str. MIT 9313] gi|33640789|emb|CAE21244.1| putative pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus str. MIT 9313] Length = 244 Score = 262 bits (670), Expect = 7e-68, Method: Composition-based stats. Identities = 78/236 (33%), Positives = 118/236 (50%), Gaps = 1/236 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 QR+ K+IA +G+ SRR E+++ Q+RV +NG L + D I VDG L Sbjct: 1 MKQQRLQKLIAASGLCSRRHAEQLLLQERVTLNGHLAKLGDKADPELDKISVDGRVLNSN 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGG 129 TR+ L++KP G++T+ DP GR TVF LP + VGRLD ++ G LL+TN G Sbjct: 61 TETRVLLFNKPAGVITSCHDPHGRVTVFSMLPDKLCKGLHPVGRLDADSRGALLITNQGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + Y+V G+ L+ + G+++ G ++ L S + + Sbjct: 121 LTLRLTHPRYAHDKTYQVLVEGKPSALVLSSWRHGVMLDGKTTLPAELELLQSHPSQSLL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 V LREG+NR+I++V E V L R + L L G R + ++ L Sbjct: 181 KVVLREGRNRQIRRVAEQLGHPVLDLQRTAIANVALNALPEGCWRALDEREWTPLL 236 >gi|325103401|ref|YP_004273055.1| ribosomal large subunit pseudouridine synthase F [Pedobacter saltans DSM 12145] gi|324972249|gb|ADY51233.1| ribosomal large subunit pseudouridine synthase F [Pedobacter saltans DSM 12145] Length = 298 Score = 262 bits (669), Expect = 7e-68, Method: Composition-based stats. Identities = 69/276 (25%), Positives = 129/276 (46%), Gaps = 14/276 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---KAE 71 R++K I+ +GI SRRE +R+I + RV +NG + V + D + VD L+ E Sbjct: 12 RLNKAISDSGICSRREADRLIEEGRVTINGKTAK-VGDRVSAFDEVIVDDRRLKLNKTGE 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++KP G+V T ++PD + + D + + R+ +GRLD +EGL+ LT+DG + Sbjct: 71 RPVYIAFNKPRGIVCT-TEPDVKDNIIDYI-NFPKRIFPIGRLDKPSEGLIFLTSDGNIV 128 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + + + + KG+ I QV + + + Sbjct: 129 NKILRAGNNHEKEYIVTVDKPITDEFIKGMMKGVPILDTVTKKCQVFKEGEL----VFRI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G R+++K+ E+F + V +L R L L G+ R ++ + L+ + +++ Sbjct: 185 ILTQGLYRQVRKMCEYFGYHVTKLKRTRIMNISLAKLPLGTWRYLTPEELQGIM--DMVD 242 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 + +A ++E + I P D K+ Sbjct: 243 SSSGTEEASFENTE--FKKEQKHIRSKPQDLKNKKR 276 >gi|186685861|ref|YP_001869057.1| pseudouridine synthase [Nostoc punctiforme PCC 73102] gi|186468313|gb|ACC84114.1| pseudouridine synthase [Nostoc punctiforme PCC 73102] Length = 252 Score = 262 bits (669), Expect = 7e-68, Method: Composition-based stats. Identities = 83/240 (34%), Positives = 127/240 (52%), Gaps = 12/240 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K++A+ GIASRRE E MI RV++NG L V D I +DG L + +R Sbjct: 3 ERLQKILAQWGIASRREAEEMIRHSRVQINGKLA-HLGQKVDPQKDAIAIDGKTLSEKQR 61 Query: 73 T--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTND 127 L HKP G+V+T DP R TV D LP + VGRLD ++ G L+LTND Sbjct: 62 PALIYLLLHKPAGVVSTCYDPHRRKTVLDLLPKELREGSGIHPVGRLDADSTGALILTND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + YRV G + L + ++G+V++G +V L + + Sbjct: 122 GNLTFGLTHPRHSISKTYRVLVKGHPPEVVLQMWREGVVLEGRKTRAAEVHLIEHRAEQS 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREVSKKILR 242 ++ + L+EG+NR+I+++ + + V +L R + GP QL T L G R ++ + +R Sbjct: 182 FLEIVLQEGRNRQIRRIAQQLGYPVIKLHRTAIGPIQLQTPKEPLLSEGKYRSLTDREIR 241 >gi|251791839|ref|YP_003006559.1| ribosomal small subunit pseudouridine synthase A [Aggregatibacter aphrophilus NJ8700] gi|247533226|gb|ACS96472.1| ribosomal small subunit pseudouridine synthase A [Aggregatibacter aphrophilus NJ8700] Length = 233 Score = 262 bits (669), Expect = 7e-68, Method: Composition-based stats. Identities = 62/230 (26%), Positives = 104/230 (45%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R + +++ Q V +NG + + A V D I DG L Sbjct: 1 MRLDKFLAEMTDLTRSQATKVLRQSAVTINGKIEKSGAAKVGPNDEICYDGERLAWVAEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP G + +H D D T++ S R+ S GRLD++T GL+LLT+DG + Sbjct: 61 QYIMLNKPQGYICSHEDGDH-PTIYQFFGYPLSARLHSAGRLDVDTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+ + + +GI+++G TL+ N V + Sbjct: 120 RITSPKHHQPKTYLVTLADPVEANYVQACTEGILLRGEKDPTKPATLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EG+ +IK++F KV L R G L L G R ++ + Sbjct: 178 ISEGRYHQIKRMFAALGNKVVGLHRWKIGALVLDDSLEEGEYRALTAAEV 227 >gi|257469264|ref|ZP_05633358.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium ulcerans ATCC 49185] gi|317063511|ref|ZP_07927996.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium ulcerans ATCC 49185] gi|313689187|gb|EFS26022.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium ulcerans ATCC 49185] Length = 236 Score = 262 bits (669), Expect = 7e-68, Method: Composition-based stats. Identities = 71/232 (30%), Positives = 122/232 (52%), Gaps = 3/232 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK- 69 R++K +A GIASRREV++MI + +KVNG + V D I + G + K Sbjct: 1 MEEMRINKYLASLGIASRREVDKMIEEGAIKVNGEKAA-PGIKVSDEDEIYIKGKKIEKN 59 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ ++ +KP+ ++++ D GR TV D + R+ +GRLD NT GL++LTNDG Sbjct: 60 TEKKVYYILNKPLEVLSSSKDDRGRKTVVDLI-KCKERIFPIGRLDYNTSGLIILTNDGE 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + P + + Y + G++ ++ LL+KG+ + V + ++ + Sbjct: 119 LFNRIIHPKAEIFKEYYAKVFGEIKEENAELLRKGVELDDGMTLPANVKILRRERGKTEL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V +REG+NR+++++ + N V L R G LG L G RE++ + + Sbjct: 179 LVAIREGRNRQVRRMLDKINHPVITLRREKIGDLSLGNLKLGEYRELTNEEV 230 >gi|322388650|ref|ZP_08062250.1| ribosomal small subunit pseudouridine synthase A [Streptococcus infantis ATCC 700779] gi|321140570|gb|EFX36075.1| ribosomal small subunit pseudouridine synthase A [Streptococcus infantis ATCC 700779] Length = 240 Score = 262 bits (669), Expect = 8e-68, Method: Composition-based stats. Identities = 73/238 (30%), Positives = 111/238 (46%), Gaps = 8/238 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + + SR EV+ + RV VNG + A + + TD I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNFLKSGRVTVNGKKEKSAKLQIDEETDEICFDGQKLDYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP + TV D L V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPQGVISATEDPKHK-TVLDLLDDYARAKEVFPVGRLDIDTHGLLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAW 188 A L P + Y + G + + KGI ++ ++ L + + + Sbjct: 119 AHALLSPKRHVDKTYLAQVKGIMTDTDVETFAKGIPLKDFTCQPAKLELVSIDTEKDQSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 V V + EGK ++K++ + +V L R++ G L L G R +SK+ L L Sbjct: 179 VRVTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTLTLDEDLKRGEWRRLSKEELEVLL 236 >gi|229019939|ref|ZP_04176733.1| Pseudouridine synthase [Bacillus cereus AH1273] gi|229026174|ref|ZP_04182538.1| Pseudouridine synthase [Bacillus cereus AH1272] gi|228735102|gb|EEL85733.1| Pseudouridine synthase [Bacillus cereus AH1272] gi|228741357|gb|EEL91563.1| Pseudouridine synthase [Bacillus cereus AH1273] Length = 242 Score = 262 bits (669), Expect = 8e-68, Method: Composition-based stats. Identities = 66/234 (28%), Positives = 110/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ +V + + G + E Sbjct: 1 MRLDKLLANMGHGSRKEVKKLLKDGVVKIDGTPVKDPKFHVNVEEQEVMIHGEVVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LL+TNDG L Sbjct: 60 FVYLMMHKPQGVISATED-DNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P + Y G V ++ + KG+++ G +T+ + + + Sbjct: 119 THQLLSPKKHVPKKYYAHVSGVVTEEDVKEFAKGVILEDGYETKPGDLTIL-KSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >gi|228477053|ref|ZP_04061691.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus salivarius SK126] gi|228251072|gb|EEK10243.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus salivarius SK126] Length = 243 Score = 262 bits (669), Expect = 8e-68, Method: Composition-based stats. Identities = 65/237 (27%), Positives = 115/237 (48%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ + +++V VNG + + D I G L E Sbjct: 1 MRLDKFLVDCGVGSRSQVKTFLKKKQVAVNGQVETSPKTQIDENQDQIAFQGQVLTH-ET 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D + TV D L V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATEDARHK-TVLDLLDDTARHKQVFPVGRLDIDTHGLLLLTNNGDL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAW 188 A + P ++Y+ + G ++Q+ + +KGI ++ ++ + + + + Sbjct: 119 AHAMLSPKKHVDKIYQAKVDGIMNQEDILAFEKGIELKDYTCQPAKLEIISVDRATGTSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 V + + EGK ++K++ +V L R+S GP L L G+ R ++++ L Sbjct: 179 VQITIAEGKFHQVKRMVAACGKEVTELQRLSMGPLSLPNDLEVGAWRRLTEEELEAL 235 >gi|331265615|ref|YP_004325245.1| ribosomal small subunit pseudouridine synthase A [Streptococcus oralis Uo5] gi|326682287|emb|CBY99904.1| ribosomal small subunit pseudouridine synthase A [Streptococcus oralis Uo5] Length = 240 Score = 262 bits (669), Expect = 8e-68, Method: Composition-based stats. Identities = 75/240 (31%), Positives = 115/240 (47%), Gaps = 10/240 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEERDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPQGVISATEDPKHR-TVLDLLDDYARAKEVFPVGRLDIDTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---VTLDTQKGSNA 187 A L P + Y + G + Q+ + KGI ++ + V++D +K + + Sbjct: 119 AHALLSPKRHVDKTYLAQVEGIMSQEDVETFAKGIPLKDFTCQPAKLEFVSVDPEK-NQS 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 V V + EGK ++K++ F +V L R++ G L L G R ++K+ L Sbjct: 178 LVRVTIAEGKFHQVKRMVAFCGKEVVDLQRLTMGTLVLDENLEQGEWRRLTKEELEVLFA 237 >gi|126663357|ref|ZP_01734355.1| ribosomal large subunit pseudouridine synthase F [Flavobacteria bacterium BAL38] gi|126625015|gb|EAZ95705.1| ribosomal large subunit pseudouridine synthase F [Flavobacteria bacterium BAL38] Length = 262 Score = 262 bits (669), Expect = 8e-68, Method: Composition-based stats. Identities = 66/272 (24%), Positives = 128/272 (47%), Gaps = 13/272 (4%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++EN T R++K ++ G SRRE +R+I Q RV +NG + V +D + V+G Sbjct: 1 MEENAT--RINKFLSETGFCSRREADRLIEQGRVTINGKVP-EMGTKVTPSDEVRVNGKL 57 Query: 67 LR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 ++ + E+ ++KP G+ T ++ D R + D + + R+ +GRLD +EGL+ +T Sbjct: 58 IQERTEKPIYLAFNKPAGIECT-TNLDVRDNIIDFI-NYPERIFPIGRLDKASEGLIFMT 115 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y V + + ++ + GI I +V ++ S Sbjct: 116 NDGDIVNKILRARNNHEKEYIVTVNHPITDRFIDRMANGIPILETITKKCKV----EQIS 171 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E+ +++V L R L + G R ++ + E Sbjct: 172 KFVFRIILTQGLNRQIRRMCEYLDYEVTALKRTRIINISL-DVAEGKYRNLTDAEVAEL- 229 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 L+E + +A + S++ + N Sbjct: 230 -NKLIEPSSKTEEASLPSNKGKFTGKRNYGER 260 >gi|53729057|ref|ZP_00348305.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|126208628|ref|YP_001053853.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae L20] gi|126097420|gb|ABN74248.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 5b str. L20] Length = 349 Score = 262 bits (669), Expect = 8e-68, Method: Composition-based stats. Identities = 107/288 (37%), Positives = 154/288 (53%), Gaps = 12/288 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 64 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 123 Query: 67 LR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGL 121 + + E R+ +Y+KP G + T SDP+GR+TVFD LP +R I+VGRLDINT GL Sbjct: 124 ISLIPVQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGARWIAVGRLDINTSGL 183 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR G +D+ L L+KG+ ++ Q+ Sbjct: 184 LLFTTDGELANRLMHPSREVEREYSVRVFGNIDEAMLQRLRKGVQLEDGPANFKQIKTVG 243 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 244 GTGLNQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKGLPRGGWEEMGLEQ 303 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G L E + +D T +R + + T+ Sbjct: 304 VNYLRELVG--LPAETETKVDVTKNRRRTNIRQIRKAVKQHSKYRTKA 349 >gi|26247598|ref|NP_753638.1| 23S rRNA pseudouridylate synthase B [Escherichia coli CFT073] gi|91210560|ref|YP_540546.1| 23S rRNA pseudouridylate synthase B [Escherichia coli UTI89] gi|110641498|ref|YP_669228.1| 23S rRNA pseudouridylate synthase B [Escherichia coli 536] gi|191171000|ref|ZP_03032551.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli F11] gi|215486564|ref|YP_002328995.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O127:H6 str. E2348/69] gi|218549040|ref|YP_002382831.1| 23S rRNA pseudouridylate synthase B [Escherichia fergusonii ATCC 35469] gi|218558254|ref|YP_002391167.1| 23S rRNA pseudouridylate synthase B [Escherichia coli S88] gi|218704792|ref|YP_002412311.1| 23S rRNA pseudouridylate synthase B [Escherichia coli UMN026] gi|227886303|ref|ZP_04004108.1| 23S rRNA pseudouridylate synthase [Escherichia coli 83972] gi|237705292|ref|ZP_04535773.1| ribosomal large subunit pseudouridine synthase B [Escherichia sp. 3_2_53FAA] gi|293404810|ref|ZP_06648802.1| 23S rRNA pseudouridylate synthase B [Escherichia coli FVEC1412] gi|298380451|ref|ZP_06990050.1| 23S rRNA pseudouridylate synthase B [Escherichia coli FVEC1302] gi|300897321|ref|ZP_07115752.1| conserved hypothetical protein [Escherichia coli MS 198-1] gi|300971792|ref|ZP_07171626.1| hypothetical protein HMPREF9553_00034 [Escherichia coli MS 200-1] gi|300982412|ref|ZP_07176109.1| conserved hypothetical protein [Escherichia coli MS 45-1] gi|301046931|ref|ZP_07194045.1| conserved hypothetical protein [Escherichia coli MS 185-1] gi|306813708|ref|ZP_07447889.1| 23S rRNA pseudouridylate synthase B [Escherichia coli NC101] gi|312966803|ref|ZP_07781021.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 2362-75] gi|331646590|ref|ZP_08347693.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli M605] gi|331662681|ref|ZP_08363604.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli TA143] gi|331672793|ref|ZP_08373579.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli TA280] gi|331682754|ref|ZP_08383373.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli H299] gi|34098555|sp|Q8FHV4|RLUB_ECOL6 RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|26108000|gb|AAN80200.1|AE016760_59 Hypothetical protein yciL [Escherichia coli CFT073] gi|91072134|gb|ABE07015.1| hypothetical protein YciL [Escherichia coli UTI89] gi|110343090|gb|ABG69327.1| putative ribosomal large subunit pseudouridine synthase [Escherichia coli 536] gi|190908732|gb|EDV68320.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli F11] gi|215264636|emb|CAS09007.1| 23S rRNA pseudouridy late synthase [Escherichia coli O127:H6 str. E2348/69] gi|218356581|emb|CAQ89204.1| 23S rRNA pseudouridylate synthase [Escherichia fergusonii ATCC 35469] gi|218365023|emb|CAR02726.1| 23S rRNA pseudouridylate synthase [Escherichia coli S88] gi|218431889|emb|CAR12774.1| 23S rRNA pseudouridylate synthase [Escherichia coli UMN026] gi|222033073|emb|CAP75813.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli LF82] gi|226900049|gb|EEH86308.1| ribosomal large subunit pseudouridine synthase B [Escherichia sp. 3_2_53FAA] gi|227836507|gb|EEJ46973.1| 23S rRNA pseudouridylate synthase [Escherichia coli 83972] gi|281178457|dbj|BAI54787.1| putative pseudouridine synthase [Escherichia coli SE15] gi|284921150|emb|CBG34216.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 042] gi|291427018|gb|EFF00045.1| 23S rRNA pseudouridylate synthase B [Escherichia coli FVEC1412] gi|294492436|gb|ADE91192.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli IHE3034] gi|298277893|gb|EFI19407.1| 23S rRNA pseudouridylate synthase B [Escherichia coli FVEC1302] gi|300301157|gb|EFJ57542.1| conserved hypothetical protein [Escherichia coli MS 185-1] gi|300309298|gb|EFJ63818.1| hypothetical protein HMPREF9553_00034 [Escherichia coli MS 200-1] gi|300358900|gb|EFJ74770.1| conserved hypothetical protein [Escherichia coli MS 198-1] gi|300408750|gb|EFJ92288.1| conserved hypothetical protein [Escherichia coli MS 45-1] gi|305852982|gb|EFM53427.1| 23S rRNA pseudouridylate synthase B [Escherichia coli NC101] gi|307553327|gb|ADN46102.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli ABU 83972] gi|307627157|gb|ADN71461.1| 23S rRNA pseudouridylate synthase B [Escherichia coli UM146] gi|312288267|gb|EFR16169.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 2362-75] gi|312945903|gb|ADR26730.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O83:H1 str. NRG 857C] gi|315289107|gb|EFU48505.1| conserved hypothetical protein [Escherichia coli MS 110-3] gi|315294756|gb|EFU54099.1| conserved hypothetical protein [Escherichia coli MS 153-1] gi|323187500|gb|EFZ72809.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli RN587/1] gi|323949128|gb|EGB45020.1| RNA pseudouridylate synthase [Escherichia coli H252] gi|323953860|gb|EGB49661.1| RNA pseudouridylate synthase [Escherichia coli H263] gi|323964605|gb|EGB60078.1| RNA pseudouridylate synthase [Escherichia coli M863] gi|323977101|gb|EGB72188.1| RNA pseudouridylate synthase [Escherichia coli TW10509] gi|324006121|gb|EGB75340.1| hypothetical protein HMPREF9532_04240 [Escherichia coli MS 57-2] gi|324011320|gb|EGB80539.1| hypothetical protein HMPREF9533_04708 [Escherichia coli MS 60-1] gi|327253958|gb|EGE65587.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli STEC_7v] gi|331045342|gb|EGI17469.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli M605] gi|331061103|gb|EGI33067.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli TA143] gi|331070014|gb|EGI41383.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli TA280] gi|331080385|gb|EGI51564.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli H299] Length = 291 Score = 262 bits (669), Expect = 8e-68, Method: Composition-based stats. Identities = 105/300 (35%), Positives = 148/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V + I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPGLKIRIDGHLISVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + +DR + + R K SQ +G + Sbjct: 242 EL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVSGGRRSGGRN 288 >gi|292488387|ref|YP_003531269.1| ribosomal large subunit pseudouridine synthase B [Erwinia amylovora CFBP1430] gi|292899583|ref|YP_003538952.1| ribosomal large subunit pseudouridine synthase B [Erwinia amylovora ATCC 49946] gi|291199431|emb|CBJ46548.1| ribosomal large subunit pseudouridine synthase B [Erwinia amylovora ATCC 49946] gi|291553816|emb|CBA20861.1| ribosomal large subunit pseudouridine synthase B [Erwinia amylovora CFBP1430] gi|312172530|emb|CBX80786.1| ribosomal large subunit pseudouridine synthase B [Erwinia amylovora ATCC BAA-2158] Length = 295 Score = 262 bits (669), Expect = 8e-68, Method: Composition-based stats. Identities = 104/302 (34%), Positives = 147/302 (48%), Gaps = 22/302 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E MI+ RV V+G L V I +DG + + Sbjct: 2 SEKLQKVLARAGHGSRREIETMISAGRVSVDGKLAT-LGDRVEPAASLKIRIDGHVVPVS 60 Query: 71 ERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLT 125 E R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 61 ESISEVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR G VD DK+ LL +G+ ++ + +G Sbjct: 121 TDGELANRLMHPSREVEREYAVRVFGAVDDDKIKLLSRGVQLEDGPAAFKTLKFTGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKIL 241 N W V L EG+NRE+++++E +V+RLIRI YG L L G E+ L Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRIRYGDIDLPKGLPRGGWTELDLAPTNYL 240 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 RE +G L S + +DR + + + S ++ Sbjct: 241 RELVG----------LAPETVSKVPVEKDRRRTKANQIRRAVKRHTTTKVSKPGSGRRPS 290 Query: 302 AT 303 Sbjct: 291 KR 292 >gi|189463704|ref|ZP_03012489.1| hypothetical protein BACINT_00037 [Bacteroides intestinalis DSM 17393] gi|189438654|gb|EDV07639.1| hypothetical protein BACINT_00037 [Bacteroides intestinalis DSM 17393] Length = 234 Score = 262 bits (669), Expect = 8e-68, Method: Composition-based stats. Identities = 70/226 (30%), Positives = 107/226 (47%), Gaps = 3/226 (1%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLW 76 +K +A AG+ SRRE + I V VNG ++ + D ++ P+ ER Sbjct: 2 NKFLANAGVCSRREADEFITAGVVSVNGAVVTELGTKIKRGDEVKFHDQPVS-IERKIYI 60 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L +KP VTT DP R TV D + R+ VGRLD NT G+LLLTNDG LA L Sbjct: 61 LLNKPKDTVTTSDDPQARRTVMDLVKGACDERIYPVGRLDRNTTGVLLLTNDGDLASKLT 120 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 P ++Y V V + ++ + GI + ++ T V + + Sbjct: 121 HPKFLKKKIYHVHTDKNVTKADMDQIAAGIQLDDGEIHADAISY-TDDVRRDEVGIEIHS 179 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 GKNR ++++FE +KV +L R+ + L G R +S++ + Sbjct: 180 GKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLSEQEV 225 >gi|261868654|ref|YP_003256576.1| ribosomal small subunit pseudouridine synthase A [Aggregatibacter actinomycetemcomitans D11S-1] gi|261413986|gb|ACX83357.1| ribosomal small subunit pseudouridine synthase A [Aggregatibacter actinomycetemcomitans D11S-1] Length = 233 Score = 262 bits (669), Expect = 8e-68, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 105/230 (45%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R + + + Q V +NG + + A V D I DG L + Sbjct: 1 MRLDKFLAEHTGLTRSQATKALRQSAVTINGKIEKSGATKVSPQDAIYFDGELLTWLDVG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + +++KP G V +H D D +++ S R+ S GRLDI+T GL+LLT+DG + Sbjct: 61 QYLMFNKPQGYVCSH-DEDEHPSIYQFFDYPLSARLHSAGRLDIDTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+ + + +GI+++G L+ N V + Sbjct: 120 RVTSPKHHQPKTYLVTLADPVEANYVQACAEGILLRGEKDPTKPAVLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G L L G R ++ + + Sbjct: 178 ISEGRYHQVKRMFAALGNKVLGLHRWKIGNLTLDDNLAEGDFRVLNAEEI 227 >gi|289428195|ref|ZP_06429891.1| pseudouridylate synthase [Propionibacterium acnes J165] gi|295130922|ref|YP_003581585.1| pseudouridylate synthase [Propionibacterium acnes SK137] gi|289158576|gb|EFD06783.1| pseudouridylate synthase [Propionibacterium acnes J165] gi|291375273|gb|ADD99127.1| pseudouridylate synthase [Propionibacterium acnes SK137] gi|313764054|gb|EFS35418.1| conserved hypothetical protein [Propionibacterium acnes HL013PA1] gi|313771915|gb|EFS37881.1| conserved hypothetical protein [Propionibacterium acnes HL074PA1] gi|313807148|gb|EFS45643.1| conserved hypothetical protein [Propionibacterium acnes HL087PA2] gi|313809640|gb|EFS47376.1| conserved hypothetical protein [Propionibacterium acnes HL083PA1] gi|313816404|gb|EFS54118.1| conserved hypothetical protein [Propionibacterium acnes HL059PA1] gi|313819344|gb|EFS57058.1| conserved hypothetical protein [Propionibacterium acnes HL046PA2] gi|313819993|gb|EFS57707.1| conserved hypothetical protein [Propionibacterium acnes HL036PA1] gi|313823215|gb|EFS60929.1| conserved hypothetical protein [Propionibacterium acnes HL036PA2] gi|313824997|gb|EFS62711.1| conserved hypothetical protein [Propionibacterium acnes HL063PA1] gi|313827299|gb|EFS65013.1| conserved hypothetical protein [Propionibacterium acnes HL063PA2] gi|313829960|gb|EFS67674.1| conserved hypothetical protein [Propionibacterium acnes HL007PA1] gi|313833036|gb|EFS70750.1| conserved hypothetical protein [Propionibacterium acnes HL056PA1] gi|314914915|gb|EFS78746.1| conserved hypothetical protein [Propionibacterium acnes HL005PA4] gi|314917860|gb|EFS81691.1| conserved hypothetical protein [Propionibacterium acnes HL050PA1] gi|314919749|gb|EFS83580.1| conserved hypothetical protein [Propionibacterium acnes HL050PA3] gi|314924832|gb|EFS88663.1| conserved hypothetical protein [Propionibacterium acnes HL036PA3] gi|314930009|gb|EFS93840.1| conserved hypothetical protein [Propionibacterium acnes HL067PA1] gi|314956415|gb|EFT00727.1| conserved hypothetical protein [Propionibacterium acnes HL027PA1] gi|314957284|gb|EFT01387.1| conserved hypothetical protein [Propionibacterium acnes HL002PA1] gi|314960611|gb|EFT04713.1| conserved hypothetical protein [Propionibacterium acnes HL002PA2] gi|314967733|gb|EFT11832.1| conserved hypothetical protein [Propionibacterium acnes HL037PA1] gi|314972874|gb|EFT16971.1| conserved hypothetical protein [Propionibacterium acnes HL053PA1] gi|314975703|gb|EFT19798.1| conserved hypothetical protein [Propionibacterium acnes HL045PA1] gi|314978089|gb|EFT22183.1| conserved hypothetical protein [Propionibacterium acnes HL072PA2] gi|314984113|gb|EFT28205.1| conserved hypothetical protein [Propionibacterium acnes HL005PA1] gi|314986250|gb|EFT30342.1| conserved hypothetical protein [Propionibacterium acnes HL005PA2] gi|314989536|gb|EFT33627.1| conserved hypothetical protein [Propionibacterium acnes HL005PA3] gi|315080909|gb|EFT52885.1| conserved hypothetical protein [Propionibacterium acnes HL078PA1] gi|315084832|gb|EFT56808.1| conserved hypothetical protein [Propionibacterium acnes HL027PA2] gi|315086005|gb|EFT57981.1| conserved hypothetical protein [Propionibacterium acnes HL002PA3] gi|315088276|gb|EFT60252.1| conserved hypothetical protein [Propionibacterium acnes HL072PA1] gi|315095697|gb|EFT67673.1| conserved hypothetical protein [Propionibacterium acnes HL038PA1] gi|315098205|gb|EFT70181.1| conserved hypothetical protein [Propionibacterium acnes HL059PA2] gi|315101641|gb|EFT73617.1| conserved hypothetical protein [Propionibacterium acnes HL046PA1] gi|315109460|gb|EFT81436.1| conserved hypothetical protein [Propionibacterium acnes HL030PA2] gi|327327900|gb|EGE69674.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes HL096PA3] gi|327330039|gb|EGE71792.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes HL096PA2] gi|327442730|gb|EGE89384.1| hypothetical protein HMPREF9570_02678 [Propionibacterium acnes HL043PA1] gi|327443872|gb|EGE90526.1| hypothetical protein HMPREF9571_02471 [Propionibacterium acnes HL043PA2] gi|327443940|gb|EGE90594.1| hypothetical protein HMPREF9568_01854 [Propionibacterium acnes HL013PA2] gi|327452345|gb|EGE98999.1| hypothetical protein HMPREF9581_01384 [Propionibacterium acnes HL087PA3] gi|327452780|gb|EGE99434.1| hypothetical protein HMPREF9586_02253 [Propionibacterium acnes HL083PA2] gi|328752647|gb|EGF66263.1| hypothetical protein HMPREF9588_02444 [Propionibacterium acnes HL025PA2] gi|328753801|gb|EGF67417.1| hypothetical protein HMPREF9579_01456 [Propionibacterium acnes HL087PA1] gi|328755029|gb|EGF68645.1| hypothetical protein HMPREF9563_01406 [Propionibacterium acnes HL020PA1] gi|328761441|gb|EGF74967.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes HL099PA1] gi|332675803|gb|AEE72619.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes 266] Length = 245 Score = 262 bits (669), Expect = 8e-68, Method: Composition-based stats. Identities = 88/239 (36%), Positives = 127/239 (53%), Gaps = 4/239 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 N R+ KV+A+AG+ASRR E MIA RV+VNG L+ V D I VDG + Sbjct: 3 NEQGIRLQKVLAQAGLASRRAAEDMIAAGRVEVNGELIVEQGRRVDPERDEIRVDGSRIP 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDN--LPSIFSRVISVGRLDINTEGLLLLTN 126 A R ++ +KP G+V+T DP+GR + D +P R+ VGRLD T GL+LLTN Sbjct: 63 TARRHVYYVLNKPQGVVSTMDDPEGRPCLSDLEGVPRGI-RLFHVGRLDTETSGLILLTN 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + PS + L+ Y G+VD + L KG+ ++ V L + Sbjct: 122 DGEFANRMTHPSYKVLKTYLADVEGRVDDKVIRRLSKGLTLEDGPVKPDAVRLVQAGEEH 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + V V L EG+NR ++++ + V RL R + GP +L L G RE++ + L + L Sbjct: 182 SLVEVSLHEGRNRIVRRIMDSVAHPVRRLSRTAIGPVRLKRLGRGDMRELTHEELGQLL 240 >gi|315604212|ref|ZP_07879278.1| ribosomal large subunit pseudouridine synthase B [Actinomyces sp. oral taxon 180 str. F0310] gi|315313918|gb|EFU61969.1| ribosomal large subunit pseudouridine synthase B [Actinomyces sp. oral taxon 180 str. F0310] Length = 249 Score = 262 bits (669), Expect = 8e-68, Method: Composition-based stats. Identities = 91/234 (38%), Positives = 124/234 (52%), Gaps = 2/234 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAE-R 72 R+ KV+A+AGIASRR E+MIA RV V+G ++ V V T I VDG L E + Sbjct: 12 RLQKVLAQAGIASRRASEQMIADGRVSVDGTVVRTQGVRVDPATQVIHVDGERLILDEAK 71 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KPIG V+T SDP+GR T+ D + R+ VGRLDI+T GLLLLTNDG LA Sbjct: 72 HIVLAVNKPIGTVSTMSDPEGRPTIADLIADYPERLYHVGRLDIDTSGLLLLTNDGELAN 131 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y R HG+V L GI ++ L G V + Sbjct: 132 RLTHPSYEIRKTYVARLHGEVKPGVRRRLLAGIELEDGPIAVDSFRLVDTYGDITTVEIV 191 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EG+NR ++++ E + V L+R +GP L L G+TR + L G Sbjct: 192 VHEGRNRLVRRMMEAVGYPVRELVRTGFGPISLDHLKQGTTRRIKGNALTALYG 245 >gi|239906975|ref|YP_002953716.1| pseudouridine synthase [Desulfovibrio magneticus RS-1] gi|239796841|dbj|BAH75830.1| pseudouridine synthase [Desulfovibrio magneticus RS-1] Length = 322 Score = 262 bits (669), Expect = 8e-68, Method: Composition-based stats. Identities = 96/304 (31%), Positives = 145/304 (47%), Gaps = 12/304 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR-KAER 72 R++K +A AG+ SRR + +IA RV VNG ++ A + + D + VDG P+ E Sbjct: 10 RINKALASAGVCSRRHADDLIAAGRVTVNGAVVTEAGLRIDPARDALAVDGAPVNLAPEI 69 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 HK G+VTT SDP+GR TVFD LP ++ R+ VGRLD +EGLLLLT DG L Sbjct: 70 PITLALHKKPGVVTTASDPEGRPTVFDGLPEVWRGKRLFPVGRLDFFSEGLLLLTTDGEL 129 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTL-DTQKGSNAW 188 A L P + YRV GQV D L + +G+ + +G + + + + Sbjct: 130 ALRLTHPRWHVPKRYRVTVRGQVTPDMLGTMARGMRLAEGERLAPVAARVVEGPAQDRSI 189 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + L +G NR+I+++ V RL R+S GP LG L G+ RE++ L Sbjct: 190 LEMELHQGVNRQIRRMCRDLGLTVLRLARVSQGPVALGDLPLGACRELTPAEL------A 243 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 L ++ DA + + R ++ P R + ++ RR Sbjct: 244 TLRQSVGLDDADVAPAPPRPRPTAEGDTKRPPRPARPPQAGGKRPATKASGGETETGPRR 303 Query: 309 NLAS 312 + S Sbjct: 304 DGQS 307 >gi|229087098|ref|ZP_04219248.1| RNA pseudouridine synthase [Bacillus cereus Rock3-44] gi|228696166|gb|EEL49001.1| RNA pseudouridine synthase [Bacillus cereus Rock3-44] Length = 229 Score = 262 bits (669), Expect = 9e-68, Method: Composition-based stats. Identities = 65/234 (27%), Positives = 117/234 (50%), Gaps = 10/234 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++++ I++A SRRE +R+I RV +NG + A+ V + D + +DG + K + Sbjct: 1 MKINQFISKALSCSRRETDRLIKANRVAINGEICTHGAL-VAADDIVSIDGKTIEKEAKE 59 Query: 74 R-LWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KIYIAFHKPVGITCTAAEHIEGNIIEYINHPE---RIFPVGRLDKASEGLILLTNDGAIA 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V ++ + +G+ I+ +VT ++ + Sbjct: 117 NQILHGDHEHEKEYIVTVDKPFTDWFIDSMSRGVKIKDGMTKPCKVT----GVDHSTFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L +G NR+I+++ F + V +L R+ L L G R VS++ L E + Sbjct: 173 VLTQGMNRQIRRMSRAFGYTVTKLKRVRIMNITLDGLEVGEWRNVSEQELIELM 226 >gi|117623529|ref|YP_852442.1| 23S rRNA pseudouridylate synthase B [Escherichia coli APEC O1] gi|115512653|gb|ABJ00728.1| 23S rRNA pseudouridylate synthase [Escherichia coli APEC O1] Length = 291 Score = 262 bits (669), Expect = 9e-68, Method: Composition-based stats. Identities = 104/300 (34%), Positives = 148/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ K++ARAG SRRE+E +I RV V+G + + V + I +DG + E Sbjct: 2 SEKLQKLLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPGLKIRIDGHLISVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + +DR + + R K SQ +G + Sbjct: 242 EL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVSGGRRSGGRN 288 >gi|291528900|emb|CBK94486.1| ribosomal small subunit pseudouridine synthase A [Eubacterium rectale M104/1] Length = 240 Score = 262 bits (669), Expect = 9e-68, Method: Composition-based stats. Identities = 72/231 (31%), Positives = 126/231 (54%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K ++ G+ +R EV+++I ++ +NG + + V + D + V+G ++ +R Sbjct: 2 IRLDKFLSEMGLGTRSEVKKLIKTGQIAINGTVAAKPETKVDTDADEVSVNGRIVKY-QR 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L++KP G V+ SD + TV D + ++ + VGRLDI+TEGLLL+TNDG L+ Sbjct: 61 YEYYLFNKPSGCVSATSD-NVHDTVMDYITDAVHDDLFPVGRLDIDTEGLLLITNDGALS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L PS + Y R G+V D + K+GI I + ++ + + GS + + Sbjct: 120 HELLSPSKHVAKTYYARIDGEVTLDDIIRFKEGIDIGEERPTKPAELVI-KKSGSVSEIE 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 + + EGK ++K++FE +V L RIS GP +L L G+ R +++ Sbjct: 179 LTITEGKFHQVKRMFEALGKRVIYLKRISMGPLKLPDDLKTGTYRALTQAE 229 >gi|315500441|ref|YP_004089244.1| RNA-binding s4 domain protein [Asticcacaulis excentricus CB 48] gi|315418453|gb|ADU15093.1| RNA-binding S4 domain protein [Asticcacaulis excentricus CB 48] Length = 658 Score = 262 bits (669), Expect = 9e-68, Method: Composition-based stats. Identities = 143/328 (43%), Positives = 198/328 (60%), Gaps = 7/328 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++KV+ARAG+ASRREVER+I ++ VNG LL+ A V D I V+G P+RKAE T Sbjct: 46 ERIAKVLARAGLASRREVERLIGLGKIAVNGRLLDTPATTVSPDDLITVEGKPIRKAEPT 105 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+W YHKP+GL+TTH DP GR TVF++LP RVISVGRLDIN+EGLLLLTNDG LAR Sbjct: 106 RVWRYHKPVGLMTTHQDPQGRPTVFNSLPQELPRVISVGRLDINSEGLLLLTNDGELARA 165 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS-----NAW 188 LELP+T W RVYRVR G+ Q+ L+ LK G+ ++G+ YG ++ LD + N W Sbjct: 166 LELPTTGWTRVYRVRALGRTTQEALDTLKTGVTVEGVQYGPIEAKLDKAQEKADGRANLW 225 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +TV L EGKNRE++KV + KVNRLIR++YGPFQLG + G E+ +++RE LG Sbjct: 226 ITVSLNEGKNREVRKVLDSLGLKVNRLIRLAYGPFQLGDIEPGEVEEIGPRVVRELLGDK 285 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 + + + + T +R R P R + ++++ P+ R Sbjct: 286 IDPRNLPSEN--ETQTRTPMRLRRTDGEGAPRTGRRGGGDRFASKSEGREERRERPLSRD 343 Query: 309 NLASNVWMAKGIHSSFLSDSGQREENHR 336 + AK + + E + + Sbjct: 344 EAFRRKYEAKEFGERDFDERPRFEGDGQ 371 >gi|324113141|gb|EGC07116.1| RNA pseudouridylate synthase [Escherichia fergusonii B253] gi|325497457|gb|EGC95316.1| 23S rRNA pseudouridylate synthase B [Escherichia fergusonii ECD227] Length = 290 Score = 261 bits (668), Expect = 9e-68, Method: Composition-based stats. Identities = 105/300 (35%), Positives = 148/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V + I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPGLKIRIDGHLISVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + +DR + + R K SQ +G + Sbjct: 242 EL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVSGGRRSGGRN 288 >gi|161503173|ref|YP_001570285.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980] gi|160864520|gb|ABX21143.1| hypothetical protein SARI_01241 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:--] Length = 291 Score = 261 bits (668), Expect = 9e-68, Method: Composition-based stats. Identities = 105/300 (35%), Positives = 147/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD+ KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDESKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILLPKGLPRGGWAELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 + V L S + +DR + + R K SQ G + Sbjct: 242 DL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQMAGGRRSGGRN 288 >gi|16765063|ref|NP_460678.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|29142068|ref|NP_805410.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|56413355|ref|YP_150430.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|161613791|ref|YP_001587756.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|167993774|ref|ZP_02574867.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|168230158|ref|ZP_02655216.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|168237772|ref|ZP_02662830.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|168241298|ref|ZP_02666230.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|168260059|ref|ZP_02682032.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|168462806|ref|ZP_02696737.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|168819542|ref|ZP_02831542.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|194444498|ref|YP_002040973.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194451051|ref|YP_002045766.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194471762|ref|ZP_03077746.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194733904|ref|YP_002114751.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|197249960|ref|YP_002146307.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197265930|ref|ZP_03166004.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197362279|ref|YP_002141916.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|198242127|ref|YP_002215422.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|200389338|ref|ZP_03215949.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|205352607|ref|YP_002226408.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|207856768|ref|YP_002243419.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|213163149|ref|ZP_03348859.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E00-7866] gi|213421199|ref|ZP_03354265.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] gi|213424436|ref|ZP_03357249.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E02-1180] gi|213582563|ref|ZP_03364389.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] gi|213649101|ref|ZP_03379154.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. J185] gi|213855225|ref|ZP_03383465.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. M223] gi|224583789|ref|YP_002637587.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|238911889|ref|ZP_04655726.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] gi|289829089|ref|ZP_06546769.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E98-3139] gi|34098653|sp|Q8ZP51|RLUB_SALTY RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|16420249|gb|AAL20637.1| putative ribosomal large subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|29137697|gb|AAO69259.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|56127612|gb|AAV77118.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|161363155|gb|ABX66923.1| hypothetical protein SPAB_01525 [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|194403161|gb|ACF63383.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194409355|gb|ACF69574.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194458126|gb|EDX46965.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194709406|gb|ACF88627.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|195634468|gb|EDX52820.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|197093756|emb|CAR59230.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|197213663|gb|ACH51060.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197244185|gb|EDY26805.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197289238|gb|EDY28605.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|197936643|gb|ACH73976.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|199601783|gb|EDZ00329.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|205272388|emb|CAR37268.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205328271|gb|EDZ15035.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|205335319|gb|EDZ22083.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|205339577|gb|EDZ26341.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|205343695|gb|EDZ30459.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|205350643|gb|EDZ37274.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|206708571|emb|CAR32892.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|224468316|gb|ACN46146.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|261246909|emb|CBG24726.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. D23580] gi|267993665|gb|ACY88550.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S] gi|301158247|emb|CBW17746.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344] gi|312912712|dbj|BAJ36686.1| 23S rRNA pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhimurium str. T000240] gi|320085782|emb|CBY95558.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1] gi|321224350|gb|EFX49413.1| Ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhimurium str. TN061786] gi|322614978|gb|EFY11903.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 315996572] gi|322621428|gb|EFY18282.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-1] gi|322623230|gb|EFY20072.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-3] gi|322628520|gb|EFY25308.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-4] gi|322633684|gb|EFY30424.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-1] gi|322638508|gb|EFY35203.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-2] gi|322640822|gb|EFY37471.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 531954] gi|322645314|gb|EFY41842.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. NC_MB110209-0054] gi|322651803|gb|EFY48175.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. OH_2009072675] gi|322654300|gb|EFY50622.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. CASC_09SCPH15965] gi|322659265|gb|EFY55513.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] gi|322662733|gb|EFY58940.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 81038-01] gi|322667656|gb|EFY63816.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. MD_MDA09249507] gi|322671930|gb|EFY68051.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 414877] gi|322677024|gb|EFY73088.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 366867] gi|322680314|gb|EFY76353.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 413180] gi|322685257|gb|EFY81253.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 446600] gi|323129991|gb|ADX17421.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhimurium str. 4/74] gi|323195433|gb|EFZ80612.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 609458-1] gi|323199316|gb|EFZ84410.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 556150-1] gi|323204774|gb|EFZ89770.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 609460] gi|323205930|gb|EFZ90893.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 507440-20] gi|323217255|gb|EGA01976.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. MB101509-0077] gi|323220712|gb|EGA05157.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. MB102109-0047] gi|323227964|gb|EGA12116.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. MB110209-0055] gi|323232119|gb|EGA16226.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. MB111609-0052] gi|323234646|gb|EGA18733.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 2009083312] gi|323238098|gb|EGA22157.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 2009085258] gi|323243298|gb|EGA27317.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 315731156] gi|323248445|gb|EGA32380.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2009159199] gi|323252551|gb|EGA36394.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008282] gi|323255424|gb|EGA39190.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008283] gi|323260826|gb|EGA44428.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008284] gi|323267587|gb|EGA51070.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008285] gi|323270947|gb|EGA54383.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008287] gi|326623169|gb|EGE29514.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Dublin str. 3246] gi|326627671|gb|EGE34014.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Gallinarum str. 9] gi|332988608|gb|AEF07591.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhimurium str. UK-1] Length = 291 Score = 261 bits (668), Expect = 9e-68, Method: Composition-based stats. Identities = 104/297 (35%), Positives = 145/297 (48%), Gaps = 17/297 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD+ KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDESKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELD-------L 234 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 V L S + +DR + + R K SQ G + Sbjct: 235 AQTNYLRGLVELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQIAGGRRSGGRN 288 >gi|307130978|ref|YP_003882994.1| 23S rRNA pseudouridylate synthase [Dickeya dadantii 3937] gi|306528507|gb|ADM98437.1| 23S rRNA pseudouridylate synthase [Dickeya dadantii 3937] Length = 296 Score = 261 bits (668), Expect = 9e-68, Method: Composition-based stats. Identities = 107/307 (34%), Positives = 152/307 (49%), Gaps = 23/307 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MI R+ V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESMIEAGRISVDGKIATLGDRVEVTRATKIRIDGHVVSVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ +Y+KP G + T SDP+GR TVFD LP R ++VGRLD+NT GLLL T Sbjct: 62 TEESVCRVLMYYKPEGELCTRSDPEGRPTVFDRLPRIQGYRWVAVGRLDVNTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G+V DK+ L KG+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGEVGDDKIRQLSKGVQLEDGPAAFRSIRYQGGEGLN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE--VSK-KILR 242 W V L EG+NRE+++++E + +V+RLIR+ YG QL L G E ++ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVDVQVSRLIRVRYGDIQLPKGLPRGGWMEMGLTDVNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + R+R + + R K SQ ++ Sbjct: 242 EL----------VQLTPETVSKLPVERERRRVKAN---QIRRAVKRHSQVGVSNRPASGR 288 Query: 303 TPVHRRN 309 +RN Sbjct: 289 RSAPKRN 295 >gi|171742924|ref|ZP_02918731.1| hypothetical protein BIFDEN_02041 [Bifidobacterium dentium ATCC 27678] gi|283456055|ref|YP_003360619.1| RNA pseudouridylate synthase [Bifidobacterium dentium Bd1] gi|171278538|gb|EDT46199.1| hypothetical protein BIFDEN_02041 [Bifidobacterium dentium ATCC 27678] gi|283102689|gb|ADB09795.1| RNA pseudouridylate synthase [Bifidobacterium dentium Bd1] Length = 257 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 68/237 (28%), Positives = 117/237 (49%), Gaps = 2/237 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 N R+ K++A+AG SRR+ E +I RV+++G L+ V + VDG +R Sbjct: 15 NNEGIRLQKLLAQAGFGSRRKCEEIITDGRVEIDGELITELGTRVDPKHQEVRVDGSRVR 74 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TNDG Sbjct: 75 VNPNHVTLALNKPKRVLSAMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTNDG 134 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNA 187 L++ + P + + Y G++ L G+ + + + + Sbjct: 135 ELSQHIMHPKYEVEKTYIATLDGRISGTVCRRLVTTGVQLDDGWIKLDRCAILDSSRDST 194 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L GKNR ++++F + V RL+R GP +LG L +G+ R +S+ +R Sbjct: 195 LVKVVLHSGKNRIVRRIFGSIGFPVRRLVRTQIGPIKLGDLKSGTYRVLSQVEVRSL 251 >gi|301156469|emb|CBW15940.1| 16S rRNA pseudouridylate 516 synthase [Haemophilus parainfluenzae T3T1] Length = 232 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 63/229 (27%), Positives = 109/229 (47%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ A V D I + L E Sbjct: 1 MRLDKFIAENTGLTRSQATKAIRQSAVKINGEIVKNGATKVSLEDEIYFEDELLPWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ HKP G V +H D D + P + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGYVCSHDDGDYPTIYQFFEPPLSGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P Q + Y V V+ + ++GI+++G L+ N V + + Sbjct: 121 ITSPKHQCEKTYLVTLADPVENHYASACEEGILLRGEKEPTKPAKLEVLDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F KV L R G +L +L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAALGNKVVALHRWRIGNVELDESLEEGEFRPLTQEEI 227 >gi|256829185|ref|YP_003157913.1| pseudouridine synthase [Desulfomicrobium baculatum DSM 4028] gi|256578361|gb|ACU89497.1| pseudouridine synthase [Desulfomicrobium baculatum DSM 4028] Length = 250 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 82/244 (33%), Positives = 128/244 (52%), Gaps = 7/244 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 + EN +P R++K +A AGIASRR + +I RV VNG++ V+ D + +G Sbjct: 1 MPEN-SPVRLNKYLADAGIASRRGADALIQGGRVCVNGLIQREPGTRVIPGQDTVLCNGA 59 Query: 66 PLRKAE--RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGL 121 P+ + + + HKP+ VTT +DP GR TV D LP R+ VGRLD +EGL Sbjct: 60 PVSAKQNAPSSYIMLHKPVHTVTTVNDPQGRKTVVDLLPEELRTLRLFPVGRLDYMSEGL 119 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLD 180 LLLTNDG + L PS + + Y V V + L ++++G+ + +G ++V Sbjct: 120 LLLTNDGEVTLRLTHPSYEHPKKYEVLVREAVTEKSLGIMRQGMRLQEGERLAPVEVESA 179 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + G + + LR+G NR+I+++ + RL RI GP LG L G R ++ Sbjct: 180 SDAGGATLLRMTLRQGVNRQIRRMCRDLGLTILRLRRIELGPLFLGNLEPGKWRALTDAE 239 Query: 241 LREQ 244 ++ Sbjct: 240 IKTL 243 >gi|165976586|ref|YP_001652179.1| pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|303250091|ref|ZP_07336293.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|303253264|ref|ZP_07339413.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|307246075|ref|ZP_07528157.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|307248183|ref|ZP_07530211.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|307259493|ref|ZP_07541218.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 11 str. 56153] gi|165876687|gb|ABY69735.1| probable pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|302647946|gb|EFL78153.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|302651154|gb|EFL81308.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|306853010|gb|EFM85233.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|306855360|gb|EFM87535.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|306866429|gb|EFM98292.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 11 str. 56153] Length = 349 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 107/288 (37%), Positives = 154/288 (53%), Gaps = 12/288 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 64 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 123 Query: 67 LR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGL 121 + + E R+ +Y+KP G + T SDP+GR+TVFD LP +R I+VGRLDINT GL Sbjct: 124 ISLIPVQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGARWIAVGRLDINTSGL 183 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR G +D+ L L+KG+ ++ Q+ Sbjct: 184 LLFTTDGELANRLMHPSREVEREYSVRVFGNIDEAMLQRLRKGVQLEDGPANFKQIKTVG 243 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 244 GTGLNQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKGLPRGGWEEMGLEQ 303 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G L E + +D T +R + + T+ Sbjct: 304 VNYLRELVG--LPAETETKVDVTKNRRRTNIRQIRKAVKQHSKYRTKA 349 >gi|225352118|ref|ZP_03743141.1| hypothetical protein BIFPSEUDO_03733 [Bifidobacterium pseudocatenulatum DSM 20438] gi|225157365|gb|EEG70704.1| hypothetical protein BIFPSEUDO_03733 [Bifidobacterium pseudocatenulatum DSM 20438] Length = 257 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 68/237 (28%), Positives = 118/237 (49%), Gaps = 2/237 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 + R+ K++A+AG SRR+ E +I + RV+++G L+ V + VDG +R Sbjct: 15 DNEGIRLQKLLAQAGFGSRRKCEEIITEGRVEIDGELVTELGTRVDPKHQEVRVDGSRVR 74 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TNDG Sbjct: 75 VNPNHVTLALNKPKRVLSAMEDPKGRYTLSDIVGDKYDRIFHMGRLDYDSEGLILMTNDG 134 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNA 187 L++ + P + + Y G++ L G+ + + + + Sbjct: 135 ELSQHVMHPKYEVEKTYIATLEGRISGQVCRRLVTTGVQLDDGWIKLDRCAILDASRDST 194 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L GKNR ++++F + V RL+R GP +LG L +GS R +S+ +R Sbjct: 195 LVKVVLHSGKNRIVRRIFGSIGFPVKRLVRTQIGPIKLGDLKSGSYRVLSQTEVRSL 251 >gi|125718847|ref|YP_001035980.1| 16S rRNA uridine-516 pseudouridylate synthase [Streptococcus sanguinis SK36] gi|125498764|gb|ABN45430.1| 16S rRNA uridine-516 pseudouridylate synthase, putative [Streptococcus sanguinis SK36] Length = 242 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 73/244 (29%), Positives = 118/244 (48%), Gaps = 10/244 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L E+ Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIIVSGQRLTY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D + TV D L + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATEDDQHK-TVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A + P + YR + G + Q + GI ++ Q+ + + + Sbjct: 119 AHAMLSPKKHVEKTYRAQVAGLMKQADVERFAAGIELKDFTCQPAQLKILELDEAKETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL--REQL 245 V + L EGK ++K++ +V L R++ GP QL L G R ++++ + E L Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLAMGPLQLDPALALGEWRRLTEEEILSLEIL 238 Query: 246 GPHL 249 G L Sbjct: 239 GVEL 242 >gi|121533339|ref|ZP_01665167.1| pseudouridine synthase [Thermosinus carboxydivorans Nor1] gi|121307898|gb|EAX48812.1| pseudouridine synthase [Thermosinus carboxydivorans Nor1] Length = 245 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 78/235 (33%), Positives = 115/235 (48%), Gaps = 8/235 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 QR+ KV+A G SRRE+++M+ +RV VNG ++ ++V D IEVDG P+ Sbjct: 5 ERQRLDKVLAHLGYGSRREIKKMVKAERVIVNGAVVRDPELHVFPWQDRIEVDGEPIHYR 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDG 128 E + +KP G+++ D G+ V D L VGRLD +TEGLLLLTNDG Sbjct: 65 E-YIYLMMNKPQGVLSATEDAAGK-VVVDLLRPEHKAFAPFPVGRLDKDTEGLLLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNA 187 LA L P + Y R G V + + GI + G ++T+ G + Sbjct: 123 QLAHRLLAPKKHVPKRYYARVKGVVTDEDKGAFQAGITLDDGYRTLPAELTIL-HAGPVS 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V + + EGK ++K++F V L R++ G L L G RE++ L Sbjct: 182 EVELVIYEGKFHQVKRMFAARGKTVTYLKRLAMGALVLDEKLAPGEYRELTADEL 236 >gi|332288671|ref|YP_004419523.1| 16S rRNA pseudouridylate synthase A [Gallibacterium anatis UMN179] gi|330431567|gb|AEC16626.1| 16S rRNA pseudouridylate synthase A [Gallibacterium anatis UMN179] Length = 234 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 65/234 (27%), Positives = 109/234 (46%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ K ++ SR + + + Q VKVN L++ A+ V D +E DG L Sbjct: 3 QRLDKFLSEYTGLSRSQATKALRQNLVKVNQQLVKDGALKVSPEDVVEFDGETLEWVSGN 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 + +L +KP G V +H D + TV+ SR+ + GRLD++T GL+LLT+DG + Sbjct: 63 QYFLLYKPEGYVCSHDDGEY-PTVYQFFDYPLSSRLHTAGRLDVDTTGLVLLTDDGQWSH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y V V+ L +GI+++G ++ N + + Sbjct: 122 RITSPKYHYKKTYLVTLAAPVEDFYLEQCAQGILLRGEKQPTKPAQIEIIDDYN--LNLT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 + EGK ++K++F KV L R G L L G R ++ ++ L Sbjct: 180 IVEGKYHQVKRMFAALGNKVIALHRWRIGQIILDPQLEEGQYRALTDAEVQSFL 233 >gi|20664188|pdb|1KSK|A Chain A, Structure Of Rsua gi|20664191|pdb|1KSL|A Chain A, Structure Of Rsua gi|20664194|pdb|1KSV|A Chain A, Structure Of Rsua Length = 234 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 59/228 (25%), Positives = 99/228 (43%), Gaps = 3/228 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + R Sbjct: 5 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGPR 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +KP G V + DPD + ++ + ++ + GRLDI+T GL+L T+DG + + Sbjct: 65 YFXLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLXTDDGQWSHRI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + Y V V D KG+ + L+ + V + + Sbjct: 125 TSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEV--ITPTQVRLTIS 182 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K+ F V L R G L L G R ++++ + Sbjct: 183 EGRYHQVKRXFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 230 >gi|187731466|ref|YP_001880099.1| 23S rRNA pseudouridylate synthase B [Shigella boydii CDC 3083-94] gi|187428458|gb|ACD07732.1| ribosomal large subunit pseudouridine synthase B [Shigella boydii CDC 3083-94] Length = 290 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 106/300 (35%), Positives = 148/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKIIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + +DR + + R K SQ +G + Sbjct: 242 EL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVSGGRRSGGRN 288 >gi|62180286|ref|YP_216703.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|62127919|gb|AAX65622.1| putative ribosomal large subunit pseudouridine synthase [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|322714760|gb|EFZ06331.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] Length = 291 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 104/289 (35%), Positives = 144/289 (49%), Gaps = 17/289 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD+ KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDESKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELD-------L 234 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 V L S + +DR + + R K SQ G Sbjct: 235 AQTNYLRGLVELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQIAG 280 >gi|119486449|ref|ZP_01620507.1| hypothetical protein L8106_00605 [Lyngbya sp. PCC 8106] gi|119456351|gb|EAW37482.1| hypothetical protein L8106_00605 [Lyngbya sp. PCC 8106] Length = 250 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 86/240 (35%), Positives = 125/240 (52%), Gaps = 11/240 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++A GIASRR+ E+MI +RV+VNG + S+D IEVDG P++ + R Sbjct: 3 ERLQKIMATWGIASRRQAEQMILAKRVRVNGNIAHLGQKANPSSDDIEVDGKPIKPSHRP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 L +KPIG+V+T +DP GR V D LP + V VGRLD+++ G LLLTNDG Sbjct: 63 VPIYLLLNKPIGVVSTCADPGGRRNVLDLLPRRLQKGQGVHPVGRLDVDSTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-SNA 187 L L P + Y+V G + L ++G+++ +V Q S Sbjct: 123 ELTFRLTHPRHHVPKTYQVWVQGHPPESVLQAWRQGVILSSRKTLSAEVRRLQQSIDSQT 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-----TLLAGSTREVSKKILR 242 + V L EG+NR+I+KV E + V +L R + G QL L G R ++ L Sbjct: 183 LLEVILFEGRNRQIRKVAEQLGYPVVKLHRSAIGSIQLNPPGKPELAPGRYRPLTPSELE 242 >gi|77164554|ref|YP_343079.1| pseudouridine synthase, Rsu [Nitrosococcus oceani ATCC 19707] gi|254433620|ref|ZP_05047128.1| conserved hypothetical protein, putative [Nitrosococcus oceani AFC27] gi|76882868|gb|ABA57549.1| ribosomal large subunit pseudouridine synthase B [Nitrosococcus oceani ATCC 19707] gi|207089953|gb|EDZ67224.1| conserved hypothetical protein, putative [Nitrosococcus oceani AFC27] Length = 268 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 97/266 (36%), Positives = 140/266 (52%), Gaps = 7/266 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ K++AR G+ SRREVE I RV++NGI V D + V+G PL Sbjct: 3 ERLQKILARGGLGSRREVEEWIKAGRVRINGIPAR-LGDKVSDEDQVTVNGRPLSPRRLQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 A +++ LYHKP G + + DP+GR TVF +LP R +SVGRLDINT GLLL T DG Sbjct: 62 APSSQVILYHKPAGEICSRKDPEGRPTVFRSLPRPRQGRWVSVGRLDINTSGLLLFTTDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PSTQ R Y VR G V + L L++G+ ++ ++ +G+N W Sbjct: 122 ELANRLMHPSTQVEREYAVRVLGTVTEVILERLQRGVQLEDGLASFKRILDAGGEGANHW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 V L EG+ RE+++++E +V+RLIRI +GP L L G R + + L Sbjct: 182 YHVILWEGRKREVRRLWESQGIQVSRLIRIRFGPVSLPPGLRMGRWRFLEPSEFKALLEI 241 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPN 273 +E+ ++ + R Sbjct: 242 GGVEQRTTRFQPRSKNNRRGRQGRKQ 267 >gi|257465344|ref|ZP_05629715.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus minor 202] gi|257451004|gb|EEV25047.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus minor 202] Length = 230 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 57/230 (24%), Positives = 106/230 (46%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + + V VN + + +V + + D I DG L + Sbjct: 1 MRLDKFIAENTGLTRSQAAKALKSGLVTVNQKVEKSGSVKISAQDEIRYDGELLEWMDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ +KP G V +H D + TVF + +++ + GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLYKPQGYVCSHDDGEY-PTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+ ++GI+++G + ++ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEDFYAQRFEEGILLRGEREPCLPAKMEVLDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G L L G R +++ + Sbjct: 178 ISEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDEDLQEGEFRPLTEDEM 227 >gi|295399574|ref|ZP_06809556.1| pseudouridine synthase [Geobacillus thermoglucosidasius C56-YS93] gi|312109871|ref|YP_003988187.1| pseudouridine synthase [Geobacillus sp. Y4.1MC1] gi|294979040|gb|EFG54636.1| pseudouridine synthase [Geobacillus thermoglucosidasius C56-YS93] gi|311214972|gb|ADP73576.1| pseudouridine synthase [Geobacillus sp. Y4.1MC1] Length = 240 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 70/233 (30%), Positives = 117/233 (50%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VK++G++++ V + + V G + E Sbjct: 4 RIDKMLANMGFGTRKEVKKLLKSGVVKIDGMIVKDPKTQVNPSEQVVTVRGEEVEYKE-F 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+++ D TV D L VGRLD +TEGLLLLTNDG LA Sbjct: 63 IYLMMNKPPGVISATED-MAEETVIDLLEEEDRVFAPFPVGRLDKDTEGLLLLTNDGQLA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P + Y G+V ++ + + GIV+ G ++ + + G + V Sbjct: 122 HQLLSPKKHVPKTYFAVIDGEVTEEDIESFRHGIVLDDGYKTKPAELIIL-KSGLRSDVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK +IK++F +V L RI GP L +L G RE+++K ++ Sbjct: 181 VTITEGKFHQIKRMFRALGKRVVYLKRIQMGPLALDPSLEVGEYRELTEKEVK 233 >gi|188533752|ref|YP_001907549.1| 23S rRNA pseudouridylate synthase B [Erwinia tasmaniensis Et1/99] gi|188028794|emb|CAO96656.1| Ribosomal large subunit pseudouridine synthase B [Erwinia tasmaniensis Et1/99] Length = 295 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 101/295 (34%), Positives = 151/295 (51%), Gaps = 14/295 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E MI+ RV V+G L V + I +DG + + Sbjct: 2 SEKLQKVLARAGHGSRREIETMISAGRVSVDGKLAT-LGDRVEPSVSLKIRIDGHVVPVS 60 Query: 71 ERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLT 125 E R+ Y+KP G + T +DP+GR TVFD LP +R ++VGRLD+NT GLLL T Sbjct: 61 ESISEVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWVAVGRLDVNTCGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR G VD +K+ L +G+ ++ + +G Sbjct: 121 TDGELANRLMHPSREVEREYAVRVFGAVDDEKIKQLSRGVQLEDGPAAFKTLKFTGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKIL 241 N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIDLPKGLPRGGWTELDLAPTNYL 240 Query: 242 REQLG--PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 RE +G P + + V D + + R + +++S ++ G Sbjct: 241 RELVGLAPETVSKVPVEKDRRRTKTNQIRRAVKRHTTTKVSKPGSGRRSSKRQQG 295 >gi|228967648|ref|ZP_04128669.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar sotto str. T04001] gi|228792024|gb|EEM39605.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar sotto str. T04001] Length = 229 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 64/229 (27%), Positives = 111/229 (48%), Gaps = 8/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAD-HIEDNIIDYI-NYPERIFPVGRLDKASEGLILLTNDGTIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVT----RVDQSTFRII 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTSEEL 222 >gi|229087263|ref|ZP_04219407.1| Pseudouridine synthase [Bacillus cereus Rock3-44] gi|228696053|gb|EEL48894.1| Pseudouridine synthase [Bacillus cereus Rock3-44] Length = 242 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 111/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A +V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKFHVNVEEQEVMIHGEIVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LLLTNDG L Sbjct: 60 FVYLMMHKPQGVISATED-DNHETVVDLLELEDAIFDPFPVGRLDIDTEGFLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 A L P + Y G V + + KG+++ G +T+ + + + Sbjct: 119 AHQLLSPKKHVPKKYYAHVAGIVTEKDVEEFAKGVILDDGYETKPGALTIL-KSDDVSEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 178 ELVITEGKFHQVKRMFEAVEKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >gi|288941903|ref|YP_003444143.1| pseudouridine synthase [Allochromatium vinosum DSM 180] gi|288897275|gb|ADC63111.1| pseudouridine synthase [Allochromatium vinosum DSM 180] Length = 299 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 102/286 (35%), Positives = 147/286 (51%), Gaps = 10/286 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K++A AG+ SRR++E I++ RV+VNG L + D I VDG + Sbjct: 15 DEPVRLQKLLAEAGLGSRRQIEGWISEGRVRVNGQLAK-LGDQATRADRIRVDGRDVTLK 73 Query: 71 ER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 + T++ +YHKP G + T DP+ R TVF LP R I+VGRLDINT GL+L T Sbjct: 74 PKRDSETQIIVYHKPEGELVTRRDPEERPTVFRRLPRPKQGRWIAVGRLDINTSGLILFT 133 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR G+V + L L GI + ++T G+ Sbjct: 134 TDGELANRLMHPSREIEREYSVRILGEVAPETLERLTAGIELDDGPAKFERITDQGGTGA 193 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS---KKIL 241 N W V LREG+NRE+++++E V+RLIRI YG +LG L G+ R ++ + L Sbjct: 194 NHWYNVVLREGRNREVRRLWEAAGCTVSRLIRIRYGNVELGRRLFPGNWRPLTDAERAEL 253 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 G +LE ++ AP + + S + R + Sbjct: 254 MALAGLRVLERPRLRRPAPGAAKPRRPKPDDGSSSGEGLKWGRRSR 299 >gi|240948999|ref|ZP_04753353.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus minor NM305] gi|240296586|gb|EER47204.1| ribosomal small subunit pseudouridine synthase A [Actinobacillus minor NM305] Length = 230 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 57/230 (24%), Positives = 106/230 (46%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + + V VN + + +V + + D I DG L + Sbjct: 1 MRLDKFIAENTGLTRSQAAKALKSGLVTVNQKVEKSGSVKISAQDEIRYDGELLEWMDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ +KP G V +H D + TVF + +++ + GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLYKPQGYVCSHDDGEY-PTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+ ++GI+++G + ++ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEDFYAQRFEEGILLRGEREPCLPAKMEVLDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G L L G R +++ + Sbjct: 178 ISEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDENLQEGEFRPLTEDEM 227 >gi|238763121|ref|ZP_04624087.1| Ribosomal large subunit pseudouridine synthase B [Yersinia kristensenii ATCC 33638] gi|238698620|gb|EEP91371.1| Ribosomal large subunit pseudouridine synthase B [Yersinia kristensenii ATCC 33638] Length = 324 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 105/306 (34%), Positives = 155/306 (50%), Gaps = 23/306 (7%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 + +++ K++ARAG SRRE+E +I Q RV V+G + + V V I +DG Sbjct: 4 KTKVVGEKLQKILARAGHGSRREIETIIQQGRVSVDGKISKLGDRVEVTQATKIRLDGHL 63 Query: 67 LRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGL 121 L E R+ Y+KP G + T +DP+GR TVFD LP SR ++VGRLD+NT GL Sbjct: 64 LSIKESEEAVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGL 123 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR GQ+D +K+ L +G+ ++ ++ Sbjct: 124 LLFTTDGELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTISFQG 183 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ K Sbjct: 184 GEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLKA 243 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 LRE V LD+ S + +DR + + R K ++ G Sbjct: 244 TNYLREL----------VELDSETVSKLPVEKDRRRVKAN---QIRRAVKRHTEVAGRQV 290 Query: 298 QKKLAT 303 + + Sbjct: 291 AGRQGS 296 >gi|237731717|ref|ZP_04562198.1| 23S rRNA pseudouridylate synthase B [Citrobacter sp. 30_2] gi|226907256|gb|EEH93174.1| 23S rRNA pseudouridylate synthase B [Citrobacter sp. 30_2] Length = 291 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 104/300 (34%), Positives = 149/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +IA RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIAAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRDARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E + ++V ++ +DR + + R K SQ + + Sbjct: 242 ELVELKPETTSKVAVE----------KDRRRMKAN---QIRRAVKRHSQVGSSRRPGGRS 288 >gi|37526345|ref|NP_929689.1| 23S rRNA pseudouridylate synthase B [Photorhabdus luminescens subsp. laumondii TTO1] gi|36785776|emb|CAE14826.1| unnamed protein product [Photorhabdus luminescens subsp. laumondii TTO1] Length = 310 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 103/305 (33%), Positives = 145/305 (47%), Gaps = 12/305 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ K++AR+G SRRE+E I Q RV V+G + + V I +DG L E Sbjct: 8 SEKLQKILARSGHGSRREIEGYIQQGRVSVDGKIATLGDRLEVQPATKIRLDGRILNIKE 67 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T DP+GR TVFD LP + SR I+VGRLD+NT GLLL T Sbjct: 68 SQKTVCRVLAYYKPEGELCTRHDPEGRPTVFDRLPKLLGSRWIAVGRLDVNTCGLLLFTT 127 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G+VD KL L KGI ++ + +G N Sbjct: 128 DGELANRLMHPSREVEREYAVRVFGEVDDAKLKQLAKGIQLEEGPASFRTIAFKGGEGMN 187 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ + LR Sbjct: 188 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIGLPKGLPRGGWTELGLEQTNYLR 247 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 + + L EE + + +R + K + Sbjct: 248 QLV--DLNEETVSKVAVGRDQRRLKANQIRRAVKRHAQVASRPSAGKRPGSSRQKAGRTT 305 Query: 303 TPVHR 307 P R Sbjct: 306 APKGR 310 >gi|120554089|ref|YP_958440.1| RNA-binding S4 domain-containing protein [Marinobacter aquaeolei VT8] gi|120323938|gb|ABM18253.1| ribosomal large subunit pseudouridine synthase B [Marinobacter aquaeolei VT8] Length = 328 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 109/309 (35%), Positives = 151/309 (48%), Gaps = 16/309 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+RV K++ARAG+ SRREVE I R+ VNG+ ++ ++D E+DG L + Sbjct: 21 PERVQKLLARAGVGSRREVEGWIEAGRLLVNGVPVQ-PGQKASTSDRFELDGKLLDVSSA 79 Query: 73 ----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ +Y+KP G VT+ DP+GR TVFD LP R IS+GRLDINT GL+L T D Sbjct: 80 AEVVRRVLIYNKPEGEVTSRKDPEGRPTVFDRLPRLKDQRWISIGRLDINTTGLVLFTTD 139 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS+Q R Y VR G+VD + LK+G++++ ++ KG N Sbjct: 140 GELANRLMHPSSQIDREYAVRVFGEVDDAMIERLKEGVLLEDGMAKFTDISPAGGKGMNQ 199 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK---ILRE 243 W V L EG+NRE+++++E +V+RL R+ YGP L + L G E+ +K L Sbjct: 200 WFHVTLLEGRNREVRRLWESQGVRVSRLKRVRYGPIFLPSRLTMGRWEELDQKGVDALSR 259 Query: 244 QLG------PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 +G P Q D S R K S G Sbjct: 260 AVGLGSVAVPQKTPGEQAAHDRKRRKSPGKSLQRTRKGGSWQVADGAPPKARSDSRGKPS 319 Query: 298 QKKLATPVH 306 K P Sbjct: 320 AGKGRKPAR 328 >gi|254494897|ref|ZP_01052309.2| ribosomal large subunit pseudouridine synthase B [Polaribacter sp. MED152] gi|213690479|gb|EAQ41737.2| ribosomal large subunit pseudouridine synthase B [Polaribacter sp. MED152] Length = 302 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 70/295 (23%), Positives = 139/295 (47%), Gaps = 9/295 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K I+ +GI SRRE E+ I + RV +NG + V D +++DG ++ + T Sbjct: 17 LNKYISSSGICSRREAEKFIKEGRVTLNGK-ATQLGNRVTKKDVVKLDGRVVKPKDVTIY 75 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +KP+G+V+T + + V + R+ +GRLD +EGL+ LTNDG + + Sbjct: 76 IALNKPVGIVSTTDGREPNNIVKHI--NYPERLFPIGRLDKPSEGLIFLTNDGDIVNKIL 133 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 + Y V + + +D + + GI I G V +K ++ + L + Sbjct: 134 RAGNNHEKEYFVTVNKSITEDFIEKMGNGIPILGTVTQKCLV----EKVNDKIFKIILTQ 189 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQV 255 G NR+I+++ E+ +++V +L R +LG L G RE++++ + E ++ + Sbjct: 190 GLNRQIRRMCEYLDYEVTKLKRTRIMNVELGYLQTGDWRELTEEEMNEI--NKMISTSSK 247 Query: 256 NLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 +A + + ++ +DF R + + + +K+K + R+ Sbjct: 248 TEEASKIKEKPKAKKPKKKLAPTKNDFNRKSASFRKSSPKNKRKNTSFSSKRKRR 302 >gi|295090937|emb|CBK77044.1| ribosomal large subunit pseudouridine synthase F [Clostridium cf. saccharolyticum K10] Length = 271 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 73/270 (27%), Positives = 124/270 (45%), Gaps = 10/270 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +++ R++K ++ +G SRRE +R+I +V V+G + + + IE DG Sbjct: 6 MEKERQEIRLNKFLSESGFCSRREADRLIEAGKVLVDGAVA-SMGMKIREGQQIEADGTL 64 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + +R + L +KP G+V T SD D + D + RV VGRLD ++EGL+L+TN Sbjct: 65 ISGKDRPVVLLVNKPRGIVCTTSDRDRAENIVDFIGYPL-RVYPVGRLDKDSEGLILMTN 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 G L + + Y V ++ + LN ++KG+ I V +K Sbjct: 124 QGELVNRILKGRYGHEKEYLVSVDREITEQFLNRMRKGVKILDTVTRPCTVEKTGEKS-- 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILRE 243 + L +G NR+I+++ E ++V L R+ +L L G RE+++ K L E Sbjct: 182 --FRIILTQGLNRQIRRMCEALGYRVRTLKRVRIMNLRLDGLKTGEYREITRGEWKELTE 239 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPN 273 L E + + SE R+ Sbjct: 240 LLEGKG-ERRKADQKNAEKHSELGQREPEK 268 >gi|330911132|gb|EGH39642.1| ribosomal large subunit pseudouridine synthase B LSU [Escherichia coli AA86] Length = 291 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 105/300 (35%), Positives = 148/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V + I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPGLKIRIDGHLISVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + +DR + + R K SQ +G + Sbjct: 242 EL----------VELPPETSSKVAVEKDRRRMKTN---QIRRAVKRHSQVSGGRRSGGRN 288 >gi|229062392|ref|ZP_04199708.1| Pseudouridine synthase [Bacillus cereus AH603] gi|228716863|gb|EEL68550.1| Pseudouridine synthase [Bacillus cereus AH603] Length = 242 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 67/234 (28%), Positives = 112/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A +V + + G + E Sbjct: 1 MRLDKLLANMGHGSRKEVKKLLKDGVVKIDGTPVKDAKFHVNIEEQEVMIHGEVVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LL+TNDG L Sbjct: 60 FVYLMMHKPQGVISATED-DNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P + Y G V ++ + KG+++ G ++T+ + + + Sbjct: 119 THQLLSPKKHVPKKYYAHISGVVTEEDVKEFSKGVILEDGYETKPGELTIL-KSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLMLDQELELGQYRELTDEEVE 231 >gi|296124373|ref|YP_003632151.1| pseudouridine synthase [Planctomyces limnophilus DSM 3776] gi|296016713|gb|ADG69952.1| pseudouridine synthase [Planctomyces limnophilus DSM 3776] Length = 554 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 97/338 (28%), Positives = 155/338 (45%), Gaps = 9/338 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPL 67 E +R+ KV+A AG SRR E I RV ++G++ + V V S + VDG L Sbjct: 32 EASAGERLQKVLASAGYGSRRACEEYIEMGRVTIDGVVAKELGVRVDLSRQKVAVDGEKL 91 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R E+ R +L+HKP G++ T+SDP GR+ V D P R+ +VGRLD TEGLL++TND Sbjct: 92 RVEEK-RYFLFHKPAGVLCTNSDPAGRTRVIDCFPPNVGRLFTVGRLDDGTEGLLIVTND 150 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P R+YR G + +N L +G+ + V +GS Sbjct: 151 GDLAERLTHPKFGIPRIYRAVVAGNPSTEAINQLLEGLYFAEGRFRMSSVNRVKSQGSAT 210 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + +REG+NREI+++ KV +L R +GP +LG L G+ R++S++ L + Sbjct: 211 VLEITMREGQNREIRRLLARVGHKVMKLKRTHFGPIKLGDLERGAHRKLSEEELSKL--- 267 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + + + R R + TR + + G + + +L Sbjct: 268 ----QDVITGKWKEPAPRKPQRTRDAGKATSAGGVTRASSSRAGSAGATPRARLERTALP 323 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 + + S + + + P +R Sbjct: 324 ATGLEPLTIPGSKLKRLGSSKALKSQVLNSPEANPKRR 361 >gi|148381218|ref|YP_001255759.1| RNA pseudouridine synthase family protein [Clostridium botulinum A str. ATCC 3502] gi|153932230|ref|YP_001385593.1| RNA pseudouridine synthase family protein [Clostridium botulinum A str. ATCC 19397] gi|153934698|ref|YP_001388999.1| RNA pseudouridine synthase family protein [Clostridium botulinum A str. Hall] gi|148290702|emb|CAL84832.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum A str. ATCC 3502] gi|152928274|gb|ABS33774.1| RNA pseudouridine synthase family protein [Clostridium botulinum A str. ATCC 19397] gi|152930612|gb|ABS36111.1| RNA pseudouridine synthase family protein [Clostridium botulinum A str. Hall] Length = 238 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 119/233 (51%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L ++ Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVY-KK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+V+ D + TV D L VGRLD NT GLLLLTNDG L Sbjct: 61 YIYLMMNKPQGVVSATFD-NYDETVIDLLEDEDRIFEPFPVGRLDKNTVGLLLLTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P ++Y + + +V + + KKGI++ G ++ + + V Sbjct: 120 NHRLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDDGYECFPAKLEIIKSFNEESEV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + EGK ++K++FE + KV L R +GP +L +L G RE++ + + Sbjct: 180 RVTIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQYRELTDEEI 232 >gi|145298420|ref|YP_001141261.1| ribosomal large subunit pseudouridine synthase B [Aeromonas salmonicida subsp. salmonicida A449] gi|142851192|gb|ABO89513.1| ribosomal large subunit pseudouridine synthase B [Aeromonas salmonicida subsp. salmonicida A449] Length = 307 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 97/300 (32%), Positives = 146/300 (48%), Gaps = 10/300 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV V+G + V I VDG ++ Sbjct: 2 SEKLQKVLARAGHGSRREMEALITAGRVSVDGKVAT-LGDRVEVNAVIRVDGHTVKTRAE 60 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 R+ YHK G + T DP+GR TVFD LP + S R I+VGRLD+NT GLLL T D Sbjct: 61 EEMICRVLAYHKSEGEMCTRHDPEGRPTVFDRLPKLDSARWIAVGRLDVNTSGLLLFTTD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G++ + L L+KG+ ++ ++ +G N Sbjct: 121 GELANRLMHPSHEVEREYAVRVFGEITEAMLQRLRKGVQMEDGMAKFNKIKPAGGEGLNQ 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LRE 243 W V L EG+NRE+++++E +V+RL+R+ YG L + G +E+ LR Sbjct: 181 WFNVTLTEGRNREVRRLWESQEVQVSRLMRVRYGDVTLDRGIPRGGWQELKLPEVNYLRG 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + E++V+L S+ + + D M+ + K Sbjct: 241 LVNMPPETESKVDLQQDGKSTRHKQAAQIRRAVKRHKDMQGMEPRARSTTARRKPTSSTR 300 >gi|228903068|ref|ZP_04067205.1| RNA pseudouridine synthase [Bacillus thuringiensis IBL 4222] gi|228856554|gb|EEN01077.1| RNA pseudouridine synthase [Bacillus thuringiensis IBL 4222] Length = 229 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 64/229 (27%), Positives = 110/229 (48%), Gaps = 8/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAD-HIEDNIIDYI-HYPERIFPVGRLDKASEGLILLTNDGTIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVT----RVDQSTFRII 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTSEEL 222 >gi|118618582|ref|YP_906914.1| pseudouridylate synthase [Mycobacterium ulcerans Agy99] gi|183982541|ref|YP_001850832.1| pseudouridylate synthase [Mycobacterium marinum M] gi|118570692|gb|ABL05443.1| pseudouridylate synthase [Mycobacterium ulcerans Agy99] gi|183175867|gb|ACC40977.1| pseudouridylate synthase [Mycobacterium marinum M] Length = 253 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 79/241 (32%), Positives = 117/241 (48%), Gaps = 6/241 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPL 67 E R+ KV+++AGIASRR E++I RV+V+G ++ V T I VDGV + Sbjct: 8 EQERGIRLQKVLSQAGIASRRAAEKLIIDGRVEVDGQVVTELGTRVDPDTSLIRVDGVRV 67 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLL 124 + +KP G+ +T SD GR + D + + VGRLD +TEGL+LL Sbjct: 68 ILDDSLVYLALNKPRGMHSTMSDDRGRPCIGDLIERKVRGNKNLFHVGRLDADTEGLILL 127 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG-DMQVTLDTQK 183 TNDG LA L PS + + Y G V + L+ GI ++ D +D Sbjct: 128 TNDGELAHRLMHPSHEVPKTYLATVAGTVPRGLGKKLRAGIELEDGPVRVDGFAVVDAIP 187 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 G V V L EG+NR ++++ + V L+RI G LG GS R + + + + Sbjct: 188 GKT-LVRVTLHEGRNRIVRRMLAAVGFPVQALVRIDIGGVSLGEQRPGSVRALRRDEIGQ 246 Query: 244 Q 244 Sbjct: 247 L 247 >gi|258624941|ref|ZP_05719868.1| ribosomal small subunit pseudouridine synthase A [Vibrio mimicus VM603] gi|258582797|gb|EEW07619.1| ribosomal small subunit pseudouridine synthase A [Vibrio mimicus VM603] Length = 257 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 61/237 (25%), Positives = 105/237 (44%), Gaps = 6/237 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +Q + R+ K + A +R+E ++ V V+ ++ + A + T +E G Sbjct: 20 LQADEVSMRLDKFLCDALGTTRKEATMLLKSGEVTVDDLVQKSGAFKLKETSRVEWQGRE 79 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLT 125 + A R + HKP G+V +H D T F L + GRLD++T GLLL+T Sbjct: 80 IT-AHGPRYIMMHKPDGVVCSHEDGFN-QTAFILLDEVNIQDLHFAGRLDVDTTGLLLIT 137 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG + + P + + YRV + D GI ++G + L+ S Sbjct: 138 DDGQWSHRVTSPKHKCEKTYRVWLADPIQADYAEQFTNGIELRGERELTLPAQLEV--VS 195 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + + EGK ++K++F KV L R G L +L G R ++++ + Sbjct: 196 ETEVLLTIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDESLEPGEYRYLTEEEI 252 >gi|256822107|ref|YP_003146070.1| RNA-binding S4 domain-containing protein [Kangiella koreensis DSM 16069] gi|256795646|gb|ACV26302.1| RNA-binding S4 domain protein [Kangiella koreensis DSM 16069] Length = 267 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 101/238 (42%), Positives = 145/238 (60%), Gaps = 7/238 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---- 68 +++ K++A AG+ SRRE+E+ I RV VNG + + D I VDG + Sbjct: 2 SEKLQKILANAGLGSRREIEKWIEGGRVSVNGSIAK-LGERATDKDTIRVDGRIISIISA 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTND 127 + TR+ Y+KP+G V+T DP+GR+TVFDNLP+ F R IS+GRLDINT GLLL TN+ Sbjct: 61 EETYTRVLAYNKPLGEVSTKKDPEGRATVFDNLPNTSFGRWISIGRLDINTTGLLLFTNN 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR HG+V + ++ L KG++I+G V +G+N Sbjct: 121 GELAHRLMHPSYQVERKYAVRVHGEVTPEMISNLTKGVLIEGDTCQFTYVQDKGGEGANH 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 W VGL EGKNRE++K++E +V+RL+R+ YGP L T L G ++ ++ + + Sbjct: 181 WYEVGLAEGKNREVRKLWESQGVEVSRLMRVQYGPISLPTRLSRGRWVDLEEQEINDL 238 >gi|16760161|ref|NP_455778.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. CT18] gi|34098636|sp|Q8Z7D5|RLUB_SALTI RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|25324005|pir||AI0653 probable pseudouridine synthase STY1331 [imported] - Salmonella enterica subsp. enterica serovar Typhi (strain CT18) gi|16502455|emb|CAD08412.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhi] Length = 291 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 104/297 (35%), Positives = 145/297 (48%), Gaps = 17/297 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD+ KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDESKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDFAQTNYLR 241 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 G V L S + +DR + + R K SQ G + Sbjct: 242 GL-------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQIAGGRRSGGRN 288 >gi|169832770|ref|YP_001693807.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae Hungary19A-6] gi|168995272|gb|ACA35884.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae Hungary19A-6] Length = 240 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 73/239 (30%), Positives = 114/239 (47%), Gaps = 8/239 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAW 188 A VL P + Y + G + Q+ + +GI ++ + L + + + + Sbjct: 119 AHVLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPAILELVSIDTEKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + V + EGK +IK++ + +V L R++ G L L G R ++K+ L L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELEILLA 237 >gi|157145597|ref|YP_001452916.1| 23S rRNA pseudouridylate synthase B [Citrobacter koseri ATCC BAA-895] gi|157082802|gb|ABV12480.1| hypothetical protein CKO_01343 [Citrobacter koseri ATCC BAA-895] Length = 291 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 101/269 (37%), Positives = 140/269 (52%), Gaps = 12/269 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V + I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEITPGLKIRIDGHLISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 E--QLGPHLLEEAQVNLDAPIYSSETLVR 269 E QL P + V D + + R Sbjct: 242 ELVQLAPETTSKVAVEKDRRRMKANQIRR 270 >gi|254285421|ref|ZP_04960386.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae AM-19226] gi|150424693|gb|EDN16629.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae AM-19226] Length = 231 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 103/230 (44%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREITL-HGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + HKP G+V +H D T F L + GRLD++T GLLL+T+DG + Sbjct: 60 RYIMMHKPDGVVCSHEDGFN-QTAFTLLDEVNIQDLHFAGRLDVDTTGLLLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D +GI ++G + L+ S V + Sbjct: 119 RVTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEV--ISETEVLLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L TL G R ++++ + Sbjct: 177 IHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >gi|148994694|ref|ZP_01823798.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP9-BS68] gi|168489757|ref|ZP_02713956.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae SP195] gi|147927094|gb|EDK78134.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP9-BS68] gi|183571795|gb|EDT92323.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae SP195] gi|332075138|gb|EGI85608.1| hypothetical protein SPAR50_0282 [Streptococcus pneumoniae GA17570] Length = 240 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 72/239 (30%), Positives = 115/239 (48%), Gaps = 8/239 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L + VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEIFPVGRLDIDTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAW 188 A VL P + Y + G + Q+ + + +GI ++ + L + + + + Sbjct: 119 AHVLLSPKRHVDKTYLAQVKGIMTQEDVEIFAEGIPLKDFTCQPAILELVSIDTEKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + V + EGK +IK++ + +V L R++ G L L G R ++K+ L L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELEILLA 237 >gi|307250415|ref|ZP_07532362.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|306857544|gb|EFM89653.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 4 str. M62] Length = 349 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 107/288 (37%), Positives = 154/288 (53%), Gaps = 12/288 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 64 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 123 Query: 67 LR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGL 121 + + E R+ +Y+KP G + T SDP+GR+TVFD LP +R I+VGRLDINT GL Sbjct: 124 ISLIPVQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGARWIAVGRLDINTSGL 183 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR G +D+ L L+KG+ ++ Q+ Sbjct: 184 LLFTTDGELANRLMHPSREVEREYSVRVFGNIDEAMLQRLRKGVQLEDGPANFKQIKTVG 243 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 244 GTGLNQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKGLPRGGWEEMGLEQ 303 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G L E + +D T +R + + T+ Sbjct: 304 VNYLRELVG--LPAETETKVDVTKNRRRTNIRQIRKAVKQHSKYRTKA 349 >gi|300724003|ref|YP_003713317.1| 16S rRNA pseudouridylate 516 synthase [Xenorhabdus nematophila ATCC 19061] gi|297630534|emb|CBJ91199.1| 16S rRNA pseudouridylate 516 synthase [Xenorhabdus nematophila ATCC 19061] Length = 235 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 54/237 (22%), Positives = 100/237 (42%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR +V R + V V+ +++ A + + DG ++ Sbjct: 1 MRLDKFLSQQLGISRNDVGRELRAGLVTVDNEVIKTGAYKLKLDQQVAYDGTIFQQLNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DP + ++ + ++ S GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPSNPTVLYFIDEPVAHKLHSAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + ++ GI + G L+ + V + + Sbjct: 121 ITSPKHHCEKTYLVTLEQPISEETEEKFLAGIQLNGEKTLTKPAKLEIIEP--QIVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F V L R G L L AG R ++ + P Sbjct: 179 SEGRYHQVKRMFAAVGNHVVELHRERIGEIYLDPALEAGEYRALTDSEINSIQMPRF 235 >gi|171463770|ref|YP_001797883.1| pseudouridine synthase [Polynucleobacter necessarius subsp. necessarius STIR1] gi|171193308|gb|ACB44269.1| pseudouridine synthase [Polynucleobacter necessarius subsp. necessarius STIR1] Length = 417 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 99/279 (35%), Positives = 145/279 (51%), Gaps = 6/279 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 ++ ++ KV+A G+ SRR++E +I Q RV VNG+ ++ TD + ++G P+ Sbjct: 23 ADDEDTMKLHKVLADVGMGSRRDMEDLIIQGRVSVNGLPA-HIGQSIGPTDQVRINGKPV 81 Query: 68 RKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLL 123 + + R+ +YHKP G + + SDP+GR TVFD LP R I+VGRLD NTEGLLL Sbjct: 82 HRKIQTKPPRVIMYHKPAGEIVSQSDPEGRPTVFDRLPKPRQGRWIAVGRLDFNTEGLLL 141 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T G LA L P R Y VR G + Q+ LLK GI + +++ + + Sbjct: 142 FTTSGELANRLMHPRYGVEREYAVRILGDLSQENTVLLKSGITLDDGQAKFLRLAIGGGE 201 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 G+N W V L EG+NRE++++FE V+RLIR YG F L L G E+ + Sbjct: 202 GANRWYHVALSEGRNREVRRMFEAVGHTVSRLIRTRYGIFLLPPRLRRGKWEEIEAGDIY 261 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDD 281 + L+ Q +S + RDR I + D Sbjct: 262 NLMKSAGLKMPQPQDKGRNPNSNSNGRDRRPIGEDFQPD 300 >gi|302389211|ref|YP_003825032.1| ribosomal small subunit pseudouridine synthase A [Thermosediminibacter oceani DSM 16646] gi|302199839|gb|ADL07409.1| ribosomal small subunit pseudouridine synthase A [Thermosediminibacter oceani DSM 16646] Length = 243 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 74/234 (31%), Positives = 123/234 (52%), Gaps = 7/234 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAE 71 +R+ KV++ AG SR++V+++I + V+VNG ++ A V D I V G L E Sbjct: 5 TERLDKVLSMAGYGSRKDVKKIIKRGEVEVNGRVVTDAGTPVAPAVDSISVSGELLIFKE 64 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGG 129 + +KP G+++ D +TV D L FS + VGRLD + EGLLLLT+DG Sbjct: 65 HI-YIMMNKPQGVISATHDRRE-TTVIDLLEDEFSHRNLFPVGRLDKDAEGLLLLTDDGQ 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P + +VY V G++ ++ + K+G+ + ++ + + G + Sbjct: 123 LAHRLLSPRKKVEKVYYVEVKGRLVEEDVKAFKEGVFLGDYRALPAKLEIL-EAGEVSSA 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK +IK++ + +V L R+S GP +L L G RE++ + +R Sbjct: 182 LVTIYEGKFHQIKRMMKARGKEVTYLKRLSMGPLKLDENLEPGEWRELTDEEIR 235 >gi|229135383|ref|ZP_04264172.1| RNA pseudouridine synthase [Bacillus cereus BDRD-ST196] gi|228648079|gb|EEL04125.1| RNA pseudouridine synthase [Bacillus cereus BDRD-ST196] Length = 229 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 114/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I R +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRACINGEVCTHGAL-VNEGDIVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T ++ + D + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAE-HIEDNIIDYI-DYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + + Sbjct: 118 QILHGDHEHEKEYVVAVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVNQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L AG R+++ K L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEAGKWRDITPKELEILIG 227 >gi|17546005|ref|NP_519407.1| hypothetical protein RSc1286 [Ralstonia solanacearum GMI1000] gi|17428300|emb|CAD14988.1| putative rrna uridine-516 pseudouridylate synthase-related pseudouridylate synthase protein [Ralstonia solanacearum GMI1000] Length = 598 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 104/317 (32%), Positives = 163/317 (51%), Gaps = 13/317 (4%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG+ ++ TD + Sbjct: 203 KVRELTAEDDAP-KLHKILADAGLGSRRDMEDLILQGRVSVNGLPA-HIGQRILPTDQVR 260 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDIN 117 V+G +++ + R+ LYHKP G + + SDP+GR TVFD+LP + + + ++VGRLD N Sbjct: 261 VNGKLIQRKLPSKPPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFN 320 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L +GI + ++ Sbjct: 321 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELPESDRQKLLQGIRLDDGEANFLRC 380 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 381 ADGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 440 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDR-----PNIISEVPDDFTRMKKNSSQ 291 S + +R +G L+ + S +R P ++ + FT S+ Sbjct: 441 SAEDVRGLMGLLGLKVPSASASGGQGSQGGRQGNRRREAQPVLMGPMSSGFTGEATFQSR 500 Query: 292 KNGLSKQKKLATPVHRR 308 G+ + A P RR Sbjct: 501 GQGIENGNR-AMPAPRR 516 >gi|153939754|ref|YP_001392619.1| RNA pseudouridine synthase family protein [Clostridium botulinum F str. Langeland] gi|170754583|ref|YP_001782897.1| RNA pseudouridine synthase family protein [Clostridium botulinum B1 str. Okra] gi|152935650|gb|ABS41148.1| RNA pseudouridine synthase family protein [Clostridium botulinum F str. Langeland] gi|169119795|gb|ACA43631.1| RNA pseudouridine synthase family protein [Clostridium botulinum B1 str. Okra] gi|295320605|gb|ADG00983.1| RNA pseudouridine synthase family protein [Clostridium botulinum F str. 230613] Length = 238 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 119/233 (51%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L ++ Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVY-KK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+V+ D + TV D L VGRLD NT GLLLLTNDG L Sbjct: 61 YIYLMMNKPQGVVSATFD-NYDETVIDLLEDEDRIFEPFPVGRLDKNTVGLLLLTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P ++Y + + +V + + KKGI++ G ++ + + V Sbjct: 120 NHRLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDDGYECFPAKLEIIKSFNEESEV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + EGK ++K++FE + KV L R +GP +L +L G RE++ + + Sbjct: 180 RVTIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGEYRELTDEEI 232 >gi|324328441|gb|ADY23701.1| RNA pseudouridine synthase family protein [Bacillus thuringiensis serovar finitimus YBT-020] Length = 229 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 66/235 (28%), Positives = 114/235 (48%), Gaps = 10/235 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE + +I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDSLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +HKP+G+ T +D +G + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAADHIEGNIIDYINYPG---RIFPVGRLDKASEGLILLTNDGGIA 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V +N + G+ I+ +VT + + + Sbjct: 117 NQILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVT----RVDQSTFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 173 VLTQGMNRQIRRMSRVFGFTVKKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|284007498|emb|CBA72981.1| ribosomal large subunit pseudouridine synthase B [Arsenophonus nasoniae] Length = 322 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 98/300 (32%), Positives = 149/300 (49%), Gaps = 11/300 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+AR G SRRE+E I R+ V+G L + V + I +DG LR E Sbjct: 22 SEKLQKVLARCGYGSRREIESFIQSGRISVDGQLATLGDRIEVKANTKIRLDGHLLRIKE 81 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + TH DP+GR TVFD LP SR I++GRLD+NT GLLL T Sbjct: 82 AEKSICRILAYYKPEGELCTHHDPEGRPTVFDRLPKLTGSRWIAIGRLDVNTCGLLLFTT 141 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L P + R Y VR G+++ K+ L KG+ ++ + +G N Sbjct: 142 DGELANRLMHPRHEVEREYAVRVFGEINDAKIRQLTKGVQLEDGEASFKTLKFRGGEGMN 201 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK---KILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 202 QWFNVTLTEGRNREVRRLWEAVGIQVSRLIRVRYGDIYLPKGLPRGGWTELGLVQINYLR 261 Query: 243 EQLGPHLLEEAQVNLDAPIYS-SETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + +G +++ ++ +R ++V K+ + G +K + Sbjct: 262 QLVGLSDETASKIAVEQDRRRIKANQIRRAVKRHTQVSSMRVANKRATGAAKGHNKPARK 321 >gi|253573324|ref|ZP_04850667.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14] gi|251846852|gb|EES74857.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14] Length = 257 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 72/248 (29%), Positives = 122/248 (49%), Gaps = 12/248 (4%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 + + QR+ K++ G +R E+++ + Q RV +NG++++ + + D +E+DG Sbjct: 1 MSKGKKTQRLDKILGHLGYGTRSEIKKYVKQGRVTINGVVVKDSGIQCNPDVDVVELDGE 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLL 123 + E + HKP G+++ D TV D LP F VGRLD +TEGLLL Sbjct: 61 QIFYRE-FVYLMLHKPPGVISATED-MREKTVIDLLPVDFQVFSPFPVGRLDKDTEGLLL 118 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVT---- 178 LTNDG LA L P + Y G V ++ ++G+ + G ++ Sbjct: 119 LTNDGQLAHDLLSPRKHVPKTYEAVVLGHVGDEEAARFREGVELDDGYVTLPAELKVLEH 178 Query: 179 -LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +D + V + + EGK ++K++FE +V L R+S GP L +L G+ RE+ Sbjct: 179 GIDADGTRISRVQLTISEGKFHQVKRMFEAVGSRVIYLKRLSMGPLVLDESLPLGAFREL 238 Query: 237 SKKILREQ 244 ++ L+ Sbjct: 239 TESELQSL 246 >gi|300723349|ref|YP_003712652.1| Ribosomal large subunit pseudouridine synthase B [Xenorhabdus nematophila ATCC 19061] gi|297629869|emb|CBJ90487.1| Ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Xenorhabdus nematophila ATCC 19061] Length = 307 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 102/306 (33%), Positives = 152/306 (49%), Gaps = 12/306 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLR 68 + +++ K++AR+G SRRE+E I Q R+ ++G + V + I +DG L Sbjct: 2 SDKTEKLQKILARSGHGSRREIEGYIQQGRISIDGKTATLGDRIEVKPSIKIRLDGRILN 61 Query: 69 KAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLL 123 E R+ Y+KP G + T DP+GR TVFD LP + +R I+VGRLDINT GLLL Sbjct: 62 IKEPQKTVCRVLAYYKPEGELCTRHDPEGRPTVFDRLPRMQGARWIAVGRLDINTCGLLL 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS + R Y VR G+VD KL L +G+ ++ +T + Sbjct: 122 FTTDGELANRLMHPSQEVEREYAVRVFGEVDTAKLRQLTQGVQLEDGPASFKTITFKGGE 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK--- 239 G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ + Sbjct: 182 GINQWYNVTLTEGRNREVRRLWESVGVQVSRLIRVRYGDINLPKGLPRGGWTELGLEQTN 241 Query: 240 ILREQ--LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 LR+ LG ++ + V D + + R + +SS++N K Sbjct: 242 YLRQLVGLGDEMVTKVAVERDQRRIKANQIRRAVKRHAKVASRPAGKRPASSSRQNAGRK 301 Query: 298 QKKLAT 303 Sbjct: 302 TTPKGR 307 >gi|167549772|ref|ZP_02343530.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|204927933|ref|ZP_03219134.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|204323275|gb|EDZ08471.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205324943|gb|EDZ12782.1| ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] Length = 291 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 104/297 (35%), Positives = 145/297 (48%), Gaps = 17/297 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD+ KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDESKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELD-------L 234 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 V L S + +DR + + R K SQ G + Sbjct: 235 SQTNYLRGLVELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQIAGGRRSGGRN 288 >gi|86130476|ref|ZP_01049076.1| pseudouridylate synthase [Dokdonia donghaensis MED134] gi|85819151|gb|EAQ40310.1| pseudouridylate synthase [Dokdonia donghaensis MED134] Length = 260 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 64/260 (24%), Positives = 118/260 (45%), Gaps = 9/260 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-AERT 73 R++K ++ AG SRR +++I Q RV +NG + + D + V+G + E+ Sbjct: 8 RINKYLSEAGYCSRRAADKLIDQGRVTINGKVP-EMGTKITEGDEVRVNGELITSSTEKP 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+V T + + D + + SR+ +GRLD +EGL+ LTNDG + Sbjct: 67 VYIALNKPVGIVCTTDTRVEKDNIIDFI-NYPSRIFPIGRLDKPSEGLIFLTNDGDIVNK 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + + G+ I V ++ S + L Sbjct: 126 ILRARNNHEKEYEVWVDKPITPSFIQQMSNGVPILDTVTRKCHV----EQLSRFSFKIIL 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +G NR+I+++ E +++V RL R +L + G R +S + E++ + + A Sbjct: 182 TQGLNRQIRRMCEALDYEVTRLKRNRIMNIEL-DVPVGKWRYISDTEM-EEINRLVEDSA 239 Query: 254 QVNLDAPIYSSETLVRDRPN 273 + + DAP +R N Sbjct: 240 KTHTDAPKEPRHPNLRRNRN 259 >gi|329576942|gb|EGG58425.1| pseudouridylate synthase [Enterococcus faecalis TX1467] Length = 257 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 75/255 (29%), Positives = 124/255 (48%), Gaps = 10/255 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDIN 117 I + G L ++ ++ HKP G+++ D TV D L R + VGRLD + Sbjct: 61 IALMGEILTY-QKFFYYMLHKPQGVISATED-QRDETVIDLLTDQDYRADLFPVGRLDKD 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQ 176 TEGLLLLTNDG LA L P + Y G V + L +G + G + Sbjct: 119 TEGLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSR 178 Query: 177 VTLDT--QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + ++T ++ + V + ++EG+ ++K++ V L R+ G L TL G Sbjct: 179 LVIETINEEEGTSVVRLVIQEGEFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEY 238 Query: 234 REVSKKILREQLGPH 248 R +++ L +QL P Sbjct: 239 RPLTEAEL-QQLQPK 252 >gi|307257215|ref|ZP_07538986.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 10 str. D13039] gi|306864257|gb|EFM96169.1| Ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 10 str. D13039] Length = 349 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 107/288 (37%), Positives = 155/288 (53%), Gaps = 12/288 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 64 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 123 Query: 67 LR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGL 121 + + E R+ +Y+KP G + T SDP+GR+TVFD LP +R I+VGRLDINT GL Sbjct: 124 ISLIPVQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGARWIAVGRLDINTSGL 183 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR G +D+ L L+KG+ ++ Q+ Sbjct: 184 LLFTTDGELANRLMHPSREVEREYSVRVFGNIDEAMLQRLRKGVQLEDGPANFKQIKTVG 243 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 G N W V L EG+NRE+++++E +V+RLIRI YG +L +L G E+ + Sbjct: 244 GTGLNQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKSLPRGGWEEMGLEQ 303 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G L E + +D T +R + + T+ Sbjct: 304 VNYLRELVG--LPAETETKVDVTKNRRRTNIRQIRKAVKQHSKYRTKA 349 >gi|229030086|ref|ZP_04186150.1| Pseudouridine synthase [Bacillus cereus AH1271] gi|228731256|gb|EEL82174.1| Pseudouridine synthase [Bacillus cereus AH1271] Length = 248 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 68/245 (27%), Positives = 119/245 (48%), Gaps = 7/245 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K ++++ R++K I+ AG ASRR +++I ++RV +NG + + V D + Sbjct: 1 MSLKFCLEKDVPNLRINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDV 59 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 V+G LR A +KP+G+ T S+ + + D + R+ +GRLD +++G Sbjct: 60 RVNGEQLRIARDHVYIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RISHIGRLDKDSDG 117 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+LLTNDG + + + + Y V + D L + G+ I G ++T Sbjct: 118 LILLTNDGDIVNEILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT-- 175 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + S + L +G NR+I+++ E ++V L R +L L G R++SKK Sbjct: 176 --QLSKYEFNIILTQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKE 233 Query: 241 LREQL 245 R Sbjct: 234 KRRLF 238 >gi|221134960|ref|ZP_03561263.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Glaciecola sp. HTCC2999] Length = 331 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 104/311 (33%), Positives = 158/311 (50%), Gaps = 17/311 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 ++ KV+A G+ SRRE+E I Q R+ VNG + V +D I VDG L++ ++ Sbjct: 4 KLQKVLANQGVGSRREMETWIEQGRISVNGTIAT-LGDRVEPSDQIRVDGHLLKRDQKAP 62 Query: 74 --RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGL 130 R+ +Y+KP G + + +DP GR TVFD LP+I S R I+VGRLD+NT GLLL TNDG L Sbjct: 63 VCRVLMYNKPEGELCSRTDPLGRQTVFDRLPNIQSGRWIAVGRLDLNTAGLLLFTNDGEL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAW 188 A L P + R Y VR G+V+ L LL+ G+ ++ ++ ++ NAW Sbjct: 123 ANRLMHPRHEVEREYAVRVFGEVEPKTLKLLESGVELEDGLAKFTKIIARPNEEESINAW 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE---- 243 V L EG+NRE+++++E +V+RLIR+ YGP L L G+ E+ + Sbjct: 183 YNVSLSEGRNREVRRLWESQGVQVSRLIRLRYGPLSLQKRLPQGAWIELELNDVNALRKQ 242 Query: 244 -QLGPHLLEEAQVNLDAPIYSS----ETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 QL P VN + ++ V+ + ++ P + K ++ Sbjct: 243 VQLPPETETLVGVNDNKLNHTKLSRMRKSVKKHKDRNAKAPIKGEGESASDDTKRTSRRK 302 Query: 299 KKLATPVHRRN 309 P RN Sbjct: 303 PNNGKPQANRN 313 >gi|295095683|emb|CBK84773.1| ribosomal large subunit pseudouridine synthase B [Enterobacter cloacae subsp. cloacae NCTC 9394] Length = 291 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 101/295 (34%), Positives = 152/295 (51%), Gaps = 19/295 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V ++ I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEAIIEAGRVSVDGKIATLGDRVEIVPGLKIRIDGHLISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD++KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDENKLRDLSRGVQLEDGPAAFKTIKFTGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILLPKGLPRGGYTELDLTQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + +G ++V ++ R +++ R + SS + S+ Sbjct: 242 DLVGLTPETTSKVAVEK---------DRRRMKANQIRRAVKRHSQVSSNRRSGSR 287 >gi|196233446|ref|ZP_03132289.1| pseudouridine synthase [Chthoniobacter flavus Ellin428] gi|196222442|gb|EDY16969.1| pseudouridine synthase [Chthoniobacter flavus Ellin428] Length = 237 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 78/234 (33%), Positives = 123/234 (52%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A AG+ SRR VE +I +V++NG ++ + V TD ++V G L + E+ Sbjct: 1 MRLNRFLASAGLGSRRGVEELITSGQVRINGQVVTDLSTQVGPTDAVKV-GSRLLRTEQK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP G V T SD R T+FD LP+ + RV VGRLD ++EGLLL+TNDG L+ Sbjct: 60 ITVLLNKPAGYVCTASDERDRKTIFDLLPANWPRVYHVGRLDKDSEGLLLVTNDGDLSLA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + + Y V + L KG I G +V + + +++ L Sbjct: 120 LTHPRYKIEKEYEVLLDKPFNPQDREKLLKGFHIIGGRAKAERVEIL----NPTHLSLTL 175 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 +G R+I+ + ++V RL RI GP ++G + G R ++ K + GP Sbjct: 176 TQGIKRQIRLMLYDLGYEVERLARIRLGPLKIGEMRPGEWRLLTSKEIAALKGP 229 >gi|251794145|ref|YP_003008876.1| pseudouridine synthase [Paenibacillus sp. JDR-2] gi|247541771|gb|ACS98789.1| pseudouridine synthase [Paenibacillus sp. JDR-2] Length = 233 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 64/233 (27%), Positives = 111/233 (47%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ G SRRE ++++ RV +NG D + +DG + + + Sbjct: 1 MRINKFISETGYCSRREADKLVDSGRVTINGAKA-ELGSQAELGDDVRIDGKRIGEQKHH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ +T ++ R + D + R+ +GRLD ++EGL+LLTNDG + Sbjct: 60 VYIALNKPVGITST-TELHIRGNIVDFV-GHKERIFPIGRLDKDSEGLILLTNDGDVVNP 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V V + + + G+ I G QVT ++ + L Sbjct: 118 ILRSEGKHEKEYIVTVDRPVTAEFVKGMSSGVRILGSMTLPCQVTRVAER----VFRIVL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNR+I+++ E F + V +L RI LG L G R++++ E G Sbjct: 174 TEGKNRQIRRMCEAFGYHVRKLQRIRIMNIHLGQLPTGKWRDLTETEKAELFG 226 >gi|194436993|ref|ZP_03069092.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 101-1] gi|194423976|gb|EDX39964.1| ribosomal large subunit pseudouridine synthase B [Escherichia coli 101-1] Length = 291 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 106/300 (35%), Positives = 147/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ + + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLGDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + +DR + + R K SQ +G + Sbjct: 242 EL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVSGGRRSGGRN 288 >gi|170768335|ref|ZP_02902788.1| ribosomal large subunit pseudouridine synthase B [Escherichia albertii TW07627] gi|170123101|gb|EDS92032.1| ribosomal large subunit pseudouridine synthase B [Escherichia albertii TW07627] Length = 291 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 106/300 (35%), Positives = 148/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLVSVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SVEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDTKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + +DR + + R K SQ +G + Sbjct: 242 EL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQMSGGRRSGGRN 288 >gi|145630872|ref|ZP_01786649.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae R3021] gi|260582948|ref|ZP_05850732.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae NT127] gi|144983532|gb|EDJ91000.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae R3021] gi|260094048|gb|EEW77952.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae NT127] Length = 232 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 60/234 (25%), Positives = 109/234 (46%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E Sbjct: 1 MRLDKFIAENTGLTRSQATKAIRQSAVKINGEIVKSGAVQISQEDEIYFEDQLLTWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ +KP G V ++ D D T++ + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLNKPQGCVCSNDDGDY-PTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+++ +GI+++G L+ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEENYATACAEGILLRGEKEPTKPAKLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 + EG+ ++K++F KV L R G L +L G R +++ + + Sbjct: 178 ISEGRYHQVKRMFAALGNKVVGLHRWKIGNVVLDQSLDEGEYRPLTQSEIESLV 231 >gi|295696420|ref|YP_003589658.1| pseudouridine synthase [Bacillus tusciae DSM 2912] gi|295412022|gb|ADG06514.1| pseudouridine synthase [Bacillus tusciae DSM 2912] Length = 245 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 92/237 (38%), Positives = 133/237 (56%), Gaps = 4/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KVIA AG+ SRR+ E+ IAQ RV+VNG ++ V D IEVDG + +R Sbjct: 3 ERLQKVIAGAGLTSRRKAEQWIAQGRVRVNGRVVVEQGFKVDPEVDRIEVDGRSVAIPDR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T +L++KPIG+VTT DP GR V D + + RV VGRLDIN+ GLLLLTNDG LA Sbjct: 63 TVCFLFYKPIGVVTTLHDPQGRPAVADYVRDLPKRVFPVGRLDINSSGLLLLTNDGELAH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + YRV G +D + L+ GIV+ G+ +V L + + + Sbjct: 123 RLMHPRFGVEKTYRVAVRGYLDNPGIRRLETGIVLDGVRTAPARVRLWGRGRERSEFDIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI---LREQLG 246 L EG+NR+++++ + V L RI YG + L G R ++++ LR+ + Sbjct: 183 LHEGRNRQVRRMCKAVGHPVLELTRIQYGNLTIDGLAPGEIRPLTEEEERILRQLVA 239 >gi|134282285|ref|ZP_01768990.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 305] gi|134246323|gb|EBA46412.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 305] Length = 554 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 99/356 (27%), Positives = 165/356 (46%), Gaps = 10/356 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 173 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 231 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 232 GKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTE 291 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 292 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRIRD 351 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++ E V+RLIR +GP L L G E+ + Sbjct: 352 GGGEGTNHWYHVALAEGRNREVRRMLEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 411 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK-KNSSQKNGLSK 297 +R + L+ D R +P+ + R + + + Sbjct: 412 AQVRRLMSTVGLKA--PTEDKGGKRGGPAERRQPDPMQTSMGFINREPVLTTHGQLDQPR 469 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + A S G R+ + R+ S+ + +R + K Sbjct: 470 RGRRGPAGGGFGAGLGGGYAGLPGYGGASRQGGRDVDGNRA-SYGGAGANKRGAGK 524 >gi|94499453|ref|ZP_01305990.1| Hypothetical protein yjbC [Oceanobacter sp. RED65] gi|94428207|gb|EAT13180.1| Hypothetical protein yjbC [Oceanobacter sp. RED65] Length = 376 Score = 261 bits (667), Expect = 2e-67, Method: Composition-based stats. Identities = 74/348 (21%), Positives = 139/348 (39%), Gaps = 14/348 (4%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 3 NDSTTRLNKYISESGICSRREADRYIEQGNVYINGKRA-EVGDRVAPGDTVKVNGQIIEP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E +KP+G+V+T + + V +R+ +GRLD +++GL+ LTN+ Sbjct: 62 QEPEDFVFIALNKPVGIVSTTESSERNNIV--RFVGHSTRIFPIGRLDKDSQGLIFLTNN 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + + G+ I G +V K S Sbjct: 120 GDLVNKILRAGNDHEKEYLVEVNKPIRDNFIEGMANGVPILGTMTKKCKVK----KESPT 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L EG NR+I+++ E+F + V L R+ L L G R++++K L Sbjct: 176 VFRITLVEGLNRQIRRMCEYFGYDVVALERVRIMNVDLKGLATGDWRDLTQKELNGIF-- 233 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 ++++ A +++ P + T KK +++ + ++ + Sbjct: 234 DAIKDSSSEAPAGRKTTQKRGGKPGGSGQNKPGNKTNSKKPAAKASKSGPKRGGPHKAKK 293 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSF---PSKRSLRRTSA 352 + N S + PS + + A Sbjct: 294 TSGNPNTKHPPKPPGGKPSGKPSPKGKAGGKPSGKPMKGGKPSPKGKA 341 >gi|206969528|ref|ZP_03230482.1| RNA pseudouridine synthase family protein [Bacillus cereus AH1134] gi|229072053|ref|ZP_04205262.1| RNA pseudouridine synthase [Bacillus cereus F65185] gi|229081804|ref|ZP_04214296.1| RNA pseudouridine synthase [Bacillus cereus Rock4-2] gi|229180870|ref|ZP_04308205.1| RNA pseudouridine synthase [Bacillus cereus 172560W] gi|229192751|ref|ZP_04319709.1| RNA pseudouridine synthase [Bacillus cereus ATCC 10876] gi|206735216|gb|EDZ52384.1| RNA pseudouridine synthase family protein [Bacillus cereus AH1134] gi|228590590|gb|EEK48451.1| RNA pseudouridine synthase [Bacillus cereus ATCC 10876] gi|228602427|gb|EEK59913.1| RNA pseudouridine synthase [Bacillus cereus 172560W] gi|228701392|gb|EEL53886.1| RNA pseudouridine synthase [Bacillus cereus Rock4-2] gi|228710987|gb|EEL62953.1| RNA pseudouridine synthase [Bacillus cereus F65185] Length = 229 Score = 261 bits (667), Expect = 2e-67, Method: Composition-based stats. Identities = 64/234 (27%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGEL-VSDGDVVTIDGQVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAD-HIEDNIIDYI-NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 118 RILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|83720156|ref|YP_443084.1| RNA pseudouridylate synthase family protein [Burkholderia thailandensis E264] gi|83653981|gb|ABC38044.1| RNA pseudouridylate synthase family protein [Burkholderia thailandensis E264] Length = 502 Score = 261 bits (667), Expect = 2e-67, Method: Composition-based stats. Identities = 91/269 (33%), Positives = 143/269 (53%), Gaps = 13/269 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 122 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 180 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 181 GKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTE 240 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 241 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRIRD 300 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 301 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 360 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETL 267 +R + + V L AP+ Sbjct: 361 AQVRRLM-------STVGLKAPVEEKGKR 382 >gi|237744367|ref|ZP_04574848.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 7_1] gi|229431596|gb|EEO41808.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 7_1] Length = 234 Score = 261 bits (667), Expect = 2e-67, Method: Composition-based stats. Identities = 70/231 (30%), Positives = 130/231 (56%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--E 71 R++K ++ GIASRR V++ I + R+ VNG + +++ D+I +DG ++ E Sbjct: 1 MRINKFLSTLGIASRRAVDKYIEEGRITVNGNIATT-GMDISENDNIFIDGKKIKTDVNE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP+ ++++ SD GR TV D + R+ +GRLD T GL+LLTNDG L Sbjct: 60 EKVYFMLNKPLEVLSSSSDDRGRKTVVDLI-KTDKRIFPIGRLDYMTSGLILLTNDGELF 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P ++ + Y V+ G++ ++++ LKKG+++ +++ + + + Sbjct: 119 NRIVHPKSEIYKKYYVKIFGEIKKEEIAELKKGVLLNDGKTLPAKISGIKYDKNKTSMYI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 ++EG+NR+I+++ E F +KV L R G LG L G RE++K+ + Sbjct: 179 SIKEGRNRQIRRMIERFGYKVLMLRREKIGELSLGDLEEGKYRELTKQEIE 229 >gi|15641640|ref|NP_231272.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121591192|ref|ZP_01678495.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae 2740-80] gi|153819727|ref|ZP_01972394.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae NCTC 8457] gi|153823785|ref|ZP_01976452.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae B33] gi|227081787|ref|YP_002810338.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae M66-2] gi|229508252|ref|ZP_04397757.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae BX 330286] gi|229511509|ref|ZP_04400988.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae B33] gi|229518648|ref|ZP_04408091.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae RC9] gi|229607826|ref|YP_002878474.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MJ-1236] gi|254848756|ref|ZP_05238106.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MO10] gi|255744936|ref|ZP_05418886.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholera CIRS 101] gi|262161779|ref|ZP_06030797.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae INDRE 91/1] gi|298498281|ref|ZP_07008088.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MAK 757] gi|34098734|sp|Q9KRK5|RSUA_VIBCH RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|9656147|gb|AAF94786.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121546947|gb|EAX57095.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae 2740-80] gi|126509718|gb|EAZ72312.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae NCTC 8457] gi|126518696|gb|EAZ75919.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae B33] gi|227009675|gb|ACP05887.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae M66-2] gi|229343337|gb|EEO08312.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae RC9] gi|229351474|gb|EEO16415.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae B33] gi|229355757|gb|EEO20678.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae BX 330286] gi|229370481|gb|ACQ60904.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MJ-1236] gi|254844461|gb|EET22875.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MO10] gi|255737407|gb|EET92802.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholera CIRS 101] gi|262028511|gb|EEY47166.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae INDRE 91/1] gi|297542614|gb|EFH78664.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MAK 757] Length = 231 Score = 261 bits (667), Expect = 2e-67, Method: Composition-based stats. Identities = 57/229 (24%), Positives = 103/229 (44%), Gaps = 4/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREITL-HGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + HKP G+V +H D ++ + + GRLD++T GLLL+T+DG + Sbjct: 60 RYIMMHKPDGVVCSHEDGFNQTALTLLDEVNIQDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + D +GI ++G + L+ S V + + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEV--ISETEVLLTI 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EGK ++K++F KV L R G L TL G R ++++ + Sbjct: 178 HEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >gi|262067505|ref|ZP_06027117.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium periodonticum ATCC 33693] gi|291378768|gb|EFE86286.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium periodonticum ATCC 33693] Length = 234 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 74/231 (32%), Positives = 131/231 (56%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--RKAE 71 R++K ++ GIASRR +++ I + R+KVNG++ ++V D I +D + +K E Sbjct: 1 MRINKFLSSLGIASRRAIDKYIEEGRIKVNGVIAST-GIDVTEDDEICIDDKKIETKKIE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP+ +++ SD GR TV D + R+ +GRLD T GL+LLTNDG L Sbjct: 60 EKVYFMLNKPLEVLSASSDDRGRKTVVDLI-KTDKRIFPIGRLDYMTSGLILLTNDGELF 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P ++ + Y ++ G+V +++++ LKKG++++ +V + + + Sbjct: 119 NRLVHPKSEIYKKYYIKVFGEVKKEEIDELKKGVLLEDGKTLPAKVAGIKYDKNKTSMYI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +REG+NR+I+++ E F +KV L R G LG L G RE++K+ + Sbjct: 179 SIREGRNRQIRRMIEKFGYKVLMLRREKIGELSLGDLKEGKYRELTKEEIE 229 >gi|163942282|ref|YP_001647166.1| pseudouridine synthase [Bacillus weihenstephanensis KBAB4] gi|163864479|gb|ABY45538.1| pseudouridine synthase [Bacillus weihenstephanensis KBAB4] Length = 229 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 114/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I R +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRACINGEVCTHGAL-VNEGDIVTIDGQVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T ++ + D + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAE-HIEDNIIDYI-DYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + + Sbjct: 118 QILHGDHEHEKEYVVAVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVNQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L AG R+++ K L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEAGKWRDITPKELEILIG 227 >gi|293409653|ref|ZP_06653229.1| conserved hypothetical protein [Escherichia coli B354] gi|291470121|gb|EFF12605.1| conserved hypothetical protein [Escherichia coli B354] Length = 291 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 105/300 (35%), Positives = 148/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V + I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPGLKIRIDGHLISVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDTKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + +DR + + R K SQ +G + Sbjct: 242 EL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVSGGRRSGGRN 288 >gi|284053272|ref|ZP_06383482.1| pseudouridine synthase [Arthrospira platensis str. Paraca] gi|291565993|dbj|BAI88265.1| putative pseudouridylate synthase [Arthrospira platensis NIES-39] Length = 257 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 81/239 (33%), Positives = 121/239 (50%), Gaps = 11/239 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AE 71 +R+ K+I+ G+ASRR E MI RVKVNG D IE+DG L Sbjct: 3 ERLQKIISHWGVASRRHAEEMILSGRVKVNGDQAYLGQKADPKCDRIEIDGRALHPSSQP 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDG 128 + L +KP+G+V+T ++P GR TV D LP + VGRLD ++ G LL+TNDG Sbjct: 63 QPLYLLLNKPLGVVSTCAEPQGRKTVLDLLPRQLQVGQGLHPVGRLDTDSTGALLITNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KGSNA 187 L +L P + Y+V G + L ++GI++ G +V + +GS Sbjct: 123 ELTFLLTHPRYHVAKTYQVLVQGCPPESVLEQWRQGILLSGKNTLPAKVRRIGKPRGSQT 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREVSKKIL 241 + V LREG+NR+I++V E + V +L R + GP L + L +G R + + Sbjct: 183 LLEVVLREGRNRQIRRVAEALGYPVVQLHRTAIGPIYLNSTGKPELASGEYRSLKNSEV 241 >gi|33865483|ref|NP_897042.1| putative pseudouridylate synthase specific to ribosomal small subunit [Synechococcus sp. WH 8102] gi|33632652|emb|CAE07464.1| putative pseudouridylate synthase specific to ribosomal small subunit [Synechococcus sp. WH 8102] Length = 250 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 79/231 (34%), Positives = 114/231 (49%), Gaps = 1/231 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T QR+ K+IA AG+ SRR E I RVKV+G + + I VDG PL Sbjct: 1 MTRQRLQKLIAAAGLCSRRTAEDWIDAGRVKVDGRISSLGDQADPESQLIHVDGRPLSFR 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGG 129 + L +KP G+++T DP GRSTV D LP + + VGRLD ++ G LLLT+ G Sbjct: 61 GEPTVLLINKPAGVISTCRDPRGRSTVLDLLPQQLRQGLHPVGRLDADSRGALLLTDYGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + YRV G L ++G+ + G +V + ++ + Sbjct: 121 LTLRLTHPRYDHAKTYRVWVEGTPLDTSLQRWRQGVTLDGTRTRSAEVRVLQRRSDRTLL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 V L EG+NR+I++V E V L R++ +LG L G R +S+ Sbjct: 181 EVVLLEGRNRQIRRVAELLGHPVVDLQRVAIAGLRLGALPEGRWRRLSRGE 231 >gi|326331280|ref|ZP_08197572.1| ribosomal large subunit pseudouridine synthase B [Nocardioidaceae bacterium Broad-1] gi|325950913|gb|EGD42961.1| ribosomal large subunit pseudouridine synthase B [Nocardioidaceae bacterium Broad-1] Length = 255 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 73/245 (29%), Positives = 125/245 (51%), Gaps = 1/245 (0%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHI 60 + ++ ++ R+ K++A AGIASRR E ++ V+VNG ++ R V D + Sbjct: 6 ERDDLPLDDEGLIRLQKLLALAGIASRRGSEILMLNGEVEVNGEVVTRLGTKVDPGKDVV 65 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 V G L + +KP G+V+T SDP+GR + D + R+ VGRLD +TEG Sbjct: 66 RVGGKRLPPISGKVYLVLNKPRGVVSTMSDPEGRRNLSDLVADRPERLFHVGRLDTDTEG 125 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L++LTNDG A L PS + + Y G++ + L G+ ++ + + Sbjct: 126 LIILTNDGDFAHRLAHPSYEVDKTYVAEVKGEIFPNVRKRLLAGVTLEDGPVTVTKARIM 185 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + + + + EG+NR ++++ + V RL R GP +LG + G R++S++ Sbjct: 186 ETRKDKSIIELVIHEGRNRIVRRLLDHLGHPVTRLTRTRIGPVRLGAMKPGDMRDLSREE 245 Query: 241 LREQL 245 L E L Sbjct: 246 LGELL 250 >gi|291087689|ref|ZP_06572058.1| ribosomal small subunit pseudouridine synthase A [Clostridium sp. M62/1] gi|291074338|gb|EFE11702.1| ribosomal small subunit pseudouridine synthase A [Clostridium sp. M62/1] Length = 477 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 66/247 (26%), Positives = 119/247 (48%), Gaps = 16/247 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAER 72 R+ + + SR EV++MI RV V+G + A + + + +DG + A Sbjct: 10 MRLDRYLVEMKKGSRSEVKKMIKSGRVSVDGEICREAERKIQPSASEVSLDGTQVGYAA- 68 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G+V+ D ++ V + + VGRLDI+TEGLLL+TNDG LA Sbjct: 69 YEYFMLNKPAGVVSATEDGRHKTVVSLIEDAKRRDLFPVGRLDIDTEGLLLITNDGKLAH 128 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN------ 186 L P + Y R G++ ++ + K+G+ ++ + L QK S Sbjct: 129 RLLSPKKHVDKTYFARVEGRLPENAIEQFKEGLTLEDG-TRTLPARLVIQKASETAEDDG 187 Query: 187 ------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + + + + EGK ++K++FE +V L R+S G +L +L G+ R ++++ Sbjct: 188 KADSSLSEIELTIHEGKFHQVKRMFEAVGCRVVYLKRLSMGSLRLDESLAPGAYRRLTEE 247 Query: 240 ILREQLG 246 + + G Sbjct: 248 EISKLQG 254 >gi|89901090|ref|YP_523561.1| pseudouridine synthase Rsu [Rhodoferax ferrireducens T118] gi|89345827|gb|ABD70030.1| ribosomal large subunit pseudouridine synthase B [Rhodoferax ferrireducens T118] Length = 466 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 89/247 (36%), Positives = 134/247 (54%), Gaps = 6/247 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN + DH++V+ Sbjct: 87 KRVLAPLAETPKLHKVLAQAGMGSRLEMEQLIMEGRITVNNEPA-HIGQRIQFGDHVKVN 145 Query: 64 GVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 G P+R A R+ YHKP+G V TH DP R TVF LP +F + SVGRLD+NTE Sbjct: 146 GKPIRFRIDAPPARVIAYHKPVGEVVTHDDPQNRPTVFRRLPKLFQGKWQSVGRLDLNTE 205 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T+ G LA L P R Y VR G +++D+ L G+ + + Sbjct: 206 GLLLFTSSGELANNLMHPRFGLEREYAVRVLGALNKDEKQRLLDGVKLDDGVAQFGSIEA 265 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ + Sbjct: 266 GGGEGANCWYRVTIAEGRNREVRRMFEAVGHAVSRLIRIRYGAMMLPRGLKRGAWMELDE 325 Query: 239 KILREQL 245 ++ + Sbjct: 326 SDIKSLM 332 >gi|293391815|ref|ZP_06636149.1| ribosomal small subunit pseudouridine synthase A [Aggregatibacter actinomycetemcomitans D7S-1] gi|290952349|gb|EFE02468.1| ribosomal small subunit pseudouridine synthase A [Aggregatibacter actinomycetemcomitans D7S-1] Length = 233 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 104/230 (45%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R + + + Q V +NG + + A V D I DG L + Sbjct: 1 MRLDKFLAEHTGLTRSQATKALRQSAVTINGKIEKSGATKVSPQDAIYFDGELLTWLDVG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + +++KP G V +H D D +++ S R+ S GRLDI+T GL+LLT+DG + Sbjct: 61 QYLMFNKPQGYVCSH-DEDEHPSIYQFFDYPLSARLHSAGRLDIDTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+ + +GI+++G L+ N V + Sbjct: 120 RVTSPKHHQPKTYLVTLADPVEANYAQACAEGILLRGEKDPTKPAVLEILDNYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G L L G R ++ + + Sbjct: 178 ISEGRYHQVKRMFAALGNKVLGLHRWKIGNLTLDDNLAEGDFRVLNAEEI 227 >gi|46908512|ref|YP_014901.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes serotype 4b str. F2365] gi|47092440|ref|ZP_00230230.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes str. 4b H7858] gi|226224887|ref|YP_002758994.1| 16S pseudouridylate synthase [Listeria monocytogenes Clip81459] gi|254825083|ref|ZP_05230084.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes FSL J1-194] gi|254854294|ref|ZP_05243642.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes FSL R2-503] gi|254933330|ref|ZP_05266689.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes HPB2262] gi|254992010|ref|ZP_05274200.1| 16S pseudouridylate synthase [Listeria monocytogenes FSL J2-064] gi|255521704|ref|ZP_05388941.1| 16S pseudouridylate synthase [Listeria monocytogenes FSL J1-175] gi|300763910|ref|ZP_07073906.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes FSL N1-017] gi|46881784|gb|AAT05078.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes serotype 4b str. F2365] gi|47019217|gb|EAL09960.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes str. 4b H7858] gi|225877349|emb|CAS06063.1| Putative 16S pseudouridylate synthase [Listeria monocytogenes serotype 4b str. CLIP 80459] gi|258607686|gb|EEW20294.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes FSL R2-503] gi|293584891|gb|EFF96923.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes HPB2262] gi|293594326|gb|EFG02087.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes FSL J1-194] gi|300515251|gb|EFK42302.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes FSL N1-017] gi|328465377|gb|EGF36624.1| 16S pseudouridylate synthase [Listeria monocytogenes 1816] gi|328471562|gb|EGF42442.1| 16S pseudouridylate synthase [Listeria monocytogenes 220] gi|332312766|gb|EGJ25861.1| Ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes str. Scott A] Length = 233 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 70/233 (30%), Positives = 111/233 (47%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D + V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGTPVVYQE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG L Sbjct: 60 FVYFMLHKPQNVVSATED-NVSETVIDLLAQEDTLTDPFPVGRLDKDTEGLLIITNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y + G V + GI + G ++ + T + Sbjct: 119 AHNLLSPKKHIDKTYYAKIDGDVTLADVEAFAAGIELDDGYTCKPARLEIITPN----EI 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V ++EGK ++K++F KV+ L RIS G QL +L G R +++ L Sbjct: 175 NVTIQEGKFHQVKRMFAARGKKVSYLKRISMGNLQLDESLGLGEYRPLTESEL 227 >gi|17231365|ref|NP_487913.1| hypothetical protein all3873 [Nostoc sp. PCC 7120] gi|17133007|dbj|BAB75572.1| all3873 [Nostoc sp. PCC 7120] Length = 262 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 88/257 (34%), Positives = 131/257 (50%), Gaps = 11/257 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KV+A+ GIASRRE E MI + RV++NG L E D I VDG + R Sbjct: 4 RLQKVLAQWGIASRREAEEMIRRSRVQINGTLAELGQKVNPEKDIITVDGKSVSAQRHPR 63 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGG 129 L +KP G+V+T DP GR TV D LP + + VGRLD ++ G L+LTNDG Sbjct: 64 LTYLLLNKPTGVVSTCYDPQGRKTVLDLLPEELRKGPGLHPVGRLDADSTGALILTNDGD 123 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + Y+V G + L + ++G+++ G +V+L + + Sbjct: 124 LTFRLTHPSHSIPKTYQVLVKGHPPKAVLEMWREGVLLDGRKTRKAKVSLLESLAEKSRL 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREVSKKILRE- 243 + L+EG+NR+I++V E + V +L R + G QL T L AG+ R + +R Sbjct: 184 EIVLQEGRNRQIRRVAEQLGYPVIKLHRTAIGSIQLQTSKQPLLRAGNYRILRDDEIRSL 243 Query: 244 QLGPHLLEEAQVNLDAP 260 Q + ++N P Sbjct: 244 QEQVKNIPTKRINFQNP 260 >gi|121607089|ref|YP_994896.1| pseudouridine synthase [Verminephrobacter eiseniae EF01-2] gi|121551729|gb|ABM55878.1| ribosomal large subunit pseudouridine synthase B [Verminephrobacter eiseniae EF01-2] Length = 520 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 90/330 (27%), Positives = 145/330 (43%), Gaps = 6/330 (1%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN + D ++V+ Sbjct: 161 KRVLLPQVETPKLHKVLAQAGLGSRLEMEQLILEGRISVNNEPA-HIGQRIQFGDQVKVN 219 Query: 64 GVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 G P+R R+ YHKP+G V +H DP R TVF LP + + SVGRLD+NTE Sbjct: 220 GKPIRYRIDPPPARVIAYHKPVGEVVSHDDPHNRPTVFRRLPRLVQGKWQSVGRLDLNTE 279 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLT+ G LA L P R Y VR G + ++ L G+ + + Sbjct: 280 GLLLLTSSGELANQLMHPRFGLEREYAVRVLGALSNEEKQKLLDGVRLDDGIASFGTIED 339 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V + EG+NRE++++ E V+RLIRI YG L L G+ E+ + Sbjct: 340 GGGEGANCWYRVTIAEGRNREVRRMLEAVGHAVSRLIRIRYGAMVLPRGLKRGTWLELDE 399 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 + +R ++ P + R+R R + + Sbjct: 400 RDIRALAQAAGARAPALSTRTPTDARAGKQRERSGPPMGNGPRRGRSPQGPAAGARAQNP 459 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDS 328 ++ ++ + S Sbjct: 460 RRDGGGQGVGAGGNHAGPRAAAQPDPMQTS 489 >gi|167635583|ref|ZP_02393895.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0442] gi|170688259|ref|ZP_02879469.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0465] gi|254686959|ref|ZP_05150817.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. CNEVA-9066] gi|254741694|ref|ZP_05199381.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Kruger B] gi|167529003|gb|EDR91758.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0442] gi|170667765|gb|EDT18518.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0465] Length = 229 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 66/235 (28%), Positives = 115/235 (48%), Gaps = 10/235 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEANSCSRRETDRLIKAGRVAINGEICTHGAL-VNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +HKP+G+ T ++ +G + N P R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYINYPE---RIFPVGRLDKASEGLILLTNDGGIA 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V +N + G+ I+ +VT + + + Sbjct: 117 NQILHGDHEHEKEYVVTVDKSFTDWFINEMSSGVKIKDGITKPCKVT----RVDKSTCRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 173 VLTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|30248452|ref|NP_840522.1| pseudouridylate synthase family protein 1 [Nitrosomonas europaea ATCC 19718] gi|30138338|emb|CAD84346.1| possible pseudouridylate synthase family 1 [Nitrosomonas europaea ATCC 19718] Length = 292 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 90/258 (34%), Positives = 134/258 (51%), Gaps = 6/258 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER-- 72 R+ K++AR G+ SRRE+E MIA RV +NG+ + D I +DG +R Sbjct: 35 RLQKLLARNGLGSRREIEDMIAAGRVSINGVTAK-PGDRAGPGDMIRIDGKIIRFRLAAL 93 Query: 73 -TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGL 130 R+ +YHKP G + + DP GR +VFD LP S+ I++GRLD NT GLL+ T DG L Sbjct: 94 LPRVIIYHKPEGEIVSVRDPQGRPSVFDKLPHIRSSKWIAIGRLDFNTSGLLIFTTDGTL 153 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P Q R Y VR G++ +++ L GI ++ Q+ + G+N W Sbjct: 154 ANHLMHPRYQMEREYAVRIVGELTPEQITRLTTGIELEDGLAKFDQLLDEGGTGTNHWYR 213 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHL 249 + L+EG+NRE++++FE V+RLIR+ +GP L L G E+ + + L Sbjct: 214 IMLKEGRNREVRRMFEALGLTVSRLIRVRFGPVNLPPRLKRGMWIELMDIEVEQLLKLVS 273 Query: 250 LEEAQVNLDAPIYSSETL 267 A + P + Sbjct: 274 QPGAGIPDKPPSMQAGRR 291 >gi|116623183|ref|YP_825339.1| ribosomal large subunit pseudouridine synthase B [Candidatus Solibacter usitatus Ellin6076] gi|116226345|gb|ABJ85054.1| ribosomal large subunit pseudouridine synthase B [Candidatus Solibacter usitatus Ellin6076] Length = 264 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 71/260 (27%), Positives = 136/260 (52%), Gaps = 2/260 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 M+ K QE T + + +V ++AG SR + + I+ +V+VNG ++ V D Sbjct: 1 MEKKRNRQEKITLKTLERVFSKAGAGSRTDARKWISGGKVRVNGKVVLNPDHWVDPDHDK 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + ++G PL+ A ++ L +KP G +TT+ DP+GR TV+ L + + VGRLD++T Sbjct: 61 VTLEGKPLKAATKS-YILLYKPKGYLTTYRDPEGRPTVYALLGDVGKWLSPVGRLDLDTS 119 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LTND A + P + + Y+++ + +++ L+ G+ + +V Sbjct: 120 GLLVLTNDNDFAERITNPEHKVPKTYQIKAATVLSDEQIERLRAGVELSDGPTRPAEVKR 179 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + ++ + + EG+NR+++++ E KV++L+R + GP ++G L G R ++ Sbjct: 180 LRDGPKHTFLEMTITEGRNRQVRRMLEAVESKVSKLVRTAIGPVRIGELPIGKWRNLTAD 239 Query: 240 ILREQLGPHLLEEAQVNLDA 259 + E G + + D Sbjct: 240 EVHELRGQAAKKASGPARDK 259 >gi|73662568|ref|YP_301349.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305] gi|72495083|dbj|BAE18404.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305] Length = 245 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 78/243 (32%), Positives = 134/243 (55%), Gaps = 5/243 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N +R+ K IA +G SRR+ E +I + +VKVNG + V +D IEV+G+ L + Sbjct: 2 NKDTERLQKRIANSGYTSRRKAETLITEGKVKVNGTVETELGTKVKPSDSIEVEGIKLEQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ L++KP ++T+ SD GR V D I +R+ VGRLD +T GLLLLTNDG Sbjct: 62 EDKL-YILFYKPAQVITSVSDDRGRKVVTDYFKQIKTRIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNA 187 ++ P + + Y V+ G + ++++ L++G+ ++ +V + + Sbjct: 121 FTNLMTHPRYKIKKKYVVKLKGYLMREEVKSLEQGVQLEDGVTQPAIIKVKNQDKDKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR--EQL 245 V + + EG+NR+++++FE F +V +L RI +GP L L AG R ++ ++ Q+ Sbjct: 181 LVEITITEGRNRQVRRMFEHFGHQVTKLQRIEFGPLNLKGLNAGEGRVLTPHEVKMIRQI 240 Query: 246 GPH 248 H Sbjct: 241 AEH 243 >gi|82776628|ref|YP_402977.1| 23S rRNA pseudouridylate synthase B [Shigella dysenteriae Sd197] gi|309789069|ref|ZP_07683664.1| ribosomal large subunit pseudouridine synthase B [Shigella dysenteriae 1617] gi|81240776|gb|ABB61486.1| conserved hypothetical protein [Shigella dysenteriae Sd197] gi|308923340|gb|EFP68852.1| ribosomal large subunit pseudouridine synthase B [Shigella dysenteriae 1617] Length = 290 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 105/301 (34%), Positives = 149/301 (49%), Gaps = 23/301 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV ++G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSIDGRIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + +DR + + R K SQ +G + Sbjct: 242 EL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVSGGRRSGGRN 288 Query: 303 T 303 + Sbjct: 289 S 289 >gi|307705665|ref|ZP_07642514.1| conserved hypothetical protein [Streptococcus mitis SK597] gi|307620791|gb|EFN99878.1| conserved hypothetical protein [Streptococcus mitis SK597] Length = 240 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 73/239 (30%), Positives = 114/239 (47%), Gaps = 8/239 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L I V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPKGVISATEDPKHR-TVLDLLDDIARSKEVFPVGRLDIDTHGLLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A L P + Y + G + Q+ + KGI ++ ++ L + + + Sbjct: 119 AHDLLSPKRHVDKTYLAQVKGIMTQEDVETFAKGIPLKDFTCKPARLELVSIDAEKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + V + EGK ++K++ + +V L R++ G L L G R ++K+ L L Sbjct: 179 IRVTIAEGKFHQVKRMVGYCGKEVVDLQRLTMGTLVLDENLQRGEWRRLTKEELEVLLA 237 >gi|294637088|ref|ZP_06715402.1| ribosomal small subunit pseudouridine synthase A [Edwardsiella tarda ATCC 23685] gi|291089716|gb|EFE22277.1| ribosomal small subunit pseudouridine synthase A [Edwardsiella tarda ATCC 23685] Length = 235 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 55/235 (23%), Positives = 101/235 (42%), Gaps = 3/235 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I++ SR V R + + V V+G++ ++ + + + G L Sbjct: 1 MRLDKFISQQLGISRALVARELRARYVTVDGVVARSGSLQITAEQEVAYQGNVLTFITGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLD++T GL+LLT+DG + Sbjct: 61 RYFMLNKPEGYVCSTDDPDHATILYFIDEPMAEKLHAAGRLDLDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V +D +G+ + G L+ V + + Sbjct: 121 ITSPRHHCEKTYLVTLEQPLDPQTAEQFAQGVQLHGEKDLTKPARLEA--LDEHQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGP 247 EG+ ++K++F +V L R G L L G R +S + L P Sbjct: 179 SEGRYHQVKRMFAAVGNRVVALHRERIGAIALDAALAPGEYRALSDDEVASVLAP 233 >gi|307544267|ref|YP_003896746.1| RNA-binding S4 domain protein [Halomonas elongata DSM 2581] gi|307216291|emb|CBV41561.1| RNA-binding S4 domain protein [Halomonas elongata DSM 2581] Length = 287 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 101/287 (35%), Positives = 144/287 (50%), Gaps = 11/287 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 T +++ KV+ARAG+ SRRE+E IA RVKVNG + V D + D P+ Sbjct: 4 TSEKLQKVLARAGLGSRREMETAIADGRVKVNGQVAT-LGDRVELRDKVAFDDRPVALRG 62 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ +Y+KP G + T DP+GR TVFD LP R I++GRLDINT GLLL T Sbjct: 63 ADEVPRRVIMYNKPEGELCTRKDPEGRRTVFDRLPRLKGERWIAIGRLDINTSGLLLFTT 122 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PSTQ R Y VR G+V D + + +G+++ V +G N Sbjct: 123 DGELANRLMHPSTQIEREYAVRVMGEVTMDHIKAMVEGVMLDDGPARFTDVQEFGGEGIN 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 W V + EG+NRE+++++E N V+RL R+ YG L AG E+ + + + Sbjct: 183 TWFHVVIMEGRNREVRRLWESQNLTVSRLKRVRYGNIFLDKRAKAGEWVELGQDEIDDLA 242 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK 292 L +V P + + R + P R K+S + Sbjct: 243 EQAGLPSRKV----PELTPDEKNRWSRDKNKRRPVQGVRKPKSSRSR 285 >gi|323488402|ref|ZP_08093649.1| pseudouridine synthase [Planococcus donghaensis MPA1U2] gi|323397909|gb|EGA90708.1| pseudouridine synthase [Planococcus donghaensis MPA1U2] Length = 237 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 70/233 (30%), Positives = 111/233 (47%), Gaps = 8/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K ++ G SR+EV+ ++ + V+VNG ++ V+V TD + V G + E Sbjct: 1 MRLDKYLSNMGHGSRKEVKVLLKSKAVEVNGEIVRDPKVHVNEHTDLVSVGGEAVTYTE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 L +KP G+++ D TV D L VGRLD +TEG LLLTNDG L Sbjct: 60 FIYLLMNKPQGVISATED-KYDKTVIDLLGKDEQHFEPFPVGRLDKDTEGFLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y G V ++ KKG+V+ G + + + + Sbjct: 119 AHELLSPKKHVDKTYFAHVEGVVTEEDTEAFKKGVVLDDGYETKPASLNILDSAVV-SKI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EGK ++K++FE +V L R+S GP L L G R ++++ + Sbjct: 178 ELTITEGKFHQVKRMFESVGKRVVYLKRLSMGPLSLDPELELGEYRHLTEEEM 230 >gi|296136237|ref|YP_003643479.1| RNA-binding S4 domain protein [Thiomonas intermedia K12] gi|295796359|gb|ADG31149.1| RNA-binding S4 domain protein [Thiomonas intermedia K12] Length = 562 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 100/347 (28%), Positives = 159/347 (45%), Gaps = 12/347 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + ++ ++ KV+A++G+ SRRE+E +I RV VNG ++ TD I V+ Sbjct: 162 RRVLAPAEDAPKLHKVLAQSGVGSRREMEDLILAGRVSVNGEPA-HLGQRILPTDQIRVN 220 Query: 64 GVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 G +++ + R+ YHKP G V + DP+GR TVF +LP ++ +VGRLDINTE Sbjct: 221 GKIIKRRLRPAQARVLAYHKPTGEVVSFKDPEGRPTVFQHLPKLQGAKWTAVGRLDINTE 280 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T G LA L PS R Y VR G++D + L +G+ + + + Sbjct: 281 GLLLFTTSGDLANRLMHPSYGAEREYAVRVLGELDAAARDELLEGVQLGDGPARFLSLEE 340 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V + EG+NRE++++FE V+RLIR+ Y L L G E+ K Sbjct: 341 AGGEGANRWWRVVISEGRNREVRRMFEAVGLTVSRLIRVRYASVVLPAGLRRGDFVELDK 400 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +++ G + D P + N D + + G +Q Sbjct: 401 SLVQALQGRSGEAPSGA-GDRPARR-----PNGQNQGGRRNDSRGSGRGGRGKGQGGDQQ 454 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 + R + + + + S S G + P S+R Sbjct: 455 QPGPDSYARTTVEALFGKSPVVRSGGGSWGGAGNFSTGNKPGGQSRR 501 >gi|283785437|ref|YP_003365302.1| ribosomal large subunit pseudouridine synthase B [Citrobacter rodentium ICC168] gi|282948891|emb|CBG88493.1| ribosomal large subunit pseudouridine synthase B [Citrobacter rodentium ICC168] Length = 291 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 105/300 (35%), Positives = 147/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIARLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD K+ L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKIRDLSRGVQLEDGPAAFRTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAKTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + +DR + + R K SQ +G + Sbjct: 242 EL----------VELPPETTSKVAVEKDRRRMKAN---QIRRAVKRHSQMSGGRRSGGRN 288 >gi|330816691|ref|YP_004360396.1| hypothetical protein bgla_1g17950 [Burkholderia gladioli BSR3] gi|327369084|gb|AEA60440.1| hypothetical protein bgla_1g17950 [Burkholderia gladioli BSR3] Length = 575 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 90/288 (31%), Positives = 150/288 (52%), Gaps = 7/288 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A AG+ SRRE+E +I RV VNG ++ TD + ++ Sbjct: 178 KRVLAPEDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRILPTDQVRIN 236 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR++VFD LP + ++ ++VGRLD NTE Sbjct: 237 GKPVKRKLANKPPRVLLYHKPTGEIVSHADPEGRASVFDRLPPMKTAKWLAVGRLDFNTE 296 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++++ L G+ ++ +++ Sbjct: 297 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELNEASRQKLLHGVELEDGPANFLRIRD 356 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +G L L G E+ + Sbjct: 357 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGSIPLPRGLKRGRWEELDE 416 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 +R+ + L+ A + + R +P+ + R Sbjct: 417 AQVRKLMATVGLKVA-ADEKGKRGGAGQAERRQPDPMQTSMGFLNREP 463 >gi|315611910|ref|ZP_07886829.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis ATCC 49296] gi|315316088|gb|EFU64121.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis ATCC 49296] Length = 240 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 71/239 (29%), Positives = 113/239 (47%), Gaps = 8/239 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D R TV D L V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPQGVISATEDTKHR-TVLDLLDDYARAKEVFPVGRLDIDTHGLLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A L P + Y + G + Q+ ++ KGI ++ ++ L + + + + Sbjct: 119 AHALLSPKRHVDKTYLAQVKGIMTQEDVDAFAKGIPLKDFTCQPARLELVSVDPEKNQSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 V V + EGK ++K++ + +V L R++ G L L G R ++K+ L Sbjct: 179 VRVTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTLVLDENLEQGEWRRLTKEELEVLFA 237 >gi|86740160|ref|YP_480560.1| ribosomal large subunit pseudouridine synthase B [Frankia sp. CcI3] gi|86567022|gb|ABD10831.1| ribosomal large subunit pseudouridine synthase B [Frankia sp. CcI3] Length = 252 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 74/234 (31%), Positives = 113/234 (48%), Gaps = 1/234 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPL 67 R+ KV+A AG+ SRR E +IA RV+V+G ++ V T IEVDG + Sbjct: 10 PQDQGIRLQKVLAAAGVGSRRHGEELIAAGRVRVDGTVVREQGRRVDPETALIEVDGERI 69 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 +KP G+++ SD GR T+ D L + VGRLD ++EGLLL+TND Sbjct: 70 VTRTGLVHLALNKPRGVLSAMSDDRGRPTIADLLTEFGGGLFHVGRLDADSEGLLLVTND 129 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + Y V G + +D L L+ + + + Sbjct: 130 GELAHRLTHPSFAVPKTYLVEVSGPLRRDVLRQLRAEVELDDGPVRADSARIVDNANGRV 189 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V + EG+ ++++ + V+RL+R +G LGTL AG R +++ + Sbjct: 190 MVEVVVHEGRKHVVRRMMDAVGHPVHRLVRTRFGAVSLGTLRAGRARHLTRHEI 243 >gi|325283294|ref|YP_004255835.1| pseudouridine synthase Rsu [Deinococcus proteolyticus MRP] gi|324315103|gb|ADY26218.1| pseudouridine synthase Rsu [Deinococcus proteolyticus MRP] Length = 252 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 83/256 (32%), Positives = 130/256 (50%), Gaps = 8/256 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+ KV+ARAG+ASRR E +I RV VNGI V V D + VDG P+ Sbjct: 2 TDSGERLQKVLARAGVASRRAAEELITAGRVAVNGIPA-GLGVRVQPGDRVTVDGEPVAA 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ HKP G VTT D GR TV D +P + + VGRLD ++EGLL+LT DG Sbjct: 61 PTPHVTYMLHKPAGFVTTAQDELGRRTVLDAMPPV-PGLHPVGRLDKDSEGLLILTTDGD 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + +VYRV + + +L L++G+ ++ G + ++ G + Sbjct: 120 LTLRLTHPRFEHEKVYRVWCFPEPGEQELAALRRGVELE---EGFARAEVEPAPGGALAL 176 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 LREG+ R+++++F V+RL+R G LG L G ++ ++ L L P Sbjct: 177 ---LREGRKRQVRRMFAEVGCPVDRLLRYRVGGLWLGDLGPGEFVQLGEQELDWLLQPGT 233 Query: 250 LEEAQVNLDAPIYSSE 265 +++ + + Sbjct: 234 RQQSPAQREQEALTRR 249 >gi|322807584|emb|CBZ05159.1| ribosomal small subunit pseudouridine synthase A [Clostridium botulinum H04402 065] Length = 238 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 119/233 (51%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L ++ Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVY-KK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+V+ D + TV D L VGRLD NT GLLLLTNDG L Sbjct: 61 YIYLMMNKPQGVVSATFD-NYDETVVDLLEDEDRIFEPFPVGRLDKNTVGLLLLTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P ++Y + + +V + + KKGI++ G ++ + + V Sbjct: 120 NHRLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDDGYECFPAKLEIIKSFNEESEV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + EGK ++K++FE + KV L R +GP +L +L G RE++ + + Sbjct: 180 RVTIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQYRELTDEEI 232 >gi|210623378|ref|ZP_03293775.1| hypothetical protein CLOHIR_01725 [Clostridium hiranonis DSM 13275] gi|210153639|gb|EEA84645.1| hypothetical protein CLOHIR_01725 [Clostridium hiranonis DSM 13275] Length = 241 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 70/234 (29%), Positives = 114/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 QRV KV++ G SR E+++ Q V VNG + + V + D I +G + E Sbjct: 5 QRVDKVLSNLGYGSRAELKKFCKQGLVFVNGKAVSNPGLQVDTDIDEIVFNGEKINYRE- 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G ++ D V D + + VGRLD +TEGLL+LTNDG L Sbjct: 64 FIYLMMNKPDGYISATFD-KHDPIVLDLIDDEYLVFEPFPVGRLDKDTEGLLVLTNDGQL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWV 189 A + P + Y + G+V ++ + K+G+V+ Y M L K + + + Sbjct: 123 AHRVLSPKKHVPKTYYAKIDGKVTEEDIEAFKQGVVLDDG-YETMPSELVILKSDDISEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE V L R+S G +L TL G RE++ + ++ Sbjct: 182 ELTIHEGKFHQVKRMFESVGKTVVYLKRLSMGALKLDETLELGEYRELTDEEVK 235 >gi|282934173|ref|ZP_06339451.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 208-1] gi|297205793|ref|ZP_06923188.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii JV-V16] gi|281301787|gb|EFA94053.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 208-1] gi|297148919|gb|EFH29217.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii JV-V16] Length = 234 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 74/235 (31%), Positives = 117/235 (49%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I ++V VNG L+++A V TD ++V + E+ Sbjct: 1 MRIDKYLANMKVGSRKEVHDLIKAKKVTVNGQLVKQAKQQVADTDIVKVADETIAY-EQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G++T DP + TV D + + + VGRLD +T GLLLLTNDG L Sbjct: 60 HYFMLNKPAGVITATEDPQ-QKTVLDLIEHKDRYQGLSPVGRLDKDTTGLLLLTNDGQLN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V +V + + KG+ + G Q+ +D + Sbjct: 119 HNLLSPKKHVAKTYFVELDYEVSDELIVNFAKGVTLADGTKVSPSQLKIDKSNKKQGF-- 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + + EGK +IK++F F+ V RL RIS G L LL G R+++K + Sbjct: 177 ITIHEGKFHQIKRMFGLFDLGVVRLKRISMGNLSLDENLLLGKYRKLTKAEISAL 231 >gi|218512381|ref|ZP_03509221.1| probable RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli 8C-3] Length = 244 Score = 260 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 141/218 (64%), Positives = 166/218 (76%) Query: 48 ERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 VNV D IEVDG+P+R ERTRLWLYHKP GLVTT++DP+GR TVFDNLP R Sbjct: 16 RNPVVNVTLADRIEVDGMPIRGIERTRLWLYHKPAGLVTTNADPEGRPTVFDNLPEELPR 75 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 V+S+GRLDINTEGLLLLTNDGGLAR LELP+T WLR YRVR HG++DQ+ L+ LK GI + Sbjct: 76 VMSIGRLDINTEGLLLLTNDGGLARALELPATGWLRRYRVRAHGEIDQEALDKLKDGIAV 135 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G+ YG ++ TLD +GSN W+T+GLREGKNREIK V VNRLIRISYGPFQLG Sbjct: 136 DGVLYGSIEATLDRTQGSNVWITMGLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGD 195 Query: 228 LLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSE 265 L G EV + LR+QLGP L+EEA+ N DAPIY++ Sbjct: 196 LPEGHVIEVRGRTLRDQLGPRLIEEAKANFDAPIYNAP 233 >gi|307707699|ref|ZP_07644178.1| RNA pseudouridine synthase family protein [Streptococcus mitis NCTC 12261] gi|307616197|gb|EFN95391.1| RNA pseudouridine synthase family protein [Streptococcus mitis NCTC 12261] Length = 240 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 73/239 (30%), Positives = 117/239 (48%), Gaps = 8/239 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEERDEIRFDGKVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L I V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPQGVISATEDPKHR-TVLDLLDDIARSKEVFPVGRLDIDTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAW 188 A L P + Y V+ G + Q +++ +GI ++ ++ L + + + + Sbjct: 119 AHALLSPKRHVNKTYLVQVKGIMTQGDVDIFAEGIPLKDFTCQPARLELVSIDTEKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + V + EGK ++K++ + +V L R++ G L L G R ++K+ L L Sbjct: 179 IRVTIAEGKFHQVKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELENLLA 237 >gi|15604401|ref|NP_220917.1| hypothetical protein RP544 [Rickettsia prowazekii str. Madrid E] gi|6647946|sp|Q9ZD06|Y544_RICPR RecName: Full=Uncharacterized RNA pseudouridine synthase RP544; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|3861093|emb|CAA14993.1| unknown [Rickettsia prowazekii] gi|292572159|gb|ADE30074.1| Ribosomal large subunit pseudouridine synthase [Rickettsia prowazekii Rp22] Length = 235 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 108/231 (46%), Positives = 153/231 (66%), Gaps = 2/231 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+I+ AG+ SRR E++I +VK++GI + A NV ++ IEV G + ++ R Sbjct: 3 RLAKIISNAGVCSRRNAEKLIVGGKVKIDGITILSPATNVDMSNQIEVSGRLINNTQKPR 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW+Y+KP+GL+TTH DP R TVF+ L RVIS+GRLD+N+EGLLLLTN G LA Sbjct: 63 LWIYYKPVGLITTHKDPLSRKTVFEQLIG-LPRVISIGRLDLNSEGLLLLTNSGDLAHQF 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 E+P+++ RVY VR +G + L K + I GI Y + L Q SN+W V L Sbjct: 122 EMPASKLKRVYNVRAYGNPNI-LLKNNYKNLKIDGIFYNPHSIKLLRQNKSNSWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 EGKNREI+++FE+F +VN+LIRI YG ++G L G+ +E+S KIL +QL Sbjct: 181 EGKNREIRRIFEYFGLQVNKLIRIQYGALKIGNLKPGNYQEISNKILEKQL 231 >gi|300855314|ref|YP_003780298.1| ribosomal large subunit pseudouridine synthase B [Clostridium ljungdahlii DSM 13528] gi|300435429|gb|ADK15196.1| ribosomal large subunit pseudouridine synthase B [Clostridium ljungdahlii DSM 13528] Length = 229 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 73/226 (32%), Positives = 117/226 (51%), Gaps = 4/226 (1%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTRLWLY 78 +A GIASRR+ E +I Q RVKVNG ++ + D I VD V + K + L Sbjct: 1 MAYCGIASRRKCESIILQGRVKVNGETIKSLGTKIDDKVDKITVDDVKIEKENKKVYILL 60 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS 138 +KP G V+T D GR+T+ D + + R+ +GRLD NT G+++LTNDG + + P Sbjct: 61 NKPTGYVSTVKDDRGRNTILDIV-KVKERIYPIGRLDYNTSGIIILTNDGEVYNKVAHPK 119 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTVGLREG 196 + +VY G ++ ++ K G+ I G + + +N+ V + + EG Sbjct: 120 MEKNKVYVAVIKGIPSKEDIDKFKNGVNIDGYITAKADFNILNINKSKNNSKVRIKIHEG 179 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 KNR+I+K+ + V L RIS G +G L G R +++ ++ Sbjct: 180 KNRQIRKMCDAIGHPVISLTRISIGNINVGNLEEGKWRYLNEDEIK 225 >gi|209524582|ref|ZP_03273130.1| pseudouridine synthase [Arthrospira maxima CS-328] gi|209495040|gb|EDZ95347.1| pseudouridine synthase [Arthrospira maxima CS-328] Length = 257 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 80/239 (33%), Positives = 117/239 (48%), Gaps = 11/239 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AE 71 +R+ K+I+ G+ASRR E MI RVKVNG D IE+DG L Sbjct: 3 ERLQKIISHWGVASRRHAEEMILSGRVKVNGDRAYLGQKADPKCDRIEIDGRALHPSSQP 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDG 128 + L +KP+G+V T ++P GR V D LP + VGRLD ++ G LL+TNDG Sbjct: 63 QPLYLLLNKPLGVVCTCAEPQGRKAVLDLLPRQMRVGQGLHPVGRLDSDSTGALLITNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-SNA 187 L +L P + Y+V G + L ++GI++ G QV + S Sbjct: 123 ELTFLLTHPRYHVAKTYQVLVQGCPPESVLEQWRQGILLSGKNTLPAQVRPIGKPSRSQT 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREVSKKIL 241 + V LREG+NR+I++V E + V +L R + GP L + L +G R + + Sbjct: 183 LLEVVLREGRNRQIRRVAEALGYPVVQLHRTAIGPIYLNSTGKPELASGEYRSLKNSEV 241 >gi|157964674|ref|YP_001499498.1| ribosomal large subunit pseudouridine synthase [Rickettsia massiliae MTU5] gi|157844450|gb|ABV84951.1| Ribosomal large subunit pseudouridine synthase [Rickettsia massiliae MTU5] Length = 229 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 109/229 (47%), Positives = 150/229 (65%), Gaps = 2/229 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+I+ AG+ SRR+ E++I + +VKV+GI + A NV ++ IEV G + + R Sbjct: 3 RLAKIISNAGVCSRRDAEKLIVEGQVKVDGITILSPATNVDISNQIEVSGTLINNIHKPR 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW+Y+KP+GL+TTH DP R TVF+ L VIS+GRLD+N+EGLLLLTN G LAR Sbjct: 63 LWIYYKPVGLITTHKDPLSRKTVFEQLTG-LPHVISIGRLDLNSEGLLLLTNSGDLARQF 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPS++ RVY VR +G+ L K + I GI Y + L Q SN+W V L Sbjct: 122 ELPSSRLKRVYHVRAYGK-SDILLKSHYKNLEIDGIFYNPHSIKLLKQNKSNSWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 EGKNREI+++FE+F KVN+LIRI YG F + L G +E++ KIL + Sbjct: 181 EGKNREIRRIFEYFGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKILEK 229 >gi|289425044|ref|ZP_06426821.1| pseudouridylate synthase [Propionibacterium acnes SK187] gi|289154022|gb|EFD02710.1| pseudouridylate synthase [Propionibacterium acnes SK187] gi|313792449|gb|EFS40542.1| conserved hypothetical protein [Propionibacterium acnes HL110PA1] gi|313801506|gb|EFS42755.1| conserved hypothetical protein [Propionibacterium acnes HL110PA2] gi|313838267|gb|EFS75981.1| conserved hypothetical protein [Propionibacterium acnes HL086PA1] gi|314963143|gb|EFT07243.1| conserved hypothetical protein [Propionibacterium acnes HL082PA1] gi|315078206|gb|EFT50249.1| conserved hypothetical protein [Propionibacterium acnes HL053PA2] gi|327453532|gb|EGF00187.1| hypothetical protein HMPREF9584_01968 [Propionibacterium acnes HL092PA1] Length = 245 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 88/239 (36%), Positives = 126/239 (52%), Gaps = 4/239 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 N R+ KV+A+AG+ASRR E MIA RV+VNG L+ V D I VDG + Sbjct: 3 NEQGIRLQKVLAQAGLASRRAAEDMIAAGRVEVNGELIVEQGRRVDPERDEIRVDGSRIP 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDN--LPSIFSRVISVGRLDINTEGLLLLTN 126 A R ++ +KP G+V+T DP+GR + D +P R+ VGRLD T GL+LLTN Sbjct: 63 TARRHVYYVLNKPQGVVSTMDDPEGRPCLSDLEGVPRGI-RLFHVGRLDTETSGLILLTN 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + PS + L+ Y G+VD + L KG+ ++ V L + Sbjct: 122 DGEFANRMTHPSYKVLKTYLADVEGRVDDKVIRRLSKGLTLEDGPVKPDAVRLVQAGEEH 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + V V L EG+NR ++++ + V RL R GP +L L G RE++ + L + L Sbjct: 182 SLVEVSLHEGRNRIVRRIMDSVAHPVRRLSRTVIGPVRLKRLGRGDMRELTHEELGQLL 240 >gi|258621922|ref|ZP_05716952.1| ribosomal small subunit pseudouridine synthase A [Vibrio mimicus VM573] gi|258585860|gb|EEW10579.1| ribosomal small subunit pseudouridine synthase A [Vibrio mimicus VM573] Length = 257 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 61/237 (25%), Positives = 105/237 (44%), Gaps = 6/237 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +Q + R+ K + A +R+E ++ V V+ ++ + A + T +E G Sbjct: 20 LQADEVSMRLDKFLCDALGTTRKEATMLLKSGEVTVDDLVQKSGAFKLKETSCVEWQGRE 79 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLT 125 + A R + HKP G+V +H D T F L + GRLD++T GLLL+T Sbjct: 80 IT-AHGPRYIMMHKPDGVVCSHEDGFN-QTAFILLDEVNIQDLHFAGRLDVDTTGLLLIT 137 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG + + P + + YRV + D GI ++G + L+ S Sbjct: 138 DDGQWSHRVTSPKHKCEKTYRVWLADPIQADYAEQFTNGIELRGERELTLPAQLEI--VS 195 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + + EGK ++K++F KV L R G L +L G R ++++ + Sbjct: 196 ETEVLLTIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDESLEPGDYRYLTEEEI 252 >gi|158337477|ref|YP_001518652.1| pseudouridine synthase family 1 protein [Acaryochloris marina MBIC11017] gi|158307718|gb|ABW29335.1| pseudouridine synthase family [Acaryochloris marina MBIC11017] Length = 269 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 74/244 (30%), Positives = 123/244 (50%), Gaps = 13/244 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K++++ G+ASRR+ E++I +V++NG E D I ++G L +R Sbjct: 3 IRLQKLLSQWGVASRRQAEQLILAGQVQLNGHTAELGQKADPDQDQITLNGQILNPTDRP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 + L +KP G+V+T DP R TV + LP + + + VGRLD+ + G LLLTNDG Sbjct: 63 QPLYLLVNKPKGVVSTCQDPQHRRTVLELLPKTYQQGQGLHPVGRLDVASTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSN 186 L L P + Y+V G + L+ ++GI + G QV + Q +N Sbjct: 123 QLTFALTHPRFHIAKTYQVWIEGCPPPEILDRWRQGIHLDGRTTLPAQVEILKPYQSHTN 182 Query: 187 AW-VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREVSKKI 240 + + V L+EG+NR+I+++ E + V +L R G L + L G R ++ Sbjct: 183 SICLEVILQEGRNRQIRRIAEQLGYPVRKLHRTQIGSISLHSPSGKLLPQGRYRSLTASE 242 Query: 241 LREQ 244 ++ Sbjct: 243 MKNL 246 >gi|168183575|ref|ZP_02618239.1| RNA pseudouridine synthase family protein [Clostridium botulinum Bf] gi|237796714|ref|YP_002864266.1| RNA pseudouridine synthase family protein [Clostridium botulinum Ba4 str. 657] gi|182673348|gb|EDT85309.1| RNA pseudouridine synthase family protein [Clostridium botulinum Bf] gi|229261203|gb|ACQ52236.1| RNA pseudouridine synthase family protein [Clostridium botulinum Ba4 str. 657] Length = 238 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 119/233 (51%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L ++ Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVY-KK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+V+ D + TV D L VGRLD NT GLLLLTNDG L Sbjct: 61 YIYLIMNKPQGVVSATFD-NYDETVVDLLEDEDRIFEPFPVGRLDKNTVGLLLLTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P ++Y + + +V + + KKGI++ G ++ + + V Sbjct: 120 NHRLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDDGYECFPAKLEIIKSFNEESEV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + EGK ++K++FE + KV L R +GP +L +L G RE++ + + Sbjct: 180 RVTIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQYRELTDEEI 232 >gi|255535081|ref|YP_003095452.1| pseudouridine synthase, Rsu [Flavobacteriaceae bacterium 3519-10] gi|255341277|gb|ACU07390.1| pseudouridine synthase, Rsu [Flavobacteriaceae bacterium 3519-10] Length = 239 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 69/231 (29%), Positives = 115/231 (49%), Gaps = 8/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-AERT 73 R++K ++ G SRRE +RM+ Q R+ VNG + V D I VDGV +RK E Sbjct: 4 RINKYLSEVGFCSRREADRMLEQGRITVNGNIP-EMGTKVSGEDEILVDGVSIRKVEEEH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+V T R + + + + R+ +GRLD +EGL+LLT+DG + Sbjct: 63 VYIALNKPVGIVCTTDTKRERDNIVEFV-NHPKRIFPIGRLDKPSEGLILLTSDGDIVNK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + L+ ++ G+ I GI +V ++ + L Sbjct: 122 ILRARNNHEKEYIVRVDKPISPQFLHKMRNGVPILGIITNKCEV----EQIDTLSFRIIL 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +G NR+I+++ E+ ++V +L RI +L L G R++S + L E Sbjct: 178 TQGLNRQIRRMCEYLGYEVKKLKRIRIMNIKL-DLPIGKWRDLSAQELAEL 227 >gi|15805921|ref|NP_294620.1| ribosomal large subunit pseudouridine synthase B [Deinococcus radiodurans R1] gi|6458615|gb|AAF10472.1|AE001942_4 ribosomal large subunit pseudouridine synthase B [Deinococcus radiodurans R1] Length = 257 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 87/246 (35%), Positives = 121/246 (49%), Gaps = 10/246 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-K 69 + +R+ K +ARAGIASRR E +I RV VNG V TD + VDG + Sbjct: 1 MSAERLHKRLARAGIASRRAAEELIRAGRVTVNGQTA-GLGQGVNDTDDVRVDGRLVELT 59 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 T + +KP+G VTT D GR V D +P + + VGRLD ++EGLLLLTNDG Sbjct: 60 RPETVTYALYKPVGFVTTAHDEYGRRNVLDAMPDV-PGLHPVGRLDKDSEGLLLLTNDGD 118 Query: 130 LARVLELPSTQWLRVYRVRFHG--QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 L L P + YR G Q +L++L +GI + + + G+ Sbjct: 119 LTLTLTHPRYGHEKAYRAWTEGREPPTQAELDVLVRGIAMDDGPAQALSA-APAEDGA-- 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V L EG+NR+++++ E V RL+R G LG L G RE+ + L + L P Sbjct: 176 --YVVLGEGRNRQVRRMLEALGHPVGRLVRYRVGGLWLGDLNPGEYRELGPRDLEQLLHP 233 Query: 248 HLLEEA 253 H A Sbjct: 234 HKTPRA 239 >gi|306822735|ref|ZP_07456113.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium dentium ATCC 27679] gi|309801018|ref|ZP_07695150.1| pseudouridylate synthase [Bifidobacterium dentium JCVIHMP022] gi|304554280|gb|EFM42189.1| ribosomal large subunit pseudouridine synthase B [Bifidobacterium dentium ATCC 27679] gi|308222554|gb|EFO78834.1| pseudouridylate synthase [Bifidobacterium dentium JCVIHMP022] Length = 257 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 68/237 (28%), Positives = 117/237 (49%), Gaps = 2/237 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 N R+ K++A+AG SRR+ E +I RV+++G L+ V + VDG +R Sbjct: 15 NNEGIRLQKLLAQAGFGSRRKCEEIITDGRVEIDGELITELGTRVDPKHQEVRVDGSRVR 74 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TNDG Sbjct: 75 VNPNHVTLALNKPKRVLSAMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTNDG 134 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNA 187 L++ + P + + Y G++ L G+ + + + + Sbjct: 135 ELSQHVMHPKYEVEKTYIATLDGRISGTVCRRLVTTGVQLDDGWIKLDRCAILDSSRDST 194 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L GKNR ++++F + V RL+R GP +LG L +G+ R +S+ +R Sbjct: 195 LVKVVLHSGKNRIVRRIFGSIGFPVRRLVRTQIGPIKLGDLKSGTYRVLSQVEVRSL 251 >gi|237714337|ref|ZP_04544818.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D1] gi|229445501|gb|EEO51292.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D1] Length = 234 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 69/226 (30%), Positives = 107/226 (47%), Gaps = 3/226 (1%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLW 76 +K +A AG+ SRRE + I V VNG ++ + +D ++ P+ ER Sbjct: 2 NKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVVKFHDEPVS-IERKVYV 60 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L +KP VTT DP R TV D + R+ VGRLD NT G+LLLTNDG LA L Sbjct: 61 LLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTGVLLLTNDGDLASKLT 120 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 P ++Y V + + + + GI ++ ++ T V + + Sbjct: 121 HPKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIHADAISY-TDDFKKDQVGIEIHS 179 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 GKNR ++++FE +KV +L R+ + L G R +S+ + Sbjct: 180 GKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEAEV 225 >gi|331657316|ref|ZP_08358278.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli TA206] gi|331055564|gb|EGI27573.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) [Escherichia coli TA206] Length = 291 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 105/300 (35%), Positives = 148/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E ++ RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESILEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + +DR + + R K SQ +G + Sbjct: 242 EL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVSGGRRSGGRN 288 >gi|256391653|ref|YP_003113217.1| pseudouridine synthase [Catenulispora acidiphila DSM 44928] gi|256357879|gb|ACU71376.1| pseudouridine synthase [Catenulispora acidiphila DSM 44928] Length = 332 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 81/233 (34%), Positives = 129/233 (55%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 N R+ KV+A+AG+ SRR E +IA RV+VNG ++ + V T I VDG+ + Sbjct: 92 NEEGIRLQKVLAQAGVGSRRVSEDLIAAGRVEVNGEIVRHQGMRVDPETAVIRVDGMRIS 151 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 AE + ++KP+G+V+ DPD R + D + R+ +GRLD++TEGL+LLTNDG Sbjct: 152 TAEGIVHFAFNKPMGVVSAMDDPD-RPNLGDYVRGRNERLFHIGRLDVDTEGLILLTNDG 210 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + +VYR + +G V +D L++G+ ++ L G NA Sbjct: 211 ELAHRLAHPSYEIRKVYRAQVYGTVPKDLGRRLREGVDLEDGLARVDHFRLLDSVGRNAL 270 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + EG+NR ++++ + V L+R +GP LG R ++K+ + Sbjct: 271 VEITIHEGRNRIVRRIMDAVGLPVRGLVRTKFGPISLGDQKPERMRPLNKEEV 323 >gi|217970106|ref|YP_002355340.1| pseudouridine synthase [Thauera sp. MZ1T] gi|217507433|gb|ACK54444.1| pseudouridine synthase [Thauera sp. MZ1T] Length = 379 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 93/266 (34%), Positives = 144/266 (54%), Gaps = 9/266 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV--PLRK 69 P+R+ KV+A+AG+ASRRE+E + R+ VNG+ + D ++V+G PLR Sbjct: 115 EPERLQKVLAQAGVASRREIEEWVVAGRISVNGLPA-SLGQKIGPGDRVKVNGKLVPLRF 173 Query: 70 AER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 +R R+ +YHKP G + + DP+GR TVF+ LP + R ++VGRLD NT GLLL TND Sbjct: 174 TQRSPRVLIYHKPEGEIVSRDDPEGRPTVFERLPILRKGRWLAVGRLDFNTSGLLLFTND 233 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P + R Y VR G++ ++++ L GI ++ + + +G+N Sbjct: 234 GDLANKLMHPRYELEREYAVRILGELTEEQVKSLTDGIQLEDGPAKFNLLRDEGGEGANH 293 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI---LRE 243 W V + EG+NRE++++FE V+RL+R+ YG +L L G E+ + L Sbjct: 294 WYRVTISEGRNREVRRMFEAVGLTVSRLMRVRYGSVELPARLKRGMWMEMPEAEACALAG 353 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVR 269 P + + P+ T R Sbjct: 354 LPPPQQSRQQDLRDKRPVKLHRTQAR 379 >gi|333030055|ref|ZP_08458116.1| pseudouridine synthase Rsu [Bacteroides coprosuis DSM 18011] gi|332740652|gb|EGJ71134.1| pseudouridine synthase Rsu [Bacteroides coprosuis DSM 18011] Length = 321 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 76/326 (23%), Positives = 153/326 (46%), Gaps = 10/326 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G SRRE +++I +VKVNG V + V+G + Sbjct: 4 RLNKYISNSGYCSRREADKLIEAGQVKVNGKKA-SIGDRVYPKQKVTVNGELIVNDIEPV 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++KP+G+V+T +DP+ ++ + + S R+ +GRLD +++GL+LLTNDG + + Sbjct: 63 YIAFNKPVGIVST-TDPNEKANIVKYI-SHEQRIFPIGRLDKDSQGLILLTNDGDIVNKI 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 +VY V+ + + + +K G+ I +V +K + + L Sbjct: 121 LRAGNNHKKVYIVQVDKPITDEFIEKMKTGVPILDRVTRKCEV----EKINPYTFKIELI 176 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ +F+++V +L R +L L GS R+++ L +LE++ Sbjct: 177 QGLNRQIRRMCAYFDYEVLKLERTQIMNIELEGLGLGSWRDLNPGELEVLF--DMLEDSN 234 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNV 314 ++D S ++ + ++ DF + N+ + +K +K +P + S+ Sbjct: 235 KHVDDKGRSVSNKSINKQLELLDIQTDFRKSGLNA-KNRAATKNRKRQSPAQASSGTSSF 293 Query: 315 WMAKGIHSSFLSDSGQREENHRRSPS 340 K + + +HR S + Sbjct: 294 KPKKTGSGPRIGKQKASKVSHRGSRN 319 >gi|218689259|ref|YP_002397471.1| 23S rRNA pseudouridylate synthase B [Escherichia coli ED1a] gi|218426823|emb|CAR07673.2| 23S rRNA pseudouridylate synthase [Escherichia coli ED1a] Length = 291 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 105/300 (35%), Positives = 148/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V + I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPRLKIRIDGHLISVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + +DR + + R K SQ +G + Sbjct: 242 EL----------VELPPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVSGGRRSGGRN 288 >gi|327394043|dbj|BAK11465.1| ribosomal large subunit pseudouridine synthase B RluB [Pantoea ananatis AJ13355] Length = 294 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 109/306 (35%), Positives = 152/306 (49%), Gaps = 20/306 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MIA RV V+G L S I +DG + AE Sbjct: 2 SEKLQKVLARAGHGSRREIEAMIAAGRVSVDGKLATLGDRIENSKALKIRIDGHLVSIAE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T SDP+GR TVFD LP SR I+VGRLD+NT GL+L T Sbjct: 62 SATEVCRVLAYYKPEGELCTRSDPEGRPTVFDRLPRLRGSRWIAVGRLDVNTCGLMLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD DK+ L KG+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDDKIRQLSKGVQLEDGPAAFKTLRFAGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E +V+RL+R+ YG L + G E+ L Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLMRVRYGDITLPKGVPRGGWMELD-------L 234 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 V +D + + +DR + R K SQ +G ++ P Sbjct: 235 PAVNYLRNMVGMDDETVTKLAVEKDRRRTKAN---QIRRAVKRHSQTSGRPARRN---PG 288 Query: 306 HRRNLA 311 +RN Sbjct: 289 SKRNAT 294 >gi|310658498|ref|YP_003936219.1| ribosomal small subunit pseudouridine synthase a [Clostridium sticklandii DSM 519] gi|308825276|emb|CBH21314.1| Ribosomal small subunit pseudouridine synthase A [Clostridium sticklandii] Length = 243 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 68/240 (28%), Positives = 118/240 (49%), Gaps = 7/240 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++ R+ K +A G+ SR E++R I +RV VNG+ + + + D I D Sbjct: 1 MKAQVEKMRIDKYLANMGVGSRSEIKRYIKNKRVMVNGVYITDNGLIINLDDDIIFDEEK 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLL 124 + + + +KP G+++ D ++TV D L + + GRLD +TEG LLL Sbjct: 61 ISYR-KFVYIMMNKPQGVISATED-KYQNTVLDLLDPSYLHFDLFPAGRLDKDTEGFLLL 118 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LA + P + Y V G + + ++ I+I Y M L+ Sbjct: 119 TNDGKLAHNMLSPKKHVEKKYYVEVIGHLVNEDIDAFSGNIIIDDG-YECMPAKLEILDS 177 Query: 185 SN-AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 ++ + V ++EGK +IK++FE +V L R++ GP +L L G RE++++ ++ Sbjct: 178 NDISKAYVTIKEGKFHQIKRMFEAIGKEVTYLKRLTMGPLKLDENLELGEYRELTEQEMQ 237 >gi|163942437|ref|YP_001647321.1| pseudouridine synthase [Bacillus weihenstephanensis KBAB4] gi|229013913|ref|ZP_04171040.1| Pseudouridine synthase [Bacillus mycoides DSM 2048] gi|229135547|ref|ZP_04264331.1| Pseudouridine synthase [Bacillus cereus BDRD-ST196] gi|163864634|gb|ABY45693.1| pseudouridine synthase [Bacillus weihenstephanensis KBAB4] gi|228647927|gb|EEL03978.1| Pseudouridine synthase [Bacillus cereus BDRD-ST196] gi|228747383|gb|EEL97259.1| Pseudouridine synthase [Bacillus mycoides DSM 2048] Length = 242 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 67/234 (28%), Positives = 112/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A +V + + G + E Sbjct: 1 MRLDKLLANMGHGSRKEVKKLLKDGVVKIDGTPVKDAKFHVNVEEQEVMIHGEVVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LL+TNDG L Sbjct: 60 FVYLMMHKPQGVISATED-DNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P + Y G V ++ + KG+++ G ++T+ + + + Sbjct: 119 THQLLSPKKHVPKKYYAHISGVVTEEDVIEFAKGVILEDGYETKPGELTIL-KSDDISEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 178 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLMLDEELELGQYRELTDEEVE 231 >gi|282599636|ref|ZP_05971291.2| ribosomal large subunit pseudouridine synthase B [Providencia rustigianii DSM 4541] gi|282568029|gb|EFB73564.1| ribosomal large subunit pseudouridine synthase B [Providencia rustigianii DSM 4541] Length = 313 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 99/317 (31%), Positives = 156/317 (49%), Gaps = 23/317 (7%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG 64 + + +++ K++AR+G SRRE+E + + R+ V+G + V V ++ I +DG Sbjct: 9 MSSKPQQTEKLQKILARSGHGSRREIEGFLKEGRISVDGKMATLGDRVEVTTSTKIRLDG 68 Query: 65 VPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 L E R+ Y+KP G + T DP+GR TVF LP +R I+VGRLD+NT Sbjct: 69 RLLTIREPEKDICRVMAYYKPEGELCTRHDPEGRPTVFTRLPKLTGARWIAVGRLDVNTS 128 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T DG LA L PS + R Y VR G++ K+ L G+ ++ V+ Sbjct: 129 GLLLFTTDGELANRLMHPSREVEREYAVRVFGEITDAKIRQLTMGVQLEDGPASFKTVSF 188 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ Sbjct: 189 RGGEGMNQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIDLPKGLPRGGWTELGL 248 Query: 239 K---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 + LRE +G + E++V ++ RD+ + + R K +Q Sbjct: 249 EQTNYLRELVGLSVETESKVAVE----------RDQRRLKAN---QIRRAVKRHTQVASR 295 Query: 296 SKQKKLATPVHRRNLAS 312 K+ A+ + Sbjct: 296 PASKRQASRPTAKKRTR 312 >gi|60683236|ref|YP_213380.1| putative ribosomal large subunit pseudouridine synthase [Bacteroides fragilis NCTC 9343] gi|60494670|emb|CAH09471.1| putative ribosomal large subunit pseudouridine synthase [Bacteroides fragilis NCTC 9343] Length = 466 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 69/242 (28%), Positives = 115/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + D + Sbjct: 218 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRADVV 277 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + + ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 278 KFHDETVS-IERKVYVLLNKPKDCVTTSDDPQARLTVMDLVKGACAERIYPVGRLDRNTT 336 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V + + ++ + GI ++ ++ Sbjct: 337 GVLLLTNDGDLASKLTHPKYLKKKIYHVYLDKNLTKADMDQIAAGIQLEDGEIHADAISY 396 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 397 -SDEVKRDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQ 455 Query: 240 IL 241 + Sbjct: 456 EV 457 >gi|187776810|ref|ZP_02993283.1| hypothetical protein CLOSPO_00326 [Clostridium sporogenes ATCC 15579] gi|187775469|gb|EDU39271.1| hypothetical protein CLOSPO_00326 [Clostridium sporogenes ATCC 15579] Length = 238 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 119/233 (51%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L ++ Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVY-KK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+V+ D + T+ D L VGRLD NT GLLLLTNDG L Sbjct: 61 YIYLMMNKPQGVVSATFD-NYDETIVDLLEDEDRIFEPFPVGRLDKNTVGLLLLTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P ++Y + + +V + + KKGIV+ G ++ + + V Sbjct: 120 NHRLISPKWHVDKIYYAKINKKVTDEDIEKFKKGIVLDDGYECFPAKLEIIKSFNEESEV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + EGK ++K++FE + KV L R +GP +L +L G RE++ + + Sbjct: 180 RVTIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQYRELTDEEI 232 >gi|15615835|ref|NP_244139.1| 16S pseudouridylate synthase [Bacillus halodurans C-125] gi|10175896|dbj|BAB06992.1| 16S pseudouridylate synthase [Bacillus halodurans C-125] Length = 238 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 64/237 (27%), Positives = 111/237 (46%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K +A G SR++V++++ V+V G ++ + +V ++ I V G + + Sbjct: 1 MRIDKFLANMGFGSRKDVKKLLKTGAVRVQGQPIKDPSTHVEPESESITVYGEEVEY-KP 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS--VGRLDINTEGLLLLTNDGGL 130 + +KP G++ D + TV D L VGRLD +T GLLL+TNDG Sbjct: 60 YVYLMMNKPKGVICATEDLEH-ETVIDLLGEEERHYEPSPVGRLDKDTVGLLLITNDGKF 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 L P + YR G V ++ + G+V+ G + + + G+ + + Sbjct: 119 NHWLMSPKHHVPKTYRALVEGHVTEEDVGAFSHGVVLDDGYVTKPATLHIL-EAGARSHI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 + L EGK ++K++F+ +V L RI G L L G RE++K+ + L Sbjct: 178 ELILTEGKFHQVKRMFQAVGKRVLELERIKIGNLLLDPELARGEYRELTKEEIALLL 234 >gi|320451314|ref|YP_004203410.1| ribosomal large subunit pseudouridine synthase B [Thermus scotoductus SA-01] gi|320151483|gb|ADW22861.1| ribosomal large subunit pseudouridine synthase B [Thermus scotoductus SA-01] Length = 236 Score = 260 bits (665), Expect = 3e-67, Method: Composition-based stats. Identities = 82/240 (34%), Positives = 119/240 (49%), Gaps = 8/240 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ +ARAG+ SRR+ E +I Q RV+VNG + V D +EVDG P+ Sbjct: 4 PLRLQAFLARAGVGSRRKAEELIRQGRVRVNGKVA-VLGQKVNPGDVVEVDGKPVEPPRE 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP G TT DP + TVFD LP + +GRLD ++EGLLLLTNDG L Sbjct: 63 RIVLALHKPRGYTTTRHDPHAQKTVFDLLPD-IPGLHPIGRLDRDSEGLLLLTNDGHLTL 121 Query: 133 VLELPSTQWLRVYRVRFH-GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P +VYRV G + L +G+ ++ + + + Sbjct: 122 RLTHPRYGVRKVYRVYTERGTLPLAICQRLLEGVDLEDG-----PARALACRPAPGGALL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L EG+ RE++++ + + V RLIR+ GP LG L G R++S + + L +E Sbjct: 177 TLAEGRKREVRRMLKAVGYPVKRLIRLQVGPIHLGHLPPGKWRQLSPREVEALLRETPVE 236 >gi|153809092|ref|ZP_01961760.1| hypothetical protein BACCAC_03402 [Bacteroides caccae ATCC 43185] gi|149128425|gb|EDM19644.1| hypothetical protein BACCAC_03402 [Bacteroides caccae ATCC 43185] Length = 494 Score = 260 bits (665), Expect = 3e-67, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 115/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 246 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 305 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 306 KFHDEPVS-IERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTT 364 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V + + ++ + GI ++ ++ Sbjct: 365 GVLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMDQIAAGIQLEDGEIHADAISY 424 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 425 -TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEA 483 Query: 240 IL 241 + Sbjct: 484 EV 485 >gi|69244107|ref|ZP_00602643.1| Pseudouridine synthase, Rsu [Enterococcus faecium DO] gi|258614116|ref|ZP_05711886.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecium DO] gi|293557176|ref|ZP_06675728.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1039] gi|293563963|ref|ZP_06678370.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1162] gi|293568184|ref|ZP_06679518.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1071] gi|294614323|ref|ZP_06694240.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1636] gi|294619970|ref|ZP_06699342.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1679] gi|294622171|ref|ZP_06701239.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium U0317] gi|314940301|ref|ZP_07847468.1| conserved hypothetical protein [Enterococcus faecium TX0133a04] gi|314941863|ref|ZP_07848734.1| conserved hypothetical protein [Enterococcus faecium TX0133C] gi|314949516|ref|ZP_07852851.1| conserved hypothetical protein [Enterococcus faecium TX0082] gi|314952902|ref|ZP_07855870.1| conserved hypothetical protein [Enterococcus faecium TX0133A] gi|314994523|ref|ZP_07859796.1| conserved hypothetical protein [Enterococcus faecium TX0133B] gi|314995270|ref|ZP_07860382.1| conserved hypothetical protein [Enterococcus faecium TX0133a01] gi|68196564|gb|EAN10990.1| Pseudouridine synthase, Rsu [Enterococcus faecium DO] gi|291589084|gb|EFF20898.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1071] gi|291592795|gb|EFF24387.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1636] gi|291593800|gb|EFF25302.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1679] gi|291598298|gb|EFF29389.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium U0317] gi|291600677|gb|EFF30977.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1039] gi|291604053|gb|EFF33580.1| ribosomal large subunit pseudouridine synthase B [Enterococcus faecium E1162] gi|313590526|gb|EFR69371.1| conserved hypothetical protein [Enterococcus faecium TX0133a01] gi|313591101|gb|EFR69946.1| conserved hypothetical protein [Enterococcus faecium TX0133B] gi|313595024|gb|EFR73869.1| conserved hypothetical protein [Enterococcus faecium TX0133A] gi|313599347|gb|EFR78192.1| conserved hypothetical protein [Enterococcus faecium TX0133C] gi|313640477|gb|EFS05057.1| conserved hypothetical protein [Enterococcus faecium TX0133a04] gi|313644130|gb|EFS08710.1| conserved hypothetical protein [Enterococcus faecium TX0082] Length = 239 Score = 260 bits (665), Expect = 3e-67, Method: Composition-based stats. Identities = 69/237 (29%), Positives = 116/237 (48%), Gaps = 9/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ SR+EV+ +I + ++VNG +++ V D + G + + Sbjct: 1 MRLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKAQVNEFEDAVTYLGEIITYQKD 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L HKP G+++ D + TV D L R + VGRLD +TEGLL+LTNDG Sbjct: 61 FYYIL-HKPAGVISATQD-NHDQTVIDLLEDQDYREDLFPVGRLDKDTEGLLILTNDGVF 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLD--TQKGSNA 187 A L P + Y G + ++ + L +G++I G ++ +D Q+ + Sbjct: 119 AHQLLSPKKHVEKEYLAEVSGIMTEEDIRLFAEGLIIDGDEQTLPAKLQIDQVDQETETS 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + L EGK ++K++ + +V L RI G F L L G R ++K+ L + Sbjct: 179 IIRLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGKFWLPKDLNKGQYRPMTKEELEQ 235 >gi|309799641|ref|ZP_07693863.1| RNA pseudouridine synthase family protein [Streptococcus infantis SK1302] gi|308116732|gb|EFO54186.1| RNA pseudouridine synthase family protein [Streptococcus infantis SK1302] Length = 240 Score = 260 bits (665), Expect = 3e-67, Method: Composition-based stats. Identities = 71/238 (29%), Positives = 112/238 (47%), Gaps = 8/238 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + + SR EV+ + RV VNG + A + + TD I DG L E Sbjct: 1 MRLDKYLVACAVGSRTEVKNFLKAGRVMVNGKKEKSAKLQINEETDEICFDGQKLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D + TV D L V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPQGVISATEDSKHK-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A L P + Y + G + Q+ + +GI ++ + L ++ + + Sbjct: 119 AHALLSPKRHVDKTYLAQVGGIMTQEDVETFAQGIPLKDFTCQPAILELVSIDREKNQSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 V V + EGK ++K++ + +V L R++ G L L G R ++K+ L L Sbjct: 179 VRVTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTLTLDEGLKRGEWRRLTKEELEALL 236 >gi|260171988|ref|ZP_05758400.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D2] gi|315920300|ref|ZP_07916540.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D2] gi|313694175|gb|EFS31010.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D2] Length = 482 Score = 260 bits (665), Expect = 3e-67, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 115/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 234 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 293 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 294 KFHDEPVS-IERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTT 352 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V + + ++ + GI ++ ++ Sbjct: 353 GVLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMDQIAAGIQLEDGEIHADAISY 412 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 413 -TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEA 471 Query: 240 IL 241 + Sbjct: 472 EV 473 >gi|121593577|ref|YP_985473.1| ribosomal large subunit pseudouridine synthase B [Acidovorax sp. JS42] gi|120605657|gb|ABM41397.1| ribosomal large subunit pseudouridine synthase B [Acidovorax sp. JS42] Length = 447 Score = 260 bits (665), Expect = 3e-67, Method: Composition-based stats. Identities = 104/345 (30%), Positives = 154/345 (44%), Gaps = 20/345 (5%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN V D I+ Sbjct: 111 PAKRVLLPQPETPKLHKVLAQAGMGSRLEMEQLILEGRISVNNEPA-HIGQRVQFGDQIK 169 Query: 62 VDGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDIN 117 V+G P+R R+ YHKP+G V TH DP R TVF LP + + SVGRLD+N Sbjct: 170 VNGKPIRFRIAPPPVRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLQQGKWQSVGRLDLN 229 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLL T+ G LA L P R Y VR G + ++ L +G+ ++ V Sbjct: 230 TEGLLLFTSSGELANKLMHPRFGLEREYAVRVLGALSTEEKQRLLEGVPLEDGMASFGSV 289 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ Sbjct: 290 EDGGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMMLPRGLKRGAWLEL 349 Query: 237 SKKILREQLGPHLLEEAQVNLDA----PIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK 292 ++ +R L++ A LD P R + + + + Sbjct: 350 DERDIRA-----LMQAAGATLDGGGARPTSGQGRGGRKGDRRSAGPGKASGSGRDKTGGR 404 Query: 293 NGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRR 337 G A P + + G S QR RR Sbjct: 405 AGRPPS-PNAQPDPMKTSLGYI----GADSFSRHRQQQRNNGPRR 444 >gi|298480189|ref|ZP_06998387.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D22] gi|298273470|gb|EFI15033.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. D22] Length = 495 Score = 260 bits (665), Expect = 3e-67, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 114/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 247 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 306 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 307 KFHDEPVS-IERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTT 365 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V + + + + GI ++ ++ Sbjct: 366 GVLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIHADAISY 425 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 426 -TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEA 484 Query: 240 IL 241 + Sbjct: 485 EV 486 >gi|153216913|ref|ZP_01950677.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae 1587] gi|124114062|gb|EAY32882.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae 1587] Length = 229 Score = 260 bits (665), Expect = 3e-67, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 103/230 (44%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREITL-HGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + HKP G+V +H D T F L + GRLD++T GLLL+T+DG + Sbjct: 60 RYIMMHKPDGVVCSHEDGFN-QTAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D +GI ++G + L+ S V + Sbjct: 119 RVTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEV--ISETEVLLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L TL G R ++++ + Sbjct: 177 IHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >gi|294340472|emb|CAZ88853.1| putative Pseudouridine synthase [Thiomonas sp. 3As] Length = 562 Score = 260 bits (665), Expect = 3e-67, Method: Composition-based stats. Identities = 100/347 (28%), Positives = 159/347 (45%), Gaps = 12/347 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + ++ ++ KV+A++G+ SRRE+E +I RV VNG ++ TD I V+ Sbjct: 165 RRVLAPAEDAPKLHKVLAQSGVGSRREMEDLILAGRVSVNGEPA-HLGQRILPTDQIRVN 223 Query: 64 GVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 G +++ + R+ YHKP G V + DP+GR TVF +LP ++ +VGRLDINTE Sbjct: 224 GKIIKRRLRPAQARVLAYHKPTGEVVSFKDPEGRPTVFQHLPKLQGAKWTAVGRLDINTE 283 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T G LA L PS R Y VR G++D + L +G+ + + + Sbjct: 284 GLLLFTTSGDLANRLMHPSYGAEREYAVRVLGELDAAARDELLEGVQLGDGPARFLSLEE 343 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V + EG+NRE++++FE V+RLIR+ Y L L G E+ K Sbjct: 344 AGGEGANRWWRVVISEGRNREVRRMFEAVGLTVSRLIRVRYASVVLPAGLRRGDFVELDK 403 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +++ G + D P + N D + + G +Q Sbjct: 404 SLVQALQGRSGEAPSGA-GDRPARR-----PNGQNQGGRRNDSRGSGRGGRGKGQGGDQQ 457 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 + R + + + + S S G + P S+R Sbjct: 458 QPGPDSYARTTVEALFGKSPVVRSGGGSWGGAGNFSTGNKPGGQSRR 504 >gi|262408169|ref|ZP_06084716.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_1_22] gi|262353721|gb|EEZ02814.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_1_22] Length = 495 Score = 260 bits (665), Expect = 3e-67, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 114/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 247 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 306 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 307 KFHDEPVS-IERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTT 365 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V + + + + GI ++ ++ Sbjct: 366 GVLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIHADAISY 425 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 426 -TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEA 484 Query: 240 IL 241 + Sbjct: 485 EV 486 >gi|163753337|ref|ZP_02160461.1| pseudouridine synthase, Rsu [Kordia algicida OT-1] gi|161327069|gb|EDP98394.1| pseudouridine synthase, Rsu [Kordia algicida OT-1] Length = 244 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 114/229 (49%), Gaps = 8/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RKAERT 73 R++K ++ AG SRR +++I Q+RV +NG++ + D + VDG + E+ Sbjct: 8 RINKFLSEAGYCSRRAADKLIEQRRVTINGVVPA-MGTKIAPGDEVRVDGELISDPKEKP 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++KPIG+V T + + D + + SR+ +GRLD +EGL+ LT+DG + Sbjct: 67 VYLAFNKPIGIVCTTDTKVEKDNIIDYI-NYPSRIFPIGRLDKPSEGLIFLTSDGDIVNK 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + D + + GI I G +V ++ + + L Sbjct: 126 ILRARNNHEKEYEVTVNRPITSDFIQKMGNGIPILGTLTRKCKV----EQLTKYTFKIIL 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E+ +++V +L R L + G R ++++ L+ Sbjct: 182 TQGLNRQIRRMCEYLDYRVVKLKRTRIMNVSL-DIPVGKWRHLTEEELQ 229 >gi|305664746|ref|YP_003861033.1| pseudouridine synthase, Rsu [Maribacter sp. HTCC2170] gi|88707868|gb|EAR00107.1| pseudouridine synthase, Rsu [Maribacter sp. HTCC2170] Length = 245 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 58/230 (25%), Positives = 111/230 (48%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RKAERT 73 R++K ++ G SRR +++I Q RV +NG + ++S D + VDG + E+ Sbjct: 7 RINKYLSEVGYCSRRAADKLIDQGRVTINGKVP-EMGTKIISGDEVRVDGELISEPKEKP 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++KPIG+V T + + D + + R+ +GRLD ++GL+ LTNDG + Sbjct: 66 VYLAFNKPIGIVCTTDTRVEKDNIIDFI-NYPKRIFPIGRLDKPSQGLIFLTNDGDIVNK 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V +++ L+ + G+ I ++T + + + L Sbjct: 125 ILRARNHHEKEYLVTVDKPINKKFLDQMASGVPILDTVTRKCEIT----EVNKYQFKIIL 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +G NR+I+++ E+ + V +L RI +L + G R ++ L+E Sbjct: 181 TQGLNRQIRRMCEYLGYNVKKLKRIRIMNVKL-DMPIGKWRNLTNSELQE 229 >gi|319951787|ref|YP_004163054.1| ribosomal large subunit pseudouridine synthase f [Cellulophaga algicola DSM 14237] gi|319420447|gb|ADV47556.1| ribosomal large subunit pseudouridine synthase F [Cellulophaga algicola DSM 14237] Length = 243 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 60/235 (25%), Positives = 115/235 (48%), Gaps = 8/235 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + TP R++K ++ G SRR +++I Q RV +NG + + + D I VDG + K Sbjct: 3 DTTPTRINKYLSEVGYCSRRAADKLIDQGRVTINGKVP-EMGTKITAADEIRVDGELIGK 61 Query: 70 AE-RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + ++KP+G+V T + + D + + R+ +GRLD +EGL+ LT+DG Sbjct: 62 PKGKHTYLAFNKPVGIVCTTDTGVEKDNIIDFI-NYPKRIFPIGRLDKPSEGLIFLTDDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y V + ++ D L + G+ I +V ++ Sbjct: 121 DIVNKILRARNNHEKEYIVSVNKPINSDFLRQMSSGVPILDTVTRPCKV----ERIDKYT 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 ++ L +G NR+I+++ + ++V RL R+ +L L G R++++ L E Sbjct: 177 FSIILTQGLNRQIRRMCDHLEYRVKRLQRVRIMNVEL-DLEVGKYRDLTEAELSE 230 >gi|149920284|ref|ZP_01908755.1| ribosomal large subunit pseudouridine synthase B [Plesiocystis pacifica SIR-1] gi|149818871|gb|EDM78311.1| ribosomal large subunit pseudouridine synthase B [Plesiocystis pacifica SIR-1] Length = 300 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 83/278 (29%), Positives = 138/278 (49%), Gaps = 8/278 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGV 65 ++E R+ K +A AG+ASRR+ E +I V+VNG ++ V D + V G Sbjct: 24 LREQRDGVRLQKFMASAGVASRRKAEELITAGVVRVNGQVVRELGTRVFPERDRVTVRGE 83 Query: 66 PLRKAERTRLWLYHKPIGLVTTHS---DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 P++ AE ++ +KP G+V++ + D GR TV L + R+ VGRLD ++ G+L Sbjct: 84 PIQ-AESKVYYVLNKPDGVVSSAAGSVDERGRPTVISLLHGVSERLYPVGRLDFHSRGVL 142 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGD-MQVTLD 180 LLTNDGGLA L P ++ Y V+F G++ +++ LL+ G+ + ++ Sbjct: 143 LLTNDGGLAEALTHPRHGVVKTYHVKFQGKLTEEQEQLLRDGVELDDGAITRPVAELFAF 202 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + +N W +G+REG NR+I+++ E V +LIR++ G + G R ++ Sbjct: 203 RETATNVWYQIGIREGLNRQIRRMGEAIGHPVLKLIRVAIGDITADGVPEGEFRALNATE 262 Query: 241 LREQLGP-HLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 + + L L E + RDRP Sbjct: 263 VGQLLANVKLAPEGRRGRSGGAGRPRGGQRDRPKAKKS 300 >gi|153801570|ref|ZP_01956156.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MZO-3] gi|124122897|gb|EAY41640.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MZO-3] Length = 231 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 103/230 (44%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREITL-HGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + HKP G+V +H D T F L + GRLD++T GLLL+T+DG + Sbjct: 60 RYIMMHKPDGVVCSHEDGFN-QTAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D +GI ++G + L+ S V + Sbjct: 119 RVTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEV--ISETEVLLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L TL G R ++++ + Sbjct: 177 IHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >gi|188997597|ref|YP_001931848.1| RNA-binding S4 domain protein [Sulfurihydrogenibium sp. YO3AOP1] gi|188932664|gb|ACD67294.1| RNA-binding S4 domain protein [Sulfurihydrogenibium sp. YO3AOP1] Length = 244 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 65/238 (27%), Positives = 114/238 (47%), Gaps = 9/238 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K ++ G SR +V+++I + VKVN +++ + ++ D +E++ + E Sbjct: 1 MRLDKFLSNQGFGSRSQVQKLIKKGFVKVNDEIVKDPSYHIDPMKDKVELEDEEILYKEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G +T D + TV D + S++ VGRLDI+TEGLL+LT DG Sbjct: 61 H-YFMLNKPAGYITATEDEEY-PTVLDLFSDLPIASKLFPVGRLDIDTEGLLILTTDGQF 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQ-DKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNA 187 L P + Y G + D KGI ++ Y +V + + Sbjct: 119 GHRLSHPKWNIEKEYYAIVEGDISNIDFSESENKGIYLKKEKYQTKPFKVKVLNTSKDKS 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + + L EGK +K++ + + V L RI G +L LL G RE+++K +++ Sbjct: 179 EILITLTEGKYHIVKRIMQELGYPVLYLKRIRIGNLKLDEDLLPGEFRELTEKEIKDL 236 >gi|75763968|ref|ZP_00743593.1| Ribosomal large subunit pseudouridine synthase F [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|74488543|gb|EAO52134.1| Ribosomal large subunit pseudouridine synthase F [Bacillus thuringiensis serovar israelensis ATCC 35646] Length = 254 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 66/243 (27%), Positives = 118/243 (48%), Gaps = 7/243 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++++ R++K I+ AG ASRR +++I ++RV +NG + + V D + V+ Sbjct: 10 KFFLEKDVPNLRINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVN 68 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G LR A +KP+G+ T S+ + + D + R+ +GRLD +++GL+L Sbjct: 69 GEQLRIARDHVYIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RISHIGRLDKDSDGLIL 126 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG + + + + Y V + D L + G+ I G ++T + Sbjct: 127 LTNDGDIVNEILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----Q 182 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 S + L +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 183 LSKYEFQIILTQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRR 242 Query: 244 QLG 246 Sbjct: 243 LFA 245 >gi|325578607|ref|ZP_08148707.1| ribosomal small subunit pseudouridine synthase A [Haemophilus parainfluenzae ATCC 33392] gi|325159843|gb|EGC71973.1| ribosomal small subunit pseudouridine synthase A [Haemophilus parainfluenzae ATCC 33392] Length = 232 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 62/229 (27%), Positives = 108/229 (47%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+N +++ A V D I + L E Sbjct: 1 MRLDKFIAENTGLTRSQATKAIRQSAVKINDEIVKNGATKVSQEDEIYFEDELLSWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ HKP G V +H D D + P + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGYVCSHDDDDYPTIYQFFEPPLSGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P Q + Y V V+ + ++GI+++G L+ N V + + Sbjct: 121 ITSPKHQCEKTYLVTLADPVENHYASACEEGILLRGEKEPTKPAKLEVLDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F KV L R G +L +L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAALGNKVVALHRWRIGNVELDESLEEGEFRPLTQEEI 227 >gi|331697591|ref|YP_004333830.1| pseudouridine synthase Rsu [Pseudonocardia dioxanivorans CB1190] gi|326952280|gb|AEA25977.1| pseudouridine synthase Rsu [Pseudonocardia dioxanivorans CB1190] Length = 252 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 76/243 (31%), Positives = 119/243 (48%), Gaps = 7/243 (2%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDG 64 + +N R+ KV+A+AG+ASRR E +IA RV V+G ++ V T + VDG Sbjct: 1 MTTQNSDGVRLQKVLAQAGVASRRAAEELIAAGRVSVDGEIVREMGRRVDPDTAVVHVDG 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS------RVISVGRLDINT 118 + + +KP G+++T SD GR V D + R+ VGRLD +T Sbjct: 61 SRIVLRDDLVYLALNKPRGMLSTMSDDRGRECVGDLVADRAELLNQAGRLFHVGRLDADT 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLLLLTNDG L L PS + + Y GQV +D L+ G+ ++ Sbjct: 121 EGLLLLTNDGELGHRLMHPSFEVQKTYVAEVAGQVARDVGKRLRTGVELEDGPVVVHSFR 180 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L G + V + L EG+ ++++ + + V RL+R + G +LG G R +++ Sbjct: 181 LVDSSGGRSMVEIVLHEGRKHVVRRLMDEVGYPVLRLVRTAIGDVRLGDQRPGKLRPLNQ 240 Query: 239 KIL 241 + Sbjct: 241 AEV 243 >gi|262165811|ref|ZP_06033548.1| ribosomal small subunit pseudouridine synthase A [Vibrio mimicus VM223] gi|262025527|gb|EEY44195.1| ribosomal small subunit pseudouridine synthase A [Vibrio mimicus VM223] Length = 231 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 103/230 (44%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T IE G + A Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDLVQKSGAFKLKETSRIEWQGREIT-AHGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + HKP G+V +H D T F L + GRLD++T GLLL+T+DG + Sbjct: 60 RYIMMHKPDGVVCSHEDGFN-QTAFILLDEVNIQDLHFAGRLDVDTTGLLLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D GI ++G + L+ S V + Sbjct: 119 RVTSPKHKCEKTYRVWLADPIQVDYAEQFTNGIELRGERELTLPAQLEV--VSETEVLLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L +L G R ++++ + Sbjct: 177 IHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDESLEPGEYRYLTEEEI 226 >gi|332283699|ref|YP_004415610.1| pseudouridylate synthase [Pusillimonas sp. T7-7] gi|330427652|gb|AEC18986.1| pseudouridylate synthase [Pusillimonas sp. T7-7] Length = 598 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 105/317 (33%), Positives = 165/317 (52%), Gaps = 8/317 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K + + TP ++ KV+A AG+ SRRE+E +I RV VNG V + D + V+ Sbjct: 144 KYLNSDALTP-KLHKVLADAGVGSRREMEELIVAGRVSVNGEPA-HIGQRVGANDQVRVN 201 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+ + + R+ LYHKP G + +H DP+GR+TVF LP + + +SVGRLD+NTE Sbjct: 202 GRPIVRPNAKKPPRIILYHKPAGEIVSHDDPEGRATVFARLPKMRVGKWLSVGRLDLNTE 261 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA L P R Y VR G++ +++ + L KGI ++ + Sbjct: 262 GLLILTTSGDLANRLMHPRYGAEREYAVRVLGELGEEQQDKLLKGIQLEDGLAQFGSLEY 321 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +GSN W V L+EG+NRE++++FE V+RLIR +G L L G E+ Sbjct: 322 LGGEGSNRWYRVTLKEGRNREVRRMFEAAGVTVSRLIRTRFGEVVLPRNLRRGRWEELDS 381 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 ++ L L + + D S R + S +P F +++N + +S++ Sbjct: 382 SLVTA-LMLQLGLLREDDSDERGAGSGRGERQPVSHDSALPPGFGTLERNGTNGAKVSRR 440 Query: 299 KKLATPVHRRNLASNVW 315 KL+ +R + + Sbjct: 441 GKLSGGRPQRAATAQAY 457 >gi|313113861|ref|ZP_07799427.1| conserved hypothetical protein [Faecalibacterium cf. prausnitzii KLE1255] gi|310623827|gb|EFQ07216.1| conserved hypothetical protein [Faecalibacterium cf. prausnitzii KLE1255] Length = 276 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 87/274 (31%), Positives = 137/274 (50%), Gaps = 3/274 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--R 68 +R+ K++A G+ SRR E++IA+ RVKVNG ++ + D + VD + R Sbjct: 1 MAEERIQKIMAEQGLCSRRAAEQIIAEGRVKVNGHPVKVGDKMDPNRDVLHVDDERIYIR 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 K ++ +KP G VTT SD GR TV + + I +R+ VGRLD ++EGLLL+TNDG Sbjct: 61 KDQQMYYLALYKPRGYVTTASDELGRKTVMELVSDIPARLYPVGRLDKDSEGLLLMTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNA 187 A+ + PS ++YRV + D+ ++ L G+V+ G + + T + Sbjct: 121 AFAQAVTHPSGGISKLYRVTVQPRADESQILKLSSGVVLDDGTKTMPCAINVVTDEPGRT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + L+EGKNREI+++ E +V RL R + G +LG L G+ RE++K + Sbjct: 181 VMEMTLKEGKNREIRRMCETVGLEVVRLKRNAEGVVKLGMLKPGTYRELTKAEINGLRAA 240 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDD 281 AQ A + P P Sbjct: 241 AAKGRAQTRSAAVQSKAAERRPRGPVGKGTAPKK 274 >gi|123442465|ref|YP_001006444.1| 23S rRNA pseudouridylate synthase B [Yersinia enterocolitica subsp. enterocolitica 8081] gi|122089426|emb|CAL12274.1| putative RNA pseudouridylate synthase-family protein [Yersinia enterocolitica subsp. enterocolitica 8081] Length = 309 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 109/322 (33%), Positives = 159/322 (49%), Gaps = 24/322 (7%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAERT----R 74 +ARAG SRRE+E +I Q RV V+G + + V V I +DG L E R Sbjct: 1 MARAGHGSRREIETIIQQGRVSVDGKISKLGDRVEVTQATKIRLDGHLLSIKESEEAVCR 60 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + Y+KP G + T +DP+GR TVFD LP SR ++VGRLD+NT GLLL T DG LA Sbjct: 61 VLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTDGELANR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + R Y VR GQ+D +K+ L +G+ ++ +T +G N W V L Sbjct: 121 LMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTITFQGGEGINQWYNVTL 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILREQLGPHL 249 EG+NRE+++++E +V+RLIR+ YG L L G E+ K LRE Sbjct: 181 TEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLKATNYLREL----- 235 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 V LD+ S + +DR + + R K ++ G + + + + Sbjct: 236 -----VELDSETVSKLPVEKDRRRVKAN---QIRRAVKRHTEVAGRQVAGRQGS-ARKGS 286 Query: 310 LASNVWMAKGIHSSFLSDSGQR 331 NV A ++ + +R Sbjct: 287 TRQNVGNAAPAAATGRRGANKR 308 >gi|30020453|ref|NP_832084.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 14579] gi|229109805|ref|ZP_04239390.1| Pseudouridine synthase [Bacillus cereus Rock1-15] gi|29896004|gb|AAP09285.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 14579] gi|228673650|gb|EEL28909.1| Pseudouridine synthase [Bacillus cereus Rock1-15] Length = 235 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 66/233 (28%), Positives = 113/233 (48%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 1 MRINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-SEKSVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G +VT + S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVT----QLSKYEFQIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLFA 226 >gi|206973507|ref|ZP_03234425.1| RNA pseudouridine synthase family protein [Bacillus cereus H3081.97] gi|217959884|ref|YP_002338440.1| RNA pseudouridine synthase family protein [Bacillus cereus AH187] gi|206747663|gb|EDZ59052.1| RNA pseudouridine synthase family protein [Bacillus cereus H3081.97] gi|217067986|gb|ACJ82236.1| RNA pseudouridine synthase family protein [Bacillus cereus AH187] Length = 235 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 66/241 (27%), Positives = 115/241 (47%), Gaps = 7/241 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 1 MRINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-SEKSVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G ++T + S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +G NR+I+++ E ++V L R +L L G R+++KK R E Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLFADLNYEPQ 233 Query: 254 Q 254 + Sbjct: 234 E 234 >gi|293369516|ref|ZP_06616095.1| pseudouridylate synthase [Bacteroides ovatus SD CMC 3f] gi|292635401|gb|EFF53914.1| pseudouridylate synthase [Bacteroides ovatus SD CMC 3f] Length = 485 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 114/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 237 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 296 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 297 KFHDEPVS-IERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTT 355 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V + + + + GI ++ ++ Sbjct: 356 GVLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIHADAISY 415 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 416 -TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEA 474 Query: 240 IL 241 + Sbjct: 475 EV 476 >gi|262091774|gb|ACY25362.1| pseudouridine synthase family [uncultured actinobacterium] Length = 237 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 75/232 (32%), Positives = 115/232 (49%), Gaps = 5/232 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R++K+IA AGI SRR + +I RV VNGI++ D + VDG + + Sbjct: 1 MAQMRLNKIIADAGITSRRGADELIEDGRVAVNGIIVREMGSKFDPEMDKVMVDGETITR 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 HKP G+++T DP+GR ++ D + R+ VGRLD ++EGL+LLTNDG Sbjct: 61 TLTKSYLALHKPKGVLSTMFDPEGRPSLDDFIDLRKERLFHVGRLDKDSEGLILLTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L PS + Y + F G + +L KG+ ++ L ++ S W+ Sbjct: 121 LTFRATHPSFGLEKTYIIEFDGILPTGVDKVLLKGVELEDGMGR----VLTFKQLSPKWI 176 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + EG+ I+++ E V RLIR +GP LG G R+++ L Sbjct: 177 EVSIHEGRYHIIRRLMEAVGVNVLRLIRTKFGPISLGDTPEGRWRDLNDGEL 228 >gi|260494080|ref|ZP_05814211.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 3_1_33] gi|260198226|gb|EEW95742.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. 3_1_33] Length = 234 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 70/231 (30%), Positives = 130/231 (56%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--E 71 R++K ++ GIASRR V++ I + R+ VNG + +++ D+I +DG ++ E Sbjct: 1 MRINKFLSTLGIASRRAVDKYIEEGRITVNGNIATT-GMDISENDNIFIDGKKIKTDVNE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP+ ++++ SD GR TV D + R+ +GRLD T GL+LLTNDG L Sbjct: 60 EKVYFMLNKPLEVLSSSSDDRGRKTVVDLI-KTDKRIFPIGRLDYMTSGLILLTNDGELF 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P ++ + Y V+ G++ ++++ LKKG+++ +++ + + + Sbjct: 119 NRIVHPKSEIYKKYYVKIFGEIKKEEIAELKKGVLLNDGKTLPAKISGIKYDKNKTSMYI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +REG+NR+I+++ E F +KV L R G LG L G R+++K+ + Sbjct: 179 SIREGRNRQIRRMIEKFGYKVLMLRREKIGELSLGDLEEGKYRKLTKQEIE 229 >gi|53715301|ref|YP_101293.1| ribosomal large subunit pseudouridine synthase B [Bacteroides fragilis YCH46] gi|253567192|ref|ZP_04844642.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 3_2_5] gi|265767788|ref|ZP_06095320.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_1_16] gi|52218166|dbj|BAD50759.1| ribosomal large subunit pseudouridine synthase B [Bacteroides fragilis YCH46] gi|251944023|gb|EES84542.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 3_2_5] gi|263252460|gb|EEZ23988.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_1_16] gi|301164755|emb|CBW24314.1| putative ribosomal large subunit pseudouridine synthase [Bacteroides fragilis 638R] Length = 466 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 69/242 (28%), Positives = 115/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + D + Sbjct: 218 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRADVV 277 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + + ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 278 KFHDETVS-IERKVYVLLNKPKDCVTTSDDPQARLTVMDLVKGACAERIYPVGRLDRNTT 336 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V + + ++ + GI ++ ++ Sbjct: 337 GVLLLTNDGDLASKLTHPKYLKKKIYHVYLDKNLTKADMDQIAAGIQLEDGEIHADAISY 396 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 397 -SDEVKRDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQ 455 Query: 240 IL 241 + Sbjct: 456 EV 457 >gi|298373492|ref|ZP_06983481.1| ribosomal large subunit pseudouridine synthase B [Bacteroidetes oral taxon 274 str. F0058] gi|298274544|gb|EFI16096.1| ribosomal large subunit pseudouridine synthase B [Bacteroidetes oral taxon 274 str. F0058] Length = 396 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 69/231 (29%), Positives = 114/231 (49%), Gaps = 4/231 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN-VMSTDHIEVDGVPLRKAE 71 P R++K IA + I SRRE + I V VNG ++ V +TD + + E Sbjct: 160 PMRLNKFIANSNICSRREADEFIQAGVVSVNGQVVTELGTKIVPATDKVHFHDQLVS-ME 218 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGL 130 + L +KP ++TT DP R TV D + + RV VGRLD NT G+LL+TNDG L Sbjct: 219 KKIYILMNKPKNIITTLDDPKERRTVLDLIKNACSERVYPVGRLDRNTTGVLLITNDGDL 278 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + ++Y VR + + + ++ GIV++ ++ ++ + V Sbjct: 279 TSKLIHPKYEKKKIYHVRLDREFESQDMEAMRSGIVLEDGDIKADDISY-VKEDNKKEVG 337 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + GKNR ++++FE +K+ L R+ + L G R +S+ + Sbjct: 338 IEIHSGKNRIVRRMFEHLGYKIVALDRVYFAGLTKKNLPRGKWRYLSESEV 388 >gi|148239883|ref|YP_001225270.1| 16S rRNA pseudouridylate synthase [Synechococcus sp. WH 7803] gi|147848422|emb|CAK23973.1| 16S rRNA pseudouridylate synthase [Synechococcus sp. WH 7803] Length = 243 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 82/231 (35%), Positives = 125/231 (54%), Gaps = 1/231 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T QR+ K+IA AG+ SRR+ E ++ +RV+VNG L + D IEVD PL+ A Sbjct: 1 MTRQRLQKLIASAGVCSRRKAEDLLRDRRVRVNGQLATLGDQADLDVDTIEVDDRPLQTA 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGG 129 + R+ L +KP G++ + DP R TV + +P + VGRLD + G LLL+N G Sbjct: 61 PQARVLLLNKPPGVICSCRDPQRRRTVLELVPPDLREGLHPVGRLDAESRGALLLSNQGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + YRV G + +LN ++G+V+ G +V L + + + Sbjct: 121 LTLQLTHPRYNHRKTYRVTVAGLPSEKQLNQWRRGVVLDGTVTRPAEVNLVKKSPQASVL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 V LREG+NR+I++V +V L RI+ G LG++ G RE+S++ Sbjct: 181 EVILREGRNRQIRRVALSLGHRVLDLQRIAIGRLTLGSMREGCWRELSRQE 231 >gi|163791560|ref|ZP_02185963.1| hypothetical protein CAT7_05483 [Carnobacterium sp. AT7] gi|159873165|gb|EDP67266.1| hypothetical protein CAT7_05483 [Carnobacterium sp. AT7] Length = 239 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 73/235 (31%), Positives = 118/235 (50%), Gaps = 9/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K++A G +R+ V+ ++ + V VNG++ + +V TD IEV G ++ E Sbjct: 1 MRLDKLLANMGFGTRKTVKNVLKAKEVTVNGLVEKDGKTHVNPETDKIEVSGEVIQYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP G+V+ +D TV D L VGRLD +TEGLL+LTNDG L Sbjct: 61 M-YFMLHKPQGVVSATTD-HVHKTVIDLLQPQDQVMDPFPVGRLDKDTEGLLILTNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI---CYGDMQVTLDTQKGSNA 187 A L P + Y G VD+ + + GI + +++ + ++ Sbjct: 119 AHNLLSPKKHVDKCYEAIIEGVVDEQDVQAFENGITLDDGFNCQSAKLEILSVDFEKESS 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + V + EGK ++K++FE + V L R+S G QL TL G R+++K+ L Sbjct: 179 VIQVTIHEGKFHQVKRMFEAVDKSVIYLKRLSMGSLQLDETLELGEYRQLTKEEL 233 >gi|238064000|ref|ZP_04608709.1| pseudouridine synthase [Micromonospora sp. ATCC 39149] gi|237885811|gb|EEP74639.1| pseudouridine synthase [Micromonospora sp. ATCC 39149] Length = 256 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 81/251 (32%), Positives = 123/251 (49%), Gaps = 6/251 (2%) Query: 1 MKDKNIVQENFTP-----QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM 55 M+ + + P +R+ KV+A AG+ SRR E +I ++RV VNG + + Sbjct: 1 MRRDDRAPKTDAPVFEGAERLQKVLAAAGVGSRRACEDLIFRRRVTVNGKVAQLGDKADP 60 Query: 56 STDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRL 114 + D I VDG L+ R +KP G+V+T +D GR+ + D + + RV VGRL Sbjct: 61 TRDVILVDGERLQADTRLVYLALNKPRGVVSTMADEKGRAALSDFIGNRVEQRVYHVGRL 120 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D ++EGLLLLTNDG LA L PS + Y G + ++ L GI ++ Sbjct: 121 DADSEGLLLLTNDGDLAHRLTHPSYGVPKTYLCEVAGPIPRNLGKRLAAGIELEDGPVTV 180 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + G A V + L EG+ ++++ V RL+R S GP +LG L AG TR Sbjct: 181 DSFKVVDTLGKTAQVELTLHEGRKHIVRRLLGEVGHPVFRLVRTSIGPIRLGDLRAGRTR 240 Query: 235 EVSKKILREQL 245 ++ + Sbjct: 241 RLTNAEVAALF 251 >gi|197294800|ref|YP_001799341.1| 16S rRNA pseudouridylate synthase [Candidatus Phytoplasma australiense] gi|171854127|emb|CAM12116.1| 16S rRNA pseudouridylate synthase [Candidatus Phytoplasma australiense] Length = 243 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 76/236 (32%), Positives = 129/236 (54%), Gaps = 6/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA A + SRR+VE +I Q+RVKVN ++ + V ++D + +D V ++K Sbjct: 2 ERLQKFIASANLVSRRKVEILILQKRVKVNNQVVSQLGTKVKASDVVTLDDVLIKKTT-L 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G ++T D R TV D + R+ SVGRLD NT GL+L+TNDG + + Sbjct: 61 FYYLLNKPQGYLSTTKDDKKRPTVLDLIKESQNQRLYSVGRLDFNTTGLILITNDGEMTQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG-DMQVTLDTQK---GSNAW 188 L P + Y V+ + + + L+LL KG++I ++ + Q+ + W Sbjct: 121 KLTHPCFGIPKEYHVKINVFLTKKDLSLLLKGVIIDHNYLSIPKEINILKQRYLPKPSTW 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + + EGKNR+I+K+ E ++V +L R SY + L G+ R + +++ Sbjct: 181 LKIVITEGKNRQIRKMMEALGYQVLKLRRYSYAFLTIEGLKTGAYRLLKIHEIKKL 236 >gi|86141186|ref|ZP_01059732.1| pseudouridine synthase, Rsu [Leeuwenhoekiella blandensis MED217] gi|85831745|gb|EAQ50200.1| pseudouridine synthase, Rsu [Leeuwenhoekiella blandensis MED217] Length = 265 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 68/260 (26%), Positives = 118/260 (45%), Gaps = 11/260 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RKAERT 73 R++K ++ G SRRE +++I R+ VNG + V S D I VDG + + + Sbjct: 8 RINKFLSEVGYCSRREADKLIDAGRITVNGNIP-EMGTKVSSEDEIRVDGKIVGEQKDPP 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++HKP+G+V T + + D + + +R+ +GRLD +EGL+ LTNDG + Sbjct: 67 VYLIFHKPVGIVCTTDTRVEKDNIIDYI-NYPTRIFPIGRLDKASEGLIFLTNDGDIVNK 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V +D + + GI I +V +K + L Sbjct: 126 ILRARNNHDKEYIVDVDKPIDASFVKRMSDGIPILDTITRKCEVEQLGKK----RFKIIL 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +G NR+I+++ E+ ++ V RL R+ L + G R + L+E LLE + Sbjct: 182 TQGLNRQIRRMCEYLDYNVTRLKRVRIMNINL-DIPVGKYRAFTTAELKEL--NSLLEGS 238 Query: 254 QVNLDAPIYSSETLVRDRPN 273 + P + RP+ Sbjct: 239 SKTFE-PESQTGNKPEIRPS 257 >gi|187928207|ref|YP_001898694.1| pseudouridine synthase [Ralstonia pickettii 12J] gi|187725097|gb|ACD26262.1| pseudouridine synthase [Ralstonia pickettii 12J] Length = 594 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 101/313 (32%), Positives = 158/313 (50%), Gaps = 9/313 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG+ +++TD + Sbjct: 202 KARELTSEDDAP-KLHKILADAGLGSRRDMEDLILQGRVSVNGLPA-HIGQRILATDQVR 259 Query: 62 VDGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDIN 117 V+G ++ + R+ LYHKP G + + SDP+GR TVFD LP + + + ++VGRLD N Sbjct: 260 VNGKLIQRKLPNKPPRVLLYHKPSGEIVSQSDPEGRPTVFDALPRMKTGKWVAVGRLDFN 319 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L GI +Q ++ Sbjct: 320 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAETDRQKLLHGISLQDGEANFLRC 379 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 380 VDGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 439 Query: 237 SKKILREQLGPHLLE-EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 S + +R +G ++ + P ++ + F S+ G+ Sbjct: 440 SAEDVRTLMGTLGMKVPTASSGGGQDRQGNRRRGPAPVLMGPMSSGFAGEANFQSRGMGV 499 Query: 296 SKQKKLATPVHRR 308 + A P RR Sbjct: 500 ENGNR-AQPAQRR 511 >gi|255011767|ref|ZP_05283893.1| ribosomal large subunit pseudouridine synthase B [Bacteroides fragilis 3_1_12] gi|313149605|ref|ZP_07811798.1| ribosomal large subunit pseudouridine synthase B [Bacteroides fragilis 3_1_12] gi|313138372|gb|EFR55732.1| ribosomal large subunit pseudouridine synthase B [Bacteroides fragilis 3_1_12] Length = 466 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 69/242 (28%), Positives = 115/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + D + Sbjct: 218 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRADVV 277 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + + ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 278 KFHDETVS-IERKVYVLLNKPKDCVTTSDDPQARLTVMDLVKGACAERIYPVGRLDRNTT 336 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V + + ++ + GI ++ ++ Sbjct: 337 GVLLLTNDGDLASKLTHPKYLKKKIYHVYLDKNLTKADMDQIAAGIQLEDGEIHADAISY 396 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 397 -SDEVKRDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQ 455 Query: 240 IL 241 + Sbjct: 456 EV 457 >gi|237719081|ref|ZP_04549562.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_2_4] gi|229451460|gb|EEO57251.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_2_4] Length = 493 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 115/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 245 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 304 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 305 KFHDEPVS-IERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTT 363 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V + + ++ + GI ++ ++ Sbjct: 364 GVLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMDQIAAGIQLEDGEIHADAISY 423 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 424 -TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEA 482 Query: 240 IL 241 + Sbjct: 483 EV 484 >gi|296117982|ref|ZP_06836565.1| RNA pseudouridylate synthase [Corynebacterium ammoniagenes DSM 20306] gi|295969213|gb|EFG82455.1| RNA pseudouridylate synthase [Corynebacterium ammoniagenes DSM 20306] Length = 308 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 79/244 (32%), Positives = 123/244 (50%), Gaps = 4/244 (1%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHI 60 +K+ N +R+ KV+A+AG+ASRR E +I RV+VNG +++R V V D I Sbjct: 56 DEKSTQNPNTEGERLQKVLAKAGVASRRHAEVLIDAGRVEVNGKIIKRQGVRVNPNADVI 115 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDIN 117 VDGV + E ++ +KP G+ +T D GR V D + R+ VGRLD + Sbjct: 116 RVDGVRVNVNEDHEYFILNKPRGVQSTMQDDMGRPCVGDMVAEKTASGQRLFHVGRLDAD 175 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+LTNDG LA L P + + Y G+ D+ + LK GI + V Sbjct: 176 TEGLLILTNDGELANRLMHPKYEVSKTYLATVLGEADKSLVRTLKDGIELDDGMANADFV 235 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + + + L EG+ ++++ + + V RL+R QLG + G R ++ Sbjct: 236 QIVDKNQGMSLIRLELHEGRKHIVRRMLKAAGYPVQRLVRTKIHTVQLGDMKPGGIRALN 295 Query: 238 KKIL 241 L Sbjct: 296 SAEL 299 >gi|295095390|emb|CBK84480.1| ribosomal large subunit pseudouridine synthase F [Enterobacter cloacae subsp. cloacae NCTC 9394] Length = 290 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 74/292 (25%), Positives = 134/292 (45%), Gaps = 12/292 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AER 72 R++K I+ +GI SRRE +R I Q V +NG V+ D ++V+G + AE Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVVPGDVVKVNGQVIEPRDAED 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP+G+V+T D + R + D + + SR+ +GRLD +++GL+ LTN G L Sbjct: 67 LVFIALNKPVGIVSTTEDGE-RDNIVDFV-NHSSRIFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + V + + + G+ I G +V +K + + Sbjct: 125 KILRAGNDHEKEYIVTVNKPVTDEFIRGMGAGVPILGTVTKKCKV----RKEAPFAFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E+F ++V +L R L + G R+++ L E L+E Sbjct: 181 LVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIELF--KLIEN 238 Query: 253 AQVN-LDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +T RP + + ++ R K + ++ +KK Sbjct: 239 SSSEAKPKAKAKPKTQAIKRPVVKAPQAEEKGRGKPGNGKRFTQPGRKKKGR 290 >gi|160915013|ref|ZP_02077226.1| hypothetical protein EUBDOL_01020 [Eubacterium dolichum DSM 3991] gi|158432812|gb|EDP11101.1| hypothetical protein EUBDOL_01020 [Eubacterium dolichum DSM 3991] Length = 244 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 78/234 (33%), Positives = 118/234 (50%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AGIASRR+ E +I Q RV VNG L+ V D I VDG + K E Sbjct: 2 ERLQKVMAAAGIASRRKCEELIVQGRVSVNGQLVSELGYKVKKGDQIAVDGKMIEK-EGK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP + T +D GR TV + + R+ +VGRLD +T G+LLLTNDG A Sbjct: 61 VYYLMNKPKKSMCTSNDEFGRKTVIELVEGT-ERIFTVGRLDYDTSGVLLLTNDGDFANE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY---GDMQVTLDTQKGSNAWVT 190 + P +VY + +G + + + LK GIV+ ++T K + Sbjct: 120 IIHPRYHLPKVYNLTINGILKPEDMRKLKNGIVLDDGYKTMPAKFKITEKDLKKNQCSFD 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+IK++ E ++V RL R L G R + +++ Sbjct: 180 LTIYEGRNRQIKRMMEALGYEVRRLHRKQIAFLGCSDLRQGEYRTLKPFEVKKL 233 >gi|320093560|ref|ZP_08025451.1| ribosomal large subunit pseudouridine synthase B [Actinomyces sp. oral taxon 178 str. F0338] gi|319979487|gb|EFW10958.1| ribosomal large subunit pseudouridine synthase B [Actinomyces sp. oral taxon 178 str. F0338] Length = 249 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 87/234 (37%), Positives = 126/234 (53%), Gaps = 2/234 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE-R 72 R+ KV+A+AG+ASRR E+MIA RV V+G ++ + V T I VDG L E + Sbjct: 12 RLQKVLAQAGVASRRAAEQMIADGRVSVDGQVVRGQGMRVDPTAQVIHVDGERLILDETK 71 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP+G+V+T SDP+GR TV D + R+ VGRLDI+T GLLLLTNDG LA Sbjct: 72 HVVLAINKPVGVVSTMSDPEGRPTVADIVAGYPERLYHVGRLDIDTSGLLLLTNDGELAN 131 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y R HG+V L GI ++ + G V + Sbjct: 132 RLTHPSYEISKTYVARLHGEVRPGVKRRLMAGIELEDGPIAVDGFRVVDTYGDITTVEIV 191 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EG+NR ++++ + + V L+R +GP +L L G++R V L G Sbjct: 192 VHEGRNRLVRRMMDAVGFPVRELVRTGFGPIRLDHLQPGTSRRVKGNALTALYG 245 >gi|76809714|ref|YP_333311.1| RNA pseudouridylate synthase family protein [Burkholderia pseudomallei 1710b] gi|76579167|gb|ABA48642.1| RNA pseudouridylate synthase family protein [Burkholderia pseudomallei 1710b] Length = 513 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 92/288 (31%), Positives = 146/288 (50%), Gaps = 8/288 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 132 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 190 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 191 GKPVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTE 250 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 251 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRIRD 310 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 311 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 370 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 +R + L+ D R +P+ + R Sbjct: 371 AQVRRLMSTVGLKA--PTEDKGGKRGGPAERRQPDPMQTSMGFINREP 416 >gi|53726360|ref|YP_102763.1| RNA pseudouridylate synthase family protein [Burkholderia mallei ATCC 23344] gi|52429783|gb|AAU50376.1| RNA pseudouridylate synthase family protein [Burkholderia mallei ATCC 23344] Length = 380 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 91/286 (31%), Positives = 146/286 (51%), Gaps = 8/286 (2%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++G Sbjct: 1 MLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRINGK 59 Query: 66 PLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGL 121 P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTEGL Sbjct: 60 PVKRKLPSKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTEGL 119 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 L+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 120 LMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRIRDGG 179 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 180 GEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDEAQ 239 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 +R + L+ D + R +P+ + R Sbjct: 240 VRRLMSTVGLKA--PTEDKGGKRGGPVERRQPDPMQTSMGFINREP 283 >gi|326796234|ref|YP_004314054.1| pseudouridine synthase Rsu [Marinomonas mediterranea MMB-1] gi|326546998|gb|ADZ92218.1| pseudouridine synthase Rsu [Marinomonas mediterranea MMB-1] Length = 298 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 105/294 (35%), Positives = 149/294 (50%), Gaps = 10/294 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---KA 70 +++ KV+ARAG+ SRRE+E I + RV VNG + V D IE+DG P+ Sbjct: 3 EKLQKVLARAGLGSRREMENRIREGRVVVNGEVAT-LGDRVGLEDQIELDGYPVSVSGAG 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGG 129 + R+ +Y+KP G V T DP+GR TVFD LP R I+VGRLDINT GLLL T DG Sbjct: 62 QNRRVIIYNKPEGEVCTRKDPEGRPTVFDRLPKLRGERWIAVGRLDINTSGLLLFTTDGE 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PST+ R Y VR GQV + + LKKG+++ V +G N W Sbjct: 122 LANRLMHPSTEIDREYLVRVMGQVTDEHIATLKKGVLLDDGMASFSDVVDGGGEGINHWF 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 V L EG+NRE+++++E KVNRL R+ +GP L + G E+ + + Sbjct: 182 YVCLMEGRNREVRRLWESQGLKVNRLKRVRFGPVFLPSKAKVGRWVEMEEAEVNGLCELV 241 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A + + + + +VP R K Q + + K Sbjct: 242 DIKPAPIKQ----KTKQEQEDLKRRRAKQVPGKARRTKGFDWQSSDKQEFKPRK 291 >gi|226355753|ref|YP_002785493.1| RNA pseudouridylate synthase [Deinococcus deserti VCD115] gi|226317743|gb|ACO45739.1| putative RNA pseudouridylate synthase [Deinococcus deserti VCD115] Length = 253 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 82/247 (33%), Positives = 119/247 (48%), Gaps = 10/247 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK- 69 + +R+ K +ARAGIASRR E MI RV VNG++ V D + VDG + Sbjct: 1 MSGERLQKRLARAGIASRRAAEEMITAGRVTVNGVVA-HLGQTVTDADDVRVDGSLVDST 59 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 A + +KP G VTT D GR V D +P + VGRLD ++EGLLLLT DG Sbjct: 60 AVPAVTYALYKPRGYVTTARDEYGRRNVLDAMPE-IPGLHPVGRLDRDSEGLLLLTTDGQ 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQ--VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 L + P + YR G Q +L+ L G+ ++ + + Sbjct: 119 LTLTMTHPRYGHEKAYRAWTEGPHDPTQGELDTLVSGVELEDGPARAVSASPAYGGAF-- 176 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V L EG+NR+++++ E V+RL+R G LG + G RE+++K L E + P Sbjct: 177 ---VVLGEGRNRQVRRMLEAVGHPVSRLLRYRVGGLWLGDMEVGEYRELTRKDLDELVNP 233 Query: 248 HLLEEAQ 254 + A Sbjct: 234 ASIPRAS 240 >gi|167836825|ref|ZP_02463708.1| RNA pseudouridylate synthase family protein [Burkholderia thailandensis MSMB43] Length = 358 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 89/272 (32%), Positives = 142/272 (52%), Gaps = 6/272 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 60 KRVLSPEDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRIN 118 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 119 GKPVKRKLPNKPPRVLLYHKPTGEIVSHADPEGRPSVFDRLPPMKTAKWLAVGRLDFNTE 178 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 179 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELSEASRQKLLHGVELDDGPANFLRIRD 238 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++F+ V+RLIR +GP L L G E+ + Sbjct: 239 GGGEGTNHWYHVALAEGRNREVRRMFDAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 298 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRD 270 +R + L+ ++E D Sbjct: 299 AQVRRLMSTVGLKAPTEEKGKRGGATERRQPD 330 >gi|158316819|ref|YP_001509327.1| pseudouridine synthase [Frankia sp. EAN1pec] gi|158112224|gb|ABW14421.1| pseudouridine synthase [Frankia sp. EAN1pec] Length = 259 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 80/242 (33%), Positives = 119/242 (49%), Gaps = 2/242 (0%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHI 60 D R+ KV+A AGI SRR E +I RV+V+G ++ V T I Sbjct: 9 PDTRRRDPASEGIRLQKVLASAGIGSRRHNEELIDSGRVRVDGEVVREQGRRVDPETAVI 68 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 EVDG + +KP G+++ SD GR T+ D L S + VGRLD ++E Sbjct: 69 EVDGERVVTRTGLVHLALNKPRGVLSAMSDDRGRPTIADFLTEFGSVGLFHVGRLDGDSE 128 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL+TNDG LA L PS + Y V G V +D L+ G+ ++ + Sbjct: 129 GLLLVTNDGDLAHRLTHPSFGVPKTYLVEISGPVRRDVPRRLRSGVTLEDGPVSVDAARI 188 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 S + + L EG+ ++++ E V+RL+R+S+GP LGTL AG R +++ Sbjct: 189 VDVAASRVMMELTLHEGRKHVVRRMMEAVGHPVHRLVRVSFGPVTLGTLRAGRARHLTRH 248 Query: 240 IL 241 + Sbjct: 249 EV 250 >gi|261340036|ref|ZP_05967894.1| ribosomal large subunit pseudouridine synthase B [Enterobacter cancerogenus ATCC 35316] gi|288317956|gb|EFC56894.1| ribosomal large subunit pseudouridine synthase B [Enterobacter cancerogenus ATCC 35316] Length = 291 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 104/300 (34%), Positives = 149/300 (49%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V ++ I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEAIIEAGRVSVDGKIATLGDRVEIVPGLKIRIDGHLISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD++KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDENKLRDLSRGVQLEDGPAAFKTIKFTGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILLPKGLPRGGYTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + +DR + + R K SQ + + Sbjct: 242 EL----------VELTPETSSKVAVEKDRRRMKAN---QIRRAVKRHSQVSSNRRSGSRN 288 >gi|222110298|ref|YP_002552562.1| pseudouridine synthase [Acidovorax ebreus TPSY] gi|221729742|gb|ACM32562.1| pseudouridine synthase [Acidovorax ebreus TPSY] Length = 435 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 104/345 (30%), Positives = 154/345 (44%), Gaps = 20/345 (5%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN V D I+ Sbjct: 99 PAKRVLLPQPETPKLHKVLAQAGMGSRLEMEQLILEGRISVNNEPA-HIGQRVQFGDQIK 157 Query: 62 VDGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDIN 117 V+G P+R R+ YHKP+G V TH DP R TVF LP + + SVGRLD+N Sbjct: 158 VNGKPIRFRIAPPPVRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLQQGKWQSVGRLDLN 217 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLL T+ G LA L P R Y R G + ++ L +G+ ++ V Sbjct: 218 TEGLLLFTSSGELANKLMHPRFGLEREYAARVLGALSTEEKQRLLEGVPLEDGMASFGSV 277 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ Sbjct: 278 EDGGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMMLPRGLKRGAWLEL 337 Query: 237 SKKILREQLGPHLLEEAQVNLDA----PIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK 292 ++ +R L++ A LD P R + + + + Sbjct: 338 DERDIRA-----LMQAAGATLDGGGARPTSGQGRGGRKGDRRSAGPGKASGSGRDKTGGR 392 Query: 293 NGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRR 337 G S A P + + G S QR RR Sbjct: 393 AGRSPS-PNAQPDPMKTSLGYI----GADSFSRHRQQQRNNGPRR 432 >gi|309775550|ref|ZP_07670550.1| pseudouridine synthase RluB [Erysipelotrichaceae bacterium 3_1_53] gi|308916644|gb|EFP62384.1| pseudouridine synthase RluB [Erysipelotrichaceae bacterium 3_1_53] Length = 245 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 78/234 (33%), Positives = 120/234 (51%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E +I++ RV VNG + V D IEVDG P+ K E Sbjct: 2 ERLQKVIAAAGITSRRKAEVLISEGRVAVNGKTVTELGYKVKRGDLIEVDGKPIAK-EDK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP + T D GR TV D + R+ +VGRLD +T GL++LTNDG A Sbjct: 61 VYFLMNKPKRTMCTSEDEFGRQTVVDLI-DCEQRIFTVGRLDYDTSGLIILTNDGDFANE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQ--VTLDTQKGSNAWVT 190 + P +VY + +G + + + +K GIV+ GI + +T + + Sbjct: 120 IIHPRYHIPKVYNLTINGILTSEDMKKIKSGIVLDDGIKTLPAKYRITEKDPQKNQCSFD 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+IK++ E ++V RL R L G R + +++ Sbjct: 180 LTIVEGRNRQIKRMMEALGYEVRRLHRSKLAFLHCSDLRQGEYRVLKPFEVKQL 233 >gi|319776127|ref|YP_004138615.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae F3047] gi|329123291|ref|ZP_08251859.1| ribosomal small subunit pseudouridine synthase A [Haemophilus aegyptius ATCC 11116] gi|317450718|emb|CBY86938.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae F3047] gi|327471500|gb|EGF16948.1| ribosomal small subunit pseudouridine synthase A [Haemophilus aegyptius ATCC 11116] Length = 232 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 110/234 (47%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E Sbjct: 1 MRLDKFIAENTGLTRSQATKAIRQSAVKINGEIVKSGAVQISQEDKIYFEDELLTWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ HKP G V ++ D D T++ + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDY-PTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+++ +GI+++G L+ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 + EG+ ++K++F KV L R G L +L G R +++ + + + Sbjct: 178 ISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLV 231 >gi|296502925|ref|YP_003664625.1| tRNA pseudouridine synthase A [Bacillus thuringiensis BMB171] gi|296323977|gb|ADH06905.1| tRNA pseudouridine synthase A [Bacillus thuringiensis BMB171] gi|326940067|gb|AEA15963.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar chinensis CT-43] Length = 235 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 66/233 (28%), Positives = 113/233 (48%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 1 MRINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G +VT + S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVT----QLSKYEFQIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLFA 226 >gi|324326400|gb|ADY21660.1| RNA pseudouridine synthase family protein [Bacillus thuringiensis serovar finitimus YBT-020] Length = 235 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 65/233 (27%), Positives = 113/233 (48%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 1 MRINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-SEKSVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G ++T + S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLFA 226 >gi|206971481|ref|ZP_03232431.1| RNA pseudouridine synthase family protein [Bacillus cereus AH1134] gi|229178726|ref|ZP_04306090.1| Pseudouridine synthase [Bacillus cereus 172560W] gi|206733466|gb|EDZ50638.1| RNA pseudouridine synthase family protein [Bacillus cereus AH1134] gi|228604884|gb|EEK62341.1| Pseudouridine synthase [Bacillus cereus 172560W] Length = 235 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 65/233 (27%), Positives = 113/233 (48%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 1 MRINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-SEKSVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G ++T + S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFQIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLFA 226 >gi|327462777|gb|EGF09099.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1057] Length = 242 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 116/234 (49%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L E+ Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIIVSGQRLTY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATED-DHHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A + P ++YR + G ++Q + GI ++ + + ++ + Sbjct: 119 AHAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAHLKILELDEEKEASL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V + L EGK ++K++ +V L R++ GP QL + L G R +++ + Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDSALALGEWRRLTEAEI 232 >gi|253680889|ref|ZP_04861692.1| RNA pseudouridine synthase family protein [Clostridium botulinum D str. 1873] gi|253562738|gb|EES92184.1| RNA pseudouridine synthase family protein [Clostridium botulinum D str. 1873] Length = 238 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 62/234 (26%), Positives = 119/234 (50%), Gaps = 7/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K+++ G SR+E++ ++ + ++++G +++ + V I+V G + + Sbjct: 2 ERLDKILSNLGYGSRKEIKALVKKGEIEIDGKIIKDNGIKVDPNKSTIKVSGEEINYR-K 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+V+ D + TV D L ++ VGRLD +TEG LL+TNDG L Sbjct: 61 YIYLMMNKPAGVVSATFD-NYDETVIDLLDYEYTVFDPFPVGRLDKDTEGFLLITNDGDL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P ++Y VD+ + +KGIV+ G ++ + + + + V Sbjct: 120 NHRLTSPKWHVDKIYYAEIDKIVDEKDIRAFEKGIVLDDGYKCLPAKLEILSADENGSEV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + ++EGK ++K++FE KV L R+ G L +L G RE+++ ++ Sbjct: 180 NITIQEGKFHQVKRMFEAREKKVIYLKRLQMGNLVLDESLNEGEYRELTEDEIK 233 >gi|229520766|ref|ZP_04410189.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae TM 11079-80] gi|229342321|gb|EEO07316.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae TM 11079-80] Length = 231 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 102/230 (44%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREITL-HGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + HKP G+V +H D T F L + GRLD++T GLLL+T+DG + Sbjct: 60 RYIMMHKPDGVVCSHEDGFN-QTAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D +GI ++G + L+ S V + Sbjct: 119 RVTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEV--ISETEVLLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L TL G R ++ + + Sbjct: 177 IHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTAEEV 226 >gi|91788475|ref|YP_549427.1| ribosomal large subunit pseudouridine synthase B [Polaromonas sp. JS666] gi|91697700|gb|ABE44529.1| ribosomal large subunit pseudouridine synthase B [Polaromonas sp. JS666] Length = 544 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 97/350 (27%), Positives = 153/350 (43%), Gaps = 24/350 (6%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN + D ++V+ Sbjct: 87 KRVLSPQPETPKLHKVLAQAGLGSRLEMEQLILEGRISVNAEPA-HIGQRIQFGDTVKVN 145 Query: 64 GVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 G P+R R+ YHKP G V TH DP R TVF LP +F + SVGRLD+NTE Sbjct: 146 GKPIRVRIDPPPPRVIAYHKPSGEVVTHDDPQNRPTVFRRLPKLFQGKWQSVGRLDLNTE 205 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLT+ G LA L P R Y VR G + ++ L +G+ + + Sbjct: 206 GLLLLTSSGELANKLMHPRFGLEREYAVRVLGALSNEEKKRLLEGVTLDDGVAQFSSIEA 265 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ + Sbjct: 266 GGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMLLPRGLKRGAFVELDE 325 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 + + E++ + P + R + ++N S+ Sbjct: 326 RDIWALTNAVTRSESRAD--------PRGAPKHPGHVRGDEGGEFRPGRG-PRRNERSRG 376 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + P +D+ +E + P S Sbjct: 377 DRGRLPAPESGQ---------ADDFQPADADAEQEPNELQPPMHRTDSAP 417 >gi|194289952|ref|YP_002005859.1| ribosomal large subunit pseudouridine synthase b [Cupriavidus taiwanensis LMG 19424] gi|193223787|emb|CAQ69794.1| Ribosomal large subunit pseudouridine synthase B [Cupriavidus taiwanensis LMG 19424] Length = 613 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 93/273 (34%), Positives = 143/273 (52%), Gaps = 7/273 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + + E+ P ++ KV+A G+ SRRE+E +I Q RV VNG+ ++ D + V+ Sbjct: 210 RELSAEDDAP-KLHKVLAEGGLGSRREMEELILQGRVSVNGLPA-HIGQRILPADQVRVN 267 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 G + + + R+ LYHKP G + + SDP+GR TVFDNLP I + + ++VGRLD NTE Sbjct: 268 GKLIHRKVSTKPPRVLLYHKPAGEIVSQSDPEGRPTVFDNLPRIKTGKWVAVGRLDFNTE 327 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+ T G +A P R Y VR G++ + L GI + +++ Sbjct: 328 GLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAEADRQRLLHGIKLDDGEANFLRIAD 387 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G N W V L EG+NRE++++FE V+RLIR YG F L L G +EV Sbjct: 388 GGGEGVNHWYHVALTEGRNREVRRMFEAVGLTVSRLIRTRYGQFLLPRGLKRGRWQEVEP 447 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDR 271 ++ + L+ AP +++ R + Sbjct: 448 NDVKALMTSVGLKVPGKGEQAPKGATKVGGRKQ 480 >gi|152997397|ref|YP_001342232.1| RNA-binding S4 domain-containing protein [Marinomonas sp. MWYL1] gi|150838321|gb|ABR72297.1| RNA-binding S4 domain protein [Marinomonas sp. MWYL1] Length = 300 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 105/299 (35%), Positives = 147/299 (49%), Gaps = 9/299 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL---RKA 70 +++ KV+ARAG SRRE+E I + RV VNG + V D I +DG + Sbjct: 3 EKLQKVLARAGQGSRREMETRIREGRVLVNGEVAT-LGDRVSVKDTITIDGYSIIATEAG 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGG 129 E R+ +Y+KP G V T DP+GR TVFD LP R I+VGRLDINT GLLL T DG Sbjct: 62 ENRRVIIYNKPEGEVCTRKDPEGRPTVFDKLPKLRGERWIAVGRLDINTSGLLLFTTDGE 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PST+ R Y VR G+V + L LKKG+++ + +G N W Sbjct: 122 LANRLMHPSTEIDREYLVRVMGEVTDENLAALKKGVILDDGIAKFTDIVDGGGEGINRWF 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 V L EG+NRE+++++E KVNRL R+ +GP L + G E+ + + Sbjct: 182 YVCLMEGRNREVRRLWESQGVKVNRLKRVRFGPVFLPSKAKVGRWVEMEETDVNSLCAMV 241 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 L+ +++ P E L R + K ++ + K P R Sbjct: 242 DLKLSEL---TPKTQQEKLELKRHKNKATAGGARRAPPKGFDWQSNDKPEFKPKKPGKR 297 >gi|146321792|ref|YP_001201503.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis 98HAH33] gi|253752593|ref|YP_003025734.1| ribosomal small subunit pseudouridine synthase B [Streptococcus suis SC84] gi|253754419|ref|YP_003027560.1| ribosomal small subunit pseudouridine synthase B [Streptococcus suis P1/7] gi|253756353|ref|YP_003029493.1| ribosomal small subunit pseudouridine synthase B [Streptococcus suis BM407] gi|145692598|gb|ABP93103.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Streptococcus suis 98HAH33] gi|251816882|emb|CAZ52530.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus suis SC84] gi|251818817|emb|CAZ56658.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus suis BM407] gi|251820665|emb|CAR47426.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus suis P1/7] gi|319759007|gb|ADV70949.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis JS14] Length = 242 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 71/237 (29%), Positives = 117/237 (49%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR EV++++ ++V VNG + + D I V G L E Sbjct: 1 MRLDKFLVDCGVGSRTEVKKLLKNKQVTVNGQVETSPKQQINEKKDQIAVAGQVLSH-ET 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D R TV D L + + V VGRLDI+T GLLLLTN G L Sbjct: 60 FVYYLLNKPKGVISATEDDHHR-TVLDLLDNTARQKEVFPVGRLDIDTHGLLLLTNKGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A + P ++YR + G + Q+ + GI ++ Q+T+ + + + Sbjct: 119 AHAMLSPKKHVDKLYRAQVDGIMTQEDVERFAAGIELKDFTCQPAQLTILSTDEAKQTSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 V + +REGK +IK++ + V L R++ GP +L L G R ++ L++ Sbjct: 179 VDITIREGKFHQIKRMVQACGKTVTDLQRLTMGPLRLDPKLALGEYRRLTAAELKQL 235 >gi|242239360|ref|YP_002987541.1| 23S rRNA pseudouridylate synthase B [Dickeya dadantii Ech703] gi|242131417|gb|ACS85719.1| pseudouridine synthase [Dickeya dadantii Ech703] Length = 289 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 107/301 (35%), Positives = 149/301 (49%), Gaps = 23/301 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+AR+G SRRE+E +I Q RV V+G + V+V I +DG + E Sbjct: 2 SEKLQKVLARSGHGSRREIESIIQQGRVSVDGKIATLGDRVDVTRATKIRIDGHVVTVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ +Y+KP G + T SDP+GR TVFD LP +R I+VGRLD+NT GLLL T Sbjct: 62 TEETVCRVLMYYKPEGELCTRSDPEGRPTVFDRLPRIQGARWIAVGRLDVNTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G+V DK+ L KG+ + + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGEVGDDKIRQLSKGVQLDDGPAAFRSIRHQGGEGLN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI---LR 242 W V L EG+NRE+++++E +V+RLIR+ YG QL L G E+S + LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIQLPKGLPRGGWSEMSLEDVNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V L S + R+R + + R K S K Sbjct: 242 EL----------VQLSPETVSKLPVERERRRLKAN---QIRRAVKRHSLVGARRNAPKRN 288 Query: 303 T 303 Sbjct: 289 G 289 >gi|145639224|ref|ZP_01794831.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae PittII] gi|145271786|gb|EDK11696.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae PittII] gi|309750799|gb|ADO80783.1| 16S RNA U516 pseudouridine synthase [Haemophilus influenzae R2866] Length = 232 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 60/234 (25%), Positives = 110/234 (47%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E Sbjct: 1 MRLDKFIAENTGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWIEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ HKP G V ++ D D T++ + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDY-PTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+++ +GI+++G L+ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 + EG+ ++K++F KV L R G L +L G R +++ + + + Sbjct: 178 ISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLV 231 >gi|320536822|ref|ZP_08036818.1| hypothetical protein HMPREF9554_01551 [Treponema phagedenis F0421] gi|320146331|gb|EFW37951.1| hypothetical protein HMPREF9554_01551 [Treponema phagedenis F0421] Length = 239 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 83/246 (33%), Positives = 129/246 (52%), Gaps = 13/246 (5%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M DK I R+ +A++GIASRR E++I RV VNGI + V+ +D + Sbjct: 1 MPDKEI--------RLQVYLAKSGIASRRASEKLILDGRVSVNGIKVTELGTKVLPSDIV 52 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 D ++ + R L +KP+G V + SD GR+T D L + R+ ++GRLD+ + Sbjct: 53 CFDNQQIKFEKEKRYVLLNKPVGYVCSLSDEMGRATAADLLKEAYTERLYNIGRLDMYSG 112 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G +L TNDG + +E PS + + Y + + + +GI I+GI Y + Sbjct: 113 GAILFTNDGDFSARIEHPSAEIEKEYLIETTQDIPDTLIERFTRGIRIEGIFYRCVSAKR 172 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + ++ L EGKNREI+KVF+FF + RLIR+ G QL L G R ++K+ Sbjct: 173 QASRKA----SIVLIEGKNREIRKVFDFFKIPIKRLIRVRIGGIQLNGLKPGEFRNLTKE 228 Query: 240 ILREQL 245 + E L Sbjct: 229 EIAELL 234 >gi|222640395|gb|EEE68527.1| hypothetical protein OsJ_26969 [Oryza sativa Japonica Group] Length = 1502 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 70/256 (27%), Positives = 121/256 (47%), Gaps = 19/256 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M D + R++K IA G SRRE +R+IA +RV VNG AV V D + Sbjct: 1257 MPDNRAMTT-----RLNKHIADTGFCSRREADRLIAARRVTVNGHPAGTGAV-VGEEDQV 1310 Query: 61 EVDGVPLRK-------AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 VDG PLR A R +KP+G+ T ++ + + D + R+ +GR Sbjct: 1311 LVDGQPLRARVARKPGARRHVYIALNKPVGVTCT-TETSVKGNIVDFV-GHEQRIFPIGR 1368 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LD ++EGL+L+T++G + + + Y V + V + L + +G+ I Sbjct: 1369 LDKDSEGLILMTSNGDIVNQILRAENGHQKEYLVAVNKPVTDEFLRGMARGVRIHDQMTL 1428 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + T + + + L++G NR+I+ + F ++V +L R+ ++G L G Sbjct: 1429 PCK----TSRIAKFGFRITLQQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKIGALKPGQW 1484 Query: 234 REVSKKILREQLGPHL 249 R ++++ L+ L L Sbjct: 1485 RNLTEQELQGLLPKQL 1500 >gi|120437125|ref|YP_862811.1| ribosomal large subunit pseudouridine synthase F [Gramella forsetii KT0803] gi|117579275|emb|CAL67744.1| ribosomal large subunit pseudouridine synthase F [Gramella forsetii KT0803] Length = 266 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 63/268 (23%), Positives = 121/268 (45%), Gaps = 12/268 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE--- 71 R++K +++ G SRR +++I Q R+ +N + V D ++VDG P+ K E Sbjct: 6 RINKYLSQLGYCSRRAADKLIDQGRITINDKVP-EMGTKVTPGDLVKVDGKPVSKEELKE 64 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++KP+G+V T + + D + + R+ +GRLD +EGL+ LTNDG + Sbjct: 65 PNVYIAFNKPVGIVCTTDTRVEKDNIIDYI-NYPKRIFPIGRLDKPSEGLIFLTNDGDIV 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + V + L + G+ I + ++ +K + + Sbjct: 124 NKILRARNNHEKEYVVSVNKPVSSEFLKKMSAGVPILDTVTRECEI----EKLGHHTFRI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ--LGPHL 249 L +G NR+I+++ EF +++V L RI L + G R+++ + L+ L Sbjct: 180 VLTQGLNRQIRRMCEFLDYQVTSLKRIRIMNVSL-DIPVGEWRDLTSEELKTINNLTDES 238 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISE 277 + + +L + + RP Sbjct: 239 TKTEEGSLTSTAKKANLRTGKRPRKPKS 266 >gi|322375796|ref|ZP_08050307.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. C300] gi|321279064|gb|EFX56106.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. C300] Length = 240 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 71/239 (29%), Positives = 111/239 (46%), Gaps = 8/239 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D R TV D L I V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPQGVISATEDSKHR-TVLDLLDDIARTKEVFPVGRLDIDTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAW 188 A L P + Y G + Q+ + KGI ++ ++ + + + + Sbjct: 119 AHALLSPKRHVDKTYLAHVEGIMTQEDVETFVKGIPLKDFTCQPAKLEIVSVDSVKNQSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 V V + EGK ++K++ + +V L R++ G L L G R ++K+ L Sbjct: 179 VRVTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTLVLDENLEQGEWRRLTKEELEVLFA 237 >gi|126668319|ref|ZP_01739278.1| Pseudouridine synthase, Rsu [Marinobacter sp. ELB17] gi|126627236|gb|EAZ97874.1| Pseudouridine synthase, Rsu [Marinobacter sp. ELB17] Length = 367 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 100/310 (32%), Positives = 153/310 (49%), Gaps = 12/310 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+ K++ARAG+ SRRE+E + R+ VNG + +D E+DG L A Sbjct: 56 PERIQKLLARAGVGSRREIEGWMDAGRLLVNGKPVT-PGQKATVSDVFELDGKRLEVAAA 114 Query: 73 ----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ +Y+KP G VTT DP+GR TVFD LP R IS+GRLD+NT GL++ T D Sbjct: 115 AEVLRRVLIYNKPEGEVTTRKDPEGRPTVFDRLPRLREHRWISIGRLDLNTTGLVMFTTD 174 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS++ R Y VR G+VD + L+ G+ ++ ++ G N Sbjct: 175 GELANRLMHPSSEIDREYAVRIFGEVDDAMIERLRTGVTLEDGEAKFSDISAAGGTGMNR 234 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 W V L EG+NRE+++++E +V+RL R+ YG L + L G E+ +K + L Sbjct: 235 WFHVTLLEGRNREVRRLWESQGVRVSRLKRVRYGSIFLPSRLTVGKWEELDQKAVD--LL 292 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL---AT 303 + A++ + + + V + R + K+G +K + Sbjct: 293 SRTVGLAKMAVPQQTPDEAAAQARQQRKAAPVTNRSNRAASSPGSKSGQGARKWAVADSK 352 Query: 304 PVHRRNLASN 313 P A N Sbjct: 353 PQRSGGKARN 362 >gi|94499317|ref|ZP_01305855.1| hypothetical protein RED65_11024 [Oceanobacter sp. RED65] gi|94428949|gb|EAT13921.1| hypothetical protein RED65_11024 [Oceanobacter sp. RED65] Length = 290 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 100/299 (33%), Positives = 152/299 (50%), Gaps = 18/299 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ K++A+AG+ SRRE+ER I Q RV++NG + + D I+VDG + +R Sbjct: 2 SEKLQKILAQAGLGSRREMERWIEQGRVELNGSPAK-LGERAEAKDQIKVDGKVIEHGQR 60 Query: 73 T--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGG 129 R+ Y+KP G V T DP+GR TVFD LP R I+VGRLDINT GLLL T DG Sbjct: 61 KARRVLAYNKPEGEVCTRHDPEGRPTVFDRLPKLHGERWIAVGRLDINTSGLLLFTTDGE 120 Query: 130 LARVLELPSTQ-WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PST R Y VR G+V + + + +G++++ V G N W Sbjct: 121 LANKLMHPSTNTVDREYAVRVAGEVTDEAVKAMTEGVLLEDGMAKFTDVQYFDGDGFNQW 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 V + EG+NRE+++++E +KV+RL R+ YG L + AG E+++ E Sbjct: 181 YHVCIMEGRNREVRRLWESQGFKVSRLKRVRYGCVFLPKRVSAGKWTELNQADTDEL--- 237 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 +D P S+ + + P + +F R + + +K K + Sbjct: 238 ------SALVDLP---SKPVAKLDPQEMKRYEREFRRQRTRQKAGDQPNKPKGPSRNAR 287 >gi|89094110|ref|ZP_01167053.1| ribosomal large subunit pseudouridine synthase B [Oceanospirillum sp. MED92] gi|89081585|gb|EAR60814.1| ribosomal large subunit pseudouridine synthase B [Oceanospirillum sp. MED92] Length = 276 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 95/283 (33%), Positives = 148/283 (52%), Gaps = 15/283 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP---- 66 +++ KV+AR+G+ SRRE+ER I + RV+VNG + + D +EVDG Sbjct: 1 MADEKLHKVLARSGVGSRREMERWIKEGRVQVNGQVAT-LGDRISEGDQVEVDGRKTPLI 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 R+ +Y+KP+G + T DP+GR TVF +LP + R I++GRLDINT GLLL T Sbjct: 60 FDNQAERRVLIYNKPVGEICTRHDPEGRPTVFRHLPPLKEGRWIAIGRLDINTSGLLLFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS Q R Y VR G VD+ L LK G++++ V +G+ Sbjct: 120 TDGELANALMHPSAQIDREYAVRVLGDVDEAMLQRLKDGVLLEDGMARFTDVQFFDGEGA 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W + EG+NRE+++++E +VNRL R+ +GP L + +G+ +E++ K + Sbjct: 180 NKWYHCVVMEGRNREVRRLWESQEIQVNRLKRVRFGPLFLPSDVRSGTWKELTVKEVNSL 239 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 +LE P + + ++ R ++ Sbjct: 240 --SKMLEL------KPKRAPKMTADEKQKYQRRFKKQKARRQE 274 >gi|325686573|gb|EGD28599.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK72] Length = 242 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 70/237 (29%), Positives = 115/237 (48%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L E+ Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIIVSGQRLTY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATED-DHHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A + P ++YR + G ++Q + GI ++ + + ++ ++ Sbjct: 119 AHAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAHLKILELDEEKEDSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 V + L EGK ++K++ +V L R++ GP QL L G R ++ L Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDFALALGEWRRLTTDELERL 235 >gi|168485953|ref|ZP_02710461.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae CDC1087-00] gi|183570820|gb|EDT91348.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae CDC1087-00] Length = 240 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 72/239 (30%), Positives = 114/239 (47%), Gaps = 8/239 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNNGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAW 188 A VL P + Y + G + Q+ + +GI ++ + L + + + + Sbjct: 119 AHVLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPAILELVSIDTEKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + V + EGK +IK++ + +V L R++ G L L G R ++K+ L L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELEILLA 237 >gi|255971130|ref|ZP_05421716.1| pseudouridine synthase [Enterococcus faecalis T1] gi|255973742|ref|ZP_05424328.1| pseudouridine synthase [Enterococcus faecalis T2] gi|256761441|ref|ZP_05502021.1| pseudouridine synthase [Enterococcus faecalis T3] gi|256957465|ref|ZP_05561636.1| pseudouridine synthase [Enterococcus faecalis DS5] gi|256959802|ref|ZP_05563973.1| pseudouridine synthase [Enterococcus faecalis Merz96] gi|256964546|ref|ZP_05568717.1| pseudouridine synthase [Enterococcus faecalis HIP11704] gi|257077544|ref|ZP_05571905.1| pseudouridine synthase [Enterococcus faecalis JH1] gi|257418285|ref|ZP_05595279.1| pseudouridine synthase [Enterococcus faecalis T11] gi|294780454|ref|ZP_06745819.1| pseudouridylate synthase [Enterococcus faecalis PC1.1] gi|255962148|gb|EET94624.1| pseudouridine synthase [Enterococcus faecalis T1] gi|255966614|gb|EET97236.1| pseudouridine synthase [Enterococcus faecalis T2] gi|256682692|gb|EEU22387.1| pseudouridine synthase [Enterococcus faecalis T3] gi|256947961|gb|EEU64593.1| pseudouridine synthase [Enterococcus faecalis DS5] gi|256950298|gb|EEU66930.1| pseudouridine synthase [Enterococcus faecalis Merz96] gi|256955042|gb|EEU71674.1| pseudouridine synthase [Enterococcus faecalis HIP11704] gi|256985574|gb|EEU72876.1| pseudouridine synthase [Enterococcus faecalis JH1] gi|257160113|gb|EEU90073.1| pseudouridine synthase [Enterococcus faecalis T11] gi|294452453|gb|EFG20890.1| pseudouridylate synthase [Enterococcus faecalis PC1.1] gi|295114108|emb|CBL32745.1| ribosomal small subunit pseudouridine synthase A [Enterococcus sp. 7L76] Length = 244 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 74/242 (30%), Positives = 120/242 (49%), Gaps = 10/242 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L ++ Sbjct: 1 MRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEILTY-QK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ HKP G+++ D TV D L R + VGRLD +TEGLLLLTNDG L Sbjct: 60 FFYYMLHKPQGVISATED-QRDETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--QKGSNA 187 A L P + Y G V + L +G + G ++ ++T ++ + Sbjct: 119 AHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSRLVIETINEEEGTS 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 V + ++EGK ++K++ V L R+ G L TL G R +++ L +QL Sbjct: 179 VVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRPLTEAEL-QQLQ 237 Query: 247 PH 248 P Sbjct: 238 PK 239 >gi|332884211|gb|EGK04479.1| hypothetical protein HMPREF9456_00806 [Dysgonomonas mossii DSM 22836] Length = 289 Score = 259 bits (663), Expect = 5e-67, Method: Composition-based stats. Identities = 71/298 (23%), Positives = 137/298 (45%), Gaps = 9/298 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ +G SRRE +++I Q V +NG V++ ++V G + + Sbjct: 1 MRINKYISDSGYCSRREADKLIEQGSVTINGKRA-SIGSQVLAGQEVKVYGETVTCNTQP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y+KP+G+V+T +D D + + D + R+ +GRLD +++GL++LTN+G + Sbjct: 60 VFIAYNKPVGIVST-TDLDEPNNIIDAV-GHDERIFPIGRLDKDSQGLIILTNEGDMVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V +++D + ++ G+ I G+ +V K + L Sbjct: 118 MLRADNNHEKEYHVTVDKLINEDFVKKMQGGVPILGVVTRKCEVV----KTGTHSFNIVL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 R+G NR+I+++ E+ + V RL RI +LG + G R ++K+ L E L Sbjct: 174 RQGLNRQIRRMCEYLGYNVVRLERIRIMHIKLGNIKVGQWRNITKEEL-EILRKKTASSV 232 Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 + AP ++ P + + + K + K S + + V ++ Sbjct: 233 KTE-SAPKKKTKPQEAKTPQPKGKSANSYKEKKTPTGYKESGSGMRNGKSSVKKKTRK 289 >gi|229496471|ref|ZP_04390186.1| ribosomal large subunit pseudouridine synthase B [Porphyromonas endodontalis ATCC 35406] gi|229316611|gb|EEN82529.1| ribosomal large subunit pseudouridine synthase B [Porphyromonas endodontalis ATCC 35406] Length = 459 Score = 259 bits (663), Expect = 5e-67, Method: Composition-based stats. Identities = 73/241 (30%), Positives = 124/241 (51%), Gaps = 3/241 (1%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + + TP R++K +A +G+ SRR +++I V VNG ++ + +V D I VDG Sbjct: 215 EMPVDPKTPLRLNKFLASSGVCSRRVADQLIVDGHVSVNGEIVTQLGKHVTREDFISVDG 274 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLL 123 P+ E+ L +KP VTT SDP+ R T D + + R+ VGRLD NT GLLL Sbjct: 275 KPVS-IEKKIYVLLNKPRNCVTTSSDPEKRLTAIDLVRNACNERIYPVGRLDRNTTGLLL 333 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG LA L P + ++Y+V V + + + GI ++ ++ + Sbjct: 334 LTNDGDLAAKLMHPKYEKKKIYQVTLDKPVSVEHMQQIASGIELEDGEIHADAISYVDEN 393 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + A V + + G+NR ++++F+ ++V +L R+ + L G R +++ +R Sbjct: 394 -NLAIVGIEIHSGRNRIVRRIFKHLGYRVYKLDRVYFAGLTKKDLPRGRWRYLTEDEVRN 452 Query: 244 Q 244 Sbjct: 453 L 453 >gi|229169278|ref|ZP_04296989.1| RNA pseudouridine synthase [Bacillus cereus AH621] gi|228614173|gb|EEK71287.1| RNA pseudouridine synthase [Bacillus cereus AH621] Length = 229 Score = 259 bits (663), Expect = 5e-67, Method: Composition-based stats. Identities = 63/230 (27%), Positives = 113/230 (49%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I R +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRACINGEVCTHGAL-VNEGDIVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAD-HIEDNIIDYI-NYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++++ G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKSFTDWFIDMMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L AG R+++ K L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEAGKWRDITPKELE 223 >gi|322516330|ref|ZP_08069256.1| ribosomal small subunit pseudouridine synthase A [Streptococcus vestibularis ATCC 49124] gi|322125168|gb|EFX96557.1| ribosomal small subunit pseudouridine synthase A [Streptococcus vestibularis ATCC 49124] Length = 243 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 68/237 (28%), Positives = 118/237 (49%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ + +++V VNG + + D I L E Sbjct: 1 MRLDKFLVDCGVGSRSQVKNFLKKKQVIVNGQVETSPKTQIDENKDRITYLDQELTH-ET 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ DP + TV D L RV VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATEDPRHK-TVLDLLDDTARHKRVFPVGRLDIDTHGLLLLTNNGDL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A + P ++Y+ + G +D++ + +KGI ++ ++ + + + S +W Sbjct: 119 AHAMLSPKKHVDKIYQAKVAGVMDEEDILAFEKGIKLKDHTCQPAKLEIVSVDRNESTSW 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 V + + EGK ++K++ +V L R+S GP L L G+ R ++++ L Sbjct: 179 VQITIAEGKFHQVKRMVAACGKEVTELQRLSMGPLSLPNDLELGTWRRLTEEELEAL 235 >gi|218897335|ref|YP_002445746.1| RNA pseudouridine synthase family protein [Bacillus cereus G9842] gi|218544394|gb|ACK96788.1| RNA pseudouridine synthase family protein [Bacillus cereus G9842] Length = 235 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 65/233 (27%), Positives = 113/233 (48%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 1 MRINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G ++T + S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFQIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLFA 226 >gi|301156161|emb|CBW15632.1| 23S rRNA pseudouridylate synthase [Haemophilus parainfluenzae T3T1] Length = 336 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 105/275 (38%), Positives = 151/275 (54%), Gaps = 10/275 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K Q +++ KV+ARAG SRRE+E MIA+ RV V+G + ++V S + + Sbjct: 45 KPSRQSTVEGEKLQKVLARAGQGSRREIEAMIAENRVSVDGKMATLGDRIDVHSGVKVRI 104 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + + E R+ +Y+KP G + T SDP+GR TVFD LP +R I+VGRLDIN Sbjct: 105 DGRIINLQQAQKEVCRVLMYYKPEGELCTRSDPEGRPTVFDRLPRLNGARWIAVGRLDIN 164 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ ++ Sbjct: 165 TSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGPANFKEI 224 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ Sbjct: 225 KFAGGVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEM 284 Query: 237 SKK---ILREQLGPHLLEEAQVNLDAPIYSSETLV 268 + LRE +G E ++++ P ++ Sbjct: 285 DLENVNYLRELVGLPPETETKLDVTKPRRRPKSGQ 319 >gi|254818897|ref|ZP_05223898.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium intracellulare ATCC 13950] Length = 247 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 73/239 (30%), Positives = 112/239 (46%), Gaps = 4/239 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 R+ KV+++AGIASRR E++I + RV+V+G ++ V I VDG + Sbjct: 3 EAEGIRLQKVLSQAGIASRRAAEKLIIEGRVEVDGQVVTELGTRVDPDVSVIRVDGARIV 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLT 125 + +KP G+ +T SD GR + D + + VGRLD +TEGL+LLT Sbjct: 63 LDDSQVYLALNKPRGVHSTMSDDRGRPCIGDLIERRVRGNKNLFHVGRLDADTEGLILLT 122 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + + Y G V + L+ GI + + + Sbjct: 123 NDGELAHRLMHPSHEVPKTYLATVTGSVPRGVGKALRAGIELDDGPARVDEFAVVDAIPG 182 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L EG+NR ++++ + V L+R GP LG GS R + + + + Sbjct: 183 KTLVRVTLHEGRNRIVRRLLAAAGFPVEALVRTDIGPVSLGKQRPGSFRALGRDEIGQL 241 >gi|149182614|ref|ZP_01861084.1| 16S pseudouridylate synthase [Bacillus sp. SG-1] gi|148849692|gb|EDL63872.1| 16S pseudouridylate synthase [Bacillus sp. SG-1] Length = 239 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 69/243 (28%), Positives = 120/243 (49%), Gaps = 9/243 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K+++ G SR+EV++ + VNG +++ V +D + V G + E Sbjct: 1 MRIDKLLSNMGYGSRKEVKKHLKGGGTVVNGEVVKDPKFQVDPESDTVTVHGEEVVYRE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ D +G TV D L VGRLD +TEGLLL+TNDG L Sbjct: 60 FIYLMMNKPPGVLSATEDAEG-ETVIDLLEMEDQIFNPFPVGRLDKDTEGLLLITNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWV 189 + L P + Y G+V ++ ++ +G+ + G ++ + + G + + Sbjct: 119 SHQLLSPKKHVPKTYFAVIEGEVTEEDVSAFAEGVTLDDGYETKPGELEIIS-SGIRSEI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + + EGK ++K++FE +V L RI+ G L TL G RE++ + + E L H Sbjct: 178 NLTITEGKFHQVKRMFESVGKRVIYLKRITMGLLPLDETLELGEYRELTDEEV-EGLKNH 236 Query: 249 LLE 251 L+ Sbjct: 237 KLD 239 >gi|121728919|ref|ZP_01681926.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae V52] gi|147673094|ref|YP_001217185.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae O395] gi|262169651|ref|ZP_06037342.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae RC27] gi|121628805|gb|EAX61267.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae V52] gi|146314977|gb|ABQ19516.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae O395] gi|227013543|gb|ACP09753.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae O395] gi|262021885|gb|EEY40595.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae RC27] Length = 231 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 103/230 (44%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREIML-HGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + HKP G+V +H D T F L + GRLD++T GLLL+T+DG + Sbjct: 60 RYIMMHKPDGVVCSHEDGFN-QTAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D +GI ++G + L+ S V + Sbjct: 119 RVTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEV--ISETEVLLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L TL G R ++++ + Sbjct: 177 IHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >gi|319949182|ref|ZP_08023271.1| pseudouridylate synthase [Dietzia cinnamea P4] gi|319437168|gb|EFV92199.1| pseudouridylate synthase [Dietzia cinnamea P4] Length = 252 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 77/239 (32%), Positives = 121/239 (50%), Gaps = 4/239 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 + P R+ K++A+AG+ASRR E +IA+ RV+V+G ++ V V T I VDG + Sbjct: 8 DGAPVRLQKILAQAGVASRRASEDLIARGRVEVDGKIVREMGVKVDPATAVIRVDGTRIV 67 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLT 125 + +KP G TT SD GR V D + R+ VGRLD +TEGLLL+T Sbjct: 68 LDDTLVHLALNKPRGYHTTMSDEMGRPCVGDLVADRIDAGQRLFHVGRLDADTEGLLLVT 127 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + + Y G V + L++G+ ++ Q +L Sbjct: 128 NDGELAHRLMHPSYEVSKTYMATVTGVVGKGIGKQLREGVELEDGPAKVDQFSLLDVHDG 187 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + V V L EG+ ++++ V L+R +G LG AG+ R+++++ + + Sbjct: 188 RSLVKVVLHEGRKHIVRRLLAEVGHPVESLVRTRFGSVALGDQRAGTFRKLNRREVSDL 246 >gi|225012273|ref|ZP_03702710.1| pseudouridine synthase [Flavobacteria bacterium MS024-2A] gi|225003828|gb|EEG41801.1| pseudouridine synthase [Flavobacteria bacterium MS024-2A] Length = 244 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 68/239 (28%), Positives = 119/239 (49%), Gaps = 8/239 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +QE R++K ++ G SRR +R+I + RV++NG+ + V D IEVDGV Sbjct: 1 MQEQTEGIRLNKYLSEIGHCSRRAADRLIEEGRVQINGVQVI-MGQKVTPLDRIEVDGVL 59 Query: 67 LR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + ER ++KPIG+V T + + D + + +R+ +GRLD +EGL+LLT Sbjct: 60 VEDLQERNVYIAFNKPIGIVCTTDTRVEKDNIIDYI-NYPTRIFPIGRLDKPSEGLILLT 118 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y V + V + + + GI I V ++ Sbjct: 119 NDGDIVNKILRARNNHEKEYIVTVNKPVTTEFVEKMANGIPILDTITRKCVV----EQIH 174 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+++ E+ +++V +L RI +L + G R+++KK + E Sbjct: 175 KNQFRIILTQGLNRQIRRMCEYLDYRVVKLKRIRIMNIEL-NVGVGKYRDLTKKEMVEL 232 >gi|225868275|ref|YP_002744223.1| ribosomal small subunit pseudouridine synthase B [Streptococcus equi subsp. zooepidemicus] gi|225701551|emb|CAW98765.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus equi subsp. zooepidemicus] Length = 237 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 69/237 (29%), Positives = 113/237 (47%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + AG+ SR +V+ ++ +++V VNG+ V TD++ G L E Sbjct: 1 MRLDKFLVDAGLGSRSQVKLLLKKKQVSVNGVSQTSPKYQVNELTDNVTYQGQRLNY-ET 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP + TV D L + V VGRLD +T GLLLLTNDG L Sbjct: 60 FVYYMLNKPKGVISATEDPSHK-TVLDLLDDTARQKAVFPVGRLDKDTHGLLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAW 188 A L P + Y + G + Q+ + +GI ++ + + + Sbjct: 119 AHALLSPKKHVAKQYLAKVDGTMTQEDVKHFAQGITLKDHQCMPAYLDILEINESLKTSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 V + + EGK ++K++ V+ L RIS GP QL + L G+ R ++ L Sbjct: 179 VKITIEEGKFHQVKRMVAACGKTVSDLQRISMGPLQLDSALAPGAYRRLTAAELETL 235 >gi|218899705|ref|YP_002448116.1| RNA pseudouridine synthase family protein [Bacillus cereus G9842] gi|218542895|gb|ACK95289.1| RNA pseudouridine synthase family protein [Bacillus cereus G9842] Length = 229 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 63/229 (27%), Positives = 111/229 (48%), Gaps = 8/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T ++ + D + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAE-HIEDNIIDYI-NYPERIFPVGRLDKASEGLILLTNDGTIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVT----RVDQSTFRII 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTSEEL 222 >gi|206977746|ref|ZP_03238637.1| RNA pseudouridine synthase family protein [Bacillus cereus H3081.97] gi|217962032|ref|YP_002340602.1| RNA pseudouridine synthase family protein [Bacillus cereus AH187] gi|222098014|ref|YP_002532071.1| tRNA pseudouridine synthase a [Bacillus cereus Q1] gi|229141278|ref|ZP_04269816.1| RNA pseudouridine synthase [Bacillus cereus BDRD-ST26] gi|206744047|gb|EDZ55463.1| RNA pseudouridine synthase family protein [Bacillus cereus H3081.97] gi|217063968|gb|ACJ78218.1| RNA pseudouridine synthase family protein [Bacillus cereus AH187] gi|221242072|gb|ACM14782.1| tRNA pseudouridine synthase A [Bacillus cereus Q1] gi|228642059|gb|EEK98352.1| RNA pseudouridine synthase [Bacillus cereus BDRD-ST26] Length = 229 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 65/234 (27%), Positives = 114/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDRVTIDGQVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAD-HIEDNIIDYI-NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRVFGFTVTKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|254361758|ref|ZP_04977893.1| pseudouridylate synthase [Mannheimia haemolytica PHL213] gi|153093293|gb|EDN74289.1| pseudouridylate synthase [Mannheimia haemolytica PHL213] Length = 355 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 105/274 (38%), Positives = 152/274 (55%), Gaps = 12/274 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLR---- 68 +++ K++ARAG SRRE+E +IA RV V+G + V V S+ I +DG + Sbjct: 78 EKLQKILARAGQGSRRELEEIIAAGRVSVDGKMATLGDRVQVSSSTKIRIDGHLVNLMPA 137 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 + E R+ +Y+KP G + T SDP+GRSTVFD LP +R I+VGRLDINT GLLL T D Sbjct: 138 QKEICRVLMYYKPEGELCTRSDPEGRSTVFDRLPRLSGARWIAVGRLDINTSGLLLFTTD 197 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G +D L L+KG+ ++ Q+ + G N Sbjct: 198 GELANRLMHPSREVEREYSVRVFGNIDDAMLQRLRKGVQLEDGPANFKQIKVVGGTGLNQ 257 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK---ILRE 243 W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + LRE Sbjct: 258 WFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLDKGLPRGGWEEMGLEQVNYLRE 317 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 +G L E + ++ + T +R + + Sbjct: 318 LVG--LPPETETKVEVGVNRRRTNIRQIRKAVKQ 349 >gi|148827048|ref|YP_001291801.1| malic enzyme [Haemophilus influenzae PittGG] gi|148718290|gb|ABQ99417.1| malic enzyme [Haemophilus influenzae PittGG] Length = 232 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 110/234 (47%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E Sbjct: 1 MRLDKFIAENTGLTRSQATKAIRQSAVKINGEIVKSGAVQISQKDEIYFEDELLTWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ HKP G V ++ D D T++ + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDY-PTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+++ +GI+++G L+ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEKNYAEACAEGILLRGEKEPTKPAKLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 + EG+ ++K++F KV L R G L +L G R +++ + + + Sbjct: 178 ISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLV 231 >gi|145641141|ref|ZP_01796722.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae R3021] gi|145274302|gb|EDK14167.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae 22.4-21] Length = 232 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 110/234 (47%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E Sbjct: 1 MRLDKFIAENTGLTRSQATKAIRQSAVKINGEIVKSGAVQISQEDKIYFEDELLTWLEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ HKP G V ++ D D T++ + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDY-PTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+++ +GI+++G L+ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 + EG+ ++K++F KV L R G L +L G R +++ + + + Sbjct: 178 ISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLV 231 >gi|67920373|ref|ZP_00513893.1| Pseudouridine synthase, Rsu [Crocosphaera watsonii WH 8501] gi|67857857|gb|EAM53096.1| Pseudouridine synthase, Rsu [Crocosphaera watsonii WH 8501] Length = 257 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 77/238 (32%), Positives = 125/238 (52%), Gaps = 10/238 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV K++++ G+ASRR E MI +RVK+NG ++ S D +EVDG ++ +R Sbjct: 3 ERVQKILSQWGVASRRRAEDMILARRVKLNGKIVTLGDKADPSCDRLEVDGKLIQPNKRP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 + L +KP+G+V+T DP RS V D LP ++ + VGRLD N+ G LLLTNDG Sbjct: 63 KLIYILLNKPVGVVSTCDDPQNRSIVLDLLPKKLTQGTGIHPVGRLDFNSSGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y V G ++ L ++G+++ G +V + + Sbjct: 123 DLTLKLTHPRYHLPKTYEVLVKGHPPEETLQQWREGVILMGKKTLPAEVEVIRRSAQQTQ 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-----TLLAGSTREVSKKIL 241 + V L EG+NR+I+++ E ++V RL R + L +L +G R ++ + Sbjct: 183 LKVVLTEGRNRQIRRIVEQLGFRVLRLHRTAIDSLCLSPNHKNSLSSGHYRLLTPSEI 240 >gi|293192784|ref|ZP_06609679.1| ribosomal large subunit pseudouridine synthase B [Actinomyces odontolyticus F0309] gi|292820031|gb|EFF79029.1| ribosomal large subunit pseudouridine synthase B [Actinomyces odontolyticus F0309] Length = 249 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 89/234 (38%), Positives = 123/234 (52%), Gaps = 2/234 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE-R 72 R+ KV+A+AG+ASRR E+MIA RV V+G ++ V V T I VDG L E + Sbjct: 12 RLQKVLAQAGVASRRASEQMIADGRVSVDGTVVRNQGVRVDPTKQVIHVDGERLILDETK 71 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KPIG V+T SDP+GR T+ D + R+ VGRLDI+T GLLLLTNDG LA Sbjct: 72 HIVLAVNKPIGTVSTMSDPEGRPTIADLIADYPERLYHVGRLDIDTSGLLLLTNDGELAN 131 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y R HG+V L GI ++ + G V + Sbjct: 132 RLTHPKYEIRKTYVARLHGEVKPGVKRTLMNGIELEDGPIKVDSFRIVDTYGDITTVEIV 191 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EG+NR ++++ E + V L+R +GP L L G+TR V L G Sbjct: 192 VHEGRNRLVRRMMEAVGYPVRELVRTGFGPISLDHLKQGTTRRVKGNALSALYG 245 >gi|328944867|gb|EGG39027.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1087] Length = 242 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 117/234 (50%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L E+ Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIAVSGQRLTY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPRGVISATED-DRHQTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A + P ++YR + G ++Q + GI ++ + + ++ ++ Sbjct: 119 AHAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAHLKILELDEEKEDSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + L EGK ++K++ +V L R++ GP QL L G R ++++ + Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDFALALGEWRRLTEEEM 232 >gi|297529009|ref|YP_003670284.1| pseudouridine synthase [Geobacillus sp. C56-T3] gi|297252261|gb|ADI25707.1| pseudouridine synthase [Geobacillus sp. C56-T3] Length = 248 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 69/232 (29%), Positives = 112/232 (48%), Gaps = 8/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VKV+G + A V + V G + + Sbjct: 4 RIDKLLAHMGYGTRKEVKKLLKSGAVKVDGAPVRDAKTKVRPDEQIVTVWGETVEY-KPF 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+V+ D TV D L VGRLD +TEGLLLLTNDG LA Sbjct: 63 IYLMMNKPSGVVSATEDA-VEETVVDFLEEEDRAFSPFPVGRLDKDTEGLLLLTNDGQLA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P + Y G+V + + ++G+V+ G ++ + + G + V Sbjct: 122 HQLLSPKKHVPKTYFAVVDGEVTEADVAAFQRGVVLDDGYETKPAKLVVL-KSGLRSDVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + EGK ++K++F+ +V L RI GP L L G RE++ + + Sbjct: 181 VTITEGKFHQVKRMFQAVGKRVVYLKRIQMGPLALDPDLAVGEYRELTDEEV 232 >gi|257080911|ref|ZP_05575272.1| pseudouridine synthase [Enterococcus faecalis E1Sol] gi|257415240|ref|ZP_05592234.1| pseudouridine synthase [Enterococcus faecalis AR01/DG] gi|256988941|gb|EEU76243.1| pseudouridine synthase [Enterococcus faecalis E1Sol] gi|257157068|gb|EEU87028.1| pseudouridine synthase [Enterococcus faecalis ARO1/DG] Length = 244 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 75/242 (30%), Positives = 120/242 (49%), Gaps = 10/242 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L ++ Sbjct: 1 MRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEILTY-QK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 ++ HKP G+++ D TV D L RV VGRLD +TEGLLLLTNDG L Sbjct: 60 FFYYMLHKPQGVISATED-QRDETVIDLLTDQDYRVDLFPVGRLDKDTEGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--QKGSNA 187 A L P + Y G V + L +G + G ++ ++T ++ + Sbjct: 119 AHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSRLVIETINEEEGTS 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 V + ++EGK ++K++ V L R+ G L TL G R +++ L +QL Sbjct: 179 VVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRPLTEAEL-QQLQ 237 Query: 247 PH 248 P Sbjct: 238 PK 239 >gi|229515031|ref|ZP_04404491.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae TMA 21] gi|229347736|gb|EEO12695.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae TMA 21] Length = 231 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 104/230 (45%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSRVEWQGREITL-HGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + HKP G+V +H D T F L + GRLD++T GLLL+T+DG + Sbjct: 60 RYIMMHKPDGVVCSHEDGFN-QTAFTLLDEVNIQDLHFAGRLDVDTTGLLLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D +GI ++G + L+ S V + Sbjct: 119 RVTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEV--ISETEVLLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L TL +G R ++++ + Sbjct: 177 IHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLESGEYRYLTEEEV 226 >gi|119513289|ref|ZP_01632329.1| hypothetical protein N9414_09736 [Nodularia spumigena CCY9414] gi|119462052|gb|EAW43049.1| hypothetical protein N9414_09736 [Nodularia spumigena CCY9414] Length = 264 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 87/238 (36%), Positives = 126/238 (52%), Gaps = 10/238 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 R+ K++A+ GIASRRE E MI + RV++NG+L D I VDG P+ +R Sbjct: 4 RLQKILAQWGIASRRESEEMIRRSRVRINGVLAHLGQKVDPERDKISVDGKPVYAQQRPP 63 Query: 74 -RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDGG 129 L HKP G+V+T DP GR TV D LP + + VGRLD + G L+LTNDG Sbjct: 64 LIYLLLHKPAGVVSTCYDPQGRKTVLDLLPPELRKGSGLHPVGRLDAESTGALILTNDGD 123 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + Y+V G + L + +KG+V++G +V L N+ + Sbjct: 124 LTFGLTHPSHSIPKTYQVLVKGHPSEAVLEMWRKGVVLEGRKTRPAKVHLIESLAKNSHL 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREVSKKILR 242 + L+EG+NR+I++V + + V +L R S GP QL L G+ R + +R Sbjct: 184 EIVLKEGRNRQIRRVAQQLGYPVIQLHRTSIGPIQLQMPKLPFLGEGNYRSLKSAEIR 241 >gi|229169439|ref|ZP_04297147.1| Pseudouridine synthase [Bacillus cereus AH621] gi|228614044|gb|EEK71161.1| Pseudouridine synthase [Bacillus cereus AH621] Length = 248 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 67/234 (28%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G+ ++ A +V + + G + E Sbjct: 7 MRLDKLLANMGHGSRKEVKKLLKDGVVKIDGVPVKDAKFHVNVEEQEVMIHGEVVEYKE- 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G+++ D D TV D L VGRLDI+TEG LL+TNDG L Sbjct: 66 FVYLMMHKPQGVISATED-DNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKL 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P + Y G V ++ + KG+++ G ++T+ + + + Sbjct: 125 THQLLSPKKHVPKKYYAHISGVVTEEDVIEFAKGVILEDGYETKPGELTIL-KSDDISEI 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 184 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLMLDEELELGQYRELTDEEVE 237 >gi|318061409|ref|ZP_07980130.1| pseudouridine synthase [Streptomyces sp. SA3_actG] gi|318078007|ref|ZP_07985339.1| pseudouridine synthase [Streptomyces sp. SA3_actF] Length = 416 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 78/238 (32%), Positives = 123/238 (51%), Gaps = 1/238 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K +R+ KV+ARAG SRR E +I Q RV+VNG ++ + V +D I+VD Sbjct: 171 KTFPGAEQEGERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGLRVKPSDEIKVD 230 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G+ + + + + +KP G+V T DP+GR + D + + +R+ VGRLD TEG++L Sbjct: 231 GLTV-ATQSYQFFSLNKPAGVVATMEDPEGRQNLGDYVNNRETRLFHVGRLDTETEGVIL 289 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTN G LA L P + Y G + +D LK GI ++ + Q Sbjct: 290 LTNHGELAHRLTHPRYGVRKTYLAHIVGPIPRDLGKRLKDGIELEDGWARADHFRVVEQT 349 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G N V V L EG+ ++++ + V++L+R ++GP LG +G R +S + Sbjct: 350 GKNYLVEVTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLSNTEV 407 >gi|165870573|ref|ZP_02215227.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0488] gi|167639629|ref|ZP_02397899.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0193] gi|170687035|ref|ZP_02878254.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0465] gi|170706712|ref|ZP_02897171.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0389] gi|177649814|ref|ZP_02932816.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0174] gi|190565285|ref|ZP_03018205.1| RNA pseudouridine synthase family protein [Bacillus anthracis Tsiankovskii-I] gi|196033723|ref|ZP_03101134.1| RNA pseudouridine synthase family protein [Bacillus cereus W] gi|196039867|ref|ZP_03107170.1| RNA pseudouridine synthase family protein [Bacillus cereus NVH0597-99] gi|196043149|ref|ZP_03110387.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB108] gi|218903519|ref|YP_002451353.1| RNA pseudouridine synthase family protein [Bacillus cereus AH820] gi|225864348|ref|YP_002749726.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB102] gi|227814804|ref|YP_002814813.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. CDC 684] gi|229604604|ref|YP_002866722.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0248] gi|254684963|ref|ZP_05148823.1| ribosomal large subunit pseudouridine synthase F [Bacillus anthracis str. CNEVA-9066] gi|254722369|ref|ZP_05184157.1| ribosomal large subunit pseudouridine synthase F [Bacillus anthracis str. A1055] gi|254737410|ref|ZP_05195114.1| ribosomal large subunit pseudouridine synthase F [Bacillus anthracis str. Western North America USA6153] gi|254751725|ref|ZP_05203762.1| ribosomal large subunit pseudouridine synthase F [Bacillus anthracis str. Vollum] gi|254760244|ref|ZP_05212268.1| ribosomal large subunit pseudouridine synthase F [Bacillus anthracis str. Australia 94] gi|301053904|ref|YP_003792115.1| pseudouridylate synthase [Bacillus anthracis CI] gi|164713728|gb|EDR19251.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0488] gi|167512338|gb|EDR87714.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0193] gi|170128443|gb|EDS97311.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0389] gi|170669086|gb|EDT19830.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0465] gi|172084888|gb|EDT69946.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0174] gi|190563312|gb|EDV17277.1| RNA pseudouridine synthase family protein [Bacillus anthracis Tsiankovskii-I] gi|195993403|gb|EDX57360.1| RNA pseudouridine synthase family protein [Bacillus cereus W] gi|196025458|gb|EDX64127.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB108] gi|196029126|gb|EDX67730.1| RNA pseudouridine synthase family protein [Bacillus cereus NVH0597-99] gi|218536034|gb|ACK88432.1| RNA pseudouridine synthase family protein [Bacillus cereus AH820] gi|225790118|gb|ACO30335.1| RNA pseudouridine synthase family protein [Bacillus cereus 03BB102] gi|227006328|gb|ACP16071.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. CDC 684] gi|229269012|gb|ACQ50649.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0248] gi|300376073|gb|ADK04977.1| pseudouridylate synthase [Bacillus cereus biovar anthracis str. CI] Length = 235 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 65/232 (28%), Positives = 113/232 (48%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 1 MRINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-SEKSVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G ++T + S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLF 225 >gi|318040247|ref|ZP_07972203.1| 16S rRNA pseudouridylate synthase [Synechococcus sp. CB0101] Length = 241 Score = 259 bits (662), Expect = 6e-67, Method: Composition-based stats. Identities = 75/236 (31%), Positives = 116/236 (49%), Gaps = 3/236 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ K+IA AG+ SRR E ++ RV VNG E D I +DG PLR A Sbjct: 1 MPEERLQKLIAAAGLGSRRYAETLLRAGRVSVNGRTAELGERADPERDAICIDGEPLRPA 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTND 127 + L +KP G++ + DP+GR V D LP + VGRLD ++ G LLL+N+ Sbjct: 61 QPPLALLLNKPAGVMCSCHDPEGRPIVLDLLPPELASGQGLHPVGRLDFHSRGALLLSNN 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P Q + YR+ GQ Q L+ +G+ + G+ + + Q+ Sbjct: 121 GALTLQLTHPRFQHSKTYRIWVRGQPSQTVLDRWARGVPLDGLPSQPVTLHRLDQEHDAT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + + EG+NR+I++ E V L R++ G +LG L G R + + + Sbjct: 181 QLQLVMHEGRNRQIRRTAELLGHPVLDLQRVAIGSIELGELPEGRWRRLDPQEWPD 236 >gi|15602526|ref|NP_245598.1| hypothetical protein PM0661 [Pasteurella multocida subsp. multocida str. Pm70] gi|34098697|sp|Q9CMY9|RLUB_PASMU RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|12720938|gb|AAK02745.1| unknown [Pasteurella multocida subsp. multocida str. Pm70] Length = 345 Score = 259 bits (662), Expect = 6e-67, Method: Composition-based stats. Identities = 104/267 (38%), Positives = 150/267 (56%), Gaps = 10/267 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLR-- 68 +++ KV+ARAG SRRE+E MIA+ RV V+G + ++V + I +DG + Sbjct: 62 EGEKLQKVLARAGQGSRREIEAMIAENRVSVDGKIATLGDRIDVHAGVKIRIDGHLINLL 121 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLT 125 + E R+ +Y+KP G + T DP+GR TVFD LP SR I+VGRLDINT GLLL T Sbjct: 122 HAQKEVCRVLMYYKPEGELCTRHDPEGRPTVFDRLPRLTGSRWIAVGRLDINTSGLLLFT 181 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQVD+ L+ LKKG+ ++ ++ G Sbjct: 182 TDGELANRLMHPSREVEREYSVRVFGQVDEAMLHRLKKGVQLEDGPANFKEIKFAGGVGM 241 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE--VSK-KIL 241 N W V L EG+NRE+++++E +V+RLIR YG L +L G E ++ L Sbjct: 242 NQWFDVTLMEGRNREVRRLWESQGVQVSRLIRTRYGNISLMKSLPRGGWEEMDLTNVNYL 301 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLV 268 RE +G E ++++ P ++T Sbjct: 302 RELVGLPAEVETKLDVTKPRRRAKTGQ 328 >gi|322515424|ref|ZP_08068415.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus ureae ATCC 25976] gi|322118547|gb|EFX90780.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus ureae ATCC 25976] Length = 347 Score = 259 bits (662), Expect = 6e-67, Method: Composition-based stats. Identities = 104/274 (37%), Positives = 150/274 (54%), Gaps = 12/274 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLR---- 68 +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG + Sbjct: 68 EKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNLISLIPA 127 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 + E R+ +Y+KP G + T SDP+GR+TVFD LP +R ++VGRLDINT GLLL T D Sbjct: 128 QKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGARWVAVGRLDINTSGLLLFTTD 187 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G +D+ L L+KG+ ++ Q+ G N Sbjct: 188 GELANRLMHPSREVEREYSVRVFGNIDEAMLQRLRKGVQLEDGPANFKQIKTVGGTGLNQ 247 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILRE 243 W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + LRE Sbjct: 248 WFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKGLPRGGWEEMGLEQVNYLRE 307 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 +G L E + +D T +R + + Sbjct: 308 LVG--LPAETETKVDVIKNRRRTNIRQIRKAVKQ 339 >gi|319896936|ref|YP_004135131.1| ribosomal small subunit pseudouridine synthase a [Haemophilus influenzae F3031] gi|317432440|emb|CBY80795.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae F3031] Length = 232 Score = 259 bits (662), Expect = 6e-67, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 110/234 (47%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E Sbjct: 1 MRLDKFIAENTGLTRSQATKAIHQSAVKINGEIVKSGAVQISQEDKIYFEDELLTWVEED 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ HKP G V ++ D D T++ + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDY-PTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+++ +GI+++G L+ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 + EG+ ++K++F KV L R G L +L G R +++ + + + Sbjct: 178 ISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLV 231 >gi|260913145|ref|ZP_05919627.1| ribosomal small subunit pseudouridine synthase A [Pasteurella dagmatis ATCC 43325] gi|260632732|gb|EEX50901.1| ribosomal small subunit pseudouridine synthase A [Pasteurella dagmatis ATCC 43325] Length = 233 Score = 259 bits (662), Expect = 6e-67, Method: Composition-based stats. Identities = 63/230 (27%), Positives = 110/230 (47%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + +R + +++ Q V +NG + + +V V S D I DG L E Sbjct: 1 MRLDKFLAESTGLTRSQANKVLKQSAVTMNGKVEKNGSVKVNSEDEICFDGELLTWIEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP G V +H D D T++ S ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYIMLYKPQGYVCSHDDGDY-PTIYQFFDYPLSTKLHSAGRLDVDTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V ++ + + GI+++G L+ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPIESNYQQACEAGILLRGEKELTKPAKLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G +L TL G R +S++ + Sbjct: 178 ISEGRYHQVKRMFAALGNKVVGLHRWKIGCIELDETLEEGGYRSLSEQEI 227 >gi|268589491|ref|ZP_06123712.1| ribosomal large subunit pseudouridine synthase B [Providencia rettgeri DSM 1131] gi|291315159|gb|EFE55612.1| ribosomal large subunit pseudouridine synthase B [Providencia rettgeri DSM 1131] Length = 339 Score = 259 bits (662), Expect = 6e-67, Method: Composition-based stats. Identities = 95/297 (31%), Positives = 148/297 (49%), Gaps = 10/297 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ K++AR+G SRRE+E + R+ V+G + V V I +DG L E Sbjct: 42 TEKLQKILARSGHGSRREIETFLQAGRISVDGKIATLGDRVEVTPATKIRLDGRLLAIKE 101 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T DP+GR TVF+ LP +R I+VGRLD+NT GLLL T Sbjct: 102 PEKEICRVMAYYKPEGELCTRHDPEGRPTVFNRLPRLTGARWIAVGRLDVNTSGLLLFTT 161 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G+++ K+ L +G+ ++ V+ +G N Sbjct: 162 DGELANRLMHPSREVEREYAVRVFGEINDAKIRQLTQGVQLEDGPASFKTVSYRGGEGMN 221 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ + LR Sbjct: 222 QWFNVTLTEGRNREVRRLWESVGVQVSRLIRVRYGDIDLPKGLPRGGWTELGLEQTNYLR 281 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 E + + E++V ++ + R K+ SS+ + + Sbjct: 282 ELVELPVETESKVAVERDQRRIKANQIRRAVKRHTQVASRPASKRQSSRPTAKRRTR 338 >gi|271964497|ref|YP_003338693.1| pseudouridine synthase, Rsu [Streptosporangium roseum DSM 43021] gi|270507672|gb|ACZ85950.1| pseudouridine synthase, Rsu [Streptosporangium roseum DSM 43021] Length = 621 Score = 259 bits (662), Expect = 6e-67, Method: Composition-based stats. Identities = 93/250 (37%), Positives = 131/250 (52%), Gaps = 6/250 (2%) Query: 3 DKNIVQENFTPQ-----RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS- 56 D++ V E T + R+ KV+A+AG+ASRR E MI RV V+G ++ R V Sbjct: 368 DRDYVDERDTTEVPDGVRLQKVLAQAGVASRRACEDMIGDGRVTVDGQVVRRFGARVDPA 427 Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 I VDG L +KPIG+V+T SDPDGR ++ D + R+ VGRLD Sbjct: 428 KQVIHVDGKRLPTMPDLVYLAINKPIGVVSTMSDPDGRPSLADFVADRTERLFHVGRLDT 487 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 TEGL+LLTNDG LA L PS + Y + G++++D LKKGI ++ Sbjct: 488 ETEGLILLTNDGELANRLTHPSYGVQKKYWAKVPGRIERDLGRRLKKGIELEDGIAKADS 547 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 TL + G A V V L EG+ ++++ E V L RI +GP +LG L G+ R + Sbjct: 548 FTLVQEHGQQALVEVVLHEGRKHIVRRMLEEVGHPVIDLARIEFGPVKLGRLKPGTVRAL 607 Query: 237 SKKILREQLG 246 + K + E Sbjct: 608 TVKEVGELYA 617 >gi|241662811|ref|YP_002981171.1| pseudouridine synthase [Ralstonia pickettii 12D] gi|240864838|gb|ACS62499.1| pseudouridine synthase [Ralstonia pickettii 12D] Length = 594 Score = 259 bits (662), Expect = 6e-67, Method: Composition-based stats. Identities = 101/313 (32%), Positives = 158/313 (50%), Gaps = 9/313 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + E+ P ++ K++A AG+ SRR++E +I Q RV VNG+ +++TD + Sbjct: 202 KARELTSEDDAP-KLHKILADAGLGSRRDMEDLILQGRVSVNGLPA-HIGQRILATDQVR 259 Query: 62 VDGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDIN 117 V+G ++ + R+ LYHKP G + + SDP+GR TVFD LP + + + ++VGRLD N Sbjct: 260 VNGKLIQRKLPNKPPRVLLYHKPSGEIVSQSDPEGRPTVFDALPRMKTGKWVAVGRLDFN 319 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L GI +Q ++ Sbjct: 320 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAETDRQKLLHGIPLQDGEANFLRC 379 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 380 VDGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 439 Query: 237 SKKILREQLGPHLLE-EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 S + +R +G ++ + P ++ + F S+ G+ Sbjct: 440 SAEDVRTLMGTLGMKVPTASSGGGQDRQGNRRRGPAPVLMGPMSSGFAGEANFQSRGMGI 499 Query: 296 SKQKKLATPVHRR 308 + A P RR Sbjct: 500 ENGNR-AQPAQRR 511 >gi|260905260|ref|ZP_05913582.1| pseudouridine synthase, Rsu [Brevibacterium linens BL2] Length = 238 Score = 259 bits (662), Expect = 6e-67, Method: Composition-based stats. Identities = 72/233 (30%), Positives = 116/233 (49%), Gaps = 1/233 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A AG+ SRR E++I RV+V+G ++ + T + VD V + + Sbjct: 1 MRLQKILAEAGLGSRRACEQLILDGRVEVDGSIVTELGTRIDTETQAVYVDAVRISTQTQ 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G+V+T SDPDGR + D + + R+ VGRLD TEGL+LLTNDG L+ Sbjct: 61 KVYLVLNKPAGVVSTMSDPDGRPCLADYVKNRVDRLFHVGRLDTETEGLILLTNDGELSN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y + GQ+ +D + LK G+ + L + V + Sbjct: 121 RLAHPRYEIPKTYLAQVRGQLAKDVGSRLKAGMDLDDGFVKVDSFKLVDSTPGKSVVELT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L G+NR ++++ + V RL+R +GP L G R + + E Sbjct: 181 LHSGRNRIVRRLLKEVGHPVERLVRTKFGPITLDEQRQGKIRPLRSDEIGELF 233 >gi|332799735|ref|YP_004461234.1| pseudouridine synthase Rsu [Tepidanaerobacter sp. Re1] gi|332697470|gb|AEE91927.1| pseudouridine synthase Rsu [Tepidanaerobacter sp. Re1] Length = 242 Score = 259 bits (662), Expect = 6e-67, Method: Composition-based stats. Identities = 63/233 (27%), Positives = 121/233 (51%), Gaps = 6/233 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 P R+ K++A G SR++V+++I +V +NG+++ A V + D I V G + E Sbjct: 6 PARIDKILASCGYGSRKDVKKLIKSGQVSINGVIINDAGTLVNPSLDEIIVAGECIFY-E 64 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGG 129 + +KP +V++ D D +TV D L + ++ VGRLD + EGL+ LT+DG Sbjct: 65 DNVYIMMNKPQDVVSSTYD-DFETTVIDLLEGEYFHRKLFPVGRLDKDAEGLIFLTDDGK 123 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 +A L P + + Y V +G++++ + G+ ++ ++ + + + + Sbjct: 124 MAHRLLSPKNRVPKTYYVEVYGRLNESDVKAFAAGMELEDFTALPAELDILEKNNNISSA 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + EGK +IK++ + +V L R+ GP +L L G R+++K+ + Sbjct: 184 YVTIYEGKFHQIKRMMKARGKEVTYLKRLFLGPLRLDEELEPGMWRKLTKEEV 236 >gi|325578258|ref|ZP_08148393.1| ribosomal large subunit pseudouridine synthase B [Haemophilus parainfluenzae ATCC 33392] gi|325159994|gb|EGC72123.1| ribosomal large subunit pseudouridine synthase B [Haemophilus parainfluenzae ATCC 33392] Length = 336 Score = 259 bits (662), Expect = 6e-67, Method: Composition-based stats. Identities = 104/275 (37%), Positives = 150/275 (54%), Gaps = 10/275 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K Q +++ KV+ARAG SRRE+E MIA RV V+G + ++V S + + Sbjct: 45 KPSCQSTVEGEKLQKVLARAGQGSRREIEAMIADNRVSVDGKMATLGDRIDVHSGVKVRI 104 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + + E R+ +Y+KP G + T SDP+GR TVFD LP +R I+VGRLDIN Sbjct: 105 DGRIINLQQAQKEVCRVLMYYKPEGELCTRSDPEGRPTVFDRLPRLNGARWIAVGRLDIN 164 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR GQVD L L++G+ ++ ++ Sbjct: 165 TSGLLLFTTDGELANCLMHPSREVEREYSVRVFGQVDDAMLARLRRGVQLEDGPANFKEI 224 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ Sbjct: 225 KFAGGIGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEM 284 Query: 237 SKK---ILREQLGPHLLEEAQVNLDAPIYSSETLV 268 + LRE +G E ++++ P ++ Sbjct: 285 DLENVNYLRELVGLPPETETKLDVTKPRRRPKSGQ 319 >gi|320156638|ref|YP_004189017.1| ribosomal small subunit pseudouridine synthase A [Vibrio vulnificus MO6-24/O] gi|319931950|gb|ADV86814.1| ribosomal small subunit pseudouridine synthase A [Vibrio vulnificus MO6-24/O] Length = 233 Score = 259 bits (662), Expect = 6e-67, Method: Composition-based stats. Identities = 59/230 (25%), Positives = 103/230 (44%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R+E +++ V VN + + AV V IE G L + Sbjct: 1 MRLDKFLCDALGATRKEATKILKSGEVTVNEQVQKSGAVKVTEECVIEWQGREL-AMQGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + +KP G V +H D T F L + GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLYKPEGFVCSHEDGFNH-TAFVLLDEVKMDELHFAGRLDVDTTGLVLITDDGKWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D L +G+ ++ + + V + Sbjct: 119 RITSPKHKCDKTYRVWLADPIGSDYAEKLAEGVQLRNEKELTLPAQMSIVNADENEVLLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV +L R G +L +L G R ++++ + Sbjct: 179 IHEGKYHQVKRMFAALGNKVEQLHRERIGAIELDESLEPGEYRYLTQEEI 228 >gi|257083600|ref|ZP_05577961.1| pseudouridine synthase [Enterococcus faecalis Fly1] gi|256991630|gb|EEU78932.1| pseudouridine synthase [Enterococcus faecalis Fly1] Length = 244 Score = 258 bits (661), Expect = 6e-67, Method: Composition-based stats. Identities = 74/242 (30%), Positives = 120/242 (49%), Gaps = 10/242 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L ++ Sbjct: 1 MRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEILTY-QK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ HKP G+++ D TV D L R + VGRLD +TEGLLLLTNDG L Sbjct: 60 FFYYMLHKPQGVISATED-QRDETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--QKGSNA 187 A L P + Y G V + L +G + G ++ ++T ++ + Sbjct: 119 AHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEVVKPSRLVIETINEEEGTS 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 V + ++EGK ++K++ V L R+ G L TL G R +++ L +QL Sbjct: 179 VVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRPLTEAEL-QQLQ 237 Query: 247 PH 248 P Sbjct: 238 PK 239 >gi|218231829|ref|YP_002367069.1| RNA pseudouridine synthase family protein [Bacillus cereus B4264] gi|218159786|gb|ACK59778.1| RNA pseudouridine synthase family protein [Bacillus cereus B4264] Length = 235 Score = 258 bits (661), Expect = 6e-67, Method: Composition-based stats. Identities = 65/233 (27%), Positives = 113/233 (48%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 1 MRINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-SEKSVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G ++T + S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMATGVKILGTKTLPCEIT----QLSKYEFQIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLFA 226 >gi|251789770|ref|YP_003004491.1| 23S rRNA pseudouridylate synthase B [Dickeya zeae Ech1591] gi|247538391|gb|ACT07012.1| pseudouridine synthase [Dickeya zeae Ech1591] Length = 301 Score = 258 bits (661), Expect = 6e-67, Method: Composition-based stats. Identities = 106/308 (34%), Positives = 151/308 (49%), Gaps = 21/308 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MI R+ V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESMIEAGRISVDGKIATLGDRVEVTRATKIRIDGHVVSVRE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ +Y+KP G + T SDP+GR TVFD LP R ++VGRLD+NT GLLL T Sbjct: 62 TEEAVCRVLMYYKPEGELCTRSDPEGRPTVFDRLPRIQGYRWVAVGRLDVNTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G+V DK+ L KG+ + + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGEVGDDKIRQLSKGVQLDDGPAAFRSIRYQGGEGLN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE--VSK-KILR 242 W V L EG+NRE+++++E +V+RLIR+ YG QL L G E ++ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIQLPKGLPRGGWMEMKLTDVNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE-VPDDFTRMKKNSSQKNGLSKQKKL 301 E V L S + R+R + + + R + Q G ++ Sbjct: 242 EL----------VQLTPETVSKLPVERERRRVKANQIRRAVKRHGGHGGQVGGNNRPAGS 291 Query: 302 ATPVHRRN 309 +RN Sbjct: 292 RRNAPKRN 299 >gi|241761121|ref|ZP_04759210.1| pseudouridine synthase [Zymomonas mobilis subsp. mobilis ATCC 10988] gi|241374740|gb|EER64201.1| pseudouridine synthase [Zymomonas mobilis subsp. mobilis ATCC 10988] Length = 510 Score = 258 bits (661), Expect = 6e-67, Method: Composition-based stats. Identities = 114/229 (49%), Positives = 156/229 (68%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR++K+++RAGIASRR +E MI + R+ ++G+ +E+ A + S D + VDG P+ T Sbjct: 272 QRIAKLLSRAGIASRRMIEAMIEEGRIAIDGVTVEKPATLLTSLDGVTVDGKPVNAPTET 331 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL+LYHK GL+TT DP+GR T++D LP+ RV+ VGRLD+NTEGLLLLT DGG R+ Sbjct: 332 RLFLYHKATGLLTTERDPEGRKTIYDRLPADLPRVMPVGRLDMNTEGLLLLTTDGGFKRM 391 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T R YR R G V QD+L L +G+ I GI YG + L+ + G N WV + L Sbjct: 392 LELPATHIERCYRARVFGDVSQDQLEELIEGVTIDGIHYGSIDANLERRTGRNGWVEMKL 451 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+NRE+++V + +V+RLIRISYGPF LG L G+ EV L+ Sbjct: 452 HEGRNREVRRVLGYLGLQVSRLIRISYGPFLLGDLPVGAVEEVDPATLK 500 >gi|298346749|ref|YP_003719436.1| pseudouridylate synthase [Mobiluncus curtisii ATCC 43063] gi|304389546|ref|ZP_07371509.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus curtisii subsp. curtisii ATCC 35241] gi|298236810|gb|ADI67942.1| pseudouridylate synthase [Mobiluncus curtisii ATCC 43063] gi|304327356|gb|EFL94591.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus curtisii subsp. curtisii ATCC 35241] Length = 278 Score = 258 bits (661), Expect = 6e-67, Method: Composition-based stats. Identities = 77/237 (32%), Positives = 121/237 (51%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + P+R+ KV++RAG+ASRR E +IA+ RV++NG + V V+ TD I VDG + Sbjct: 36 ESTSEPERLQKVLSRAGVASRRASEDLIARGRVQINGETVREMGVKVLPTDRITVDGQRI 95 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++W +HKP+G V++ D R + D + + RV +VGRLD T GLLLLTN+ Sbjct: 96 HTDTVLQVWAFHKPVGTVSSMQPEDDRPCIGDWVTKLPERVYNVGRLDAATAGLLLLTNN 155 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA + PS + + Y GQV +L++G+ ++ + L + ++ Sbjct: 156 GELANRIMHPSYEVPKTYVAVVQGQVKMGLGKVLRRGVELEDGKVKVDKFKLIEVRRGSS 215 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V + L GKNR ++++ V+ L R L L G R + K L Sbjct: 216 IVQLTLHSGKNRVVRRLLSAVGHPVSALTRTGIANLTLDGLKEGQFRLLHGKELAAL 272 >gi|295091825|emb|CBK77932.1| pseudouridine synthase family/haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED [Clostridium cf. saccharolyticum K10] Length = 471 Score = 258 bits (661), Expect = 6e-67, Method: Composition-based stats. Identities = 66/246 (26%), Positives = 119/246 (48%), Gaps = 15/246 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAER 72 R+ + + SR EV++MI RV V+G + A + + + +DG + A Sbjct: 5 MRLDRYLVEMKKGSRSEVKKMIKSGRVSVDGEICREAERKIQPSASEVSLDGTQVGYAA- 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G+V+ D ++ V + + VGRLDI+TEGLLL+TNDG LA Sbjct: 64 YEYFMLNKPAGVVSATEDGRHKTVVSLIEDAKRRDLFPVGRLDIDTEGLLLITNDGKLAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-------- 184 L P + Y R G++ ++ + K+G+ ++ + L QK Sbjct: 124 RLLSPKKHVDKTYFARVEGRLPENAIEQFKEGLTLEDG-TRTLPARLLIQKEAGTAEEGK 182 Query: 185 ---SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 S + + + + EGK ++K++FE +V L R+S G +L +L G+ R ++++ Sbjct: 183 ADSSLSEIELTIHEGKFHQVKRMFEAVGCRVVYLKRLSMGSLRLYESLAPGAYRRLTEEE 242 Query: 241 LREQLG 246 + + G Sbjct: 243 ISKLQG 248 >gi|228954820|ref|ZP_04116840.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228804809|gb|EEM51408.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar kurstaki str. T03a001] Length = 229 Score = 258 bits (661), Expect = 6e-67, Method: Composition-based stats. Identities = 65/234 (27%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGEL-VSDGDVVTIDGQVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAD-HIEDNIIDYI-NYPERIFPVGRLDKVSEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + + Sbjct: 118 RILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|229163541|ref|ZP_04291491.1| RNA pseudouridine synthase [Bacillus cereus R309803] gi|228619923|gb|EEK76799.1| RNA pseudouridine synthase [Bacillus cereus R309803] Length = 229 Score = 258 bits (661), Expect = 6e-67, Method: Composition-based stats. Identities = 64/234 (27%), Positives = 112/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDVVTIDGQIIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAD-HIEDNIIDYI-NYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + + I+ QVT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSGVVKIKDGMTKQCQVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELDNLEVGKWRNVTSEELEILIG 227 >gi|154508819|ref|ZP_02044461.1| hypothetical protein ACTODO_01329 [Actinomyces odontolyticus ATCC 17982] gi|153798453|gb|EDN80873.1| hypothetical protein ACTODO_01329 [Actinomyces odontolyticus ATCC 17982] Length = 249 Score = 258 bits (661), Expect = 6e-67, Method: Composition-based stats. Identities = 88/234 (37%), Positives = 122/234 (52%), Gaps = 2/234 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAE-R 72 R+ KV+A+AG+ASRR E+MIA RV V+G ++ V V I VDG L E + Sbjct: 12 RLQKVLAQAGVASRRASEQMIADGRVSVDGTVVRNQGVRVDPAKQVIHVDGERLILDETK 71 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KPIG V+T SDP+GR T+ D + R+ VGRLDI+T GLLLLTNDG LA Sbjct: 72 HIVLAVNKPIGTVSTMSDPEGRPTIADLIADYPERLYHVGRLDIDTSGLLLLTNDGELAN 131 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y R HG+V L GI ++ + G V + Sbjct: 132 RLTHPKYEIRKTYVARLHGEVKPGVKRTLMNGIELEDGPIKVDSFRIVDTYGDITTVEIV 191 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EG+NR ++++ E + V L+R +GP L L G+TR V L G Sbjct: 192 VHEGRNRLVRRMMEAVGYPVRELVRTGFGPISLDHLKQGTTRRVKGNALSALYG 245 >gi|290580875|ref|YP_003485267.1| putative 16S pseudouridylate synthase [Streptococcus mutans NN2025] gi|254997774|dbj|BAH88375.1| putative 16S pseudouridylate synthase [Streptococcus mutans NN2025] Length = 238 Score = 258 bits (661), Expect = 6e-67, Method: Composition-based stats. Identities = 76/239 (31%), Positives = 120/239 (50%), Gaps = 9/239 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ +AG SR +V++ I Q+V+V+G L NV + I V G L + Sbjct: 1 MRLDKLLGQAGFGSRGQVKKFIRSQQVRVDGELARTGNQNVDPSLQTITVSGKQLSYS-P 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ +KP GLV+ D TV D + + R + VGRLD +TEGL+L+TN+G L Sbjct: 60 HVYYILNKPAGLVSVVRD-QHYQTVIDLIAVVDRREGLYPVGRLDRDTEGLVLITNNGPL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWV 189 L P + Y V +G + D + GI + G ++ + + + Sbjct: 119 GFRLLHPKYHVDKTYYVEVNGDLGIDAIAFFDNGIAFLDGTVCKSAKLQIISSSSEVSRA 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI---LREQL 245 + + EGK ++KK+F + KV L RIS+GPF+LG L G RE++ + LR L Sbjct: 179 YITITEGKFHQVKKMFLAYGVKVTYLKRISFGPFELGDLSVGEYRELTAEEKNSLRNYL 237 >gi|229823225|ref|ZP_04449294.1| hypothetical protein GCWU000282_00523 [Catonella morbi ATCC 51271] gi|229787391|gb|EEP23505.1| hypothetical protein GCWU000282_00523 [Catonella morbi ATCC 51271] Length = 243 Score = 258 bits (661), Expect = 6e-67, Method: Composition-based stats. Identities = 66/233 (28%), Positives = 118/233 (50%), Gaps = 8/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G SR+++++++AQ+ V +N + + V D + V G + +R Sbjct: 1 MRIEKYLADTGWGSRKDIKQLLAQKIVTINDQVCSKGGTQVTPGSDCVAVGGQLVPY-QR 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D TV D L + + VGRLDI+T GLLLLTN+G L Sbjct: 60 YHYYLLNKPEGILSATED-RHHQTVIDWLGEGYQHLDLFPVGRLDIDTTGLLLLTNNGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAW 188 A L P + + Y G VDQ + + G+ + ++T+ +Q + Sbjct: 119 AHQLLSPKKKVDKTYTATIRGLVDQADIAAFEAGLDLGDFTSLPAELTVLSQDVDQGTSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 + V ++EGK ++K++F+ +V L R++ GP +L L G R ++++ Sbjct: 179 IQVIIQEGKFHQVKRMFQAVGKEVLSLHRLAMGPLRLESDLAHGQWRSLTEQE 231 >gi|153826173|ref|ZP_01978840.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MZO-2] gi|153830671|ref|ZP_01983338.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae 623-39] gi|229523730|ref|ZP_04413135.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae bv. albensis VL426] gi|148873851|gb|EDL71986.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae 623-39] gi|149740114|gb|EDM54279.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae MZO-2] gi|229337311|gb|EEO02328.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae bv. albensis VL426] Length = 231 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 59/230 (25%), Positives = 102/230 (44%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKEASRVEWQGREIML-HGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + HKP G+V +H D T F L + GRLD++T GLLL+T+DG + Sbjct: 60 RYIMMHKPDGVVCSHEDGFN-QTAFTLLDEVNIQDLHFAGRLDVDTTGLLLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D +GI ++G + L+ S V + Sbjct: 119 RVTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEV--ISETEVLLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L TL G R ++++ + Sbjct: 177 IHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >gi|257880467|ref|ZP_05660120.1| pseudouridine synthase [Enterococcus faecium 1,230,933] gi|257883279|ref|ZP_05662932.1| pseudouridine synthase [Enterococcus faecium 1,231,502] gi|257886356|ref|ZP_05666009.1| pseudouridine synthase [Enterococcus faecium 1,231,501] gi|257891502|ref|ZP_05671155.1| pseudouridine synthase [Enterococcus faecium 1,231,410] gi|257894555|ref|ZP_05674208.1| pseudouridine synthase [Enterococcus faecium 1,231,408] gi|260562466|ref|ZP_05832976.1| pseudouridine synthase [Enterococcus faecium C68] gi|261207204|ref|ZP_05921893.1| pseudouridine synthase [Enterococcus faecium TC 6] gi|289566697|ref|ZP_06447113.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecium D344SRF] gi|257814695|gb|EEV43453.1| pseudouridine synthase [Enterococcus faecium 1,230,933] gi|257818937|gb|EEV46265.1| pseudouridine synthase [Enterococcus faecium 1,231,502] gi|257822212|gb|EEV49342.1| pseudouridine synthase [Enterococcus faecium 1,231,501] gi|257827862|gb|EEV54488.1| pseudouridine synthase [Enterococcus faecium 1,231,410] gi|257830934|gb|EEV57541.1| pseudouridine synthase [Enterococcus faecium 1,231,408] gi|260073151|gb|EEW61496.1| pseudouridine synthase [Enterococcus faecium C68] gi|260078832|gb|EEW66534.1| pseudouridine synthase [Enterococcus faecium TC 6] gi|289161514|gb|EFD09398.1| ribosomal small subunit pseudouridine synthase A [Enterococcus faecium D344SRF] Length = 245 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 69/237 (29%), Positives = 116/237 (48%), Gaps = 9/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ SR+EV+ +I + ++VNG +++ V D + G + + Sbjct: 7 MRLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKAQVNEFEDAVTYLGEIITYQKD 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 L HKP G+++ D + TV D L R + VGRLD +TEGLL+LTNDG Sbjct: 67 FYYIL-HKPAGVISATQD-NHDQTVIDLLEDQDYREDLFPVGRLDKDTEGLLILTNDGVF 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLD--TQKGSNA 187 A L P + Y G + ++ + L +G++I G ++ +D Q+ + Sbjct: 125 AHQLLSPKKHVEKEYLAEVSGIMTEEDIRLFAEGLIIDGDEQTLPAKLQIDQVDQETETS 184 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + L EGK ++K++ + +V L RI G F L L G R ++K+ L + Sbjct: 185 IIRLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGKFWLPKDLNKGQYRPMTKEELEQ 241 >gi|228941730|ref|ZP_04104277.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228974654|ref|ZP_04135220.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228981248|ref|ZP_04141548.1| RNA pseudouridine synthase [Bacillus thuringiensis Bt407] gi|228778448|gb|EEM26715.1| RNA pseudouridine synthase [Bacillus thuringiensis Bt407] gi|228785057|gb|EEM33070.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228817942|gb|EEM64020.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar berliner ATCC 10792] gi|326942335|gb|AEA18231.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar chinensis CT-43] Length = 229 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 112/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTHGAL-VSDGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + D + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAD-HIEDNIIDYI-NYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R ++ + L G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELGVGKWRNIATEELEILKG 227 >gi|309782266|ref|ZP_07676994.1| RNA pseudouridine synthase family protein [Ralstonia sp. 5_7_47FAA] gi|308918959|gb|EFP64628.1| RNA pseudouridine synthase family protein [Ralstonia sp. 5_7_47FAA] Length = 605 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 100/313 (31%), Positives = 159/313 (50%), Gaps = 9/313 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + ++ P ++ K++A AG+ SRR++E +I Q RV VNG+ +++TD + Sbjct: 213 KTRELTSDDDAP-KLHKILADAGLGSRRDMEDLILQGRVSVNGLPA-HIGQRILATDQVR 270 Query: 62 VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDIN 117 V+G +++ + R+ LYHKP G + + SDP+GR TVFD LP + + + ++VGRLD N Sbjct: 271 VNGKLIQRKLPNKPPRVLLYHKPAGEIVSQSDPEGRPTVFDALPRMKTGKWVAVGRLDFN 330 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLL+ T G +A P R Y VR G++ + L GI +Q ++ Sbjct: 331 TEGLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAETDRQKLLHGIPLQDGEANFLRC 390 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 391 VDGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 450 Query: 237 SKKILREQLGPHLLE-EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 S + +R +G ++ + P ++ + F S+ G+ Sbjct: 451 SAEDVRTLMGTLGMKVPTASSGGGQDRQGNRRRGPAPVLMGPMSSGFAGEANFQSRGMGI 510 Query: 296 SKQKKLATPVHRR 308 + A P RR Sbjct: 511 ENGNR-AQPAQRR 522 >gi|192360200|ref|YP_001982275.1| RNA pseudouridylate synthase family protein [Cellvibrio japonicus Ueda107] gi|190686365|gb|ACE84043.1| RNA pseudouridylate synthase family protein [Cellvibrio japonicus Ueda107] Length = 376 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 104/303 (34%), Positives = 155/303 (51%), Gaps = 10/303 (3%) Query: 4 KNIVQENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K V+E+ +P +++ KV+ARAGI SRRE+ER I + RVKVN + V TD I Sbjct: 77 KPSVKESASPVDEKLQKVLARAGIGSRREMERAIEEGRVKVNDRIAT-LGDRVTLTDKIF 135 Query: 62 VDGVPL---RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 V G + +A R R+ LY+KP G + + DP+GR TV+D+LPS R ISVGRLD N Sbjct: 136 VGGQRVVLRTEAARRRVILYNKPEGEICSRHDPEGRPTVYDSLPSLKGERWISVGRLDFN 195 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL TNDG LA L PS+ R Y VR G VD D L +G+++ + Sbjct: 196 TSGLLLFTNDGELANKLMHPSSVIDREYLVRIQGDVDDDMKERLLEGVLLDDGVARFTDI 255 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREV 236 +G N W + EG+NRE+++++E KV+RL R+ Y + + + G E+ Sbjct: 256 VDGAGEGKNRWFYCVVMEGRNREVRRLWESQGVKVSRLKRVRYANIFIPSHVRVGQWTEL 315 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 +++ +R+ + N + S V ++ + K+ S Sbjct: 316 TEQEIRDLCMTAGFDSN--NYTRIMRPSREEVAQIERHEKKLRSASSAPKRVKVDLRKRS 373 Query: 297 KQK 299 +K Sbjct: 374 PRK 376 >gi|15902300|ref|NP_357850.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae R6] gi|116516048|ref|YP_815778.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae D39] gi|15457806|gb|AAK99060.1| Ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae R6] gi|116076624|gb|ABJ54344.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae D39] Length = 240 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 72/235 (30%), Positives = 113/235 (48%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKFQIDEKIDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L V VGRLDINT GLLLLTNDG L Sbjct: 60 FVYYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDINTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A VL P + Y + G + Q+ + +GI ++ ++ + + + + + Sbjct: 119 AHVLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPARLEILSTDAEKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >gi|27366125|ref|NP_761653.1| ribosomal small subunit pseudouridine synthase A [Vibrio vulnificus CMCP6] gi|37679610|ref|NP_934219.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio vulnificus YJ016] gi|34098531|sp|Q8D8X2|RSUA_VIBVU RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|27362325|gb|AAO11180.1| Ribosomal small subunit pseudouridine synthase A [Vibrio vulnificus CMCP6] gi|37198354|dbj|BAC94190.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio vulnificus YJ016] Length = 233 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 58/230 (25%), Positives = 103/230 (44%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R+E +++ V VN + + AV V +E G L + Sbjct: 1 MRLDKFLCDALGATRKEATKILKSGEVTVNEQVQKSGAVKVTEECVVEWQGREL-AMQGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + +KP G V +H D T F L + GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLYKPEGFVCSHEDGFNH-TAFVLLDEVKMDELHFAGRLDVDTTGLVLITDDGKWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D L +G+ ++ + + V + Sbjct: 119 RITSPKHKCDKTYRVWLADPIGSDYAEKLAEGVQLRNEKELTLPAQMTIVNADENEVLLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV +L R G +L +L G R ++++ + Sbjct: 179 IHEGKYHQVKRMFAALGNKVEQLHRERIGAIELDESLEPGEYRYLTQEEI 228 >gi|261494040|ref|ZP_05990543.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. BOVINE] gi|261496199|ref|ZP_05992605.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. OVINE] gi|261308151|gb|EEY09448.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. OVINE] gi|261310206|gb|EEY11406.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. BOVINE] Length = 355 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 104/274 (37%), Positives = 152/274 (55%), Gaps = 12/274 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLR---- 68 +++ K++ARAG SRRE+E +IA RV V+G + V V S+ I +DG + Sbjct: 78 EKLQKILARAGQGSRRELEEIIAAGRVSVDGKMATLGDRVQVSSSTKIRIDGHLVNLMPA 137 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 + E R+ +Y+KP G + T SDP+GR+TVFD LP +R I+VGRLDINT GLLL T D Sbjct: 138 QKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLSGARWIAVGRLDINTSGLLLFTTD 197 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G +D L L+KG+ ++ Q+ + G N Sbjct: 198 GELANRLMHPSREVEREYSVRVFGNIDDAMLQRLRKGVQLEDGPANFKQIKVVGGTGLNQ 257 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK---ILRE 243 W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + LRE Sbjct: 258 WFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLDKGLPRGGWEEMGLEQVNYLRE 317 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 +G L E + ++ + T +R + + Sbjct: 318 LVG--LPPETETKVEVGVNRRRTNIRQIRKAVKQ 349 >gi|229127761|ref|ZP_04256750.1| Pseudouridine synthase [Bacillus cereus BDRD-Cer4] gi|229144960|ref|ZP_04273356.1| Pseudouridine synthase [Bacillus cereus BDRD-ST24] gi|229150585|ref|ZP_04278800.1| Pseudouridine synthase [Bacillus cereus m1550] gi|228632894|gb|EEK89508.1| Pseudouridine synthase [Bacillus cereus m1550] gi|228638482|gb|EEK94916.1| Pseudouridine synthase [Bacillus cereus BDRD-ST24] gi|228655838|gb|EEL11687.1| Pseudouridine synthase [Bacillus cereus BDRD-Cer4] Length = 238 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 66/232 (28%), Positives = 113/232 (48%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKSVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G +VT + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLFA 229 >gi|222095973|ref|YP_002530030.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus cereus Q1] gi|229139077|ref|ZP_04267654.1| Pseudouridine synthase [Bacillus cereus BDRD-ST26] gi|229196600|ref|ZP_04323344.1| Pseudouridine synthase [Bacillus cereus m1293] gi|221240031|gb|ACM12741.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus cereus Q1] gi|228586956|gb|EEK45030.1| Pseudouridine synthase [Bacillus cereus m1293] gi|228644432|gb|EEL00687.1| Pseudouridine synthase [Bacillus cereus BDRD-ST26] Length = 238 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 66/240 (27%), Positives = 115/240 (47%), Gaps = 7/240 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKSVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V L R +L L G R+++KK R E + Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLFADLNYEPQE 237 >gi|253577342|ref|ZP_04854659.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14] gi|251843242|gb|EES71273.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14] Length = 234 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 60/232 (25%), Positives = 113/232 (48%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAER 72 R++K I+ G SRRE ++++ +V +NG+ D + V+G P+ K + Sbjct: 1 MRINKFISETGFCSRREADKLVESGQVTINGVKA-VLGSQAEPGDDVRVNGRPIAAKRSK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP+G+ T ++ + + D + R+ +GRLD ++EGL+LLT+DG + Sbjct: 60 HVYIALNKPVGITCT-TETHVKGNIVDFV-GHPERIFPIGRLDKDSEGLILLTSDGDIVN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V + + + +G+ I G +VT + S+ + Sbjct: 118 KILRAEGKHEKEYIVTVDRPITPSFVKAMSEGVKILGEMTLPCKVT----RVSDRVFRII 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 L EGKNR+I+++ ++V RL RI LG G+ R+++++ RE Sbjct: 174 LTEGKNRQIRRMCSALGYEVRRLQRIRIMNIHLGQQKVGTWRDLTEQEKREL 225 >gi|145589412|ref|YP_001156009.1| pseudouridine synthase [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] gi|145047818|gb|ABP34445.1| pseudouridine synthase [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] Length = 587 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 105/352 (29%), Positives = 153/352 (43%), Gaps = 19/352 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA---E 71 ++ KV+A G+ SRR++E +I Q RV VNG+ + TD + ++G P+ + + Sbjct: 198 KLHKVLADVGMGSRRDMEDLIIQGRVSVNGLPA-HIGQRIGPTDQVRINGKPVHRKIQTK 256 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGL 130 R+ +YHKP G + + SDP+GR TVFD LP R I+VGRLD NTEGLLL T G L Sbjct: 257 PPRVIMYHKPAGEIVSQSDPEGRPTVFDRLPKPRQGRWIAVGRLDFNTEGLLLFTTSGEL 316 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P R Y VR G + Q+ LLK GI + +++ + +G+N W Sbjct: 317 ANRLMHPRYGVEREYAVRILGDLSQENTALLKSGITLDDGQAKFLRLAMGGGEGANRWYH 376 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHL 249 V L EG+NRE++++FE V+RLIR YG F L L G + + +L Sbjct: 377 VALSEGRNREVRRMFEAVGHTVSRLIRTRYGIFLLPPRLRRGKW-----EEIEAGGIYNL 431 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH--- 306 ++ A + + P +DF +S S+ H Sbjct: 432 MKSAGLKMPQP-SDKGRSPNPNNRDRRPAGEDFQPDPMQTSVSYWGSRDALTLASGHNGL 490 Query: 307 ----RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R A F + + R AKK Sbjct: 491 THQSRGGKPGGGGAASEGRGPFRGRTQGGRPGQGAGQGGQGGQGQNRNKAKK 542 >gi|313897459|ref|ZP_07831002.1| pseudouridine synthase B, ribosomal large subunit [Clostridium sp. HGF2] gi|312957829|gb|EFR39454.1| pseudouridine synthase B, ribosomal large subunit [Clostridium sp. HGF2] Length = 245 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 75/234 (32%), Positives = 119/234 (50%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E +I++ RV VNG + V D IEVDG + K E Sbjct: 2 ERLQKVIAAAGITSRRKAEVLISEGRVAVNGETITELGYKVKRGDLIEVDGKAIEK-EDK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP + T D GR TV D + R+ +VGRLD +T G+++LTNDG A Sbjct: 61 VYFLMNKPKRTMCTSDDEFGRQTVVDLV-DCRQRIFTVGRLDYDTSGVIILTNDGDFANE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQ--KGSNAWVT 190 + P +VY + +G + + + +K GIV+ GI + + + + + Sbjct: 120 IIHPRYHIPKVYNLTINGILTPEDMKKIKAGIVLDDGIKTLPAKYRMTEKDTEKNQCSFD 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+NR+IK++ E ++V RL R L G R + +++ Sbjct: 180 LTIVEGRNRQIKRMMEALGYEVRRLHRSRLAFLHCSDLRQGEYRVLKPFEVKQL 233 >gi|293364698|ref|ZP_06611415.1| ribosomal small subunit pseudouridine synthase A [Streptococcus oralis ATCC 35037] gi|307702946|ref|ZP_07639893.1| putative ribosomal large subunit pseudouridine synthase B [Streptococcus oralis ATCC 35037] gi|291316148|gb|EFE56584.1| ribosomal small subunit pseudouridine synthase A [Streptococcus oralis ATCC 35037] gi|307623339|gb|EFO02329.1| putative ribosomal large subunit pseudouridine synthase B [Streptococcus oralis ATCC 35037] Length = 240 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 71/239 (29%), Positives = 114/239 (47%), Gaps = 8/239 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D R TV D L V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPQGVISATEDSKHR-TVLDLLDDVARSKGVFPVGRLDIDTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAW 188 A L P + Y + G + Q+ + KGI ++ ++ + + + + + Sbjct: 119 AHALLSPKRHVDKTYLAQVKGIMSQEDVETFAKGIPLKDFTCQPARLEIISIDTEKNQSK 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + V + EGK ++K++ + +V L R++ G LG L G R ++K+ L L Sbjct: 179 IRVTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTLALGENLERGEWRRLTKEELEVLLA 237 >gi|256617552|ref|ZP_05474398.1| pseudouridine synthase [Enterococcus faecalis ATCC 4200] gi|256597079|gb|EEU16255.1| pseudouridine synthase [Enterococcus faecalis ATCC 4200] Length = 244 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 74/242 (30%), Positives = 119/242 (49%), Gaps = 10/242 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I G L ++ Sbjct: 1 MRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIAFMGEILTY-QK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ HKP G+++ D TV D L R + VGRLD +TEGLLLLTNDG L Sbjct: 60 FFYYMLHKPQGVISATED-QRDETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--QKGSNA 187 A L P + Y G V + L +G + G ++ ++T ++ + Sbjct: 119 AHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSRLVIETINEEEGTS 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 V + ++EGK ++K++ V L R+ G L TL G R +++ L +QL Sbjct: 179 VVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGGYRPLTEAEL-QQLQ 237 Query: 247 PH 248 P Sbjct: 238 PK 239 >gi|149377823|ref|ZP_01895554.1| 23S rRNA pseudouridine synthase [Marinobacter algicola DG893] gi|149357881|gb|EDM46372.1| 23S rRNA pseudouridine synthase [Marinobacter algicola DG893] Length = 318 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 75/332 (22%), Positives = 131/332 (39%), Gaps = 16/332 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M KN R++K I+ +G+ SRRE +R I V +NG + V+ D + Sbjct: 1 MPGKNST-------RLNKYISESGMCSRREADRYIENGNVAINGK-AAQVGDQVLPGDKV 52 Query: 61 EVDGVPLRK--AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 V+G + E +KP+G+V+T + R+ V N R+ +GRLD ++ Sbjct: 53 TVNGQLIEPRDEEDLIFIALNKPVGVVSTTDPAERRNIV--NHVGHGERIFPIGRLDKDS 110 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 +GL+ LT++G L + + Y V + V + + + G+ I G +V Sbjct: 111 QGLIFLTSNGDLVNKILRAGNNHEKEYLVTVNKPVTTEFVQGMSAGVPILGTVTKRCKV- 169 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +K S + L +G NR+I+++ EFF ++V +L R+ L L G R++ Sbjct: 170 ---EKVSRFVFRITLVQGLNRQIRRMCEFFGYEVTKLERVRIMNISLKGLSVGEWRDLGP 226 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 K L ++V+ D + + V+ P + Q K Sbjct: 227 KELAGLFDMIRDSSSEVSPDNRSETKKPAVKRPSKKPGASPSGPRGKGAKTGQPGRPGKP 286 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ 330 R S + S + Sbjct: 287 TGKHGKPSRPGKPSKRGKPGKLRKPRQSSVKR 318 >gi|242279370|ref|YP_002991499.1| RNA-binding S4 domain protein [Desulfovibrio salexigens DSM 2638] gi|242122264|gb|ACS79960.1| RNA-binding S4 domain protein [Desulfovibrio salexigens DSM 2638] Length = 251 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 85/237 (35%), Positives = 133/237 (56%), Gaps = 7/237 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 T R++K IA AGIASRR + ++ + +VKVNG L + + V D +EV+G ++ Sbjct: 5 TTIRLNKYIASAGIASRRGADELVQKGKVKVNGELADSPGIQVDPDNDRVEVNGKLVQHD 64 Query: 71 ERTR--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTN 126 E+++ L HK I VTT DP GR TV D LP RV VGRLD +EG+LLLT Sbjct: 65 EKSKDLYILLHKTIETVTTAKDPQGRKTVLDLLPPDVINRRVFPVGRLDFYSEGMLLLTT 124 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKG 184 DG L + P ++Y V G++ + +L++++ G+ ++ G +++ ++ G Sbjct: 125 DGELCNRMTHPKWHLPKIYHVTIRGKLSEKELSVMQNGMYLEDKGELLAPVKIKAISEVG 184 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + LR+G NR+I+++F F+ + RL R+ G +LG L G RE+S K L Sbjct: 185 ETTKYEMELRQGINRQIRRMFGEFDKTILRLKRVRQGRIELGALKPGKWRELSAKEL 241 >gi|311104985|ref|YP_003977838.1| ribosomal large subunit pseudouridine synthase B [Achromobacter xylosoxidans A8] gi|310759674|gb|ADP15123.1| ribosomal large subunit pseudouridine synthase B [Achromobacter xylosoxidans A8] Length = 604 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 101/331 (30%), Positives = 157/331 (47%), Gaps = 17/331 (5%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K + ++ P ++ KV+A AGI SRRE+E +I RV VNG V D + V+ Sbjct: 101 KYLNSDSVMP-KLHKVLADAGIGSRREMEELIVAGRVSVNGEPA-HIGQRVAPNDQVRVN 158 Query: 64 GVPL---RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 G P+ + R+ LYHKP G + +H DP GR++VF LP + + + +SVGRLD+NTE Sbjct: 159 GKPIMRVNTKKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTE 218 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+ T G +A + P R Y VR G++D+ + L GI ++ + Sbjct: 219 GLLIFTTSGDMANRIMHPRYGTEREYAVRVLGEMDEAQRQSLVDGIELEDGLAAFGALDY 278 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 GSN W V L+EG+NRE++++FE V+RLIR +G L TL G E+ Sbjct: 279 LGGDGSNRWYRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFGDVVLPRTLRRGRWEELDA 338 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 ++ + ++ V D + + + S +P F M + NGL+ Sbjct: 339 SLVTALM----VQLGLVRDDDEAGGNRRRSKQPQSHDSALPPGFGTMDR-----NGLNGA 389 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSG 329 + + + A S +G Sbjct: 390 RIGRRGKLQGGRLGSAGQAA-ACPSDPFGTG 419 >gi|300312901|ref|YP_003776993.1| 16S rRNA uridine-516 pseudouridylate synthase [Herbaspirillum seropedicae SmR1] gi|300075686|gb|ADJ65085.1| 16S rRNA uridine-516 pseudouridylate synthase protein [Herbaspirillum seropedicae SmR1] Length = 560 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 96/357 (26%), Positives = 164/357 (45%), Gaps = 11/357 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +++ E+ P ++ KV+A AG+ SRR++E +I RV VNG ++ TD + + Sbjct: 187 RRDLTAEDDAP-KLHKVLADAGLGSRRDMEELIVAGRVSVNGEPA-HIGQRILPTDAVRI 244 Query: 63 DGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINT 118 +G +++ R+ +YHKP G + +H+DP+GR++VFD LP++ + + ++VGRLD NT Sbjct: 245 NGKLIQRKVSKRPPRVLVYHKPAGEIVSHADPEGRNSVFDRLPTMKAGKWLAVGRLDYNT 304 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLLL T G LA L P R Y VR G++++ L G+ + ++ Sbjct: 305 EGLLLFTTSGDLANRLMHPRYNIEREYAVRTLGELEEGMRQKLLSGVELDDGPAQFSRIA 364 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +G N W V + EG+NRE++++FE V+RLIR YG L TL G E+ Sbjct: 365 DGGGEGVNKWYRVTIGEGRNREVRRMFEAVGLTVSRLIRTRYGAMTLPQTLRRGRWEELE 424 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + +R + LE+ S + P K + G + Sbjct: 425 ENAVRNLMAACGLEKQAGEG----KSGNGGHAGKGQGNGNGPRGNAMQNKGPQKGRGGNY 480 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + ++ N G + ++ + + + FP R ++ Sbjct: 481 GNQGGNYGNQGGNYGNQGGGYGGGNKGGQPKSRQPDPLQTALGFPDAGQRRNNRPQR 537 >gi|260752916|ref|YP_003225809.1| pseudouridine synthase [Zymomonas mobilis subsp. mobilis NCIMB 11163] gi|258552279|gb|ACV75225.1| pseudouridine synthase [Zymomonas mobilis subsp. mobilis NCIMB 11163] Length = 509 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 114/229 (49%), Positives = 156/229 (68%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR++K+++RAGIASRR +E MI + R+ ++G+ +E+ A + S D + VDG P+ T Sbjct: 271 QRIAKLLSRAGIASRRMIEAMIEEGRIAIDGVTVEKPATLLTSLDGVTVDGKPVNAPTET 330 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL+LYHK GL+TT DP+GR T++D LP+ RV+ VGRLD+NTEGLLLLT DGG R+ Sbjct: 331 RLFLYHKATGLLTTERDPEGRKTIYDRLPADLPRVMPVGRLDMNTEGLLLLTTDGGFKRM 390 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T R YR R G V QD+L L +G+ I GI YG + L+ + G N WV + L Sbjct: 391 LELPATHIERCYRARVFGDVSQDQLEELIEGVTIDGIHYGSIDANLERRTGRNGWVEMKL 450 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+NRE+++V + +V+RLIRISYGPF LG L G+ EV L+ Sbjct: 451 HEGRNREVRRVLGYLGLQVSRLIRISYGPFLLGDLPVGAVEEVDPATLK 499 >gi|223933741|ref|ZP_03625714.1| pseudouridine synthase [Streptococcus suis 89/1591] gi|302024514|ref|ZP_07249725.1| ribosomal small subunit pseudouridine synthase B [Streptococcus suis 05HAS68] gi|330833556|ref|YP_004402381.1| pseudouridine synthase [Streptococcus suis ST3] gi|223897583|gb|EEF63971.1| pseudouridine synthase [Streptococcus suis 89/1591] gi|329307779|gb|AEB82195.1| pseudouridine synthase [Streptococcus suis ST3] Length = 242 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 70/237 (29%), Positives = 120/237 (50%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR EV++++ ++V VNG + + D I V G L E Sbjct: 1 MRLDKFLVDCGVGSRTEVKKLLKNKQVTVNGQVETSPKQQIDEKSDQIAVAGQVLSH-ET 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D R TV D L + + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYVLNKPKGVISATEDDRHR-TVLDLLDNTARQKEVFPVGRLDIDTHGLLLLTNNGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A V+ P ++YR + G + Q+ + GI ++ + Q+T+ + + + Sbjct: 119 AHVMLSPKKHVDKLYRAQVDGIMTQEDVERFAAGIELKDLTCQPAQLTILSTDEAKQTSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 V + +REGK ++K++ + V L R++ GP +L L G R ++ L++ Sbjct: 179 VDITIREGKFHQVKRMVQACGKTVTDLQRLTMGPLRLDPKLALGEYRRLTAAELKQL 235 >gi|315656791|ref|ZP_07909678.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus curtisii subsp. holmesii ATCC 35242] gi|315492746|gb|EFU82350.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus curtisii subsp. holmesii ATCC 35242] Length = 278 Score = 258 bits (661), Expect = 7e-67, Method: Composition-based stats. Identities = 77/233 (33%), Positives = 120/233 (51%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P+R+ KV++RAG+ASRR E +IA+ RV++NG + V V+ TD I VDG + Sbjct: 40 EPERLQKVLSRAGVASRRASEDLIARGRVQINGETVREMGVKVLPTDRITVDGQRIHTDT 99 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++W +HKP+G V++ D R + D + + RV +VGRLD T GLLLLTN+G LA Sbjct: 100 VLQVWAFHKPVGTVSSMQPEDDRPCIGDWVTKLPERVYNVGRLDAATAGLLLLTNNGELA 159 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + PS + + Y GQV +L++G+ ++ + L + ++ V + Sbjct: 160 NRIMHPSYEVPKTYVAVVQGQVKMGLGKVLRRGVELEDGKVKVDKFKLIEVRRGSSIVQL 219 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 L GKNR ++++ V+ L R L L G R + K L Sbjct: 220 TLHSGKNRVVRRLLSAVGHPVSALTRTGIANLTLDGLKEGQFRLLHGKELAAL 272 >gi|123442126|ref|YP_001006108.1| 23S rRNA pseudouridine synthase F [Yersinia enterocolitica subsp. enterocolitica 8081] gi|122089087|emb|CAL11923.1| conserved hypothetical protein [Yersinia enterocolitica subsp. enterocolitica 8081] Length = 290 Score = 258 bits (661), Expect = 8e-67, Method: Composition-based stats. Identities = 68/294 (23%), Positives = 129/294 (43%), Gaps = 11/294 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 + R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + + Sbjct: 5 SSIRLNKYISESGICSRRDADRYIEQGNVFINGKRAT-VGEQVYAGDVVKVNGQLIEPRD 63 Query: 72 R--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L +KP+G++ T D +G + V + + RV +GRLD +++GL+ LTN G Sbjct: 64 QNDLVLIALNKPVGIICTTEDGEGDNIV--DFVNHSKRVFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + L G+ + G +V +K + Sbjct: 122 LVNKILRAGNDHEKEYVVTVNKPLTDEFILGLGAGVPMLGTVTKKCKV----RKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 ++ L +G NR+I+++ ++F ++V +L R L L G R++ L E L Sbjct: 178 SITLVQGLNRQIRRMCKYFGYEVTKLERTRIMNINLKGLPIGEWRDLRDDELIELF--KL 235 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 +E + + V + IS ++ +K +K Sbjct: 236 IENSSSDEKPQKKPKAKPVVAKKPAISRSKPAEKSEANSAGRKRFTQPGRKKKG 289 >gi|29349280|ref|NP_812783.1| ribosomal large subunit pseudouridine synthase B [Bacteroides thetaiotaomicron VPI-5482] gi|253570374|ref|ZP_04847783.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 1_1_6] gi|298384818|ref|ZP_06994377.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 1_1_14] gi|29341188|gb|AAO78977.1| ribosomal large subunit pseudouridine synthase B [Bacteroides thetaiotaomicron VPI-5482] gi|251840755|gb|EES68837.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 1_1_6] gi|298261962|gb|EFI04827.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 1_1_14] Length = 496 Score = 258 bits (661), Expect = 8e-67, Method: Composition-based stats. Identities = 71/242 (29%), Positives = 115/242 (47%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 248 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 307 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 308 KFHDEPVS-IERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTT 366 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V + + ++ + G+ ++ ++ Sbjct: 367 GVLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMDQIAAGVQLEDGEIHADAISY 426 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 427 -TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEA 485 Query: 240 IL 241 + Sbjct: 486 EV 487 >gi|332883058|gb|EGK03342.1| hypothetical protein HMPREF9456_01979 [Dysgonomonas mossii DSM 22836] Length = 482 Score = 258 bits (661), Expect = 8e-67, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 119/242 (49%), Gaps = 4/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K + + TP R++K +A AG+ SRRE + I VKVNG ++++ V D + Sbjct: 235 VKYKENI-DPSTPLRLNKYLANAGVCSRREADAFITSGVVKVNGEVVDQLGAKVTRGDLV 293 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 P+R E L +KP VTT DP R TV D + + R+ VGRLD NT Sbjct: 294 TFHDQPVRL-ESKVYVLLNKPKNCVTTSDDPQNRLTVMDLVKNACPERIYPVGRLDRNTT 352 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P + ++Y+V V + + + G+ + + Sbjct: 353 GVLLLTNDGDLASKLMHPKFKKKKIYQVTLDRDVAIEDMQAIADGVELDDGEIHADSIAY 412 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + N V + + G+NR ++++FE ++V +L R+ + + R +++K Sbjct: 413 QAEDVLN-VVGIEIHSGRNRIVRRIFEKLGYQVVKLDRVYFAGLTKKNIPRSKWRYLTEK 471 Query: 240 IL 241 + Sbjct: 472 EV 473 >gi|261418151|ref|YP_003251833.1| pseudouridine synthase [Geobacillus sp. Y412MC61] gi|319767889|ref|YP_004133390.1| pseudouridine synthase [Geobacillus sp. Y412MC52] gi|261374608|gb|ACX77351.1| pseudouridine synthase [Geobacillus sp. Y412MC61] gi|317112755|gb|ADU95247.1| pseudouridine synthase [Geobacillus sp. Y412MC52] Length = 248 Score = 258 bits (661), Expect = 8e-67, Method: Composition-based stats. Identities = 69/232 (29%), Positives = 112/232 (48%), Gaps = 8/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VKV+G + A V + V G + + Sbjct: 4 RIDKLLAHMGYGTRKEVKKLLKSGAVKVDGAPVRDAKTKVRPDEQIVTVWGETVEY-KPF 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS--VGRLDINTEGLLLLTNDGGLA 131 + +KP G+V+ D TV D L VGRLD +TEGLLLLTNDG LA Sbjct: 63 IYLMMNKPSGVVSATEDA-VEETVVDLLEEEDRAFCPFPVGRLDKDTEGLLLLTNDGQLA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P + Y G+V + + ++G+V+ G ++ + + G + V Sbjct: 122 HQLLSPKKHVPKTYFAVVGGEVTEADVAAFQRGVVLDDGYETKPAKLVVL-KSGLRSDVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + EGK ++K++F+ +V L RI GP L L G RE++ + + Sbjct: 181 VTITEGKFHQVKRMFQAVGKRVVYLKRIQMGPLALDPDLAVGEYRELTDEEV 232 >gi|91776224|ref|YP_545980.1| ribosomal large subunit pseudouridine synthase B [Methylobacillus flagellatus KT] gi|91710211|gb|ABE50139.1| ribosomal large subunit pseudouridine synthase B [Methylobacillus flagellatus KT] Length = 383 Score = 258 bits (661), Expect = 8e-67, Method: Composition-based stats. Identities = 100/347 (28%), Positives = 164/347 (47%), Gaps = 13/347 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + PQR+ K++A AG SRRE+E +IA R+ +NG +V+ +D + +D PL Sbjct: 23 DPDAVPQRLHKLLALAGFGSRREMETLIASGRITINGKTA-EVGASVVPSDVVRLDSRPL 81 Query: 68 R---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLL 123 R + E ++ LYHKP G + +H DP+ R++VFD LP I + + I++GRLD+NT GLL+ Sbjct: 82 RLPFEPELPQVLLYHKPEGEIVSHDDPENRASVFDKLPRIRNGKWIAIGRLDMNTSGLLI 141 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T G LA P + R Y VR G++ + ++ L GI + + + Sbjct: 142 FTTSGELANRFMHPRYEVEREYAVRIFGELTEGEMAQLTYGIELDDGPANFDSIRPQGGE 201 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 G+N W V LREG+NRE++++FE F V+RLIR+ +GP L L G + K + Sbjct: 202 GANHWYEVILREGRNREVRRLFEAFQKPVSRLIRVRFGPVNLPPRLKRGQMIHLGAKEVT 261 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 L L P L + +V R + + + S+ + Sbjct: 262 ALL-------EWAELAVPKAVPRQLSPREKEKLGKVFTPKARKSRFDPEAHLESRGPRRV 314 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 T + + + S + + R + P+++ + R Sbjct: 315 TKAREEGMRQELGKQQAGRRSRHGAETEEAQRPSRQGAKPARKPVNR 361 >gi|88857390|ref|ZP_01132033.1| putative ribosomal RNA pseudouridine synthase [Pseudoalteromonas tunicata D2] gi|88820587|gb|EAR30399.1| putative ribosomal RNA pseudouridine synthase [Pseudoalteromonas tunicata D2] Length = 285 Score = 258 bits (661), Expect = 8e-67, Method: Composition-based stats. Identities = 71/278 (25%), Positives = 126/278 (45%), Gaps = 11/278 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE ++ IA RV +NG + V +D +E+DG PL+ + Sbjct: 6 RLNKYISDTGFCSRREADKYIADGRVTLNGKIP-EVGTKVTDSDVVEIDGKPLKAKPKAV 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 Y+KP+G+ T ++ + RS + + + R+ +GRLD +EGL+ LTN+G + + Sbjct: 65 FIAYNKPVGVTCT-TELNIRSNIISAI-NHPERIFPIGRLDRPSEGLIFLTNEGDIVNKI 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V + + + G+ I G +VT + G N + L Sbjct: 123 LRAGNNHEKEYLVTVDKAISPQFIKKMGAGVPILGTVTKQCKVTQVSSHGFN----IVLT 178 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL----REQLGPHLL 250 +G NR+I+++ EF ++V L R+ L L +G R ++ K + R G Sbjct: 179 QGLNRQIRRMCEFLGYEVVTLKRVRIMNIDLTGLRSGQWRNLTDKEMAIINRSIEGSGKT 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 EE V+ + + + + + R+ K Sbjct: 239 EELSVDPNKNKNFKKPVKKQFDEPEQTMKTQAVRVIKK 276 >gi|295702668|ref|YP_003595743.1| pseudouridine synthase F [Bacillus megaterium DSM 319] gi|294800327|gb|ADF37393.1| pseudouridine synthase F (ribosomal large subunit) [Bacillus megaterium DSM 319] Length = 238 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 70/235 (29%), Positives = 117/235 (49%), Gaps = 8/235 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G ASRR +++I++ RV VNG + + V D I V G LR A Sbjct: 5 RLNKFISESGKASRRGADKLISEGRVTVNGKVAK-VGDQVKPGDDIRVSGQQLRIARNNV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ +T S+ + + D + R+ VGRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITST-SEKKVKGNIIDLVNHPL-RIHHVGRLDKDSDGLILLTNDGDIINEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + + + +G+ I G +VT + S + L Sbjct: 122 LRAENKHEKEYIVAVDKPITPEFIKNMSEGVKILGTKTLPCKVT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 +G NR+I+++ E ++V RL R L L G R+++KK R QL L Sbjct: 178 QGLNRQIRRMCEVLGYEVYRLQRTRIMNIHLNNLPVGQWRDLTKKE-RTQLFKEL 231 >gi|117619273|ref|YP_856164.1| 23S rRNA pseudouridine synthase F [Aeromonas hydrophila subsp. hydrophila ATCC 7966] gi|117560680|gb|ABK37628.1| ribosomal large subunit pseudouridine synthase F [Aeromonas hydrophila subsp. hydrophila ATCC 7966] Length = 344 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 68/298 (22%), Positives = 123/298 (41%), Gaps = 11/298 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG V + D ++V+G + Sbjct: 4 DESMRLNKYISESGICSRREADRFIEQGNVFINGKRA-GVGDQVFAGDLVKVNGQVIEPR 62 Query: 71 E--RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E + +KP+G+V+T + + V + + +R+ +GRLD +++GL+ LTN G Sbjct: 63 EADSLVFIVLNKPVGIVSTTEAGEKDNIV--DFVNHSTRIFPIGRLDKDSQGLIFLTNHG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L + + Y V V + + + G+ I G +V K + Sbjct: 121 DLVNKILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPILGAVTKKCKVK----KEAPFV 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E F ++V +L RI L L G R+++ L E Sbjct: 177 FRITLVQGLNRQIRRMCEHFGFEVTKLERIRIMNVSLKGLPVGEWRDLTDDELIELF--K 234 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 L+E++ + + S K + + + P Sbjct: 235 LIEDSSSEVKPAKGGQAAAGQGGKPKASAAQAGKPAPGKKPRRDDDHEIGGRPNVPGP 292 >gi|332830030|gb|EGK02658.1| hypothetical protein HMPREF9455_00908 [Dysgonomonas gadei ATCC BAA-286] Length = 342 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 72/318 (22%), Positives = 144/318 (45%), Gaps = 16/318 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G SRRE +R I + RV +NG + + V+ ++V+G + Sbjct: 4 RLNKYISNSGFCSRREADRFIEEGRVTINGKRAQ-VGMRVLPGQKVKVNGELIVNKIEPV 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++KP+G+V+T +DP R + + + R+ +GRLD +++GL+LLTNDG + + Sbjct: 63 YIAFNKPVGIVST-TDPQERDNIINFI-RHEQRIFPIGRLDKDSQGLILLTNDGDIVNKI 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V+ + + +D L + +G+ I ++ + + + L Sbjct: 121 LRAGNNHKKDYLVKVNRPITKDFLTRMAQGVPILDRVTRRCEIV----EINPYMFRISLI 176 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E+F+++V +L RI +LG L G+ R ++ L +LE ++ Sbjct: 177 QGLNRQIRRMCEYFDYEVLKLERIQIMNIKLGDLGQGNWRNLTPTELEGLF--DMLENSE 234 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNV 314 ++ + D + +S K+ K P + +SN Sbjct: 235 KT------QMSKAPSNKAFNKALEEFDIKTDYRKASIAAKYGKKDKTDKPGSTNSKSSNT 288 Query: 315 WMAKGIHSSFLSDSGQRE 332 A + +R+ Sbjct: 289 -AAPSSDENEHKAKPKRK 305 >gi|332293444|ref|YP_004432053.1| pseudouridine synthase [Krokinobacter diaphorus 4H-3-7-5] gi|332171530|gb|AEE20785.1| pseudouridine synthase [Krokinobacter diaphorus 4H-3-7-5] Length = 260 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 63/260 (24%), Positives = 118/260 (45%), Gaps = 10/260 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-ERT 73 R++K ++ G SRR +++I Q RV +NG + + D + V+G + E+ Sbjct: 8 RINKYLSEVGYCSRRAADKLIEQGRVTINGRIP-EMGTKISQGDEVHVNGELISAPTEKP 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++KP+G+V T + + D + + SR+ +GRLD +EGL+ LTNDG + Sbjct: 67 VYIAFNKPVGIVCTTDTRVEKDNIIDYI-NYPSRIFPIGRLDKPSEGLIFLTNDGDIVNK 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + + G+ I V ++ S + L Sbjct: 126 ILRARNNHEKEYEVWVDRPITPSFIQQMGNGVPILDTVTRTCHV----EQLSRFSFKIIL 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE-QLGPHLLEE 252 +G NR+I+++ E +++V RL R L + G R ++++ ++E + E+ Sbjct: 182 TQGLNRQIRRMCEALDYEVTRLKRNRIMNVSL-DVEEGKWRYITEEEMKEIYVLVADSEK 240 Query: 253 AQVNLDA-PIYSSETLVRDR 271 Q DA P + R+R Sbjct: 241 TQAEKDAEPKFKDLRSSRNR 260 >gi|319778229|ref|YP_004129142.1| Ribosomal large subunit pseudouridine synthase B [Taylorella equigenitalis MCE9] gi|317108253|gb|ADU90999.1| Ribosomal large subunit pseudouridine synthase B [Taylorella equigenitalis MCE9] Length = 418 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 103/316 (32%), Positives = 150/316 (47%), Gaps = 12/316 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 V EN + ++ K++A AG+ SRR++E +I Q RV VNG+ + D ++V+G Sbjct: 98 VAENSSKPKLHKILADAGVGSRRDMEDLIIQGRVSVNGVPA-HIGQRISDEDVVKVNGRI 156 Query: 67 LRKAER---TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLL 122 + + + R+ LYHKP G + T DP R+TVF LP + ++ +SVGRLDINTEGLL Sbjct: 157 INRPKSNRVPRVILYHKPAGEIVTQDDPKNRATVFARLPKMKTAKWVSVGRLDINTEGLL 216 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T G LA L P R Y VR G++D +L L +GI ++ + Sbjct: 217 IFTTSGDLANRLMHPRYGNEREYAVRILGELDSTQLKTLTEGIHLEDGLAKFGSIDYIGG 276 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI- 240 GSN W V + EG+NRE++++FE V+RLIR +G L L G E+ Sbjct: 277 DGSNKWYRVTIEEGRNREVRRMFEALGLTVSRLIRSRFGDVHLPRNLKRGRWEELDPSQV 336 Query: 241 --LREQLG--PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 L E LG E+ + P+ L I D F+ K S Sbjct: 337 LGLMECLGLNKKNDEDGRKGRRGPVSHGNALPPGFEKSIDPSKD-FSIHKVRKSAGGPQR 395 Query: 297 KQKKLATPVHRRNLAS 312 P RR ++ Sbjct: 396 GLTGRGVPSQRRGRST 411 >gi|163801131|ref|ZP_02195031.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. AND4] gi|159175480|gb|EDP60277.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. AND4] Length = 233 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 55/231 (23%), Positives = 102/231 (44%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A+R++ ++I V V+G + + + V +E +G + A Sbjct: 1 MRLDKYLCDGLGATRKQATKIIKSGDVTVDGEVQKSGSFKVPEAGVVEWEGRLV-GAPGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 R + +KP V +H D T F L ++ GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLYKPADFVCSHED-GHNPTAFVLLDEPKVEKLHFAGRLDVDTTGLVLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D + +GI ++ + L+ + V + Sbjct: 119 RITSPKHKCEKTYRVWLADAIQPDYIEKFAEGIELRNESGPTLPAHLEIVNEAENEVLLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EGK ++K++F KV L R G L L G R ++++ + Sbjct: 179 IVEGKYHQVKRMFAALGNKVEYLHRERIGSIVLDEALEPGDYRFLTEEEVE 229 >gi|145299656|ref|YP_001142497.1| 23S rRNA pseudouridine synthase F [Aeromonas salmonicida subsp. salmonicida A449] gi|142852428|gb|ABO90749.1| ribosomal large subunit pseudouridine synthase F [Aeromonas salmonicida subsp. salmonicida A449] Length = 344 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 80/350 (22%), Positives = 146/350 (41%), Gaps = 19/350 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K I+ +GI SRRE +R I Q +V +NG V + D ++V+G + E Sbjct: 5 ESMRLNKYISESGICSRREADRFIEQGQVFINGKRA-GIGDQVFAGDLVKVNGQVIEARE 63 Query: 72 --RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + +KP+G+V+T + + V + + +RV +GRLD +++GL+ LTN G Sbjct: 64 ADSLVFIVLNKPVGIVSTTEAGEKDNIV--DFVNHSTRVFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V V D + + G+ I G +V K + Sbjct: 122 LVNKILRAGNDHEKEYLVTVDKPVTDDFIKGMGAGVPILGAVTKKCKVK----KEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E F ++V +L RI L L G R+++ L E L Sbjct: 178 RITLVQGLNRQIRRMCEHFGFEVTKLERIRIMNVSLKGLPVGEWRDLTDDELIELF--KL 235 Query: 250 LEEAQVNL-----DAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 +E++ + D P + + + + P + + + P Sbjct: 236 IEDSSSEVKPAKGDKPKVAKAAVAQTGKAAQGKKPRRDDDHEIGGRPNVSGPEAFEKKIP 295 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 V + + G ++ +G+ N R P+ R+ + KK Sbjct: 296 VGKGAVGK---GGAGKAAAGKGSAGKGASNKGRKPAAAKPRAGQSGRQKK 342 >gi|168186069|ref|ZP_02620704.1| RNA pseudouridine synthase family protein [Clostridium botulinum C str. Eklund] gi|169295997|gb|EDS78130.1| RNA pseudouridine synthase family protein [Clostridium botulinum C str. Eklund] Length = 238 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 64/234 (27%), Positives = 121/234 (51%), Gaps = 7/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ KV++ G SR+E++ ++ + ++++G +++ + V I+V+G + + Sbjct: 2 ERLDKVLSNLGYGSRKEIKALVKKGEIEIDGKVIKDNGLKVDPNKSIIKVNGEKINYR-K 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+V+ D + TV D L ++ VGRLD +TEGLL++TNDG L Sbjct: 61 YIYIMMNKPAGVVSATFD-NYDETVIDLLDYEYTVFDPFPVGRLDKDTEGLLIITNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P ++Y +VD+ + +KGI + G ++ + + + + V Sbjct: 120 NHRLTSPKWHVDKIYYAEIDKRVDEKDVEKFEKGITLDDGYKCLPAKLEILSADENGSEV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 V ++EGK ++K++FE + KV L R+ G L L G RE+++K + Sbjct: 180 NVIIQEGKFHQVKRMFEARDKKVVYLKRLKMGNISLDNELEEGEYRELTEKEIE 233 >gi|223985880|ref|ZP_03635918.1| hypothetical protein HOLDEFILI_03224 [Holdemania filiformis DSM 12042] gi|223962146|gb|EEF66620.1| hypothetical protein HOLDEFILI_03224 [Holdemania filiformis DSM 12042] Length = 244 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 73/233 (31%), Positives = 125/233 (53%), Gaps = 4/233 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K+IA +G+ SRR+ E I Q RVKV+G ++ V IEVDG + + ++ Sbjct: 3 RLQKIIAASGLTSRRKAEEWILQGRVKVDGQVVTELGVKPRKGALIEVDGKAIAREDKVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +KP ++ T +D R TV D + + RV VGRLD +T G+L++TNDG A + Sbjct: 63 YVM-NKPKKVLCTLNDEHDRRTVVDLMMDVPQRVFPVGRLDYDTTGVLIMTNDGEFANEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK--GSNAWVTV 191 P +VY V +G + +++ L++G+V+ GI ++ + + + Sbjct: 122 IHPRYHIAKVYEVTINGILKTEEIKQLEQGVVLDDGIKTLPAKLWVTNKDFAHEQTMFEL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 ++EG+NR+IK++ E F ++V RL R S GP + L G R + +++ Sbjct: 182 TIQEGRNRQIKRMLEVFGYEVRRLHRRSLGPITVRGLNPGEYRLMKPFEVKQL 234 >gi|294497295|ref|YP_003560995.1| pseudouridine synthase F (ribosomal large subunit) [Bacillus megaterium QM B1551] gi|294347232|gb|ADE67561.1| pseudouridine synthase F (ribosomal large subunit) [Bacillus megaterium QM B1551] Length = 238 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 70/235 (29%), Positives = 117/235 (49%), Gaps = 8/235 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G ASRR +++I++ RV VNG + + V D I V G LR A Sbjct: 5 RLNKFISESGKASRRGADKLISEGRVTVNGKVAK-VGDQVKPGDDIRVSGQQLRIARNNV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ +T S+ + + D + R+ VGRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITST-SEKKVKGNIIDLVNHPL-RIHHVGRLDKDSDGLILLTNDGDIINEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + + + +G+ I G +VT + S + L Sbjct: 122 LRAENKHEKEYIVAVDKPITPEFIKNMSEGVKILGTKTLPCEVT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 +G NR+I+++ E ++V RL R L L G R+++KK R QL L Sbjct: 178 QGLNRQIRRMCEVLGYEVYRLQRTRIMNIHLNNLPVGQWRDLTKKE-RTQLFKEL 231 >gi|221066029|ref|ZP_03542134.1| pseudouridine synthase [Comamonas testosteroni KF-1] gi|220711052|gb|EED66420.1| pseudouridine synthase [Comamonas testosteroni KF-1] Length = 529 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 102/344 (29%), Positives = 158/344 (45%), Gaps = 23/344 (6%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K ++ ++ KV+A+AG+ SR E+E++I + R+ VN + D + Sbjct: 150 MPAKRVLAPQVDSPKLHKVLAQAGMGSRLEMEQLILEGRISVNNEPA-HVGQRIQFGDIV 208 Query: 61 EVDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDI 116 +V+G P+R R+ YHKP+G V TH DP R TVF LP + SVGRLD+ Sbjct: 209 KVNGQPIRFRIDPPPARVIAYHKPVGEVVTHDDPQNRPTVFRKLPKLQHGKWQSVGRLDL 268 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLLL T+ G LA L P R Y R G + +++ L G+ ++ Sbjct: 269 NTEGLLLFTSSGELANSLMHPRFGLEREYAARVLGALSKEEKQRLLDGVQLEDGEASFGA 328 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTRE 235 V +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E Sbjct: 329 VEDGGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMMLPRGLKRGAWVE 388 Query: 236 VSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 + + ++ L+ A V AP+ + + R N R ++ + NG+ Sbjct: 389 LDQADIQA-----LMSAAGVKERAPVERNNSGARGANNRGG-------RNSRSGGRGNGM 436 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSP 339 + + W + + SG +N R P Sbjct: 437 NADRAPQGRREGGGQRRGEW-----DGNRPAPSGMLGDNPRNKP 475 >gi|212712415|ref|ZP_03320543.1| hypothetical protein PROVALCAL_03504 [Providencia alcalifaciens DSM 30120] gi|212685161|gb|EEB44689.1| hypothetical protein PROVALCAL_03504 [Providencia alcalifaciens DSM 30120] Length = 235 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 56/236 (23%), Positives = 105/236 (44%), Gaps = 3/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + V V+ +++ ++ V + + DG L + Sbjct: 1 MRLDKFLSQQLGISRSLVARELRAGNVTVDDEVVKSGSMQVGLDNEVAYDGNVLVQVTGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DP + ++ I + + GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLNKPEGYVCSTDDPTHPTILYFIDEPIAQNLHAAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + YRV+ + D ++G+++ G L+ S V + + Sbjct: 121 ITSPKHHCEKTYRVQLSEDIADDVTIQFEQGVMLNGEKSPTKPAQLEI--ISPREVLLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 EG+ ++K++F V L R G L L G R +++ ++ P Sbjct: 179 SEGRYHQVKRMFAAVGNHVCGLHRERVGEIHLDEQLEPGEYRPLTEAEIKSITVPR 234 >gi|62261679|gb|AAX78007.1| unknown protein [synthetic construct] Length = 306 Score = 258 bits (660), Expect = 9e-67, Method: Composition-based stats. Identities = 97/251 (38%), Positives = 132/251 (52%), Gaps = 9/251 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N + P+R+ K++A+ GI SRR++E I Q RVKVNG + D I Sbjct: 27 MRRANQNNDK-NPERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVAT-LGDKASEADKI 84 Query: 61 EVDGVPL----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 DG L + R R+ +YHK G V T D R TVFD+LP + R I VGRLD Sbjct: 85 SFDGKALHSYGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLD 144 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-VDQDKLNLLKKGIVIQGICYGD 174 INT GLLL T DG LA L PS Q R Y VR GQ + + +N LK+GI ++ Sbjct: 145 INTTGLLLFTTDGDLANRLMHPSYQIEREYAVRVFGQQLSDETINKLKEGIQLEDGMAKF 204 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGST 233 + +G+N W V L EG+NRE++++FE V+RL RI +G L + G T Sbjct: 205 NSIKFSGGEGANLWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGDIILPKFVSRGKT 264 Query: 234 REVSKKILREQ 244 E++ + Sbjct: 265 LELNPSEVNRL 275 >gi|331270360|ref|YP_004396852.1| pseudouridine synthase [Clostridium botulinum BKT015925] gi|329126910|gb|AEB76855.1| pseudouridine synthase [Clostridium botulinum BKT015925] Length = 240 Score = 258 bits (660), Expect = 9e-67, Method: Composition-based stats. Identities = 63/237 (26%), Positives = 120/237 (50%), Gaps = 7/237 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK 69 T +R+ K+++ G SR+E++ ++ + ++++G ++ V V I+V G + Sbjct: 1 MTMERLDKILSNLGYGSRKEIKVLVKKGEIEIDGEKIKDNGVKVDPNKSIIKVSGEEINY 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTND 127 + + +KP G+V+ D + TV D L ++ VGRLD +TEG LL+TND Sbjct: 61 R-KYIYLMMNKPAGVVSATFD-NYDETVIDLLDYEYTVFDPFPVGRLDKDTEGFLLITND 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G L L P ++Y VD+ + +KGI++ G ++ + + + Sbjct: 119 GDLNHRLTSPKWHVDKIYYAEIDKIVDEKDIKAFEKGIMLEDGYRCLPAKLRVLSADENG 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V + ++EGK ++K++FE + KV L R+ G L +L G RE+++ ++ Sbjct: 179 SEVNITIQEGKFHQVKRMFEARDKKVIYLKRLQMGNLVLDESLSEGEYRELTEDEVK 235 >gi|157148091|ref|YP_001455410.1| 23S rRNA pseudouridine synthase F [Citrobacter koseri ATCC BAA-895] gi|157085296|gb|ABV14974.1| hypothetical protein CKO_03898 [Citrobacter koseri ATCC BAA-895] Length = 291 Score = 258 bits (660), Expect = 9e-67, Method: Composition-based stats. Identities = 72/294 (24%), Positives = 126/294 (42%), Gaps = 10/294 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRRE +R I Q V +NG VM D ++V+G + Sbjct: 3 PDSSVRLNKYISESGICSRREADRYIEQGNVFINGKRAT-IGDQVMPGDVVKVNGRLIEP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 AE +KP+G+V+T D + R + D + + R+ +GRLD +++GL+ LTN Sbjct: 62 REAEDLVFIALNKPVGIVSTTEDSE-RDNIVDFV-NHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V V D + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPVTDDFIRGMGAGVPILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E F ++V +L R L L G R+++ L Sbjct: 176 VFRITLIQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLSGLPPGEWRDLTDDELIALFKL 235 Query: 248 HLLEEAQVNLDAPIYSSETLVR-DRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ + + RP + E ++ R N + ++KK Sbjct: 236 IENSSSEAKPTSKAKAKPKTAGIKRPVVKIEKTNEKARPASNGKRFTSPGRKKK 289 >gi|78187542|ref|YP_375585.1| pseudouridine synthase, Rsu [Chlorobium luteolum DSM 273] gi|78167444|gb|ABB24542.1| ribosomal large subunit pseudouridine synthase B [Chlorobium luteolum DSM 273] Length = 250 Score = 258 bits (660), Expect = 9e-67, Method: Composition-based stats. Identities = 79/244 (32%), Positives = 125/244 (51%), Gaps = 8/244 (3%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVD 63 N+ ++ R+++ +A GIASRR ++M+ + RV +NG+L V V+ D + VD Sbjct: 4 NVEKKQNEAVRINRYLAMCGIASRRAADQMVLEGRVTINGVLASEPGVKVVPGKDEVIVD 63 Query: 64 GVPLRKAE-RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 G + E R L++KP ++TT SD R V D + + RV VGRLD T G+L Sbjct: 64 GSKFAQPEGRKIYILFNKPRNVITTSSDERNREMVLDFI-DVNERVYPVGRLDRKTTGVL 122 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLD 180 LLTNDG LA L PS+ + Y Q L LL G+ + G Q + Sbjct: 123 LLTNDGMLANKLMHPSSNVKKEYIAVLDAPFPQASLPLLTGGMRLSDTGEKVSPCQAKIM 182 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 GS W + + EGKN +++++F+ ++V RL R +Y +G L G R +++ Sbjct: 183 G-DGSQVW--ISIHEGKNHQVRRMFKTLGFEVTRLDRPTYAGLTVGDLRRGQWRHLTRTE 239 Query: 241 LREQ 244 +++ Sbjct: 240 VQQL 243 >gi|315655295|ref|ZP_07908195.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus curtisii ATCC 51333] gi|315490235|gb|EFU79860.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus curtisii ATCC 51333] Length = 278 Score = 258 bits (660), Expect = 9e-67, Method: Composition-based stats. Identities = 77/237 (32%), Positives = 121/237 (51%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + P+R+ KV++RAG+ASRR E +IA+ RV++NG + V V+ TD I VDG + Sbjct: 36 EATSEPERLQKVLSRAGVASRRASEDLIARGRVQINGETVREMGVKVLPTDRITVDGQRI 95 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++W +HKP+G V++ D R + D + + RV +VGRLD T GLLLLTN+ Sbjct: 96 HTDTVLQVWAFHKPVGTVSSMQPEDDRPCIGDWVTKLPERVYNVGRLDAATAGLLLLTNN 155 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA + PS + + Y GQV +L++G+ ++ + L + ++ Sbjct: 156 GELANRIMHPSYEVPKTYVAVVQGQVKMGLGKVLRRGVELEDGKVKVDKFKLIEVRRGSS 215 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V + L GKNR ++++ V+ L R L L G R + K L Sbjct: 216 IVQLTLHSGKNRVVRRLLSAVGHPVSALTRTGIANLTLDGLKEGQFRLLHGKELAAL 272 >gi|283856285|ref|YP_162311.2| pseudouridine synthase [Zymomonas mobilis subsp. mobilis ZM4] gi|283775281|gb|AAV89200.2| pseudouridine synthase [Zymomonas mobilis subsp. mobilis ZM4] Length = 510 Score = 258 bits (660), Expect = 9e-67, Method: Composition-based stats. Identities = 114/229 (49%), Positives = 156/229 (68%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR++K+++RAGIASRR +E MI + R+ ++G+ +E+ A + S D + VDG P+ T Sbjct: 272 QRIAKLLSRAGIASRRMIEAMIEEGRIAIDGVTVEKPATLLTSLDGVTVDGKPVNAPTET 331 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL+LYHK GL+TT DP+GR T++D LP+ RV+ VGRLD+NTEGLLLLT DGG R+ Sbjct: 332 RLFLYHKATGLLTTERDPEGRKTIYDRLPADLPRVMPVGRLDMNTEGLLLLTTDGGFKRM 391 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T R YR R G V QD+L L +G+ I GI YG + L+ + G N WV + L Sbjct: 392 LELPATHIERCYRARVFGDVSQDQLEELIEGVTIDGIHYGSIDANLERRTGRNGWVEMKL 451 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+NRE+++V + +V+RLIRISYGPF LG L G+ EV L+ Sbjct: 452 HEGRNREVRRVLGYLGLQVSRLIRISYGPFLLGDLPVGAVEEVDPATLK 500 >gi|228952702|ref|ZP_04114776.1| Pseudouridine synthase [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228958637|ref|ZP_04120355.1| Pseudouridine synthase [Bacillus thuringiensis serovar pakistani str. T13001] gi|229069893|ref|ZP_04203175.1| Pseudouridine synthase [Bacillus cereus F65185] gi|229079559|ref|ZP_04212096.1| Pseudouridine synthase [Bacillus cereus Rock4-2] gi|228703728|gb|EEL56177.1| Pseudouridine synthase [Bacillus cereus Rock4-2] gi|228713296|gb|EEL65189.1| Pseudouridine synthase [Bacillus cereus F65185] gi|228801058|gb|EEM47957.1| Pseudouridine synthase [Bacillus thuringiensis serovar pakistani str. T13001] gi|228806978|gb|EEM53523.1| Pseudouridine synthase [Bacillus thuringiensis serovar kurstaki str. T03a001] Length = 238 Score = 258 bits (660), Expect = 9e-67, Method: Composition-based stats. Identities = 65/232 (28%), Positives = 113/232 (48%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKSVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLFA 229 >gi|171779942|ref|ZP_02920846.1| hypothetical protein STRINF_01729 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] gi|171281290|gb|EDT46725.1| hypothetical protein STRINF_01729 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] Length = 242 Score = 258 bits (660), Expect = 9e-67, Method: Composition-based stats. Identities = 67/237 (28%), Positives = 115/237 (48%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + AGI SR +V++++ +++V VNG + + D I G L E+ Sbjct: 1 MRLDKFLVGAGIGSRNDVKQLLKKKQVTVNGEIETSPKTQIDEKIDKIVCQGENLSY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D + TV D L V VGRLDI+T GLL LTN+G L Sbjct: 60 YVYYMLNKPKGVISATED-NHHKTVLDLLDKTAWDKEVFPVGRLDIDTHGLLFLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A + P ++YR + G + + + KGI ++ Q+ + + + Sbjct: 119 AHAMLSPKKHVDKLYRAKVAGIMTAEDVEHFAKGIELKDFTCQPAQLEILEIDEAAKTSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 V + ++EGK ++K++ +V L R+S GP QL L G R ++ + L + Sbjct: 179 VAITIKEGKFHQVKRMVLACGKEVTDLERLSMGPLQLDENLSLGEWRRLTAEELAKL 235 >gi|88801341|ref|ZP_01116869.1| putative ribosomal large subunit pseudouridine synthase [Polaribacter irgensii 23-P] gi|88781999|gb|EAR13176.1| putative ribosomal large subunit pseudouridine synthase [Polaribacter irgensii 23-P] Length = 305 Score = 258 bits (660), Expect = 9e-67, Method: Composition-based stats. Identities = 73/238 (30%), Positives = 116/238 (48%), Gaps = 3/238 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + T R++K IA +G+ SRRE + I V+VNG L+ V D + DG + Sbjct: 66 SDESTGIRLNKYIANSGVCSRREADTYIEHGSVEVNGNLVTEMGYKVQPDDVVRFDGTGI 125 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 E+ + L +KP +TT D GR TV D + + R+ VGRLD NT GLLL TN Sbjct: 126 T-PEQKKYILLNKPKNYITTMDDDRGRKTVMDLISNATKERIYPVGRLDRNTTGLLLFTN 184 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA+ L P ++Y +++ L L+ ++I+G + Sbjct: 185 DGELAKKLTHPKHDVRKLYHASLDKKLELKDLEKLRGEVLIEG-KKVFIDAVSYVDGQPK 243 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + V + + G+NR ++K+FE +KV++L R+ + L G RE++ + L Sbjct: 244 SEVGIEIHSGRNRIVRKIFEHLGYKVSKLDRVIFAELTKRNLPRGRWRELTNQELSNL 301 >gi|47565741|ref|ZP_00236781.1| pseudouridine synthase family 1 protein VC2223 [Bacillus cereus G9241] gi|228985473|ref|ZP_04145630.1| Pseudouridine synthase [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|47557377|gb|EAL15705.1| pseudouridine synthase family 1 protein VC2223 [Bacillus cereus G9241] gi|228774238|gb|EEM22647.1| Pseudouridine synthase [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] Length = 238 Score = 258 bits (660), Expect = 9e-67, Method: Composition-based stats. Identities = 65/232 (28%), Positives = 113/232 (48%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKSVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLFA 229 >gi|291087005|ref|ZP_06345121.2| ribosomal large subunit pseudouridine synthase B [Clostridium sp. M62/1] gi|291076613|gb|EFE13977.1| ribosomal large subunit pseudouridine synthase B [Clostridium sp. M62/1] Length = 283 Score = 258 bits (660), Expect = 9e-67, Method: Composition-based stats. Identities = 73/270 (27%), Positives = 123/270 (45%), Gaps = 10/270 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +++ R++K ++ +G SRRE +R+I V V+G + + + IE DG Sbjct: 18 MEKGTQEIRLNKFLSESGFCSRREADRLIEAGEVLVDGAVA-SMGMKIREGQQIEADGTL 76 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + +R + L +KP G+V T SD D + D + RV VGRLD ++EGL+L+TN Sbjct: 77 ISGKDRPVVLLVNKPRGIVCTTSDRDRAENIVDFIGYPL-RVYPVGRLDKDSEGLILMTN 135 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 G L + + Y V ++ + LN ++KG+ I V +K Sbjct: 136 QGELVNRILKGRYGHEKEYLVSVDREITEQFLNRMRKGVKILDTVTRPCTVEKTGEKS-- 193 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILRE 243 + L +G NR+I+++ E ++V L R+ +L L G RE+++ K L E Sbjct: 194 --FRIILTQGLNRQIRRMCEALGYRVRTLKRVRIMNLRLDGLKTGEYREITRGEWKELTE 251 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPN 273 L E + + SE R+ Sbjct: 252 LLEGKG-ERRKADQKNAGKHSELGQREPEK 280 >gi|228939520|ref|ZP_04102108.1| Pseudouridine synthase [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228972373|ref|ZP_04132984.1| Pseudouridine synthase [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228978987|ref|ZP_04139351.1| Pseudouridine synthase [Bacillus thuringiensis Bt407] gi|229044113|ref|ZP_04191799.1| Pseudouridine synthase [Bacillus cereus AH676] gi|228725226|gb|EEL76497.1| Pseudouridine synthase [Bacillus cereus AH676] gi|228780698|gb|EEM28912.1| Pseudouridine synthase [Bacillus thuringiensis Bt407] gi|228787390|gb|EEM35358.1| Pseudouridine synthase [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228820220|gb|EEM66257.1| Pseudouridine synthase [Bacillus thuringiensis serovar berliner ATCC 10792] Length = 238 Score = 258 bits (660), Expect = 9e-67, Method: Composition-based stats. Identities = 66/232 (28%), Positives = 113/232 (48%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G +VT + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLFA 229 >gi|189501858|ref|YP_001957575.1| hypothetical protein Aasi_0430 [Candidatus Amoebophilus asiaticus 5a2] gi|189497299|gb|ACE05846.1| hypothetical protein Aasi_0430 [Candidatus Amoebophilus asiaticus 5a2] Length = 252 Score = 258 bits (660), Expect = 9e-67, Method: Composition-based stats. Identities = 72/238 (30%), Positives = 118/238 (49%), Gaps = 4/238 (1%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + + R++K I+ AGI SRRE + +I R+ VNG + V +TD ++ Sbjct: 10 KVASDQINYVRLNKWISNAGICSRREADELIQAGRITVNGEKITTLGYQVKNTDIVKFRD 69 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLL 123 L+ + L +KP +TT DP+ R TV D + RV VGRLD NT GLL+ Sbjct: 70 KVLK-PNKHVYILLNKPRNCITTAFDPERRRTVLDFVKGACQERVYPVGRLDRNTTGLLV 128 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG LA+ L PS Q ++Y+V + L +K GI ++ +++ + Sbjct: 129 LTNDGDLAQKLAHPSYQIKKIYQVELASPIQPKDLAAIKAGICLKDGIVQVDSISIV--Q 186 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G + + + + GKNR I+++FE +++ L R+ Y L R ++ + + Sbjct: 187 GDESKLGIEIHSGKNRIIRRLFEHLGYQIINLDRVMYANLTKKELPRSKWRFLTNQEV 244 >gi|241668468|ref|ZP_04756046.1| 16S rRNA pseudouridine synthase [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|254877002|ref|ZP_05249712.1| ribosomal large subunit pseudouridine synthase B [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|254843023|gb|EET21437.1| ribosomal large subunit pseudouridine synthase B [Francisella philomiragia subsp. philomiragia ATCC 25015] Length = 271 Score = 258 bits (660), Expect = 9e-67, Method: Composition-based stats. Identities = 97/251 (38%), Positives = 135/251 (53%), Gaps = 9/251 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N EN TP+R+ K++A+ GI SRR++E I Q RV+VNG + D I Sbjct: 1 MRRINQNIEN-TPERLQKLLAKYGIGSRRKIEEFIEQGRVRVNGKVAT-LGDKATDKDKI 58 Query: 61 EVDGVPL----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 DG L + R R+ +YHK G V T D R TVFD+LP + R I +GRLD Sbjct: 59 SFDGKALHSYGQPMTRPRVIIYHKREGEVCTSKDEKDRKTVFDSLPKLAKSRWIMIGRLD 118 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG-QVDQDKLNLLKKGIVIQGICYGD 174 INT GLLL T DG LA L PS + R Y VR +G ++ + LN LK+GI ++ Sbjct: 119 INTTGLLLFTTDGDLANRLMHPSYEIEREYAVRVYGQELSDETLNKLKEGIQLEDGMAKF 178 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGST 233 + +G+N W V L EG+NRE++++FE V+RL RI +G L + G T Sbjct: 179 NNIKFSGGEGANLWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGDIILPKFVSRGKT 238 Query: 234 REVSKKILREQ 244 E++ + Sbjct: 239 LELNPSEVNRL 249 >gi|56421368|ref|YP_148686.1| 16S pseudouridylate synthase [Geobacillus kaustophilus HTA426] gi|56381210|dbj|BAD77118.1| 16S pseudouridylate synthase [Geobacillus kaustophilus HTA426] Length = 248 Score = 258 bits (660), Expect = 9e-67, Method: Composition-based stats. Identities = 69/232 (29%), Positives = 112/232 (48%), Gaps = 8/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VKV+G + A V + V G + + Sbjct: 4 RIDKLLAHMGYGTRKEVKKLLKSGAVKVDGAPVRDAKTKVRPDEQIVTVWGETVEY-KPF 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+V+ D TV D L VGRLD +TEGLLLLTNDG LA Sbjct: 63 IYLMMNKPSGVVSATEDA-VEETVVDLLEEEDRAFSPFPVGRLDKDTEGLLLLTNDGQLA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P + Y G+V + + ++G+V+ G ++ + + G + V Sbjct: 122 HQLLSPKKHVPKTYFAVVDGEVTEADVAAFQRGVVLDDGYETKPAKLVVL-KSGLRSDVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + EGK ++K++F+ +V L RI GP L L G RE++ + + Sbjct: 181 VTITEGKFHQVKRMFQAVGKRVVYLKRIQMGPLPLDPDLAVGEYRELTDEEV 232 >gi|301793545|emb|CBW35921.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus pneumoniae INV104] Length = 240 Score = 258 bits (660), Expect = 1e-66, Method: Composition-based stats. Identities = 72/235 (30%), Positives = 113/235 (48%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPKGVISATEDPKHR-TVMDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAW 188 A VL P + Y + G + Q+ + +GI ++ + L + + + + Sbjct: 119 AHVLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPAILELVSIDTEKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >gi|237747775|ref|ZP_04578255.1| ribosomal large subunit pseudouridine synthase B [Oxalobacter formigenes OXCC13] gi|229379137|gb|EEO29228.1| ribosomal large subunit pseudouridine synthase B [Oxalobacter formigenes OXCC13] Length = 510 Score = 258 bits (660), Expect = 1e-66, Method: Composition-based stats. Identities = 95/314 (30%), Positives = 148/314 (47%), Gaps = 7/314 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + + E+ P ++ KV+A AG+ SRR++E +I RV VNG ++ TD + ++ Sbjct: 160 RELRAEDDAP-KLHKVLADAGLGSRRDMEELIIAGRVSVNGEPA-HIGQRILPTDQVRIN 217 Query: 64 GVPLRKAER---TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 G L++ ++ LYHKP G + + DP+ R++VFDNLPS S+ ++VGRLD NTE Sbjct: 218 GKLLQRKVTKSLPKVMLYHKPAGEIVSRDDPEKRASVFDNLPSLKNSKWLAVGRLDFNTE 277 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL TN+G LA L P R Y VR G++++ L G+ + + Sbjct: 278 GLLLFTNNGDLANRLMHPRYNIEREYAVRTLGELEEGMRQKLLAGVDLGDGIGQFSSIAD 337 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G N W V + EG+NRE++++FE V+RLIR YG L L G E+ Sbjct: 338 GGGEGINKWYRVTIGEGRNREVRRMFESVGLTVSRLIRTRYGVITLPQNLKRGRWDELDD 397 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +R + +E + R + + +N S+ Sbjct: 398 NAVRNLMRLSGMEPKGDKSATETAKGRSAGAKRQGQDRKGSFGRSETLSIHEFRNNDSRS 457 Query: 299 KKLATPVHRRNLAS 312 KK T + S Sbjct: 458 KKGPTSAQKGAPRS 471 >gi|254515164|ref|ZP_05127225.1| ribosomal large subunit pseudouridine synthase B [gamma proteobacterium NOR5-3] gi|219677407|gb|EED33772.1| ribosomal large subunit pseudouridine synthase B [gamma proteobacterium NOR5-3] Length = 327 Score = 258 bits (660), Expect = 1e-66, Method: Composition-based stats. Identities = 101/310 (32%), Positives = 155/310 (50%), Gaps = 11/310 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA- 70 +++ KV+AR+G+ SRRE+ER I Q RV ++G V++ IEVDG PL Sbjct: 18 DGEKLQKVLARSGLGSRREMERWIEQDRVTIDGKPA-SLGDRVVAGQRIEVDGRPLAAGD 76 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 E+TR LYHKP G V + DP+GR TVF+ LP + S R IS+GRLD NT GLLL T DG Sbjct: 77 GEKTRCLLYHKPTGEVCSRKDPEGRRTVFERLPKVKSGRWISIGRLDYNTSGLLLFTTDG 136 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS R Y VR G V ++ ++ + +G++++ + G NAW Sbjct: 137 ELANALMHPSANIEREYMVRVMGDVTEENISAMLEGVMLEDGVARFTDIQSGGGDGINAW 196 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL-- 245 V L EG+NRE+++++E V+RL R+ YG + + + G +E++ + Sbjct: 197 YYVVLMEGRNREVRRLWESQGLTVSRLKRVRYGDLFVPSKVKKGQYQELASNEINGLYRM 256 Query: 246 ----GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + ++ + + R R N ++ +K S K K Sbjct: 257 AGMPAKDVEPPSREDRNKHKRMEGKRGRVRGNKHAKDDFGSRDARKEKSGKGRKPGSKST 316 Query: 302 ATPVHRRNLA 311 + P ++R Sbjct: 317 SAPKNKRRTR 326 >gi|289548362|ref|YP_003473350.1| pseudouridine synthase [Thermocrinis albus DSM 14484] gi|289181979|gb|ADC89223.1| pseudouridine synthase [Thermocrinis albus DSM 14484] Length = 247 Score = 258 bits (660), Expect = 1e-66, Method: Composition-based stats. Identities = 77/232 (33%), Positives = 118/232 (50%), Gaps = 3/232 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R++K ++ G+ SRR+ +++I + RVKVNG+++ + D +EVDG L+ R Sbjct: 9 RLNKYLSMCGVTSRRKADQLIKEGRVKVNGLVVRELGYKIDPHRDTVEVDGKVLKPP-RK 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFD-NLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R +KP +T G D L I RV GRLD N EGLL+LTNDG LA Sbjct: 68 RYIALYKPCCYLTAIGRGVGDKKPLDELLKGIPERVFPAGRLDYNAEGLLILTNDGELAN 127 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY+V G+V+Q L + +G + V +G N W+ + Sbjct: 128 RILHPRYKLPKVYKVLVRGKVEQATLKRMLEGAQLLDGFAKPQDVKFLRYEGENTWLQIT 187 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 G+ +K+ F KV RLIRI+ GP +LG L G R+++ + + E Sbjct: 188 FTIGRKHIVKRYCAHFGHKVLRLIRIAIGPIRLGKLSPGKWRDLTLQEVTEL 239 >gi|225028067|ref|ZP_03717259.1| hypothetical protein EUBHAL_02337 [Eubacterium hallii DSM 3353] gi|224954615|gb|EEG35824.1| hypothetical protein EUBHAL_02337 [Eubacterium hallii DSM 3353] Length = 273 Score = 258 bits (660), Expect = 1e-66, Method: Composition-based stats. Identities = 63/235 (26%), Positives = 110/235 (46%), Gaps = 7/235 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N P R++K ++ AG+ SRR+ +R + Q R+ V+G + V + I VDG + Sbjct: 32 NGEPMRLNKFLSDAGVCSRRQADRYVEQGRILVDGEPAQ-MGQKVHAGQDIRVDGKRVSV 90 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + + +KP G+V T + + V + R+ VGRLD ++EGL+L+TNDG Sbjct: 91 SRKQIVLAVNKPKGIVCTTEKREKDNIV--DFIGYPERIYPVGRLDKDSEGLILMTNDGE 148 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + V L + +G+ I +V Sbjct: 149 LMNEILKARNYHEKEYEVTINRPVTNVFLKQMSEGVEILDTVTRPCKVKRTGV----YTF 204 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+++ E ++V L R+ LG+L G RE++ + L + Sbjct: 205 RIILTQGLNRQIRRMCEACGYRVRELKRLRIMNIHLGSLPTGKYREITGEELSKL 259 >gi|167627916|ref|YP_001678416.1| 16S rRNA pseudouridine synthase [Francisella philomiragia subsp. philomiragia ATCC 25017] gi|167597917|gb|ABZ87915.1| 16S rRNA pseudouridine synthase [Francisella philomiragia subsp. philomiragia ATCC 25017] Length = 271 Score = 258 bits (660), Expect = 1e-66, Method: Composition-based stats. Identities = 97/251 (38%), Positives = 135/251 (53%), Gaps = 9/251 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N EN TP+R+ K++A+ GI SRR++E I Q RV+VNG + D I Sbjct: 1 MRRINQNTEN-TPERLQKLLAKYGIGSRRKIEEFIEQGRVRVNGKVAT-IGDKATDKDKI 58 Query: 61 EVDGVPL----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 DG L + R R+ +YHK G V T D R TVFD+LP + R I +GRLD Sbjct: 59 SFDGKALHSYGQPMTRPRVIIYHKREGEVCTSKDEKDRKTVFDSLPRLAKSRWIMIGRLD 118 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG-QVDQDKLNLLKKGIVIQGICYGD 174 INT GLLL T DG LA L PS + R Y VR +G ++ + LN LK+GI ++ Sbjct: 119 INTTGLLLFTTDGDLANRLMHPSYEIEREYAVRVYGQELSDETLNKLKEGIQLEDGMAKF 178 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGST 233 + +G+N W V L EG+NRE++++FE V+RL RI +G L + G T Sbjct: 179 NNIKFSGGEGANLWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGNIILPKFVSRGKT 238 Query: 234 REVSKKILREQ 244 E++ + Sbjct: 239 LELNPSEVNRL 249 >gi|228960820|ref|ZP_04122455.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar pakistani str. T13001] gi|228798842|gb|EEM45821.1| RNA pseudouridine synthase [Bacillus thuringiensis serovar pakistani str. T13001] Length = 229 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 64/234 (27%), Positives = 114/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +N + A+ V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINSEICTHGAL-VSDGDRVTIDGQVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + N + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNII--NYINYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + +G+ I+ +VT + + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSRGVKIKDGMTKPCKVT----RVDQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +L L G R V+ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELEILIG 227 >gi|256027784|ref|ZP_05441618.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. D11] gi|289765737|ref|ZP_06525115.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. D11] gi|289717292|gb|EFD81304.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium sp. D11] Length = 234 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 71/231 (30%), Positives = 130/231 (56%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--E 71 R++K ++ GIASRR V++ I + R+ VNG + +N+ D+I +DG ++ E Sbjct: 1 MRINKFLSTLGIASRRAVDKYIEEGRINVNGNIATT-GMNISENDNIFIDGKKIKTDVNE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP+ ++++ SD GR TV D + R+ +GRLD T GL+LLTNDG L Sbjct: 60 EKVYFMLNKPLEVLSSSSDDRGRKTVVDLI-KTDKRIFPIGRLDYMTSGLILLTNDGELF 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P ++ + Y V+ G++ ++++ LKKG+++ +++ + + + Sbjct: 119 NRIVHPKSEIYKKYYVKIFGEIKKEEIAELKKGVLLNDGKTLPAKISGIKYNKNKTSMYI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +REG+NR+I+++ E F +KV L R G LG L G R+++K+ + Sbjct: 179 SIREGRNRQIRRMIEKFGYKVLMLRREKIGELSLGDLEEGKYRKLTKQEIE 229 >gi|217963560|ref|YP_002349238.1| RNA pseudouridine synthase family protein [Listeria monocytogenes HCC23] gi|290893629|ref|ZP_06556611.1| rsuA protein [Listeria monocytogenes FSL J2-071] gi|217332830|gb|ACK38624.1| RNA pseudouridine synthase family protein [Listeria monocytogenes HCC23] gi|290556831|gb|EFD90363.1| rsuA protein [Listeria monocytogenes FSL J2-071] gi|307571864|emb|CAR85043.1| ribosomal small subunit pseudouridine synthase A [Listeria monocytogenes L99] Length = 233 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 111/233 (47%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D + V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGTPVVYQE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG L Sbjct: 60 FVYFMLHKPQNVVSATED-NVSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y + G V + + GI + G ++ + + + Sbjct: 119 AHNLLSPKKHIDKTYYAKIDGDVVAEDVTAFADGITLDDGYTCKPARLEI----INPNEI 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V ++EGK ++K++F V+ L RIS G QL +L G R +++ L Sbjct: 175 KVTIQEGKFHQVKRMFAARGKTVSYLKRISMGNLQLDESLELGEYRPLTETEL 227 >gi|160895210|ref|ZP_02075982.1| hypothetical protein CLOL250_02769 [Clostridium sp. L2-50] gi|156863089|gb|EDO56520.1| hypothetical protein CLOL250_02769 [Clostridium sp. L2-50] Length = 272 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 78/268 (29%), Positives = 130/268 (48%), Gaps = 10/268 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K ++ AGI SRR + I + R+ +NG + + D + VDG P+RK E Sbjct: 3 EGIRINKYLSEAGICSRRAADEYILKGRITINGKPA-EMGQKIEANDRVMVDGKPVRKRE 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 T + Y+KP+GL T S D +FD++ R+ VGRLD +++GLLLLTNDG L+ Sbjct: 62 ETVILAYNKPLGLTCTAS-HDDPDNIFDHIKYPI-RLQYVGRLDKDSQGLLLLTNDGDLS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 ++ + YRVR + + + L + G+ I ++ K N + Sbjct: 120 NSIQKSVNNHEKEYRVRVNKPITDEFLTQMAAGVPILDTVTKKCRLY----KIDNYSFKI 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK---ILREQLGPH 248 + +G NR+I+++ E+F +KV L R+ +LG L G R ++K+ LR + Sbjct: 176 IITQGLNRQIRRMCEYFGYKVVNLKRLRVINIRLGNLRPGEYRHLTKEEETELRRLVERK 235 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIIS 276 + + P +E V +S Sbjct: 236 EEVKTKREEAQPDNKNEQNVVGNKRYVS 263 >gi|229096863|ref|ZP_04227832.1| Pseudouridine synthase [Bacillus cereus Rock3-29] gi|228686473|gb|EEL40382.1| Pseudouridine synthase [Bacillus cereus Rock3-29] Length = 235 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 67/232 (28%), Positives = 113/232 (48%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 1 MRINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G +VT + S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVT----QLSKYEFQIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +G NR+I+++ E ++V L R +L L G R++SKK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKEKRRLF 225 >gi|149006033|ref|ZP_01829762.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP18-BS74] gi|307126496|ref|YP_003878527.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae 670-6B] gi|147762389|gb|EDK69350.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP18-BS74] gi|306483558|gb|ADM90427.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae 670-6B] gi|332076726|gb|EGI87188.1| hypothetical protein SPAR148_0259 [Streptococcus pneumoniae GA17545] Length = 240 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 71/235 (30%), Positives = 114/235 (48%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L + VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEIFPVGRLDIDTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAW 188 A VL P + Y + G + Q+ + + +GI ++ + L + + + + Sbjct: 119 AHVLLSPKRHVDKTYLAQVKGIMTQEDVEIFAEGIPLKDFTCQPAILELVSIDTEKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >gi|254226106|ref|ZP_04919703.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae V51] gi|125621341|gb|EAZ49678.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae V51] Length = 231 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 103/230 (44%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREITL-HGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + HKP G+V +H D T F L + GRLDI+T GLLL+T+DG + Sbjct: 60 RYIMMHKPDGVVCSHEDGFN-QTAFTLLDEVNVEDLHFAGRLDIDTTGLLLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D +GI ++G + L+ S V + Sbjct: 119 RVTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEV--ISETEVLLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L TL G R ++++ + Sbjct: 177 IHEGKYHQVKRMFAALGNKVIGLHRKRIGQITLDETLEPGEYRYLTEEEV 226 >gi|261408369|ref|YP_003244610.1| pseudouridine synthase [Paenibacillus sp. Y412MC10] gi|261284832|gb|ACX66803.1| pseudouridine synthase [Paenibacillus sp. Y412MC10] Length = 253 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 75/240 (31%), Positives = 121/240 (50%), Gaps = 12/240 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 T QR+ KV++ G SR E+++ Q + VNG + + +V D IE +G ++ Sbjct: 7 TTQRLDKVLSNLGFGSRAELKKKAKQGSIVVNGTVTKDPGKHVDPYADIIEFEGETIQYR 66 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDG 128 E + HKP G+V+ D R TV D L + + VGRLD +TEGLLLLTNDG Sbjct: 67 E-YVYLMLHKPPGVVSATEDLRDR-TVLDLLDAEYRVFEPFPVGRLDKDTEGLLLLTNDG 124 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN- 186 LA L P + Y G+VD++ + G+ + G ++ + + + Sbjct: 125 KLAHELLSPRKHIPKTYEATVEGRVDEEDVRRFAAGVTLDDGYVTLPGELAIHSHEERED 184 Query: 187 ----AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + +++ + EGK ++K++FE KV L RIS G +L L G+ RE++++ L Sbjct: 185 GVQLSRISLTIHEGKFHQVKRMFEAVGKKVVYLKRISMGELRLDENLEIGTYRELTEQEL 244 >gi|125625272|ref|YP_001033755.1| ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. cremoris MG1363] gi|124494080|emb|CAL99081.1| ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. cremoris MG1363] Length = 328 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 71/242 (29%), Positives = 112/242 (46%), Gaps = 13/242 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 R+ K +A +G+ SR EV+ ++ + RV V G + V + DG L E Sbjct: 87 MRLDKFLAESGLGSRSEVKVLLKKGRVTVAGEIQRDGRFQVDKNSRQVAFDGQILDYQE- 145 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+V+ D + TV L + VGRLD NTEGLL+LTNDG L Sbjct: 146 YYYYLLNKPQGVVSATKD-NVFKTVVQLLSEKDFRKDIFPVGRLDKNTEGLLILTNDGAL 204 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL------DTQK 183 L P + Y R G+V + +N +G+ ++ G ++ + D+Q Sbjct: 205 GHDLTQPKKHVEKEYFARIDGKVTDEIINKFAEGLTLKNGEKARPGELFVEKTYKGDSQS 264 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 G + + V + EGK ++K++FE V L RI G L L G+ R ++ + + Sbjct: 265 GWVSEIRVIIHEGKFHQVKRMFEAVEMYVLYLKRIRMGNLALDSDLALGAYRPLTIEEIE 324 Query: 243 EQ 244 Sbjct: 325 NL 326 >gi|254361964|ref|ZP_04978095.1| pseudouridylate synthase [Mannheimia haemolytica PHL213] gi|261493683|ref|ZP_05990202.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. BOVINE] gi|261494350|ref|ZP_05990844.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. OVINE] gi|153093511|gb|EDN74491.1| pseudouridylate synthase [Mannheimia haemolytica PHL213] gi|261309999|gb|EEY11208.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. OVINE] gi|261310683|gb|EEY11867.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str. BOVINE] Length = 233 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 58/230 (25%), Positives = 105/230 (45%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + +++ V VNG + + A + D I + L E Sbjct: 1 MRLDKFIAENTGLTRSQAAKVLKSGVVTVNGNIEKSGAAKISQEDEIYYEDQKLEWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ +KP G + +H D + TVF + +++ + GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLYKPQGYICSHDDGEY-PTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+ L +GI+++G + L+ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEDFYAQRLAEGILLRGEKEPTLPAQLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G L L G R ++ + + Sbjct: 178 ISEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDERLEEGEFRSLTSEEI 227 >gi|295093016|emb|CBK82107.1| ribosomal small subunit pseudouridine synthase A [Coprococcus sp. ART55/1] Length = 241 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 72/234 (30%), Positives = 118/234 (50%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + GI SR +V++ + + V VNG ++ + V + D I+ +G L + R Sbjct: 1 MRLDKFLVEMGIGSRSQVKQYVKKGTVTVNGAPVKSSDVKIDENNDTIKYNGRILNYS-R 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +L +KP G V+ D + TV D L + VGRLDI+TEGLLLLTNDG L Sbjct: 60 YRYFLLNKPAGCVSATKD-NVHQTVIDLLKGENTKDLSPVGRLDIDTEGLLLLTNDGALT 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC---YGDMQVTLDTQKGSNAW 188 L P+ + Y G V D +NL G+ I D+++ + + Sbjct: 119 HHLLSPAHHIPKTYYAEIDGYVTDDTINLFATGVDIGDEKPTLPADLRILSSDSTAARSE 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + + EG+ ++K++FE KV L RI+ G ++ +L G+ R +S++ + Sbjct: 179 IELIITEGRFHQVKRMFEAVGMKVTFLRRIAMGELKIDESLPTGAYRSLSEEEV 232 >gi|327438231|dbj|BAK14596.1| 16S rRNA uridine-516 pseudouridylate synthase [Solibacillus silvestris StLB046] Length = 234 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 64/232 (27%), Positives = 113/232 (48%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +A GI SRR ++ + RVK+NG++ V + D + VDG P+++ E Sbjct: 1 MRINKFLAETGIVSRRGADKWVEDGRVKINGVVATN-GSQVETGDEVLVDGKPVKRQEEL 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP+G+ +T ++ V D + R+ +GRLD ++EGLLLLTNDG + Sbjct: 60 VYIVLNKPVGITST-TEKQIEGNVVDFVNHRL-RIFHIGRLDKDSEGLLLLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V+ + ++ + G+ I +V +K S+ + L Sbjct: 118 ILRAENHHEKEYVVQVDKPITDQFIHDMSSGVEILDTTTLPCRV----EKVSSKVFKIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +G NR+I+++ + V RL RI +G L G R+++ K E Sbjct: 174 EQGLNRQIRRMCSALGYSVQRLQRIRIMNIHIGNLKVGQWRDLTDKERNELF 225 >gi|51595406|ref|YP_069597.1| 23S rRNA pseudouridine synthase F [Yersinia pseudotuberculosis IP 32953] gi|170025288|ref|YP_001721793.1| 23S rRNA pseudouridine synthase F [Yersinia pseudotuberculosis YPIII] gi|186894432|ref|YP_001871544.1| 23S rRNA pseudouridine synthase F [Yersinia pseudotuberculosis PB1/+] gi|51588688|emb|CAH20298.1| conserved hypothetical protein [Yersinia pseudotuberculosis IP 32953] gi|169751822|gb|ACA69340.1| pseudouridine synthase [Yersinia pseudotuberculosis YPIII] gi|186697458|gb|ACC88087.1| pseudouridine synthase [Yersinia pseudotuberculosis PB1/+] Length = 290 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 70/295 (23%), Positives = 129/295 (43%), Gaps = 12/295 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 + R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 5 SSIRLNKYISESGICSRRDGDRYIEQGNVFINGKRAT-VGDQVFAGDVVKVNGQIIEPRD 63 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E +KP G++TT + + R + D + + RV +GRLD +++GL+ LTN G Sbjct: 64 EEDLVFIALNKPAGIITTMEEGE-RDNISDFV-NHSKRVFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + V + + + G+ I G +V QK + Sbjct: 122 LVNKILRAGNNHEKEYVVTVNKPVTDEFIQGMSAGVPILGTVTKKCKV----QKEAPLVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ + F ++V +L R L L G R+++ L L Sbjct: 178 RITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNISLKGLPLGEWRDLTDDELLTLF--KL 235 Query: 250 LEEAQVNLDAPIYS-SETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 +E + + + + RP I + + + S ++ +KK Sbjct: 236 IENSSSEEKTVKKAPPKPVAAKRPGIQGQKKAEKSDDNTASRKRFTQPGRKKKGR 290 >gi|15900214|ref|NP_344818.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae TIGR4] gi|111656756|ref|ZP_01407636.1| hypothetical protein SpneT_02001953 [Streptococcus pneumoniae TIGR4] gi|148988021|ref|ZP_01819484.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP6-BS73] gi|149011151|ref|ZP_01832456.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP19-BS75] gi|168493975|ref|ZP_02718118.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CDC3059-06] gi|225856037|ref|YP_002737548.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae P1031] gi|225858129|ref|YP_002739639.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae 70585] gi|225860315|ref|YP_002741824.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae Taiwan19F-14] gi|298229569|ref|ZP_06963250.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae str. Canada MDR_19F] gi|298254034|ref|ZP_06977620.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae str. Canada MDR_19A] gi|298502097|ref|YP_003724037.1| pseudouridylate synthase [Streptococcus pneumoniae TCH8431/19A] gi|14971752|gb|AAK74458.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae TIGR4] gi|147764787|gb|EDK71717.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP19-BS75] gi|147926485|gb|EDK77558.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP6-BS73] gi|183576148|gb|EDT96676.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CDC3059-06] gi|225721053|gb|ACO16907.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae 70585] gi|225725053|gb|ACO20905.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae P1031] gi|225728111|gb|ACO23962.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae Taiwan19F-14] gi|298237692|gb|ADI68823.1| pseudouridylate synthase [Streptococcus pneumoniae TCH8431/19A] Length = 240 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 72/235 (30%), Positives = 113/235 (48%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAW 188 A VL P + Y + G + Q+ + +GI ++ + L + + + + Sbjct: 119 AHVLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPAILELVSIDTEKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >gi|268593179|ref|ZP_06127400.1| ribosomal large subunit pseudouridine synthase F [Providencia rettgeri DSM 1131] gi|291311225|gb|EFE51678.1| ribosomal large subunit pseudouridine synthase F [Providencia rettgeri DSM 1131] Length = 289 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 70/297 (23%), Positives = 138/297 (46%), Gaps = 12/297 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + + R++K I+ +GI SRRE +R I Q V +NG V S D ++V+G + Sbjct: 2 DTRSSTRLNKYISESGICSRREADRYIEQGNVFINGKRA-GIGDQVFSGDVVKVNGQLIE 60 Query: 69 K--AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 E L +KP+G+V+T + + V + + +R+ +GRLD +++GL+ LTN Sbjct: 61 PRNEEDLVLIALNKPVGIVSTTESGEKDNIV--DYVNHSTRIFPIGRLDKDSQGLIFLTN 118 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 G L + + Y V + V + + + G+ I G +V K + Sbjct: 119 HGDLVNKILRAGNSHEKEYLVTVNKPVTDEFIRGMGAGVPILGTMTKKCKVK----KEAP 174 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ E F ++V +L R+ +L + G R+++ L E Sbjct: 175 FVFRITLVQGLNRQIRRMCEHFGFEVTKLERVRIMNVRLTGIPVGEWRDLTDDELIELF- 233 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 ++E+++ ++ P + +++ ++ N P +N ++K +K Sbjct: 234 -DMMEKSESDI-KPKKAQKSVSANKGNTKQASPSKPKVKTENPTRKKFTQPGRKKKK 288 >gi|228900980|ref|ZP_04065193.1| Pseudouridine synthase [Bacillus thuringiensis IBL 4222] gi|228908132|ref|ZP_04071980.1| Pseudouridine synthase [Bacillus thuringiensis IBL 200] gi|229190444|ref|ZP_04317444.1| Pseudouridine synthase [Bacillus cereus ATCC 10876] gi|228593057|gb|EEK50876.1| Pseudouridine synthase [Bacillus cereus ATCC 10876] gi|228851550|gb|EEM96356.1| Pseudouridine synthase [Bacillus thuringiensis IBL 200] gi|228858678|gb|EEN03125.1| Pseudouridine synthase [Bacillus thuringiensis IBL 4222] Length = 238 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 65/232 (28%), Positives = 113/232 (48%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLFA 229 >gi|254229618|ref|ZP_04923030.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. Ex25] gi|262394552|ref|YP_003286406.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. Ex25] gi|151937901|gb|EDN56747.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. Ex25] gi|262338146|gb|ACY51941.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. Ex25] Length = 233 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 55/230 (23%), Positives = 103/230 (44%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R++ ++I + V+G + + A V + + + A Sbjct: 1 MRLDKYLCDALGATRKQATKIIKSGDITVDGEVQKSGAFKVPEGVEVMWEDRVI-GAPGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + +KP V +H D T F L + GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLYKPADFVCSHED-GYNQTAFALLDEPKIENLHFAGRLDVDTTGLVLITDDGKWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D L++GI+++ + L+ + V + Sbjct: 119 RITSPKHKCEKTYRVWLVDAIQPDYAEKLEQGIILRNESEATLPARLEIVNEAENEVLLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G +L L G R ++++ + Sbjct: 179 IVEGKYHQVKRMFAALGNKVEYLHRERIGSIELDEALEPGDYRYLTQEEI 228 >gi|228921081|ref|ZP_04084416.1| Pseudouridine synthase [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228838627|gb|EEM83933.1| Pseudouridine synthase [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] Length = 238 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 65/232 (28%), Positives = 113/232 (48%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLFA 229 >gi|262275813|ref|ZP_06053622.1| ribosomal small subunit pseudouridine synthase A [Grimontia hollisae CIP 101886] gi|262219621|gb|EEY70937.1| ribosomal small subunit pseudouridine synthase A [Grimontia hollisae CIP 101886] Length = 234 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 67/230 (29%), Positives = 114/230 (49%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + +R++ +++ ++RV V+G +++ A+ + +E DG+ LR A Sbjct: 2 IRLDKFLCETVGVTRKQAAKILKEERVTVDGNIIKNGAIKIAEEADVEFDGMSLRLA-GP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 R ++ +KP G V +H DP TVF L I ++ GRLD +T GLLLLT+DG + Sbjct: 61 RYYMMNKPAGYVCSHDDP-YNPTVFVLLDEIGAEKLHIAGRLDCDTTGLLLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VYRV V + +GI ++G + + Q+ V + Sbjct: 120 RVTSPKHKCDKVYRVWLDDPVSPETEQCFAEGIKLRGERTETLPAQM--QRVGEKEVLLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R S G L L G RE++ + + Sbjct: 178 IHEGKYHQVKRMFAAVGNKVVGLHRESVGGLVLDEALEPGEYRELTDEEI 227 >gi|299530511|ref|ZP_07043931.1| Pseudouridine synthase, Rsu [Comamonas testosteroni S44] gi|298721487|gb|EFI62424.1| Pseudouridine synthase, Rsu [Comamonas testosteroni S44] Length = 529 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 101/339 (29%), Positives = 153/339 (45%), Gaps = 20/339 (5%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K ++ ++ KV+A+AG+ SR E+E++I + R+ VN + D + Sbjct: 150 MPAKRVLAPQVDSPKLHKVLAQAGMGSRLEMEQLILEGRISVNNEPA-HVGQRIQFGDIV 208 Query: 61 EVDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDI 116 +V+G P+R R+ YHKP+G V TH DP R TVF LP + SVGRLD+ Sbjct: 209 KVNGQPIRFRIDPPPARVIAYHKPVGEVVTHDDPQNRPTVFRKLPKLQHGKWQSVGRLDL 268 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLLL T+ G LA L P R Y R G + +++ L G+ ++ Sbjct: 269 NTEGLLLFTSSGELANSLMHPRFGLEREYAARVLGALSKEEKQRLLDGVQLEDGEASFGA 328 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTRE 235 V +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E Sbjct: 329 VEDGGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMMLPRGLKRGAWVE 388 Query: 236 VSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 + + ++ L+ A V AP+ S R N R ++ + NG+ Sbjct: 389 LDQADIQA-----LMSAAGVKERAPVERSSGGARGANNRGG-------RNNRSGGRGNGM 436 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREEN 334 + + W G + G N Sbjct: 437 NADRAPQGRREGGGQRRGEWD--GNRPAPSGMLGDNPRN 473 >gi|237808158|ref|YP_002892598.1| pseudouridine synthase [Tolumonas auensis DSM 9187] gi|237500419|gb|ACQ93012.1| pseudouridine synthase [Tolumonas auensis DSM 9187] Length = 231 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 63/232 (27%), Positives = 110/232 (47%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-ER 72 R+ K + + SR + +++ R+ VN ++++ A +V D + +D PL E+ Sbjct: 1 MRLDKHLHQCLGISRSQASQLLKAGRISVNSLIIKSGAQHVTEQDSVLLDDKPLDTPGEK 60 Query: 73 TRLWLYHKPIGLVTTHSD--PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP G V + D G + +FD S + + GRLD +T GL+L+TNDG Sbjct: 61 LYYFMLHKPQGYVCANGDASHPGITRLFDL--PCASELHAAGRLDADTTGLVLVTNDGQW 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + P Q + YRV + + + KGI+++ L+T + V Sbjct: 119 SHRVTSPRKQCDKTYRVWLAEPISPETEEIFAKGILLRSETQVTRPAQLET--ITPQEVL 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EGK ++K++F V RL R G L L GS RE++ + + Sbjct: 177 LTIHEGKYHQVKRMFAAVGNHVERLHRERIGELVLDADLPEGSYRELTPEEI 228 >gi|54112711|gb|AAV28989.1| NT02FT0029 [synthetic construct] Length = 271 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 97/251 (38%), Positives = 133/251 (52%), Gaps = 9/251 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N + + P+R+ K++A+ GI SRR++E I Q RVKVNG + D I Sbjct: 1 MRRANQINDK-NPERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVAT-LGDKASEADKI 58 Query: 61 EVDGVPL----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 DG L + R R+ +YHK G V T D R TVFD+LP + R I VGRLD Sbjct: 59 SFDGKALHSYGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLD 118 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-VDQDKLNLLKKGIVIQGICYGD 174 INT GLLL T DG LA L PS Q R Y VR GQ + + +N LK+GI ++ Sbjct: 119 INTTGLLLFTTDGDLANRLMHPSYQIEREYAVRVFGQQLSDETINKLKEGIQLEDGMAKF 178 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGST 233 + +G+N W V L EG+NRE++++FE V+RL RI +G L + G T Sbjct: 179 NSIKFSGGEGANLWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGDIILPKFVSRGKT 238 Query: 234 REVSKKILREQ 244 E++ + Sbjct: 239 LELNPSEVNRL 249 >gi|260685750|ref|YP_003216883.1| pseudouridine synthase [Clostridium difficile R20291] gi|260211766|emb|CBE02116.1| pseudouridine synthase [Clostridium difficile R20291] Length = 258 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 67/251 (26%), Positives = 114/251 (45%), Gaps = 24/251 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 QR+ K+++ G SR E+++ Q V VNG + V D I +G + E Sbjct: 5 QRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYREY 64 Query: 73 TRLWL-----------------YHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGR 113 L + +KP G ++ +D TV D + + VGR Sbjct: 65 IYLIMQNSVKQEPCDFSHGRFRMNKPDGYISATTD-KYDPTVLDLIDLSYLAFEPFPVGR 123 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LD +TEGLL+LTNDG L+ + P + Y + G V ++ + +G+V+ Y Sbjct: 124 LDKDTEGLLVLTNDGKLSHRVLSPKKHVPKTYYAKIDGVVTEEDVEAFLEGVVLDDG-YK 182 Query: 174 DMQVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAG 231 M L+ + + + + + EGK ++K++FE KV L R+S G +L +L G Sbjct: 183 TMPSQLNILKSDDESEIELTIHEGKFHQVKRMFESVGKKVVYLKRLSMGNLKLDESLELG 242 Query: 232 STREVSKKILR 242 RE++ + ++ Sbjct: 243 EYRELTDEEVK 253 >gi|238920493|ref|YP_002934008.1| 16S rRNA pseudouridylate synthase A [Edwardsiella ictaluri 93-146] gi|238870062|gb|ACR69773.1| conserved hypothetical protein [Edwardsiella ictaluri 93-146] Length = 235 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 58/234 (24%), Positives = 101/234 (43%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I++ SR V R + RV V+G++ ++ V + +G L Sbjct: 1 MRLDKFISQQLGISRSLVIRELRAARVTVDGVVARSGSLQVTPDQEVAYEGNVLTFITGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V + DPD + ++ + ++ + GRLD++T GL+LLT+DG + Sbjct: 61 RYFMLHKPEGYVCSTDDPDHATILYFIDEPMAEKLHAAGRLDLDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + L +GI++ G L+ V + + Sbjct: 121 ITSPRHHCEKSYLVTLEQPLAPQTAALFAQGIMLNGETDLTKPAQLEA--FDEHHVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 EG+ ++K++F +V L R G L L G R +S + L Sbjct: 179 SEGRYHQVKRMFAAVGNRVVGLHRERIGAIALDAALAPGEYRALSDDEVASALA 232 >gi|302866907|ref|YP_003835544.1| pseudouridine synthase [Micromonospora aurantiaca ATCC 27029] gi|302569766|gb|ADL45968.1| pseudouridine synthase [Micromonospora aurantiaca ATCC 27029] Length = 256 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 79/233 (33%), Positives = 119/233 (51%), Gaps = 1/233 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ SRR E +I ++RV VNG + + + D I VDG L+ R Sbjct: 19 ERLQKVLAAAGVGSRRACEDLIFRRRVTVNGRVAQLGDKADPARDVIVVDGERLQADVRL 78 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+VTT +D GR+ + D + + RV VGRLD ++EGLLLLTNDG LA Sbjct: 79 VYVAMNKPRGVVTTMADEKGRTELADFIGARLEQRVYHVGRLDADSEGLLLLTNDGTLAH 138 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + L+ Y G + ++ L G+ ++ + G A V + Sbjct: 139 KLMHPSYEVLKTYLAEVAGPIPRNLGKRLTAGVELEDGPVKVDGFKVVDTLGKTAQVELT 198 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L EG+ ++++ V+RLIR S GP +LG L G R ++ + Sbjct: 199 LHEGRKHIVRRLMAEVGHPVSRLIRTSIGPIKLGDLRTGRMRRLTNAEVAALF 251 >gi|254491124|ref|ZP_05104305.1| conserved hypothetical protein, putative [Methylophaga thiooxidans DMS010] gi|224463637|gb|EEF79905.1| conserved hypothetical protein, putative [Methylophaga thiooxydans DMS010] Length = 293 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 93/293 (31%), Positives = 149/293 (50%), Gaps = 13/293 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+ARAG SRR+VE I + +V NG + D +++D L Sbjct: 3 ERIQKVLARAGYGSRRQVETWIKEGKVSCNGETAT-LGDQISEGDRLKLDNKLLSPKRLW 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 + ++ LY+KP+G V T SDP+GR T+F LP+ R +SVGRLD+NT GL++LT DG Sbjct: 62 QQPQQVILYNKPVGEVCTRSDPEGRRTIFQALPTPEQGRWVSVGRLDLNTSGLIILTTDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y VR G+V + + L+ G++++ + +G+N W Sbjct: 122 ELANRLMHPSNEMDREYAVRVLGEVTPEIMQNLRDGVMLEDGEAHFADIQESGGEGANHW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ--- 244 V ++EG+NRE+++++E +V+RL+R+ YGP + L G +V L Sbjct: 182 YHVVIQEGRNREVRRLWESQGVQVSRLMRVRYGPIIIPNNLRMGHWTKVEGADLEHLYEQ 241 Query: 245 --LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 + P E+ P+ + T ++ P + D K S + G Sbjct: 242 AGMKPQQTEKTGKRQQKPVRNQATAKKESPYRGKKQTQD-KATGKRSPRIRGR 293 >gi|49185230|ref|YP_028482.1| RNA pseudouridylate synthase [Bacillus anthracis str. Sterne] gi|49477651|ref|YP_036487.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus thuringiensis serovar konkukian str. 97-27] gi|52143096|ref|YP_083735.1| tRNA pseudouridine synthase A [Bacillus cereus E33L] gi|118477786|ref|YP_894937.1| ribosomal large subunit pseudouridine synthase F [Bacillus thuringiensis str. Al Hakam] gi|228914973|ref|ZP_04078578.1| Pseudouridine synthase [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228927441|ref|ZP_04090497.1| Pseudouridine synthase [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228933676|ref|ZP_04096524.1| Pseudouridine synthase [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228945990|ref|ZP_04108331.1| Pseudouridine synthase [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|229091360|ref|ZP_04222575.1| Pseudouridine synthase [Bacillus cereus Rock3-42] gi|229121932|ref|ZP_04251151.1| Pseudouridine synthase [Bacillus cereus 95/8201] gi|229184594|ref|ZP_04311796.1| Pseudouridine synthase [Bacillus cereus BGSC 6E1] gi|270000600|ref|YP_003329039.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Ames] gi|291612215|ref|YP_003541029.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. 'Ames Ancestor'] gi|49179157|gb|AAT54533.1| RNA pseudouridylate synthase [Bacillus anthracis str. Sterne] gi|49329207|gb|AAT59853.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus thuringiensis serovar konkukian str. 97-27] gi|51976565|gb|AAU18115.1| tRNA pseudouridine synthase A [Bacillus cereus E33L] gi|118417011|gb|ABK85430.1| ribosomal large subunit pseudouridine synthase F [Bacillus thuringiensis str. Al Hakam] gi|224552841|gb|ACN55054.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. 'Ames Ancestor'] gi|228598911|gb|EEK56529.1| Pseudouridine synthase [Bacillus cereus BGSC 6E1] gi|228661581|gb|EEL17202.1| Pseudouridine synthase [Bacillus cereus 95/8201] gi|228691989|gb|EEL45731.1| Pseudouridine synthase [Bacillus cereus Rock3-42] gi|228813683|gb|EEM59963.1| Pseudouridine synthase [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228826003|gb|EEM71788.1| Pseudouridine synthase [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228832234|gb|EEM77815.1| Pseudouridine synthase [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228844769|gb|EEM89815.1| Pseudouridine synthase [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|269850305|gb|ACZ49999.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. Ames] Length = 238 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 65/231 (28%), Positives = 113/231 (48%), Gaps = 7/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKSVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLF 228 >gi|153950805|ref|YP_001401950.1| 23S rRNA pseudouridine synthase F [Yersinia pseudotuberculosis IP 31758] gi|152962300|gb|ABS49761.1| RNA pseudouridine synthase family protein [Yersinia pseudotuberculosis IP 31758] Length = 290 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 70/295 (23%), Positives = 128/295 (43%), Gaps = 12/295 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 + R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 5 SSIRLNKYISESGICSRRDGDRYIEQGNVFINGKRAT-VGDQVFAGDVVKVNGQIIEPRD 63 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E +KP G++TT + + R + D + + RV +GRLD +++GL+ LTN G Sbjct: 64 EEDLVFIALNKPAGIITTMEEGE-RDNISDFV-NHSKRVFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + V + + + G+ I G +V QK + Sbjct: 122 LVNKILRAGNNHEKEYVVTVNKPVTDEFIQGMSAGVPILGTVTKKCKV----QKEAPLVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ + F ++V +L R L L G R+++ L L Sbjct: 178 RITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNISLKGLPLGEWRDLTDDELLTLF--KL 235 Query: 250 LEEAQVNLDAPIYS-SETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 +E + + + + RP I + + + S + +KK Sbjct: 236 IENSSSEEKTVKKAPPKPVAAKRPGIQGQKKAEKSDDNTASRKHFTQPGRKKKGR 290 >gi|262182363|ref|ZP_06041784.1| putative pseudouridylate synthase [Corynebacterium aurimucosum ATCC 700975] Length = 286 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 81/245 (33%), Positives = 127/245 (51%), Gaps = 4/245 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 ++ KN +R+ KV+A+AG+ASRR E +I + RV+VNG ++ + V D Sbjct: 33 VEGKNKKNSQNQGERLQKVLAKAGVASRRHAEILIDEGRVEVNGQVIIKQGTRVDPNKDV 92 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDI 116 I VDG + E T+ ++ +KP G+ +T SD GR V D + R+ VGRLD Sbjct: 93 IRVDGTRINVNEETQYFVLNKPRGMQSTMSDDMGRPCVGDVVADRVVAGQRLFHVGRLDA 152 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +TEGLLLLTNDG LA L P + + Y G+ D+ + L++GI ++ Sbjct: 153 DTEGLLLLTNDGELANRLMHPKYEVTKTYLATVLGEADKKLIRQLREGIELEDGLAQADY 212 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + + V V L EG+ ++++ + + V RL+R QLG + GS R + Sbjct: 213 VQIVDKNQGYSLVRVELHEGRKHIVRRMLKEAGYPVQRLVRTKLHTVQLGDMKPGSLRAL 272 Query: 237 SKKIL 241 + L Sbjct: 273 NSNEL 277 >gi|229529332|ref|ZP_04418722.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae 12129(1)] gi|229333106|gb|EEN98592.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae 12129(1)] Length = 231 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 59/230 (25%), Positives = 102/230 (44%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKEASRVEWQGREIML-HGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + HKP G+V +H D T F L + GRLD++T GLLL+T+DG + Sbjct: 60 RYIMMHKPDGVVCSHEDGFN-QTAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D +GI ++G + L+ S V + Sbjct: 119 RVTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEV--ISETEVLLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L TL G R ++++ + Sbjct: 177 IHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >gi|269968137|ref|ZP_06182172.1| ribosomal small subunit pseudouridine synthase A [Vibrio alginolyticus 40B] gi|269827268|gb|EEZ81567.1| ribosomal small subunit pseudouridine synthase A [Vibrio alginolyticus 40B] Length = 233 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 55/230 (23%), Positives = 103/230 (44%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R++ ++I + V+G + + A V + + + A Sbjct: 1 MRLDKYLCDALGATRKQATKIIKSGDITVDGEVQKSGAFKVPKGAEVMWEDRVI-GAPGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + +KP V +H D T F L + GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLYKPADFVCSHED-GYNQTAFALLDEPKIENLHFAGRLDVDTTGLVLITDDGKWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D L++GI+++ + L+ + V + Sbjct: 119 RITSPKHKCEKTYRVWLVDAIQPDYAEKLEQGIILRNESEATLPARLEIVNEAENEVLLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G +L L G R ++++ + Sbjct: 179 IVEGKYHQVKRMFAALGNKVEYLHRERIGSIELDEALEPGDYRYLTQEEI 228 >gi|261346079|ref|ZP_05973723.1| ribosomal small subunit pseudouridine synthase A [Providencia rustigianii DSM 4541] gi|282565731|gb|EFB71266.1| ribosomal small subunit pseudouridine synthase A [Providencia rustigianii DSM 4541] Length = 234 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 53/229 (23%), Positives = 106/229 (46%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + + V+ +++ ++ + + + + DG L + Sbjct: 1 MRLDKFLSQQLGISRNLVARELRAGNITVDDKVVKSGSMQISADNEVSYDGNVLIQITGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V + DP + ++ + ++ + GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLHKPEGYVCSTDDPTHPTILYFIDEPVTQKLHAAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + YRV+ + D + + G+++ G L+ S V + + Sbjct: 121 ITSPKHHCEKTYRVQLSEDITDDVIQKFEIGVMLNGEKSPTKPAQLEI--ISPREVLLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EG+ ++K++F V L R G +L L G R +++ + Sbjct: 179 SEGRYHQVKRMFAAVGNHVCGLHRERVGEIRLDEQLEPGEYRPLTEDEI 227 >gi|296158769|ref|ZP_06841598.1| pseudouridine synthase [Burkholderia sp. Ch1-1] gi|295890974|gb|EFG70763.1| pseudouridine synthase [Burkholderia sp. Ch1-1] Length = 626 Score = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 92/285 (32%), Positives = 145/285 (50%), Gaps = 10/285 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRR++E +I RV VNG +M TD + ++ Sbjct: 202 KRVLAADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRIN 260 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 261 GKPVKRKLANKPPRVLLYHKPTGEIVSHADPEGRPSVFDKLPPMKTAKWLAVGRLDFNTE 320 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 321 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLHGVELDDGPANFLRIRD 380 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 381 GGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPISLPKGLKRGRWEELED 440 Query: 239 KILREQLG----PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVP 279 +R + EE AP ++ I+ P Sbjct: 441 NQVRALMASVGLKAPTEERGSRNAAPERKQPDPMQTSMGFINREP 485 >gi|315634119|ref|ZP_07889408.1| ribosomal large subunit pseudouridine synthase B [Aggregatibacter segnis ATCC 33393] gi|315477369|gb|EFU68112.1| ribosomal large subunit pseudouridine synthase B [Aggregatibacter segnis ATCC 33393] Length = 328 Score = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 108/294 (36%), Positives = 154/294 (52%), Gaps = 12/294 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 + + +++ KV+ARAG SRRE+E +IA+ RV V+G + +NV S + + Sbjct: 37 NEMKTTSAEGEKLQKVLARAGQGSRREIESIIAENRVSVDGKIATLGDRINVNSGVKVRI 96 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 DG + + E R+ +Y+KP G + T DP+GR+TVFD LP +R I+VGRLDIN Sbjct: 97 DGNLINLTQAQKEVCRVLMYYKPEGELCTRHDPEGRATVFDRLPRLTGARWIAVGRLDIN 156 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL T DG LA L PS + R Y VR G VD LN LKKG+ ++ ++ Sbjct: 157 TSGLLLFTTDGELANRLMHPSREVEREYSVRVFGAVDDAMLNRLKKGVQLEDGPANFKEI 216 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G +E+ Sbjct: 217 KFVGGVGMNQWFDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKNLPRGGWQEM 276 Query: 237 SKKI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 LRE +G L E + LD + + + R KK Sbjct: 277 ELADVNYLRELVG--LPPETETKLDMNKQRRKPKTGKIRKAVKRYSELSKRYKK 328 >gi|290961534|ref|YP_003492716.1| pseudouridine synthase [Streptomyces scabiei 87.22] gi|260651060|emb|CBG74179.1| putative pseudouridine synthase [Streptomyces scabiei 87.22] Length = 313 Score = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 76/239 (31%), Positives = 123/239 (51%), Gaps = 2/239 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEV 62 K +R+ K++ARAG SRR E +I Q RV+VNG ++ V D ++V Sbjct: 67 KTFPGAEQEGERLQKILARAGYGSRRSCEELIEQARVEVNGEIVLEQGKRVDPEKDEVKV 126 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG+ + + + + +KP G+V+T D +GR + D + + +R+ VGRLD TEG++ Sbjct: 127 DGLTV-ATQSYQFFSLNKPAGVVSTMEDNEGRQCLGDYVTNRETRLFHVGRLDTETEGVI 185 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTN G LA L P +VY G + +D LK GI ++ + Q Sbjct: 186 LLTNHGELAHRLTHPKYGVKKVYLAHIVGPIPRDLGKQLKDGIQLEDGYARADHFRVVQQ 245 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G N V V L EG+ ++++ + V++L+R+++GP LG +G R +S + Sbjct: 246 TGKNYLVEVTLHEGRKHIVRRMLAEAGFPVDKLVRVAFGPITLGDQKSGWLRRLSNTEV 304 >gi|46370355|gb|AAS89963.1| hypothetical protein [Agrobacterium vitis] Length = 240 Score = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 136/217 (62%), Positives = 162/217 (74%) Query: 34 MIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 MI + RV VNG +L+ +N D IEVDG +R ERTRLWLYHKP GLVTT+SDP+G Sbjct: 1 MIMEGRVAVNGKVLDSPVLNATLADRIEVDGEAIRGIERTRLWLYHKPSGLVTTNSDPEG 60 Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 R TVFDNLP RV+S+GRLDINTEGLLLLTNDGGLARVLELP+T WLR YRVR +G++ Sbjct: 61 RPTVFDNLPEELPRVMSIGRLDINTEGLLLLTNDGGLARVLELPTTGWLRRYRVRAYGEI 120 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 DQ KL+ LK GI + G+ YG + LD +G N W+T+GLREGKNREIK V +VN Sbjct: 121 DQAKLDTLKDGIAVDGVLYGAIDAVLDRAQGHNVWITMGLREGKNREIKNVLGALGLEVN 180 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 RLIRISYGPFQLG L +EV ++LR+QLGP L+ Sbjct: 181 RLIRISYGPFQLGDLPESQVQEVRGRMLRDQLGPRLI 217 >gi|229155962|ref|ZP_04284063.1| Pseudouridine synthase [Bacillus cereus ATCC 4342] gi|228627569|gb|EEK84295.1| Pseudouridine synthase [Bacillus cereus ATCC 4342] Length = 238 Score = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 65/232 (28%), Positives = 113/232 (48%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKSVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMATGVKILGTKTLPCEIT----QLSKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLFA 229 >gi|327484245|gb|AEA78652.1| Ribosomal small subunit pseudouridine synthase A [Vibrio cholerae LMA3894-4] Length = 231 Score = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 59/230 (25%), Positives = 102/230 (44%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKEASRVEWQGREIML-HGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + HKP G+V +H D T F L + GRLD++T GLLL+T+DG + Sbjct: 60 RYIMMHKPDGIVCSHEDGFN-QTAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D +GI ++G + L+ S V + Sbjct: 119 RVTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEV--ISETEVLLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L TL G R ++++ + Sbjct: 177 IHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >gi|255505461|ref|ZP_05346261.3| ribosomal large subunit pseudouridine synthase F [Bryantella formatexigens DSM 14469] gi|255267773|gb|EET60978.1| ribosomal large subunit pseudouridine synthase F [Bryantella formatexigens DSM 14469] Length = 267 Score = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 73/244 (29%), Positives = 126/244 (51%), Gaps = 8/244 (3%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +D + + P R++K +A+AGI SRRE +R+IA+ +V V+G A V+ + I Sbjct: 17 EDFRKITDTAEPVRINKYLAQAGICSRREADRLIAEGKVLVDGA-AAVAGQKVLPSQDIR 75 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 V+G +++ L + +KP G+V T G +T+ + + SRV GRLD ++EGL Sbjct: 76 VEGEQAVRSQERILLVVNKPRGVVCTTDKTWGDTTLEELV-DYPSRVFYAGRLDKDSEGL 134 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTL 179 +L+TNDG L + + + + Y V+ VD L + KG+ ++ +V Sbjct: 135 ILMTNDGELQDKIMRAANRHEKEYLVKVDRTVDDTFLKKMAKGVYLRELDTVTRPCRVEK 194 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ + L +G NR+I+++ ++V L R+ +LG L AG RE + + Sbjct: 195 TGRRA----FRIVLTQGLNRQIRRMCAALGYQVQELRRVRIMNIRLGGLPAGQYREATDE 250 Query: 240 ILRE 243 LRE Sbjct: 251 ELRE 254 >gi|251796174|ref|YP_003010905.1| pseudouridine synthase [Paenibacillus sp. JDR-2] gi|247543800|gb|ACT00819.1| pseudouridine synthase [Paenibacillus sp. JDR-2] Length = 249 Score = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 69/237 (29%), Positives = 114/237 (48%), Gaps = 11/237 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G +R E+++++ Q +V V G +++ + V D + DG + E Sbjct: 5 MRIDKLLSHTGYGTRSEIKKLVKQGKVTVAGKVVKDSGQLVDPELDEVAFDGELVLYRE- 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ D R TV D L VGRLD +T GLLLLTNDG L Sbjct: 64 VIYLMMNKPPGVISATEDRRER-TVIDLLEQEDQLMDPFPVGRLDKDTVGLLLLTNDGQL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK----GS 185 A L P + Y G V ++ K G+ + G + + + G Sbjct: 123 AHELLSPRKHVPKTYEAVVQGDVGEEDQEQFKAGVTLDDGYVTMPSDLKILKKDSGEGGV 182 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + +++ + EGK ++K++FE KV L RIS GP +L L G+ RE++ + L Sbjct: 183 TSVISLTIMEGKFHQVKRMFEAVGKKVVFLKRISMGPLELDADLEEGTYRELTDEEL 239 >gi|323350518|ref|ZP_08086180.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis VMC66] gi|322123200|gb|EFX94885.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis VMC66] Length = 242 Score = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 117/234 (50%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + + T D I V G L E+ Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRVEKSPKTQIDETADEIIVSGQRLTY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATED-DRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A + P ++YR + G + Q ++ GI ++ Q+ + + + Sbjct: 119 AHAMLSPKKHVEKIYRAQVAGLMKQADVDRFAAGIELKDFTCQPAQLKVLELDEAKETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V + L EGK ++K++ +V L R++ GP QL + G R ++++ + Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDPAVALGEWRRLTEEEM 232 >gi|306824439|ref|ZP_07457785.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. oral taxon 071 str. 73H25AP] gi|304433226|gb|EFM36196.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. oral taxon 071 str. 73H25AP] Length = 240 Score = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 71/239 (29%), Positives = 110/239 (46%), Gaps = 8/239 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ D R TV D L V VGRLDI+T GLLLLTNDG L Sbjct: 61 VYYIM-NKPKGVISATEDSKHR-TVLDLLDDLARTKEVFPVGRLDIDTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAW 188 A L P + Y + G + Q+ + KGI ++ ++ + + + Sbjct: 119 AHALLSPKRHVDKTYLAQVKGIMSQEDVETFAKGISLKDFTCQPAKLEILSVDSGKDESQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 V V + EGK ++K++ + +V L R++ G L L G R ++K+ L L Sbjct: 179 VRVTIAEGKFHQVKRMVSYCGKEVVDLQRLTMGTLALDENLERGEWRRLTKEELEVLLA 237 >gi|315506751|ref|YP_004085638.1| pseudouridine synthase [Micromonospora sp. L5] gi|315413370|gb|ADU11487.1| pseudouridine synthase [Micromonospora sp. L5] Length = 256 Score = 257 bits (658), Expect = 2e-66, Method: Composition-based stats. Identities = 79/233 (33%), Positives = 119/233 (51%), Gaps = 1/233 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ SRR E +I ++RV VNG + + + D I VDG L+ R Sbjct: 19 ERLQKVLAAAGVGSRRACEDLIFRRRVTVNGRVAQLGDKADPARDVIVVDGERLQADVRL 78 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G+VTT +D GR+ + D + + RV VGRLD ++EGLLLLTNDG LA Sbjct: 79 VYVAMNKPRGVVTTMADEKGRTELADFIGARLEQRVYHVGRLDADSEGLLLLTNDGTLAH 138 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + L+ Y G + ++ L G+ ++ + G A V + Sbjct: 139 KLMHPSYEVLKTYLAEVAGPIPRNLSKRLTAGVELEDGPVKVDGFKVVDTLGKTAQVELT 198 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L EG+ ++++ V+RLIR S GP +LG L G R ++ + Sbjct: 199 LHEGRKHIVRRLMAEVGHPVSRLIRTSIGPIKLGDLRTGRMRRLTNAEVAALF 251 >gi|71908073|ref|YP_285660.1| ribosomal large subunit pseudouridine synthase B [Dechloromonas aromatica RCB] gi|71847694|gb|AAZ47190.1| ribosomal large subunit pseudouridine synthase B [Dechloromonas aromatica RCB] Length = 340 Score = 257 bits (658), Expect = 2e-66, Method: Composition-based stats. Identities = 89/240 (37%), Positives = 134/240 (55%), Gaps = 8/240 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 P R+ KV+A AG+ SRRE+E IA +V VNG++ +V+++D +++ G + Sbjct: 82 EAKPVRLQKVLAEAGVGSRREMEEWIAAGKVSVNGVVAT-VGQSVVNSDKVKIGGRLINI 140 Query: 70 A-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLL 123 R+ +YHKP G + + DPDGR +VF LP + R I+VGRLD NT GLLL Sbjct: 141 RFTGSSRPPRVLMYHKPEGEIVSRDDPDGRPSVFAALPRMRGGRWINVGRLDFNTSGLLL 200 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T G LA L PS++ +R Y VR G++ D L G+ ++ + + Sbjct: 201 FTTSGELANKLMHPSSELVREYAVRVLGELTLDAQQKLLHGVELEDGRANFGSLHDGGGE 260 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 G+N W V + EG+NRE++++FE V+RLIR+ YGPF L L G RE+ + ++ Sbjct: 261 GANHWYRVTISEGRNREVRRMFEAVGCTVSRLIRVRYGPFILPPQLKRGMARELKEAEIK 320 >gi|124267190|ref|YP_001021194.1| ribosomal large subunit pseudouridine synthase B [Methylibium petroleiphilum PM1] gi|124259965|gb|ABM94959.1| ribosomal large subunit pseudouridine synthase B [Methylibium petroleiphilum PM1] Length = 686 Score = 257 bits (658), Expect = 2e-66, Method: Composition-based stats. Identities = 108/352 (30%), Positives = 159/352 (45%), Gaps = 10/352 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K +++ ++ KV+A++GI SRR++E+ I +V VN + + + D I Sbjct: 223 STKRVLRPEPEAPKLHKVLAQSGIGSRRDMEQFILDGKVTVNDEVA-HVGMRISYGDRIA 281 Query: 62 VDGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDIN 117 VDG P+R + RL YHKP G V T +DP+GR TVF LP + + SVGRLDIN Sbjct: 282 VDGKPVRLRIQPGPARLLAYHKPTGEVVTLNDPEGRPTVFRRLPRLQQGKWQSVGRLDIN 341 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLL TN G LA L P R Y VR G +++++ L +G+ I G G + Sbjct: 342 TEGLLLFTNSGELANQLMHPRFGVEREYAVRVLGSLNEEQRAKLLEGVEIDGQTAGFKSI 401 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G+N W V + EG+NRE++K+F+ V+RLIRI YG L L G E+ Sbjct: 402 EEGGGEGANRWYRVVITEGRNREVRKLFDKVGLAVSRLIRIRYGTVVLPRGLKRGVWVEL 461 Query: 237 SKKILR--EQL--GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK 292 + LR QL G + DA + R + + + Sbjct: 462 DDQDLRAIRQLASGNRGAAAQSESRDAQGNREQRRNNGRNGKPERNARGPQQGGARAQGQ 521 Query: 293 NGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 G + + R A+ G + + RR P + Sbjct: 522 GGGERGPRREPRESRFGEAAPDTDGAGEEDFGRIPNPLEQTFDRRFAKGPRR 573 >gi|138896374|ref|YP_001126827.1| ribosomal small subunit pseudouridine synthase A [Geobacillus thermodenitrificans NG80-2] gi|196250000|ref|ZP_03148695.1| pseudouridine synthase [Geobacillus sp. G11MC16] gi|134267887|gb|ABO68082.1| Ribosomal small subunit pseudouridine synthase A [Geobacillus thermodenitrificans NG80-2] gi|196210514|gb|EDY05278.1| pseudouridine synthase [Geobacillus sp. G11MC16] Length = 248 Score = 257 bits (658), Expect = 2e-66, Method: Composition-based stats. Identities = 67/233 (28%), Positives = 112/233 (48%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VKV+G + V + V G + + Sbjct: 4 RIDKLLAHMGYGTRKEVKKLLKSGLVKVDGAAVYDPKTKVRPDEQTVTVWGETVEYKQ-F 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+++ D TV D L VGRLD +TEGLLLLTNDG LA Sbjct: 63 IYLMMNKPPGVISATEDA-VEETVVDLLEEEDRLFDPFPVGRLDKDTEGLLLLTNDGQLA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P + Y G+V +D + ++G+V+ G ++ + + G + V Sbjct: 122 HQLLAPKKHVPKTYFAVIDGEVTEDDVEAFRRGVVLDDGYETKPAELVVL-KSGLRSDVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK ++K++F+ +V L R+ GP L L G RE++ + + Sbjct: 181 VTITEGKFHQVKRMFQAVGKRVVYLKRVQMGPLSLDPNLAVGEYRELTDEEVE 233 >gi|156340515|ref|XP_001620471.1| hypothetical protein NEMVEDRAFT_v1g223077 [Nematostella vectensis] gi|156205434|gb|EDO28371.1| predicted protein [Nematostella vectensis] Length = 275 Score = 257 bits (658), Expect = 2e-66, Method: Composition-based stats. Identities = 74/235 (31%), Positives = 117/235 (49%), Gaps = 3/235 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 R++K IA +G+ SRRE + IA V VNG ++ V TD I DG + Sbjct: 37 SSPEDGIRLNKYIANSGVCSRREADTYIASGNVVVNGKVITEMGFKVKPTDDIRFDGTAI 96 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTN 126 E+ + L +KP +TT D GR TV D + + R+ VGRLD NT GLLL TN Sbjct: 97 SPEEK-KYVLLNKPKNYITTMDDDRGRKTVMDLVQNAARERIYPVGRLDRNTTGLLLFTN 155 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA+ L P ++Y +++ L+ ++ ++I+G +V + Sbjct: 156 DGDLAKKLTHPKHNVQKLYHASLDRKLEVKDLHKMRDEVIIEGKRVFIDEVDYVAGEKKT 215 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + G+NR ++K+FE F +KV +L R+ + L G RE++ + + Sbjct: 216 -EVGIKIHSGRNRIVRKIFEHFGYKVVKLDRVIFAGLTKKNLPRGRYRELTTQEV 269 >gi|300114572|ref|YP_003761147.1| RNA-binding S4 domain-containing protein [Nitrosococcus watsonii C-113] gi|299540509|gb|ADJ28826.1| RNA-binding S4 domain protein [Nitrosococcus watsonii C-113] Length = 268 Score = 257 bits (658), Expect = 2e-66, Method: Composition-based stats. Identities = 96/266 (36%), Positives = 142/266 (53%), Gaps = 7/266 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ K++AR G+ SRREVE I RV++NGI + V D + ++G PL Sbjct: 3 ERLQKILARGGLGSRREVEAWIKAGRVRINGIPAQ-LGDKVSDEDQVTINGRPLSPRRLQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 A +++ LYHK G + + DP+GR TVF +LP R +SVGRLDI+T GLLL T DG Sbjct: 62 APSSQVILYHKSAGEICSRKDPEGRPTVFRSLPRPRQGRWVSVGRLDISTSGLLLFTTDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PSTQ R Y VR G V + L L++G+ ++ ++ +G+N W Sbjct: 122 ELANRLMHPSTQVEREYAVRVLGAVTEATLERLQRGVQLEDGLASFKRILDAGGEGANHW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 V LREG+ RE+++++E +V+RLIRI +GP L L G R + + L Sbjct: 182 YHVILREGRKREVRRLWESQGIQVSRLIRIRFGPVSLPPGLRMGRWRFLEPSEFKALLEI 241 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPN 273 +E L + ++ + R Sbjct: 242 GGVERRITGLQSRSKNNRRGRQGRKQ 267 >gi|218246395|ref|YP_002371766.1| pseudouridine synthase [Cyanothece sp. PCC 8801] gi|257059438|ref|YP_003137326.1| pseudouridine synthase [Cyanothece sp. PCC 8802] gi|218166873|gb|ACK65610.1| pseudouridine synthase [Cyanothece sp. PCC 8801] gi|256589604|gb|ACV00491.1| pseudouridine synthase [Cyanothece sp. PCC 8802] Length = 252 Score = 257 bits (658), Expect = 2e-66, Method: Composition-based stats. Identities = 80/239 (33%), Positives = 122/239 (51%), Gaps = 10/239 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV K++++ GIASRR+ E +I RVKVNG L++ D +EVDG + +R Sbjct: 3 ERVQKILSQWGIASRRKAESLILAGRVKVNGNLVKLGDKVDPYCDRLEVDGKRIEPTQRP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 L +KP+G+V+T DP R TV + LP + + VGRLD N+ G LLLTNDG Sbjct: 63 EFLYILVNKPLGVVSTCDDPQNRPTVLELLPQELRKGTGIHPVGRLDFNSTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y V G + + L ++G+++ G QV + + Sbjct: 123 ELTLRLTHPRYHLPKTYEVSISGDISETSLQQWREGVMLMGKKTLPAQVEVIHRCRQQTC 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSKKILR 242 + V L EG+NR+I+++ E + V RL R + G L +L +G R + +R Sbjct: 183 LKVILIEGRNRQIRRIVEHLGFSVLRLHRTAVGSIALHRPHEPSLPSGHYRLLKASEIR 241 >gi|291522303|emb|CBK80596.1| ribosomal large subunit pseudouridine synthase F [Coprococcus catus GD/7] Length = 261 Score = 257 bits (658), Expect = 2e-66, Method: Composition-based stats. Identities = 69/255 (27%), Positives = 127/255 (49%), Gaps = 9/255 (3%) Query: 4 KNIVQENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K+I+ EN R+++ ++ AG SRRE +R+I RV V+G V ++ Sbjct: 6 KDILHENEDKSDVRLNRFLSDAGFCSRREADRLIEAGRVTVDGTKA-ELGTRVRPGQVVK 64 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 V +R+ +R L ++KP G+V T ++ + D + R+ +GRLD ++EGL Sbjct: 65 VGSKVVRQNDRMVLIAFNKPRGIVCTTDRVREKNNIIDYI-HYPERIYPIGRLDKDSEGL 123 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 +LLTNDG + + S + Y VR + ++ + + + KG+ I + Sbjct: 124 ILLTNDGTIVNHILKASQYHEKEYIVRVNKKITDEFIQGMSKGVPILDTVTRPCTL---- 179 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++ + ++ L +G NR+I+ + F++ V +L R+ +LG+L G R+V+ + L Sbjct: 180 RRIDDYTFSIILTQGLNRQIRYMCRHFDYHVTKLKRVRIMNIRLGSLPVGKWRDVTAEEL 239 Query: 242 REQLGPHLLEEAQVN 256 EQL + + N Sbjct: 240 -EQLKRQFIANDRRN 253 >gi|256854470|ref|ZP_05559834.1| pseudouridine synthase [Enterococcus faecalis T8] gi|257089099|ref|ZP_05583460.1| pseudouridine synthase [Enterococcus faecalis CH188] gi|256710030|gb|EEU25074.1| pseudouridine synthase [Enterococcus faecalis T8] gi|256997911|gb|EEU84431.1| pseudouridine synthase [Enterococcus faecalis CH188] gi|323479852|gb|ADX79291.1| S4 domain pseudouridine synthase family protein [Enterococcus faecalis 62] Length = 244 Score = 257 bits (658), Expect = 2e-66, Method: Composition-based stats. Identities = 74/242 (30%), Positives = 120/242 (49%), Gaps = 10/242 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L ++ Sbjct: 1 MRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEILTY-QK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ HKP G+++ D TV D L R + VGRLD +TEGLLLLTNDG L Sbjct: 60 FFYYMLHKPQGVISATED-QRDETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--QKGSNA 187 A L P + Y G V + L +G + G ++ ++T ++ + Sbjct: 119 AHQLLSPKKHVDKEYLAEVEGLVTVEDCQLFAQGFALKDGEMVKPSRLVIETINEEEGTS 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 V + ++EGK ++K++ V L R+ G L TL G R +++ L +QL Sbjct: 179 VVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRPLTEAEL-QQLQ 237 Query: 247 PH 248 P Sbjct: 238 PK 239 >gi|89890360|ref|ZP_01201870.1| RNA pseudouridine synthase, Rsu [Flavobacteria bacterium BBFL7] gi|89517275|gb|EAS19932.1| RNA pseudouridine synthase, Rsu [Flavobacteria bacterium BBFL7] Length = 253 Score = 257 bits (658), Expect = 2e-66, Method: Composition-based stats. Identities = 67/238 (28%), Positives = 119/238 (50%), Gaps = 9/238 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + EN R++K ++ G SRR +R+I QQRV +NG + V D++ VDG P Sbjct: 1 MSEN-KGIRINKYLSEQGFCSRRAADRLIEQQRVTINGTVP-EMGTKVQPNDNVAVDGEP 58 Query: 67 L-RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + +K E+ +HKP G+V T + + + + +R+ +GRLD +EGL+ LT Sbjct: 59 ISKKKEKPVYIAFHKPTGIVCTTDTRVEPDNIIEYI-NYPTRIFPIGRLDKMSEGLIFLT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y V +D ++ + GI I +V ++ Sbjct: 118 NDGDIVNKILRSRNNHGKEYIVTVDHSIDDRFISRMASGIPILDTVTKKCEV----EQIG 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E+ N++V +L RI +L + G+ R+++K+ L E Sbjct: 174 RKTFRIVLTQGLNRQIRRMCEYLNYRVTKLKRIRIMNVEL-DIPKGTYRDLTKEELDE 230 >gi|295676258|ref|YP_003604782.1| pseudouridine synthase [Burkholderia sp. CCGE1002] gi|295436101|gb|ADG15271.1| pseudouridine synthase [Burkholderia sp. CCGE1002] Length = 589 Score = 257 bits (658), Expect = 2e-66, Method: Composition-based stats. Identities = 98/355 (27%), Positives = 158/355 (44%), Gaps = 15/355 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRR++E +I RV VNG +M TD + ++ Sbjct: 188 KRVLSPDDDAPKLHKVLAEAGMGSRRDMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 246 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 247 GKPVKRKLASKPPRVLLYHKPTGEIVSHADPEGRPSVFDKLPPMKTAKWVAVGRLDFNTE 306 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ ++ +++ Sbjct: 307 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLHGVELEDGPANFLRIRD 366 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 367 GGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPISLPRGLKRGRWEELED 426 Query: 239 KILREQLG----PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVP-----DDFTRMKKNS 289 +R + EE AP ++ I+ P F + + Sbjct: 427 NQVRALMASVGLKAPTEERGSRNAAPERRQPDPMQTSMGFINREPVLMSHSRFEQQPRGQ 486 Query: 290 SQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 ++ A A G D + + K Sbjct: 487 GRRGAAGGGFGAGMGGGAGFGAGAGNRAPGGQRGRDVDGNRAPSPNGNRARTGGK 541 >gi|15892730|ref|NP_360444.1| ribosomal large subunit pseudouridine synthase B [Rickettsia conorii str. Malish 7] gi|26006907|sp|Q92HG4|Y807_RICCN RecName: Full=Uncharacterized RNA pseudouridine synthase RC0807; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|15619906|gb|AAL03345.1| ribosomal large subunit pseudouridine synthase B [Rickettsia conorii str. Malish 7] Length = 230 Score = 257 bits (658), Expect = 2e-66, Method: Composition-based stats. Identities = 107/228 (46%), Positives = 146/228 (64%), Gaps = 2/228 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+I+ AG+ SRR+ E++I +VKV+GI + NV ++ IEV G + + R Sbjct: 3 RLAKIISNAGVCSRRDAEKLIVAGQVKVDGITILSPTTNVDISNQIEVSGTLINNIHKPR 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW+Y+KP+GL+TTH DP R TVF+ L RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 63 LWIYYKPVGLITTHKDPLSRKTVFEQLTG-LPRVISIGRLDLNSEGLLLLTNSGDLARQF 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPS++ RVY VR +G+ L K + I GI Y + L Q +N W V L Sbjct: 122 ELPSSRLKRVYHVRAYGK-SDILLKSNYKNLEIDGIFYNPHSIKLLKQNKTNCWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 181 EGKNREIRRIFEYCGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKILE 228 >gi|120610106|ref|YP_969784.1| ribosomal large subunit pseudouridine synthase B [Acidovorax citrulli AAC00-1] gi|120588570|gb|ABM32010.1| ribosomal large subunit pseudouridine synthase B [Acidovorax citrulli AAC00-1] Length = 483 Score = 257 bits (658), Expect = 2e-66, Method: Composition-based stats. Identities = 94/342 (27%), Positives = 148/342 (43%), Gaps = 8/342 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN V D ++ Sbjct: 137 PAKRVLPPQVEMPKLHKVLAQAGLGSRLEMEQLILEGRISVNNEPA-HIGQRVQYGDQVK 195 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 V+G P+R R+ YHKP+G V TH DP R TVF LP + SVGRLD+N Sbjct: 196 VNGRPIRYRIDPPAPRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLAHGKWQSVGRLDLN 255 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLL T+ G LA L P R Y VR G + ++ L G+ ++ + Sbjct: 256 TEGLLLFTSAGELANKLMHPRFGLEREYAVRVLGALSNEEKQRLLDGVQLEDGMAAFGSI 315 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +GSN W V + EG+NRE++++ E V+RLIRI YG L L G+ E+ Sbjct: 316 EDGGGEGSNCWYRVTISEGRNREVRRMLESVGHAVSRLIRIRYGSMMLPRGLKRGAWLEL 375 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 ++ +R + + + R + Sbjct: 376 DERDIRALMQAAGADMPRPAGPGAAAGDRKGGGPRKGGGRGQGGPGGPAPRGDYFNPPAG 435 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRS 338 + K A P + + + G S ++++ +R Sbjct: 436 GRGKRAAPSS--SQPDPMKTSVGYIGSDSLARHRQDQKQKRK 475 >gi|111221683|ref|YP_712477.1| pseudouridylate synthase [Frankia alni ACN14a] gi|111149215|emb|CAJ60900.1| Pseudouridylate synthase [Frankia alni ACN14a] Length = 254 Score = 257 bits (658), Expect = 2e-66, Method: Composition-based stats. Identities = 77/234 (32%), Positives = 120/234 (51%), Gaps = 3/234 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRK 69 R+ KV+A AGI SRR E +IA+ RV V+G+++ V T IEVDG + Sbjct: 12 DEGIRLQKVLASAGIGSRRRGEELIAEGRVSVDGVVVREQGRRVNPETAIIEVDGDRIVT 71 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTND 127 +KP G+++ SD GR T+ D L + VGRLD ++EGLLL+TND Sbjct: 72 RTGLVHLALNKPRGVLSAMSDDRGRPTIADLLTEFDGGGGLFHVGRLDGDSEGLLLVTND 131 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + + Y V G + ++ L+ G+ ++ V L Q Sbjct: 132 GELAHRLTHPSFEVPKTYLVEVSGPLRREVPRTLRTGVELEDGPARADSVQLVDQANGRV 191 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + EG+NR ++++ E + V+RL+R G LGTL +G R +++ + Sbjct: 192 MLEIVIHEGRNRIVRRMMETVGYPVHRLVRTRLGAVHLGTLRSGRARHLTRGEV 245 >gi|238650309|ref|YP_002916161.1| ribosomal large subunit pseudouridine synthase B [Rickettsia peacockii str. Rustic] gi|238624407|gb|ACR47113.1| ribosomal large subunit pseudouridine synthase B [Rickettsia peacockii str. Rustic] Length = 230 Score = 257 bits (658), Expect = 2e-66, Method: Composition-based stats. Identities = 108/228 (47%), Positives = 148/228 (64%), Gaps = 2/228 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+I+ AG+ SRR+ E++I + +VKV+GI + NV ++ IEV G + + R Sbjct: 3 RLAKIISNAGVCSRRDAEKLIVEGQVKVDGITILSPTTNVDISNQIEVSGTLINNIHKPR 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW+Y+KP+GL+TTH DP R TVF+ L RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 63 LWIYYKPVGLITTHKDPLSRKTVFEQLTG-LPRVISIGRLDLNSEGLLLLTNSGDLARQF 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPS++ RVY VR +G+ D L K + I GI Y + L Q +N W V L Sbjct: 122 ELPSSRLKRVYHVRAYGKYDI-LLKSNYKNLEIDGIFYNPHSIKLLKQNKTNCWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 181 EGKNREIRRIFEYCGLKVNKLIRIQYGNFTIDNLKPGDYKEINNKILE 228 >gi|257086025|ref|ZP_05580386.1| pseudouridine synthase [Enterococcus faecalis D6] gi|256994055|gb|EEU81357.1| pseudouridine synthase [Enterococcus faecalis D6] Length = 244 Score = 257 bits (658), Expect = 2e-66, Method: Composition-based stats. Identities = 74/242 (30%), Positives = 120/242 (49%), Gaps = 10/242 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L ++ Sbjct: 1 MRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEILTY-QK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ HKP G+++ D TV D L R + VGRLD +TEGLLLLTNDG L Sbjct: 60 FFYYMLHKPQGVISATED-QRDETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--QKGSNA 187 A L P + Y G V + L +G + G ++ ++T ++ + Sbjct: 119 AHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSRLVIETINEEEGTS 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 V + ++EGK ++K++ V L R+ G L TL G R +++ L +QL Sbjct: 179 VVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGGYRPLTEAEL-QQLQ 237 Query: 247 PH 248 P Sbjct: 238 PK 239 >gi|15601868|ref|NP_244940.1| hypothetical protein PM0003 [Pasteurella multocida subsp. multocida str. Pm70] gi|34098699|sp|Q9CPN4|RSUA_PASMU RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|12720202|gb|AAK02087.1| RsuA [Pasteurella multocida subsp. multocida str. Pm70] Length = 232 Score = 257 bits (658), Expect = 2e-66, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 106/230 (46%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R + +++ Q V VNG + + A V TD I ++G L Sbjct: 1 MRLDKFLAENTGLTRSQANKVLKQSAVTVNGHVEKNGAQKVSQTDEICLEGEHLPWVSAG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + + +KP G V +H D D T++ + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYLMLYKPQGYVCSHEDGDY-PTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGKWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+ +G++++G TL+ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVESHYQQACAEGMLLRGEKTPTKPATLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G +L L G R +S + + Sbjct: 178 ISEGRYHQVKRMFAALGNKVVGLHRWKIGQIELDDRLAEGEYRSLSAEEI 227 >gi|295115835|emb|CBL36682.1| ribosomal small subunit pseudouridine synthase A [butyrate-producing bacterium SM4/1] Length = 346 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 66/247 (26%), Positives = 118/247 (47%), Gaps = 16/247 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAER 72 R+ + + SR EV++MI RV V+G A + + + +DG + A Sbjct: 5 MRLDRYLVEMKKGSRSEVKKMIKSGRVSVDGETCREAERKIQPSASEVSLDGTQVGYAA- 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G+V+ D ++ V + + VGRLDI+TEGLLL+TNDG LA Sbjct: 64 YEYFMLNKPAGVVSATEDGRHKTVVSLIEDAKRRDLFPVGRLDIDTEGLLLITNDGKLAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN------ 186 L P + Y R G++ ++ + K+G+ ++ + L QK S Sbjct: 124 RLLSPKKHVDKTYFARVEGRLPENAIEQFKEGLTLEDG-TRTLPARLVIQKASGTAEDDG 182 Query: 187 ------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + + + + EGK ++K++FE +V L R+S G +L +L G+ R ++++ Sbjct: 183 KADSSLSEIELTIHEGKFHQVKRMFEAVGCRVVYLKRLSMGSLRLDESLAPGAYRRLTEE 242 Query: 240 ILREQLG 246 + + G Sbjct: 243 EISKLQG 249 >gi|91226537|ref|ZP_01261286.1| ribosomal small subunit pseudouridine synthase A [Vibrio alginolyticus 12G01] gi|91189169|gb|EAS75450.1| ribosomal small subunit pseudouridine synthase A [Vibrio alginolyticus 12G01] Length = 233 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 55/230 (23%), Positives = 103/230 (44%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R++ ++I + V+G + + A V + + + A Sbjct: 1 MRLDKYLCDALGATRKQATKIIKSGDITVDGEVQKSGAFKVPKGAEVMWEDRVI-GAPGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + +KP V +H D T F L + GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLYKPADFVCSHED-GYNQTAFALLDEPKIENLHFAGRLDVDTTGLVLITDDGKWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D L++GI+++ + L+ + V + Sbjct: 119 RITSPKHKCEKTYRVWLVDAIQPDYAEKLEQGIILRNESEATLPARLEIVNEAENEVLLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G +L L G R ++++ + Sbjct: 179 IVEGKYHQVKRMFAALGNKVEYLHRERIGSIELDEALEPGDYRHLTQEEI 228 >gi|303242956|ref|ZP_07329414.1| pseudouridine synthase [Acetivibrio cellulolyticus CD2] gi|302589505|gb|EFL59295.1| pseudouridine synthase [Acetivibrio cellulolyticus CD2] Length = 250 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 74/235 (31%), Positives = 125/235 (53%), Gaps = 8/235 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 QRV ++++ G +RRE+++++ VKV+G +++ + ++V T IE+ G L Sbjct: 3 ETQRVDRILSNFGFGTRREIKQLVKNGEVKVDGEVIKDSGMHVDPKTSKIEISGQVLNYR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDG 128 + + + +KP G+++ D + TV D LP + VGRLDI+TEGLLL+TNDG Sbjct: 63 QFIYVMM-NKPAGVISATFD-NRHETVVDILPEEYKCFDPFPVGRLDIDTEGLLLMTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNA 187 LA L P + Y G+V + + ++GI++ G ++ + Q S++ Sbjct: 121 QLAHELLSPRKHVPKKYFAYIEGEVSAGDVKMFEEGILLDDGYKTLPAELHILEQGESSS 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V V + EGK ++K++FE KV L RI+ G L L G RE+++ L Sbjct: 181 -VEVIIFEGKFHQVKRMFEAVGKKVKYLKRITMGNLVLDEALATGECRELTENEL 234 >gi|218663826|ref|ZP_03519756.1| RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli IE4771] Length = 267 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 82/257 (31%), Positives = 132/257 (51%), Gaps = 5/257 (1%) Query: 2 KDKNIVQENFTPQR--VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TD 58 +++ + + +R + + +++ G SR + ER+IA+ RV V+G + + V T Sbjct: 11 RERPKLTADAAGKRVTLPRALSKLGYCSRTQAERLIAEGRVSVDGRTVNDPSAWVDLVTA 70 Query: 59 HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 I VDG+ + AE + +KP GLVTT DP+GR TV+D L + VGRLD Sbjct: 71 EIRVDGLVI-AAEAKIYLMLNKPRGLVTTRHDPEGRPTVYDCLKDFEIPHLSPVGRLDKA 129 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 +EGLLL TND A++L P T + Y V+ +D + + + GI G V Sbjct: 130 SEGLLLFTNDTEFAQILLDPITHVTKTYHVQIDRIMDDEAIAAMTSGIRHDGELLTATAV 189 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 Q N+W+ V L EG+NR+I+++ E + RL+R++ G +LG L G+ R ++ Sbjct: 190 RRLRQGDRNSWIEVELDEGRNRQIRRMLEALGTECLRLVRVAIGGLELGELPKGAVRALT 249 Query: 238 KKILREQLGPHLLEEAQ 254 L+ E A+ Sbjct: 250 AAELQALHRSAGTERAR 266 >gi|187931629|ref|YP_001891613.1| 16S rRNA pseudouridine synthase [Francisella tularensis subsp. mediasiatica FSC147] gi|187712538|gb|ACD30835.1| 16S rRNA pseudouridine synthase [Francisella tularensis subsp. mediasiatica FSC147] Length = 271 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 97/251 (38%), Positives = 132/251 (52%), Gaps = 9/251 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N + P+R+ K++A+ GI SRR++E I Q RVKVNG + D I Sbjct: 1 MRRANQNNDK-NPERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVAT-LGDKASEADKI 58 Query: 61 EVDGVPL----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 DG L + R R+ +YHK G V T D R TVFD+LP + R I VGRLD Sbjct: 59 SFDGKALHSYGQPMTRPRVVIYHKRAGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLD 118 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-VDQDKLNLLKKGIVIQGICYGD 174 INT GLLL T DG LA L PS Q R Y VR GQ + + +N LK+GI ++ Sbjct: 119 INTTGLLLFTTDGDLANRLMHPSYQIEREYAVRVFGQQLSDETINKLKEGIQLEDGMAKF 178 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGST 233 + +G+N W V L EG+NRE++++FE V+RL RI +G L + G T Sbjct: 179 NSIKFSGGEGANLWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGDIILPKFVSRGKT 238 Query: 234 REVSKKILREQ 244 E++ + Sbjct: 239 LELNPSEVNRL 249 >gi|209558865|ref|YP_002285337.1| Putative ribosomal large subunit pseudouridine synthase [Streptococcus pyogenes NZ131] gi|209540066|gb|ACI60642.1| Putative ribosomal large subunit pseudouridine synthase [Streptococcus pyogenes NZ131] Length = 240 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 81/234 (34%), Positives = 124/234 (52%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G P+ E Sbjct: 1 MRINKYIAHAGIASRRKAEELIKQGLVTLNGQVIMDLATTVKSGDVVEIEGSPI-YNEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G +++ SD GR TV D LP + R+ VGRLD +T G+L+LTNDG Sbjct: 60 VYYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDT 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDK-LNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVT 190 + P + +V R + + K L L +GIVI G + + + + V Sbjct: 120 MIHPRNEIDKVIW-RVSKVLQRKKNLRPLTRGIVIDGKKTKPARYNIVRVEADKNRSIVE 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + EG+N ++KK+FE V++L R G L L G R ++KK + + Sbjct: 179 LTIHEGRNHQVKKMFESVGLLVDKLSRTRLGTVDLKGLRPGEARRLNKKEISQL 232 >gi|85059383|ref|YP_455085.1| 23S rRNA pseudouridylate synthase B [Sodalis glossinidius str. 'morsitans'] gi|84779903|dbj|BAE74680.1| putative pseudouridine synthase [Sodalis glossinidius str. 'morsitans'] Length = 297 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 105/303 (34%), Positives = 156/303 (51%), Gaps = 21/303 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGV--PLR 68 +++ KV+AR+G SRRE+E +I Q RV V+G + V+V ST I +DG ++ Sbjct: 3 ESEKLQKVLARSGQGSRREIEAVIEQGRVSVDGKVATLGDRVDVTSTTKIRIDGRIIAIK 62 Query: 69 KAERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLT 125 E R+ Y+KP G + T DP+GR TVFD LP +R ++VGRLDINT GLLL T Sbjct: 63 PVEDAVCRVLTYYKPEGELCTRRDPEGRPTVFDRLPRLNNARWVAVGRLDINTSGLLLFT 122 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y +R G+VD+DK L +G+ + +T +G Sbjct: 123 TDGELANRLMHPSCKIEREYALRVFGEVDEDKQRQLTRGVQLDDGPAAFRSLTFQGGEGL 182 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---IL 241 N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ + L Sbjct: 183 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDVTLPKGLPRGGWTELPLEQTNYL 242 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIIS-EVPDDFTRMKKNSSQKNGLSKQKK 300 RE +V L + + RDR + + ++ R + + + G K+ Sbjct: 243 RE----------KVQLPLESVTKLPVERDRRRLKATQIRRVVKRNSQRAPSRRGGQSIKR 292 Query: 301 LAT 303 Sbjct: 293 NNG 295 >gi|149180996|ref|ZP_01859497.1| tRNA pseudouridine synthase A [Bacillus sp. SG-1] gi|148851280|gb|EDL65429.1| tRNA pseudouridine synthase A [Bacillus sp. SG-1] Length = 238 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 70/235 (29%), Positives = 120/235 (51%), Gaps = 8/235 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +R+I + RV +NG + V D I V G +R A Sbjct: 5 RINKFISEAGKASRRGADRLIEEGRVTINGKKAK-IGDQVEPGDDIRVSGQQIRVARNNV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ +T ++ + + + D + RV ++GRLD +++GL+LLTNDG + + Sbjct: 64 YLALNKPVGITST-TEKNVKGNIVDLVNHPL-RVFNIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 Q + Y V + + L + +G+ I G +V ++ S + L Sbjct: 122 LRAENQHEKEYIVSVDKPITPEFLTQMSEGVKILGTKTLPCKV----EQLSKFDFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 +G NR+I+++ E ++V RL R+ LG L G R+++KK ++QL L Sbjct: 178 QGLNRQIRRMCEALGYEVFRLQRVRIMNIHLGNLPVGQWRDLTKKE-KQQLFREL 231 >gi|254786469|ref|YP_003073898.1| ribosomal large subunit pseudouridine synthase B [Teredinibacter turnerae T7901] gi|237684905|gb|ACR12169.1| ribosomal large subunit pseudouridine synthase B [Teredinibacter turnerae T7901] Length = 285 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 102/296 (34%), Positives = 157/296 (53%), Gaps = 23/296 (7%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +++ KV+ARAG+ SRRE+ER+I+ +V VNG V + D IE DG ++ Sbjct: 7 EPQGEKLQKVLARAGLGSRREMERLISLGKVSVNGATAR-LGDRVGAEDKIEYDGKRIQA 65 Query: 70 A----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLL 124 A +RTR+ LY+KP G + + +DP+GR TV+DNLP I SR ISVGRLD NT GLLL Sbjct: 66 APVVKQRTRVILYNKPEGQICSRNDPEGRPTVYDNLPKIAQSRWISVGRLDFNTSGLLLF 125 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LA L PST R Y VR G+VD D L L+ G++++ + ++ Sbjct: 126 TNDGELANKLMHPSTGIDREYLVRIQGEVDNDMLQRLRDGVLLEDGIARFTDIVEGQKES 185 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 N W + EG+NRE+++++E +V+RL R+ YG + + + AG E+++K + E Sbjct: 186 KNRWFYCVVMEGRNREVRRLWESQEVRVSRLKRVRYGNIFIPSHVRAGQWVELTEKDVGE 245 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 ++ +P E+ R ++ + N ++ Sbjct: 246 L----------------CDTAGLAPPPKPKYSPELRRSRERHQRKLRKANTSRTRR 285 >gi|110597201|ref|ZP_01385490.1| Pseudouridine synthase, Rsu [Chlorobium ferrooxidans DSM 13031] gi|110341392|gb|EAT59857.1| Pseudouridine synthase, Rsu [Chlorobium ferrooxidans DSM 13031] Length = 247 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 76/241 (31%), Positives = 121/241 (50%), Gaps = 8/241 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 N R+++ +A GIASRR ++++ + RV VNG ++ + V D + VDG Sbjct: 4 STNSEEVRINRFLALCGIASRRAADQLVLEGRVMVNGTVITQPGTKVNPDKDEVIVDGQK 63 Query: 67 LRKAE-RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + E R L++KP +++T SD R V D + + RV VGRLD T GL+LLT Sbjct: 64 YAQPESRKVYILFNKPRNVISTSSDEKNREMVLDYI-DVKERVFPVGRLDRKTTGLILLT 122 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQK 183 NDG LA L PS+ + Y + L L G+ ++ G + L + Sbjct: 123 NDGTLANKLMHPSSNVKKEYIAVLGEKFPASMLPQLTGGMRLKDTGEKVRPCRAKLLDEG 182 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V + + EGKN +++++FE ++V RL R++Y +G L G R +S+ +RE Sbjct: 183 ---MQVLLSIHEGKNHQVRRMFETLGYEVKRLERVAYAGLTIGELRRGEWRYLSRNEVRE 239 Query: 244 Q 244 Sbjct: 240 L 240 >gi|154504970|ref|ZP_02041708.1| hypothetical protein RUMGNA_02480 [Ruminococcus gnavus ATCC 29149] gi|153794853|gb|EDN77273.1| hypothetical protein RUMGNA_02480 [Ruminococcus gnavus ATCC 29149] Length = 241 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 68/229 (29%), Positives = 115/229 (50%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV+R I++ RV V+G +++ + + DG + ++ Sbjct: 3 IRLDKYLADMGVGTRTEVKRAISKGRVSVDGACVKKPETKIDTEETTVVFDGQIVEYTKK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP G+++ D ++ + + + VGRLD +TEGLLL+TNDG LA Sbjct: 63 EYY-MLHKPAGVISATEDAREKTVIDLIVSRKRKDLFPVGRLDKDTEGLLLITNDGELAH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y + G V Q+ + +G+ I V + G + + + Sbjct: 122 RLLSPKKHVDKTYYAKVQGIVTQEDVRKFAEGVDIHEKKLTAPAVLEVVKSGEVSEILLT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + EGK ++K++FE KV L R+S GP QL TL+ G RE+++K Sbjct: 182 ICEGKFHQVKRMFEAVGKKVIYLKRLSMGPLQLDETLMPGEYRELTEKE 230 >gi|91782986|ref|YP_558192.1| ribosomal large subunit pseudouridine synthase B [Burkholderia xenovorans LB400] gi|91686940|gb|ABE30140.1| ribosomal large subunit pseudouridine synthase B [Burkholderia xenovorans LB400] Length = 633 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 92/285 (32%), Positives = 145/285 (50%), Gaps = 10/285 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRR++E +I RV VNG +M TD + ++ Sbjct: 207 KRVLAADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRIN 265 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 266 GKPVKRKLASKPPRVLLYHKPTGEIVSHADPEGRPSVFDKLPPMKTAKWLAVGRLDFNTE 325 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 326 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLHGVELDDGPANFLRIRD 385 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 386 GGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPISLPKGLKRGRWEELED 445 Query: 239 KILREQLG----PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVP 279 +R + EE AP ++ I+ P Sbjct: 446 NQVRALMASVGLKAPTEERGSRNAAPERKQPDPMQTSMGFINREP 490 >gi|332359960|gb|EGJ37774.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1056] Length = 242 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 115/234 (49%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++ + + V VNG + + T D I V G L E+ Sbjct: 1 MRLDKFLAENGLGSRAQVKQFLKKGLVLVNGRAEKSPKTQIDETADEIVVSGQRLTY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATED-DRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A + P ++YR + G ++Q + GI ++ Q+ + + + Sbjct: 119 AHAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAQLKIVELDEAKETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V + L EGK ++K++ +V L R++ G QL + L G R ++++ + Sbjct: 179 VEITLAEGKFHQVKRMVASCGKEVTDLQRLTMGSLQLDSALALGEWRRLTEEEM 232 >gi|303233760|ref|ZP_07320414.1| putative pseudouridine synthase B, ribosomal large subunit [Finegoldia magna BVS033A4] gi|302495194|gb|EFL54946.1| putative pseudouridine synthase B, ribosomal large subunit [Finegoldia magna BVS033A4] Length = 242 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 71/229 (31%), Positives = 118/229 (51%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA++G SRR + +I +V VNG +L + V TD +EV+G + E Sbjct: 1 MRINKFIAQSGYCSRRNADELIKNSKVYVNGTILLDLSYQVNDTDIVEVEGKKINLKEDK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KPIG +T D V D + +RV VGRLD ++ GLL+LTNDG Sbjct: 61 IYIAINKPIGYASTVKDKFADKKVVDLI-KSDTRVYPVGRLDKDSHGLLILTNDGEFTYE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + ++Y V G+ ++ ++ LK GI++ G ++ ++ V + Sbjct: 120 LTHPKFEHKKIYEVLVKGKPNKTEIKQLKDGILLDGYKLKKSKIEFIENVKNDTKYRVTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EG+NR+I+++F+F N V L R+ G +++ L +G + + K L Sbjct: 180 FEGRNRQIRRMFDFINHPVLDLKRVQIGNYKMDNSLKSGEYKLLKSKDL 228 >gi|289167140|ref|YP_003445407.1| ribosomal small subunit pseudouridine synthase A [Streptococcus mitis B6] gi|288906705|emb|CBJ21539.1| ribosomal small subunit pseudouridine synthase A [Streptococcus mitis B6] Length = 240 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 73/237 (30%), Positives = 114/237 (48%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKSGRVTVNGKKEKSAKLQIDEERDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L I V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPKGVISATEDPKHR-TVLDLLDDIARSKEVFPVGRLDIDTHGLLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A L P + Y + G + Q+ KGI ++ ++ L + K + + Sbjct: 119 AHALLSPKRHVDKTYLAQVKGIMTQEDAETFAKGIPLKDFTCQPARLELVSVDTKKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + V + EGK ++K++ + +V L R++ G L L G R ++K+ L + Sbjct: 179 IRVTIAEGKFHQVKRMVGYCGKEVVDLQRLTMGTLVLDENLQRGEWRRLTKEELEDL 235 >gi|228994293|ref|ZP_04154184.1| Pseudouridine synthase [Bacillus pseudomycoides DSM 12442] gi|228997453|ref|ZP_04157072.1| Pseudouridine synthase [Bacillus mycoides Rock3-17] gi|229005098|ref|ZP_04162822.1| Pseudouridine synthase [Bacillus mycoides Rock1-4] gi|228756200|gb|EEM05521.1| Pseudouridine synthase [Bacillus mycoides Rock1-4] gi|228762329|gb|EEM11256.1| Pseudouridine synthase [Bacillus mycoides Rock3-17] gi|228765443|gb|EEM14106.1| Pseudouridine synthase [Bacillus pseudomycoides DSM 12442] Length = 235 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 64/233 (27%), Positives = 113/233 (48%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ +G ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 1 MRINKFISESGKASRRGADKLINERRVIINGKVAK-IGDQVQPGDDVRVNGEQLRIARDH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T S+ + + D + R+ VGRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RINHVGRLDKDSDGLILLTNDGDIINE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + L + G+ I G ++T + S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPEFLKEMAAGVKILGTKTLPCEIT----QLSKYEFQIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +G NR+I+++ E ++V L R QL L G R+++KK + Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIQLNNLPVGQWRDLTKKEKKRLFA 226 >gi|116073056|ref|ZP_01470318.1| putative pseudouridylate synthase specific to ribosomal small subunit [Synechococcus sp. RS9916] gi|116068361|gb|EAU74113.1| putative pseudouridylate synthase specific to ribosomal small subunit [Synechococcus sp. RS9916] Length = 249 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 79/240 (32%), Positives = 115/240 (47%), Gaps = 1/240 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E +R+ K+IA AG+ SRR E ++ RVKVN + + D I +DG PL Sbjct: 8 ETVKAERLQKLIAAAGVCSRRHAEELLRAGRVKVNDRMAQLGDRAEPGLDRITIDGTPLP 67 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTND 127 + RL L +KP G++++ DP GR V D +P R + VGRLD + G LLLTN Sbjct: 68 ANDPPRLLLLNKPRGVISSCQDPQGRPIVLDLVPKHLRRGLHPVGRLDAESRGALLLTNQ 127 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + YRV G+ L ++G+ + +V + Sbjct: 128 GELTLQLTHPRYSHAKTYRVWVQGRPSHGALEHWRRGLRLDQRLTQPAEVRELHHNANRT 187 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + V LREG+NR+I++V E V L R + LG+L G RE+++ R P Sbjct: 188 LLEVVLREGRNRQIRRVAELLGHPVLDLQRTAIATVVLGSLQEGRWRELTEGEWRALTRP 247 >gi|330467060|ref|YP_004404803.1| pseudouridine synthase [Verrucosispora maris AB-18-032] gi|328810031|gb|AEB44203.1| pseudouridine synthase [Verrucosispora maris AB-18-032] Length = 256 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 77/234 (32%), Positives = 120/234 (51%), Gaps = 1/234 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+ KV+A AG+ SRR E +I +++V VNG + + +T I V+G L+ R Sbjct: 18 PERLQKVLAAAGVGSRRACEDLIFRRKVTVNGRVAQLGDKVDPATAVIHVNGERLQADTR 77 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP G+V+T +D GR+ + D L + RV VGRLD ++EGLLLLTNDG LA Sbjct: 78 LVYLAMNKPRGVVSTMADERGRTALADFLNNRVEQRVYHVGRLDADSEGLLLLTNDGTLA 137 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS + Y G + ++ L GI ++ + G A V + Sbjct: 138 HRLMHPSYGVQKTYLCEVAGPIPRNLGKRLAAGIELEDGPVSVDAFRVVDSLGRTAQVEL 197 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L EG+ ++++ V+RL+R + GP +LG L +G TR ++ + Sbjct: 198 SLHEGRKHIVRRLLAEVGHPVSRLVRTAIGPIRLGDLRSGRTRRLTNAEVAALF 251 >gi|288905607|ref|YP_003430829.1| ribosomal small subunit pseudouridine synthase [Streptococcus gallolyticus UCN34] gi|288732333|emb|CBI13903.1| ribosomal small subunit pseudouridine synthase [Streptococcus gallolyticus UCN34] Length = 242 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 68/234 (29%), Positives = 111/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + AGI SR EV++++ +++V VNG + + D I G L E+ Sbjct: 1 MRLDKFLVEAGIGSRTEVKQLLKKKQVLVNGKVEISPKTQIDEKADRISCQGQTLSY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D + TV D L VGRLDI+T GLLLLTN+G L Sbjct: 60 YVYYMLNKPKGVISATED-NHHKTVLDLLDKIAWDKEAFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A + P + YR + G + + GI ++ Q+ + + + Sbjct: 119 AHAMLSPKKHVDKTYRAKVAGLMTTADVAAFANGIDLKDFTCQPAQLVILETNEAERTSV 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V + ++EGK ++K++ + KV L R+S GP QL L G R ++ L Sbjct: 179 VEITIKEGKFHQVKRMVQACGKKVTDLQRLSMGPLQLDKQLALGEWRRLTDDEL 232 >gi|281354990|ref|ZP_06241484.1| pseudouridine synthase [Victivallis vadensis ATCC BAA-548] gi|281317870|gb|EFB01890.1| pseudouridine synthase [Victivallis vadensis ATCC BAA-548] Length = 241 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 76/234 (32%), Positives = 119/234 (50%), Gaps = 5/234 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 EN +R+ K+++ AGIASRR +I RV VNG + V D +E DGVP+ Sbjct: 2 ENDNRERLVKILSAAGIASRRGAGDLIKAGRVTVNGETVFEPGFRVAPGDRVEYDGVPVL 61 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 ER + +KP G V T++DP D + R+ S GRLD ++EGL+L +ND Sbjct: 62 AEERKVYIMLNKPRGYVCTNADPHADLKAVDLIRLTPPLRLFSAGRLDKDSEGLILFSND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L P + L+VY+VR + +L +++G++ +G V+ + + Sbjct: 122 GDYVARLTHPRHEILKVYQVRVRREFKPAELEQMRRGVLERGELLKVHAVS----RCGDC 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EGKNREI+++ RL R+ G +LG L G+ RE++ + Sbjct: 178 TYLITLNEGKNREIRRLTAALGSPTRRLKRLQIGALRLGGLPVGNWRELTPAEI 231 >gi|88705955|ref|ZP_01103663.1| ribosomal large subunit pseudouridine synthase B (Pseudouridylate synthase) [Congregibacter litoralis KT71] gi|88699669|gb|EAQ96780.1| ribosomal large subunit pseudouridine synthase B (Pseudouridylate synthase) [Congregibacter litoralis KT71] Length = 332 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 105/315 (33%), Positives = 161/315 (51%), Gaps = 15/315 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA- 70 +++ KV+AR+G+ SRRE+ER I Q+RV ++G R V++ IEVDG PL + Sbjct: 18 DGEKLQKVLARSGLGSRREMERWIEQERVTIDGK-AARLGDRVVAAQRIEVDGRPLVASD 76 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 E+TR LYHKP G V + DP+GR TVF+ LP + S R IS+GRLD NT GLLL T DG Sbjct: 77 GEKTRCLLYHKPTGEVCSRKDPEGRRTVFERLPKVKSGRWISIGRLDYNTSGLLLFTTDG 136 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS R Y VR G V +D L + +G++++ + G N+W Sbjct: 137 ELANALMHPSANIEREYMVRVMGDVTEDHLKAMLEGVMLEDGVARFTDIQSGGGDGINSW 196 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL-- 245 V L EG+NRE+++++E V+RL R+ YG + + + G +E++ + Sbjct: 197 YYVVLMEGRNREVRRLWESQGLTVSRLKRVRYGDLFVPSKVKKGQWQELAPNEINGLYRM 256 Query: 246 ----GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ--- 298 + ++ + R R N ++ D T S+K S++ Sbjct: 257 AGMQAKDVEPPSREDRSKHKRMEGKRGRVRGNRHAKSARDKTGAPDKGSRKPSRSRKPGS 316 Query: 299 -KKLATPVHRRNLAS 312 K+ + PV + + Sbjct: 317 GKRESAPVKNKGRSR 331 >gi|288818760|ref|YP_003433108.1| pseudouridine synthase [Hydrogenobacter thermophilus TK-6] gi|288788160|dbj|BAI69907.1| pseudouridine synthase [Hydrogenobacter thermophilus TK-6] gi|308752347|gb|ADO45830.1| pseudouridine synthase [Hydrogenobacter thermophilus TK-6] Length = 253 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 70/229 (30%), Positives = 123/229 (53%), Gaps = 3/229 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+++ I+ G+ASRR+ +++I + +VKVNGI ++ V D +EV+G ++ R Sbjct: 9 RLNRFISMCGVASRRKADKLIKEGKVKVNGITIKEMGYRVDPQKDVVEVEGRVIKAP-RY 67 Query: 74 RLWLYHKPIGLVTTHSD-PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + +KP +++ ++ DG+ ++ + + +I RV GRLD N EGLL+LTNDG LA Sbjct: 68 RYVILNKPCCYLSSLAEGKDGKKSIKELIKNIPERVYPAGRLDYNAEGLLVLTNDGELAN 127 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y V G+V+ L + KG ++ +V + + + + V Sbjct: 128 RIMHPRYKLKKTYLVWVEGRVNPKTLKEMAKGAHLEDGFARPDKVRIVKMQKDSTLLEVV 187 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+ +K+ F KV L R + GP +LG L G R+++ + L Sbjct: 188 FHEGRKHIVKRFMAKFGHKVKALKRTAIGPIKLGKLPPGKWRDLTAEEL 236 >gi|159026975|emb|CAO86693.1| unnamed protein product [Microcystis aeruginosa PCC 7806] Length = 248 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 90/239 (37%), Positives = 127/239 (53%), Gaps = 10/239 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV K++A+ GIASRR E MI +RV+ NG +++ DH+E+DG + A R Sbjct: 3 ERVQKILAQWGIASRRRAEEMIVARRVRRNGKIVQLGEKADPEKDHLEIDGKKIEPANRP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDG 128 + L +KPIG+V+T DP R TV D LP + + VGRLDINT G LLLTNDG Sbjct: 63 KRLYILVNKPIGVVSTCKDPQNRPTVIDLLPDSLASETGLHPVGRLDINTTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + YRV G +D L ++GI+++G QV + Q Sbjct: 123 QLTLTLTHPRYHLPKTYRVWLDGAIDTLALQRWREGILLEGKKTLPAQVEILKQTDQKTL 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREVSKKILR 242 + V L EG+NR+I+ V E + V +L R + GP QL + L G R ++ L+ Sbjct: 183 LEVILVEGRNRQIRCVAEELGYHVLKLHRSAIGPIQLNSGNNSPLPLGHYRFLTLDELK 241 >gi|92112979|ref|YP_572907.1| ribosomal large subunit pseudouridine synthase B [Chromohalobacter salexigens DSM 3043] gi|91796069|gb|ABE58208.1| ribosomal large subunit pseudouridine synthase B [Chromohalobacter salexigens DSM 3043] Length = 286 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 100/290 (34%), Positives = 148/290 (51%), Gaps = 11/290 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N +++ KV+ARAG SRRE+E IA RVKVNG + + + D + D P+ Sbjct: 2 NTPTEKLQKVLARAGFGSRREMETAIADGRVKVNGQVAT-LGDRIETRDRVTFDERPVNL 60 Query: 70 AE----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLL 124 + R+ +Y+KP G + T DP+GR TVF+ LP R I+VGRLDINT GLLL Sbjct: 61 RDAEEVPRRVIMYNKPEGELCTRRDPEGRRTVFERLPRLKGERWIAVGRLDINTSGLLLF 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T DG LA L P+TQ R Y VR G V Q+ +N + +G++++ V +G Sbjct: 121 TTDGELANRLMHPATQVEREYAVRVMGNVRQEHVNAMVEGVMLEDGPARFTDVQEFGGEG 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 N W V + EG+NRE+++++E V+RL R+ YG L AG E+S+ + + Sbjct: 181 INTWFHVVILEGRNREVRRLWESQGLTVSRLKRVRYGNIFLDKRAKAGEWVELSQDEIDD 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 L +V P + + R + P + R K+S + Sbjct: 241 LAQLADLPARKV----PELTPDEQNRWSRDKNKRRPVNAMRKPKSSRRSR 286 >gi|332365802|gb|EGJ43559.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK355] Length = 242 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 70/234 (29%), Positives = 115/234 (49%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L E+ Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIIVSGQRLIY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISVTED-DRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A + P ++YR + G ++Q + GI ++ Q+ + + + Sbjct: 119 AHAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFICQPAQLKIVELDEAKETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V + L EGK ++K++ +V L R+ GP QL + L G R +++ + Sbjct: 179 VEITLAEGKFHQVKRMVASCGKEVTDLQRLRMGPLQLDSALSLGEWRRLTEAEI 232 >gi|257420928|ref|ZP_05597918.1| pseudouridine synthase [Enterococcus faecalis X98] gi|300861842|ref|ZP_07107922.1| pseudouridylate synthase [Enterococcus faecalis TUSoD Ef11] gi|257162752|gb|EEU92712.1| pseudouridine synthase [Enterococcus faecalis X98] gi|300848367|gb|EFK76124.1| pseudouridylate synthase [Enterococcus faecalis TUSoD Ef11] Length = 244 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 74/242 (30%), Positives = 120/242 (49%), Gaps = 10/242 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L ++ Sbjct: 1 MRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEILTY-QK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ HKP G+++ D TV D L R + VGRLD +TEGLLLLTNDG L Sbjct: 60 FFYYMLHKPQGVISATED-QRDETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--QKGSNA 187 A L P + Y G V + L +G + G ++ ++T ++ + Sbjct: 119 AHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEIVKPSRLVIETINEEEGTS 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 V + ++EGK ++K++ V L R+ G L TL G R +++ L +QL Sbjct: 179 VVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGGYRPLTEAEL-QQLQ 237 Query: 247 PH 248 P Sbjct: 238 PK 239 >gi|229085292|ref|ZP_04217534.1| Pseudouridine synthase [Bacillus cereus Rock3-44] gi|228698011|gb|EEL50754.1| Pseudouridine synthase [Bacillus cereus Rock3-44] Length = 238 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 65/232 (28%), Positives = 113/232 (48%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISESGKASRRGADKLINERRVIINGKVAK-IGDQVQPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D + RV VGRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RVNHVGRLDKDSDGLILLTNDGDIINEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPEFLKQMAAGVKILGTKTLPCEIT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +G NR+I+++ E ++V L R QL L G R+++KK + Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIQLNNLPVGQWRDLTKKEKKRLFA 229 >gi|225870791|ref|YP_002746738.1| ribosomal small subunit pseudouridine synthase B [Streptococcus equi subsp. equi 4047] gi|225700195|emb|CAW94370.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus equi subsp. equi 4047] Length = 237 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 67/237 (28%), Positives = 109/237 (45%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + AG+ SR +V+ ++ +++V VNG+ V TD + G L E Sbjct: 1 MRLDKFLVDAGLGSRSQVKLLLKKKQVSVNGVSQTSPKYQVNEMTDEVSYQGQRLNY-EA 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D TV D L + V VGRLD +T GLLL+TNDG L Sbjct: 60 FVYYMLNKPKGVISATED-SSHKTVLDLLDDTARQKAVFPVGRLDKDTHGLLLVTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAW 188 A L P + Y G + Q+ + +GI ++ + + + Sbjct: 119 AHALLSPKKHVAKQYLAVVDGMMTQEDVKHFAQGITLKDHQCMPAHLDILEINESLKTSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 V + + EGK ++K++ V+ L RIS GP QL + L G+ R ++ L Sbjct: 179 VKITIEEGKFHQVKRMVAACGKTVSDLQRISMGPLQLDSALAPGAYRRLTAAELEAL 235 >gi|157828676|ref|YP_001494918.1| ribosomal large subunit pseudouridine synthase B [Rickettsia rickettsii str. 'Sheila Smith'] gi|157801157|gb|ABV76410.1| ribosomal large subunit pseudouridine synthase B [Rickettsia rickettsii str. 'Sheila Smith'] Length = 230 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 107/228 (46%), Positives = 147/228 (64%), Gaps = 2/228 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+I+ AG+ SRR+ E++I + +VKV+GI + NV ++ IEV G + + R Sbjct: 3 RLAKIISNAGVCSRRDAEKLIVEGQVKVDGITILSPTTNVDISNQIEVSGTLINNIHKPR 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW+Y+KP+GL+TTH DP R TVF+ L RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 63 LWIYYKPVGLITTHKDPLSRKTVFEQLTG-LPRVISIGRLDLNSEGLLLLTNSGDLARQF 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPS++ RVY VR +G+ L K + I GI Y + L Q +N W V L Sbjct: 122 ELPSSRLKRVYHVRAYGK-SDVLLKSNYKNLEIDGIFYNPHSIKLLKQNKTNCWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 181 EGKNREIRRIFEYCGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKILE 228 >gi|299822093|ref|ZP_07053979.1| ribosomal small subunit pseudouridine synthase A [Listeria grayi DSM 20601] gi|299815622|gb|EFI82860.1| ribosomal small subunit pseudouridine synthase A [Listeria grayi DSM 20601] Length = 242 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 80/243 (32%), Positives = 116/243 (47%), Gaps = 9/243 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV-NVMSTDHIEVDGVPLRKAER 72 R+ K +A G SR+EV++ + + V VNG ++ V ++D + V + E Sbjct: 1 MRLDKFLAHHGYGSRKEVKQFLKKTEVTVNGKRVQDGKQAIVPTSDIVRVQDEVILYQE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 W+ HKP G ++ D TV D L V VGRLD +TEGLLLLT+DG L Sbjct: 60 YVYWMLHKPSGYISATEDQA--KTVLDLLKPKDAGRAVFPVGRLDKDTEGLLLLTDDGQL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P +VY G V D ++ KKGIV+ ++ + G + Sbjct: 118 AHELLSPKKHVNKVYEATIEGVVTGDDVHAFKKGIVLEDDYQCKPAKLEILQVNGVKTDI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + ++EGK +IK++F + KV L RI G QL L G R ++ + L EQL Sbjct: 178 RITIQEGKYHQIKRMFLAVDKKVIYLKRIQMGSLQLDENLARGEYRPLTVEEL-EQLSKK 236 Query: 249 LLE 251 LE Sbjct: 237 RLE 239 >gi|212710610|ref|ZP_03318738.1| hypothetical protein PROVALCAL_01676 [Providencia alcalifaciens DSM 30120] gi|212686691|gb|EEB46219.1| hypothetical protein PROVALCAL_01676 [Providencia alcalifaciens DSM 30120] Length = 292 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 68/299 (22%), Positives = 133/299 (44%), Gaps = 16/299 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AER 72 R++K I+ +GI SRRE +R I Q V +NG V + D ++V+G + E Sbjct: 8 RLNKYISESGICSRREADRYIEQGHVFINGKRA-GIGDQVSAGDVVKVNGQLIEPRNEED 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G+V+T + + V + + +R+ +GRLD +++GL+ LTN G L Sbjct: 67 LVLIALNKPVGIVSTTESGEKDNIV--DYVNHSTRIFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + V + + + G+ I G +V K + + Sbjct: 125 KILRAGNDHEKEYIVTVNKPVTDEFIRGMGAGVPILGTMTKKCKVK----KEAPFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E F ++V +L R+ +L + G R+++ L E +L+E+ Sbjct: 181 LVQGLNRQIRRMTEHFGYEVTKLERVRIMNVRLTGIPVGEWRDLTDDELIELF--NLIEK 238 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 ++ ++ + + + + + N +KK P ++ Sbjct: 239 SESDV-----KPKKAAKPQARASNNKSSGKQGSGSQKPKVNAEPPKKKFTQPGRKKKKR 292 >gi|165933395|ref|YP_001650184.1| ribosomal large subunit pseudouridine synthase B [Rickettsia rickettsii str. Iowa] gi|165908482|gb|ABY72778.1| ribosomal large subunit pseudouridine synthase B [Rickettsia rickettsii str. Iowa] Length = 230 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 107/228 (46%), Positives = 147/228 (64%), Gaps = 2/228 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+I+ AG+ SRR+ E++I + +VKV+GI + NV ++ IEV G + + R Sbjct: 3 RLAKIISNAGVCSRRDAEKLIVEGQVKVDGITILSPTTNVDISNQIEVSGTLINNIHKPR 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW+Y+KP+GL+TTH DP R TVF+ L RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 63 LWIYYKPVGLITTHKDPLSRKTVFEQLTG-LPRVISIGRLDLNSEGLLLLTNSGDLARQF 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPS++ RVY VR +G+ L K + I GI Y + L Q +N W V L Sbjct: 122 ELPSSRLKRVYHVRAYGK-SDVLLKSNYKNLEIDGIFYNPHSIKLLKQNKTNCWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 181 EGKNREIRRIFEYCGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKILE 228 >gi|320539364|ref|ZP_08039033.1| putative 16S rRNA pseudouridylate 516 synthase [Serratia symbiotica str. Tucson] gi|320030489|gb|EFW12499.1| putative 16S rRNA pseudouridylate 516 synthase [Serratia symbiotica str. Tucson] Length = 239 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 56/237 (23%), Positives = 110/237 (46%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +R+ V+G +++ AV + ++ DG L + Sbjct: 1 MRLDKFLSQQLGISRALVARELRARRITVDGEVVKNGAVKLAVEQEVKFDGNLLAQQNGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + + + GRLDI+T GL+L+T+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYNLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + + G+ + V L+ K ++ V + + Sbjct: 121 VTSPKHHCEKTYLVTLEHSLAANTAQRFAAGVQLHNEKSLTRPVQLE--KINDRQVRLAI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHL 249 EG+ ++K++F +V L R G + L +G+ R ++ + + PHL Sbjct: 179 SEGRYHQVKRMFAAIGNRVIALHRERIGTIVMDKDLASGAYRPLTAEEIASVGAPHL 235 >gi|229586865|ref|YP_002845366.1| Ribosomal large subunit pseudouridine synthase [Rickettsia africae ESF-5] gi|228021915|gb|ACP53623.1| Ribosomal large subunit pseudouridine synthase [Rickettsia africae ESF-5] Length = 230 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 106/228 (46%), Positives = 147/228 (64%), Gaps = 2/228 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+I+ AG+ SRR+ E++I + +VKV+G+ + NV ++ IEV G + + R Sbjct: 3 RLAKIISNAGVCSRRDAEKLIVEGQVKVDGVTILSPTTNVDISNQIEVSGTLINNIHKPR 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW+Y+KP+GL+TTH DP R TVF+ L RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 63 LWIYYKPVGLITTHKDPLSRKTVFEQLTG-LPRVISIGRLDLNSEGLLLLTNSGDLARQF 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPS++ RVY VR +G+ L K + I GI Y + L Q +N W V L Sbjct: 122 ELPSSRLKRVYHVRAYGK-SDILLKSNYKNLEIDGIFYNPHSIKLLKQNKTNCWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 181 EGKNREIRRIFEYCGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKILE 228 >gi|170760151|ref|YP_001788590.1| RNA pseudouridine synthase family protein [Clostridium botulinum A3 str. Loch Maree] gi|169407140|gb|ACA55551.1| RNA pseudouridine synthase family protein [Clostridium botulinum A3 str. Loch Maree] Length = 238 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 119/233 (51%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L ++ Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVY-KK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+V+ D + TV D L VGRLD NT GLLLLTNDG L Sbjct: 61 YIYLIMNKPQGVVSATFD-NYDETVVDLLEDEDRIFEPFPVGRLDKNTVGLLLLTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P ++Y + + +V + + KKGI++ G ++ + + V Sbjct: 120 NHRLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDDGYECFPAKLEIIKSFNEESEV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + EGK ++K++FE + KV L R +GP +L +L G RE++ + + Sbjct: 180 RVTIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQCRELTDEEI 232 >gi|152976935|ref|YP_001376452.1| pseudouridine synthase [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|152025687|gb|ABS23457.1| pseudouridine synthase [Bacillus cytotoxicus NVH 391-98] Length = 229 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 66/235 (28%), Positives = 114/235 (48%), Gaps = 10/235 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++++ I+ A SRRE +R+I RV +N + V V D + VDG + K E+ Sbjct: 1 MKINQFISEALSCSRRETDRLIKAGRVAMNDKVCTH-GVLVKPDDVVTVDGKVIEKEEKE 59 Query: 74 R-LWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +HKP+G+ T + +G + N P R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAKHIEGNIIAYINYPE---RIFPVGRLDKASEGLILLTNDGKIA 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V ++ + G+ I+ +VT + ++ + Sbjct: 117 NQILHGDHGHEKEYVVTVDKSFTDGFIHGMSCGVKIKDGMTKPCKVT----RVDDSTFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +LG L G R ++ + L+E G Sbjct: 173 VLTQGMNRQIRRMSRAFGYTVTKLKRVRIMNIKLGELEVGKWRYLTDEELQELRG 227 >gi|319763718|ref|YP_004127655.1| pseudouridine synthase [Alicycliphilus denitrificans BC] gi|330824019|ref|YP_004387322.1| pseudouridine synthase Rsu [Alicycliphilus denitrificans K601] gi|317118279|gb|ADV00768.1| pseudouridine synthase [Alicycliphilus denitrificans BC] gi|329309391|gb|AEB83806.1| pseudouridine synthase Rsu [Alicycliphilus denitrificans K601] Length = 451 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 94/308 (30%), Positives = 147/308 (47%), Gaps = 7/308 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + K ++ ++ KV+A+AG+ SR E+E++I + R+ VN V D I Sbjct: 118 VPHKRVLLPQPESPKLHKVLAQAGMGSRLEMEQLILEGRISVNNEPA-HIGQRVQFGDQI 176 Query: 61 EVDGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDI 116 +V+G P+R TR+ YHKP+G V TH DP R TVF LP + + SVGRLD+ Sbjct: 177 KVNGKPIRFRVAPPPTRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLQQGKWQSVGRLDL 236 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLLL T+ G LA L P R Y VR G + ++ L G+ ++ Sbjct: 237 NTEGLLLFTSSGELANKLMHPRFGLEREYAVRVLGALSDEERQRLLDGVSLEDGMAAFGS 296 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTRE 235 + +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E Sbjct: 297 IEDGGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMMLPRGLKRGAWLE 356 Query: 236 VSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 + + +R + + + R +P + + + + +G Sbjct: 357 LDEHDIRALMQAAGVPADAGGGARAGRNGRRGER-KPMGAKMQGEGRGKAAGRAGRSSGS 415 Query: 296 SKQKKLAT 303 S+ + T Sbjct: 416 SQPDPMKT 423 >gi|260061659|ref|YP_003194739.1| ribosomal large subunit pseudouridine synthase B [Robiginitalea biformata HTCC2501] gi|88785791|gb|EAR16960.1| ribosomal large subunit pseudouridine synthase B [Robiginitalea biformata HTCC2501] Length = 303 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 75/229 (32%), Positives = 114/229 (49%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGI SRRE + IA V VNG + V TD + DG L++ ER Sbjct: 70 IRLNKYIANAGICSRREADTYIAAGNVTVNGKTITEMGYKVQPTDEVRFDGRLLQR-ERK 128 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP +TT D GR TV + + + +R++ VGRLD NT GLLL TNDG LA+ Sbjct: 129 EYVLLNKPRNFITTTRDEKGRRTVMELISRASNARLVPVGRLDRNTTGLLLFTNDGELAK 188 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P ++Y V L L++G+ ++ + + S V V Sbjct: 189 KLTHPKHGVRKIYHVELDKTFKSADLGKLREGLELEDGRIEVDEASYIDG-ASKKEVGVE 247 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L G+NR ++++FE ++V +L R+ L G R ++++ + Sbjct: 248 LHSGRNRIVRRIFEHLGYQVVKLDRVVLAGLTKKDLPRGHWRHLTEQEV 296 >gi|166366480|ref|YP_001658753.1| ribosomal large subunit pseudouridine synthase B [Microcystis aeruginosa NIES-843] gi|166088853|dbj|BAG03561.1| probable ribosomal large subunit pseudouridine synthase B [Microcystis aeruginosa NIES-843] Length = 248 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 89/239 (37%), Positives = 126/239 (52%), Gaps = 10/239 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV K++A+ GIASRR E MI RV+ NG +++ DH+E+DG + A R Sbjct: 3 ERVQKILAQWGIASRRRAEEMIVAGRVRRNGKIVQLGEKADPEKDHLEIDGKKIEPANRP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDG 128 + L +KPIG+V+T DP R TV D LP + + VGRLDINT G LLLTNDG Sbjct: 63 KRLYILVNKPIGVVSTCRDPQNRPTVIDLLPDSLASETGLHPVGRLDINTTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + YRV G +D+ L ++GI+++G QV + Q Sbjct: 123 QLTLTLTHPRYHLPKTYRVWLDGAIDRLALQRWREGILLEGKKTLPAQVEILKQTDQKTL 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREVSKKILR 242 + V L EG+NR+I+ V E + V +L R + G QL + L G R ++ L+ Sbjct: 183 LEVILVEGRNRQIRSVAEELGYHVLKLHRSAIGRIQLNSGNNSPLPLGDYRFLTLDELK 241 >gi|254517670|ref|ZP_05129726.1| pseudouridine synthase [Clostridium sp. 7_2_43FAA] gi|226911419|gb|EEH96620.1| pseudouridine synthase [Clostridium sp. 7_2_43FAA] Length = 238 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 65/233 (27%), Positives = 120/233 (51%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV++ G +R+E+++++ + ++VNG +++ + + D I V+G + + Sbjct: 2 ERLDKVLSNLGYGTRKEIKQVVRKGLIEVNGEIVKDNGMQIDPEVDKILVNGEEIFYR-K 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+V+ D + TV D L VGRLD +T GLLLLTNDG L Sbjct: 61 YIYLMMNKPDGVVSATFD-NRDETVIDLLEIEHQVFEPFPVGRLDKDTVGLLLLTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P + +VY + +V + + K GI + G + ++ + S + V Sbjct: 120 NHRLISPKWKVDKVYYAKIDKKVTEADIKKFKNGITLDDGYTCKEAKLEILESSDSGSEV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + ++EGK ++K++FE + V L R+ +G QL L G RE++++ + Sbjct: 180 MITIQEGKFHQVKRMFEAVDKSVVYLKRVEFGTLQLDEDLEEGEYRELTEEEV 232 >gi|317402968|gb|EFV83508.1| pseudouridine synthase [Achromobacter xylosoxidans C54] Length = 469 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 100/331 (30%), Positives = 154/331 (46%), Gaps = 17/331 (5%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K + E P ++ KV+A AGI SRRE+E +I RV VNG V D + V+ Sbjct: 104 KYLNSEAVMP-KLHKVLADAGIGSRREMEELIVAGRVSVNGEPA-HIGQRVAPNDQVRVN 161 Query: 64 GVPL---RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 G P+ + R+ LYHKP G + +H DP GR++VF LP + + + +SVGRLD+NTE Sbjct: 162 GKPIMRANTKKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTE 221 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+ T G +A + P R Y VR G++D+ + L GI ++ + Sbjct: 222 GLLIFTTSGDMANRIMHPRYGTEREYAVRVLGEMDEAQRQSLVDGIELEDGVAAFGALDY 281 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 GSN W V L+EG+NRE++++FE V+RLIR +G L +L G E+ Sbjct: 282 LGGDGSNRWYRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFGDVVLPRSLRRGRWEELDA 341 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 ++ + V L E+ R + + D + +NG++ Sbjct: 342 SLVTALM---------VQLGLLREDDESGGNRRRSKQPQSHDSALPPGFGTMDRNGMNGA 392 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSG 329 + + A + A S +G Sbjct: 393 RIGRRGKIQGGRAGSAGQAA-ACPSDPFGTG 422 >gi|229102971|ref|ZP_04233660.1| Pseudouridine synthase [Bacillus cereus Rock3-28] gi|229115851|ref|ZP_04245249.1| Pseudouridine synthase [Bacillus cereus Rock1-3] gi|229173064|ref|ZP_04300615.1| Pseudouridine synthase [Bacillus cereus MM3] gi|228610397|gb|EEK67668.1| Pseudouridine synthase [Bacillus cereus MM3] gi|228667594|gb|EEL23038.1| Pseudouridine synthase [Bacillus cereus Rock1-3] gi|228680386|gb|EEL34574.1| Pseudouridine synthase [Bacillus cereus Rock3-28] Length = 238 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 67/231 (29%), Positives = 113/231 (48%), Gaps = 7/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G +VT + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +G NR+I+++ E ++V L R +L L G R++SKK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKEKRRLF 228 >gi|294628596|ref|ZP_06707156.1| LOW QUALITY PROTEIN: pseudouridine synthase, Rsu [Streptomyces sp. e14] gi|292831929|gb|EFF90278.1| LOW QUALITY PROTEIN: pseudouridine synthase, Rsu [Streptomyces sp. e14] Length = 358 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 77/239 (32%), Positives = 122/239 (51%), Gaps = 2/239 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEV 62 K +R+ KV+ARAG SRR E +I Q RV+VNG ++ V D ++V Sbjct: 112 KTFPGAEQEGERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGKRVDPEKDEVKV 171 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG+ + + + + +KP G+V+T DP+GR + D + + +R+ VGRLD TEG++ Sbjct: 172 DGLTV-ATQSYQFFSLNKPAGVVSTMEDPEGRQCLGDYVTNRETRLFHVGRLDTETEGVI 230 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTN G LA L P + Y G + +D LK GI ++ + Q Sbjct: 231 LLTNHGELAHRLTHPKYGVRKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVEQ 290 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G N V V L EG+ ++++ + V++L+R ++GP LG +G R +S + Sbjct: 291 TGKNYLVEVTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLSNTEV 349 >gi|283850767|ref|ZP_06368054.1| pseudouridine synthase [Desulfovibrio sp. FW1012B] gi|283574010|gb|EFC21983.1| pseudouridine synthase [Desulfovibrio sp. FW1012B] Length = 285 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 92/296 (31%), Positives = 142/296 (47%), Gaps = 19/296 (6%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 M DK ++ R++K +A AG+ SRR+ + +I RV V+G ++ + + Sbjct: 1 MDDKALL-------RLNKALADAGVCSRRQADALITAGRVTVDGAVVTELGNKIDPARNR 53 Query: 60 IEVDGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRL 114 + VDG P+R A+ L +K G VTT +DP+GR TVFD LP+ + R+ VGRL Sbjct: 54 LAVDGRPVRLSGAADAPLTLLLNKRPGCVTTANDPEGRPTVFDELPAAYRARRLFPVGRL 113 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYG 173 D +EGLLLLT DG LA L P + Y V G V+ L+ + KG+ + +G Sbjct: 114 DYFSEGLLLLTTDGELANRLAHPRWHVDKRYLVTVRGTVNGQTLDTMAKGMTLAEGEQLA 173 Query: 174 DMQVTLDTQ-KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 ++ + + + + L +G NR+I+++ + V +L RI+ GP LG L AG Sbjct: 174 PVRARITARLAADRFVLEMELSQGVNRQIRRMCRDLDLTVLKLCRIAQGPVSLGGLPAGK 233 Query: 233 TREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 RE++ L L + AP S P SE P ++ Sbjct: 234 CRELAASELAALRRSVGLPSS----AAPAKPSVKAPGKAPRKASESPSGKAPGRRR 285 >gi|187923621|ref|YP_001895263.1| pseudouridine synthase [Burkholderia phytofirmans PsJN] gi|187714815|gb|ACD16039.1| pseudouridine synthase [Burkholderia phytofirmans PsJN] Length = 626 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 93/285 (32%), Positives = 148/285 (51%), Gaps = 10/285 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRR++E +I RV VNG +M TD + ++ Sbjct: 202 KRVLAADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRIN 260 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR++VFDNLP + ++ ++VGRLD NTE Sbjct: 261 GKPVKRKLANKPPRVLLYHKPTGEIVSHADPEGRASVFDNLPPMKTAKWLAVGRLDFNTE 320 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ ++ +++ Sbjct: 321 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLNGVELEDGPANFLRIRD 380 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 381 GGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPISLPKGLKRGRWEELED 440 Query: 239 KILREQLG----PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVP 279 +R + EE +AP ++ I P Sbjct: 441 NQVRALMASVGLKAPTEEKGGRREAPERKQPDPMQTSMGFIGREP 485 >gi|158520075|ref|YP_001527945.1| pseudouridine synthase [Desulfococcus oleovorans Hxd3] gi|158508901|gb|ABW65868.1| pseudouridine synthase [Desulfococcus oleovorans Hxd3] Length = 241 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 74/233 (31%), Positives = 117/233 (50%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K ++ AG+ SRR E IA+ RV VNG ++ V +D + DG + AE Sbjct: 10 IRLQKFLSGAGVCSRRRAEVYIAEGRVAVNGQVVTELGTKVDPESDDVMFDGHRVTLAES 69 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G VT+ +TV + + ++ RV VGRLD + GLLL+T+DGGL + Sbjct: 70 HVYIALNKPPGYVTSCLQKQE-TTVMELV-AVDQRVFPVGRLDKPSCGLLLMTSDGGLHQ 127 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + Y V V L+ +++G+VI G +V + S+ + Sbjct: 128 RLSHPSFDHEKEYDVACDRPVSDADLDAMRRGMVITGRKTRPAKVK----RLSDRRFLII 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L+EG+NR+I+++ E +V L RI LG L G R ++++ + L Sbjct: 184 LQEGRNRQIRRMAEMLGNRVVLLRRIRIAHIHLGDLAEGRWRYLTEEEKKALL 236 >gi|167745885|ref|ZP_02418012.1| hypothetical protein ANACAC_00579 [Anaerostipes caccae DSM 14662] gi|317470613|ref|ZP_07929999.1| RNA pseudouridylate synthase [Anaerostipes sp. 3_2_56FAA] gi|167654749|gb|EDR98878.1| hypothetical protein ANACAC_00579 [Anaerostipes caccae DSM 14662] gi|316901904|gb|EFV23832.1| RNA pseudouridylate synthase [Anaerostipes sp. 3_2_56FAA] Length = 242 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 63/242 (26%), Positives = 124/242 (51%), Gaps = 6/242 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 + R++K +++AG+ SRR+ + + Q +V V+G V + +G P+R Sbjct: 7 SAVRINKFLSQAGLCSRRQADFYVEQGKVTVDGKTA-EPGTKVCEGQEVCFNGKPVRMDT 65 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +T Y+KP G+V T S + + + + SR+ VGRLD +++GL+LLTNDG A Sbjct: 66 QTVYLAYNKPKGIVCTSSKEEANNII--DAVGYPSRIYPVGRLDKDSQGLILLTNDGEAA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + ++ D + ++ G+ + + + T+ + + + Sbjct: 124 NEIMKARNYHEKEYEVTVNKRITNDFIQGMRNGVPLSELDTVTRKCTVKKEGPDS--FRI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E+F ++V +L R+ +LG L GS R+++ + ++ L L+ Sbjct: 182 ILTQGLNRQIRRMCEYFGYRVTKLRRVRVMNIRLGNLKEGSYRKLTPEEIK-MLKEELIR 240 Query: 252 EA 253 E Sbjct: 241 ER 242 >gi|19704091|ref|NP_603653.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium nucleatum subsp. nucleatum ATCC 25586] gi|296328700|ref|ZP_06871217.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium nucleatum subsp. nucleatum ATCC 23726] gi|19714293|gb|AAL94952.1| Ribosomal large subunit pseudouridine synthase B [Fusobacterium nucleatum subsp. nucleatum ATCC 25586] gi|296154299|gb|EFG95100.1| ribosomal large subunit pseudouridine synthase B [Fusobacterium nucleatum subsp. nucleatum ATCC 23726] Length = 234 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 69/231 (29%), Positives = 130/231 (56%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--E 71 R++K ++ GIASRR +++ I + R+ VNG +++ D+I +DG ++ E Sbjct: 1 MRINKFLSTLGIASRRAIDKYIEEGRITVNGNTATT-GMDINENDNIFIDGKKIKTKIDE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP+ ++++ SD GR TV D + R+ +GRLD T GL+LLTNDG L Sbjct: 60 EKVYFMLNKPLEVLSSSSDDRGRKTVVDLI-KTDKRIFPIGRLDYMTSGLILLTNDGELF 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P ++ + Y ++ G++ +++++ LKKG+++ +++ + + + Sbjct: 119 NRVVHPKSEIYKKYYIKVFGEIKKEEIDELKKGVLLDDGKTLPAKISGIKYDKNKTSMYI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +REG+NR+I+++ E F +KV L R G LG L G RE++K+ + Sbjct: 179 SIREGRNRQIRRMIEKFEYKVLMLRREKIGELSLGDLPEGKYRELTKQEVE 229 >gi|306833833|ref|ZP_07466958.1| ribosomal small subunit pseudouridine synthase A [Streptococcus bovis ATCC 700338] gi|304424027|gb|EFM27168.1| ribosomal small subunit pseudouridine synthase A [Streptococcus bovis ATCC 700338] Length = 242 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 111/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + AGI SR EV++++ +++V VNG + + D I G L E+ Sbjct: 1 MRLDKFLVEAGIGSRTEVKQLLKKKQVLVNGKVEISPKTQIDEKADQIRCQGQTLSY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D + TV D L VGRLDI+T GLLLLTN+G L Sbjct: 60 YVYYMLNKPKGVISATED-NHHKTVLDLLDKTAWDKETFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A + P + YR + G + + GI ++ Q+ + + + Sbjct: 119 AHAMLSPKKHVDKTYRAKVAGLMTTTDVAAFANGIDLKDFTCQPAQLVILEINEAERTSV 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V + ++EGK +IK++ + KV L R+S GP QL L G R ++ L Sbjct: 179 VEITIKEGKFHQIKRMVQACGKKVTDLQRLSMGPLQLDKQLALGEWRRLTDDEL 232 >gi|293390209|ref|ZP_06634543.1| ribosomal large subunit pseudouridine synthase B [Aggregatibacter actinomycetemcomitans D7S-1] gi|290950743|gb|EFE00862.1| ribosomal large subunit pseudouridine synthase B [Aggregatibacter actinomycetemcomitans D7S-1] Length = 322 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 110/286 (38%), Positives = 156/286 (54%), Gaps = 12/286 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLR-- 68 +++ KV+ARAG SRRE+E +IA+ RV V+G + +NV + + +DG + Sbjct: 39 EGEKLQKVLARAGQGSRREIEAIIAENRVSVDGKIATLGDRINVYAGVKVRIDGHLINLT 98 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLT 125 + E R+ +Y+KP G + T DP+GR+TVFD LP +R I+VGRLDINT GLLL T Sbjct: 99 QAQKEVCRVLMYYKPEGELCTRHDPEGRATVFDRLPRLTGARWIAVGRLDINTSGLLLFT 158 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQVD LN LKKG+ ++ ++ + G Sbjct: 159 TDGELANRLMHPSREVEREYSVRVFGQVDDAMLNRLKKGVQLEDGSANFKEIKVVGGVGM 218 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI---L 241 N W V L EG+NRE+++++E +V+RLIRI YG +L TL G +E+ L Sbjct: 219 NQWFDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKTLPRGGWQEMELADVNYL 278 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 RE +G L EA+ L A + + + R KK Sbjct: 279 RELVG--LPPEAETKLGANKTRHKPKFGRIRKAVKRYSELNKRYKK 322 >gi|226943690|ref|YP_002798763.1| Pseudouridine synthase [Azotobacter vinelandii DJ] gi|226718617|gb|ACO77788.1| Pseudouridine synthase [Azotobacter vinelandii DJ] Length = 382 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 105/361 (29%), Positives = 168/361 (46%), Gaps = 17/361 (4%) Query: 1 MKDKNIVQENF-TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M ++ +++ KV+AR G+ SRR++E IA+ RV VNG + V D Sbjct: 1 MSEREENSPPAAQGEKLQKVLARMGLGSRRDIEARIAEGRVMVNGTVAT-LGQRVGRHDA 59 Query: 60 IEVDGVPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRL 114 I +DG LR+ E R+ +Y+KP G + T +DP+GR TVFD LP + R +++GRL Sbjct: 60 IALDGRLLRREEGAELVRRVLIYNKPDGEICTRNDPEGRPTVFDRLPRLKEGRWVNIGRL 119 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DINT GLLL T DG LA L PS + R Y VR G+V ++ L LK+G++++ Sbjct: 120 DINTTGLLLFTTDGELANRLMHPSYEMDREYAVRVRGEVTEEMLETLKRGVMLEDGPARF 179 Query: 175 MQV-TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGS 232 + +G N W + EG+NRE+++++E V+RL R+ +GP + L G Sbjct: 180 TDIQEAPGGEGLNHWFHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFMTSDLAMGR 239 Query: 233 TREVSKKI---LREQLGPHLLEEAQVNLDAPIYSSE-TLVRDRPNIISEVPDDFTRMKKN 288 RE+++ L ++G L ++ L +P + R Sbjct: 240 WREMTQDEVDILSREVGLEPLALPEMKLRFREKMERLQRKSAKPVGRGGARERVLRPAHE 299 Query: 289 SSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 ++ ++ R + V S G+ RSP+ +R R Sbjct: 300 GAEAQERRAPRRPKEERAPRGRGTPVAERPA--ESVRKRPGR--PAGERSPAESGERPAR 355 Query: 349 R 349 + Sbjct: 356 K 356 >gi|34581547|ref|ZP_00143027.1| ribosomal large subunit pseudouridine synthase B [Rickettsia sibirica 246] gi|28262932|gb|EAA26436.1| ribosomal large subunit pseudouridine synthase B [Rickettsia sibirica 246] Length = 230 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 107/228 (46%), Positives = 147/228 (64%), Gaps = 2/228 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+I+ AG+ SRR+ E++I + +VKV+GI + NV ++ IEV G + + R Sbjct: 3 RLAKIISNAGVCSRRDAEKLIVEGQVKVDGITILSPTTNVDISNQIEVSGTLINNIHKPR 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW+Y+KP+GL+TTH DP R TVF+ L RVIS+GRLD+N+EGLLLLTN G LAR Sbjct: 63 LWIYYKPVGLITTHKDPLSRKTVFEQLTG-LPRVISIGRLDLNSEGLLLLTNSGDLARQF 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELPS++ RVY VR +G+ L K + I GI Y + L Q +N W V L Sbjct: 122 ELPSSRLKRVYHVRAYGK-SDILLKSNYKNLEIDGIFYNPHSIKLLKQNKTNCWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 181 EGKNREIRRIFEYCGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKILE 228 >gi|212710702|ref|ZP_03318830.1| hypothetical protein PROVALCAL_01769 [Providencia alcalifaciens DSM 30120] gi|212686399|gb|EEB45927.1| hypothetical protein PROVALCAL_01769 [Providencia alcalifaciens DSM 30120] Length = 313 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 101/317 (31%), Positives = 155/317 (48%), Gaps = 23/317 (7%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG 64 + + +++ K++AR+G SRRE+E ++ + R+ V+G + V V +T I +DG Sbjct: 9 MSSKPQQTEKLQKILARSGHGSRREIEGLLKEGRISVDGKMATLGDRVEVKATTKIRLDG 68 Query: 65 VPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 L E R+ Y+KP G + T DP+GR TVF+ LP +R I+VGRLD+NT Sbjct: 69 RLLAIKEPEKEICRVMAYYKPEGELCTRHDPEGRPTVFNRLPRLTGARWIAVGRLDVNTS 128 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T DG LA L PS + R Y VR G++ K+ L G+ ++ V+ Sbjct: 129 GLLLFTTDGELANRLMHPSREVEREYAVRVFGEITDAKIRQLTTGVQLEDGPASFKTVSY 188 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ Sbjct: 189 RGGEGMNQWYNVTLTEGRNREVRRLWESVGVQVSRLIRVRYGDIDLPKGLPRGGWTELGL 248 Query: 239 K---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 + LRE V LD S ++ RD+ I + R K +Q Sbjct: 249 EQTNYLREL----------VELDVETESKVSVERDQRRIKAN---QIRRAVKRHTQVASR 295 Query: 296 SKQKKLATPVHRRNLAS 312 K+ ++ + Sbjct: 296 PAAKRQSSRPTAKRRTR 312 >gi|255281792|ref|ZP_05346347.1| ribosomal small subunit pseudouridine synthase A [Bryantella formatexigens DSM 14469] gi|255267859|gb|EET61064.1| ribosomal small subunit pseudouridine synthase A [Bryantella formatexigens DSM 14469] Length = 250 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 76/234 (32%), Positives = 113/234 (48%), Gaps = 7/234 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRK 69 R+ K++A G +R EV+ I + RV VNG + + A V D I +DG P+ Sbjct: 1 METIRLDKLLAATGAGTRSEVKNAIRKGRVTVNGAVCKSADSKVDADKDVICLDGAPVVY 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDG 128 R + +KP G VT D TV D + + + VGRLD++TEGLLL+TNDG Sbjct: 61 T-RYEYHMLYKPAGCVTAVRDARY-PTVMDYISSARKKDLFPVGRLDLDTEGLLLITNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSNA 187 LA L P + Y R G+V + + ++GI I G M L+ G + Sbjct: 119 ELAHRLLAPGWHVDKTYYARVQGEVTAEDIRRFQEGIDI-GEKRPTMPAELEILAAGQES 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 V V + EGK ++K++F V L R+ G L L AG +R ++++ Sbjct: 178 EVRVTIHEGKYHQVKRMFAAIGKPVLYLKRLRMGSLTLDENLQAGGSRLLTQEE 231 >gi|118470853|ref|YP_888039.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium smegmatis str. MC2 155] gi|118172140|gb|ABK73036.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium smegmatis str. MC2 155] Length = 247 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 82/240 (34%), Positives = 118/240 (49%), Gaps = 6/240 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 R+ KV+++AGIASRR ERMI RV+V+G ++ V I VDG + Sbjct: 3 EEQGVRLQKVLSQAGIASRRVAERMIIDGRVEVDGQIVTELGTRVDPAVADIRVDGSRII 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLT 125 + +KP G+ +T SD GR V D + ++ VGRLD +TEGLLLLT Sbjct: 63 LDDTMVYLAINKPRGMHSTMSDDRGRPCVGDLVEHRVRGNKKLFHVGRLDADTEGLLLLT 122 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKG 184 NDG LA L PS + + Y G V + LK G+ + + D +DT G Sbjct: 123 NDGELAHRLMHPSFEVPKTYVATVMGTVPRGLGKKLKAGVELDDGPAHVDDFAVVDTVPG 182 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L EG+NR ++++ ++ V L+R G LG GS R +++K + E Sbjct: 183 KT-MVKVTLHEGRNRIVRRLLAAVDFPVQELVRTEIGSVSLGDQRPGSIRALTRKEVGEL 241 >gi|238795690|ref|ZP_04639204.1| Ribosomal large subunit pseudouridine synthase F [Yersinia mollaretii ATCC 43969] gi|238720416|gb|EEQ12218.1| Ribosomal large subunit pseudouridine synthase F [Yersinia mollaretii ATCC 43969] Length = 290 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 69/294 (23%), Positives = 132/294 (44%), Gaps = 12/294 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 + R++K I+ +GI SRR+ +R I Q V +NG V V D ++V+G + Sbjct: 5 SSIRLNKYISESGICSRRDADRYIEQGNVFINGKRAA-VGVQVFPGDVVKVNGQTIEPRN 63 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L +KP+G+++T D + + V + + RV +GRLD +++GL+LLTN G Sbjct: 64 EEDLVLIALNKPVGVISTTEDGEQNNIV--DFVNHSKRVFPIGRLDKDSQGLILLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + V + + L G+ + G +K S Sbjct: 122 LVNKILRAGNDHEKEYVVTVNKPVTDEFILGLGAGVPMLGTVTK----KCKVKKESTFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ + F ++V +L R+ L L G R++++ L E L Sbjct: 178 RITLVQGLNRQIRRMTKHFGYEVTKLERVRIMNISLKGLPQGEWRDLTEDELIELF--KL 235 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 +E + + + P + + + P + N++ + ++ + Sbjct: 236 IENSSSD-EKPAKKAPVKRVEAKRVSISGPKKAEKPDSNAAARKRFAQPGRKKK 288 >gi|331002924|ref|ZP_08326437.1| hypothetical protein HMPREF0491_01299 [Lachnospiraceae oral taxon 107 str. F0167] gi|330413217|gb|EGG92591.1| hypothetical protein HMPREF0491_01299 [Lachnospiraceae oral taxon 107 str. F0167] Length = 242 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 69/246 (28%), Positives = 123/246 (50%), Gaps = 9/246 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 R++K +A G+ SRRE ++ I RV +NG + E A+ V D + +DG + + Sbjct: 1 MRLNKFLASIGVCSRREADKAIEAGRVMINGEVAELGAM-VGEEDLVSLDGRYIATGKDV 59 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + ++KP G+V T SD DG + V D + + R+ VGRLD ++ GLLLLTN G Sbjct: 60 EKVKPIIIAFNKPEGIVCTTSDNDGATNVVDYI-GMKERIYPVGRLDKDSSGLLLLTNQG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L + + Y V+ + +D D +N + GI + + + + +K + Sbjct: 119 SLTNSLLRAANYHEKEYIVKVNKDIDDDFINKMSNGIYLYELKTKTRKCKV--KKLNKNT 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 ++ L +G NR+I+++ KV +L R+ +L L G+ R +S + +++ Sbjct: 177 FSIVLTQGLNRQIRRMCLACGMKVQKLNRVRIVNIKLDGLALGAYRNLSDEEIKKLYKEL 236 Query: 249 LLEEAQ 254 + E Sbjct: 237 GIRENG 242 >gi|325068740|ref|ZP_08127413.1| pseudouridine synthase family protein [Actinomyces oris K20] Length = 303 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 85/228 (37%), Positives = 119/228 (52%), Gaps = 10/228 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 + QR+ KV+A AG+ASRR E++IA RV V+G+ + A V V T I VDG + Sbjct: 76 SGQRLQKVLAHAGVASRRACEQLIADGRVSVDGVTVTEAGVRVDPLTQEIRVDGSRILTN 135 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVF----DNLPSIFS-----RVISVGRLDINTEGL 121 + HKP G+VTT DP+GR TV D L R++ VGRLD TEGL Sbjct: 136 PELITLMLHKPAGVVTTMEDPEGRPTVAQYGRDYLAEHPELPDSLRLVHVGRLDTETEGL 195 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLL+NDG L+ L PS + + Y GQV+ L++GI ++ +VT+ Sbjct: 196 LLLSNDGELSHRLMHPSFEIAKTYVAIVEGQVEAWVPRKLRRGIELEDGEAKADRVTVKD 255 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V + L GKNR ++++ + V RL R GP +LG L Sbjct: 256 SGPRGSIVEITLHSGKNRIVRRMLDAVGHPVTRLARTRLGPLRLGNLR 303 >gi|264679428|ref|YP_003279335.1| Pseudouridine synthase, Rsu [Comamonas testosteroni CNB-2] gi|262209941|gb|ACY34039.1| Pseudouridine synthase, Rsu [Comamonas testosteroni CNB-2] Length = 529 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 100/339 (29%), Positives = 153/339 (45%), Gaps = 20/339 (5%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K ++ ++ KV+A+AG+ SR E+E++I + R+ VN + D + Sbjct: 150 MPAKRVLAPQVDSPKLHKVLAQAGMGSRLEMEQLILEGRISVNNEPA-HVGQRIQFGDIV 208 Query: 61 EVDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDI 116 +V+G P+R R+ YHKP+G V TH DP R TVF LP + SVGRLD+ Sbjct: 209 KVNGQPIRFRIDPPPARVIAYHKPVGEVVTHDDPQNRPTVFRKLPKLQHGKWQSVGRLDL 268 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLLL T+ G LA L P R Y R G + +++ L G+ ++ Sbjct: 269 NTEGLLLFTSSGELANSLMHPRFGLEREYAARVLGALSKEEKQRLLDGVQLEDGEASFGA 328 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTRE 235 V +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E Sbjct: 329 VEDGGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMMLPRGLKRGAWVE 388 Query: 236 VSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 + + ++ L+ A V AP+ + R N R ++ + NG+ Sbjct: 389 LDQADIQA-----LMSAAGVKERAPVERNNGGARGANNRGG-------RNSRSGGRGNGM 436 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREEN 334 + + W G + G N Sbjct: 437 NADRAPQGRREGGGQRRGEWD--GNRPAPSGMLGDNPRN 473 >gi|21324194|dbj|BAB98819.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Corynebacterium glutamicum ATCC 13032] Length = 252 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 75/236 (31%), Positives = 117/236 (49%), Gaps = 4/236 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 + R+ KV+A+AG+ASRR E +I Q RV+VN ++ V V D I VDGV + Sbjct: 8 DSDGVRLQKVLAQAGVASRRHAEILIDQGRVEVNDRIVTTQGVRVDPNNDVIRVDGVRIH 67 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLT 125 E ++ +KP G+ +T SD GR V D + R+ VGRLD +TEGLLLLT Sbjct: 68 INEDLEYFVLNKPRGMHSTMSDELGRPCVGDLVSEKTASGQRLFHVGRLDADTEGLLLLT 127 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L P + + Y G+ ++ L+ G+ ++ + Sbjct: 128 NDGELANRLMHPKYEVSKTYLATVRGEATNKLVSALRDGVELEDGPAKADFAQIIDVFQG 187 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + + EG+ ++++F+ + V RL+R QLG GS R ++ L Sbjct: 188 KSLLRIEIHEGRKHIVRRLFDELGFPVERLVRTKLHTVQLGDQKPGSLRALNSSEL 243 >gi|320451356|ref|YP_004203452.1| ribosomal small subunit pseudouridine synthase A [Thermus scotoductus SA-01] gi|320151525|gb|ADW22903.1| ribosomal small subunit pseudouridine synthase A [Thermus scotoductus SA-01] Length = 238 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 73/231 (31%), Positives = 118/231 (51%), Gaps = 8/231 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ K++AR G+ SR+EV R++ +V+V G ++ A +V +EVDG PL Sbjct: 1 MRGERLDKLLARLGLGSRKEVARLVRSGQVQVEGQVVRDPAFHVPPGARLEVDGEPLVLR 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGG 129 L HKP G VT+ + +V+ L +R + VGRLD +TEGLLL T DG Sbjct: 61 CHHH-ILLHKPAGYVTSRREG---PSVYALLEGFPTRDLSPVGRLDKDTEGLLLFTTDGE 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + + Y V ++ ++G+V++G +++ D V Sbjct: 117 LLHRLTHPRHKVEKRYLVHLERPATREDQEAFREGLVLEGTRLLPAELSWD---QDPTRV 173 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + LREG+ ++K++F+ +V L R+S GP LG L G R +S++ Sbjct: 174 ELVLREGRFHQVKRMFQARGNRVLYLKRLSLGPLTLGDLPVGQARYLSQEE 224 >gi|149017975|ref|ZP_01834434.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP23-BS72] gi|147931539|gb|EDK82517.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP23-BS72] Length = 240 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 73/235 (31%), Positives = 113/235 (48%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L V VGRLDINT GLLLLTNDG L Sbjct: 60 FVYYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDINTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAW 188 A VL P + Y + G + Q+ + +GI ++ + L + + + + Sbjct: 119 AHVLLSPKRHVGKTYLAQVKGIMTQEDVETFAEGIPLKDFTCKPAILELVSIDTEKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >gi|146298001|ref|YP_001192592.1| pseudouridine synthase [Flavobacterium johnsoniae UW101] gi|146152419|gb|ABQ03273.1| ribosomal large subunit pseudouridine synthase F [Flavobacterium johnsoniae UW101] Length = 272 Score = 257 bits (656), Expect = 3e-66, Method: Composition-based stats. Identities = 67/283 (23%), Positives = 130/283 (45%), Gaps = 13/283 (4%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++EN R++K I G SRRE +++I + RV +NG V S D I +DG Sbjct: 1 MEENLK--RLNKFIGETGYCSRREADKLIEEGRVTINGA-AAEMGTKVSSDDEIRIDGKL 57 Query: 67 L-RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + K E+ ++KP+G+ T ++ + ++ + D + + R+ +GRLD +EGL+ +T Sbjct: 58 IVEKHEKLVYLAFNKPVGIECT-TNLEVKNNIVDYI-NYPKRIFPIGRLDKASEGLIFMT 115 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y V + + + + + G+ I +V ++ S Sbjct: 116 NDGDIVNKILRARNNHEKEYTVTVNKPITERFIQRMGNGVPILDTVTKKCKV----EQIS 171 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E+ ++V L RI L + G R+++ ++E Sbjct: 172 KYTFKIILTQGLNRQIRRMSEYLGYEVTALKRIRIINISL-DVPVGRYRDLTDAEIKEL- 229 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 L+E + +A + + R + D R + N Sbjct: 230 -NKLIEPSSKTEEASLPKAAAPTPSRRSTFISKNDPRFRKRGN 271 >gi|254775517|ref|ZP_05217033.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium avium subsp. avium ATCC 25291] Length = 247 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 73/236 (30%), Positives = 109/236 (46%), Gaps = 4/236 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLR 68 R+ KV+++AGIASRR E++I RV+V+G ++ V I VDG + Sbjct: 3 EAQGIRLQKVLSQAGIASRRAAEKLIVDGRVEVDGQVVTELGTRVDPDAAVIRVDGARVV 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLT 125 E +KP G+ +T SD GR + D + + VGRLD TEGL+LLT Sbjct: 63 LDESQVYLALNKPRGVHSTMSDDRGRPCIGDLIERRVRGNKNLFHVGRLDAETEGLILLT 122 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + + Y G + + L+ GI + + + Sbjct: 123 NDGELAHRLMHPSHEVPKTYLATVTGSIPRGLGKTLRAGIELDDGMARVDEFAVVDATPG 182 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+NR ++++ + V L+R GP LG GS R + + + Sbjct: 183 KTLVRVTLHEGRNRIVRRLLAAAGFPVESLVRTDIGPISLGKQRPGSIRALGRDEV 238 >gi|187478887|ref|YP_786911.1| ribosomal large subunit pseudouridine synthase B [Bordetella avium 197N] gi|115423473|emb|CAJ50007.1| ribosomal large subunit pseudouridine synthase B [Bordetella avium 197N] Length = 457 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 97/304 (31%), Positives = 148/304 (48%), Gaps = 11/304 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA---E 71 ++ KV+A AGI SRRE+E +I RV VNG V + D + V+G + + + Sbjct: 3 KLHKVLADAGIGSRREMEELIVAGRVSVNGEPA-HIGQRVAANDQVRVNGKLISRPNAKK 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGL 130 R+ LYHKP G + +H DP+GR+ VF LP + + + +SVGRLD+NTEGLL+ T G + Sbjct: 62 PPRVILYHKPAGEIVSHDDPNGRANVFTRLPKLRTGKWLSVGRLDLNTEGLLIFTTSGDM 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + P R Y VR G++D+ + L +GI + GSN W Sbjct: 122 ANRIMHPRYGTEREYAVRVLGEMDEAQRTSLVEGIDLDDGKAAFGSFDYLGGDGSNRWYR 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHL 249 V L+EG+NRE++++FE V+RLIR +G L +L G + L L L Sbjct: 182 VTLQEGRNREVRRMFEAVGVTVSRLIRTRFGDLVLPRSLRRGRW-----EELDASLVSAL 236 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 + + + D R + S +P F M++N + ++ KL + Sbjct: 237 MVQLGLLRDEEESGGRRKSRQPQSHDSALPPGFGTMERNGMNGARIGRRGKLQGGRSASS 296 Query: 310 LASN 313 S Sbjct: 297 ATSP 300 >gi|293604235|ref|ZP_06686643.1| pseudouridine synthase [Achromobacter piechaudii ATCC 43553] gi|292817460|gb|EFF76533.1| pseudouridine synthase [Achromobacter piechaudii ATCC 43553] Length = 614 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 89/238 (37%), Positives = 130/238 (54%), Gaps = 7/238 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K + ++ P ++ KV+A AGI SRRE+E +I RV VNG V D + V+ Sbjct: 106 KYLNSDSVMP-KLHKVLADAGIGSRREMEELIVAGRVSVNGEPA-HIGQRVAPNDQVRVN 163 Query: 64 GVPL---RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 G P+ + R+ LYHKP G + +H DP GR++VF LP + + + +SVGRLD+NTE Sbjct: 164 GKPIMRTNTKKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTE 223 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+ T G +A + P R Y VR G++D+ + L GI ++ + Sbjct: 224 GLLIFTTSGDMANRIMHPRYGTEREYAVRVLGEMDEAQRQSLVDGIELEDGVAAFGALDY 283 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 GSN W V L+EG+NRE++++FE V+RLIR +G L TL G E+ Sbjct: 284 LGGDGSNRWYRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFGDVVLPRTLRRGRWEEL 341 >gi|145633297|ref|ZP_01789028.1| malic enzyme [Haemophilus influenzae 3655] gi|145634426|ref|ZP_01790136.1| malic enzyme [Haemophilus influenzae PittAA] gi|148825838|ref|YP_001290591.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae PittEE] gi|229845029|ref|ZP_04465165.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae 6P18H1] gi|229846853|ref|ZP_04466960.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae 7P49H1] gi|144986143|gb|EDJ92733.1| malic enzyme [Haemophilus influenzae 3655] gi|145268406|gb|EDK08400.1| malic enzyme [Haemophilus influenzae PittAA] gi|148715998|gb|ABQ98208.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae PittEE] gi|229810342|gb|EEP46061.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae 7P49H1] gi|229812001|gb|EEP47694.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae 6P18H1] gi|309972980|gb|ADO96181.1| 16S rRNA U516 pseudouridine synthase [Haemophilus influenzae R2846] Length = 232 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 60/234 (25%), Positives = 110/234 (47%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E Sbjct: 1 MRLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ HKP G V ++ D D T++ + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDY-PTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+++ +GI+++G L+ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEENYAAACAEGILLRGEKEPTKPAKLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 + EG+ ++K++F KV L R G L +L G R +++ + + + Sbjct: 178 ISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLV 231 >gi|329939210|ref|ZP_08288584.1| pseudouridine synthase [Streptomyces griseoaurantiacus M045] gi|329302095|gb|EGG45988.1| pseudouridine synthase [Streptomyces griseoaurantiacus M045] Length = 364 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 77/239 (32%), Positives = 121/239 (50%), Gaps = 2/239 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEV 62 K +R+ KV+ARAG SRR E +I RV+VNG ++ V D I+V Sbjct: 118 KTFPGAEQEGERLQKVLARAGYGSRRACEELIEDARVEVNGEIVLEQGKRVDPEHDEIKV 177 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG+ + + + + +KP G+V+T DP+GR + D + + +R+ VGRLD TEG++ Sbjct: 178 DGLTV-ATQSYQFFSLNKPAGVVSTMEDPEGRQCLGDYVTNRETRLFHVGRLDTETEGVI 236 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTN G LA L P + Y G + +D LK GI ++ + Q Sbjct: 237 LLTNHGELAHRLTHPRYGVRKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVEQ 296 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G N V V L EG+ ++++ + V++L+R ++GP LG +G R +S + Sbjct: 297 TGKNYLVEVTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLSNTEV 355 >gi|145636895|ref|ZP_01792560.1| malic enzyme [Haemophilus influenzae PittHH] gi|145269976|gb|EDK09914.1| malic enzyme [Haemophilus influenzae PittHH] Length = 232 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 60/234 (25%), Positives = 110/234 (47%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E Sbjct: 1 MRLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ HKP G V ++ D D T++ + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDY-PTIYQFFDYPLAGKLHSAGRLDMDTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+++ +GI+++G L+ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 + EG+ ++K++F KV L R G L +L G R +++ + + + Sbjct: 178 ISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLV 231 >gi|325697447|gb|EGD39333.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK160] Length = 242 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 71/237 (29%), Positives = 113/237 (47%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++ + + V VNG + + T D I V G L E+ Sbjct: 1 MRLDKFLAENGLGSRAQVKQFLKKGLVLVNGRAEKSPKTQIDETADEIVVSGQRLTY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATED-DRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A + P ++YR + G ++Q + GI ++ Q+ + + + Sbjct: 119 AHAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAQLKIVELDEAKETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 V + L EGK ++K++ +V L R++ GP QL L G R ++ L Sbjct: 179 VEITLAEGKFHQVKRMVASCGKEVTDLQRLTMGPLQLDPALALGEWRRLTADELERL 235 >gi|146311853|ref|YP_001176927.1| 23S rRNA pseudouridylate synthase B [Enterobacter sp. 638] gi|145318729|gb|ABP60876.1| ribosomal large subunit pseudouridine synthase B [Enterobacter sp. 638] Length = 291 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 101/300 (33%), Positives = 152/300 (50%), Gaps = 23/300 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V++ I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIETIIEAGRVSVDGKIAKLGDRVEVVAGMKIRLDGHVISVKE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T +DP+GR TVFD LP +R I+VGRLD+NT GL+L T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLMLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G+VD+ KL L +G+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGEVDEHKLRDLSRGVQLEDGPAAFKTIKFTGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILLPKGLPRGGYTELDLTQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E + ++V ++ +DR + + R K SQ + + Sbjct: 242 ELVELKPETTSKVAVE----------KDRRRVKAN---QIRRAVKRHSQVSPTRRSGSRN 288 >gi|56708141|ref|YP_170037.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. tularensis SCHU S4] gi|110670612|ref|YP_667169.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. tularensis FSC198] gi|118497537|ref|YP_898587.1| 16S rRNA pseudouridine synthase [Francisella tularensis subsp. novicida U112] gi|195536233|ref|ZP_03079240.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. novicida FTE] gi|208779336|ref|ZP_03246682.1| ribosomal large subunit pseudouridine synthase B [Francisella novicida FTG] gi|224457237|ref|ZP_03665710.1| 16S rRNA pseudouridine synthase [Francisella tularensis subsp. tularensis MA00-2987] gi|254370626|ref|ZP_04986631.1| hypothetical protein [Francisella tularensis subsp. tularensis FSC033] gi|254874944|ref|ZP_05247654.1| rluB, ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. tularensis MA00-2987] gi|56604633|emb|CAG45689.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. tularensis SCHU S4] gi|110320945|emb|CAL09072.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. tularensis FSC198] gi|118423443|gb|ABK89833.1| 16S rRNA pseudouridine synthase [Francisella novicida U112] gi|151568869|gb|EDN34523.1| hypothetical protein FTBG_00414 [Francisella tularensis subsp. tularensis FSC033] gi|194372710|gb|EDX27421.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. novicida FTE] gi|208745136|gb|EDZ91434.1| ribosomal large subunit pseudouridine synthase B [Francisella novicida FTG] gi|254840943|gb|EET19379.1| rluB, ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. tularensis MA00-2987] gi|282159347|gb|ADA78738.1| 16S rRNA pseudouridine synthase [Francisella tularensis subsp. tularensis NE061598] gi|332184099|gb|AEE26353.1| Ribosomal large subunit pseudouridine synthase B [Francisella cf. novicida 3523] Length = 271 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 97/251 (38%), Positives = 132/251 (52%), Gaps = 9/251 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N + P+R+ K++A+ GI SRR++E I Q RVKVNG + D I Sbjct: 1 MRRANQNNDK-NPERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVAT-LGDKASEADKI 58 Query: 61 EVDGVPL----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 DG L + R R+ +YHK G V T D R TVFD+LP + R I VGRLD Sbjct: 59 SFDGKALHSYGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLD 118 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-VDQDKLNLLKKGIVIQGICYGD 174 INT GLLL T DG LA L PS Q R Y VR GQ + + +N LK+GI ++ Sbjct: 119 INTTGLLLFTTDGDLANRLMHPSYQIEREYAVRVFGQQLSDETINKLKEGIQLEDGMAKF 178 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGST 233 + +G+N W V L EG+NRE++++FE V+RL RI +G L + G T Sbjct: 179 NSIKFSGGEGANLWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGDIILPKFVSRGKT 238 Query: 234 REVSKKILREQ 244 E++ + Sbjct: 239 LELNPSEVNRL 249 >gi|291522211|emb|CBK80504.1| ribosomal small subunit pseudouridine synthase A [Coprococcus catus GD/7] Length = 250 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 76/236 (32%), Positives = 121/236 (51%), Gaps = 8/236 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A + +R EV+ +I + V VNG ++ + V D + G P+ + Sbjct: 6 RLDKYLADMSVGTRSEVKNLIKKGLVTVNGEVIRKPEYKVDIEKDDLVCRGEPVAY-QTL 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G+++ +DP + TV D + + VGRLD +TEGLLL+TNDG LA Sbjct: 65 VYYMLNKPAGVISATNDPK-QKTVLDLITDKSRKDLFPVGRLDKDTEGLLLITNDGDLAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDT-QKGSNAWV 189 L P +VYR R GQV + L KG+ I + M L+ G + + Sbjct: 124 QLLSPKKHVDKVYRARIEGQVTAEDAALFAKGLGIDDEDGAWRAMPAKLNILSSGPESEI 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + +REGK +IK++FE + KV L R+S G +L TL G RE+++ ++ Sbjct: 184 EITIREGKFHQIKRMFEAVDKKVVYLKRLSMGSLRLDETLALGEYRELTEDEVQAL 239 >gi|261345329|ref|ZP_05972973.1| ribosomal large subunit pseudouridine synthase F [Providencia rustigianii DSM 4541] gi|282566663|gb|EFB72198.1| ribosomal large subunit pseudouridine synthase F [Providencia rustigianii DSM 4541] Length = 291 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 69/296 (23%), Positives = 136/296 (45%), Gaps = 14/296 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AER 72 R++K I+ +GI SRRE +R I Q V +NG V + D ++V+G + + Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFINGKRA-GIGDQVSAGDIVKVNGQLIEPRDEDD 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G+V+T + + V + + R+ +GRLD +++GL+ LTN G L Sbjct: 67 LVLIALNKPVGIVSTTESGEKGNIV--DYVNHSKRIFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + V + + + G+ I G +V K + + Sbjct: 125 KILRAGNDHEKEYVVTVNKPVTDEFIQGMASGVPILGTMTKKCKVK----KEAPFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E F ++V +L R+ +L + G R+++ L E +L+E+ Sbjct: 181 LVQGLNRQIRRMTEHFGYEVTKLERVRIMNVKLTGIPVGEWRDLTDDELIELF--NLIEK 238 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 ++ ++ P +++ R+ + T K ++ + K + +R Sbjct: 239 SESDV-KPKKAAKPQARNTGS--KTAGKQGTSSKPKANAEPPKKKFTQPGRKKKKR 291 >gi|168484154|ref|ZP_02709106.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC1873-00] gi|172042547|gb|EDT50593.1| ribosomal large subunit pseudouridine synthase B [Streptococcus pneumoniae CDC1873-00] gi|332203445|gb|EGJ17512.1| hypothetical protein SPAR93_0315 [Streptococcus pneumoniae GA47368] Length = 240 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 72/235 (30%), Positives = 114/235 (48%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A VL P + Y + G + Q+ + KGI ++ ++ + + + + + Sbjct: 119 AHVLLSPKRHVDKTYLAQVKGIMTQEDVETFIKGIPLKDFTCQPARLEILSTDAEKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >gi|59711487|ref|YP_204263.1| 16S rRNA pseudouridylate 516 synthase [Vibrio fischeri ES114] gi|197335138|ref|YP_002155642.1| ribosomal small subunit pseudouridine synthase A [Vibrio fischeri MJ11] gi|59479588|gb|AAW85375.1| 16S rRNA pseudouridylate 516 synthase [Vibrio fischeri ES114] gi|197316628|gb|ACH66075.1| ribosomal small subunit pseudouridine synthase A [Vibrio fischeri MJ11] Length = 234 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 59/234 (25%), Positives = 103/234 (44%), Gaps = 2/234 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A+R+E R+I V V+G+ + +V V +E DG L+ Sbjct: 1 MRLDKFLCETLGATRKEATRIIKSGTVTVDGVKTKVTSVKVTDDSTVEWDGRELKF-HGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + KP G V +H D S + ++ GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLFKPDGYVCSHEDSTHPSALSLLDEVNLEKLHFAGRLDVDTTGLVLITDDGQWSHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + D L+ GI ++ M ++ + + + Sbjct: 120 ITSPKRKCAKTYRVWLADPIGADYAEKLEAGIQLKSEKDLTMPAVMEIVDEEEHELLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 EGK ++K++F KV L R G L +L G R ++++ + G Sbjct: 180 HEGKYHQVKRMFAALGNKVEGLHRAQIGGLGLDYSLEPGEYRYLTEEEVEAVFG 233 >gi|323525722|ref|YP_004227875.1| pseudouridine synthase [Burkholderia sp. CCGE1001] gi|323382724|gb|ADX54815.1| pseudouridine synthase [Burkholderia sp. CCGE1001] Length = 618 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 93/285 (32%), Positives = 145/285 (50%), Gaps = 10/285 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRR++E +I RV VNG +M TD + ++ Sbjct: 208 KRVLSADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRIN 266 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 267 GKPVKRKLANKPPRVLLYHKPTGEIVSHADPEGRPSVFDKLPPMKTAKWLAVGRLDFNTE 326 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 327 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLNGVELDDGPANFLRIRD 386 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 387 GGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPISLPKGLKRGRWEELED 446 Query: 239 KILREQLG----PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVP 279 +R + EE AP ++ IS P Sbjct: 447 NQVRALMASVGLKAPSEERGGRNAAPERKQPDPMQTSMGFISREP 491 >gi|227495415|ref|ZP_03925731.1| pseudouridylate synthase [Actinomyces coleocanis DSM 15436] gi|226830962|gb|EEH63345.1| pseudouridylate synthase [Actinomyces coleocanis DSM 15436] Length = 248 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 79/245 (32%), Positives = 130/245 (53%), Gaps = 4/245 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 M++ V++ R+ KVI++AG+ASRR E++I RVKV+G ++ + V + Sbjct: 1 MRNDPHVEDGV---RLQKVISQAGVASRRHAEKLIISGRVKVDGNIVRTLGIRVDPSVQT 57 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I VDG + ++ +KP G+V+T DPDGR + + + R+ VGRLD +T Sbjct: 58 IHVDGNQIMLDTKSLTIALNKPAGVVSTMDDPDGRPCLAEFVEQYNQRLYHVGRLDTDTA 117 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GL+LLTNDG L+ L PS + + Y HG+V + L +GI ++ + Sbjct: 118 GLILLTNDGELSHRLMHPSWEVPKTYVATVHGEVPRGLGRKLARGITLEDGPVKVEDFQI 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G V + L EG+NR ++++ + + V L+R +GP +G L +G TR + Sbjct: 178 TDHYGEMTLVQLTLHEGRNRIVRRIMDHVGFPVIELVRTQFGPVHIGRLHSGVTRRIEGP 237 Query: 240 ILREQ 244 +L+E Sbjct: 238 VLQEL 242 >gi|229060031|ref|ZP_04197402.1| Pseudouridine synthase [Bacillus cereus AH603] gi|228719250|gb|EEL70858.1| Pseudouridine synthase [Bacillus cereus AH603] Length = 227 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 62/227 (27%), Positives = 111/227 (48%), Gaps = 7/227 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ AG ASRR +++I +++V +NG + + V D + V+G LR A Sbjct: 1 MRINKFISEAGKASRRGADKLINERKVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RINHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + L + G+ I ++T + S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPEFLEKMAAGVKILDTKTLPCEIT----QLSKYEFEIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G NR+I+++ E ++V L R +L L G R++SKK Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKE 220 >gi|229161332|ref|ZP_04289317.1| Pseudouridine synthase [Bacillus cereus R309803] gi|228622146|gb|EEK78987.1| Pseudouridine synthase [Bacillus cereus R309803] Length = 238 Score = 256 bits (655), Expect = 4e-66, Method: Composition-based stats. Identities = 66/231 (28%), Positives = 113/231 (48%), Gaps = 7/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFNIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +G NR+I+++ E ++V L R +L L G R++SKK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKEKRRLF 228 >gi|312863597|ref|ZP_07723835.1| pseudouridylate synthase [Streptococcus vestibularis F0396] gi|311101133|gb|EFQ59338.1| pseudouridylate synthase [Streptococcus vestibularis F0396] Length = 243 Score = 256 bits (655), Expect = 4e-66, Method: Composition-based stats. Identities = 67/237 (28%), Positives = 117/237 (49%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ + +++V VNG L + D I L E Sbjct: 1 MRLDKFLVDCGVGSRSQVKNFLKKKQVTVNGQLETSPKTQIDENKDRIAYLDQELTH-ET 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ +P + TV D L V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATENPRHK-TVLDLLDDTARHKQVFPVGRLDIDTHGLLLLTNNGDL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A + P ++Y+ + G +D++ + +KGI ++ ++ + + + S +W Sbjct: 119 AHAMLSPKKHVDKIYQAKVAGVMDEEDILAFEKGIKLKDHTCQPAKLEIVSVDRNESTSW 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 V + + EGK ++K++ +V L R+S GP L L G+ R ++++ L Sbjct: 179 VQITIAEGKFHQVKRMVAACGKEVTELQRLSMGPLSLPNDLELGTWRRLTEEELEAL 235 >gi|182439522|ref|YP_001827241.1| putative pseudouridine synthase [Streptomyces griseus subsp. griseus NBRC 13350] gi|178468038|dbj|BAG22558.1| putative pseudouridine synthase [Streptomyces griseus subsp. griseus NBRC 13350] Length = 434 Score = 256 bits (655), Expect = 4e-66, Method: Composition-based stats. Identities = 77/231 (33%), Positives = 121/231 (52%), Gaps = 2/231 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ + V D I+VDG+ + A Sbjct: 196 EGERLQKVLARAGMGSRRACEELIEQARVEVNGEIVVEQGMRVDVHKDEIKVDGLTV-AA 254 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+V++ DPDGR + D + + +R+ VGRLD TEG+++LTN G L Sbjct: 255 QSYLFFALNKPAGVVSSMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGIIMLTNHGEL 314 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y G + +D LK GI ++ + G N V Sbjct: 315 AHRLTHPKYGVKKTYLAAIQGPLPRDLGKRLKDGIQLEDGYARADHFRVVENTGKNYLVE 374 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ ++++ + V RL+R S+GP LG +G R ++ + Sbjct: 375 VTLHEGRKHIVRRMLAEAGFPVERLVRTSFGPIPLGDQKSGWLRRLTNTEV 425 >gi|291536368|emb|CBL09480.1| ribosomal large subunit pseudouridine synthase F [Roseburia intestinalis M50/1] gi|291538762|emb|CBL11873.1| ribosomal large subunit pseudouridine synthase F [Roseburia intestinalis XB6B4] Length = 251 Score = 256 bits (655), Expect = 4e-66, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 114/234 (48%), Gaps = 5/234 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P R++K ++ AG+ SRRE +R + V ++G++ V+ + G P++K E Sbjct: 3 EPVRINKYLSEAGVCSRREADRQVEAGNVTIDGVVA-SMGAKVLPDQTVLFCGKPVKKEE 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +HKP G+V T + + V + + R+ +GRLD ++EGLLL+TN+G + Sbjct: 62 EMILLAFHKPTGIVCTAEKREKNNVV--DYINYPKRIYPIGRLDKDSEGLLLMTNNGDIV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + V L L G+ + + + Sbjct: 120 NRIMRAGNMHEKEYIVTVNKPVTDSFLRGLAGGVPL--VELNATTRKCKVWGIGKRQFGI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L +G NR+I+++ E+F ++V +L+R +LG L AG+ REV+ + +E + Sbjct: 178 ILTQGLNRQIRRMCEYFGYRVEKLVRTRIMNIELGDLKAGTYREVTPQEYKELM 231 >gi|261403960|ref|YP_003240201.1| pseudouridine synthase [Paenibacillus sp. Y412MC10] gi|261280423|gb|ACX62394.1| pseudouridine synthase [Paenibacillus sp. Y412MC10] Length = 233 Score = 256 bits (655), Expect = 4e-66, Method: Composition-based stats. Identities = 65/236 (27%), Positives = 121/236 (51%), Gaps = 8/236 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ G SRRE ++++ +V +NG++ D + + G PL+ ++ Sbjct: 1 MRINKFISETGYCSRREADKLVESGKVTINGVVA-VLGSQAEEGDDVRIQGKPLQDKKKH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ +T ++ + + D + R+ +GRLD ++EGL+LLTNDG + Sbjct: 60 VYIALNKPVGITST-TESHIKGNIVDFV-GHNERIFPIGRLDKDSEGLILLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V V + L + G+ I G +VT +++ + L Sbjct: 118 ILRSEGKHEKEYIVTVDRPVTESFLRGMAGGVKILGEMTLPCEVTRMSER----VFRIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 EGKNR+I+++ F ++V +L RI +LG+ GS R+++ K +E+LG L Sbjct: 174 TEGKNRQIRRMCSAFGYEVRKLQRIRIMNIRLGSQRIGSWRDLNDKE-KEELGRLL 228 >gi|21673314|ref|NP_661379.1| ribosomal small subunit pseudouridine synthase A [Chlorobium tepidum TLS] gi|21646406|gb|AAM71721.1| ribosomal small subunit pseudouridine synthase A [Chlorobium tepidum TLS] Length = 247 Score = 256 bits (655), Expect = 4e-66, Method: Composition-based stats. Identities = 77/245 (31%), Positives = 122/245 (49%), Gaps = 10/245 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEV 62 K VQE R++K +A G+ASRR ++++ + +V VNG + + V D + V Sbjct: 2 KKQVQE--EKVRINKYLAMCGVASRRAADQLVLEGKVSVNGHIADEPGFKVDPRNDEVIV 59 Query: 63 DGVPLRKAE-RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 DG + E R L++KP ++TT+ D R + D + + RV VGRLD + GL Sbjct: 60 DGRLMATPEARKVYILFNKPRNVITTNHDERDRQQILDFI-DVPERVFPVGRLDRKSTGL 118 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTL 179 LLLTNDG LA L PS+Q + Y + L L G+ ++ G + + Sbjct: 119 LLLTNDGTLAHRLMHPSSQVQKEYLAALDAKFPPAMLQKLTGGMRLKDTGEKVSPCRAKI 178 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 S V V + EGKN +++++F ++V RL R++Y LG L G R +S+ Sbjct: 179 LDDGMS---VLVSIHEGKNHQVRRMFSTLGFEVKRLDRVAYAGLTLGELRRGEWRFLSRN 235 Query: 240 ILREQ 244 + + Sbjct: 236 EVEKL 240 >gi|317129994|ref|YP_004096276.1| pseudouridine synthase [Bacillus cellulosilyticus DSM 2522] gi|315474942|gb|ADU31545.1| pseudouridine synthase [Bacillus cellulosilyticus DSM 2522] Length = 237 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 71/239 (29%), Positives = 115/239 (48%), Gaps = 13/239 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ + V VN L++ + + DHIEV G + + Sbjct: 1 MRIDKLLSNTGFGSRKEVKGLLKKGGVTVNSELIKDGKRQIDPSEDHIEVFGEVIEY-KP 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ D + TV D L VGRLD +T G +LLTNDG L Sbjct: 60 FIYLMMNKPKGVISATEDVTDK-TVVDLLATEHALYDPFPVGRLDKDTTGFMLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + + YRV + L G+ + G ++T N + Sbjct: 119 AHQLTSPKKKVDKTYRVHIDAPLTSADEASLIAGVELDDGYITKPAKLTY---GNDNTVI 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LREQ 244 + + EGK ++K++F+ KV L R + GP +L +LL G RE++ + LREQ Sbjct: 176 FLTITEGKFHQVKRMFQALGRKVINLKRETIGPLKLDPSLLLGEYRELTDEEVAGLREQ 234 >gi|310765941|gb|ADP10891.1| 23S rRNA pseudouridine synthase F [Erwinia sp. Ejp617] Length = 292 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 66/293 (22%), Positives = 124/293 (42%), Gaps = 9/293 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--A 70 R++K I +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 6 SIRLNKYIGESGICSRRDADRYIEQGNVFINGKRA-SVGDRVFAGDVVKVNGQLIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + +KP+G+++T + + R + D + + RV +GRLD +++GL+ LTN G L Sbjct: 65 DDLVVIALNKPVGIISTTEEGE-RDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V ++ + L G+ + G +V K S Sbjct: 123 VNKILRAGNDHEKEYLVTVNKPVTEEFIRGLGAGVPMLGTVTKKCKV----NKESTFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V++L R L L G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMSEHFGYEVSKLERTRIMNISLKGLPPGEWRDLTDDELIELFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 ++ T + ++ T + +K +K Sbjct: 239 SSSEDGTAKKAKPKATTAKKPAASGAKGGAKVTGNANAAPRKRFAQPGRKKKG 291 >gi|291617615|ref|YP_003520357.1| RluB [Pantoea ananatis LMG 20103] gi|291152645|gb|ADD77229.1| RluB [Pantoea ananatis LMG 20103] Length = 294 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 108/306 (35%), Positives = 153/306 (50%), Gaps = 20/306 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MIA RV V+G L S I +DG + AE Sbjct: 2 SEKLQKVLARAGHGSRREIEAMIAAGRVSVDGKLATLGDRIENSKALKIRIDGHLVSIAE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T SDP+GR TVFD LP SR I+VGRLD+NT GL+L T Sbjct: 62 SATEVCRVLAYYKPEGELCTRSDPEGRPTVFDRLPRLRGSRWIAVGRLDVNTCGLMLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR GQVD DK+ L KG+ ++ + KG Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDDKIRQLSKGVQLEDGPAAFKTLRFAGGKGLT 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 + +T+ L EG+NRE+++++E +V+RL+R+ YG L + G E+ L Sbjct: 182 SGITLTLTEGRNREVRRLWEAVGVQVSRLMRVRYGDITLPKGVPRGGWMELD-------L 234 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 V +D + + +DR + R K SQ +G ++ P Sbjct: 235 PAVNYLRNMVGMDDETVTKLAVEKDRRRTKAN---QIRRAVKRHSQTSGRPARRN---PG 288 Query: 306 HRRNLA 311 +RN Sbjct: 289 SKRNAT 294 >gi|295110375|emb|CBL24328.1| ribosomal large subunit pseudouridine synthase F [Ruminococcus obeum A2-162] Length = 310 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 76/306 (24%), Positives = 134/306 (43%), Gaps = 10/306 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 DK + E+ R++K ++ AG+ SRR+ +R+ RV VNG + + I + Sbjct: 2 DKKMKSEDQNTIRINKYLSSAGVCSRRDADRLTEAGRVTVNGKKIGT-GERIPVDAVICL 60 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG P+ K ER L L++KP G+V + +TV + + +R+ VGRLD ++EGLL Sbjct: 61 DGKPVEKEEREVLLLFYKPRGIVCSTKKQRRETTVTEYI-DYPTRIYPVGRLDKDSEGLL 119 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L+TN G L + + Y+V +V + + ++ G+ I G + + Sbjct: 120 LMTNQGELVNRIMRAGNYHEKEYQVTVDHEVTDEFVRHMQTGVPILGTVTRPC---IVRK 176 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 G N+ T+ L +G NR+I+++ E+ + V L R+ L L G+ RE+ + Sbjct: 177 TGRNS-FTIVLTQGLNRQIRRMCEYHGYHVRTLKRVRIMNLTLDGLKCGAYREIRRDEWS 235 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E L+ + + R N + R K +++ Sbjct: 236 EL--KELIRNSSSE--TITETGGHHGNSRSNPNERTGSEAERGGKGILSGRQRDHEQQGV 291 Query: 303 TPVHRR 308 +R Sbjct: 292 RRAVQR 297 >gi|297198681|ref|ZP_06916078.1| pseudouridine synthase [Streptomyces sviceus ATCC 29083] gi|297147171|gb|EDY58604.2| pseudouridine synthase [Streptomyces sviceus ATCC 29083] Length = 314 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 76/239 (31%), Positives = 123/239 (51%), Gaps = 2/239 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEV 62 K +R+ K++ARAG SRR E +I Q RV+VNG ++ V D ++V Sbjct: 68 KTFPGAEQEGERLQKILARAGYGSRRSCEELIEQARVEVNGEIVLEQGKRVDPERDEVKV 127 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG+ + + + + +KP G+V+T D +GR + D + + +R+ VGRLD TEG++ Sbjct: 128 DGLTV-ATQSYQFFSLNKPAGVVSTMEDNEGRQCLGDYVTNRETRLFHVGRLDTETEGVI 186 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTN G LA L P +VY G + +D LK GI ++ + Q Sbjct: 187 LLTNHGELAHRLTHPRYGVKKVYLAHIVGPIPRDLGKQLKDGIQLEDGYAKADHFRVVEQ 246 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G N V V L EG+ ++++ + V++L+R+++GP LG +G R +S + Sbjct: 247 TGKNYLVEVTLHEGRKHIVRRMLAEAGFPVDKLVRVAFGPITLGDQKSGWLRRLSNTEV 305 >gi|326780186|ref|ZP_08239451.1| pseudouridine synthase Rsu [Streptomyces cf. griseus XylebKG-1] gi|326660519|gb|EGE45365.1| pseudouridine synthase Rsu [Streptomyces cf. griseus XylebKG-1] Length = 433 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 77/231 (33%), Positives = 121/231 (52%), Gaps = 2/231 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ + V D I+VDG+ + A Sbjct: 195 EGERLQKVLARAGMGSRRACEELIEQARVEVNGEIVVEQGMRVDVHKDEIKVDGLTV-AA 253 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+V++ DPDGR + D + + +R+ VGRLD TEG+++LTN G L Sbjct: 254 QSYLFFALNKPAGVVSSMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGIIMLTNHGEL 313 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y G + +D LK GI ++ + G N V Sbjct: 314 AHRLTHPKYGVKKTYLAAIQGPLPRDLGKRLKDGIQLEDGYARADHFRVVENTGKNYLVE 373 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ ++++ + V RL+R S+GP LG +G R ++ + Sbjct: 374 VTLHEGRKHIVRRMLAEAGFPVERLVRTSFGPIPLGDQKSGWLRRLTNTEV 424 >gi|288958822|ref|YP_003449163.1| ribosomal large subunit pseudouridine synthase B [Azospirillum sp. B510] gi|288911130|dbj|BAI72619.1| ribosomal large subunit pseudouridine synthase B [Azospirillum sp. B510] Length = 401 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 137/341 (40%), Positives = 187/341 (54%), Gaps = 3/341 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K +ARAG+ SRR+ ER IA+ RV VN +L A V D ++VDG + + E Sbjct: 22 ERIAKRLARAGLCSRRDAERWIAEGRVAVNSRVLGSPACVVRPGDIVQVDGKVIPEPEPA 81 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RLW YHKP GLVTT D GR TVFD LP RV+S+GRLD+ TEGLLLLTNDG LAR Sbjct: 82 RLWRYHKPSGLVTTARDEKGRETVFDRLPDDLPRVVSIGRLDLTTEGLLLLTNDGELARF 141 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 LELP+T W R YRVR G+VD+ +L L+KG I+G+ YG ++ LD +G NAW+TV L Sbjct: 142 LELPATGWTRRYRVRVFGEVDEKQLAALEKGPTIEGVKYGPIEAVLDRIQGRNAWLTVSL 201 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +EGKNREI+KV E +VNRLIR++YGPFQLG L G+ EV K+++REQ+ P Sbjct: 202 KEGKNREIRKVMESLGLQVNRLIRVAYGPFQLGKLEEGAVEEVPKRVVREQIAPFFGTPE 261 Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASN 313 R + + + G ++ + R ++ Sbjct: 262 GAEPAESGTKQRAKARAEAAVKTAPAKAPGAKASTGPRSAGKTEAAEAKAGPKRVPRSAT 321 Query: 314 VWMAKGIHSSFLSDSGQREENHRRSP---SFPSKRSLRRTS 351 + + +R R+ S + +R Sbjct: 322 KRHEAEAARTEEAKPARRGGASGRATLTLGGASAKPVRSGK 362 >gi|190150487|ref|YP_001969012.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|189915618|gb|ACE61870.1| ribosomal large subunit pseudouridine synthase B [Actinobacillus pleuropneumoniae serovar 7 str. AP76] Length = 349 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 106/288 (36%), Positives = 154/288 (53%), Gaps = 12/288 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 64 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 123 Query: 67 LR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGL 121 + + E R+ +Y+KP G + T SDP+GR+TVFD LP +R I+VGRLDINT GL Sbjct: 124 ISLIPVQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGARWIAVGRLDINTSGL 183 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR G +D+ L L+KG+ ++ Q+ Sbjct: 184 LLFTTDGELANRLMHPSREVEREYSVRVFGNIDEAMLQRLRKGVQLEDGPANFKQIKTVG 243 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 G N W V L +G+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 244 GTGLNQWFDVTLTKGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKGLPRGGWEEMGLEQ 303 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G L E + +D T +R + + T+ Sbjct: 304 VNYLRELVG--LPAETETKVDVTKNRRRTNIRQIRKAVKQHSKYRTKA 349 >gi|90408174|ref|ZP_01216342.1| ribosomal large subunit pseudouridine synthase F [Psychromonas sp. CNPT3] gi|90310704|gb|EAS38821.1| ribosomal large subunit pseudouridine synthase F [Psychromonas sp. CNPT3] Length = 292 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 75/299 (25%), Positives = 133/299 (44%), Gaps = 17/299 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R++K I+ +G SRRE +++I + RVK+NG + V+ D + VDG + Sbjct: 5 TGKRLNKYISDSGFCSRREADKLIEKSRVKINGTIP-ELGTKVLPGDIVLVDGRAINAVA 63 Query: 72 RTR----LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + Y+KPIG+ T ++ D R + D + R+ +GRLD +EGL+ LT+D Sbjct: 64 ENKSDRIYIAYNKPIGITCT-TERDVRGNIIDAI-RHKKRIFPIGRLDKPSEGLIFLTSD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y V + + + +++G+ I V + S Sbjct: 122 GDIVNKILRAENAHDKEYLVTVDKPLSERFVERMQRGVPILDTITKPCIVKVQ----SRF 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE--QL 245 ++ L +G NR+I+++ E+ ++V L R L L G R +S + ++E Q Sbjct: 178 VFSIILTQGLNRQIRRMCEYLGYEVQALQRTRIMQVTLKNLKPGQWRNLSVQEMQEINQA 237 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 H + AQ+ A + R N F +KK S+ + S+ L Sbjct: 238 VSHSSKTAQITTPA----NPPNTRKIYNQSGSTKKIFVNVKKTKSKPSANSRTLSLKRK 292 >gi|72161610|ref|YP_289267.1| pseudouridine synthase, Rsu [Thermobifida fusca YX] gi|71915342|gb|AAZ55244.1| pseudouridine synthase, Rsu [Thermobifida fusca YX] Length = 375 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 76/247 (30%), Positives = 127/247 (51%), Gaps = 4/247 (1%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHI 60 ++++ + R+ K +A+AG+ASRR E +IA RV V+G ++ R V I Sbjct: 123 EERDTYVDVPGGIRLQKALAQAGVASRRACEELIAAGRVSVDGQIVRRFGARVDPEKSEI 182 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDN---LPSIFSRVISVGRLDIN 117 VDG+ + ++ R + +KP G+V+T DP+GR T+ D + I R+ VGRLD + Sbjct: 183 RVDGMRVVTSQNLRYYALNKPRGVVSTMFDPEGRPTIGDYAAQIGPIEERLFHVGRLDTD 242 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGL+LLTNDG LA L P + + Y + G V +D + ++KG+ + Sbjct: 243 TEGLILLTNDGELANRLTHPRYKVTKTYLAKVPGPVPRDVIRQIRKGVELDDGFVKVDSF 302 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + A V + L EG+ ++++ + V+ L R GP L L +G+ R ++ Sbjct: 303 RVIDNIEPKALVEIRLHEGRKHIVRRLMKAVGHPVSDLARTQIGPVGLNNLKSGTIRALT 362 Query: 238 KKILREQ 244 + + E Sbjct: 363 SQEVSEL 369 >gi|163940156|ref|YP_001645040.1| RNA-binding S4 domain-containing protein [Bacillus weihenstephanensis KBAB4] gi|163862353|gb|ABY43412.1| RNA-binding S4 domain protein [Bacillus weihenstephanensis KBAB4] Length = 235 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 63/232 (27%), Positives = 112/232 (48%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ AG ASRR +++I +++V +NG + + V D + V+G LR A Sbjct: 1 MRINKFISEAGKASRRGADKLINERKVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RINHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + L + G+ I +VT + S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPEFLEKMAAGVKILDTKTLPCEVT----QLSKYEFEIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +G NR+I+++ E ++V L R +L L G R++SKK + Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKEKKRLF 225 >gi|262276079|ref|ZP_06053888.1| ribosomal large subunit pseudouridine synthase B [Grimontia hollisae CIP 101886] gi|262219887|gb|EEY71203.1| ribosomal large subunit pseudouridine synthase B [Grimontia hollisae CIP 101886] Length = 331 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 105/344 (30%), Positives = 163/344 (47%), Gaps = 25/344 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---- 68 +++ KV+ARAG+ SRRE+E MI RV VNG++ + I VDG + Sbjct: 2 SEKLQKVLARAGLGSRREIESMIQAGRVSVNGVVAKLGDRLEDLNAAIRVDGHHVSVSAS 61 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T SDP+GR TVFD LP +R ++VGRLD NT GLLL T D Sbjct: 62 SEQVCRVLAYNKPEGELCTRSDPEGRRTVFDRLPRLNGARWVAVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G+V++ + L +G+ ++ V +G+N Sbjct: 122 GELANRLMHPSRQVQREYMVRVFGEVNEQMVKNLVRGVELEDGEARFEDVVYAGGEGANH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI---LRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVVITEGRNREVRRLWETQGVTVSRLKRVRYGDIYLSKELPRGGWMELELKDVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN-SSQKNGLSKQKKLA 302 + E +N +A + R + + ++ R ++ S + + ++ Sbjct: 242 MVELRPESETLINPEA---------KKRKSRVQKIRRAVRRYEERVESGETRKPRNRRGG 292 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 P R G S S + ++R+ S ++ Sbjct: 293 QPAGNRTRVG------GGRSGKPGASRPGQSSNRQKKSGGNRNP 330 >gi|239828089|ref|YP_002950713.1| pseudouridine synthase [Geobacillus sp. WCH70] gi|239808382|gb|ACS25447.1| pseudouridine synthase [Geobacillus sp. WCH70] Length = 240 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 70/233 (30%), Positives = 116/233 (49%), Gaps = 8/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VK++G++++ V T + V G + E Sbjct: 4 RIDKMLANMGYGTRKEVKKLLKSGVVKIDGVVVKDPKTQVNPTEQVVTVRGKEVEYKE-F 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+V+ D TV D L VGRLD +TEGLLLLTNDG LA Sbjct: 63 IYLMMNKPPGVVSATEDV-VEETVVDLLEEEDRVFSPFPVGRLDKDTEGLLLLTNDGQLA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P + Y G+V ++ + ++GIV+ G ++ + + G + V Sbjct: 122 HQLLSPKKHVPKTYFAVIDGEVTEEDIASFRRGIVLDDGYETKPAELVVL-KSGLRSDVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK ++K++F +V L RI GP L +L G RE++ + + Sbjct: 181 VTITEGKFHQVKRMFRAIGKRVIYLKRIQMGPLVLDPSLDLGEYRELTDEEVE 233 >gi|307730031|ref|YP_003907255.1| pseudouridine synthase [Burkholderia sp. CCGE1003] gi|307584566|gb|ADN57964.1| pseudouridine synthase [Burkholderia sp. CCGE1003] Length = 614 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 94/285 (32%), Positives = 146/285 (51%), Gaps = 10/285 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRR++E +I RV VNG +M TD + ++ Sbjct: 205 KRVLSADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRIN 263 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 264 GKPVKRKLANKPPRVLLYHKPTGEIVSHADPEGRPSVFDKLPPMKTAKWLAVGRLDFNTE 323 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 324 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLNGVELDDGPANFLRIRD 383 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 384 GGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPISLPKGLKRGRWEELED 443 Query: 239 KILREQLGPHLL----EEAQVNLDAPIYSSETLVRDRPNIISEVP 279 +R + L EE AP ++ IS P Sbjct: 444 NQVRALMASVGLKAPNEERGGRGAAPERKQPDPMQTSMGFISREP 488 >gi|229820641|ref|YP_002882167.1| pseudouridine synthase [Beutenbergia cavernae DSM 12333] gi|229566554|gb|ACQ80405.1| pseudouridine synthase [Beutenbergia cavernae DSM 12333] Length = 245 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 81/240 (33%), Positives = 119/240 (49%), Gaps = 1/240 (0%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGV 65 + R+ KV+A AG+ SRR E +I+ RV V+G ++ V T I VDG+ Sbjct: 1 MSAPAEGVRLQKVLAGAGLGSRRACEDLISAGRVSVDGEVVRELGTRVDPTAAVIHVDGL 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 L+ +KP G+ +T D GR + + + R+ VGRLD +TEGLLLLT Sbjct: 61 RLQLDPGVVTLALNKPRGVHSTMHDDRGRPALAELVADRPERLFHVGRLDADTEGLLLLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + + Y R G+V + LK GI + + T+ Q Sbjct: 121 NDGELAHRLAHPSYEVPKTYVARVTGRVARGLGRRLKDGIELDDGPARVDRFTILEQGPD 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +A V + L EG+NR ++++ + V RL R GP LG L G+TR + + L + Sbjct: 181 SAVVELVLHEGRNRIVRRLLDAAGHPVQRLTRTRVGPVLLGQLRPGATRVIDGEELGRLM 240 >gi|254372898|ref|ZP_04988387.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. novicida GA99-3549] gi|254374352|ref|ZP_04989834.1| ribosomal large subunit pseudouridine synthase B [Francisella novicida GA99-3548] gi|151570625|gb|EDN36279.1| ribosomal large subunit pseudouridine synthase B [Francisella novicida GA99-3549] gi|151572072|gb|EDN37726.1| ribosomal large subunit pseudouridine synthase B [Francisella novicida GA99-3548] gi|332678236|gb|AEE87365.1| Ribosomal large subunit pseudouridine synthase B [Francisella cf. novicida Fx1] Length = 271 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 97/251 (38%), Positives = 132/251 (52%), Gaps = 9/251 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N + P+R+ K++A+ GI SRR++E I Q RVKVNG + D I Sbjct: 1 MRRANQNNDK-NPERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVAT-LGDKASEADKI 58 Query: 61 EVDGVPL----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 DG L + R R+ +YHK G V T D R TVFD+LP + R I VGRLD Sbjct: 59 SFDGKALHSYGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLD 118 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-VDQDKLNLLKKGIVIQGICYGD 174 INT GLLL T DG LA L PS Q R Y VR GQ + + +N LK+GI ++ Sbjct: 119 INTTGLLLFTTDGDLANRLMHPSYQIEREYAVRVFGQQLSDETINKLKEGIQLEDGMAKF 178 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGST 233 + +G+N W V L EG+NRE++++FE V+RL RI +G L + G T Sbjct: 179 NNIKFSGGEGANLWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGDIILPKFVSRGKT 238 Query: 234 REVSKKILREQ 244 E++ + Sbjct: 239 LELNPSEVNRL 249 >gi|325688986|gb|EGD30994.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK115] Length = 242 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 72/234 (30%), Positives = 116/234 (49%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L E+ Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIIVSGQRLTY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATED-DRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A V+ P ++YR + G ++Q GI ++ Q+ + + + Sbjct: 119 AHVMLSPKKHVEKIYRAQVAGLMNQADEERFAAGIELKDFTCQPAQLKILELDEAKETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V + L EGK ++K++ +V L R++ GP QL L G R +++K + Sbjct: 179 VEITLAEGKFHQVKRMVASCGKEVTDLQRLTMGPLQLDPALALGEWRRLTEKEI 232 >gi|269139658|ref|YP_003296359.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Edwardsiella tarda EIB202] gi|267985319|gb|ACY85148.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthase [Edwardsiella tarda EIB202] gi|304559528|gb|ADM42192.1| Ribosomal small subunit pseudouridine synthase A [Edwardsiella tarda FL6-60] Length = 235 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 56/229 (24%), Positives = 99/229 (43%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I++ SR V R + RV V+G++ ++ V + +G L Sbjct: 1 MRLDKFISQQLGISRSLVIRELRASRVTVDGVVSRSGSLQVTPDQEVAYEGNVLAFITGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V + DPD + ++ + ++ + GRLD++T GL+LLT+DG + Sbjct: 61 RYFMLHKPEGYVCSTDDPDHATILYFIDEPMAEKLHAAGRLDLDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + +GI++ G L+ V + + Sbjct: 121 ITSPRHHCEKSYLVTLEQPLAPQTAAQFAEGILLNGETDLTKPAQLEA--FDEHHVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L L G R +S + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVGLHRERIGAIALDAALAPGEYRALSDDEV 227 >gi|212638279|ref|YP_002314799.1| RNA pseudouridine synthase [Anoxybacillus flavithermus WK1] gi|212559759|gb|ACJ32814.1| RNA pseudouridine synthase [Anoxybacillus flavithermus WK1] Length = 240 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 70/232 (30%), Positives = 118/232 (50%), Gaps = 8/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VKV+G +++ A +V + V G + + Sbjct: 3 RIDKLLANMGYGTRKEVKKLLKAGVVKVDGTIIKDAKTHVDPKAQVVTVWGEEVEY-KPF 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+++ D TV D L VGRLD +TEGLLLLTNDG LA Sbjct: 62 IYLMMNKPKGVISATEDA-VEETVVDLLEEEDRIFDPFPVGRLDKDTEGLLLLTNDGQLA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P ++Y G+V +D + ++G+V+ G ++ + + G + V Sbjct: 121 HQLLSPKKHVPKIYEAIIDGEVTEDDVVAFQRGVVLDDGYETKPAELVV-IRTGLRSDVR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EGK +IK++F+ +V L RI GP L TL G RE++ + + Sbjct: 180 ITITEGKFHQIKRMFQAVGKRVIYLKRIQMGPIPLDETLELGEYRELTDEEI 231 >gi|116629857|ref|YP_815029.1| 16S rRNA uridine-516 pseudouridylate synthase related pseudouridylate synthase [Lactobacillus gasseri ATCC 33323] gi|116095439|gb|ABJ60591.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus gasseri ATCC 33323] Length = 245 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 72/240 (30%), Positives = 117/240 (48%), Gaps = 8/240 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E R+ K +A + SR+EV +I ++ V VNG L+ V TD + VDG + Sbjct: 8 EKDIEMRIDKYLANMNVGSRKEVHSLIKKKVVTVNGELVTIPKQQVKETDLVAVDGNKIA 67 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTN 126 ++ +L +KP G+++ D + TV L + + VGRLD +T GLLLLTN Sbjct: 68 Y-QQYHYFLLNKPKGVISATED-RSQQTVISLLKTKDRYQGIAPVGRLDKDTTGLLLLTN 125 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS 185 DG LA L P+ +VYR + G D + +G+++ G ++ + Q Sbjct: 126 DGALAHELLAPNKHVAKVYRAKIAGVPDPETAKKFAQGLILGDGTKLKPAKLKILKQDQD 185 Query: 186 N--AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 N + + + ++EGK +IK++F KV L R+S G L L G +E+ ++ Sbjct: 186 NNLSQIEIQIQEGKYHQIKRMFGAVGMKVLELDRVSMGKLHLPADLKRGEYKEIDLAEIK 245 >gi|113460886|ref|YP_718953.1| ribosomal large subunit pseudouridine synthase B [Haemophilus somnus 129PT] gi|112822929|gb|ABI25018.1| ribosomal large subunit pseudouridine synthase B [Haemophilus somnus 129PT] Length = 325 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 100/289 (34%), Positives = 155/289 (53%), Gaps = 10/289 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG 64 + Q+ +R+ KV+ARAG SRR +E MI+ R+ ++G + V++ S I +DG Sbjct: 37 VNQQKVEGERLQKVLARAGQGSRRTIEAMISANRISIDGKMATLGDRVDIHSGVKIRIDG 96 Query: 65 VPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + + E R+ LY+KP G + T DP+GR+TVFD LP SR I+VGRLDINT Sbjct: 97 HIVNLTQAQKEVCRVLLYYKPEGELCTRHDPEGRATVFDRLPRLNGSRWIAVGRLDINTS 156 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T DG LA L P + R Y VR G+VD + L+KG+ ++ + Sbjct: 157 GLLLFTTDGELANRLMHPRHEVEREYAVRVFGEVDDAMIARLRKGVQLEDGPANFTSIKA 216 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE--V 236 +G N W V L EG+NRE+++++E +V+RLIRI YG +L +L G E + Sbjct: 217 TGGQGMNQWFDVTLIEGRNREVRRLWESQGIQVSRLIRIRYGNIKLTKSLPRGGWEEMDL 276 Query: 237 SK-KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR 284 + LR+ +G +++++ P +R +E+ + + Sbjct: 277 TNINYLRKLVGLPPETDSKIDTKKPRRIKTGQIRKAVKRYAELNKRYKK 325 >gi|240145658|ref|ZP_04744259.1| ribosomal large subunit pseudouridine synthase B [Roseburia intestinalis L1-82] gi|257202246|gb|EEV00531.1| ribosomal large subunit pseudouridine synthase B [Roseburia intestinalis L1-82] Length = 251 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 115/234 (49%), Gaps = 5/234 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P R++K ++ AG+ SRRE +R + V ++G++ V+ + G P++K E Sbjct: 3 EPVRINKYLSEAGVCSRREADRQVEAGNVTIDGVVA-SMGAKVLPDQTVLFCGKPVKKEE 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +HKP G+V T + + V + + R+ +GRLD ++EGLLL+TN+G + Sbjct: 62 EMILLAFHKPTGIVCTAEKREKNNVV--DYINYPKRIYPIGRLDKDSEGLLLMTNNGDIV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + V L L G+ + + + + Sbjct: 120 NRIMRAGNMHEKEYIVTVNKPVTDSFLRGLAGGVPL--VELNATTRKCKVWRIGKRQFGI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L +G NR+I+++ E+F ++V +L+R +LG L AG+ REV+ + +E + Sbjct: 178 ILTQGLNRQIRRMCEYFGYRVEKLVRTRIMNIELGDLKAGTYREVTPQEYKELM 231 >gi|157150331|ref|YP_001449642.1| pseudouridine synthase rRNA-specific [Streptococcus gordonii str. Challis substr. CH1] gi|157075125|gb|ABV09808.1| pseudouridine synthase rRNA-specific [Streptococcus gordonii str. Challis substr. CH1] Length = 242 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 69/237 (29%), Positives = 117/237 (49%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ ++ + V VNG + ++ T D I V G L E+ Sbjct: 1 MRLDKFLVENGLGSRSQVKEVLKKGLVLVNGRAEKSPKTHINETADEIVVSGQKLTY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G ++ D + TV D L + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPKGYISATEDERHK-TVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A + P ++YR + G ++Q + +GI ++ Q+ + ++ + Sbjct: 119 AHAMLSPKKHVEKIYRAQVAGLMNQSDVEQFARGIELKDFTCQPAQLKIVELDEEKETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 V + L EGK ++K++ +V L R++ GP QL L G R ++K+ ++ Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDSGLALGEWRRLTKEEMKSL 235 >gi|253996068|ref|YP_003048132.1| pseudouridine synthase [Methylotenera mobilis JLW8] gi|253982747|gb|ACT47605.1| pseudouridine synthase [Methylotenera mobilis JLW8] Length = 374 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 100/339 (29%), Positives = 161/339 (47%), Gaps = 22/339 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---K 69 QR+ K++A AG+ SRR++E +IA RV VNG + V D + +D PLR + Sbjct: 36 TQRLHKLLALAGLGSRRDMEELIASGRVTVNGKVA-EVGAGVTEHDVVRLDSRPLRLPFE 94 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDG 128 E ++ +YHKP G + + DP+GR++VFD LP + I++GRLD+NT GLL+ T G Sbjct: 95 PELPQVLIYHKPEGEIVSQDDPEGRASVFDKLPKVKHGKWIAIGRLDMNTSGLLIFTTSG 154 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA P + R Y VR G++ + ++ LK+GI ++ + +G+N W Sbjct: 155 ELANRFMHPRYEVEREYAVRIFGELTEGQIAQLKEGIELEDGPANFDSIIPQGGEGANHW 214 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI------- 240 V LREG+NRE++++FE F V+RL+R+ +GP L + G ++ +K Sbjct: 215 YQVILREGRNREVRRLFEAFQLPVSRLMRVRFGPVNLPPRVKRGKMLKLEQKEVVGLLEW 274 Query: 241 ---------LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 LR+ L+ V + + P +E R K S++ Sbjct: 275 ADLPVPKAPLRQLTQREKLKSTAVFTPKVRKQRVSALDRPPRDAAEGEAGGYRGKPGSAR 334 Query: 292 KNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ 330 K +RR S+ A + + G+ Sbjct: 335 GPATKKPIARKPAANRRVRQSSDLNAPQMQKKSDRNRGR 373 >gi|134301954|ref|YP_001121923.1| putative RNA pseudouridine synthase B [Francisella tularensis subsp. tularensis WY96-3418] gi|134049731|gb|ABO46802.1| putative RNA pseudouridine synthase B [Francisella tularensis subsp. tularensis WY96-3418] Length = 271 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 97/251 (38%), Positives = 133/251 (52%), Gaps = 9/251 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N + P+R+ K++A+ GI SRR++E I Q RVKVNG + + D I Sbjct: 1 MRRANQNNDK-NPERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVAT-LGDKAIEADKI 58 Query: 61 EVDGVPL----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 DG L + R R+ +YHK G V T D R TVFD+LP + R I VGRLD Sbjct: 59 SFDGKALHSYGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLD 118 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-VDQDKLNLLKKGIVIQGICYGD 174 INT GLLL T DG LA L PS Q R Y VR GQ + + +N LK+GI ++ Sbjct: 119 INTTGLLLFTTDGDLANRLMHPSYQIEREYAVRVFGQQLSDETINKLKEGIQLEDGMAKF 178 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGST 233 + +G+N W V L EG+NRE++++FE V+RL RI +G L + G T Sbjct: 179 NSIKFSGGEGANLWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGDIILPKFVSRGKT 238 Query: 234 REVSKKILREQ 244 E++ + Sbjct: 239 LELNPSEVNRL 249 >gi|238752726|ref|ZP_04614196.1| Ribosomal large subunit pseudouridine synthase F [Yersinia rohdei ATCC 43380] gi|238709057|gb|EEQ01305.1| Ribosomal large subunit pseudouridine synthase F [Yersinia rohdei ATCC 43380] Length = 290 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 67/291 (23%), Positives = 129/291 (44%), Gaps = 12/291 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AER 72 R++K I+ +GI SRR+ +R + Q V +NG V + D ++V+G + + Sbjct: 8 RLNKYISESGICSRRDADRYVEQGNVFINGKRAA-VGDQVYAGDVVKVNGQLIEPRDEDD 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G+++T D + + V + + RV +GRLD +++GL+ LTN G L Sbjct: 67 LVLIALNKPVGIISTTEDGEHDNIV--DFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + V + + L G+ + G +K S + Sbjct: 125 KILRAGNDHEKEYVVTVNKPVTDEFILGLGAGVPMLGTVTK----KCKVKKESTFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ + F ++V +L R L L G R+++ L E L+E Sbjct: 181 LVQGLNRQIRRMCKHFGYEVTKLERTRIMNVTLKGLPQGEWRDLTDDELIELF--KLIEN 238 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + + +AP+ S + P + N++ + ++ + Sbjct: 239 SSSD-EAPVKKSPPKSVTNKKPVINGPKKTEKPDGNAAARKRFAQPGRKKK 288 >gi|24379111|ref|NP_721066.1| putative 16S pseudouridylate synthase [Streptococcus mutans UA159] gi|24377013|gb|AAN58372.1|AE014907_9 putative 16S pseudouridylate synthase [Streptococcus mutans UA159] Length = 238 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 74/239 (30%), Positives = 117/239 (48%), Gaps = 9/239 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ +AG SR +V++ I Q+V+V+ L NV I V G L + Sbjct: 1 MRLGKLLGQAGFGSRGQVKKFIRSQQVRVDDELARTGNQNVDPNLQTITVSGKQLSYS-P 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ +KP GLV+ D TV D + + R + VG LD +TEGL+L+TN+G L Sbjct: 60 HVYYILNKPAGLVSVVRD-QHYQTVIDLIAVVDRREGLYPVGCLDRDTEGLVLITNNGPL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWV 189 L P + Y V +G + D + GI + G ++ + + + Sbjct: 119 GFRLLHPKYHVDKTYYVEVNGDLGIDAIAFFDNGIAFLDGTVCKPAKLQIISSSSEVSRA 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI---LREQL 245 + + EGK ++KK+F + KV L RIS+GPF+LG L G RE++ + LR L Sbjct: 179 YITITEGKFHQVKKMFLAYGVKVTYLKRISFGPFELGDLPVGEYRELTAEEKNSLRNYL 237 >gi|326797290|ref|YP_004315110.1| pseudouridine synthase Rsu [Marinomonas mediterranea MMB-1] gi|326548054|gb|ADZ93274.1| pseudouridine synthase Rsu [Marinomonas mediterranea MMB-1] Length = 355 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 81/357 (22%), Positives = 149/357 (41%), Gaps = 24/357 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 T R++K I+ +G+ SRRE +R I Q V +NG V D ++V+G + Sbjct: 5 TSIRINKYISESGLCSRREADRFIDQGSVFINGKRAGT-GDQVSPGDLVKVNGQIIEPQE 63 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 AE +KP+G+V+T + + V +R+ +GRLD +++GL+ LTN+G Sbjct: 64 AEDLIFIALNKPVGIVSTTESSEPANIVS--FVKHGARIFPIGRLDKDSQGLIFLTNNGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + + Y V + + Q ++ + G+ I G +V K S Sbjct: 122 LVNKILRAANNHEKEYLVTVNKPITQAFIDGMSGGVPILGQVTKKCKVV----KESTYVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E F ++V RL RI L L G R++++K L+ + L Sbjct: 178 NITLVQGLNRQIRRMAEHFGYEVTRLERIRIMNVSLKGLALGDWRDLTQKELQTLV--KL 235 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ-KKLATPVH-R 307 E++ + P + R + NG +++ + + P + Sbjct: 236 TEDSDTT-NPPAKNPRKPKPQGNRHSGNRESGNRRSDTRDGKNNGGARRGGRPSAPGKGK 294 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSP----------SFPSKRSLRRTSAKK 354 + G S + N + +P P+ RS + + K+ Sbjct: 295 PGSSKPSNSKPGSSRPGSSKPPHSKGNGKPAPKGKTGTGGKGRAPAGRSAPKPAGKR 351 >gi|228965356|ref|ZP_04126448.1| Pseudouridine synthase [Bacillus thuringiensis serovar sotto str. T04001] gi|228794346|gb|EEM41860.1| Pseudouridine synthase [Bacillus thuringiensis serovar sotto str. T04001] Length = 238 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 65/232 (28%), Positives = 113/232 (48%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKSITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLFA 229 >gi|331092461|ref|ZP_08341285.1| hypothetical protein HMPREF9477_01928 [Lachnospiraceae bacterium 2_1_46FAA] gi|330401201|gb|EGG80793.1| hypothetical protein HMPREF9477_01928 [Lachnospiraceae bacterium 2_1_46FAA] Length = 243 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 66/235 (28%), Positives = 117/235 (49%), Gaps = 7/235 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R++K ++ AG+ SRRE +R+I +V V+G E + V I+V + K Sbjct: 2 KEELIRLNKFLSEAGVCSRREADRLIEAGKVFVDGRRAET-GMRVSPAQEIKVGKKVIHK 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L +KP G+V T + + + + +R+ +GRLD ++EGLLL+TN+G Sbjct: 61 GNEMVLLAVNKPAGIVCTEEKKEKHNIIRFL--NYPTRITYIGRLDKDSEGLLLMTNNGD 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + + Y+V + V ++ + + +G+ I +V + N Sbjct: 119 IINKMMRAGNRHEKEYKVTVNKPVTREFIEKMGQGVPILDTVTRPCKVKAIGKYKFN--- 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+++ E+F +KV RL R+ QLG+L G REV+ +RE Sbjct: 176 -IVLTQGLNRQIRRMCEYFGYKVTRLERVRVMNIQLGSLKPGEYREVTDDEIREL 229 >gi|327468371|gb|EGF13856.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK330] Length = 242 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 69/237 (29%), Positives = 113/237 (47%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + D I V G L E+ Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDEAADDIVVSGQRLIY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATED-DHHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A + P ++YR + G ++Q + GI ++ + + ++ + Sbjct: 119 AHAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAHLKILELDEEKEASL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 V + L EGK ++K++ +V L R++ GP QL L G R ++ L Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDPALALGEWRRLTADELERL 235 >gi|317506859|ref|ZP_07964631.1| RNA pseudouridylate synthase [Segniliparus rugosus ATCC BAA-974] gi|316254787|gb|EFV14085.1| RNA pseudouridylate synthase [Segniliparus rugosus ATCC BAA-974] Length = 278 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 84/247 (34%), Positives = 132/247 (53%), Gaps = 20/247 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 QR+ KV+ARAG+ASRR E++IA+ RV V+G L+ + V T +EVDG + +R Sbjct: 19 QRLHKVLARAGVASRRGAEQLIAEGRVVVDGRLVVEQGMQVDPATAVVEVDGKRVAVDDR 78 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDGG 129 +L +KP G+VT SD R V D L P + + + VGRLD +T GLLL++NDG Sbjct: 79 HATYLLNKPKGVVTAMSDQRER-CVGDLLREQPDLPAGLFHVGRLDADTTGLLLVSNDGE 137 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ------- 182 LA L PS + + Y G V + L+ L++G+ ++ V + + Sbjct: 138 LAHRLAHPSYEIPKTYLATVRGAVGKGALDALRRGVSLEDGPARADAVAVKGEARPAPLR 197 Query: 183 --------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 G+ + V + L EG+NR ++++F+ V L R+ GP +LG L AG+ R Sbjct: 198 KAQTGHASGGARSVVEITLHEGRNRIVRRMFDAVGHPVVELARLRIGPIRLGGLQAGALR 257 Query: 235 EVSKKIL 241 ++ + + Sbjct: 258 ALAPEEV 264 >gi|269795291|ref|YP_003314746.1| pseudouridine synthase family protein [Sanguibacter keddieii DSM 10542] gi|269097476|gb|ACZ21912.1| pseudouridine synthase family protein [Sanguibacter keddieii DSM 10542] Length = 263 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 77/233 (33%), Positives = 121/233 (51%), Gaps = 1/233 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ KV+A AG+ SRR E +I RV V+ + + V + + + VDG+ ++ Sbjct: 27 RLQKVLATAGLGSRRACENLITAGRVTVDDVPVHELGVRIDPDKNVVHVDGLRIQLDMSL 86 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+V+T DP+GR T+ + R+ VGRLD ++EGLLLLTNDG LA Sbjct: 87 LTLALNKPLGVVSTMHDPEGRPTLAQFVADRPERLFHVGRLDADSEGLLLLTNDGELANR 146 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + + Y V+ G+V + L KGI ++ + L + + V L Sbjct: 147 LTHPKYKITKTYTVQVEGRVPANLGTTLLKGIELEDGVATVDKYRLVDATPQASLIEVEL 206 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EG+NR I+++FE + V +L+R GP +LG L G R + + L + Sbjct: 207 HEGRNRIIRRMFETAGYPVTQLVRTKIGPIRLGDLRQGRVRVIGQTELGTLMA 259 >gi|302874254|ref|YP_003842887.1| pseudouridine synthase [Clostridium cellulovorans 743B] gi|307689482|ref|ZP_07631928.1| pseudouridine synthase [Clostridium cellulovorans 743B] gi|302577111|gb|ADL51123.1| pseudouridine synthase [Clostridium cellulovorans 743B] Length = 241 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 75/233 (32%), Positives = 117/233 (50%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ KV+A G +R+EV+ ++ + V++NG+ + + V V + D I+V+G + + Sbjct: 2 ERLDKVLANLGYGTRKEVKVLVKKGAVEINGVQAKNSDVKVDTNEDIIKVNGETINYR-K 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+V+ D + TV D L VGRLD +T GLLLLTNDG L Sbjct: 61 FIYLMMNKPAGVVSATFD-NYDETVIDLLDPEEQIFEPFPVGRLDKDTVGLLLLTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P +VY VD + +KGIV+ G ++ + + V Sbjct: 120 NHKLISPKYHVDKVYYAEIDKPVDDKDVKCFEKGIVLDDGYKTMPGKLEILKATEHGSEV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V ++EGK ++K++FE KV L RIS+G L L G RE+S+ L Sbjct: 180 YVTIQEGKFHQVKRMFESLGKKVVFLKRISFGGIILDEDLEEGQYREISEDEL 232 >gi|307244534|ref|ZP_07526639.1| pseudouridylate synthase [Peptostreptococcus stomatis DSM 17678] gi|306492061|gb|EFM64109.1| pseudouridylate synthase [Peptostreptococcus stomatis DSM 17678] Length = 244 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 62/238 (26%), Positives = 115/238 (48%), Gaps = 12/238 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G +R E+++M Q V VNG +++ ++ D + ++G +R E Sbjct: 1 MRLDKMLSNLGYGTRSEIKKMCRQGMVTVNGQEVKKPDHHIDPDQDQVCLNGQAVRYRE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G V+ D TV D + + VGRLD +TEGLL++TNDG L Sbjct: 60 YIYLMMNKPAGCVSATYD-KYDQTVIDLIDPEYLAFEPFPVGRLDKDTEGLLVITNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTL----DTQKGS 185 + + P ++Y +V + KG+ I ++ + + + G+ Sbjct: 119 SHRVLSPKKHVPKIYYAEIDHEVLARDIEAFSKGVYIGDDYTTKPAKLEVIKSFEAEDGA 178 Query: 186 -NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 ++ + V + EGK ++K++FE V L RI G +L +L G RE++++ + Sbjct: 179 IHSEIYVTISEGKFHQVKRMFEAVGKSVLYLKRIQMGGLKLDESLGLGEYRELTEEEI 236 >gi|329930177|ref|ZP_08283790.1| ribosomal large subunit pseudouridine synthase F [Paenibacillus sp. HGF5] gi|328935199|gb|EGG31680.1| ribosomal large subunit pseudouridine synthase F [Paenibacillus sp. HGF5] Length = 233 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 65/236 (27%), Positives = 121/236 (51%), Gaps = 8/236 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ G SRRE ++++ +V +NG++ D + + G PL+ ++ Sbjct: 1 MRINKFISETGYCSRREADKLVESGKVTINGVVA-VLGSQAEEGDDVRIQGKPLQDKKKH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ +T ++ + + D + R+ +GRLD ++EGL+LLTNDG + Sbjct: 60 VYIALNKPVGITST-TESHIKGNIVDFV-GHNERIFPIGRLDKDSEGLILLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V V + L + G+ I G +VT +++ + L Sbjct: 118 ILRSEGKHEKEYIVTVDRPVTESFLRGMAGGVKILGEITLPCEVTRMSER----VFRIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 EGKNR+I+++ F ++V +L RI +LG+ GS R+++ K +E+LG L Sbjct: 174 TEGKNRQIRRMCSAFGYEVRKLQRIRIMNIRLGSQRIGSWRDLNDKE-KEELGRLL 228 >gi|182419423|ref|ZP_02950675.1| RNA pseudouridine synthase family protein [Clostridium butyricum 5521] gi|237666914|ref|ZP_04526899.1| RNA pseudouridine synthase family protein [Clostridium butyricum E4 str. BoNT E BL5262] gi|182376754|gb|EDT74326.1| RNA pseudouridine synthase family protein [Clostridium butyricum 5521] gi|237658113|gb|EEP55668.1| RNA pseudouridine synthase family protein [Clostridium butyricum E4 str. BoNT E BL5262] Length = 238 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 117/234 (50%), Gaps = 9/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ KVI+ G SR++V+ + + ++V+G++++ ++V I+++G + + Sbjct: 2 ERLDKVISNLGYGSRKDVKAFVKKGLIEVDGVIVKDNGLSVDPEKSVIKINGEEVFYR-K 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ D + TV D L VGRLD +T GLLLLTNDG L Sbjct: 61 YIYLMMNKPAGVISATHD-NRDETVIDLLYVDHQVFEPFPVGRLDKDTVGLLLLTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AW 188 L P +VY + +VD+ + K GI + Y M+ L+ S + Sbjct: 120 NHRLISPKWHVDKVYYAKIDKKVDEKDIQAFKSGITLDDG-YKCMEAKLEIISASEEGSE 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + V ++EGK ++K++FE KV L R +G L L G RE+S + L Sbjct: 179 IRVTIQEGKFHQVKRMFEAVGKKVEYLKREEFGGLSLDTDLEEGEYRELSDEEL 232 >gi|83647424|ref|YP_435859.1| 16S rRNA uridine-516 pseudouridylate synthase-like protein [Hahella chejuensis KCTC 2396] gi|83635467|gb|ABC31434.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Hahella chejuensis KCTC 2396] Length = 323 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 106/326 (32%), Positives = 159/326 (48%), Gaps = 13/326 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E +++ KVIAR G+ASRRE E I+ RV+VNG + V + D I VDG + Sbjct: 7 EKAQGEKLQKVIARQGLASRREAEEWISGGRVRVNGKVA-HLGDRVTAEDKISVDGHKIA 65 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLT 125 AE T + +Y+KP G VT+ DP+GR TVF LP + S R ++VGRLDINT GLL+ T Sbjct: 66 MVDAEETMVLVYNKPEGEVTSRKDPEGRPTVFARLPKLKSGRWVAVGRLDINTTGLLIFT 125 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS+Q R Y VR HG+V ++ + L+ G++++ + GS Sbjct: 126 TDGELANRLMHPSSQIDREYAVRVHGEVTEEMVTRLQDGVLLEDGLAKFSDIKEAGGSGS 185 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 N W V L+EG+NRE+++++E V+RL R+ YG L + + G+ +K + Sbjct: 186 NRWFHVVLQEGRNREVRRLWESQGVTVSRLKRVRYGYMFLPSRVRLGNWEMAGQKDV--- 242 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 L E A + P + R I + K S+ + G + Sbjct: 243 --NVLYEMAGMQ---PKTVASLTPHTREKIQRQQGKSGASKPKPSNGRTGARAPARKPAA 297 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQ 330 ++ + + G Q Sbjct: 298 ASDERRSAPLRHSTGRKPGPGRRKPQ 323 >gi|313676846|ref|YP_004054842.1| RNA-binding s4 domain protein [Marivirga tractuosa DSM 4126] gi|312943544|gb|ADR22734.1| RNA-binding S4 domain protein [Marivirga tractuosa DSM 4126] Length = 286 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 73/235 (31%), Positives = 123/235 (52%), Gaps = 4/235 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 +E R++K I+ AGI SRRE ++ IA +VKVN ++ V D + +G P+ Sbjct: 48 KELKEGIRLNKFISNAGICSRREADKHIADGKVKVNNKVVTELGFKVKPMDDVAFEGKPI 107 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDINTEGLLLLTN 126 ++ E+ L +KP G +TT DP GR TV D + + R+ VGRLD NT GLLL TN Sbjct: 108 KR-EKLVYVLLNKPKGFITTMDDPKGRKTVMDLIATAGDERIYPVGRLDRNTTGLLLFTN 166 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA+ L P + ++Y+V + ++ +++GI ++ + + T + Sbjct: 167 DGELAKKLTHPKHKIKKIYQVELDKPITEEDFLKIQEGITLEDGEVKVDNLAILTPDAKS 226 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + +R G+NR +++ FE + V +L R ++ L G R + +K + Sbjct: 227 --IGMEIRMGRNRIVRRTFEHLGYDVVKLDRTTFAGLTKKDLARGKWRFLKEKEV 279 >gi|320011602|gb|ADW06452.1| pseudouridine synthase [Streptomyces flavogriseus ATCC 33331] Length = 389 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 77/231 (33%), Positives = 120/231 (51%), Gaps = 2/231 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 +R+ K++ARAG+ SRR E +I Q RV+VNG ++ + V D I+VDG+ + Sbjct: 151 EGERLQKILARAGMGSRRACEELIEQARVEVNGEIVLEQGMRVDPQKDEIKVDGLTV-AT 209 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++LLTN G L Sbjct: 210 QSYLFFALNKPAGVVSTMGDPDGRQNLGDYVNNRETRLFHVGRLDTETEGIILLTNHGEL 269 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y G + +D LK GI ++ + G N V Sbjct: 270 AHRLTHPKYGVKKTYLAAIQGPLPRDLGKRLKDGIQLEDGYARADHFRVVENTGKNYLVE 329 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ ++++ + V RL+R S+GP LG +G R ++ + Sbjct: 330 VTLHEGRKHIVRRMLAEAGFPVERLVRTSFGPIPLGDQKSGWLRRLTNTEV 380 >gi|145629302|ref|ZP_01785101.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae 22.1-21] gi|144978805|gb|EDJ88528.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae 22.1-21] Length = 232 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 60/234 (25%), Positives = 110/234 (47%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E Sbjct: 1 MRLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWIEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ HKP G V ++ D D T++ + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDY-PTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+++ +GI+++G L+ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 + EG+ ++K++F KV L R G L +L G R +++ + + + Sbjct: 178 ISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLV 231 >gi|13472018|ref|NP_103585.1| hypothetical protein mlr2177 [Mesorhizobium loti MAFF303099] gi|14022763|dbj|BAB49371.1| mlr2177 [Mesorhizobium loti MAFF303099] Length = 250 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 82/228 (35%), Positives = 124/228 (54%), Gaps = 3/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTR 74 +++ +++ G+ SR + E +IA+ RV+V G ++ AA+ V + D I VDG P+ AER Sbjct: 19 LNRALSKLGLCSRTQAELLIAEGRVRVGGKVVRDAALRVDLNRDRIVVDGEPV-IAERKV 77 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP GLVTT DP R TV+ L V VGRLD +EGLLL+TND A Sbjct: 78 YVMLNKPRGLVTTRDDPQQRDTVYACLEGLDLPFVSPVGRLDKASEGLLLMTNDTHFANR 137 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P++ + Y V+ D+ L L+ G+ + G + L G AW+ + L Sbjct: 138 LMDPASHLPKTYHVQVGTVPDEAMLETLRAGVSVDGETLTANSIVLLRSGGRTAWLEIVL 197 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+NR I+++ +V RLIRI+ G LG L G+ R ++ + L Sbjct: 198 DEGRNRHIRRLLAAHGIEVKRLIRIAIGRLPLGDLAKGTARHLTPEEL 245 >gi|160947164|ref|ZP_02094331.1| hypothetical protein PEPMIC_01096 [Parvimonas micra ATCC 33270] gi|158446298|gb|EDP23293.1| hypothetical protein PEPMIC_01096 [Parvimonas micra ATCC 33270] Length = 230 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 77/229 (33%), Positives = 125/229 (54%), Gaps = 4/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA +G SRR + ++ Q +V VNG L + +++ D + V+G ++ E Sbjct: 1 MRINKFIANSGYCSRRNADLLLEQGKVFVNGKLATK-GIDISENDEVLVEGKKIKLEEAK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +L +KPIG +T V D + R+ VGRLD ++ GLLLLTNDG LA Sbjct: 60 KYYLLNKPIGYSSTAKAQFQEKIVLDLI-DSKERIYPVGRLDKDSFGLLLLTNDGDLAFR 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + Y V+ + + L L GI+++G + + K + V V L Sbjct: 119 LTHPSHNVEKEYIVKVDKTLKESDLKKLSSGIMLEGKITRKARFEMLDFKSN--IVKVFL 176 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +EG+NR+I+K+F+ ++ V L RI++G +LG L G+ RE+SK+ + Sbjct: 177 KEGRNRQIRKMFKTLDYNVISLERIAFGKIKLGKLKVGNYRELSKEEIE 225 >gi|255037667|ref|YP_003088288.1| pseudouridine synthase [Dyadobacter fermentans DSM 18053] gi|254950423|gb|ACT95123.1| pseudouridine synthase [Dyadobacter fermentans DSM 18053] Length = 555 Score = 256 bits (654), Expect = 5e-66, Method: Composition-based stats. Identities = 74/235 (31%), Positives = 117/235 (49%), Gaps = 4/235 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 +E R+++ IA AGI SRRE + +I+ ++ VNG ++ V TD ++ G Sbjct: 317 KEETDEIRLNRYIANAGICSRREADDLISSGQISVNGKIVTEMGYKVRPTDVVKY-GKKA 375 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 E+ L +KP +TT DP+ R TV D + RV VGRLD NT GLLLLTN Sbjct: 376 LNPEKMVYILINKPKDYITTTDDPEERKTVLDIIAGACSERVYPVGRLDRNTTGLLLLTN 435 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS+ ++Y+ + + LK G+ ++ +V L T Sbjct: 436 DGELAEKLTHPSSGIKKIYQAELDKPITTEDFEQLKAGVELEDGFIRPDEVGLVTPDA-- 493 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + G+NR ++++FE ++V +L R + L G R +++K + Sbjct: 494 QVVGLEIHSGRNRIVRRMFEHLGYEVQKLDRTVFAGLNKKDLPRGKWRFLTEKEV 548 >gi|332365597|gb|EGJ43357.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1059] Length = 242 Score = 255 bits (653), Expect = 5e-66, Method: Composition-based stats. Identities = 71/237 (29%), Positives = 113/237 (47%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++ + + V VNG + + T D I V G L E+ Sbjct: 1 MRLDKFLAENGLGSRAQVKQFLKKGLVLVNGRAEKSPKTQIDETADEIAVSGQRLTY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATED-DRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A + P ++YR + G ++Q + GI ++ Q+ + + + Sbjct: 119 AHAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKAFTCQPAQLKILELDEAKETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 V + L EGK ++K++ +V L R++ GP QL L G R ++ L Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTNLQRLTMGPLQLDPALALGEWRRLTTDELERL 235 >gi|312113041|ref|YP_004010637.1| pseudouridine synthase [Rhodomicrobium vannielii ATCC 17100] gi|311218170|gb|ADP69538.1| pseudouridine synthase [Rhodomicrobium vannielii ATCC 17100] Length = 800 Score = 255 bits (653), Expect = 5e-66, Method: Composition-based stats. Identities = 135/318 (42%), Positives = 182/318 (57%), Gaps = 7/318 (2%) Query: 34 MIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 MI ++RV VNG ++E AA++V TD + VDG PL E RLW YHKP G VTTH DP+G Sbjct: 1 MIGEKRVSVNGSIIESAALDVSPTDRVAVDGHPLPAREPPRLWRYHKPKGRVTTHKDPEG 60 Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 R TVF+ LP R+IS+GRLD NTEGLLLLTNDG LAR +ELPST W R YRVR G++ Sbjct: 61 RPTVFEALPDNLPRLISIGRLDFNTEGLLLLTNDGELARHMELPSTGWARRYRVRAFGEI 120 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 DQ L+ LK G+ I G+ YG ++ +L+ + G N W+T+ +REGKNRE++++ E VN Sbjct: 121 DQASLDKLKNGVRIAGVNYGPVEASLERETGDNVWITLLIREGKNREVRRIMEHLGLTVN 180 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSE--TLVRDR 271 RLIRIS+GPF LG L G EV +L++QLGP L V + T R + Sbjct: 181 RLIRISFGPFMLGDLEPGQVEEVKTSVLKDQLGPRLARSLGVRREVVREEKRLSTPSRGK 240 Query: 272 PNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQR 331 P + + R ++ + ++ + A V + D G+R Sbjct: 241 PTYLRRKEAEPERPRRAFEEPQ----MRRRRVLSEDASEAPIVELVPVPKPPRA-DRGER 295 Query: 332 EENHRRSPSFPSKRSLRR 349 E +P +RS R Sbjct: 296 GEKRDFAPRDRGERSFDR 313 >gi|255526472|ref|ZP_05393383.1| pseudouridine synthase [Clostridium carboxidivorans P7] gi|296184845|ref|ZP_06853256.1| pseudouridine synthase [Clostridium carboxidivorans P7] gi|255509854|gb|EET86183.1| pseudouridine synthase [Clostridium carboxidivorans P7] gi|296050627|gb|EFG90050.1| pseudouridine synthase [Clostridium carboxidivorans P7] Length = 238 Score = 255 bits (653), Expect = 5e-66, Method: Composition-based stats. Identities = 66/236 (27%), Positives = 118/236 (50%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAER 72 +R+ K+++ G +R+E++ ++ Q V+++ +++ + + + D I V G + + Sbjct: 2 ERLDKILSNLGYGTRKEIKALVKQGLVEIDNEVVKDSGMKIDPDDKEIRVSGEMVNYRQN 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 L + +KP G+V+ D + TV D L + VGRLD +T GLLLLTNDG L Sbjct: 62 IYLIM-NKPNGVVSATFD-NYDETVVDLLDPEHQAFKPFPVGRLDKDTVGLLLLTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P ++Y VDQ+ + K GI + G ++ + + + V Sbjct: 120 NHRLISPKWHVDKIYYAEIDKPVDQNDVEKFKIGITLDDGYKCLPGKLKILESDENGSKV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 V ++EGK ++K++F + V L RI +GP +L L G RE+S+ ++ Sbjct: 180 EVTIQEGKFHQVKRMFNALDKNVVYLKRIKFGPMELDLDLEEGEYRELSEDEIKSL 235 >gi|229017689|ref|ZP_04174580.1| Pseudouridine synthase [Bacillus cereus AH1273] gi|229023908|ref|ZP_04180391.1| Pseudouridine synthase [Bacillus cereus AH1272] gi|228737421|gb|EEL87933.1| Pseudouridine synthase [Bacillus cereus AH1272] gi|228743615|gb|EEL93724.1| Pseudouridine synthase [Bacillus cereus AH1273] Length = 238 Score = 255 bits (653), Expect = 5e-66, Method: Composition-based stats. Identities = 64/231 (27%), Positives = 112/231 (48%), Gaps = 7/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RINHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + L + G+ I ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPEFLEKMAAGVKILDTKTLPCEIT----QLSKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +G NR+I+++ E ++V L R +L L G R++SKK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKEKRRLF 228 >gi|314936152|ref|ZP_07843499.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus hominis subsp. hominis C80] gi|313654771|gb|EFS18516.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus hominis subsp. hominis C80] Length = 228 Score = 255 bits (653), Expect = 5e-66, Method: Composition-based stats. Identities = 64/232 (27%), Positives = 104/232 (44%), Gaps = 9/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K ++ G+ +R EV++++ + VKVN + + V D I VDG + Sbjct: 1 MRLDKFLSNMGVGTRTEVKQLLKKNSVKVNDKVEKSPKSQVDPEQDEITVDGKIIEYI-N 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G V+ D D TV D + + VGRLD +TEGLLL+TNDG Sbjct: 60 HVYIMLNKPKGYVSATYD-DINQTVIDLIADYCHLDLFPVGRLDKDTEGLLLITNDGQFN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS + Y+V + + + K GI + Q+ S V Sbjct: 119 HNLMSPSKHVSKTYKVTSKYPIKNEDIIAFKNGIELSDGKVKPAQLEKLDHNVS----LV 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++F + +V L R+ L L +G R ++ + L+ Sbjct: 175 TIYEGKYHQVKRMFHSIDNEVLELKRLKIANLTLDENLKSGEYRLLTSEELK 226 >gi|297161649|gb|ADI11361.1| putative pseudouridine synthase [Streptomyces bingchenggensis BCW-1] Length = 333 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 76/239 (31%), Positives = 122/239 (51%), Gaps = 2/239 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEV 62 K +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ + V D I+V Sbjct: 87 KTFPGAEQEGERLQKVLARAGMGSRRACEELIDQARVEVNGKIVTEQGLRVDPEKDEIKV 146 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG+ + + + +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++ Sbjct: 147 DGLTV-ATQSYLFFALNKPAGVVSTMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGII 205 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTN G L+ L P + Y G + +D LK GI ++ + Sbjct: 206 LLTNHGELSHRLTHPRYGVTKTYLAAIQGPLPRDLGKRLKDGIQLEDGYARADHFRVVQN 265 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G N V V L EG+ ++++ + V++L+R ++GP LG +G R ++ + Sbjct: 266 TGKNYLVEVSLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPIALGDQKSGWLRRLTNTEV 324 >gi|229525790|ref|ZP_04415195.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae bv. albensis VL426] gi|229339371|gb|EEO04388.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae bv. albensis VL426] Length = 322 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 107/338 (31%), Positives = 153/338 (45%), Gaps = 26/338 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV VNG + + +DG + + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAILGERLEEDNAVVRIDGHVVSVKAQ 61 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G V +DK+ L +G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGDVTEDKVRNLVRGVQLEDGMARFEDVMYAGGEGINH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK---ILRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFLDKKLPRGGWMELDLKQVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E +N+ AP ++ R R R + ++ + Sbjct: 242 LVELRPEKETVLNM-APDAATRKRERTRS-------QKIRRAVRRHEERISTPAGRSGKA 293 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSF 341 P R+ G S + ++ R P Sbjct: 294 PARRK---------PGSGESSTRNKVANQQQSSRKPRG 322 >gi|119775259|ref|YP_927999.1| pseudouridine synthase, Rsu [Shewanella amazonensis SB2B] gi|119767759|gb|ABM00330.1| ribosomal large subunit pseudouridine synthase B [Shewanella amazonensis SB2B] Length = 295 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 104/306 (33%), Positives = 153/306 (50%), Gaps = 21/306 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E IA RV +NG + V + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSINGEIA-NLGDRVDADAKVRLDGRLVSIKSA 60 Query: 73 ----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ YHKP G + + DP+GR TVFD LP +R ++VGRLDINT GLLL T+D Sbjct: 61 DDIICRVLAYHKPEGEICSRKDPEGRPTVFDRLPKLRDARWVAVGRLDINTSGLLLFTSD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V+ + L+ G++++ V +G N Sbjct: 121 GELANRLMHPSNEVDREYAVRTFGEVNDFTIQKLRTGVMLEDGPAQFDYVKAAGGEGVNQ 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILRE 243 W VGLREG+NRE+++++E +V+RLIR+ YG +L TL G E+ + LR+ Sbjct: 181 WWHVGLREGRNREVRRLWESQEVQVSRLIRVRYGMIELPKTLPRGGWIELPLEQVNYLRQ 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 G + + D + + VR R + S K G + K Sbjct: 241 LAGMDPETRSMIGTDKHSVARASQVRSA---------KIRRAVRKS--KVGAATGSKRPK 289 Query: 304 PVHRRN 309 P R+ Sbjct: 290 PTRTRS 295 >gi|239940238|ref|ZP_04692175.1| putative pseudouridine synthase [Streptomyces roseosporus NRRL 15998] gi|239986727|ref|ZP_04707391.1| putative pseudouridine synthase [Streptomyces roseosporus NRRL 11379] gi|291443668|ref|ZP_06583058.1| pseudouridine synthase [Streptomyces roseosporus NRRL 15998] gi|291346615|gb|EFE73519.1| pseudouridine synthase [Streptomyces roseosporus NRRL 15998] Length = 427 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 77/231 (33%), Positives = 121/231 (52%), Gaps = 2/231 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ + V D I+VDG+ + A Sbjct: 189 EGERLQKVLARAGMGSRRACEELIEQARVEVNGEIVVEQGMRVDVHKDEIKVDGLTV-AA 247 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+V++ DPDGR + D + + +R+ VGRLD TEG+++LTN G L Sbjct: 248 QSYLFFALNKPAGVVSSMEDPDGRQCLGDYVNNRETRLFHVGRLDTETEGIIMLTNHGEL 307 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y G + +D LK GI ++ + G N V Sbjct: 308 AHRLTHPKYGVKKTYLAAIQGPLPRDLGKRLKDGIQLEDGYARADHFRVVENTGKNYLVE 367 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ ++++ + V RL+R S+GP LG +G R ++ + Sbjct: 368 VTLHEGRKHIVRRMLAEAGFPVERLVRTSFGPIPLGDQKSGWLRRLTNTEV 418 >gi|327439180|dbj|BAK15545.1| 16S rRNA uridine-516 pseudouridylate synthase [Solibacillus silvestris StLB046] Length = 240 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 66/226 (29%), Positives = 113/226 (50%), Gaps = 8/226 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K++A G SR+EV+ ++ Q+ V V+G+ ++ +A++V ++ V G + E Sbjct: 5 MRLDKLLANMGYGSRKEVKLLLKQKAVTVDGVTVKDSAMHVNPEKQNVSVFGERVEYVE- 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ D TV D L + VGRLD +TEGLLL+TNDG L Sbjct: 64 FIYLMMNKPPGVISATED-RYDQTVIDLLDPEYQHFEPFPVGRLDKDTEGLLLITNDGNL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y + G V + + +G+ + G ++ + G + + Sbjct: 123 AHNLLSPKKHVPKWYYAKIDGVVTEADIEAFAQGVTLEDGYHTKPGELKILV-SGEQSEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 + ++EGK ++K++FE KV L R+S G +L L G R Sbjct: 182 ELMIQEGKFHQVKRMFEAVGKKVTYLKRLSMGTLKLDEELALGEYR 227 >gi|150025290|ref|YP_001296116.1| pseudouridylate synthase [Flavobacterium psychrophilum JIP02/86] gi|149771831|emb|CAL43305.1| Pseudouridylate synthase [Flavobacterium psychrophilum JIP02/86] Length = 266 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 67/271 (24%), Positives = 127/271 (46%), Gaps = 13/271 (4%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++EN T R++K ++ G SRRE ++++ + R+ +NG ++ V D + VDG Sbjct: 1 MEENLT--RINKFLSETGHCSRREADKLLDEGRITING-IVPEMGTKVSHHDEVRVDGKL 57 Query: 67 LR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 +R K E+ ++KP+G+ T ++ D R + D + + R+ +GRLD +EGL+ +T Sbjct: 58 VREKTEKPVYLAFNKPVGIECT-TNLDVRYNIVDFI-NYPKRIFPIGRLDKASEGLIFMT 115 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y V + + + + GI I +V ++ S Sbjct: 116 NDGDIVNKILRARNNHEKEYTVTVNKLITDRFIQKMSNGIPILDTVTKKCKV----EQIS 171 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E+ ++V L RI L + G R+++ + E Sbjct: 172 KTTFKIVLTQGLNRQIRRMCEYLGYEVTSLKRIRIINISL-DIPVGRYRDLTDAEITEL- 229 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIIS 276 +L+E + +A E R I Sbjct: 230 -NNLIEPSSKTEEASFPKVEAPKRRIEFIKR 259 >gi|94984870|ref|YP_604234.1| pseudouridine synthase, Rsu [Deinococcus geothermalis DSM 11300] gi|94555151|gb|ABF45065.1| Pseudouridine synthase, Rsu [Deinococcus geothermalis DSM 11300] Length = 253 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 84/249 (33%), Positives = 121/249 (48%), Gaps = 13/249 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAER 72 +R+ K +ARAG+ASRR E +I RV VNG + VM D + VDG + A+ Sbjct: 6 ERLQKRLARAGVASRRAAEDLITAGRVTVNGQIAT-LGRTVMPDDEVRVDGRLIEAPAQE 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +L +KP G VTT D GR V +P + VGRLD ++EGLLLLT DG L Sbjct: 65 SVTFLLYKPAGYVTTARDEYGRRNVLSAMPP-IPGLHPVGRLDKDSEGLLLLTTDGQLTL 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + YR GQ +L +L+ GI + + V Sbjct: 124 TLTHPRYGHEKAYRAWTAGQPVAAELRVLETGIELADGPARALSARPARGGA-----LVT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP----- 247 L EG+NR+++++ + + V+RL+R G LG L G R +S + L + L P Sbjct: 179 LTEGRNRQVRRMLDAIGYPVHRLLRYRVGGLWLGDLEPGEYRLLSPRDLHDLLHPAQVPR 238 Query: 248 HLLEEAQVN 256 H+ E A+ Sbjct: 239 HVWERAERE 247 >gi|311069499|ref|YP_003974422.1| putative 16S pseudouridylate synthase [Bacillus atrophaeus 1942] gi|310870016|gb|ADP33491.1| putative 16S pseudouridylate synthase [Bacillus atrophaeus 1942] Length = 239 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 66/233 (28%), Positives = 115/233 (49%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 R+ K++A +GI SR+EV++++ V ++G + +V ++H + V G P+ E Sbjct: 1 MRLDKLLANSGIGSRKEVKKIVKAGAVSIDGKQAKDVKTHVDPSEHEVTVYGEPIEYRE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ D + TV D L R GRLD +T GLLLLTNDG L Sbjct: 60 FIYLMMNKPQGVLSATEDSR-QKTVIDLLAPDDMRFEPFPAGRLDKDTVGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWV 189 A L P + Y V + ++ + L+ G+ I+G +V + + Sbjct: 119 AHRLLSPKKHVPKTYEVHLRSGLSEEDIANLESGVFIEGGYKTKPAKVETIANSEEHTEI 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EGK ++K++ + +V L R+S G L +L G RE++++ L Sbjct: 179 RLTITEGKYHQVKQMAKAVENEVIFLKRLSMGSLLLDPSLEPGEYRELTEEEL 231 >gi|327440834|dbj|BAK17199.1| 16S rRNA uridine-516 pseudouridylate synthase [Solibacillus silvestris StLB046] Length = 247 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 78/232 (33%), Positives = 129/232 (55%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E++I + +VKVNG++++ V ++D IEV+GV L K E Sbjct: 2 ERLQKVIAYAGVASRRKAEQLIVEGKVKVNGVVVKELGTKVSNSDTIEVEGVKLEK-EDK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP ++ +D GR TV D R+ VGRLD +T GLLLLTNDG + Sbjct: 61 VYFLLYKPRAYISAVTDDKGRKTVTDIFKKHVHQRIFPVGRLDYDTTGLLLLTNDGEFSN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 ++ P + + Y R G + L L+ GI ++ +V++ + +K A Sbjct: 121 LMTHPKFKIDKTYIARVKGIPTKQGLMKLQSGIKLEDGKTAPAKVSMTSFDEKAGKAICE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EG+NR+++++FE V +L R + L L G R+++K ++ Sbjct: 181 ITIHEGRNRQVRRMFEAIGTPVVKLKRERFAFLDLTGLSPGEYRQLTKHEVK 232 >gi|329915247|ref|ZP_08276235.1| Ribosomal large subunit pseudouridine synthase B [Oxalobacteraceae bacterium IMCC9480] gi|327544952|gb|EGF30293.1| Ribosomal large subunit pseudouridine synthase B [Oxalobacteraceae bacterium IMCC9480] Length = 621 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 96/342 (28%), Positives = 161/342 (47%), Gaps = 19/342 (5%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +++ ++ P ++ KV+A AG+ SRR++E +I RV VNG +++ D + + Sbjct: 197 RRDLTADDDAP-KLHKVLAEAGLGSRRDMEELIISGRVSVNGEPA-HIGQRILAQDQVRI 254 Query: 63 DGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINT 118 +G +++ + R+ +YHKP G + +H DPDGR +VF+ LP++ + + ++VGRLD NT Sbjct: 255 NGKLIQRRVSKKPPRVLVYHKPAGEIVSHDDPDGRPSVFERLPNMKAGKWLAVGRLDFNT 314 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLLL T G LA L P R Y VR G++++ L G+ + +V Sbjct: 315 EGLLLFTTSGDLANRLMHPRYNIDREYAVRTLGELEEGMRQKLLAGVELDDGVAQFSRVA 374 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 +G N W V + EG+NRE++++FE V+RLIR YG L L G E+ Sbjct: 375 DGGGEGVNKWYRVTIGEGRNREVRRMFEAIGLTVSRLIRTRYGAMVLPPNLKRGRWEEMD 434 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + +R+ L LE+ + S + + + R ++ ++G Sbjct: 435 EHSVRDLLKISGLEKTVGKSE----PSRGRSDEHDSEGGVNGNRIERAP--ATARHGAPN 488 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSP 339 + P + W KG G + R P Sbjct: 489 GNRANAPEPGQ------WQGKGRSGPARGPGGFAGQGQPRGP 524 >gi|118465035|ref|YP_882249.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium avium 104] gi|118166322|gb|ABK67219.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium avium 104] Length = 248 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 73/236 (30%), Positives = 109/236 (46%), Gaps = 4/236 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLR 68 R+ KV+++AGIASRR E++I RV+V+G ++ V I VDG + Sbjct: 4 EAQGIRLQKVLSQAGIASRRAAEKLIVDGRVEVDGQVVTELGTRVDPDAAVIRVDGARVV 63 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLT 125 E +KP G+ +T SD GR + D + + VGRLD TEGL+LLT Sbjct: 64 LDESQVYLALNKPRGVHSTMSDDRGRPCIGDLIERRVRGNKNLFHVGRLDAETEGLILLT 123 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + + Y G + + L+ GI + + + Sbjct: 124 NDGELAHRLMHPSHEVPKTYLATVTGSIPRGLGKTLRAGIELDDGMARVDEFAVVDAIPG 183 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+NR ++++ + V L+R GP LG GS R + + + Sbjct: 184 KTLVRVTLHEGRNRIVRRLLAAAGFPVESLVRTDIGPISLGKQRPGSIRALGRDEV 239 >gi|195978395|ref|YP_002123639.1| ribosomal small subunit pseudouridine synthase A RsuA [Streptococcus equi subsp. zooepidemicus MGCS10565] gi|195975100|gb|ACG62626.1| ribosomal small subunit pseudouridine synthase A RsuA [Streptococcus equi subsp. zooepidemicus MGCS10565] Length = 237 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 66/237 (27%), Positives = 108/237 (45%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + AG+ SR +V+ ++ +++V VNG+ V D + G L E Sbjct: 1 MRLDKFLVDAGLGSRSQVKLLLKKKQVSVNGVSQTSPKYQVNEMADEVSYQGQRLNY-EA 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D TV D L + V VGRLD +T GLLL+TNDG L Sbjct: 60 FVYYMLNKPKGVISATED-SSHKTVLDLLDDTARQKAVFPVGRLDKDTHGLLLVTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAW 188 A L P + Y G + Q+ + +GI ++ + + + Sbjct: 119 AHALLSPKKHVAKQYLAVVDGMMTQEDVKHFAQGITLKDHQCMPAYLDILEINESLKTSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 V + + EGK ++K++ V+ L RIS GP QL + L G+ R ++ L Sbjct: 179 VKITIEEGKFHQVKRMVAACGKTVSDLQRISMGPLQLDSALAPGAYRRLTAAELETL 235 >gi|169824529|ref|YP_001692140.1| ribosomal large subunit pseudouridine synthase B [Finegoldia magna ATCC 29328] gi|167831334|dbj|BAG08250.1| ribosomal large subunit pseudouridine synthase B [Finegoldia magna ATCC 29328] Length = 242 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 71/229 (31%), Positives = 118/229 (51%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA++G SRR + +I +V VNG +L + V TD +EV+G + E Sbjct: 1 MRINKFIAQSGYCSRRNADELIKNSKVYVNGTILLDLSYQVNDTDIVEVEGKKINLKEDK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KPIG +T D V D + +RV VGRLD ++ GLL+LTNDG Sbjct: 61 IYIAINKPIGYASTVKDKFADKKVVDLI-KSDTRVYPVGRLDKDSHGLLILTNDGEFTYE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + ++Y V G+ ++ ++ LK GI++ G ++ ++ V + Sbjct: 120 LTHPKFEHKKIYEVLVKGKPNKTEIKQLKDGILLDGYKLKKSKIEFIENVKNDTKYRVTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EG+NR+I+++F+F N V L R+ G +++ L +G + + K L Sbjct: 180 FEGRNRQIRRMFDFINHPVLDLKRVQIGNYKMENSLKSGEYKLLKSKDL 228 >gi|160893004|ref|ZP_02073792.1| hypothetical protein CLOL250_00542 [Clostridium sp. L2-50] gi|156865087|gb|EDO58518.1| hypothetical protein CLOL250_00542 [Clostridium sp. L2-50] Length = 239 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 66/238 (27%), Positives = 113/238 (47%), Gaps = 9/238 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A I SR +V++ I + + VNGI+ + + D I +G + ++ Sbjct: 1 MRIDKFLANQDIGSRSQVKQYIKKGMISVNGIVCKSPEQKIDENADQISYNGKVIGY-QK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G V+ +D + TV D L + + VGRLDI+TEGLLL+T+DG L Sbjct: 60 HHYYMLNKPSGCVSATND-NLHITVLDLLKASVPVKNLFPVGRLDIDTEGLLLITDDGEL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS--NA 187 + L PS + Y R G ++ + K+G+ I + + + + Sbjct: 119 SHNLLSPSKHVAKTYFARIDGLATEEHIKAFKEGLDIGDDKPTKPGTLVIKNTDLNTQTS 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 + + + EG+ ++K+ FE KV L R+S G L L G RE++ L+ Sbjct: 179 EILLTITEGRYHQVKRSFEALGMKVTYLKRLSMGSLTLDEALAPGEFRELTDIELQAL 236 >gi|311694421|gb|ADP97294.1| RNA-binding S4 domain protein [marine bacterium HP15] Length = 327 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 107/301 (35%), Positives = 149/301 (49%), Gaps = 15/301 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---- 68 P+R+ K++ARAGI SRRE+E + R+ VNG + D E+DG L Sbjct: 22 PERIQKLLARAGIGSRREIEGWMEAGRLLVNGQPVA-PGQKATVEDRFELDGKRLEVSGA 80 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ +Y+KP G VTT DP+GR TVFD LP R IS+GRLDINT GL+L T D Sbjct: 81 AEVMRRVLIYNKPEGEVTTRKDPEGRPTVFDRLPRLKEHRWISIGRLDINTTGLVLFTTD 140 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G+VD K+ L +G++++ ++ G N Sbjct: 141 GELANRLMHPSNQIDREYAVRIFGEVDDAKIERLLQGVLLEDGMAKFTDISPAGGSGINR 200 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 W V L EG+NRE+++++E +V+RL R+ YGP L + L G E+ ++ + Sbjct: 201 WFHVTLLEGRNREVRRLWESQGVRVSRLKRVRYGPIFLPSRLTVGKWEELDQRAVDTLSR 260 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 LE ++ P +E DR S R K + K A P Sbjct: 261 TVGLEAVEIPQKTP---NEKAAHDRQRRKSP-----GRSGKKTPGNKWAVSDTKPAKPAG 312 Query: 307 R 307 R Sbjct: 313 R 313 >gi|157693404|ref|YP_001487866.1| pseudouridylate synthase [Bacillus pumilus SAFR-032] gi|157682162|gb|ABV63306.1| pseudouridylate synthase [Bacillus pumilus SAFR-032] Length = 238 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 65/232 (28%), Positives = 112/232 (48%), Gaps = 5/232 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++A +G SR++V++++ + V VNG L ++ +V D + V G + E Sbjct: 1 MRLDKLLASSGFGSRKDVKKLVKARAVTVNGELAKQVKDHVDPSNDEVLVHGERVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+++ D + V P +R VGRLD +T GLLLLTNDG LA Sbjct: 60 FIYLMMNKPDGVISATEDVRDETVVDLLEPEDIAREPFPVGRLDKDTVGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V + +N L++G+ ++ +V +D + + + Sbjct: 120 HQLLSPKKHVPKTYEVHLKYPLGDQDINRLEEGVIILDDYRTKPAKVEVDANESEDTRIR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EGK ++K + + +V L R S G L L G RE++ + L Sbjct: 180 LTITEGKYHQVKLMAQAVGNEVIFLKRRSMGSLSLDEDLAPGEYRELTDEEL 231 >gi|41407511|ref|NP_960347.1| hypothetical protein MAP1413 [Mycobacterium avium subsp. paratuberculosis K-10] gi|41395864|gb|AAS03730.1| hypothetical protein MAP_1413 [Mycobacterium avium subsp. paratuberculosis K-10] Length = 247 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 73/236 (30%), Positives = 109/236 (46%), Gaps = 4/236 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLR 68 R+ KV+++AGIASRR E++I RV+V+G ++ V I VDG + Sbjct: 3 EAQGIRLQKVLSQAGIASRRAAEKLIVDGRVEVDGQVVTELGTRVDPDAAVIRVDGARVV 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLT 125 E +KP G+ +T SD GR + D + + VGRLD TEGL+LLT Sbjct: 63 LDESQVYLALNKPRGVHSTMSDDRGRPCIGDLIERRVRGNKNLFHVGRLDAETEGLILLT 122 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + + Y G + + L+ GI + + + Sbjct: 123 NDGELAHRLMHPSHEVPKTYLATVTGSIPRGLGKTLRAGIELDDGMARVDEFAVVDPIPG 182 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+NR ++++ + V L+R GP LG GS R + + + Sbjct: 183 KTLVRVTLHEGRNRIVRRLLAAAGFPVESLVRTDIGPISLGKQRPGSIRALGRDEV 238 >gi|121604769|ref|YP_982098.1| pseudouridine synthase [Polaromonas naphthalenivorans CJ2] gi|120593738|gb|ABM37177.1| ribosomal large subunit pseudouridine synthase B [Polaromonas naphthalenivorans CJ2] Length = 527 Score = 255 bits (653), Expect = 6e-66, Method: Composition-based stats. Identities = 94/322 (29%), Positives = 148/322 (45%), Gaps = 13/322 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN + D ++V+ Sbjct: 86 KRVLSPQPETPKLHKVLAQAGLGSRLEMEQLILEGRISVNAEPA-HIGQRIQFGDTVKVN 144 Query: 64 GVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 G P+R R+ YHKP G V TH DP R TVF LP +F + SVGRLD+NTE Sbjct: 145 GKPIRVQIDPPPPRVIAYHKPAGEVVTHDDPQNRPTVFRRLPKLFQGKWQSVGRLDLNTE 204 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLT+ G LA L P R Y VR G ++ ++ L G+ + + Sbjct: 205 GLLLLTSSGELANKLMHPRFGLEREYAVRVLGALNNEEKKRLLDGVTLDDGVAQFGSIEA 264 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ + Sbjct: 265 GGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMVLPRGLKRGAFVELDE 324 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETL-------VRDRPNIISEVPDDFTRMKKNSSQ 291 + E++ + R P R + + Sbjct: 325 NDIHALTSAVSRSESRPDPRGEAAGPGQSEGEGGVQQRRGPRRNERPRSGAGRPRNLDAG 384 Query: 292 KNGLSKQKKLATPVHRRNLASN 313 ++G+ + + P R ++ Sbjct: 385 QSGVQQPLDDSQPPMNRTDSAP 406 >gi|302380740|ref|ZP_07269205.1| putative pseudouridine synthase B, ribosomal large subunit [Finegoldia magna ACS-171-V-Col3] gi|302311683|gb|EFK93699.1| putative pseudouridine synthase B, ribosomal large subunit [Finegoldia magna ACS-171-V-Col3] Length = 242 Score = 255 bits (653), Expect = 7e-66, Method: Composition-based stats. Identities = 71/229 (31%), Positives = 118/229 (51%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA++G SRR + +I +V VNG +L + V TD +EV+G + E Sbjct: 1 MRINKFIAQSGYCSRRNADELIKNSKVYVNGTILLDLSYQVNDTDIVEVEGKKINLKEDK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KPIG +T D V D + +RV VGRLD ++ GLL+LTNDG Sbjct: 61 IYIAINKPIGYASTVKDKFADKKVVDLI-KSDTRVYPVGRLDKDSHGLLILTNDGEFTYE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + ++Y V G+ ++ ++ LK GI++ G ++ ++ V + Sbjct: 120 LTHPKFEHKKIYEVLVKGKPNKTEIKQLKDGILLDGYKLKKSKIEFIENIKNDTKYRVTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EG+NR+I+++F+F N V L R+ G +++ L +G + + K L Sbjct: 180 FEGRNRQIRRMFDFINHPVLDLKRVQIGNYKMENSLKSGEYKLLKSKDL 228 >gi|71281709|ref|YP_267665.1| RNA pseudouridine synthase family protein [Colwellia psychrerythraea 34H] gi|71147449|gb|AAZ27922.1| RNA pseudouridine synthase family protein [Colwellia psychrerythraea 34H] Length = 314 Score = 255 bits (653), Expect = 7e-66, Method: Composition-based stats. Identities = 71/296 (23%), Positives = 132/296 (44%), Gaps = 24/296 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--- 69 P+R++K I+ +G SRR ++MI RV +N + V++ D ++VDG + Sbjct: 12 PKRLNKYISDSGFCSRRSADKMIEANRVTINDKVP-ELGTKVLAGDVVKVDGYDIAPISD 70 Query: 70 -AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 Y+KPIG+ T ++ R + D + R+ +GRLD +EGL+ LT+DG Sbjct: 71 DKSDRIYIAYNKPIGITCT-TEKHVRGNIIDAI-GHKKRIFPIGRLDKPSEGLIFLTSDG 128 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y V + + + + +G+ I G V + S Sbjct: 129 DIVNKILRAENAHDKEYIVTVDKPISERFIERMSRGVPILGTITKPCIVQV----KSRFE 184 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 T+ L +G NR+I+++ E+ +++V +L R +LG L G RE++ Sbjct: 185 FTIILTQGLNRQIRRMCEYLDYEVLKLKRSRIMKVELGDLTPGQWRELT----------- 233 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 + E A++N S + +P + +D + ++S N +K + P Sbjct: 234 ITEMAEINQAVEGSSKTAINTAQPKQTTSSMNDLEEL--SASLNNADNKSESKTEP 287 >gi|221231179|ref|YP_002510331.1| ribosomal small subunit pseudouridine synthase B [Streptococcus pneumoniae ATCC 700669] gi|220673639|emb|CAR68127.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus pneumoniae ATCC 700669] Length = 240 Score = 255 bits (652), Expect = 7e-66, Method: Composition-based stats. Identities = 74/235 (31%), Positives = 113/235 (48%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ M+ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNMLKSGRVTVNGKKEKSAKLQIDEERDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L I V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPKGVISATEDPKHR-TVLDLLDDIARSKEVFPVGRLDIDTHGLLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A L P + Y + G + Q+ KGI ++ ++ L + K + + Sbjct: 119 AHALLSPKRHVDKTYLAQVKGIMTQEDAETFAKGIPLKDFTCQPARLELVSVDTKKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V + EGK ++K++ + +V L R++ G L L G R ++K+ L Sbjct: 179 IRVTIAEGKFHQVKRMVGYCGKEVVDLQRLTMGTLVLDENLQRGEWRRLTKEELE 233 >gi|78188520|ref|YP_378858.1| pseudouridine synthase, Rsu [Chlorobium chlorochromatii CaD3] gi|78170719|gb|ABB27815.1| ribosomal large subunit pseudouridine synthase B [Chlorobium chlorochromatii CaD3] Length = 251 Score = 255 bits (652), Expect = 7e-66, Method: Composition-based stats. Identities = 74/241 (30%), Positives = 121/241 (50%), Gaps = 8/241 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 + N R+++ +A GIASRR ++++ + RV +NG ++ V V + D + +DG Sbjct: 7 KSNNDGMRINRFLAMCGIASRRAADQLVQEGRVCINGKIVTTPGVKVNPSRDEVIIDGKR 66 Query: 67 LRKAE-RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + E R L +KP ++TT SD R V D + + R+ VGRLD T G++LLT Sbjct: 67 FAQPENRKVYILLNKPRNVITTSSDERQREMVLDFI-DVPERIFPVGRLDRKTTGVILLT 125 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQK 183 NDG LA L PS+ + Y + L L G+ ++ G + L Sbjct: 126 NDGELAHKLMHPSSGVKKEYIAELSERFPAAMLGKLTNGMRLKDTGEKVSPCRAKLLD-- 183 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V + + EGKN +++++F+ ++V RL R++Y Q G L G R +S+ +RE Sbjct: 184 -DGMRVLLSIHEGKNHQVRRMFDTLGFEVKRLDRVAYAGLQAGELRRGEWRYLSRNEVRE 242 Query: 244 Q 244 Sbjct: 243 L 243 >gi|311745139|ref|ZP_07718924.1| RNA pseudouridine synthase family protein [Algoriphagus sp. PR1] gi|126577657|gb|EAZ81877.1| RNA pseudouridine synthase family protein [Algoriphagus sp. PR1] Length = 243 Score = 255 bits (652), Expect = 7e-66, Method: Composition-based stats. Identities = 58/237 (24%), Positives = 112/237 (47%), Gaps = 8/237 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL- 67 E R++K ++ G SRRE ++++ R+ +NG + VM D + VDG P+ Sbjct: 2 EEKQGIRINKYLSEVGFCSRREGDKLLEAGRITLNGKIP-EIGTKVMPKDVVCVDGKPVG 60 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + ++KP+G+V+T ++ + D + R+ +GRLD ++EGL+ LT++ Sbjct: 61 KPIQDHVYIAFNKPVGIVSTTDTKAEKNNMIDYI-GHQQRIFPIGRLDKDSEGLIFLTSE 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y V + + + GI I +V +K S Sbjct: 120 GDIVNKILRSKNNHEKEYIVTVDKPITDRFIQKMGAGIPILDTVTDPCKV----EKISKV 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+++ E+ ++V +L RI L + G R+++ L+E Sbjct: 176 KFRIILTQGLNRQIRRMCEYLGYEVRQLKRIRIMNVHL-DIPVGKWRDLTASELKEL 231 >gi|113868284|ref|YP_726773.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Ralstonia eutropha H16] gi|113527060|emb|CAJ93405.1| Predicted 16S rRNA uridine-516 pseudouridylate synthase or related pseudouridylate synthase [Ralstonia eutropha H16] Length = 629 Score = 255 bits (652), Expect = 7e-66, Method: Composition-based stats. Identities = 91/273 (33%), Positives = 143/273 (52%), Gaps = 7/273 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + + ++ P ++ KV+A G+ SRRE+E +I Q RV VNG+ ++ D + V+ Sbjct: 215 RELSADDDAP-KLHKVLAEGGLGSRREMEELILQGRVSVNGLPA-HIGQRILPADQVRVN 272 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 G + + + R+ LYHKP G + + SDP+GR TVFD+LP I + + ++VGRLD NTE Sbjct: 273 GKLIHRKVSTKPPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRIKTGKWVAVGRLDFNTE 332 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+ T G +A P R Y VR G++ + L GI + +++ Sbjct: 333 GLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAEADRQRLLHGIKLDDGEANFLRIAD 392 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G N W V L EG+NRE++++FE V+RLIR YG F L L G +EV Sbjct: 393 GGGEGVNQWYHVALTEGRNREVRRMFEAVGLTVSRLIRTRYGQFLLPRGLKRGRWQEVEP 452 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDR 271 ++ + L+ AP +++ R + Sbjct: 453 NDVKALMAGVGLKVPGKGEQAPKGATKVGGRKQ 485 >gi|168576293|ref|ZP_02722176.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae MLV-016] gi|183577841|gb|EDT98369.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae MLV-016] Length = 240 Score = 255 bits (652), Expect = 7e-66, Method: Composition-based stats. Identities = 71/235 (30%), Positives = 115/235 (48%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYMMNKPKGVISATEDPKHR-TVLDLLDDLAQSKEVFPVGRLDIDTHGLLLLTNNGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A VL P + Y+ + G + Q+ + KGI ++ ++ + + + + + Sbjct: 119 AHVLLSPKRHVDKTYQAQVKGIMTQEDVETFIKGIPLKDFTCQPARLEILSTDAEKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >gi|147673214|ref|YP_001216750.1| pseudouridine synthase family 1 protein [Vibrio cholerae O395] gi|262169496|ref|ZP_06037188.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae RC27] gi|262191635|ref|ZP_06049813.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae CT 5369-93] gi|146315097|gb|ABQ19636.1| pseudouridine synthase family 1 protein [Vibrio cholerae O395] gi|227013096|gb|ACP09306.1| pseudouridine synthase family 1 protein [Vibrio cholerae O395] gi|262022309|gb|EEY41018.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae RC27] gi|262032477|gb|EEY51037.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae CT 5369-93] Length = 321 Score = 255 bits (652), Expect = 7e-66, Method: Composition-based stats. Identities = 105/311 (33%), Positives = 150/311 (48%), Gaps = 11/311 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV VNG + + +DG + + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDDNAVVRIDGHVVSVKAQ 61 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G V ++K+ L +G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGDVTEEKVRNLVRGVQLEDGMARFEDVMYAGGEGINH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK---ILRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFLDKKLPRGGWMELDLKQVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ-KKLA 302 + +E +N+ AP ++ R R I + ++G + +K Sbjct: 242 LVELRPEKETVLNM-APDAATRKRERTRSQKIRRAVRRHEERISATPGRSGKAPACRKPG 300 Query: 303 TPVHRRNLASN 313 RN +N Sbjct: 301 GESSTRNKVAN 311 >gi|70726170|ref|YP_253084.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Staphylococcus haemolyticus JCSC1435] gi|68446894|dbj|BAE04478.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Staphylococcus haemolyticus JCSC1435] Length = 230 Score = 255 bits (652), Expect = 7e-66, Method: Composition-based stats. Identities = 66/232 (28%), Positives = 111/232 (47%), Gaps = 9/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ +R EV+ ++ + +V VN + + ++ T D + V+G + Sbjct: 1 MRLDKFLANMGVGTRTEVKHLLKKGKVTVNTSVEKSPKSHINPTEDIVHVNGKQVEFVNN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G ++ D R TV D +P + VGRLD +TEGLLL+TNDG + Sbjct: 61 -VYIMLNKPKGYISATHDESNR-TVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGQFS 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS + Y V V + ++ KKGI++ Q+T + S+ V Sbjct: 119 HDLMSPSKHVSKTYEVTSKKPVTKVDIDAFKKGIILSDGPVKPAQLTRINETISH----V 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++F +V L R+ L L +G + +S K L+ Sbjct: 175 TIYEGKYHQVKRMFHAIENEVLELKRLKIANLALDENLKSGEYKLLSDKELK 226 >gi|146296790|ref|YP_001180561.1| pseudouridine synthase [Caldicellulosiruptor saccharolyticus DSM 8903] gi|145410366|gb|ABP67370.1| ribosomal small subunit pseudouridine synthase A [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 232 Score = 255 bits (652), Expect = 7e-66, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 118/230 (51%), Gaps = 11/230 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ + +A +G +R EV+R+I + VKVNG + + + D ++V G + + ++ Sbjct: 1 MRLDRFLAHSGFGTRSEVKRLIKKGLVKVNGKQAKSPDLKIDEDKDVVQV-GEEIVELQK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G V ++ DP T+F +P + + +VGRLD + EGLL++TN+G Sbjct: 60 RVYIMMNKPQGYVCSNDDPLS-PTIFSLIPENLKYRNLHTVGRLDKDAEGLLIITNNGEY 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 + P + Y V+ +++++K+ + + G+V+ G + T+ + V Sbjct: 119 THKVISPKKHIEKEYIVKLEKELNREKIKVFEDGVVLDDGYKTLPAKYTIL----DDFTV 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 ++ + EGK +IK++FE KV L R+ G +L L G + + + Sbjct: 175 SLTIYEGKYHQIKRMFESIGNKVVYLKRVRIGRLKLDENLNPGEYKVLDE 224 >gi|260913991|ref|ZP_05920465.1| ribosomal large subunit pseudouridine synthase B [Pasteurella dagmatis ATCC 43325] gi|260632078|gb|EEX50255.1| ribosomal large subunit pseudouridine synthase B [Pasteurella dagmatis ATCC 43325] Length = 358 Score = 255 bits (652), Expect = 7e-66, Method: Composition-based stats. Identities = 105/273 (38%), Positives = 152/273 (55%), Gaps = 10/273 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG 64 + + +++ KV+ARAG SRRE+E MIA+ RV V+G + ++V S + +DG Sbjct: 69 VKKPKVEGEKLQKVLARAGQGSRREIEAMIAENRVSVDGKMATLGDRIDVRSGVKVRIDG 128 Query: 65 VPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + + E R+ +Y+KP G + T DP+GR+TVFD LP SR I+VGRLDINT Sbjct: 129 HIVNLMHAQKEVCRVLMYYKPEGELCTRHDPEGRATVFDRLPRLTGSRWIAVGRLDINTS 188 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T DG LA L PS + R Y VR GQVD LN LKKG+ ++ ++ Sbjct: 189 GLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLNRLKKGVQLEDGPANFKEIKF 248 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE--V 236 G N W V L EG+NRE+++++E +V+RLIR YG L +L G E + Sbjct: 249 AGGVGMNQWFDVTLMEGRNREVRRLWESQGVQVSRLIRTRYGNISLMKSLPRGGWEEMDL 308 Query: 237 SK-KILREQLGPHLLEEAQVNLDAPIYSSETLV 268 + LRE +G E ++++ P ++T Sbjct: 309 TNVNYLRELVGLPPEMETKLDVTKPRRRAKTSQ 341 >gi|217966542|ref|YP_002352048.1| RNA-binding S4 domain protein [Dictyoglomus turgidum DSM 6724] gi|217335641|gb|ACK41434.1| RNA-binding S4 domain protein [Dictyoglomus turgidum DSM 6724] Length = 243 Score = 255 bits (652), Expect = 7e-66, Method: Composition-based stats. Identities = 67/235 (28%), Positives = 113/235 (48%), Gaps = 9/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K + G SR+EV+++I V VN +E + ++ D +E++G + E Sbjct: 1 MRLDKFLVNQGFGSRKEVQKLIKAGIVYVNNFPVEDPSFHINPEKDVVEIEGQEIEYKEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G +T D + TV D I S++ VGRLD++TEGLL++T+DG L Sbjct: 61 -YYFMLNKPKGYITATYD-ENYPTVMDLFASEPIVSKLFPVGRLDVDTEGLLIITSDGVL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQ-DKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNA 187 A L P + Y V G + D K+G+ ++ Y +V + + Sbjct: 119 AHRLSHPKWNVEKEYFVIVEGDISDIDFSKYEKEGMYLKKEKYKTKPFKVKVLKTSFEES 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + + EGK +KK+ +V L R+ GP L L G RE++K+ + Sbjct: 179 ELLITITEGKYHIVKKIMYAVGHEVKYLKRVRIGPLILDEDLEVGEYRELTKEEI 233 >gi|322377564|ref|ZP_08052054.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. M334] gi|321281329|gb|EFX58339.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. M334] Length = 240 Score = 255 bits (652), Expect = 8e-66, Method: Composition-based stats. Identities = 71/235 (30%), Positives = 112/235 (47%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEERDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPQGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A L P + Y + G + Q+ + KGI ++ + L + + + Sbjct: 119 AHALLSPKRHVDKTYLAQVKGIMTQEDVETFAKGISLKDFTCQPAILELVSIDPEKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V + EGK ++K++ + +V L R++ G L +L G R ++K+ L Sbjct: 179 IRVTIAEGKFHQVKRMVTYCGKEVVDLQRLTMGTLVLDESLQRGEWRRLTKEELE 233 >gi|319790166|ref|YP_004151799.1| pseudouridine synthase [Thermovibrio ammonificans HB-1] gi|317114668|gb|ADU97158.1| pseudouridine synthase [Thermovibrio ammonificans HB-1] Length = 251 Score = 255 bits (652), Expect = 8e-66, Method: Composition-based stats. Identities = 83/251 (33%), Positives = 134/251 (53%), Gaps = 10/251 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R++K +A AG +RR+VE +I Q RV+VNG +++ AV V D ++VDG +R + Sbjct: 1 MRLNKFLAYAGFGARRKVEELIKQGRVEVNGQVVDSPAVEVDPKKDVVKVDGERVRLPNK 60 Query: 73 TRLWLYHKPIGLVTTHS--DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++KP G++T D R V D + R+ VGRLD NTEGLL++TNDG L Sbjct: 61 FVYIAFNKPQGVLTAMERAPGDKRPIVADYFRNYPVRLFPVGRLDYNTEGLLIMTNDGEL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-----YGDMQVTLD--TQK 183 A L P + Y + G+V ++ +KKG ++ + V L ++ Sbjct: 121 ADRLAHPRYHVPKTYIAKVKGRVKPAEIERMKKGALLVDDKGKKFFIKPLDVKLLHPSKT 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 G N +V + + +GKNR +++ F+ F+ V +L R++ GP +LG L G RE++ + ++ Sbjct: 181 GRNTYVQITIDQGKNRVVRRFFDRFDHGVLKLKRVAIGPVKLGDLPKGYYRELTPEEVKR 240 Query: 244 QLGPHLLEEAQ 254 LEE Sbjct: 241 LKKAAGLEEEG 251 >gi|160915077|ref|ZP_02077290.1| hypothetical protein EUBDOL_01085 [Eubacterium dolichum DSM 3991] gi|158432876|gb|EDP11165.1| hypothetical protein EUBDOL_01085 [Eubacterium dolichum DSM 3991] Length = 230 Score = 255 bits (652), Expect = 8e-66, Method: Composition-based stats. Identities = 69/232 (29%), Positives = 114/232 (49%), Gaps = 9/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A A + +R+EV+++I +RV+VN + + + D + VD L E Sbjct: 1 MRLDKYLAHAQLGTRKEVKKLIRSKRVRVNDEICTKEDRQLQKEDCVYVDDELLVYDE-L 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G+++ D +TV D + + VGRLDI++EGLLL+TNDG LA Sbjct: 60 VYLMLYKPQGVISATED-RVHTTVMDIFDAPLPKNCFPVGRLDIDSEGLLLITNDGQLAH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V + + L LL+ G I + Q + + + Sbjct: 119 QLLSPKKHVDKTYYVECEKTLSSEDLQLLESGTIQLDKEHVLPAQAKRISANS----LYL 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 ++EGK ++K++ + KV L RIS G QL +L G R +S++ +R Sbjct: 175 TIQEGKFHQVKRMLQACGNKVCYLKRISMGSLQLDKSLAPGEWRYLSEEEIR 226 >gi|229011635|ref|ZP_04168818.1| Pseudouridine synthase [Bacillus mycoides DSM 2048] gi|228749593|gb|EEL99435.1| Pseudouridine synthase [Bacillus mycoides DSM 2048] Length = 235 Score = 255 bits (652), Expect = 8e-66, Method: Composition-based stats. Identities = 63/232 (27%), Positives = 112/232 (48%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ AG ASRR +++I +++V +NG + + V D + V+G LR A Sbjct: 1 MRINKFISEAGKASRRGADKLINERKVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RINHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + L + G+ I +VT + S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPEFLEKMAAGVKILDTKTLPCEVT----QLSKYEFQIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +G NR+I+++ E ++V L R +L L G R++SKK + Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKEKKRLF 225 >gi|51473726|ref|YP_067483.1| pseudouridine synthase [Rickettsia typhi str. Wilmington] gi|81390049|sp|Q68WJ1|Y532_RICTY RecName: Full=Uncharacterized RNA pseudouridine synthase RT0532; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|51460038|gb|AAU04001.1| Pseudouridine synthase [Rickettsia typhi str. Wilmington] Length = 242 Score = 255 bits (652), Expect = 8e-66, Method: Composition-based stats. Identities = 107/235 (45%), Positives = 152/235 (64%), Gaps = 2/235 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+I+ AG+ SRR E++I +VK++GI + A NV ++ IEV G + ++ R Sbjct: 3 RLAKIISNAGVCSRRNAEKLIVGGKVKIDGITILSPATNVDISNQIEVSGRLINNIQKPR 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW+Y+KPIGL+TTH DP R TVF+ L RVIS+GRLD+N+EGLLLLTN G LA Sbjct: 63 LWIYYKPIGLITTHKDPLSRKTVFEQLIG-LPRVISIGRLDLNSEGLLLLTNSGDLAHQF 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 E+PS++ RVY VR +G + L + I GI Y + L Q +N+W V L Sbjct: 122 EMPSSKLKRVYNVRAYGNAN-FLLKNNYNNLKIDGIFYNPYSIKLLRQNKNNSWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 EGKNREI+++FE+F KVN+LIR+ YG ++G L G +E+S KIL++ + L Sbjct: 181 EGKNREIRRIFEYFGLKVNKLIRVQYGALKIGNLKPGDYKEISNKILKKIISNKL 235 >gi|149001603|ref|ZP_01826576.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP14-BS69] gi|237649412|ref|ZP_04523664.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae CCRI 1974] gi|237821288|ref|ZP_04597133.1| ribosomal small subunit pseudouridine synthase A, putative [Streptococcus pneumoniae CCRI 1974M2] gi|147760061|gb|EDK67050.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP14-BS69] Length = 240 Score = 255 bits (652), Expect = 8e-66, Method: Composition-based stats. Identities = 71/235 (30%), Positives = 112/235 (47%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L V VGRLDI+T GLLLL NDG L Sbjct: 60 FVYYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLANDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAW 188 A VL P + Y + G + Q+ + +GI ++ + L + + + + Sbjct: 119 AHVLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPAILELVSIDTEKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >gi|254495132|ref|ZP_05108056.1| pseudouridylate synthase [Polaribacter sp. MED152] gi|85819482|gb|EAQ40639.1| pseudouridylate synthase [Polaribacter sp. MED152] Length = 282 Score = 255 bits (652), Expect = 8e-66, Method: Composition-based stats. Identities = 74/232 (31%), Positives = 115/232 (49%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA +G+ SRRE + I VKVNG L+ V D ++ DG + E+ Sbjct: 49 IRLNKYIANSGVCSRREADTYIEHGSVKVNGKLVTEMGYKVQPDDVVQFDGTSIT-PEQK 107 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 R L +KP +TT D GR TV D + + R+ VGRLD NT GLLL TNDG LA+ Sbjct: 108 RYILLNKPKNYITTMDDDRGRKTVMDLVSNASKERIYPVGRLDRNTTGLLLFTNDGDLAK 167 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P ++Y ++D L L+ ++I+G V+ + + + Sbjct: 168 KLTHPKHNVRKLYHASLDRKLDLKDLEKLRGEVIIEGRKVFIDAVSYVDGQ-PKTEIGIE 226 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + G+NR ++K+FE +KVN+L R+ + L G R ++ + + Sbjct: 227 IHSGRNRIVRKIFEHVGYKVNKLDRVIFAELTKKNLPRGRWRALTNQEVSNL 278 >gi|313636574|gb|EFS02285.1| ribosomal small subunit pseudouridine synthase A [Listeria seeligeri FSL S4-171] Length = 233 Score = 255 bits (652), Expect = 8e-66, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 109/233 (46%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K+++ G SRREV+ ++ V VNG++ + + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRREVKPLLKSGSVVVNGVIQKDSKLQVNPEKDQITVHGNPVIYQE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG L Sbjct: 60 FVYFMLHKPQNVVSATED-NLSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y + G V + + GI + G + + + Sbjct: 119 AHNLLSPKKHIDKTYYAKIEGDVTATDVEAFRTGITLDDGYTCKPAHLEIMAPN----EI 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V ++EGK ++K++F V L R+S G L +L G R +++ L Sbjct: 175 RVTIQEGKFHQVKRMFAATGKTVTYLKRLSMGKLMLDESLGLGEYRSLTEDEL 227 >gi|116873710|ref|YP_850491.1| ribosomal small subunit pseudouridine synthase A [Listeria welshimeri serovar 6b str. SLCC5334] gi|116742588|emb|CAK21712.1| ribosomal small subunit pseudouridine synthase A [Listeria welshimeri serovar 6b str. SLCC5334] Length = 233 Score = 255 bits (652), Expect = 8e-66, Method: Composition-based stats. Identities = 70/233 (30%), Positives = 115/233 (49%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKMQVNPDKDEITVHGTPVVYQE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG L Sbjct: 60 FVYFMLHKPQNVVSATED-NVSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y + G+V + + +GIV+ G ++ + + + Sbjct: 119 AHNLLSPKKHIDKTYYAKIDGEVLLEDVKAFAEGIVLDDGYICKPARLEI----INPNEI 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V ++EGK ++K++F V+ L RIS G QL +L G R +++ L Sbjct: 175 KVTIQEGKFHQVKRMFAARGKTVSYLKRISMGQLQLDESLELGEYRPLTETEL 227 >gi|240173130|ref|ZP_04751788.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium kansasii ATCC 12478] Length = 250 Score = 255 bits (652), Expect = 8e-66, Method: Composition-based stats. Identities = 78/236 (33%), Positives = 113/236 (47%), Gaps = 6/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ KV+++AGIASRR E+MI RV+V+G L+ V I VDG + E Sbjct: 10 IRLQKVLSQAGIASRRAAEKMIIDGRVEVDGKLVTELGTRVDPDVSVIRVDGARVVLDES 69 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTNDGG 129 +KP G+ +T +D GR + D + + VGRLD +TEGL+LLTNDG Sbjct: 70 LVYLALNKPRGMHSTMADDRGRPCIGDLIERKVRGNKNLFHVGRLDADTEGLILLTNDGE 129 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG-DMQVTLDTQKGSNAW 188 LA L PS + + Y G V + L+ GI + D +D G Sbjct: 130 LAHRLMHPSHEVPKTYLATVAGTVPRGLGKKLRTGIELDDGLARVDGFAVVDAIPGKT-L 188 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L EG+NR ++++ + V L+R GP LG GS R + + + + Sbjct: 189 VRVTLHEGRNRIVRRLLAAAGFPVEALVRTDIGPVTLGKQRPGSVRALGRDEIGQL 244 >gi|156974936|ref|YP_001445843.1| ribosomal small subunit pseudouridine synthase A [Vibrio harveyi ATCC BAA-1116] gi|156526530|gb|ABU71616.1| hypothetical protein VIBHAR_02655 [Vibrio harveyi ATCC BAA-1116] Length = 233 Score = 255 bits (652), Expect = 8e-66, Method: Composition-based stats. Identities = 55/231 (23%), Positives = 101/231 (43%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A+R++ ++I + V+G + + A V +E +G + A Sbjct: 1 MRLDKYLCDGLGATRKQATKIIKSGEITVDGEVQKSGAFKVPEGGVVEWEGREV-GAPGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 R + +KP V +H D T F L + GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLYKPADFVCSHED-GHNPTAFVLLDEPKVENLHFAGRLDVDTTGLVLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D + +GI ++ + L+ + V + Sbjct: 119 RITSPKHKCEKTYRVWLVDAIQPDYVEKFAEGIELRNEREPTLPAHLEIVNEAENEVLLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EGK ++K++F KV L R G L L G R ++++ + Sbjct: 179 IVEGKYHQVKRMFAALGNKVEHLHRERIGSIVLDEALEPGDYRFLTEEEVE 229 >gi|42781479|ref|NP_978726.1| RNA pseudouridylate synthase family protein [Bacillus cereus ATCC 10987] gi|42737401|gb|AAS41334.1| RNA pseudouridylate synthase family protein [Bacillus cereus ATCC 10987] Length = 238 Score = 255 bits (652), Expect = 8e-66, Method: Composition-based stats. Identities = 65/232 (28%), Positives = 112/232 (48%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR ++ I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKXINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKSVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKRRLFA 229 >gi|170696462|ref|ZP_02887588.1| pseudouridine synthase [Burkholderia graminis C4D1M] gi|170138615|gb|EDT06817.1| pseudouridine synthase [Burkholderia graminis C4D1M] Length = 639 Score = 255 bits (652), Expect = 9e-66, Method: Composition-based stats. Identities = 92/285 (32%), Positives = 145/285 (50%), Gaps = 10/285 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRR++E +I RV VNG +M TD + ++ Sbjct: 213 KRVLSADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRIN 271 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTE 119 G P+++ + R+ LYHKP G + +H+DP+GR +VFD LP + ++ ++VGRLD NTE Sbjct: 272 GKPVKRKLANKPPRVLLYHKPTGEIVSHADPEGRPSVFDKLPPMKTAKWLAVGRLDFNTE 331 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LT G LA P R Y VR G++ + L G+ + +++ Sbjct: 332 GLLMLTTSGDLANRFMHPRYSVEREYAVRVVGELAEGMRQKLLNGVELDDGPANFLRIRD 391 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 392 GGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPISLPKGLKRGRWEELED 451 Query: 239 KILREQLG----PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVP 279 +R + EE AP ++ I+ P Sbjct: 452 NQVRALMASVGLKAPSEERGGRNAAPERKQPDPMQTSMGFINREP 496 >gi|153829628|ref|ZP_01982295.1| pseudouridine synthase family 1 protein [Vibrio cholerae 623-39] gi|148874904|gb|EDL73039.1| pseudouridine synthase family 1 protein [Vibrio cholerae 623-39] Length = 321 Score = 255 bits (652), Expect = 9e-66, Method: Composition-based stats. Identities = 105/311 (33%), Positives = 150/311 (48%), Gaps = 11/311 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV VNG + + +DG + + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDDNAVVRIDGHVVSVKAQ 61 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G V ++K+ L +G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGDVTEEKVRNLVRGVQLEDGMARFEDVMYAGGEGINH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK---ILRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFLDKKLPRGGWMELDLKQVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL-SKQKKLA 302 + +E +N+ AP ++ R R I + ++G ++K Sbjct: 242 LVELRPEKETVLNM-APDAATRKRERTRSQKIRRAVRRHEERISATPGRSGKAPARRKPG 300 Query: 303 TPVHRRNLASN 313 RN +N Sbjct: 301 GEPSTRNKVAN 311 >gi|167766754|ref|ZP_02438807.1| hypothetical protein CLOSS21_01260 [Clostridium sp. SS2/1] gi|167711508|gb|EDS22087.1| hypothetical protein CLOSS21_01260 [Clostridium sp. SS2/1] Length = 249 Score = 255 bits (651), Expect = 9e-66, Method: Composition-based stats. Identities = 61/241 (25%), Positives = 123/241 (51%), Gaps = 5/241 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + ++ R++K +++AGI SRR+ + + + RV+V+G + V+ + D Sbjct: 7 QETKRKTEDAVRINKYLSQAGICSRRQADTYVEEGRVEVDGEVAVS-GTKVLPGQSVTFD 65 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G P++ E +HKP G+V T S + + + D + + +R+ VGRLD +++GL+L Sbjct: 66 GKPVKIQEDLIFLAFHKPRGIVCTASKEE-KDNIIDYI-NYPTRIYPVGRLDKDSQGLIL 123 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG A + + Y V + ++ + ++ ++ + + I + + + Sbjct: 124 LTNDGEAANQIMKARNYHEKEYEVTVNKRITNEFIHDMRNPVPLDEINAVTRRCKVIKEG 183 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + L +G NR+I+++ E F ++V +L R+ +LG L G R+++ LRE Sbjct: 184 PNE--FRIILTQGLNRQIRRMCEHFGYRVTKLKRVRVMNIKLGDLKEGRYRKLTPDELRE 241 Query: 244 Q 244 Sbjct: 242 L 242 >gi|322833321|ref|YP_004213348.1| pseudouridine synthase [Rahnella sp. Y9602] gi|321168522|gb|ADW74221.1| pseudouridine synthase [Rahnella sp. Y9602] Length = 439 Score = 255 bits (651), Expect = 9e-66, Method: Composition-based stats. Identities = 106/299 (35%), Positives = 148/299 (49%), Gaps = 17/299 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKA 70 +++ KV+ARAG SRREVE MI RV V+G + V V I +DG L Sbjct: 149 QSEKLQKVLARAGHGSRREVEAMIQAGRVSVDGKISTLGDRVEVTGGTKIRLDGHVLSVM 208 Query: 71 ERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLT 125 E R+ Y+KP G + T +DP+GR TVFD LP + SR I+VGRLD+NT GLLL T Sbjct: 209 ESQDTVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKMRGSRWIAVGRLDVNTSGLLLFT 268 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQVD +K+ L +G+ ++ + +G Sbjct: 269 TDGELANRLMHPSREVEREYAVRVFGQVDDEKIKQLSRGVQLEDGPAAFRSIKFQGGEGL 328 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W V L EG+NRE+++++E +V+RLIR+ YG L L G +E+ Sbjct: 329 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDLNLPKGLPRGGYKELD------- 381 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 L V++ S + RDR + + R K +Q + A Sbjct: 382 LPDINYLRTLVDMTEETVSKLPVERDRRRVKAN---QIRRAVKRHTQVAPTRRTTGPAK 437 >gi|315645600|ref|ZP_07898724.1| RNA pseudouridine synthase family protein [Paenibacillus vortex V453] gi|315279078|gb|EFU42388.1| RNA pseudouridine synthase family protein [Paenibacillus vortex V453] Length = 230 Score = 255 bits (651), Expect = 9e-66, Method: Composition-based stats. Identities = 65/234 (27%), Positives = 115/234 (49%), Gaps = 10/234 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-R 72 R++K I++ G SRRE R+IA R+ +NG + E+ A V D + +DG + + Sbjct: 1 MRINKYISQTGFCSRRETNRLIASGRITINGKVCEKGA-EVEPEDIVLIDGQEIPHNDSE 59 Query: 73 TRLWLYHKPIGLVTTHSDP-DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP+G+V T ++ +G + N P SR+ ++GRLD +EGL+LLTNDG + Sbjct: 60 PVYLALNKPMGIVCTAAEEVEGNIIRYVNYP---SRIFAIGRLDKASEGLILLTNDGDIV 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V V + + + +G+ I + +V + S A + Sbjct: 117 NKMMRSEHDHEKEYVVTVDRPVTDEFMRRMSQGVEILDVVTKPCEVF----RQSEAVFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L +G N +I+++ + ++V +L RI L L G R + ++ L + L Sbjct: 173 ILTQGLNLQIRRMCKALGYRVLKLERIRIMNITLDQLERGKWRHLEERELHKLL 226 >gi|16273162|ref|NP_439399.1| 16S pseudouridylate 516 synthase [Haemophilus influenzae Rd KW20] gi|260581161|ref|ZP_05848981.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae RdAW] gi|1175857|sp|P45124|RSUA_HAEIN RecName: Full=Ribosomal small subunit pseudouridine synthase A; AltName: Full=16S pseudouridine 516 synthase; AltName: Full=16S pseudouridylate 516 synthase; AltName: Full=rRNA pseudouridylate synthase A; AltName: Full=rRNA-uridine isomerase A gi|1574175|gb|AAC22895.1| 16s pseudouridylate 516 synthase (rsuA) [Haemophilus influenzae Rd KW20] gi|260092189|gb|EEW76132.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae RdAW] Length = 232 Score = 255 bits (651), Expect = 9e-66, Method: Composition-based stats. Identities = 59/234 (25%), Positives = 110/234 (47%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E Sbjct: 1 MRLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWIEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ +KP G V ++ D D T++ + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLNKPQGCVCSNDDGDY-PTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+++ +GI+++G L+ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEENYSAACAEGILLRGEKEPTKPAKLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 + EG+ ++K++F KV L R G L +L G R +++ + + + Sbjct: 178 ISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLV 231 >gi|134101741|ref|YP_001107402.1| pseudouridylate synthase ribosomal large subunit [Saccharopolyspora erythraea NRRL 2338] gi|291003087|ref|ZP_06561060.1| pseudouridylate synthase ribosomal large subunit [Saccharopolyspora erythraea NRRL 2338] gi|133914364|emb|CAM04477.1| pseudouridylate synthase ribosomal large subunit [Saccharopolyspora erythraea NRRL 2338] Length = 253 Score = 255 bits (651), Expect = 9e-66, Method: Composition-based stats. Identities = 78/247 (31%), Positives = 123/247 (49%), Gaps = 3/247 (1%) Query: 1 MKDKNIVQENFTPQ--RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-T 57 M + + + + R+ KV+++AG+ASRR E+MI + RV+VNG ++ V T Sbjct: 1 MSEHRSPTNSPSAEGVRLQKVLSQAGVASRRAAEQMIVEGRVEVNGEIVLELGTRVDPDT 60 Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 I VDG + L +KP G++ T SD GR + D L R+ VGRLD++ Sbjct: 61 AVIHVDGNRIMVNADLTHLLLNKPKGILCTMSDDQGRPCIGDYLRERQGRLYHVGRLDVD 120 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 +EGLLL+TNDG LA L PS + L+ Y G + ++ L+ GI ++ Sbjct: 121 SEGLLLITNDGELAHRLMHPSYRILKTYLAEVPGPIPKNLGRELRNGIELEDGPVKVDSF 180 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L A V V L EG+ ++++ + V RL+R + G +L T G+ R + Sbjct: 181 KLVDVNEGRALVEVVLHEGRKHVVRRLLKQVGHPVLRLVRTAVGDVRLTTERQGAIRPLD 240 Query: 238 KKILREQ 244 +K + Sbjct: 241 RKEISSL 247 >gi|226327594|ref|ZP_03803112.1| hypothetical protein PROPEN_01465 [Proteus penneri ATCC 35198] gi|225204120|gb|EEG86474.1| hypothetical protein PROPEN_01465 [Proteus penneri ATCC 35198] Length = 303 Score = 255 bits (651), Expect = 9e-66, Method: Composition-based stats. Identities = 67/292 (22%), Positives = 131/292 (44%), Gaps = 10/292 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE--R 72 R++K I+ +GI SRRE +R I Q V +NG V + D ++V+G + + Sbjct: 18 RLNKYISESGICSRREADRYIEQGLVLINGKRA-SIGDQVFAGDEVKVNGRLIEAQDNSE 76 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G+V+T D + + V + + +R+ +GRLD +++GL+ LTN G L Sbjct: 77 LVLIALNKPVGIVSTTDDGEKDNIV--DYVNHSTRIFPIGRLDKDSQGLIFLTNHGDLVN 134 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + + + ++ + G+ I G +K + + Sbjct: 135 KILRAGNDHEKEYLVTVNKPITDEFIHGMGAGVPIMGQKTK----KCKVKKEAPMVFRIT 190 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E+F ++V +L R+ L L G R+++ L + Sbjct: 191 LVQGLNRQIRRMCEYFGYEVTKLERVRIMNVSLSGLPVGEWRDLTDDELIKLFDAIEKST 250 Query: 253 AQVNLDAPIYSSETLVRDRPNIIS-EVPDDFTRMKKNSSQKNGLSKQKKLAT 303 ++ A + + + +P T+ +N+S+K +K Sbjct: 251 SEAPPKAKQNKPKKQISSNAKALGIHIPQTKTKETENNSRKRFAQPGRKKKK 302 >gi|153004984|ref|YP_001379309.1| pseudouridine synthase [Anaeromyxobacter sp. Fw109-5] gi|152028557|gb|ABS26325.1| pseudouridine synthase [Anaeromyxobacter sp. Fw109-5] Length = 354 Score = 255 bits (651), Expect = 9e-66, Method: Composition-based stats. Identities = 81/305 (26%), Positives = 123/305 (40%), Gaps = 1/305 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K +A AG+ASRR+ E +I RVKVN + V D + VDG + ++E Sbjct: 13 RLQKYLAEAGVASRRKAEELILAGRVKVNARAVTVLGSKVDPARDLVTVDGRLVSRSETR 72 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G VTT SDP+GR T + L + RV SVGRLD + EG +L T+DG LA Sbjct: 73 SYYLLYKPPGCVTTASDPEGRPTALEYLRGVKERVFSVGRLDFDAEGAVLFTDDGELANR 132 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P R Y V+ G+ L L G+ ++ ++ + N W+ V + Sbjct: 133 LAHPRYGHRRTYLVKVRGEPPPAALERLVAGVRLEDGPARALEAVPHERAERNVWIRVVV 192 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 EG+ +K++ E +V RL R +G + L G R ++ +R L Sbjct: 193 GEGRFHLVKRLCEAVGLQVQRLYRPEFGGITVEGLRPGQFRPLAPVEVRALKTAVGLAGG 252 Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASN 313 + R + K+ R + Sbjct: 253 APAVAPRELPRAARRHGHGPPAPPELAPARREGERGEPGRREGKELPPRGEPRVRGRGED 312 Query: 314 VWMAK 318 Sbjct: 313 AGRGP 317 >gi|40062484|gb|AAR37436.1| RNA pseudouridylate synthase, putative [uncultured marine bacterium 105] Length = 255 Score = 255 bits (651), Expect = 9e-66, Method: Composition-based stats. Identities = 85/236 (36%), Positives = 122/236 (51%), Gaps = 5/236 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ KV+A AGI+SRR ER+I RV VNG + + D I VDG ++ Sbjct: 7 RLQKVLASAGISSRRAAERLIEVGRVTVNGRSVTKLGAKADPDLDDIRVDGRKVKTGRPR 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L KP G VTT DP+GR T+ + + ++ V VGRLD ++EGL++LTNDG LA Sbjct: 67 IYLLVCKPRGYVTTRFDPEGRRTILNLISNVREYVYPVGRLDYDSEGLVILTNDGTLAAR 126 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT----LDTQKGSNAWV 189 L P RVY VR G Q ++ L+ G++I G V L + NA + Sbjct: 127 LTHPRYGVERVYEVRVRGVPSQAAIDSLRHGVLINGRRTASSSVKFLRRLKAKSSENALL 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 V +REG+NR+++K+ E V RL R GP + +L G R ++ + + Sbjct: 187 RVAIREGRNRQVRKMCEAIGHPVIRLRRTQIGPLRDSSLKVGKHRLLTTSEVAALM 242 >gi|295100099|emb|CBK89188.1| ribosomal small subunit pseudouridine synthase A [Eubacterium cylindroides T2-87] Length = 230 Score = 255 bits (651), Expect = 9e-66, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 109/229 (47%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++ G +R +V+ +I V + G +++A V + VD P+ + Sbjct: 1 MRLDKFLSHMGYGTRNKVKNIIKNGWVTIEGKTIKKADHQVKEDQIVYVDDTPVSYIQ-Y 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V+ D + T+ + +PSI + VGRLDI+TEGLLL+ NDG L Sbjct: 60 EYYILNKPSGYVSATED-NVHPTIMELIPSIRKDLYPVGRLDIDTEGLLLVCNDGQLTHD 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y V F G + ++ + + + + + + + + + Sbjct: 119 LLSPKKHVQKKYYVEFEGTLPENAVEIFNQPMDLDDFIAKPSTLEIL----DTNKAYLTI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EGK ++K++F+ +V L R+S+GP +L L G R +S + Sbjct: 175 SEGKFHQVKRMFQKIGCEVTYLQRVSFGPLELKNLEIGQARALSPDEIE 223 >gi|254481782|ref|ZP_05095025.1| conserved hypothetical protein, putative [marine gamma proteobacterium HTCC2148] gi|214037911|gb|EEB78575.1| conserved hypothetical protein, putative [marine gamma proteobacterium HTCC2148] Length = 298 Score = 255 bits (651), Expect = 9e-66, Method: Composition-based stats. Identities = 97/299 (32%), Positives = 149/299 (49%), Gaps = 17/299 (5%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + ++ +++ KV+AR G+ SRRE+ER I Q RV ++G V + I VDG Sbjct: 12 DAPAKSLPGEKLQKVLARTGLGSRREMERWIEQGRVSIDGKPAT-LGDRVTHRERISVDG 70 Query: 65 VPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGL 121 P+ A+ TR LYHKP G V + DP GR TVF+ LP + S R IS+GRLD NT GL Sbjct: 71 RPVNTTPAQETRCILYHKPTGEVCSRKDPQGRRTVFERLPKLKSGRWISIGRLDYNTSGL 130 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS+ R Y VR G+ +D L L G++++ + Sbjct: 131 LLFTTDGDLANKLMHPSSNIEREYMVRVMGEWKEDMLQRLLDGVMLEDGVARFSDIQDGG 190 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI 240 G N W V + EG+NRE+++++E V+RL R+ YG + + + G E++ K Sbjct: 191 GDGINHWFYVVIMEGRNREVRRLWESQGLTVSRLKRVRYGEVFIPSKVKQGQWVELAGKE 250 Query: 241 LREQLGPHLLEEAQVNLDAPIYS-SETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 ++ D P+ +++R + + + SS ++G + Sbjct: 251 IKSLY---------RMADLPLKDMKRGTIKEREKMERQF--SKRKGPGGSSARSGRKPR 298 >gi|15641192|ref|NP_230824.1| pseudouridine synthase family 1 protein [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121587810|ref|ZP_01677569.1| pseudouridine synthase family 1 protein [Vibrio cholerae 2740-80] gi|121728227|ref|ZP_01681260.1| pseudouridine synthase family 1 protein [Vibrio cholerae V52] gi|153215349|ref|ZP_01949962.1| pseudouridine synthase family 1 protein [Vibrio cholerae 1587] gi|153819079|ref|ZP_01971746.1| pseudouridine synthase family 1 protein [Vibrio cholerae NCTC 8457] gi|153823509|ref|ZP_01976176.1| pseudouridine synthase family 1 protein [Vibrio cholerae B33] gi|153826657|ref|ZP_01979324.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-2] gi|183179584|ref|ZP_02957795.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-3] gi|227081351|ref|YP_002809902.1| pseudouridine synthase family 1 protein [Vibrio cholerae M66-2] gi|229505227|ref|ZP_04394737.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae BX 330286] gi|229511103|ref|ZP_04400582.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae B33] gi|229515560|ref|ZP_04405019.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae TMA 21] gi|229518222|ref|ZP_04407666.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae RC9] gi|229520392|ref|ZP_04409817.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae TM 11079-80] gi|229529733|ref|ZP_04419123.1| LSU pseudouridine synthase B [Vibrio cholerae 12129(1)] gi|229608246|ref|YP_002878894.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae MJ-1236] gi|254226705|ref|ZP_04920282.1| pseudouridine synthase family 1 protein [Vibrio cholerae V51] gi|254291998|ref|ZP_04962777.1| pseudouridine synthase family 1 protein [Vibrio cholerae AM-19226] gi|254848305|ref|ZP_05237655.1| pseudouridine synthase family 1 protein [Vibrio cholerae MO10] gi|255745589|ref|ZP_05419537.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholera CIRS 101] gi|262158338|ref|ZP_06029454.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae INDRE 91/1] gi|297578779|ref|ZP_06940707.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae RC385] gi|298498719|ref|ZP_07008526.1| pseudouridine synthase family 1 protein [Vibrio cholerae MAK 757] gi|34098735|sp|Q9KSS7|RLUB_VIBCH RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|9655656|gb|AAF94338.1| pseudouridine synthase family 1 protein [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121547974|gb|EAX58055.1| pseudouridine synthase family 1 protein [Vibrio cholerae 2740-80] gi|121629478|gb|EAX61904.1| pseudouridine synthase family 1 protein [Vibrio cholerae V52] gi|124114792|gb|EAY33612.1| pseudouridine synthase family 1 protein [Vibrio cholerae 1587] gi|125620766|gb|EAZ49123.1| pseudouridine synthase family 1 protein [Vibrio cholerae V51] gi|126510362|gb|EAZ72956.1| pseudouridine synthase family 1 protein [Vibrio cholerae NCTC 8457] gi|126518977|gb|EAZ76200.1| pseudouridine synthase family 1 protein [Vibrio cholerae B33] gi|149739519|gb|EDM53747.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-2] gi|150422075|gb|EDN14043.1| pseudouridine synthase family 1 protein [Vibrio cholerae AM-19226] gi|183012995|gb|EDT88295.1| pseudouridine synthase family 1 protein [Vibrio cholerae MZO-3] gi|227009239|gb|ACP05451.1| pseudouridine synthase family 1 protein [Vibrio cholerae M66-2] gi|229333507|gb|EEN98993.1| LSU pseudouridine synthase B [Vibrio cholerae 12129(1)] gi|229342490|gb|EEO07483.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae TM 11079-80] gi|229344937|gb|EEO09911.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae RC9] gi|229347329|gb|EEO12289.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae TMA 21] gi|229351068|gb|EEO16009.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae B33] gi|229357450|gb|EEO22367.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae BX 330286] gi|229370901|gb|ACQ61324.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae MJ-1236] gi|254844010|gb|EET22424.1| pseudouridine synthase family 1 protein [Vibrio cholerae MO10] gi|255736664|gb|EET92061.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholera CIRS 101] gi|262029779|gb|EEY48427.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae INDRE 91/1] gi|297536373|gb|EFH75206.1| ribosomal large subunit pseudouridine synthase B [Vibrio cholerae RC385] gi|297543052|gb|EFH79102.1| pseudouridine synthase family 1 protein [Vibrio cholerae MAK 757] gi|327483880|gb|AEA78287.1| Ribosomal large subunit pseudouridine synthase B LSU Psi2605 [Vibrio cholerae LMA3894-4] Length = 321 Score = 255 bits (651), Expect = 9e-66, Method: Composition-based stats. Identities = 105/311 (33%), Positives = 150/311 (48%), Gaps = 11/311 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV VNG + + +DG + + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDDNAVVRIDGHVVSVKAQ 61 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G V ++K+ L +G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGDVTEEKVRNLVRGVQLEDGMARFEDVMYAGGEGINH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK---ILRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFLDKKLPRGGWMELDLKQVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL-SKQKKLA 302 + +E +N+ AP ++ R R I + ++G ++K Sbjct: 242 LVELRPEKETVLNM-APDAATRKRERTRSQKIRRAVRRHEERISATPGRSGKAPARRKPG 300 Query: 303 TPVHRRNLASN 313 RN +N Sbjct: 301 GESSTRNKVAN 311 >gi|238917131|ref|YP_002930648.1| ribosomal large subunit pseudouridine synthase F [Eubacterium eligens ATCC 27750] gi|238872491|gb|ACR72201.1| ribosomal large subunit pseudouridine synthase F [Eubacterium eligens ATCC 27750] Length = 244 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 65/230 (28%), Positives = 116/230 (50%), Gaps = 5/230 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RKAE 71 +R++K ++ GI SRRE +RMI + R+ ++G + V I VDG + Sbjct: 10 SERINKYLSAHGICSRREADRMIQEGRITIDGRIAA-MGEMVDDNTIICVDGRKVDNSTP 68 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + ++KP+G+V T +D G++ + D + R+ VGRLD ++GL+LLTNDG + Sbjct: 69 PQVVIAFNKPVGIVCTTTDKQGKNNIVDFI-GYKERIYPVGRLDKESDGLILLTNDGDMM 127 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L + Y V + +++D + + GI ++ + + ++ K S+ + Sbjct: 128 DRLLRSVNGHEKEYIVSVNKPINKDFIKRMSGGIYLKELDRTTRKCVVE--KISDRTFRI 185 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L +G NR+I+++ + V +L RI +LG L G RE+ K L Sbjct: 186 ILTQGLNRQIRRMCAECGYSVTKLTRIRIMNVELGDLKTGEYRELDGKEL 235 >gi|301169983|emb|CBW29587.1| 16S rRNA pseudouridylate 516 synthase [Haemophilus influenzae 10810] Length = 232 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 60/234 (25%), Positives = 110/234 (47%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E Sbjct: 1 MRLDKFIAENVGLTRSQATKAIHQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ HKP G V ++ D D T++ + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDY-PTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+++ +GI+++G L+ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 + EG+ ++K++F KV L R G L +L G R +++ + + + Sbjct: 178 ISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRSLTQSEIEKLV 231 >gi|227833146|ref|YP_002834853.1| putative pseudouridylate synthase [Corynebacterium aurimucosum ATCC 700975] gi|227454162|gb|ACP32915.1| putative pseudouridylate synthase [Corynebacterium aurimucosum ATCC 700975] Length = 305 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 81/245 (33%), Positives = 127/245 (51%), Gaps = 4/245 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 ++ KN +R+ KV+A+AG+ASRR E +I + RV+VNG ++ + V D Sbjct: 52 VEGKNKKNSQNQGERLQKVLAKAGVASRRHAEILIDEGRVEVNGQVIIKQGTRVDPNKDV 111 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDI 116 I VDG + E T+ ++ +KP G+ +T SD GR V D + R+ VGRLD Sbjct: 112 IRVDGTRINVNEETQYFVLNKPRGMQSTMSDDMGRPCVGDVVADRVVAGQRLFHVGRLDA 171 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +TEGLLLLTNDG LA L P + + Y G+ D+ + L++GI ++ Sbjct: 172 DTEGLLLLTNDGELANRLMHPKYEVTKTYLATVLGEADKKLIRQLREGIELEDGLAQADY 231 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + + V V L EG+ ++++ + + V RL+R QLG + GS R + Sbjct: 232 VQIVDKNQGYSLVRVELHEGRKHIVRRMLKEAGYPVQRLVRTKLHTVQLGDMKPGSLRAL 291 Query: 237 SKKIL 241 + L Sbjct: 292 NSNEL 296 >gi|149184427|ref|ZP_01862745.1| hypothetical protein ED21_26953 [Erythrobacter sp. SD-21] gi|148831747|gb|EDL50180.1| hypothetical protein ED21_26953 [Erythrobacter sp. SD-21] Length = 255 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 117/239 (48%), Positives = 159/239 (66%), Gaps = 7/239 (2%) Query: 7 VQENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + +N P+ R++K++ARAG+ASRRE+ERMIA RV ++G +L+ AV + S + VD Sbjct: 1 MSDNRLPEAGDRIAKLLARAGVASRREIERMIADGRVSLDGKVLDTPAVKLESLRGVTVD 60 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVF----DNLPSIFSRVISVGRLDINTE 119 G P+ +AE TRL+ +HKP GL+T DP GR T++ + LP RV+ VGRLD NTE Sbjct: 61 GKPVGEAEETRLFAFHKPSGLLTAERDPKGRPTIYAALRNALPKDAGRVMPVGRLDFNTE 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLTNDG + R +ELPST R YR R G + Q +L+ L +GI I GI YG ++ L Sbjct: 121 GLLLLTNDGEMKRAMELPSTGVPRTYRARAFGDITQQRLDDLIEGIAIDGIRYGQIEANL 180 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + G N W+ + LREGKNRE+++V E F +VNRL+RI YGPF LG L G E+ + Sbjct: 181 ERGSGRNRWIEMTLREGKNREVRRVLEHFGLEVNRLLRIGYGPFHLGDLPRGQAVELKQ 239 >gi|238855289|ref|ZP_04645608.1| putative ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 269-3] gi|282932418|ref|ZP_06337843.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 208-1] gi|313471899|ref|ZP_07812391.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 1153] gi|238832181|gb|EEQ24499.1| putative ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 269-3] gi|239529181|gb|EEQ68182.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 1153] gi|281303367|gb|EFA95544.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus jensenii 208-1] Length = 234 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 67/235 (28%), Positives = 114/235 (48%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I ++V +N L+++A V D ++VD + ++ Sbjct: 1 MRIDKYLANMNVGSRKEVHNLIKAKKVTINEKLVKQAKQQVTENDMVKVDNQTITY-QQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G++T DP + TV D + + + VGRLD +T GLLL+TNDG L Sbjct: 60 HYFMLNKPTGVITATEDPQ-QKTVLDLIASKDRYPDLAPVGRLDKDTTGLLLITNDGQLN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V ++ + + KG+ + G G Q+ +D Sbjct: 119 HNLLSPKKHVAKTYFVELDQEIANEVDSAFAKGVALADGTQVGSAQLIIDKSNKKQGL-- 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + + EGK +IK++F F+ V +L RI G L L G RE+++ + Sbjct: 177 ITIHEGKFHQIKRMFGLFDLGVVKLKRIKMGNLSLDENLPQGKYRELTEAEISAL 231 >gi|238791770|ref|ZP_04635407.1| Ribosomal large subunit pseudouridine synthase F [Yersinia intermedia ATCC 29909] gi|238728874|gb|EEQ20391.1| Ribosomal large subunit pseudouridine synthase F [Yersinia intermedia ATCC 29909] Length = 290 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 67/293 (22%), Positives = 132/293 (45%), Gaps = 14/293 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AER 72 R++K I +GI SRR+ +R I Q V +NG V S D ++V+G + Sbjct: 8 RLNKYIGESGICSRRDADRYIEQGHVFINGKRAA-VGDQVYSGDVVKVNGQLIEPRNEND 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G+++T + + + V + + RV +GRLD +++GL+ LTN G L Sbjct: 67 LVLIALNKPVGIISTTEEGESDNIV--DFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + V ++ + L G+ + G +V+ K + + Sbjct: 125 KILRAGNDHEKEYLVTVNKPVTEEFILGLGAGVPMMGTVTKKCKVS----KVATFVFNIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ + F ++V +L R L L G R+++ L E L+E Sbjct: 181 LVQGLNRQIRRMCKHFGYEVTKLERTRIMNVTLKGLPMGEWRDLTDDELIELF--KLIEN 238 Query: 253 AQVNLDAPIYS--SETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + + + P+ ++++ +P + + + ++ +KK Sbjct: 239 SSSD-EKPVKKVQAKSVADKKPRVNGVKKPEKSDSNSAPRKRFAQPGRKKKGR 290 >gi|291086679|ref|ZP_06356433.2| ribosomal large subunit pseudouridine synthase F [Citrobacter youngae ATCC 29220] gi|291067434|gb|EFE05543.1| ribosomal large subunit pseudouridine synthase F [Citrobacter youngae ATCC 29220] Length = 318 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 75/297 (25%), Positives = 128/297 (43%), Gaps = 12/297 (4%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 30 PDSSIRLNKYISESGICSRREADRFIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGRLIEP 88 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 AE +KP+G+V+T D + R + D + + RV +GRLD +++GL+ LTN Sbjct: 89 REAEDLVFIALNKPVGIVSTTEDSE-RDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNH 146 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + D + + G+ I G +K + Sbjct: 147 GDLVNKILRAGNDHEKEYLVTVDKPITDDFIRGMGAGVPILGTVTK----KCKVKKEAPF 202 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E F ++V RL R L L G R+++ L E Sbjct: 203 VFRITLIQGLNRQIRRMCEHFGYEVTRLERTRIMNVGLSGLPLGEWRDLTDDELIELF-- 260 Query: 248 HLLEEAQVN-LDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 L+E + +T RP + E + + + ++ K S +K Sbjct: 261 KLIENSSSEAKPKAKAKPKTAGIKRPVVKIEKSAEKEKSRPAANGKRFTSPGRKKKG 317 >gi|149277497|ref|ZP_01883638.1| 23S rRNA pseudouridine synthase [Pedobacter sp. BAL39] gi|149231730|gb|EDM37108.1| 23S rRNA pseudouridine synthase [Pedobacter sp. BAL39] Length = 329 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 72/318 (22%), Positives = 136/318 (42%), Gaps = 10/318 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE--R 72 R++K I+ +G+ SRR +R I Q V +NG + V D + V+G + E Sbjct: 7 RLNKYISESGLCSRRAADRYIEQGNVYINGKKAK-VGDKVFFGDLVMVNGQTIEPKEVEH 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L Y+KP+G+ +T ++ + + D++ + RV +GRLD +++GL+ LTN+G L Sbjct: 66 SVLIAYNKPVGITST-TEAGVKGNIVDHV-NHSERVFPIGRLDKDSQGLIFLTNNGDLVN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + + + + + KG+ I GI +VT K S + Sbjct: 124 KILRAGNNHEKEYLVTVNKPLTEQFITNMSKGVPILGIMTKKCKVT----KESPFVFKIT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E F ++V +L R L + G RE++ + + Sbjct: 180 LIQGLNRQIRRMCEHFGFEVTKLERTRIMNIGLKGIPLGEWRELTAEEQTDIYNMVAKSS 239 Query: 253 AQVNLDAPIYSSETLVRD-RPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 + AP S++ ++ ++ + K S+ ++K A Sbjct: 240 SLEAASAPKKSAKKPEQELTEKPVARKKNSRPAGAKPSAAGKARPERKSGPASRGASASA 299 Query: 312 SNVWMAKGIHSSFLSDSG 329 + W S Sbjct: 300 APDWNKSNGPSRRPVKPS 317 >gi|317499032|ref|ZP_07957313.1| RNA pseudouridylate synthase [Lachnospiraceae bacterium 5_1_63FAA] gi|291560717|emb|CBL39517.1| ribosomal large subunit pseudouridine synthase F [butyrate-producing bacterium SSC/2] gi|316893682|gb|EFV15883.1| RNA pseudouridylate synthase [Lachnospiraceae bacterium 5_1_63FAA] Length = 244 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 61/241 (25%), Positives = 123/241 (51%), Gaps = 5/241 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + ++ R++K +++AGI SRR+ + + + RV+V+G + V+ + D Sbjct: 2 QETKRKTEDAVRINKYLSQAGICSRRQADTYVEEGRVEVDGEVAVS-GTKVLPGQSVTFD 60 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G P++ E +HKP G+V T S + + + D + + +R+ VGRLD +++GL+L Sbjct: 61 GKPVKIQEDLIFLAFHKPRGIVCTASKEE-KDNIIDYI-NYPTRIYPVGRLDKDSQGLIL 118 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG A + + Y V + ++ + ++ ++ + + I + + + Sbjct: 119 LTNDGEAANQIMKARNYHEKEYEVTVNKRITNEFIHDMRNPVPLDEINAVTRRCKVIKEG 178 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + L +G NR+I+++ E F ++V +L R+ +LG L G R+++ LRE Sbjct: 179 PNE--FRIILTQGLNRQIRRMCEHFGYRVTKLKRVRVMNIKLGDLKEGRYRKLTPDELRE 236 Query: 244 Q 244 Sbjct: 237 L 237 >gi|262171355|ref|ZP_06039033.1| ribosomal small subunit pseudouridine synthase A [Vibrio mimicus MB-451] gi|261892431|gb|EEY38417.1| ribosomal small subunit pseudouridine synthase A [Vibrio mimicus MB-451] Length = 231 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 58/230 (25%), Positives = 101/230 (43%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ + V V+ ++ + A + T +E + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKRGEVTVDDVVQKSGAFKLKETSCVEWQDREITL-HGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + HKP G+V +H D T F L + GRLD++T GLLL+T+DG + Sbjct: 60 RYIMMHKPDGVVCSHEDGFN-QTAFTLLDEVNIEDLHFAGRLDVDTTGLLLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D GI ++G + L+ S V + Sbjct: 119 RVTSPKHKCEKTYRVWLAEPIQADYAEQFTNGIELRGERELTLPAQLEI--VSETEVLLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L +L G R +++ + Sbjct: 177 IHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDESLEPGEYRYLTEDEV 226 >gi|78044539|ref|YP_360363.1| ribosomal small subunit pseudouridine synthase A [Carboxydothermus hydrogenoformans Z-2901] gi|77996654|gb|ABB15553.1| ribosomal small subunit pseudouridine synthase A [Carboxydothermus hydrogenoformans Z-2901] Length = 231 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 67/230 (29%), Positives = 118/230 (51%), Gaps = 7/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K +A G +R+EV +++ ++V+VNG++++ N+ TD + V G ++ + Sbjct: 1 MRIDKFLAHMGFGTRKEVRKLLKARKVEVNGVVVKDPGYNLNVDTDKVIVKGEEVKY-KP 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G V+ D TV D +P + ++ VGRLDI+TEGLL+LT+DG LA Sbjct: 60 FVYFMLNKPKGYVSATVDRRY-PTVVDLVP-VHRKIFPVGRLDIDTEGLLILTDDGQLAH 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y ++++ + +K GI ++ Y L + G T+ Sbjct: 118 HLTSPKKEVEKEYYFELDKPLEEEDFSKIKTGIRLED-NYLTKPARLLGKVGDKHG-TIV 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F V L RI G L L G RE++ + + Sbjct: 176 ITEGKYHQVKRMFLALGKTVVYLKRIRIGGLILDNKLSPGEYRELTPEEI 225 >gi|332140787|ref|YP_004426525.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Alteromonas macleodii str. 'Deep ecotype'] gi|327550809|gb|AEA97527.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Alteromonas macleodii str. 'Deep ecotype'] Length = 298 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 98/299 (32%), Positives = 153/299 (51%), Gaps = 13/299 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+A G+ SRRE+ER I + RV VNG + V T I VDG L + Sbjct: 2 TEKLQKVLANQGLGSRREMERWIEEGRVSVNGSVAT-LGDRVDHTAQIRVDGHLLSRQTE 60 Query: 73 T---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDG 128 R+ +Y+KP G + + DP+GR TVFD LP+ R I+VGRLD+NT GLLL TNDG Sbjct: 61 QPICRVLMYNKPEGELCSRHDPEGRDTVFDRLPAIRLGRWITVGRLDMNTSGLLLFTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT------LDTQ 182 LA L P + R Y VR G+V LN L+KG+ + + ++ + Sbjct: 121 ELANRLMHPKCEVEREYAVRVFGEVSTKTLNTLQKGVELDDGEAKFLTISGTPTPQHAEE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + N W V L+EG+NRE+++++E +V+RLIR+ YGP +L L G+ E+ + + Sbjct: 181 ESMNRWFNVTLKEGRNREVRRLWESQGVQVSRLIRVKYGPIELQKRLPQGAWVELGLEDV 240 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 L H+ + + + + V R ++ +++ G ++K Sbjct: 241 NA-LRNHVQLPDETQTMVNVRQGKLDHARLSRMRRSVKKHKVRKQQGLNKRAGRPAKRK 298 >gi|312196764|ref|YP_004016825.1| pseudouridine synthase [Frankia sp. EuI1c] gi|311228100|gb|ADP80955.1| pseudouridine synthase [Frankia sp. EuI1c] Length = 285 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 77/233 (33%), Positives = 122/233 (52%), Gaps = 3/233 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 R+ KV+A AG+ SRR E +I RV+V+G ++ V T IEVDG + Sbjct: 44 EGIRLQKVLASAGVGSRRHNEELIDAGRVRVDGKVVREQGRRVDPETAVIEVDGERVVTR 103 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDG 128 +KP G+V+T SDP+ R T+ D L + + VGRLD+++EGLLL+TN+G Sbjct: 104 TGLVHLALNKPRGVVSTMSDPEDRPTISDLLTEFGASAGLFHVGRLDVDSEGLLLVTNNG 163 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q + Y+V+ +G + ++ + L + + + Q GS Sbjct: 164 DLAHRLTHPSYQVPKTYQVQINGPLRKETMRRLHTRVELSDGPVRVDSARIIDQVGSQIL 223 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + L EG+NR ++++ E V RL+R +G LGTL +G R ++ + Sbjct: 224 LEIVLHEGRNRIVRRMMEEVGHPVVRLLRTEFGAVHLGTLRSGRARHLTLHEV 276 >gi|295696969|ref|YP_003590207.1| pseudouridine synthase [Bacillus tusciae DSM 2912] gi|295412571|gb|ADG07063.1| pseudouridine synthase [Bacillus tusciae DSM 2912] Length = 250 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 76/252 (30%), Positives = 124/252 (49%), Gaps = 14/252 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRK 69 QR+ +++A G+ SRR++++M ++V+G ++ A+++V + V G P+ Sbjct: 1 MAKQRLDRILAEMGVGSRRDIKKMARSGLIEVDGRVVRDASLHVDPGQQVLCVAGHPVHY 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTND 127 + W+ +KP G+V+ DP R TV D L R+ GRLDI+TEG +L+T+D Sbjct: 61 -QPFHYWMMNKPPGVVSAVIDPRHR-TVIDLLDESDRTPRLFPAGRLDIDTEGFVLITDD 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-GSN 186 G LA + P + YR G+V + +G+V+ Y + L + G Sbjct: 119 GQLAHAILSPKRHVSKTYRATVQGRVSDADVAAFARGLVLGDG-YRALPAHLQIRDAGER 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI---LR 242 + V + LREGK +IK++F V L R++ G L L G R ++ LR Sbjct: 178 SEVEIVLREGKFHQIKRMFAALGKPVLYLKRVAIGGVPLDPALPPGGYRALADDEVARLR 237 Query: 243 E---QLGPHLLE 251 E +L PH E Sbjct: 238 ETDPRLPPHPAE 249 >gi|227431698|ref|ZP_03913728.1| ribosomal large subunit pseudouridine synthase B [Leuconostoc mesenteroides subsp. cremoris ATCC 19254] gi|227352522|gb|EEJ42718.1| ribosomal large subunit pseudouridine synthase B [Leuconostoc mesenteroides subsp. cremoris ATCC 19254] Length = 224 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 71/213 (33%), Positives = 115/213 (53%), Gaps = 2/213 (0%) Query: 34 MIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 MI RV+VNG + V + D ++VDG P+ E+ +L +KP G+VTT+ D G Sbjct: 1 MIINGRVQVNGQTVTELGTKVTANDKVQVDGAPIEGREKLVYYLLNKPRGVVTTNDDEKG 60 Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 R TV D L + RV VGRLD +T G+LLLTNDG +A L P T+ + Y + G Sbjct: 61 RRTVLDILEDVDQRVYPVGRLDYDTTGVLLLTNDGVVANQLMHPKTKVDKTYVAKVEGIA 120 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTVGLREGKNREIKKVFEFFNWK 211 ++KL LK+G+V++G +V+++ + + + V + + EG+N ++K + Sbjct: 121 TEEKLAPLKRGVVLKGRKTAPARVSIERIEPTKRTSMVRLTIHEGRNHQVKNMLAKVGLP 180 Query: 212 VNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V +L R Y F + L G R+++ ++ Sbjct: 181 VQKLKREQYAFFDVTGLQPGEYRKLTSVEIKRL 213 >gi|149197232|ref|ZP_01874284.1| hypothetical protein LNTAR_12521 [Lentisphaera araneosa HTCC2155] gi|149139778|gb|EDM28179.1| hypothetical protein LNTAR_12521 [Lentisphaera araneosa HTCC2155] Length = 297 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 75/305 (24%), Positives = 133/305 (43%), Gaps = 19/305 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAE 71 R++K I+ +G SRRE +R+I + RV +NG + V D +EVDG ++ + + Sbjct: 1 MRLNKFISDSGFCSRREADRLIEEGRVLINGRRCKT-GQQVEDKDFVEVDGQRIKAKRQK 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++KP G+ T ++ + + D + + ++ +GRLD + GL+ +TNDG + Sbjct: 60 ERVYLAFNKPEGITCT-TEGSVKGNIVDFI-NYPEKIFPIGRLDKFSNGLIFMTNDGDIV 117 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V V + L + GI I +VT K S + Sbjct: 118 NKILRAGNAHEKEYVVTIDRPVTDEFLRKMSNGIPILDTVTKKCKVT----KVSKNTFRI 173 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E+ +V L R LG L G+ R ++ K + E ++E Sbjct: 174 ILTQGLNRQIRRMCEYLACRVLSLQRTRIMKVDLGKLKPGTWRHLNPKEMAEI--NQMIE 231 Query: 252 EAQVNLDAPI---YSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL-----SKQKKLAT 303 + +A + RP + KK+S ++ G SKQ + Sbjct: 232 SSSNTQEASKDSNKQGRRSLPKRPVARQNMKTSSQSHKKSSPKRRGQTSGRPSKQNSKSR 291 Query: 304 PVHRR 308 P +R Sbjct: 292 PQRKR 296 >gi|332527848|ref|ZP_08403885.1| ribosomal large subunit pseudouridine synthase B [Rubrivivax benzoatilyticus JA2] gi|332112425|gb|EGJ12218.1| ribosomal large subunit pseudouridine synthase B [Rubrivivax benzoatilyticus JA2] Length = 487 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 102/306 (33%), Positives = 143/306 (46%), Gaps = 9/306 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + K ++ ++ KV+A+AGI SRR++E+MI + R+ VNG + + D I Sbjct: 41 LPAKRVLAPEPDAPKLHKVLAQAGIGSRRDMEQMILEGRITVNGEPA-HIGQRIAAGDRI 99 Query: 61 EVDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDI 116 V G P+R TR+ YHKP G V TH DP R TVF LP + + SVGRLDI Sbjct: 100 AVGGKPVRYRIAPPPTRVIAYHKPAGEVVTHDDPQQRPTVFRRLPRLHQGKWQSVGRLDI 159 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NTEGLLL TN G LA L P R Y VR G +D L +G+ I G Sbjct: 160 NTEGLLLFTNSGELANQLMHPRFGIEREYAVRSLGGLDDASRQKLLEGVEIDGQRCAFKS 219 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE 235 + +G+N W + EG+NRE++K+F+ V+RLIRI YG L L G + Sbjct: 220 IENGGGEGANQWYRCVITEGRNREVRKLFDAVGHAVSRLIRIRYGSVVLPKGLKRGVWVD 279 Query: 236 VSKKI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK 292 +S++ LR G E + R + P+ R + ++ Sbjct: 280 LSEQDVRTLRRMTGVGERPEGEAREAREAGGDRRGKRGKRGRGGNAPEGAPRAARPQRRE 339 Query: 293 NGLSKQ 298 G Sbjct: 340 GGEGPA 345 >gi|313674669|ref|YP_004052665.1| ribosomal large subunit pseudouridine synthase f [Marivirga tractuosa DSM 4126] gi|312941367|gb|ADR20557.1| ribosomal large subunit pseudouridine synthase F [Marivirga tractuosa DSM 4126] Length = 243 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 59/230 (25%), Positives = 107/230 (46%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER-T 73 R++K ++ AG SRR +++I + V +NG + V D + V G + + Sbjct: 7 RINKFLSEAGYCSRRNADKLIEEGAVTINGKIP-EMGTKVGPDDEVRVKGELITEPNSNF 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++KP G+V T + + D + + R+ +GRLD +EGL+LLTNDG + Sbjct: 66 VYLAFNKPRGIVCTTDTRREKDNIIDYI-NYPERIFPIGRLDKYSEGLILLTNDGDIVNK 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + D + + G+ I V ++ + + L Sbjct: 125 ILRARNNHEKEYIVHLNKPIKGDFIQKMGDGVPILDTVTKKCFV----EQIGKSSFKIIL 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +G NR+I+++ E+F++KV L RI +L T G R ++ L+E Sbjct: 181 TQGLNRQIRRMCEYFDYKVAGLKRIRIMNVKLDT-EKGKWRHLTPNELKE 229 >gi|55821481|ref|YP_139923.1| ribosomal small subunit pseudouridine synthase A [Streptococcus thermophilus LMG 18311] gi|55737466|gb|AAV61108.1| ribosomal small subunit pseudouridine synthase A [Streptococcus thermophilus LMG 18311] gi|312278820|gb|ADQ63477.1| Pseudouridine synthase [Streptococcus thermophilus ND03] Length = 243 Score = 255 bits (651), Expect = 1e-65, Method: Composition-based stats. Identities = 65/234 (27%), Positives = 114/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ + +++V VNG + + D I G L E Sbjct: 1 MRLDKFLVDCGVGSRSQVKTFLKKKQVTVNGQVETSPKTQIDEDKDQIAYLGQELTH-ET 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D + TV D L V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATEDSRHK-TVLDLLDETARHKQVFPVGRLDIDTHGLLLLTNNGDL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A + P ++Y+ + G +D++ + +KGI ++ ++ + + + S + Sbjct: 119 AHAMLSPKKHVDKIYQAKVAGIMDEEDILAFEKGIKLKDHTCQPAKLEIVSVDRNASTSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 V + + EGK ++K++ +V L R+ GP L L G R ++++ L Sbjct: 179 VQITIAEGKFHQVKRMVAACGKEVADLQRLKMGPLSLPNDLELGDWRRLTQEEL 232 >gi|83815539|ref|YP_445618.1| ribosomal large subunit pseudouridine synthase B [Salinibacter ruber DSM 13855] gi|83756933|gb|ABC45046.1| ribosomal large subunit pseudouridine synthase B [Salinibacter ruber DSM 13855] Length = 249 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 75/241 (31%), Positives = 121/241 (50%), Gaps = 7/241 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + R++K IA AG+ SRR+ + ++ Q RV ++G +++ V + VDG + Sbjct: 5 SSDREGMRINKYIAHAGVCSRRDADDLVEQGRVHIDGERVDQHGTCVREGQTVTVDGEEV 64 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLL 124 E L +KP ++T DP R TV D + S + VGRLD NT G+LL+ Sbjct: 65 YPLE-FEYLLLNKPKDTISTTDDPKDRRTVLDAIGVPEDNPSGLFPVGRLDRNTTGVLLV 123 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK 183 +NDG LA L P + ++Y VR V +L+ LK+G+ + G D LD Q+ Sbjct: 124 SNDGDLAHRLMHPRYEIPKIYYVRVQDDVKPHQLDQLKRGVELSDGAAAADQVAYLDPQR 183 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 ++ + + L EG+NR+I+++ E + +L R Y G L G R + + +RE Sbjct: 184 KTD--IALELHEGRNRQIRRMMEALGHTIVQLERAKYATLTTGRLQRGEWRRLEPEEVRE 241 Query: 244 Q 244 Sbjct: 242 L 242 >gi|327390694|gb|EGE89034.1| hypothetical protein SPAR5_0271 [Streptococcus pneumoniae GA04375] Length = 240 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 70/237 (29%), Positives = 114/237 (48%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDQIHFDGQKLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAW 188 A L P + Y+ + G + ++ + +GI ++ ++ L + + + + Sbjct: 119 AHTLLSPKRHVDKTYQAQVKGMMTREDVETFAEGIPLKDFTCQPAKLELVSIDTEKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 179 IRVTIAEGKFHQIKRMVAYCGKEVMDLQRLTMGTLVLDENLGRGEWRRLTKEELENL 235 >gi|94310972|ref|YP_584182.1| ribosomal large subunit pseudouridine synthase B [Cupriavidus metallidurans CH34] gi|93354824|gb|ABF08913.1| pseudouridine synthase, Rsu [Cupriavidus metallidurans CH34] Length = 631 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 93/303 (30%), Positives = 149/303 (49%), Gaps = 12/303 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + + ++ P ++ KV+A G+ SRRE+E +I Q RV VNG+ ++ TD + V+ Sbjct: 226 RELSADDDAP-KLHKVLAEGGLGSRREMEELILQGRVSVNGLPA-HIGQRILPTDQVRVN 283 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 G + + + R+ LYHKP G + + SDP+GR TVFD+LP I + + ++VGRLD NTE Sbjct: 284 GKLIHRKVTTKPPRVLLYHKPSGEIVSQSDPEGRPTVFDSLPRIKNGKWVAVGRLDFNTE 343 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+ T G +A P R Y VR G++ + L GI + +++ Sbjct: 344 GLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAEADRQRLLHGIQLDDGEANFLRIAD 403 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G N W V L EG+NRE++++FE V+RLIR YG F L L G +E+ Sbjct: 404 GGGEGVNQWYHVALTEGRNREVRRMFEAVGLTVSRLIRTRYGQFLLPRGLKRGRWQELDP 463 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +R L+ + + S + + + + +GL + Sbjct: 464 TDVR-----GLMANIGLKAPSKEAQSGGKGVTKVGGRKQREEAALAGMPMHTGMDGLPRY 518 Query: 299 KKL 301 +K Sbjct: 519 EKS 521 >gi|85708946|ref|ZP_01040012.1| S4 domain protein [Erythrobacter sp. NAP1] gi|85690480|gb|EAQ30483.1| S4 domain protein [Erythrobacter sp. NAP1] Length = 260 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 107/231 (46%), Positives = 150/231 (64%), Gaps = 6/231 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 ++ R++K++ARAG+ASRRE+ERMIA R+ +N ++E A + S + VDG P+ Sbjct: 9 EDRPEGDRIAKLLARAGVASRREIERMIADGRITLNDKVVETPATFLTSLQGVAVDGKPV 68 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVF----DNLPSIFSRVISVGRLDINTEGLLL 123 K E +L+ +HKP GL+T DP GR+T++ + LP R++ +GRLD+NTEGLLL Sbjct: 69 AKPEPAQLYAFHKPTGLITAERDPAGRATIYAALRNALPKDTPRLMPIGRLDLNTEGLLL 128 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ- 182 LTNDGGL R +ELPS+ R YR R G V Q++L L +G+ I G+ YG + L+ Sbjct: 129 LTNDGGLKRQMELPSSGIPRTYRARAFGDVSQEQLEALIEGVEIDGVRYGSIDANLERGG 188 Query: 183 -KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 G N WV + + EGKNRE+++V E+ KVNRLIR +YGPF LG L G Sbjct: 189 AGGKNQWVEMTITEGKNREVRRVLEYLGLKVNRLIRTAYGPFGLGDLPRGQ 239 >gi|315644423|ref|ZP_07897556.1| pseudouridine synthase [Paenibacillus vortex V453] gi|315280173|gb|EFU43466.1| pseudouridine synthase [Paenibacillus vortex V453] Length = 233 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 65/236 (27%), Positives = 121/236 (51%), Gaps = 8/236 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ G SRRE ++++ +V +NG++ D + + G PL+ ++ Sbjct: 1 MRINKFISETGYCSRREADKLVESGKVTINGVVA-VLGSQAEEGDDVRIQGRPLQDKKKH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ +T ++ + + D + R+ +GRLD ++EGL+LLTNDG + Sbjct: 60 VYIALYKPVGITST-TELHIKGNIVDFV-GHKERIFPIGRLDKDSEGLILLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + L + G+ I G +VT +++ + L Sbjct: 118 ILRSEGKHEKEYIVTVDRPLTDTFLRGMSSGVKILGEMTLPCEVTRMSER----VFRIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 EGKNR+I+++ F ++V +L RI +LG+ GS R++++K RE+LG L Sbjct: 174 TEGKNRQIRRMCSAFGYEVRKLQRIRIMNIRLGSQRVGSWRDLNEKE-REELGRLL 228 >gi|260664647|ref|ZP_05865499.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii SJ-7A-US] gi|260561712|gb|EEX27684.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus jensenii SJ-7A-US] Length = 234 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 68/235 (28%), Positives = 115/235 (48%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I ++V +N L+++A V D ++VD + ++ Sbjct: 1 MRIDKYLANMNVGSRKEVHNLIKAKKVTINEKLVKQAKQQVTENDMVKVDNQTITY-QQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G++T DP + TV D + +S + VGRLD +T GLLL+TNDG L Sbjct: 60 HYFMLNKPTGVITATEDPQ-QKTVLDLIASKDRYSDLAPVGRLDKDTTGLLLITNDGQLN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V ++ + + KG+ + G G Q+ +D Sbjct: 119 HNLLSPKKHVAKTYFVELDQEIANEVDSAFAKGVALADGTQVGSAQLIIDKSNKKQGL-- 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + + EGK +IK++F F+ V +L RI G L L G RE+++ + Sbjct: 177 ITIHEGKFHQIKRMFGLFDLGVVKLKRIKMGNLSLDENLPQGKYRELTEAEISAL 231 >gi|210617504|ref|ZP_03291607.1| hypothetical protein CLONEX_03829 [Clostridium nexile DSM 1787] gi|210149291|gb|EEA80300.1| hypothetical protein CLONEX_03829 [Clostridium nexile DSM 1787] Length = 253 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 63/237 (26%), Positives = 118/237 (49%), Gaps = 7/237 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 Q T R++K ++ AG+ SRRE +R+I +V V+G + V + + V + Sbjct: 5 QTTETTVRLNKFLSEAGVCSRREADRLIENGKVTVDGKRA-EMGMRVSPSQRVCVGKKEV 63 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R+ L +KP+G+V T + + + + +RV +GRLD ++EGLLL+TN+ Sbjct: 64 RQKNEMVLLAVNKPVGIVCTEEKKEKNNIIRFL--NYPTRVTYIGRLDKDSEGLLLMTNN 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + Q + Y+V + V ++ + + +G+ I +V + + Sbjct: 122 GDIINKMMRAGNQHEKEYKVTVNKPVTKEFIEKMAEGVPILDTVTRKCKVEMLGK----Y 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+++ E+ +KV RL RI LG L G R+V++ +++ Sbjct: 178 KFRIILTQGLNRQIRRMCEYLGYKVTRLERIRVMNITLGELKPGEYRKVTEAEIQKL 234 >gi|254230520|ref|ZP_04923892.1| ribosomal large subunit pseudouridine synthase B [Vibrio sp. Ex25] gi|262393864|ref|YP_003285718.1| ribosomal large subunit pseudouridine synthase B [Vibrio sp. Ex25] gi|151936968|gb|EDN55854.1| ribosomal large subunit pseudouridine synthase B [Vibrio sp. Ex25] gi|262337458|gb|ACY51253.1| ribosomal large subunit pseudouridine synthase B [Vibrio sp. Ex25] Length = 312 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 102/309 (33%), Positives = 149/309 (48%), Gaps = 10/309 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----PLR 68 +++ KV+ARAG SRRE+E +I RV VNG++ + + + +DG ++ Sbjct: 2 SEKLQKVLARAGHGSRREIESLIKSGRVSVNGVVAKLGERLEDESSVVRIDGHIVSAKIQ 61 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G+V + K+ L KG+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGEVTEQKVRNLVKGVELEDGLARFEDVVYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWESQECTVSRLKRVRYGDIFLDKKLPRGGWMELDLKEVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E ++L+ +S R R I ++ ++K Sbjct: 242 LVELRPEKETMLDLNKD-NTSRKRERARSQKIRRAVKRHEERVNTPKGRSNNPSRRKPKK 300 Query: 304 PVHRRNLAS 312 + S Sbjct: 301 TAGDQGARS 309 >gi|333028084|ref|ZP_08456148.1| putative pseudouridine synthase [Streptomyces sp. Tu6071] gi|332747936|gb|EGJ78377.1| putative pseudouridine synthase [Streptomyces sp. Tu6071] Length = 455 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 78/238 (32%), Positives = 123/238 (51%), Gaps = 1/238 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K +R+ KV+ARAG SRR E +I Q RV+VNG ++ + V +D I+VD Sbjct: 210 KTFPGAEQEGERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGLRVKPSDEIKVD 269 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G+ + + + + +KP G+V T DP+GR + D + + +R+ VGRLD TEG++L Sbjct: 270 GLTV-ATQSYQFFSLNKPAGVVATMEDPEGRQNLGDYVNNRETRLFHVGRLDTETEGVIL 328 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTN G LA L P + Y G + +D LK GI ++ + Q Sbjct: 329 LTNHGELAHRLTHPRYGVRKTYLAHIVGPIPRDLGKRLKDGIELEDGWARADHFRVVEQT 388 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G N V V L EG+ ++++ + V++L+R ++GP LG +G R +S + Sbjct: 389 GKNYLVEVTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLSNTEV 446 >gi|294507508|ref|YP_003571566.1| ribosomal large subunit pseudouridine synthase B [Salinibacter ruber M8] gi|294343836|emb|CBH24614.1| ribosomal large subunit pseudouridine synthase B [Salinibacter ruber M8] Length = 261 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 75/241 (31%), Positives = 121/241 (50%), Gaps = 7/241 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + R++K IA AG+ SRR+ + ++ Q RV ++G +++ V + VDG + Sbjct: 17 SSDREGMRINKYIAHAGVCSRRDADDLVEQGRVHIDGERVDQHGTRVREGQTVTVDGEEV 76 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLL 124 E L +KP ++T DP R TV D + S + VGRLD NT G+LL+ Sbjct: 77 YPLE-FEYLLLNKPKDTISTTDDPKDRRTVLDAIGVPEDNPSGLFPVGRLDRNTTGVLLV 135 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK 183 +NDG LA L P + ++Y VR V +L+ LK+G+ + G D LD Q+ Sbjct: 136 SNDGDLAHRLMHPRYEIPKIYYVRLQDDVKPHQLDQLKRGVELSDGAAAADQVAYLDPQR 195 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 ++ + + L EG+NR+I+++ E + +L R Y G L G R + + +RE Sbjct: 196 KTD--IALELHEGRNRQIRRMMEALGHTIVQLERAKYATLTTGRLQRGEWRRLEPEEVRE 253 Query: 244 Q 244 Sbjct: 254 L 254 >gi|254416564|ref|ZP_05030315.1| conserved hypothetical protein, putative [Microcoleus chthonoplastes PCC 7420] gi|196176530|gb|EDX71543.1| conserved hypothetical protein, putative [Microcoleus chthonoplastes PCC 7420] Length = 255 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 82/246 (33%), Positives = 130/246 (52%), Gaps = 17/246 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV K+I++ GIASRR+ E+MI RV++NG +++ TD IEV+G L+ + R Sbjct: 3 ERVQKIISQWGIASRRQAEKMIVAGRVRLNGTVVQLGQKANPETDLIEVNGQRLKPSNRP 62 Query: 74 R--LWLYHKPIGLVTTHSD-------PDGRSTVFDNLPSIFSR---VISVGRLDINTEGL 121 + L +KP+G+V+T + + R TV D LPS + + VGRLD+ + G Sbjct: 63 QAIYLLLNKPVGVVSTCRNYRVCNTILEKRRTVLDLLPSTIRQGQGIHPVGRLDMESTGA 122 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 L+LTNDG L L P + YRV G + L+ ++G+ + G QV + Sbjct: 123 LILTNDGTLTYKLTHPRHHVPKTYRVWVKGHPPESILSAWRQGVDLSGRTTLPAQVRVLK 182 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREV 236 Q+ + + L EG+NR+I++V + + V L R + GP QL LL+G R + Sbjct: 183 QQPDKTLLEIVLTEGRNRQIRRVADLLGYPVIHLHRTAIGPIQLQRPGEPILLSGHYRYL 242 Query: 237 SKKILR 242 + +R Sbjct: 243 EEFEIR 248 >gi|149190891|ref|ZP_01869154.1| pseudouridine synthase family 1 protein [Vibrio shilonii AK1] gi|148835246|gb|EDL52220.1| pseudouridine synthase family 1 protein [Vibrio shilonii AK1] Length = 310 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 104/302 (34%), Positives = 148/302 (49%), Gaps = 14/302 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV VNG + I +DG + + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIKSGRVSVNGQVARLGERLEDENAVIRIDGHTVSAKAQ 61 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVVCRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G++++ K+ + G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGEINEKKVRNVVNGVELEDGMARFEDVVYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E++ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWESQETTVSRLKRVRYGDIYLDKKLPRGGWMELTLKEVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + L E + LD +S R R I R ++ ++ G S Q++ Sbjct: 242 LV--ELRPEKETMLDLSQNTSRQRERSRSQKIRR---AVRRHEERANAPKGRSNQQRRNK 296 Query: 304 PV 305 Sbjct: 297 KS 298 >gi|302518236|ref|ZP_07270578.1| pseudouridine synthase [Streptomyces sp. SPB78] gi|302427131|gb|EFK98946.1| pseudouridine synthase [Streptomyces sp. SPB78] Length = 447 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 78/238 (32%), Positives = 123/238 (51%), Gaps = 1/238 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K +R+ KV+ARAG SRR E +I Q RV+VNG ++ + V +D I+VD Sbjct: 202 KTFPGAEQEGERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGLRVKPSDEIKVD 261 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G+ + + + + +KP G+V T DP+GR + D + + +R+ VGRLD TEG++L Sbjct: 262 GLTV-ATQSYQFFSLNKPAGVVATMEDPEGRQNLGDYVNNRETRLFHVGRLDTETEGVIL 320 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTN G LA L P + Y G + +D LK GI ++ + Q Sbjct: 321 LTNHGELAHRLTHPRYGVRKTYLAHIVGPIPRDLGKRLKDGIELEDGWARADHFRVVEQT 380 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G N V V L EG+ ++++ + V++L+R ++GP LG +G R +S + Sbjct: 381 GKNYLVEVTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLSNTEV 438 >gi|262045577|ref|ZP_06018597.1| ribosomal large subunit pseudouridine synthase F [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|259037074|gb|EEW38325.1| ribosomal large subunit pseudouridine synthase F [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] Length = 291 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 73/289 (25%), Positives = 127/289 (43%), Gaps = 10/289 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE--R 72 R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + E Sbjct: 8 RLNKYISESGICSRREADRFIEQGNVFINGKRAT-IGDQVKPGDLVKVNGQLIEPREADD 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G+V+T D + R + D + + R+ +GRLD +++GL+ LTN G L Sbjct: 67 LVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRIFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V V + + + G+ I G +K + + Sbjct: 125 KILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPILGTVTK----KCKVKKEAPFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 181 LVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLTGIPLGEWRDLTDDELIDLFKLIENSS 240 Query: 253 AQVNLDA-PIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ A P + T RP + E +D R N + ++KK Sbjct: 241 SEAKPKARPKAKAATPGIKRPVVKMENSNDKGRPAGNGKRFTQPGRKKK 289 >gi|258544383|ref|ZP_05704617.1| ribosomal large subunit pseudouridine synthase B [Cardiobacterium hominis ATCC 15826] gi|258520387|gb|EEV89246.1| ribosomal large subunit pseudouridine synthase B [Cardiobacterium hominis ATCC 15826] Length = 260 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 88/243 (36%), Positives = 137/243 (56%), Gaps = 12/243 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----K 69 +R+ K +A G+ SRRE+E I + R++VNG L + + + +DG PLR + Sbjct: 6 ERIQKWLAARGLGSRREIEGWIREGRLRVNGKLA-ELGQRISGYERLSLDGKPLRVSPER 64 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 ++ +YHKP G + + +DPDGR TVF +LP + R +S+GRLD+NT GLLL TNDG Sbjct: 65 EAPRQILMYHKPPGEICSRNDPDGRPTVFRHLPKLRQGRWVSIGRLDLNTAGLLLFTNDG 124 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-----GDMQVTLDTQK 183 LA L PS + R Y VR G+V++D L L+ G+ ++ +Q + Sbjct: 125 ELANRLMHPSAEIEREYWVRVAGEVNEDTLQALRNGLELEDGFACFDDVQPLQALHEDDT 184 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 N + +V L+EG+NRE+++++E +V+RL RI +G L L AG R ++ + Sbjct: 185 QYNRYFSVVLKEGRNREVRRLWEAVGCQVSRLKRIRFGNLWLPKNLAAGRWRPLTAGEVN 244 Query: 243 EQL 245 L Sbjct: 245 ALL 247 >gi|325978633|ref|YP_004288349.1| ribosomal small subunit pseudouridine synthase A [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] gi|325178561|emb|CBZ48605.1| ribosomal small subunit pseudouridine synthase A [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] Length = 242 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 68/234 (29%), Positives = 111/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + AGI SR EV++++ +++V VNG + + D I G L E+ Sbjct: 1 MRLDKFLVEAGIGSRTEVKQLLKKKQVLVNGKVEISPKTQIDEKADRISCQGQTLSY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D + TV D L V VGRLDI+T GLLLLTN+G L Sbjct: 60 YVYYMLNKPKGVISATED-NHHKTVLDLLDKTAWDKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A + P + YR + G + + GI ++ Q+ + + + Sbjct: 119 AHAMLSPKKHVDKTYRAKVAGLMTTADVAAFANGIDLKDFTCQPAQLVILETNEAERTSV 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V + ++EGK ++K++ + KV L R+S P QL L G R ++ L Sbjct: 179 VEITIKEGKFHQVKRMVQACGKKVTDLQRLSMVPLQLDKQLALGEWRRLTDDEL 232 >gi|326316275|ref|YP_004233947.1| pseudouridine synthase Rsu [Acidovorax avenae subsp. avenae ATCC 19860] gi|323373111|gb|ADX45380.1| pseudouridine synthase Rsu [Acidovorax avenae subsp. avenae ATCC 19860] Length = 485 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 93/342 (27%), Positives = 148/342 (43%), Gaps = 8/342 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN V D ++ Sbjct: 139 PAKRVLPPQVEMPKLHKVLAQAGLGSRLEMEQLILEGRISVNNEPA-HIGQRVQYGDQVK 197 Query: 62 VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDIN 117 V+G P+R R+ YHKP+G V TH DP R TVF LP + SVGRLD+N Sbjct: 198 VNGRPIRYRIDPPAPRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLAHGKWQSVGRLDLN 257 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLL T+ G LA L P R Y VR G + ++ L G+ ++ + Sbjct: 258 TEGLLLFTSAGELANKLMHPRFGLEREYAVRVLGALSNEEKQRLLDGVQLEDGMAAFGSI 317 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +GSN W V + EG+NRE++++ E V+RLIRI YG L L G+ E+ Sbjct: 318 EDGGGEGSNCWYRVTISEGRNREVRRMLESVGHAVSRLIRIRYGSMMLPRGLKRGAWLEL 377 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 ++ +R + + + R + Sbjct: 378 DERDIRALMQAAGADMPRPAGPGAAAGDRKGGGPRKGGGRGQGGPGGPAPRGDYFNPPAG 437 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRS 338 + + A P + + + G S ++++ +R Sbjct: 438 GRGQRAAPPS--SQPDPMKTSVGYIGSDSLARHRQDQKQKRK 477 >gi|317048303|ref|YP_004115951.1| pseudouridine synthase [Pantoea sp. At-9b] gi|316949920|gb|ADU69395.1| pseudouridine synthase [Pantoea sp. At-9b] Length = 290 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 102/289 (35%), Positives = 145/289 (50%), Gaps = 12/289 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MI+ RV V+G L I +DG + AE Sbjct: 2 SEKLQKVLARAGHGSRREIETMISAGRVSVDGKLATLGDRIENDKSLKIRIDGHLVSIAE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 T R+ Y+KP G + T +DP+GR TVFD LP SR I+VGRLD+NT GLLL T Sbjct: 62 STTEVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPRLRGSRWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G+V DK+ L KG+ ++ + +G N Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGEVGDDKIRQLSKGVQLEDGPAAFKTLRFAGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK---KILR 242 W V L EG+NRE+++++E +V+RL+R+ YG QL L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLMRVRYGDIQLPKGLPRGGWMELELPAVNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 +G + EE + T + +++S + Sbjct: 242 TLVG--MPEETVTKVAVEKDRRRTKANQIRRAVKRHSQVSNSPRRSSKR 288 >gi|313901058|ref|ZP_07834546.1| 16S pseudouridylate 516 synthase [Clostridium sp. HGF2] gi|312954016|gb|EFR35696.1| 16S pseudouridylate 516 synthase [Clostridium sp. HGF2] Length = 233 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 66/235 (28%), Positives = 114/235 (48%), Gaps = 10/235 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A AG+ +R+EV+ I + RV VNG + + + D + +D + E Sbjct: 1 MRLDKYLAHAGLGTRKEVKLAIRKGRVSVNGEVCRKDDRKIQEGVDVVCLDKEEI-YYEA 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 + +KP +V+ SDP TV D + + + VGRLD++TEGLLL+TNDG LA Sbjct: 60 VVYIMLNKPQDVVSATSDPTY-ETVLDCIDAFLPKDCFPVGRLDMDTEGLLLITNDGKLA 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V + + L+ G IV+ +V + + + Sbjct: 119 HRLLSPKHHVEKTYLVDLAQPLQEGDQKKLENGSIVLDEEPVLPARVEIL----EDTQIL 174 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 + ++EG+ ++K++ +V L RI+ GP +L L +G R +S++ + Sbjct: 175 LHIQEGRFHQVKRMLHAIGNEVVHLKRIAMGPLRLDEALASGEWRYLSEEEITAL 229 >gi|311899116|dbj|BAJ31524.1| putative ribosomal large subunit pseudouridine synthase B [Kitasatospora setae KM-6054] Length = 428 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 75/231 (32%), Positives = 120/231 (51%), Gaps = 2/231 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 +R+ KV+ARAG+ SRR E +IAQ RV VNG + V D I+VDG+ + Sbjct: 190 DGERLQKVLARAGMGSRRACEELIAQGRVDVNGETVLEQGRRVDPVKDEIKVDGLTV-AT 248 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+V+T DP+GR + D + + +R+ VGRLD TEG++LLTN G L Sbjct: 249 QSYLFFALNKPAGVVSTMEDPEGRQCLGDYVTNRETRLFHVGRLDTETEGIILLTNHGEL 308 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y G + +D L KG+ ++ + + G N V Sbjct: 309 AHRLTHPKYGVTKTYLAAIQGPLPRDLGKTLAKGVELEDGWARADSFKVISNLGKNYLVE 368 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ ++++ + V++L+R ++GP LG +G R ++ + Sbjct: 369 VTLHEGRKHIVRRLLAEVGFPVDKLVRTAFGPITLGDQKSGWLRRLTNPEV 419 >gi|312793399|ref|YP_004026322.1| pseudouridine synthase [Caldicellulosiruptor kristjanssonii 177R1B] gi|312877026|ref|ZP_07736999.1| pseudouridine synthase [Caldicellulosiruptor lactoaceticus 6A] gi|311796167|gb|EFR12523.1| pseudouridine synthase [Caldicellulosiruptor lactoaceticus 6A] gi|312180539|gb|ADQ40709.1| pseudouridine synthase [Caldicellulosiruptor kristjanssonii 177R1B] Length = 232 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 66/232 (28%), Positives = 112/232 (48%), Gaps = 11/232 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K + G SR +V+++I + V VNG + + D +EVDG + K R Sbjct: 1 MRLDKFLTHCGFGSRSQVKKLIREGIVTVNGKRIVEVDFKINPEEDVVEVDGR-VAKFSR 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G V ++ DP TVF + + + +VGRLD + EGLL++T+DG Sbjct: 60 QIYIMMNKPKGYVCSNDDP-ASLTVFSLISDDLKYRDLHTVGRLDKDAEGLLIITDDGEY 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 + P + + Y VR +VD++KL + GI++ G + T+ + V Sbjct: 119 THRVISPKKRIEKEYLVRLEKEVDEEKLKEFENGIILDDGYKTLPAKYTI----IDSTTV 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + + EGK ++K++FE KV L R+ G L L G + + ++ Sbjct: 175 KLCIYEGKYHQVKRMFEAIGNKVVDLKRLRIGGLNLDQNLKPGEYKVIDREE 226 >gi|256424973|ref|YP_003125626.1| pseudouridine synthase [Chitinophaga pinensis DSM 2588] gi|256039881|gb|ACU63425.1| pseudouridine synthase [Chitinophaga pinensis DSM 2588] Length = 389 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 72/351 (20%), Positives = 139/351 (39%), Gaps = 27/351 (7%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAERT 73 ++K I+ G SRRE + +I RV +N D +EVDG + K E+ Sbjct: 7 LNKFISDTGYCSRREADNLITSGRVLLNDRPAA-LGNRYKPGDTVEVDGSLITAAKKEKR 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G +TT ++ + + + + R+ +GRLD ++EGL+ LTNDG + Sbjct: 66 VYLALNKPPG-ITTTTELHIKDNIISFV-NYPQRIFPIGRLDKDSEGLIFLTNDGDIINK 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y VR + +D + L+ + +G+ I +V + ++ + L Sbjct: 124 ILRAANNHEKEYVVRVNKPIDTNFLHQMSQGVPILDTRTLPCKVQMTGRQ----TFRITL 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +G NR+I+++ E+ + V L R+ +L L G R +S+ + ++E+ Sbjct: 180 TQGLNRQIRRMCEYLGYTVVGLQRVRIMNVRLDKLPLGKWRYLSEAEI------AFIKES 233 Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASN 313 + + R V + ++ + + K++A P R Sbjct: 234 VAD-STKVSGESKPSGARRKTAKPVEEKEHLRTGSTPKNKPATGHKRVAAPAKHREEQEP 292 Query: 314 VWMAKGIHSSFLSDSGQREENHRR----------SPSFPSKRSLRRTSAKK 354 +M K S + HR S + + S + Sbjct: 293 AFMPKN-KPSAGHNRAAAPAKHREQQEPAFTPKNKSSTHKHKPADKDSKPQ 342 >gi|313632172|gb|EFR99245.1| ribosomal small subunit pseudouridine synthase A [Listeria seeligeri FSL N1-067] Length = 233 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 108/233 (46%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K+++ G SRREV+ ++ V VNG++ + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRREVKPLLKSGSVVVNGVIQKDSKSQVNPEKDQITVHGNPVIYQE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG L Sbjct: 60 FVYFMLHKPQNVVSATED-NLSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y + G V + + GI + G + + + Sbjct: 119 AHNLLSPKKHIDKTYYAKIEGDVTATDVEAFRTGITLDDGYTCKPAHLEIMAPN----EI 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V ++EGK ++K++F V L R+S G L +L G R +++ L Sbjct: 175 RVTIQEGKFHQVKRMFAATGKTVTYLKRLSMGKLMLDESLGLGEYRSLTEDEL 227 >gi|289435619|ref|YP_003465491.1| ribosomal small subunit pseudouridine synthase A [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|289171863|emb|CBH28409.1| ribosomal small subunit pseudouridine synthase A [Listeria seeligeri serovar 1/2b str. SLCC3954] Length = 233 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 108/233 (46%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K+++ G SRREV+ ++ V VNG++ + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRREVKPLLKSGSVVVNGVIQKDSKSQVNPEKDQITVHGNPVIYQE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ HKP +V+ D + TV D L + VGRLD +TEGLL++TNDG L Sbjct: 60 FVYFMLHKPQNVVSATED-NLSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y + G V + + GI + G + + + Sbjct: 119 AHNLLSPKKHIDKTYYAKIEGDVTATDVEAFRTGITLDDGYTCKPAHLEIMAPN----EI 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V ++EGK ++K++F V L R+S G L +L G R +++ L Sbjct: 175 RVTIQEGKFHQVKRMFAATGKTVIYLKRLSMGKLMLDESLGLGEYRSLTEDEL 227 >gi|320528289|ref|ZP_08029451.1| hypothetical protein HMPREF9430_01576 [Solobacterium moorei F0204] gi|320131203|gb|EFW23771.1| hypothetical protein HMPREF9430_01576 [Solobacterium moorei F0204] Length = 243 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 88/235 (37%), Positives = 136/235 (57%), Gaps = 3/235 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA+AGIASRR+ E +I +VKVNG+++ V D I V+GV L+K E+ Sbjct: 2 ERLQKTIAKAGIASRRKAEELIVSGKVKVNGVVVTELGTQVSPDDDISVNGVVLKKEEK- 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP ++++ SD GR TV L + R+ VGRLD +T G+LLLTNDG A Sbjct: 61 VYYLLNKPRRVISSVSDEKGRETVLAYLSDVRERIYPVGRLDYDTSGILLLTNDGDFANA 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + PS+ + Y V G + D LN L +GI++ +V L + K + + + Sbjct: 121 MMHPSSHLPKTYEVAVTGVLTDDMLNRLARGIMLSDGKTLPAEVVLLERSTKKNKTVLHI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 ++EG+NRE++++ E+F+ +V RL RI YG LG L G R++ +R+ L Sbjct: 181 TIQEGRNREVRRMMEYFHCEVTRLNRIGYGFLDLGNLRQGQYRKLRSFEVRKLLA 235 >gi|302550431|ref|ZP_07302773.1| pseudouridine synthase [Streptomyces viridochromogenes DSM 40736] gi|302468049|gb|EFL31142.1| pseudouridine synthase [Streptomyces viridochromogenes DSM 40736] Length = 372 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 76/239 (31%), Positives = 123/239 (51%), Gaps = 2/239 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEV 62 K +R+ KV+ARAG SRR E +I + RV++NG ++ V D I+V Sbjct: 126 KTFPGAEQEGERLQKVLARAGFGSRRACEELIEEARVEINGEIVLEQGRRVDPEKDEIKV 185 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG+ + + + + +KP G+V+T DP+GR + D + + +R+ VGRLD TEG++ Sbjct: 186 DGLTV-ATQSYQFFSLNKPAGVVSTMEDPEGRQCLGDYVTNRETRLFHVGRLDTETEGVI 244 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTN G LA L P + Y G + +D LK GI ++ + Q Sbjct: 245 LLTNHGELAHRLTHPKYGVKKTYLAHIVGPIPRDLGKQLKDGIQLEDGYARADHFRVVQQ 304 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G N V V L EG+ ++++ + V++L+R+++GP LG +G R +S + Sbjct: 305 TGKNYLVEVTLHEGRKHIVRRMLAEAGFPVDKLVRVAFGPITLGDQKSGWLRRLSNTEV 363 >gi|295105192|emb|CBL02736.1| ribosomal small subunit pseudouridine synthase A [Faecalibacterium prausnitzii SL3/3] Length = 233 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 68/232 (29%), Positives = 111/232 (47%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R E + M+A+ RV+VNG + ++ + D + VDG PLR ++ Sbjct: 1 MRLDKYLAETAQCTRSEAKTMLAKGRVQVNGAVCKKGDTQLKDNDTVTVDGAPLRY-QKF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+V+ +D +TV D + + R + GRLD + G +LLT+DGG A Sbjct: 60 VYLMLNKPEGVVSASTDKRD-TTVVDLVGDAYPRRELFPAGRLDKTSTGFVLLTDDGGFA 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + P + Y V + Q+ G+ + G +VT + G V Sbjct: 119 HDILSPRHHVSKTYTVTIDTPLTQEMRTGFAAGVTLADGTALSPAEVTALSPDG--CTVR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V LR+G +IK++F + VN L R + G L L G RE+S + + Sbjct: 177 VVLRQGVYHQIKRMFGVYGAGVNALHREAIGGLALDAQLAPGQWRELSDEEV 228 >gi|239978707|ref|ZP_04701231.1| pseudouridine synthase [Streptomyces albus J1074] gi|291450599|ref|ZP_06589989.1| pseudouridine synthase [Streptomyces albus J1074] gi|291353548|gb|EFE80450.1| pseudouridine synthase [Streptomyces albus J1074] Length = 351 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 77/231 (33%), Positives = 122/231 (52%), Gaps = 2/231 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 +R+ KV+ARAG SRR E +I RV+VNG ++ + V D I+VDG+ + Sbjct: 113 EGERLQKVLARAGYGSRRACEELIEDARVEVNGEIVLEQGLRVDPENDEIKVDGLTV-AT 171 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + + +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++LLTN G L Sbjct: 172 QSYQFFSLNKPAGVVSTMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGVILLTNHGEL 231 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y G + +D LK GI ++ + Q G N V Sbjct: 232 AHRLTHPRYGVKKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVEQTGKNYLVE 291 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ ++++ + V++L+R+++GP LG +G R +S + Sbjct: 292 VTLHEGRKHIVRRMLAEAGFPVDKLVRVAFGPITLGDQKSGWLRRLSNTEV 342 >gi|255530412|ref|YP_003090784.1| RNA-binding S4 domain-containing protein [Pedobacter heparinus DSM 2366] gi|255343396|gb|ACU02722.1| RNA-binding S4 domain protein [Pedobacter heparinus DSM 2366] Length = 472 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 74/237 (31%), Positives = 117/237 (49%), Gaps = 4/237 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGV 65 VQ++ R+++ I+ +GI SRR+ + +I V VNG ++ + D + +G Sbjct: 230 VQKDDGLIRLNRYISNSGICSRRKADELIEAGVVSVNGEVVSELGHKIDPVKDQVRYNGE 289 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLL 124 L++ E+ L +KP +TT DP R TV + R+ VGRLD NT GLLL+ Sbjct: 290 LLKR-EKKIYVLLNKPKDYITTTDDPQERRTVMQLVEKASRERIYPVGRLDRNTTGLLLM 348 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LA L P ++Y V + Q LN ++ G+ ++ V+ T G Sbjct: 349 TNDGDLADKLSHPKNGITKIYHVELSRSLSQGDLNKIQFGLELEDGIIKPDSVSYVTG-G 407 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 S V + + GKNR ++++FE + V +L R+ YG L G R + + L Sbjct: 408 SKREVGIQIHSGKNRIVRRIFEHLGYDVVKLDRVVYGNLTKKDLPRGRWRYLEEHEL 464 >gi|308174693|ref|YP_003921398.1| 16S pseudouridylate synthase [Bacillus amyloliquefaciens DSM 7] gi|307607557|emb|CBI43928.1| putative 16S pseudouridylate synthase [Bacillus amyloliquefaciens DSM 7] gi|328913028|gb|AEB64624.1| putative 16S pseudouridylate synthase [Bacillus amyloliquefaciens LL3] Length = 240 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 67/236 (28%), Positives = 112/236 (47%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A +G SR++V++++ V ++G + ++V I V G P E Sbjct: 2 MRLDKLLANSGFGSRKDVKKIVKAGAVMIDGEPAKDVKIHVDPDKQDITVYGEPAEYREF 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+++ D + TV D L R GRLD +TEG LLLTNDG L Sbjct: 62 IYVMM-NKPQGVLSATEDSR-QQTVVDLLTPEEQRFEPFPAGRLDKDTEGFLLLTNDGQL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWV 189 A L P + Y VR + + + L++G+VI+G V T+ + Sbjct: 120 AHRLLSPKKHVPKTYEVRLTSPLSPEDIIDLERGVVIEGGYKTKPAAVKTITESPDETVI 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + + EGK ++K + + +V L R+S G L L G RE++++ L Sbjct: 180 HLTITEGKYHQVKLMAKAVGNEVAYLKRLSMGAVSLDPELKPGEFRELTEEELAAL 235 >gi|40890007|pdb|1VIO|A Chain A, Crystal Structure Of Pseudouridylate Synthase gi|40890008|pdb|1VIO|B Chain B, Crystal Structure Of Pseudouridylate Synthase Length = 243 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 59/233 (25%), Positives = 110/233 (47%), Gaps = 5/233 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E + Sbjct: 4 RLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWIEEGQ 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G V ++ D D T++ + ++ S GRLD++T GL+LLT+DG + Sbjct: 64 YFMLNKPQGCVCSNDDGDY-PTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+++ +GI+++G L+ N V + + Sbjct: 123 ITSPKHHCEKTYLVTLADPVEENYSAACAEGILLRGEKEPTKPAKLEILDDYN--VNLTI 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 EG+ ++K++F KV L R G L +L G R +++ + + + Sbjct: 181 SEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLV 233 >gi|297195213|ref|ZP_06912611.1| pseudouridine synthase [Streptomyces pristinaespiralis ATCC 25486] gi|297152696|gb|EFH31937.1| pseudouridine synthase [Streptomyces pristinaespiralis ATCC 25486] Length = 368 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 75/233 (32%), Positives = 122/233 (52%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 + +R+ KV+ARAG+ SRR E +I RV+VNG ++ V V D I+VDG+ + Sbjct: 128 DQEGERLQKVLARAGMGSRRACEELIDAGRVEVNGKIVIEQGVRVDPEQDEIKVDGLTV- 186 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++LLTN G Sbjct: 187 ATQSHLFFALNKPAGVVSTMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGIILLTNHG 246 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + Y G + ++ LK+GI ++ + G N Sbjct: 247 ELAHRLTHPKYGVKKTYLAAIQGPLPRELGKRLKEGIQLEDGYARADHFRVVENTGKNYL 306 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V++L+R ++GP LG +G R ++ + Sbjct: 307 VEVTLHEGRKHIVRRMLSEAGFPVDKLVRTAFGPIALGDQKSGWLRRLTNTEV 359 >gi|91228669|ref|ZP_01262584.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 12G01] gi|269967050|ref|ZP_06181118.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 40B] gi|91187790|gb|EAS74107.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 12G01] gi|269828309|gb|EEZ82575.1| pseudouridine synthase family 1 protein [Vibrio alginolyticus 40B] Length = 312 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 104/301 (34%), Positives = 149/301 (49%), Gaps = 13/301 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----PLR 68 +++ KV+ARAG SRRE+E +I RV VNG++ + + + +DG ++ Sbjct: 2 SEKLQKVLARAGHGSRREIESLIKSGRVSVNGVVAKLGERLEDESSVVRIDGHIVSAKIQ 61 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 + R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G+V + K+ L KG+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGEVTEQKVRNLVKGVELEDGLARFEDVVYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWESQECTVSRLKRVRYGDIFLDKKLPRGGWMELDLKEVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E ++L+ +S R R I R ++ + G S Sbjct: 242 LVELRPEKETMLDLNKD-NTSRKRERARSQKIRR---AVKRHEERVNTPKGRSNNPSRRK 297 Query: 304 P 304 P Sbjct: 298 P 298 >gi|262198800|ref|YP_003270009.1| pseudouridine synthase [Haliangium ochraceum DSM 14365] gi|262082147|gb|ACY18116.1| pseudouridine synthase [Haliangium ochraceum DSM 14365] Length = 553 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 74/242 (30%), Positives = 125/242 (51%), Gaps = 7/242 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R+ + +++ G+A+RR+ E +I V VNG + V+ D + V G + Sbjct: 2 DEAIRLQRYLSQCGVAARRKAEELITSGVVSVNGQRVTELGTKVVPGRDRVSVRGEAV-Y 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L +KP G +T +DP+ R TV + L + +RV+ VGRLD +EG+LLLTNDG Sbjct: 61 PEEPFYVLLNKPKGCLTAVTDPENRPTVMEYLHGLPARVVPVGRLDFYSEGVLLLTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNA- 187 L+ L+ P + Y V+ QV + L +L++G+ ++ Q+ + S Sbjct: 121 LSARLQSPRHHVEKTYHVKVRDQVTERHLEVLRQGVRLEDGTVTRPAQIDMLGGTKSRHD 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI---LREQ 244 W+ + L EGK+R+I ++ + V +L R+++G L G RE+++ LRE Sbjct: 181 WLVITLTEGKSRQIHRMLGVLGYTVMKLQRVAFGGLTFHGLRVGDARELTQAEVNDLREL 240 Query: 245 LG 246 +G Sbjct: 241 VG 242 >gi|330004789|ref|ZP_08305026.1| ribosomal large subunit pseudouridine synthase F [Klebsiella sp. MS 92-3] gi|328536522|gb|EGF62861.1| ribosomal large subunit pseudouridine synthase F [Klebsiella sp. MS 92-3] Length = 284 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 73/295 (24%), Positives = 129/295 (43%), Gaps = 23/295 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE--R 72 R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + E Sbjct: 8 RLNKYISESGICSRREADRFIEQGNVFINGKRAT-IGDQVKPGDLVKVNGRLIEPREADD 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G+V+T D + R + D + + R+ +GRLD +++GL+ LTN G L Sbjct: 67 LVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRIFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V V + + + G+ I G +K + + Sbjct: 125 KILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPILGTVTK----KCKVKKEAPFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E F ++V +L R L + G R+++ L + L+E Sbjct: 181 LVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLTGIPLGEWRDLTDDELIDLF--KLIEN 238 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVP---DDFTRMKKNSSQKNGLSKQKKLATP 304 + SSE + RP + P +M+ ++ + K+ P Sbjct: 239 S---------SSEAKPKARPKAKAATPGIKRPVVKMENSNDKGRPAGNGKRFTQP 284 >gi|311110505|ref|ZP_07711902.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus gasseri MV-22] gi|311065659|gb|EFQ45999.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus gasseri MV-22] Length = 240 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 72/240 (30%), Positives = 117/240 (48%), Gaps = 8/240 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E R+ K +A + SR+EV +I ++ V VNG L+ V TD + VDG + Sbjct: 3 EKDIEMRIDKYLANMNVGSRKEVHSLIKKKVVTVNGELVTIPKQQVKETDLVAVDGNKIA 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTN 126 ++ +L +KP G+++ D + TV L + + VGRLD +T GLLLLTN Sbjct: 63 Y-QQYHYFLLNKPKGVISATED-RSQQTVISLLKTKDRYQGIAPVGRLDKDTTGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS 185 DG LA L P+ +VYR + G D + +G+++ G ++ + Q Sbjct: 121 DGALAHELLAPNKHVAKVYRAKIAGVPDPETAKKFAQGLILGDGTKLKPAKLKILKQDQD 180 Query: 186 N--AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 N + + + ++EGK +IK++F KV L R+S G L L G +E+ ++ Sbjct: 181 NNLSQIEIQIQEGKYHQIKRMFGAVGMKVLELDRVSMGKLHLPADLKRGEYKEIDLAEIK 240 >gi|218885473|ref|YP_002434794.1| pseudouridine synthase [Desulfovibrio vulgaris str. 'Miyazaki F'] gi|218756427|gb|ACL07326.1| pseudouridine synthase [Desulfovibrio vulgaris str. 'Miyazaki F'] Length = 251 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 79/244 (32%), Positives = 121/244 (49%), Gaps = 7/244 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR---KA 70 R++K IA AG+ SRR+ + +I Q V+VNG +++ V+ D IEV G L Sbjct: 7 RLNKAIAGAGVCSRRQADDLIQQGVVRVNGEVVDTPGARVVPGRDRIEVRGQLLELDAAP 66 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDG 128 + HKP+ +V+T DP GR TV LP R+ VGRLD +EGLL+LT+DG Sbjct: 67 AAFTYVMLHKPVQVVSTVRDPQGRPTVLGILPPDLRGGRLYPVGRLDYFSEGLLILTDDG 126 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNA 187 L L P +VY V+ G V + L +++G+ + +G + V L + Sbjct: 127 DLTNRLTHPRYHLPKVYMVKVRGHVTESTLAPMRQGMTLAEGEKLAPVDVRLLQSDRQAS 186 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ V L R+ GP +LG L G+ R ++ + Sbjct: 187 LFEMTLHQGVNRQIRRMCRDLGLTVLLLRRVRQGPLELGELPKGAARRLTPHEVAALRRA 246 Query: 248 HLLE 251 LE Sbjct: 247 AGLE 250 >gi|160881056|ref|YP_001560024.1| pseudouridine synthase [Clostridium phytofermentans ISDg] gi|160429722|gb|ABX43285.1| pseudouridine synthase [Clostridium phytofermentans ISDg] Length = 477 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 72/352 (20%), Positives = 139/352 (39%), Gaps = 10/352 (2%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + + R++K ++ +GI SRRE + IA+ V ++G + V+ + + Sbjct: 10 DTEETGEKAVRINKYLSESGICSRREADTRIAKGEVTIDGEVA-VMGSKVLPGQKVVLGK 68 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + E+ L +HKP G+V T ++ + D + R+ +GRLD ++EGL+ L Sbjct: 69 KEVSREEKMVLIAFHKPKGIVCT-TEKREPDNIIDYI-KYSQRIYPIGRLDKDSEGLIFL 126 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TN+G + + + Y V + + L + G+ I + + Sbjct: 127 TNNGDIVNKILRAGNHHEKEYIVTVNKPITAAFLKGMAGGVPILDTVTKPCTL----EAI 182 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL--- 241 + L +G NR+I+++ E F++KV +L+RI LG L G R ++ K L Sbjct: 183 DKVTFRIILTQGLNRQIRRMCEHFDYKVTKLVRIRIMNVNLGRLKVGGYRNLTDKELEGI 242 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 +EQ+ E + D V + R K+ +K+ Sbjct: 243 KEQIELSNNEALNLEPDDEFPIERVNVANIAKTHGNNVATGKRRTKDKYFAEKKDDKKRS 302 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 ++ + K + F S + SF + + S++ Sbjct: 303 DATRNKAEVNKFASKNKSEGNKFGSKNSSEGNKFGSKNSFEGNKFGSKNSSE 354 >gi|153853074|ref|ZP_01994483.1| hypothetical protein DORLON_00468 [Dorea longicatena DSM 13814] gi|149753860|gb|EDM63791.1| hypothetical protein DORLON_00468 [Dorea longicatena DSM 13814] Length = 237 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 65/235 (27%), Positives = 116/235 (49%), Gaps = 9/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ +R+EV++ I Q +V VNG +++ A + T D + + G + Sbjct: 2 MRLDKYLAEMGVGTRQEVKKQIRQGKVTVNGTVVKAADTKIDETCDEVTIGGRNISYV-S 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ D +TV D + + + VGRLD +TEGLLL+TNDG LA Sbjct: 61 YEYYMLNKPGGVVSATEDRRD-TTVIDLIKDKKRKDLFPVGRLDKDTEGLLLITNDGDLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAW 188 L P +VY + G V ++ + +GI I + ++ + + + Sbjct: 120 HRLLAPKKHVDKVYYAKIDGMVTEEDVKRFAEGIDIGAEEEEMTRPAKLDIM-KSAEESE 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + + EGK ++K++F +V L R GP L L G R ++++ + Sbjct: 179 IRLTIHEGKFHQVKRMFLAVGKEVTYLKRERMGPLCLDENLKPGEYRLLTEEEIE 233 >gi|148983686|ref|ZP_01817005.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP3-BS71] gi|148996705|ref|ZP_01824423.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP11-BS70] gi|168490791|ref|ZP_02714934.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae CDC0288-04] gi|182683261|ref|YP_001835008.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CGSP14] gi|194398298|ref|YP_002036978.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae G54] gi|225853878|ref|YP_002735390.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae JJA] gi|303255185|ref|ZP_07341259.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS455] gi|303259389|ref|ZP_07345366.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP-BS293] gi|303261144|ref|ZP_07347093.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP14-BS292] gi|303263472|ref|ZP_07349395.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS397] gi|303265764|ref|ZP_07351662.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS457] gi|303267805|ref|ZP_07353607.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS458] gi|307066956|ref|YP_003875922.1| 16S rRNA uridine-516 pseudouridylate synthase-like pseudouridylate synthase [Streptococcus pneumoniae AP200] gi|147757280|gb|EDK64319.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP11-BS70] gi|147923833|gb|EDK74945.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP3-BS71] gi|182628595|gb|ACB89543.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae CGSP14] gi|183574853|gb|EDT95381.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae CDC0288-04] gi|194357965|gb|ACF56413.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae G54] gi|225722369|gb|ACO18222.1| RNA pseudouridine synthase family protein [Streptococcus pneumoniae JJA] gi|301799421|emb|CBW31958.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus pneumoniae OXC141] gi|301801222|emb|CBW33896.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus pneumoniae INV200] gi|302597818|gb|EFL64890.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS455] gi|302637981|gb|EFL68467.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP14-BS292] gi|302639323|gb|EFL69781.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae SP-BS293] gi|302642501|gb|EFL72846.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS458] gi|302644672|gb|EFL74921.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS457] gi|302647245|gb|EFL77469.1| ribosomal small subunit pseudouridine synthase A [Streptococcus pneumoniae BS397] gi|306408493|gb|ADM83920.1| 16S rRNA uridine-516 pseudouridylate synthase-like pseudouridylate synthase [Streptococcus pneumoniae AP200] gi|332077581|gb|EGI88042.1| hypothetical protein SPAR68_0323 [Streptococcus pneumoniae GA41301] gi|332202193|gb|EGJ16262.1| hypothetical protein SPAR69_0304 [Streptococcus pneumoniae GA41317] gi|332204287|gb|EGJ18352.1| hypothetical protein SPAR120_0252 [Streptococcus pneumoniae GA47901] Length = 240 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 71/235 (30%), Positives = 115/235 (48%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ DP R TV D L V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYMMNKPKGVISATEDPKHR-TVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNNGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A VL P + Y+ + G + Q+ + KGI ++ ++ + + + + + Sbjct: 119 AHVLLSPKRHVDKTYQAQVKGIMTQEDVETFIKGIPLKDFTCQPARLEILSTDAEKNQSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 179 IRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >gi|325954742|ref|YP_004238402.1| pseudouridine synthase Rsu [Weeksella virosa DSM 16922] gi|323437360|gb|ADX67824.1| pseudouridine synthase Rsu [Weeksella virosa DSM 16922] Length = 297 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 76/243 (31%), Positives = 125/243 (51%), Gaps = 7/243 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K K +++ T R++K IA AGI+SRRE + +I V VNG ++ V TD + Sbjct: 53 KLKPAPKDDGT-IRLNKYIANAGISSRREADELILTGVVTVNGKVITEMGYKVQPTDEVR 111 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEG 120 DG + AE+ ++ +KP G +TT D R TV D + +R+ VGRLD T G Sbjct: 112 FDGKKIS-AEKNVYFILNKPKGYITTTKDEKNRQTVLDLMEGATTARIFPVGRLDRQTTG 170 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVT 178 +LL TNDG L + L PS +VY V ++ + ++KGI + +G+ D Sbjct: 171 VLLFTNDGFLTKKLTHPSHDVKKVYHVTLDRKLSSHDMAEIRKGIRLIPEGVATVDEVSF 230 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +D + + + + L G NR ++++FE ++V +L R+S+ L G R ++ Sbjct: 231 IDGR--PHNEIGLELHIGWNRVVRRIFESLGYQVEKLDRVSFAGLTKSKLRQGQYRALTP 288 Query: 239 KIL 241 + + Sbjct: 289 QEV 291 >gi|302330665|gb|ADL20859.1| Putative pseudourin ine synthase B [Corynebacterium pseudotuberculosis 1002] gi|308276349|gb|ADO26248.1| 16S rRNA uridine-516 pseudouridylate synthase-like pseudouridylate synthase [Corynebacterium pseudotuberculosis I19] Length = 286 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 77/245 (31%), Positives = 120/245 (48%), Gaps = 4/245 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 ++ ++ R+ KV+A+AG+ASRR E +I R++VNG ++ V V D Sbjct: 33 VEQRDFGSPTGEGIRLQKVLAQAGVASRRHAEILIDAGRIEVNGKIVLTQGVRVNPHADI 92 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDI 116 I VDGV + E + ++ +KP GL +T SD GR V D + R+ VGRLD Sbjct: 93 IRVDGVRINVNEDMQYFVLNKPRGLQSTMSDDMGRPCVGDIVGERIAAGQRLFHVGRLDA 152 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 TEGLLLLTNDG LA L P + + Y G+ D+ + L+ GI + Sbjct: 153 ATEGLLLLTNDGELANRLMHPKYEVTKTYLATVLGEADKRLIKQLRDGIELDDGPAKADF 212 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + + + L EG+ ++++ + + V RL+R QLG G+ R + Sbjct: 213 VQIVDAHQGKSLIRIELHEGRKHIVRRMLKTAGFPVERLVRTKIHTIQLGEQTPGAVRAL 272 Query: 237 SKKIL 241 + L Sbjct: 273 NSSEL 277 >gi|288553832|ref|YP_003425767.1| pseudouridine synthase [Bacillus pseudofirmus OF4] gi|288544992|gb|ADC48875.1| pseudouridine synthase [Bacillus pseudofirmus OF4] Length = 233 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 65/225 (28%), Positives = 114/225 (50%), Gaps = 8/225 (3%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTRLWLY 78 ++ G SR+EV++++ V++N +++ + V + V G + + + Sbjct: 2 LSNMGYGSRKEVKKVLKSGSVRINEKVIKDGSYKVDPDQSDVTVHGELVEY-KPYVYLML 60 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +KP G+++ D + TV D L + VGRLD +TEG+LLLTNDG + L Sbjct: 61 NKPQGVISATED-NHHKTVIDLLDESYLLYDPFPVGRLDKDTEGMLLLTNDGKFSHSLMS 119 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVGLRE 195 P + Y + G V ++ + L KKG+ + G +T+ T G + V + + E Sbjct: 120 PKKHVKKTYYAKVKGTVTEEDIGLFKKGVTLDDGYVTKPADLTIITA-GEQSEVELTITE 178 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 GK ++K++FE + KV L RIS G +L +L G RE++++ Sbjct: 179 GKFHQVKRMFEAVDKKVTFLKRISIGGLKLDPSLEKGMVRELTEE 223 >gi|269978223|ref|ZP_06185173.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus mulieris 28-1] gi|306818599|ref|ZP_07452322.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus mulieris ATCC 35239] gi|269933732|gb|EEZ90316.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus mulieris 28-1] gi|304648772|gb|EFM46074.1| ribosomal large subunit pseudouridine synthase B [Mobiluncus mulieris ATCC 35239] Length = 278 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 70/230 (30%), Positives = 118/230 (51%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P R+ K++++AG+ASRR E +I + RV+V+G + + V+ + I V+G + Sbjct: 40 EPVRLQKLLSQAGVASRRASEDLIKRGRVQVDGETVTEMGLKVLPSARITVNGQRIHTDA 99 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++W ++KP+G V+T D R + D + RV VGRLD+ T GL+LLTN+G LA Sbjct: 100 ALQVWAFNKPVGTVSTMQPEDDRPCLGDWATKLPQRVFHVGRLDVATSGLILLTNNGDLA 159 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y GQV +L++G+ ++ L + ++ V + Sbjct: 160 NRLVHPRYEVPKTYVAMVQGQVKPGLGKVLRRGVELEDGVTKVDTFKLVEVRRGSSIVQL 219 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L GKNR ++++ V+ L R + G +LG L G R ++ L Sbjct: 220 TLHSGKNRVVRRLLSEVGHPVSALTRTAIGTLRLGDLKEGHFRLLTGSDL 269 >gi|328554622|gb|AEB25114.1| 16S pseudouridylate synthase [Bacillus amyloliquefaciens TA208] Length = 239 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 67/236 (28%), Positives = 112/236 (47%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A +G SR++V++++ V ++G + ++V I V G P E Sbjct: 1 MRLDKLLANSGFGSRKDVKKIVKAGAVMIDGEPAKDVKIHVDPDKQDITVYGEPAEYREF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+++ D + TV D L R GRLD +TEG LLLTNDG L Sbjct: 61 IYVMM-NKPQGVLSATEDSR-QQTVVDLLTPEEQRFEPFPAGRLDKDTEGFLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWV 189 A L P + Y VR + + + L++G+VI+G V T+ + Sbjct: 119 AHRLLSPKKHVPKTYEVRLTSPLSPEDIIDLERGVVIEGGYKTKPAAVKTITESPDETVI 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + + EGK ++K + + +V L R+S G L L G RE++++ L Sbjct: 179 HLTITEGKYHQVKLMAKAVGNEVAYLKRLSMGAVSLDPELKPGEFRELTEEELAAL 234 >gi|29833054|ref|NP_827688.1| pseudouridine synthase [Streptomyces avermitilis MA-4680] gi|29610175|dbj|BAC74223.1| putative pseudouridine synthase [Streptomyces avermitilis MA-4680] Length = 356 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 79/244 (32%), Positives = 126/244 (51%), Gaps = 2/244 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEV 62 K +R+ KV+ARAG SRR E +I Q RV+VNG ++ + V D I+V Sbjct: 110 KTFPGAEQEGERLQKVLARAGYGSRRSCEELIEQARVEVNGEIVLEQGLRVDPEKDEIKV 169 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG+ + + + + +KP G+V+T D +GR + D + + +R+ VGRLD TEG++ Sbjct: 170 DGLTV-ATQSYQFFSLNKPAGVVSTMEDTEGRQCLGDYVTNRETRLFHVGRLDTETEGVI 228 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTN G LA L P +VY G + +D LK GI ++ + Q Sbjct: 229 LLTNHGELAHRLTHPKYGVKKVYLAHIVGPIPRDLGKRLKDGIQLEDGYAKADHFRVVEQ 288 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 G N V V L EG+ ++++ + V++L+R+++GP LG +G R +S + Sbjct: 289 TGKNYLVEVTLHEGRKHIVRRMLAEAGFPVDKLVRVAFGPITLGDQKSGWLRRLSNTEVG 348 Query: 243 EQLG 246 +G Sbjct: 349 MLMG 352 >gi|254303780|ref|ZP_04971138.1| pseudouridylate synthase [Fusobacterium nucleatum subsp. polymorphum ATCC 10953] gi|148323972|gb|EDK89222.1| pseudouridylate synthase [Fusobacterium nucleatum subsp. polymorphum ATCC 10953] Length = 234 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 69/231 (29%), Positives = 130/231 (56%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AE 71 R++K ++ GIASRR +++ I + R+ VNG +++ D+I +DG ++ E Sbjct: 1 MRINKFLSTLGIASRRAIDKYIEEGRITVNGNTATT-GMDINENDNIFIDGKKIKTSINE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP+ ++++ SD GR TV D + R+ +GRLD T GL+LLTNDG L Sbjct: 60 EKVYFMLNKPLEVLSSSSDDRGRKTVVDLI-KTDKRIFPIGRLDYMTSGLILLTNDGELF 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P ++ + Y ++ G++ +++++ LKKG+++ +++ + + + Sbjct: 119 NRVVHPKSEIYKKYYIKILGELKKEEIDELKKGVLLDDGKTLPAKISGIKYDKNKTSMFI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +REG+NR+I+++ E F +KV L R G LG L G RE++K+ + Sbjct: 179 SIREGRNRQIRRMIEKFEYKVLMLRREKIGELALGDLPEGKYRELTKQEVE 229 >gi|283782395|ref|YP_003373150.1| pseudouridine synthase [Pirellula staleyi DSM 6068] gi|283440848|gb|ADB19290.1| pseudouridine synthase [Pirellula staleyi DSM 6068] Length = 811 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 86/291 (29%), Positives = 142/291 (48%), Gaps = 3/291 (1%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHI 60 +K I + +R+ KV+A AGI SRR+ E +I + RV V+G ++ V I Sbjct: 22 PEKQIGPDGVVAERLQKVLAAAGIGSRRDCEELITEGRVDVDGKVVTELGTRVDPVKQTI 81 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 VDG LRK +R ++ +KP G+VTT+ D GR+ V D +P RV +VGRLD +EG Sbjct: 82 RVDGEALRKPQRL-YFVVNKPEGVVTTNYDQAGRTRVIDLVP-TDERVFAVGRLDRASEG 139 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+++TNDG A + P + Y VR G+ +L L++GI + + + Sbjct: 140 LIIVTNDGEFANRVTHPRYGVTKTYLVRVAGEASTAELAKLRRGIHLSDGFCKVDAIQVK 199 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + + + L EGKNREI+++ KV +L R++ G +LG L G+ R + K+ Sbjct: 200 RRHKQSTDMVIQLSEGKNREIRRILARIGHKVLKLKRLAVGSLKLGELPLGAWRWLDKQE 259 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 + L L + ++ + P ++ + S + Sbjct: 260 IERLLSEARLRRKENKKGKSATATTADGKAAPKKPAKSAGAIRDEQGPSEE 310 >gi|297585561|ref|YP_003701341.1| pseudouridine synthase [Bacillus selenitireducens MLS10] gi|297144018|gb|ADI00776.1| pseudouridine synthase [Bacillus selenitireducens MLS10] Length = 237 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 113/231 (48%), Gaps = 8/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRR +++I + +V +NG + V D + V+G P+ + Sbjct: 4 RINKYVSETGKTSRRGADKLIQEGKVTINGKPAQ-LGDQVEPGDDVIVNGEPVHIVKENV 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ +T ++ + + D + R+ +GRLD ++EGL+LLTNDG + + Sbjct: 63 YIALNKPVGITST-TERKVKGNIIDLVNHPL-RIFHIGRLDKDSEGLILLTNDGDIVNEI 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + + L + +G+ I +V K S + L Sbjct: 121 LRAENKHEKEYIVTVNKPITPEFLKQMSEGVDILDTTTLPCKVK----KLSKYEFNITLT 176 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +G NR+I+++ + + V RL+R LG L G R++SKK R QL Sbjct: 177 QGLNRQIRRMCDALGYDVQRLLRTRIMNIHLGKLPPGQWRDLSKKE-RTQL 226 >gi|262171789|ref|ZP_06039467.1| ribosomal large subunit pseudouridine synthase B [Vibrio mimicus MB-451] gi|261892865|gb|EEY38851.1| ribosomal large subunit pseudouridine synthase B [Vibrio mimicus MB-451] Length = 319 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 107/310 (34%), Positives = 151/310 (48%), Gaps = 11/310 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV VNG + + VDG + + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDDNALVRVDGHVVSVKAQ 61 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G V+++K+ L +G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGDVNEEKVRNLVRGVQLEDGMARFEDVMYAGGEGINH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK---ILRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFLDKKLPRGGWMELDLKQVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E +N AP ++ R R I + ++G S ++K Sbjct: 242 LVELRPEKETVLN-TAPDAATRKRERTRSQKIRRAVRRHEERVSTAPGRSG-SARRKPGG 299 Query: 304 PVHRRNLASN 313 RN +N Sbjct: 300 ESSTRNKVAN 309 >gi|253998637|ref|YP_003050700.1| pseudouridine synthase [Methylovorus sp. SIP3-4] gi|313200711|ref|YP_004039369.1| pseudouridine synthase [Methylovorus sp. MP688] gi|253985316|gb|ACT50173.1| pseudouridine synthase [Methylovorus sp. SIP3-4] gi|312440027|gb|ADQ84133.1| pseudouridine synthase [Methylovorus sp. MP688] Length = 362 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 96/348 (27%), Positives = 158/348 (45%), Gaps = 18/348 (5%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + PQR+ K++A AG+ SRRE+E +I R+ +NG + E A V D + D P Sbjct: 22 TDPDAVPQRLHKLLALAGLGSRREMEELILSGRITINGKVAEVGAAVV-PGDVVRFDSRP 80 Query: 67 LRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLL 122 + E ++ +YHKP G + + DP+ R+TVFD LP ++ I++GRLDINT GLL Sbjct: 81 VHLPFEAELAQVLIYHKPEGEIVSQDDPEKRATVFDKLPRVRGAKWIAIGRLDINTSGLL 140 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T G LA P + R Y VR G++ + ++ L +GI ++ + Sbjct: 141 IFTTSGELANRFMHPRYEVEREYAVRIFGELTEGEMLQLTQGIELEDGPASFDSIRPQGG 200 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 +G+N W V LREG+NRE++++F+ F V+RL+R+ +GP L L G + K + Sbjct: 201 EGANHWYQVILREGRNREVRRLFDAFQKPVSRLMRVRFGPVNLPPRLKRGQMLNLDPKEV 260 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDR------PNIISEVPDDFTRMKKNSSQKNGL 295 L L + AP+ +++ P P+ R + + + Sbjct: 261 LGLLEWAGLPLPK----APLRQRTAREKEKAGQVFTPKARRAAPEREPRAEGTTGRPAYG 316 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPS 343 ++ R+ S S + R P+ Sbjct: 317 ARPDAAGRADGRKTSTSPARKP--AQSRRIRQDADIPAPRSRRPATKR 362 >gi|28898725|ref|NP_798330.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus RIMD 2210633] gi|153839754|ref|ZP_01992421.1| RNA pseudouridine synthase family protein [Vibrio parahaemolyticus AQ3810] gi|260363727|ref|ZP_05776503.1| pseudouridine synthase B, ribosomal large subunit [Vibrio parahaemolyticus K5030] gi|260877279|ref|ZP_05889634.1| pseudouridine synthase B, ribosomal large subunit [Vibrio parahaemolyticus AN-5034] gi|260897774|ref|ZP_05906270.1| pseudouridine synthase B, ribosomal large subunit [Vibrio parahaemolyticus Peru-466] gi|260903494|ref|ZP_05911889.1| pseudouridine synthase B, ribosomal large subunit [Vibrio parahaemolyticus AQ4037] gi|34098479|sp|Q87NB7|RLUB_VIBPA RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|28806943|dbj|BAC60214.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus RIMD 2210633] gi|149746721|gb|EDM57709.1| RNA pseudouridine synthase family protein [Vibrio parahaemolyticus AQ3810] gi|308087596|gb|EFO37291.1| pseudouridine synthase B, ribosomal large subunit [Vibrio parahaemolyticus Peru-466] gi|308090332|gb|EFO40027.1| pseudouridine synthase B, ribosomal large subunit [Vibrio parahaemolyticus AN-5034] gi|308106753|gb|EFO44293.1| pseudouridine synthase B, ribosomal large subunit [Vibrio parahaemolyticus AQ4037] gi|308114915|gb|EFO52455.1| pseudouridine synthase B, ribosomal large subunit [Vibrio parahaemolyticus K5030] gi|328474711|gb|EGF45516.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus 10329] Length = 312 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 105/301 (34%), Positives = 147/301 (48%), Gaps = 13/301 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV VNG++ + + + +DG + + Sbjct: 2 SEKLQKVLARAGHGSRREIESLIKSGRVSVNGVVAKLGERLEDESSVVRIDGHIVSAKVQ 61 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G+V + K+ L KG+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGEVTEQKVRNLVKGVELEDGLARFEDVVYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI---LRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWESQECTVSRLKRVRYGDIFLDKKLPRGGWMELDLKEVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E ++L +S R R I R ++ S G S Sbjct: 242 LVELRPEKETMLDLSKD-NTSRKRERARSQKIRR---AVKRHEERVSTSKGRSNNPARRK 297 Query: 304 P 304 P Sbjct: 298 P 298 >gi|163857448|ref|YP_001631746.1| pseudouridine synthase [Bordetella petrii DSM 12804] gi|163261176|emb|CAP43478.1| pseudouridine synthase [Bordetella petrii] Length = 588 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 95/304 (31%), Positives = 145/304 (47%), Gaps = 6/304 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA---E 71 ++ KV+A AGI SRRE+E +I RV VNG V +D + V+G P+ + + Sbjct: 124 KLHKVLADAGIGSRREMEELITAGRVSVNGEPA-HIGQRVAPSDQVRVNGKPVARPNTKK 182 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGL 130 R+ LYHKP G + +H DP GR++VF LP + + + +SVGRLD+NTEGLL+ T G + Sbjct: 183 PPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTEGLLIFTTSGDM 242 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + P R Y VR G++D L +GI ++ + GSN W Sbjct: 243 ANRIMHPRYGTEREYAVRVLGEMDDATRKSLVEGIELEDGQAAFGALDYLGGDGSNRWYR 302 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHL 249 V L+EG+NRE++++FE V+RLIR +G L TL G E+ ++ + Sbjct: 303 VTLQEGRNREVRRMFESVGVTVSRLIRTRFGDLVLPRTLRRGRWEELDSSLVTALMVQLG 362 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 L + D + + D D M + G + + H + Sbjct: 363 LLRDDDDADGGRNARQPRSHDSALPPGFGTMDRNGMNGARIGRRGKLQGGGPGSAGHVAS 422 Query: 310 LASN 313 S+ Sbjct: 423 SPSD 426 >gi|332704127|ref|ZP_08424215.1| pseudouridine synthase Rsu [Desulfovibrio africanus str. Walvis Bay] gi|332554276|gb|EGJ51320.1| pseudouridine synthase Rsu [Desulfovibrio africanus str. Walvis Bay] Length = 254 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 80/240 (33%), Positives = 124/240 (51%), Gaps = 11/240 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR---- 68 R++K +A AG+ SRR+ + ++ V VNGI + V D + V G P+ Sbjct: 1 MRLNKALAMAGVCSRRKADELVFAGNVAVNGITASSPGIQVDPQNDIVTVFGKPVAFLPQ 60 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLL 124 +A ++ +KP+ +VTT SDP GR TV + LP RV VGRLD +EGLLLL Sbjct: 61 EGQATEHAYYMLNKPVEVVTTASDPQGRRTVLEILPEEVRKRRVFPVGRLDFFSEGLLLL 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVT-LDTQ 182 T+DG L + P +VY V G+V +DKL +++G+ + +G ++V LD Q Sbjct: 121 TSDGDLTYRMTHPRYHLPKVYEVLVRGEVTRDKLEAMRRGMTLAEGEKLAPVEVKVLDKQ 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + L +G NR+I+++ V +L R GP LG L G R ++ ++ Sbjct: 181 MLGKTLLELTLIQGINRQIRRMCRDLGLTVLKLRRTCEGPLSLGALPTGKLRTLTPAEVK 240 >gi|262404053|ref|ZP_06080608.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. RC586] gi|262349085|gb|EEY98223.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. RC586] Length = 231 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 59/230 (25%), Positives = 102/230 (44%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ + V V+ ++ + A + T +E + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKRGEVTVDDVVQKSGAFKLKETSRVEWQDREITL-HGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + HKP G+V +H D T F L + GRLD++T GLLL+T+DG + Sbjct: 60 RYIMMHKPDGVVCSHEDGFN-QTAFTLLDEVNIEDLHFAGRLDVDTTGLLLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D KGI ++G + L+ S V + Sbjct: 119 RVTSPKHKCEKTYRVWLADPIQGDYAEQFTKGIELRGERELTLPAQLEV--VSETEVLLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L +L G R +++ + Sbjct: 177 IHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDESLEPGEYRYLTEDEV 226 >gi|126667221|ref|ZP_01738195.1| 23S rRNA pseudouridine synthase [Marinobacter sp. ELB17] gi|126628377|gb|EAZ99000.1| 23S rRNA pseudouridine synthase [Marinobacter sp. ELB17] Length = 317 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 73/328 (22%), Positives = 133/328 (40%), Gaps = 20/328 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AER 72 R++K I+ +GI SRRE +R I Q V++NG V+ TD + V+G + E Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVRINGKRA-SVGDQVLPTDTVMVNGQIIEPRAEED 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP+G+V+T +D R + + R+ +GRLD +++GL+ +T++G L Sbjct: 67 QVFIALNKPVGIVST-TDSAERDNIQRFV-GHTVRIFPIGRLDKDSQGLIFMTSNGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + + ++ + G+ I G +V+ + S + Sbjct: 125 KILRAGNNHEKEYLVTVDKPITKTFIDGMAGGVPILGTVTKKCRVS----QESRFVFRIV 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E F + V RL R LG L G R+++ K L L + + Sbjct: 181 LVQGLNRQIRRMAEHFGFDVTRLERQRIMNISLGNLPVGQWRDLTSKEL-AVLMDSIRDS 239 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 + AP + K + S + P +R Sbjct: 240 SSDAPAAPQKPAGKTKPANAPAQKRESHKPRAGNKTPPRPGAKSAGQPGGRPDNR----- 294 Query: 313 NVWMAKGIHSSFLSDSGQREENHRRSPS 340 G + S +++ R + Sbjct: 295 -----PGSKPAARPKSKPKKQRQRSTKR 317 >gi|229133216|ref|ZP_04262048.1| Pseudouridine synthase [Bacillus cereus BDRD-ST196] gi|229167200|ref|ZP_04294941.1| Pseudouridine synthase [Bacillus cereus AH621] gi|228616238|gb|EEK73322.1| Pseudouridine synthase [Bacillus cereus AH621] gi|228650235|gb|EEL06238.1| Pseudouridine synthase [Bacillus cereus BDRD-ST196] Length = 238 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 63/231 (27%), Positives = 112/231 (48%), Gaps = 7/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I +++V +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERKVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKAVKGNIIDLVNHPL-RINHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + L + G+ I +VT + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPEFLEKMAAGVKILDTKTLPCEVT----QLSKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +G NR+I+++ E ++V L R +L L G R++SKK + Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKEKKRLF 228 >gi|120404251|ref|YP_954080.1| pseudouridine synthase [Mycobacterium vanbaalenii PYR-1] gi|119957069|gb|ABM14074.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium vanbaalenii PYR-1] Length = 247 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 74/239 (30%), Positives = 113/239 (47%), Gaps = 4/239 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLR 68 + R+ KV+++AGIASRR E+MI RV+V+G ++ V I VDG + Sbjct: 3 DNDGIRLQKVLSQAGIASRRVAEKMIRDGRVEVDGRIVTELGTRVDPAASVIRVDGARIT 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLT 125 + +KP G+ +T SD GR V D + ++ VGRLD +TEGLLLLT Sbjct: 63 VDDTLVYLAINKPRGMHSTMSDDRGRPCVGDLVEHRVRGNKKLFHVGRLDADTEGLLLLT 122 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + + Y G V + L++G+ ++ + Sbjct: 123 NDGELAHRLMHPSFEVPKSYVATVLGSVPKGLGRKLREGVELEDGPVQVDDFAVVDTTPG 182 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L EG+ ++++ + V L+R G LG GS R +++K + E Sbjct: 183 RTLVRVTLHEGRKHIVRRLLAEVGFPVQELVRTDIGTVSLGDQRPGSIRVLTQKEIGEL 241 >gi|163750232|ref|ZP_02157474.1| putative RNA pseudouridylate synthase [Shewanella benthica KT99] gi|161330088|gb|EDQ01072.1| putative RNA pseudouridylate synthase [Shewanella benthica KT99] Length = 288 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 93/295 (31%), Positives = 144/295 (48%), Gaps = 14/295 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E IA R+ ++G + + + I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRISIDGEIA-NLGDRIEADVKIRIDGRAISIKSA 60 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+D Sbjct: 61 EDLICRVIAYHKPEGEICSRKDPEGRPTVFDRLPKTRDSRWVAVGRLDINTSGLLLFTSD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V + L+ G+ ++ +V +G N Sbjct: 121 GELANRLMHPSNEVEREYAVRTFGEVTDACIQRLRTGVTLEDGPASFDKVKAAGGEGMNK 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V L EG+NRE+++++E +V+RLIRI YG +L +L G E++ + + Sbjct: 181 WWHVSLAEGRNREVRRLWESQEVQVSRLIRIRYGKIELPKSLPRGGWVELTMEEVNYLRK 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 L+E + ++ R + R + +K+ Sbjct: 241 TAGLKEETRT----VLGTDKHSVARSKVKG---SKIRRAVRKHKAVASKPGRKRT 288 >gi|328881450|emb|CCA54689.1| Ribosomal large subunit pseudouridine synthase B [Streptomyces venezuelae ATCC 10712] Length = 453 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 77/239 (32%), Positives = 121/239 (50%), Gaps = 2/239 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEV 62 K +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ V D I+V Sbjct: 207 KTFPGAEQEGERLQKVLARAGMGSRRACEELIEQARVEVNGEIVLEQGKRVDPEKDEIKV 266 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG+ + + + +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++ Sbjct: 267 DGLTV-ATQSYLFFALNKPSGVVSTMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGII 325 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTN G LA L P + Y G + ++ LK GI ++ + Q Sbjct: 326 LLTNHGELAHRLTHPKYGVKKTYLAAITGPLPREVGKRLKDGIQLEDGYARADHFRVVEQ 385 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G N V V L EG+ ++++ + V +L+R ++GP LG +G R ++ + Sbjct: 386 TGKNYLVEVTLHEGRKHIVRRMLAEAGFPVEKLVRTAFGPIALGDQKSGWLRRLTNTEV 444 >gi|322434202|ref|YP_004216414.1| pseudouridine synthase [Acidobacterium sp. MP5ACTX9] gi|321161929|gb|ADW67634.1| pseudouridine synthase [Acidobacterium sp. MP5ACTX9] Length = 312 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 89/286 (31%), Positives = 139/286 (48%), Gaps = 24/286 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A+AG+ASRR+ E +I RV+VNG ++ +T DHI VDG ++ E+ Sbjct: 24 ERLQKILAQAGLASRRKAEEIILDGRVQVNGTVVTELGTRADATKDHIRVDGKLIKGPEQ 83 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLLLLTN 126 + ++ +KP G VTT DP R TV + R+ VGRLD +EGLLL+TN Sbjct: 84 QKYYMVNKPRGYVTTLDDPQHRPTVMQLMTPKSGPHETQVRLYPVGRLDYLSEGLLLMTN 143 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-------------YG 173 DG LA L ST + Y V+ G L+ +++GI+I Sbjct: 144 DGDLANALSKASTGVEKTYLVKTSGVPPDSALDQIRRGIMIDRGRLDEVRAGRRDRILTA 203 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +V L ++G N W V L EG+NR+++K+FE V ++ RI YG +L + G Sbjct: 204 PAKVEL-VRRGDNPWYEVTLTEGRNRQLRKMFEEVGHHVEKIRRIGYGALRL-DVAPGEF 261 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYS--SETLVRDRPNIISE 277 RE+ + ++ + + P +S + RP Sbjct: 262 RELKPGEVMALDRASKGKKVEPKRNLPEFSKLKAPVKPKRPGAGKS 307 >gi|317054344|ref|YP_004118369.1| pseudouridine synthase [Pantoea sp. At-9b] gi|316952339|gb|ADU71813.1| pseudouridine synthase [Pantoea sp. At-9b] Length = 290 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 69/292 (23%), Positives = 127/292 (43%), Gaps = 12/292 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AER 72 R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + E Sbjct: 8 RLNKYISESGICSRRDADRYIEQGNVFINGKRA-SVGAQVFAGDEVKVNGQLIEPRDEED 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G++TT + + R + D + + RV +GRLD +++GL+ LTN G L Sbjct: 67 LVLIALNKPVGIITTMEEGE-RDNISDFV-NHSKRVFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + + + + G+ + G +K S + Sbjct: 125 KILRAGNNHEKEYVVTVDKPITDEFITGMGAGVPMLGTVTK----KCKVKKESTFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ + F ++V +L R L L G R+++ L E L+E Sbjct: 181 LVQGLNRQIRRMTKHFGYEVTKLERTRIMNVNLKGLPLGEWRDLTDDELIELF--KLIEN 238 Query: 253 AQV-NLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + + A ++T +P + S ++ +KK Sbjct: 239 SSSEDKPAKKGQAKTTPAKKPAASGAKTSEKPNANPASRKRFTQPGRKKKGR 290 >gi|260772944|ref|ZP_05881860.1| ribosomal small subunit pseudouridine synthase A [Vibrio metschnikovii CIP 69.14] gi|260612083|gb|EEX37286.1| ribosomal small subunit pseudouridine synthase A [Vibrio metschnikovii CIP 69.14] Length = 231 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 100/230 (43%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+GI+ + + V +E G L + Sbjct: 1 MRLDKFLCDALGTTRKESTQLLKSGDVTVDGIVRKSGSCQVTELSQVEWQGRALTLS-GP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLAR 132 R + HKP G V +H D T F L R + GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLHKPQGYVCSHEDSFN-QTAFVLLDEANQRDLHFAGRLDVDTTGLVLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + YRV + + KGI ++G L+ V + Sbjct: 119 RVTSPKHHCEKTYRVWLADPIAAEYTEQFAKGIELRGERDLTRPAQLEI--IDQQQVLLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G +R +++ + Sbjct: 177 IHEGKYHQVKRMFAALGNKVVGLHRERVGDIVLDPGLEPGESRYLTESEI 226 >gi|194017854|ref|ZP_03056463.1| RNA pseudouridine synthase family protein [Bacillus pumilus ATCC 7061] gi|194010506|gb|EDW20079.1| RNA pseudouridine synthase family protein [Bacillus pumilus ATCC 7061] Length = 238 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 65/232 (28%), Positives = 111/232 (47%), Gaps = 5/232 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++A +G SR++V++++ + V VNG L ++ +V D + V G + E Sbjct: 1 MRLDKLLASSGFGSRKDVKKLVKARAVTVNGELAKQVKDHVDPSNDEVLVHGERVEYKE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+++ D + V P +R VGRLD +T GLLLLTNDG LA Sbjct: 60 FIYLMMNKPDGVISATEDLRDETVVDLLEPEDIAREPFPVGRLDKDTVGLLLLTNDGQLA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V + + L++G+V + +V +D + + + Sbjct: 120 HQLLSPKKHVPKTYEVHLKYPLGDQDIKRLEEGVVILDDYRTKPAKVEVDANESEDTRIR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EGK ++K + + +V L R S G L L G RE++ + L Sbjct: 180 LTITEGKYHQVKLMAQAVGNEVIFLKRRSMGAVSLDEDLAPGEYRELTDEEL 231 >gi|254429033|ref|ZP_05042740.1| conserved hypothetical protein, putative [Alcanivorax sp. DG881] gi|196195202|gb|EDX90161.1| conserved hypothetical protein, putative [Alcanivorax sp. DG881] Length = 243 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 61/238 (25%), Positives = 114/238 (47%), Gaps = 6/238 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E P R+ +A + +R+E +++I+ V V +A + + + + G ++ Sbjct: 10 ETVLPMRLDYFLAHSAGLTRKEAKKLISGGAVTVADEAKPKANLQLRPDQVVMLHGEVVQ 69 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 R + HKP+ +V + DP+ R TV D LP++ +V GRLD +T GL+LLT+D Sbjct: 70 LP-GHRYLMLHKPVDVVCSTDDPEHR-TVLDLLPAVLRTQVHPAGRLDRDTTGLVLLTSD 127 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + L P+ + YRV V + L L++GI+++G + ++ + Sbjct: 128 GQWSHRLTSPNHACGKCYRVICADPVSDEDLQALREGILLRGEDSPTLPA--LAERVNTH 185 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + + + EG+ ++K++ KV L R G L L G R ++++ +R Sbjct: 186 TLRLTITEGRYHQVKRMLAARGNKVVGLHREQIGDIVLDADLAPGEFRALTEEEIRSL 243 >gi|297588511|ref|ZP_06947154.1| ribosomal large subunit pseudouridine synthase B [Finegoldia magna ATCC 53516] gi|297573884|gb|EFH92605.1| ribosomal large subunit pseudouridine synthase B [Finegoldia magna ATCC 53516] Length = 242 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 76/229 (33%), Positives = 118/229 (51%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA++G SRR+ + +I +V VNG +L + V +D +EV+G + K E Sbjct: 1 MRINKFIAQSGYCSRRKADELIKNSKVCVNGTILLDLSYQVNDSDIVEVEGKKISKKEEK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KPIG +T D V D + +RV VGRLD ++ GLL+LTNDG L Sbjct: 61 IYIAINKPIGYTSTVKDKFADKKVVDLI-KFKTRVYPVGRLDKDSHGLLILTNDGELTYE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + +VY V G+ +DK+ LK GIV+ G + N V + Sbjct: 120 LTHPKFEHKKVYEVLVKGRPTKDKIQELKNGIVLDGYKLKKSSIEFIANVKDNTKYMVTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EG+NR+I+K+F++ N V L R+ G +++ L +G + + L Sbjct: 180 YEGRNRQIRKMFDYINHPVLDLKRVQIGYYKMEDNLKSGEYVLLKNEDL 228 >gi|254480346|ref|ZP_05093594.1| conserved hypothetical protein, putative [marine gamma proteobacterium HTCC2148] gi|214039908|gb|EEB80567.1| conserved hypothetical protein, putative [marine gamma proteobacterium HTCC2148] Length = 313 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 75/328 (22%), Positives = 142/328 (43%), Gaps = 21/328 (6%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL- 67 + R++K I+ +G SRRE +++IA RVK+NG V S D + VDG + Sbjct: 2 DPNNSIRLNKFISESGHCSRREADKLIASNRVKINGTRP-ELGTKVESGDVVTVDGQEIM 60 Query: 68 ---RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 Y+KP+G+ T ++ + + D + R+ +GRLD +EGL+LL Sbjct: 61 GSAPGKSDRVYIAYNKPVGITCT-TERSVQGNIVDAI-DHHQRIFPIGRLDKPSEGLILL 118 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T+DG + + + Y V + + + + GI I +V++ + Sbjct: 119 TSDGDIVNKILRAENAHEKEYLVTVNKSIGKGFSEKMAGGIPILNTVTKPCKVSVVRRN- 177 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L EG NR+I+++ EF +++V +L+R+ LG L G R ++++ + + Sbjct: 178 ---VFKIILTEGLNRQIRRMCEFLDYEVTQLVRLRIMNVHLGKLKVGQWRNLTEQEMAQL 234 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDR-PNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + + P SS++ + R P + + + S++ S + K + Sbjct: 235 ----NIAISGSTGSPPKKSSQSAAKKRKPQHRLKGTGSDAKPARKSTKSRHSSSKNKDSG 290 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQR 331 RR+ G S S ++ Sbjct: 291 SDSRRSARK-----PGSRKSPTSSKRRK 313 >gi|297567379|ref|YP_003686351.1| RNA-binding S4 domain-containing protein [Meiothermus silvanus DSM 9946] gi|296851828|gb|ADH64843.1| RNA-binding S4 domain protein [Meiothermus silvanus DSM 9946] Length = 369 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 88/341 (25%), Positives = 151/341 (44%), Gaps = 10/341 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + +ARAG+ASRR+ E +I + RV +N + +V +D + +DG +R E+ Sbjct: 1 MRLQQFLARAGVASRRKAEDLIREGRVTINDQIA-GIGSSVSESDVVCLDGERVRLPEKK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP+G+ TT SDP TV+ +P + + VGRLD ++EGLLLLTNDG L Sbjct: 60 VVIALHKPVGVTTTKSDPHAERTVYQLVPDV-PGLHPVGRLDKDSEGLLLLTNDGDLTLK 118 Query: 134 LELPSTQWLRVYRVRF-HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VYR HG+V + L +G+ + ++ TQ+G+ + Sbjct: 119 LTHPRYGVRKVYRAWCKHGRVSEADCRRLVEGVALDDGLAQALEAE-PTQEGA----RIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EGK RE++++ + V RL+R+ GP +LG L G R ++ + + G L+ Sbjct: 174 MAEGKKREVRRMLGRLGYPVTRLVRLQVGPIKLGKLNPGEWRYLTPEEIGLLQGQKPLKP 233 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH--RRNL 310 + A ++ + + + P + + + + A R Sbjct: 234 RKKEGWAKAKPAKFAQQREESRAIKPPSRTEQGRAGFTVRTKSPGDTPQAGTDRWARWAR 293 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 S+ + Q + P +S T Sbjct: 294 ESDRSAQRSGRWGTSRRPYQGKRTAELEPKGLGSKSTSSTK 334 >gi|324992460|gb|EGC24381.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK405] gi|327460692|gb|EGF07027.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1] gi|327472413|gb|EGF17844.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK408] gi|327488766|gb|EGF20565.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1058] Length = 242 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 114/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + + T D I V G L E+ Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRVEKSPKTQIDETADEIVVSGQRLTY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATED-DRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A + P ++YR + G ++Q GI ++ Q+ + + + Sbjct: 119 AHAMLSPKKHVEKIYRAQVAGLMNQTDEERFAAGIELKDFTCQPAQLKILELDEAKETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V + L EGK ++K++ +V L R++ GP Q L G R +++ + Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQSDPALALGEWRRLTEVEM 232 >gi|238853950|ref|ZP_04644307.1| RNA pseudouridine synthase family protein [Lactobacillus gasseri 202-4] gi|282851629|ref|ZP_06260994.1| pseudouridylate synthase [Lactobacillus gasseri 224-1] gi|238833395|gb|EEQ25675.1| RNA pseudouridine synthase family protein [Lactobacillus gasseri 202-4] gi|282557597|gb|EFB63194.1| pseudouridylate synthase [Lactobacillus gasseri 224-1] Length = 233 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 71/235 (30%), Positives = 116/235 (49%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I ++ V VNG L+ V TD + VDG + ++ Sbjct: 1 MRIDKYLANMNVGSRKEVHSLIKKKVVTVNGELVTIPKQQVKETDLVAVDGNKIAY-QQY 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D + TV L + + VGRLD +T GLLLLTNDG LA Sbjct: 60 HYFLLNKPKGVISATED-RSQQTVISLLKTKDRYQGIAPVGRLDKDTTGLLLLTNDGALA 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN--AW 188 L P+ +VYR + G D + +G+++ G ++ + Q N + Sbjct: 119 HELLAPNKHVAKVYRAKIAGVPDPETAKKFAQGLILGDGTKLKPAKLKILKQDQDNNLSQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + ++EGK +IK++F KV L R+S G L L G +E+ ++ Sbjct: 179 IEIQIQEGKYHQIKRMFGAVGMKVLELDRVSMGKLHLPADLKRGEYKEIDLAEIK 233 >gi|296164607|ref|ZP_06847174.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium parascrofulaceum ATCC BAA-614] gi|295900026|gb|EFG79465.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium parascrofulaceum ATCC BAA-614] Length = 247 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 78/240 (32%), Positives = 115/240 (47%), Gaps = 6/240 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLR 68 + R+ KV+++AGIASRR E++I RV+V+G ++ V I VDG + Sbjct: 3 DTEGIRLQKVLSQAGIASRRAAEKLIIDGRVEVDGRVVTELGTRVDPDASVIRVDGARVV 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLT 125 E +KP G+ +T SD GR + D + + VGRLD +TEGL+LLT Sbjct: 63 LDESLVYLALNKPRGMHSTMSDDRGRPCIGDLVERKVRGNKNLFHVGRLDADTEGLILLT 122 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG-DMQVTLDTQKG 184 NDG LA L PS + + Y G V + LK GI + D +D G Sbjct: 123 NDGELAHRLMHPSHEVPKTYLATVTGSVPRGIGKKLKAGIELDDGPARVDDFAVVDAIPG 182 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L EG+NR ++++ + V L+R GP LG GS R +++ + + Sbjct: 183 KT-LVRVVLHEGRNRIVRRLLGAAGFPVEALVRTDIGPVSLGKQRPGSIRALNQGEVGQL 241 >gi|55823410|ref|YP_141851.1| ribosomal small subunit pseudouridine synthase A [Streptococcus thermophilus CNRZ1066] gi|55739395|gb|AAV63036.1| ribosomal small subunit pseudouridine synthase A [Streptococcus thermophilus CNRZ1066] Length = 243 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 65/234 (27%), Positives = 114/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ + +++V VNG + + D I G L E Sbjct: 1 MRLDKFLVDCGVGSRSQVKTFLKKKQVTVNGQVETSPKTQIDEDKDQIAYLGQELTH-ET 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D + TV D L V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATEDSRHK-TVLDLLDETARHKQVFPVGRLDIDTHGLLLLTNNGDL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A + P ++Y+ + G +D++ + +KGI ++ ++ + + + S + Sbjct: 119 AHAMLSPKRHVDKIYQAKVAGIMDEEDILAFEKGIKLKDHTCQPAKLEIVSVDRNASTSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 V + + EGK ++K++ +V L R+ GP L L G R ++++ L Sbjct: 179 VQITIAEGKFHQVKRMVAACGKEVADLQRLKMGPLSLPNDLELGDWRRLTQEEL 232 >gi|302561440|ref|ZP_07313782.1| RNA pseudouridine synthase [Streptomyces griseoflavus Tu4000] gi|302479058|gb|EFL42151.1| RNA pseudouridine synthase [Streptomyces griseoflavus Tu4000] Length = 359 Score = 253 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 76/231 (32%), Positives = 121/231 (52%), Gaps = 2/231 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 +R+ KV+ARAG SRR E +I Q RV+VNG ++ V D ++VDG+ + Sbjct: 121 EGERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGKRVDPEKDEVKVDGLTV-AT 179 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + + +KP G+V+T DP+GR + D + + +R+ VGRLD TEG++LLTN G L Sbjct: 180 QSYQFFSLNKPAGVVSTMEDPEGRQCLGDYVTNRETRLFHVGRLDTETEGVILLTNHGEL 239 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y G + +D LK GI ++ + Q G N V Sbjct: 240 AHRLTHPKYGVKKTYLAAIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVEQTGKNYLVE 299 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ ++++ + V++L+R ++GP LG +G R +S + Sbjct: 300 VTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLSNTEV 350 >gi|195952397|ref|YP_002120687.1| pseudouridine synthase [Hydrogenobaculum sp. Y04AAS1] gi|195932009|gb|ACG56709.1| pseudouridine synthase [Hydrogenobaculum sp. Y04AAS1] Length = 239 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 66/230 (28%), Positives = 117/230 (50%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+++ ++ AG+ SRR+ + I + VKVN +++ + D +E G + KA++ Sbjct: 1 MRLNRFLSLAGVCSRRKADEYIEKGYVKVNNNIVKELGTTINPDEDIVEFRGR-IVKAQK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP +T+ + + + T+ + + + RV GRLD N EGLL+LTNDG LA Sbjct: 60 PVYIILNKPCCYLTSLGEKEEKPTIRELIKDVGVRVYPAGRLDYNVEGLLILTNDGELAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY G++D + L +K+G+ ++ + L + + A + + Sbjct: 120 RIIHPRYKLPKVYIATIKGEIDDETLEKMKRGVRLEDGFVKPDSLKLLKRFKNGANIEIT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EGKN +K+ F F V LIR + GP LG L G R + ++ Sbjct: 180 FHEGKNHLVKRFFLAFKKPVKHLIRTAIGPISLGNLPKGKWRHLKPAEIK 229 >gi|152972885|ref|YP_001338031.1| 23S rRNA pseudouridine synthase F [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|238892493|ref|YP_002917227.1| 23S rRNA pseudouridine synthase F [Klebsiella pneumoniae NTUH-K2044] gi|288937681|ref|YP_003441740.1| pseudouridine synthase [Klebsiella variicola At-22] gi|150957734|gb|ABR79764.1| pseudouridine synthase [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|238544809|dbj|BAH61160.1| pseudouridine synthase [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] gi|288892390|gb|ADC60708.1| pseudouridine synthase [Klebsiella variicola At-22] Length = 291 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 73/289 (25%), Positives = 127/289 (43%), Gaps = 10/289 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE--R 72 R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + E Sbjct: 8 RLNKYISESGICSRREADRFIEQGNVFINGKRAT-IGDQVKPGDLVKVNGRLIEPREADD 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G+V+T D + R + D + + R+ +GRLD +++GL+ LTN G L Sbjct: 67 LVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRIFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V V + + + G+ I G +K + + Sbjct: 125 KILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPILGTVTK----KCKVKKEAPFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 181 LVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLTGIPLGEWRDLTDDELIDLFKLIENSS 240 Query: 253 AQVNLDA-PIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ A P + T RP + E +D R N + ++KK Sbjct: 241 SEAKPKARPKAKAATPGIKRPVVKMENSNDKGRPAGNGKRFTQPGRKKK 289 >gi|325662260|ref|ZP_08150875.1| hypothetical protein HMPREF0490_01613 [Lachnospiraceae bacterium 4_1_37FAA] gi|331086071|ref|ZP_08335154.1| hypothetical protein HMPREF0987_01457 [Lachnospiraceae bacterium 9_1_43BFAA] gi|325471512|gb|EGC74733.1| hypothetical protein HMPREF0490_01613 [Lachnospiraceae bacterium 4_1_37FAA] gi|330406994|gb|EGG86499.1| hypothetical protein HMPREF0987_01457 [Lachnospiraceae bacterium 9_1_43BFAA] Length = 255 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 64/233 (27%), Positives = 119/233 (51%), Gaps = 7/233 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K ++ AG+ SRRE +R+I RV V+G + V + V ++K + Sbjct: 14 ESVRLNKFLSEAGVCSRREADRLIESGRVTVDGRRA-EMGMRVTKDQEVCVGKKVIQKKD 72 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R L +KP G+V T + ++ + + +R+ +GRLD ++EGLLL+TN+G + Sbjct: 73 RMVLLAVNKPTGIVCTEEKREKKNIIRFL--NYPTRITYIGRLDKDSEGLLLMTNNGDII 130 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y+V + +V ++ + + +G+ I +V +K + Sbjct: 131 NKMMRAGNCHEKEYKVTVNKEVTKEFVRKMSEGVPILDTVTRPCKV----EKTGKYKFRI 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 L +G NR+I+++ E+F ++V RL R+ +LG L +G REV+ + L E Sbjct: 187 ILTQGLNRQIRRMCEYFGYQVTRLERVRVMNIELGNLKSGEYREVTGRELDEL 239 >gi|205374821|ref|ZP_03227614.1| tRNA pseudouridine synthase A [Bacillus coahuilensis m4-4] Length = 235 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 67/236 (28%), Positives = 118/236 (50%), Gaps = 8/236 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ AG ASRR +++I + RV +NG + V D + V+G +R A Sbjct: 1 MRINKYISDAGKASRRGADKLIEEGRVYINGRRAK-IGDQVNPGDDVLVNGNHVRLARNN 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ +T ++ + + D + R+ ++GRLD ++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITST-TEKGVKGNIIDLVNHPL-RIFNIGRLDKESDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + Q+ L+ + G+ I G ++ ++ S + L Sbjct: 118 ILRAENKHEKEYFVSVDKPITQEFLDNMASGVKILGTKTLPCKI----EQISKYDFQITL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 +G NR+I+++ E ++V RL R LG L G R++SKK + QL L Sbjct: 174 TQGLNRQIRRMCEALGYEVYRLQRTRIMNIHLGNLPVGQWRDLSKKE-KTQLFKEL 228 >gi|114330607|ref|YP_746829.1| pseudouridine synthase, Rsu [Nitrosomonas eutropha C91] gi|114307621|gb|ABI58864.1| ribosomal large subunit pseudouridine synthase B [Nitrosomonas eutropha C91] Length = 272 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 86/244 (35%), Positives = 128/244 (52%), Gaps = 6/244 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 R+ K++AR G+ SRRE+E MIA RV +N + D I +DG + Sbjct: 27 APPAETDRLQKLLARNGLGSRREIEAMIAAGRVSINNTTAK-LGDRAGLGDKIRIDGRII 85 Query: 68 RKAER---TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLL 123 R + R+ +YHKP G + + DP GR +VFD LP S+ I++GRLD NT GLL+ Sbjct: 86 RLSMPALLPRIIIYHKPEGEIVSARDPQGRLSVFDKLPHIQSSKWIAIGRLDFNTSGLLI 145 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L P Q R Y VR G++ +++ L GI ++ Q+ + Sbjct: 146 FTTDGALANRLMHPRYQMEREYAVRIVGELSPEQITHLTTGIELEDGSAKFDQLLDEGGL 205 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 G+N W + L+EG+NRE++++FE V+RL+R+ +GP L L G E+ + Sbjct: 206 GTNHWYRIVLKEGRNREVRRMFEALGITVSRLMRVRFGPVNLPPRLKRGMWLELVDTEVE 265 Query: 243 EQLG 246 L Sbjct: 266 RLLA 269 >gi|257094536|ref|YP_003168177.1| RNA-binding S4 domain-containing protein [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] gi|257047060|gb|ACV36248.1| RNA-binding S4 domain protein [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] Length = 322 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 90/259 (34%), Positives = 139/259 (53%), Gaps = 7/259 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 P+R+ K++A++GI SRRE+E +IA R+ +NG + D ++V+G ++ Sbjct: 66 PERLHKLLAQSGIGSRREMEELIAAGRISINGETA-SVGQTASAGDRVKVNGKLVQLRFS 124 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDG 128 R+ LYHKP G + + +DP+ R VF ++P I + R ++VGRLD NT GLLLLT G Sbjct: 125 DRLPRVILYHKPEGEIVSRNDPEHRPNVFTSMPRISAGRWVAVGRLDFNTSGLLLLTTSG 184 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P Q +R Y VR G++ ++ L GI + +G+N W Sbjct: 185 DLANRLMHPRYQLVREYAVRILGELTEEVRRQLLDGIDLDDGPAQFASFQEAGGEGANRW 244 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 V L EG+NRE++++FE V+RL+R+ YGPF L L G E+S+ +++ L Sbjct: 245 YRVSLHEGRNREVRRMFEAVGVVVSRLMRVRYGPFALPPGLKRGQVLELSEADVKKLLAD 304 Query: 248 HLLEEAQVNLDAPIYSSET 266 + + AP E Sbjct: 305 FGMANPEAGR-APRRPRER 322 >gi|237745585|ref|ZP_04576065.1| ribosomal large subunit pseudouridine synthase B [Oxalobacter formigenes HOxBLS] gi|229376936|gb|EEO27027.1| ribosomal large subunit pseudouridine synthase B [Oxalobacter formigenes HOxBLS] Length = 510 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 95/349 (27%), Positives = 152/349 (43%), Gaps = 13/349 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + + E+ P ++ KV+A AG+ SRR++E +I RV VNG ++ TD + + Sbjct: 164 RRELTAEDDAP-KLHKVLADAGLGSRRDMEELIVAGRVSVNGEPA-HIGQRILPTDQVRL 221 Query: 63 DGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINT 118 +G +++ R+ YHKP G + + DP+ R +VFD LP S+ ++VGRLD NT Sbjct: 222 NGKLIQRKIAKSLPRVLTYHKPAGEIVSRDDPEKRPSVFDRLPLLKNSKWLAVGRLDFNT 281 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLLL TN G LA L P R Y VR G++++ L G+ + ++ Sbjct: 282 EGLLLFTNSGDLANRLMHPRYNIEREYAVRTLGELEEGMRQKLLAGVDLGDGIGQFSKIV 341 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 +G N W V + EG+NRE++++FE V+RLIR YG L +L G E+ Sbjct: 342 DGGGEGVNKWYRVTIGEGRNREVRRMFEAVGLTVSRLIRTRYGAVVLSQSLKRGRWDELE 401 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR------MKKNSSQ 291 + +R L L+ S P+ +K S Sbjct: 402 ENAVRNLLRLSGLDNKDDKKTQGKTRSRNASGQYPDFPKSQSLSIRELQLQGQHQKKSPG 461 Query: 292 KNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPS 340 S + + P+ + + + G+ + RR Sbjct: 462 GQKGSPRNRQPDPLQTAFGYAGMGQNPPKGGTGQRARGRGQPGQRRRAR 510 >gi|262165448|ref|ZP_06033185.1| ribosomal large subunit pseudouridine synthase B [Vibrio mimicus VM223] gi|262402464|ref|ZP_06079025.1| ribosomal large subunit pseudouridine synthase B [Vibrio sp. RC586] gi|262025164|gb|EEY43832.1| ribosomal large subunit pseudouridine synthase B [Vibrio mimicus VM223] gi|262351246|gb|EEZ00379.1| ribosomal large subunit pseudouridine synthase B [Vibrio sp. RC586] Length = 319 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 106/309 (34%), Positives = 151/309 (48%), Gaps = 10/309 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV VNG + + VDG + + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDDNALVRVDGHVVSVKAQ 61 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G V+++K+ L +G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGDVNEEKVRNLVRGVQLEDGMARFEDVMYAGGEGINH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK---ILRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFLDKKLPRGGWMELDLKQVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E +N AP ++ R R I + ++G +++K Sbjct: 242 LVELRPEKETVLN-TAPDAATRKRERTRSQKIRRAVRRHEERVSTAPGRSGSARRKPGGE 300 Query: 304 PVHRRNLAS 312 R +AS Sbjct: 301 SSTRNKVAS 309 >gi|332993044|gb|AEF03099.1| RNA pseudouridine synthase family protein [Alteromonas sp. SN2] Length = 246 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 115/234 (49%), Gaps = 11/234 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G+ SRRE +++I Q RV +N L V D ++VDG ++ + Sbjct: 8 RLNKYISDTGLCSRREADKLIEQNRVTINDKLP-ELGTKVAQGDKVKVDGKLVKAVAEDK 66 Query: 75 ----LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +Y+KPIG+ T ++ + + D + R+ VGRLD +EGL++LT+DG + Sbjct: 67 SDRIYLVYNKPIGITCT-TERHVKGNIIDAI-KHKQRIFPVGRLDKPSEGLIILTSDGDI 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + + KG+ I G +V + + Sbjct: 125 VNKILRAENSHDKEYEVTVNQPISERFVQKMAKGVPILGTVTKPCKVNARGK----FQFS 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+++ EF ++V +L R +LG L G R +++K L + Sbjct: 181 IILTQGLNRQIRRMCEFLGYEVTKLKRTRIMHLELGNLKPGQWRNLTEKELNQL 234 >gi|304413779|ref|ZP_07395223.1| 23S rRNA pseudouridylate synthase [Candidatus Regiella insecticola LSR1] gi|304283870|gb|EFL92264.1| 23S rRNA pseudouridylate synthase [Candidatus Regiella insecticola LSR1] Length = 291 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 110/301 (36%), Positives = 159/301 (52%), Gaps = 22/301 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRR +E MI Q+R+ ++G + V+V + I +DG L E Sbjct: 2 SEKLQKVLARAGHGSRRAIETMIMQRRISLDGKIATLGDRVDVRQSTKIRLDGRVLAITE 61 Query: 72 R----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+KP G + T DP GR TVFD LP SR ++VGRLD+NT GLLL T Sbjct: 62 SNAAICRVLAYYKPEGELCTLHDPQGRPTVFDRLPKLRTSRWVAVGRLDVNTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L P + R Y VR GQ+D+DK+ L KGI ++ +++ +G N Sbjct: 122 DGELANRLMHPRHEVEREYAVRVFGQIDEDKIKQLNKGIQLEDGPASFHKISFQGGEGIN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILR 242 W V L EG+NRE+++++E + KVNRLIRI YG L L G E+ K LR Sbjct: 182 QWYHVTLTEGRNREVRRLWEAVDVKVNRLIRIRYGDINLPKGLPRGGWTELDLKAINYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E V+L A S + ++R + + +K++S +K ++Q K Sbjct: 242 EL----------VSLPAETVSKLPVEQERRRMKAN--QIRRAVKRHSEKKRADTRQIKKR 289 Query: 303 T 303 Sbjct: 290 R 290 >gi|157374830|ref|YP_001473430.1| pseudouridine synthase [Shewanella sediminis HAW-EB3] gi|157317204|gb|ABV36302.1| pseudouridine synthase [Shewanella sediminis HAW-EB3] Length = 288 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 99/290 (34%), Positives = 145/290 (50%), Gaps = 12/290 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E IA R+ ++G + + + I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRISIDGEIA-SLGDRIEADAKIRIDGRAISIKSE 60 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+D Sbjct: 61 EDIVCRVIAYHKPEGEICSRKDPEGRPTVFDRLPKTRDSRWVAVGRLDINTSGLLLFTSD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G V + L+ G+ ++ +V +G N Sbjct: 121 GELANRLMHPSNEVEREYAVRTFGDVSDACIQHLRTGVTLEDGPANFDKVKAAGGEGMNK 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILRE 243 W V L EG+NRE+++++E +V+RLIRI YG +L +L G E+ + LR+ Sbjct: 181 WWHVTLSEGRNREVRRLWESQEVQVSRLIRIRYGSIELPKSLPRGGWIELELEQVNYLRK 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 G + E + L +S I V KN+ Q+ Sbjct: 241 TAGLDI--ENRTMLGTDKHSVARSKVKSAKIKRAVHKHKATGGKNTRQRT 288 >gi|315617385|gb|EFU97991.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 3431] Length = 290 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 70/293 (23%), Positives = 127/293 (43%), Gaps = 9/293 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 3 PDSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 AE L +KP+G+V+T D GR + D + + RV +GRLD +++GL+ LTN Sbjct: 62 REAEDLVLIALNKPVGIVSTTED-GGRDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + ++ + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 176 VFRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKL 235 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++V A ++ + + + R N + ++KK Sbjct: 236 IENSSSEVKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKK 288 >gi|227504286|ref|ZP_03934335.1| pseudouridine synthase B [Corynebacterium striatum ATCC 6940] gi|227199125|gb|EEI79173.1| pseudouridine synthase B [Corynebacterium striatum ATCC 6940] Length = 287 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 81/240 (33%), Positives = 125/240 (52%), Gaps = 4/240 (1%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDG 64 +V +N +R+ KV+A+AG+ASRR E MI RV+VNG ++ + V V D I VDG Sbjct: 39 LVGDNPKGERLQKVLAKAGVASRRHAEIMIDAGRVEVNGKIVMQQGVRVDPNVDVIRVDG 98 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGL 121 V + E TR ++ +KP GL +T SD GR + D + R+ VGRLD +TEGL Sbjct: 99 VRINVNEETRYFILNKPRGLQSTMSDELGRPCIGDLIGDRVAAGQRLFHVGRLDADTEGL 158 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 +L+TNDG LA L P + + Y G+ + LK+G+ ++ V + Sbjct: 159 ILITNDGELANRLMHPKYEVRKTYLATVLGEAGNGLVRTLKEGVELEDGLAKADYVQIVD 218 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + V V L EG+ ++++ + + V RL+R QLG + G R ++ L Sbjct: 219 KNQGYSLVRVELHEGRKHIVRRMLKEAGFPVQRLVRTKLHTLQLGEMKPGILRALNSNEL 278 >gi|206578740|ref|YP_002241036.1| ribosomal large subunit pseudouridine synthase F [Klebsiella pneumoniae 342] gi|290512420|ref|ZP_06551787.1| ribosomal large subunit pseudouridine synthase F [Klebsiella sp. 1_1_55] gi|206567798|gb|ACI09574.1| ribosomal large subunit pseudouridine synthase F [Klebsiella pneumoniae 342] gi|289775415|gb|EFD83416.1| ribosomal large subunit pseudouridine synthase F [Klebsiella sp. 1_1_55] Length = 291 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 73/289 (25%), Positives = 127/289 (43%), Gaps = 10/289 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE--R 72 R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + E Sbjct: 8 RLNKYISESGICSRREADRFIEQGNVFINGKRAT-IGDQVKPGDLVKVNGRLIEPREADD 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G+V+T D + R + D + + R+ +GRLD +++GL+ LTN G L Sbjct: 67 LVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRIFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V V + + + G+ I G +K + + Sbjct: 125 KILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPILGTVTK----KCKVKKEAPFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 181 LVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLTGIPLGEWRDLTDDELIDLFKLIENSS 240 Query: 253 AQVNLDA-PIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ A P + T RP + E +D R N + ++KK Sbjct: 241 SEAKPKARPKAKAATPGIKRPVVKMENSNDKGRPAANGKRFTQPGRKKK 289 >gi|254393249|ref|ZP_05008402.1| pseudouridine synthase [Streptomyces clavuligerus ATCC 27064] gi|294811815|ref|ZP_06770458.1| Pseudouridine synthase [Streptomyces clavuligerus ATCC 27064] gi|326440444|ref|ZP_08215178.1| pseudouridine synthase [Streptomyces clavuligerus ATCC 27064] gi|197706889|gb|EDY52701.1| pseudouridine synthase [Streptomyces clavuligerus ATCC 27064] gi|294324414|gb|EFG06057.1| Pseudouridine synthase [Streptomyces clavuligerus ATCC 27064] Length = 376 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 77/231 (33%), Positives = 120/231 (51%), Gaps = 2/231 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 +R+ KV+ARAG+ SRR E +I RV+VNG ++ V V D I+VDG+ + Sbjct: 138 EGERLQKVLARAGVGSRRACEELIEAGRVEVNGSIVIEQGVRVDPENDEIKVDGLTV-AT 196 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++LLTN G L Sbjct: 197 QSYLFFALNKPAGVVSTMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGIILLTNHGEL 256 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y G + ++ LK GI ++ + G N V Sbjct: 257 AHRLTHPRYGVKKTYLAAIQGPLPRELGKRLKDGIALEDGYARADHFRVVENTGKNYLVE 316 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ ++++ + V+RL+R ++GP LG +G R +S + Sbjct: 317 VTLHEGRKHIVRRMLAEAGFPVDRLVRTAFGPIGLGDQKSGWLRRLSNTEV 367 >gi|256848777|ref|ZP_05554211.1| 16s pseudouridylate synthase [Lactobacillus crispatus MV-1A-US] gi|256714316|gb|EEU29303.1| 16s pseudouridylate synthase [Lactobacillus crispatus MV-1A-US] Length = 236 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 66/235 (28%), Positives = 114/235 (48%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV ++I + V VNG ++ + D + V+G + ++ Sbjct: 1 MRIDKYLANMNVGSRKEVHQLIKKGVVAVNGKTVKTLKEKINENDVVTVNGEEIAY-QKY 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D + TV L + ++ VGRLD +T GLLLLTNDG L Sbjct: 60 HYFLLNKPKGVLSATED-RSQKTVISLLDPQDRYQGIVPVGRLDKDTTGLLLLTNDGQLN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQ--KGSNAW 188 L P+ +VYR G D++ G+++ G ++ + Q + + + Sbjct: 119 HELVAPNKHVAKVYRAEIAGVADEETAKAFASGMMLGDGTKLKPAKLKILKQDRENATSE 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + + + EGK +IK++F KV L R+S G L L G E+S ++ Sbjct: 179 IEIEISEGKYHQIKRMFGAVGMKVTALDRLSMGNLHLQSDLKRGKYVELSLDEIK 233 >gi|296393714|ref|YP_003658598.1| pseudouridine synthase [Segniliparus rotundus DSM 44985] gi|296180861|gb|ADG97767.1| pseudouridine synthase [Segniliparus rotundus DSM 44985] Length = 272 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 82/243 (33%), Positives = 126/243 (51%), Gaps = 14/243 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 + QR+ KV+ARAG+ASRR E++IA+ RV+V+G L+ V V T +EVDG + Sbjct: 17 SAQRLHKVLARAGVASRRGSEQLIAEGRVRVDGRLVTEQGVLVDPHTAVVEVDGKRIAVD 76 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR------------VISVGRLDINT 118 +R + +KP G++T SD R V D L + VGRLD +T Sbjct: 77 DRHATYALNKPKGVLTAMSDTRER-CVGDLLREAGPDFAADGRAGLPAGLFHVGRLDADT 135 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLL++NDG LA L PS + + Y G V + + L+ G+V++ +V Sbjct: 136 TGLLLVSNDGELAHRLAHPSYEIPKTYIATVRGVVAKRAVEQLRAGVVLEDGPAKADEVC 195 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L + V + L EG+NR ++++F+ V L R+ GP +LG L +G+ R +S Sbjct: 196 LRGSQRDRTVVEITLHEGRNRIVRRMFDEVGHPVIELARLRIGPIRLGDLRSGALRALSS 255 Query: 239 KIL 241 + Sbjct: 256 SEV 258 >gi|239932155|ref|ZP_04689108.1| pseudouridine synthase [Streptomyces ghanaensis ATCC 14672] gi|291440523|ref|ZP_06579913.1| pseudouridine synthase [Streptomyces ghanaensis ATCC 14672] gi|291343418|gb|EFE70374.1| pseudouridine synthase [Streptomyces ghanaensis ATCC 14672] Length = 347 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 77/239 (32%), Positives = 122/239 (51%), Gaps = 2/239 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEV 62 K +R+ KV+ARAG SRR E +I Q RV+VNG ++ V D ++V Sbjct: 101 KTFPGAEQEGERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGRRVDPEKDEVKV 160 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG+ + + + + +KP G+V+T DP+GR + D + + +R+ VGRLD TEG++ Sbjct: 161 DGLTV-ATQSYQFFSLNKPAGVVSTMEDPEGRQCLGDYVTNRETRLFHVGRLDTETEGVI 219 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTN G LA L P + Y G + +D LK GI ++ + Q Sbjct: 220 LLTNHGELAHRLTHPRYGVKKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVEQ 279 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G N V V L EG+ ++++ + V++L+R ++GP LG +G R +S + Sbjct: 280 TGKNYLVEVTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLSNTEV 338 >gi|300361439|ref|ZP_07057616.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus gasseri JV-V03] gi|300354058|gb|EFJ69929.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus gasseri JV-V03] Length = 248 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 72/240 (30%), Positives = 117/240 (48%), Gaps = 8/240 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E R+ K +A + SR+EV +I ++ V VNG L+ V D + VDG + Sbjct: 11 EKDIEMRIDKYLANMNVGSRKEVHSLIKKKVVTVNGELVTAPKQQVKEDDLVVVDGNEIA 70 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTN 126 ++ +L +KP G+++ D + TV L + + VGRLD NT GLLLLTN Sbjct: 71 Y-QQYHYFLLNKPKGVISATED-RSQQTVISLLKTKDRYQGIAPVGRLDKNTTGLLLLTN 128 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS 185 DG LA L P+ +VYR + G ++ + GI + G ++ + Q Sbjct: 129 DGALAHELLAPNKHVTKVYRAKISGVASEETIKTFASGITLGDGTKLKPAKLEILAQDKV 188 Query: 186 N--AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + + + ++EGK +IK++F KV L RIS G L L G +E+++ ++ Sbjct: 189 HDLSQIEIQIQEGKYHQIKRMFGAVGMKVLELDRISMGKLSLPTDLKRGQYQEITRDKIK 248 >gi|320106004|ref|YP_004181594.1| pseudouridine synthase [Terriglobus saanensis SP1PR4] gi|319924525|gb|ADV81600.1| pseudouridine synthase [Terriglobus saanensis SP1PR4] Length = 301 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 96/306 (31%), Positives = 147/306 (48%), Gaps = 24/306 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDH 59 M K ++ R+ K++A AGIASRR+ E +I + RV+VNG ++ DH Sbjct: 1 MAKKPELKAGPEGVRLQKILADAGIASRRKSEEVILEGRVQVNGKVVTELGTRANPEKDH 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----RVISVGRLD 115 I VDG L+ E R +L +KP G VTT DP+ R T+ D L R+ VGRLD Sbjct: 61 IRVDGKLLQGPEEHRYYLVNKPRGYVTTMHDPEKRPTIVDLLIKDGKMPDVRLYPVGRLD 120 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ------- 168 N+EGLLL+TNDG LA L S + Y V+ GQ + ++ L++G++I+ Sbjct: 121 YNSEGLLLMTNDGELANALSKASNSVEKTYLVKVAGQPSEQAIDQLRRGVMIERGRLQET 180 Query: 169 ------GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP 222 + +V L + G N W V L EG+NR+++K+FE + V ++ RI YG Sbjct: 181 QGARRNRVMTAPAKVKL-VRAGLNPWFEVSLTEGRNRQLRKMFEEIDHHVEKIRRIGYGA 239 Query: 223 FQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDF 282 L + G RE+ + ++ + P + T+ P + + Sbjct: 240 LVL-DVAPGEFRELKPGEVTALGRAATGKKVERRRTMPEAAKLTV----PGKKTGSRKAY 294 Query: 283 TRMKKN 288 R +K Sbjct: 295 KRPRKE 300 >gi|157961474|ref|YP_001501508.1| pseudouridine synthase [Shewanella pealeana ATCC 700345] gi|157846474|gb|ABV86973.1| pseudouridine synthase [Shewanella pealeana ATCC 700345] Length = 290 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 99/290 (34%), Positives = 139/290 (47%), Gaps = 7/290 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E IA RV V+G + V S I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSVDGEIA-SLGDRVESDAKIRIDGRTVSIRSE 60 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+D Sbjct: 61 EDVVCRVIAYHKPEGEICSRKDPEGRPTVFDRLPKTRDSRWVAVGRLDINTSGLLLFTSD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V+ + L+ G+ ++ +V +G N Sbjct: 121 GELANRLMHPSNEVEREYAVRTFGEVNDACIQRLRMGVTLEDGPANFDKVKAAGGEGMNK 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + + Sbjct: 181 WWHVSLAEGRNREVRRLWESQEVQVSRLIRIRYGMIELPKALPRGGWIELPIEEVNYLRK 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 +EE L S + R I S Sbjct: 241 TAGMEEETRTLLGTDKHSVARNKVRSAKIKRAVHKHKVATGKPKPTRQRS 290 >gi|19552642|ref|NP_600644.1| 16S rRNA uridine-516 pseudouridylate synthase [Corynebacterium glutamicum ATCC 13032] gi|62390310|ref|YP_225712.1| 16S rRNA uridine-516 pseudouridylate synthase or related pseudouridylate synthase [Corynebacterium glutamicum ATCC 13032] gi|41325647|emb|CAF21436.1| 16S rRNA uridine-516 pseudouridylate synthase or related pseudouridylate synthase [Corynebacterium glutamicum ATCC 13032] Length = 320 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 75/236 (31%), Positives = 117/236 (49%), Gaps = 4/236 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 + R+ KV+A+AG+ASRR E +I Q RV+VN ++ V V D I VDGV + Sbjct: 76 DSDGVRLQKVLAQAGVASRRHAEILIDQGRVEVNDRIVTTQGVRVDPNNDVIRVDGVRIH 135 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLT 125 E ++ +KP G+ +T SD GR V D + R+ VGRLD +TEGLLLLT Sbjct: 136 INEDLEYFVLNKPRGMHSTMSDELGRPCVGDLVSEKTASGQRLFHVGRLDADTEGLLLLT 195 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L P + + Y G+ ++ L+ G+ ++ + Sbjct: 196 NDGELANRLMHPKYEVSKTYLATVRGEATNKLVSALRDGVELEDGPAKADFAQIIDVFQG 255 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + + EG+ ++++F+ + V RL+R QLG GS R ++ L Sbjct: 256 KSLLRIEIHEGRKHIVRRLFDELGFPVERLVRTKLHTVQLGDQKPGSLRALNSSEL 311 >gi|160943235|ref|ZP_02090471.1| hypothetical protein FAEPRAM212_00721 [Faecalibacterium prausnitzii M21/2] gi|158445474|gb|EDP22477.1| hypothetical protein FAEPRAM212_00721 [Faecalibacterium prausnitzii M21/2] Length = 233 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 67/232 (28%), Positives = 110/232 (47%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R E + M+A+ RV+VNG + ++ + TD + VDG L ++ Sbjct: 1 MRLDKYLAETAQCTRSEAKTMLAKGRVQVNGAVCKKGDTQLKDTDTVAVDGALLTY-QKF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+V+ +D +TV D + + R + GRLD + G +LLT+DGG A Sbjct: 60 VYLMLNKPEGVVSASTDKRD-TTVVDLVGDAYPRRELFPAGRLDKTSTGFVLLTDDGGFA 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + P + Y V + Q+ G+ + G +VT + G V Sbjct: 119 HDILSPRHHVSKTYTVTIDTPLTQEMCTGFAAGVTLADGTALSPAEVTALSPDGLT--VR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V LR+G +IK++F + VN L R + G L L G RE+S + + Sbjct: 177 VVLRQGVYHQIKRMFGVYGAGVNALHREAIGGLALDAQLAPGQWRELSDEEV 228 >gi|160939069|ref|ZP_02086420.1| hypothetical protein CLOBOL_03963 [Clostridium bolteae ATCC BAA-613] gi|158438032|gb|EDP15792.1| hypothetical protein CLOBOL_03963 [Clostridium bolteae ATCC BAA-613] Length = 262 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 74/234 (31%), Positives = 118/234 (50%), Gaps = 7/234 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAE 71 P R+ + +A G +R +V+ M+ + RV++NG ++ A V +D +EVD + A Sbjct: 16 PMRLDRFLAEMGYGTRTQVKDMVKKGRVRMNGEAVKDADRKVNPESDIVEVDRSRVAYA- 74 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP G+V+ D + V ++ + VGRLDI+TEGLLL+TNDG LA Sbjct: 75 RMEYYMLNKPQGVVSATEDRKYPTVVGLIREALRKDLFPVGRLDIDTEGLLLITNDGELA 134 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN---A 187 L P +VY G + +D + ++GI + G ++ + G Sbjct: 135 HNLLSPKKHVDKVYLAHVSGGLPEDAVKRFEEGIKLEDGTMTLPAELKILKGAGPEEDAQ 194 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 V V +REGK +IK++FE +V L RIS GP L L G R ++ + Sbjct: 195 EVLVTIREGKFHQIKRMFEALGCRVEYLKRISMGPLILDPNLEPGEYRPLTLQE 248 >gi|296100644|ref|YP_003610790.1| 23S rRNA pseudouridine synthase F [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295055103|gb|ADF59841.1| 23S rRNA pseudouridine synthase F [Enterobacter cloacae subsp. cloacae ATCC 13047] Length = 289 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 70/294 (23%), Positives = 127/294 (43%), Gaps = 12/294 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 R++K I+ +GI SRRE +R I Q V +NG VM D ++V+G + Sbjct: 5 QSIRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVMPGDVVKVNGQLIEPRD 63 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 AE +KP+G+V+T D + R + D + + SR+ +GRLD +++GL+ LTN G Sbjct: 64 AEDLVFIALNKPVGIVSTTEDGE-RDNIVDFV-NHSSRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + V + + + G+ I G +V + Sbjct: 122 LVNKILRAGNDHEKEYIVTVNKPVTDEFIRGMGAGVPILGTVTKKCKVKKEAPFA----F 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ L E L Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIELF--KL 235 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 +E + + + + + P + + + K +K Sbjct: 236 IENSSSEAKPKAKAKPKTQAIK-RPVVKAPQSEEKGRGKPAGKRFTQPGRKKKG 288 >gi|71065415|ref|YP_264142.1| 23S rRNA pseudouridine synthase F [Psychrobacter arcticus 273-4] gi|71038400|gb|AAZ18708.1| ribosomal large subunit pseudouridine synthase F [Psychrobacter arcticus 273-4] Length = 332 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 68/303 (22%), Positives = 128/303 (42%), Gaps = 11/303 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N + R++K I+ +GI SRR+ +R I Q V +NG V++ D ++V+G + Sbjct: 3 NASSTRLNKYISESGICSRRDADRFIEQGNVYLNGKRAA-VGDQVVAGDTVKVNGQLIEP 61 Query: 70 AE--RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E + +KP+G+V+T + + V + R+ +GRLD +++GL+ LTN+ Sbjct: 62 KEADDFVFIVLNKPVGIVSTTESSEKNNIV--DFVRHSVRIFPIGRLDKDSQGLIFLTNN 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + L G+ + G VT K + Sbjct: 120 GDLVNKVLRAGNNHEKDYVVTVNKPITDSFIEGLAGGVPMLGKMTKKCPVT----KVAPN 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E F ++V +L R L G R+++ + L L Sbjct: 176 VFNITLVQGLNRQIRRMCEHFGYEVVKLERTRIMNVSLKGTPVGDWRDLTPQELSVLL-- 233 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 +E++ P S R + + K +++ N + P Sbjct: 234 KSIEDSSSESSTPAKKSRNTPRKNARTDTSEKPKVSSKPKGAAKGNAKHPKDGARKPAGS 293 Query: 308 RNL 310 + Sbjct: 294 KGK 296 >gi|119898401|ref|YP_933614.1| pseudouridylate synthase [Azoarcus sp. BH72] gi|119670814|emb|CAL94727.1| pseudouridylate synthase [Azoarcus sp. BH72] Length = 356 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 92/271 (33%), Positives = 142/271 (52%), Gaps = 9/271 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--- 68 P+R+ KV+A+AG+ASRRE+E ++ R+ VNG+ + D ++++G + Sbjct: 89 EPERLQKVLAQAGVASRREIEELVVAGRISVNGLPA-SLGQKIGPGDRVKLNGKLIPLRF 147 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 R+ +YHKP G + + DP+GR TVF+ LP + R ++VGRLD NT GLLL TND Sbjct: 148 SQRSPRVLVYHKPEGEIVSRDDPEGRPTVFERLPLLRKGRWLAVGRLDFNTSGLLLFTND 207 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P + R Y VR GQ+ +++ L GI ++ + + +G N Sbjct: 208 GDLANRLMHPRYELTREYAVRLLGQLTEEQGQSLVDGIQLEDGPARFLSLVDAGGEGVNH 267 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 W V L EG+NRE++++FE V+RL+R+ YGP +L L G E+ + + Sbjct: 268 WYRVTLAEGRNREVRRMFEAVGLTVSRLMRVRYGPVELPARLKRGMWMELPEA---DACA 324 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 L +V+ A E R + E Sbjct: 325 LAGLPPPRVDPSARGARREKAPRLHHTLPHE 355 >gi|113969809|ref|YP_733602.1| ribosomal large subunit pseudouridine synthase B [Shewanella sp. MR-4] gi|114047038|ref|YP_737588.1| ribosomal large subunit pseudouridine synthase B [Shewanella sp. MR-7] gi|113884493|gb|ABI38545.1| ribosomal large subunit pseudouridine synthase B [Shewanella sp. MR-4] gi|113888480|gb|ABI42531.1| ribosomal large subunit pseudouridine synthase B [Shewanella sp. MR-7] Length = 291 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 99/298 (33%), Positives = 152/298 (51%), Gaps = 17/298 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E IA RV ++G++ + + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSIDGVIA-NLGDRIEADAKVRIDGRAISLKSA 60 Query: 73 ----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+D Sbjct: 61 DDVICRVLAYHKPEGEICSRKDPEGRPTVFDRLPKVRDSRWVAVGRLDINTSGLLLFTSD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V + + L+ G++++ + +G N Sbjct: 121 GELANRLMHPSNEVEREYAVRTFGEVPEAAVQRLRTGVMLEDGMAQFDAIKAAGGEGMNQ 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILRE 243 W V LREG+NRE+++++E +V+RLIR+ YG +L +L G E+ + LR+ Sbjct: 181 WWHVCLREGRNREVRRLWESQEVQVSRLIRVRYGMVELPKSLPRGGWVELPIEQVNYLRQ 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 G L E + L A +S I V R K ++ +++ Sbjct: 241 LAG--LEPETRTMLAADKHSVARAQVKSAKIRRAV-----RKHKVTATPKAKPTRQRS 291 >gi|169350449|ref|ZP_02867387.1| hypothetical protein CLOSPI_01217 [Clostridium spiroforme DSM 1552] gi|169292769|gb|EDS74902.1| hypothetical protein CLOSPI_01217 [Clostridium spiroforme DSM 1552] Length = 239 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 70/231 (30%), Positives = 115/231 (49%), Gaps = 6/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A GI +R+EV+ I + V+VNG ++++ V D I DG + Sbjct: 3 MRLDKLLANYGIGTRKEVKSYIRKGFVEVNGEIIKKDDYKVDYQKDEIIFDGELIEYR-P 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G V+ D + TV D + + + VGRLDI+TEGLLL++NDG A Sbjct: 62 YVYLMLNKPKGYVSATKD-NVHPTVIDLIVGYENYDLFPVGRLDIDTEGLLLISNDGDFA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 L P+ +VY R G +++ + K G+++ G + + + V Sbjct: 121 HRLMSPNRNHAKVYVARIAGIMNEFDILAFKDGVILDNGYKCKPANLKILEVFDDSCEVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + + EGK ++KK+ E N KV L RIS + +L G RE++K+ Sbjct: 181 IEIFEGKFHQVKKMVEACNKKVTYLKRISIKGLTIDRSLQLGDFRELTKEE 231 >gi|290475891|ref|YP_003468784.1| 16S rRNA pseudouridylate 516 synthase [Xenorhabdus bovienii SS-2004] gi|289175217|emb|CBJ82020.1| 16S rRNA pseudouridylate 516 synthase [Xenorhabdus bovienii SS-2004] Length = 235 Score = 253 bits (646), Expect = 3e-65, Method: Composition-based stats. Identities = 57/229 (24%), Positives = 102/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR +V R + RV V+ +++ A + I +G L + + Sbjct: 1 MRLDKFLSQQLGISRNDVGRELRASRVTVDDEVIKSGAYKLKPDHQIAYEGSVLEQLGGS 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DP + ++ + ++ S GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPTNPTILYFIDEPVAHKLHSAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V + D G+ + G L+ + V + + Sbjct: 121 ITSPKHHCEKTYLVTLEYPISDDTEMKFLAGVQLNGEKTLTKPAKLEIIEP--HRVRLSI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 REG+ ++K++F V L R G L TL G R ++K + Sbjct: 179 REGRYHQVKRMFAAVGNHVVELHRERVGQIYLDSTLEPGEYRALTKHEI 227 >gi|73541719|ref|YP_296239.1| ribosomal large subunit pseudouridine synthase B [Ralstonia eutropha JMP134] gi|72119132|gb|AAZ61395.1| ribosomal large subunit pseudouridine synthase B [Ralstonia eutropha JMP134] Length = 615 Score = 253 bits (646), Expect = 3e-65, Method: Composition-based stats. Identities = 86/247 (34%), Positives = 135/247 (54%), Gaps = 7/247 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + + ++ P ++ KV+A G+ SRRE+E +I Q RV VNG+ ++ TD + V+ Sbjct: 209 RELSADDDAP-KLHKVLAEGGLGSRREMEELILQGRVSVNGLPA-HIGQRILPTDQVRVN 266 Query: 64 GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 G + + + R+ LYHKP G + + SDP+GR TVFD+LP + + + ++VGRLD NTE Sbjct: 267 GKLIHRKVSTKPPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFNTE 326 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+ T G +A P R Y VR G++ + L GI + +++ Sbjct: 327 GLLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAEADRQRLLHGIKLDDGEANFLRIAD 386 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 +G N W V L EG+NRE++++FE V+RLIR YG F L L G +E+ Sbjct: 387 GGGEGVNQWYHVALTEGRNREVRRMFEAVGLTVSRLIRTRYGQFLLPRGLKRGRWQELEA 446 Query: 239 KILREQL 245 ++ + Sbjct: 447 NEVKSMM 453 >gi|323490333|ref|ZP_08095548.1| ribosomal large subunit pseudouridine synthase F [Planococcus donghaensis MPA1U2] gi|323396003|gb|EGA88834.1| ribosomal large subunit pseudouridine synthase F [Planococcus donghaensis MPA1U2] Length = 235 Score = 253 bits (646), Expect = 3e-65, Method: Composition-based stats. Identities = 60/233 (25%), Positives = 117/233 (50%), Gaps = 8/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ GI SRR ++ I RV +NG L + S+D ++VDG + + + Sbjct: 1 MRINKFLSETGITSRRGADKFIEAGRVTINGNLA-ELGSKIESSDEVKVDGKVIEQPNQQ 59 Query: 74 RLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++L +KP+G+ +T ++ + D + + R+ +GRLD ++EGL+LLTNDG + Sbjct: 60 YVYLALNKPVGITST-TERHIEGNIVDFV-NHAERIFHIGRLDKDSEGLILLTNDGDIVN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V+ + + L+ +++G+ I + +K S+ + Sbjct: 118 EILRVENEHEKEYVVKVDMPITESFLSKMEEGVEILDTKTLPAKA----EKLSSYTFKLT 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 LR+G NR+I+++ ++V L R+ LG L G R+++ E Sbjct: 174 LRQGLNRQIRRMCTALGYEVRSLKRVRIINIFLGDLPVGEWRDLTDVERTELF 226 >gi|161505323|ref|YP_001572435.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980] gi|160866670|gb|ABX23293.1| hypothetical protein SARI_03464 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:--] Length = 309 Score = 253 bits (646), Expect = 3e-65, Method: Composition-based stats. Identities = 71/297 (23%), Positives = 127/297 (42%), Gaps = 12/297 (4%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V++ D ++V+G + Sbjct: 21 TDTSIRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDVVKVNGRLIEP 79 Query: 70 AE--RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E L +KP+G+V+T D + R + D + + R+ VGRLD +++GL+ LTN Sbjct: 80 READDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRIFPVGRLDKDSQGLIFLTNH 137 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V V + + + G+ I G +K + Sbjct: 138 GDLVNKILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPILGTVTK----KCKVKKEAPF 193 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E F + V +L R L + G R+++ L + Sbjct: 194 VFRITLVQGLNRQIRRMCEHFGYDVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLF-- 251 Query: 248 HLLEEAQVNLDAPIYSS-ETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 L+E + ++ + + + + + SS K S +K Sbjct: 252 KLIERSSSEAKTKTKATPKPKTAGIKRPVVAIEKSNEKARPASSGKRFTSPGRKKKG 308 >gi|300781239|ref|ZP_07091093.1| 16S rRNA uridine-516 pseudouridylate synthase [Corynebacterium genitalium ATCC 33030] gi|300532946|gb|EFK54007.1| 16S rRNA uridine-516 pseudouridylate synthase [Corynebacterium genitalium ATCC 33030] Length = 318 Score = 253 bits (646), Expect = 3e-65, Method: Composition-based stats. Identities = 77/237 (32%), Positives = 116/237 (48%), Gaps = 4/237 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ KV+A+AG+ASRR E MI + RV+VNG ++ + V V D I VDGV + Sbjct: 76 DGIRLQKVLAQAGVASRRHSEVMIDEGRVEVNGKIVRQQGVRVDPNVDIIRVDGVRVNVN 135 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTND 127 E + + +KP G+ TT D GR V D + R+ VGRLD +TEGLLLLTND Sbjct: 136 EDQQYFALNKPRGVHTTMEDELGRPCVGDFVADRVAAGQRLFHVGRLDADTEGLLLLTND 195 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L+ L P + Y G+ + LKKGI ++ + + Sbjct: 196 GELSNRLMHPKYGVEKTYLATVLGEAKPALVRELKKGIELEDGVAKADYAQIVDTHQGQS 255 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + + EG+ ++++ + + V RL+R QLG L G+ R ++ L Sbjct: 256 LIRLVIHEGRKHVVRRMLKEAGYPVQRLVRTKIHTVQLGELKPGAMRALNDSELTAL 312 >gi|225569254|ref|ZP_03778279.1| hypothetical protein CLOHYLEM_05336 [Clostridium hylemonae DSM 15053] gi|225162053|gb|EEG74672.1| hypothetical protein CLOHYLEM_05336 [Clostridium hylemonae DSM 15053] Length = 247 Score = 253 bits (646), Expect = 3e-65, Method: Composition-based stats. Identities = 66/233 (28%), Positives = 120/233 (51%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ AG+ SRRE +R+I + RV V+G + V + + V +R ++ Sbjct: 1 MRLNKFLSEAGVCSRREADRLIEEGRVTVDGKKA-VPGMQVDPSSEVRVGKKRIRSKDKK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+V T D ++ + L R+ GRLD +EGLL++T+DG L Sbjct: 60 TVLAVHKPAGIVCT-EDKRVKNNIIRFL-KYPERITYAGRLDKESEGLLIMTDDGELING 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGSNAWVTV 191 + + Y+V + V ++ +N + G+ + G +VT + ++ T+ Sbjct: 118 MMRSRYGHEKEYKVWVNKPVTEEFVNRMSSGVRLVDKEKGLDEVTRPCEVRQCGTYIFTI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 L +G NR+I+++ E +KV RL+RI +LG L G+ R+++++ L E Sbjct: 178 ILTQGLNRQIRRMCEALGYKVKRLVRIRIMNIELGNLKPGAYRKLTEQELNEL 230 >gi|331091189|ref|ZP_08340030.1| hypothetical protein HMPREF9477_00673 [Lachnospiraceae bacterium 2_1_46FAA] gi|330404636|gb|EGG84175.1| hypothetical protein HMPREF9477_00673 [Lachnospiraceae bacterium 2_1_46FAA] Length = 234 Score = 253 bits (646), Expect = 4e-65, Method: Composition-based stats. Identities = 64/234 (27%), Positives = 117/234 (50%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + + SR EV++ I Q R+ V+G + + + + VD + E Sbjct: 2 MRLDKYLCEMNVGSRSEVKKYIRQGRITVDGKTAVKPEEKIDEHSQKVCVDSRVIGY-EA 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ +D + TV D + + + VGRLD +TEGLLL+TNDG +A Sbjct: 61 FEYYMLYKPSGVVSATTDRKEK-TVLDLIEEKKRKDLFPVGRLDKDTEGLLLITNDGEMA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P +VY + G+V + ++ + +G+ I Y ++G+ + + + Sbjct: 120 HRLLSPKKHVDKVYYAKIDGKVTEREVQIFSEGLSIGNDEYAKPSALKILKEGNISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 ++EGK ++K++F +V L RIS G L +L G R +++K + + Sbjct: 180 TIQEGKFHQVKRMFHAVGMEVIYLKRISMGNLVLDESLKKGEYRRLTEKEVEQL 233 >gi|256832502|ref|YP_003161229.1| pseudouridine synthase [Jonesia denitrificans DSM 20603] gi|256686033|gb|ACV08926.1| pseudouridine synthase [Jonesia denitrificans DSM 20603] Length = 265 Score = 253 bits (646), Expect = 4e-65, Method: Composition-based stats. Identities = 82/235 (34%), Positives = 122/235 (51%), Gaps = 1/235 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKA 70 R+ KV+A AG+ SRRE E +I Q RV+V+G ++ V V T H+ VDG+ + Sbjct: 26 DGIRLQKVMADAGVGSRRECENLIRQGRVEVDGQIVMELGVRVDPTAHVVTVDGLRIMAD 85 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +KP +V T DP+GR+TV D + R+ VGRLD +EGLLLLTNDG L Sbjct: 86 ASKITIAVNKPQKMVATMHDPEGRATVADLVSKRTERLFHVGRLDYESEGLLLLTNDGEL 145 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y V G+V + L +GI ++ + Q + + Sbjct: 146 ANRLSHPRYNVRKTYVVTVKGRVANGVGSQLLRGITLEDGEVALDSYRVIDQTDTETMIE 205 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 V L G+NR ++++F+ V RL+R S GP +LG L G TR +++ + + Sbjct: 206 VQLHSGRNRIVRRIFDSLGHPVTRLVRTSIGPIKLGDLKQGRTRVLNRTEVATLM 260 >gi|171059554|ref|YP_001791903.1| pseudouridine synthase [Leptothrix cholodnii SP-6] gi|170776999|gb|ACB35138.1| pseudouridine synthase [Leptothrix cholodnii SP-6] Length = 736 Score = 253 bits (646), Expect = 4e-65, Method: Composition-based stats. Identities = 103/372 (27%), Positives = 158/372 (42%), Gaps = 22/372 (5%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K +++ ++ KV+A+AG+ SRR++E++I + +V VNG + + + D I+ Sbjct: 278 PGKRVLRPEPEAPKLHKVLAQAGVGSRRDMEQLIQEGQVSVNGEVA-HIGMRIAQGDQIK 336 Query: 62 VDGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDIN 117 + G P++ R+ YHKP+G V TH DP+GR TVF LP + + +SVGRLDIN Sbjct: 337 IAGRPIKVRIAPPPARVLAYHKPVGEVVTHHDPEGRPTVFRRLPRLPVGKWLSVGRLDIN 396 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLL TN G LA L P R Y VR G +D+ L +G+ I+G + Sbjct: 397 TEGLLLFTNSGELANQLMHPRFGVEREYAVRVLGSLDEAARARLLEGVEIEGQRAMFKSI 456 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V + EG+NRE++++F+ V+RLIRI Y L L G E+ Sbjct: 457 DDGGGEGINHWYRVVITEGRNREVRRLFDAVGLTVSRLIRIRYATVVLPRGLKRGVWVEL 516 Query: 237 SKKILREQL----GPHLLEEAQVNLDAPIYSSETLVRDRPNI----------ISEVPDDF 282 +R+ GP + +E RD Sbjct: 517 DDNDVRQIRQIANGPRAERGEREERGPRADRAERGPRDGQQPGRGAGKGKGGGQGQGQGP 576 Query: 283 TRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWM--AKGIHSSFLSDSGQREENHRRSPS 340 + + G Q++ PV + + G + R + Sbjct: 577 QMSQGGQNAPGGRGNQQRGNKPVGKGGQGGQGFERRGPDGRPGAPRSGGAEWRDERPARD 636 Query: 341 FPSKRSLRRTSA 352 R R Sbjct: 637 GNVSREPPRERE 648 >gi|261341580|ref|ZP_05969438.1| ribosomal large subunit pseudouridine synthase F [Enterobacter cancerogenus ATCC 35316] gi|288316382|gb|EFC55320.1| ribosomal large subunit pseudouridine synthase F [Enterobacter cancerogenus ATCC 35316] Length = 290 Score = 253 bits (646), Expect = 4e-65, Method: Composition-based stats. Identities = 73/292 (25%), Positives = 130/292 (44%), Gaps = 12/292 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AER 72 R++K I+ +GI SRRE +R I Q V +NG V+ D ++V+G + AE Sbjct: 8 RLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVVPGDVVKVNGQLIEPRDAED 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP+G+V+T D + R + D + + SR+ +GRLD +++GL+ LTN G L Sbjct: 67 LVFIALNKPVGIVSTTEDGE-RDNIVDFV-NHSSRIFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + V + + + G+ I G +V + + Sbjct: 125 KILRAGNDHEKEYIVTVNKPVTDEFIRGMGAGVPILGTVTKKCKVKKEAPFA----FRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E F + V +L R L + G R+++ L E L+E Sbjct: 181 LVQGLNRQIRRMCEHFGYDVTKLERTRIMNVSLSGIPLGEWRDLTDDELIELF--RLIEN 238 Query: 253 AQVN-LDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +T RP + + ++ R K + ++ +KK Sbjct: 239 SSSEAKPKAKAKPKTQAIKRPVVKAPPAEEKGRGKPANGKRFAQPGRKKKGR 290 >gi|33861215|ref|NP_892776.1| putative pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus subsp. pastoris str. CCMP1986] gi|33639947|emb|CAE19117.1| putative pseudouridylate synthase specific to ribosomal small subunit [Prochlorococcus marinus subsp. pastoris str. CCMP1986] Length = 240 Score = 253 bits (646), Expect = 4e-65, Method: Composition-based stats. Identities = 63/246 (25%), Positives = 113/246 (45%), Gaps = 11/246 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AER 72 R++K ++ G SRR + +I + +V +NG + V D +EV+G + K Sbjct: 4 RINKYLSEVGYCSRRVADSLIEEGKVTINGEIP-EMGTKVEEGDQVEVEGQRIEKSMKHE 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +++KP+G+V T + D + +R+ +GRLD +EGL+ LTNDG + Sbjct: 63 KIYLVFNKPVGIVCTTDRRVESDNIIDFI-KYPTRIFPIGRLDKPSEGLIFLTNDGDIVN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + +++D + + G+ I G + V K + Sbjct: 122 KILRARNNHEKEYIVSVNRPINRDFIQSMSNGVEILGTITKNCFVKQLGPKK----FRII 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E ++V L R+ +L + G RE +K+ L E LLE Sbjct: 178 LTQGLNRQIRRMCESLGFRVKSLKRVRIMNIKL-DVSIGEYREFTKEELFEL--NKLLEN 234 Query: 253 AQVNLD 258 + D Sbjct: 235 SSKTYD 240 >gi|93005736|ref|YP_580173.1| 23S rRNA pseudouridine synthase F [Psychrobacter cryohalolentis K5] gi|92393414|gb|ABE74689.1| ribosomal large subunit pseudouridine synthase F [Psychrobacter cryohalolentis K5] Length = 328 Score = 253 bits (646), Expect = 4e-65, Method: Composition-based stats. Identities = 68/303 (22%), Positives = 127/303 (41%), Gaps = 11/303 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N + R++K I+ +GI SRR+ +R I Q V +NG V++ D ++V+G + Sbjct: 3 NASSTRLNKYISESGICSRRDADRFIEQGNVYLNGKRAA-VGDQVVAGDTVKVNGQLIEP 61 Query: 70 AE--RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E + +KP+G+V+T + + V + R+ +GRLD +++GL+ LT++ Sbjct: 62 KEADDFVFIVLNKPVGIVSTTESSEKNNIV--DFVRHSVRIFPIGRLDKDSQGLIFLTSN 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + L G+ + G VT K + Sbjct: 120 GDLVNKVLRAGNNHEKEYLVTVNKPLTDSVIEGLAGGVPMLGKMTKKCPVT----KVAPN 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E F ++V +L R L G R+++ K L L Sbjct: 176 VFNITLVQGLNRQIRRMCEHFGYEVVKLERTRIMNVSLKGTPVGDWRDLTPKELSVLL-- 233 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 +E++ P S R P + +++ N + P Sbjct: 234 KSVEDSSSQDSKPAKKSRNAPRKNPRTDDSSKAKSSSKTAGAAKGNKKHSKDGARKPAGS 293 Query: 308 RNL 310 + Sbjct: 294 KGK 296 >gi|306831693|ref|ZP_07464850.1| ribosomal small subunit pseudouridine synthase A [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|304426118|gb|EFM29233.1| ribosomal small subunit pseudouridine synthase A [Streptococcus gallolyticus subsp. gallolyticus TX20005] Length = 253 Score = 253 bits (646), Expect = 4e-65, Method: Composition-based stats. Identities = 70/244 (28%), Positives = 114/244 (46%), Gaps = 8/244 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEV 62 KN+ R+ K + AGI SR EV++++ +++V VNG + + D I Sbjct: 2 KNVRIGKGKKMRLDKFLVEAGIGSRTEVKQLLKKKQVLVNGKVEISPKTQIDEKADRISC 61 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEG 120 G L E+ ++ +KP G+++ D + TV D L V VGRLDI+T G Sbjct: 62 QGQTLSY-EKYVYYMLNKPKGVISATED-NHHKTVLDLLDKTAWDKEVFPVGRLDIDTHG 119 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLLLTN+G LA + P + YR + G + + GI ++ Q+ + Sbjct: 120 LLLLTNNGKLAHAMLSPKKHVDKTYRAKVAGLMTTADVAAFANGIDLKDFTCQPAQLVIL 179 Query: 181 T--QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 + + V + ++EGK ++K++ + KV L R+S P QL L G R ++ Sbjct: 180 ETNEAERTSVVEITIKEGKFHQVKRMVQACGKKVTDLQRLSMVPLQLDKQLALGEWRRLT 239 Query: 238 KKIL 241 L Sbjct: 240 DDEL 243 >gi|119476913|ref|ZP_01617194.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [marine gamma proteobacterium HTCC2143] gi|119449720|gb|EAW30957.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [marine gamma proteobacterium HTCC2143] Length = 282 Score = 253 bits (646), Expect = 4e-65, Method: Composition-based stats. Identities = 95/276 (34%), Positives = 148/276 (53%), Gaps = 6/276 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E+ ++ K++A+AG+ SRRE+E++IA +RV VNG + + S D I VDG + Sbjct: 5 ESPAGDKLQKLLAQAGVGSRREMEKVIADRRVTVNGKVAK-LGDRASSRDKIAVDGKLVG 63 Query: 69 KAER---TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLL 124 AE+ R+ +Y+KP G + + SDP+GR TVF+ LP SR I+VGRLD NT GL++ Sbjct: 64 VAEQDSAGRVLIYNKPEGEICSRSDPEGRKTVFERLPKLTGSRWIAVGRLDFNTSGLMIF 123 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T DG LA L PS++ R Y R G V L L G++++ + +G Sbjct: 124 TTDGQLANALMHPSSEIDREYLCRVLGNVSDVVLQRLSDGVLLEDGTAKFTDIVDGGGEG 183 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 +N W V L EG+NRE+++++E +V+RL R+ +G L + L G +E+ K ++E Sbjct: 184 ANHWYYVALMEGRNREVRRLWESQEIQVSRLKRVRFGGVFLPSKLRQGQWQEMPYKEVQE 243 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVP 279 +E + P + R N + P Sbjct: 244 LYKMAGMEALKPQKMMPKELQSMERQQRKNRGIKHP 279 >gi|242374043|ref|ZP_04819617.1| pseudouridylate synthase [Staphylococcus epidermidis M23864:W1] gi|242348249|gb|EES39851.1| pseudouridylate synthase [Staphylococcus epidermidis M23864:W1] Length = 230 Score = 253 bits (646), Expect = 4e-65, Method: Composition-based stats. Identities = 62/229 (27%), Positives = 110/229 (48%), Gaps = 9/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V+VN ++ ++ DH+ V+G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGAVEVNDKKIKTPKTHINPNEDHVTVNGSTISYIEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+++ D D TV D +P + VGRLD +TEGLLLLTNDG Sbjct: 61 -VYIMLNKPKGVISATED-DSHKTVIDLIPEYSHLGIFPVGRLDKDTEGLLLLTNDGQFN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + Q + + G+ + ++ KG++ V Sbjct: 119 HELMNPNKHVSKTYEVVSKYPIKQADIEAFESGVELSDGKVKPAKLI----KGNDHLSYV 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F +V L RI +L +L G R ++++ Sbjct: 175 TIYEGKYHQVKRMFHSIENEVLELKRIKIANLELDQSLNDGEFRFLNEQ 223 >gi|189347479|ref|YP_001944008.1| pseudouridine synthase [Chlorobium limicola DSM 245] gi|189341626|gb|ACD91029.1| pseudouridine synthase [Chlorobium limicola DSM 245] Length = 252 Score = 253 bits (646), Expect = 4e-65, Method: Composition-based stats. Identities = 74/249 (29%), Positives = 130/249 (52%), Gaps = 8/249 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 MK + R+++ +A G+ASRR ++++ RV +NG ++ + V + D Sbjct: 1 MKKRTAENREERLVRINRYLAMCGVASRRASDQLVEAGRVMINGSIILEPGLKVDPSVDE 60 Query: 60 IEVDGVPLRKAE-RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + VDG L E + L++KP ++TT+SD R TV + + S+ R+ VGRLD T Sbjct: 61 VIVDGSMLALPEGKKVYILFNKPKNVITTNSDEKNRETVLNYI-SVKERIYPVGRLDRKT 119 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQ 176 G+LLLTNDG LA L PS+ + Y + L L G+ ++ G Q Sbjct: 120 TGVLLLTNDGNLAHKLMHPSSNVKKEYIAVLDKKFPHTLLLQLTGGMRLKDTGEKVSPCQ 179 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + G W++ + EGKN +++++FE ++V++L R++Y ++G L G R + Sbjct: 180 AKILDE-GFQVWLS--IHEGKNHQVRRMFETLGFEVDKLERVAYAGLKVGDLRRGEWRAL 236 Query: 237 SKKILREQL 245 +K +++ Sbjct: 237 DRKEIQQLF 245 >gi|261210662|ref|ZP_05924954.1| ribosomal large subunit pseudouridine synthase B [Vibrio sp. RC341] gi|260840147|gb|EEX66727.1| ribosomal large subunit pseudouridine synthase B [Vibrio sp. RC341] Length = 319 Score = 253 bits (646), Expect = 4e-65, Method: Composition-based stats. Identities = 106/310 (34%), Positives = 149/310 (48%), Gaps = 11/310 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV VNG + + VDG + + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDDNALVRVDGHVVSVKAQ 61 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G V+++K+ L +G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGDVNEEKVRNLVRGVQLEDGMARFEDVMYAGGEGINH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK---ILRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFLDKKLPRGGWMELDLKQVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E +N AP ++ R R I + + S ++K Sbjct: 242 LVELRPEKETVLN-TAPDAATRKRERTRSQKIRRAVRRHEERVSTAPGR-SSSARRKPGG 299 Query: 304 PVHRRNLASN 313 RN +N Sbjct: 300 ESSTRNKVAN 309 >gi|323343010|ref|ZP_08083241.1| ribosomal large subunit pseudouridine synthase B [Erysipelothrix rhusiopathiae ATCC 19414] gi|322463074|gb|EFY08269.1| ribosomal large subunit pseudouridine synthase B [Erysipelothrix rhusiopathiae ATCC 19414] Length = 262 Score = 253 bits (646), Expect = 4e-65, Method: Composition-based stats. Identities = 66/243 (27%), Positives = 113/243 (46%), Gaps = 7/243 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 I E R++K I+ +G SRR+ +R IA+ V ++G+ V+ + V+ Sbjct: 16 NPIQHEARESLRLNKYISDSGYCSRRQADRFIAEGVVAIDGVTAT-VGQQVLPGQRVTVE 74 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHS-DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 G + + +KP G+ T +G + F N P + + +GRLD ++ GL+ Sbjct: 75 GNHVTIDDEKVYIALNKPRGITCTTDGAIEGNISDFMNYPKM---IFPIGRLDKDSSGLI 131 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LD 180 LLTNDG + + + Y V + +D+D + + KG+ I MQVT D Sbjct: 132 LLTNDGDIVNKILREEYGHDKEYIVSVNKTIDEDFITKMSKGVEIYNQQTHRMQVTNPSD 191 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + + L +G NR+I+++ + +KV L R+ LG L G R +S Sbjct: 192 VEQVAPKTFRIVLNQGLNRQIRRMTKALGFKVTTLNRVRIMNINLGDLKVGEWRYLSVHE 251 Query: 241 LRE 243 L E Sbjct: 252 LEE 254 >gi|89256369|ref|YP_513731.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. holarctica LVS] gi|115314814|ref|YP_763537.1| pseudouridylate synthase [Francisella tularensis subsp. holarctica OSU18] gi|156502454|ref|YP_001428519.1| RNA pseudouridine synthase B [Francisella tularensis subsp. holarctica FTNF002-00] gi|167010714|ref|ZP_02275645.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. holarctica FSC200] gi|254367705|ref|ZP_04983726.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. holarctica 257] gi|254369343|ref|ZP_04985355.1| pseudouridylate synthase [Francisella tularensis subsp. holarctica FSC022] gi|89144200|emb|CAJ79469.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. holarctica LVS] gi|115129713|gb|ABI82900.1| pseudouridylate synthase [Francisella tularensis subsp. holarctica OSU18] gi|134253516|gb|EBA52610.1| ribosomal large subunit pseudouridine synthase B [Francisella tularensis subsp. holarctica 257] gi|156253057|gb|ABU61563.1| RNA pseudouridine synthase B [Francisella tularensis subsp. holarctica FTNF002-00] gi|157122293|gb|EDO66433.1| pseudouridylate synthase [Francisella tularensis subsp. holarctica FSC022] Length = 271 Score = 253 bits (646), Expect = 4e-65, Method: Composition-based stats. Identities = 96/251 (38%), Positives = 131/251 (52%), Gaps = 9/251 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N + P+R+ K++A+ GI SRR++E I Q RVKVNG + D I Sbjct: 1 MRRANQNNDK-NPERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVAT-LGDKASEADKI 58 Query: 61 EVDGVPL----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLD 115 D L + R R+ +YHK G V T D R TVFD+LP + R I VGRLD Sbjct: 59 SFDSKALHSYGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLD 118 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-VDQDKLNLLKKGIVIQGICYGD 174 INT GLLL T DG LA L PS Q R Y VR GQ + + +N LK+GI ++ Sbjct: 119 INTTGLLLFTTDGDLANRLMHPSYQIEREYAVRVFGQQLSDETINKLKEGIQLEDGIAKF 178 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGST 233 + +G+N W V L EG+NRE++++FE V+RL RI +G L + G T Sbjct: 179 NSIKFSGGEGANLWYYVTLSEGRNREVRRMFEAVGVTVSRLTRIRFGDIILPKFVSRGKT 238 Query: 234 REVSKKILREQ 244 E++ + Sbjct: 239 LELNPSEVNRL 249 >gi|166031891|ref|ZP_02234720.1| hypothetical protein DORFOR_01592 [Dorea formicigenerans ATCC 27755] gi|166028344|gb|EDR47101.1| hypothetical protein DORFOR_01592 [Dorea formicigenerans ATCC 27755] Length = 243 Score = 253 bits (646), Expect = 4e-65, Method: Composition-based stats. Identities = 67/238 (28%), Positives = 120/238 (50%), Gaps = 8/238 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K ++ G+ +R+EV++ I + +V+V+G + +R + V T ++ +DG + A Sbjct: 7 IRLDKFLSEMGVGTRQEVKQYIRKGKVEVDGEIAKRPELKVDETKANVTLDGERIGYA-S 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ D + TV D + + + VGRLD +T GLLL+TNDG LA Sbjct: 66 YVYYMLNKPSGVVSATEDKREK-TVIDLIKGQKRKDLFPVGRLDKDTVGLLLITNDGNLA 124 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSN-AW 188 L P + Y + G V +D +G+ I + M LD K + + Sbjct: 125 HRLLSPKHHVDKCYFAKVQGNVTKDDAEKFAEGVNIGTEDEPEITMPGKLDIIKSDDLSE 184 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 + + ++EGK ++K++F+ +V L R G L L G R ++++ L+ L Sbjct: 185 IRLTIQEGKFHQVKRMFQAVGKEVVYLKRERMGSLILDDNLAEGEYRMLTEEELKNLL 242 >gi|145295560|ref|YP_001138381.1| hypothetical protein cgR_1487 [Corynebacterium glutamicum R] gi|140845480|dbj|BAF54479.1| hypothetical protein [Corynebacterium glutamicum R] Length = 320 Score = 253 bits (646), Expect = 4e-65, Method: Composition-based stats. Identities = 75/236 (31%), Positives = 117/236 (49%), Gaps = 4/236 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 + R+ KV+A+AG+ASRR E +I Q RV+VN ++ V V D I VDGV + Sbjct: 76 DSDGVRLQKVLAQAGVASRRHAEILIDQGRVEVNDRIVTTQGVRVNPNNDVIRVDGVRIH 135 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLT 125 E ++ +KP G+ +T SD GR V D + R+ VGRLD +TEGLLLLT Sbjct: 136 INEDLEYFVLNKPRGMHSTMSDELGRPCVGDLVSEKTASGQRLFHVGRLDADTEGLLLLT 195 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L P + + Y G+ ++ L+ G+ ++ + Sbjct: 196 NDGELANRLMHPKYEVSKTYLATVRGEATNKLVSALRDGVELEDGPAKADFAQIIDVFQG 255 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + + EG+ ++++F+ + V RL+R QLG GS R ++ L Sbjct: 256 KSLLRIEIHEGRKHIVRRLFDELGFPVERLVRTKLHTVQLGDQKPGSLRALNSSEL 311 >gi|319946247|ref|ZP_08020487.1| ribosomal small subunit pseudouridine synthase A [Streptococcus australis ATCC 700641] gi|319747629|gb|EFV99882.1| ribosomal small subunit pseudouridine synthase A [Streptococcus australis ATCC 700641] Length = 247 Score = 253 bits (646), Expect = 4e-65, Method: Composition-based stats. Identities = 69/238 (28%), Positives = 117/238 (49%), Gaps = 8/238 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 R+ K + G+ SR EV++++ +++++VNG + +++ D + G L Sbjct: 2 KEASMRLDKYLVDCGVGSRTEVKQVLKKKKIQVNGKVETSPKIHIDPDKDQVTYLGESL- 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTN 126 E +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN Sbjct: 61 FHEEFVYYLLNKPKGVISATED-DHHQTVLDLLDDTARHKEVFPVGRLDIDTHGLLLLTN 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKG 184 +G LA + P +VYR + G + Q+ ++ K+GI ++ ++ + Q+ Sbjct: 120 NGKLAHAMLSPKKHVDKVYRAQVAGIMTQEDIDRFKEGIELKDFTTLPAELEMLEVDQEA 179 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++ V + + EGK ++K++ +V L RIS GP L L G R + L Sbjct: 180 NSCLVQIRIAEGKFHQVKRMVAACGKEVTDLERISMGPLSLDPALKLGQWRRLQSSEL 237 >gi|37679411|ref|NP_934020.1| pseudouridine synthase family 1 protein [Vibrio vulnificus YJ016] gi|320156837|ref|YP_004189216.1| ribosomal large subunit pseudouridine synthase B [Vibrio vulnificus MO6-24/O] gi|37198154|dbj|BAC93991.1| pseudouridine synthase family 1 protein [Vibrio vulnificus YJ016] gi|319932149|gb|ADV87013.1| ribosomal large subunit pseudouridine synthase B [Vibrio vulnificus MO6-24/O] Length = 320 Score = 253 bits (646), Expect = 4e-65, Method: Composition-based stats. Identities = 107/308 (34%), Positives = 147/308 (47%), Gaps = 15/308 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ KV+ARAG SRRE+E +I RV VNGI+ + + +DG + + Sbjct: 3 EKLQKVLARAGHGSRRELEALIKSGRVSVNGIVAKLGERLEDEQAVVRIDGHVVSVKAQE 62 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V++ K+ L G+ + V +G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVNEHKVRNLVNGVELDDGLARFEDVVYTGGEGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI---LREQ 244 V + EG+NRE+++++E + V+RL R+ YG L L G E+ K LRE Sbjct: 183 FYVVINEGRNREVRRLWESQDCTVSRLKRVRYGDIYLDKKLPRGGWMELELKDVNYLREL 242 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 + +E + L+ SS R R I R ++ S G S P Sbjct: 243 VELRPEKETMIELN---NSSRKRDRARSQKIRR---AVKRHEERVSTPKGRSNNAARRKP 296 Query: 305 VHRRNLAS 312 S Sbjct: 297 SKAAGQTS 304 >gi|311281430|ref|YP_003943661.1| pseudouridine synthase [Enterobacter cloacae SCF1] gi|308750625|gb|ADO50377.1| pseudouridine synthase [Enterobacter cloacae SCF1] Length = 292 Score = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 74/307 (24%), Positives = 127/307 (41%), Gaps = 25/307 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AER 72 R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + AE Sbjct: 8 RLNKYISESGICSRREADRFIEQGNVFINGKRAT-IGDQVAPGDVVKVNGQLIEPRDAED 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP+G+V+T D + + V + + SR+ +GRLD +++GL+ LTN G L Sbjct: 67 LVFIALNKPVGIVSTTEDGERNNIV--DFVNHSSRIFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + V + + + G+ I G +V + + Sbjct: 125 KILRAGNDHEKEYVVTVNKPVTDEFIRAMGAGVPILGTVTKKCKVKKEAPFA----FRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E F ++V +L R L + G R+++ L E L+E Sbjct: 181 LIQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLAGIPPGEWRDLTDDELIELF--KLIEN 238 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 + + P K + G + K A +R+ S Sbjct: 239 SSS--------------EAKPKAKAKPKTAAGAVKKPAGNGGKNMAKTPAEMANRKRFTS 284 Query: 313 NVWMAKG 319 KG Sbjct: 285 PGRKKKG 291 >gi|284991416|ref|YP_003409970.1| pseudouridine synthase [Geodermatophilus obscurus DSM 43160] gi|284064661|gb|ADB75599.1| pseudouridine synthase [Geodermatophilus obscurus DSM 43160] Length = 280 Score = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 77/236 (32%), Positives = 121/236 (51%), Gaps = 1/236 (0%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 + +R+ KV+ARAG+ SRR VE M+ Q R+ VNG + + V D I VDGV Sbjct: 36 TDASAEGERLQKVLARAGVGSRRVVENMVDQGRISVNGKTVAVQGMRVDPERDKIAVDGV 95 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + + + +KP G++T SD R TV D + + ++ VGRLD +TEGLLL+T Sbjct: 96 RIELRDDRVTYALNKPPGVITAMSDDRNRPTVGDMVGDLAPGLVHVGRLDQDTEGLLLVT 155 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + + Y + G V +D L+ G+ ++ + Sbjct: 156 NDGELAHRLAHPSYEVKKTYLAQVSGSVPRDMARRLRSGVELEDGPVKVDSFRVVDTHAG 215 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V V L EG+ ++++ V+RL R + GP +L + +GS R +S+ + Sbjct: 216 QSVVEVVLHEGRKHIVRRLLASVGLPVSRLTRTAVGPVKLERMRSGSIRRLSRAEV 271 >gi|153835311|ref|ZP_01987978.1| RNA pseudouridine synthase family protein [Vibrio harveyi HY01] gi|156975027|ref|YP_001445934.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio harveyi ATCC BAA-1116] gi|148868176|gb|EDL67329.1| RNA pseudouridine synthase family protein [Vibrio harveyi HY01] gi|156526621|gb|ABU71707.1| hypothetical protein VIBHAR_02753 [Vibrio harveyi ATCC BAA-1116] Length = 312 Score = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 104/301 (34%), Positives = 148/301 (49%), Gaps = 13/301 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV VNGI+ + + +DG + + Sbjct: 2 SEKLQKVLARAGHGSRREIESLIKSGRVSVNGIVAKLGERLEDENSVVRIDGHVVSAKAQ 61 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G+V + K+ L +G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGEVTEQKVKNLVRGVELEDGMARFEDVVYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LRE 243 V + EG+NRE+++++E + V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVAINEGRNREVRRLWESQDTTVSRLKRVRYGDIYLDKKLPRGGWMELDLKEVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E ++L+ +S R R I R ++ + G S Sbjct: 242 LVELRPEKETMLDLNKD-NTSRKRERARSQKIRR---AVKRHEERVNTPKGRSNNPSRRK 297 Query: 304 P 304 P Sbjct: 298 P 298 >gi|227890506|ref|ZP_04008311.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus salivarius ATCC 11741] gi|227867444|gb|EEJ74865.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus salivarius ATCC 11741] Length = 238 Score = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 60/234 (25%), Positives = 119/234 (50%), Gaps = 6/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +++ G +R E +++I +RV++NG +++ + + D I +DG L + Sbjct: 1 MRLDKFLSQTGKFTRAEAKKVIKAKRVRLNGEVVKDGKIKINEDSDKIFLDGELLALNNK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ D ++ + N P + VGRLD +T GLL++TNDG A Sbjct: 61 EVYYMLNKPAGVVSATRDDKDKTVIDLINFPGRKEDLFPVGRLDKDTTGLLIITNDGKFA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLD--TQKGSNAW 188 + P + Y G++ + ++ + +G+ + G Q+ + ++K + Sbjct: 121 HNIISPKKHVSKTYEAVVTGKISEKEVKIFSQGMELANGDKLQPAQLDIISYSEKDDTSK 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V V + EGK +++++F + +V L R+ G +L L G RE+++K L Sbjct: 181 VRVIIHEGKYHQVRRMFGAVSQRVLELDRVKIGLLELDDTLERGEYRELTEKEL 234 >gi|46200069|ref|YP_005736.1| ribosomal large subunit pseudouridine synthase B [Thermus thermophilus HB27] gi|46197697|gb|AAS82109.1| ribosomal large subunit pseudouridine synthase B [Thermus thermophilus HB27] Length = 235 Score = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 83/242 (34%), Positives = 124/242 (51%), Gaps = 8/242 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ +ARAG+ASRR+ E +I + RV+VNG + V D +EVDG + Sbjct: 1 MKALRLQAFLARAGVASRRKAEDLIREGRVRVNGKVA-VLGQKVGPEDLVEVDGKRVELP 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ + HKP G TT DP R TVFD LP + VGRLD ++EGLLLLTNDG L Sbjct: 60 QKRLVLALHKPKGYTTTRHDPHARRTVFDLLPK-IPGLHPVGRLDRDSEGLLLLTNDGDL 118 Query: 131 ARVLELPSTQWLRVYRVRFHG-QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L P +VYRV G + ++ L G+ ++ + G+ Sbjct: 119 THRLTHPRFGVRKVYRVWTEGGTLPKEVCRRLLLGVDLEDGPARAL-ACCPAPGGA---- 173 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L EG+ RE++++ + + V RL+R+ GP +LG L G R +S++ ++ L Sbjct: 174 VLVLAEGRKREVRRMLQRVGYPVRRLLRLQVGPIRLGDLPPGKWRRLSEREVKALLRLVG 233 Query: 250 LE 251 LE Sbjct: 234 LE 235 >gi|319944113|ref|ZP_08018391.1| hypothetical protein HMPREF0551_1238 [Lautropia mirabilis ATCC 51599] gi|319742607|gb|EFV95016.1| hypothetical protein HMPREF0551_1238 [Lautropia mirabilis ATCC 51599] Length = 918 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 94/292 (32%), Positives = 145/292 (49%), Gaps = 11/292 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +++ K++A AGI SRR++E +I RV VNG+ V + D I V+G PL + Sbjct: 286 SPDAEKLHKILADAGIGSRRDMEELIIAGRVSVNGLPA-HVGQRVGTEDVIRVNGKPLSR 344 Query: 70 A-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLL 123 + ++ LYHKP G + T DP R VFD LP +R I+VGRLD+N+EGLL+ Sbjct: 345 KRSAASQTPQVLLYHKPTGELVTRDDPGSRPKVFDRLPRLRGARWIAVGRLDLNSEGLLI 404 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T G LA L P W R Y VR G+VD L G+ ++ + + Sbjct: 405 FTTSGDLANKLMHPRYGWEREYAVRVLGRVDDGIRQQLLTGVTLEDGPATLQSIEDIGGE 464 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 G+N W V + EG+NRE++++F+ V+RL+RI +GP L L G +++ +R Sbjct: 465 GANHWYRVVILEGRNREVRRLFDAVGLTVSRLVRIRFGPIALPPRLQRGRLHALTEAEVR 524 Query: 243 ---EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 +Q+ H+ E DA + + R D R + + + Sbjct: 525 QLQQQMRRHVAEMTDGAADAARETRSGNAQGRGKGAGRGNDAPRRQGRGAGK 576 >gi|117919973|ref|YP_869165.1| ribosomal large subunit pseudouridine synthase B [Shewanella sp. ANA-3] gi|117612305|gb|ABK47759.1| ribosomal large subunit pseudouridine synthase B [Shewanella sp. ANA-3] Length = 291 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 99/298 (33%), Positives = 152/298 (51%), Gaps = 17/298 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E IA RV ++G++ + + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSIDGVIA-NLGDRIEADAKVRIDGRAVSLKSA 60 Query: 73 ----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+D Sbjct: 61 DDVICRVLAYHKPEGEICSRKDPEGRPTVFDRLPKVRDSRWVAVGRLDINTSGLLLFTSD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V + + L+ G++++ + +G N Sbjct: 121 GELANRLMHPSNEVEREYAVRTFGEVPEAAVQRLRTGVMLEDGMAQFDAIKAAGGEGMNQ 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILRE 243 W V LREG+NRE+++++E +V+RLIR+ YG +L +L G E+ + LR+ Sbjct: 181 WWHVCLREGRNREVRRLWESQEVQVSRLIRVRYGMVELPKSLPRGGWVELPIEQVNYLRQ 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 G L E + L A +S I V R K ++ +++ Sbjct: 241 LAG--LEPETRTMLAADKHSVARAQVKSAKIRRAV-----RKHKVTATPKAKPTRQRS 291 >gi|312622542|ref|YP_004024155.1| pseudouridine synthase [Caldicellulosiruptor kronotskyensis 2002] gi|312203009|gb|ADQ46336.1| pseudouridine synthase [Caldicellulosiruptor kronotskyensis 2002] Length = 233 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 63/232 (27%), Positives = 113/232 (48%), Gaps = 11/232 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K + G SR +V+++I + V VNG + + D +EVDG ++ + + Sbjct: 1 MRLDKFLTHCGFGSRSQVKKLIREGIVTVNGKQIVEVDFKINPEEDIVEVDGRVVKFS-K 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G V ++ + TVF + + + +VGRLD + EGLL++T+DG Sbjct: 60 QIYIMMNKPKGYVCSNEEL-ASLTVFSLISDDLKYRDLHTVGRLDKDAEGLLIITDDGEY 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 + P + + Y VR +VD++KL + GI++ G + T+ + V Sbjct: 119 THRVISPKKRIEKEYLVRLEKEVDEEKLKEFENGIILDDGYKTLPAKYTI----IDSTTV 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + + EGK ++K++FE KV L R+ G L +L G R + ++ Sbjct: 175 KLCIYEGKYHQVKRMFEAIGNKVVDLKRLRIGGLNLDQSLKPGEYRVMKEEE 226 >gi|197301684|ref|ZP_03166754.1| hypothetical protein RUMLAC_00410 [Ruminococcus lactaris ATCC 29176] gi|197299124|gb|EDY33654.1| hypothetical protein RUMLAC_00410 [Ruminococcus lactaris ATCC 29176] Length = 246 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 71/234 (30%), Positives = 118/234 (50%), Gaps = 7/234 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R ++++ I++ +V VNG + + A + D + G + AE Sbjct: 4 RLDKYLADMGLGTRSQIKKDISKGQVLVNGTVSKDAGTRIDTEKDQVSYLGQTVTYAE-Y 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G+V+ D R TV D + + VGRLD +TEGLLL+TNDG LA Sbjct: 63 EYYMLNKPAGVVSATEDRHDR-TVLDLIDTKQRKDLFPVGRLDKDTEGLLLITNDGALAH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTV 191 L P + +VY R G+V + + L +KG+ I G + L+ + + + Sbjct: 122 RLLSPKSHVDKVYFARIEGKVTAEDVFLFQKGVDI-GEQALTLPARLEILSSDTVSEIRL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 + EGK ++K++FE KV L R+S G L L G+ R ++ +R Sbjct: 181 TICEGKFHQVKRMFESVGKKVLYLKRLSMGTLILDDLLPPGAYRTLTAGEIRSL 234 >gi|282897729|ref|ZP_06305728.1| Pseudouridine synthase, Rsu [Raphidiopsis brookii D9] gi|281197408|gb|EFA72305.1| Pseudouridine synthase, Rsu [Raphidiopsis brookii D9] Length = 252 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 80/238 (33%), Positives = 122/238 (51%), Gaps = 12/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK--AE 71 RV K+I++ GIASRR+ E MI Q RV+VNG L V D I +DG P+ + Sbjct: 4 RVQKIISQWGIASRRQAEEMIGQSRVRVNGNLAR-LGQKVDPKVDMISIDGKPVTQGSPP 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 L +KP G+V+T +DP GR+TV D LP+ + + VGRLD ++ G L+LTNDG Sbjct: 63 ALVYLLLNKPAGVVSTCNDPQGRTTVLDLLPTKLRQGTGICPVGRLDADSTGALILTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + L PS + Y V G + L + +G+++ G QV L Q + + Sbjct: 123 DVTFALTHPSHDVPKTYHVVVEGHPPTNVLRMWSQGVMLDGRKTRTAQVKLIEQGFTQSK 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL-----LAGSTREVSKKIL 241 + + L+EG+NR+I++V + + V L R + G +L G R + + Sbjct: 183 LEIILQEGRNRQIRRVAQQLGYPVVHLDRRAIGTIELHNSDGKFTDVGKYRHLITSEI 240 >gi|258621657|ref|ZP_05716688.1| pseudouridine synthase family 1 protein [Vibrio mimicus VM573] gi|258626398|ref|ZP_05721245.1| pseudouridine synthase family 1 protein [Vibrio mimicus VM603] gi|258581450|gb|EEW06352.1| pseudouridine synthase family 1 protein [Vibrio mimicus VM603] gi|258585888|gb|EEW10606.1| pseudouridine synthase family 1 protein [Vibrio mimicus VM573] Length = 319 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 106/310 (34%), Positives = 149/310 (48%), Gaps = 11/310 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV VNG + + VDG + + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDDNALVRVDGHVVSVKAQ 61 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G V+++K+ L +G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGDVNEEKVRNLVRGVQLEDGMARFEDVMYAGGEGINH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK---ILRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFLDKKLPRGGWMELDLKQVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E +N AP ++ R R I + + S ++K Sbjct: 242 LVELRPEKETVLN-TAPDAATRKRERTRSQKIRRAVRRHEERVSTAPGR-SASARRKPGG 299 Query: 304 PVHRRNLASN 313 RN +N Sbjct: 300 ESSTRNKVAN 309 >gi|254525127|ref|ZP_05137182.1| pseudouridylate synthase [Stenotrophomonas sp. SKA14] gi|219722718|gb|EED41243.1| pseudouridylate synthase [Stenotrophomonas sp. SKA14] Length = 240 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 79/235 (33%), Positives = 118/235 (50%), Gaps = 5/235 (2%) Query: 14 QR--VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKA 70 R +++V+++AG+ SR E R IA+ RV+V+G ++ + IEVDG PL Sbjct: 1 MRHGLARVLSKAGVCSRSEAARWIAEGRVRVSGRIVRDPEFPIGQPAPPIEVDGQPLAAP 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGG 129 +R + +KP G+VTT D GR TV+ + VGRLD +EGLLL +ND Sbjct: 61 QRL-YLMLNKPRGVVTTVQDERGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQ 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A L P T + Y V+ G D L L+ G+ +G V + AW+ Sbjct: 120 WAARLTDPQTGPDKTYHVQVDGMPDHATLAALQAGVEDEGEFLAAHAVRVLRSGDKTAWL 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V L EG+NR I+++ F+ +V RL+R++ G LG L G R + L+ Sbjct: 180 EVVLDEGRNRHIRRLLAAFDLQVLRLVRVAIGGLVLGDLGKGQWRVLEVSDLQRL 234 >gi|15895934|ref|NP_349283.1| pseudouridylate synthase [Clostridium acetobutylicum ATCC 824] gi|15025707|gb|AAK80623.1|AE007765_5 Predicted pseudouridylate synthase [Clostridium acetobutylicum ATCC 824] gi|325510086|gb|ADZ21722.1| pseudouridylate synthase [Clostridium acetobutylicum EA 2018] Length = 242 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 116/234 (49%), Gaps = 7/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K+I+ G SR++V+++I RVKV+G +++ + I V+G + ++ Sbjct: 2 ERLDKIISNMGYGSRKDVKKIIKDGRVKVDGEVVKDNNKQLDPQKSKIIVNGEEISY-KK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ SD D TV D L +GRLD +T GLL LTNDG Sbjct: 61 YIYLMMNKPDGVISATSD-DYDKTVIDLLEVEDQVFEPFPIGRLDKDTVGLLFLTNDGDF 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P +VY + V + + K+GIV+ G ++ + + V Sbjct: 120 NHRLISPKWHVDKVYYAKIDKDVTSEDVVAFKEGIVLDDGYKCMSAKLEVLNNSKEGSEV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V +REGK ++K++FE KV L RIS+ +L L G RE+++ ++ Sbjct: 180 KVTVREGKYHQVKRMFEAQGKKVVYLKRISFAGIKLDENLEEGEYRELTEDEMK 233 >gi|261211757|ref|ZP_05926044.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. RC341] gi|260839107|gb|EEX65739.1| ribosomal small subunit pseudouridine synthase A [Vibrio sp. RC341] Length = 231 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 58/230 (25%), Positives = 101/230 (43%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E + Sbjct: 1 MRLDKFLCDALGTTRKESTQLLKSGEVTVDDVVQKSGAFKLKETSRVEWQEREITL-HGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + HKP G+V +H D T F L + GRLD++T GLLL+T+DG + Sbjct: 60 RYIMMHKPDGVVCSHEDGFN-QTAFTLLDEVNIEDLHFAGRLDVDTTGLLLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D + +GI ++G + L+ S V + Sbjct: 119 RVTSPKHKCEKTYRVWLADPIQADYADQFTQGIELRGERELTLPAQLEV--VSETEVLLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R +++ + Sbjct: 177 IHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDEALEPGEYRYLTEDEV 226 >gi|251811134|ref|ZP_04825607.1| pseudouridylate synthase [Staphylococcus epidermidis BCM-HMP0060] gi|282875829|ref|ZP_06284696.1| pseudouridylate synthase [Staphylococcus epidermidis SK135] gi|293366306|ref|ZP_06612986.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus epidermidis M23864:W2(grey)] gi|251805354|gb|EES58011.1| pseudouridylate synthase [Staphylococcus epidermidis BCM-HMP0060] gi|281294854|gb|EFA87381.1| pseudouridylate synthase [Staphylococcus epidermidis SK135] gi|291319544|gb|EFE59910.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus epidermidis M23864:W2(grey)] gi|329737233|gb|EGG73487.1| putative 16S pseudouridylate 516 synthase [Staphylococcus epidermidis VCU028] gi|329737517|gb|EGG73770.1| putative 16S pseudouridylate 516 synthase [Staphylococcus epidermidis VCU045] Length = 230 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 61/228 (26%), Positives = 107/228 (46%), Gaps = 9/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + VKVN +++ ++V D I V+ + ++ Sbjct: 1 MRLDKFLANMGVGTRSEVKQLLKKGSVKVNQNIVKLPKLHVNPNSDEIMVNDEVVSYIDK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G ++ D + T+ D +P + VGRLD +TEGLLL+TNDG Sbjct: 61 -VYIMLNKPKGYISATED-EVHPTIIDLIPEYAHLNIFPVGRLDKDTEGLLLVTNDGQFN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P+ + Y V + Q ++ K GI + +K N V Sbjct: 119 HEVMNPNKHVSKTYEVYSKHPITQFDIDKFKSGIELSDGKLKPA----ILKKVDNYVSHV 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + EGK ++K++F +V L RI +L L GS R +++ Sbjct: 175 TIYEGKYHQVKRMFHSIENEVLELKRIKIAQLELDHNLDLGSYRLLTQ 222 >gi|312132030|ref|YP_003999370.1| RNA-binding s4 domain protein [Leadbetterella byssophila DSM 17132] gi|311908576|gb|ADQ19017.1| RNA-binding S4 domain protein [Leadbetterella byssophila DSM 17132] Length = 500 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 75/244 (30%), Positives = 124/244 (50%), Gaps = 7/244 (2%) Query: 2 KDKNIVQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 K K V E P R+++ IA +GI SRRE + +I ++ VNG + V TD Sbjct: 253 KQKKKVAEKVVPSDLIRLNRYIANSGICSRREADDLIESGQITVNGKTITEMGYQVKKTD 312 Query: 59 HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL-PSIFSRVISVGRLDIN 117 ++ G + E+ L +KP +TT DP+GR TV + + + R+ VGRLD Sbjct: 313 VVKY-GRKILNPEKLVYVLLNKPKDFITTTEDPEGRRTVMELVAKAGPERIYPVGRLDRA 371 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL TNDG LA L PS + ++Y+V + ++ L +G+ ++ QV Sbjct: 372 TTGLLLFTNDGELAEKLSHPSNEIRKIYQVEIDKPLAKEDFEKLIEGVELEDGFIKPDQV 431 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++ T + + + GKNR ++++FE ++V +L R +Y L G+ R ++ Sbjct: 432 SIVT--PDQQVIGIEIHSGKNRVVRRIFEHLGYEVTQLDRTTYAGLTKKDLPRGNWRFLT 489 Query: 238 KKIL 241 +K + Sbjct: 490 EKEV 493 >gi|297583540|ref|YP_003699320.1| pseudouridine synthase [Bacillus selenitireducens MLS10] gi|297141997|gb|ADH98754.1| pseudouridine synthase [Bacillus selenitireducens MLS10] Length = 236 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 116/233 (49%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 RV K++A G SR++V++++ + VNG +++ A +V TD + G P+ E Sbjct: 1 MRVDKLLAHVGYGSRKDVKQLLKKGLFTVNGEVVKSAKAHVDPETDDLAFGGEPILYREH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + + HKP G+++ D R TV D L + VGRLD +T GLLLLTNDG Sbjct: 61 LYVMM-HKPAGVLSATEDVSER-TVVDLLEEEDRLFQPFPVGRLDKDTTGLLLLTNDGKW 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + P+ + + Y V V + + L++G+ + Y + S + + Sbjct: 119 AHGITSPARKIPKTYEVLTAEPVTDEMADQLQQGVTLDDG-YETRPAGVAFPDESRSRLY 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++ V+ L RI G L +L AG+ RE+++K + Sbjct: 178 LTIDEGKYHQVKRMLAAVGNHVDGLKRIRIGGLPLDESLEAGTYRELTEKEIE 230 >gi|149280291|ref|ZP_01886413.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Pedobacter sp. BAL39] gi|149228980|gb|EDM34377.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Pedobacter sp. BAL39] Length = 463 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 75/242 (30%), Positives = 118/242 (48%), Gaps = 4/242 (1%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHI 60 KN+ ++ R+++ IA +GI SRR+ + +IA V VNG ++ + D + Sbjct: 216 SRKNVAVKDDGLIRLNRYIANSGICSRRKADELIAAGVVSVNGEVVSELGHKIDPAKDQV 275 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 +G L++ E+ L +KP +TT DP R TV + R+ VGRLD NT Sbjct: 276 RYNGELLKR-EKKVYVLLNKPKDYITTTDDPQERRTVMQLVEKASRERIYPVGRLDRNTT 334 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL+TNDG LA L P ++Y V + Q LN ++ G+ ++ V+ Sbjct: 335 GLLLMTNDGELADKLSHPKNGITKIYHVELSRSLSQGDLNKIQFGLELEDGIIKPDSVSY 394 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 GS V + + GKNR ++++FE + V +L R+ YG L G R + + Sbjct: 395 VAG-GSKREVGIQIHSGKNRIVRRIFEHLGYDVVKLDRVVYGNLTKKDLPRGRWRFLEEH 453 Query: 240 IL 241 L Sbjct: 454 EL 455 >gi|258654177|ref|YP_003203333.1| pseudouridine synthase [Nakamurella multipartita DSM 44233] gi|258557402|gb|ACV80344.1| pseudouridine synthase [Nakamurella multipartita DSM 44233] Length = 249 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 75/245 (30%), Positives = 121/245 (49%), Gaps = 3/245 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 M D++ ++ R+ KV+A AG+ASRR+ E +I RVKV+GI++ + Sbjct: 1 MSDRSEAADD--GVRLQKVLASAGVASRRKAEELIRDGRVKVDGIVVREMGTRIDPENAV 58 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + VDG + +K G+++T SD GR + L R+ VGRLD+ +E Sbjct: 59 VHVDGNRITTRTDLVYLALNKERGVLSTMSDELGRPHIGQMLEDRSERLFHVGRLDMESE 118 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLTNDG LA L PS + Y G + +D LK G+ ++ + Sbjct: 119 GLLLLTNDGDLAHRLTHPSYGVAKTYVAEVPGPIPKDLGRRLKAGVELEDGPAKVDSFDV 178 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + A V V + EG+ ++++ E + V+RL+R GP QLG G+ R+++ Sbjct: 179 MDLHHNRAVVEVVIHEGRKHIVRRLLEAVDRPVSRLVRTQIGPVQLGHQRPGTLRKLNPV 238 Query: 240 ILREQ 244 + + Sbjct: 239 EVSQL 243 >gi|298209211|ref|YP_003717390.1| pseudouridine synthase, Rsu [Croceibacter atlanticus HTCC2559] gi|83849138|gb|EAP87007.1| pseudouridine synthase, Rsu [Croceibacter atlanticus HTCC2559] Length = 244 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 64/249 (25%), Positives = 118/249 (47%), Gaps = 9/249 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RK 69 P R++K G SRR+ +++I V VNG E + D + V+G + ++ Sbjct: 1 MEPIRINKYFTTIGFCSRRKADKLIEAGYVTVNGKRPEMGQKIDPAKDKVRVNGKLVGQE 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ +++KP+G+V T + + D + + SR+ +GRLD +EGL+ LTNDG Sbjct: 61 EEKPVYLVFNKPVGIVCTTDTHVEKDNIIDYI-NYPSRIFPIGRLDKPSEGLIFLTNDGD 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y V + D +N +K GI I + +V +K ++ Sbjct: 120 IVNKILRARNHHEKEYIVTVDRVISDDFVNRMKSGIPILDTVTRECEV----EKITDYMF 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+ ++V L RI L + G R+ + + +E L Sbjct: 176 KIVLTQGLNRQIRRMCEYLGYEVLTLKRIRIMNVTL-DIPVGEYRDFTDQEFKEL--QDL 232 Query: 250 LEEAQVNLD 258 LE+++ Sbjct: 233 LEDSEKTAP 241 >gi|55980188|ref|YP_143485.1| ribosomal large subunit pseudouridine synthase B [Thermus thermophilus HB8] gi|55771601|dbj|BAD70042.1| ribosomal large subunit pseudouridine synthase B [Thermus thermophilus HB8] Length = 235 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 82/242 (33%), Positives = 123/242 (50%), Gaps = 8/242 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ +ARAG+ASRR+ E +I + RV+VNG + V D +EVDG + Sbjct: 1 MKALRLQAFLARAGVASRRKAEDLIREGRVRVNGKVA-VLGQKVGPEDLVEVDGKRVELP 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ + HKP G TT DP R TVFD LP + VGRLD ++EGLLLLTNDG L Sbjct: 60 QKRLVLALHKPKGYTTTRHDPHARRTVFDLLPK-IPGLHPVGRLDRDSEGLLLLTNDGDL 118 Query: 131 ARVLELPSTQWLRVYRVRFHG-QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L P +VYRV G + ++ L G+ ++ + + Sbjct: 119 THRLTHPRFGVRKVYRVWTEGGTLPKEVCRRLLLGVDLEDG-----PARALACRPAPGGA 173 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L EG+ RE++++ + + V RL+R+ GP +LG L G R +S++ ++ L Sbjct: 174 VLVLAEGRKREVRRMLQRVGYPVRRLLRLQVGPIRLGDLPPGKWRRLSEREVKALLRLVG 233 Query: 250 LE 251 LE Sbjct: 234 LE 235 >gi|312885162|ref|ZP_07744842.1| ribosomal small subunit pseudouridine synthase A [Vibrio caribbenthicus ATCC BAA-2122] gi|309367175|gb|EFP94747.1| ribosomal small subunit pseudouridine synthase A [Vibrio caribbenthicus ATCC BAA-2122] Length = 233 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 56/229 (24%), Positives = 100/229 (43%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R+E ++I V VN + + A V +E G ++K Sbjct: 1 MRLDKYLCDALGATRKEATKIIKSGDVTVNEQVQKSGAFKVDDHSIVEWQGREVQKP-GP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + KP G V +H D ++ + GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLFKPDGFVCSHEDGFNQTAFMLLDEVRIEDLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + + KGI ++ + L+ V + + Sbjct: 120 ITSPKHKCDKTYRVWLADPIQPHYADEFTKGIQLRNEKGLTLPAKLELVDAQENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EGK ++K++F KV L R G +L +L G R ++++ + Sbjct: 180 NEGKYHQVKRMFAALGNKVEHLHRERIGQIELCESLEPGDYRYLTQEEV 228 >gi|311742416|ref|ZP_07716225.1| ribosomal large subunit pseudouridine synthase B [Aeromicrobium marinum DSM 15272] gi|311314044|gb|EFQ83952.1| ribosomal large subunit pseudouridine synthase B [Aeromicrobium marinum DSM 15272] Length = 247 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 75/235 (31%), Positives = 118/235 (50%), Gaps = 1/235 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 R+ KV+A+AG+ SRR E+++A+ V+VNG + + + V TD I VDG L Sbjct: 8 DGIRLQKVLAQAGLGSRRRCEQLMAEGHVEVNGEITTQMGIRVDPATDVIHVDGRRLPPP 67 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L +KP G+VT+ +D GR + L R+ VGRLD +T GLL++TNDG L Sbjct: 68 SDHVYVLLNKPRGVVTSMADERGRPDLRSLLADRTERLFHVGRLDTDTSGLLMMTNDGDL 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS ++ + Y G VD LK G+ + + + + V Sbjct: 128 AHRLAHPSFEFTKTYVALVEGVVDPAVGTRLKSGVELDDGPATVDRFRIKDTSQGRSLVE 187 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L G+NR ++++ V L R ++GP +L L +G R++++ L L Sbjct: 188 LDLHMGRNRIVRRLLAEVGHPVVELTRTAFGPLRLAGLGSGRARDLTRDELGALL 242 >gi|269102754|ref|ZP_06155451.1| ribosomal small subunit pseudouridine synthase A [Photobacterium damselae subsp. damselae CIP 102761] gi|268162652|gb|EEZ41148.1| ribosomal small subunit pseudouridine synthase A [Photobacterium damselae subsp. damselae CIP 102761] Length = 232 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 57/230 (24%), Positives = 108/230 (46%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + +R+E +++ + V+VNG +++ A+ V +E G L + Sbjct: 1 MRLDKFLCTTLGITRKEAGKILKDKLVEVNGEIVKNGALKVTDDCDVEFSGRTLSL-QGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 R ++ +KP G V +H D D TVF + R+ GRLD +T GL+L+T+DG + Sbjct: 60 RYYMLNKPSGYVCSHVD-DFNPTVFILFDEVAPERMHVAGRLDGDTTGLVLVTDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V +++ + ++G+ ++G + L+ + A + Sbjct: 119 RITSPRHVCEKTYYVETADPIEESYIQAFEEGVQLRGEKELTLPAKLEILEEKVALL--T 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G +L L G R +++ + Sbjct: 177 ITEGKYHQVKRMFAAMGNKVELLHRERVGAIELDDDLEPGEYRPLTEDEI 226 >gi|237728101|ref|ZP_04558582.1| 23S rRNA pseudouridine synthase F [Citrobacter sp. 30_2] gi|226910112|gb|EEH96030.1| 23S rRNA pseudouridine synthase F [Citrobacter sp. 30_2] Length = 291 Score = 252 bits (645), Expect = 5e-65, Method: Composition-based stats. Identities = 75/297 (25%), Positives = 129/297 (43%), Gaps = 12/297 (4%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRRE +R I Q V +NG VM D ++V+G + Sbjct: 3 PDSSIRLNKYISESGICSRREADRFIEQGNVFLNGKRAT-IGDQVMPGDVVKVNGRLIEP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 AE +KP+G+V+T D + R + D + + RV +GRLD +++GL+ LTN Sbjct: 62 REAEDLVFIALNKPVGIVSTTEDSE-RDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V V D + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPVTDDFIRGMGAGVPILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E F ++V +L R L L G R+++ L + Sbjct: 176 VFRITLIQGLNRQIRRMCEHFGYEVTKLERTRIMNVGLSGLPLGEWRDLTDDELIDLF-- 233 Query: 248 HLLEEAQVN-LDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 L+E + +T RP + E + + + ++ K S +K Sbjct: 234 KLIENSSSEAKPKAKAKPKTAGIKRPVVKIEKSAEKEKSRPAANGKRFTSPGRKKKG 290 >gi|324989740|gb|EGC21683.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK353] Length = 242 Score = 252 bits (645), Expect = 6e-65, Method: Composition-based stats. Identities = 68/237 (28%), Positives = 112/237 (47%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR +V++++ + V VNG + + D I V G L E+ Sbjct: 1 MRLDKFLTENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDEAADDIVVSGQRLIY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATED-DHHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A + P ++YR + G ++Q + GI ++ + + ++ + Sbjct: 119 AHAMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAHLKILELDEEKEASL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 V + L EGK ++K++ +V L R++ GP QL L G R ++ L Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDPALALGEWRRLTADELERL 235 >gi|269102962|ref|ZP_06155659.1| ribosomal large subunit pseudouridine synthase B [Photobacterium damselae subsp. damselae CIP 102761] gi|268162860|gb|EEZ41356.1| ribosomal large subunit pseudouridine synthase B [Photobacterium damselae subsp. damselae CIP 102761] Length = 385 Score = 252 bits (645), Expect = 6e-65, Method: Composition-based stats. Identities = 98/353 (27%), Positives = 157/353 (44%), Gaps = 11/353 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---- 68 +++ KV+ARAG SRRE+E MI RV V+G + + T + +DG + Sbjct: 2 SEKLQKVLARAGQGSRREIELMIQNGRVSVDGDVAKLGDRLEDMTASVRIDGRRIELVAS 61 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T DP+GR TVFD LP + + R +SVGRLD NT G+LL T D Sbjct: 62 TDEVCRVLAYNKPEGELCTRHDPEGRRTVFDRLPRLNNGRWVSVGRLDANTSGMLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS R Y VR G++ +D + L +G+ ++ V +G N Sbjct: 122 GELANRLMHPSHSVQREYMVRVFGEISEDMVRNLVRGVELEDGMARFEDVVYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI---LRE 243 V + EG+NRE+++++ V+RL R+ YG L L G E+ LRE Sbjct: 182 TFYVVITEGRNREVRRLWASQGVTVSRLKRVRYGDIYLSKELPRGGWMELELNDVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRP-NIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 +G E ++ ++ R E D+ ++N + + + A Sbjct: 242 LVGLQPETETELTVEGQKRKRNVRQIRRAVRRFEERADNTNSRRRNDRRSTTRNSDVEKA 301 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSF-PSKRSLRRTSAKK 354 R ++ + R ++ + P ++ + + K Sbjct: 302 GNDKPRRPSTRSSDVDKAGNQKPRRPSTRNSGADKAENNKPRRQPRQNDADNK 354 >gi|194246524|ref|YP_002004163.1| 16S rRNA pseudouridylate synthase [Candidatus Phytoplasma mali] gi|193806881|emb|CAP18310.1| 16S rRNA pseudouridylate synthase [Candidatus Phytoplasma mali] Length = 242 Score = 252 bits (645), Expect = 6e-65, Method: Composition-based stats. Identities = 72/236 (30%), Positives = 124/236 (52%), Gaps = 6/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+++ + +ASRR+ E++I ++RVKVNG L+ + V V D I VD ++ +E Sbjct: 2 ERLQKILSYSNVASRRKSEKLILEKRVKVNGKLVTKLGVKVSKKDIILVDDQIIKNSENC 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G ++T D R TV D + R+ VGRLD NT GLLL+TNDG L + Sbjct: 62 YY-LINKPSGCISTVKDEKNRPTVIDLIKDTEKKRIYPVGRLDFNTTGLLLITNDGQLTK 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----ICYGDMQVTLDTQKGSNAW 188 L PS+ + Y V+ + + +L L++G++I + + + W Sbjct: 121 KLTHPSSLIEKEYHVKINYCLSSLELKKLQQGVIIDENYLSVPKKIKILKKRLLPKPSTW 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + + EGKN +I+K+ E + + +LIR Y + + G R + +++ Sbjct: 181 LQIIITEGKNHQIRKMMEKLGFHILKLIRYRYAFLTIKGIKKGQYRILKIHEIKKL 236 >gi|116628203|ref|YP_820822.1| ribosomal small subunit pseudouridine synthase A [Streptococcus thermophilus LMD-9] gi|116101480|gb|ABJ66626.1| ribosomal small subunit pseudouridine synthase A [Streptococcus thermophilus LMD-9] Length = 243 Score = 252 bits (645), Expect = 6e-65, Method: Composition-based stats. Identities = 66/234 (28%), Positives = 115/234 (49%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ + +++V VNG + + D I G L E Sbjct: 1 MRLDKFLVDCGVGSRSQVKTFLKKKQVTVNGQVETSPKTQIDEDKDQIAYLGQELTH-ET 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D + TV D L V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATEDSRHK-TVLDLLDETARHKQVFPVGRLDIDTHGLLLLTNNGDL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A + P ++Y+ + G +D++ + +KGI ++ ++ + + + S + Sbjct: 119 AHAMLSPKKHVDKIYQAKVAGIMDEEDILAFEKGIKLKDHTCQPAKLEIVSVDRNASTSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 V + + EGK ++K++ KV L R+ GP L L G+ R ++++ L Sbjct: 179 VQITVAEGKFHQVKRMVAACGKKVADLQRLKMGPLSLPNDLELGAWRRLTQEEL 232 >gi|283787307|ref|YP_003367172.1| ribosomal large subunit pseudouridine synthase F [Citrobacter rodentium ICC168] gi|282950761|emb|CBG90437.1| ribosomal large subunit pseudouridine synthase F [Citrobacter rodentium ICC168] Length = 291 Score = 252 bits (645), Expect = 6e-65, Method: Composition-based stats. Identities = 74/297 (24%), Positives = 129/297 (43%), Gaps = 12/297 (4%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R++K I+ +GI SRRE +R I Q V +NG VM D ++V+G + Sbjct: 3 PDASIRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVMPGDVVKVNGRLIEP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 AE +KP+G+V+T D + R + D + + RV +GRLD +++GL+ LTN Sbjct: 62 REAEELVFIALNKPVGIVSTTEDSE-RDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G +V + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTKKCKVKKEAP----F 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E+F ++V +L R L L G R+++ L Sbjct: 176 VFRITLIQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLAGLPPGEWRDLTDDELITLF-- 233 Query: 248 HLLEEAQVN-LDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 L+E + +T RP + E P + + + ++ K S +K Sbjct: 234 KLIENSSSEAKPKAKAKPKTAGIKRPVVKIEKPKEKEKARPAANGKRFTSPGRKKKG 290 >gi|16131848|ref|NP_418446.1| 23S rRNA U2604 pseudouridine synthase [Escherichia coli str. K-12 substr. MG1655] gi|89110743|ref|AP_004523.1| 23S rRNA pseudouridine synthase [Escherichia coli str. K-12 substr. W3110] gi|170083479|ref|YP_001732799.1| 23S rRNA pseudouridine synthase [Escherichia coli str. K-12 substr. DH10B] gi|194437171|ref|ZP_03069269.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 101-1] gi|238903075|ref|YP_002928871.1| 23S rRNA pseudouridine synthase [Escherichia coli BW2952] gi|253775354|ref|YP_003038185.1| 23S rRNA pseudouridine synthase F [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254037014|ref|ZP_04871091.1| ribosomal large subunit pseudouridine synthase F [Escherichia sp. 1_1_43] gi|254163958|ref|YP_003047066.1| 23S rRNA pseudouridine synthase F [Escherichia coli B str. REL606] gi|256024891|ref|ZP_05438756.1| 23S rRNA pseudouridine synthase F [Escherichia sp. 4_1_40B] gi|300929753|ref|ZP_07145207.1| conserved hypothetical protein [Escherichia coli MS 187-1] gi|300946586|ref|ZP_07160846.1| conserved hypothetical protein [Escherichia coli MS 116-1] gi|300957575|ref|ZP_07169780.1| hypothetical protein HMPREF9547_03329 [Escherichia coli MS 175-1] gi|301019105|ref|ZP_07183310.1| conserved hypothetical protein [Escherichia coli MS 196-1] gi|301645001|ref|ZP_07244966.1| conserved hypothetical protein [Escherichia coli MS 146-1] gi|418534|sp|P32684|RLUF_ECOLI RecName: Full=Ribosomal large subunit pseudouridine synthase F; AltName: Full=rRNA pseudouridylate synthase F; AltName: Full=rRNA-uridine isomerase F gi|228312012|pdb|3DH3|A Chain A, Crystal Structure Of Rluf In Complex With A 22 Nucleotide Rna Substrate gi|228312014|pdb|3DH3|B Chain B, Crystal Structure Of Rluf In Complex With A 22 Nucleotide Rna Substrate gi|228312016|pdb|3DH3|C Chain C, Crystal Structure Of Rluf In Complex With A 22 Nucleotide Rna Substrate gi|228312018|pdb|3DH3|D Chain D, Crystal Structure Of Rluf In Complex With A 22 Nucleotide Rna Substrate gi|396357|gb|AAC43116.1| ORF_o290a [Escherichia coli str. K-12 substr. MG1655] gi|1790453|gb|AAC76992.1| 23S rRNA U2604 pseudouridine synthase [Escherichia coli str. K-12 substr. MG1655] gi|85676774|dbj|BAE78024.1| 23S rRNA pseudouridine synthase [Escherichia coli str. K12 substr. W3110] gi|169891314|gb|ACB05021.1| 23S rRNA pseudouridine synthase [Escherichia coli str. K-12 substr. DH10B] gi|194423727|gb|EDX39716.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 101-1] gi|226840120|gb|EEH72122.1| ribosomal large subunit pseudouridine synthase F [Escherichia sp. 1_1_43] gi|238859759|gb|ACR61757.1| 23S rRNA pseudouridine synthase [Escherichia coli BW2952] gi|242379552|emb|CAQ34371.1| 23S rRNA pseudouridine 2604 synthase [Escherichia coli BL21(DE3)] gi|253326398|gb|ACT31000.1| pseudouridine synthase [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|253975859|gb|ACT41530.1| 23S rRNA pseudouridine synthase [Escherichia coli B str. REL606] gi|253980015|gb|ACT45685.1| 23S rRNA pseudouridine synthase [Escherichia coli BL21(DE3)] gi|260451153|gb|ACX41575.1| pseudouridine synthase [Escherichia coli DH1] gi|299882399|gb|EFI90610.1| conserved hypothetical protein [Escherichia coli MS 196-1] gi|300315689|gb|EFJ65473.1| hypothetical protein HMPREF9547_03329 [Escherichia coli MS 175-1] gi|300453742|gb|EFK17362.1| conserved hypothetical protein [Escherichia coli MS 116-1] gi|300462326|gb|EFK25819.1| conserved hypothetical protein [Escherichia coli MS 187-1] gi|301076689|gb|EFK91495.1| conserved hypothetical protein [Escherichia coli MS 146-1] gi|309704434|emb|CBJ03783.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli ETEC H10407] gi|315138575|dbj|BAJ45734.1| 23S rRNA pseudouridine synthase F [Escherichia coli DH1] gi|323935584|gb|EGB31911.1| RNA pseudouridylate synthase [Escherichia coli E1520] gi|323940200|gb|EGB36393.1| RNA pseudouridylate synthase [Escherichia coli E482] gi|323960493|gb|EGB56124.1| RNA pseudouridylate synthase [Escherichia coli H489] Length = 290 Score = 252 bits (644), Expect = 6e-65, Method: Composition-based stats. Identities = 69/293 (23%), Positives = 127/293 (43%), Gaps = 9/293 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 3 PDSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 AE L +KP+G+V+T D + R + D + + RV +GRLD +++GL+ LTN Sbjct: 62 REAEDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + ++ + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 176 VFRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKL 235 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++V A ++ + + + R N + ++KK Sbjct: 236 IENSSSEVKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKK 288 >gi|226325127|ref|ZP_03800645.1| hypothetical protein COPCOM_02919 [Coprococcus comes ATCC 27758] gi|225206475|gb|EEG88829.1| hypothetical protein COPCOM_02919 [Coprococcus comes ATCC 27758] Length = 234 Score = 252 bits (644), Expect = 6e-65, Method: Composition-based stats. Identities = 65/235 (27%), Positives = 118/235 (50%), Gaps = 7/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G +R E++++I RV V+G +++ + + T + ++G + A++ Sbjct: 2 MRIDKYLAEMGQGTRSEIKKLIRSGRVMVDGETVKKPELKIDETTQKVSLEGKQIGYAKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 LY KP G+++ D D TV D + + VGRLD +TEGLLL+TNDG LA Sbjct: 62 EYYMLY-KPAGVISATKD-DRDKTVLDLITDKKRNDLFPVGRLDKDTEGLLLITNDGELA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 L P +VY + G+VD+ + G+ I + + + G + + Sbjct: 120 HRLLSPKKHVDKVYYAKVQGKVDESDVKAFADGVDIGDDTPAKSADLRIL-KSGEESEIE 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + + EG+ ++K++F +V L R+S G L TL G R ++++ +++ Sbjct: 179 LTITEGRFHQVKRMFHAVGKEVIYLKRLSMGSLALDKTLTKGEYRSLTEEEIKKL 233 >gi|94970889|ref|YP_592937.1| pseudouridine synthase, Rsu [Candidatus Koribacter versatilis Ellin345] gi|94552939|gb|ABF42863.1| Pseudouridine synthase, Rsu [Candidatus Koribacter versatilis Ellin345] Length = 680 Score = 252 bits (644), Expect = 6e-65, Method: Composition-based stats. Identities = 108/376 (28%), Positives = 169/376 (44%), Gaps = 38/376 (10%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN-VMSTDHIEVDGVPLRK 69 + +R+ K+IA AG+ASRR+ E ++ RV VNG + TD I VDG PL+ Sbjct: 1 MSSERLQKIIAAAGMASRRKAEELVTAGRVTVNGEVKNELGSKADPETDDIRVDGKPLK- 59 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 AE+ L HKP G VTT SDP+GR TV D + I +R+ VGRLD +EGLLLLTNDG Sbjct: 60 AEQLVYVLLHKPKGYVTTVSDPEGRETVMDLVKGIPARLYPVGRLDYLSEGLLLLTNDGE 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI------------QG-------- 169 +A L ST + Y V+ G+ ++++ L+ G+ + +G Sbjct: 120 MAAKLTHASTHVPKKYLVKVSGEPTEEQIQELRNGVQLPPEQGHIHADPREGGRFGGEKR 179 Query: 170 ----ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + ++ L T++G N W V L EG+NR+I+++F+F V ++ R+ YGP +L Sbjct: 180 RSTAVKTAPCKIEL-TREGDNPWYEVTLNEGRNRQIRRMFDFIGHHVEKIKRVEYGPLKL 238 Query: 226 GTLLAGSTREVSKKIL----REQLGPHLLEEAQVNLDAPIYS-SETLVRDRPNIISEVPD 280 + G R ++ + + G H A+ + E R P Sbjct: 239 -DVENGEFRLLNPAEVARLKKAAEGKHEAPRARDEKPRFAKARGERPAFGRGRSDDRAPF 297 Query: 281 DFTRMKKNSSQKNGLSKQKKLAT-----PVHRRNLASNVWMAKGIHSSFLSDSGQREENH 335 K S ++ ++ + A K + + G+R++ Sbjct: 298 QKGSYKDRSELESEKGERTRTARFDADGKRMEEAPRERRERPKFDRGARPAFRGKRDDAR 357 Query: 336 RRSPSFPSKRSLRRTS 351 P+F KR R Sbjct: 358 GERPAFRGKRDDARGE 373 >gi|229917541|ref|YP_002886187.1| RNA-binding S4 domain protein [Exiguobacterium sp. AT1b] gi|229468970|gb|ACQ70742.1| RNA-binding S4 domain protein [Exiguobacterium sp. AT1b] Length = 236 Score = 252 bits (644), Expect = 6e-65, Method: Composition-based stats. Identities = 68/236 (28%), Positives = 120/236 (50%), Gaps = 8/236 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ +G ASRR+ +R++ + RV +NG + V D + V+G R A Sbjct: 1 MRINKFISESGKASRRQADRLVEEGRVTINGKKAK-IGDQVKPGDEVLVNGSVARVARNN 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 HKP+G+ +T ++ + + D + R+ ++GRLD ++EGL+L+TNDG + Sbjct: 60 VYIAVHKPVGITST-TEKKVKGNLVDMVNHPL-RIFNIGRLDKDSEGLILMTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + + ++ G+ I G +V ++ N + L Sbjct: 118 ILRAEGEHEKEYIVSVDKPITPEFVEQMEAGVKILGQKTLPCKVRPLSKFDFN----ITL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 +G NR+I+++ E ++V RL R+ LG L G R++SKK REQL L Sbjct: 174 TQGLNRQIRRMCEALGYEVFRLQRVRVMNITLGKLPPGQWRDLSKKE-REQLFREL 228 >gi|227875336|ref|ZP_03993478.1| possible pseudouridine synthase [Mobiluncus mulieris ATCC 35243] gi|307700863|ref|ZP_07637888.1| putative pseudouridine synthase B, ribosomal large subunit [Mobiluncus mulieris FB024-16] gi|227844241|gb|EEJ54408.1| possible pseudouridine synthase [Mobiluncus mulieris ATCC 35243] gi|307613858|gb|EFN93102.1| putative pseudouridine synthase B, ribosomal large subunit [Mobiluncus mulieris FB024-16] Length = 278 Score = 252 bits (644), Expect = 6e-65, Method: Composition-based stats. Identities = 70/230 (30%), Positives = 118/230 (51%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P R+ K++++AG+ASRR E +I + RV+V+G + + V+ + I V+G + Sbjct: 40 EPVRLQKLLSQAGVASRRASEDLIKRGRVQVDGETVTEMGLKVLPSARITVNGQRIHTDA 99 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++W ++KP+G V+T D R + D + RV VGRLD+ T GL+LLTN+G LA Sbjct: 100 ALQVWAFNKPVGTVSTMQPEDDRPCLGDWATKLPQRVFHVGRLDVATAGLILLTNNGDLA 159 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y GQV +L++G+ ++ L + ++ V + Sbjct: 160 NRLVHPRYEVPKTYVAMVQGQVKPGLGKVLRRGVELEDGVTKVDTFKLVEVRRGSSIVQL 219 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L GKNR ++++ V+ L R + G +LG L G R ++ L Sbjct: 220 TLHSGKNRVVRRLLSEVGHPVSALTRTAIGTLRLGDLKEGHFRLLTGSDL 269 >gi|227549324|ref|ZP_03979373.1| 16S rRNA uridine-516 pseudouridylate synthase [Corynebacterium lipophiloflavum DSM 44291] gi|227078643|gb|EEI16606.1| 16S rRNA uridine-516 pseudouridylate synthase [Corynebacterium lipophiloflavum DSM 44291] Length = 295 Score = 252 bits (644), Expect = 6e-65, Method: Composition-based stats. Identities = 76/234 (32%), Positives = 115/234 (49%), Gaps = 4/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ KV+A+AG+ASRR E MI Q RV+VNG + + V + D I VDG + Sbjct: 53 EGVRLQKVLAQAGVASRRHAEIMITQGRVEVNGTRVTTQGMRVDPSRDVIRVDGTRINVN 112 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTND 127 E ++++KP G+ +T D R++V L R+ VGRLD +TEGLLLLTND Sbjct: 113 EELEYFVFNKPRGVQSTMKDEMDRTSVGSYLSERTASGQRLFHVGRLDADTEGLLLLTND 172 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P + + Y G+ + L++GI + V + + Sbjct: 173 GELANRLMHPRYEIAKTYMATVLGEAKPALVKKLREGIELDDGPAKADYVQIVDTHNGQS 232 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V L EG+ ++++ + V RL+R QLG + GS R ++ L Sbjct: 233 IIRVELHEGRKHIVRRMLKAAGHPVQRLVRTKVHTVQLGDMKPGSLRALNAAEL 286 >gi|153810142|ref|ZP_01962810.1| hypothetical protein RUMOBE_00523 [Ruminococcus obeum ATCC 29174] gi|149833321|gb|EDM88402.1| hypothetical protein RUMOBE_00523 [Ruminococcus obeum ATCC 29174] Length = 257 Score = 252 bits (644), Expect = 6e-65, Method: Composition-based stats. Identities = 76/252 (30%), Positives = 120/252 (47%), Gaps = 24/252 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K +A AG +R EV++ I + +V+VNG ++ + V D + + G + A Sbjct: 6 RLDKFLADAGKGTRSEVKKFIQKGQVQVNGAPAKKPELKVDPEKDTVILSGETVGVAPEF 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G V+ D + R TV + +PS + VGRLD +TEGLLL+T+DG LA Sbjct: 66 VYYLLNKPAGCVSATEDRNDR-TVMEYVPSDRKGIFPVGRLDKDTEGLLLITDDGMLAHE 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS-------- 185 L P + Y VR G++ +K+ L+ G+ I G M ++ GS Sbjct: 125 LLAPGKHVDKTYFVRVEGKLTVEKIEKLENGVDI-GEKKLTMPAKVEIVGGSWEGAGEPE 183 Query: 186 ------------NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGS 232 + + + EGK ++K++ E V L RIS GP L L G Sbjct: 184 PGRVRRENLPEVYTELHLTIHEGKFHQVKRMMEAVGTPVIYLKRISMGPLILPDDLKKGE 243 Query: 233 TREVSKKILREQ 244 R ++ + LR+ Sbjct: 244 CRSLTDEELRKL 255 >gi|256825344|ref|YP_003149304.1| pseudouridine synthase family protein [Kytococcus sedentarius DSM 20547] gi|256688737|gb|ACV06539.1| pseudouridine synthase family protein [Kytococcus sedentarius DSM 20547] Length = 284 Score = 252 bits (644), Expect = 6e-65, Method: Composition-based stats. Identities = 74/231 (32%), Positives = 127/231 (54%), Gaps = 1/231 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 +R+ KV+A AG+ SRR E+MIA RV+V+G+ + V + + + VDG+P++ Sbjct: 45 QGERLQKVLAAAGLGSRRACEQMIADGRVEVDGVPVTELGVRIDPSRQKVAVDGLPVQLD 104 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +++KP+G+++T D +GR +V D + R+ VGRLD +T GLLLLTNDG L Sbjct: 105 DSKVYLVFNKPVGVISTMEDEEGRLSVGDYTYTRKERLFHVGRLDQDTSGLLLLTNDGEL 164 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L+ PS + Y + G V + NLL++G+ ++ ++ + A V Sbjct: 165 AHRLQHPSYSVPKTYVAKVPGPVKKGLGNLLREGVELEDGVVKVDDFSVVASQPGWAMVQ 224 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + EG+ ++++ E + V L+R G ++G L G+ R V+ L Sbjct: 225 LVIHEGRKHVVRRLLEEVGYPVEELVRTQVGEIRMGDLRPGNLRAVTPDEL 275 >gi|82702976|ref|YP_412542.1| pseudouridine synthase, Rsu [Nitrosospira multiformis ATCC 25196] gi|82411041|gb|ABB75150.1| ribosomal large subunit pseudouridine synthase B [Nitrosospira multiformis ATCC 25196] Length = 315 Score = 252 bits (644), Expect = 6e-65, Method: Composition-based stats. Identities = 85/245 (34%), Positives = 136/245 (55%), Gaps = 8/245 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 Q++ KV+A+AG+ SRRE+E +IA +V +NG + + + D + V G Sbjct: 66 TSPQPVTQKLHKVLAQAGLGSRREMEELIASGQVTINGKTAQ-VGDRIAARDVVRV-GKR 123 Query: 67 L----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGL 121 + R+ LYHKP G + + DP GR++VFD LP S+ I++GRLD NT GL Sbjct: 124 VVHFRSARRLPRVMLYHKPEGEIVSQDDPQGRTSVFDKLPQLRSSKWIAIGRLDYNTSGL 183 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 L+ T DG LA L P + R Y VR G++ ++ LL G+ ++ ++ + Sbjct: 184 LVFTTDGELANRLMHPRFEVEREYAVRIIGRLTPEQATLLTSGVELEDGAAKFDYLSDEG 243 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI 240 +GSN W V L+EG+NRE++++FE V+RL+R+ +GP L + L G + E+++ Sbjct: 244 GEGSNHWYRVILKEGRNREVRRMFEAVGMTVSRLMRVRFGPINLPSRLKRGKSMELNEAE 303 Query: 241 LREQL 245 + L Sbjct: 304 IGRLL 308 >gi|291513764|emb|CBK62974.1| pseudouridine synthase family [Alistipes shahii WAL 8301] Length = 455 Score = 252 bits (644), Expect = 7e-65, Method: Composition-based stats. Identities = 69/250 (27%), Positives = 125/250 (50%), Gaps = 10/250 (4%) Query: 2 KDKNIVQENFTPQ------RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM 55 DK F P+ R+++ IA++GI SRRE + I V VNG ++ V+ Sbjct: 203 DDKPASYPKFNPEKQTGEMRLNRFIAQSGICSRREADDFITAGVVSVNGKIVTELGTKVL 262 Query: 56 STDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRL 114 TD + + P++ E+ + +KP G VT+ DP TV + + R+ VGRL Sbjct: 263 PTDEVRFNDEPVQ-GEKKVYLVLNKPKGYVTSLDDPHAGKTVMELVSGACTERIYPVGRL 321 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D N+ GLLL TNDG L + L PS + ++Y+V + + ++ + +G+ ++ Sbjct: 322 DKNSLGLLLFTNDGDLTKQLTHPSYKKKKIYQVTLDKPLTRADMDRIAEGVTLEDGEIFA 381 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +++ K + V + + G+NR ++++FEF + V +L R+ Y L G+ R Sbjct: 382 DEISYV--KENKQEVGIEIHSGRNRIVRRIFEFLGYTVTKLDRVYYAGLTKKNLKRGAWR 439 Query: 235 EVSKKILREQ 244 ++++ + Sbjct: 440 FLTREEVERL 449 >gi|209695469|ref|YP_002263398.1| ribosomal small subunit pseudouridine synthase A (16S pseudouridine 516 synthase) [Aliivibrio salmonicida LFI1238] gi|208009421|emb|CAQ79703.1| ribosomal small subunit pseudouridine synthase A (16S pseudouridine 516 synthase) [Aliivibrio salmonicida LFI1238] Length = 234 Score = 252 bits (644), Expect = 7e-65, Method: Composition-based stats. Identities = 59/235 (25%), Positives = 103/235 (43%), Gaps = 2/235 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A+R E R++ V VNG+ + +V V +E DG L+ Sbjct: 1 MRLDKFLCETTGATRSEATRIVKSGTVTVNGVKTKVTSVKVTDDSTVEWDGRELKF-HGP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + KP G V +H D S + ++ GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLFKPDGYVCSHEDSTHPSALTLLDEVNLEKLHFAGRLDVDTTGLVLITDDGQWSHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + L +GI ++ M T++ + + + Sbjct: 120 ITSPKRKCPKTYRVWLDEPIGAYYAEQLTEGIQLKSETGLIMPATMEVVNEEEHELLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGP 247 +EGK ++K++F KV L R G L +L G R ++ + ++ L Sbjct: 180 QEGKYHQVKRMFAALGNKVEGLHRSQIGGLGLDYSLEPGEYRYLTAEEVKAVLSK 234 >gi|260776099|ref|ZP_05884994.1| ribosomal large subunit pseudouridine synthase B [Vibrio coralliilyticus ATCC BAA-450] gi|260607322|gb|EEX33587.1| ribosomal large subunit pseudouridine synthase B [Vibrio coralliilyticus ATCC BAA-450] Length = 314 Score = 252 bits (644), Expect = 7e-65, Method: Composition-based stats. Identities = 102/309 (33%), Positives = 146/309 (47%), Gaps = 9/309 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ KV+ARAG SRRE+E +I RV VNG++ + + +DG + + Sbjct: 3 EKLQKVLARAGHGSRRELEALIKAGRVSVNGVVAKLGERLEDENAVVRIDGHTVSAKAQE 62 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVVCRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G VD+ K+ L G+ ++ V G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGDVDEKKIRNLVGGVELEDGLARFEDVVYAGGDGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LREQ 244 V + EG+NRE+++++E + V+RL R+ YG L L G E+ K LRE Sbjct: 183 FYVVINEGRNREVRRLWESQDCTVSRLKRVRYGDIFLDKKLPRGGWMELDLKEVNYLREL 242 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 + +E ++ + S + I V RM + N +++K Sbjct: 243 VELRPEKETMLDENKANTSRKRERSRSQKIRRAVKRHEERMNNGGGRSNNPARRKPRKGA 302 Query: 305 VHRRNLASN 313 + Sbjct: 303 GEQGARNKQ 311 >gi|68250225|ref|YP_249337.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae 86-028NP] gi|68058424|gb|AAX88677.1| ribosomal small subunit pseudouridine synthase A [Haemophilus influenzae 86-028NP] Length = 232 Score = 252 bits (644), Expect = 7e-65, Method: Composition-based stats. Identities = 59/234 (25%), Positives = 108/234 (46%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E Sbjct: 1 MRLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGAVQISQEDKIYFEDELLTWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ HKP G V ++ D D T++ + ++ S GRLD++T G +LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDY-PTIYQFFDYPLAGKLHSAGRLDVDTTGFVLLTDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V V+++ +GI+++ L+ N V + Sbjct: 120 RITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRREKEPTKPAKLEILDDYN--VNLT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 + EG+ ++K++F KV L R G L +L G R +++ + + + Sbjct: 178 ISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLV 231 >gi|269467788|gb|EEZ79546.1| 16S rRNA uridine-516 pseudouridylate synthase [uncultured SUP05 cluster bacterium] Length = 241 Score = 252 bits (644), Expect = 7e-65, Method: Composition-based stats. Identities = 88/237 (37%), Positives = 137/237 (57%), Gaps = 7/237 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----K 69 +R+ K+IA AG SRR ER+I Q RV+VN TD +++DG + Sbjct: 2 ERLQKLIATAGYGSRRWAERLIEQGRVEVNNKTA-SIGDKADITDKVKIDGRTIDLSRYN 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E T++ + +K G++ ++ D +GR + +D LP SR + VGRLD+NT GLLL TN+G Sbjct: 61 EEETKVIILNKQAGVICSNKDKEGRKSAYDLLPKE-SRWVMVGRLDLNTSGLLLFTNNGD 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PS++ R Y VR G+V+ + L L +GI ++ +VT+ +G+N W Sbjct: 120 LANKLMHPSSEIEREYAVRVLGKVENEDLKQLTEGIDLEDGFAKFSRVTIGGGQGANRWY 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 V L+EGK RE+++++E +KV+RLIRI +G +L +L A + K ++ L Sbjct: 180 KVVLKEGKKREVRRLWEALGFKVSRLIRIRFGEIRLPDSLRANQYEYLKSKQVQSLL 236 >gi|269218469|ref|ZP_06162323.1| ribosomal large subunit pseudouridine synthase B [Actinomyces sp. oral taxon 848 str. F0332] gi|269211580|gb|EEZ77920.1| ribosomal large subunit pseudouridine synthase B [Actinomyces sp. oral taxon 848 str. F0332] Length = 247 Score = 252 bits (644), Expect = 7e-65, Method: Composition-based stats. Identities = 74/235 (31%), Positives = 116/235 (49%), Gaps = 1/235 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKA 70 T +R+ KV+AR G+ SRR E +IAQ RV V+G ++ V I VDG+ ++ Sbjct: 8 TGERLQKVLARNGVGSRRACEGLIAQGRVSVDGHVVRELGTRVDPVASVIHVDGIRVQTD 67 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +KP G+V+T D GR + + R+ VGRLD +TEGL+LL+NDG L Sbjct: 68 SSLLTLALYKPPGVVSTMYDDMGRPGLAQYVEDRPERLYHVGRLDQDTEGLILLSNDGEL 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + + Y R G V + +L++GI ++ + L N+ V Sbjct: 128 THRLTHPKYEVPKTYIARVEGSVTRGLGRVLERGITLEDGPARVDRFILRESAPRNSIVE 187 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L G+NR ++++ V L+R+ +G +G L G TR V+ L + Sbjct: 188 ITLHSGRNRIVRRMMAEVGHPVMELVRMKFGTVVVGHLKPGKTRVVAGSELGALM 242 >gi|254743404|ref|ZP_05201089.1| ribosomal large subunit pseudouridine synthase F [Bacillus anthracis str. Kruger B] Length = 235 Score = 252 bits (644), Expect = 7e-65, Method: Composition-based stats. Identities = 65/232 (28%), Positives = 113/232 (48%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 1 MRINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-SEKSVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G ++T + S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQRRDLTKKEKRRLF 225 >gi|119356331|ref|YP_910975.1| ribosomal large subunit pseudouridine synthase B [Chlorobium phaeobacteroides DSM 266] gi|119353680|gb|ABL64551.1| ribosomal large subunit pseudouridine synthase B [Chlorobium phaeobacteroides DSM 266] Length = 243 Score = 252 bits (644), Expect = 7e-65, Method: Composition-based stats. Identities = 76/241 (31%), Positives = 123/241 (51%), Gaps = 8/241 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVP 66 E+ R+++ +A GIASRR ++++A RV VNG + + + ++ D + VDG Sbjct: 4 TEDEGGIRINRYLAMCGIASRRAADKLVADGRVTVNGKIADEPGLRILPFKDEVIVDGRK 63 Query: 67 -LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + + L +KP ++TT D R T+ D + S+ RV VGRLD T G++LLT Sbjct: 64 FVVPEAKKVYILLNKPRNVITTSHDEKDRETILDLV-SVEERVYPVGRLDRKTTGVILLT 122 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQK 183 NDG LA L PS+ + Y + Q L+ L G+ ++ G Q L Sbjct: 123 NDGILAHRLMHPSSNVKKEYVAELDKRFPQGLLSQLVGGMKLKDTGEKVSPCQAKLLD-D 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 G W + + EGKN +++++ E + V +L R++Y + G L G+ R +SK +RE Sbjct: 182 GMRIW--ISIHEGKNHQVRRMLETLGFDVTKLERVAYAGLKAGDLRRGAWRHLSKNEVRE 239 Query: 244 Q 244 Sbjct: 240 L 240 >gi|85374350|ref|YP_458412.1| hypothetical protein ELI_07615 [Erythrobacter litoralis HTCC2594] gi|84787433|gb|ABC63615.1| hypothetical protein ELI_07615 [Erythrobacter litoralis HTCC2594] Length = 266 Score = 252 bits (644), Expect = 7e-65, Method: Composition-based stats. Identities = 112/241 (46%), Positives = 157/241 (65%), Gaps = 8/241 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + R++K++ARAG+ASRREVERMI RV ++G +E A + S + VDG P+ Sbjct: 14 DRPDGDRIAKLLARAGVASRREVERMITDGRVALHGKPVETPATFLESLRGVTVDGKPVG 73 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----RVISVGRLDINTEGLLLL 124 KAE TRL+ ++KP GL+T +DP GR+T++D L + RV+ +GRLD NTEGLLLL Sbjct: 74 KAEPTRLFAFNKPTGLLTAENDPKGRATIYDALKNALPKDAGRVMPIGRLDFNTEGLLLL 133 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK- 183 TNDGGL R +ELPS+ R YR R G + Q++L L +GI I G+ YG + L+ + Sbjct: 134 TNDGGLKRRMELPSSGIPRTYRARAFGDITQEQLESLIEGIEIDGVRYGRIDANLEQKTK 193 Query: 184 ---GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 G N W+ + + EGKNRE+++V E F +V+RL+R++YGPFQLG L G E+ K Sbjct: 194 SAGGRNQWIEMTITEGKNREVRRVLEHFGLEVSRLMRVAYGPFQLGDLPRGQAVEIRKGD 253 Query: 241 L 241 L Sbjct: 254 L 254 >gi|120598427|ref|YP_963001.1| pseudouridine synthase [Shewanella sp. W3-18-1] gi|146293494|ref|YP_001183918.1| pseudouridine synthase [Shewanella putrefaciens CN-32] gi|120558520|gb|ABM24447.1| ribosomal large subunit pseudouridine synthase B [Shewanella sp. W3-18-1] gi|145565184|gb|ABP76119.1| ribosomal large subunit pseudouridine synthase B [Shewanella putrefaciens CN-32] gi|319426799|gb|ADV54873.1| RNA-binding S4 domain protein [Shewanella putrefaciens 200] Length = 291 Score = 252 bits (644), Expect = 7e-65, Method: Composition-based stats. Identities = 99/298 (33%), Positives = 150/298 (50%), Gaps = 17/298 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E IA RV ++G + + + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSIDGEIA-SLGDRIEADAKVRIDGRAISLKSA 60 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+D Sbjct: 61 EDVICRVLAYHKPEGEICSRKDPEGRPTVFDRLPKVRDSRWVAVGRLDINTSGLLLFTSD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G++ + + L+ G++++ + +G N Sbjct: 121 GELANRLMHPSNEVDREYAVRTFGEIPEATVQRLRTGVMLEDGPAQFDSIKPAGGEGMNQ 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILRE 243 W V LREG+NRE+++++E +V+RLIRI YG +L +L G E+ + LR+ Sbjct: 181 WWHVCLREGRNREVRRLWESQEVQVSRLIRIRYGMVELPKSLPRGGWVELPVEQVNYLRQ 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 G L E + L A +S I V R K + +++ Sbjct: 241 LAG--LEPETRTMLAADKHSVARAQVKSAKIRRAV-----RKHKVTGAGKAKPTRQRS 291 >gi|126174904|ref|YP_001051053.1| pseudouridine synthase [Shewanella baltica OS155] gi|217972846|ref|YP_002357597.1| RNA-binding S4 domain-containing protein [Shewanella baltica OS223] gi|125998109|gb|ABN62184.1| ribosomal large subunit pseudouridine synthase B [Shewanella baltica OS155] gi|217497981|gb|ACK46174.1| RNA-binding S4 domain protein [Shewanella baltica OS223] Length = 291 Score = 252 bits (644), Expect = 7e-65, Method: Composition-based stats. Identities = 101/296 (34%), Positives = 151/296 (51%), Gaps = 16/296 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E IA RV ++G + + + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSIDGEIA-SLGDRIEADAKVRIDGRAISLKSA 60 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+D Sbjct: 61 EDVICRVLAYHKPEGEICSRKDPEGRPTVFDRLPKVRDSRWVAVGRLDINTSGLLLFTSD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G++ + + L+ G++++ + +G N Sbjct: 121 GELANRLMHPSNEVDREYAVRTFGEIPEATVQRLRTGVMLEDGPAQFDSIKPAGGEGMNQ 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILRE 243 W V LREG+NRE+++++E +V+RLIRI YG +L +L G E+ + LR+ Sbjct: 181 WWHVCLREGRNREVRRLWESQEVQVSRLIRIRYGMVELPKSLPRGGWVELPMEQVNYLRK 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 G L E + L A +S I + K S K S+Q+ Sbjct: 241 LAG--LEPETRTMLAADKHSVARAQVKSAKIRR----AVRKHKVTGSGKPKPSRQR 290 >gi|330836580|ref|YP_004411221.1| pseudouridine synthase Rsu [Spirochaeta coccoides DSM 17374] gi|329748483|gb|AEC01839.1| pseudouridine synthase Rsu [Spirochaeta coccoides DSM 17374] Length = 248 Score = 252 bits (644), Expect = 7e-65, Method: Composition-based stats. Identities = 76/231 (32%), Positives = 120/231 (51%), Gaps = 6/231 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ +A++G SRR E++I RVKVN ++ V D + VDGV ER Sbjct: 6 PIRLQSFLAKSGWGSRRSCEQLIIDGRVKVNSQVVRELGTKVDKDDAVYVDGVLAEPNER 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLA 131 T + HKP G V +++DP+ D + + ++GRLD + GL+L TNDG ++ Sbjct: 66 TYYYALHKPAGYVCSNADPNESYFARDLIDVPERNLLFNIGRLDKESTGLVLFTNDGEIS 125 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVT 190 +++ PS + + Y V + + L + GI I Y + L+T++ WV Sbjct: 126 QLITHPSYEIEKEYLVNTDRTIMIEDLQEARHGIRIDDGRPYRISRYKLETKR----WVR 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EG+NREI+K+F + + V +LIRI G +LG L R V+K + Sbjct: 182 IILTEGRNREIRKIFTYLGYDVKKLIRIRIGTLELGDLAPAQFRRVTKDEI 232 >gi|299139090|ref|ZP_07032266.1| pseudouridine synthase [Acidobacterium sp. MP5ACTX8] gi|298598770|gb|EFI54932.1| pseudouridine synthase [Acidobacterium sp. MP5ACTX8] Length = 307 Score = 252 bits (643), Expect = 7e-65, Method: Composition-based stats. Identities = 89/303 (29%), Positives = 138/303 (45%), Gaps = 36/303 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A+AGIASRR E +I + RV+VNG ++ +T DHI VDG L E Sbjct: 14 RLQKILAQAGIASRRAAETIILEGRVQVNGQVVTELGTRADATRDHIRVDGKLLHGPEPQ 73 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL-----------PSIFSRVISVGRLDINTEGLL 122 R ++ +KP G VTT DP+ R TV L + R+ VGRLD +EGLL Sbjct: 74 RYFMVNKPRGYVTTLDDPEHRPTVMQLLGQDAQKKSVGEHNKLPRLYPVGRLDYLSEGLL 133 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC----------- 171 L+TNDG LA L + + Y V+ G + ++ L++GI+I Sbjct: 134 LMTNDGELANKLSKAAAGVEKTYLVKVSGSPTDEAIDQLRRGIMIDRGRLNEVRSGRRDR 193 Query: 172 --YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 ++ ++G N W V L EG+NR+++K+FE V ++ RI YG L + Sbjct: 194 VLTSPAKIE-QVRRGENPWFEVTLTEGRNRQLRKMFEEIGHHVEKIRRIGYGALVL-DIP 251 Query: 230 AGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNS 289 G RE++ ++ + + + + VP KK Sbjct: 252 PGGFRELTTGEVQAL---------GRAAAGKKVERKKTLPEAAQLKKPVPPKKRAFKKAV 302 Query: 290 SQK 292 ++ Sbjct: 303 RKR 305 >gi|170769533|ref|ZP_02903986.1| ribosomal large subunit pseudouridine synthase F [Escherichia albertii TW07627] gi|170121590|gb|EDS90521.1| ribosomal large subunit pseudouridine synthase F [Escherichia albertii TW07627] Length = 290 Score = 252 bits (643), Expect = 7e-65, Method: Composition-based stats. Identities = 71/293 (24%), Positives = 127/293 (43%), Gaps = 9/293 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 3 PDSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVNPGDVVKVNGQLIEP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 AE L +KP+G+V+T D + R + D + + RV +GRLD +++GL+ LTN Sbjct: 62 REAEDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V V + + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPVTDEFVTGMAAGVPILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E+F ++V +L R L + G R+++ L E Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIELFKL 235 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 + A T ++ + + + +R N + ++KK Sbjct: 236 IENSSSGTKPKAKAKPKTTGIKRPVVKMEKTAEKGSRPASNGKRFTSPGRKKK 288 >gi|322373412|ref|ZP_08047948.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. C150] gi|321278454|gb|EFX55523.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. C150] Length = 243 Score = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 65/234 (27%), Positives = 112/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ + +++V VNG + + D I L E Sbjct: 1 MRLDKFLVDCGLGSRSQVKIYLKKKQVTVNGQVETSPKTQIDEKKDQIAYQSQELTH-ET 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D + TV D L V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPKGVISATEDARHK-TVLDLLDETARHKQVFPVGRLDIDTHGLLLLTNNGDL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A + P ++Y+ + G +D+ + +KGI ++ ++ + + Q + Sbjct: 119 AHAMLSPRKHVDKIYQAKVAGVMDEADMQAFEKGIELKDHTCQPAKLEILSVDQAVKTST 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 V V + EGK ++K++ +V L R+S G L L G+ R ++++ L Sbjct: 179 VQVTIAEGKFHQVKRMVAACGKEVTDLQRLSMGSLVLPDDLEIGTWRRLTQEEL 232 >gi|256788622|ref|ZP_05527053.1| pseudouridine synthase [Streptomyces lividans TK24] gi|289772517|ref|ZP_06531895.1| pseudouridine synthase [Streptomyces lividans TK24] gi|289702716|gb|EFD70145.1| pseudouridine synthase [Streptomyces lividans TK24] Length = 371 Score = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 76/239 (31%), Positives = 121/239 (50%), Gaps = 2/239 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEV 62 K +R+ KV+ARAG SRR E +I Q RV++NG ++ V D ++V Sbjct: 125 KTFPGAEQEGERLQKVLARAGYGSRRACEELIEQARVEINGEIVLEQGRRVDPEKDEVKV 184 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG+ + + + + +KP G+V+T DP+GR + D + + +R+ VGRLD TEG++ Sbjct: 185 DGLTV-ATQSYQFFSLNKPAGVVSTMEDPEGRQCLGDYVTNRETRLFHVGRLDTETEGVI 243 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTN G LA L P + Y G + +D LK GI ++ + Q Sbjct: 244 LLTNHGELAHRLTHPRYGVKKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVEQ 303 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G N V V L EG+ ++++ + V+ L+R ++GP LG +G R +S + Sbjct: 304 TGKNYLVEVTLHEGRKHIVRRMLAEAGFPVDNLVRTAFGPITLGDQKSGWLRRLSNTEV 362 >gi|269959632|ref|ZP_06174012.1| pseudouridine synthase family 1 protein [Vibrio harveyi 1DA3] gi|269835555|gb|EEZ89634.1| pseudouridine synthase family 1 protein [Vibrio harveyi 1DA3] Length = 312 Score = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 104/301 (34%), Positives = 147/301 (48%), Gaps = 13/301 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV VNGI+ + + +DG + + Sbjct: 2 SEKLQKVLARAGHGSRREIESLIKSGRVSVNGIVAKLGERLEDENSVVRIDGHIVSAKAQ 61 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G+V++ K+ L G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGEVNEKKVRNLVSGVELEDGMARFEDVVHAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWESQECTVSRLKRVRYGDIFLDKKLPRGGWMELDLKEVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E ++L+ +S R R I R ++ + G S Sbjct: 242 LVELRPEKETMLDLNKD-NTSRKRERARSQKIRR---AVKRHEERVNTPKGRSNNPSRRK 297 Query: 304 P 304 P Sbjct: 298 P 298 >gi|332993790|gb|AEF03845.1| pseudouridine synthase [Alteromonas sp. SN2] Length = 298 Score = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 108/310 (34%), Positives = 152/310 (49%), Gaps = 27/310 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+A G+ SRRE+ER I Q RV VNG L V T I VDG L + Sbjct: 2 TEKLQKVLANQGLGSRREMERWIEQGRVSVNGTLAT-LGDRVDETGQIRVDGHLLSRQTE 60 Query: 73 T---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDG 128 R+ +Y+KP G + + DP+GR TVFD LP+ R I+VGRLD+NT GLLL TNDG Sbjct: 61 QPVCRVLMYNKPEGELCSRHDPEGRDTVFDRLPAIRMGRWIAVGRLDMNTSGLLLFTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------Q 182 LA L P + R Y VR G V LN LKKG+ ++ + ++ + Sbjct: 121 ELANRLMHPKCEVEREYAVRVFGDVTHQTLNTLKKGVQLEDGEAKFLSISGKVAPPGSEE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI- 240 + N W V L+EG+NRE+++++E +V+RLIR+ YGP L L G+ E+ + Sbjct: 181 ESMNRWFNVTLKEGRNREVRRLWESQGVQVSRLIRVKYGPMDLQKRLPQGAWVELGLEDV 240 Query: 241 --LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 LR+ + L EE Q +D + R R K + Sbjct: 241 NSLRDIV--QLPEETQTMVDVRQGKLDHARLSR----------MRRSVKKHKVRKENGGV 288 Query: 299 KKLATPVHRR 308 KK +R Sbjct: 289 KKRVARTPKR 298 >gi|212550926|ref|YP_002309243.1| ribosomal large subunit pseudouridine synthase B [Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2] gi|212549164|dbj|BAG83832.1| putative ribosomal large subunit pseudouridine synthase B [Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2] Length = 290 Score = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 68/230 (29%), Positives = 113/230 (49%), Gaps = 3/230 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+++ +A +G+ SRR+ ++ I VK NGI + V TD+I +R +E Sbjct: 54 PIRLNRYLANSGLCSRRKADKYIQTGLVKKNGIPVTEFGTRVNRTDNITFCNSLVR-SEH 112 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP VTT +DP GR TV D + + ++ VGRLD NT G+LLLTNDG L+ Sbjct: 113 KVYLLLNKPKNCVTTTNDPQGRLTVMDLIKTACKEQIFPVGRLDRNTTGVLLLTNDGKLS 172 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P ++Y V + +D + L KGI ++ ++ K + + Sbjct: 173 AKLTHPRHMKKKIYHVWLNRGIDAADIKKLSKGIQLEDGGIWADDISYVNDK-DKTQINI 231 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + G+N I+++FE + V +L R+ + L G ++ + + Sbjct: 232 EIHSGRNHIIRRMFESLGYHVVKLDRVYFAGLTKKKLKKGQWCFLNDREV 281 >gi|253734463|ref|ZP_04868628.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus TCH130] gi|253727517|gb|EES96246.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus TCH130] gi|329733199|gb|EGG69536.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus 21193] Length = 231 Score = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 61/228 (26%), Positives = 106/228 (46%), Gaps = 9/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKITVRGELIEYIEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G ++ D TV D +P + VGRLD +TEGLLL+TNDG Sbjct: 61 -VYIMLNKPKGYISATED-HHSKTVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + +D + K+G+ + +T + S+ V Sbjct: 119 HELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLSDGKVKPAILTYIDNQTSH----V 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + EGK ++K++F +V L RI +L L +G R +++ Sbjct: 175 TIYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYRLLTE 222 >gi|284039270|ref|YP_003389200.1| RNA-binding S4 domain protein [Spirosoma linguale DSM 74] gi|283818563|gb|ADB40401.1| RNA-binding S4 domain protein [Spirosoma linguale DSM 74] Length = 638 Score = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 74/241 (30%), Positives = 119/241 (49%), Gaps = 5/241 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K K + T R+++ IA +G+ SRRE + +IA + VNG ++ V D ++ Sbjct: 394 KGKRTPANDGTT-RLNRFIANSGVCSRREADELIAHGDISVNGKIVTEMGYKVKEGDTVK 452 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEG 120 G + ER L +KP +TT DP+ R TV + + R+ VGRLD NT G Sbjct: 453 Y-GTKVLNPERFVYVLLNKPKDYITTTEDPEERKTVMELVADAGKFRMYPVGRLDRNTTG 511 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL+TNDG LA L PS ++Y+V + + +KKGI ++ +++ Sbjct: 512 LLLITNDGELADKLTHPSNNIRKIYQVELDKPITDEHFEAIKKGIELEDGPIKPDAISIV 571 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 T V + + G+NR ++++FE F ++V +L R +Y L G R + K Sbjct: 572 TPDA--YVVGIEIHSGRNRIVRRIFESFGYEVTKLDRTTYAGLTKKELPRGKWRFLDPKE 629 Query: 241 L 241 + Sbjct: 630 V 630 >gi|331085062|ref|ZP_08334149.1| hypothetical protein HMPREF0987_00452 [Lachnospiraceae bacterium 9_1_43BFAA] gi|330408762|gb|EGG88227.1| hypothetical protein HMPREF0987_00452 [Lachnospiraceae bacterium 9_1_43BFAA] Length = 241 Score = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 70/233 (30%), Positives = 121/233 (51%), Gaps = 5/233 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + +R EV++MI + V V+G+++++ V + V + + Sbjct: 7 RLDKYLADMQVGTRSEVKQMIRKGLVTVDGLIVKKPEEKVDCEKQVVVCSGAIVSYHQYE 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G+V+ DP + TV D + + + GRLD +TEGLLL+TNDG LA Sbjct: 67 YYMLNKPAGVVSATEDPRDK-TVIDLIEDRRRKDLFPAGRLDKDTEGLLLITNDGALAHD 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y + G V ++ + L KGI I + +T+ + G + +T+ Sbjct: 126 LLSPKKHVDKKYYAKIEGTVTEEDVELFGKGIDIGEKRVTLPAVLTILS-SGEESEITLT 184 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 +REGK ++K++FE KV L R+S G L LL G R+++++ L + Sbjct: 185 IREGKFHQVKRMFEAVGKKVTYLKRLSMGSLVLDEKLLPGEYRKLTEQELTQL 237 >gi|150392376|ref|YP_001322425.1| RNA-binding S4 domain-containing protein [Alkaliphilus metalliredigens QYMF] gi|149952238|gb|ABR50766.1| RNA-binding S4 domain protein [Alkaliphilus metalliredigens QYMF] Length = 235 Score = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 56/237 (23%), Positives = 113/237 (47%), Gaps = 13/237 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++ I+ G SRRE + +I Q++V VNG + V D + + G PL+ Sbjct: 1 MRLNNFISSTGKCSRREADELIKQKKVTVNGKIAT-LGCKVDPGDQVMLKGKPLQAKNND 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T ++ R + D + + R+ +GRLD ++EGL+LLTNDG + Sbjct: 60 VYIALNKPVGITCT-TERHIRGNIIDFI-NHPERIFPIGRLDKDSEGLILLTNDGSIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI------QGICYGDMQVTLDTQKGSNA 187 + + + Y V + ++ + + KG+ I + ++ + ++ Sbjct: 118 ILAEENKHEKDYIVTVNKKITPSFIEGMSKGVKIYNPVKNKDTMTKRCKLV----RINDR 173 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+++ F ++V +L R+ L L G R ++++ +++ Sbjct: 174 TFKITLCQGLNRQIRRMCTHFGYRVVKLKRVRIMNLTLKDLTIGKWRNLTEEEVKDL 230 >gi|146329607|ref|YP_001209391.1| ribosomal large subunit pseudouridine synthase, RluB [Dichelobacter nodosus VCS1703A] gi|146233077|gb|ABQ14055.1| ribosomal large subunit pseudouridine synthase, RluB [Dichelobacter nodosus VCS1703A] Length = 266 Score = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 90/266 (33%), Positives = 143/266 (53%), Gaps = 12/266 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + ++N QR+ K +A G+ SRR++E I + R+KV+G + + + + +DG Sbjct: 1 MNKKNDDAQRIQKYLAARGVGSRRQIETWIKEGRLKVDGRVA-ELGQKISGNERLSLDGK 59 Query: 66 PLRKAERTR----LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEG 120 PLR A + + +YHKP G + T DP+GR +VF +LP I R +++GRLD+NT G Sbjct: 60 PLRIAVEHKNPHMILMYHKPAGEICTRKDPEGRVSVFQHLPKISHGRWVAIGRLDLNTSG 119 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL- 179 LLL TNDG LA L PS + R Y VR G+V ++ L L++GI + ++ Sbjct: 120 LLLFTNDGALANQLMHPSAEIEREYWVRVAGEVTEEMLTALRQGIPLDDGLARFTEICPL 179 Query: 180 ----DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTR 234 + N + +V L+EG+NRE+++++E KV+RL RI YG L +L AG R Sbjct: 180 KTLHEDDTQFNRYFSVTLKEGRNREVRRLWEAVGCKVSRLKRIRYGTISLPPSLSAGRHR 239 Query: 235 EVSKKILREQLGPHLLEEAQVNLDAP 260 ++ + + + N P Sbjct: 240 LLTAGEQASLISLVSEKNRRDNSPKP 265 >gi|15924743|ref|NP_372277.1| 16S psudouridylate synthase [Staphylococcus aureus subsp. aureus Mu50] gi|15927330|ref|NP_374863.1| hypothetical protein SA1574 [Staphylococcus aureus subsp. aureus N315] gi|57652051|ref|YP_186636.1| pseudouridine synthase family 1 protein [Staphylococcus aureus subsp. aureus COL] gi|87160516|ref|YP_494393.1| pseudouridine synthase family 1 protein [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|88195567|ref|YP_500373.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus NCTC 8325] gi|148268231|ref|YP_001247174.1| pseudouridine synthase [Staphylococcus aureus subsp. aureus JH9] gi|150394299|ref|YP_001316974.1| pseudouridine synthase [Staphylococcus aureus subsp. aureus JH1] gi|151221858|ref|YP_001332680.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus str. Newman] gi|156980070|ref|YP_001442329.1| hypothetical protein SAHV_1739 [Staphylococcus aureus subsp. aureus Mu3] gi|161509971|ref|YP_001575630.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|221141491|ref|ZP_03565984.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus str. JKD6009] gi|253315873|ref|ZP_04839086.1| pseudouridine synthase family 1 protein [Staphylococcus aureus subsp. aureus str. CF-Marseille] gi|255006539|ref|ZP_05145140.2| pseudouridine synthase family 1 protein [Staphylococcus aureus subsp. aureus Mu50-omega] gi|257794136|ref|ZP_05643115.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9781] gi|258415840|ref|ZP_05682111.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9763] gi|258420669|ref|ZP_05683608.1| pseudouridine synthase, family 1 [Staphylococcus aureus A9719] gi|258438319|ref|ZP_05689603.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9299] gi|258443777|ref|ZP_05692116.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A8115] gi|258445988|ref|ZP_05694164.1| pseudouridylate synthase [Staphylococcus aureus A6300] gi|258448285|ref|ZP_05696412.1| pseudouridylate synthase [Staphylococcus aureus A6224] gi|258452304|ref|ZP_05700317.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A5948] gi|258454188|ref|ZP_05702159.1| pseudouridine synthase family 1 protein [Staphylococcus aureus A5937] gi|262049062|ref|ZP_06021940.1| hypothetical protein SAD30_2267 [Staphylococcus aureus D30] gi|262053064|ref|ZP_06025237.1| hypothetical protein SA930_1121 [Staphylococcus aureus 930918-3] gi|269203391|ref|YP_003282660.1| pseudouridine synthase family 1 protein [Staphylococcus aureus subsp. aureus ED98] gi|282893247|ref|ZP_06301481.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A8117] gi|282925640|ref|ZP_06333289.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9765] gi|282927882|ref|ZP_06335493.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A10102] gi|284024800|ref|ZP_06379198.1| pseudouridine synthase family 1 protein [Staphylococcus aureus subsp. aureus 132] gi|294849914|ref|ZP_06790653.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9754] gi|295406064|ref|ZP_06815872.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A8819] gi|296276053|ref|ZP_06858560.1| pseudouridine synthase family 1 protein [Staphylococcus aureus subsp. aureus MR1] gi|297245011|ref|ZP_06928888.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A8796] gi|304380652|ref|ZP_07363323.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|7328274|emb|CAB82472.1| hypothetical protein [Staphylococcus aureus subsp. aureus COL] gi|13701549|dbj|BAB42842.1| SA1574 [Staphylococcus aureus subsp. aureus N315] gi|14247525|dbj|BAB57915.1| similar to 16S psudouridylate synthase [Staphylococcus aureus subsp. aureus Mu50] gi|57286237|gb|AAW38331.1| pseudouridine synthase, family 1 [Staphylococcus aureus subsp. aureus COL] gi|87126490|gb|ABD21004.1| pseudouridine synthase, family 1 [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|87203125|gb|ABD30935.1| ribosomal small subunit pseudouridine synthase A, putative [Staphylococcus aureus subsp. aureus NCTC 8325] gi|147741300|gb|ABQ49598.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus JH9] gi|149946751|gb|ABR52687.1| pseudouridine synthase [Staphylococcus aureus subsp. aureus JH1] gi|150374658|dbj|BAF67918.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus str. Newman] gi|156722205|dbj|BAF78622.1| hypothetical protein [Staphylococcus aureus subsp. aureus Mu3] gi|160368780|gb|ABX29751.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|257788108|gb|EEV26448.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9781] gi|257839433|gb|EEV63906.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9763] gi|257843273|gb|EEV67683.1| pseudouridine synthase, family 1 [Staphylococcus aureus A9719] gi|257848363|gb|EEV72354.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9299] gi|257851183|gb|EEV75126.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A8115] gi|257855230|gb|EEV78169.1| pseudouridylate synthase [Staphylococcus aureus A6300] gi|257858524|gb|EEV81400.1| pseudouridylate synthase [Staphylococcus aureus A6224] gi|257860029|gb|EEV82864.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A5948] gi|257863640|gb|EEV86397.1| pseudouridine synthase family 1 protein [Staphylococcus aureus A5937] gi|259159041|gb|EEW44112.1| hypothetical protein SA930_1121 [Staphylococcus aureus 930918-3] gi|259162879|gb|EEW47443.1| hypothetical protein SAD30_2267 [Staphylococcus aureus D30] gi|262075681|gb|ACY11654.1| pseudouridine synthase family 1 protein [Staphylococcus aureus subsp. aureus ED98] gi|269941231|emb|CBI49619.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus TW20] gi|282590392|gb|EFB95471.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A10102] gi|282592420|gb|EFB97434.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9765] gi|282764565|gb|EFC04691.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A8117] gi|285817435|gb|ADC37922.1| 16S pseudouridine synthase A [Staphylococcus aureus 04-02981] gi|294823253|gb|EFG39683.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A9754] gi|294969061|gb|EFG45082.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A8819] gi|297178091|gb|EFH37339.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus A8796] gi|302751580|gb|ADL65757.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus str. JKD6008] gi|304340759|gb|EFM06688.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|312830131|emb|CBX34973.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus ECT-R 2] gi|315130607|gb|EFT86593.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus CGS03] gi|315197223|gb|EFU27562.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus CGS01] gi|320140780|gb|EFW32631.1| hypothetical protein HMPREF9528_00946 [Staphylococcus aureus subsp. aureus MRSA131] gi|320143781|gb|EFW35555.1| hypothetical protein HMPREF9529_00791 [Staphylococcus aureus subsp. aureus MRSA177] gi|329314428|gb|AEB88841.1| Pseudouridine synthase [Staphylococcus aureus subsp. aureus T0131] gi|329726944|gb|EGG63401.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus 21189] gi|329727428|gb|EGG63884.1| putative 16S pseudouridylate 516 synthase [Staphylococcus aureus subsp. aureus 21172] Length = 231 Score = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 61/228 (26%), Positives = 106/228 (46%), Gaps = 9/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKITVRGELIEYIEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G ++ D TV D +P + VGRLD +TEGLLL+TNDG Sbjct: 61 -VYIMLNKPKGYISATED-HHSKTVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + +D + K+G+ + +T + S+ V Sbjct: 119 HELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLTDGKVKPAILTYIDNQTSH----V 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + EGK ++K++F +V L RI +L L +G R +++ Sbjct: 175 TIYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYRLLTE 222 >gi|118444952|ref|YP_878908.1| RNA pseudouridylate synthase family protein [Clostridium novyi NT] gi|118135408|gb|ABK62452.1| RNA pseudouridylate synthase family protein [Clostridium novyi NT] Length = 238 Score = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 63/226 (27%), Positives = 112/226 (49%), Gaps = 7/226 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ KV++ G SR+E++ + + ++V+G +++ + V I+V+G + + Sbjct: 2 ERLDKVLSNLGYGSRKEIKAFVKKGEIEVDGKVVKDNGIKVDPNKSIIKVNGEEINYR-K 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+V+ D + TV D L ++ VGRLD +TEGLLL+TNDG L Sbjct: 61 YIYIMMNKPAGVVSATFD-NYDETVIDLLDYEYTVFDPFPVGRLDKDTEGLLLITNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P + Y VD+ + KKGI + G ++ + + + + V Sbjct: 120 NHRLTSPKWHVDKTYYAEIDKMVDEKDVEKFKKGITLDDGYKCLPAKLEILSSDENGSEV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 + ++EGK ++K++FE V L R++ G L L G+ R Sbjct: 180 NITIQEGKFHQVKRMFEARGKNVVYLKRLTMGNISLDEELDEGTYR 225 >gi|20806585|ref|NP_621756.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Thermoanaerobacter tengcongensis MB4] gi|254478969|ref|ZP_05092328.1| conserved hypothetical protein, putative [Carboxydibrachium pacificum DSM 12653] gi|20515028|gb|AAM23360.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Thermoanaerobacter tengcongensis MB4] gi|214035085|gb|EEB75800.1| conserved hypothetical protein, putative [Carboxydibrachium pacificum DSM 12653] Length = 240 Score = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 73/236 (30%), Positives = 122/236 (51%), Gaps = 8/236 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRK 69 R+ K+++ GI +R+EV++ I V+VNG ++ + V D + DG + Sbjct: 1 MAKMRLDKLLSNMGIGTRKEVKKYIKDGLVEVNGEIVLDPSKTVDTEKDEVLFDGEKVEY 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTND 127 E + + +KP G+++ D TV D LP +V VGRLD +TEGLL++TND Sbjct: 61 KEFIYVMM-NKPQGVISATHD-KSEETVIDLLPEEIALRKVFPVGRLDKDTEGLLIITND 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN- 186 G LA L P + ++ Y G++ + K+G++++ Y M L+ + S+ Sbjct: 119 GELAHKLLSPKKKVVKKYYAEVLGKITEKDAEKFKEGVILEDG-YRTMPSQLEIIESSDI 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + V V L EGK ++K++FE KV L R+ G QL L G RE++++ + Sbjct: 178 SKVYVYLTEGKYHQVKRMFEAIGKKVLYLKRLCMGKLQLDENLEPGEWRELTEEEV 233 >gi|113475036|ref|YP_721097.1| ribosomal large subunit pseudouridine synthase B [Trichodesmium erythraeum IMS101] gi|110166084|gb|ABG50624.1| ribosomal large subunit pseudouridine synthase B [Trichodesmium erythraeum IMS101] Length = 254 Score = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 81/251 (32%), Positives = 132/251 (52%), Gaps = 12/251 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 +R+ K++++ GIASRR+ E+MI RVKVNG +++ D+IEVDG+P+R R Sbjct: 3 ERLQKILSQWGIASRRQAEQMIIAGRVKVNGKIVQLGEKAQPDLDNIEVDGLPIRPEARP 62 Query: 73 -TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTNDG 128 L +KP+G+++T S+P RS V D L + + VGRLD ++ G LLLTNDG Sbjct: 63 SPIYLLLNKPMGVISTCSEPRKRSKVLDILNAELRNGKGIHPVGRLDADSTGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KGSNA 187 + L P + Y+V G + L L ++GI++ G +V + + S Sbjct: 123 RVTYCLTHPKYCLSKTYQVLVEGHPQESILKLWRQGIILSGKKTLPAEVKVLKECNSSQT 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSKKILR 242 + V + EG+NR+I++V + +V +L R + G +L L G R++ + Sbjct: 183 LLEVVISEGRNRQIRRVADKLGHRVLKLHRTAIGQIKLQLPGESVLPIGHYRQLKDFEI- 241 Query: 243 EQLGPHLLEEA 253 E L ++E Sbjct: 242 EFLDDQIIESK 252 >gi|260890235|ref|ZP_05901498.1| ribosomal small subunit pseudouridine synthase A [Leptotrichia hofstadii F0254] gi|260859855|gb|EEX74355.1| ribosomal small subunit pseudouridine synthase A [Leptotrichia hofstadii F0254] Length = 238 Score = 252 bits (643), Expect = 9e-65, Method: Composition-based stats. Identities = 62/235 (26%), Positives = 117/235 (49%), Gaps = 9/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K +A +GI +R+EV+ ++ +++ VN ++ + + D ++ + + + Sbjct: 1 MRLDKFLANSGIGTRKEVKEILKNKKISVNDAFVKDGKIQIDEEKDIVKYEDNII-YYKP 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ D R TV D L + + VGRLDI+TEGLLLLTNDG L Sbjct: 60 FVYIMMNKPAGVISATEDNHHR-TVIDLLNDEYRTYDIFPVGRLDIDTEGLLLLTNDGIL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLD--TQKGSNA 187 + L P + Y V+ + ++ + L+ GI + + +V + + + Sbjct: 119 SHNLLSPKKHVDKKYYVKISNPLTEEDIKTLENGIKLEENFVTKKAKVKIICNNSEKNEN 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + + EGK ++K++F+ N +V L R+ G L L G RE++++ L Sbjct: 179 LAYITISEGKFHQVKRMFKAVNNEVLYLKRVKMGSLSLDEKLKLGEYRELTEEEL 233 >gi|21220260|ref|NP_626039.1| pseudouridine synthase [Streptomyces coelicolor A3(2)] gi|5738484|emb|CAB52832.1| putative pseudouridine synthase [Streptomyces coelicolor A3(2)] Length = 371 Score = 252 bits (643), Expect = 9e-65, Method: Composition-based stats. Identities = 76/239 (31%), Positives = 121/239 (50%), Gaps = 2/239 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEV 62 K +R+ KV+ARAG SRR E +I Q RV++NG ++ V D ++V Sbjct: 125 KTFPGAEQEGERLQKVLARAGYGSRRACEELIEQARVEINGEIVLEQGRRVDPEKDEVKV 184 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG+ + + + + +KP G+V+T DP+GR + D + + +R+ VGRLD TEG++ Sbjct: 185 DGLTV-ATQSYQFFSLNKPAGVVSTMEDPEGRQCLGDYVTNRETRLFHVGRLDTETEGVI 243 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTN G LA L P + Y G + +D LK GI ++ + Q Sbjct: 244 LLTNHGELAHRLTHPRYGVKKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVEQ 303 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G N V V L EG+ ++++ + V+ L+R ++GP LG +G R +S + Sbjct: 304 TGKNYLVEVTLHEGRKHIVRRMLAEAGFPVDNLVRTAFGPITLGDQKSGWLRRLSNTEV 362 >gi|297543604|ref|YP_003675906.1| RNA-binding S4 domain-containing protein [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|296841379|gb|ADH59895.1| RNA-binding S4 domain protein [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 240 Score = 252 bits (643), Expect = 9e-65, Method: Composition-based stats. Identities = 77/229 (33%), Positives = 114/229 (49%), Gaps = 8/229 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRK 69 R+ K+++ GI +R+EV++ I + V VNG ++ A + V D I DG + Sbjct: 1 MAKMRIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIVDTEFDEILFDGEKINY 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTND 127 E + +KP G+++ DP TV D LP VGRLD +TEGLLL+TND Sbjct: 61 KE-FIYIMMNKPKGVISATYDP-IEKTVIDLLPQELKARNPFPVGRLDKDTEGLLLITND 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN- 186 G LA L P ++ Y G V++ + K+GIV++ Y + L+ S Sbjct: 119 GNLAHKLLSPKKNVIKKYYAEILGFVNERDIKAFKEGIVLEDG-YKTLPADLEILLSSEV 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 + V V +REGK +IK++FE KV L R++ G L L G R Sbjct: 178 SKVYVYIREGKYHQIKRMFESVGKKVVYLKRLAMGSLTLDENLKPGQWR 226 >gi|317486146|ref|ZP_07944990.1| S4 domain-containing protein [Bilophila wadsworthia 3_1_6] gi|316922595|gb|EFV43837.1| S4 domain-containing protein [Bilophila wadsworthia 3_1_6] Length = 262 Score = 252 bits (643), Expect = 9e-65, Method: Composition-based stats. Identities = 77/251 (30%), Positives = 132/251 (52%), Gaps = 21/251 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK-AER 72 R++K +A AG+ SRR + +IA RV VNG + + V TD +EVDG P++ A+ Sbjct: 6 RINKALADAGVCSRRRADELIAAGRVSVNGEPVASPGLQVTPGTDKLEVDGKPVQPIAQA 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGL 130 L +KP+ +V+T DP+GR+TV D +P+ + R+ GRLD +EGL+LLT+DG L Sbjct: 66 PCYLLLNKPVRVVSTAYDPEGRTTVLDLVPAKWKARRLYPAGRLDFFSEGLVLLTDDGEL 125 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN--- 186 + P RVY V G V L +++KG+ + +G +++ + + + Sbjct: 126 TNRVVHPRHHMPRVYHVLIRGGVSDRALEVMRKGMTLAEGEKLAPVEIRVLPGQVHDLSG 185 Query: 187 -------------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + + L +G NR+I+++ + + RL+R++ GP +LG + G Sbjct: 186 VSRNAGPPAGQRGTLLEMTLHQGLNRQIRRMCRDLHLTILRLVRVAQGPLRLGVMKPGEA 245 Query: 234 REVSKKILREQ 244 RE++ + Sbjct: 246 RELTPAEVAAL 256 >gi|91215957|ref|ZP_01252926.1| pseudouridine synthase, Rsu [Psychroflexus torquis ATCC 700755] gi|91185934|gb|EAS72308.1| pseudouridine synthase, Rsu [Psychroflexus torquis ATCC 700755] Length = 235 Score = 252 bits (643), Expect = 9e-65, Method: Composition-based stats. Identities = 61/236 (25%), Positives = 117/236 (49%), Gaps = 8/236 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N R++K +++AG SRRE ++++ Q RV +NG + V S D + VDG + K Sbjct: 2 NKESIRINKYLSQAGFCSRREADKLMEQGRVTINGEYI-EMGTKVNSGDKVYVDGKLVEK 60 Query: 70 A-ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E +KP G+V T + ++ + D + +R+ +GRLD +EGL+L+TNDG Sbjct: 61 ETEEKVYLAVYKPKGVVCTTNSKVEKNNIVDFV-DYPTRIFPIGRLDKMSEGLILMTNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y V + + D + ++KG+ I +V +K + Sbjct: 120 EIVNHILRARHFHDKEYLVTVNKTITDDFIEKMRKGVPILDTMSRRCEV----EKLGDRS 175 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+++ E +++V L R L + G+ R ++++ +++ Sbjct: 176 FKIVLTQGLNRQIRRMCEALDYRVRTLKRTRIKNITL-DVEKGNYRNLTEEEIKDL 230 >gi|170717435|ref|YP_001784534.1| pseudouridine synthase [Haemophilus somnus 2336] gi|168825564|gb|ACA30935.1| pseudouridine synthase [Haemophilus somnus 2336] Length = 348 Score = 252 bits (643), Expect = 9e-65, Method: Composition-based stats. Identities = 100/289 (34%), Positives = 154/289 (53%), Gaps = 10/289 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG 64 I Q+ +R+ KV+AR G SRR +E MI+ R+ ++G + V++ S I +DG Sbjct: 60 INQQKVEGERLQKVLARVGQGSRRTIEAMISANRISIDGKMATLGDRVDIHSGVKIRIDG 119 Query: 65 VPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + + E R+ LY+KP G + T DP+GR+TVFD LP SR I+VGRLDINT Sbjct: 120 HIVNLTQAQKEVCRVLLYYKPEGELCTRHDPEGRATVFDRLPRLNGSRWIAVGRLDINTS 179 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T DG LA L P + R Y VR G+VD + L+KG+ ++ + Sbjct: 180 GLLLFTTDGELANRLMHPRHEVEREYAVRVFGEVDDTMIARLRKGVQLEDGPANFTSIKA 239 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE--V 236 +G N W V L EG+NRE+++++E +V+RLIRI YG +L +L G E + Sbjct: 240 TGGQGMNQWFDVTLIEGRNREVRRLWESQGIQVSRLIRIRYGNIKLTKSLPRGGWEEMDL 299 Query: 237 SK-KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR 284 + LR+ +G +++++ P +R +E+ + + Sbjct: 300 TNINYLRKLVGLPPETDSKIDTKKPRRIKTGQIRKAVKRYTELNKRYKK 348 >gi|294141568|ref|YP_003557546.1| ribosomal large subunit pseudouridine synthase B [Shewanella violacea DSS12] gi|293328037|dbj|BAJ02768.1| ribosomal large subunit pseudouridine synthase B [Shewanella violacea DSS12] Length = 288 Score = 252 bits (643), Expect = 9e-65, Method: Composition-based stats. Identities = 94/295 (31%), Positives = 149/295 (50%), Gaps = 16/295 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E IA R+ ++G + + + I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRISIDGEIA-NLGDRIEADVKIRIDGRTVSIKSE 60 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+D Sbjct: 61 EDLICRVIAYHKPEGEICSRKDPEGRPTVFDRLPKTRDSRWVAVGRLDINTSGLLLFTSD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V+ + L+ G+ ++ +V +G N Sbjct: 121 GELANRLMHPSNEVEREYAVRTFGEVNDACIQRLRTGVTLEDGPASFDKVKAAGGEGMNK 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V L EG+NRE+++++E +V+RLIRI YG +L +L G E++ + + Sbjct: 181 WWHVTLAEGRNREVRRLWESQEVQVSRLIRIRYGKIELPKSLPRGGWVELTMEQV----- 235 Query: 247 PHLLEEAQVNLDA-PIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 +L + A +N + + ++ R + R + +K+ Sbjct: 236 NYLRKTAGLNEETRTVLGTDKHSVARSKVKG---SKIRRAVRKHKAVASKPGRKR 287 >gi|302387646|ref|YP_003823468.1| pseudouridine synthase [Clostridium saccharolyticum WM1] gi|302198274|gb|ADL05845.1| pseudouridine synthase [Clostridium saccharolyticum WM1] Length = 262 Score = 252 bits (643), Expect = 9e-65, Method: Composition-based stats. Identities = 66/238 (27%), Positives = 110/238 (46%), Gaps = 15/238 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--- 68 R++K ++ AGI SRRE +R I +V +NG V+ + ++G ++ Sbjct: 4 EGIRLNKFLSEAGICSRREADRFIEAGKVSINGKAAAT-GQKVLPGQSVTINGRTVQAGK 62 Query: 69 ----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 E HKP G+V T S D + D + R+ VGRLD ++EGL+L+ Sbjct: 63 GDQSHKEEPVFLAVHKPRGIVCTTSHKDRAPNIVDMV-DYPVRIYPVGRLDKDSEGLILM 121 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQ 182 TN G L + + Y V+ + V D + +KKG+ + + VT + Sbjct: 122 TNQGSLVNKMMRSGNAHEKEYLVKVNRPVTDDFIRTMKKGVFLPELNVTTKPCFVTKAGE 181 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 K + L +G NR+I+++ ++V L R+ +LG L G+ RE+SK+ Sbjct: 182 KA----FRIVLTQGLNRQIRRMCSQLGFEVRMLKRMRIMNIELGDLKPGAYRELSKRE 235 >gi|238899278|ref|YP_002924961.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] gi|229467039|gb|ACQ68813.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] Length = 288 Score = 252 bits (643), Expect = 9e-65, Method: Composition-based stats. Identities = 101/274 (36%), Positives = 143/274 (52%), Gaps = 17/274 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ K++AR+G SRRE+E I + V VNG + V+VM + I +DG L E Sbjct: 2 SEKLQKILARSGYGSRREIEEKIQRGLVSVNGKISTLGDRVSVMPSTQIRLDGRILPITE 61 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 R+ Y+K G + T DP GR TVFD LP SR I +GRLDINT GLLL T Sbjct: 62 PQKIPCRVLAYYKIEGEICTRKDPKGRPTVFDRLPKLHHSRWIGIGRLDINTSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y R GQV++ + L +GI ++ +VT +G N Sbjct: 122 DGELAHRLMHPSQEIEREYASRIFGQVNEPSIKQLTQGIQLEDGMAAFRRVTFGGGEGLN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV---SKKILR 242 W V L EG+NRE+++++E +V+RLIRI YG +L L G +E+ + LR Sbjct: 182 HWYNVILTEGRNREVRRLWEAIGVQVSRLIRIRYGDIKLPKGLPRGGWKEMDISTIHYLR 241 Query: 243 EQLGPH-------LLEEAQVNLDAPIYSSETLVR 269 E +G L+E+ + P + R Sbjct: 242 ELVGLKKDITNTLLIEKKEQRFFKPRQIRRAVKR 275 >gi|228475940|ref|ZP_04060649.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus hominis SK119] gi|228270011|gb|EEK11485.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus hominis SK119] Length = 228 Score = 252 bits (643), Expect = 9e-65, Method: Composition-based stats. Identities = 64/232 (27%), Positives = 104/232 (44%), Gaps = 9/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K ++ G+ +R EV++++ + VKVN + + V D I VDG + Sbjct: 1 MRLDKFLSNMGVGTRTEVKQLLKKNSVKVNDKVEKSPKSQVDPEQDEITVDGKIIEYI-N 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G V+ D D TV D + + VGRLD +TEGLLL+TNDG Sbjct: 60 HVYIMLNKPKGYVSATYD-DINQTVIDLIADYRHLDLFPVGRLDKDTEGLLLITNDGQFN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS + Y+V + + + K GI + Q+ S V Sbjct: 119 HNLMSPSKHVSKTYKVTSKYPIKNEDIIAFKNGIELSDGKVKPAQLEKLDHNVS----LV 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++F + +V L R+ L L +G R ++ + L+ Sbjct: 175 TIYEGKYHQVKRMFHSIDNEVLELKRLKISNLTLDENLKSGEYRLLTSEELK 226 >gi|119478215|ref|ZP_01618271.1| putative pseudouridine synthase [marine gamma proteobacterium HTCC2143] gi|119448724|gb|EAW29968.1| putative pseudouridine synthase [marine gamma proteobacterium HTCC2143] Length = 307 Score = 252 bits (643), Expect = 9e-65, Method: Composition-based stats. Identities = 73/300 (24%), Positives = 132/300 (44%), Gaps = 15/300 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 T R++K I+ +GI SRRE +R + + V +NG + V + D ++V+G + Sbjct: 5 TTTRLNKYISESGICSRREADRFVEKGSVFINGKRAK-VGDQVSAGDTVKVNGQIIDPRD 63 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ER L +KP+G+V T + + V + + R+ +GRLD +++GL+ LTN+G Sbjct: 64 EERLVLIALNKPVGVVCTTEGSEKNNIV--DYVNHGERIFPIGRLDKDSQGLIFLTNNGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + + Y V + + + KG+ I G ++ K + Sbjct: 122 LVNKILRAGNRHEKEYLVTVDKPITDTFIRDMAKGVPILGEVTRKCKIV----KETPTLF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ + F + + RL R+ + L G R+ S+ L L Sbjct: 178 RITLVQGLNRQIRRMCDHFGYDIVRLERVRIMNVSMKGLGVGEWRDFSQNELAGIL--ES 235 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS----QKNGLSKQKKLATPV 305 ++Q DRP + ++ KK+ S KNG + K + P Sbjct: 236 TADSQSAAAPSKKRKPAKTGDRPWYPEKPKSAYSSRKKSPSGTPKAKNGGASGDKPSRPP 295 >gi|332359298|gb|EGJ37119.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK49] Length = 242 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 71/237 (29%), Positives = 116/237 (48%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + D I V G L E+ Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDERADEIVVSGQRLTY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATED-DRHQTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A + P ++YR + G ++Q + GI ++ Q+ + ++ ++ Sbjct: 119 AHAMLSPKKHVEKIYRAQVAGLMEQADVERFAAGIELKDFTCQPAQLKILELDEEKESSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 V + L EGK ++K++ +V L R++ GP QL TL G R ++ L Sbjct: 179 VEITLAEGKFHQVKRMVAACRKEVTDLQRLTMGPLQLDPTLALGEWRRLTTDELERL 235 >gi|312127717|ref|YP_003992591.1| pseudouridine synthase [Caldicellulosiruptor hydrothermalis 108] gi|311777736|gb|ADQ07222.1| pseudouridine synthase [Caldicellulosiruptor hydrothermalis 108] Length = 233 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 65/232 (28%), Positives = 113/232 (48%), Gaps = 11/232 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K + G SR +V+++I V VNG + + D +EVDG ++ + R Sbjct: 1 MRLDKFLTHCGFGSRSQVKKLIRGGIVTVNGKRIVEVDFKINPEEDVVEVDGRIVKFSRR 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G V ++ DP TVF + + + +VGRLD + EGLL++T+DG Sbjct: 61 I-YIMMNKPKGYVCSNDDP-ASLTVFSLISDNLKYRDLHTVGRLDKDAEGLLIITDDGEY 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 + P + + Y VR +VD+++L + GI++ G + T+ + V Sbjct: 119 THRVISPRKRIEKEYLVRLEKEVDEERLKEFENGIILDDGYKTLPAKYTI----IDSTTV 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + + EGK ++K++FE KV L R+ G L +L G R + ++ Sbjct: 175 KLCIYEGKYHQVKRMFEAIGNKVVDLKRLRIGGLNLDESLKPGEYRVMKEEE 226 >gi|300771415|ref|ZP_07081291.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Sphingobacterium spiritivorum ATCC 33861] gi|300762085|gb|EFK58905.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Sphingobacterium spiritivorum ATCC 33861] Length = 441 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 74/246 (30%), Positives = 119/246 (48%), Gaps = 4/246 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 +K ++ R+++ I+ AGI SRR+ + +I + VNG ++ V D Sbjct: 194 VKQATSDYDDNGMIRLNRYISNAGICSRRKADELITAGVISVNGEVVTELGSKVDPAKDE 253 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINT 118 I+ +G L++ E+ L +KP +TT DP R TV + + R+ VGRLD NT Sbjct: 254 IKYNGERLKR-EKMVYVLLNKPKDYITTTDDPQERRTVMQLVANATKERIYPVGRLDRNT 312 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLLLTNDG LA L P ++Y V ++Q N + G+ ++ ++ Sbjct: 313 TGLLLLTNDGNLAEKLSHPRNNISKIYNVELDKSLNQGDFNKIVFGLELEDGFVKPDDLS 372 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 Q GS V + + GKNR ++++FE + V +L R+ Y L G R + + Sbjct: 373 Y-VQGGSKREVGIQIHSGKNRIVRRIFESLGYDVVKLDRVVYANLTKKDLPRGRWRYLEE 431 Query: 239 KILREQ 244 K L + Sbjct: 432 KELIQL 437 >gi|189461543|ref|ZP_03010328.1| hypothetical protein BACCOP_02202 [Bacteroides coprocola DSM 17136] gi|189431749|gb|EDV00734.1| hypothetical protein BACCOP_02202 [Bacteroides coprocola DSM 17136] Length = 253 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 76/242 (31%), Positives = 121/242 (50%), Gaps = 3/242 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K+++ + P R++K +A AGI SRRE + I V VNG+++ V TD I Sbjct: 5 IEYKDVLTDPDEPIRLNKFLANAGICSRREADEFITAGVVSVNGVVVTELGTKVKRTDEI 64 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 + P+ ER L +KP VTT DP R TV D + R+ VGRLD NT Sbjct: 65 KFHDQPVN-IERKVYVLLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTT 123 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLLTNDG LA L P ++Y V V + L+ + GI + V+ Sbjct: 124 GVLLLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIVSGITLDDGEIHADAVSY 183 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ + V + + GKNR ++++FE ++V +L R+ + L G R ++++ Sbjct: 184 ASET-DKSQVGIEIHSGKNRIVRRIFEALGYRVIKLDRVYFAGLTKKGLRRGDWRYLTEQ 242 Query: 240 IL 241 + Sbjct: 243 EV 244 >gi|91793788|ref|YP_563439.1| pseudouridine synthase, Rsu [Shewanella denitrificans OS217] gi|91715790|gb|ABE55716.1| ribosomal large subunit pseudouridine synthase B [Shewanella denitrificans OS217] Length = 290 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 98/290 (33%), Positives = 149/290 (51%), Gaps = 10/290 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--LRKA 70 +++ KV+ARAG SRRE+E IA RV V+G + V I +DG ++ A Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSVDGEIAT-LGDRVEVDAKIRIDGRTTSIKTA 60 Query: 71 ERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 + R+ YHKP G + + DP+GR TVF+ LP SR ++VGRLDINT GLLL T+D Sbjct: 61 DDMICRVLAYHKPEGEICSRKDPEGRPTVFERLPKIRDSRWVAVGRLDINTSGLLLFTSD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR GQV + L+ G++++ + +G N+ Sbjct: 121 GDLANRLMHPSNEVEREYAVRTFGQVTDANVQSLRTGVMLEDGPAQFDTIKPAGGEGINS 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILRE 243 W V L+EG+NRE+++++E +V+RLIR+ YG +L TL G E+ LR+ Sbjct: 181 WWHVTLKEGRNREVRRLWESQEIQVSRLIRVRYGMVELPKTLPRGGWIELPLDQVNYLRQ 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 G + + D + + + + + K S Q++ Sbjct: 241 LAGLEAETRSMLGSDKHSVARSKVKSSKIRRAVQKHKVISSRAKPSRQRD 290 >gi|225021516|ref|ZP_03710708.1| hypothetical protein CORMATOL_01537 [Corynebacterium matruchotii ATCC 33806] gi|224945898|gb|EEG27107.1| hypothetical protein CORMATOL_01537 [Corynebacterium matruchotii ATCC 33806] Length = 241 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 77/235 (32%), Positives = 117/235 (49%), Gaps = 4/235 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ KV+A+AG+ASRR E MI RV+VNG ++ + V V D I VDGV + Sbjct: 1 MRLQKVLAQAGVASRRNAEIMIDSGRVEVNGAVVMQQGVRVNPEVDVIRVDGVRVNVNNN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGG 129 + ++ +KP G+ +T SD GR + D + S + VGRLD +TEGL+LLTNDG Sbjct: 61 HQYFVLNKPRGIHSTMSDDLGRPCIGDLVSERISAGQGLFHVGRLDADTEGLILLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P + + Y G+ D+ + LK G+ + V + + V Sbjct: 121 LANRLSHPKYEVSKTYIAEVLGEADRSLVTTLKNGVELDDGPAAADYVQIVDVHQGRSLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V L EG+ ++++ + + V L+R QLG G+ R ++ LR Sbjct: 181 RVQLHEGRKHIVRRMLKAAGYPVQYLVRTKLHTVQLGEQKPGTIRALNDNELRSL 235 >gi|127513174|ref|YP_001094371.1| pseudouridine synthase [Shewanella loihica PV-4] gi|126638469|gb|ABO24112.1| ribosomal large subunit pseudouridine synthase B [Shewanella loihica PV-4] Length = 293 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 99/290 (34%), Positives = 147/290 (50%), Gaps = 12/290 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E IA RV ++G + + + + + +DG + Sbjct: 7 SEKLQKVLARAGHGSRREMEAWIAAGRVSIDGEIAK-LGDRIEADAKVRIDGRTVSIKSE 65 Query: 73 ----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+D Sbjct: 66 DDLVCRVIAYHKPEGEICSRKDPEGRPTVFDRLPKTRDSRWVAVGRLDINTSGLLLFTSD 125 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V + L+ G+ ++ ++ +G N Sbjct: 126 GELANRLMHPSHEVEREYAVRTFGEVTDACIQRLRSGVTLEDGPAHFDKIKPAGGEGMNK 185 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILRE 243 W V L EG+NRE+++++E +V+RLIRI YG L +L G E+ + LR+ Sbjct: 186 WWHVSLAEGRNREVRRLWESQEVQVSRLIRIRYGMIDLPKSLPRGGWVELPIEQVNYLRK 245 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 G + EE + L +S I V T K Q++ Sbjct: 246 LAG--MDEETRTLLGTDKHSVARAKVKSAKIRRAVRKHKTTAGKTPRQRS 293 >gi|325695507|gb|EGD37407.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK150] Length = 242 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 71/237 (29%), Positives = 114/237 (48%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ ++ V VNG + + T D I V G L E+ Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKELVLVNGRAEKSPKTQIDETADEIIVSGQRLTY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATED-DRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAW 188 A + P ++YR + G ++Q GI ++ Q+ + + + Sbjct: 119 AHAMLSPKKHVEKIYRAQVAGLMNQADEERFAAGIELKDFTCQPAQLKILELDAAKETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 V + L EGK ++K++ +V L R++ GP QL L G R ++ L Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDFALALGEWRRLTTDELERL 235 >gi|296877269|ref|ZP_06901309.1| ribosomal small subunit pseudouridine synthase A [Streptococcus parasanguinis ATCC 15912] gi|296431789|gb|EFH17596.1| ribosomal small subunit pseudouridine synthase A [Streptococcus parasanguinis ATCC 15912] Length = 242 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 68/234 (29%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ SR EV++++ Q+++ VNG + + D + G L E Sbjct: 1 MRLDKFLVDCGVGSRTEVKQLLKQKKIAVNGKKETAGKLQIDPGKDRVTFMGEDLVH-ET 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPAGVISATED-DHHQTVLDLLDETARHKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AW 188 A + P ++YR + G +D+ + + GI ++ ++ + +N ++ Sbjct: 119 AHAMLSPKKHVSKIYRAQVAGIMDEADVARFEAGIALKDFTTLPARLQILEVNEANASSY 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + + EGK ++K++ +V L RIS GP L +L G R + L Sbjct: 179 VEIEIAEGKFHQVKRMVAACGKEVADLERISMGPLTLDPSLKLGEWRRLQPSEL 232 >gi|212634749|ref|YP_002311274.1| pseudouridine synthase Rsu [Shewanella piezotolerans WP3] gi|212556233|gb|ACJ28687.1| Pseudouridine synthase, Rsu [Shewanella piezotolerans WP3] Length = 290 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 98/293 (33%), Positives = 145/293 (49%), Gaps = 11/293 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E IA R+ V+G + V S + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRISVDGEIA-SLGDRVESDVKVRIDGRAISIKSE 60 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+D Sbjct: 61 EDVVCRVIAYHKPEGEICSRKDPEGRPTVFDRLPKTRDSRWVAVGRLDINTSGLLLFTSD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V+ + L+ G+ ++ +V +G N Sbjct: 121 GELANRLMHPSNEVEREYAVRTFGEVNDACIQRLRMGVTLEDGPASFDKVKAAGGEGMNK 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V L EG+NRE+++++E +V+RLIRI YG +L +L G E+ EQ+ Sbjct: 181 WWHVSLAEGRNREVRRLWESQEVQVSRLIRIRYGMIELPKSLPRGGWIELP----IEQVN 236 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 I ++ R + R K ++ N S+ + Sbjct: 237 YLRQTAGMDEETRSILGTDKHSVARAKVRGAKIRRAVRKHKATATPNKPSRSR 289 >gi|27366329|ref|NP_761857.1| ribosomal large subunit pseudouridine synthase B [Vibrio vulnificus CMCP6] gi|34098527|sp|Q8D8C0|RLUB_VIBVU RecName: Full=Ribosomal large subunit pseudouridine synthase B; AltName: Full=rRNA pseudouridylate synthase B; AltName: Full=rRNA-uridine isomerase B gi|27362530|gb|AAO11384.1| Ribosomal large subunit pseudouridine synthase B [Vibrio vulnificus CMCP6] Length = 320 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 106/301 (35%), Positives = 146/301 (48%), Gaps = 15/301 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ KV+ARAG SRRE+E +I RV VNGI+ + + +DG + + Sbjct: 3 EKLQKVLARAGHGSRRELEALIKSGRVSVNGIVAKLGERLEDEQAVVRIDGHVVSVKAQE 62 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V++ K+ L G+ + V +G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVNEHKVRNLVNGVELDDGLARFEDVVYTGGEGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LREQ 244 V + EG+NRE+++++E + V+RL R+ YG L L G E+ K LRE Sbjct: 183 FYVVINEGRNREVRRLWESQDCTVSRLKRVRYGDIYLDKKLPRGGWMELELKDVNYLREL 242 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 + +E + L+ SS R R I R ++ S G S P Sbjct: 243 VELRPEKETMIELN---NSSRKRDRARSQKIRR---AVKRHEERVSTPKGRSNNAARRKP 296 Query: 305 V 305 Sbjct: 297 S 297 >gi|28209926|ref|NP_780870.1| tRNA pseudouridine synthase A [Clostridium tetani E88] gi|28202361|gb|AAO34807.1| tRNA pseudouridine synthase A [Clostridium tetani E88] Length = 235 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 67/231 (29%), Positives = 116/231 (50%), Gaps = 5/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++ I+ GI SRRE + +I Q++VKVNG + V S D IEV+G L+K + Sbjct: 1 MRLNNFISSTGICSRREADELIKQKKVKVNGEIA-PLGYIVNSKDKIEVNGKLLQKKKND 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T ++ + + D + + R+ +GRLD ++EGL+LLTNDG + Sbjct: 60 IYIALNKPVGITCT-TERHIKGNIIDFI-NHTERIFPIGRLDKDSEGLILLTNDGSIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGSNAWVTV 191 + + Y V + + +N + KG+ I +T K ++ + Sbjct: 118 ILREENNHEKDYIVTVNKPITPAFINGMSKGVKIYNPVKNQYTITNKCKVVKINSNTFKI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F++KV +L RI L L G R ++ + +R Sbjct: 178 TLSQGLNRQIRRMCSSFSYKVVKLKRIRIINITLKGLNVGKWRNLTDEEVR 228 >gi|331006652|ref|ZP_08329935.1| ribosomal large subunit pseudouridine synthase F [gamma proteobacterium IMCC1989] gi|330419541|gb|EGG93924.1| ribosomal large subunit pseudouridine synthase F [gamma proteobacterium IMCC1989] Length = 289 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 62/285 (21%), Positives = 109/285 (38%), Gaps = 17/285 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 R++K I+ +G SRRE +++I V VNG D + V+G ++ Sbjct: 3 DGIRLNKFISDSGYCSRREADKLIEDDLVLVNGQPPT-LGTRCHPGDVVYVEGKRIKSRA 61 Query: 70 ----AERTRLWLYHKPIGLVTTHS-DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 Y+KP + T D G + R+ +GRLD +EGL+LL Sbjct: 62 NAGSQADREYIAYNKPTHITCTTEADVVGN---IISAVGYKKRIFPIGRLDKMSEGLILL 118 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T+DG + + + Y V + + + G+ I G ++ + + Sbjct: 119 TSDGDIVNKILRAENAHDKEYLVTVDKPITDKFIEKMGNGVPILGTKTLPCKINMQGE-- 176 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L EG NR+I+++ E+F ++V +L R+ LG L G R+++ L + Sbjct: 177 --FMFKIILTEGLNRQIRRMCEYFGYEVTKLKRVRIMNITLGNLKPGEWRKLTANQLTDI 234 Query: 245 LG--PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 H +A I + I R + Sbjct: 235 NNAIEHSSGDAAPKGAKLIRRKPKKPSQQERAIKSKTPKVVRTPR 279 >gi|124004166|ref|ZP_01689012.1| ribosomal large subunit pseudouridine synthase B [Microscilla marina ATCC 23134] gi|123990236|gb|EAY29735.1| ribosomal large subunit pseudouridine synthase B [Microscilla marina ATCC 23134] Length = 391 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 69/241 (28%), Positives = 122/241 (50%), Gaps = 4/241 (1%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K++ R+++ I+ +G+ SRRE +++I + VNG ++ V TD ++ Sbjct: 147 KERTQRHNEPEKMRLNRFISNSGVCSRREADKLIEMGMISVNGKVITEMGFQVSPTDTVK 206 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEG 120 G L K E+ L +KP +TT +DP R TV D + + R+ VGRLD NT G Sbjct: 207 Y-GKRLLKREKFVYVLLNKPKDFITTTNDPQDRKTVMDLIKNSCDERIYPVGRLDRNTTG 265 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL TNDG +A+ L PS +VY+V + + L+ + +G++++ ++ + Sbjct: 266 LLLFTNDGEVAKKLSHPSHDVKKVYQVELDKPLKDEDLDSIAEGVILEDGYAAVDEIAIL 325 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 V V + G+NR ++++F +++V +L R Y + G R +S+K Sbjct: 326 --NPERTLVGVEIHIGRNRIVRRIFNHLDYEVVKLDRTMYAGLNKKNIDRGDWRYLSEKE 383 Query: 241 L 241 + Sbjct: 384 V 384 >gi|86358998|ref|YP_470890.1| pseudouridylate synthase, ribosomal large subunit protein [Rhizobium etli CFN 42] gi|86283100|gb|ABC92163.1| probable pseudouridylate synthase, ribosomal large subunit protein [Rhizobium etli CFN 42] Length = 312 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 82/241 (34%), Positives = 129/241 (53%), Gaps = 3/241 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTR 74 + + +++ G SR + ER+IA+ RV V+G + A+ V ST I VDG+ + AE Sbjct: 72 LPRALSKLGYCSRTQAERLIAESRVAVDGRTVSDASAWVDLSTARISVDGLVI-AAEAKI 130 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP GLVTT DP+GR TV+D L + + VGRLD +EGLLL TND A+ Sbjct: 131 YLMLNKPRGLVTTRQDPEGRPTVYDCLKNFDIPHLSPVGRLDKASEGLLLFTNDTEFAQT 190 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P T + Y V+ +D +++ + GI G Q N+W+ V L Sbjct: 191 LLDPLTHVTKTYHVQIDRLMDDEEIAAMTSGIRHDGELLTAAATRRLRQGDRNSWIEVEL 250 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 EG+NR+I+++ E + RL+R++ G +LG L G+ R +++ L+ +E A Sbjct: 251 DEGRNRQIRRMLEALGAECLRLVRVAIGGLELGELPKGAVRALTEGELQGLRRRAGMERA 310 Query: 254 Q 254 + Sbjct: 311 R 311 >gi|312892173|ref|ZP_07751670.1| RNA-binding S4 domain protein [Mucilaginibacter paludis DSM 18603] gi|311295303|gb|EFQ72475.1| RNA-binding S4 domain protein [Mucilaginibacter paludis DSM 18603] Length = 517 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 75/252 (29%), Positives = 120/252 (47%), Gaps = 6/252 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHI 60 + K+ + R+++ I+ AGI SRR+ + +I V VNG ++ V D I Sbjct: 270 RKKSTTDADKGKIRLNRYISNAGICSRRKADELIVAGVVSVNGQVISELGFKVDPYKDEI 329 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 +G L++ E+ L +KP +TT DP R TV + R+ +GRLD NT Sbjct: 330 RYNGETLKR-EKMVYVLLNKPKDYITTTEDPQERRTVMHLVDKASKERIYPIGRLDRNTT 388 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL+TNDG LA L P + ++Y V + Q LN + GI ++ V+ Sbjct: 389 GLLLMTNDGDLADKLSHPKSNISKLYHVELDKSLSQGDLNKIAYGIELEDGLIKPDSVSY 448 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 Q S V + + GKNR ++++FE + V +L R Y L G R + ++ Sbjct: 449 -VQGASKREVGIQIHSGKNRVVRRIFESLGYDVVKLDRAIYAGLTKKDLPRGRWRYLEEQ 507 Query: 240 ILREQLGPHLLE 251 + + HL++ Sbjct: 508 EVIQL--KHLIK 517 >gi|269119789|ref|YP_003307966.1| RNA-binding S4 domain protein [Sebaldella termitidis ATCC 33386] gi|268613667|gb|ACZ08035.1| RNA-binding S4 domain protein [Sebaldella termitidis ATCC 33386] Length = 228 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 68/229 (29%), Positives = 121/229 (52%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA +G SRR+ + +I+Q RV +N + + V D + +DG ++ Sbjct: 1 MRLNKYIAESGFCSRRKADELISQNRVTINKDTAK-LGMEVRDGDIVRIDGEKIKVDTDY 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP ++ T+SD R D + S R+ + GRLD TEG++L++NDG Sbjct: 60 EYYLLYKPKKVICTNSDNFARRLAVDFIRSK-KRLFTYGRLDYMTEGIILVSNDGDTYNK 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y + ++ L L+KGI+I G ++ K +A V V + Sbjct: 119 VMHPRKKLFKTYIAKLDKPIEDKDLARLEKGILIDGQKTAPAKIK----KTDDAEVKVSI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+NR+I+K+FE ++ V L R++ G F++G L G R++++ + Sbjct: 175 FEGRNRQIRKMFENLHYNVKELKRVTIGEFKIGNLKPGEYRKLTEDEIE 223 >gi|329725501|gb|EGG61981.1| pseudouridylate synthase [Staphylococcus epidermidis VCU144] Length = 230 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 61/228 (26%), Positives = 106/228 (46%), Gaps = 9/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + VKVN +++ ++V D I V+ + ++ Sbjct: 1 MRLDKFLANMGVGTRSEVKQLLKKGSVKVNQNIVKLPKLHVNPNSDEIMVNDEVVSYIDK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G ++ D T+ D LP + VGRLD +TEGLLL+TNDG Sbjct: 61 -VYIMLNKPKGYISATEDELH-PTIIDLLPEYAHLNIFPVGRLDKDTEGLLLVTNDGQFN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P+ + Y V + Q ++ K GI + +K + V Sbjct: 119 HEVMNPNKHVSKTYEVYSKHPITQFDIDKFKSGIELSDGKLKPA----ILKKVDDYVSHV 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + EGK ++K++F +V L RI +L L GS R +++ Sbjct: 175 TIYEGKYHQVKRMFHSIENEVLELKRIKIAQLELDHNLDLGSYRLLTQ 222 >gi|115380386|ref|ZP_01467383.1| ribosomal large subunit pseudouridine synthase B [Stigmatella aurantiaca DW4/3-1] gi|310821617|ref|YP_003953975.1| pseudouridine synthase [Stigmatella aurantiaca DW4/3-1] gi|115362608|gb|EAU61846.1| ribosomal large subunit pseudouridine synthase B [Stigmatella aurantiaca DW4/3-1] gi|309394689|gb|ADO72148.1| Pseudouridine synthase [Stigmatella aurantiaca DW4/3-1] Length = 648 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 91/346 (26%), Positives = 138/346 (39%), Gaps = 13/346 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K +ARAG+ASRR E +I RV VN + V TD + VDG + E Sbjct: 3 ERLQKYLARAGVASRRHAEELITAGRVMVNNQKVTELGSRVEPGTDLVSVDGELVSLPET 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +L +KP G+VTT SDP GR TV + + R+ VGRLD + EG LL T+DG LA Sbjct: 63 SSYYLLYKPAGVVTTLSDPQGRPTVASYVEATGKRLFPVGRLDYDAEGALLFTDDGTLAH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS Q R Y + G D+ L L+ G+ ++ + V L Q N W+ + Sbjct: 123 KLTHPSFQVPRTYLAKVKGSPDRATLEKLRGGVRLEDGMATPLSVDLFEQAERNTWLKIV 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR--EQLGPHLL 250 + EG+ IK++ V RL R +Y + + G R ++ +R + + Sbjct: 183 VAEGRPHLIKRLCAAVGHPVVRLFRPAYAGVGVSGVRPGELRPLTSTEVRLLQDVAEART 242 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT---RMKKNSSQKNGLSKQKKLATPVHR 307 + L+ P + S+ +K + Sbjct: 243 APPEGELNLPPRRHGRAAPGFEEDEDGEGFEVEGAAAAPAKPSRSPAAAKTGRARPAAAG 302 Query: 308 RNLASNVWMAKG-------IHSSFLSDSGQREENHRRSPSFPSKRS 346 R + S + EE R K+S Sbjct: 303 RPERKPAGKSPRTEGGTGLARFGRTSSAAVSEEGSERPRRSEWKKS 348 >gi|149907885|ref|ZP_01896553.1| ribosomal large subunit pseudouridine synthase B [Moritella sp. PE36] gi|149808891|gb|EDM68822.1| ribosomal large subunit pseudouridine synthase B [Moritella sp. PE36] Length = 335 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 105/334 (31%), Positives = 161/334 (48%), Gaps = 20/334 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG+ SRRE+E +IA+ RV VNG ++ V D I +DG P+ + Sbjct: 2 SEKLQKVLARAGLGSRREMEAVIAEGRVSVNGEMVT-LGTRVEEVDRIRLDGNPVSVVKE 60 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 R+ YHKP G + T DP+GR TVFD LP + S R I++GRLDINT GLLL T D Sbjct: 61 EDAVCRILAYHKPEGELCTRKDPEGRKTVFDRLPPLKSGRWIAIGRLDINTSGLLLFTTD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----K 183 G LA L PS + R Y R G+V + L+ G+ ++ ++ + + Sbjct: 121 GELANRLMHPSHEVEREYSCRIFGEVTPKIIQNLRMGVELEDGPAKFQKIKGVAEGTGGE 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 G N W V L EG+NRE+++++E +V+RLIRI YG L L G E++ + + Sbjct: 181 GLNQWYNVLLSEGRNREVRRLWESQGIQVSRLIRIRYGSLVLDRRLPRGGWSELALEEIN 240 Query: 243 EQ-----LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK---NSSQKNG 294 L P + + I + N + P R+ K +++ G Sbjct: 241 YLRTLVSLPPETTARSLERKETRIRQGRIRRSLKNNDARQKPTRSGRLGKEIEETTESRG 300 Query: 295 LSKQKKLATPVH-RRNLASNVWMAKGIHSSFLSD 327 S+ K + + R +G + + Sbjct: 301 KSRTKPTGSGIPLHRGKKGPAKQQRGPKAKKRTR 334 >gi|220929584|ref|YP_002506493.1| pseudouridine synthase [Clostridium cellulolyticum H10] gi|219999912|gb|ACL76513.1| pseudouridine synthase [Clostridium cellulolyticum H10] Length = 245 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 67/236 (28%), Positives = 122/236 (51%), Gaps = 8/236 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 QR+ KV++ G SR ++ + + V V+G +++ + ++V IE+DG L Sbjct: 3 QKQRLDKVLSNFGFGSRNYIKGAVKKGLVTVDGRIIKDSGIHVDPEVSIIEIDGERLNYR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDG 128 + + +KP G+++ SD + TVFD LP + + GRLDI+TEGL+L+TNDG Sbjct: 63 -KYIYIMLNKPQGVISATSDRK-QKTVFDILPEEYKCFDLFPAGRLDIDTEGLVLMTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-A 187 L+ + P + Y + G+V+Q+ +G+ + Y + L+ K + + Sbjct: 121 QLSHEILSPKKHVPKQYYAKVMGRVNQEDAEAFSRGVTLDDG-YQTLPAVLEILKSDDLS 179 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + + EGK ++K++FE KV L R+S G +L +L G +E+ + + Sbjct: 180 EIKLTIVEGKFHQVKRMFEAVGKKVIYLKRLSMGNLRLDESLQLGECKELGESDIE 235 >gi|218551308|ref|YP_002385100.1| 23S rRNA pseudouridine synthase F [Escherichia fergusonii ATCC 35469] gi|218358850|emb|CAQ91507.1| 23S rRNA pseudouridine synthase [Escherichia fergusonii ATCC 35469] gi|325499580|gb|EGC97439.1| 23S rRNA pseudouridine synthase F [Escherichia fergusonii ECD227] Length = 290 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 69/293 (23%), Positives = 126/293 (43%), Gaps = 9/293 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 3 PDSSIRLNKYISESGICSRREADRFIEQGNVFINGKRAT-IGDQVKPGDVVKVNGRLIEP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 AE L +KP+G+V+T D + R + D + + RV +GRLD +++GL+ LTN Sbjct: 62 REAEDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 176 VFRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKL 235 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++V A ++ + + + R N + ++KK Sbjct: 236 IENSTSEVKPKAKAKPKTAGIKRPVVKMEKTSEKGGRPASNGKRFTSPGRKKK 288 >gi|153001233|ref|YP_001366914.1| pseudouridine synthase [Shewanella baltica OS185] gi|160875907|ref|YP_001555223.1| RNA-binding S4 domain-containing protein [Shewanella baltica OS195] gi|304411914|ref|ZP_07393525.1| RNA-binding S4 domain protein [Shewanella baltica OS183] gi|307303318|ref|ZP_07583073.1| RNA-binding S4 domain protein [Shewanella baltica BA175] gi|151365851|gb|ABS08851.1| pseudouridine synthase [Shewanella baltica OS185] gi|160861429|gb|ABX49963.1| RNA-binding S4 domain protein [Shewanella baltica OS195] gi|304349774|gb|EFM14181.1| RNA-binding S4 domain protein [Shewanella baltica OS183] gi|306913678|gb|EFN44100.1| RNA-binding S4 domain protein [Shewanella baltica BA175] gi|315268098|gb|ADT94951.1| RNA-binding S4 domain protein [Shewanella baltica OS678] Length = 291 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 101/296 (34%), Positives = 151/296 (51%), Gaps = 16/296 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E IA RV ++G + + + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSIDGEIA-SLGDRIEADAKVRIDGRSISLKSA 60 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+D Sbjct: 61 EDVICRVLAYHKPEGEICSRKDPEGRPTVFDRLPKVRDSRWVAVGRLDINTSGLLLFTSD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G++ + + L+ G++++ + +G N Sbjct: 121 GELANRLMHPSNEVDREYAVRTFGEIPEATVQRLRTGVMLEDGPAQFDSIKPAGGEGMNQ 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILRE 243 W V LREG+NRE+++++E +V+RLIRI YG +L +L G E+ + LR+ Sbjct: 181 WWHVCLREGRNREVRRLWESQEVQVSRLIRIRYGMVELPKSLPRGGWVELPMEQVNYLRK 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 G L E + L A +S I + K S K S+Q+ Sbjct: 241 LAG--LEPETRTMLAADKHSVARAQVKSAKIRR----AVRKHKVTGSGKPKPSRQR 290 >gi|194335646|ref|YP_002017440.1| pseudouridine synthase [Pelodictyon phaeoclathratiforme BU-1] gi|194308123|gb|ACF42823.1| pseudouridine synthase [Pelodictyon phaeoclathratiforme BU-1] Length = 247 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 78/248 (31%), Positives = 123/248 (49%), Gaps = 12/248 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 MK N E R+++ +A GIASRR ++++ RV VNG ++ + V T D Sbjct: 1 MKKSNKDDE----VRINRYLASCGIASRRAADQLVLDGRVMVNGTVITTPGIKVSPTRDE 56 Query: 60 IEVDGVPLRKAE-RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + VDG + E R L++KP ++TT+SD R V D + + RV VGRLD T Sbjct: 57 VIVDGEKFAQPEHRKVYILFNKPRNVITTNSDEKNREMVLDFI-DVEERVFPVGRLDRKT 115 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQ 176 G++LLTNDG LA L PS+ + Y + + L L G+ ++ G + Sbjct: 116 TGVILLTNDGTLAHKLMHPSSNVKKEYIAELSEKFTPNLLPQLTGGMRLKDTGEKVSPCR 175 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + V V + EGKN +++++FE ++V RL R++Y G L G R + Sbjct: 176 AKIL---EDGMQVLVSIHEGKNHQVRRMFETLGFEVKRLERVAYAGLLAGELRRGEWRYL 232 Query: 237 SKKILREQ 244 S+ ++ Sbjct: 233 SRNEVQAL 240 >gi|332752067|gb|EGJ82460.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri 4343-70] Length = 290 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 68/293 (23%), Positives = 124/293 (42%), Gaps = 9/293 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 3 PDSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDIVKVNGQLIEP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 AE L +KP+G+V+T D + R + D + + RV +GRLD +++GL+ LTN Sbjct: 62 REAEDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E F ++V +L R L + G R ++ L + Sbjct: 176 VFRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRYLTDDELIDLFKL 235 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ A ++ + + + R N + ++KK Sbjct: 236 IENSSSEAKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKK 288 >gi|261253231|ref|ZP_05945804.1| ribosomal large subunit pseudouridine synthase B [Vibrio orientalis CIP 102891] gi|260936622|gb|EEX92611.1| ribosomal large subunit pseudouridine synthase B [Vibrio orientalis CIP 102891] Length = 312 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 103/300 (34%), Positives = 146/300 (48%), Gaps = 13/300 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ KV+ARAG SRRE+E +I RV VNG++ + + +DG + + Sbjct: 3 EKLQKVLARAGHGSRRELEALIKAGRVSVNGVVAKLGERLEDENAIVRIDGHTVSAKAQE 62 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVVCRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V + K+ L +G+ ++ V G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVTEQKVKNLVRGVELEDGMARFEDVVYAGGDGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LREQ 244 V + EG+NRE+++++E + V+RL R+ YG L L G E+ K LRE Sbjct: 183 FYVAINEGRNREVRRLWESQDTTVSRLKRVRYGDIYLDKKLPRGGWMELDLKEVNYLREL 242 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 + +E ++ + +S R R I R ++ S G S P Sbjct: 243 VELRPEKETLLDENK-ANTSRKRERSRSQKIRR---AVKRHEERVSSGGGRSNNPSRRKP 298 >gi|289550491|ref|YP_003471395.1| Ribosomal small subunit pseudouridine synthase A [Staphylococcus lugdunensis HKU09-01] gi|289180023|gb|ADC87268.1| Ribosomal small subunit pseudouridine synthase A [Staphylococcus lugdunensis HKU09-01] Length = 230 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 112/234 (47%), Gaps = 9/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G +R EV++ + + V VNG + + A + D +++ G + E Sbjct: 2 MRLDKFLAHMGQGTRTEVKQSLKKGNVTVNGKVEKSAKTQIDPHHDVVQIHGHQIDYVE- 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLA 131 T + +KP G ++ DP ++TV D + + + VGRLD +TEGLLL+TNDG + Sbjct: 61 TVYLMLNKPKGYISATEDPK-QATVIDLIKDYKYLDLFPVGRLDKDTEGLLLITNDGQFS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V V +D + K+G+++ ++T+ S V Sbjct: 120 HNLMNPNKHVAKTYLVTSKYPVTKDNQYMFKQGVMLSDGLTKPAELTIIDDYHS----KV 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + EG+ +IK++F +V L RI +L L G R +++ + + Sbjct: 176 TIYEGRYHQIKRMFHSIENEVLELKRIQIANLRLDEELDEGQYRVLTQTDIEQL 229 >gi|260885631|ref|ZP_05897074.1| ribosomal large subunit pseudouridine synthase B [Prevotella tannerae ATCC 51259] gi|260851764|gb|EEX71633.1| ribosomal large subunit pseudouridine synthase B [Prevotella tannerae ATCC 51259] Length = 230 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 66/223 (29%), Positives = 105/223 (47%), Gaps = 3/223 (1%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 +A AGI SRR+ ++ I + VNG ++ V+ +D I P+R E+ L + Sbjct: 1 MANAGICSRRDADKYIQAGVITVNGKVVTELGTKVLRSDDILFHESPVRL-EKKVYVLLN 59 Query: 80 KPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS 138 KP G +TT DP R TV + + R+ VGRLD NT G+LLLTNDG LA L P Sbjct: 60 KPKGCITTSEDPQERKTVMNLVKGACQERIYPVGRLDRNTTGVLLLTNDGELAAKLTHPQ 119 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKN 198 ++Y V V L + GI + + ++ + + + GKN Sbjct: 120 FMKKKIYHVYLDKNVSGVDLQKIADGITLDDGEIKADDIQYASET-DKKQIGIEIHSGKN 178 Query: 199 REIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 R ++++FE + V +L R+ + L G R +++ + Sbjct: 179 RIVRRIFESLGYHVVKLDRVYFAGLTKKHLRRGDWRYLTQDEV 221 >gi|227488999|ref|ZP_03919315.1| pseudouridine synthase B [Corynebacterium glucuronolyticum ATCC 51867] gi|227091075|gb|EEI26387.1| pseudouridine synthase B [Corynebacterium glucuronolyticum ATCC 51867] Length = 349 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 79/234 (33%), Positives = 120/234 (51%), Gaps = 4/234 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E +IAQ RV+VNG ++ R V V T I VDGV ++ E Sbjct: 110 RLQKVLAQAGVASRRMSEELIAQGRVEVNGEIVMRQGVRVDPDTAVIRVDGVRVKVNEDL 169 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGGL 130 +KP+G+ +T D GR V D + + VGRLD TEGLLLLTNDG L Sbjct: 170 VYIALNKPLGVQSTMKDDMGRPCVGDIVGEKVDAGLHLFHVGRLDAKTEGLLLLTNDGEL 229 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + Y G+ D++ + L++G+ ++ V + + + Sbjct: 230 ANRLMHPKYHVSKTYLATVLGEADRELVKKLREGVDLEDGIAKADYVQIVDTYEGRSLIR 289 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V L EG+ ++++ + + V +L+R QLG L G+ R ++ LR Sbjct: 290 VELHEGRKHIVRRMLKELGFPVQQLVRTKIHTVQLGELTPGAIRHLNDSELRAL 343 >gi|85059548|ref|YP_455250.1| 16S rRNA pseudouridylate synthase A [Sodalis glossinidius str. 'morsitans'] gi|84780068|dbj|BAE74845.1| ribosomal small subunit pseudouridine synthase [Sodalis glossinidius str. 'morsitans'] Length = 235 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 58/229 (25%), Positives = 104/229 (45%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV V+G ++++ A + + DG L + Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTVDGEIIKQGAFQLRPEHQVRFDGNLLHQILTA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+LLT+DG + Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTILYFIDEPVPDKLHAAGRLDIDTTGLVLLTDDGQWSYR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y V + + GI+++G L T S V + + Sbjct: 121 LTSPRHHCEKDYLVTLEQPLAAEITAQFAAGILLRGEKLPTRPARLAT--LSPLKVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L L G R ++ + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVALHRERIGAIVLDAHLQPGEYRALTAGEV 227 >gi|198283587|ref|YP_002219908.1| RNA-binding S4 domain-containing protein [Acidithiobacillus ferrooxidans ATCC 53993] gi|218666928|ref|YP_002426211.1| ribosomal large subunit pseudouridine synthase B [Acidithiobacillus ferrooxidans ATCC 23270] gi|198248108|gb|ACH83701.1| RNA-binding S4 domain protein [Acidithiobacillus ferrooxidans ATCC 53993] gi|218519141|gb|ACK79727.1| ribosomal large subunit pseudouridine synthase B [Acidithiobacillus ferrooxidans ATCC 23270] Length = 292 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 107/296 (36%), Positives = 155/296 (52%), Gaps = 13/296 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--- 70 +++ KV+AR G+ SRR +E IA RV VNG + + V + D I VDG LR Sbjct: 3 EKLQKVLARFGLGSRRLMEEWIAAGRVVVNGQIAK-LGDRVTAQDKIAVDGETLRIPSWV 61 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDG 128 R R+ YHKP G +TT +DP GR TVFD LP SR I+VGRLD NTEGLLLLTNDG Sbjct: 62 RPRLRVLRYHKPAGELTTRNDPAGRPTVFDRLPRLRGSRWIAVGRLDYNTEGLLLLTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P R Y VR G+V ++ L +G+V++ + + +G+N W Sbjct: 122 DLANALMHPRAGIEREYAVRVLGEVSPEQQVRLLQGVVLEDGEAHFVTLQEAGGEGANRW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGP 247 V L EG+NRE++++FE V+RLIR+ YG ++ L G E+ + R+ L Sbjct: 182 YHVTLAEGRNREVRRLFEAVGLTVSRLIRVRYGVVEMPRLLKTGYFDELPDEE-RDAL-- 238 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 L VN P S+++ R + ++ R + + + + ++ Sbjct: 239 -LASVQWVNPATP--PSDSVERVTAPLPDARKNNSRREARQTPSRGRPGQGRRTVR 291 >gi|332999092|gb|EGK18679.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri K-218] Length = 291 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 67/295 (22%), Positives = 125/295 (42%), Gaps = 9/295 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 3 PDSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDIVKVNGQLIEP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 AE L +KP+G+V+T D + R + D + + RV +GRLD +++GL+ LTN Sbjct: 62 REAEDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E F ++V +L R L + G R ++ L + Sbjct: 176 VFRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRYLTDDELIDLFKL 235 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A ++ + + + R N + ++++ A Sbjct: 236 IENSSSEAKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKRRDA 290 >gi|260773017|ref|ZP_05881933.1| ribosomal large subunit pseudouridine synthase B [Vibrio metschnikovii CIP 69.14] gi|260612156|gb|EEX37359.1| ribosomal large subunit pseudouridine synthase B [Vibrio metschnikovii CIP 69.14] Length = 346 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 104/351 (29%), Positives = 157/351 (44%), Gaps = 18/351 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV VNG + T + +DG + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAILGERLEDETAVVRIDGHAVSAKAP 61 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G+++++K+ L +G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGEINEEKIRNLVRGVQLEDGMARFEDVMYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK---ILRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LR+ Sbjct: 182 TFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFLDKKLPRGGWVELDLKQVNYLRD 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E ++ +S R R R K ++ + K + Sbjct: 242 LVELRPEKETMLDESKD-NTSRKRERSRS-------QKIRRAVKRHEERITTTTAKPKSR 293 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + A + S R +S ++ + A + Sbjct: 294 VTNGTTTGGSTGNAP-TRARRKPGSSTRNSAQEQSSRQGTRAPSGKAKAPR 343 >gi|227540649|ref|ZP_03970698.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Sphingobacterium spiritivorum ATCC 33300] gi|227239511|gb|EEI89526.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase B) [Sphingobacterium spiritivorum ATCC 33300] Length = 441 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 74/246 (30%), Positives = 119/246 (48%), Gaps = 4/246 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDH 59 +K ++ R+++ I+ AGI SRR+ + +I + VNG ++ V D Sbjct: 194 VKQATSDYDDNGMIRLNRYISNAGICSRRKADELITAGVISVNGEVVTELGSKVDPAKDE 253 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINT 118 I+ +G L++ E+ L +KP +TT DP R TV + + R+ VGRLD NT Sbjct: 254 IKYNGERLKR-EKMVYVLLNKPKDYITTTDDPQERRTVMQLVANATKERIYPVGRLDRNT 312 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLLLTNDG LA L P ++Y V ++Q N + G+ ++ ++ Sbjct: 313 TGLLLLTNDGNLAEKLSHPRNNISKIYNVELDKSLNQGDFNKIVFGLELEDGFVKPDDLS 372 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 Q GS V + + GKNR ++++FE + V +L R+ Y L G R + + Sbjct: 373 Y-VQGGSKREVGIQIHSGKNRIVRRIFESLGYDVVKLDRVVYANLTKKDLPRGRWRYLEE 431 Query: 239 KILREQ 244 K L + Sbjct: 432 KELIQL 437 >gi|293394546|ref|ZP_06638842.1| ribosomal large subunit pseudouridine synthase F [Serratia odorifera DSM 4582] gi|291423011|gb|EFE96244.1| ribosomal large subunit pseudouridine synthase F [Serratia odorifera DSM 4582] Length = 289 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 65/293 (22%), Positives = 127/293 (43%), Gaps = 11/293 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--A 70 R++K I+ +GI SRR+ +R I Q V +NG + V D ++V+G + Sbjct: 6 SIRLNKYISESGICSRRDADRYIEQGNVFINGKRVA-LGDRVFPGDVVKVNGQLIEPRNE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP+G+V+T D + + V + + +R+ +GRLD +++GL+ LTN G L Sbjct: 65 DNLIFIALNKPVGVVSTTEDGEKDNIV--DFVNHSTRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + ++ L G+ + G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVNKPVTDEFIHGLGAGVPMLGTVTK----KCKVKKVAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L L G R+++ L E L+ Sbjct: 179 IVLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVGLAGLPLGEWRDLTDDELVELF--KLI 236 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 E++ + + + + + D + ++ +KK Sbjct: 237 EDSSSEAKPAKKAKPAVKKPASSGNGQRTADKPSGNPAARKRFTQPGRKKKGR 289 >gi|310659128|ref|YP_003936849.1| pseudouridylate synthase [Clostridium sticklandii DSM 519] gi|308825906|emb|CBH21944.1| pseudouridylate synthase [Clostridium sticklandii] Length = 236 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 59/237 (24%), Positives = 107/237 (45%), Gaps = 13/237 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++ I+ +G+ SRR+ + +I +VKVN + V D +EVDG ++ E Sbjct: 1 MRLNNYISSSGLCSRRKADELIKNNKVKVNSKIA-DLGYQVSEGDIVEVDGTIIKPKEDK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T + + V + + R+ +GRLD ++EGL+LLTNDG + Sbjct: 60 VYIALYKPVGITCTTEEHIEGNIV--DYVNYKERIFPIGRLDKDSEGLILLTNDGDIVNR 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG------ICYGDMQVTLDTQKGSNA 187 + + Y V +D L + +G+ I ++ K S Sbjct: 118 ILREENHHEKEYIVTVDKPLDSKTLKQMSQGVRIYNPVKNTYTTTKPCKI----HKISEK 173 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+++ + F +KV +L R+ L L G R +++ + Sbjct: 174 SFKIVLSQGLNRQIRRMCQHFGYKVRKLKRVRILNITLDGLSYGKWRFLNQAEVSSL 230 >gi|326204454|ref|ZP_08194312.1| pseudouridine synthase [Clostridium papyrosolvens DSM 2782] gi|325985486|gb|EGD46324.1| pseudouridine synthase [Clostridium papyrosolvens DSM 2782] Length = 247 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 70/248 (28%), Positives = 129/248 (52%), Gaps = 9/248 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKA 70 QR+ KVI+ G SR +++ + + V V+G +++ + ++V IE++G L Sbjct: 3 QKQRLDKVISNFGFGSRNDIKSAVKKGLVTVDGAIVKDSGIHVDPEASIIEINGERLNYR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDG 128 + + +KP G+++ SD R TVFD LP + + GRLDI+TEGL+L+TNDG Sbjct: 63 -KFIYIMMNKPQGVISATSDRKQR-TVFDILPEEYKCFELFPAGRLDIDTEGLVLMTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-A 187 L+ + P + Y + G+V+Q+ + ++G+ + Y + L+ K + Sbjct: 121 QLSHEILSPKKHVPKQYYAKVLGRVNQEDADAFRQGVTLDDG-YSTLPAVLEVLKSDELS 179 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + + + EGK ++K++FE KV L R+S G +L L G +E+ + + E L Sbjct: 180 EIKLTIVEGKFHQVKRMFEAVGKKVIYLKRLSMGNLRLDENLKLGECKELGESDI-ELLK 238 Query: 247 PHLLEEAQ 254 ++ + + Sbjct: 239 QAVIPDNK 246 >gi|239997156|ref|ZP_04717680.1| RNA pseudouridine synthase family protein [Alteromonas macleodii ATCC 27126] Length = 252 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 64/234 (27%), Positives = 113/234 (48%), Gaps = 11/234 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL---- 67 P+R++K I+ G+ SRRE +++I Q RV VN V D ++VDG + Sbjct: 5 APKRLNKYISDTGLCSRREADKLIEQNRVTVNNQPP-ELGTKVGPGDTVKVDGKVVGAVA 63 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 +Y+KPIG+ T ++ + + D + R+ VGRLD +EGL++LT+D Sbjct: 64 SDKSDRVYIVYNKPIGITCT-TERHVKGNIIDAI-GHKERIFPVGRLDKPSEGLIILTSD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y V + + + +N + +G+ I G V + Sbjct: 122 GDIVNKILRAENAHDKEYEVTVNQPISERFVNRMSRGVPILGTVTKPCVVKPTGKN---- 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 T+ L +G NR+I+++ EF ++V +L R +LG+L G R ++ + L Sbjct: 178 TFTIILTQGLNRQIRRMCEFLGYEVTKLKRTRIMHLELGSLKPGQWRNLTSREL 231 >gi|325661183|ref|ZP_08149810.1| hypothetical protein HMPREF0490_00543 [Lachnospiraceae bacterium 4_1_37FAA] gi|325472690|gb|EGC75901.1| hypothetical protein HMPREF0490_00543 [Lachnospiraceae bacterium 4_1_37FAA] Length = 237 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 121/233 (51%), Gaps = 5/233 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + +R EV++MI + V V+G+++++ V + V + + Sbjct: 3 RLDKYLADMQVGTRSEVKQMIRKGLVTVDGLIVKKPEEKVDCEKQVVVCSGAIVSYHQYE 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP G+V+ DP + TV D + + + GRLD +TEGLLL+TNDG LA Sbjct: 63 YYMLNKPAGVVSATEDPRDK-TVIDLIEDRRRKDLFPAGRLDKDTEGLLLITNDGALAHD 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y + G V ++ + L KG+ I + +T+ + G + +T+ Sbjct: 122 LLSPKKHVDKKYYAKIEGTVTEEDVELFGKGVDIGEKRVTLPAVLTILS-SGEESEITLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 +REGK ++K++FE KV L R+S G L LL G R+++++ L + Sbjct: 181 IREGKFHQVKRMFEAVGKKVTYLKRLSMGSLVLDEKLLPGEYRKLTEQELTQL 233 >gi|260858132|ref|YP_003232023.1| 23S rRNA pseudouridine synthase [Escherichia coli O26:H11 str. 11368] gi|260870735|ref|YP_003237137.1| 23S rRNA pseudouridine synthase [Escherichia coli O111:H- str. 11128] gi|257756781|dbj|BAI28283.1| 23S rRNA pseudouridine synthase [Escherichia coli O26:H11 str. 11368] gi|257767091|dbj|BAI38586.1| 23S rRNA pseudouridine synthase [Escherichia coli O111:H- str. 11128] gi|323155588|gb|EFZ41764.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli EPECa14] gi|323174457|gb|EFZ60082.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli LT-68] gi|323177584|gb|EFZ63169.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 1180] Length = 290 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 69/293 (23%), Positives = 126/293 (43%), Gaps = 9/293 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 3 PDSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDIVKVNGQLIEP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 AE L +KP+G+V+T D + R + D + + RV +GRLD +++GL+ LTN Sbjct: 62 REAEDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 176 VFRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKL 235 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++V A ++ + + + R N + ++KK Sbjct: 236 IENSSSEVKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKK 288 >gi|25028115|ref|NP_738169.1| hypothetical protein CE1559 [Corynebacterium efficiens YS-314] gi|259507172|ref|ZP_05750072.1| RNA pseudouridine synthase [Corynebacterium efficiens YS-314] gi|23493399|dbj|BAC18369.1| conserved hypothetical protein [Corynebacterium efficiens YS-314] gi|259165253|gb|EEW49807.1| RNA pseudouridine synthase [Corynebacterium efficiens YS-314] Length = 329 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 76/234 (32%), Positives = 116/234 (49%), Gaps = 4/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ KV+A+AG+ASRR E +I RV+VNG ++ V D I VDGV + Sbjct: 87 EGIRLQKVLAQAGVASRRHAEILIDNGRVEVNGRIVTTQGTRVNPNSDVIRVDGVRININ 146 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTND 127 E ++ +KP G+ +T SD GR V D + R+ VGRLD +TEGLLLLTND Sbjct: 147 EDLEYFVLNKPRGMHSTMSDDLGRPCVGDLVSEKTASGQRLFHVGRLDADTEGLLLLTND 206 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P + + Y G+ + + L+KGI ++ V + + Sbjct: 207 GELANRLMHPKYEVRKTYLATVRGEAGPNLVTTLRKGIELEDGPAKADYVQIIDTFQGKS 266 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + EG+ ++++ + + V RL+R QLG GS R ++ L Sbjct: 267 LIRLEIHEGRKHIVRRMLDEAGFPVERLVRTKLHTVQLGEQKPGSLRALNASEL 320 >gi|262369297|ref|ZP_06062625.1| ribosomal large subunit pseudouridine synthase B [Acinetobacter johnsonii SH046] gi|262315365|gb|EEY96404.1| ribosomal large subunit pseudouridine synthase B [Acinetobacter johnsonii SH046] Length = 368 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 106/347 (30%), Positives = 164/347 (47%), Gaps = 19/347 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----LR 68 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG + Sbjct: 2 SEKLQKVLARVGLGSRRYMEEVIAAGRVSVNGQVAQ-VGERIEPGDELRIDGRKVSFQIE 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 R R+ +Y+KP G + + +DP+ R TVFD LP+I + R + VGRLDIN+ GLLL TND Sbjct: 61 DEIRRRVLIYYKPEGEICSRNDPESRPTVFDQLPAIANDRWVMVGRLDINSTGLLLFTND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V N + KG+V+ + +G N Sbjct: 121 GELANRLMHPSNEVEREYAVRVMGEVTPQIKNNMLKGVVLDDGPAKFESFSEIGGEGINR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 W V ++EG+NRE++++FE KV+RL+R YG L L G E+ K + Sbjct: 181 WYQVVVKEGRNREVRRIFESQGLKVSRLLRTRYGTVILPRELRTGRWMELDKNDIDNLTK 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 L+ Q + T R + ++ F R ++ ++ G + K P Sbjct: 241 AVELKPRQGTGLYGMAKRRT-ERMQEKPMAARRGGFLRQQRRDNEDEGQQQAK----PAF 295 Query: 307 RRNLASNVWMAKGIHSSFLSD---SGQREENHRRSPSFPSKRSLRRT 350 R N HS D +G + R++ + + S Sbjct: 296 NRERREN----PNGHSQRRQDNAQTGYGQREPRQNSGYAQRDSRPEN 338 >gi|302037904|ref|YP_003798226.1| pseudouridine synthase, rsuA family [Candidatus Nitrospira defluvii] gi|300605968|emb|CBK42301.1| Pseudouridine synthase, rsuA family [Candidatus Nitrospira defluvii] Length = 255 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 90/246 (36%), Positives = 130/246 (52%), Gaps = 2/246 (0%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTR 74 + +++++ GIASR + + I RV++N L+ + D + +D P+ + + Sbjct: 3 LDRLLSKLGIASRSQAQEWIRAGRVRINRRLVRMPDTWIDWPGDAVTLDDRPIEQR-PPQ 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L+HKP G+VTTH D GR T+FD LP + +VGRLD T GLLLLTND L+ L Sbjct: 62 FILFHKPKGVVTTHQDEKGRPTIFDVLPPELKGLHAVGRLDQATSGLLLLTNDSTLSSFL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P Q R+Y V G+V ++ G+ QG VT+ + G + + V L Sbjct: 122 TDPKQQVPRLYLVTVRGEVSEETGRAALDGVDDQGERLHCASVTIQKRSGRESHLVVTLT 181 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 EGKNREI+++F+ +V RL RI YGPF LG L G+ RE+ + R QL A Sbjct: 182 EGKNREIRRLFKALGHEVTRLRRIQYGPFILGDLQPGAWRELPIEAARAQLRLPSAHAAG 241 Query: 255 VNLDAP 260 V P Sbjct: 242 VPQAKP 247 >gi|110802628|ref|YP_699525.1| 16S pseudouridylate synthase [Clostridium perfringens SM101] gi|110683129|gb|ABG86499.1| RNA pseudouridine synthase family protein [Clostridium perfringens SM101] Length = 239 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 114/233 (48%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ KV++ G +R+E+++++ + V VN ++ + + + D I ++G + ++ Sbjct: 2 ERLDKVLSNLGYGTRKEIKQVVKKGFVTVNDEKVKDSGLQIDPEKDTIVINGEKVEY-KK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ D TV D L VGRLD +T GLLLLTNDG L Sbjct: 61 YIYLMMNKPAGVISATYDKRD-ETVIDLLYMEDQVFEPFPVGRLDKDTVGLLLLTNDGDL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P +VY + + + + + G+ + G ++ + ++ V Sbjct: 120 NHKLISPKYHVDKVYYAEINAPITEKDIKAFENGVTLDDGYKCMSAKLKVIENLEDSSRV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V ++EGK ++K++FE KV L R S+G L +L G +E+S+ L Sbjct: 180 EVTVQEGKYHQVKRMFEARGKKVIYLKRTSFGNLPLDESLEEGEYKELSESEL 232 >gi|149370621|ref|ZP_01890310.1| ribosomal large subunit pseudouridine synthase F [unidentified eubacterium SCB49] gi|149356172|gb|EDM44729.1| ribosomal large subunit pseudouridine synthase F [unidentified eubacterium SCB49] Length = 291 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 68/290 (23%), Positives = 128/290 (44%), Gaps = 18/290 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G SRR+ +++I + +V +NG + M D I V+G + + Sbjct: 9 RLNKAISDSGYCSRRQADKLIEEGKVTLNGNPV-SLGDRAMPDDVIHVEGNLITENNNLV 67 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +KP+G+ T +D V D + R+ VGRLD +EGLLL+TNDG + + Sbjct: 68 YIILNKPVGITCT-TDLRVEGNVVDYI-DHKERIFHVGRLDKPSEGLLLMTNDGDIVNKI 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V+ + + + + GI ++ + + ++ + S + L Sbjct: 126 LRAGNSHEKEYFVKVDRPITTEFIRRMGNGIPLEELETTTKKCFVE--QVSRFVFRIILV 183 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E+ +++V L R +LG L G R+++K+ L+ Sbjct: 184 QGLNRQIRRMCEYLDYEVMELKRERIMNIELGDLPYGEWRDLTKEELQGL---------- 233 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 DA S DR P +N + ++ +L P Sbjct: 234 --KDAVAKSENDSFIDREEKRKAAP-KTGDANRNRPRNEAPKRESRLKNP 280 >gi|114561788|ref|YP_749301.1| 23S rRNA pseudouridine synthase F [Shewanella frigidimarina NCIMB 400] gi|114333081|gb|ABI70463.1| ribosomal large subunit pseudouridine synthase F [Shewanella frigidimarina NCIMB 400] Length = 293 Score = 251 bits (641), Expect = 2e-64, Method: Composition-based stats. Identities = 73/304 (24%), Positives = 143/304 (47%), Gaps = 13/304 (4%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + E+ T R++K I+ +GI SRRE +R I Q V +NG + +V D ++V+G Sbjct: 1 MSESAT--RLNKYISESGICSRREADRYIEQGNVFINGKRAK-IGDSVEFGDKVKVNGHD 57 Query: 67 LRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + +KP+G+V+T + + R + D + + RV +GRLD +++GL+ L Sbjct: 58 IAPRDEADLVFIALNKPVGIVSTTENTE-RDNIVDFV-NHSERVFPIGRLDKDSQGLIFL 115 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T++G L + + Y V + + + L ++ G+ + G+ +V ++ Sbjct: 116 TSNGDLVNKILRAGNNHDKEYVVTVNKPITEAFLQGMRAGVPMLGVITKKCKV----EQV 171 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 S + L +G NR+I+++ E FN++V +L R S L L G R++ ++ L Sbjct: 172 STFVFKIILVQGLNRQIRRMCEHFNFEVTKLERQSIMNVSLKGLPVGEWRDLDEQELSTL 231 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 + L+E + + ++ E P+ F + + +K +K K + Sbjct: 232 M--KLIEHSSSEVKNAPKKAKKKPTQSLRDKIEGPEHFMQGRGAKPKKPAANKGKPSHSR 289 Query: 305 VHRR 308 +R Sbjct: 290 KPKR 293 >gi|157163487|ref|YP_001460805.1| 23S rRNA pseudouridine synthase F [Escherichia coli HS] gi|300916198|ref|ZP_07132950.1| conserved hypothetical protein [Escherichia coli MS 115-1] gi|157069167|gb|ABV08422.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli HS] gi|300416478|gb|EFJ99788.1| conserved hypothetical protein [Escherichia coli MS 115-1] Length = 290 Score = 251 bits (641), Expect = 2e-64, Method: Composition-based stats. Identities = 69/293 (23%), Positives = 126/293 (43%), Gaps = 9/293 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 3 PDSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 AE L +KP+G+V+T D + R + D + + RV +GRLD +++GL+ LTN Sbjct: 62 REAEDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 176 VFRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKL 235 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++V A ++ + + + R N + ++KK Sbjct: 236 IENSSSEVKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKK 288 >gi|224476843|ref|YP_002634449.1| RNA pseudouridine synthase [Staphylococcus carnosus subsp. carnosus TM300] gi|222421450|emb|CAL28264.1| RNA pseudouridine synthase [Staphylococcus carnosus subsp. carnosus TM300] Length = 231 Score = 251 bits (641), Expect = 2e-64, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 115/231 (49%), Gaps = 6/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + +V+VNG +++ ++ TD I VDG + ++ Sbjct: 1 MRLDKYLANMGVGTRSEVKQLLKKNKVQVNGKNEKQSKAHINPDTDEITVDGNLIEYVDK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G ++ D + + V ++ VGR+ +TEGL+LLTNDG Sbjct: 61 -VYIMLNKPAGYISATEDEEQSTIVSLIKDFQHMKIFPVGRVGKDTEGLILLTNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P+ ++YRV + D + +G+ + Q+ + + V Sbjct: 120 DIMSPNKHVSKIYRVEAKNPITDDDIKQFAEGVELSDGKTKPAQLE---RTENEKVAFVS 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 +REG+ ++K++F + +V L R+ G +L L GS RE++++ + Sbjct: 177 IREGRYHQVKRMFHAIDNEVLNLKRVQIGKLKLDSNLPKGSYRELTQEEIE 227 >gi|18311246|ref|NP_563180.1| 16S pseudouridylate synthase [Clostridium perfringens str. 13] gi|110800371|ref|YP_696936.1| 16S pseudouridylate synthase [Clostridium perfringens ATCC 13124] gi|168205092|ref|ZP_02631097.1| RNA pseudouridine synthase family protein [Clostridium perfringens E str. JGS1987] gi|168216772|ref|ZP_02642397.1| RNA pseudouridine synthase family protein [Clostridium perfringens NCTC 8239] gi|182625568|ref|ZP_02953339.1| RNA pseudouridine synthase family protein [Clostridium perfringens D str. JGS1721] gi|18145929|dbj|BAB81970.1| 16S pseudouridylate synthase [Clostridium perfringens str. 13] gi|110675018|gb|ABG84005.1| RNA pseudouridine synthase family protein [Clostridium perfringens ATCC 13124] gi|170663292|gb|EDT15975.1| RNA pseudouridine synthase family protein [Clostridium perfringens E str. JGS1987] gi|177909256|gb|EDT71721.1| RNA pseudouridine synthase family protein [Clostridium perfringens D str. JGS1721] gi|182381141|gb|EDT78620.1| RNA pseudouridine synthase family protein [Clostridium perfringens NCTC 8239] Length = 239 Score = 251 bits (641), Expect = 2e-64, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 114/233 (48%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ KV++ G +R+E+++++ + V VN ++ + + + D I ++G + ++ Sbjct: 2 ERLDKVLSNLGYGTRKEIKQVVKKGFVTVNDEKVKDSGLQIDPEKDTIVINGEKVEY-KK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ D TV D L VGRLD +T GLLLLTNDG L Sbjct: 61 YIYLMMNKPAGVISATYDKRD-ETVIDLLYMEDQVFEPFPVGRLDKDTVGLLLLTNDGDL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P +VY + + + + + G+ + G ++ + ++ V Sbjct: 120 NHKLISPKYHVDKVYYAEINAPITEKDIKAFENGVTLDDGYKCMSAKLKVIENLEDSSRV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V ++EGK ++K++FE KV L R S+G L +L G +E+S+ L Sbjct: 180 EVTVQEGKYHQVKRMFEARGKKVVYLKRTSFGNLPLDESLEEGEYKELSESEL 232 >gi|315657981|ref|ZP_07910855.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus lugdunensis M23590] gi|315497017|gb|EFU85338.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus lugdunensis M23590] Length = 230 Score = 251 bits (641), Expect = 2e-64, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 112/234 (47%), Gaps = 9/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G +R EV++ + + V VNG + + A + D +++ G + E Sbjct: 2 MRLDKFLAHMGQGTRTEVKQSLKKGNVTVNGKVEKSAKTQINPHHDVVQIHGHQIDYVE- 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLA 131 T + +KP G ++ DP ++TV D + + + VGRLD +TEGLLL+TNDG + Sbjct: 61 TVYLMLNKPKGYISATEDPK-QATVIDLIKDYKYLDLFPVGRLDKDTEGLLLITNDGQFS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V V +D + K+G+++ ++T+ S V Sbjct: 120 HNLMNPNKHVAKTYLVTSKYPVTKDNQYMFKQGVMLSDGLTKPAELTIIDDYHS----KV 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + EG+ +IK++F +V L RI +L L G R +++ + + Sbjct: 176 TIYEGRYHQIKRMFHSIENEVLELKRIQIANLRLDEELDEGQYRVLTQTDIEQL 229 >gi|297623666|ref|YP_003705100.1| RNA-binding S4 domain-containing protein [Truepera radiovictrix DSM 17093] gi|297164846|gb|ADI14557.1| RNA-binding S4 domain protein [Truepera radiovictrix DSM 17093] Length = 241 Score = 251 bits (641), Expect = 2e-64, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 109/234 (46%), Gaps = 8/234 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K +ARAG+ASRR+ E +I V VNG+ V + D + V G + Sbjct: 2 SERLQKFLARAGVASRRKAEALILSGAVTVNGVRA-ELGQRVAAGDEVRVRGERVAPPAA 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ +D GR TV +P + VGRLD ++EGLLLLT DG L Sbjct: 61 HVTYALYKPKGVISAVTDDRGRVTVLQLVPPSARVPGLHPVGRLDADSEGLLLLTTDGEL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + YRV + L L++G+ ++ + T Sbjct: 121 TLTLTHPRYGHEKTYRVWCEPVPGPEALRRLERGVALEDGPARARRARAAPGG-----CT 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L EG+NR+++++ +V RL+R G LG + G R +S L + Sbjct: 176 LVLSEGRNRQVRRMLAALGCEVTRLLRTRIGGLSLGAMRPGELRRLSDAELAQL 229 >gi|282917013|ref|ZP_06324771.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus D139] gi|283770831|ref|ZP_06343723.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus H19] gi|282319500|gb|EFB49852.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus D139] gi|283460978|gb|EFC08068.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus H19] gi|302333417|gb|ADL23610.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus JKD6159] Length = 231 Score = 251 bits (641), Expect = 2e-64, Method: Composition-based stats. Identities = 61/228 (26%), Positives = 106/228 (46%), Gaps = 9/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKISVRGELIEYVEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G ++ D TV D +P + VGRLD +TEGLLL+TNDG Sbjct: 61 -VYIMLNKPKGYISATED-HHSKTVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + +D + K+G+ + +T + S+ V Sbjct: 119 HELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLSDGKVKPAILTYIDNQTSH----V 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + EGK ++K++F +V L RI +L L +G R +++ Sbjct: 175 TIYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYRLLTE 222 >gi|225621236|ref|YP_002722494.1| pseudouridylate synthase [Brachyspira hyodysenteriae WA1] gi|225216056|gb|ACN84790.1| pseudouridylate synthase [Brachyspira hyodysenteriae WA1] Length = 229 Score = 251 bits (641), Expect = 2e-64, Method: Composition-based stats. Identities = 68/236 (28%), Positives = 112/236 (47%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA +ASRRE +R+I VKVNGI+ A V D IE + E Sbjct: 1 MRLNKYIASLNLASRREADRLIQNGNVKVNGIINTNPATQVDENDKIECSIE--QYKENK 58 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G V + + +G+ +++ + F + VGRLD ++ GL+L TNDG A+ Sbjct: 59 IYIKLNKPRGYVVSSNKNEGKP-IYNLIKKDFDNIYPVGRLDKDSSGLILFTNDGVFAKQ 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + +T + Y VR + L L+ GI + G +V + + L Sbjct: 118 IIGENTNCEKEYYVRVDDNIPDGALQKLEYGISLDGQKLKPAKVKRVNKNS----FHIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 EGKNR+I+++ + ++V L R+ L L G+ + ++K+ + L L Sbjct: 174 TEGKNRQIRRMCQKVGFEVIILKRLRISGILLEDLKEGTFKSLTKEEIESILKNEL 229 >gi|166030628|ref|ZP_02233457.1| hypothetical protein DORFOR_00294 [Dorea formicigenerans ATCC 27755] gi|166029630|gb|EDR48387.1| hypothetical protein DORFOR_00294 [Dorea formicigenerans ATCC 27755] Length = 246 Score = 251 bits (641), Expect = 2e-64, Method: Composition-based stats. Identities = 68/240 (28%), Positives = 123/240 (51%), Gaps = 8/240 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ AG+ SRRE +R+I RV V+G+ + V I V ++ AE+ Sbjct: 2 IRLNKYLSEAGVCSRREADRLIEAGRVTVDGVRA-VPGMKVSEEQKICVGKKVIQGAEQK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G+V T D ++ + L RV GRLD ++EGLL++TNDG L Sbjct: 61 VVLAVNKPAGIVCTG-DMKVKNNIIRFL-HYPVRVTYAGRLDKDSEGLLIMTNDGELINS 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + + Y VR ++ + + + +G+ IQ + + + ++ ++ Sbjct: 119 MMRARYHHEKEYHVRVDKEITSEFVRQMSEGVHIQDVEKNLDAVTRPCEVKQIGKYTFSI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR---EQLGPH 248 L +G NR+I+++ E +KV +L+RI +LG+L +G+ R++ + L+ EQ G H Sbjct: 179 ILTQGLNRQIRRMCEALGYKVTKLVRIRIMNVELGSLKSGAVRKIEGQELKKLYEQAGTH 238 >gi|329894510|ref|ZP_08270324.1| Ribosomal large subunit pseudouridine synthase B [gamma proteobacterium IMCC3088] gi|328923035|gb|EGG30360.1| Ribosomal large subunit pseudouridine synthase B [gamma proteobacterium IMCC3088] Length = 303 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 94/232 (40%), Positives = 126/232 (54%), Gaps = 5/232 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAE 71 +++ KV+ARAG+ SRRE+E+ I+ RVK++G + V IEVDG L AE Sbjct: 32 EKLQKVLARAGLGSRREMEKWISDGRVKLDGRIA-ELGDRVCDNAAIEVDGQALSRAPAE 90 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGL 130 R LYHKP G V T DP+GR TVF+ LP R IS+GRLD NT GLLL T DG L Sbjct: 91 AVRCLLYHKPTGEVCTRKDPEGRRTVFERLPKVKGGRWISIGRLDYNTSGLLLFTTDGEL 150 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS R Y VR G+ D D L L G+ + + G N W Sbjct: 151 ANALMHPSAVIEREYMVRVMGEWDTDTLQRLIHGVELDDGFARFTDIQDGGGDGINHWFY 210 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V L EG+NRE+++++E V+RL R+ YG + + + G E+ +K + Sbjct: 211 VVLMEGRNREVRRLWESQGLTVSRLKRVRYGEVFIPSKVKQGKWMELDQKDV 262 >gi|198242968|ref|YP_002218105.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|207859366|ref|YP_002246017.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|197937484|gb|ACH74817.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|206711169|emb|CAR35544.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|326625901|gb|EGE32246.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Dublin str. 3246] Length = 289 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 71/293 (24%), Positives = 131/293 (44%), Gaps = 10/293 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V++ D ++V+G + Sbjct: 3 TDTSIRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDVVKVNGRLIEP 61 Query: 70 AE--RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E L +KP+G+V+T D + R + D + + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKL 235 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ A T ++ RP I E ++ R + + ++KK Sbjct: 236 IERSSSEAKPKAKAKPKTTGIK-RPVIAIEKSNEKARPASSGKRFTSPGRKKK 287 >gi|205354985|ref|YP_002228786.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205274766|emb|CAR39823.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|326630136|gb|EGE36479.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Gallinarum str. 9] Length = 289 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 71/293 (24%), Positives = 131/293 (44%), Gaps = 10/293 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V++ D ++V+G + Sbjct: 3 TDTSIRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDVVKVNGRLIEP 61 Query: 70 AE--RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E L +KP+G+V+T D + R + D + + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVSILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKL 235 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ A T ++ RP I E ++ R + + ++KK Sbjct: 236 IERSSSEAKPKAKAKPKTTGIK-RPVIAIEKSNEKARPASSGKRFTSPGRKKK 287 >gi|315652469|ref|ZP_07905454.1| pseudouridine synthase RluB [Eubacterium saburreum DSM 3986] gi|315485258|gb|EFU75655.1| pseudouridine synthase RluB [Eubacterium saburreum DSM 3986] Length = 242 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 66/246 (26%), Positives = 119/246 (48%), Gaps = 9/246 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 R++K +A G+ SRRE +R I RV +NG V D + +DG + + Sbjct: 1 MRLNKFLASIGVCSRREADRAIEANRVMINGETA-ELGAIVGEEDLVSLDGRYIATGKDV 59 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + ++KP G+V T SD DG + V D + + R+ VGRLD ++ GLLLLTN G Sbjct: 60 EKVKPIIIAFNKPEGVVCTTSDNDGATNVVDYI-GMKERIYPVGRLDKDSSGLLLLTNQG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L + + Y V+ + +D + +N + GI + + + + +K + Sbjct: 119 SLTNSLLRAANYHEKEYIVKVNKDIDDEFINKISNGIYLYELKTKTRKCKV--RKLNKNT 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 ++ L +G NR+I+++ KV +L R+ +L L G R +S + +++ Sbjct: 177 FSIVLTQGLNRQIRRMCAACGRKVQKLNRVRIVNIKLDGLAVGDYRNLSDEEIKKLYKEL 236 Query: 249 LLEEAQ 254 +++ Sbjct: 237 GIKDNG 242 >gi|167632749|ref|ZP_02391075.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0442] gi|167531561|gb|EDR94226.1| RNA pseudouridine synthase family protein [Bacillus anthracis str. A0442] Length = 238 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 65/231 (28%), Positives = 113/231 (48%), Gaps = 7/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ AG ASRR +++I ++RV +NG + + V D + V+G LR A Sbjct: 5 RINKFISEAGKASRRGADKLINERRVIINGKVAK-IGDQVNPGDDVRVNGEQLRIARDHV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ T S+ + + D + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCT-SEKSVKGNIIDLVNHPL-RISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T + S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEIT----QLSKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQRRDLTKKEKRRLF 228 >gi|160935783|ref|ZP_02083158.1| hypothetical protein CLOBOL_00673 [Clostridium bolteae ATCC BAA-613] gi|158441527|gb|EDP19237.1| hypothetical protein CLOBOL_00673 [Clostridium bolteae ATCC BAA-613] Length = 251 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 66/239 (27%), Positives = 111/239 (46%), Gaps = 12/239 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----K 69 +R++K +++ G+ SRRE +R+I +V V+ V + +G +R + Sbjct: 3 ERLNKWLSQMGVCSRREADRLIEAGKVLVDNRPA-SMGQKVTPGQKVVCNGKMVRVDRSQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L +KP G+V T +D D + D L R+ VGRLD ++EGLLL+TN G Sbjct: 62 RPRPVLLAVNKPKGIVCTTTDKDRAENIVDFL-GYPERIYPVGRLDKDSEGLLLMTNQGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNA 187 L + + Y V V + L + GI + +V K Sbjct: 121 LVNKIMRSGNAHEKEYIVTIDKPVTERFLEQMAGGIRLPELDQVTRPCKVK----KVERN 176 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 ++ L +G NR+I+++ E +V RL+R+ +LG L G+ R+++K+ E G Sbjct: 177 TFSIILTQGLNRQIRRMCEACGCQVKRLVRVRIMNIRLGNLRTGAYRQITKEEYEELTG 235 >gi|295692648|ref|YP_003601258.1| pseudouridine synthase [Lactobacillus crispatus ST1] gi|295030754|emb|CBL50233.1| Pseudouridine synthase [Lactobacillus crispatus ST1] Length = 236 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 66/235 (28%), Positives = 115/235 (48%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV ++I + V VNG ++ + D + V+G + ++ Sbjct: 1 MRIDKYLANMNVGSRKEVHQLIKKGVVAVNGKTVKTLKEKINENDVVTVNGEEIAY-QKY 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP G+++ D + TV L + ++ VGRLD +T GLLLLTNDG L Sbjct: 60 HYFLVNKPKGVLSATED-RNQKTVISLLDLQDQYQGIVPVGRLDKDTTGLLLLTNDGQLN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQ--KGSNAW 188 L P+ +VYR + G D++ G+++ G ++ + Q + + + Sbjct: 119 HELLAPNKHVAKVYRAQIAGVADEETAKAFASGMMLGDGTKLKPAKLKILKQDRENATSE 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + + + EGK +IK++F KV L R+S G L L G E+S ++ Sbjct: 179 IEIEISEGKYYQIKRMFGAVGMKVTALDRLSMGNLHLPSDLKRGKYVELSLDEIK 233 >gi|225620831|ref|YP_002722089.1| pseudouridine synthase [Brachyspira hyodysenteriae WA1] gi|225215651|gb|ACN84385.1| pseudouridine synthase [Brachyspira hyodysenteriae WA1] Length = 359 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 95/345 (27%), Positives = 157/345 (45%), Gaps = 31/345 (8%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 Q+N R+ KVI +G ASRR E+ I RV+VN ++ A V D + +D + Sbjct: 4 QQNEEAVRLVKVILESGFASRRNCEKAIMSGRVRVNNQVILDPAYRVKEDDSVSIDRELI 63 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R +KPIG+V+T GR + + I R+ GRLD + G++++TND Sbjct: 64 KRQTK-RYMALYKPIGVVSTTKYLPGRRIITEFFKGIKERLFYAGRLDSESRGIMIITND 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G A ++ PS + L+VY V +G++D + L KGI I+ + Y + + ++ + Sbjct: 123 GEFANIITHPSYEILKVYDVTVNGKIDSEALLNASKGITIKNVSYSPFKFKILSKGRIQS 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSKKILR 242 + + + EGKNREI+K+F+ +KV L RIS G GTL AG R+++KK + Sbjct: 183 KIRLTINEGKNREIRKIFDHLGYKVIDLERISVGCVSKYDEVSGTLEAGHIRDLTKKEI- 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 D + ++D +I +PDD S N + K+ Sbjct: 242 ---------------DFFFKQKDKKLKDIESIFENIPDDIEDENYEDSILNSSNNDKEEN 286 Query: 303 TPVHRRNLASN---------VWMAKGIHSSFLSDSGQREENHRRS 338 VH R+ + + S + E + R Sbjct: 287 KKVHDRSKWAKAKHKKKRLITKKSSTFKGKMQKKSSKSEFSENRK 331 >gi|163803033|ref|ZP_02196919.1| anthranilate synthase component II [Vibrio sp. AND4] gi|159173207|gb|EDP58036.1| anthranilate synthase component II [Vibrio sp. AND4] Length = 312 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 104/301 (34%), Positives = 147/301 (48%), Gaps = 13/301 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E I RV VNGI+ + + +DG + + Sbjct: 2 SEKLQKVLARAGHGSRREIESFIKSGRVSVNGIVAKLGERLEDENSVVRIDGHVVSAKIQ 61 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G+V + K+ L +G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGEVTEQKVKNLVRGVELEDGMARFEDVVYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LRE 243 V + EG+NRE+++++E + V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVAINEGRNREVRRLWESQDTTVSRLKRVRYGDIYLDKKLPRGGWMELDLKEVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E ++L+ +S R R I R ++ + G S Sbjct: 242 LVELRPEKETMLDLNKD-NTSRKRERARSQKIRR---AVKRHEERVNTPKGRSNNPSRRK 297 Query: 304 P 304 P Sbjct: 298 P 298 >gi|15674222|ref|NP_268397.1| ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. lactis Il1403] gi|12725309|gb|AAK06338.1|AE006453_2 ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. lactis Il1403] Length = 273 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 71/254 (27%), Positives = 116/254 (45%), Gaps = 11/254 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH- 59 + D + + R+ K +A +G+ SR EV+ ++ + RV V G + V Sbjct: 19 LTDLSAKSDIIKDMRLDKFLAESGLGSRSEVKILLKKGRVTVAGEVQRDGRFQVDKNSRQ 78 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINT 118 + DG L E +L +KP GLV+ D ++ V F + VGRLD NT Sbjct: 79 VAFDGEILDYQE-YYYYLLNKPQGLVSATKDNLFKTVVQLLSEKDFREDIFPVGRLDKNT 137 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQV 177 EGLL+LTNDG L L P + Y R G+V + +N +G+ ++ G ++ Sbjct: 138 EGLLILTNDGALGHDLTQPKKHVEKEYFARIDGKVTDEIVNKFAEGLTLKNGEKARPGEL 197 Query: 178 TL------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLA 230 + ++Q G + + V + EGK ++K++FE V L RI G L L Sbjct: 198 FIENIYEGESQSGWISEIRVIIHEGKFHQVKRMFEAVEMYVLYLKRIRMGNLALDSDLAL 257 Query: 231 GSTREVSKKILREQ 244 G+ R ++ + + Sbjct: 258 GAYRPLTTEEIENL 271 >gi|241206129|ref|YP_002977225.1| pseudouridine synthase [Rhizobium leguminosarum bv. trifolii WSM1325] gi|240860019|gb|ACS57686.1| pseudouridine synthase [Rhizobium leguminosarum bv. trifolii WSM1325] Length = 268 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 82/259 (31%), Positives = 135/259 (52%), Gaps = 5/259 (1%) Query: 2 KDKNIVQENFTPQR--VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STD 58 +++ +N +R + + +++ G SR + ER+IA+ RV V+G + A+ V +T Sbjct: 11 RERTKPADNAAAKRVTLPRALSKLGYCSRTQAERLIAENRVAVDGRTVSDASAWVDLATA 70 Query: 59 HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDIN 117 I +DG+ + AE + +KP GLVTT DP+GR TV+D L + VGRLD Sbjct: 71 SISIDGLVI-AAEAKIYLMLNKPRGLVTTRHDPEGRPTVYDCLRDFDIPHLSPVGRLDKA 129 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 +EGLLL TND A++L P T + Y V+ +D + + + GI G Sbjct: 130 SEGLLLFTNDTEFAQILLDPVTHVTKTYHVQIDRIMDDEDIAAMTAGIRHDGELLTATAA 189 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 Q N+W+ V L EG+NR+I+++ E + RL+R++ G +LG L G+ R ++ Sbjct: 190 RRLRQGDRNSWIEVELDEGRNRQIRRMLEALGTECLRLVRVAIGGLELGELPKGAVRALT 249 Query: 238 KKILREQLGPHLLEEAQVN 256 + L+ +E + N Sbjct: 250 EPELQALRRKTGMERTRRN 268 >gi|332141187|ref|YP_004426925.1| RNA pseudouridine synthase family protein [Alteromonas macleodii str. 'Deep ecotype'] gi|327551209|gb|AEA97927.1| RNA pseudouridine synthase family protein [Alteromonas macleodii str. 'Deep ecotype'] Length = 248 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 61/236 (25%), Positives = 114/236 (48%), Gaps = 11/236 (4%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + P+R++K I+ G+ SRRE +++I Q+RV VN + D ++VDG + Sbjct: 3 DQAPKRLNKYISDTGLCSRREADKLIEQKRVSVNNHPP-ELGTKIGPNDIVKVDGKIVGA 61 Query: 70 AER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + +Y+KPIG+ T ++ + + D + +R+ VGRLD +EGL++LT Sbjct: 62 VAKDKSDRVYIVYNKPIGITCT-TERHVKGNIIDAI-GHKARIFPVGRLDKPSEGLIILT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG + + + Y V + + + + + +G+ I G V + Sbjct: 120 SDGDIVNKILRAENAHDKEYEVTVNQPISERFVKRMARGVPILGTVTKPCVVKPTGKN-- 177 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 T+ L +G NR+I+++ EF ++V +L R +L L G R +++ L Sbjct: 178 --TFTIILTQGLNRQIRRMCEFLGYEVTKLKRTRIMHLELKALKPGQWRNLTQHEL 231 >gi|327538428|gb|EGF25099.1| ribosomal large subunit pseudouridine synthase B [Rhodopirellula baltica WH47] Length = 395 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 95/337 (28%), Positives = 160/337 (47%), Gaps = 4/337 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+++++A AG SRR+ E +I + RV V+G + V + VDG LR ++ Sbjct: 26 RINQLLASAGFGSRRQCEELIREGRVDVDGETITELGTTVDPDLQKVRVDGNYLR-PQKL 84 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP+G+VTT+ DP GR V D +P RV VGRLDI++EGL+LLTNDG LA+ Sbjct: 85 VYYVVNKPVGIVTTNRDPRGRPRVIDLVPPT-ERVFPVGRLDISSEGLILLTNDGDLAQK 143 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P +VYRV G+V + + +++GI I + + + + L Sbjct: 144 LAHPKFGIQKVYRVVVAGEVRGETMKKMREGIYIAEGLVQVDGAKIIKARTKATEMEIRL 203 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +EGKNREI+++ F KV +L R++ GP +LG + G+ R++++ + ++L + Sbjct: 204 KEGKNREIRRILARFGHKVQQLRRVAIGPLKLGDVPRGAYRKLTRDEV-DKLRRSIDAAE 262 Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASN 313 + AP + + + + G K K + R+ A+ Sbjct: 263 KAAKTAPPARPASKQSIKRRPGGASRNVAAKGTGGRPAFKGGRKAVKNSRTTETRSSATG 322 Query: 314 VWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 +K + LS G S++ R Sbjct: 323 PKTSKPVKKRTLSSGGSTGTVIGADAPKESRKKTERG 359 >gi|114562614|ref|YP_750127.1| pseudouridine synthase, Rsu [Shewanella frigidimarina NCIMB 400] gi|114333907|gb|ABI71289.1| ribosomal large subunit pseudouridine synthase B [Shewanella frigidimarina NCIMB 400] Length = 290 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 95/290 (32%), Positives = 145/290 (50%), Gaps = 10/290 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E IA RV V+G + V + I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSVDGEI-SGLGDRVEADAKIRIDGRAVSLKSA 60 Query: 73 ----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ YHKP G + + DP+GR+TVF+ LP +R ++VGRLDINT GLLL T D Sbjct: 61 DDIICRVLAYHKPEGEICSRKDPEGRTTVFERLPKVRDARWVAVGRLDINTSGLLLFTCD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V + + L+ G+ ++ + +G N Sbjct: 121 GELANRLMHPSNEVEREYAVRTFGEVPEAAVQRLRTGVTLEDGPAQFDTIKAAGGEGINQ 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILRE 243 W V LREG+NRE+++++E + +V+RLIR+ YG +L TL G E+ LR+ Sbjct: 181 WWHVTLREGRNREVRRLWESQDVQVSRLIRVRYGKVELPKTLPRGGWIELPMDQVNYLRQ 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 G + + D + + + K + Q++ Sbjct: 241 LAGLEAETRSVLGSDKHSVARSKVKSAKIRRAVHKHKVVGNHGKPTRQRS 290 >gi|27468344|ref|NP_764981.1| 16S pseudouridylate synthase [Staphylococcus epidermidis ATCC 12228] gi|57867194|ref|YP_188884.1| pseudouridine synthase family 1 protein [Staphylococcus epidermidis RP62A] gi|27315890|gb|AAO05025.1|AE016748_259 16S pseudouridylate synthase [Staphylococcus epidermidis ATCC 12228] gi|57637852|gb|AAW54640.1| pseudouridine synthase, family 1 [Staphylococcus epidermidis RP62A] Length = 230 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 60/228 (26%), Positives = 106/228 (46%), Gaps = 9/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + VKVN +++ ++V D I V+ + ++ Sbjct: 1 MRLDKFLANMGVGTRSEVKQLLKKGSVKVNQNIVKLPKLHVNPNSDEIMVNDEVVSYIDK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G ++ D T+ D +P + VGRLD +TEGLLL+TNDG Sbjct: 61 -VYIMLNKPKGYISATEDELH-PTIIDLIPEYAHLNIFPVGRLDKDTEGLLLVTNDGQFN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P+ + Y V + Q ++ K GI + +K + V Sbjct: 119 HEVMNPNKHVSKTYEVYSKHPITQFDIDKFKSGIELSDGKLKPA----ILKKVDDYVSHV 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + EGK ++K++F +V L RI +L L GS R +++ Sbjct: 175 TIYEGKYHQVKRMFHSIENEVLELKRIKIAQLELDHNLDLGSYRLLTQ 222 >gi|323975348|gb|EGB70451.1| RNA pseudouridylate synthase [Escherichia coli TW10509] Length = 290 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 69/293 (23%), Positives = 126/293 (43%), Gaps = 9/293 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 3 PDSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 AE L +KP+G+V+T D + R + D + + RV +GRLD +++GL+ LTN Sbjct: 62 REAEDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 176 VFRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKL 235 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++V A ++ + + + R N + ++KK Sbjct: 236 IENSTSEVKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKK 288 >gi|145224079|ref|YP_001134757.1| pseudouridine synthase [Mycobacterium gilvum PYR-GCK] gi|315444416|ref|YP_004077295.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium sp. Spyr1] gi|145216565|gb|ABP45969.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium gilvum PYR-GCK] gi|315262719|gb|ADT99460.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium sp. Spyr1] Length = 247 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 74/239 (30%), Positives = 112/239 (46%), Gaps = 4/239 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLR 68 + R+ KV+++AGIASRR E+MI RV+V+ ++ V + I VDG + Sbjct: 3 DNDGVRLQKVLSQAGIASRRVAEKMIRDGRVEVDDRIVTELGTRVDPAESVIRVDGARIT 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLT 125 + +KP G+ +T SD GR V D + ++ VGRLD +TEGLLLLT Sbjct: 63 VDDTLVHLAINKPRGMHSTMSDDRGRPCVGDLVEHRVRGNKKLFHVGRLDADTEGLLLLT 122 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + + Y G V + L++G+ + L Sbjct: 123 NDGELAHRLMHPSYEVPKSYVATVLGSVPRGLGRKLREGVELDDGPVQVDDFALVDTTPG 182 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V V L EG+ ++++ + V L+R G LG GS R +++K + E Sbjct: 183 RTLVRVTLHEGRKHIVRRLLAEVGFPVQNLVRTDIGGVSLGDQRPGSIRALTQKEIGEL 241 >gi|150391402|ref|YP_001321451.1| pseudouridine synthase [Alkaliphilus metalliredigens QYMF] gi|149951264|gb|ABR49792.1| pseudouridine synthase [Alkaliphilus metalliredigens QYMF] Length = 243 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 75/235 (31%), Positives = 116/235 (49%), Gaps = 8/235 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAE 71 QR+ K++A G SR ++ R+ Q V VNG +++ ++ +V D I V G Sbjct: 4 TQRLDKILANLGHGSRSDIRRLCRQGVVTVNGAVVKSSSQHVEPENDKITV-GEEEIYYR 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGG 129 + +KP +++ D + TV D L S + V VGRLD +TEGLL+LTNDG Sbjct: 63 EFVYIMMNKPQDVISATEDFKEK-TVVDLLESKYQAFDVFPVGRLDKDTEGLLMLTNDGK 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AW 188 LA L P + Y + G V + +KGI I+ M L K + Sbjct: 122 LAHQLLSPKKHVPKTYYAKIEGVVTDADVEAFEKGIFIE-ENLQTMPSQLKILKADEISE 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 V V + EGK ++K++F+ + +V L R+S G L L G+ RE+S++ L+ Sbjct: 181 VEVTIYEGKYHQVKRMFQATDKEVVYLKRLSMGSLMLDNSLDLGTYRELSEEELQ 235 >gi|312135036|ref|YP_004002374.1| RNA-binding S4 domain-containing protein [Caldicellulosiruptor owensensis OL] gi|311775087|gb|ADQ04574.1| RNA-binding S4 domain protein [Caldicellulosiruptor owensensis OL] Length = 233 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 65/232 (28%), Positives = 112/232 (48%), Gaps = 11/232 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K + G SR +V+++I + V VNG + + D +EVDG ++ + R Sbjct: 1 MRLDKFLTHCGFGSRTQVKKLIREGIVTVNGKQIVEVDFKINPEEDVVEVDGRIVKFS-R 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 + +KP G V ++ DP TVF + + +VGRLD + EGLL++T+DG Sbjct: 60 WIYIMMNKPKGYVCSNEDPMS-LTVFSLISDDLKHRDLHTVGRLDKDAEGLLIITDDGEY 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 + P + + Y VR +VD+++L + GI++ G + T+ + V Sbjct: 119 THRVISPKKRIEKEYLVRLEKEVDEERLKEFENGIILDDGYKTLPAKYTI----IDSTTV 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + + EGK ++K++FE KV L R G L +L G R + ++ Sbjct: 175 KLCIYEGKYHQVKRMFEAIGNKVVDLKRRRIGGLNLDESLKPGEYRLMKEEE 226 >gi|312883597|ref|ZP_07743322.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio caribbenthicus ATCC BAA-2122] gi|309368820|gb|EFP96347.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio caribbenthicus ATCC BAA-2122] Length = 311 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 102/309 (33%), Positives = 146/309 (47%), Gaps = 10/309 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ KV+ARAG SRRE+E +I RV VNG++ + +DG + + Sbjct: 3 EKLQKVLARAGHGSRRELEALIKAGRVSVNGVVARLGERLEDENAVVRIDGHIVSAKAQE 62 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V + K+ L +G+ ++ V G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVTEQKVKNLVRGVELEDGLARFEDVVYAGGDGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LREQ 244 V + EG+NRE+++++E + V+RL R+ YG L L G E+ K LRE Sbjct: 183 FYVAINEGRNREVRRLWESQDTTVSRLKRVRYGDIYLDKKLPRGGWMELDLKEVNYLREL 242 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN-GLSKQKKLAT 303 + ++ ++ + S + I V R+ N KK A Sbjct: 243 VELRPEKQTLLDENKANSSRKRERSRSQKIRRAVKRHEERVNSGGRSNNPARRNPKKGAG 302 Query: 304 PVHRRNLAS 312 + R+ Sbjct: 303 KANTRSKQR 311 >gi|306820425|ref|ZP_07454061.1| ribosomal large subunit pseudouridine synthase B [Eubacterium yurii subsp. margaretiae ATCC 43715] gi|304551500|gb|EFM39455.1| ribosomal large subunit pseudouridine synthase B [Eubacterium yurii subsp. margaretiae ATCC 43715] Length = 232 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 71/228 (31%), Positives = 123/228 (53%), Gaps = 4/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-R 72 R++K IA SRR+ + +I ++VK+NG +LE A V D +E+DG + + + Sbjct: 1 MRINKFIATKTAYSRRKADELIKDKKVKINGEVLENLAYTVNDDDEVELDGRIISDIKVK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L++KP +V+T SD GR + D P S V VGRLD ++ GL+++TNDG LA Sbjct: 61 KYYYLFNKPKNVVSTVSDEFGRYCITDFFPPDIS-VFPVGRLDYDSTGLIIVTNDGDLAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + PS + Y G++ + ++ + +G+VI ++ L S + Sbjct: 120 KIAHPSHHVKKTYIATLDGRLSEAQMKIFSEGVVIDSKKTLPAEIEL--YDFSETQYKIS 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EG+NR+I+K+ + V L RIS G +LG ++ G R+++++ Sbjct: 178 IYEGRNRQIRKMIDVLGRNVRELKRISIGKIKLGRIVEGKYRKLTEEE 225 >gi|283471019|emb|CAQ50230.1| RNA pseudouridine synthase family protein [Staphylococcus aureus subsp. aureus ST398] Length = 231 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 60/228 (26%), Positives = 106/228 (46%), Gaps = 9/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKISVRGELIEYVEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G ++ D TV D +P + VGRLD +TEGLLL+TNDG Sbjct: 61 -VYIMLNKPKGYISATED-HHSKTVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + ++ + K+G+ + +T + S+ V Sbjct: 119 HELMSPNKHVSKKYEVISANPITEEDIQAFKEGVTLSDGKVKPAILTYIDNQTSH----V 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + EGK ++K++F +V L RI +L L +G R +++ Sbjct: 175 TIYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYRLLTE 222 >gi|324996011|gb|EGC27922.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK678] Length = 242 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 68/234 (29%), Positives = 113/234 (48%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + D I V G L E+ Sbjct: 1 MRLDKFLAENGLGSRAQVKQILKKGLVLVNGRAEKSPKTQIDERADEIVVSGQRLTY-EK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L + V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPQGVISATED-DRHQTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAW 188 A + P ++YR + G ++Q + GI ++ Q+ + + + Sbjct: 119 AHAMLSPKKHVEKIYRAQVAGLMEQADVERFAAGIELKDFTCQPAQLKILELDEAKETSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V + L EGK ++K++ +V L R++ GP Q L G R +++ + Sbjct: 179 VEITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQSDPALALGEWRRLTEVEM 232 >gi|222529211|ref|YP_002573093.1| pseudouridine synthase [Caldicellulosiruptor bescii DSM 6725] gi|222456058|gb|ACM60320.1| pseudouridine synthase [Caldicellulosiruptor bescii DSM 6725] Length = 233 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 66/232 (28%), Positives = 112/232 (48%), Gaps = 11/232 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K + G SR +V+++I + V VNG + + D IEVDG + K + Sbjct: 1 MRLDKFLTHCGFGSRSQVKKLIREGIVTVNGKQIVEVDFKINPEEDIIEVDGR-VAKFSK 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G V ++ + TVF + + + +VGRLD + EGLL++T+DG Sbjct: 60 QIYIMMNKPKGYVCSNEEL-ASLTVFSLISDDLKYRDLHTVGRLDKDAEGLLIITDDGEY 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 + P + + Y VR +VD++KLN + GI++ G + T+ + V Sbjct: 119 THRVISPKKRIEKEYLVRLEKEVDEEKLNEFENGIILDDGYKTLPAKYTI----IDSTTV 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + + EGK ++K++FE KV L R+ G L +L G R + + Sbjct: 175 KLCIYEGKYHQVKRMFEAIGNKVVDLKRLRIGGLNLDQSLKPGEYRVMKVEE 226 >gi|330445592|ref|ZP_08309244.1| 23S rRNA pseudouridine 2605 synthase [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|328489783|dbj|GAA03741.1| 23S rRNA pseudouridine 2605 synthase [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 364 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 103/349 (29%), Positives = 157/349 (44%), Gaps = 8/349 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--- 69 +++ KV+ARAG SRRE+E MI RV V+G++ + T ++ VDG + Sbjct: 2 SEKLQKVLARAGQGSRREIELMIQNGRVSVDGVVAKLGDRLEDMTANVRVDGHRIELISS 61 Query: 70 -AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTND 127 E R+ Y+KP G + T DP+GR TVFD LP + + R +SVGRLD NT GLLL T D Sbjct: 62 DEEICRILAYNKPEGELCTRHDPEGRRTVFDRLPRLNTGRWVSVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS R Y VR G V + + L KG+ ++ V +G N Sbjct: 122 GELANRLMHPSRTVEREYMVRVFGDVTEQMVKNLVKGVELEDGLARFEDVVYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 V + EG+NRE++++++ V+RL R+ YG L + G E+ K + E Sbjct: 182 TFYVVITEGRNREVRRLWDSQGVTVSRLKRVRYGDVYLTKDMPRGGWSELELKEVNELRA 241 Query: 247 P-HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 L E + L + +R + + N+ + G + ++ Sbjct: 242 TVELPPETETALTVEGQKRKKGIRQIRRAVRRHEERIETGNGNARGRRGRNNDRRNPGAS 301 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 ++ S +G S G+ N P KR +A + Sbjct: 302 RNADVESQQNERRGSGRSQPVK-GRDNRNDSGKPQSSGKRKPSGNAANR 349 >gi|322390862|ref|ZP_08064371.1| ribosomal small subunit pseudouridine synthase A [Streptococcus parasanguinis ATCC 903] gi|321142447|gb|EFX37916.1| ribosomal small subunit pseudouridine synthase A [Streptococcus parasanguinis ATCC 903] Length = 242 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 69/237 (29%), Positives = 114/237 (48%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ SR EV++++ Q+++ VNG + + D + G L E Sbjct: 1 MRLDKFLVDCGMGSRTEVKQLLKQKKIAVNGKKETAGKLQIDPGKDRVTFMGEDLVH-ET 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L +KP G+++ D D TV D L V VGRLDI+T GLLLLTN+G L Sbjct: 60 FVYYLLNKPAGVISATED-DHHQTVLDLLDETARHKEVFPVGRLDIDTHGLLLLTNNGKL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AW 188 A + P ++YR + G +D+ + + GI ++ ++ + +N ++ Sbjct: 119 AHAMLSPKKHVSKIYRAQVAGIMDEADVARFEAGIALKDFTTLPARLQILEVNEANASSY 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 V + + EGK ++K++ +V L RIS GP L TL G R + L+ Sbjct: 179 VEIEIAEGKFHQVKRMVAACGKEVVDLERISMGPLMLDPTLQLGEWRRLQPSELKSL 235 >gi|281492918|ref|YP_003354898.1| ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. lactis KF147] gi|281376570|gb|ADA66056.1| Ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. lactis KF147] Length = 273 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 71/254 (27%), Positives = 116/254 (45%), Gaps = 11/254 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH- 59 + D + + R+ K +A +G+ SR EV+ ++ + RV V G + V Sbjct: 19 LTDLSAKSDIIKDMRLDKFLAESGLGSRSEVKILLKKGRVTVAGEVQRDGRFQVDKNSRQ 78 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINT 118 + DG L E +L +KP GLV+ D ++ V F + VGRLD NT Sbjct: 79 VAFDGEILDYQE-YYYYLLNKPQGLVSATKDNLFKTVVQLLSEKDFREDIFPVGRLDKNT 137 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQV 177 EGLL+LTNDG L L P + Y R G+V + +N +G+ ++ G ++ Sbjct: 138 EGLLILTNDGALGHDLTQPKKHVEKEYFARIDGKVTDEIVNKFAEGLTLKNGEKARPGEL 197 Query: 178 TL------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLA 230 + ++Q G + + V + EGK ++K++FE V L RI G L L Sbjct: 198 FIENIYKGESQSGWISEIRVIIHEGKFHQVKRMFEAVEMYVLYLKRIRMGNLALDSDLAL 257 Query: 231 GSTREVSKKILREQ 244 G+ R ++ + + Sbjct: 258 GAYRPLTTEEIENL 271 >gi|261867923|ref|YP_003255845.1| ribosomal large subunit pseudouridine synthase B [Aggregatibacter actinomycetemcomitans D11S-1] gi|261413255|gb|ACX82626.1| ribosomal large subunit pseudouridine synthase B [Aggregatibacter actinomycetemcomitans D11S-1] Length = 328 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 107/290 (36%), Positives = 155/290 (53%), Gaps = 12/290 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLR-- 68 +++ KV+ARAG SRRE+E +IA+ RV V+G + +NV + + +DG + Sbjct: 39 EGEKLQKVLARAGQGSRREIEAIIAENRVSVDGKIATLGDRINVYAGVKLRIDGHLINLT 98 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLT 125 + E R+ +Y+K G + T DP+GR+TVFD LP +R I+VGRLDINT GLLL T Sbjct: 99 QAQKEVCRVVMYYKAEGELCTRHDPEGRATVFDRLPRLTGARWIAVGRLDINTSGLLLFT 158 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQVD LN LKKG+ ++ ++ + G Sbjct: 159 TDGELANRLMHPSREVEREYSVRVFGQVDDAMLNRLKKGVQLEDGPANFKEIKVVGGVGM 218 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI---L 241 N W V L EG+NRE+++++E +V+RLIRI YG +L TL G +E+ L Sbjct: 219 NQWFDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKTLPRGGWQEMELADVNYL 278 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 RE +G L E + L A + + + R K + + Sbjct: 279 RELVG--LPPETETKLGANKTRHKPKFGQIRKAVKRYSELNKRYKNSKNS 326 >gi|49484000|ref|YP_041224.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus MRSA252] gi|257425866|ref|ZP_05602290.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus 55/2053] gi|257428533|ref|ZP_05604931.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus 65-1322] gi|257431166|ref|ZP_05607543.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus 68-397] gi|257433848|ref|ZP_05610206.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus E1410] gi|257436765|ref|ZP_05612809.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus M876] gi|282904328|ref|ZP_06312216.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus C160] gi|282906153|ref|ZP_06314008.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus Btn1260] gi|282909070|ref|ZP_06316888.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus WW2703/97] gi|282911378|ref|ZP_06319180.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus WBG10049] gi|282914547|ref|ZP_06322333.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus M899] gi|282919515|ref|ZP_06327250.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus C427] gi|282924893|ref|ZP_06332559.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus C101] gi|283958507|ref|ZP_06375958.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus A017934/97] gi|293503625|ref|ZP_06667472.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus 58-424] gi|293510641|ref|ZP_06669346.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus M809] gi|293537182|ref|ZP_06671862.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus M1015] gi|295428329|ref|ZP_06820958.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus EMRSA16] gi|297590707|ref|ZP_06949345.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus MN8] gi|49242129|emb|CAG40829.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus MRSA252] gi|257271560|gb|EEV03706.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus 55/2053] gi|257275374|gb|EEV06861.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus 65-1322] gi|257278114|gb|EEV08762.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus 68-397] gi|257281941|gb|EEV12078.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus E1410] gi|257284116|gb|EEV14239.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus M876] gi|282313259|gb|EFB43655.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus C101] gi|282317325|gb|EFB47699.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus C427] gi|282321728|gb|EFB52053.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus M899] gi|282325073|gb|EFB55383.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus WBG10049] gi|282327334|gb|EFB57629.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus WW2703/97] gi|282331445|gb|EFB60959.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus Btn1260] gi|282595946|gb|EFC00910.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus C160] gi|283790656|gb|EFC29473.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus A017934/97] gi|290920027|gb|EFD97095.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus M1015] gi|291095291|gb|EFE25556.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus 58-424] gi|291466532|gb|EFF09053.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus M809] gi|295127729|gb|EFG57366.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus EMRSA16] gi|297575593|gb|EFH94309.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus MN8] gi|312437790|gb|ADQ76861.1| ribosomal small subunit pseudouridine synthase A [Staphylococcus aureus subsp. aureus TCH60] gi|315195667|gb|EFU26054.1| RNA pseudouridine synthase [Staphylococcus aureus subsp. aureus CGS00] Length = 231 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 61/228 (26%), Positives = 106/228 (46%), Gaps = 9/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKISVRGELIEYVEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G ++ D TV D +P + VGRLD +TEGLLL+TNDG Sbjct: 61 -VYIMLNKPKGYISATED-HHSKTVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + ++ + K+GI + +T + S+ V Sbjct: 119 HELMSPNKHVSKKYEVISANPITEEDIQAFKEGITLSDGKVKPAILTYIDNQTSH----V 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + EGK ++K++F +V L RI +L L +G R +++ Sbjct: 175 TIYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYRLLTE 222 >gi|87120132|ref|ZP_01076028.1| putative pseudouridine synthase [Marinomonas sp. MED121] gi|86164834|gb|EAQ66103.1| putative pseudouridine synthase [Marinomonas sp. MED121] Length = 376 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 70/336 (20%), Positives = 137/336 (40%), Gaps = 14/336 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T R++K I+ +G+ SRRE +R I Q V +N V D + V+G + E Sbjct: 5 TSTRLNKYISESGMCSRREADRFIEQGNVFINKKRA-EVGDQVNPGDVVRVNGAKIEPPE 63 Query: 72 --RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +KP+G+V+T + + V + SR+ +GRLD +++GL+ LT++G Sbjct: 64 AEDLVFIALNKPVGIVSTTEMEEPDNMVS--FVNHSSRIFPIGRLDKDSQGLIFLTSNGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + +D +N + G+ + G +V + + Sbjct: 122 LVNKILRAGNNHEKEYVVTVDKPLTEDAINTMASGVPMLGTKTKKCKVV----QEAPNVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ EF ++V L R+ L L G R++++K + E + Sbjct: 178 RIFLVQGLNRQIRRMCEFCGYQVTELERVRIMNISLKGLPVGDWRDLTEKEMTEL--SKM 235 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 +E + + + + + S+ S ++ S + R+ Sbjct: 236 IEHSSSEDTSKQKPAPAKAKSKGRSNSKSFSKSKAQAAESRKEKSQSSKPASKGKSDGRS 295 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 K ++ G+ + RS S + Sbjct: 296 RP---GEGKNESGRGKNEGGRGKAPLNRSRSGEGGK 328 >gi|218297269|ref|ZP_03497913.1| RNA-binding S4 domain protein [Thermus aquaticus Y51MC23] gi|218242409|gb|EED08950.1| RNA-binding S4 domain protein [Thermus aquaticus Y51MC23] Length = 235 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 80/242 (33%), Positives = 121/242 (50%), Gaps = 8/242 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ ++ARAG+ASRR+ E +I Q V+VNG + V D +EV G + Sbjct: 1 MKAMRLQALLARAGVASRRQAEVLIRQGLVRVNGEVA-HLGQKVGPDDLVEVAGRRVEWP 59 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G TT SDP R TVF+ LP + + +VGRLD +EGLLL TNDG L Sbjct: 60 RERLVLALHKPRGYTTTRSDPHARRTVFELLPEV-PGLQAVGRLDRESEGLLLFTNDGEL 118 Query: 131 ARVLELPSTQWLRVYRVRFH-GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L P +VYRV G + + L +G+ ++ + + + Sbjct: 119 LFRLTHPRYGVKKVYRVWTERGTLPEAVCRKLVEGVALEDG-----PARALSCRPAQGGA 173 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L EG+ RE++++ + + V RL+R+ GP +LG L G R +S + ++ L Sbjct: 174 ILTLGEGRKREVRRMLQAVGYPVKRLLRLQVGPIRLGNLPPGRWRRLSPEEVQALLKEVG 233 Query: 250 LE 251 LE Sbjct: 234 LE 235 >gi|270292060|ref|ZP_06198275.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. M143] gi|270279588|gb|EFA25430.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sp. M143] Length = 240 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 69/231 (29%), Positives = 110/231 (47%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDEIRFDGQVLEYEE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ +KP G+++ D R TV D L V VGRLDI+T GLLLLTNDG L Sbjct: 60 FVYYMMNKPQGVISATEDSKHR-TVLDLLDDVARSKEVFPVGRLDIDTHGLLLLTNDGQL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAW 188 A L P + Y + G + Q+ + +GI ++ ++ L + + + + Sbjct: 119 AHALLSPKRHVDKTYLAQVEGIMTQEDVETFAEGIPLKDFTCQPARLELVSVDPEKNQSL 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSK 238 V V + EGK ++K++ + +V L R++ G L L G R ++K Sbjct: 179 VRVTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGALILDEKLKRGEWRRLTK 229 >gi|260102596|ref|ZP_05752833.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus helveticus DSM 20075] gi|260083623|gb|EEW67743.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus helveticus DSM 20075] Length = 236 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 68/229 (29%), Positives = 114/229 (49%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I + V VNG +++ V +D + VDG + ++ Sbjct: 1 MRIDKYLANMNVGSRKEVHVLIKKGIVTVNGDVVKTPKQQVKESDEVLVDGQEVNY-QKY 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G+++ D R+ + P + + VGRLD +T GLLLLTNDG L Sbjct: 60 HYFLMNKPKGVLSATEDRSQRTVISLLKPQDQYQGITPVGRLDKDTTGLLLLTNDGQLNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN--AWV 189 L P+ ++YR + G D + + G+ + G ++ + Q + + + Sbjct: 120 ELLAPNKHVDKIYRAKIAGVADDETVKTFASGMTLGDGTKLKPAELKILAQDEEHDSSEI 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 + +REGK +IK++F KV L RIS G +L L G+ E+S Sbjct: 180 EIKIREGKYHQIKRMFGAVGMKVVELERISMGKLKLPKDLKRGNYIELS 228 >gi|168821347|ref|ZP_02833347.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|238913060|ref|ZP_04656897.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] gi|205342140|gb|EDZ28904.1| ribosomal large subunit pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|320088621|emb|CBY98379.1| pseudouridylate synthase [Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1] Length = 289 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 70/293 (23%), Positives = 131/293 (44%), Gaps = 10/293 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V++ D ++V+G + Sbjct: 3 TDTSIRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDVVKVNGRLIEP 61 Query: 70 AE--RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E L +KP+G+V+T D + R + D + + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKL 235 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ A T ++ RP + E ++ R + + ++KK Sbjct: 236 IERSSSEAKPKAKAKPKTTGIK-RPVVAIEKSNEKARPASSGKRFTSPGRKKK 287 >gi|329929427|ref|ZP_08283175.1| pseudouridylate synthase [Paenibacillus sp. HGF5] gi|328936514|gb|EGG32959.1| pseudouridylate synthase [Paenibacillus sp. HGF5] Length = 243 Score = 250 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 72/235 (30%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERTRL 75 KV++ G SR E+++ Q + VNG + + +V D IE +G ++ E Sbjct: 2 DKVLSNLGFGSRAELKKKAKQGSIVVNGTITKDPGKHVDPYADIIEFEGETIQYRE-YVY 60 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G+V+ D R TV D L + + VGRLD +TEGLLLLTNDG LA Sbjct: 61 LMLHKPPGVVSATEDLRDR-TVLDLLDAEYRVFEPFPVGRLDKDTEGLLLLTNDGKLAHE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN-----A 187 L P + Y G+VD++ + G+ + G ++ + + + + Sbjct: 120 LLSPRKHIPKTYEATVEGRVDEEDVRRFAAGVTLDDGYVTLPGELAIHSHEEREDGDQLS 179 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 +++ + EGK ++K++FE KV L RIS G +L L G+ RE++++ L Sbjct: 180 RISLTIHEGKFHQVKRMFEAVGKKVVYLKRISMGELRLDENLEIGTYRELTEQEL 234 >gi|260768255|ref|ZP_05877189.1| ribosomal small subunit pseudouridine synthase A [Vibrio furnissii CIP 102972] gi|260616285|gb|EEX41470.1| ribosomal small subunit pseudouridine synthase A [Vibrio furnissii CIP 102972] Length = 233 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 56/230 (24%), Positives = 98/230 (42%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A ++R+E +++ V V+G + + +V V + L Sbjct: 1 MRLDKFLCDALGSTRKEATQILKSGDVTVDGKVQKSGSVQVTEASVVAWQERQLSLT-GP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + +KP G V +H D T F L + GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLYKPEGFVCSHEDGFN-QTAFVLLDEVNMRGLHFAGRLDVDTTGLVLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV V D L GI ++ + ++ V + Sbjct: 119 RITSPKHKCDKTYRVWLADAVQADYAEKLAHGIELRNERELTLPAHMELVNADENEVLLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L +L G R +++ + Sbjct: 179 IHEGKYHQVKRMFAALGNKVEALHRERVGDIVLDESLEPGEYRYLTEAEV 228 >gi|307328933|ref|ZP_07608102.1| pseudouridine synthase [Streptomyces violaceusniger Tu 4113] gi|306885443|gb|EFN16460.1| pseudouridine synthase [Streptomyces violaceusniger Tu 4113] Length = 366 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 76/233 (32%), Positives = 121/233 (51%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ + V D I+VDG+ + Sbjct: 126 EVEGERLQKVLARAGMGSRRACEELIDQARVEVNGKIVTEQGLRVDPEKDEIKVDGLTV- 184 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + +KP G+V+T DPDGR + D + + +R+ VGRLD TEG++LLTN G Sbjct: 185 ATQSYLFFALNKPAGVVSTMEDPDGRQCLGDYVTNRETRLFHVGRLDTETEGIILLTNHG 244 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + Y G + +D LK GI ++ + G N Sbjct: 245 ELAHRLTHPRYGVKKTYLAAIQGPLPRDLGKRLKSGIELEDGYARADHFRVVQNTGKNYL 304 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V++L+R ++GP LG +G R ++ + Sbjct: 305 VEVTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPIALGDQKSGWLRRMTNTEV 357 >gi|254506983|ref|ZP_05119121.1| ribosomal large subunit pseudouridine synthase B [Vibrio parahaemolyticus 16] gi|219549978|gb|EED26965.1| ribosomal large subunit pseudouridine synthase B [Vibrio parahaemolyticus 16] Length = 322 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 102/309 (33%), Positives = 148/309 (47%), Gaps = 9/309 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ KV+ARAG SRRE+E +I RV VNG++ + + +DG + + Sbjct: 3 EKLQKVLARAGHGSRRELEALIKAGRVSVNGVVAKLGERLEDENAIVRIDGHTVSAKAQE 62 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDG 128 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T DG Sbjct: 63 EVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V + K+ L +G+ ++ V G N Sbjct: 123 ELANRLMHPSRQVEREYLVRVFGEVTEQKVKNLVRGVELEDGMARFEDVVYAGGDGMNHT 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK---ILREQ 244 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LRE Sbjct: 183 FYVAINEGRNREVRRLWESQETTVSRLKRVRYGDIYLDKKLPRGGWMELDLKQVNYLREL 242 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 + +E ++ + S + I V R+ + N S++K Sbjct: 243 VELRPEKETLLDENKANSSRKRERSRSQKIRRAVKRHEERVNSGGGRSNNPSRRKPRKGA 302 Query: 305 VHRRNLASN 313 + + A Sbjct: 303 GEQGSRAKQ 311 >gi|328948658|ref|YP_004365995.1| RNA-binding S4 domain protein [Treponema succinifaciens DSM 2489] gi|328448982|gb|AEB14698.1| RNA-binding S4 domain protein [Treponema succinifaciens DSM 2489] Length = 247 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 77/246 (31%), Positives = 123/246 (50%), Gaps = 5/246 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M N ++ R+ + +A+ G+ASRR E +I RV VNG ++ V D + Sbjct: 1 MPVNNSKEKKEDVMRLQQYMAKCGVASRRASEAIICAGRVTVNGTVVTELGTKVDVQDKV 60 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTE 119 VD + E+ L +KP G V + SD GR D L +S R+ +VGRLD+ + Sbjct: 61 CVDEKEIHLEEKKCYVLLNKPSGYVCSASDEKGRPVAADLLKEAYSERLYNVGRLDMFSS 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GL++ TNDG A L PS + + Y V + + + GI I G+ Y Sbjct: 121 GLIIFTNDGDFAAKLSHPSAELEKEYIVDTSLPMPRFLADDFMDGIRIDGVFYRCK---- 176 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 D ++ ++ + + L EGKNREI++VFE + + L+RI G +G L G R++++ Sbjct: 177 DARELNSHRMRIVLVEGKNREIRRVFEKYEVGIKSLMRIRIGCVGVGELQFGQFRDLTQD 236 Query: 240 ILREQL 245 ++ L Sbjct: 237 EVKALL 242 >gi|114046458|ref|YP_737008.1| pseudouridine synthase, Rsu [Shewanella sp. MR-7] gi|113887900|gb|ABI41951.1| Pseudouridine synthase, Rsu [Shewanella sp. MR-7] Length = 236 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 71/236 (30%), Positives = 120/236 (50%), Gaps = 11/236 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLE-RAAVNVMST----DHIEVDGVPLR 68 R++K +A+ GI+SRRE R+I R+ +NG + + AV+V + D + +D P+ Sbjct: 1 MRLAKYLAQCGISSRREACRLIEAGRISLNGKIAKHTDAVHVDADGHCLDSLCLDEKPIS 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 AE W+++K +G D D +S++ LP+ R+ VGRLD ++ GLLLLTNDG Sbjct: 61 GAEALSYWIFNKAVGTDCRLLDAD-KSSLLHLLPTT-PRLYPVGRLDKDSRGLLLLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L PS + Y V+ + + + G+ + + QVT + S+ Sbjct: 119 ELTHKLMHPSFAHSKTYHVQLDRPFNDAFIEQMASGVQYKEVRTLPCQVT----RLSDVS 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+++ +KV L R++ LG+L G R +S + + Sbjct: 175 FEIVLTQGLNRQIRRMSNALGYKVVDLQRVALMTLTLGSLAEGEMRPLSPEEVTAL 230 >gi|325954781|ref|YP_004238441.1| pseudouridine synthase Rsu [Weeksella virosa DSM 16922] gi|323437399|gb|ADX67863.1| pseudouridine synthase Rsu [Weeksella virosa DSM 16922] Length = 297 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 69/302 (22%), Positives = 140/302 (46%), Gaps = 10/302 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E R++K I+ +G SRRE ++ I ++V VNG + + +V D + V+ + ++ Sbjct: 2 ERKETIRLNKFISDSGYCSRREADQYIENRQVYVNGRIAK-VGQHVQLHDQVVVNNIEIK 60 Query: 69 KAERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 ++ +KP+G+ T +DP+ + + D L S R+ +GRLD +++GL+LLT+ Sbjct: 61 PRDKEMAIYIALNKPVGITCT-TDPNDPTNIIDFL-SFGERIFPIGRLDKDSQGLILLTS 118 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + + + Y V + D ++ G+ I G+ V +K + Sbjct: 119 DGDIVNKILRAGNKHEKEYIVTVDKPITDDFCTKMENGVPILGVNTKKCTV----EKLNT 174 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ E+F+++V +L R L + G R+++K+ L E Sbjct: 175 NTFKIILIQGLNRQIRRMCEYFDYRVTKLERTRIMNIDL-NVPIGQYRDLTKEELMELKR 233 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 E A +++ + ++ + R+ + + + K K P Sbjct: 234 LTAQSEQHEKAKANKKTAKKKSTTKKTVLEKDTTPKKRITRKPKSQPRIGKSKPPEKPKR 293 Query: 307 RR 308 +R Sbjct: 294 KR 295 >gi|32472361|ref|NP_865355.1| ribosomal large subunit pseudouridine synthase B [Rhodopirellula baltica SH 1] gi|32443597|emb|CAD73039.1| ribosomal large subunit pseudouridine synthase B [Rhodopirellula baltica SH 1] Length = 395 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 95/337 (28%), Positives = 160/337 (47%), Gaps = 4/337 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+++++A AG SRR+ E +I + RV V+G + V + VDG LR ++ Sbjct: 26 RINQLLASAGFGSRRQCEELIREGRVDVDGETITELGTTVDPDLQKVRVDGNYLR-PQKL 84 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP+G+VTT+ DP GR V D +P RV VGRLDI++EGL+LLTNDG LA+ Sbjct: 85 VYYVVNKPVGIVTTNRDPRGRPRVIDLVPPT-ERVFPVGRLDISSEGLILLTNDGDLAQK 143 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P +VYRV G+V + + +++GI I + + + + L Sbjct: 144 LAHPKFGIQKVYRVVVAGEVRGETMKKMREGIYIAEGLVQVDGAKIIKARTKATEMEIRL 203 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +EGKNREI+++ F KV +L R++ GP +LG + G+ R++++ + ++L + Sbjct: 204 KEGKNREIRRILARFGHKVQQLRRVAIGPLKLGDVPRGAYRKLTRDEV-DKLRRSIDAAE 262 Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASN 313 + AP + + + + G K K + R+ A+ Sbjct: 263 KAAKTAPPARPASKQSIKRRPGGASRNVAAKGTGGRPAFKGGRKAVKKSRTTETRSSATG 322 Query: 314 VWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 +K + LS G S++ R Sbjct: 323 PKTSKPVKKRTLSSGGSTGTVIGADAPKESRKKTERG 359 >gi|315179963|gb|ADT86877.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio furnissii NCTC 11218] Length = 233 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 56/230 (24%), Positives = 98/230 (42%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A ++R+E +++ V V+G + + +V V + L Sbjct: 1 MRLDKFLCDALGSTRKEATQILKSGDVTVDGKVQKSGSVQVTEASVVAWQERQLSLT-GP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + +KP G V +H D T F L + GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLYKPEGFVCSHEDGFN-QTAFVLLDEVNMRGLHFAGRLDVDTTGLVLITDDGQWSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV V D L GI ++ + ++ V + Sbjct: 119 RITSPKHKCDKTYRVWLADAVQADYAEQLAHGIELRNERELTLPAHMELVNADENEVLLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L +L G R +++ + Sbjct: 179 IHEGKYHQVKRMFAALGNKVEALHRERVGEIVLDESLEPGEYRYLTEAEV 228 >gi|239993811|ref|ZP_04714335.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Alteromonas macleodii ATCC 27126] Length = 298 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 96/299 (32%), Positives = 152/299 (50%), Gaps = 13/299 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+A G+ SRRE+ER I + RV V+G V T I VDG L + Sbjct: 2 TEKLQKVLANQGLGSRREMERWIEEGRVSVDGTKAT-LGDRVDHTAQIRVDGHLLSRQTE 60 Query: 73 T---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDG 128 R+ +Y+KP G + + DP+GR TVFD LP+ R I+VGRLD+NT GLLL TNDG Sbjct: 61 QPICRVLMYNKPEGELCSRHDPEGRDTVFDRLPAIRLGRWITVGRLDMNTSGLLLFTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT------LDTQ 182 LA L P + R Y VR G+V L+ L+KG+ ++ + ++ Sbjct: 121 ELANRLMHPKCEVEREYAVRVFGEVTGKTLHTLQKGVELEDGEAKFLTISGAPTPQHAED 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + N W V L+EG+NRE+++++E +V+RLIR+ YGP +L L G+ E+ + + Sbjct: 181 ESMNRWYNVTLKEGRNREVRRLWESQGVQVSRLIRVKYGPIELQKRLPQGAWVELGLEDV 240 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 L H+ + + + + V R ++ +++ G ++K Sbjct: 241 NA-LRSHVQLPDETQTMVNVRQGKLDHARLSRMRRSVKKHKVRKQQGLNKRAGRPAKRK 298 >gi|300214283|gb|ADJ78699.1| Pseudouridine synthase [Lactobacillus salivarius CECT 5713] Length = 240 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 60/234 (25%), Positives = 119/234 (50%), Gaps = 6/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +++ G +R E +++I +RV++NG +++ + + D I +DG L + Sbjct: 3 MRLDKFLSQTGKFTRAEAKKVIKAKRVRLNGEVVKDGKIKINEDSDKIFLDGELLALNNK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV-FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KPIG+V+ D ++ + N P + VGRLD T GLL++TNDG A Sbjct: 63 EVYYMLNKPIGVVSATRDDKDKTVIDLINFPGRKEDLFPVGRLDKETTGLLIITNDGKFA 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLD--TQKGSNAW 188 + P + Y G++ + ++ + +G+ + G Q+ + ++K + Sbjct: 123 HDIISPKKHVSKTYEAVVTGKISEKEVKIFSQGMELANGDKLQPAQLDIISYSEKDDTSK 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V V + EGK +++++F + +V L R+ G +L L G RE++++ L Sbjct: 183 VRVIIHEGKYHQVRRMFGAVSQRVLELDRVKIGLLELDDTLERGEYRELTEEEL 236 >gi|289577308|ref|YP_003475935.1| RNA-binding S4 domain protein [Thermoanaerobacter italicus Ab9] gi|289527021|gb|ADD01373.1| RNA-binding S4 domain protein [Thermoanaerobacter italicus Ab9] Length = 240 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 75/229 (32%), Positives = 112/229 (48%), Gaps = 8/229 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRK 69 R+ K+++ GI +R+EV++ I + V VNG ++ A + V D I DG + Sbjct: 1 MAKMRIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIVDTEFDEILFDGEKINY 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTND 127 E + +KP G+++ DP TV D LP GRLD +TEGLL +TND Sbjct: 61 KE-FIYIMMNKPKGVISATYDP-IEKTVIDLLPQELKARNPFPAGRLDKDTEGLLFITND 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN- 186 G LA L P ++ Y G V++ + K+GIV++ Y + L+ S Sbjct: 119 GNLAHKLLSPKKNVIKKYYAEILGFVNERDIKAFKEGIVLEDG-YKTLPADLEILLSSEV 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 + V V +REGK +IK++FE KV L R++ G L L G R Sbjct: 178 SKVYVYIREGKYHQIKRMFESVGKKVVYLKRLAMGSLTLDENLKPGQWR 226 >gi|71280018|ref|YP_270193.1| ribosomal large subunit pseudouridine synthase B [Colwellia psychrerythraea 34H] gi|71145758|gb|AAZ26231.1| ribosomal large subunit pseudouridine synthase B [Colwellia psychrerythraea 34H] Length = 355 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 95/288 (32%), Positives = 157/288 (54%), Gaps = 10/288 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 ++V KV+ARAG SRRE+E MI++ RV ++G + + T+ I +DG ++ Sbjct: 69 DSEKVQKVLARAGKGSRREMETMISEGRVSIDGKVAF-LGDRITGTEQIRLDGHHVKLTA 127 Query: 72 R----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTN 126 + R+ +Y+KP G + T DP+GR TVFD LP + + R ++VGRLDINT G+LL T Sbjct: 128 QDEDICRVLVYNKPEGEMCTRKDPEGRPTVFDRLPPLDAGRWVAVGRLDINTSGMLLFTT 187 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G++++ L L+ G+ ++ ++T +G N Sbjct: 188 DGELANRLMHPSQKVEREYAVRVFGEINEAMLQTLRAGVKLEDGMARFQKITYRGGEGRN 247 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL---R 242 W V L EG+NRE+++++E + +V+RLIR+ YG ++ L G RE++ K + R Sbjct: 248 HWFHVVLSEGRNREVRRLWESQDVQVSRLIRVRYGDMEMQRQLPMGGWRELALKEVNYYR 307 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 + + E++V +D + R R ++ ++ Sbjct: 308 QLVNLTPEAESKVKVDEKAMDNAKSRRIRRSVKKHQQRHQQSTRRRHK 355 >gi|170727249|ref|YP_001761275.1| pseudouridine synthase [Shewanella woodyi ATCC 51908] gi|169812596|gb|ACA87180.1| pseudouridine synthase [Shewanella woodyi ATCC 51908] Length = 287 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 101/289 (34%), Positives = 146/289 (50%), Gaps = 12/289 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E IA R+ ++G + V + I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRISIDGEIA-NLGDRVEADVKIRIDGRAVSIKSE 60 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+D Sbjct: 61 EDLVCRVIAYHKPEGEICSRKDPEGRPTVFDRLPKTRDSRWVAVGRLDINTSGLLLFTSD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V + L+ G+ ++ +V +G N Sbjct: 121 GELANRLMHPSNEVEREYAVRTFGEVTDACIQRLRTGVTLEDGPAHFDKVKAAGGEGMNK 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILRE 243 W V L EG+NRE+++++E +V+RLIRI YG +L +L G E+ + LR+ Sbjct: 181 WWHVSLAEGRNREVRRLWESQEVQVSRLIRIRYGMIELPKSLPRGGWVELELEQVNYLRQ 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK 292 G L E + L +S I V KN+ Q+ Sbjct: 241 TAG--LAIENRTLLGTDKHSVARAKVKSAKIKRAVNKHKVNAAKNTRQR 287 >gi|168211270|ref|ZP_02636895.1| RNA pseudouridine synthase family protein [Clostridium perfringens B str. ATCC 3626] gi|169347003|ref|ZP_02865945.1| RNA pseudouridine synthase family protein [Clostridium perfringens C str. JGS1495] gi|169296686|gb|EDS78815.1| RNA pseudouridine synthase family protein [Clostridium perfringens C str. JGS1495] gi|170710722|gb|EDT22904.1| RNA pseudouridine synthase family protein [Clostridium perfringens B str. ATCC 3626] Length = 239 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 63/233 (27%), Positives = 114/233 (48%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ KV++ G +R+E+++++ + V VN ++ + + + D I ++G + ++ Sbjct: 2 ERLDKVLSNLGYGTRKEIKQVVKKGFVTVNDEKVKDSGLQIDPEKDTIVINGEKVEY-KK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ D TV D L VGRLD +T GLLLLTNDG L Sbjct: 61 YIYLMMNKPAGVISATYDKRD-ETVIDLLYMEDQVFEPFPVGRLDKDTVGLLLLTNDGDL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 L P +VY + + + + + G+ + G ++ + +A V Sbjct: 120 NHKLISPKYHVDKVYYAEINAPITEKDIKAFENGVTLDDGYKCMSAKLKVIENLEDSARV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V ++EGK ++K++FE KV L R S+G L +L G +E+S+ L Sbjct: 180 EVTVQEGKYHQVKRMFEARGKKVVYLKRTSFGNLPLDESLEEGEYKELSESEL 232 >gi|167624536|ref|YP_001674830.1| pseudouridine synthase [Shewanella halifaxensis HAW-EB4] gi|167354558|gb|ABZ77171.1| pseudouridine synthase [Shewanella halifaxensis HAW-EB4] Length = 290 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 98/288 (34%), Positives = 142/288 (49%), Gaps = 24/288 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E IA RV V+G + V + I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSVDGEIA-SLGDRVETDAKIRIDGRTVSIRSE 60 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ YHKP G + + DP+GR TVFD LP SR ++VGRLDINT GLLL T+D Sbjct: 61 EDVVCRVIAYHKPEGEICSRKDPEGRPTVFDRLPKTRDSRWVAVGRLDINTSGLLLFTSD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V+ + L+ G+ ++ +V +G N Sbjct: 121 GELANRLMHPSNEVEREYAVRTFGEVNDACIQRLRMGVTLEDGPANFDKVKAAGGEGMNK 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS--------- 237 W V L EG+NRE+++++E +V+RLIRI YG +L +L G E+ Sbjct: 181 WWHVSLAEGRNREVRRLWESQEVQVSRLIRIRYGMIELPKSLPRGGWIELPIEQVNYLRK 240 Query: 238 ----KKILREQLG--PHLLEEAQVNLDAPIYS--SETLVRDRPNIISE 277 + R LG H + +V + + RP + Sbjct: 241 TAGMDEETRSILGTDKHSVARNKVRSAKIKRAVHKHKVASGRPKPSRQ 288 >gi|322835106|ref|YP_004215133.1| pseudouridine synthase [Rahnella sp. Y9602] gi|321170307|gb|ADW76006.1| pseudouridine synthase [Rahnella sp. Y9602] Length = 290 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 69/295 (23%), Positives = 130/295 (44%), Gaps = 12/295 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 + R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 5 SSIRLNKYISESGICSRRDADRYIEQGNVFINGRRAA-VGAQVFAGDVVKVNGQIIEPRD 63 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L +KP+G++TT + + R + D + + RV +GRLD +++GL+LLTN G Sbjct: 64 EEDLVLIALNKPVGIITTMEEGE-RDNIRDFV-NHSKRVFPIGRLDKDSQGLILLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + + G+ + G +K + Sbjct: 122 LVNKILRAGNDHEKEYIVTVNKPITDEFIAGMGAGVPMLGTVTK----KCKVKKEAPMVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ + F + V +L R+ L L G R+++ L E L Sbjct: 178 RITLVQGLNRQIRRMTKHFGFDVTKLERVRIMNINLKGLPLGEWRDLTDDELIELF--KL 235 Query: 250 LEEAQV-NLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 +E + + A S+ +P + + S ++ +KK Sbjct: 236 IENSSSEDKPAKKGPSKPAQAKKPAVTKTKNSEKPEANSASRKRFAQPGRKKKGR 290 >gi|118595131|ref|ZP_01552478.1| pseudouridylate synthase [Methylophilales bacterium HTCC2181] gi|118440909|gb|EAV47536.1| pseudouridylate synthase [Methylophilales bacterium HTCC2181] Length = 280 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 90/263 (34%), Positives = 146/263 (55%), Gaps = 8/263 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 +R+ K++A++G SRRE+E+ I + +V VN + + +D I +G + Sbjct: 20 ERIHKLLAQSGYGSRREIEKAILEDKVLVNNQNAK-IGQLITPSDKIIFNGKAIFLNNDN 78 Query: 73 --TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGG 129 R+ +YHKP G + T +DP GRSTVF+ LP I + +S+GRLD NT GLL+ T+ G Sbjct: 79 NLPRVLIYHKPEGEIVTENDPGGRSTVFEKLPRIKKGKWMSIGRLDFNTSGLLIFTSYGE 138 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P + R Y VR G++ +D++ K GI I G + + +G+N W Sbjct: 139 LANRLMHPKYEIEREYSVRILGELSEDQIKEFKSGIDIDGGKAKFESIYFEGGEGANKWY 198 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 V L+EG+NRE++++FE+F+ V+RLIR+ +G L + L G E+++ + L H Sbjct: 199 RVVLKEGRNREVRRMFEYFDLTVSRLIRVRFGIVILPSHLKRGMHTELTQAEVTRLLQKH 258 Query: 249 LLEEAQVNLDAPIYSSETLVRDR 271 +E + + P S++ R Sbjct: 259 DIEPN--DFNKPQLSNQRKRNKR 279 >gi|62182642|ref|YP_219059.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|62130275|gb|AAX67978.1| putative pseudouridine synthase [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|322717140|gb|EFZ08711.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] Length = 289 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 70/293 (23%), Positives = 131/293 (44%), Gaps = 10/293 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V++ D ++V+G + Sbjct: 3 TDTSIRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDVVKVNGRLIEP 61 Query: 70 AE--RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E L +KP+G+V+T D + R + D + + R+ +GRLD +++GL+ LTN Sbjct: 62 READDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRIFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 176 VFRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKL 235 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ A T ++ RP + E ++ R + + ++KK Sbjct: 236 IERSSSEAKPKAKAKPKTTGIK-RPVVAIEKSNEKARPTSSGKRFTSPGRKKK 287 >gi|288904878|ref|YP_003430100.1| ribosomal small subunit pseudouridine synthase A [Streptococcus gallolyticus UCN34] gi|288731604|emb|CBI13159.1| ribosomal small subunit pseudouridine synthase A [Streptococcus gallolyticus UCN34] Length = 238 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 74/239 (30%), Positives = 125/239 (52%), Gaps = 9/239 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ +AG SR +V+++I ++V V+G L E +NV + I V G ++++ Sbjct: 1 MRLDKLLGQAGFGSRNQVKKLIRSRQVYVDGRLAEADNLNVEPSLQKITVSGKQVKQSSE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +L +KP G+V+ SD + TV D + ++ VGRLD +TEGLLL+TN+G L Sbjct: 61 -KYFLLNKPAGVVSAVSDKEH-QTVIDLIKEADCVPKLYPVGRLDRSTEGLLLITNNGPL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWV 189 + P + Y V + + D + G+ ++ + T + Sbjct: 119 GYRMLHPKYHVAKTYYVEVNAFLADDVPAFFENGVSFDDGTICKPAKLEIITASPEKSSA 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS---KKILREQL 245 V + EGK +IKK+F + KV L R+++G FQLG L +G RE++ K+IL+ L Sbjct: 179 YVTISEGKFHQIKKMFLAYGVKVTYLKRLTFGEFQLGDLPSGQYRELTSTEKEILKNYL 237 >gi|257453996|ref|ZP_05619272.1| RNA pseudouridine synthase family protein [Enhydrobacter aerosaccus SK60] gi|257448661|gb|EEV23628.1| RNA pseudouridine synthase family protein [Enhydrobacter aerosaccus SK60] Length = 287 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 98/288 (34%), Positives = 145/288 (50%), Gaps = 8/288 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK- 69 +++ K +AR G+ SRR++E +I + RV VNG + V D I VDG LR Sbjct: 1 MKDEKLQKALARLGLGSRRQMEDVIREGRVSVNGTVAT-IGDRVGQGDEIRVDGRLLRYT 59 Query: 70 ---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLT 125 +R R+ +Y+KP G + + DP+GR TVF+ LP R + VGRLDIN+ GLLL T Sbjct: 60 AENEKRRRILMYYKPEGEICSAHDPEGRPTVFERLPPLNHDRWVMVGRLDINSTGLLLFT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + R Y VR G+V + + LK+G++++ + +G Sbjct: 120 NDGELAHRLMHPSNEIEREYAVRVMGEVTPEIMLNLKRGVMLEDGMAQFDDIVEKGGEGI 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 N W V L+EG+NRE++++FE KV+RL+RI YG L L G E+ ++ + Sbjct: 180 NKWYQVKLKEGRNREVRRLFESQGLKVSRLLRIRYGSVSLPRELRTGRYLELDRREIDTL 239 Query: 245 LGPHLLEEAQ-VNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 G + Q L + +P R K+ S Sbjct: 240 AGLVNIRPRQGTGLYGIAKRRQERFEKKPLKARRGGHYLRRDKEKRSS 287 >gi|313159346|gb|EFR58710.1| pseudouridylate synthase [Alistipes sp. HGB5] Length = 423 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 68/250 (27%), Positives = 127/250 (50%), Gaps = 10/250 (4%) Query: 2 KDKNIVQENFTPQ------RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM 55 DK FTP+ R+++ +A++G+ SRRE + I V VNG ++ + V+ Sbjct: 171 DDKPASYPKFTPEKQIGEMRLNRFLAQSGLCSRREADDFITAGLVTVNGQIVTQLGTKVL 230 Query: 56 STDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRL 114 TD ++ + ++ E+ + +KP G VT+ DP TV + + R+ VGRL Sbjct: 231 PTDEVKFNDSRVQ-GEKKVYLVLNKPKGYVTSLDDPHAGKTVMELVQGACTERIYPVGRL 289 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D N+ GLLL TNDG L + L P+ + ++Y+V + + ++ + +GI ++ Sbjct: 290 DKNSLGLLLFTNDGDLTKQLTHPAFRKKKIYQVSLDKPLTRADMDRIAEGITLEDGEIFA 349 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +++ K + V + + G+NR ++++FEF + V +L R+ Y L G+ R Sbjct: 350 DEISYV--KDNKQEVGIEIHSGRNRIVRRIFEFLGYTVTKLDRVYYAGLTKKNLKRGAWR 407 Query: 235 EVSKKILREQ 244 +S++ + Sbjct: 408 FLSREEVERL 417 >gi|262202716|ref|YP_003273924.1| pseudouridine synthase [Gordonia bronchialis DSM 43247] gi|262086063|gb|ACY22031.1| pseudouridine synthase [Gordonia bronchialis DSM 43247] Length = 329 Score = 250 bits (639), Expect = 3e-64, Method: Composition-based stats. Identities = 74/231 (32%), Positives = 118/231 (51%), Gaps = 4/231 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ KV+A+AG+ASRR E MIA RV+++G ++ + + T I VDG + E Sbjct: 90 RLQKVLAQAGVASRRGAEEMIAAGRVEIDGEIVTEQGLRIDPDTAIIRVDGARVIIDETR 149 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G +T +D GR V D + R+ VGRLD +TEGLLLLTNDG L Sbjct: 150 QYLALNKPRGWQSTMADDQGRPCVGDIVAERVMAGQRLFHVGRLDADTEGLLLLTNDGEL 209 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS + + Y G+V + +L+ G+ + ++T+ + + Sbjct: 210 AHRLMHPSYEVPKTYLATVRGEVPRSLSRMLRDGVELDDGPVAVDKLTIVDVHEGQSLLR 269 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EG+NR ++++ + + V L+R G LG GS R + + + Sbjct: 270 ITLHEGRNRIVRRMMDEVGFPVVELVRTHVGSVALGEQRPGSLRVLGRDEV 320 >gi|161507296|ref|YP_001577250.1| 16S pseudouridylate synthase [Lactobacillus helveticus DPC 4571] gi|160348285|gb|ABX26959.1| 16S Pseudouridylate synthase [Lactobacillus helveticus DPC 4571] gi|328468687|gb|EGF39674.1| 16S pseudouridylate synthase [Lactobacillus helveticus MTCC 5463] Length = 236 Score = 250 bits (639), Expect = 3e-64, Method: Composition-based stats. Identities = 68/229 (29%), Positives = 114/229 (49%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I + V VNG +++ V +D + VDG + ++ Sbjct: 1 MRIDKYLANMNVGSRKEVHVLIKKGIVTVNGDVVKTPKQQVKESDEVLVDGQEVNY-QKY 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP G+++ D R+ + P + + VGRLD +T GLLLLTNDG L Sbjct: 60 HYFLMNKPKGVLSATEDRSQRTVISLLKPQDQYQGITPVGRLDKDTTGLLLLTNDGQLNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN--AWV 189 L P+ ++YR + G D + + G+ + G ++ + Q + + + Sbjct: 120 ELLAPNKHVDKIYRAKIAGVADDETVKTFASGMTLGDGTKLKPAELKILVQDEEHDSSEI 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 + +REGK +IK++F KV L RIS G +L L G+ E+S Sbjct: 180 EIKIREGKYHQIKRMFGAVGMKVVELERISMGKLKLPKDLKRGNYIELS 228 >gi|304310662|ref|YP_003810260.1| Ribosomal large subunit pseudouridine synthase B [gamma proteobacterium HdN1] gi|301796395|emb|CBL44603.1| Ribosomal large subunit pseudouridine synthase B [gamma proteobacterium HdN1] Length = 282 Score = 250 bits (639), Expect = 3e-64, Method: Composition-based stats. Identities = 92/238 (38%), Positives = 136/238 (57%), Gaps = 7/238 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ KV+ARAGI SRR +E IA RV VNG + V D + VDG + + Sbjct: 2 SEKLQKVLARAGIGSRRSMEDWIASGRVSVNGKKAK-VGDRVERGDVLRVDGRSMDYSGE 60 Query: 71 --ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 + R+ +Y+KP G V T +DP+GR TVFD LP R ++VGRLD+NT+GLLL T D Sbjct: 61 DSDSRRMIIYYKPEGEVCTRTDPEGRPTVFDRLPRLDNERWVAVGRLDVNTQGLLLFTTD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS++ R Y R G+V + L+ L+ G+ + ++ +G NA Sbjct: 121 GDLANRLMHPSSEIEREYAARIFGEVTPEMLHNLRTGVQLFDGPAHFDEILHSGGEGMNA 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 W V ++EG+ RE+++++E +V+RLIR+ YG L L AG E+S+ + E Sbjct: 181 WYHVIIKEGRRREVRRMWETQGVQVSRLIRVRYGCVTLPRGLKAGRWEELSEDQISEL 238 >gi|256019605|ref|ZP_05433470.1| 23S rRNA pseudouridine synthase F [Shigella sp. D9] gi|332280733|ref|ZP_08393146.1| 23S rRNA pseudouridine synthase F [Shigella sp. D9] gi|332103085|gb|EGJ06431.1| 23S rRNA pseudouridine synthase F [Shigella sp. D9] Length = 290 Score = 250 bits (639), Expect = 3e-64, Method: Composition-based stats. Identities = 67/293 (22%), Positives = 124/293 (42%), Gaps = 9/293 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 3 PDSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDIVKVNGQLIEP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 AE L +KP+G+V+T D + R + D + + RV +GRLD +++GL+ LTN Sbjct: 62 REAEDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 176 VFRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKL 235 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ ++ + + + R N + ++KK Sbjct: 236 IENSSSEAKPKVKAKPKTAGIKRPLVKMEKTSEKGGRPASNGKRFTSPGRKKK 288 >gi|187934882|ref|YP_001884642.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum B str. Eklund 17B] gi|187723035|gb|ACD24256.1| ribosomal large subunit pseudouridine synthase B [Clostridium botulinum B str. Eklund 17B] Length = 238 Score = 250 bits (639), Expect = 3e-64, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 116/233 (49%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K+I+ G SR+E + + + ++V+G +++ ++V + ++++G + + Sbjct: 2 ERLDKIISNLGYGSRKEAKVLARKGLIEVDGKIIKDSSVTIDPEKSIVKINGEEIFYR-K 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G+++ D TV D L VGRLD +T GLLLLTNDG Sbjct: 61 YIYLMMNKPTGVISATHDSKD-ETVIDLLELDHQIFNPFPVGRLDKDTVGLLLLTNDGEF 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 + P +VY + +V++ KKG+V+ G + ++ + + + V Sbjct: 120 NHRMISPKWHVDKVYYAKIDKEVNEKDQQAFKKGVVLDDGYKCLEAKLDIISASPEGSEV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + ++EGK ++K++FE + KV L R +G L L G RE+S + L Sbjct: 180 RITIQEGKYHQVKRMFEACDKKVVYLKREEFGGLILDENLEEGEYRELSDEEL 232 >gi|108799895|ref|YP_640092.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium sp. MCS] gi|119869005|ref|YP_938957.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium sp. KMS] gi|126435523|ref|YP_001071214.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium sp. JLS] gi|108770314|gb|ABG09036.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium sp. MCS] gi|119695094|gb|ABL92167.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium sp. KMS] gi|126235323|gb|ABN98723.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium sp. JLS] Length = 247 Score = 250 bits (639), Expect = 3e-64, Method: Composition-based stats. Identities = 74/234 (31%), Positives = 112/234 (47%), Gaps = 4/234 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERT 73 R+ KV+++AGIASRR E+MI RV+V+G ++ V T I VDG + + Sbjct: 8 RLQKVLSQAGIASRRVAEKMILDGRVEVDGHIVTELGTRVDPTAADIRVDGTRVLLDDTL 67 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTNDGGL 130 +KP G+ +T SD GR + D + + VGRLD +TEGL+LLTNDG L Sbjct: 68 VHLAINKPRGMHSTMSDDRGRPCIGDLVEHRVRGNKGLFHVGRLDADTEGLMLLTNDGEL 127 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS + + Y G V + L+ G+ + + + V Sbjct: 128 AHRLMHPSYEVPKTYVATVLGTVPRGLGKKLRAGVELDDGPARVDDFAVVDAMPGRSMVR 187 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V L EG+ R ++++ + V L+R G LG GS R +++K + E Sbjct: 188 VTLHEGRKRIVRRLLAAVGFPVQELVRTDIGAVSLGEQRPGSIRVLTRKEIGEL 241 >gi|193063125|ref|ZP_03044217.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli E22] gi|193067850|ref|ZP_03048816.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli E110019] gi|194426901|ref|ZP_03059454.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli B171] gi|260846816|ref|YP_003224594.1| 23S rRNA pseudouridine synthase [Escherichia coli O103:H2 str. 12009] gi|192931384|gb|EDV83986.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli E22] gi|192958825|gb|EDV89262.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli E110019] gi|194415237|gb|EDX31506.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli B171] gi|257761963|dbj|BAI33460.1| 23S rRNA pseudouridine synthase [Escherichia coli O103:H2 str. 12009] gi|323161320|gb|EFZ47228.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli E128010] Length = 290 Score = 250 bits (639), Expect = 3e-64, Method: Composition-based stats. Identities = 67/293 (22%), Positives = 124/293 (42%), Gaps = 9/293 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 3 PDSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 AE L +KP+G+V+T D + R + D + + RV +GRLD +++GL+ LTN Sbjct: 62 REAEDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 176 VFRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKL 235 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ ++ + + + R N + ++KK Sbjct: 236 IENSSSEAKPKVKAKPKTAGIKRPLVKMEKTSEKGGRPASNGKRFTSPGRKKK 288 >gi|119944821|ref|YP_942501.1| pseudouridine synthase [Psychromonas ingrahamii 37] gi|119863425|gb|ABM02902.1| ribosomal large subunit pseudouridine synthase B [Psychromonas ingrahamii 37] Length = 293 Score = 250 bits (639), Expect = 3e-64, Method: Composition-based stats. Identities = 93/255 (36%), Positives = 141/255 (55%), Gaps = 10/255 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG+ SRR++E +I + RV V+G ++ V I VDG ++ Sbjct: 2 SEKLQKVLARAGLGSRRKMEVVIQEGRVSVDGKVV-GLGERVTDVQVIRVDGHIVKNLTP 60 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T SD +GR+TVF+ LPS +R IS+GRLDINT GLLL T D Sbjct: 61 ENTMCRILAYNKPEGEICTRSDEEGRTTVFERLPSLKGARWISIGRLDINTSGLLLFTTD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G A + PS Q R Y VR G V + LN L+ G+ ++ + + +G N Sbjct: 121 GEFANKMMHPSQQIEREYAVRIFGDVTEAILNRLRMGVQLEDGEAKFLDIKESGGEGINR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI---LRE 243 W V L EG+ RE+++++E +V+RL+R+ YG L L G E++ K LR+ Sbjct: 181 WFHVVLTEGRTREVRRLWESQGLQVSRLMRVRYGNITLSKQLPQGGWHELNLKEVNYLRK 240 Query: 244 QLGPHLLEEAQVNLD 258 + E++V +D Sbjct: 241 LVDMPKETESKVKVD 255 >gi|94987310|ref|YP_595243.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Lawsonia intracellularis PHE/MN1-00] gi|94731559|emb|CAJ54922.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Lawsonia intracellularis PHE/MN1-00] Length = 270 Score = 250 bits (639), Expect = 3e-64, Method: Composition-based stats. Identities = 69/240 (28%), Positives = 120/240 (50%), Gaps = 9/240 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR-- 68 T R++K +A AG+ SRR V++ I V +NG + + + + D I + G + Sbjct: 22 TSIRINKALANAGVCSRRNVDKYILNGEVTINGKSVTQPGIYIHPDKDIIALHGRRVDIQ 81 Query: 69 -KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLT 125 K ++ +KPI ++++ DP R TV D +P + R+ VGRLD +EGLLL+T Sbjct: 82 LKNKKYYYLSMYKPIKVISSVKDPQNRLTVLDFIPFPWKNYRLYPVGRLDFFSEGLLLIT 141 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQ-- 182 NDG L + L P +VY V ++ L + KGI + G +V + + Sbjct: 142 NDGELTQRLTHPRYHISKVYHVLIRERILNTTLKNISKGITLSDGTKLPPAKVRVLSSIT 201 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + W+ + L++G NR+I+++ + + +LIR+ G L L G R + ++ Sbjct: 202 ETNTTWLEITLQQGINRQIRRMCKELGLTILKLIRVKQGNINLSNLQPGEVRPLKNDEIK 261 >gi|288555072|ref|YP_003427007.1| RNA pseudouridine synthase family protein [Bacillus pseudofirmus OF4] gi|288546232|gb|ADC50115.1| RNA pseudouridine synthase family protein [Bacillus pseudofirmus OF4] Length = 229 Score = 250 bits (639), Expect = 3e-64, Method: Composition-based stats. Identities = 67/228 (29%), Positives = 107/228 (46%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ ++ G SRRE ER++A R+ VNG + V + D I +DG P+ ER Sbjct: 1 MRIQLYMSNTGYCSRRETERLLAAGRITVNGKTATK-DTFVDTDDCILLDGSPVPMKERN 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L HKP G+V T ++ + D + + R+ +VGRLD ++EGLLLLTNDG + Sbjct: 60 IYLLLHKPTGIVCTAQ-RQVKNNLIDYM-NYRERIFAVGRLDKDSEGLLLLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V L + G+ I VT + + L Sbjct: 118 IMRVENGHEKEYIVTVDRPYPDTFLKSMASGVEILDQVTEPCTVT----RIDEMTFRIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++G NR+I+++ + F + V RL R+ + L G RE++ + L Sbjct: 174 KQGLNRQIRRMTKEFGYYVTRLRRVRIMNLSIDRLPYGQWRELTDEEL 221 >gi|146318298|ref|YP_001198010.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis 05ZYH33] gi|146320492|ref|YP_001200203.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis 98HAH33] gi|253751463|ref|YP_003024604.1| ribosomal small subunit pseudouridine synthase A [Streptococcus suis SC84] gi|253753364|ref|YP_003026505.1| ribosomal small subunit pseudouridine synthase A [Streptococcus suis P1/7] gi|253755807|ref|YP_003028947.1| ribosomal small subunit pseudouridine synthase A [Streptococcus suis BM407] gi|145689104|gb|ABP89610.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Streptococcus suis 05ZYH33] gi|145691298|gb|ABP91803.1| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Streptococcus suis 98HAH33] gi|251815752|emb|CAZ51353.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus suis SC84] gi|251818271|emb|CAZ56080.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus suis BM407] gi|251819610|emb|CAR45331.1| putative ribosomal small subunit pseudouridine synthase A [Streptococcus suis P1/7] gi|292558093|gb|ADE31094.1| Pseudouridine synthase, Rsu [Streptococcus suis GZ1] gi|319757880|gb|ADV69822.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Streptococcus suis JS14] Length = 238 Score = 250 bits (639), Expect = 3e-64, Method: Composition-based stats. Identities = 72/236 (30%), Positives = 123/236 (52%), Gaps = 6/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + +A + SR++V+++ Q++K+NG + + V I+V G + E Sbjct: 1 MRLDKCLEKAKVGSRKQVKKLFKAQQIKINGQAAQSLSQIVDPELQTIQVSGKKVAL-EG 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 + +L HKP G+V+ +D + TV D + SR + VGRLD +TEGL+L+TN+G L Sbjct: 60 SAYYLLHKPAGVVSAVTDQEH-QTVIDLISPQDSREGLYPVGRLDRDTEGLVLITNNGPL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWV 189 + PS +VY V +G + +D G+ + G +T+ ++ Sbjct: 119 GYRMLHPSHHVDKVYYVEVNGCLAEDASKFFASGVTFLDGTRCQPADLTVLEASLDHSRA 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 T+ L EGK ++KK+F + KV L RIS+G F+LG L G+ R+++ + Sbjct: 179 TIKLAEGKFHQVKKMFLAYGVKVTYLKRISFGGFELGDLERGTYRQLTPNEMEHLF 234 >gi|260463018|ref|ZP_05811221.1| pseudouridine synthase [Mesorhizobium opportunistum WSM2075] gi|259031139|gb|EEW32412.1| pseudouridine synthase [Mesorhizobium opportunistum WSM2075] Length = 259 Score = 250 bits (639), Expect = 3e-64, Method: Composition-based stats. Identities = 79/228 (34%), Positives = 122/228 (53%), Gaps = 3/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTR 74 +++ +++ G+ SR + E +I + RV+V G ++ A+ V + D I VDG + AER Sbjct: 28 LNRALSKLGLCSRTQAELLITEGRVRVGGKVVRDPALRVDLNRDSIVVDGEKV-IAERKV 86 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP GLVTT DP R TV+ L + + VGRLD +EGLLL+TND A Sbjct: 87 YVMLNKPRGLVTTRDDPQQRDTVYACLEALDLPFISPVGRLDKASEGLLLMTNDTRFANR 146 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P++ + Y V+ D L L+ G + G + L G AW+ V L Sbjct: 147 LMDPASHLPKTYHVQVATVPDAAMLETLRAGATVDGEILTANSIDLLRSGGRTAWLEVVL 206 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+NR I+++ + +V RLIRI+ G +LG L G+ R ++ + L Sbjct: 207 DEGRNRHIRRLLAAHDIEVLRLIRIAIGGLRLGDLAKGTARHLTAEEL 254 >gi|24115303|ref|NP_709813.1| 23S rRNA pseudouridine synthase F [Shigella flexneri 2a str. 301] gi|30064697|ref|NP_838868.1| 23S rRNA pseudouridine synthase F [Shigella flexneri 2a str. 2457T] gi|74314515|ref|YP_312934.1| 23S rRNA pseudouridine synthase F [Shigella sonnei Ss046] gi|82546365|ref|YP_410312.1| 23S rRNA pseudouridine synthase F [Shigella boydii Sb227] gi|110807871|ref|YP_691391.1| 23S rRNA pseudouridine synthase F [Shigella flexneri 5 str. 8401] gi|187733719|ref|YP_001882708.1| 23S rRNA pseudouridine synthase F [Shigella boydii CDC 3083-94] gi|194432289|ref|ZP_03064577.1| ribosomal large subunit pseudouridine synthase F [Shigella dysenteriae 1012] gi|34098456|sp|Q83IR6|RLUF_SHIFL RecName: Full=Ribosomal large subunit pseudouridine synthase F; AltName: Full=rRNA pseudouridylate synthase F; AltName: Full=rRNA-uridine isomerase F gi|24054601|gb|AAN45520.1| orf, conserved hypothetical protein [Shigella flexneri 2a str. 301] gi|30042957|gb|AAP18679.1| hypothetical protein S3635 [Shigella flexneri 2a str. 2457T] gi|73857992|gb|AAZ90699.1| conserved hypothetical protein [Shigella sonnei Ss046] gi|81247776|gb|ABB68484.1| conserved hypothetical protein [Shigella boydii Sb227] gi|110617419|gb|ABF06086.1| conserved hypothetical protein [Shigella flexneri 5 str. 8401] gi|187430711|gb|ACD09985.1| ribosomal large subunit pseudouridine synthase F [Shigella boydii CDC 3083-94] gi|194419492|gb|EDX35573.1| ribosomal large subunit pseudouridine synthase F [Shigella dysenteriae 1012] gi|281603406|gb|ADA76390.1| Ribosomal large subunit pseudouridine synthase F [Shigella flexneri 2002017] gi|313648678|gb|EFS13118.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri 2a str. 2457T] gi|320187140|gb|EFW61842.1| 23S rRNA pseudouridine synthase F [Shigella flexneri CDC 796-83] gi|332083850|gb|EGI89067.1| ribosomal large subunit pseudouridine synthase F [Shigella boydii 5216-82] gi|332084289|gb|EGI89492.1| ribosomal large subunit pseudouridine synthase F [Shigella dysenteriae 155-74] gi|332087766|gb|EGI92892.1| ribosomal large subunit pseudouridine synthase F [Shigella boydii 3594-74] gi|332752238|gb|EGJ82630.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri K-671] gi|332753238|gb|EGJ83619.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri 2747-71] gi|332764829|gb|EGJ95058.1| 23S rRNA pseudouridine synthase [Shigella flexneri 2930-71] gi|332998087|gb|EGK17691.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri VA-6] gi|332999015|gb|EGK18604.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri K-272] gi|333014244|gb|EGK33600.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri K-304] gi|333014452|gb|EGK33803.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri K-227] Length = 290 Score = 250 bits (639), Expect = 3e-64, Method: Composition-based stats. Identities = 68/293 (23%), Positives = 125/293 (42%), Gaps = 9/293 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 3 PDSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDIVKVNGQLIEP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 AE L +KP+G+V+T D + R + D + + RV +GRLD +++GL+ LTN Sbjct: 62 REAEDLVLIALNKPVGIVSTTEDGE-RDNIVDFV-NHSKRVFPIGRLDKDSQGLIFLTNH 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + Y V + + + + G+ I G +K + Sbjct: 120 GDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTK----KCKVKKEAPF 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 176 VFRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKL 235 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ A ++ + + + R N + ++KK Sbjct: 236 IENSSSEAKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKK 288 >gi|260768728|ref|ZP_05877662.1| ribosomal large subunit pseudouridine synthase B [Vibrio furnissii CIP 102972] gi|260616758|gb|EEX41943.1| ribosomal large subunit pseudouridine synthase B [Vibrio furnissii CIP 102972] Length = 314 Score = 250 bits (639), Expect = 3e-64, Method: Composition-based stats. Identities = 103/310 (33%), Positives = 147/310 (47%), Gaps = 13/310 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E +I RV VNG + + +DG + + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDENAVVRIDGHAVSAKAQ 61 Query: 73 T----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTND 127 R+ Y+KP G + T DP+GR TVFD LP I SR ISVGRLD NT GLLL T D Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G V +DK+ L +G+ ++ V +G N Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGDVTEDKIRNLVRGVQLEDGLARFEDVVYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWESQETTVSRLKRVRYGDIFLDKKLPRGGWMELDLKDVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + + +++ +S R R I R ++ + G S + Sbjct: 242 LVELKPEKTTMLDVSKD-NTSRKRERSRSQKIRR---AVRRHEERVTAPAGRSGSSRRKD 297 Query: 304 PVHRRNLASN 313 R+ +N Sbjct: 298 AASRQKAGNN 307 >gi|325106158|ref|YP_004275812.1| RNA-binding S4 domain protein [Pedobacter saltans DSM 12145] gi|324975006|gb|ADY53990.1| RNA-binding S4 domain protein [Pedobacter saltans DSM 12145] Length = 396 Score = 250 bits (638), Expect = 3e-64, Method: Composition-based stats. Identities = 73/250 (29%), Positives = 124/250 (49%), Gaps = 9/250 (3%) Query: 2 KDKNIVQENFTP-----QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS 56 KN Q++ TP R+++ IA +GI SRR+ + +I + VN +++ V Sbjct: 144 SRKNTSQQSSTPKEPDQIRLNRYIANSGICSRRKADELITSGAITVNDVVVSELGAKVNP 203 Query: 57 T-DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRL 114 T D ++ +G L++ E+ L +KP +TT DP R TV + + + R+ VGRL Sbjct: 204 TTDKVKYNGQLLKR-EKMVYVLLNKPKDFITTTEDPQERKTVMELVKNATSERIYPVGRL 262 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D NT GLLLLTNDG LA L P ++Y V + Q N + G+ ++ Sbjct: 263 DRNTTGLLLLTNDGDLAEKLSHPRNNITKIYNVELSKNLTQGDFNKIAFGVELEDGFIKP 322 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V+ + G+ + + + GKNR ++++FE ++V +L R+ Y L G R Sbjct: 323 DAVSYVSG-GTKKEIGIQIHSGKNRIVRRIFESLGYEVEKLDRVIYANLTKKDLTRGKWR 381 Query: 235 EVSKKILREQ 244 +++ + + Sbjct: 382 FLTENEIIQL 391 >gi|258424167|ref|ZP_05687049.1| RNA pseudouridine synthase [Staphylococcus aureus A9635] gi|257845788|gb|EEV69820.1| RNA pseudouridine synthase [Staphylococcus aureus A9635] Length = 231 Score = 250 bits (638), Expect = 3e-64, Method: Composition-based stats. Identities = 60/228 (26%), Positives = 107/228 (46%), Gaps = 9/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKAHIEPKNDKISVRGELIEYVEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G ++ D TV D +P + VGRLD +TEGLLL+TNDG Sbjct: 61 -VYIMLNKPKGYISATED-HHSKTVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFN 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + ++ + K+G+ + +T + S+ V Sbjct: 119 HELMSPNKHVSKKYEVISANPITEEDIQAFKEGVTLSDGKVKPAILTYIDNQTSH----V 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + EGK ++K++F +V L RI +L L +G+ R +++ Sbjct: 175 TIYEGKYHQVKRMFHSIQNEVIHLKRIKIADLELDSNLESGNYRLLTE 222 >gi|15804615|ref|NP_290656.1| 23S rRNA pseudouridine synthase F [Escherichia coli O157:H7 EDL933] gi|15834259|ref|NP_313032.1| 23S rRNA pseudouridine synthase F [Escherichia coli O157:H7 str. Sakai] gi|168750850|ref|ZP_02775872.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4113] gi|168755170|ref|ZP_02780177.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4401] gi|168760865|ref|ZP_02785872.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4501] gi|168766260|ref|ZP_02791267.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4486] gi|168774357|ref|ZP_02799364.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4196] gi|168780412|ref|ZP_02805419.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4076] gi|168784615|ref|ZP_02809622.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC869] gi|168798338|ref|ZP_02823345.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC508] gi|195935788|ref|ZP_03081170.1| 23S rRNA pseudouridine synthase F [Escherichia coli O157:H7 str. EC4024] gi|208808749|ref|ZP_03251086.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4206] gi|208811969|ref|ZP_03253298.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli O157:H7 str. EC4045] gi|208821132|re